Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01020860.1 Corchorus olitorius cultivar O-4 contig20893, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 363252
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:196 original size:50 final size:50
Alignment explanation
Indices: 121--386 Score: 469
Period size: 50 Copynumber: 5.3 Consensus size: 50
111 CTCATTAAAC
*
121 TTGGCTTATGGAAAAGCCTATGTTGATAATTGACTCGTATGGAAACGAGT
1 TTGGCTTGTGGAAAAGCCTATGTTGATAATTGACTCGTATGGAAACGAGT
*
171 TTGGCTTGTGGAAAAGCCTATGTTGATAATTGACTCGTATGGAAACGAAT
1 TTGGCTTGTGGAAAAGCCTATGTTGATAATTGACTCGTATGGAAACGAGT
221 TTGGCTTGTGGAAAAGCCTATGTTGATAATTGACTCGTATGGAAACGAGT
1 TTGGCTTGTGGAAAAGCCTATGTTGATAATTGACTCGTATGGAAACGAGT
*
271 TTGACTTGTGGAAAAGCCTATGTTGATAATTGACTCGTATGGAAACGAGT
1 TTGGCTTGTGGAAAAGCCTATGTTGATAATTGACTCGTATGGAAACGAGT
* *
321 TTGGCCTGTGGAAAAGCCTATGTAGATAATTGACTCGTATGGAAACGAGT
1 TTGGCTTGTGGAAAAGCCTATGTTGATAATTGACTCGTATGGAAACGAGT
* *
371 TTGACTTATGGAAAAG
1 TTGGCTTGTGGAAAAG
387 TCAAAGCATT
Statistics
Matches: 206, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 206 1.00
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.31
Consensus pattern (50 bp):
TTGGCTTGTGGAAAAGCCTATGTTGATAATTGACTCGTATGGAAACGAGT
Found at i:577 original size:92 final size:92
Alignment explanation
Indices: 473--647 Score: 289
Period size: 92 Copynumber: 1.9 Consensus size: 92
463 ATACCTTTGG
*
473 AAAATAACTCTGAATCTGATGTTGTAACTGAAAACTTCTTGATTGATGATGAAAAAAGGACCAAT
1 AAAATAACTCTGAGTCTGATGTTGTAACTGAAAACTTCTTGATTGATGATG-AAAAAGGACCAAT
538 GTGCGGTCAACTTGAAAAACAA-CTTGA
65 GTGCGGTCAACTTGAAAAACAATCTTGA
* * *
565 AAAATAACTCTGAGTCTGATGTTGTAACTGAAAATTTCTTGATTGATGATGAAACAGGACCAATT
1 AAAATAACTCTGAGTCTGATGTTGTAACTGAAAACTTCTTGATTGATGATGAAAAAGGACCAATG
*
630 TGCAGTCAACTTGAAAAA
66 TGCGGTCAACTTGAAAAA
648 TAACTCTGAG
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
91 29 0.37
92 49 0.63
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (92 bp):
AAAATAACTCTGAGTCTGATGTTGTAACTGAAAACTTCTTGATTGATGATGAAAAAGGACCAATG
TGCGGTCAACTTGAAAAACAATCTTGA
Found at i:688 original size:79 final size:79
Alignment explanation
Indices: 557--727 Score: 290
Period size: 79 Copynumber: 2.2 Consensus size: 79
547 ACTTGAAAAA
**
557 CAACTTGAAAAATAACTCTGAGTCTGATGTTGTAACTGAAAATTTCTTGATTGATGATGAAACA-
1 CAACTTGAAAAATAACTCTGAGTCTGATGTTGTAACTGAAAACGTCTTGATTGATGATGAAA-AG
621 GGACCAATTTGCAGT
65 GGACCAATTTGCAGT
636 CAACTTGAAAAATAACTCTGAGTCTGATGTTGTAACTGAAAACGTCTTGATTGATGATGAAAAGG
1 CAACTTGAAAAATAACTCTGAGTCTGATGTTGTAACTGAAAACGTCTTGATTGATGATGAAAA-G
*
701 GGACCAATTTGCGGT
65 GGACCAATTTGCAGT
716 CAACTTGAAAAA
1 CAACTTGAAAAA
728 CAATTTTGAA
Statistics
Matches: 87, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
78 1 0.01
79 60 0.69
80 26 0.30
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.29
Consensus pattern (79 bp):
CAACTTGAAAAATAACTCTGAGTCTGATGTTGTAACTGAAAACGTCTTGATTGATGATGAAAAGG
GACCAATTTGCAGT
Found at i:758 original size:171 final size:171
Alignment explanation
Indices: 473--799 Score: 523
Period size: 171 Copynumber: 1.9 Consensus size: 171
463 ATACCTTTGG
*
473 AAAATAACTCTGAATCTGATGTTGTAACTGAAAACTTCTTGATTGATGATGAAAAAAGGACCAAT
1 AAAATAACTCTGAATCTGATGTTGTAACTGAAAACGTCTTGATTGATGATGAAAAAAGGACCAAT
538 GTGCGGTCAACTTGAAAAACAACTTGAAAAATAACTCTGAGTCTGATGTTGTAACTGAAAATTTC
66 GTGCGGTCAACTTGAAAAACAACTTGAAAAATAACTCTGAGTCTGATGTTGTAACTGAAAATTTC
*
603 TTGATTGA-TGATGAAACAGGACCAATTTGCAGTCAACTTGA
131 TTGATT-ACTGATGAAAAAGGACCAATTTGCAGTCAACTTGA
* **
644 AAAATAACTCTGAGTCTGATGTTGTAACTGAAAACGTCTTGATTGATGATGAAAAGGGGACCAAT
1 AAAATAACTCTGAATCTGATGTTGTAACTGAAAACGTCTTGATTGATGATGAAAAAAGGACCAAT
* * * * *
709 TTGCGGTCAACTTGAAAAACAATTTTGAAAAATAACTCTG-GTCTGATGTTGTGATTGAAATTTT
66 GTGCGGTCAACTTGAAAAACAA-CTTGAAAAATAACTCTGAGTCTGATGTTGTAACTGAAAATTT
*
773 TTTGATTACTGATGAAAAAGGACCAAT
130 CTTGATTACTGATGAAAAAGGACCAAT
800 GCATAGTCAA
Statistics
Matches: 143, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
170 1 0.01
171 126 0.88
172 16 0.11
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.31
Consensus pattern (171 bp):
AAAATAACTCTGAATCTGATGTTGTAACTGAAAACGTCTTGATTGATGATGAAAAAAGGACCAAT
GTGCGGTCAACTTGAAAAACAACTTGAAAAATAACTCTGAGTCTGATGTTGTAACTGAAAATTTC
TTGATTACTGATGAAAAAGGACCAATTTGCAGTCAACTTGA
Found at i:830 original size:91 final size:91
Alignment explanation
Indices: 639--865 Score: 289
Period size: 91 Copynumber: 2.5 Consensus size: 91
629 TTGCAGTCAA
* * ** * *
639 CTTGAAAAATAACTCTGAGTCTGATGTTGTAACTGAAAACGTCTTGATTGATGATGAAAAGGGGA
1 CTTGAAAAATAACTCTG-GTCTGATGTTGTGATTGAAAATTTTTTGATTGATGATGAAAAGAGGA
* *
704 CCAATTTGCGGTCAACTTGAAAAACAAT
65 CCAA-TTGCAGTCAAATTGAAAAACAAT
* *
732 TTTGAAAAATAACTCTGGTCTGATGTTGTGATTGAAATTTTTTTGATT-ACTGATGAAAA-AGGA
1 CTTGAAAAATAACTCTGGTCTGATGTTGTGATTGAAAATTTTTTGATTGA-TGATGAAAAGAGGA
795 CCAA-TGCATAGTCAAATTGAAAAACAAT
65 CCAATTGC--AGTCAAATTGAAAAACAAT
*
823 CTTGAAAAATAACTCTGGTCTGATGTTGTGATTGAAACTTTTT
1 CTTGAAAAATAACTCTGGTCTGATGTTGTGATTGAAAATTTTT
866 GACTGTTCCT
Statistics
Matches: 119, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
89 3 0.03
91 66 0.55
92 34 0.29
93 16 0.13
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (91 bp):
CTTGAAAAATAACTCTGGTCTGATGTTGTGATTGAAAATTTTTTGATTGATGATGAAAAGAGGAC
CAATTGCAGTCAAATTGAAAAACAAT
Found at i:1321 original size:50 final size:50
Alignment explanation
Indices: 1267--1511 Score: 386
Period size: 50 Copynumber: 4.9 Consensus size: 50
1257 CCTAAATGCC
* **
1267 CTTTGAAAAGCGAATTTTGATCTTGGACTCACAAATGGAATGCAATCCTA
1 CTTTGAAAAGCGAATTTTGATCTTGGACTCACAAATGGAAAGCAATTTTA
*
1317 CTTTGAAAAGCGAATTTTGATCTT-GACTTACAAATGGAAAGCAATTTTA
1 CTTTGAAAAGCGAATTTTGATCTTGGACTCACAAATGGAAAGCAATTTTA
1366 CTTTGAAAAGCGAATTTTGATCTT-GACTTCACAAATGGAAAGCAATTTTA
1 CTTTGAAAAGCGAATTTTGATCTTGGAC-TCACAAATGGAAAGCAATTTTA
* *
1416 CTTTGAAAAGCGAATTTTGATCTTGAACTCACAAATGGAGAGCAATTTTA
1 CTTTGAAAAGCGAATTTTGATCTTGGACTCACAAATGGAAAGCAATTTTA
* * *
1466 CTTTGAAAAGCGAATTTTCATCTTGAACTCACAAATGGAATGCAAT
1 CTTTGAAAAGCGAATTTTGATCTTGGACTCACAAATGGAAAGCAAT
1512 CTTATTATAA
Statistics
Matches: 183, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
49 48 0.26
50 133 0.73
51 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (50 bp):
CTTTGAAAAGCGAATTTTGATCTTGGACTCACAAATGGAAAGCAATTTTA
Found at i:1438 original size:99 final size:99
Alignment explanation
Indices: 1267--1512 Score: 404
Period size: 99 Copynumber: 2.5 Consensus size: 99
1257 CCTAAATGCC
1267 CTTTGAAAAGCGAATTTTGATCTTGGACTCACAAATGGAATGCAATCCTACTTTGAAAAGCGAAT
1 CTTTGAAAAGCGAATTTTGATCTT-GACTCACAAATGGAATGCAATCCTACTTTGAAAAGCGAAT
*
1332 TTTGATCTTG-ACTTACAAATGGAAAGCAATTTTA
65 TTTGATCTTGAACTCACAAATGGAAAGCAATTTTA
* **
1366 CTTTGAAAAGCGAATTTTGATCTTGACTTCACAAATGGAAAGCAATTTTACTTTGAAAAGCGAAT
1 CTTTGAAAAGCGAATTTTGATCTTGAC-TCACAAATGGAATGCAATCCTACTTTGAAAAGCGAAT
*
1431 TTTGATCTTGAACTCACAAATGGAGAGCAATTTTA
65 TTTGATCTTGAACTCACAAATGGAAAGCAATTTTA
*
1466 CTTTGAAAAGCGAATTTTCATCTTGAACTCACAAATGGAATGCAATC
1 CTTTGAAAAGCGAATTTTGATCTTG-ACTCACAAATGGAATGCAATC
1513 TTATTATAAA
Statistics
Matches: 136, Mismatches: 8, Indels: 5
0.91 0.05 0.03
Matches are distributed among these distances:
98 3 0.02
99 68 0.50
100 63 0.46
101 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (99 bp):
CTTTGAAAAGCGAATTTTGATCTTGACTCACAAATGGAATGCAATCCTACTTTGAAAAGCGAATT
TTGATCTTGAACTCACAAATGGAAAGCAATTTTA
Found at i:1901 original size:20 final size:21
Alignment explanation
Indices: 1878--1920 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
1868 TAATCGTGTC
1878 AAGACACGACTAACACG-TTT
1 AAGACACGACTAACACGCTTT
* *
1898 AAGACACGAGTGACACGCTTT
1 AAGACACGACTAACACGCTTT
1919 AA
1 AA
1921 TTAACGGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.19
Consensus pattern (21 bp):
AAGACACGACTAACACGCTTT
Found at i:8614 original size:22 final size:22
Alignment explanation
Indices: 8589--8671 Score: 80
Period size: 22 Copynumber: 3.8 Consensus size: 22
8579 GAATTCTAAC
8589 AATCTTCTTATGAAAATTTTG-T
1 AATCTTCTTATG-AAATTTTGAT
* *
8611 AATCTCCCTATGAAATTTTGAT
1 AATCTTCTTATGAAATTTTGAT
*
8633 AA-GTTCTTTATGAAATTTTGAT
1 AATCTTC-TTATGAAATTTTGAT
* **
8655 AACCTTCCAATGAAATT
1 AATCTTCTTATGAAATT
8672 CTGAAACCCT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
21 10 0.20
22 37 0.74
23 3 0.06
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (22 bp):
AATCTTCTTATGAAATTTTGAT
Found at i:8628 original size:21 final size:22
Alignment explanation
Indices: 8597--8697 Score: 73
Period size: 22 Copynumber: 4.5 Consensus size: 22
8587 ACAATCTTCT
8597 TATGAAAATTTTG-TAATCTCCC
1 TATG-AAATTTTGATAATCTCCC
**
8619 TATGAAATTTTGATAAGT-TCTT
1 TATGAAATTTTGATAA-TCTCCC
* *
8641 TATGAAATTTTGATAACCTTCC
1 TATGAAATTTTGATAATCTCCC
* * * *
8663 AATGAAATTCTGA-AACCCTCAC
1 TATGAAATTTTGATAA-TCTCCC
8685 TATGAAAATTTTG
1 TATG-AAATTTTG
8698 GTAACTTACA
Statistics
Matches: 62, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
21 10 0.16
22 44 0.71
23 8 0.13
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.40
Consensus pattern (22 bp):
TATGAAATTTTGATAATCTCCC
Found at i:8734 original size:45 final size:46
Alignment explanation
Indices: 8596--8738 Score: 127
Period size: 44 Copynumber: 3.2 Consensus size: 46
8586 AACAATCTTC
* * * * * *
8596 TTATGAAAATTTT-GTAATCTCCCTATGAAATTTTGATAAGT-TCT
1 TTATGAAAATTTTGGTAACCTTCCAATGAAATTTTGGTAACTCTCA
* * * *
8640 TTATG-AAATTTTGATAACCTTCCAATGAAATTCT-GAAACCCTCA
1 TTATGAAAATTTTGGTAACCTTCCAATGAAATTTTGGTAACTCTCA
* *
8684 CTATGAAAATTTTGGTAA-CTTACAATTGAAATTTTGGTAA-TCTCA
1 TTATGAAAATTTTGGTAACCTTCCAA-TGAAATTTTGGTAACTCTCA
8729 TTATGAAAAT
1 TTATGAAAAT
8739 GTGGCAACCT
Statistics
Matches: 77, Mismatches: 17, Indels: 9
0.75 0.17 0.09
Matches are distributed among these distances:
43 9 0.12
44 33 0.43
45 32 0.42
46 3 0.04
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (46 bp):
TTATGAAAATTTTGGTAACCTTCCAATGAAATTTTGGTAACTCTCA
Found at i:8735 original size:22 final size:22
Alignment explanation
Indices: 8596--8736 Score: 62
Period size: 22 Copynumber: 6.4 Consensus size: 22
8586 AACAATCTTC
*
8596 TTATGAAAATTTT-GTAATCTCC
1 TTATG-AAATTTTGGTAATCTCA
* * *
8618 CTATGAAATTTTGATAAGT-TCT
1 TTATGAAATTTTGGTAA-TCTCA
* *
8640 TTATGAAATTTTGATAACCTTCCA
1 TTATGAAATTTTGGTAATC-T-CA
* * *
8664 --ATGAAATTCT-GAAACCCTCA
1 TTATGAAATTTTGGTAA-TCTCA
*
8684 CTATGAAAATTTTGGTAA-CTTACA
1 TTATG-AAATTTTGGTAATC-T-CA
*
8708 AT-TGAAATTTTGGTAATCTCA
1 TTATGAAATTTTGGTAATCTCA
8729 TTATGAAA
1 TTATGAAA
8737 ATGTGGCAAC
Statistics
Matches: 92, Mismatches: 13, Indels: 28
0.69 0.10 0.21
Matches are distributed among these distances:
20 2 0.02
21 13 0.14
22 58 0.63
23 12 0.13
24 7 0.08
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.40
Consensus pattern (22 bp):
TTATGAAATTTTGGTAATCTCA
Found at i:8804 original size:22 final size:22
Alignment explanation
Indices: 8779--8834 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
8769 ATTTTTATTG
8779 AATTTCAGTAACCTCCCTATGA
1 AATTTCAGTAACCTCCCTATGA
*
8801 AA-TTCTGATAACCTCCCTATGA
1 AATTTCAG-TAACCTCCCTATGA
*
8823 AATTTTAGTAAC
1 AATTTCAGTAAC
8835 ATTCGGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 4 0.14
22 22 0.76
23 3 0.10
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.34
Consensus pattern (22 bp):
AATTTCAGTAACCTCCCTATGA
Found at i:8856 original size:45 final size:43
Alignment explanation
Indices: 8798--8937 Score: 135
Period size: 42 Copynumber: 3.2 Consensus size: 43
8788 AACCTCCCTA
*
8798 TGAAATTCTGATAACCTCCCTATGAAATTTTAGTAACAT-TCGGTT
1 TGAAATTCTGATAA-CTCCCTATGAAATTTT-GTAA-ATCTCGCTT
* * *
8843 TGAAATTTTGATAACTACTCTATGAAATTGTG-ATAATCTCGCTT
1 TGAAATTCTGATAACT-CCCTATGAAATTTTGTA-AATCTCGCTT
* * *
8887 TGAAATTCTGGTAA-TCCCTATGAAATTTTGGT-AATCTCACTA
1 TGAAATTCTGATAACTCCCTATGAAATTTT-GTAAATCTCGCTT
8929 TGAAATTCT
1 TGAAATTCT
8938 AGTAGCTTTC
Statistics
Matches: 80, Mismatches: 10, Indels: 13
0.78 0.10 0.13
Matches are distributed among these distances:
42 29 0.36
43 5 0.06
44 21 0.26
45 25 0.31
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (43 bp):
TGAAATTCTGATAACTCCCTATGAAATTTTGTAAATCTCGCTT
Found at i:8871 original size:22 final size:22
Alignment explanation
Indices: 8843--8935 Score: 84
Period size: 22 Copynumber: 4.3 Consensus size: 22
8833 ACATTCGGTT
*
8843 TGAAATTTTGATAA-CTACTCTA
1 TGAAATTTTGATAATCT-CCCTA
* * *
8865 TGAAATTGTGATAATCTCGCTT
1 TGAAATTTTGATAATCTCCCTA
* *
8887 TGAAATTCTGGTAA--TCCCTA
1 TGAAATTTTGATAATCTCCCTA
* *
8907 TGAAATTTTGGTAATCTCACTA
1 TGAAATTTTGATAATCTCCCTA
8929 TGAAATT
1 TGAAATT
8936 CTAGTAGCTT
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
20 17 0.29
22 40 0.68
23 2 0.03
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (22 bp):
TGAAATTTTGATAATCTCCCTA
Found at i:8912 original size:20 final size:22
Alignment explanation
Indices: 8862--8937 Score: 93
Period size: 22 Copynumber: 3.5 Consensus size: 22
8852 GATAACTACT
* * *
8862 CTATGAAATTGTGATAATCTCG
1 CTATGAAATTCTGGTAATCTCA
*
8884 CTTTGAAATTCTGGTAATC-C-
1 CTATGAAATTCTGGTAATCTCA
*
8904 CTATGAAATTTTGGTAATCTCA
1 CTATGAAATTCTGGTAATCTCA
8926 CTATGAAATTCT
1 CTATGAAATTCT
8938 AGTAGCTTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 17 0.37
21 2 0.04
22 27 0.59
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.39
Consensus pattern (22 bp):
CTATGAAATTCTGGTAATCTCA
Found at i:10382 original size:18 final size:18
Alignment explanation
Indices: 10348--10384 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10338 CGGAAGAAAC
*
10348 TCTAGATTTGTGATAAAG
1 TCTAGATTTGCGATAAAG
*
10366 TCTAGATTTGCGGTAAAG
1 TCTAGATTTGCGATAAAG
10384 T
1 T
10385 GTTGGATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.38
Consensus pattern (18 bp):
TCTAGATTTGCGATAAAG
Found at i:18474 original size:16 final size:16
Alignment explanation
Indices: 18453--18483 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18443 AGCTCTGCTC
*
18453 TACCACTAGTACTCTT
1 TACCACAAGTACTCTT
18469 TACCACAAGTACTCT
1 TACCACAAGTACTCT
18484 AGCACATGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.32, G:0.06, T:0.32
Consensus pattern (16 bp):
TACCACAAGTACTCTT
Found at i:30787 original size:19 final size:18
Alignment explanation
Indices: 30763--30804 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
30753 AAAATGGACT
30763 TAAAAT-TAGAATAAAAACA
1 TAAAATGTAGAA-AAAAA-A
*
30782 TAAAATGTAGCAAAAAAA
1 TAAAATGTAGAAAAAAAA
30800 TAAAA
1 TAAAA
30805 ACATTAAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 11 0.52
20 4 0.19
ACGTcount: A:0.69, C:0.05, G:0.07, T:0.19
Consensus pattern (18 bp):
TAAAATGTAGAAAAAAAA
Found at i:41462 original size:15 final size:15
Alignment explanation
Indices: 41418--41465 Score: 87
Period size: 15 Copynumber: 3.2 Consensus size: 15
41408 GGTGACGCAG
*
41418 GTCGGATCCGGATTG
1 GTCGGATCCGGATTA
41433 GTCGGATCCGGATTA
1 GTCGGATCCGGATTA
41448 GTCGGATCCGGATTA
1 GTCGGATCCGGATTA
41463 GTC
1 GTC
41466 AGGGCAAAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.17, C:0.21, G:0.35, T:0.27
Consensus pattern (15 bp):
GTCGGATCCGGATTA
Found at i:55014 original size:110 final size:110
Alignment explanation
Indices: 54821--55026 Score: 331
Period size: 110 Copynumber: 1.9 Consensus size: 110
54811 GGGTCCAATA
*
54821 GAGTCTATATGAGAATGTATTTATTGAAATTCGAAGCCATAACCACGCGTCCACGTCTTGCATAA
1 GAGTCTATATGAGAATGTATTTATTGAAATTCGAAGCCATAACCACGCGTCCACGCCTTGCATAA
* *
54886 ACCTTAAACTCGGCATGAACGTCCTGAATGATGAACGTTACACTT
66 ACATTAAACTCGGCATGAACGCCCTGAATGATGAACGTTACACTT
* * * *
54931 GAGTCTATGTGAGACTGTATTTATTGAAATTCGAAGCCATAACCACGCGTCCATGCCTTGCATGA
1 GAGTCTATATGAGAATGTATTTATTGAAATTCGAAGCCATAACCACGCGTCCACGCCTTGCATAA
* *
54996 ACATTACACTCGGCATGAACGCCCTGCATGA
66 ACATTAAACTCGGCATGAACGCCCTGAATGA
55027 ACGTTACACT
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
110 87 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (110 bp):
GAGTCTATATGAGAATGTATTTATTGAAATTCGAAGCCATAACCACGCGTCCACGCCTTGCATAA
ACATTAAACTCGGCATGAACGCCCTGAATGATGAACGTTACACTT
Found at i:55024 original size:31 final size:31
Alignment explanation
Indices: 54989--55071 Score: 130
Period size: 31 Copynumber: 2.7 Consensus size: 31
54979 GTCCATGCCT
*
54989 TGCATGAACATTACACTCGGCATGAACGCCC
1 TGCATGAACATTACACTCGGCAGGAACGCCC
* *
55020 TGCATGAACGTTACACTCGGCAGGAACGTCC
1 TGCATGAACATTACACTCGGCAGGAACGCCC
*
55051 TGCATGAACCTTACACTCGGC
1 TGCATGAACATTACACTCGGC
55072 TTCCTGCGAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (31 bp):
TGCATGAACATTACACTCGGCAGGAACGCCC
Found at i:56435 original size:1 final size:1
Alignment explanation
Indices: 56429--56467 Score: 78
Period size: 1 Copynumber: 39.0 Consensus size: 1
56419 GATTCGGGTG
56429 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
56468 AAATTGTGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:64812 original size:21 final size:21
Alignment explanation
Indices: 64786--64829 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
64776 TTTATTTTGA
*
64786 GGACGAATCAGAGTCAGGGCT
1 GGACGAATCAGAGACAGGGCT
64807 GGACGAATCAGAGACAGGGCT
1 GGACGAATCAGAGACAGGGCT
64828 GG
1 GG
64830 GACTACTCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.18, G:0.41, T:0.11
Consensus pattern (21 bp):
GGACGAATCAGAGACAGGGCT
Found at i:85591 original size:54 final size:53
Alignment explanation
Indices: 85533--85736 Score: 223
Period size: 54 Copynumber: 3.8 Consensus size: 53
85523 AACCCCCTCT
* * * * *
85533 TCTGATGGGATCGTAACTGGAGATCAAATTTCTAGAAGGGAATCAATCATCACC
1 TCTGATAGGATCATTACTGGAAATCAAATTTCTAGAAAGGAATCAA-CATCACC
*
85587 TCTGATAGGATCATTACTGGAAATCAGAA-TTCTAGAAAGGAATCAAGCAACACC
1 TCTGATAGGATCATTACTGGAAATCA-AATTTCTAGAAAGGAATCAA-CATCACC
* ** * * * *
85641 ACCAATAGGGTCATTACTGAAAATCAGATTTCTAGAAAGGAATCAACTTC-CAC
1 TCTGATAGGATCATTACTGGAAATCAAATTTCTAGAAAGGAATCAACATCAC-C
*
85694 TCCTGATAGGATCATTACTGGAAATCAAATTTCTAGAAGGGAA
1 T-CTGATAGGATCATTACTGGAAATCAAATTTCTAGAAAGGAA
85737 CCAAGCTCTG
Statistics
Matches: 124, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
52 1 0.01
53 4 0.03
54 117 0.94
55 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (53 bp):
TCTGATAGGATCATTACTGGAAATCAAATTTCTAGAAAGGAATCAACATCACC
Found at i:85907 original size:54 final size:54
Alignment explanation
Indices: 85849--86211 Score: 269
Period size: 54 Copynumber: 6.7 Consensus size: 54
85839 TTTTCCAATG
* * *
85849 GGATCGTTACTGGAGATCAAATTTCTAGAAGGGAATCAATCATCACCTCTGATA
1 GGATCATTACTGGAAATCAAATTTCTAGAAGGGAATCAAGCATCACCTCTGATA
* * * *
85903 GGATCATTACTAGAAATCAGAA-TTCTAGAAAGGAATCAAGCAACATCC-CCGATA
1 GGATCATTACTGGAAATCA-AATTTCTAGAAGGGAATCAAGCATCA-CCTCTGATA
* * * * * *
85957 GGGTCATTACTGGGAATCAGATTTCTAGAAAGGAACCAA-CTTC-CACTCCTGATA
1 GGATCATTACTGGAAATCAAATTTCTAGAAGGGAATCAAGCATCAC-CT-CTGATA
* *
86011 GGATCATTACTGGAAATCAAATTTCTAGAAGGGAACCAAGCTATGCA--TCTGGT-
1 GGATCATTACTGGAAATCAAATTTCTAGAAGGGAATCAAGC-AT-CACCTCTGATA
* * * * * *
86064 GGCATCATTGCTGGAAATCAAATCTCTAGAAGGGAATCAAG-ATCTGCATTTGGT-
1 GG-ATCATTACTGGAAATCAAATTTCTAGAAGGGAATCAAGCATC-ACCTCTGATA
* ** * ** * * * *
86118 GGCGTTGTCACCAGAAATCCAATTTCTAGAAGGGAATCAA-CCTCTCCTTCTGATG
1 GG-ATCATTACTGGAAATCAAATTTCTAGAAGGGAATCAAGCATCACC-TCTGATA
* *
86173 GGATCATTACTGGAAACCAAATTTCTCGAAGGGAATCAA
1 GGATCATTACTGGAAATCAAATTTCTAGAAGGGAATCAA
86212 CTTCTGTTTC
Statistics
Matches: 243, Mismatches: 49, Indels: 34
0.75 0.15 0.10
Matches are distributed among these distances:
51 2 0.01
52 3 0.01
53 6 0.02
54 222 0.91
55 8 0.03
56 1 0.00
57 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.26
Consensus pattern (54 bp):
GGATCATTACTGGAAATCAAATTTCTAGAAGGGAATCAAGCATCACCTCTGATA
Found at i:86018 original size:309 final size:309
Alignment explanation
Indices: 85459--86079 Score: 1073
Period size: 309 Copynumber: 2.0 Consensus size: 309
85449 CCAATTTCTA
* *
85459 GAACAGAATCAACTTCTGGTTACGAGGGAAGCATTACTAGCAGTCAGATTTCTAGAAGCGAGTCA
1 GAACAGAATCAACTTCTGATTACGAGGGAAGCATTACTAGAAGTCAGATTTCTAGAAGCGAGTCA
**
85524 ACCCCCTCTTCTGATGGGATCGTAACTGGAGATCAAATTTCTAGAAGGGAATCAATCATCACCTC
66 ACCCCCTCTTCCAATGGGATCGTAACTGGAGATCAAATTTCTAGAAGGGAATCAATCATCACCTC
*
85589 TGATAGGATCATTACTGGAAATCAGAATTCTAGAAAGGAATCAAGCAACACCACCAATAGGGTCA
131 TGATAGGATCATTACTAGAAATCAGAATTCTAGAAAGGAATCAAGCAACACCACCAATAGGGTCA
*
85654 TTACTGAAAATCAGATTTCTAGAAAGGAATCAACTTCCACTCCTGATAGGATCATTACTGGAAAT
196 TTACTGAAAATCAGATTTCTAGAAAGGAACCAACTTCCACTCCTGATAGGATCATTACTGGAAAT
* * *
85719 CAAATTTCTAGAAGGGAACCAAGCTCTGCATCTGGTGGTATCGTTGCTG
261 CAAATTTCTAGAAGGGAACCAAGCTATGCATCTGGTGGCATCATTGCTG
* *
85768 GAACAGAATCAACTTCTGATTATGAGGGAAGCATTACTAGAAGTCAGGTTTCTAGAAGCGAGTCA
1 GAACAGAATCAACTTCTGATTACGAGGGAAGCATTACTAGAAGTCAGATTTCTAGAAGCGAGTCA
* * *
85833 ACCCCGTTTTCCAATGGGATCGTTACTGGAGATCAAATTTCTAGAAGGGAATCAATCATCACCTC
66 ACCCCCTCTTCCAATGGGATCGTAACTGGAGATCAAATTTCTAGAAGGGAATCAATCATCACCTC
*
85898 TGATAGGATCATTACTAGAAATCAGAATTCTAGAAAGGAATCAAGCAACATCC-CCGATAGGGTC
131 TGATAGGATCATTACTAGAAATCAGAATTCTAGAAAGGAATCAAGCAACA-CCACCAATAGGGTC
**
85962 ATTACTGGGAATCAGATTTCTAGAAAGGAACCAACTTCCACTCCTGATAGGATCATTACTGGAAA
195 ATTACTGAAAATCAGATTTCTAGAAAGGAACCAACTTCCACTCCTGATAGGATCATTACTGGAAA
86027 TCAAATTTCTAGAAGGGAACCAAGCTATGCATCTGGTGGCATCATTGCTG
260 TCAAATTTCTAGAAGGGAACCAAGCTATGCATCTGGTGGCATCATTGCTG
86077 GAA
1 GAA
86080 ATCAAATCTC
Statistics
Matches: 294, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
309 292 0.99
310 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (309 bp):
GAACAGAATCAACTTCTGATTACGAGGGAAGCATTACTAGAAGTCAGATTTCTAGAAGCGAGTCA
ACCCCCTCTTCCAATGGGATCGTAACTGGAGATCAAATTTCTAGAAGGGAATCAATCATCACCTC
TGATAGGATCATTACTAGAAATCAGAATTCTAGAAAGGAATCAAGCAACACCACCAATAGGGTCA
TTACTGAAAATCAGATTTCTAGAAAGGAACCAACTTCCACTCCTGATAGGATCATTACTGGAAAT
CAAATTTCTAGAAGGGAACCAAGCTATGCATCTGGTGGCATCATTGCTG
Found at i:86242 original size:108 final size:107
Alignment explanation
Indices: 85846--86243 Score: 304
Period size: 108 Copynumber: 3.7 Consensus size: 107
85836 CCGTTTTCCA
* * *
85846 ATGGGATCGTTACTGGAGATCAAATTTCTAGAAGGGAATCAATCATC-ACCTCTGATAGGATCAT
1 ATGGGATCATTACTGGAAATCAAATTTCTAGAAGGGAATCAA-CATCTACTTCTGATAGGATCAT
* * ** *
85910 TACTAGAAAT-CAGAATTCTAGAAAGGAATCAAGCAACATCC-CCG
65 TACTAGAAATCCA-ATTTCTAGAAGGGAATCAA-CCTC-TCCTCTG
* * * * * * *
85954 ATAGGG-TCATTACTGGGAATCAGATTTCTAGAAAGGAACCAACTTCCACTCCTGATAGGATCAT
1 AT-GGGATCATTACTGGAAATCAAATTTCTAGAAGGGAATCAACATCTACTTCTGATAGGATCAT
* * * * * *
86018 TACTGGAAATCAAATTTCTAGAAGGGAACCAAGCTATGCATCTG
65 TACTAGAAATCCAATTTCTAGAAGGGAATCAACCTCT-CCTCTG
* * * * * * * * **
86062 GTGGCATCATTGCTGGAAATCAAATCTCTAGAAGGGAATCAAGATCTGCATT-TGGT-GGCGTTG
1 ATGGGATCATTACTGGAAATCAAATTTCTAGAAGGGAATCAACATCTAC-TTCTGATAGG-ATCA
* *
86125 TCACCAGAAATCCAATTTCTAGAAGGGAATCAACCTCTCCTTCTG
64 TTACTAGAAATCCAATTTCTAGAAGGGAATCAACCTCTCC-TCTG
* * * ** * *
86170 ATGGGATCATTACTGGAAACCAAATTTCTCGAAGGGAATCAACTTCTGTTTCTGGTAGGACCATT
1 ATGGGATCATTACTGGAAATCAAATTTCTAGAAGGGAATCAACATCTACTTCTGATAGGATCATT
*
86235 TCTAGAAAT
66 ACTAGAAAT
86244 TTGAATACTA
Statistics
Matches: 218, Mismatches: 61, Indels: 22
0.72 0.20 0.07
Matches are distributed among these distances:
106 1 0.00
107 11 0.05
108 199 0.91
109 7 0.03
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27
Consensus pattern (107 bp):
ATGGGATCATTACTGGAAATCAAATTTCTAGAAGGGAATCAACATCTACTTCTGATAGGATCATT
ACTAGAAATCCAATTTCTAGAAGGGAATCAACCTCTCCTCTG
Found at i:89740 original size:21 final size:19
Alignment explanation
Indices: 89695--89752 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
89685 CTGTTTAGCA
89695 ACTGTACAGATGAGATTAC
1 ACTGTACAGATGAGATTAC
* *
89714 ACTGTACAGATTAGATTAGGT
1 ACTGTACAGATGAGATTA--C
89735 ACTGTACAGATGAGATTA
1 ACTGTACAGATGAGATTA
89753 TTAGAATAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 17 0.50
21 17 0.50
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.29
Consensus pattern (19 bp):
ACTGTACAGATGAGATTAC
Found at i:92707 original size:69 final size:69
Alignment explanation
Indices: 92596--92733 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
92586 GGAGTGTTGG
*
92596 AGAAAGCGAGTTTCTAGGTCCAGCTGATGTTGCAAGTGCTTCACGGGGAAAAGAAACTTCAGTTA
1 AGAAAGCGAGTTTCTAGGTCCAGCTGATGTTGCAAGTGCTTCACAGGGAAAAGAAACTTCAGTTA
92661 GCAA
66 GCAA
92665 AGAAAGCGAGTTTCTAGGTCCAGCTGATGTTGCAAGTGCTTCACAGGGAAAAGAAACTTCAGTTA
1 AGAAAGCGAGTTTCTAGGTCCAGCTGATGTTGCAAGTGCTTCACAGGGAAAAGAAACTTCAGTTA
92730 GCAA
66 GCAA
92734 CTCTCCTCAG
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (69 bp):
AGAAAGCGAGTTTCTAGGTCCAGCTGATGTTGCAAGTGCTTCACAGGGAAAAGAAACTTCAGTTA
GCAA
Found at i:93483 original size:81 final size:81
Alignment explanation
Indices: 93389--93708 Score: 561
Period size: 81 Copynumber: 4.0 Consensus size: 81
93379 CGGGAATGCT
* * *
93389 AATGCTAGTAAAAAGACAGCTAATGCTGGTTCTCCTCCCTC-GTTGGAATCATTACCAGCAACAA
1 AATGCTAGTAAAAAGACAGCTAATGCCGGTTCTCCTCCCTCAG-TGGAATCCTCACCAGCAACAA
** *
93453 AGAAGAATTCTGCCGCT
65 AGAAGGGTTCTGCCGCC
*
93470 AATGCTAGTAAAAAGGCAGCTAATGCCGGTTCTCCTCCCTCAGTGGAATCCTCACCAGCAACAAA
1 AATGCTAGTAAAAAGACAGCTAATGCCGGTTCTCCTCCCTCAGTGGAATCCTCACCAGCAACAAA
93535 GAAGGGTTCTGCCGCC
66 GAAGGGTTCTGCCGCC
93551 AATGCTAGTAAAAAGACAGCTAATGCCGGTTCTCCTCCCTCAGTGGAATCCTCACCAGCAACAAA
1 AATGCTAGTAAAAAGACAGCTAATGCCGGTTCTCCTCCCTCAGTGGAATCCTCACCAGCAACAAA
93616 GAAGGGTTCTGCCGCC
66 GAAGGGTTCTGCCGCC
93632 AATGCTAGTAAAAAGACAGCTAATGCCGGTTCTCCTCCCTCAGTGGAATCCTCACCAGCAACAAA
1 AATGCTAGTAAAAAGACAGCTAATGCCGGTTCTCCTCCCTCAGTGGAATCCTCACCAGCAACAAA
93697 GAAGGGTTCTGC
66 GAAGGGTTCTGC
93709 TCGGCAAAAG
Statistics
Matches: 230, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
81 229 1.00
82 1 0.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (81 bp):
AATGCTAGTAAAAAGACAGCTAATGCCGGTTCTCCTCCCTCAGTGGAATCCTCACCAGCAACAAA
GAAGGGTTCTGCCGCC
Found at i:94952 original size:15 final size:15
Alignment explanation
Indices: 94932--94961 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
94922 TTTGGCAATA
94932 TCATTTCATCATTTG
1 TCATTTCATCATTTG
94947 TCATTTCATCATTTG
1 TCATTTCATCATTTG
94962 ATATGGATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (15 bp):
TCATTTCATCATTTG
Found at i:96411 original size:17 final size:15
Alignment explanation
Indices: 96387--96421 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
96377 ATACAATTTA
96387 ATTTTCTCTCTTTCG
1 ATTTTCTCTCTTTCG
96402 ATTTTCTCTCTTTCG
1 ATTTTCTCTCTTTCG
96417 ATTTT
1 ATTTT
96422 ATTAAATAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.09, C:0.23, G:0.06, T:0.63
Consensus pattern (15 bp):
ATTTTCTCTCTTTCG
Found at i:96629 original size:2 final size:2
Alignment explanation
Indices: 96618--96654 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
96608 TTGATACTAG
96618 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
96655 CTAGTCTTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:96854 original size:17 final size:18
Alignment explanation
Indices: 96818--96854 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
96808 CTTTTCTATG
*
96818 AAAATGAGTATACGTTTT
1 AAAATGAGTAAACGTTTT
96836 AAAATGAGTAAAC-TTTT
1 AAAATGAGTAAACGTTTT
96853 AA
1 AA
96855 GATTTCCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.46, C:0.05, G:0.14, T:0.35
Consensus pattern (18 bp):
AAAATGAGTAAACGTTTT
Found at i:97084 original size:21 final size:22
Alignment explanation
Indices: 97001--97388 Score: 129
Period size: 22 Copynumber: 17.5 Consensus size: 22
96991 TTGTTATATT
* *
97001 ATTTTGATAACCTCTCTAAGAA
1 ATTTTGATAACCTCACTATGAA
* * *
97023 ATTGTGATAACCTCCCTGTGAA
1 ATTTTGATAACCTCACTATGAA
* *
97045 ACTTTGATAACCACACTATGAA
1 ATTTTGATAACCTCACTATGAA
97067 ATTTTGAT-ACCATC-CTATGAA
1 ATTTTGATAACC-TCACTATGAA
* *
97088 ATTTTGATAACCACACTATAAA
1 ATTTTGATAACCTCACTATGAA
* *
97110 ACTGTGATAACCTCTA-TATGAAA
1 ATTTTGATAACCTC-ACTATG-AA
* * * *
97133 ATTTTTTTGATGACCTTAATATAAA
1 A---TTTTGATAACCTCACTATGAA
*
97158 ATTTTGA-ATCC-CACATTAATAGCGAA
1 ATTTTGATAACCTCAC--T-AT---GAA
** ****
97184 AGGTTGATTTGGTACACTATGAA
1 ATTTTGATAACCT-CACTATGAA
*
97207 ATTTGGATAACCAT-ACTATGAA
1 ATTTTGATAACC-TCACTATGAA
* *
97229 ATTTTGATAACCTCCCTAT-AGC
1 ATTTTGATAACCTCACTATGA-A
* ** *
97251 ATGTTGATAAATTCCCTAT-AGA
1 ATTTTGATAACCTCACTATGA-A
* * * * * *
97273 ATTTCGTTAATCTAACAATAAA
1 ATTTTGATAACCTCACTATGAA
* * *
97295 ATTTTGATAAGCACAATATGAA
1 ATTTTGATAACCTCACTATGAA
*
97317 ATTTTGATTACCT---T-TGAA
1 ATTTTGATAACCTCACTATGAA
* *
97335 ATTTTTG-TAACCACATTATGAA
1 A-TTTTGATAACCTCACTATGAA
*
97357 ATTTTGAT-AGCTACACTATGAA
1 ATTTTGATAACCT-CACTATGAA
*
97379 ATTTCGATAA
1 ATTTTGATAA
97389 TCTACAAAGT
Statistics
Matches: 265, Mismatches: 71, Indels: 59
0.67 0.18 0.15
Matches are distributed among these distances:
18 9 0.03
19 6 0.02
20 1 0.00
21 31 0.12
22 171 0.65
23 16 0.06
24 1 0.00
25 4 0.02
26 21 0.08
27 2 0.01
29 3 0.01
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.36
Consensus pattern (22 bp):
ATTTTGATAACCTCACTATGAA
Found at i:97100 original size:43 final size:44
Alignment explanation
Indices: 97001--97137 Score: 152
Period size: 43 Copynumber: 3.1 Consensus size: 44
96991 TTGTTATATT
* * * *
97001 ATTTTGATAACCTCTCTAAGAAATTGTGATAACCTCCCTGTGAA
1 ATTTTGATAACCACACTATGAAATTGTGATAACCTCCCTATGAA
* *
97045 ACTTTGATAACCACACTATGAAATTTTGAT-ACCAT-CCTATGAA
1 ATTTTGATAACCACACTATGAAATTGTGATAACC-TCCCTATGAA
* * **
97088 ATTTTGATAACCACACTATAAAACTGTGATAACCTCTATATGAAA
1 ATTTTGATAACCACACTATGAAATTGTGATAACCTCCCTATG-AA
97133 ATTTT
1 ATTTT
97138 TTTGATGACC
Statistics
Matches: 77, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
43 37 0.48
44 33 0.43
45 7 0.09
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.34
Consensus pattern (44 bp):
ATTTTGATAACCACACTATGAAATTGTGATAACCTCCCTATGAA
Found at i:97130 original size:65 final size:67
Alignment explanation
Indices: 97001--97137 Score: 156
Period size: 65 Copynumber: 2.1 Consensus size: 67
96991 TTGTTATATT
* * * * *
97001 ATTTTGATAACCTCTCTAAGAAATTGTGATAACCTCCCTGTGAAACTTTGATAACCACACTATG-
1 ATTTTGATAACCTCTCTAAGAAATTGTGATAACCACACTATAAAACTGTGATAACCACACTATGA
97065 AA
66 AA
* * *
97067 ATTTTGAT-ACCATC-CTATGAAATTTTGATAACCACACTATAAAACTGTGATAACCTCTA-TAT
1 ATTTTGATAACC-TCTCTAAGAAATTGTGATAACCACACTATAAAACTGTGATAACCAC-ACTAT
97129 GAAA
64 GAAA
97133 ATTTT
1 ATTTT
97138 TTTGATGACC
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
65 42 0.70
66 18 0.30
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.34
Consensus pattern (67 bp):
ATTTTGATAACCTCTCTAAGAAATTGTGATAACCACACTATAAAACTGTGATAACCACACTATGA
AA
Found at i:97143 original size:26 final size:25
Alignment explanation
Indices: 97114--97162 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
97104 TATAAAACTG
97114 TGATAACCTCT-ATATGAAAATTTTTT
1 TGATAACCT-TAATAT-AAAATTTTTT
*
97140 TGATGACCTTAATATAAAATTTT
1 TGATAACCTTAATATAAAATTTT
97163 GAATCCCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.45
Consensus pattern (25 bp):
TGATAACCTTAATATAAAATTTTTT
Found at i:100202 original size:15 final size:14
Alignment explanation
Indices: 100177--100208 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
100167 TATAAAAACC
100177 AAACCGAAACCCCA
1 AAACCGAAACCCCA
100191 AAACCTGAAACCCCA
1 AAACC-GAAACCCCA
100206 AAA
1 AAA
100209 ACCCTTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.53, C:0.38, G:0.06, T:0.03
Consensus pattern (14 bp):
AAACCGAAACCCCA
Found at i:125143 original size:31 final size:31
Alignment explanation
Indices: 125085--125143 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
125075 GTTAGAATCC
* * * * *
125085 TAATTTAATATTTGATGTTAACTTTATGTTT
1 TAATTTAAAATGTGAAGCTAACATTATGTTT
125116 TAATTTAAAATGTGAAGCTAACATTATG
1 TAATTTAAAATGTGAAGCTAACATTATG
125144 AACATATAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.47
Consensus pattern (31 bp):
TAATTTAAAATGTGAAGCTAACATTATGTTT
Found at i:129256 original size:121 final size:121
Alignment explanation
Indices: 129042--129270 Score: 386
Period size: 121 Copynumber: 1.9 Consensus size: 121
129032 TTGCTTGCTG
* *
129042 TGATTTTCCTTTTTCTGCTCTGATGGTTTCTTGATAATGTTTGTTCTCTTCTGCAGTTATCTCTC
1 TGATTTTCCTTTTCCTGCTCTGATGGTTTCTTGATAATGTTTGTTCTCTTCTGCAGTTATCTCCC
*
129107 CATTGGAGTTGAGCATATCCCTGTGGCAGCAAGGATTGCCTTCGGATTTGCTGGTA
66 CATTGGAGCTGAGCATATCCCTGTGGCAGCAAGGATTGCCTTCGGATTTGCTGGTA
* * * * *
129163 TGATTTTCCTTTTCCTGCTTTGATGGTTTCTTTATAATGTTTTTTCTCTTTTGCAGTTGTCTCCC
1 TGATTTTCCTTTTCCTGCTCTGATGGTTTCTTGATAATGTTTGTTCTCTTCTGCAGTTATCTCCC
129228 CATTGGAGCTGAGCATATCCCTGTGGCAGCAAGGATTGCCTTC
66 CATTGGAGCTGAGCATATCCCTGTGGCAGCAAGGATTGCCTTC
129271 CTGCTGTGGG
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
121 100 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.44
Consensus pattern (121 bp):
TGATTTTCCTTTTCCTGCTCTGATGGTTTCTTGATAATGTTTGTTCTCTTCTGCAGTTATCTCCC
CATTGGAGCTGAGCATATCCCTGTGGCAGCAAGGATTGCCTTCGGATTTGCTGGTA
Found at i:129410 original size:20 final size:20
Alignment explanation
Indices: 129385--129498 Score: 75
Period size: 20 Copynumber: 5.5 Consensus size: 20
129375 GGCAAGTTCA
129385 ATGTGAATTGGGAAAATTGG
1 ATGTGAATTGGGAAAATTGG
** * * **
129405 ATGTGAATCAAGGCAAGTTCA
1 ATGTGAAT-TGGGAAAATTGG
*
129426 ATGTGAATTGGGAAATTTGG
1 ATGTGAATTGGGAAAATTGG
* * * **
129446 ATGTGAATTATCAAGGCAAGTTCA
1 ATGTGAA-T-T--GGGAAAATTGG
129470 ATGTGAATTGGGAAAATTGG
1 ATGTGAATTGGGAAAATTGG
129490 ATGTGAATT
1 ATGTGAATT
129499 ATCAAGGCAA
Statistics
Matches: 67, Mismatches: 22, Indels: 10
0.68 0.22 0.10
Matches are distributed among these distances:
20 36 0.54
21 15 0.22
22 2 0.03
23 1 0.01
24 13 0.19
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.31
Consensus pattern (20 bp):
ATGTGAATTGGGAAAATTGG
Found at i:129417 original size:41 final size:43
Alignment explanation
Indices: 129333--129517 Score: 281
Period size: 44 Copynumber: 4.4 Consensus size: 43
129323 CCAATGTGAG
** *
129333 AAGGCAAGTTCAATGTGAATTGGG-ATTTTGGAGGTG-A-ATC
1 AAGGCAAGTTCAATGTGAATTGGGAAAATTGGATGTGAATATC
129373 AAGGCAAGTTCAATGTGAATTGGGAAAATTGGATGTG-A-ATC
1 AAGGCAAGTTCAATGTGAATTGGGAAAATTGGATGTGAATATC
*
129414 AAGGCAAGTTCAATGTGAATTGGGAAATTTGGATGTGAATTATC
1 AAGGCAAGTTCAATGTGAATTGGGAAAATTGGATGTGAA-TATC
129458 AAGGCAAGTTCAATGTGAATTGGGAAAATTGGATGTGAATTATC
1 AAGGCAAGTTCAATGTGAATTGGGAAAATTGGATGTGAA-TATC
129502 AAGGCAAGTTCAATGT
1 AAGGCAAGTTCAATGT
129518 TAAGTTCAAT
Statistics
Matches: 136, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
40 24 0.18
41 49 0.36
42 1 0.01
44 62 0.46
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.29
Consensus pattern (43 bp):
AAGGCAAGTTCAATGTGAATTGGGAAAATTGGATGTGAATATC
Found at i:129478 original size:24 final size:24
Alignment explanation
Indices: 129446--129517 Score: 71
Period size: 24 Copynumber: 3.2 Consensus size: 24
129436 GGAAATTTGG
129446 ATGTGAATTATCAAGGCAAGTTCA
1 ATGTGAATTATCAAGGCAAGTTCA
* * * **
129470 ATGTGAA-T-T--GGGAAAATTGG
1 ATGTGAATTATCAAGGCAAGTTCA
129490 ATGTGAATTATCAAGGCAAGTTCA
1 ATGTGAATTATCAAGGCAAGTTCA
129514 ATGT
1 ATGT
129518 TAAGTTCAAT
Statistics
Matches: 34, Mismatches: 10, Indels: 8
0.65 0.19 0.15
Matches are distributed among these distances:
20 13 0.38
21 1 0.03
22 2 0.06
23 1 0.03
24 17 0.50
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.31
Consensus pattern (24 bp):
ATGTGAATTATCAAGGCAAGTTCA
Found at i:129479 original size:85 final size:83
Alignment explanation
Indices: 129333--129517 Score: 293
Period size: 85 Copynumber: 2.2 Consensus size: 83
129323 CCAATGTGAG
*
129333 AAGGCAAGTTCAATGTGAATTGGGATTTTGGAGGTGAATCAAGGCAAGTTCAATGTGAATTGGGA
1 AAGGCAAGTTCAATGTGAATTGGGAATTTGGAGGTGAATCAAGGCAAGTTCAATGTGAATTGGGA
129398 AAATTGGATGTG-A-ATC
66 AAATTGGATGTGAATATC
*
129414 AAGGCAAGTTCAATGTGAATTGGGAAATTTGGATGTGAATTATCAAGGCAAGTTCAATGTGAATT
1 AAGGCAAGTTCAATGTGAATTGGG-AATTTGGAGGTG-A--ATCAAGGCAAGTTCAATGTGAATT
129479 GGGAAAATTGGATGTGAATTATC
62 GGGAAAATTGGATGTGAA-TATC
129502 AAGGCAAGTTCAATGT
1 AAGGCAAGTTCAATGT
129518 TAAGTTCAAT
Statistics
Matches: 95, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
81 24 0.25
82 10 0.11
83 1 0.01
85 40 0.42
86 1 0.01
88 19 0.20
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.29
Consensus pattern (83 bp):
AAGGCAAGTTCAATGTGAATTGGGAATTTGGAGGTGAATCAAGGCAAGTTCAATGTGAATTGGGA
AAATTGGATGTGAATATC
Found at i:129524 original size:12 final size:12
Alignment explanation
Indices: 129507--129532 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
129497 TTATCAAGGC
129507 AAGTTCAATGTT
1 AAGTTCAATGTT
129519 AAGTTCAATGTT
1 AAGTTCAATGTT
129531 AA
1 AA
129533 TTGGGAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (12 bp):
AAGTTCAATGTT
Found at i:129529 original size:56 final size:54
Alignment explanation
Indices: 129463--129571 Score: 157
Period size: 56 Copynumber: 2.0 Consensus size: 54
129453 TTATCAAGGC
*
129463 AAGTTCAATGTGAATTGGGAAAATTGGATGTGA-ATTATCAAGGCAAGTTCAATGTT
1 AAGTTCAATGTGAATTGGGAAAATTGAATGTGAGA--AT-AAGGCAAGTTCAATGTT
* *
129519 AAGTTCAATGTTAATTGGGAAAGTTGAATGTGAGAATAAGGCAAGTTCAATGT
1 AAGTTCAATGTGAATTGGGAAAATTGAATGTGAGAATAAGGCAAGTTCAATGT
129572 CAATTGGGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
54 16 0.33
55 2 0.04
56 30 0.61
57 1 0.02
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (54 bp):
AAGTTCAATGTGAATTGGGAAAATTGAATGTGAGAATAAGGCAAGTTCAATGTT
Found at i:129610 original size:42 final size:42
Alignment explanation
Indices: 129522--129613 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
129512 CAATGTTAAG
* * * *
129522 TTCAATGTTAATTGGGAAAGTTGAATGTGAGAATAAGGCAAG
1 TTCAATGTCAATTGGGAAAGTTGAATGTGACAATAAGGAAAA
* **
129564 TTCAATGTCAATTGGGAATGTTGAATGTGACAATTGGGAAAA
1 TTCAATGTCAATTGGGAAAGTTGAATGTGACAATAAGGAAAA
129606 TTCAATGT
1 TTCAATGT
129614 GAATGCGCCG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.32
Consensus pattern (42 bp):
TTCAATGTCAATTGGGAAAGTTGAATGTGACAATAAGGAAAA
Found at i:129612 original size:22 final size:22
Alignment explanation
Indices: 129519--129615 Score: 85
Period size: 22 Copynumber: 4.6 Consensus size: 22
129509 GTTCAATGTT
*
129519 AAGTTCAATGT--TAATTGGGA
1 AAGTTCAATGTGACAATTGGGA
* * ** *
129539 AAGTTGAATGTGAGAATAAGGC
1 AAGTTCAATGTGACAATTGGGA
129561 AAGTTCAATGT--CAATTGGGA
1 AAGTTCAATGTGACAATTGGGA
* *
129581 ATGTTGAATGTGACAATTGGGA
1 AAGTTCAATGTGACAATTGGGA
*
129603 AAATTCAATGTGA
1 AAGTTCAATGTGA
129616 ATGCGCCGCG
Statistics
Matches: 58, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
20 24 0.41
22 34 0.59
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.30
Consensus pattern (22 bp):
AAGTTCAATGTGACAATTGGGA
Found at i:129855 original size:26 final size:26
Alignment explanation
Indices: 129824--129879 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
129814 AATATATTTC
*
129824 ACGGTATTCC-CATAAGGAATAACTTA
1 ACGGTACTCCTCAT-AGGAATAACTTA
*
129850 ACGGTACTCCTCATCGGAATAACTTA
1 ACGGTACTCCTCATAGGAATAACTTA
129876 ACGG
1 ACGG
129880 AATATTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 24 0.89
27 3 0.11
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (26 bp):
ACGGTACTCCTCATAGGAATAACTTA
Found at i:130795 original size:32 final size:31
Alignment explanation
Indices: 130759--130982 Score: 189
Period size: 32 Copynumber: 7.4 Consensus size: 31
130749 ATATGGAGAA
* *
130759 ACCTAAGAGTGAACTATATGCTATAACAATAG
1 ACCTAA-AATGAACTATATGCTATAACGATAG
* * *
130791 ACCT---A-CAACCATATGCTAAAACGATAG
1 ACCTAAAATGAACTATATGCTATAACGATAG
* *
130818 ACCT--AA--AACTATATGTTGTAACGATAG
1 ACCTAAAATGAACTATATGCTATAACGATAG
* * *
130845 ACTTAAAATGAAC--TATGTTGTAACGATAG
1 ACCTAAAATGAACTATATGCTATAACGATAG
* * *
130874 ACCTAAAATGAACTATATGTTGTAACGATGG
1 ACCTAAAATGAACTATATGCTATAACGATAG
* *
130905 ACCTAAAAATGAATTATATGCTATAACGATGG
1 ACCT-AAAATGAACTATATGCTATAACGATAG
* *
130937 ACCTAAAAATGAATTATATGCTATAACGATAA
1 ACCT-AAAATGAACTATATGCTATAACGATAG
130969 ACCTGAAAATGAAC
1 ACCT-AAAATGAAC
130983 GGCTTAATGC
Statistics
Matches: 165, Mismatches: 19, Indels: 16
0.82 0.09 0.08
Matches are distributed among these distances:
27 42 0.25
28 1 0.01
29 30 0.18
31 22 0.13
32 70 0.42
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (31 bp):
ACCTAAAATGAACTATATGCTATAACGATAG
Found at i:130817 original size:27 final size:27
Alignment explanation
Indices: 130774--130881 Score: 99
Period size: 27 Copynumber: 3.9 Consensus size: 27
130764 AGAGTGAACT
* *
130774 ATATGCTATAACAATAGACCTACAACC
1 ATATGCTATAACGATAGACCTAAAACC
* *
130801 ATATGCTAAAACGATAGACCTAAAACT
1 ATATGCTATAACGATAGACCTAAAACC
* * * **
130828 ATATGTTGTAACGATAGACTTAAAATGA
1 ATATGCTATAACGATAGACCTAAAA-CC
* *
130856 ACTATGTTGTAACGATAGACCTAAAA
1 A-TATGCTATAACGATAGACCTAAAA
130882 TGAACTATAT
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 44 0.65
28 1 0.01
29 23 0.34
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (27 bp):
ATATGCTATAACGATAGACCTAAAACC
Found at i:130896 original size:31 final size:32
Alignment explanation
Indices: 130824--130982 Score: 191
Period size: 32 Copynumber: 5.1 Consensus size: 32
130814 ATAGACCTAA
*
130824 AACTATATGTTGTAACGATAGA-CTTAAAATG
1 AACTATATGTTGTAACGATAGACCTAAAAATG
130855 AAC--TATGTTGTAACGATAGACCT-AAAATG
1 AACTATATGTTGTAACGATAGACCTAAAAATG
*
130884 AACTATATGTTGTAACGATGGACCTAAAAATG
1 AACTATATGTTGTAACGATAGACCTAAAAATG
* * * *
130916 AATTATATGCTATAACGATGGACCTAAAAATG
1 AACTATATGTTGTAACGATAGACCTAAAAATG
* * * * *
130948 AATTATATGCTATAACGATAAACCTGAAAATG
1 AACTATATGTTGTAACGATAGACCTAAAAATG
130980 AAC
1 AAC
130983 GGCTTAATGC
Statistics
Matches: 116, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
29 26 0.22
30 2 0.02
31 22 0.19
32 66 0.57
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (32 bp):
AACTATATGTTGTAACGATAGACCTAAAAATG
Found at i:134323 original size:67 final size:67
Alignment explanation
Indices: 134210--134343 Score: 259
Period size: 67 Copynumber: 2.0 Consensus size: 67
134200 CTTATCGGCC
134210 ATTAGCGAAGATCGATTGATGAAGAAAAGGGGGAAAAGCAAGAAAAACGGGTTAGGGTTTTCGAG
1 ATTAGCGAAGATCGATTGATGAAGAAAAGGGGGAAAAGCAAGAAAAACGGGTTAGGGTTTTCGAG
134275 AA
66 AA
*
134277 ATTATCGAAGATCGATTGATGAAGAAAAGGGGGAAAAGCAAGAAAAACGGGTTAGGGTTTTCGAG
1 ATTAGCGAAGATCGATTGATGAAGAAAAGGGGGAAAAGCAAGAAAAACGGGTTAGGGTTTTCGAG
134342 AA
66 AA
134344 TTAAGAGAGG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.42, C:0.07, G:0.32, T:0.19
Consensus pattern (67 bp):
ATTAGCGAAGATCGATTGATGAAGAAAAGGGGGAAAAGCAAGAAAAACGGGTTAGGGTTTTCGAG
AA
Found at i:135301 original size:17 final size:16
Alignment explanation
Indices: 135247--135297 Score: 66
Period size: 17 Copynumber: 3.1 Consensus size: 16
135237 ATCACCCCCC
*
135247 AGATCACTAGTGATCTA
1 AGATCACCAGTGATC-A
135264 AGATCACCAGTGATGCA
1 AGATCACCAGTGAT-CA
*
135281 AGATCACCGGTGATCA
1 AGATCACCAGTGATCA
135297 A
1 A
135298 AGATTACATG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
16 3 0.10
17 27 0.87
18 1 0.03
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (16 bp):
AGATCACCAGTGATCA
Found at i:136585 original size:96 final size:96
Alignment explanation
Indices: 136479--136675 Score: 304
Period size: 96 Copynumber: 2.1 Consensus size: 96
136469 ACTAAATGGG
** *
136479 CATTTAATATAAATTGATTTGACCACTAAATTTACTAGTCTAAACATGTTTTTTCTCTAATTCGA
1 CATTTAATATAAATTGATTTGACCACTAAATTTACTAGTCTAAACATGAATTTTCTCAAATTCGA
* * *
136544 ATTTTATCCATTTTCTTAAATGTGACCAATA
66 ATATTATCAATGTTCTTAAATGTGACCAATA
* * * *
136575 CATTTAATATAAATTGATTTGATCACTACATTTGCTGGTCTAAACATGAATTTTCTCAAATTCGA
1 CATTTAATATAAATTGATTTGACCACTAAATTTACTAGTCTAAACATGAATTTTCTCAAATTCGA
136640 ATATTATCAATGTTCTTAAATGTGACCAATA
66 ATATTATCAATGTTCTTAAATGTGACCAATA
136671 CATTT
1 CATTT
136676 TCATGAGAAT
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 91 1.00
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (96 bp):
CATTTAATATAAATTGATTTGACCACTAAATTTACTAGTCTAAACATGAATTTTCTCAAATTCGA
ATATTATCAATGTTCTTAAATGTGACCAATA
Found at i:138302 original size:63 final size:63
Alignment explanation
Indices: 138182--138305 Score: 189
Period size: 63 Copynumber: 2.0 Consensus size: 63
138172 TCCATAAGAG
*
138182 TAATGAATTGAGCACTTTTACAAACAATGGACCTTATTTAAACATTTAGTCCAAAAAAAAGGA
1 TAATGAATTGAGCACTTTTACAAACAATGGACCTTATTTAAACATTTAGACCAAAAAAAAGGA
*
138245 TAATGAATTGAGCA-TTTTCACAAACAATGGACCCTTATTTAGACATTTA-ACCCAAAAAAAA
1 TAATGAATTGAGCACTTTT-ACAAACAATGGA-CCTTATTTAAACATTTAGA-CCAAAAAAAA
138306 TGAATAGGAG
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
62 4 0.07
63 26 0.46
64 26 0.46
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.28
Consensus pattern (63 bp):
TAATGAATTGAGCACTTTTACAAACAATGGACCTTATTTAAACATTTAGACCAAAAAAAAGGA
Found at i:169490 original size:48 final size:48
Alignment explanation
Indices: 169415--169529 Score: 140
Period size: 48 Copynumber: 2.4 Consensus size: 48
169405 TCTGAACCGC
* ** *
169415 CAGTCTCAATGGCTGAATCTGTAAAGCAGGAGGTTAATACTAATCCTT
1 CAGTCTCAATGGCTGAATCTCTAAAGCAGGAAATTAATACTAATCCAT
* * ** *
169463 CAGTCTCAATGGCCGAATCTCTGAAGCAGGAAATTGGTACTACTCCAT
1 CAGTCTCAATGGCTGAATCTCTAAAGCAGGAAATTAATACTAATCCAT
*
169511 CAGTCTCAAAGGCTGAATC
1 CAGTCTCAATGGCTGAATC
169530 AATAAAGAAG
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (48 bp):
CAGTCTCAATGGCTGAATCTCTAAAGCAGGAAATTAATACTAATCCAT
Found at i:174056 original size:35 final size:35
Alignment explanation
Indices: 174010--174129 Score: 174
Period size: 36 Copynumber: 3.5 Consensus size: 35
174000 TAGGAATTTC
*
174010 AAGTTTTGAACTTTAGCTCT-GGGTATTTTCATTGA
1 AAGTTTTGAACTTTAGCTCTAGGG-ATTTTTATTGA
*
174045 AAGTTTTGAACTTTGGCTCTAGGGAATTTTTATTGA
1 AAGTTTTGAACTTTAGCTCTAGGG-ATTTTTATTGA
*
174081 AAGTTTTGAACTTT--CTCTAGGGATTTTTATTTA
1 AAGTTTTGAACTTTAGCTCTAGGGATTTTTATTGA
174114 AAGTTTTGAACTTTAG
1 AAGTTTTGAACTTTAG
174130 AACAAAAACC
Statistics
Matches: 78, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
33 24 0.31
34 8 0.10
35 19 0.24
36 27 0.35
ACGTcount: A:0.25, C:0.09, G:0.19, T:0.47
Consensus pattern (35 bp):
AAGTTTTGAACTTTAGCTCTAGGGATTTTTATTGA
Found at i:176141 original size:17 final size:17
Alignment explanation
Indices: 176112--176144 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
176102 GGACAGACTA
176112 TTTAAAAAGTTAGTAAT
1 TTTAAAAAGTTAGTAAT
176129 TTTAATAAA-TTAGTAA
1 TTTAA-AAAGTTAGTAA
176145 GATAATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TTTAAAAAGTTAGTAAT
Found at i:176279 original size:51 final size:51
Alignment explanation
Indices: 176203--176304 Score: 177
Period size: 51 Copynumber: 2.0 Consensus size: 51
176193 CCGATAATGT
*
176203 CGTCAAATGGTTGGTTCAAGTGGTTCAAAGTTTCACCACATGGTGGGCAGA
1 CGTCAAATGATTGGTTCAAGTGGTTCAAAGTTTCACCACATGGTGGGCAGA
* *
176254 CGTCAAATGATTGGTTCAAGTGGTTCAAAGTTTTACCTCATGGTGGGCAGA
1 CGTCAAATGATTGGTTCAAGTGGTTCAAAGTTTCACCACATGGTGGGCAGA
176305 GTAGGCTCGA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (51 bp):
CGTCAAATGATTGGTTCAAGTGGTTCAAAGTTTCACCACATGGTGGGCAGA
Found at i:180558 original size:34 final size:35
Alignment explanation
Indices: 180481--180571 Score: 157
Period size: 35 Copynumber: 2.6 Consensus size: 35
180471 ATGTTTTTGT
180481 GCTAAAGTTCAAAACTTTAAATGAAAATCCCTAGA
1 GCTAAAGTTCAAAACTTTAAATGAAAATCCCTAGA
*
180516 GCTAAAGTTCAAAACTTTAAATGAAAAT-CCTATA
1 GCTAAAGTTCAAAACTTTAAATGAAAATCCCTAGA
*
180550 GCTAAAGTTCAAAACTTGAAAT
1 GCTAAAGTTCAAAACTTTAAAT
180572 CCCTAGACAT
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
34 26 0.48
35 28 0.52
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.27
Consensus pattern (35 bp):
GCTAAAGTTCAAAACTTTAAATGAAAATCCCTAGA
Found at i:194706 original size:204 final size:202
Alignment explanation
Indices: 194468--194870 Score: 671
Period size: 204 Copynumber: 2.0 Consensus size: 202
194458 TAATTTTACA
* * *
194468 TAATTATTTGATACACCGGCGGTGTAAATTTTGGATTTCACAAGCGGGTTGTGGAGTTGATACAT
1 TAATTATTTGATACACCGGCGGTGTAAATTTTGGACTCCACAAGCGGGTTGTGGAGTTGACACAT
*
194533 ATCCATTTTTTGAATTAATTAAATTTTAAATATTTCAATCTAGTCCCTATAGAACACATGTCACC
66 ATCCATTTTTTGAATTAATTAAATTTTAAATATTTCAATCTAGTCCCTAGAGAACACATGTCACC
* * *
194598 CTTCAGGATCCGCTTGTGTAGTCTGCTAAACTCCACCGCCGGTGTATTGTATAATTTGCCATTAA
131 ATTCAGGATCCGCTTATGTAGTCTGCTAAACTCCACCGACGGTGTATTGTATAATTTGCC--TAA
194663 TTTTATGGG
194 TTTTATGGG
*
194672 TAATTATTTTATACACCGGCGGTGTAAATTTTGGACTCCACAAGCGGGTTGTGGAGTTGACACAT
1 TAATTATTTGATACACCGGCGGTGTAAATTTTGGACTCCACAAGCGGGTTGTGGAGTTGACACAT
* * * *
194737 GTCTATTTTTTGAATTAATTAAGTTTTAAATATTTCAATCTAGTCCCTAGAGGACACATGTCACC
66 ATCCATTTTTTGAATTAATTAAATTTTAAATATTTCAATCTAGTCCCTAGAGAACACATGTCACC
*
194802 ATTCAGGATCCGCTTATGTAGTCTGCTAAACTCCACTGACGGTGTATTGTATAATTTGCCTAATT
131 ATTCAGGATCCGCTTATGTAGTCTGCTAAACTCCACCGACGGTGTATTGTATAATTTGCCTAATT
194867 TTAT
196 TTAT
194871 TTAAACCTTT
Statistics
Matches: 186, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
202 9 0.05
204 177 0.95
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (202 bp):
TAATTATTTGATACACCGGCGGTGTAAATTTTGGACTCCACAAGCGGGTTGTGGAGTTGACACAT
ATCCATTTTTTGAATTAATTAAATTTTAAATATTTCAATCTAGTCCCTAGAGAACACATGTCACC
ATTCAGGATCCGCTTATGTAGTCTGCTAAACTCCACCGACGGTGTATTGTATAATTTGCCTAATT
TTATGGG
Found at i:208045 original size:21 final size:20
Alignment explanation
Indices: 208015--208059 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
208005 AATATCATTG
208015 GCAATTAAAATAAAAC-GAAA
1 GCAATTAAAAT-AAACTGAAA
*
208035 GCAATATAAAATCAACTGAAA
1 GCAAT-TAAAATAAACTGAAA
208056 GCAA
1 GCAA
208060 CTTCCTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.60, C:0.13, G:0.11, T:0.16
Consensus pattern (20 bp):
GCAATTAAAATAAACTGAAA
Found at i:221526 original size:17 final size:17
Alignment explanation
Indices: 221504--221539 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
221494 ATATAATTCA
221504 AACTGTTATGGCTGTTG
1 AACTGTTATGGCTGTTG
221521 AACTGTTATGGCTGTTG
1 AACTGTTATGGCTGTTG
221538 AA
1 AA
221540 GCATTGCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.28, T:0.39
Consensus pattern (17 bp):
AACTGTTATGGCTGTTG
Found at i:223618 original size:47 final size:47
Alignment explanation
Indices: 223549--223644 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
223539 CCGGTATTGA
223549 TAATCTCCAAAAAAAAATATGTTCTTTACATGTATAATCCAAAAAAT
1 TAATCTCCAAAAAAAAATATGTTCTTTACATGTATAATCCAAAAAAT
223596 TAATCTCCAAAAAAAAATATGTTCTTTACATGTATAATCCAAAAAAT
1 TAATCTCCAAAAAAAAATATGTTCTTTACATGTATAATCCAAAAAAT
223643 TA
1 TA
223645 TGAAAAGTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.32
Consensus pattern (47 bp):
TAATCTCCAAAAAAAAATATGTTCTTTACATGTATAATCCAAAAAAT
Found at i:224939 original size:16 final size:17
Alignment explanation
Indices: 224918--224949 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
224908 GGAATATAGT
224918 AAAAGAAAAGG-GAAAG
1 AAAAGAAAAGGAGAAAG
224934 AAAAGAAAAGGAGAAA
1 AAAAGAAAAGGAGAAA
224950 ATTTTTAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAGGAGAAAG
Found at i:225908 original size:89 final size:89
Alignment explanation
Indices: 225757--225939 Score: 366
Period size: 89 Copynumber: 2.1 Consensus size: 89
225747 TGAGTGTCAT
225757 AACTTTGGCCAAATGTTATGCTTTCTTTGAGCACTTTTTAAACTTCCATTAAGATTATACTGCAA
1 AACTTTGGCCAAATGTTATGCTTTCTTTGAGCACTTTTTAAACTTCCATTAAGATTATACTGCAA
225822 AAAATAAGAGTATACTCGGAATTA
66 AAAATAAGAGTATACTCGGAATTA
225846 AACTTTGGCCAAATGTTATGCTTTCTTTGAGCACTTTTTAAACTTCCATTAAGATTATACTGCAA
1 AACTTTGGCCAAATGTTATGCTTTCTTTGAGCACTTTTTAAACTTCCATTAAGATTATACTGCAA
225911 AAAATAAGAGTATACTCGGAATTA
66 AAAATAAGAGTATACTCGGAATTA
225935 AACTT
1 AACTT
225940 GTGTTGTACT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 94 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (89 bp):
AACTTTGGCCAAATGTTATGCTTTCTTTGAGCACTTTTTAAACTTCCATTAAGATTATACTGCAA
AAAATAAGAGTATACTCGGAATTA
Found at i:244607 original size:322 final size:322
Alignment explanation
Indices: 243554--247381 Score: 4173
Period size: 321 Copynumber: 11.9 Consensus size: 322
243544 TGTTTCTTCG
* * *
243554 TTTTTCCAATTTTTATTCCGAATTAATTTCTAATTAAATCGAAAAAAGATTTATATGCTCGTAAA
1 TTTTTCCAATTTTT-TTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAA
* ** * * ** * *
243619 AATAAATTGTTAAATCGAATGTGGTTTTGATTTGATTCGATGAATGTAGATATTTCAAGGAGTCT
65 AACAAATCCTTAAATCTAATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCT
* * * *
243684 TTCTGCCAAAAATCATGCAAAACTGAGCTTGGGCCCCCGAAACACGTTTTTAGCCTAAAAACCGT
130 TTCTGCCAAAAATCATGCAAAACTGAGC-CGGGGCTCCGAAACGCGTTTTTAGCC-AAAAACCGT
* *
243749 GATGG-T--T----GATTTCGACTAAAAATTGACCCG-A-TTTTTTTTCTGAATTATTTGCCACA
193 GATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAATTTTTTTTTCTGAATT-TTTGCCACA
* * *
243805 ATACTCAGAAAAAATGTATAATTCAATGCCAAAAAGATTGACGGGATTTTCACGCTTCTAATATC
257 ATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATGGGATTTTCACGCTTCTAATATC
243870 A
322 A
* * *
243871 TTTTTCCAATTTTTTTCCGAATCAATTTCTAATTAAATTGAAACAATATTCAGATGCTCGTAAAA
1 TTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAA
* * *
243936 ACAAATCCTTAAATCTAATG-GGCTGATATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTA
66 ACAAATCCTTAAATCTAATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTT
* * * * **
244000 TCAGCTAAAAATCATGCAAAACTGAGCCGGGGCCCCTGAAACGTGTTTCCAGCCCAAAAACCATT
131 TCTGCCAAAAATCATGCAAAACTGAGCCGGGGCTCC-GAAACGCGTTTTTAG-CCAAAAACC---
* * **
244065 ATGGTTAGTACACGGTTAGTACACGATTTCGGGTAAAAACTGACACAAAATTTTTTTTT-TGAAT
191 ---G-T-G---ATGGTTAGTACACGATTTCGGCTAAAAACTGAC-CCGAATTTTTTTTTCTGAA-
* * ** *
244129 TTTTTGCCACAATACTCAGAAGAAATATATAATTCAACGCCAAAAAGATTGATAGTCTTTTCACA
246 TTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATGGGATTTTCACG
244194 CTTCTAATATCA
311 CTTCTAATATCA
244206 TTTTTCCAA-TTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAA
1 TTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAA
* * * ** *
244270 ACAAATCCTTATATCCAATGTGGCTGACATTTGGTTCGAAAAATATAGATATTTCACGGAGTCTT
66 ACAAATCCTTAAATCTAATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTT
* * * **
244335 TGC-GCTAAAAATCATGCAAAATTGAGCCGGGGCTCTGAAACATGTTTTTAGCCAAAAACCGTGA
131 T-CTGCCAAAAATCATGCAAAACTGAGCCGGGGCTCCGAAACGCGTTTTTAGCCAAAAACCGTGA
*
244399 TGGTTAGTACACGATTTCGGCTAAAAACTTACCCGAATTTTTTTTTCTGAATTTTTGCCACAATA
195 TGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAATTTTTTTTTCTGAATTTTTGCCACAATA
* * **
244464 CTCAGAAGAAATATATAATTCAACGCCAAAAAGATTGATAGTCTTTTCACGCTTCTAATATCA
260 CTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATGGGATTTTCACGCTTCTAATATCA
* ** * *
244527 TTTTTCCAATTTTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATAGAGATGTTCGAAAAA
1 TTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAA
* * * * **
244592 ACAAATCCTTATATCCAATATGGCTGACATTTGGTTCGAAAAATATAGATATTTCAAGGAGTCTT
66 ACAAATCCTTAAATCTAATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTT
* *
244657 TAC-GCCAAAAATCTTGCAAAACTGAGCCGGGGCTCCCGAAACGCGTTTTTAGCCCAACAACCGT
131 T-CTGCCAAAAATCATGCAAAACTGAGCCGGGGCT-CCGAAACGCGTTTTTAG-CCAAAAACCGT
* *
244721 GATGGTTAGTACACGATTTCGGTTAAAAACTGACCC-AATTTTTTTTTTCTGAATTTTTTCCCAC
193 GATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAA-TTTTTTTTTCTGAA-TTTTTGCCAC
* *
244785 AATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGACGGGATTTTCACACTTCTAATAT
256 AATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATGGGATTTTCACGCTTCTAATAT
244850 CA
321 CA
* * *
244852 TTTTTCCAA-TTTTTCCCGAATCAATTTCTAATTAAATCGGAACAAGATTCAGATGCTCGTAAAA
1 TTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAA
* * * * *
244916 ACAAATCCTTAAATTTAAGGTGGCTGAGATTTGGTTAGACGAATATAGATATTTCACGGAGTCTT
66 ACAAATCCTTAAATCTAATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTT
* * * * * **
244981 TCTGCCAAAAATCATGCAAAGCTGAGCTGGGGCTCGGGAACGCGTTTTTAACCAAAAGTCGTGAT
131 TCTGCCAAAAATCATGCAAAACTGAGCCGGGGCTCCGAAACGCGTTTTTAGCCAAAAACCGTGAT
* *** * *
245046 GGTTAGTACACGATTTCGGCTAAAAACTTACCCGAA--AAATTTTCTCAATTTTTTGCCACAAAA
196 GGTTAGTACACGATTTCGGCTAAAAACTGACCCGAATTTTTTTTTCTGAA-TTTTTGCCACAATA
* *
245109 CTCAGAAAAAAATATATAATTCAATGCCAAAAAGATTGATGGGATTTTCTCGCTTCTAATATCA
260 CTCAG-AAAAAATATATAATTCAACGCCAAAAAGATTGATGGGATTTTCACGCTTCTAATATCA
* * * *
245173 TTTTTCCAATTTTTTTCCGAATAAATTTATAATTAAATCGAAACAAGATTCAGATACTCCTAAAA
1 TTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAA
* * * * * *
245238 ACAAATTCTTATAT-TAAATGTGGCTGACATTTGGTTCGATGATTATAGGTATTTCAAGGTGTCT
66 ACAAATCCTTAAATCT-AATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCT
* * * * * * * *
245302 TT-GGCTAAAAATCATGCAAAATTGAGCCGAGGCTTCGGAACGCGTTTTTTGCCAAAAATCGTGA
130 TTCTGCCAAAAATCATGCAAAACTGAGCCGGGGCTCCGAAACGCGTTTTTAGCCAAAAACCGTGA
* * * *** *
245366 TGTTTAGTACACGATTTCTGCTAAAAACTGACTCGAA-AAATTTTTCTCAAATTTTTGCCACAAT
195 TGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAATTTTTTTTTCT-GAATTTTTGCCACAAT
*
245430 ACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATGGGATTTTCACGCTTCCAATATCA
259 ACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATGGGATTTTCACGCTTCTAATATCA
* * * * *
245494 TTTTTCAAATCTTTTTCCGAATCAATTTCTAATTAAATCGGAACAAGATTCAAATGCTCGTAAAA
1 TTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAA
* * * *
245559 ACAAATCCTTAAATCTAAGGTGGCTGAGATTTTGTTAGAGGAATATAGATATTTCAAGGAGTCTT
66 ACAAATCCTTAAATCTAATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTT
* * * * *
245624 TCTGCCAAAAATCATACAAAACTGAGCCGGAGCCCCCGAAACGTGTTTTTTAGCCCAAAAACAGT
131 TCTGCCAAAAATCATGCAAAACTGAGCCGG-GGCTCCGAAACGCG-TTTTTAG-CCAAAAACCGT
* * * * * * *
245689 GATGATTAGTACACAATTTTCAGCTAACAACTGACCCG-ATTTTTTTTCCTGAATTTTTTGCTAT
193 GATGGTTAGTACACGA-TTTCGGCTAAAAACTGACCCGAATTTTTTTTTCTGAA-TTTTTGCCAC
* * ** *
245753 AATACTTAGAAGAAATATATAATTCAACGCCAAAAAGATTGATAGTCA-TTTCACGCTTTTAA-A
256 AATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAT-GGGATTTTCACGCTTCTAATA
245816 --A
320 TCA
* *
245817 ----T-C-A--TTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCGGATGCTCCTAAAA
1 TTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAA
* * **
245874 ACAAATCCTTATAT-TCAATGTGGCTGACATTTGGTTCGAAAAATATAGATATTTCAAGGAGTCT
66 ACAAATCCTTAAATCT-AATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCT
* * * *
245938 TTGC-GCTAAAAATCATGC-AAATTGAGCC-GGGCTCCGAAACACGTTTTTAGCAAAAAACCGTG
130 TT-CTGCCAAAAATCATGCAAAACTGAGCCGGGGCTCCGAAACGCGTTTTTAGCCAAAAACCGTG
* * * * *
246000 ATGGGTTAGTACACAATTTTCGGCTAAAAACAGATCCGAAAAGTTTTTTTTTCTCAATTTTTTTA
194 AT-GGTTAGTACACGA-TTTCGGCTAAAAACTGACCCG--AA-TTTTTTTTTCTGAA--TTTTTG
* * * *
246065 TCACAATACTCAGAAATAATATATAATTCAACGCCAAAAAGATTGACGGGTTTTTCACGCTTCTA
252 CCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATGGGATTTTCACGCTTCTA
246130 ATATCA
317 ATATCA
* ** *
246136 TCTTTCC-ATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATAGAGATGCTCGAAAAA
1 TTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAA
* * * *
246200 ACAAATCCTTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTATT
66 ACAAATCCTTAAATCTAATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTT
* * * * * *
246265 TATGCCAAAAATCCCT-CAAAATTGAGCCGGGGC-CTGGGAACGCGTTTTTAGCCATAAACCGTG
131 TCTGCCAAAAAT-CATGCAAAACTGAGCCGGGGCTC-CGAAACGCGTTTTTAGCCAAAAACCGTG
* * ** * * *** * *
246328 ATGAGTAAACGATTTTGAATAAAATTT-TGC-AAAAACT-ATTCCGAAAAATATTTTCTCAATTC
194 ATG-GT-TA-G----T--ACACGATTTCGGCTAAAAACTGA-CCCGAATTTTTTTTTCTGAATT-
* * * * * *
246390 TTTGCCACAATACCCAGAAAAAATATATAATTCAACACCAAAAAGATTTAAGGGTTTTTCAAGCT
248 TTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATGGGATTTTCACGCT
*
246455 TCTAATATCG
313 TCTAATATCA
* *
246465 TTTTTCCAATTTTTTTAAATTCCGAATTAATTTCTAATTAAATCAGAAA-AAGATTTAGATGCTT
1 TTTTTCCAA--TTTTT---TTCCGAATTAATTTCTAATTAAATC-GAAACAAGATTCAGATGCTC
* ** * * * *
246529 GCAAAAACAAATTGTTAAATCGAATGTGGTTGGGATTTGGTTCGATGAATGTAGATATTTCAAGG
60 GTAAAAACAAATCCTTAAATCTAATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGG
* *
246594 AGTTTTTCTGCCAAAAATCATGCAAAACTGAG-CGGGGCCCCTGAAACGCGTTTTTAGCTCAAAA
125 AGTCTTTCTGCCAAAAATCATGCAAAACTGAGCCGGGGCTCC-GAAACGCGTTTTTAGC-CAAAA
* * * *
246658 ACTGTGATGGTTAGTACACGATTTCGACTAAAAACTGATCCG---TATTTTTT-TGAATTTTTGC
188 ACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAATTTTTTTTTCTGAATTTTTGC
* * * *
246719 CACAATACTCAGAAATAATATATAATTCAACTCCAAAAATATTGACGGGATTTTCACGCTTCTAA
253 CACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATGGGATTTTCACGCTTCTAA
246784 TATCA
318 TATCA
* * *
246789 TTTTCCCAA--TTTTTCCGAATCAATTTCTAATTAAATCGAAACAAGATTAAGATGCTCGTAAAA
1 TTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAA
* * *
246852 ACAAATCCTTAAATCTAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGAAGACTT
66 ACAAATCCTTAAATCTAATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTT
* ** * *
246917 TCTGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCCGAAGTGCGTTTTCAGCCCAAAAATCGTG
131 TCTGCCAAAAATCATGCAAAACTGAGCCGGGG-CTCCGAAACGCGTTTTTAG-CCAAAAACCGTG
* * * * * * *
246982 ATGATTAGCATACGATTTCAGCTAAAAACTGACCTGAATTTTTTTTCCTGAGTTTTTTGCCACAA
194 ATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAATTTTTTTTTCTGA-ATTTTTGCCACAA
* * * * *
247047 TACTCAGAAAAAATTTATAATTCAACGCCAAAAAGGTTGAT-GAATTTTCACGCTTTTAATAACA
258 TACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATGGGATTTTCACGCTTCTAATATCA
* * * *
247111 TTTTTCCAGTTTTTTCCCGAATTAATTTATAATTAAATCGAAACAAGATTCAGATGCTCCTAAAA
1 TTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAA
* * * * * * *
247176 ACAAATCCTTATATCTGATATGGTTGACATTTGGTTCGATGAATATAGCTATTTTAAGGAGTCTT
66 ACAAATCCTTAAATCTAATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTT
** ** * * *
247241 TGAGATAAAAATCATGCACCATA-TGAGCCGGGGCTCCGGAATGCGTTTTTAGCCAAAAACC---
131 TCTGCCAAAAATCATGCA--AAACTGAGCCGGGGCTCCGAAACGCGTTTTTAGCCAAAAACCGTG
* ** *
247302 ---G-T-GTACACGATTTTCGGCTAAAAACTGACCCGAAAAATTTTTCCTCT-ATTTTTTGCCAC
194 ATGGTTAGTACACGA-TTTCGGCTAAAAACTGACCCG--AATTTTTTTTTCTGAATTTTTGCCAC
247361 AATACTCAGAAAAAATATATA
256 AATACTCAGAAAAAATATATA
247382 TAAACAAATT
Statistics
Matches: 2992, Mismatches: 405, Indels: 229
0.83 0.11 0.06
Matches are distributed among these distances:
310 12 0.00
311 37 0.01
312 10 0.00
313 1 0.00
314 18 0.01
315 216 0.07
316 178 0.06
317 140 0.05
318 64 0.02
319 7 0.00
320 29 0.01
321 418 0.14
322 403 0.13
323 102 0.03
324 404 0.14
325 122 0.04
326 214 0.07
327 24 0.01
328 34 0.01
329 86 0.03
330 13 0.00
331 2 0.00
332 6 0.00
333 37 0.01
334 95 0.03
335 289 0.10
336 31 0.01
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (322 bp):
TTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAA
ACAAATCCTTAAATCTAATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTT
TCTGCCAAAAATCATGCAAAACTGAGCCGGGGCTCCGAAACGCGTTTTTAGCCAAAAACCGTGAT
GGTTAGTACACGATTTCGGCTAAAAACTGACCCGAATTTTTTTTTCTGAATTTTTGCCACAATAC
TCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATGGGATTTTCACGCTTCTAATATCA
Found at i:244864 original size:646 final size:642
Alignment explanation
Indices: 243554--247381 Score: 4265
Period size: 646 Copynumber: 5.9 Consensus size: 642
243544 TGTTTCTTCG
* * * *
243554 TTTTTCCAATTTTTATTCCGAATTAATTTCTAATTAAATCGAAAAAAGATTTATATGCTCGTAAA
1 TTTTTCCAA-TTTT-TTCCGAATCAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAA
* ** * * ** * * *
243619 AATAAATTGTTAAATCGAATGTGGTTTTGATTTGATTCGATGAATGTAGATATTTCAAGGAGTCT
64 AACAAATCCTTAAATCTAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCT
* * *
243684 TTCTGCCAAAAATCATGCAAAACTGAGCTTGGGCCCCCGAAACACGTTTTTAGCCTAAAAACCGT
129 TTCTGCCAAAAATCATGCAAAACTGAGC-CGGGGCCCCGAAACGCGTTTTTAGCC-AAAAACCGT
*
243749 GATGG-T--T----GATTTCGACTAAAAA-TTGACCCG-A-TTTTTTTTCTGAATTATTTGCCAC
192 GATGGTTAGTACACGATTTCGGCTAAAAACTT-ACCCGAATTTTTTTTTCTGAATT-TTTGCCAC
* * ** *
243804 AATACTCAGAAAAAATGTATAATTCAATGCCAAAAAGATTGACGGGATTTTCACGCTTCTAATAT
255 AATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATAGTATTTTCACGCTTCTAATAT
* * * *
243869 CATTTTTCCAATTTTTTTCCGAATCAATTTCTAATTAAATTGAAACAATATTCAGATGCTCGTAA
320 CATTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCCTAA
* * * *
243934 AAACAAATCCTTAAATCTAATG-GGCTGATATTTGGTTAGATGAATATAGATATTTCAAGGAGTC
385 AAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTCGATGAATATAGATATTTCAAGGAGTC
* * * **
243998 TATCAGCTAAAAATCATGCAAAACTGAGCCGGGGCCCCTGAAACGTGTTTCCAGCCCAAAAACCA
450 TTTC-GCTAAAAATCATGCAAAACTGAGCCGGGGCTCC-GAAACGCGTTTTTAG-CCAAAAACC-
* * *
244063 TTATGGTTAGTACACGGTTAGTACACGATTTCGGGTAAAAACTGACACAAAATTTTTTTTT-TGA
511 -----G-T-G---ATGGTTAGTACACGATTTCGGCTAAAAACTGAC-C-CAATTTTTTTTTCTGA
* ** **
244127 ATTTTTTGCCACAATACTCAGAAGAAATATATAATTCAACGCCAAAAAGATTGATAGTCTTTTCA
564 ATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGACGGGATTTTCA
*
244192 CACTTCTAATATCA
629 CGCTTCTAATATCA
*
244206 TTTTTCCAATTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAA
1 TTTTTCCAATTTTTTCCGAATCAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAA
* * * * ** *
244271 CAAATCCTTATATCCAATGTGGCTGACATTTGGTTCGAAAAATATAGATATTTCACGGAGTCTTT
66 CAAATCCTTAAATCTAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTT
* * * * **
244336 GC-GCTAAAAATCATGCAAAATTGAGCCGGGGCTCTGAAACATGTTTTTAGCCAAAAACCGTGAT
131 -CTGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGAAACGCGTTTTTAGCCAAAAACCGTGAT
244400 GGTTAGTACACGATTTCGGCTAAAAACTTACCCGAATTTTTTTTTCTGAATTTTTGCCACAATAC
195 GGTTAGTACACGATTTCGGCTAAAAACTTACCCGAATTTTTTTTTCTGAATTTTTGCCACAATAC
* *
244465 TCAGAAGAAATATATAATTCAACGCCAAAAAGATTGATAGTCTTTTCACGCTTCTAATATCATTT
260 TCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATAGTATTTTCACGCTTCTAATATCATTT
* ** * **
244530 TTCCAATTTTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATAGAGATGTTCGAAAAAACA
325 TTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCCTAAAAACA
* **
244595 AATCCTTATATCCAATATGGCTGACATTTGGTTCGAAAAATATAGATATTTCAAGGAGTCTTTAC
390 AATCCTTATATCCAATGTGGCTGACATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTT-C
* * *
244660 GCCAAAAATCTTGCAAAACTGAGCCGGGGCTCCCGAAACGCGTTTTTAGCCCAACAACCGTGATG
454 GCTAAAAATCATGCAAAACTGAGCCGGGGCT-CCGAAACGCGTTTTTAG-CCAAAAACCGTGATG
* *
244725 GTTAGTACACGATTTCGGTTAAAAACTGACCCAATTTTTTTTTTCTGAATTTTTTCCCACAATAC
517 GTTAGTACACGATTTCGGCTAAAAACTGACCCAA-TTTTTTTTTCTGAATTTTTTGCCACAATAC
*
244790 TCAGAAAAAATATATAATTCAACGCCAAAAAGATTGACGGGATTTTCACACTTCTAATATCA
581 TCAGAAAAAATATATAATTCAACGCCAAAAAGATTGACGGGATTTTCACGCTTCTAATATCA
* *
244852 TTTTTCCAATTTTTCCCGAATCAATTTCTAATTAAATCGGAACAAGATTCAGATGCTCGTAAAAA
1 TTTTTCCAATTTTTTCCGAATCAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAA
* * * *
244917 CAAATCCTTAAATTTAAGGTGGCTGAGATTTGGTTAGACGAATATAGATATTTCACGGAGTCTTT
66 CAAATCCTTAAATCTAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTT
* * * * * * **
244982 CTGCCAAAAATCATGCAAAGCTGAGCTGGGGCTCGGGAACGCGTTTTTAACCAAAAGTCGTGATG
131 CTGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGAAACGCGTTTTTAGCCAAAAACCGTGATG
*** * *
245047 GTTAGTACACGATTTCGGCTAAAAACTTACCCGAA--AAATTTTCTCAATTTTTTGCCACAAAAC
196 GTTAGTACACGATTTCGGCTAAAAACTTACCCGAATTTTTTTTTCTGAA-TTTTTGCCACAATAC
* * * *
245110 TCAGAAAAAAATATATAATTCAATGCCAAAAAGATTGATGGGATTTTCTCGCTTCTAATATCATT
260 TCAG-AAAAAATATATAATTCAACGCCAAAAAGATTGATAGTATTTTCACGCTTCTAATATCATT
* * *
245175 TTTCCAATTTTTTTCCGAATAAATTTATAATTAAATCGAAACAAGATTCAGATACTCCTAAAAAC
324 TTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCCTAAAAAC
* ** * * * *
245240 AAATTCTTATATTAAATGTGGCTGACATTTGGTTCGATGATTATAGGTATTTCAAGGTGTCTTTG
389 AAATCCTTATATCCAATGTGGCTGACATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTC
* * * * * * *
245305 GCTAAAAATCATGCAAAATTGAGCCGAGGCTTCGGAACGCGTTTTTTGCCAAAAATCGTGATGTT
454 GCTAAAAATCATGCAAAACTGAGCCGGGGCTCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGT
* * *** * *
245370 TAGTACACGATTTCTGCTAAAAACTGACTCGAA-AAATTTTTCTCAAATTTTTGCCACAATACTC
519 TAGTACACGATTTCGGCTAAAAACTGAC-CCAATTTTTTTTTCTGAATTTTTTGCCACAATACTC
* *
245434 AGAAAAAATATATAATTCAACGCCAAAAAGATTGATGGGATTTTCACGCTTCCAATATCA
583 AGAAAAAATATATAATTCAACGCCAAAAAGATTGACGGGATTTTCACGCTTCTAATATCA
* * *
245494 TTTTTCAAATCTTTTTCCGAATCAATTTCTAATTAAATCGGAACAAGATTCAAATGCTCGTAAAA
1 TTTTTCCAAT-TTTTTCCGAATCAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAA
* * *
245559 ACAAATCCTTAAATCTAAGGTGGCTGAGATTTTGTTAGAGGAATATAGATATTTCAAGGAGTCTT
65 ACAAATCCTTAAATCTAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTT
* * * *
245624 TCTGCCAAAAATCATACAAAACTGAGCCGGAGCCCCCGAAACGTGTTTTTTAGCCCAAAAACAGT
130 TCTGCCAAAAATCATGCAAAACTGAGCCGG-GGCCCCGAAACGCG-TTTTTAG-CCAAAAACCGT
* * * * * * * *
245689 GATGATTAGTACACAATTTTCAGCTAACAACTGACCCG-ATTTTTTTTCCTGAATTTTTTGCTAT
192 GATGGTTAGTACACGA-TTTCGGCTAAAAACTTACCCGAATTTTTTTTTCTGAA-TTTTTGCCAC
* * *
245753 AATACTTAGAAGAAATATATAATTCAACGCCAAAAAGATTGATAGTCA-TTTCACGCTTTTAA-A
255 AATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATAGT-ATTTTCACGCTTCTAATA
*
245816 --A----T-C-A--TTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCGGATGCTCCTA
319 TCATTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCCTA
* **
245871 AAAACAAATCCTTATATTCAATGTGGCTGACATTTGGTTCGAAAAATATAGATATTTCAAGGAGT
384 AAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTCGATGAATATAGATATTTCAAGGAGT
* * *
245936 CTTTGCGCTAAAAATCATGC-AAATTGAGCC-GGGCTCCGAAACACGTTTTTAGCAAAAAACCGT
449 CTTT-CGCTAAAAATCATGCAAAACTGAGCCGGGGCTCCGAAACGCGTTTTTAGCCAAAAACCGT
* * * *
245999 GATGGGTTAGTACACAATTTTCGGCTAAAAACAGATCCGAAAAGTTTTTTTTTCTCAATTTTTTT
513 GAT-GGTTAGTACACGA-TTTCGGCTAAAAACTGA-CC--CAA-TTTTTTTTTCTGAA-TTTTTT
** * *
246064 ATCACAATACTCAGAAATAATATATAATTCAACGCCAAAAAGATTGACGGGTTTTTCACGCTTCT
571 GCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGACGGGATTTTCACGCTTCT
246129 AATATCA
636 AATATCA
* * * ** *
246136 TCTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATAGAGATGCTCGAAAAAA
1 TTTTTCCAATTTTTTCCGAATCAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAA
* * * * *
246201 CAAATCCTTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTATTT
66 CAAATCCTTAAATCTAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTT
* * * ** * *
246266 ATGCCAAAAATCCCT-CAAAATTGAGCCGGGGCCTGGGAACGCGTTTTTAGCCATAAACCGTGAT
131 CTGCCAAAAAT-CATGCAAAACTGAGCCGGGGCCCCGAAACGCGTTTTTAGCCAAAAACCGTGAT
* * ** * * *** * *
246330 GAGTAAACGATTTTGAATAAAATTT-TGC-AAAAAC-TATTCCGAAAAATATTTTCTCAATTCTT
195 G-GT-TA-G----T--ACACGATTTCGGCTAAAAACTTA-CCCGAATTTTTTTTTCTGAATT-TT
* * * *
246392 TGCCACAATACCCAGAAAAAATATATAATTCAACACCAAAAAGATTTA-AGGGT-TTTTCAAGCT
249 TGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATA--GTATTTTCACGCT
*
246455 TCTAATATCGTTTTTCCAATTTTTTTAAATTCCGAATTAATTTCTAATTAAATCAGAAA-AAGAT
312 TCTAATATCATTTTTCCAA--TTTTT---TTCCGAATTAATTTCTAATTAAATC-GAAACAAGAT
* * ** * * * ** *
246519 TTAGATGCTTGC-AAAAACAAATTGTTAAATCGAATGTGGTTGGGATTTGGTTCGATGAATGTAG
371 TCAGATGC-TCCTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTCGATGAATATAG
* * *
246583 ATATTTCAAGGAGTTTTTCTGCCAAAAATCATGCAAAACTGAG-CGGGGCCCCTGAAACGCGTTT
435 ATATTTCAAGGAGTCTTTC-GCTAAAAATCATGCAAAACTGAGCCGGGGCTCC-GAAACGCGTTT
* * * * *
246647 TTAGCTCAAAAACTGTGATGGTTAGTACACGATTTCGACTAAAAACTGATCC--GTATTTTTT-T
498 TTAGC-CAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCAATTTTTTTTTCT
* * *
246709 GAA-TTTTTGCCACAATACTCAGAAATAATATATAATTCAACTCCAAAAATATTGACGGGATTTT
562 GAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGACGGGATTTT
246773 CACGCTTCTAATATCA
627 CACGCTTCTAATATCA
* *
246789 TTTTCCCAA-TTTTTCCGAATCAATTTCTAATTAAATCGAAACAAGATTAAGATGCTCGTAAAAA
1 TTTTTCCAATTTTTTCCGAATCAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAA
* *
246853 CAAATCCTTAAATCTAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGAAGACTTT
66 CAAATCCTTAAATCTAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTT
** * *
246918 CTGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCCGAAGTGCGTTTTCAGCCCAAAAATCGTGA
131 CTGCCAAAAATCATGCAAAACTGAGCCGGGG-CCCCGAAACGCGTTTTTAG-CCAAAAACCGTGA
* * * * * * * *
246983 TGATTAGCATACGATTTCAGCTAAAAACTGACCTGAATTTTTTTTCCTGAGTTTTTTGCCACAAT
194 TGGTTAGTACACGATTTCGGCTAAAAACTTACCCGAATTTTTTTTTCTGA-ATTTTTGCCACAAT
* * * * *
247048 ACTCAGAAAAAATTTATAATTCAACGCCAAAAAGGTTGAT-GAATTTTCACGCTTTTAATAACAT
258 ACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATAGTATTTTCACGCTTCTAATATCAT
* * *
247112 TTTTCCAGTTTTTTCCCGAATTAATTTATAATTAAATCGAAACAAGATTCAGATGCTCCTAAAAA
323 TTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCCTAAAAA
** * * * *
247177 CAAATCCTTATATCTGATATGGTTGACATTTGGTTCGATGAATATAGCTATTTTAAGGAGTCTTT
388 CAAATCCTTATATCCAATGTGGCTGACATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTT
* * * * *
247242 GAGATAAAAATCATGCACCATA-TGAGCCGGGGCTCCGGAATGCGTTTTTAGCCAAAAACC----
453 -CGCTAAAAATCATGCA--AAACTGAGCCGGGGCTCCGAAACGCGTTTTTAGCCAAAAACCGTGA
*** * **
247302 --G-T-GTACACGATTTTCGGCTAAAAACTGACCCGAAAAATTTTTCCTCTATTTTTTGCCACAA
515 TGGTTAGTACACGA-TTTCGGCTAAAAACTGACCC-AATTTTTTTTTCTGAATTTTTTGCCACAA
247363 TACTCAGAAAAAATATATA
578 TACTCAGAAAAAATATATA
247382 TAAACAAATT
Statistics
Matches: 2699, Mismatches: 380, Indels: 207
0.82 0.12 0.06
Matches are distributed among these distances:
633 8 0.00
634 19 0.01
635 30 0.01
636 130 0.05
637 36 0.01
638 17 0.01
639 41 0.02
640 17 0.01
641 253 0.09
642 189 0.07
643 191 0.07
644 53 0.02
645 137 0.05
646 534 0.20
647 129 0.05
648 41 0.02
649 23 0.01
650 123 0.05
651 10 0.00
652 145 0.05
653 93 0.03
654 14 0.01
655 22 0.01
656 152 0.06
657 104 0.04
658 6 0.00
660 1 0.00
661 109 0.04
662 34 0.01
663 27 0.01
664 11 0.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (642 bp):
TTTTTCCAATTTTTTCCGAATCAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAA
CAAATCCTTAAATCTAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTT
CTGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGAAACGCGTTTTTAGCCAAAAACCGTGATG
GTTAGTACACGATTTCGGCTAAAAACTTACCCGAATTTTTTTTTCTGAATTTTTGCCACAATACT
CAGAAAAAATATATAATTCAACGCCAAAAAGATTGATAGTATTTTCACGCTTCTAATATCATTTT
TCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCCTAAAAACAA
ATCCTTATATCCAATGTGGCTGACATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTCGC
TAAAAATCATGCAAAACTGAGCCGGGGCTCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTA
GTACACGATTTCGGCTAAAAACTGACCCAATTTTTTTTTCTGAATTTTTTGCCACAATACTCAGA
AAAAATATATAATTCAACGCCAAAAAGATTGACGGGATTTTCACGCTTCTAATATCA
Found at i:248141 original size:865 final size:854
Alignment explanation
Indices: 246533--248256 Score: 2685
Period size: 865 Copynumber: 2.0 Consensus size: 854
246523 ATGCTTGCAA
*
246533 AAACAAATTGTTAAATCGAATGTGGTTGGGATTTGGTTCGATGAATGTAGATATTTCAAGGAGTT
1 AAACAAATTGTTAAATCGAATGTGGTTGGGATTTGGTTCAATGAATGTAGATATTTCAAGGAGTT
* * * *
246598 TTTCTGCCAAAAATCATGCAAAACTGAGCGGGGCCCCTGAAACGCGTTTTTAGCTCAAAAACTGT
66 TTTCTGCCAAAAATCACGCAAAACTGAGCGGGGCCCCCGAAACGCGTTTTTAGCCCAAAAACTAT
* ** * * *
246663 GATGGTTAGTACACGATTTCGACTAAAAACTGATCCGTATTTTTTTGAATTTTTGCCACAATACT
131 GATAGACAGTACACGATTTCGACTAAAAACTGACCCGTATTTTTTTAAATTTTTCCCACAATACT
* * *
246728 CAGAAATAATATATAATTCAACTCCAAAAATATTGACGGGATTTTCACGCTTCTAATATCATTTT
196 CAGAAATAATATATAATTCAACGCCAAAAAGATTAACGGGATTTTCACGCTTCTAATATCATTTT
*
246793 CCCAATTTTTCCGAATCAATTTCTAATTAAATCGAAACAAGATTAAGATGCTCGTAAAAACAAAT
261 CCCAATTTTTCCGAATCAATTTCTAATTAAATCGAAACAAGATTAAGATACTCGTAAAAACAAAT
246858 CCTTAAATCTAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGAAGACTTTCTGCC
326 CCTTAAATCTAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGAAGACTTTCTGCC
246923 AAAAATCATGCAAAACTGAGCCGGGGCCCCCGAAGTGCGTTTTCAGCCCAAAAATCGTGATGATT
391 AAAAATCATGCAAAACTGAGCCGGGGCCCCCGAAGTGCGTTTTCAGCCCAAAAATCGTGATGATT
*
246988 AGCATACGATTTCAGCTAAAAACTGACCTGAATTTTTTTTCCTGAGTTTTTTGCCACAATACTCA
456 AGCATACGATTTCAGCTAAAAACTGACCTAAATTTTTTTTCCTGAGTTTTTTGCCACAATACTCA
** *
247053 GAAAAAATTTATAATTCAACGCCAAAAAGGTTGATGAATTTTCACGCTTTTAATAACATTTTTCC
521 GAAAAAATTTATAATTCAACGCCAAAAAAATTGATGAATTTTCACGCTTCTAATAACATTTTTCC
247118 AGTTTTTTCCCGAATTAATTTATAATTAAATCGAAACAAGATTCAGATGCTCCTAAAAACAAATC
586 AGTTTTTTCCCGAATTAATTTATAATTAAATCGAAACAAGATTCAGATGCTCCTAAAAACAAATC
* * *
247183 CTTATATCTGATATGGTTGACATTTGGTTCGATGAATATAGCTATTTTAAGGAGTCTTTGAGATA
651 CTTATATCCGATATGGCTGACATTTGGTTCGATGAATATAGCTATTTGAAGGAGTCTTTGAGATA
** * *
247248 AAAATCATGCACCATATGAGCCGGGGCTCCGGAATGCGTTTTTAGCCAAAAACC-G-T-GTACAC
716 AAAATCATGCAAAATATGAGCCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGGTTAGTAAAC
*
247310 GATTTTCGGCTAAAAACTGACCCGAAAAATTTTTCCTCTA-TTTTTTGCCACAATACTCAGAAAA
781 GATTTTCGGCTAAAAACTGACCCGAAAAATTTTTCCTCAATTTTTTTGCCACAATACTCAGAAAA
247374 AATATATAT
846 AATATATAT
*
247383 AAACAAATTGTTAAATCG-ATGTGGTTGGTATTTGGTTCAATGAATGTAGATATTTCAAGGAGTT
1 AAACAAATTGTTAAATCGAATGTGGTTGGGATTTGGTTCAATGAATGTAGATATTTCAAGGAGTT
*
247447 TTTCTTCCAAAAATCACGCAAAACTGAGCCGGGGCCCCCGAAACGCGTTTTTAGCCCAAAAACTA
66 TTTCTGCCAAAAATCACGCAAAACTGAG-CGGGGCCCCCGAAACGCGTTTTTAGCCCAAAAACTA
* * *
247512 TGATAGACA-TACACGATTTCGGCTAAAAACTGACCCGATTTTTTTTTAAAATTTTTTTCCCATA
130 TGATAGACAGTACACGATTTCGACTAAAAACTGACCCG-TATTTTTTT-AAA--TTTTTCCCACA
*
247576 ATACTCAGAAA-AATATATAATTCAACGCCAAAAAAGATTAACGGGATTTTC-CAGCTTTTAGA-
191 ATACTCAGAAATAATATATAATTCAACGCC-AAAAAGATTAACGGGATTTTCAC-GCTTCTA-AT
* *
247638 ATCATTTTTCCAATTTTTTTCCGAATCAATTTCTAATTAAATCGAAACAAGATTTAGATACTCGT
253 ATCATTTTCCCAA--TTTTTCCGAATCAATTTCTAATTAAATCGAAACAAGATTAAGATACTCGT
*
247703 AAAAACAAATCCTTAAATCTAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAG
316 AAAAACAAATCCTTAAATCTAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGAAG
* *
247768 ACTTTCTGCCAAAAAATCATGCAAAATTGAGCCGGGGCCCCTGAAAGGCTGAAACGCGTTTTCAG
381 ACTTTCTGCC-AAAAATCATGCAAAACTGAGCCGGGGCCCCCG-AA-G-T-----GCGTTTTCAG
* *
247833 CCTAAAAATCGTGATGATTAGCATACGATTTCAGCTAAAAACTGACCTAAATTTTTTTTTTCTGA
437 CCCAAAAATCGTGATGATTAGCATACGATTTCAGCTAAAAACTGACCTAAA-TTTTTTTTCCTGA
*
247898 G-TTTTTGCCACAATACTCAGAAAAAATTTATAATTCAACGCCAAAAAAATTGATGGATTTTCAC
501 GTTTTTTGCCACAATACTCAGAAAAAATTTATAATTCAACGCCAAAAAAATTGATGAATTTTCAC
* * *
247962 GCTTCTAATATCATTTTTCCAATTTTTTTCCCGAATTAATTTATAATTAAATGGAAACAAGATTC
566 GCTTCTAATAACATTTTTCC-AGTTTTTTCCCGAATTAATTTATAATTAAATCGAAACAAGATTC
*
248027 AGATGCTCCTAAAAACAAATCCTTATATCCGATGTGGCTGACATTTGGTTCGATGAATATAGCTA
630 AGATGCTCCTAAAAACAAATCCTTATATCCGATATGGCTGACATTTGGTTCGATGAATATAGCTA
* *
248092 TTTGAAGGAGTCTTTGAGCTAAAAATCATGCAAAATATGAGTCGGGGCTCCGGAACGCGTTTTTA
695 TTTGAAGGAGTCTTTGAGATAAAAATCATGCAAAATATGAGCCGGGGCTCCGGAACGCGTTTTTA
* *
248157 GCCAAAAACCGTGATGTTTTAGTAAACGATTTTCGGCTAAAAACTGACCCGAAAAGTTTTTTCTC
760 GCCAAAAACC--G--G--TTAGTAAACGATTTTCGGCTAAAAACTGACCCGAAAAATTTTTCCTC
*
248222 AATTTTTTTGTCACAATACTCAGAAAAAATATATA
819 AATTTTTTTGCCACAATACTCAGAAAAAATATATA
248257 ATTCAACGCT
Statistics
Matches: 793, Mismatches: 50, Indels: 37
0.90 0.06 0.04
Matches are distributed among these distances:
849 96 0.12
850 65 0.08
851 2 0.00
852 18 0.02
853 57 0.07
854 1 0.00
855 122 0.15
856 30 0.04
857 2 0.00
858 1 0.00
859 1 0.00
864 137 0.17
865 186 0.23
870 1 0.00
873 1 0.00
874 42 0.05
875 31 0.04
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32
Consensus pattern (854 bp):
AAACAAATTGTTAAATCGAATGTGGTTGGGATTTGGTTCAATGAATGTAGATATTTCAAGGAGTT
TTTCTGCCAAAAATCACGCAAAACTGAGCGGGGCCCCCGAAACGCGTTTTTAGCCCAAAAACTAT
GATAGACAGTACACGATTTCGACTAAAAACTGACCCGTATTTTTTTAAATTTTTCCCACAATACT
CAGAAATAATATATAATTCAACGCCAAAAAGATTAACGGGATTTTCACGCTTCTAATATCATTTT
CCCAATTTTTCCGAATCAATTTCTAATTAAATCGAAACAAGATTAAGATACTCGTAAAAACAAAT
CCTTAAATCTAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGAAGACTTTCTGCC
AAAAATCATGCAAAACTGAGCCGGGGCCCCCGAAGTGCGTTTTCAGCCCAAAAATCGTGATGATT
AGCATACGATTTCAGCTAAAAACTGACCTAAATTTTTTTTCCTGAGTTTTTTGCCACAATACTCA
GAAAAAATTTATAATTCAACGCCAAAAAAATTGATGAATTTTCACGCTTCTAATAACATTTTTCC
AGTTTTTTCCCGAATTAATTTATAATTAAATCGAAACAAGATTCAGATGCTCCTAAAAACAAATC
CTTATATCCGATATGGCTGACATTTGGTTCGATGAATATAGCTATTTGAAGGAGTCTTTGAGATA
AAAATCATGCAAAATATGAGCCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGGTTAGTAAAC
GATTTTCGGCTAAAAACTGACCCGAAAAATTTTTCCTCAATTTTTTTGCCACAATACTCAGAAAA
AATATATAT
Found at i:249991 original size:323 final size:324
Alignment explanation
Indices: 247412--251967 Score: 5073
Period size: 324 Copynumber: 14.1 Consensus size: 324
247402 TGTGGTTGGT
* * * *
247412 ATTTGGTTCAATGAATGTAGATATTTCAAGGAGTTTTTCTTCCAAAAATCACGCAAAACTGAGCC
1 ATTTGGTTCAATGAATGTAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAATTGAGCC
** * **
247477 GGGGCCCCCGAAACGCGTTTTTAGCCCAAAAACTATGATAGACA-TACACGATTTCGGCTAAAAA
66 GGGG-CCCCGAAACGCGTTTTTAG-CCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAA
* * * *
247541 CTGACCCG---ATTTTTTTTTAAAATTTTTTTCCCATAATACTCAG-AAAAATATATAATTCAAC
129 CTGACCCGAAAATTTTTTTCT-CAA-TTTTTTGCCACAATACTCAGAAAAAATATATAATTCAAC
* * * * * *
247602 GCCAAAAAAGATT-AACGGGATTTTC-CAGCTTTTAGA-ATCATTTTTCCA-ATTTTTTTCCGAA
192 G-CAAAAAAAATTGAA-TGGTTTTTCAC-GCTTCTA-ATATCGTTTTTCCATTTTTTTTTCCGAA
** ** * * *
247663 TCAATTTCTAATTAAATCGAAACAAGATTTAGATACTCGTAAAAACAAATCCTTAAATCTAATGT
253 TTTATTTCTAATTTTATCGAAACAAGATTCAGATACTCGTAAAAACAAATCCTTAAATCCAATTT
247728 GGCTGAG
318 GGCTGAG
* *
247735 ATTTGGTT-AGATGAATATAGATATTTCAAGGAGACTTTCTGCCAAAAAATCATGCAAAATTGAG
1 ATTTGGTTCA-ATGAATGTAGATATTTCAAGGAGTCTTTCTGCC-AAAAATCATGCAAAATTGAG
* * * * *
247799 CCGGGGCCCCTGAAAGGCTGAAACGCGTTTTCAGCCTAAAAATCGTGATGATTAGCATACGATTT
64 CCGGGG-CCC-------C-GAAACGCGTTTTTAGCC-AAAAACCGTGATGGTTAGTACACGATTT
* * * * * * *
247864 CAGCTAAAAACTGA-CCTAAATTTTTTTTTTCTGAGTTTTTGCCACAATACTCAGAAAAAATTTA
119 CGGCTAAAAACTGACCCGAAAATTTTTTTCTC-AATTTTTTGCCACAATACTCAGAAAAAATATA
* * * * *
247928 TAATTCAACGCCAAAAAAATTG-ATGGATTTTCACGCTTCTAATATCATTTTTCCAATTTTTTTC
183 TAATTCAACGCAAAAAAAATTGAATGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTTT
* * ** * * * *
247992 CCGAATTAATTTATAATTAAATGGAAACAAGATTCAGATGCTCCTAAAAACAAATCCTTATATCC
248 CCGAATTTATTTCTAATTTTATCGAAACAAGATTCAGATACTCGTAAAAACAAATCCTTAAATCC
* * *
248057 GATGTGGCTGAC
313 AATTTGGCTGAG
* * * * ** * *
248069 ATTTGGTTCGATGAATATAGCTATTTGAAGGAGTCTTTGAGCTAAAAATCATGCAAAATATGAGT
1 ATTTGGTTCAATGAATGTAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAAT-TGAGC
* * * *
248134 CGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGTTTTAGTAAACGATTTTCGGCTAAAA
65 CGGGGCCCCGAAACGCGTTTTTAGCCAAAAACCGTGATG-GTTAGTACACGA-TTTCGGCTAAAA
* *
248199 ACTGACCCGAAAAGTTTTTTCTCAATTTTTTTGTCACAATACTCAGAAAAAATATATAATTCAAC
128 ACTGACCCGAAAATTTTTTTCTCAA-TTTTTTGCCACAATACTCAGAAAAAATATATAATTCAAC
* * ** * * * * *
248264 GC-TAAAAGATTG-ATTTTCTTTTCACGCTTCAAATATCATTTTTCCA-ATTTTTTTCTGAATTA
192 GCAAAAAAAATTGAATGGT-TTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTTTCCGAATTT
** * * * * * *
248326 ATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGAAAAAATAAATCCTTATATCCAATATGGC
256 ATTTCTAATTTTATCGAAACAAGATTCAGATACTCGTAAAAACAAATCCTTAAATCCAATTTGGC
248391 TGAG
321 TGAG
* * * * * *
248395 ATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTATGCCAAAAATCCCT-CAAAACTGAGT
1 ATTTGGTTCAATGAATGTAGATATTTCAAGGAGTCTTTCTGCCAAAAAT-CATGCAAAATTGAGC
* * * * * * * **
248459 TGGGGCCCGGGAACGCGTTTTTAGCCATAAACCGTGATGAGTAAACGATTTCA-AATAAAATTTT
65 CGGGGCCCCGAAACGCGTTTTTAGCCAAAAACCGTGATG-GT-TA-G--TACACGAT----TTCG
* * * * * *
248523 GC-AAAAACTGATCCAAAAAATTTTTCCTCAATTTTTTTCCACAATACCCAGAAAAAATATATAA
121 GCTAAAAACTGACCCGAAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAA
* * * * * * * *
248587 TTCAACACCAAAAAGATTGAACGGTTTTTCAAGCTTCTATTATCGTTTTT-CAGATTTTTATTCC
186 TTCAACGCAAAAAAAATTGAATGGTTTTTCACGCTTCTAATATCGTTTTTCCA-TTTTTTTTTCC
* * ** * * ** * ** *
248651 GAAATAATTTCTAATTAAATCGGAAA-AAGATTTAAATGGTCTTAAAAACAAATTGTTAAATCGA
250 GAATTTATTTCTAATTTTATC-GAAACAAGATTCAGATACTCGTAAAAACAAATCCTTAAATCCA
* * *
248715 ATGTGGTTGGG
314 ATTTGGCTGAG
* * * * * * *
248726 ATTTGCTTCGATGAATGTAGATATTTCAATGAGTCTTTATGACAAAAATCATGCAAAACTGAGCT
1 ATTTGGTTCAATGAATGTAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAATTGAGCC
248791 GGGGCCCCCGAAACGCGTTTTTAGCCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAA
66 GGGG-CCCCGAAACGCGTTTTTAG-CCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAA
* ** * * * * *
248856 TTGACCCG-ATTTTTTTTTATGAATTTTTTTGCCACAATACTTAGAAAAAATATATAATACAATG
129 CTGACCCGAAAATTTTTTTCTCAA-TTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACG
* * ** * * * * **
248920 CCAAAAAGATTGACGGGATTTTCACGCTTCTAATATCATTTTTTCAATTTTTTTTCCGAATCAAT
193 CAAAAAAAATTGAATGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTTTCCGAATTTAT
** * * ***
248985 TTCTAATTAAATCGAAACAAGATTCAGATATTCGTAAAAACAAATCCTTAAATCTAATGCAGCTG
258 TTCTAATTTTATCGAAACAAGATTCAGATACTCGTAAAAACAAATCCTTAAATCCAATTTGGCTG
249050 AG
323 AG
* * * * *
249052 ATTTGGTT-AGATTAATATAGATATTTCAAGGAGTCTTTCTTCCAAAAATCATGCAGAACTGAGC
1 ATTTGGTTCA-ATGAATGTAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAATTGAGC
*
249116 CGGGGCCCCCGAAACGCGTTTTTGGCCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAA
65 CGGGG-CCCCGAAACGCGTTTTTAG-CCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAA
* ** * * *
249181 TCTGACATG-AATTTTTTTTTTCAATTTTTTGCCAC-ATACTTAGAAAAAATATATAATTCAA--
128 ACTGACCCGAAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACG
* * * ** *
249242 CACAAAAAATTGAATGGTTTTT-ATGCTTCTAATATTGTTTTTTCTTTTTTTTTTTCCGATTTTA
193 CAAAAAAAATTGAATGGTTTTTCACGCTTCTAATATCG-TTTTTCCATTTTTTTTTCCGAATTTA
*
249306 TTTCTAATTTTATCGAAACAAGATTCAGATACTCGTAAAAACACATCCTTAAATCCAATTTGGCT
257 TTTCTAATTTTATCGAAACAAGATTCAGATACTCGTAAAAACAAATCCTTAAATCCAATTTGGCT
249371 GAG
322 GAG
* *** *
249374 ATTTGGTTCAATAAATGTAGATATTTCATTTAGTCTTTCTGCTAAAAATCATGCAAAATTGAGCC
1 ATTTGGTTCAATGAATGTAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAATTGAGCC
* *
249439 GGGGCCCTGAAACACGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACT
66 GGGGCCCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACT
* * * *
249504 GACCCAAAAAATTTTTTTCTTAATTTTTTGCCACAATACTCAGAAATAATATATAATTCAATGC-
131 GACCC-GAAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCA
* ** *
249568 AAAAAAATTGAATAGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCCCGAATTTACTT
195 AAAAAAATTGAATGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTTTCCGAATTTATTT
* *
249633 CTAAATTTATCGAAACAAGATTCAGATGA-TCGTAAAAACAAATCCTTAAATCCAATTTGACTGA
260 CTAATTTTATCGAAACAAGATTCAGAT-ACTCGTAAAAACAAATCCTTAAATCCAATTTGGCTGA
249697 G
324 G
* * * * *
249698 ATTTGGTTCAATGAATGTAGATATTTAAAGGAGCCTTTCTGTCAAAAATCATGCAAAACTGAGCT
1 ATTTGGTTCAATGAATGTAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAATTGAGCC
* * * *
249763 TGGGCCCCGAAACG-GTTTTTAGGCAAAAACCGTGATAGTTAGTAAACGATTTCGGCTAAAAACT
66 GGGGCCCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACT
* * * *
249827 GACCCGAAAATTTTTTTCTCAAGTTTTTGCCAC-ATACTTAG-AAAAATATATAATCCAACACAA
131 GACCCGAAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGC-A
* *
249890 AAAAAAATTGAATGGTTTTTTACGCTTCTAATATCGTTTTTCCATTTTTTTTTTCAGAATTTATT
195 AAAAAAATTGAATGGTTTTTCACGCTTCTAATATCGTTTTTCCA-TTTTTTTTTCCGAATTTATT
* *
249955 TCTAATTTTATCGAAACAAGATTCAGATACTCGTAAAAGCACATCCTTAAATCCAATTTGGCTGA
259 TCTAATTTTATCGAAACAAGATTCAGATACTCGTAAAAACAAATCCTTAAATCCAATTTGGCTGA
250020 G
324 G
* * *
250021 ATTTGGTTCAATGAATGTAGATATTTCATGGAGTTTTTCTGCCAAAAATCATGCAAAATTGAGTC
1 ATTTGGTTCAATGAATGTAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAATTGAGCC
* * * * * *
250086 GGGGTCTCGAAACGCGTTTTTAGCCAAAAATCGTTATAGTTAGTACACGATTTCGGCTAAAAATT
66 GGGGCCCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACT
** * * * *
250151 GATCGGGAAAA-TTTTTTCTCAATTTTTTACCACAATATTCAGAAAAAATATATAATTTAATGCA
131 GA-CCCGAAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCA
* * * *
250215 AAAAAAATTGAATGTTTTTTCACGCTTCCAATATCGGTTTTCC-TTTTTTTTTGCCGATTTTATT
195 AAAAAAATTGAATGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTTT-CCGAATTTATT
*
250279 TCTAATTTTATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATTTGGCTGA
259 TCTAATTTTATCGAAACAAGATTCAGATACTCGTAAAAACAAATCCTTAAATCCAATTTGGCTGA
250344 G
324 G
* *
250345 ATTTGGTTCAATGAATGT-GATATTTCATGGAGTCTTTCTGCCAAAAATCATGCAAAATTTAGCC
1 ATTTGGTTCAATGAATGTAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAATTGAGCC
* *
250409 GGGGCCTCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCAGCTAAAAACT
66 GGGGCCCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACT
* * ** **
250474 TACCCGAAAATTTTTTTCGT-AATTTTTTGCCACAATATTCAG-AAAAATATATAATTTTATACA
131 GACCCGAAAATTTTTTTC-TCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCA
* * **
250537 AAAAAAATTGAATGGTTTTTCACGCTTTTAATATCGTTTTTCCA-TTTTTTTCCCGAATTTGCTT
195 AAAAAAATTGAATGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTTTCCGAATTTATTT
* * * * * * *
250601 CTAAATTTATCGATATAAGATTCAGATGCTTGTAAAAACAAATCCTTGAATCCAATTTGACTGAG
260 CTAATTTTATCGAAACAAGATTCAGATACTCGTAAAAACAAATCCTTAAATCCAATTTGGCTGAG
* *
250666 ATTTCGTTCAATGAATGTAGATATTTCATGGAGTCTTTCTGCCAAAAATCATGCAAAATTGAGCC
1 ATTTGGTTCAATGAATGTAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAATTGAGCC
* * * *
250731 GGAGCTCCGAAACGCGTTTTTTGCAAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACT
66 GGGGCCCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACT
* * * * * * *
250796 GACCCAAAAATTTTTTTCTAAATTTTTTGCCACAATAGTTATAAAAATTATATAATTCAATGCAA
131 GACCCGAAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCAA
* * *
250861 AAAAAACTGAATGGTTTTTCACGCTTTTAATATCGTTTTTCCATTTTTTTTTCCGAATTTACTTC
196 AAAAAATTGAATGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTTTCCGAATTTATTTC
* *
250926 TAATTTTATCGTAAA-AAGATTTAGATGCTCGTAAAAACAAATCCTTAAATCCAATTTGGCTGAG
261 TAATTTTATCG-AAACAAGATTCAGATACTCGTAAAAACAAATCCTTAAATCCAATTTGGCTGAG
* * * *
250990 ATTTGATTCAATGAATGTAGATA-TTAAATGGAGTCTTTCTGCAAAAAAT-ATTGCAAATTTGAG
1 ATTTGGTTCAATGAATGTAGATATTTCAA-GGAGTCTTTCTGCCAAAAATCA-TGCAAAATTGAG
* * ** *
251053 CCTGGGCTCCGAAACGCGTTTTTAGGAAAAAACC--G-T-G--A-TACACGATTTTCGACTAAAA
64 CCGGGGCCCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGA-TTTCGGCTAAAA
* *
251111 ACTGACCCGAAAATTTTTTTCTTAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAATG
128 ACTGACCCGAAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACG
* * *
251176 CAAAAAAAA-TGAATGGCTTTTCACGCTTTTAATATCGTTTTT-C-TTTTTTTTTCCGAATTTAC
193 CAAAAAAAATTGAATGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTTTCCGAATTTAT
** * * ** *
251238 TAATAAATTTATCGAAACAAGATTCAGATACTCGTAAAAACAAATCTTTAAATCCAATTTTACCG
258 TTCTAATTTTATCGAAACAAGATTCAGATACTCGTAAAAACAAATCCTTAAATCCAATTTGGCTG
251303 AG
323 AG
* * * * * * *
251305 ATTTGGTTCAATGAATGTAGATATTT-ATAGGAGGCTTTCTGCTAAAAATCTTACAAAACTAAGT
1 ATTTGGTTCAATGAATGTAGATATTTCA-AGGAGTCTTTCTGCCAAAAATCATGCAAAATTGAGC
* *
251369 C-GGGTCCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTAAACGATTTCGGCTAAAAAC
65 CGGGGCCCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAAC
** *
251433 TGA-CC--TTATTTTTTT-TCAATTTTTTGCCAC-ATACTCAGAAAAAATATATAATTCAACAC-
130 TGACCCGAAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCA
* * * * *
251492 AAAAAAATTGAAT-GTTTTTTACACTTCTAATATTGTTTTTCCA--TTTTTTCCCGAATTTATAT
195 AAAAAAATTGAATGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTTTCCGAATTTATTT
* * *
251554 CTAATTTTATCGAAACAAGATTCATATAATCGTAAAAACACATCCTTAAATCCAATTTGGCTGAG
260 CTAATTTTATCGAAACAAGATTCAGATACTCGTAAAAACAAATCCTTAAATCCAATTTGGCTGAG
* *
251619 ATTTGGTTCAATGAATGT-GATATTTCATGGAGTATTTCTGCCAAAAATCATGCAAAATTGAGCC
1 ATTTGGTTCAATGAATGTAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAATTGAGCC
* * * *
251683 GGGTCCTCGAAACGCGTTTTTATCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAATACT
66 GGGGCCCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACT
* * * *
251748 GACCCGGAAATTTTTTTCGT-AATTTTTTGCCACAATATTCAGAGAAAATATATAATTCAATGCA
131 GACCCGAAAATTTTTTTC-TCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCA
* * * *
251812 AAAAAAAATGGATGGTTTTTCACGCTTTTAATATCGTTTTTCCATATTTTTTTTTCCGAATTTAC
195 AAAAAAATTGAATGGTTTTTCACGCTTCTAATATCGTTTTTCC--ATTTTTTTTTCCGAATTTAT
* * * * * * * *
251877 TTCTAAATTTATGGATATAAGATTCAGATGCTTGTAAAAACAAATCCTTAAATCCAATATGACTG
258 TTCTAATTTTATCGAAACAAGATTCAGATACTCGTAAAAACAAATCCTTAAATCCAATTTGGCTG
251942 AG
323 AG
*
251944 ATTTGGATCAATGAATGTAGATAT
1 ATTTGGTTCAATGAATGTAGATAT
251968 GATTATGGCC
Statistics
Matches: 3631, Mismatches: 493, Indels: 215
0.84 0.11 0.05
Matches are distributed among these distances:
313 35 0.01
314 209 0.06
315 158 0.04
316 19 0.01
317 56 0.02
318 94 0.03
319 28 0.01
320 89 0.02
321 153 0.04
322 456 0.13
323 463 0.13
324 545 0.15
325 249 0.07
326 453 0.12
327 84 0.02
328 4 0.00
329 43 0.01
330 58 0.02
331 133 0.04
332 50 0.01
333 79 0.02
334 145 0.04
335 28 0.01
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.35
Consensus pattern (324 bp):
ATTTGGTTCAATGAATGTAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAATTGAGCC
GGGGCCCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACT
GACCCGAAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCAA
AAAAAATTGAATGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTTTCCGAATTTATTTC
TAATTTTATCGAAACAAGATTCAGATACTCGTAAAAACAAATCCTTAAATCCAATTTGGCTGAG
Found at i:250076 original size:647 final size:643
Alignment explanation
Indices: 247412--251967 Score: 5000
Period size: 647 Copynumber: 7.0 Consensus size: 643
247402 TGTGGTTGGT
* * * * *
247412 ATTTGGTTCAATGAATGTAGATATTTCAAGGAGTTTTTCTTCCAAAAATCACGCAAAACTGAGCC
1 ATTTGGTTCAATGAATGTAGATATTTCATGGAGTCTTTCTGCCAAAAATCATGCAAAATTGAGCC
** * **
247477 GGGGCCCCCGAAACGCGTTTTTAGCCCAAAAACTATGATAGACA-TACACGATTTCGGCTAAAAA
66 GGGG--CCCGAAACGCGTTTTTAG-CCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAA
* * * * * *
247541 CTGACCC--GATTTTTTTTTAAAATTTTTTTCCCATAATACTCAG-AAAAATATATAATTCAACG
128 CTGACCCAAAATTTTTTTCT-CAA-TTTTTTGCCACAATACTCAGAAAAAATATATAATTCAATG
* * * * *
247603 CCAAAAAAGATT-AACGGGATTTTC-CAGCTTTTAGA-ATCATTTTTCCAATTTTTTTCCGAATC
191 -CAAAAAA-ATTGAA-TGGTTTTTCAC-GCTTCTA-ATATCGTTTTTCC-ATTTTTTTCCGAATT
* * * * *
247665 AATTTCT-AATTAAATCGAAACAAGATTTAGAT-ACTCGTAAAAACAAATCCTTAAATCTAATGT
250 TATTTCTAAATT-TATCGAAACAAGATTCAGATGA-TCGTAAAAACAAATCCTTAAATCCAATTT
* *
247728 GGCTGAGATTTGGTT-AGATGAATATAGATATTTCAAGGAGACTTTCTGCCAAAAAATCATGCAA
313 GGCTGAGATTTGGTTCA-ATGAATGTAGATATTTCAAGGAGTCTTTCTGCC-AAAAATCATGCAA
* * * * *
247792 AATTGAGCCGGGGCCCCTGAAAGGCTGAAACGCGTTTTCAGCCTAAAAATCGTGATGATTAGCAT
376 AATTGAGCCGGGG-CCC-------C-GAAACGCGTTTTTAGCC-AAAAACCGTGATGGTTAGTAC
* * * * * * *
247857 ACGATTTCAGCTAAAAACTGA-CCTAAATTTTTTTTTTCTGAGTTTTTGCCACAATACTCAGAAA
431 ACGATTTCGGCTAAAAACTGACCCGAAAATTTTTTTCTC-AATTTTTTGCCACAATACTTAGAAA
* * * * * *
247921 AAATTTATAATTCAACGCCAAAAAAATTG-ATGGATTTTCACGCTTCTAATATCATTTTTCCAAT
495 AAATATATAATTCAACACAAAAAAAATTGAATGGTTTTTCACGCTTCTAATATCGTTTTTCCATT
* * * ** * *
247985 TTTTTTCCCGAATTAATTTATAATTAAATGGAAACAAGATTCAGATGCTCCTAAAAACAAATCCT
560 TTTTTTTCCGAATTTATTTCTAATTTTATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCT
* * * *
248050 TATATCCGATGTGGCTGAC
625 TAAATCCAATTTGGCTGAG
* * * * * ** * *
248069 ATTTGGTTCGATGAATATAGCTATTTGAAGGAGTCTTTGAGCTAAAAATCATGCAAAATATGAGT
1 ATTTGGTTCAATGAATGTAGATATTTCATGGAGTCTTTCTGCCAAAAATCATGCAAAAT-TGAGC
* * *
248134 CGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGTTTTAGTAAACGATTTTCGGCTAAAA
65 CGGGGC-CCGAAACGCGTTTTTAGCCAAAAACCGTGATG-GTTAGTACACGA-TTTCGGCTAAAA
* * *
248199 ACTGACCCGAAAAGTTTTTTCTCAATTTTTTTGTCACAATACTCAGAAAAAATATATAATTCAAC
127 ACTGACCC-AAAATTTTTTTCTCAA-TTTTTTGCCACAATACTCAGAAAAAATATATAATTCAAT
* * ** * * * *
248264 GCTAAAAGATTG-ATTTTCTTTTCACGCTTCAAATATCATTTTTCCAATTTTTTTCTGAATTAAT
190 GCAAAAAAATTGAATGGT-TTTTCACGCTTCTAATATCGTTTTTCC-ATTTTTTTCCGAATTTAT
* * * * * * *
248328 TTCT-AATTAAATCGAAACAAGATTGAGATGCTCGAAAAAATAAATCCTTATATCCAATATGGCT
253 TTCTAAATT-TATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAATCCAATTTGGCT
* * * * *
248392 GAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTATGCCAAAAATCCCT-CAAAACTG
317 GAGATTTGGTTCAATGAATGTAGATATTTCAAGGAGTCTTTCTGCCAAAAAT-CATGCAAAATTG
** * * * * * *
248456 AGTTGGGGCCCGGGAACGCGTTTTTAGCCATAAACCGTGATGAGTAAACGATTTCA-AATAAAAT
381 AGCCGGGGCCCCGAAACGCGTTTTTAGCCAAAAACCGTGATG-GT-TA-G--TACACGAT----T
** * * * * * **
248520 TTTGC-AAAAACTGATCCAAAAAATTTTTCCTCAATTTTTTTCCACAATACCCAGAAAAAATATA
437 TCGGCTAAAAACTGACCCGAAAATTTTTTTCTCAATTTTTTGCCACAATACTTAGAAAAAATATA
* * * * * * *
248584 TAATTCAACACCAAAAAGATTGAACGGTTTTTCAAGCTTCTATTATCGTTTTT-CAGATTTTTAT
502 TAATTCAACACAAAAAAAATTGAATGGTTTTTCACGCTTCTAATATCGTTTTTCCA-TTTTTTTT
* * ** * * * * **
248648 TCCGAAATAATTTCTAATTAAATCGGAAA-AAGATTTAAATGGTCTTAAAAACAAATTGTTAAAT
566 TCCGAATTTATTTCTAATTTTATC-GAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAAT
* * * *
248712 CGAATGTGGTTGGG
630 CCAATTTGGCTGAG
* * * * *
248726 ATTTGCTTCGATGAATGTAGATATTTCAAT-GAGTCTTTATGACAAAAATCATGCAAAACTGAGC
1 ATTTGGTTCAATGAATGTAGATATTTC-ATGGAGTCTTTCTGCCAAAAATCATGCAAAATTGAGC
*
248790 TGGGGCCCCCGAAACGCGTTTTTAGCCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAA
65 CGGGG--CCCGAAACGCGTTTTTAG-CCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAA
* * ** * * * *
248855 ATTGACCCGATTTTTTTTTATGAATTTTTTTGCCACAATACTTAGAAAAAATATATAATACAATG
127 ACTGACCCAAAATTTTTTTCTCAA-TTTTTTGCCACAATACTCAGAAAAAATATATAATTCAATG
* ** * * * **
248920 CCAAAAAGATTGACGGGATTTTCACGCTTCTAATATCATTTTTTCAATTTTTTTTCCGAATCAAT
191 -CAAAAAAATTGAATGGTTTTTCACGCTTCTAATATC-GTTTTTCCA-TTTTTTTCCGAATTTAT
* * ***
248985 TTCT-AATTAAATCGAAACAAGATTCAGAT-ATTCGTAAAAACAAATCCTTAAATCTAATGCAGC
253 TTCTAAATT-TATCGAAACAAGATTCAGATGA-TCGTAAAAACAAATCCTTAAATCCAATTTGGC
* * * * *
249048 TGAGATTTGGTT-AGATTAATATAGATATTTCAAGGAGTCTTTCTTCCAAAAATCATGCAGAACT
316 TGAGATTTGGTTCA-ATGAATGTAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAATT
*
249112 GAGCCGGGGCCCCCGAAACGCGTTTTTGGCCCAAAAACCGTGATGGTTAGTACACGATTTCGGCT
380 GAGCCGGGG-CCCCGAAACGCGTTTTTAG-CCAAAAACCGTGATGGTTAGTACACGATTTCGGCT
* ** * *
249177 AAAATCTGACATG-AATTTTTTTTTTCAATTTTTTGCCAC-ATACTTAGAAAAAATATATAATTC
443 AAAAACTGACCCGAAAATTTTTTTCTCAATTTTTTGCCACAATACTTAGAAAAAATATATAATTC
* * ** *
249240 AACAC--AAAAAATTGAATGGTTTTT-ATGCTTCTAATATTGTTTTTTCTTTTTTTTTTTCCGAT
508 AACACAAAAAAAATTGAATGGTTTTTCACGCTTCTAATATCG-TTTTTCCATTTTTTTTTCCGAA
* *
249302 TTTATTTCTAATTTTATCGAAACAAGATTCAGATACTCGTAAAAACACATCCTTAAATCCAATTT
572 TTTATTTCTAATTTTATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATTT
249367 GGCTGAG
637 GGCTGAG
* ** *
249374 ATTTGGTTCAATAAATGTAGATATTTCATTTAGTCTTTCTGCTAAAAATCATGCAAAATTGAGCC
1 ATTTGGTTCAATGAATGTAGATATTTCATGGAGTCTTTCTGCCAAAAATCATGCAAAATTGAGCC
*
249439 GGGGCCCTGAAACACGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACT
66 GGGGCCC-GAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACT
* *
249504 GACCCAAAAAATTTTTTTCTTAATTTTTTGCCACAATACTCAGAAATAATATATAATTCAATGCA
130 GACCC--AAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAATGCA
* *
249569 AAAAAATTGAATAGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCCCGAATTTACTTC
193 AAAAAATTGAATGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTT--CCGAATTTATTTC
*
249634 TAAATTTATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAATCCAATTTGACTGAGA
256 TAAATTTATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAATCCAATTTGGCTGAGA
* * * * **
249699 TTTGGTTCAATGAATGTAGATATTTAAAGGAGCCTTTCTGTCAAAAATCATGCAAAACTGAGCTT
321 TTTGGTTCAATGAATGTAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAATTGAGCCG
* * *
249764 GGGCCCCGAAACG-GTTTTTAGGCAAAAACCGTGATAGTTAGTAAACGATTTCGGCTAAAAACTG
386 GGGCCCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTG
* *
249828 ACCCGAAAATTTTTTTCTCAAGTTTTTGCCAC-ATACTTAG-AAAAATATATAATCCAACACAAA
451 ACCCGAAAATTTTTTTCTCAATTTTTTGCCACAATACTTAGAAAAAATATATAATTCAACAC-AA
* *
249891 AAAAAATTGAATGGTTTTTTACGCTTCTAATATCGTTTTTCCATTTTTTTTTTCAGAATTTATTT
515 AAAAAATTGAATGGTTTTTCACGCTTCTAATATCGTTTTTCCA-TTTTTTTTTCCGAATTTATTT
* * *
249956 CTAATTTTATCGAAACAAGATTCAGATACTCGTAAAAGCACATCCTTAAATCCAATTTGGCTGAG
579 CTAATTTTATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATTTGGCTGAG
* *
250021 ATTTGGTTCAATGAATGTAGATATTTCATGGAGTTTTTCTGCCAAAAATCATGCAAAATTGAGTC
1 ATTTGGTTCAATGAATGTAGATATTTCATGGAGTCTTTCTGCCAAAAATCATGCAAAATTGAGCC
* * * * *
250086 GGGGTCTCGAAACGCGTTTTTAGCCAAAAATCGTTATAGTTAGTACACGATTTCGGCTAAAAATT
66 GGGG-CCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACT
** * * *
250151 GATCGGGAAAA-TTTTTTCTCAATTTTTTACCACAATATTCAGAAAAAATATATAATTTAATGCA
130 GA-C-CCAAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAATGC-
* * * * *
250215 AAAAAAATTGAATGTTTTTTCACGCTTCCAATATCGGTTTTCCTTTTTTTTTGCCGATTTTATTT
192 AAAAAAATTGAATGGTTTTTCACGCTTCTAATATCGTTTTTCC-ATTTTTTT-CCGAATTTATTT
* *
250280 CTAATTTTATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATTTGGCTGAG
255 CTAAATTTATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAATCCAATTTGGCTGAG
* *
250345 ATTTGGTTCAATGAATGT-GATATTTCATGGAGTCTTTCTGCCAAAAATCATGCAAAATTTAGCC
320 ATTTGGTTCAATGAATGTAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAATTGAGCC
* *
250409 GGGGCCTCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCAGCTAAAAACT
385 GGGGCCCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACT
* ** *
250474 TACCCGAAAATTTTTTTCGT-AATTTTTTGCCACAATA-TTCAG-AAAAATATATAATTTTATAC
450 GACCCGAAAATTTTTTTC-TCAATTTTTTGCCACAATACTT-AGAAAAAATATATAATTCAACAC
* * **
250536 AAAAAAAATTGAATGGTTTTTCACGCTTTTAATATCGTTTTTCCA-TTTTTTTCCCGAATTTGCT
513 AAAAAAAATTGAATGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTTTCCGAATTTATT
* * * * * *
250600 TCTAAATTTATCGATATAAGATTCAGATGCTTGTAAAAACAAATCCTTGAATCCAATTTGACTGA
578 TCTAATTTTATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATTTGGCTGA
250665 G
643 G
*
250666 ATTTCGTTCAATGAATGTAGATATTTCATGGAGTCTTTCTGCCAAAAATCATGCAAAATTGAGCC
1 ATTTGGTTCAATGAATGTAGATATTTCATGGAGTCTTTCTGCCAAAAATCATGCAAAATTGAGCC
* * *
250731 GGAGCTCCGAAACGCGTTTTTTGCAAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACT
66 GGGGC-CCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACT
* * * * *
250796 GACCCAAAAATTTTTTTCTAAATTTTTTGCCACAATAGTTATAAAAATTATATAATTCAATGCAA
130 GACCC-AAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAATGC-A
* * *
250861 AAAAAACTGAATGGTTTTTCACGCTTTTAATATCGTTTTTCCATTTTTTTTTCCGAATTTACTTC
193 AAAAAATTGAATGGTTTTTCACGCTTCTAATATCGTTTTTCCA--TTTTTTTCCGAATTTATTTC
* * *
250926 TAATTTTATCGTAAA-AAGATTTAGATGCTCGTAAAAACAAATCCTTAAATCCAATTTGGCTGAG
256 TAAATTTATCG-AAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAATCCAATTTGGCTGAG
* * * *
250990 ATTTGATTCAATGAATGTAGATA-TTAAATGGAGTCTTTCTGCAAAAAAT-ATTGCAAATTTGAG
320 ATTTGGTTCAATGAATGTAGATATTTCAA-GGAGTCTTTCTGCCAAAAATCA-TGCAAAATTGAG
* * ** *
251053 CCTGGGCTCCGAAACGCGTTTTTAGGAAAAAACC--G-T-G--A-TACACGATTTTCGACTAAAA
383 CCGGGGCCCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGA-TTTCGGCTAAAA
* * **
251111 ACTGACCCGAAAATTTTTTTCTTAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAATG
447 ACTGACCCGAAAATTTTTTTCTCAATTTTTTGCCACAATACTTAGAAAAAATATATAATTCAACA
* * *
251176 CAAAAAAAA-TGAATGGCTTTTCACGCTTTTAATATCGTTTTT-C-TTTTTTTTTCCGAATTTAC
512 CAAAAAAAATTGAATGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTTTCCGAATTTAT
** * * * ** *
251238 TAATAAATTTATCGAAACAAGATTCAGATACTCGTAAAAACAAATCTTTAAATCCAATTTTACCG
577 TTCTAATTTTATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATTTGGCTG
251303 AG
642 AG
* * * * * * *
251305 ATTTGGTTCAATGAATGTAGATATTT-ATAGGAGGCTTTCTGCTAAAAATCTTACAAAACTAAGT
1 ATTTGGTTCAATGAATGTAGATATTTCAT-GGAGTCTTTCTGCCAAAAATCATGCAAAATTGAGC
* *
251369 CGGGTCCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTAAACGATTTCGGCTAAAAACT
65 CGGGGCCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACT
** **
251434 GA-CC-TTATTTTTTT-TCAATTTTTTGCCAC-ATACTCAGAAAAAATATATAATTCAACACAAA
130 GACCCAAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAATGCAAA
* * * * * *
251495 AAAATTGAAT-GTTTTTTACACTTCTAATATTGTTTTTCCATTTTTTCCCGAATTTATATCTAAT
195 AAAATTGAATGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTTATTTCTAAA
* * *
251559 TTTATCGAAACAAGATTCATATAATCGTAAAAACACATCCTTAAATCCAATTTGGCTGAGATTTG
260 TTTATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAATCCAATTTGGCTGAGATTTG
* * *
251624 GTTCAATGAATGT-GATATTTCATGGAGTATTTCTGCCAAAAATCATGCAAAATTGAGCCGGGTC
325 GTTCAATGAATGTAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAATTGAGCCGGGGC
* * *
251688 CTCGAAACGCGTTTTTATCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAATACTGACCC
390 CCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCC
* * **
251753 GGAAATTTTTTTCGT-AATTTTTTGCCACAATA-TTCAGAGAAAATATATAATTCAATGCAAAAA
455 GAAAATTTTTTTC-TCAATTTTTTGCCACAATACTT-AGAAAAAATATATAATTCAACACAAAAA
* * * *
251816 AAAATGGATGGTTTTTCACGCTTTTAATATCGTTTTTCCATATTTTTTTTTCCGAATTTACTTCT
518 AAATTGAATGGTTTTTCACGCTTCTAATATCGTTTTTCC--ATTTTTTTTTCCGAATTTATTTCT
* * * * * * *
251881 AAATTTATGGATATAAGATTCAGATGCTTGTAAAAACAAATCCTTAAATCCAATATGACTGAG
581 AATTTTATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATTTGGCTGAG
*
251944 ATTTGGATCAATGAATGTAGATAT
1 ATTTGGTTCAATGAATGTAGATAT
251968 GATTATGGCC
Statistics
Matches: 3344, Mismatches: 452, Indels: 224
0.83 0.11 0.06
Matches are distributed among these distances:
628 63 0.02
629 93 0.03
630 1 0.00
631 27 0.01
632 13 0.00
633 24 0.01
634 92 0.03
635 47 0.01
636 1 0.00
637 2 0.00
638 60 0.02
639 237 0.07
640 82 0.02
641 26 0.01
642 1 0.00
643 62 0.02
644 52 0.02
645 383 0.11
646 394 0.12
647 541 0.16
648 184 0.06
649 11 0.00
650 43 0.01
651 26 0.01
652 9 0.00
653 2 0.00
654 4 0.00
655 49 0.01
656 130 0.04
657 379 0.11
658 57 0.02
659 54 0.02
660 142 0.04
661 26 0.01
662 27 0.01
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.35
Consensus pattern (643 bp):
ATTTGGTTCAATGAATGTAGATATTTCATGGAGTCTTTCTGCCAAAAATCATGCAAAATTGAGCC
GGGGCCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTG
ACCCAAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAATGCAAAA
AAATTGAATGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTTATTTCTAAAT
TTATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAATCCAATTTGGCTGAGATTTGG
TTCAATGAATGTAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAATTGAGCCGGGGCC
CCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCG
AAAATTTTTTTCTCAATTTTTTGCCACAATACTTAGAAAAAATATATAATTCAACACAAAAAAAA
TTGAATGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTTTCCGAATTTATTTCTAATTT
TATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATTTGGCTGAG
Found at i:252102 original size:26 final size:25
Alignment explanation
Indices: 251971--254285 Score: 2331
Period size: 25 Copynumber: 85.2 Consensus size: 25
251961 TAGATATGAT
*
251971 TATGGCCCTACTGAATATGCAATTA
1 TATGGCCCTACTGAATATGCAACTA
251996 TATGATTATGACCCTACTGAATATGCAACTATATGA
1 TATG-----G-CCCTACTGAATATGCAAC----T-A
*
252032 TTATGGCCTTACTGAATATGCAACTA
1 -TATGGCCCTACTGAATATGCAACTA
*
252058 TATGACCCTACTGAATATGCAACTA
1 TATGGCCCTACTGAATATGCAACTA
252083 TATGGCCCATACTGAATATGCAACTA
1 TATGGCCC-TACTGAATATGCAACTA
252109 TATGATTATGACCCTACTGAATATGCAACTA
1 TATG-----G-CCCTACTGAATATGCAACTA
252140 TATGGCCCCTACTGAATATGCAACTA
1 TATGG-CCCTACTGAATATGCAACTA
* * *
252166 TATGGCCCCTACTAAATATACTACTA
1 TATGG-CCCTACTGAATATGCAACTA
*
252192 TATGACCCTACTGAATATGCAACTA
1 TATGGCCCTACTGAATATGCAACTA
* *
252217 TATGACCCTACTAAATATGCAACTA
1 TATGGCCCTACTGAATATGCAACTA
252242 TATGATTATGACCCCTACTGAATATGCAACTA
1 TATG-----G--CCCTACTGAATATGCAACTA
252274 TATGGCCCCTACTGAATATGCAACTA
1 TATGG-CCCTACTGAATATGCAACTA
252300 TATGGCCCCTACTGAATATGCAACTA
1 TATGG-CCCTACTGAATATGCAACTA
252326 TATGGCCCCTACTGAATATGCAACTA
1 TATGG-CCCTACTGAATATGCAACTA
*
252352 TATGCCCCTACTGAATATGCAACTA
1 TATGGCCCTACTGAATATGCAACTA
* *
252377 TATGACCCTACTGAATATGCAGCTA
1 TATGGCCCTACTGAATATGCAACTA
* * *
252402 TATGATGCCCTACGGTATCTGCAACTA
1 TATG--GCCCTACTGAATATGCAACTA
252429 TATGGCCCCTACTGAATATGCAACTA
1 TATGG-CCCTACTGAATATGCAACTA
*
252455 TATGACCCTACTGAATATGCAACTA
1 TATGGCCCTACTGAATATGCAACTA
*
252480 TATGACCCTACTGAATATGCAACTATATGA
1 TATGGCCCTACTGAATATGCAAC----T-A
252510 TTATGGCCCTACTGAATATGCAACTATATGA
1 -TATGGCCCTACTGAATATGCAAC----T-A
252541 TTATGGCCCTACTGAATATGCAACTATATGA
1 -TATGGCCCTACTGAATATGCAAC----T-A
252572 TTATGGCCCTACTGAATATGCAACTATATGA
1 -TATGGCCCTACTGAATATGCAAC----T-A
252603 TTATGGCCCTACTGAATATGCAACTA
1 -TATGGCCCTACTGAATATGCAACTA
252629 TATGATTATGACCCTACTGAATATGCAACTA
1 TATG-----G-CCCTACTGAATATGCAACTA
252660 TATGGCCCCTACTGAATATGCAACTA
1 TATGG-CCCTACTGAATATGCAACTA
252686 TATGGCCCCTACTGAATATGCAACTA
1 TATGG-CCCTACTGAATATGCAACTA
* *
252712 TATGGCTTCTACTGAATATGCAACTT
1 TATGGC-CCTACTGAATATGCAACTA
*
252738 TATGACCCTACTGAATATGCAACTA
1 TATGGCCCTACTGAATATGCAACTA
252763 TATGATTATGACCCTACTGAATATGCAACTA
1 TATG-----G-CCCTACTGAATATGCAACTA
252794 TATGGCCCCTACTGAATATGCAACTA
1 TATGG-CCCTACTGAATATGCAACTA
*
252820 TATGACCCTACTGAATATGCAACTA
1 TATGGCCCTACTGAATATGCAACTA
*
252845 TATGGCCCCTACTGAATATGCAACTT
1 TATGG-CCCTACTGAATATGCAACTA
*
252871 TATGACCCTACTGAATATGCAACTA
1 TATGGCCCTACTGAATATGCAACTA
252896 TATGATTATGACCCTACTGAATATGCAACTA
1 TATG-----G-CCCTACTGAATATGCAACTA
252927 TATGATTATGACCCTACTGAATATGCAACTA
1 TATG-----G-CCCTACTGAATATGCAACTA
*
252958 TAT-GACCTACTGAATATGCAACTA
1 TATGGCCCTACTGAATATGCAACTA
252982 TATGGCCCTTACTGAATATGCAACTA
1 TATGGCCC-TACTGAATATGCAACTA
*
253008 TATGATTATGCCCTACTAAATATGCAACTA
1 TATG-----GCCCTACTGAATATGCAACTA
*
253038 TATGACCCTACTGAATATGCAACTA
1 TATGGCCCTACTGAATATGCAACTA
253063 TATGGCCCCTACTGAATATGCAACTA
1 TATGG-CCCTACTGAATATGCAACTA
253089 TATGGCCCCTACTGAATATGCAACTA
1 TATGG-CCCTACTGAATATGCAACTA
253115 TATGATTATGACCCTACTGAATATGCAACTA
1 TATG-----G-CCCTACTGAATATGCAACTA
*
253146 TATGATTATGACCCTACTAAATATGCAACTA
1 TATG-----G-CCCTACTGAATATGCAACTA
253177 TATGATTATGACCCTACTGAATATGCAACTA
1 TATG-----G-CCCTACTGAATATGCAACTA
*
253208 TATGACCCTACTGAATATGCAACTA
1 TATGGCCCTACTGAATATGCAACTA
253233 TATGGCCCCTACTGAATATGCAACTA
1 TATGG-CCCTACTGAATATGCAACTA
* *
253259 TAGGGCCCTACTGAATATGCAACTT
1 TATGGCCCTACTGAATATGCAACTA
253284 TATGGCCCTACTGAATATGCAACTA
1 TATGGCCCTACTGAATATGCAACTA
*
253309 TATGACCCTACTGAATATGCAACTA
1 TATGGCCCTACTGAATATGCAACTA
* *
253334 TATGACCCTACTGAATATGCAACTT
1 TATGGCCCTACTGAATATGCAACTA
253359 TATGGCCCCTACTGAATATGCAACTA
1 TATGG-CCCTACTGAATATGCAACTA
* * *
253385 TATGGCCCCTACTGAATATACAATTT
1 TATGG-CCCTACTGAATATGCAACTA
253411 TATGATGCCCTACTGAATATGCAACTA
1 TATG--GCCCTACTGAATATGCAACTA
253438 TATGATTATGACCCTACTGAATATGCAACTA
1 TATG-----G-CCCTACTGAATATGCAACTA
253469 TATGGCCCCTACTGAATATGCAACTA
1 TATGG-CCCTACTGAATATGCAACTA
*
253495 TATGACCCTACTGAATATGCAACTA
1 TATGGCCCTACTGAATATGCAACTA
*
253520 TAT-GACCTACTGAATATGCAACTA
1 TATGGCCCTACTGAATATGCAACTA
253544 TATGG-CCTACTGAATATGCAACTATATGA
1 TATGGCCCTACTGAATATGCAAC----T-A
253573 TTATGGCCCTACTGAATATGCAACTATATGA
1 -TATGGCCCTACTGAATATGCAAC----T-A
253604 TTATGGCCCTA-TGAATATGCAACTATATGA
1 -TATGGCCCTACTGAATATGCAAC----T-A
253634 TTATGGCCCTA-TGAATATGCAACTA
1 -TATGGCCCTACTGAATATGCAACTA
253659 TATGATTATGACCCTA-TGAATATGCAACTA
1 TATG-----G-CCCTACTGAATATGCAACTA
253689 TATGATTATGACCCTA-TGAATATGCAACTA
1 TATG-----G-CCCTACTGAATATGCAACTA
* **
253719 TATGACCCTACTGAATATGCGGCTA
1 TATGGCCCTACTGAATATGCAACTA
* *
253744 TATGATGCCCTACGGGATATGACAACTA
1 TATG--GCCCTACTGAATATG-CAACTA
253772 TATGGCCCCTACTGAATATGCAACTA
1 TATGG-CCCTACTGAATATGCAACTA
*
253798 TATGACCCTACTGAATATGCAACTA
1 TATGGCCCTACTGAATATGCAACTA
* *
253823 TATGACCCTACTGAATATGCAGCTA
1 TATGGCCCTACTGAATATGCAACTA
* * *
253848 TATGATGCCCTACGGTATCTGCAACTA
1 TATG--GCCCTACTGAATATGCAACTA
253875 TATGGCCCCTACTGAATATGCAACTA
1 TATGG-CCCTACTGAATATGCAACTA
*
253901 TATGACCCTACTGAATATGCAACTA
1 TATGGCCCTACTGAATATGCAACTA
* * *
253926 TATGACCCTGCTGAATATGCAGCTA
1 TATGGCCCTACTGAATATGCAACTA
253951 TATGATGCCCTACGTGATATGCAACTATGCAACTA
1 TATG--GCCCTAC------TG-AA-TATGCAACTA
*
253986 TATGGCCCCTACTGAATATGTAACTA
1 TATGGC-CCTACTGAATATGCAACTA
254012 TATGGCCCTACTGAATATGCAACTA
1 TATGGCCCTACTGAATATGCAACTA
*
254037 TATGGCCCTACTAAATATGCAACTA
1 TATGGCCCTACTGAATATGCAACTA
*
254062 TATGACCCTACTGAATATGCAACTA
1 TATGGCCCTACTGAATATGCAACTA
254087 TATGGCCCCTACTGAATATGCAACTA
1 TATGG-CCCTACTGAATATGCAACTA
254113 TATGGCCCCTACTGAATATGCAACTA
1 TATGG-CCCTACTGAATATGCAACTA
254139 TATGATTATGACCCTACTGAATATGCAACTA
1 TATG-----G-CCCTACTGAATATGCAACTA
254170 TATGATTATGACCCTACTGAATATGCAACTATATGA
1 TATG-----G-CCCTACTGAATATGCAAC----T-A
254206 TTATGGCCCTACTGAATATGCAACTA
1 -TATGGCCCTACTGAATATGCAACTA
254232 TATGGCCCTACTGAATATGCAACTA
1 TATGGCCCTACTGAATATGCAACTA
*
254257 TATGACCCTACTGAATATGCAACTA
1 TATGGCCCTACTGAATATGCAACTA
254282 TATG
1 TATG
254286 ATGTAGATGA
Statistics
Matches: 2063, Mismatches: 106, Indels: 242
0.86 0.04 0.10
Matches are distributed among these distances:
24 70 0.03
25 647 0.31
26 556 0.27
27 96 0.05
28 12 0.01
29 3 0.00
30 126 0.06
31 489 0.24
32 28 0.01
33 4 0.00
34 7 0.00
35 15 0.01
36 2 0.00
37 8 0.00
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (25 bp):
TATGGCCCTACTGAATATGCAACTA
Found at i:253124 original size:16 final size:16
Alignment explanation
Indices: 253101--253212 Score: 67
Period size: 16 Copynumber: 7.2 Consensus size: 16
253091 TGGCCCCTAC
253101 TGAATATGCAACTATA
1 TGAATATGCAACTATA
* * *
253117 TGATTATG-ACCCTA-C
1 TGAATATGCA-ACTATA
253132 TGAATATGCAACTATA
1 TGAATATGCAACTATA
* *
253148 TGATTATG-ACCCTACTA
1 TGAATATGCA-ACTA-TA
253165 --AATATGCAACTATA
1 TGAATATGCAACTATA
* * *
253179 TGATTATG-ACCCTA-C
1 TGAATATGCA-ACTATA
253194 TGAATATGCAACTATA
1 TGAATATGCAACTATA
253210 TGA
1 TGA
253213 CCCTACTGAA
Statistics
Matches: 69, Mismatches: 16, Indels: 22
0.64 0.15 0.21
Matches are distributed among these distances:
14 2 0.03
15 31 0.45
16 34 0.49
17 2 0.03
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (16 bp):
TGAATATGCAACTATA
Found at i:253615 original size:16 final size:16
Alignment explanation
Indices: 253565--253705 Score: 70
Period size: 16 Copynumber: 9.2 Consensus size: 16
253555 GAATATGCAA
253565 CTATATGATTATGGCC
1 CTATATGATTATGGCC
* * *
253581 CTA-CTGAATAT-GCAA
1 CTATATGATTATGGC-C
253596 CTATATGATTATGGCC
1 CTATATGATTATGGCC
* *
253612 C--TATGAATAT-GCAA
1 CTATATGATTATGGC-C
253626 CTATATGATTATGGCC
1 CTATATGATTATGGCC
* *
253642 C--TATGAATAT-GCAA
1 CTATATGATTATGGC-C
*
253656 CTATATGATTATGACC
1 CTATATGATTATGGCC
* *
253672 C--TATGAATAT-GCAA
1 CTATATGATTATGGC-C
*
253686 CTATATGATTATGACC
1 CTATATGATTATGGCC
253702 CTAT
1 CTAT
253706 GAATATGCAA
Statistics
Matches: 89, Mismatches: 21, Indels: 30
0.64 0.15 0.21
Matches are distributed among these distances:
13 5 0.06
14 29 0.33
15 9 0.10
16 40 0.45
17 6 0.07
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (16 bp):
CTATATGATTATGGCC
Found at i:254005 original size:34 final size:34
Alignment explanation
Indices: 253941--254012 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
253931 CCCTGCTGAA
*
253941 TATGCAGCTATATGATGCCCTACGTGATATGCAAC
1 TATGCAACTATATGA-GCCCTACGTGATATGCAAC
*
253976 TATGCAACTATATG-GCCCCTAC-TGAATATGTAAC
1 TATGCAACTATATGAG-CCCTACGTG-ATATGCAAC
254010 TAT
1 TAT
254013 ATGGCCCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
33 3 0.09
34 17 0.52
35 13 0.39
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (34 bp):
TATGCAACTATATGAGCCCTACGTGATATGCAAC
Found at i:254148 original size:16 final size:16
Alignment explanation
Indices: 254129--254210 Score: 64
Period size: 16 Copynumber: 5.2 Consensus size: 16
254119 CCCTACTGAA
254129 TATGCAACTATATGAT
1 TATGCAACTATATGAT
* * *
254145 TATG-ACCCTA-CTGAA
1 TATGCA-ACTATATGAT
254160 TATGCAACTATATGAT
1 TATGCAACTATATGAT
* * *
254176 TATG-ACCCTA-CTGAA
1 TATGCA-ACTATATGAT
254191 TATGCAACTATATGAT
1 TATGCAACTATATGAT
254207 TATG
1 TATG
254211 GCCCTACTGA
Statistics
Matches: 48, Mismatches: 12, Indels: 12
0.67 0.17 0.17
Matches are distributed among these distances:
15 22 0.46
16 26 0.54
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.34
Consensus pattern (16 bp):
TATGCAACTATATGAT
Found at i:254296 original size:34 final size:34
Alignment explanation
Indices: 254258--254323 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
254248 ATGCAACTAT
254258 ATGACCCTACTGAATATGCAACTATATGATGTAG
1 ATGACCCTACTGAATATGCAACTATATGATGTAG
*
254292 ATGACCCTACTGAATATGTAACTATATGATGT
1 ATGACCCTACTGAATATGCAACTATATGATGT
254324 CGTCGTGCCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (34 bp):
ATGACCCTACTGAATATGCAACTATATGATGTAG
Found at i:254413 original size:33 final size:33
Alignment explanation
Indices: 254329--254454 Score: 118
Period size: 33 Copynumber: 3.9 Consensus size: 33
254319 GATGTCGTCG
* *
254329 TGCCGATGACCTTACTGAATATGAATTAT---A
1 TGCCGATGACCCTACTAAATATGAATTATACGA
* * * *
254359 T-ACGAATGACGCTATTGAATATGAGA-TATACGA
1 TGCCG-ATGACCCTACTAAATATGA-ATTATACGA
*
254392 TGCTGATGACCCTACTAAATATGAATTATACGA
1 TGCCGATGACCCTACTAAATATGAATTATACGA
* *
254425 TGCCGATGACCCTACTGAATACGAATTATA
1 TGCCGATGACCCTACTAAATATGAATTATA
254455 TGATTATGGG
Statistics
Matches: 77, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
29 2 0.03
30 20 0.26
31 1 0.01
32 1 0.01
33 52 0.68
34 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (33 bp):
TGCCGATGACCCTACTAAATATGAATTATACGA
Found at i:254962 original size:10 final size:10
Alignment explanation
Indices: 254947--254974 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
254937 GCTTGATTGA
254947 AAAAAAAAAC
1 AAAAAAAAAC
254957 AAAAAAAAAC
1 AAAAAAAAAC
254967 AAAAAAAA
1 AAAAAAAA
254975 CATCAAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:264553 original size:325 final size:323
Alignment explanation
Indices: 263449--268894 Score: 5283
Period size: 325 Copynumber: 16.7 Consensus size: 323
263439 AACTGAACCG
* * *
263449 ATTTTTTTGCCATAATACTCAGAAGAAATATATAATTCAACGCCAAAAAGATTGATAGTCTTTTC
1 ATTTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATAGGCTTTTC
* *
263514 ACGCTTCTAATATAATTTTTTC-A-TTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGAT
66 ACGCTTCTAATATCATTTTTCCAATTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGAT
* * **
263577 TTAGATGCTCCTAAAAACAAATCCTTATATCCAATGTAGCTGACG-TTTGGTTCGAAAAATATAG
131 TTAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGA-GATTTGGTTCGATGAATATAG
** * * * ** * *
263641 ATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAG-TCGGGACTGCGAGACACGTTT
195 ATATTTCAAGGAGTCTTTATGCCAAAAATCATGCAAAACTGAGCT-GGGGCCCCGAAACGCGTTT
* ** * * * *
263705 TTAGCTAAAAACTATGATGGTTAGTACATGATTTTCGGCTAAAAACTTACCCAAAAAGTTTTTTC
259 TTAGCCAAAAACCGTGATGGTTAGTACACGA-TTTCGGCTAAAAACTGACCC--GAATTTTTTTC
263770 TCAA
321 TC-A
* * * * * * **
263774 ATTTTTTTGTCACAATACTCAAAAAAAATACATAATTCAACGCTAAAAAGTTTTATTTGCTTTTC
1 ATTTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATAGGCTTTTC
* * *
263839 ACGTTTCTAATAGCATTTTTCCAA-TTTTTTTCCGAATTAAATTCTAATTAAATCGAAACAAGAT
66 ACGCTTCTAATATCATTTTTCCAATTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGAT
* * * * * *
263903 TGAGATGCTCGAAAAAATAAATCCTTATATCCAATATGGCTGAGATTTAGTTCAAAT-AATATAG
131 TTAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTC-GATGAATATAG
* * ** * *
263967 ATATTTGAAGGAGTCTTTATGCCAAAAATCCCT-CAAAACTGAGCCAGGGCCCGGGAACGCGTTT
195 ATATTTCAAGGAGTCTTTATGCCAAAAAT-CATGCAAAACTGAGCTGGGGCCCCGAAACGCGTTT
* * * *
264031 TTAGCCATAAACCGTGA---TTAGTAAACGATTTCGAATAAAATTTTGC-AAAAACTAATCCAAA
259 TTAGCCAAAAACCGTGATGGTTAGTACACGATTTCG-----------GCTAAAAACTGA-CC--C
* * *
264092 AAAATTTTTCCTCA
310 GAATTTTTTTCTCA
* * ** *
264106 ATTTTTTT-CCACAATACCCAGAAAATATATATAATTCAAAACCAAAAAGATTGA-AGGATTTTT
1 ATTTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATAGG-CTTTT
* * * * * *
264169 CAAGCTTCTACTATCGTTTTT-CATATTTTTATTCCGAAATAATTTCTAATTAAATCGAAAAAAG
65 CACGCTTCTAATATCATTTTTCCA-ATTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAG
* ** * * *** * *
264233 ATTTAGATGCTCTTAAAAACAAATTGTTAAATCGAATGTCATTGGGATTTGGTTCGATGAATGTA
129 ATTTAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAATATA
*
264298 GATATTTCAAGGAGTCTTTATGCCAAAAATCATTCAAAACTGAGCTGGGGCCCCCGAAACGCGTT
194 GATATTTCAAGGAGTCTTTATGCCAAAAATCATGCAAAACTGAGCTGGGG-CCCCGAAACGCGTT
* * * *
264363 TTTAGCCCAAAAACCGTGATGATTAGTAAACGATTTCGGCTAAAAATTGACCCGATTTTTTTTCT
258 TTTAG-CCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAATTTTTTTCT
*
264428 GA
322 CA
* * * * ** *
264430 ATTTTTTTGTCACAATACTCAGAAAAAATATATAATTCAATGCCAAAAACACTGACGGGATTTTC
1 ATTTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATAGGCTTTTC
*
264495 ACGCTTCTAATATCATTTTTCCAATTTTTTTTCCGAATCAATTTCTAATTAAATCGAAACAAGAT
66 ACGCTTCTAATATCATTTTTCCAATTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGAT
* * * * * * *
264560 TCAGATACTCGTAAAAACAAATCCTTAAATCTAATGTGGTTGAGATTTGGTTTGATTAATATAGA
131 TTAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAATATAGA
*
264625 TATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGAG-TCGGGGCCCCCGAAACGCGTTT
196 TATTTCAAGGAGTCTTTATGCCAAAAATCATGCAAAACTGAGCT-GGGG-CCCCGAAACGCGTTT
* * ** * *
264689 TTAGCCCCAAAACCGTGATGATTAGTACACGATTTTAGCTAAAAACTGAACCGATTTTTTATTTC
259 TTAG-CCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGA-ATTTT-TTTC
*
264754 TGA
321 TCA
* * * * *
264757 A-TTTTTTGCCATAATATTCAG-AAGAA-ATAT-ATTCAACACCAAAAAGATTGATAGTCTTTTC
1 ATTTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATAGGCTTTTC
* * * *
264818 ACGCTTCGAATATCATTTTTTCATTTTTTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGAT
66 ACGCTTCTAATATCATTTTTCCAATTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGAT
* * * **
264883 TTAGATGCTCCTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTCCAAAAATATAGA
131 TTAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAATATAGA
** * * * * *** * *
264948 TATTTCAAGGAGTCTTTGCGCTAAAAGTCATGCAAAATTGAGCCGGGGTTGCGAGACACGTTTTT
196 TATTTCAAGGAGTCTTTATGCCAAAAATCATGCAAAACTGAGCTGGGGCCCCGAAACGCGTTTTT
** * * * *
265013 AGCTTAAAACCGTGATGGTTAGTACATGATTTTCGGCTAAAAACTGACCAGAAAAGTCTTTTCTC
261 AGCCAAAAACCGTGATGGTTAGTACACGA-TTTCGGCTAAAAACTGACCCG--AATTTTTTTCTC
265078 A
323 A
* * **
265079 A-TTTTTTGTCACAATACTCAGAAAAAATATATAATTCAACGCTAAAAAGATTG-TTTGCTTTTC
1 ATTTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATAGGCTTTTC
* * *
265142 ACGTTTCTAATATCATTTTTCCAATTTTTTTTCCG-A--AA----T-A--AATTCTAAACAAGAT
66 ACGCTTCTAATATCATTTTTCCAATTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGAT
* * * * * * * *
265197 TGAGATGCTCGAAAAAATAAATCTTTATATCCAATATGGCTGAGTTTTAGTTCAATGAATATAGA
131 TTAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAATATAGA
* * * * *
265262 TATTTCAAGGAGTCTTTATGCCAAAAATCCCT-CAAAACTGAG-TCAGGGCACGGGAACGCGTTT
196 TATTTCAAGGAGTCTTTATGCCAAAAAT-CATGCAAAACTGAGCT-GGGGCCCCGAAACGCGTTT
* * * **
265325 TTAGCCATAAACCGTG-T--TGAGTAAACGATTTCGAATAAAATTTTGC-AAAAACTGATCCAAA
259 TTAGCCAAAAACCGTGATGGTTAGTACACGATTTCG-----------GCTAAAAACTGA-CC-CG
* *
265386 AAATTTTTCCTCA
311 AATTTTTTTCTCA
* ** *
265399 ATTTTTTT-CCACAATACCCAGAAAAAATATATAATTCAAAACCAAAAAGATTGA-AGGGTTTTT
1 ATTTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATA-GGCTTTT
** * * * * * *
265462 CAAACTTCTACTATCCTTTTT-CAGATTTTTATTCCGAAATAATTTCTAATTAAATCGAAAAAAT
65 CACGCTTCTAATATCATTTTTCCA-ATTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAG
* ** * * * *** * *
265526 ATTTAGATGCTCTTAAAAACAAATTGTTAAATCAAATTTCATTGGGATTTGGTTCGATGAATGTA
129 ATTTAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAATATA
* *
265591 GATATTTCAAGGAGTCTTTATGCCAAAAATCATGCAAAACTAAGCTGAGGCCCCGAAACGCGTTT
194 GATATTTCAAGGAGTCTTTATGCCAAAAATCATGCAAAACTGAGCTGGGGCCCCGAAACGCGTTT
* * *
265656 TTAGCCCAAAAACCGTGATGGTGTTAGTACACGATTTCGGCTAAAAATTGACCAGATTTTTTTTT
259 TTAG-CCAAAAACCGTGAT-G-GTTAGTACACGATTTCGGCTAAAAACTGACCCGA-ATTTTTTT
*
265721 CTGA
320 CTCA
* * *
265725 AATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAATGCCAAAAAGATTGACT-GGATTTT
1 ATTTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGA-TAGGCTTTT
*
265789 CACGCTTCTAATATCATTTTTCCAA-TTTTTTTCCGAATCAATTTCTAATTAAATCGAAACAAGA
65 CACGCTTCTAATATCATTTTTCCAATTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGA
* * * * *
265853 TTCAGATGCTCGTAAAAACAAATCCTTAAATCTAATGTGGCTGAGATTTGGTTTGATTAATATAG
130 TTTAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAATATAG
* * * * *
265918 ATATTTCAAGGAGTCTTTTTGCAAAAAATAATGCAAAACTGAG-TCGTGGCCCCCGAAACGCATT
195 ATATTTCAAGGAGTCTTTATGCCAAAAATCATGCAAAACTGAGCT-G-GGGCCCCGAAACGCGTT
* * ** * *
265982 TTTAGCCCCAAAACCGTGATGATTAGTACACGATTTTAGCTAAAAACTGAACCGATTTTTTTTCT
258 TTTAG-CCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAATTTTTTTCT
*
266047 GA
322 CA
* * * * * *
266049 A-TTTTTTGCCATAATATTCAGAAGAAATATATAATTCAACACCAAAAACATTGATAGTCTTTTC
1 ATTTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATAGGCTTTTC
* *
266113 ACGCTTCGAATATCATTTTTTC-ATTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGAT
66 ACGCTTCTAATATCATTTTTCCAATTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGAT
* * *
266177 TTAGATGCTCCTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTCGA-AATATATAG
131 TTAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGA-ATATAG
** * * * * ** * *
266241 ATATTTCAAGGAGTCTTTGCGCTAACAATCATGCAAAATTGAGCCGGGGCTGCGAGACACGTTTT
195 ATATTTCAAGGAGTCTTTATGCCAAAAATCATGCAAAACTGAGCTGGGGCCCCGAAACGCGTTTT
* * * *
266306 TAGCTAAAAACCGTGATGGTTAGTACATGATTTTCGGCTAAAAACTGACCCGAAAAGTCTTTTCT
260 TAGCCAAAAACCGTGATGGTTAGTACACGA-TTTCGGCTAAAAACTGACCCG--AATTTTTTTCT
266371 CA
322 CA
* * **
266373 ATTTTTTTGTCACAATACTCAGAAAAAATATATAATTCAACGCTAAAAAGATTGATTTGCTTTTC
1 ATTTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATAGGCTTTTC
* *
266438 ACGTTTCTAATATCATTTTTCCAA-TTTTTTTCCGAATTAAATTCTAATTAAATCGAAACAAGAT
66 ACGCTTCTAATATCATTTTTCCAATTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGAT
* * * * * *
266502 TGAGATGCTCGAAAAAATAAATCCTTATATCCAATATGGCTGAGATTTAGTTCAATGAATATAGA
131 TTAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAATATAGA
* * ** * *
266567 TATTTCAAAGAGTCTTTATGCCAAAAATCCCT-CAAAACTGAGCCAGGGCCCGGGAACGCGTTTT
196 TATTTCAAGGAGTCTTTATGCCAAAAAT-CATGCAAAACTGAGCTGGGGCCCCGAAACGCGTTTT
* * ** * **
266631 TAGCCATAAACCGTGATGAG-TA-AACAATTTCGAATAAAATTTTGCAAAAAACTGATCCAAAAA
260 TAGCCAAAAACCGTGATG-GTTAGTAC-A---CG-AT----TTCGGCTAAAAACTGA-CC-CGAA
* *
266694 ATTTTTCCTCA
313 TTTTTTTCTCA
* ** * *
266705 ATTTTTTT-CCACAATACCCAGAAAAAATATATAATTCAAAACCAAAAATATTGA-AGGGTTTTT
1 ATTTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATA-GGCTTTT
* * * * *
266768 CAAGCTTCTACTATCATTTTT-CAGATTTTTATTCCGAAATAATTTCTAATTAAATCGAAAAAAG
65 CACGCTTCTAATATCATTTTTCCA-ATTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAG
* * ** * * *** * * *
266832 ATTTAGATGCTCTTCAAAACAAATTGTTAAATCAAATGTCATTGGGATTTGGTTCGATGATTGTA
129 ATTTAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAATATA
*
266897 GATATTTCAAGTAGTCTTTATGCCAAAAATCATGCAAAACTGAGCTGGGGCCCTCGAAACGCGTT
194 GATATTTCAAGGAGTCTTTATGCCAAAAATCATGCAAAACTGAGCTGGGGCCC-CGAAACGCGTT
* * * *
266962 TTTAGCCCAAAAACAGTGATGGTTAGTACAAGATTTCGGCTAAAAATTGACCCGATTTTTTTTCT
258 TTTAG-CCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAATTTTTTTCT
*
267027 GA
322 CA
* * ** *
267029 AGTTTTTTGCCACAATACTCAGAAAAAATATATAATTCAATGCCAAAAAGATTGACGGGATTTTC
1 ATTTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATAGGCTTTTC
* *
267094 ACGCATCTAATATCATTTTTCCAA--TTTTTTCCGAATCAATTTCTAATTAAATCGAAACAAGAT
66 ACGCTTCTAATATCATTTTTCCAATTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGAT
* * * * *
267157 TCAGATGCTCGTAAAAACAAATCCTTAAATCTAATGTGGCTGAGATTTGGTTTGATTAATATAGA
131 TTAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAATATAGA
* * * * *
267222 TATTTCAAGGAGTCTTTCTGCCAAAAATCATTCAAAACTGAGCCGTGGCCCCCGAAACACGTTTT
196 TATTTCAAGGAGTCTTTATGCCAAAAATCATGCAAAACTGAGCTG-GGGCCCCGAAACGCGTTTT
* ** *
267287 TAGCCCCAAAACC------G-T-GT--ACGATTTTAGCTAAAAACTGAACCGATATTTTTTTCCT
260 TAG-CCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGA-ATTTTTTT-CT
*
267342 GA
322 CA
* * * * *
267344 A-TTTTTTGCCATAATACTCAGGAGAAATATATAATTCAACGCCAAAAAGATTGATAGTCTTTTT
1 ATTTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATAGGCTTTTC
* *
267408 ACGCTTCTAATATCATTTTTTC-A-TTTTTTTCCGAATTAATTTCTAATTAAATTGAAACAAGAT
66 ACGCTTCTAATATCATTTTTCCAATTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGAT
* * * * *
267471 TTAGATGCTCCTAAAAACAAATCCTTATATCCAATGTGCCTGACATTTGGTTCGA-AAGATATAA
131 TTAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGA-ATATAG
* * * * *
267535 ATATTTCAATGAGTCTTTGA-GCTAAAAATCATGCAAAATATGAG-TCGGGGCTCCGGAACGCGG
195 ATATTTCAAGGAGTCTTT-ATGCCAAAAATCATGCAAAA-CTGAGCT-GGGGCCCCGAAACGC-G
* * *
267598 TTTTAAGCCAAAAACCGTGATGGTTAGTACATGATTTTCGGCTAAAAACTGACCCGAAAAGTTTT
256 TTTTTAGCCAAAAACCGTGATGGTTAGTACACGA-TTTCGGCTAAAAACTGACCCG--AATTTTT
267663 TTCTCA
318 TTCTCA
* *
267669 ATTTTTTTTGTCACAATACTCAGAAAAAATATATAATTCAACGCTAAAAAGATTGATAGGCTTTT
1 A-TTTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATAGGCTTTT
*
267734 CACGCTTCTAATATCATTTTTCCAATTTTTTTTCCGAATTAATTTCTAATTAAATTGAAACAAGA
65 CACGCTTCTAATATCATTTTTCCAATTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGA
* * * * * *
267799 TTGAGATGCTCGAAAAAATATATCCTTATATCCAATATGGTTGAGATTTGGTTAC-ATGAATATA
130 TTTAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTT-CGATGAATATA
* * * * * * * *
267863 GATATTTCAATGTGTCTTTACGTCAAAAATCTTGCAAAACTGAGCCGGGGCCCGGGAACGCGTTT
194 GATATTTCAAGGAGTCTTTATGCCAAAAATCATGCAAAACTGAGCTGGGGCCCCGAAACGCGTTT
* * ** *
267928 TTAGCCATAAACCGTGAT-G--AGTAAAACGATTTCGAATAAAAAATTGCAAAAACTAATCCGAA
259 TTAGCCAAAAACCGTGATGGTTAGT-ACACGATTTCGGCT-AAAAACTG-----AC----CCG-A
267990 ATTTTTTTCTCA
312 ATTTTTTTCTCA
* * * * *
268002 A-TTCTTTGCCACAATAC-CTAGAAAAAACATATAATAT-AACACCAAAAGGATTGA-AGGTTTT
1 ATTTTTTTGCCACAATACTC-AGAAAAAATATATAAT-TCAACGCCAAAAAGATTGATAGG-CTT
* ** * * *
268063 TTCAAGCTTCTAATATTGTTTTTCAAATTTTTATTCTGAATTAATTTCTAATTAAATCGAAA-AA
63 TTCACGCTTCTAATATCATTTTTCCAATTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAA
* ** * * * *
268127 GATTTAGATTCTCGTAAAAACAAATTGTTAAATCGAATGTGGCTGGGATTTGGTTCGATGAATGT
128 GATTTAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAATAT
* * * *
268192 AGATATTTCAAGGAGTCTTTCTGCCAAAAATCATACAAAATTGAACTGGGGCCCCCGAAACGCGT
193 AGATATTTCAAGGAGTCTTTATGCCAAAAATCATGCAAAACTGAGCTGGGG-CCCCGAAACGCGT
* ** * *
268257 TTTT-GCCCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAAATTTGACCCGATTTTTTTTT
257 TTTTAG-CCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAATTTTTTTC
268321 TCTA
321 TC-A
* ** *
268325 AATTTTTTGCCACAATACTCAGAATGAATATATAATTCAACGCCAAAAAGATTGACT-GGATTTT
1 ATTTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGA-TAGGCTTTT
* * *
268389 CACGCTTTTCTAATATCGTTTTT-C--TTTTTTTTCCCCGAATTTATATCTAATTAAATCGAAAC
65 CACGC--TTCTAATATCATTTTTCCAATTTTTTTT--CCGAATTAATTTCTAATTAAATCGAAAC
* * * *
268451 AAGATTCAGATGCTCGTAAAAACAAATTCTTATATCCAATGTGGCTAAGACTTGGTTCGATGAAT
126 AAGATTTAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAAT
* * * * * *
268516 ATAGATATTTGAAGGAGTCTTTCTGCCAAAACTCATTCAAAACTGAGTTGGGGCCCC-AGAACAC
191 ATAGATATTTCAAGGAGTCTTTATGCCAAAAATCATGCAAAACTGAGCTGGGGCCCCGA-AACGC
* * * * * *
268580 GTTTTTTGCCCAAAAACTGTGATGGTTAATACACGATTTCGGCTAAAAAAAGCTGAACGGAAAAA
255 GTTTTTAG-CCAAAAACCGTGATGGTTAGTACACGATTTCGGCT--AAAAA-CTGACCCG--AAT
**
268645 AATTTTCTCA
314 TTTTTTCTCA
* * ** *
268655 A-TTTTTTGCCACAATACTCATAAAAATTATATAATTCAACGTGAAAAAGATTGA-AGAGTTTTT
1 ATTTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATAG-GCTTTT
* * ** *
268718 CAAGCTTCTAATATCGTTTTT-CTTTTTTCTTTTCCGAATTAATTTCTAATTAAATCGAAACATG
65 CACGCTTCTAATATCATTTTTCCAATTTT-TTTTCCGAATTAATTTCTAATTAAATCGAAACAAG
* * * * * * *
268782 ATTTAGATGCTCGTAAAAACAAATACTTAAATCGAACGTGGCTGGGATTTTGTTCGATCAATATA
129 ATTTAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAATATA
* *
268847 GATATTTCAAGGAGTATTTACGCCAAAAATCATGCAAAACTGAGCTGG
194 GATATTTCAAGGAGTCTTTATGCCAAAAATCATGCAAAACTGAGCTGG
268895 TGCTAAAAAC
Statistics
Matches: 4211, Mismatches: 715, Indels: 387
0.79 0.13 0.07
Matches are distributed among these distances:
310 5 0.00
311 8 0.00
313 24 0.01
314 345 0.08
315 21 0.00
316 2 0.00
317 2 0.00
320 63 0.01
321 91 0.02
322 111 0.03
323 562 0.13
324 176 0.04
325 760 0.18
326 504 0.12
327 243 0.06
328 153 0.04
329 189 0.04
330 117 0.03
331 377 0.09
332 318 0.08
333 74 0.02
334 34 0.01
335 2 0.00
337 30 0.01
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (323 bp):
ATTTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATAGGCTTTTC
ACGCTTCTAATATCATTTTTCCAATTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGAT
TTAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAATATAGA
TATTTCAAGGAGTCTTTATGCCAAAAATCATGCAAAACTGAGCTGGGGCCCCGAAACGCGTTTTT
AGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAATTTTTTTCTCA
Found at i:269222 original size:15 final size:16
Alignment explanation
Indices: 269202--269238 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
269192 AAGTTTCATG
*
269202 ATTATAAATTATA-AT
1 ATTATAAATTAAATAT
269217 ATTAT-AATTAAATAT
1 ATTATAAATTAAATAT
269232 ATTATAA
1 ATTATAA
269239 TCGAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 6 0.32
15 12 0.63
16 1 0.05
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTATAAATTAAATAT
Found at i:269290 original size:99 final size:99
Alignment explanation
Indices: 269179--269378 Score: 400
Period size: 99 Copynumber: 2.0 Consensus size: 99
269169 TATCTTTACA
269179 TAATTAAAATAAAAAGTTTCATGATTATAAATTATAATATTATAATTAAATATATTATAATCGAA
1 TAATTAAAATAAAAAGTTTCATGATTATAAATTATAATATTATAATTAAATATATTATAATCGAA
269244 AAATAATTATTAGAAGTAAATTATTAATTGCATT
66 AAATAATTATTAGAAGTAAATTATTAATTGCATT
269278 TAATTAAAATAAAAAGTTTCATGATTATAAATTATAATATTATAATTAAATATATTATAATCGAA
1 TAATTAAAATAAAAAGTTTCATGATTATAAATTATAATATTATAATTAAATATATTATAATCGAA
269343 AAATAATTATTAGAAGTAAATTATTAATTGCATT
66 AAATAATTATTAGAAGTAAATTATTAATTGCATT
269377 TA
1 TA
269379 TAGTAGATTA
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 101 1.00
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.41
Consensus pattern (99 bp):
TAATTAAAATAAAAAGTTTCATGATTATAAATTATAATATTATAATTAAATATATTATAATCGAA
AAATAATTATTAGAAGTAAATTATTAATTGCATT
Found at i:269321 original size:15 final size:16
Alignment explanation
Indices: 269301--269337 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
269291 AAGTTTCATG
*
269301 ATTATAAATTATA-AT
1 ATTATAAATTAAATAT
269316 ATTAT-AATTAAATAT
1 ATTATAAATTAAATAT
269331 ATTATAA
1 ATTATAA
269338 TCGAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 6 0.32
15 12 0.63
16 1 0.05
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTATAAATTAAATAT
Found at i:269502 original size:28 final size:28
Alignment explanation
Indices: 269449--269506 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
269439 TTTTCATAAT
* *
269449 TAATAAAAAATTGAATCATCTCAAAAAA
1 TAATAAAAAATTAAATCATCTAAAAAAA
*
269477 TAATAAAAAAGTTAAATGAT-TAAAAAAA
1 TAATAAAAAA-TTAAATCATCTAAAAAAA
269505 TA
1 TA
269507 CTTATTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (28 bp):
TAATAAAAAATTAAATCATCTAAAAAAA
Found at i:269553 original size:13 final size:13
Alignment explanation
Indices: 269535--269561 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
269525 ATACTAAAGG
269535 TATTTATGAAATT
1 TATTTATGAAATT
269548 TATTTATGAAATT
1 TATTTATGAAATT
269561 T
1 T
269562 CTAGAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TATTTATGAAATT
Found at i:270281 original size:13 final size:13
Alignment explanation
Indices: 270263--270289 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
270253 ATTAAGAAGG
270263 AAAAAAAACAAAA
1 AAAAAAAACAAAA
270276 AAAAAAAACAAAA
1 AAAAAAAACAAAA
270289 A
1 A
270290 TTAATTTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAACAAAA
Found at i:283308 original size:15 final size:15
Alignment explanation
Indices: 283288--283317 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
283278 GAAGGGCAAA
283288 TCTTAAGTCACTTTT
1 TCTTAAGTCACTTTT
*
283303 TCTTAAGTCGCTTTT
1 TCTTAAGTCACTTTT
283318 CATAATAGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.20, G:0.10, T:0.53
Consensus pattern (15 bp):
TCTTAAGTCACTTTT
Found at i:298497 original size:13 final size:13
Alignment explanation
Indices: 298479--298513 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
298469 ACAAGTGGCA
298479 AACCACTTGAACC
1 AACCACTTGAACC
298492 AACCACTTGAACC
1 AACCACTTGAACC
298505 AACCACTTG
1 AACCACTTG
298514 TTATCTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.37, C:0.37, G:0.09, T:0.17
Consensus pattern (13 bp):
AACCACTTGAACC
Found at i:300130 original size:3 final size:3
Alignment explanation
Indices: 300122--300155 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
300112 GCAGTGAGAG
*
300122 GAT GAT GAT AAT GAT GAT GAT GAT GGAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT -GAT GAT GAT
300156 TACTCTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:303065 original size:42 final size:42
Alignment explanation
Indices: 303006--303089 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
302996 GGAACTTTCA
303006 CTTGCGGTTCAGGCCTAATATATACAGCCACAAAGCCCAACG
1 CTTGCGGTTCAGGCCTAATATATACAGCCACAAAGCCCAACG
303048 CTTGCGGTTCAGGCCTAATATATACAGCCACAAAGCCCAACG
1 CTTGCGGTTCAGGCCTAATATATACAGCCACAAAGCCCAACG
303090 GATCTCATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (42 bp):
CTTGCGGTTCAGGCCTAATATATACAGCCACAAAGCCCAACG
Found at i:308409 original size:21 final size:19
Alignment explanation
Indices: 308384--308441 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
308374 GCTGCTCTAA
*
308384 TAATCTCATTTGTATAGTACC
1 TAATCTCATTTGTACAGT--C
* * *
308405 TAATCTAATCTGTACAGTG
1 TAATCTCATTTGTACAGTC
308424 TAATCTCATTTGTACAGT
1 TAATCTCATTTGTACAGT
308442 TGCTAAACAG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
19 16 0.52
21 15 0.48
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.41
Consensus pattern (19 bp):
TAATCTCATTTGTACAGTC
Found at i:309358 original size:13 final size:13
Alignment explanation
Indices: 309340--309374 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
309330 ATCCTCCAAA
309340 TTGTCCCTTCAAT
1 TTGTCCCTTCAAT
*
309353 TTGTCCCTCCAAT
1 TTGTCCCTTCAAT
309366 TTGTCCCTT
1 TTGTCCCTT
309375 ATAATAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.11, C:0.34, G:0.09, T:0.46
Consensus pattern (13 bp):
TTGTCCCTTCAAT
Found at i:312066 original size:3 final size:3
Alignment explanation
Indices: 312060--312086 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
312050 CTTCTCCAAC
312060 TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT
312087 GTTTTATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:318710 original size:21 final size:21
Alignment explanation
Indices: 318684--318723 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
318674 CGCTGCTCTA
*
318684 ATAATCTCATCTGTACAGTAC
1 ATAATCTAATCTGTACAGTAC
*
318705 ATAATCTAATTTGTACAGT
1 ATAATCTAATCTGTACAGT
318724 GTAATTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (21 bp):
ATAATCTAATCTGTACAGTAC
Found at i:320392 original size:19 final size:19
Alignment explanation
Indices: 320368--320404 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
320358 CTGTTTAGCA
*
320368 ACTATACAGATGATATTAC
1 ACTATACAAATGATATTAC
*
320387 ACTATACAAATTATATTA
1 ACTATACAAATGATATTA
320405 TATACTGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.35
Consensus pattern (19 bp):
ACTATACAAATGATATTAC
Found at i:322719 original size:66 final size:66
Alignment explanation
Indices: 322613--322739 Score: 202
Period size: 66 Copynumber: 1.9 Consensus size: 66
322603 TTGTCGTTGT
322613 TGAGCTCAGAATGGAATCATCCAAGCTGAAGAGAGAGAAGGACTCGCAGATCTCGGACGAGCTCA
1 TGAGCTCAGAATGGAATCATCCAAGCTGAAGAGAGAGAAGGACTCGCAGATCTCGGACGAGCTCA
322678 A
66 A
** * *
322679 TGAGCTCAGAATGGAATCATCTGAGCTGAAGA-AGGCGAAGGACTCGCCGATCTCGGACGAG
1 TGAGCTCAGAATGGAATCATCCAAGCTGAAGAGA-GAGAAGGACTCGCAGATCTCGGACGAG
322740 TCCTATCGGC
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
65 1 0.02
66 55 0.98
ACGTcount: A:0.32, C:0.21, G:0.31, T:0.16
Consensus pattern (66 bp):
TGAGCTCAGAATGGAATCATCCAAGCTGAAGAGAGAGAAGGACTCGCAGATCTCGGACGAGCTCA
A
Found at i:327843 original size:66 final size:66
Alignment explanation
Indices: 327736--327862 Score: 193
Period size: 66 Copynumber: 1.9 Consensus size: 66
327726 TTGTGGTTGT
*
327736 TGAGCTCAGAATGGAATCATCCGAGCTGAAGGGAGGGAAGGACTCGCAGATCTCGGACGAGCTCA
1 TGAGCTCAGAATGGAATCATCCGAGCTGAAGGAAGGGAAGGACTCGCAGATCTCGGACGAGCTCA
327801 G
66 G
* * * *
327802 TGAGCTCAGAATGGAGTCATCCGAGCTGAA-GAAGGCTAAGGAGTCGCCGATCTCGGACGAG
1 TGAGCTCAGAATGGAATCATCCGAGCTGAAGGAAGG-GAAGGACTCGCAGATCTCGGACGAG
327863 TCCAATCGGC
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
65 4 0.07
66 51 0.93
ACGTcount: A:0.28, C:0.21, G:0.35, T:0.16
Consensus pattern (66 bp):
TGAGCTCAGAATGGAATCATCCGAGCTGAAGGAAGGGAAGGACTCGCAGATCTCGGACGAGCTCA
G
Found at i:341795 original size:13 final size:13
Alignment explanation
Indices: 341777--341801 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
341767 TCTGTTGATG
341777 CTCTGTTTTTTTC
1 CTCTGTTTTTTTC
341790 CTCTGTTTTTTT
1 CTCTGTTTTTTT
341802 TTTGATTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.20, G:0.08, T:0.72
Consensus pattern (13 bp):
CTCTGTTTTTTTC
Found at i:356009 original size:26 final size:26
Alignment explanation
Indices: 355968--356017 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
355958 CAAAGAAGAT
355968 CCAATTATTGGAGAATTACTGAAAAC
1 CCAATTATTGGAGAATTACTGAAAAC
*
355994 CCAATTACTTGG-GAATTATTGAAA
1 CCAATTA-TTGGAGAATTACTGAAA
356018 GAAGATCCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (26 bp):
CCAATTATTGGAGAATTACTGAAAAC
Found at i:358452 original size:650 final size:645
Alignment explanation
Indices: 356602--359741 Score: 2524
Period size: 649 Copynumber: 4.9 Consensus size: 645
356592 TTAACCTATT
* * * * *
356602 TAAAATTTTGCAAAAATTGACCCGAAACG-TTTTTCCAAAATTTTCAG-CCATTGTACTCATAAA
1 TAAAA-TTTGCAAAAATTGACCCGAAA-GATTTTTCCTAAATTTTTAGTACA--ATACTCATATA
* * * * * *
356665 AAATATATAATTCTA-TGCCAAGAAGAATGAAGAGCTTTTCAC-ACTTCTAATAATGTTTATCCA
62 AAATATATAATTCAACT-CCAAAAAGAATGAAGAGTTTTTTACGA---AT-ATCAT-TTT-TCCA
* * * * * *
356728 ATCTTATCTGAATTAATTTCTTATTAAATCGAAACATAATCCCGATGCTCGTAAAAACAAATCCT
120 ATTTTATCTGAATTAATTTCTGATTAAATCAAAACATGATTCAGATGCTCGTAAAAACAAATCCT
* * *
356793 TAAATCAAACATGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAATCTTGGCGCCAAA
185 TAAATCCAACATAGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCG-CAAA
* * * * *
356858 AATCATGCAAAACTGAA--CCGGAGCCTCAAAAACGCGTTTTTAGCCAAAAAAATGTAATGGTTA
249 AATCATGCAAAACT-AAGTCGGGA-CC-CCAGAACGCGTTTTTAG-CAAAAAACTGTGAT-GTTA
*
356921 GTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTAAATTTTTAGCCA
309 GTACACGATTTCGGCT-AAATTTTGC-AAAATTGACCCGAAAAATTTTTCCTAAATTTTTAGCCA
* *
356986 CAATACTCATTAAAAATATATAATTCAATGCTAAAAAGAATGAAGAGCTTTTCACGCTGCTCATA
372 CAATACTCA-TAAAAATATATAATTCAATGCTAAAAAGAATGAAGAGCTTTTCACGCTACTAATA
* * * *
357051 TCGTTTTTCCAATTTTATCTGAATTAATTTATGATTAAATTGAATCATGACTCAAATGCTTGTAA
436 TCGTTTTTCCAATTTTATCTGAA-TAATTTCTGATTAAATCGAAACATGACTTAAATGCTTGTAA
* * * * *
357116 AATCAAA-CCTTTAAATCCAAAGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGA
500 AAACAAATCC-TTAAATCCAATGTGGCTGAGATTTGGTTAAATGAATATAGATATTTCAAGGAGT
* *
357180 CATGGCGCC-AAAAT-ATGCAAAACTGAACCGG-GGCCCTGAAACACGTTTTTAGCAAAAAAC--
564 C-TGGCGCCAAAAATCATGCAAAACTG-A--GGAGG-CC-GAAACGCGTTTTTAGCCAAAAACTA
* *
357240 TGT--TT-GATACACGATTTCGGT
623 TGTGGTTAG-TACACTATTTCGGC
* * * * * * *
357261 TAAAATTTTGCAAAAATGGACCCGAAACATTTTTTTTTTCTAAATCTCTAGCCATAATACTCATA
1 TAAAA-TTTGCAAAAATTGACCCGAAAGA----TTTTTCCTAAATTTTTAG-TACAATACTCATA
* * * *
357326 AAAAATATATAATTCAACGCCAAAAAGAATGAAGAGTTCTTCAGGCTT-CTAATATCGTTTTTCC
60 TAAAATATATAATTCAACTCCAAAAAGAATGAAGAGTT-TT-----TTACGAATATCATTTTTCC
* * *
357390 AATTTTATCT--A--AA--T-TAATTAAATCGAAACATGACTT-AGATGCTCGTAAAAATAAATC
119 AATTTTATCTGAATTAATTTCTGATTAAATCAAAACATGA-TTCAGATGCTCGTAAAAACAAATC
* * ** * * * *
357447 GTTAAATGCAATGTGGCTGGGATTTTGTTAGATGAATAAAGATATTTCAAGGAGTCTTGGCGCAA
183 CTTAAATCCAACATAGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGC-A
* * * *
357512 AAAATAATGCAAAACTGAGTCGGGGA-ACCAGAACGCATTTTTAGCAAAAAACTGTGA---T-GT
247 AAAATCATGCAAAACTAAGTC-GGGACCCCAGAACGCGTTTTTAGCAAAAAACTGTGATGTTAGT
* * * * * * *
357572 ACACGATTTCGACAGAAATTTTGCGAAAAATGACGCGAAAAATTTATCCCAAATTTTTAGCAACA
311 ACACGATTTCGGC-TAAATTTTGC-AAAATTGACCCGAAAAATTTTTCCTAAATTTTTAGCCACA
* * * * **
357637 ATACTCATAAAAAATATATAGTTCAACT-CTAAAAAGAACGAAGAGTTTTTCACGTTTTTAATAT
374 ATACTCAT-AAAAATATATAATTCAA-TGCTAAAAAGAATGAAGAGCTTTTCACGCTACTAATAT
* ** ** * * *
357701 CATTTTTCCAATAATATCTGAAATAAAATCTGATTAAATCAAAACATGATTTAGATGCTTGTAAA
437 CGTTTTTCCAATTTTATCTG-AATAATTTCTGATTAAATCGAAACATGACTTAAATGCTTGTAAA
*
357766 AACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAAATGAATAAAGATATTTCAAGGAGTCT
501 AACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAAATGAATATAGATATTTCAAGGAGTC-
* * *
357831 TGGCGCCAAAAATCCTGCAAAACTG-GGAGGCCG-GACGCGATTTTAGCCAAAAACTATGATGGT
565 TGGCGCCAAAAATCATGCAAAACTGAGGAGGCCGAAACGCGTTTTTAGCCAAAAACTATG-TGGT
357894 TAGTACACTATTTCGGC
629 TAGTACACTATTTCGGC
* * **
357911 AAAAATTTGGCAAAAATTGACGCGAAAGATTTTTCCTAAATTTTTAGTGACAATGTTCATATAAA
1 TAAAATTT-GCAAAAATTGACCCGAAAGATTTTTCCTAAATTTTTAGT-ACAATACTCATATAAA
** * *
357976 ATATATAATTCAACTCCAAAAAGAACAAAAAGTTTTTTACGAATATCATTTTTCCAATTTTAACT
64 ATATATAATTCAACTCCAAAAAGAATGAAGAGTTTTTTACGAATATCATTTTTCCAATTTTATCT
*
358041 GAATTAATTTCTGATTAAATCAAAACATGATTTAGATGCTCGTAAAAACAAATCCTTAAATCCAA
129 GAATTAATTTCTGATTAAATCAAAACATGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAA
* * * * *
358106 CATATCTGAGATTTGGTTAGATGAATATAGATTTTTTAAGGAGTCTTGGTGACGAAAATCATGCA
194 CATAGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCG-CAAAAATCATGCA
* *
358171 AAACTAAGTCGGGACCCCAGAACGCGCTTTTAGTC-AAAAACTGTGATGTTTAGTACACAATTTC
258 AAACTAAGTCGGGACCCCAGAACGCGTTTTTAG-CAAAAAACTGTGATG-TTAGTACACGATTTC
** * ** *
358235 GGCTATTTTTTTCAAACATTGACCCGAAAGGTTTTTCCTAAATTGTTAGCCACAATACTCATAGA
321 GGCTAAATTTTGCAAA-ATTGACCCGAAAAATTTTTCCTAAATTTTTAGCCACAATACTCATA-A
* * *
358300 AAATATGTAATACAATGC-CAAAA-AATGAAGAGCTTTTCACGCTACTAATATCGTTTTTCCAAT
384 AAATATATAATTCAATGCTAAAAAGAATGAAGAGCTTTTCACGCTACTAATATCGTTTTTCCAAT
* * *
358363 TTTATCTGAATCAATTTCTGATAAAATCGAAACATGACTTAAATGCTCGTAAAACCAAATCCTTA
449 TTTATCTGAAT-AATTTCTGATTAAATCGAAACATGACTTAAATGCTTGTAAAAACAAATCCTTA
* * * *
358428 AATCCAATGTGACTGAGATTTGGTTACATAAATATAGATATTTCAAAGAGTCTGGCGCCAAAAAT
513 AATCCAATGTGGCTGAGATTTGGTTAAATGAATATAGATATTTCAAGGAGTCTGGCGCCAAAAAT
*
358493 CATGCAAAATTGAGTCGAGGCACGAAACGCGTTTTTAGCCAAAAACCATGATGGTTGGTTAGTAC
578 CATGCAAAACTGAG--GAGGC-CGAAACGCGTTTTTAGCCAAAAA-C-T-AT-G-TGGTTAGTAC
358558 A-TGATTTCGGC
635 ACT-ATTTCGGC
*
358569 TAAAATTATGCAAAAATTGACCCAAAAGATTTTTCCTAAA-TTTTAGCTACAATACTCAT-TAAA
1 TAAAATT-TGCAAAAATTGACCCGAAAGATTTTTCCTAAATTTTTAG-TACAATACTCATAT-AA
*
358632 AATTATATAATTCAACTCCAAAAAGAATGAAGAGTTTTTCACGTTTCTAATATCATTTTTCCAAT
63 AA-TATATAATTCAACTCCAAAAAGAATGAAGAGTTTTTTACG-----AATATCATTTTTCCAAT
*
358697 TTTATCTGAATCAATTTCTGATTAAATCAAAACATGATTCAGATGCTCGTAAAAACAAATCCTTA
122 TTTATCTGAATTAATTTCTGATTAAATCAAAACATGATTCAGATGCTCGTAAAAACAAATCCTTA
* ** * * ** * **
358762 TATCCAATGTACCTGAGATTTGGTTAGATGAATATAGATATTTTAAGGAGAGTTGACG-AGTAAT
187 AATCCAACATAGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCAAAAAT
* * ** * * **
358826 --T-TAACGTACATGATTTC-GG---CTA-AA----ATTTT-GC-AAAAA-T-TGA--TCCG-A-
252 CATGCAA--AAC-T-AAGTCGGGACCCCAGAACGCGTTTTTAGCAAAAAACTGTGATGTTAGTAC
* *** * * *
358871 AAGATTTTTCCTAAA-TTT------TT-ATCC-----A------C--AA-TATT-----C-AGA-
313 ACGATTTCGGCTAAATTTTGCAAAATTGACCCGAAAAATTTTTCCTAAATTTTTAGCCACAATAC
* * * * * * * * *
358907 --A-AAAATTACACAATTCAACGCCAAATAGAATGAAAAGCTTTTCACGCTTCTAATATAGTTTT
378 TCATAAAAATATATAATTCAATGCTAAAAAGAATGAAGAGCTTTTCACGCTACTAATATCGTTTT
* * * * * *
358969 TCCAATTTTATTTGAATAAATTTCTGATTAAATAGAAACATAATTTAGATGCTCGTAAAAACAAA
443 TCCAATTTTATCTGAAT-AATTTCTGATTAAATCGAAACATGACTTAAATGCTTGTAAAAACAAA
* * * * ** * *
359034 TCTTTAAATCCAATGTCGCTGAGATTTGGCTAAATGAATATGGATAGATCAATGAGTCTTGACGC
507 TCCTTAAATCCAATGTGGCTGAGATTTGGTTAAATGAATATAGATATTTCAAGGAGTC-TGGCGC
* * * *
359099 CAATAATCATGCAAAACTGAGCTGAGGCCGCGGAACGCGTTTTTAGCCAAAAAC--TGTGATAAC
571 CAAAAATCATGCAAAACTGAG--GAGG-C-CGAAACGCGTTTTTAGCCAAAAACTATGTGGTTA-
* *
359162 ATACACAATTTCGGC
631 GTACACTATTTCGGC
* * * * * *
359177 TAAAAGTTTGAAAAAAATTGATCCAAAATATTTCTCCTAAA--TTTAATCCACAATACTCATGA-
1 TAAAA-TTTG-CAAAAATTGACCCGAAAGATTTTTCCTAAATTTTTAGT--ACAATACTCAT-AT
* * * * *
359239 AAAGTATATAACTCAACGCCAAATAGAATGAAGA-TCTTTTTACGCTTCTAATATCGTTTTTCCA
61 AAAATATATAATTCAACTCCAAAAAGAATGAAGAGT-TTTTTACG-----AATATCATTTTTCCA
* *
359303 A-TTTATCTGAATTAATTTCTGATTAAATCGAAACATGACTCAGATGCTCGTAAAAACAAATCCT
120 ATTTTATCTGAATTAATTTCTGATTAAATCAAAACATGATTCAGATGCTCGTAAAAACAAATCCT
* * * * * * *
359367 TAAATCTAACGTTGCTGAAATTTGGTTAGATGAGTATAGATATTACAAGGAGTCTTGGTGCAAAA
185 TAAATCCAACATAGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCAAAA
* * ** *
359432 ATCATGCAAAACTGAGACGAGGA-CCTGGAACGCGTTTTTAGTC-AAAAACTGTGATTGTTAGTC
250 ATCATGCAAAACTAAGTCG-GGACCCCAGAACGCGTTTTTAG-CAAAAAACTGTGA-TGTTAGTA
* * ** * * *
359495 CACGATTCCGGTTGAAATTTTGCAAAAATTGATGCGAAAGATTTTTCCTAAGTTTTTAGCGACAA
312 CACGATTTCGGCT-AAATTTTGC-AAAATTGACCCGAAAAATTTTTCCTAAATTTTTAGCCACAA
* * * * ** * *
359560 TACTCATAAAAAAATATAATTCAACT-CCAAAAAGAACGAAGAGTTTTTCACATTTCTAATATCA
375 TACTCATAAAAATATATAATTCAA-TGCTAAAAAGAATGAAGAGCTTTTCACGCTACTAATATCG
* * *
359624 TTTTTCCAATTTTATCTGAATTAATTTTTGATTAAATCAAAACATGA-TTCAAATGCTTCTAAAA
439 TTTTTCCAATTTTATCTGAA-TAATTTCTGATTAAATCGAAACATGACTT-AAATGCTTGTAAAA
** * * * *
359688 ACAAATCCTTATGTCCAACGTGCCTGAGATTTGGTTAGATGAATATATATATTT
502 ACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAAATGAATATAGATATTT
359742 TTAGGATTTT
Statistics
Matches: 1994, Mismatches: 335, Indels: 304
0.76 0.13 0.12
Matches are distributed among these distances:
607 114 0.06
608 82 0.04
609 47 0.02
610 14 0.01
611 8 0.00
612 139 0.07
613 29 0.01
614 23 0.01
615 2 0.00
616 5 0.00
617 1 0.00
618 6 0.00
619 1 0.00
620 3 0.00
621 3 0.00
622 2 0.00
623 2 0.00
624 1 0.00
625 6 0.00
626 3 0.00
627 3 0.00
634 2 0.00
635 6 0.00
636 2 0.00
640 3 0.00
641 23 0.01
643 4 0.00
644 8 0.00
645 22 0.01
646 61 0.03
647 13 0.01
648 137 0.07
649 259 0.13
650 180 0.09
651 26 0.01
652 64 0.03
653 19 0.01
654 30 0.02
655 19 0.01
656 107 0.05
657 27 0.01
658 102 0.05
659 166 0.08
660 3 0.00
661 7 0.00
662 3 0.00
663 194 0.10
664 5 0.00
665 4 0.00
666 1 0.00
668 1 0.00
669 2 0.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (645 bp):
TAAAATTTGCAAAAATTGACCCGAAAGATTTTTCCTAAATTTTTAGTACAATACTCATATAAAAT
ATATAATTCAACTCCAAAAAGAATGAAGAGTTTTTTACGAATATCATTTTTCCAATTTTATCTGA
ATTAATTTCTGATTAAATCAAAACATGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAACA
TAGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCAAAAATCATGCAAAA
CTAAGTCGGGACCCCAGAACGCGTTTTTAGCAAAAAACTGTGATGTTAGTACACGATTTCGGCTA
AATTTTGCAAAATTGACCCGAAAAATTTTTCCTAAATTTTTAGCCACAATACTCATAAAAATATA
TAATTCAATGCTAAAAAGAATGAAGAGCTTTTCACGCTACTAATATCGTTTTTCCAATTTTATCT
GAATAATTTCTGATTAAATCGAAACATGACTTAAATGCTTGTAAAAACAAATCCTTAAATCCAAT
GTGGCTGAGATTTGGTTAAATGAATATAGATATTTCAAGGAGTCTGGCGCCAAAAATCATGCAAA
ACTGAGGAGGCCGAAACGCGTTTTTAGCCAAAAACTATGTGGTTAGTACACTATTTCGGC
Found at i:358615 original size:983 final size:974
Alignment explanation
Indices: 356602--358811 Score: 2513
Period size: 983 Copynumber: 2.2 Consensus size: 974
356592 TTAACCTATT
* * ***
356602 TAAAATTTTGCAAAAATTGACCCGAAACG-TTTTTCCAAAATTTTCAGCCATTGTACTCATAAAA
1 TAAAATTTTGCAAAAATTGACCC-AAAAGATTTTTCCAAAATTTT-AGCAACAATACTCATAAAA
* * * **
356666 AATATATAATTCTA-TGCCAAGAAGAATGAAGAGCTTTTCACACTTCTAATA--ATGTTTATCCA
64 AATATATAATTCAACT-CCAAAAAGAATGAAGAGTTTTTCACGTTTCTAATATCAT-TTT-TCCA
* * * * * * *
356728 ATCTTATCTGAATTAATTTCTTATTAAATCGAAACATAATCCCGATGCTCGTAAAAACAAATCCT
126 ATATTATCTGAAATAATTTCTGATTAAATCAAAACATGATTCAGATGCTCGTAAAAACAAATCCT
* ** *
356793 TAAATCAAACATGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAATCTTGGCGCCAAA
191 TAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAA
*
356858 AATCATGCAAAACTGAACCGGAGCCTCAAAAACGCGTTTTTAGCCAAAAAAATGTAATGGTTAGT
256 AATCATGCAAAACTG-A--GGAGCCTC-AAAACGCGATTTTAGCCAAAAAAATG-AATGGTTAGT
* * *
356923 ACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTAAATTTTTAGCCACA
316 ACACGATTTCGGCAAAAATTTGGCAAAAATTGACCCGAAAGATTTTTCCTAAATTTTTAGCCACA
* ** * *
356988 ATACTCATTAAAAATATATAATTCAATGCTAAAAAGAATGAAGAGCTTTTCACGCTGCTCATATC
381 ATACTCATTAAAAATATATAATTCAATGCCAAAAAGAACAAAAAGCTTTTCAC-CTGC-AATATC
* * ** * *
357053 GTTTTTCCAATTTTATCTGAATTAATTTATGATTAAATTGAATCATGACTCAAATGCTTGTAAAA
444 ATTTTTCCAATTTTAACTGAATTAATTTATGATTAAATCAAAACATGACTCAAATGCTCGTAAAA
* *
357118 TCAAACCTTTAAATCCAAAGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGACAT
509 ACAAACCTTTAAATCCAAAGTAGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGACAT
* * *
357183 GGCGCCAAAATATGCAAAACTGAACCGGGGCCCTGAAACACGTTTTTAGCAAAAAACTGTTTGAT
574 GGCGCCAAAATATGCAAAACTGAACCGGGCCCCAGAAACACGCTTTTAGCAAAAAACTGTTTGAT
* * ** *
357248 ACACGATTTCGGTTAAAATTTTGCAAAAATGGACCCGAAACATTTTTTTTTTCTAAATCTCTAGC
639 ACACAATTTCGGCTAAAATTTTGCAAAAATGGACCCGAAACA-TGGTTTTTCCTAAATCTCTAGC
* * * *
357313 CATAATACTCATAAAAAATATATAATTCAACGCCAAAAAGAATGAAGAGTTCTTCAGGCTTCTAA
703 CACAATACTCATAAAAAATATATAATACAACGCCAAAAAGAATGAAGAGTTCTTCACGCTACTAA
* * *
357378 TATCGTTTTTCCAATTTTATCTAAATTAATTAAATCGAAACATGACTTAGATGCTCGTAAAAATA
768 TATCGTTTTTCCAATTTTATCTAAATTAATAAAATCGAAACATGACTTAAATGCTCGTAAAAACA
* * * * * * * *
357443 AATCGTTAAATGCAATGTGGCTGGGATTTTGTTAGATGAATAAAGATATTTCAAGGAGTCTTGGC
833 AATCCTTAAATCCAATGTGACTGAGATTTGGTTACATAAATAAAGATATTTCAAAGAGTCTTGGC
* *
357508 GCAAAAAATAATGCAAAACTGAGTCGGGGAACCAGAACGCATTTTTAGCAAAAAACTGTGATGTA
898 GCAAAAAATAATGCAAAACTGAGTCGAGGAACCAGAACGCATTTTTAGCAAAAAAATGTGATGTA
357573 CACGATTTCGAC
963 CACGATTTCGAC
* * *
357585 -AGAAATTTTGCGAAAAA-TGACGCGAAAA-ATTTATCCCAAATTTTTAGCAACAATACTCATAA
1 TA-AAATTTTGC-AAAAATTGAC-CCAAAAGATTT-TTCCAAAATTTTAGCAACAATACTCATAA
* * * *
357647 AAAATATATAGTTCAACTCTAAAAAGAACGAAGAGTTTTTCACGTTTTTAATATCATTTTTCCAA
62 AAAATATATAATTCAACTCCAAAAAGAATGAAGAGTTTTTCACGTTTCTAATATCATTTTTCCAA
* ** * *
357712 TAATATCTGAAATAAAATCTGATTAAATCAAAACATGATTTAGATGCTTGTAAAAACAAATCCTT
127 TATTATCTGAAATAATTTCTGATTAAATCAAAACATGATTCAGATGCTCGTAAAAACAAATCCTT
* *
357777 AAATCCAATGTGGCTGAGATTTGGTTAAATGAATAAAGATATTTCAAGGAGTCTTGGCGCCAAAA
192 AAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAA
* * ** * *
357842 ATCCTGCAAAACTG-GGAGGC-C-GGACGCGATTTTAGCCAAAAACTATG-ATGGTTAGTACACT
257 ATCATGCAAAACTGAGGAGCCTCAAAACGCGATTTTAGCCAAAAA-AATGAATGGTTAGTACACG
* ** **
357903 ATTTCGGCAAAAATTTGGCAAAAATTGACGCGAAAGATTTTTCCTAAATTTTTAGTGACAATGTT
321 ATTTCGGCAAAAATTTGGCAAAAATTGACCCGAAAGATTTTTCCTAAATTTTTAGCCACAATACT
* *
357968 CA-TATAAAATATATAATTCAACT-CCAAAAAGAACAAAAAGTTTTTTA-C-G-AATATCATTTT
386 CATTA-AAAATATATAATTCAA-TGCCAAAAAGAACAAAAAGCTTTTCACCTGCAATATCATTTT
* * * *
358028 TCCAATTTTAACTGAATTAATTTCTGATTAAATCAAAACATGATTTAGATGCTCGTAAAAACAAA
449 TCCAATTTTAACTGAATTAATTTATGATTAAATCAAAACATGACTCAAATGCTCGTAAAAACAAA
* * * * * * *
358093 TCC-TTAAATCCAACA-TATCTGAGATTTGGTTAGATGAATATAGATTTTTTAAGGAGTCTTGGT
514 -CCTTTAAATCCAA-AGTAGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGACATGGC
* * *
358156 GACGAAAATCATGCAAAACT-AAGTCGGGACCCCAG-AACGCGCTTTTAGTC-AAAAACTGTGAT
577 G-CCAAAAT-ATGCAAAACTGAA-CCGGG-CCCCAGAAACACGCTTTTAG-CAAAAAAC--TG-T
* ** * * *
358218 GTTTAGTACACAATTTCGGCT-ATTTTTTTCAAACATTGACCCG-AA-A-GGTTTTTCCTAAAT-
634 -TTGA-TACACAATTTCGGCTAAAATTTTGCAAAAATGGACCCGAAACATGGTTTTTCCTAAATC
* * * *
358278 TGTTAGCCACAATACTCATAGAAAATATGTAATACAATGCC-AAAA-AATGAAGAGCTT-TTCAC
697 T-CTAGCCACAATACTCATAAAAAATATATAATACAACGCCAAAAAGAATGAAGAG-TTCTTCAC
*
358340 GCTACTAATATCGTTTTTCCAATTTTATCTGAATCAATTTCTGATAAAATCGAAACATGACTTAA
760 GCTACTAATATCGTTTTTCCAATTTTATCT--A--AA--T-TAATAAAATCGAAACATGACTTAA
* *
358405 ATGCTCGTAAAACCAAATCCTTAAATCCAATGTGACTGAGATTTGGTTACATAAATATAGATATT
818 ATGCTCGTAAAAACAAATCCTTAAATCCAATGTGACTGAGATTTGGTTACATAAATAAAGATATT
* * * * * *
358470 TCAAAGAGTC-TGGCGCCAAAAATCATGCAAAATTGAGTCGAGGCACGA-AACGCGTTTTTAGCC
883 TCAAAGAGTCTTGGCGCAAAAAATAATGCAAAACTGAGTCGAGGAACCAGAACGCATTTTTAG-C
* * *
358533 AAAAACCATGATGGTTGGTTAGTACATGATTTCGGC
947 AAAAA--A--AT-G-T-GAT-GTACACGATTTCGAC
* * *
358569 TAAAATTATGCAAAAATTGACCCAAAAGATTTTTCCTAAATTTTAGCTACAATACTCATTAAAAA
1 TAAAATTTTGCAAAAATTGACCCAAAAGATTTTTCCAAAATTTTAGCAACAATACTCA-TAAAAA
* *
358634 TTATATAATTCAACTCCAAAAAGAATGAAGAGTTTTTCACGTTTCTAATATCATTTTTCCAATTT
65 ATATATAATTCAACTCCAAAAAGAATGAAGAGTTTTTCACGTTTCTAATATCATTTTTCCAATAT
*
358699 TATCTG-AATCAATTTCTGATTAAATCAAAACATGATTCAGATGCTCGTAAAAACAAATCCTTAT
130 TATCTGAAAT-AATTTCTGATTAAATCAAAACATGATTCAGATGCTCGTAAAAACAAATCCTTAA
** *
358763 ATCCAATGTACCTGAGATTTGGTTAGATGAATATAGATATTTTAAGGAG
194 ATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAG
358812 AGTTGACGAG
Statistics
Matches: 1032, Mismatches: 149, Indels: 91
0.81 0.12 0.07
Matches are distributed among these distances:
970 157 0.15
971 18 0.02
972 77 0.07
973 6 0.01
974 7 0.01
975 121 0.12
976 78 0.08
977 101 0.10
978 2 0.00
979 5 0.00
980 1 0.00
981 1 0.00
982 2 0.00
983 241 0.23
984 212 0.21
985 3 0.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (974 bp):
TAAAATTTTGCAAAAATTGACCCAAAAGATTTTTCCAAAATTTTAGCAACAATACTCATAAAAAA
TATATAATTCAACTCCAAAAAGAATGAAGAGTTTTTCACGTTTCTAATATCATTTTTCCAATATT
ATCTGAAATAATTTCTGATTAAATCAAAACATGATTCAGATGCTCGTAAAAACAAATCCTTAAAT
CCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCA
TGCAAAACTGAGGAGCCTCAAAACGCGATTTTAGCCAAAAAAATGAATGGTTAGTACACGATTTC
GGCAAAAATTTGGCAAAAATTGACCCGAAAGATTTTTCCTAAATTTTTAGCCACAATACTCATTA
AAAATATATAATTCAATGCCAAAAAGAACAAAAAGCTTTTCACCTGCAATATCATTTTTCCAATT
TTAACTGAATTAATTTATGATTAAATCAAAACATGACTCAAATGCTCGTAAAAACAAACCTTTAA
ATCCAAAGTAGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGACATGGCGCCAAAATA
TGCAAAACTGAACCGGGCCCCAGAAACACGCTTTTAGCAAAAAACTGTTTGATACACAATTTCGG
CTAAAATTTTGCAAAAATGGACCCGAAACATGGTTTTTCCTAAATCTCTAGCCACAATACTCATA
AAAAATATATAATACAACGCCAAAAAGAATGAAGAGTTCTTCACGCTACTAATATCGTTTTTCCA
ATTTTATCTAAATTAATAAAATCGAAACATGACTTAAATGCTCGTAAAAACAAATCCTTAAATCC
AATGTGACTGAGATTTGGTTACATAAATAAAGATATTTCAAAGAGTCTTGGCGCAAAAAATAATG
CAAAACTGAGTCGAGGAACCAGAACGCATTTTTAGCAAAAAAATGTGATGTACACGATTTCGAC
Found at i:358732 original size:334 final size:329
Alignment explanation
Indices: 356602--359822 Score: 2534
Period size: 329 Copynumber: 10.0 Consensus size: 329
356592 TTAACCTATT
* * ***
356602 TAAAATTTTGCAAAAATTGACCCGAAACG-TTTTTCCAAAATTTTCAGCCATTGTACTCATAAAA
1 TAAAATTTTGCAAAAATTGACCC-AAAAGATTTTTCCTAAATTTT-AGCCACAATACTCAT-AAA
* * * *
356666 AATATATAATTCTA-TGCCAAGAAGAATGAAGAGCTTTTCACACTTCTAATA--ATGTTTATCCA
63 AATATATAATTCAACT-CCAAAAAGAATGAAGAGTTTTTCACGCTTCTAATATCAT-TTT-TCCA
* * * **
356728 ATCTTATCTGAATTAATTTCTTATTAAATCGAAACAT-AATCCCGATGCTCGTAAAAACAAATCC
125 ATTTTATCTGAATTAATTTCTGATTAAATCGAAACATGACT-TAGATGCTCGTAAAAACAAATCC
* ** *
356792 TTAAATCAAACATGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAATCTTGGCGCCAA
189 TTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAA
** * * * * *
356857 AAATCATGCAAAACTGAACCGGAGCCTCAAAAACGCGTTTTTAGCCAAAAAAATGTAATGGTTAG
254 AAATCATGCAAAACTGAGTC-GAGGCAC-GAAACGCGTTTTTAGCC-AAAAACTGTGATGGTTAG
356922 TACACGATTTCGGC
316 TACACGATTTCGGC
* *
356936 TAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTAAATTTTTAGCCACAATACTCATTAAAA
1 TAAAATTTTGCAAAAATTGACCCAAAAGATTTTTCCTAAA-TTTTAGCCACAATACTCA-TAAAA
* * * * *
357001 ATATATAATTCAA-TGCTAAAAAGAATGAAGAGCTTTTCACGCTGCTCATATCGTTTTTCCAATT
64 ATATATAATTCAACT-CCAAAAAGAATGAAGAGTTTTTCACGCTTCTAATATCATTTTTCCAATT
* * * * * * *
357065 TTATCTGAATTAATTTATGATTAAATTGAATCATGACTCAAATGCTTGTAAAATCAAA-CCTTTA
128 TTATCTGAATTAATTTCTGATTAAATCGAAACATGACTTAGATGCTCGTAAAAACAAATCC-TTA
* * * *
357129 AATCCAAAGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGACATGGCGCC-AAAA
192 AATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAA
** * * * * *
357193 T-ATGCAAAACTGAACCGGGGCCCTGAAACACGTTTTTAGCAAAAAACTGT--T--TGA-TACAC
257 TCATGCAAAACTGAGTCGAGGCAC-GAAACGCGTTTTTAGCCAAAAACTGTGATGGTTAGTACAC
*
357252 GATTTCGGT
321 GATTTCGGC
* ** * * *
357261 TAAAATTTTGCAAAAATGGACCCGAAACATTTTTTTTTTCTAAATCTCTAGCCATAATACTCATA
1 TAAAATTTTGCAAAAATTGACCC-AAA-A--GATTTTTCCTAAAT-TTTAGCCACAATACTCAT-
* * * *
357326 AAAAATATATAATTCAACGCCAAAAAGAATGAAGAGTTCTTCAGGCTTCTAATATCGTTTTTCCA
60 AAAAATATATAATTCAACTCCAAAAAGAATGAAGAGTTTTTCACGCTTCTAATATCATTTTTCCA
* * *
357391 ATTTTATCT--A--AA--T-TAATTAAATCGAAACATGACTTAGATGCTCGTAAAAATAAATCGT
125 ATTTTATCTGAATTAATTTCTGATTAAATCGAAACATGACTTAGATGCTCGTAAAAACAAATCCT
* * * * *
357449 TAAATGCAATGTGGCTGGGATTTTGTTAGATGAATAAAGATATTTCAAGGAGTCTTGGCGCAAAA
190 TAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAA
* * * * * *
357514 AATAATGCAAAACTGAGTCGGGGAACCAGAACGCATTTTTAGCAAAAAACTGTGA----T-GTAC
255 AATCATGCAAAACTGAGTCGAGGCACGA-AACGCGTTTTTAGCCAAAAACTGTGATGGTTAGTAC
*
357574 ACGATTTCGAC
319 ACGATTTCGGC
* * * *
357585 -AGAAATTTTGCGAAAAA-TGACGCGAAAA-ATTTATCCCAAATTTTTAGCAACAATACTCATAA
1 TA-AAATTTTGC-AAAAATTGAC-CCAAAAGATTTTTCCTAAA-TTTTAGCCACAATACTCAT-A
* * * * *
357647 AAAATATATAGTTCAACTCTAAAAAGAACGAAGAGTTTTTCACGTTTTTAATATCATTTTTCCAA
61 AAAATATATAATTCAACTCCAAAAAGAATGAAGAGTTTTTCACGCTTCTAATATCATTTTTCCAA
** * ** * * *
357712 TAATATCTGAAATAAAATCTGATTAAATCAAAACATGATTTAGATGCTTGTAAAAACAAATCCTT
126 TTTTATCTGAATTAATTTCTGATTAAATCGAAACATGACTTAGATGCTCGTAAAAACAAATCCTT
* *
357777 AAATCCAATGTGGCTGAGATTTGGTTAAATGAATAAAGATATTTCAAGGAGTCTTGGCGCCAAAA
191 AAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAA
* * * *
357842 ATCCTGCAAAACTG-G--GAGGC-CG-GACGCGATTTTAGCCAAAAACTATGATGGTTAGTACAC
256 ATCATGCAAAACTGAGTCGAGGCACGAAACGCGTTTTTAGCCAAAAACTGTGATGGTTAGTACAC
*
357902 TATTTCGGC
321 GATTTCGGC
* * * * ** **
357911 AAAAATTTGGCAAAAATTGACGCGAAAGATTTTTCCTAAATTTTTAGTGACAATGTTCATATAAA
1 TAAAATTTTGCAAAAATTGACCCAAAAGATTTTTCCTAAA-TTTTAGCCACAATACTCATA-AAA
** * *
357976 ATATATAATTCAACTCCAAAAAGAACAAAAAGTTTTTTACG-----AATATCATTTTTCCAATTT
64 ATATATAATTCAACTCCAAAAAGAATGAAGAGTTTTTCACGCTTCTAATATCATTTTTCCAATTT
* * *
358036 TAACTGAATTAATTTCTGATTAAATCAAAACATGATTTAGATGCTCGTAAAAACAAATCCTTAAA
129 TATCTGAATTAATTTCTGATTAAATCGAAACATGACTTAGATGCTCGTAAAAACAAATCCTTAAA
** ** * * * * *
358101 TCCAACATATCTGAGATTTGGTTAGATGAATATAGATTTTTTAAGGAGTCTTGGTGACGAAAATC
194 TCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATC
* * * * * * *
358166 ATGCAAAACTAAGTCG-GGACCCCAGAACGCGCTTTTAGTCAAAAACTGTGATGTTTAGTACACA
259 ATGCAAAACTGAGTCGAGG-CACGA-AACGCGTTTTTAGCCAAAAACTGTGATGGTTAGTACACG
358230 ATTTCGGC
322 ATTTCGGC
** * * * *
358238 T-ATTTTTTTCAAACATTGACCCGAAAGGTTTTTCCTAAATTGTTAGCCACAATACTCATAGAAA
1 TAAAATTTTGCAAAAATTGACCCAAAAGATTTTTCCTAAATT-TTAGCCACAATACTCATA-AAA
* * * * *
358302 ATATGTAATACAA-TGCC-AAAA-AATGAAGAGCTTTTCACGCTACTAATATCGTTTTTCCAATT
64 ATATATAATTCAACT-CCAAAAAGAATGAAGAGTTTTTCACGCTTCTAATATCATTTTTCCAATT
* * * *
358364 TTATCTGAATCAATTTCTGATAAAATCGAAACATGACTTAAATGCTCGTAAAACCAAATCCTTAA
128 TTATCTGAATTAATTTCTGATTAAATCGAAACATGACTTAGATGCTCGTAAAAACAAATCCTTAA
* * * *
358429 ATCCAATGTGACTGAGATTTGGTTACATAAATATAGATATTTCAAAGAGTC-TGGCGCCAAAAAT
193 ATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAAT
* *
358493 CATGCAAAATTGAGTCGAGGCACGAAACGCGTTTTTAGCCAAAAACCATGATGGTTGGTTAGTAC
258 CATGCAAAACTGAGTCGAGGCACGAAACGCGTTTTTAGCCAAAAA-C-TG-T-GATGGTTAGTAC
*
358558 ATGATTTCGGC
319 ACGATTTCGGC
* *
358569 TAAAATTATGCAAAAATTGACCCAAAAGATTTTTCCTAAATTTTAGCTACAATACTCATTAAAAA
1 TAAAATTTTGCAAAAATTGACCCAAAAGATTTTTCCTAAATTTTAGCCACAATACTCA-TAAAAA
*
358634 TTATATAATTCAACTCCAAAAAGAATGAAGAGTTTTTCACGTTTCTAATATCATTTTTCCAATTT
65 -TATATAATTCAACTCCAAAAAGAATGAAGAGTTTTTCACGCTTCTAATATCATTTTTCCAATTT
* * *
358699 TATCTGAATCAATTTCTGATTAAATCAAAACATGA-TTCAGATGCTCGTAAAAACAAATCCTTAT
129 TATCTGAATTAATTTCTGATTAAATCGAAACATGACTT-AGATGCTCGTAAAAACAAATCCTTAA
** * ** * *** **
358763 ATCCAATGTACCTGAGATTTGGTTAGATGAATATAGATATTTTAAGGAGAGTTGACGAGTAATTT
193 ATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAAT
* * * * * *
358828 AACG-TACA-TGATTTC--GGCTA--AAA-----TTTT-G-CAAAAA-T-TGATCCG--A--A-A
258 CATGCAAAACTGA-GTCGAGGC-ACGAAACGCGTTTTTAGCCAAAAACTGTGAT-GGTTAGTACA
***
358873 -GATTTTTCC
320 CGATTTCGGC
* * * ** * * ** ** *
358882 TAAATTTTTATCCACAATATT--CAGAAAA-A--ATTAC-ACAATTCAACGCCA-AATA-GAATG
1 TAAA-ATTT-TGCA-AAAATTGACCCAAAAGATTTTTCCTA-AATTTTA-GCCACAATACTCATA
** * * * * *
358939 AAAAGCT-T--TTCACGCTTC-----TAAT--ATAGTTTTT----C--C-AAT-T--TTATTT-G
61 AAAATATATAATTCA-ACTCCAAAAAGAATGAAGAGTTTTTCACGCTTCTAATATCATT-TTTCC
* * * * * * *
358983 AA---TA---AATTTC-----TGATTAAATAGAAACATAATTTAGATGCTCGTAAAAACAAATCT
124 AATTTTATCTGAATTAATTTCTGATTAAATCGAAACATGACTTAGATGCTCGTAAAAACAAATCC
* * * * ** * *
359037 TTAAATCCAATGTCGCTGAGATTTGGCTAAATGAATATGGATAGATCAATGAGTCTTGACGCCAA
189 TTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAA
* * * ***
359102 TAATCATGCAAAACTGAG-CTGAGGCCGCGGAACGCGTTTTTAGCCAAAAACTGTGAT-AACA-T
254 AAATCATGCAAAACTGAGTC-GAGG-CACGAAACGCGTTTTTAGCCAAAAACTGTGATGGTTAGT
*
359164 ACACAATTTCGGC
317 ACACGATTTCGGC
* * * * * * *
359177 TAAAAGTTTGAAAAAAATTGATCCAAAATATTTCTCCTAAATTTAATCCACAATACTCATGAAAA
1 TAAAATTTTG-CAAAAATTGACCCAAAAGATTTTTCCTAAATTTTAGCCACAATACTCAT-AAAA
* * * * * *
359242 GTATATAACTCAACGCCAAATAGAATGAAGA-TCTTTTTACGCTTCTAATATCGTTTTTCCAA-T
64 ATATATAATTCAACTCCAAAAAGAATGAAGAGT-TTTTCACGCTTCTAATATCATTTTTCCAATT
*
359305 TTATCTGAATTAATTTCTGATTAAATCGAAACATGACTCAGATGCTCGTAAAAACAAATCCTTAA
128 TTATCTGAATTAATTTCTGATTAAATCGAAACATGACTTAGATGCTCGTAAAAACAAATCCTTAA
* * * * * * *
359370 ATCTAACGTTGCTGAAATTTGGTTAGATGAGTATAGATATTACAAGGAGTCTTGGTG-CAAAAAT
193 ATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAAT
* * * * *
359434 CATGCAAAACTGAGACGAGG-ACCTGGAACGCGTTTTTAGTCAAAAACTGTGATTGTTAGTCCAC
258 CATGCAAAACTGAGTCGAGGCA-C-GAAACGCGTTTTTAGCCAAAAACTGTGATGGTTAGTACAC
* *
359498 GATTCCGGT
321 GATTTCGGC
* ** * * *
359507 TGAAATTTTGCAAAAATTGATGCGAAAGATTTTTCCTAAGTTTTTAGCGACAATACTCATAAAAA
1 TAAAATTTTGCAAAAATTGACCCAAAAGATTTTTCCTAA-ATTTTAGCCACAATACTCATAAAAA
* * **
359572 AATATAATTCAACTCCAAAAAGAACGAAGAGTTTTTCACATTTCTAATATCATTTTTCCAATTTT
65 TATATAATTCAACTCCAAAAAGAATGAAGAGTTTTTCACGCTTCTAATATCATTTTTCCAATTTT
* * * *
359637 ATCTGAATTAATTTTTGATTAAATCAAAACATGA-TTCAAATGCTTC-TAAAAACAAATCCTTAT
130 ATCTGAATTAATTTCTGATTAAATCGAAACATGACTT-AGATGC-TCGTAAAAACAAATCCTTAA
* * * * ** * * *** * *
359700 GTCCAACGTGCCTGAGATTTGGTTAGATGAATATATATATTTTTAGGATTTTTTATGCTAAAATT
193 ATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAAT
* * * * * * *
359765 CATGCAAAACTGAGCCGGGGCCCCAGAATGCGTTTTTAGCAAAAAACTGTGATAGTTA
258 CATGCAAAACTGAGTCGAGGCACGA-AACGCGTTTTTAGCCAAAAACTGTGATGGTTA
359823 TTCAATTTTT
Statistics
Matches: 2302, Mismatches: 429, Indels: 315
0.76 0.14 0.10
Matches are distributed among these distances:
278 91 0.04
279 4 0.00
280 3 0.00
281 2 0.00
282 1 0.00
283 4 0.00
286 2 0.00
288 4 0.00
289 5 0.00
290 9 0.00
291 2 0.00
292 8 0.00
293 8 0.00
294 4 0.00
295 13 0.01
296 1 0.00
297 3 0.00
298 12 0.01
299 11 0.00
300 4 0.00
301 4 0.00
302 2 0.00
303 3 0.00
305 4 0.00
306 3 0.00
307 4 0.00
308 2 0.00
309 11 0.00
310 2 0.00
311 12 0.01
312 3 0.00
313 12 0.01
314 8 0.00
315 5 0.00
316 8 0.00
317 2 0.00
318 5 0.00
319 6 0.00
320 87 0.04
321 165 0.07
322 89 0.04
323 13 0.01
324 96 0.04
325 62 0.03
326 161 0.07
327 175 0.08
328 84 0.04
329 380 0.17
330 143 0.06
331 114 0.05
332 65 0.03
333 20 0.01
334 341 0.15
335 19 0.01
336 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.32
Consensus pattern (329 bp):
TAAAATTTTGCAAAAATTGACCCAAAAGATTTTTCCTAAATTTTAGCCACAATACTCATAAAAAT
ATATAATTCAACTCCAAAAAGAATGAAGAGTTTTTCACGCTTCTAATATCATTTTTCCAATTTTA
TCTGAATTAATTTCTGATTAAATCGAAACATGACTTAGATGCTCGTAAAAACAAATCCTTAAATC
CAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCAT
GCAAAACTGAGTCGAGGCACGAAACGCGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTT
CGGC
Found at i:359524 original size:329 final size:326
Alignment explanation
Indices: 358842--359823 Score: 1071
Period size: 330 Copynumber: 3.0 Consensus size: 326
358832 TACATGATTT
*
358842 CGGCTAAAATTTTGCAAAAATTGATCCGAAAGATTTTTCCTAAATTTTTATCCACAATATTCA-G
1 CGGCTAAAATTTTGCAAAAATTGATCCGAAAGATTTTTCCTAAA-TTTTATCCACAATACTCATG
* * * * *
358906 AAAAAATTACACAATTCAACGCCAAATAGAATGAAAAGCTTTTCACGCTTCTAATATAGTTTTTC
65 -AAAAA-TATATAATTCAACGCCAAATAGAATGAAGATCTTTTCACGCTTCTAATATCGTTTTTC
* * * * *
358971 CAATTTTATTTGAATAAATTTCTGATTAAATAGAAACATAATTTAGATGCTCGTAAAAACAAATC
128 CAATTTTATCTGAATTAATTTCTGATTAAATCGAAACATGATTCAGATGCTCGTAAAAACAAATC
* * * * * * * * *
359036 TTTAAATCCAATGTCGCTGAGATTTGGCTAAATGAATATGGATA-GATCAATGAGTCTTGACGCC
193 CTTAAATCCAACGTTGCTGAGATTTGGTTAGATGAATATAGATATTA-CAAGGAGTCTTGATG-C
* ***
359100 AATAATCATGCAAAACTGAGCTGAGGCCGCGGAACGCGTTTTTAGCCAAAAACTGTGA-TAACAT
256 AAAAATCATGCAAAACTGAGC-GAGGCC-CGGAACGCGTTTTTAG-CAAAAACTGTGATTGTTAT
*
359164 ACACAATTT
318 ACACAATTC
* * * * * *
359173 CGGCTAAAAGTTTGAAAAAAATTGATCCAAAATATTTCTCCTAAATTTAATCCACAATACTCATG
1 CGGCTAAAATTTTG-CAAAAATTGATCCGAAAGATTTTTCCTAAATTTTATCCACAATACTCATG
* * *
359238 AAAAGTATATAACTCAACGCCAAATAGAATGAAGATCTTTTTACGCTTCTAATATCGTTTTTCCA
65 AAAAATATATAATTCAACGCCAAATAGAATGAAGATCTTTTCACGCTTCTAATATCGTTTTTCCA
*
359303 A-TTTATCTGAATTAATTTCTGATTAAATCGAAACATGACTCAGATGCTCGTAAAAACAAATCCT
130 ATTTTATCTGAATTAATTTCTGATTAAATCGAAACATGATTCAGATGCTCGTAAAAACAAATCCT
* * * *
359367 TAAATCTAACGTTGCTGAAATTTGGTTAGATGAGTATAGATATTACAAGGAGTCTTGGTGCAAAA
195 TAAATCCAACGTTGCTGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGATGCAAAA
* *
359432 ATCATGCAAAACTGAGACGAGGACCTGGAACGCGTTTTTAGTCAAAAACTGTGATTGTTAGTCCA
260 ATCATGCAAAACTGAG-CGAGG-CCCGGAACGCGTTTTTAG-CAAAAACTGTGATTGTTA-TACA
*
359497 CGATTC
321 CAATTC
* * * * * *
359503 CGGTTGAAATTTTGCAAAAATTGATGCGAAAGATTTTTCCTAAGTTTTTAGCGACAATACTCAT-
1 CGGCTAAAATTTTGCAAAAATTGATCCGAAAGATTTTTCCTAA-ATTTTATCCACAATACTCATG
* * * * ** *
359567 AAAAAAATATAATTCAACTCCAAAAAGAACGAAGAGT-TTTTCACATTTCTAATATCATTTTTCC
65 AAAAATATATAATTCAACGCCAAATAGAATGAAGA-TCTTTTCACGCTTCTAATATCGTTTTTCC
* * *
359631 AATTTTATCTGAATTAATTTTTGATTAAATCAAAACATGATTCAAATGCTTC-TAAAAACAAATC
129 AATTTTATCTGAATTAATTTCTGATTAAATCGAAACATGATTCAGATGC-TCGTAAAAACAAATC
** * *** * * *
359695 CTTATGTCCAACG-TGCCTGAGATTTGGTTAGATGAATATATATATTTTTAGGATTTTTTATGCT
193 CTTAAATCCAACGTTG-CTGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGATGC-
* * * * *
359759 AAAATTCATGCAAAACTGAGCCGGGGCCCCAGAATGCGTTTTTAGCAAAAAACTGTGATAGTTAT
256 AAAAATCATGCAAAACTGAG-CGAGG-CCCGGAACGCGTTTTTAGC-AAAAACTGTGATTGTTAT
359824 TCAATTTTTC
Statistics
Matches: 547, Mismatches: 90, Indels: 29
0.82 0.14 0.04
Matches are distributed among these distances:
328 51 0.09
329 187 0.34
330 193 0.35
331 89 0.16
332 27 0.05
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (326 bp):
CGGCTAAAATTTTGCAAAAATTGATCCGAAAGATTTTTCCTAAATTTTATCCACAATACTCATGA
AAAATATATAATTCAACGCCAAATAGAATGAAGATCTTTTCACGCTTCTAATATCGTTTTTCCAA
TTTTATCTGAATTAATTTCTGATTAAATCGAAACATGATTCAGATGCTCGTAAAAACAAATCCTT
AAATCCAACGTTGCTGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGATGCAAAAA
TCATGCAAAACTGAGCGAGGCCCGGAACGCGTTTTTAGCAAAAACTGTGATTGTTATACACAATT
C
Found at i:360429 original size:332 final size:332
Alignment explanation
Indices: 359823--361507 Score: 2397
Period size: 332 Copynumber: 5.1 Consensus size: 332
359813 GTGATAGTTA
*
359823 TTCAATTTTTCCCGAATTAATTTCTATTTAAATTCGAAACAAGATTCAGATGATCGTAAAACCAA
1 TTCAATTTTTCCCGAATTAATTTCTATTTAAA-TCGAAACAAGATTCAGATGATCGTAAAAACAA
* * * * * *
359888 ATCCTTAAATCCATTGTGGATGATATAT-AGTTAGATTAATATAGATATTTCAATGAGTCTTGGC
65 ATCCTTAAATCCACTGTGGCTGAGATTTGGGAT-GATTAATATAGATATTTCAATGAGTCTTGGC
*
359952 GCCAAAAATCATGCAAAACTGAGCCGGGGCACCGGAACGCGTCTTTAGCCAAAAACCGTGAT-GT
129 GCCAAAAATCATGCAAAACTGAGCCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGT
* *
360016 TTGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCTTCAATTTTTAA-
194 TAGTACACGATTTCGGCAAAAATTTT-CAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAAC
* * *
360080 CGACAATACTCGTAAAAAATATATAATTCAATGCCAAAAATATTGAAGGGCTCTTCACGCTTCTA
258 CGACAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTA
360145 ATATCATTTT
323 ATATCATTTT
*
360155 TTCAATTCTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAA
1 TTCAATT-TTTCCCGAATTAATTTCTATTTAAATCGAAACAAGATTCAGATGATCGTAAAAACAA
* *
360220 ATCCTTAAATCCACTGTGGCTGAGATTTGGGATGATTAATACAGATATTTCAATGATTCTTGGC-
65 ATCCTTAAATCCACTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCG
* ** * * *
360284 CCAAAAATCATTCAAAACTGAGTTGAGGCACCGAAACGCGTTTTTAGCCAAAAATCGTGATGGTT
130 CCAAAAATCATGCAAAACTGAGCCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTT
* * * *
360349 AGTACACGATTTCGGCAAAACCTTTTCAAAAATTGACCCAAAAGATTTTTCCTTAATTTTGAACC
195 AGTACACGATTTCGGCAAAA-ATTTTCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACC
* * * * *
360414 GA-AATACTCGTAAAAAATATATAATTCAACGACAGAAAGATTGAAGGGCTTTTTAGGCGTCTAA
259 GACAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAA
360478 TATCATTTTT
324 TATCA-TTTT
* ** * * **
360488 TTCAATTTTTTCCGTCTTAATTTCCGA-TTAAATCGAAACATGATTCAGATTCTCGTAAAATA-A
1 TTCAATTTTTCCCGAATTAATTT-CTATTTAAATCGAAACAAGATTCAGATGATCGTAAAA-ACA
* * *
360551 AATCCTTAAATCCAATGTGGCTGAGATTTGGGATAATGAATATAGATA-TTCAATGAGTCTTGGC
64 AATCCTTAAATCCACTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGC
* * ** *
360615 TCCAAAAATCATGCCAAACTGAGCCGGGGCACTAGAACGCGTTTTTAGCCAAAAACCGTGGTGG-
129 GCCAAAAATCATGCAAAACTGAGCCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGT
* * *
360679 T-GTACACGACTTCGGCAAAAA--TT-----A---ACCCAAAAGATTTTTCCTCAATTTTTAAAC
194 TAGTACACGATTTCGGCAAAAATTTTCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACC
*
360733 G-CAATACTCGTAAAAAATATATAATTCAACGCCAAAAATATTGAAGGGCTTTTCACGCTTCTAA
259 GACAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAA
360797 TATCATTTT
324 TATCATTTT
**
360806 TTCAATTTTTCCAAAATTAATTTCTATTTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAA
1 TTCAATTTTTCCCGAATTAATTTCTATTTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAA
* * *
360871 TCCTTAAATCCACTGTGGCTGAGATTTAGGATAATTAATAGAGATATTTCAATGAGTCTTGGCGC
66 TCCTTAAATCCACTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGC
* * *
360936 CAAAAATCATGCAAAACTGAGCCGGGGCACCGGAACCCGTCTTTAGCCAAAAACCGTGAAGGTTA
131 CAAAAATCATGCAAAACTGAGCCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTA
* *
361001 CTACACGATTTCGACAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACC-
196 GTACACGATTTCGGCAAAAATTTT-CAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCG
361065 ACAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAAT
260 ACAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAAT
361130 ATCATTTT
325 ATCATTTT
*
361138 TTCAATTCTTTCCCGAATTAATTTCTATTTAAATCGAAACAAGATTCAGATAATCGTAAAAACAA
1 TTCAATT-TTTCCCGAATTAATTTCTATTTAAATCGAAACAAGATTCAGATGATCGTAAAAACAA
* * ** * *
361203 ATCCTTAAATACATTGTCTCTAAGATTTGGGATGATGAATATAGATATTTCAATGAGTCTTGGCG
65 ATCCTTAAATCCACTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCG
* *
361268 CCAAAAATCATGCAAAATTGAGCC-GGGC-CCGGAACGCGTTTTTAG-CAAAAAAC-TG-T-G--
130 CCAAAAATCATGCAAAACTGAGCCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTT
*
361325 ACGTACACGATTTCGGCAAAAATATTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAAC
195 A-GTACACGATTTCGGCAAAAAT-TTTCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAAC
*
361390 C-ACAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGTAGGGCTTTTCACGCTTCTA
258 CGACAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTA
361454 ATATCATTTT
323 ATATCATTTT
361464 TTCAATTCTTTCCCGAATTAATTTCTATTTAAATCGAAACAAGA
1 TTCAATT-TTTCCCGAATTAATTTCTATTTAAATCGAAACAAGA
361508 GTTAAGTTGA
Statistics
Matches: 1211, Mismatches: 112, Indels: 66
0.87 0.08 0.05
Matches are distributed among these distances:
317 3 0.00
318 97 0.08
319 161 0.13
320 1 0.00
321 17 0.01
322 1 0.00
323 2 0.00
325 1 0.00
326 174 0.14
327 5 0.00
329 3 0.00
330 25 0.02
331 85 0.07
332 456 0.38
333 180 0.15
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (332 bp):
TTCAATTTTTCCCGAATTAATTTCTATTTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAA
TCCTTAAATCCACTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGC
CAAAAATCATGCAAAACTGAGCCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTA
GTACACGATTTCGGCAAAAATTTTCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGA
CAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATA
TCATTTT
Done.