Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008495.1 Hibiscus syriacus cultivar Beakdansim tig00111338_pilon, 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: 5120959
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 21
Found at i:9004 original size:15 final size:16
Alignment explanation
Indices: 8984--9014 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
8974 GCGGTAGATG
8984 GAAACCCTAG-GGTTT
1 GAAACCCTAGTGGTTT
8999 GAAACCCTAGTGGTTT
1 GAAACCCTAGTGGTTT
9015 AGCTCTGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (16 bp):
GAAACCCTAGTGGTTT
Found at i:9567 original size:134 final size:134
Alignment explanation
Indices: 9345--9936 Score: 758
Period size: 134 Copynumber: 4.4 Consensus size: 134
9335 TCTTCCGAGG
* * * * *
9345 AGATTGAATCGGAATCGATTTTCTGCATTGCTCTTCATGAAGACCAAATCTGAAAGAATAAGAAT
1 AGATTGAATCAGAATCGATTTGCTTCATTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAAT
* * *
9410 TTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAACTTTGATCTACTTCATTGCTCTTCA
66 CTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCACTGCTCTTCA
9475 AGGA
131 AGGA
* * * * *
9479 AGATTGAATTAGAATCAATTTACTTCATTGCTCTTCAGGAATACCAAATCTGAAAGAAGAATAAT
1 AGATTGAATCAGAATCGATTTGCTTCATTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAAT
** * * * **
9544 CTATTCCACTACTATTTAAGGGAGATCATACTCGAGAAAACTTTGATCCACTTCACTATTCTTCA
66 CTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCACTGCTCTTCA
*
9609 GGGA
131 AGGA
* * * * *
9613 AGATTGATTCAGAATCGATTTGCTTCACTCCTCTTCAGGAATACCAAATTTGAAAGAAGAAGAAT
1 AGATTGAATCAGAATCGATTTGCTTCATTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAAT
* * *
9678 CTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAACTTTGGTCGACTTCACTTCTCTTC-
66 CTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCACTGCTCTTCA
9742 AGGAA
131 AGG-A
* * *
9747 ATATTGAATCAGAATCGATTTGCTTCATTGCTCTTTAGGAAGACCAACTCTGAAAGAAGAAGAAT
1 AGATTGAATCAGAATCGATTTGCTTCATTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAAT
* * * *
9812 ATTCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCACTGCTCTTTA
66 CTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCACTGCTCTTCA
*
9877 GGGA
131 AGGA
* * * *
9881 AGATTGAATCAGAA-C-ACTGTATGCTTCTTTGTTCTTCAAGAAGAACAAATCTGAAA
1 AGATTGAATCAGAATCGA-T-T-TGCTTCATTGCTCTTCAGGAAGACCAAATCTGAAA
9937 ATCAAACATG
Statistics
Matches: 392, Mismatches: 61, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
132 1 0.00
133 4 0.01
134 356 0.91
135 31 0.08
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (134 bp):
AGATTGAATCAGAATCGATTTGCTTCATTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAAT
CTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCACTGCTCTTCA
AGGA
Found at i:10549 original size:45 final size:45
Alignment explanation
Indices: 10481--10781 Score: 196
Period size: 45 Copynumber: 6.7 Consensus size: 45
10471 GATGATACTG
* *
10481 AAAAG-TTGACTCCTCTCCGTGAGAAAGTCAAAAAGAACAACACC
1 AAAAGATTGACTCCTCTTCGTGAGAAAGTCAAAAAGAACAACACT
* * * *
10525 AAAAGATCGACTTCTCTTCGTGAGAATGTAAAAAAGGAA-AACACT
1 AAAAGATTGACTCCTCTTCGTGAGAAAGTCAAAAA-GAACAACACT
** * *
10570 AAAAGATTGACTCCTCTTAATGA-AATAGTCAAAACGAACAATACT
1 AAAAGATTGACTCCTCTTCGTGAGAA-AGTCAAAAAGAACAACACT
** * **** * *
10615 AAACTATTAACTCCTCTTTACAAGAAAGTCAATGAAG-ACAACACC
1 AAAAGATTGACTCCTCTTCGTGAGAAAGTCAA-AAAGAACAACACT
* * * * * *
10660 GAAAGATTGAATTCTCTTCGCGAGAAAGTCAAGAAGGACAACACT
1 AAAAGATTGACTCCTCTTCGTGAGAAAGTCAAAAAGAACAACACT
* * * * * * * * *
10705 AAAATATTGTCTCATCTTCGTGAGAAATTCAAGAAGGATAATATT
1 AAAAGATTGACTCCTCTTCGTGAGAAAGTCAAAAAGAACAACACT
* * * **
10750 GAGAGATTGACTTCTCTTCACGAGAAAGTCAA
1 AAAAGATTGACTCCTCTTCGTGAGAAAGTCAA
10782 GAATAAAAAG
Statistics
Matches: 196, Mismatches: 54, Indels: 13
0.75 0.21 0.05
Matches are distributed among these distances:
44 14 0.07
45 175 0.89
46 7 0.04
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (45 bp):
AAAAGATTGACTCCTCTTCGTGAGAAAGTCAAAAAGAACAACACT
Found at i:10816 original size:36 final size:38
Alignment explanation
Indices: 10753--10841 Score: 137
Period size: 36 Copynumber: 2.4 Consensus size: 38
10743 TAATATTGAG
10753 AGATTGACTTCTCTTCACGAGAAAGTCAAGAATAA-AA
1 AGATTGACTTCTCTTCACGAGAAAGTCAAGAATAACAA
* *
10790 AGATTGACTT-TTTTCATGAGAAAGTCAAGAATAACAA
1 AGATTGACTTCTCTTCACGAGAAAGTCAAGAATAACAA
*
10827 AGATAGACTTCTCTT
1 AGATTGACTTCTCTT
10842 AATAAGGAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
36 22 0.48
37 21 0.46
38 3 0.07
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (38 bp):
AGATTGACTTCTCTTCACGAGAAAGTCAAGAATAACAA
Found at i:12003 original size:42 final size:43
Alignment explanation
Indices: 11949--12050 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 43
11939 GGGCCTCAAA
* * * *
11949 AAAATGTCCCAACATTTATTATTTCTTGATGACATAGGCCTTC
1 AAAATGCCCCAACATTTATTACTTCTGGATGACACAGGCCTTC
* * *
11992 AAAATG-CCCAACATTTATTACTTCTGGATGATACGGGCTTTC
1 AAAATGCCCCAACATTTATTACTTCTGGATGACACAGGCCTTC
12034 AAAAGTGCCCCAACATT
1 AAAA-TGCCCCAACATT
12051 CATCATATCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
42 34 0.67
43 8 0.16
44 9 0.18
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (43 bp):
AAAATGCCCCAACATTTATTACTTCTGGATGACACAGGCCTTC
Found at i:18663 original size:26 final size:25
Alignment explanation
Indices: 18536--18787 Score: 157
Period size: 20 Copynumber: 10.9 Consensus size: 25
18526 CTTTCATTCC
*
18536 TTAATGCATCCTTTCATGAATTTCAT
1 TTAATGCATCCTTTCATGCA-TTCAT
*
18562 TT-ATGCTATCTTTTCATGC---C--
1 TTAATGC-ATCCTTTCATGCATTCAT
*
18582 TTAATGCATCCTTTCATACATTTCAT
1 TTAATGCATCCTTTCATGCA-TTCAT
*
18608 TT-ATGGCATCTTTTCATGC---C--
1 TTAAT-GCATCCTTTCATGCATTCAT
18628 TTAATGCATCCTTTCATGCATTTCAT
1 TTAATGCATCCTTTCATGCA-TTCAT
*
18654 TTATTGCATCCTTTCATG-A--C--
1 TTAATGCATCCTTTCATGCATTCAT
18674 TTAATGCATCCTTTCATGCACTTCAT
1 TTAATGCATCCTTTCATGCA-TTCAT
18700 TT-ATGACATCCTTTCATGC---C--
1 TTAATG-CATCCTTTCATGCATTCAT
*
18720 TTAATGCATCCTTTCATGCATTTTAT
1 TTAATGCATCCTTTCATGCA-TTCAT
*
18746 TT-ATGGAATCCTTTCATGC---C--
1 TTAAT-GCATCCTTTCATGCATTCAT
18766 TTAATGCATCCTTTCATGCATT
1 TTAATGCATCCTTTCATGCATT
18788 TTATTCATGG
Statistics
Matches: 178, Mismatches: 13, Indels: 73
0.67 0.05 0.28
Matches are distributed among these distances:
20 74 0.42
21 12 0.07
22 4 0.02
24 3 0.02
25 12 0.07
26 73 0.41
ACGTcount: A:0.22, C:0.24, G:0.09, T:0.45
Consensus pattern (25 bp):
TTAATGCATCCTTTCATGCATTCAT
Found at i:18798 original size:46 final size:46
Alignment explanation
Indices: 18463--18797 Score: 492
Period size: 46 Copynumber: 7.3 Consensus size: 46
18453 TTATTTGTTA
* * * * *
18463 ATTTCATTCATGGCATCTTTTCATGCCTTAATGCACCCTTTAATGT
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* *
18509 ATTTCATTTATGGCATCCTTTCATTCCTTAATGCATCCTTTCATGA
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* *
18555 ATTTCATTTAT-GCTATCTTTTCATGCCTTAATGCATCCTTTCATAC
1 ATTTCATTTATGGC-ATCCTTTCATGCCTTAATGCATCCTTTCATGC
*
18601 ATTTCATTTATGGCATCTTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* *
18647 ATTTCATTTATTGCATCCTTTCATGACTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* *
18693 ACTTCATTTATGACATCCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* *
18739 ATTTTATTTATGGAATCCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* *
18785 ATTTTATTCATGG
1 ATTTCATTTATGG
18798 ATTTGTTTTA
Statistics
Matches: 264, Mismatches: 23, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
45 2 0.01
46 260 0.98
47 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.10, T:0.45
Consensus pattern (46 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
Found at i:19421 original size:20 final size:20
Alignment explanation
Indices: 19393--19439 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
19383 TACCACTTAC
19393 ATCGATATTGTTCTATTAGT
1 ATCGATATTGTTCTATTAGT
*
19413 ATCGGTATTGTTCTATTAGT
1 ATCGATATTGTTCTATTAGT
*
19433 ACCGATA
1 ATCGATA
19440 CCATTACCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.45
Consensus pattern (20 bp):
ATCGATATTGTTCTATTAGT
Found at i:24409 original size:16 final size:16
Alignment explanation
Indices: 24390--24426 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
24380 AGAACTCTGG
24390 AGCTCCAAAGCTCTTC
1 AGCTCCAAAGCTCTTC
*
24406 AGCTCCAAATCTCTTC
1 AGCTCCAAAGCTCTTC
24422 AGCTC
1 AGCTC
24427 TTTTGAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.24, C:0.38, G:0.11, T:0.27
Consensus pattern (16 bp):
AGCTCCAAAGCTCTTC
Found at i:25553 original size:46 final size:46
Alignment explanation
Indices: 25479--25682 Score: 304
Period size: 46 Copynumber: 4.5 Consensus size: 46
25469 TATGGCATAC
* *
25479 TTTCATTCATTTCATATATGGCATCCTTTCATGCCTTAATGCATCA
1 TTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCA
* * * *
25525 TTTAATGCATTTCATTTATGGCATCCTTTCAAGCCTTAATGTATCC
1 TTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCA
* *
25571 TTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAATGCACCC
1 TTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCA
*
25617 TTTCATGCA-TTCATTTATGGCATCTTTTCATGCCTTAATGCA-CTA
1 TTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAATGCATC-A
25662 TTTCATGCATTTCATTTATGG
1 TTTCATGCATTTCATTTATGG
25683 ATTTTTTTTA
Statistics
Matches: 144, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
44 1 0.01
45 41 0.28
46 102 0.71
ACGTcount: A:0.22, C:0.23, G:0.11, T:0.44
Consensus pattern (46 bp):
TTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCA
Found at i:25597 original size:26 final size:25
Alignment explanation
Indices: 25447--25649 Score: 130
Period size: 26 Copynumber: 8.6 Consensus size: 25
25437 ATGCCTTAAT
* * *
25447 GCATCCTATCATGTATTTGATTTATG
1 GCATCCTTTCATGCA-TTCATTTATG
* * *
25473 GCATACTTTCATTCATTTCATATATG
1 GCATCCTTTCATGCA-TTCATTTATG
*
25499 GCATCCTTTCATGC---C-TTAAT-
1 GCATCCTTTCATGCATTCATTTATG
* *
25519 GCATCATTTAATGCATTTCATTTATG
1 GCATCCTTTCATGCA-TTCATTTATG
* *
25545 GCATCCTTTCAAGC---C-TTAAT-
1 GCATCCTTTCATGCATTCATTTATG
*
25565 GTATCCTTTCATGCATTTCATTTATG
1 GCATCCTTTCATGCA-TTCATTTATG
*
25591 GCATCCTTTCATGC---C-TTAAT-
1 GCATCCTTTCATGCATTCATTTATG
*
25611 GCACCCTTTCATGCATTCATTTATG
1 GCATCCTTTCATGCATTCATTTATG
*
25636 GCATCTTTTCATGC
1 GCATCCTTTCATGC
25650 CTTAATGCAC
Statistics
Matches: 134, Mismatches: 26, Indels: 35
0.69 0.13 0.18
Matches are distributed among these distances:
20 37 0.28
21 11 0.08
22 3 0.02
23 1 0.01
24 6 0.04
25 20 0.15
26 56 0.42
ACGTcount: A:0.22, C:0.23, G:0.11, T:0.43
Consensus pattern (25 bp):
GCATCCTTTCATGCATTCATTTATG
Found at i:25667 original size:20 final size:19
Alignment explanation
Indices: 25597--25669 Score: 56
Period size: 20 Copynumber: 3.4 Consensus size: 19
25587 TATGGCATCC
*
25597 TTTCATGCCTTAATGCACCC
1 TTTCATGCCTTAATGCA-CT
*
25617 TTTCATGCATTCATTTATGGCATCT
1 TTTCATGC---C-TTAAT-GCA-CT
25642 TTTCATGCCTTAATGCACT
1 TTTCATGCCTTAATGCACT
25661 ATTTCATGC
1 -TTTCATGC
25670 ATTTCATTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
19 2 0.05
20 19 0.44
21 4 0.09
22 1 0.02
23 1 0.02
24 4 0.09
25 12 0.28
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (19 bp):
TTTCATGCCTTAATGCACT
Found at i:26130 original size:22 final size:22
Alignment explanation
Indices: 26102--26179 Score: 74
Period size: 22 Copynumber: 3.6 Consensus size: 22
26092 TACCCTTATC
26102 ATGGTATCGATACTTCTATACT
1 ATGGTATCGATACTTCTATACT
*
26124 ATGGTATCGATATCTT-TCT-CT
1 ATGGTATCGATA-CTTCTATACT
* *
26145 CA--GTATCGATACTACTACACT
1 -ATGGTATCGATACTTCTATACT
*
26166 ATGGTATTGATACT
1 ATGGTATCGATACT
26180 CCCTTTCGAT
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
19 2 0.04
20 11 0.24
21 4 0.09
22 25 0.56
23 3 0.07
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (22 bp):
ATGGTATCGATACTTCTATACT
Found at i:27937 original size:44 final size:44
Alignment explanation
Indices: 27865--27971 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
27855 GTGCAATATT
*
27865 TTACCATTTAATACCATAAGATCATAAGCTTATTTTACCAATATAC
1 TTACCATTT-AT-CCATAAGATCATAAGCTTATTTTACCAATACAC
* *
27911 TTACCATTTATCCATAAGCTCGTAAGCTTATTTTACCAATACAC
1 TTACCATTTATCCATAAGATCATAAGCTTATTTTACCAATACAC
*
27955 TTGCCA-TTATTCCATAA
1 TTACCATTTA-TCCATAA
27972 CCATATACCA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
43 3 0.05
44 42 0.75
45 2 0.04
46 9 0.16
ACGTcount: A:0.35, C:0.22, G:0.06, T:0.37
Consensus pattern (44 bp):
TTACCATTTATCCATAAGATCATAAGCTTATTTTACCAATACAC
Found at i:28092 original size:40 final size:40
Alignment explanation
Indices: 28048--28209 Score: 288
Period size: 40 Copynumber: 4.0 Consensus size: 40
28038 ACCGTCGTGC
*
28048 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
*
28088 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
28128 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
* *
28168 TACACATAAGGTCGTGCCCAACATAAACACCAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
28208 TA
1 TA
28210 TAAACCTGCA
Statistics
Matches: 119, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 119 1.00
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
Found at i:28498 original size:22 final size:24
Alignment explanation
Indices: 28451--28499 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 24
28441 TGCTTTATTT
*
28451 TTTTATTCAACCATTAGTGTGTCA
1 TTTTATTCAACCAATAGTGTGTCA
28475 TTTT-TTCAA-CAATAGT-TGTACA
1 TTTTATTCAACCAATAGTGTGT-CA
28497 TTT
1 TTT
28500 ATAGCTTGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 3 0.13
22 11 0.48
23 5 0.22
24 4 0.17
ACGTcount: A:0.27, C:0.14, G:0.10, T:0.49
Consensus pattern (24 bp):
TTTTATTCAACCAATAGTGTGTCA
Found at i:31990 original size:44 final size:44
Alignment explanation
Indices: 31940--32025 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
31930 TTAATACCAT
*
31940 TCGTAAGCTTATTTTACCAATATACTTACCA-TATATCCATAAGC
1 TCGTAAGCTTATTTTACCAATACACTTACCATTAT-TCCATAAGC
* *
31984 TCGTAAGCTTATTTTACCATTACACTTGCCATTATTCCATAA
1 TCGTAAGCTTATTTTACCAATACACTTACCATTATTCCATAA
32026 CCTTATACCA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 35 0.92
45 3 0.08
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.38
Consensus pattern (44 bp):
TCGTAAGCTTATTTTACCAATACACTTACCATTATTCCATAAGC
Found at i:32160 original size:40 final size:40
Alignment explanation
Indices: 32105--32265 Score: 261
Period size: 40 Copynumber: 4.0 Consensus size: 40
32095 GTCGTGCTAC
*
32105 ACATAAGGTTGTGCCCACCATATACACCGAAGTGTATTAT
1 ACATAAGGTCGTGCCCACCATATACACCGAAGTGTATTAT
** *
32145 ACATAAGGTATTGCCCACCATATACACCGAAGTGTATTAC
1 ACATAAGGTCGTGCCCACCATATACACCGAAGTGTATTAT
32185 ACATAAGGTCGTGCCCACCATATACACCGAAGTGTATT-T
1 ACATAAGGTCGTGCCCACCATATACACCGAAGTGTATTAT
*
32224 CACATAAGTTCGTGCCCACCATATACACCGAAGTGTATTAT
1 -ACATAAGGTCGTGCCCACCATATACACCGAAGTGTATTAT
32265 A
1 A
32266 AAACTGCAAC
Statistics
Matches: 112, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
40 111 0.99
41 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (40 bp):
ACATAAGGTCGTGCCCACCATATACACCGAAGTGTATTAT
Found at i:34394 original size:15 final size:15
Alignment explanation
Indices: 34360--34395 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
34350 ATCATAAACC
34360 TTACCCACATGAAAT
1 TTACCCACATGAAAT
* *
34375 CTACCCACATGATAT
1 TTACCCACATGAAAT
34390 TTACCC
1 TTACCC
34396 TTGTTATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.06, T:0.28
Consensus pattern (15 bp):
TTACCCACATGAAAT
Found at i:38023 original size:29 final size:29
Alignment explanation
Indices: 37968--38023 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
37958 TTGCTATGGT
* * **
37968 TTTTAAAAATATTTTTTAAATTGTTACTA
1 TTTTAAAAAAATTTTATAAATCCTTACTA
*
37997 TTTTAAAAAAATTTTATATATCCTTAC
1 TTTTAAAAAAATTTTATAAATCCTTAC
38024 ACTTGTTTTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (29 bp):
TTTTAAAAAAATTTTATAAATCCTTACTA
Found at i:39955 original size:14 final size:13
Alignment explanation
Indices: 39936--39987 Score: 59
Period size: 14 Copynumber: 3.8 Consensus size: 13
39926 CCGGTCTAAA
39936 TTGAGTCAACTAGT
1 TTGAGTCAACT-GT
39950 TTGAGTCAACTTGT
1 TTGAGTCAAC-TGT
* *
39964 CTGAGTCAACTCT
1 TTGAGTCAACTGT
39977 TCTGAGTCAAC
1 T-TGAGTCAAC
39988 CCATTGACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 2 0.06
14 30 0.91
15 1 0.03
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (13 bp):
TTGAGTCAACTGT
Found at i:42948 original size:27 final size:27
Alignment explanation
Indices: 42917--42972 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
42907 TTCCATCAAT
* *
42917 CAGCTTGTTTCATACAAAATAAAAGAC
1 CAGCTTGTTGCATACAAAACAAAAGAC
42944 CAGCTTGTTGCATACAAAACAAAAGAC
1 CAGCTTGTTGCATACAAAACAAAAGAC
42971 CA
1 CA
42973 AAATACAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.45, C:0.21, G:0.12, T:0.21
Consensus pattern (27 bp):
CAGCTTGTTGCATACAAAACAAAAGAC
Found at i:43652 original size:18 final size:19
Alignment explanation
Indices: 43626--43662 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
43616 AATTTGCTTA
43626 TTTCAAACATTTCCAATAT
1 TTTCAAACATTTCCAATAT
43645 TTTC-AACATTTCCAATAT
1 TTTCAAACATTTCCAATAT
43663 AGGCGTGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (19 bp):
TTTCAAACATTTCCAATAT
Found at i:45936 original size:54 final size:54
Alignment explanation
Indices: 45780--46174 Score: 463
Period size: 54 Copynumber: 7.3 Consensus size: 54
45770 TTACCGAAAG
*
45780 GGCACTATGTGTGCAACCTTACA-AAATTCATAATGAGTTTATGAA-TTTCTGTATT
1 GGCACTATGTGTGCAACC-TA-AGAAATTCATAATAAGTTTATGAATTTTC-GTATT
* *
45835 GGAACTATGTGTACAACCTTAAGAAATTCATAATAAGTTTATGAATTTTCGTATT
1 GGCACTATGTGTGCAACC-TAAGAAATTCATAATAAGTTTATGAATTTTCGTATT
* *
45890 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCCTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATT
** * * *
45944 GTAACTGTGTGTGCAACTTAAGAAGTTCATAATAAGTTTATGAATTTTCGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATT
* * *
45998 GGCACTATGTGTGCAAACTAAGAAATTCATAATAATTTTATGAATTTCCGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATT
* * * *
46052 GGCACTGTGTGTGAAACTTAAGAAGTTCATAATAAGTTTATGAA-TTTCTGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTC-GTATT
* * * ** * * * *
46106 GGCACTATGGGTGCAACCCCACGTGATTCATAATGAGTTTGTGAATTATCGTATC
1 GGCACTATGTGTGCAA-CCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATT
* *
46161 GGCACAATATGTGC
1 GGCACTATGTGTGC
46175 GAAAACCACT
Statistics
Matches: 290, Mismatches: 45, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
53 3 0.01
54 184 0.63
55 96 0.33
56 7 0.02
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (54 bp):
GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATT
Found at i:45995 original size:108 final size:108
Alignment explanation
Indices: 45780--46123 Score: 530
Period size: 108 Copynumber: 3.2 Consensus size: 108
45770 TTACCGAAAG
* * *
45780 GGCACTATGTGTGCAACCTTACA-AAATTCATAATGAGTTTATGAATTTCTGTATTGGAACTATG
1 GGCACTATGTGTGCAACC-TA-AGAAATTCATAATAAGTTTATGAATTTCCGTATTGGAACTGTG
* *
45844 TGTACAACCTTAAGAAATTCATAATAAGTTTATGAATTTTCGTATT
64 TGTGCAA-CTTAAGAAGTTCATAATAAGTTTATGAATTTTCGTATT
* *
45890 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCCTATTGTAACTGTGTG
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGAACTGTGTG
45955 TGCAACTTAAGAAGTTCATAATAAGTTTATGAATTTTCGTATT
66 TGCAACTTAAGAAGTTCATAATAAGTTTATGAATTTTCGTATT
* * *
45998 GGCACTATGTGTGCAAACTAAGAAATTCATAATAATTTTATGAATTTCCGTATTGGCACTGTGTG
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGAACTGTGTG
*
46063 TGAAACTTAAGAAGTTCATAATAAGTTTATGAA-TTTCTGTATT
66 TGCAACTTAAGAAGTTCATAATAAGTTTATGAATTTTC-GTATT
*
46106 GGCACTATGGGTGCAACC
1 GGCACTATGTGTGCAACC
46124 CCACGTGATT
Statistics
Matches: 217, Mismatches: 15, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
107 4 0.02
108 151 0.70
109 44 0.20
110 18 0.08
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (108 bp):
GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGAACTGTGTG
TGCAACTTAAGAAGTTCATAATAAGTTTATGAATTTTCGTATT
Found at i:49593 original size:60 final size:60
Alignment explanation
Indices: 49497--49769 Score: 306
Period size: 60 Copynumber: 4.6 Consensus size: 60
49487 CATTGTTTTT
* ** * * * * *
49497 TCATCTAACTAGCATTAGTGGCACCTTAATGCCAAAAATGCTCATTAGGCATTAAATTTT
1 TCATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACATTAGACATTTAACTTA
* * * *
49557 TAATCTAACTTGCATTAGTGGCACCTTTCTGTCAAAAATGCACCTTAGTCATTTAACTTA
1 TCATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACATTAGACATTTAACTTA
* * *
49617 TCATCTAACTTGCATTAATGACA-CTTTTTGCC--AAATGCACCATTAGACATTTAACTTA
1 TCATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCA-CATTAGACATTTAACTTA
* *
49675 TCATCTAACTTGCATTAGTGGCACCTTTCTGCC-AAAATGCA-ATGTTAGCCA-TTATCTTA
1 TCATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACA--TTAGACATTTAACTTA
* *
49734 TCATCTAACTTGCATTAGTGACACATTTCTGCCAAA
1 TCATCTAACTTGCATTAGTGGCACCTTTCTGCCAAA
49770 TGCACCGTCA
Statistics
Matches: 182, Mismatches: 25, Indels: 12
0.83 0.11 0.05
Matches are distributed among these distances:
57 7 0.04
58 38 0.21
59 53 0.29
60 84 0.46
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (60 bp):
TCATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACATTAGACATTTAACTTA
Found at i:49711 original size:118 final size:117
Alignment explanation
Indices: 49559--49795 Score: 343
Period size: 118 Copynumber: 2.0 Consensus size: 117
49549 TAAATTTTTA
* *
49559 ATCTAACTTGCATTAGTGGCACCTTTCTGTCAAAAATGC-ACCTTAGTCATTTAACTTATCATCT
1 ATCTAACTTGCATTAGTGGCACCTTTCTG-CCAAAATGCAACCTTAGCCA-TTAACTTATCATCT
* *
49623 AACTTGCATTAATGACAC-TTTTTGCCAAATGCACCATTAGACATTTAACTTATC
64 AACTTGCATTAATGACACATTTCTGCCAAATGCACCATCAGACATTTAACTT-TC
** *
49677 ATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAATGCAATGTTAGCCATTATCTTATCATCTAA
1 ATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAATGCAACCTTAGCCATTAACTTATCATCTAA
* * *
49742 CTTGCATTAGTGACACATTTCTGCCAAATGCACCGTCAGGCATTTAACTTTC
66 CTTGCATTAATGACACATTTCTGCCAAATGCACCATCAGACATTTAACTTTC
49794 AT
1 AT
49796 TTTAGAGCAT
Statistics
Matches: 107, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
117 42 0.39
118 65 0.61
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (117 bp):
ATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAATGCAACCTTAGCCATTAACTTATCATCTAA
CTTGCATTAATGACACATTTCTGCCAAATGCACCATCAGACATTTAACTTTC
Found at i:50219 original size:21 final size:22
Alignment explanation
Indices: 50195--50254 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
50185 TCGGTACCTC
*
50195 TACTGTGGTA-CGATACTTCTA
1 TACTATGGTATCGATACTTCTA
50216 TACTATGGTATCGATACTTCTA
1 TACTATGGTATCGATACTTCTA
* *
50238 TAATA-GGTACCGATACT
1 TACTATGGTATCGATACT
50255 CCCTTGCAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
21 20 0.57
22 15 0.43
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (22 bp):
TACTATGGTATCGATACTTCTA
Found at i:51070 original size:16 final size:17
Alignment explanation
Indices: 51049--51085 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
51039 ATCCAACATC
*
51049 GGGAGGG-AAAACCCTT
1 GGGAGGGAAAAACCATT
51065 GGGAGGGAAAAACCATT
1 GGGAGGGAAAAACCATT
51082 GGGA
1 GGGA
51086 AGGTTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.35, C:0.14, G:0.41, T:0.11
Consensus pattern (17 bp):
GGGAGGGAAAAACCATT
Found at i:53728 original size:67 final size:67
Alignment explanation
Indices: 53610--53744 Score: 191
Period size: 68 Copynumber: 2.0 Consensus size: 67
53600 GAATTATTCA
* * *
53610 TTAATATTCAAACTCTAAAATGATAATATATTTAATTTGCAATATTCAAAAAGATATTGATATCT
1 TTAATATTCAAACTCTAAAAAGATAAAATATTTAATTTGCAATATTAAAAAAGATATTGATATCT
53675 TT
66 TT
* * *
53677 TTAATATTCAAA-TTTAAAAAGATAAAATACTTTTAATTTGGAATATTAAAAAAGATGTTGATAT
1 TTAATATTCAAACTCTAAAAAGATAAAATA--TTTAATTTGCAATATTAAAAAAGATATTGATAT
53741 CTTT
64 CTTT
53745 AATATATTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
66 14 0.23
67 12 0.20
68 34 0.57
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (67 bp):
TTAATATTCAAACTCTAAAAAGATAAAATATTTAATTTGCAATATTAAAAAAGATATTGATATCT
TT
Found at i:53729 original size:33 final size:36
Alignment explanation
Indices: 53640--53732 Score: 97
Period size: 33 Copynumber: 2.7 Consensus size: 36
53630 TGATAATATA
* **
53640 TTTAATTTGCAATATTCAAAAAGATATTGATATCTT
1 TTTAATTTGCAATATTAAAAAAGATATAAATATCTT
*
53676 TTTAATATT-CAA-ATTTAAAAAGATA-AAATA-C-T
1 TTTAAT-TTGCAATATTAAAAAAGATATAAATATCTT
*
53708 TTTAATTTGGAATATTAAAAAAGAT
1 TTTAATTTGCAATATTAAAAAAGAT
53733 GTTGATATCT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
31 2 0.04
32 9 0.18
33 12 0.24
34 3 0.06
35 12 0.24
36 9 0.18
37 2 0.04
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (36 bp):
TTTAATTTGCAATATTAAAAAAGATATAAATATCTT
Found at i:55222 original size:20 final size:20
Alignment explanation
Indices: 55173--55223 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
55163 CGATCTCTTG
* *
55173 GTAAAAGGATTGATCCCTTT
1 GTAAAAGGATTGACCCCATT
55193 G-ACCAAAGGATTGACCCCATT
1 GTA--AAAGGATTGACCCCATT
55214 GTAAAAGGAT
1 GTAAAAGGAT
55224 CAATCCCTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 1 0.04
20 8 0.31
21 16 0.62
22 1 0.04
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (20 bp):
GTAAAAGGATTGACCCCATT
Found at i:55295 original size:21 final size:21
Alignment explanation
Indices: 55250--55324 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
55240 AGAAAGTTTG
*
55250 GGATCGATCTCTTCA-CAAAA
1 GGATCGATCCCTTCACCAAAA
*
55270 TGATCGATCCCTTCACCAAAA
1 GGATCGATCCCTTCACCAAAA
* *
55291 GGATCGATTCCTTC-CCTTAAA
1 GGATCGATCCCTTCACC-AAAA
*
55312 GGATCAATCCCTT
1 GGATCGATCCCTT
55325 TCTTGCAGCG
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
20 15 0.33
21 31 0.67
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.28
Consensus pattern (21 bp):
GGATCGATCCCTTCACCAAAA
Found at i:55415 original size:41 final size:41
Alignment explanation
Indices: 55313--55432 Score: 146
Period size: 35 Copynumber: 3.1 Consensus size: 41
55303 TCCCTTAAAG
* *
55313 GATCAATCCCTTTCTTGCAGCGGCCAAATTATTTG--AAAC
1 GATCAATCCCTTTCTTGCAACGGTCAAATTATTTGAAAAAC
* *
55352 GAT-AA---CTTTCTTGCAACAGTCAAATTATTTGAAAAAT
1 GATCAATCCCTTTCTTGCAACGGTCAAATTATTTGAAAAAC
*
55389 GATCAATCCCTTTCTTGCAACGGTC-AATTATTTGAAAAAG
1 GATCAATCCCTTTCTTGCAACGGTCAAATTATTTGAAAAAC
55429 GATC
1 GATC
55433 GATATCTTGT
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
35 23 0.33
37 6 0.09
38 4 0.06
39 3 0.04
40 18 0.26
41 15 0.22
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (41 bp):
GATCAATCCCTTTCTTGCAACGGTCAAATTATTTGAAAAAC
Found at i:58528 original size:59 final size:60
Alignment explanation
Indices: 58423--58542 Score: 138
Period size: 59 Copynumber: 2.0 Consensus size: 60
58413 CTCAAGGAAT
* * *
58423 AAATTCAAAGATTTAATTTCTTTTACAAAACAAAATCATATAAGA-TTCTATGAAAATAA
1 AAATTCAAAGATTTAATTTCTTTTACAAAACAAAATAATATAAGATTTCCAAGAAAATAA
** * *
58482 AAATTCAACA-ATTT-ATTTCTTTCTACAAAATGAAATAATTTTAGATTTCCAAGAAAATAA
1 AAATTCAA-AGATTTAATTTCTTT-TACAAAACAAAATAATATAAGATTTCCAAGAAAATAA
58542 A
1 A
58543 TTTGACGATT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
58 8 0.16
59 29 0.57
60 14 0.27
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.35
Consensus pattern (60 bp):
AAATTCAAAGATTTAATTTCTTTTACAAAACAAAATAATATAAGATTTCCAAGAAAATAA
Found at i:58628 original size:57 final size:55
Alignment explanation
Indices: 58358--58674 Score: 207
Period size: 57 Copynumber: 5.5 Consensus size: 55
58348 TATCAATTTG
* * **
58358 TAAGAAATAAATTCAACGATTTATTTCTTTTTACAAAATAGAATCA-TACTTTATT-C
1 TAAGAAAAAAATTCAACGATTTATTT-TTTTCACAAAATAGAATCATTA--AGATTCC
* * * * *
58414 TCAAGGAATAAATTCAAAGATTTAATTTCTTTT-ACAAAACAAAATCATATAAGATT-C
1 T-AAGAAAAAAATTCAACGATTT-ATTT-TTTTCACAAAATAGAATCAT-TAAGATTCC
* * * * *
58471 TATGAAAATAAAAATTCAACAATTTATTTCTTTCTACAAAAT-GAAATAATTTTAGATTTCC
1 TA--AGAA-AAAAATTCAACGATTTATTTTTTTC-ACAAAATAG-AATCA-TTAAGA-TTCC
**
58532 -AAGAAAATAAATTTGACGATTTATTTTCCTTT-ACAAAATAGAATCATTCAAGATTCC
1 TAAGAAAA-AAATTCAACGATTTATTTT--TTTCACAAAATAGAATCATT-AAGATTCC
* *
58589 TAAGAAAAAAATTCAACGATTTATTTTTCTTCGCAAAATAGAATCACTTAAGGTTCC
1 TAAGAAAAAAATTCAACGATTTATTTTT-TTCACAAAATAGAATCA-TTAAGATTCC
* **
58646 TAAGAAACTAAATTCAATAATTTATTTTT
1 TAAGAAA-AAAATTCAACGATTTATTTTT
58675 CCTATAAAGT
Statistics
Matches: 208, Mismatches: 30, Indels: 44
0.74 0.11 0.16
Matches are distributed among these distances:
55 1 0.00
56 4 0.02
57 91 0.44
58 74 0.36
59 30 0.14
60 7 0.03
61 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (55 bp):
TAAGAAAAAAATTCAACGATTTATTTTTTTCACAAAATAGAATCATTAAGATTCC
Found at i:58689 original size:58 final size:57
Alignment explanation
Indices: 58550--58735 Score: 164
Period size: 58 Copynumber: 3.2 Consensus size: 57
58540 AAATTTGACG
* * **
58550 ATTTA-TTTTCCTTTACAAAATAGAATCA-TTCAAGATTCCTAAGAAAAAAATTCAACG
1 ATTTATTTTTCC-TCACAAAATAGAATCACTT-AAGATTCCTAAGAAATAAATTCAATA
* * *
58607 ATTTATTTTTCTTCGCAAAATAGAATCACTTAAGGTTCCTAAGAAACTAAATTCAATA
1 ATTTATTTTTCCTCACAAAATAGAATCACTTAAGATTCCTAAGAAA-TAAATTCAATA
* * * **
58665 ATTTATTTTTCCT-ATAAAGTTAGAAGCAACGCAAGATT-CTAAGGTGAAATAAATTCAATA
1 ATTTATTTTTCCTCACAAA-ATAGAATC-ACTTAAGATTCCTAA---GAAATAAATTCAATA
58725 ATTTATTTTTC
1 ATTTATTTTTC
58736 TTTTTCAGCG
Statistics
Matches: 106, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
57 36 0.34
58 37 0.35
59 7 0.07
60 22 0.21
61 4 0.04
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (57 bp):
ATTTATTTTTCCTCACAAAATAGAATCACTTAAGATTCCTAAGAAATAAATTCAATA
Found at i:62568 original size:3 final size:3
Alignment explanation
Indices: 62554--62598 Score: 81
Period size: 3 Copynumber: 14.7 Consensus size: 3
62544 AGTGACATAT
62554 TTA TTA TATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
62599 TACAAAGCCG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:67410 original size:64 final size:64
Alignment explanation
Indices: 67361--67484 Score: 180
Period size: 64 Copynumber: 1.9 Consensus size: 64
67351 TGCACTAAGA
* * * *
67361 GTGCATCGATGCATAAAATGCATTCGATGTTTT-A-AACAAGCCTGAGTGCATCGATGCATGGTA
1 GTGCATCGACGCATAAAATGCAATCAATGTTTTCATAA-AA-CCTGAGTGCATCGATGCATAGTA
67424 T
64 T
67425 GTGCATCGACGCATAAAATGCAATCAATGTTTTCATAAAACCTGAGTGCATCGATGCATA
1 GTGCATCGACGCATAAAATGCAATCAATGTTTTCATAAAACCTGAGTGCATCGATGCATA
67485 AAATGCATTC
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
64 49 0.91
65 3 0.06
66 2 0.04
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (64 bp):
GTGCATCGACGCATAAAATGCAATCAATGTTTTCATAAAACCTGAGTGCATCGATGCATAGTAT
Found at i:68515 original size:20 final size:20
Alignment explanation
Indices: 68487--68647 Score: 170
Period size: 20 Copynumber: 8.2 Consensus size: 20
68477 TTTAGAAAAT
* * *
68487 TAAAACCTCAAGGTCATTTA
1 TAAAGCCTCAAGGTAATTTG
**
68507 TAAAGCCTCCGGGTAATTTG
1 TAAAGCCTCAAGGTAATTTG
*
68527 TAAAGCCTTC-GGGTAATTTG
1 TAAAGCC-TCAAGGTAATTTG
68547 TAAAGCCTCAAGGTAATTTG
1 TAAAGCCTCAAGGTAATTTG
68567 TAAAGCCTCAAGGTAATTTG
1 TAAAGCCTCAAGGTAATTTG
*
68587 TAAAGCCTCAAGGTCATTT-
1 TAAAGCCTCAAGGTAATTTG
* * *
68606 T-AAGCCTCCATGTCATTTG
1 TAAAGCCTCAAGGTAATTTG
*
68625 TAAAACCTTC--GGTAATTTG
1 TAAAGCC-TCAAGGTAATTTG
68644 TAAA
1 TAAA
68648 ATCTTCGAGT
Statistics
Matches: 124, Mismatches: 12, Indels: 11
0.84 0.08 0.07
Matches are distributed among these distances:
18 15 0.12
19 15 0.12
20 90 0.73
21 4 0.03
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (20 bp):
TAAAGCCTCAAGGTAATTTG
Found at i:68562 original size:40 final size:40
Alignment explanation
Indices: 68497--68667 Score: 165
Period size: 40 Copynumber: 4.3 Consensus size: 40
68487 TAAAACCTCA
* * **
68497 AGGTCATTTATAAAGCCTCCGGGTAATTTGTAAAGCCTTC
1 AGGTAATTTGTAAAGCCTCAAGGTAATTTGTAAAGCCTTC
*
68537 GGGTAATTTGTAAAGCCTCAAGGTAATTTGTAAAGCC-TC
1 AGGTAATTTGTAAAGCCTCAAGGTAATTTGTAAAGCCTTC
* *
68576 AAGGTAATTTGTAAAGCCTCAAGGTCATTT-T-AAGCCTCC
1 -AGGTAATTTGTAAAGCCTCAAGGTAATTTGTAAAGCCTTC
* * * **
68615 ATGTCATTTGTAAAACCTTC--GGTAATTTGTAAAATCTTC
1 AGGTAATTTGTAAAGCC-TCAAGGTAATTTGTAAAGCCTTC
68654 -GAGTAATTTGTAAA
1 AG-GTAATTTGTAAA
68668 TCGTTCGGGT
Statistics
Matches: 108, Mismatches: 17, Indels: 13
0.78 0.12 0.09
Matches are distributed among these distances:
37 7 0.06
38 20 0.19
39 22 0.20
40 59 0.55
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (40 bp):
AGGTAATTTGTAAAGCCTCAAGGTAATTTGTAAAGCCTTC
Found at i:68585 original size:60 final size:58
Alignment explanation
Indices: 68487--68667 Score: 188
Period size: 60 Copynumber: 3.1 Consensus size: 58
68477 TTTAGAAAAT
* *
68487 TAAAACCTCAAGGTCATTTATAAAGCCTCCGGGTAATTTGTAAAGCCTTCGGGTAATTTG
1 TAAAGCCTCAAGGTCATTTGTAAAGCCT-C-GGTAATTTGTAAAGCCTTCGGGTAATTTG
* * *
68547 TAAAGCCTCAAGGTAATTTGTAAAGCCTCAAGGTAATTTGTAAAGCC-TCAAGGTCATTT-
1 TAAAGCCTCAAGGTCATTTGTAAAGCCTC--GGTAATTTGTAAAGCCTTC-GGGTAATTTG
* * * ** *
68606 T-AAGCCTCCATGTCATTTGTAAAACCTTCGGTAATTTGTAAAATCTTCGAGTAATTTG
1 TAAAGCCTCAAGGTCATTTGTAAAGCC-TCGGTAATTTGTAAAGCCTTCGGGTAATTTG
68664 TAAA
1 TAAA
68668 TCGTTCGGGT
Statistics
Matches: 100, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
57 20 0.20
58 24 0.24
59 8 0.08
60 48 0.48
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (58 bp):
TAAAGCCTCAAGGTCATTTGTAAAGCCTCGGTAATTTGTAAAGCCTTCGGGTAATTTG
Found at i:68661 original size:20 final size:19
Alignment explanation
Indices: 68518--68667 Score: 94
Period size: 20 Copynumber: 7.7 Consensus size: 19
68508 AAAGCCTCCG
*
68518 GGTAATTTGTAAAGCCTTC
1 GGTAATTTGTAAAACCTTC
*
68537 GGGTAATTTGTAAAGCC-TC
1 -GGTAATTTGTAAAACCTTC
*
68556 AAGGTAATTTGTAAAGCC-TC
1 --GGTAATTTGTAAAACCTTC
*
68576 AAGGTAATTTGTAAAGCC-TC
1 --GGTAATTTGTAAAACCTTC
* * *
68596 AAGGTCATTT-T-AAGCCTCC
1 --GGTAATTTGTAAAACCTTC
* *
68615 ATGTCATTTGTAAAACCTTC
1 -GGTAATTTGTAAAACCTTC
*
68635 GGTAATTTGTAAAATCTTC
1 GGTAATTTGTAAAACCTTC
68654 GAGTAATTTGTAAA
1 G-GTAATTTGTAAA
68668 TCGTTCGGGT
Statistics
Matches: 116, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
18 13 0.11
19 22 0.19
20 81 0.70
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (19 bp):
GGTAATTTGTAAAACCTTC
Found at i:68669 original size:19 final size:19
Alignment explanation
Indices: 68620--68667 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
68610 CCTCCATGTC
*
68620 ATTTGTAAAACCTTCGGTA
1 ATTTGTAAAATCTTCGGTA
68639 ATTTGTAAAATCTTCGAGTA
1 ATTTGTAAAATCTTCG-GTA
68659 ATTTGTAAA
1 ATTTGTAAA
68668 TCGTTCGGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (19 bp):
ATTTGTAAAATCTTCGGTA
Found at i:68674 original size:20 final size:18
Alignment explanation
Indices: 68620--68675 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
68610 CCTCCATGTC
*
68620 ATTTGTAAAACCTTCGGTA
1 ATTTGT-AAATCTTCGGTA
68639 ATTTGTAAAATCTTCGAGTA
1 ATTTGT-AAATCTTCG-GTA
68659 ATTTGTAAATCGTTCGG
1 ATTTGTAAATC-TTCGG
68676 GTCATCTGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 21 0.62
20 13 0.38
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.39
Consensus pattern (18 bp):
ATTTGTAAATCTTCGGTA
Found at i:68824 original size:36 final size:39
Alignment explanation
Indices: 68761--68874 Score: 119
Period size: 36 Copynumber: 2.8 Consensus size: 39
68751 GGAAACAAAT
*
68761 CAAACTCGAATCTGATCTTCACGGAAGAGTAGTGAAGTCATT-
1 CAAACTCGAATC---TCTTCACAGAAGAGTAGTGAAGT-ATTC
68803 CAAACTC-AA-C-CTTCACAGAAGAGTAGTGAAGTATTC
1 CAAACTCGAATCTCTTCACAGAAGAGTAGTGAAGTATTC
*
68839 CAACCTCGAATCTGATCTTCACAGAAGAGTAGTGAA
1 CAAACTCGAATC---TCTTCACAGAAGAGTAGTGAA
68875 ATAGATTCTT
Statistics
Matches: 63, Mismatches: 2, Indels: 14
0.80 0.03 0.18
Matches are distributed among these distances:
35 3 0.05
36 27 0.43
37 2 0.03
38 1 0.02
40 1 0.02
41 2 0.03
42 27 0.43
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (39 bp):
CAAACTCGAATCTCTTCACAGAAGAGTAGTGAAGTATTC
Found at i:68872 original size:42 final size:42
Alignment explanation
Indices: 68760--68874 Score: 154
Period size: 42 Copynumber: 2.9 Consensus size: 42
68750 TGGAAACAAA
*
68760 TCAAACTCGAATCTGATCTTCACGGAAGAGTAGTGAAGTCAT
1 TCAAACTCGAATCTGATCTTCACAGAAGAGTAGTGAAGTCAT
68802 TCAAACTC-AA-C----CTTCACAGAAGAGTAGTGAAGT-AT
1 TCAAACTCGAATCTGATCTTCACAGAAGAGTAGTGAAGTCAT
*
68837 TCCAACCTCGAATCTGATCTTCACAGAAGAGTAGTGAA
1 T-CAAACTCGAATCTGATCTTCACAGAAGAGTAGTGAA
68875 ATAGATTCTT
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
35 3 0.05
36 27 0.42
37 2 0.03
38 1 0.02
40 1 0.02
41 2 0.03
42 28 0.44
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (42 bp):
TCAAACTCGAATCTGATCTTCACAGAAGAGTAGTGAAGTCAT
Found at i:69128 original size:18 final size:18
Alignment explanation
Indices: 69105--69146 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
69095 AATGATGTAT
69105 TTATTATAT-ATAATAATA
1 TTATTATATGAT-ATAATA
*
69123 TTATTATATGATATATTA
1 TTATTATATGATATAATA
69141 TTATTA
1 TTATTA
69147 CTATTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
TTATTATATGATATAATA
Found at i:69142 original size:15 final size:16
Alignment explanation
Indices: 69106--69157 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 16
69096 ATGATGTATT
69106 TATTA-TATATAATAA
1 TATTATTATATAATAA
*
69121 TATTATTATATGAT-A
1 TATTATTATATAATAA
* *
69136 TATTATTAT-TACTAT
1 TATTATTATATAATAA
69151 TATTATT
1 TATTATT
69158 TACAAAGTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.06
15 22 0.71
16 7 0.23
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (16 bp):
TATTATTATATAATAA
Found at i:70450 original size:19 final size:19
Alignment explanation
Indices: 70426--70466 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
70416 TTAATTACAC
*
70426 TATTAGTACTTA-TATTTTA
1 TATTAGTA-TTATTAATTTA
70445 TATTAGTATTATTAATTTA
1 TATTAGTATTATTAATTTA
70464 TAT
1 TAT
70467 ATTATGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (19 bp):
TATTAGTATTATTAATTTA
Found at i:72283 original size:29 final size:29
Alignment explanation
Indices: 72240--72322 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
72230 CTCACCTAAC
*
72240 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
72270 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
72299 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
72323 ATTTAGTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 45 0.92
30 4 0.08
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:75867 original size:12 final size:12
Alignment explanation
Indices: 75850--75892 Score: 68
Period size: 12 Copynumber: 3.5 Consensus size: 12
75840 CAGTAAACTC
75850 ATGCTTCTTCTT
1 ATGCTTCTTCTT
75862 ATGCTTCTTCTT
1 ATGCTTCTTCTT
*
75874 ATGCTTCTTTCGT
1 ATGCTTC-TTCTT
75887 ATGCTT
1 ATGCTT
75893 GCAATGATCC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
12 19 0.66
13 10 0.34
ACGTcount: A:0.09, C:0.23, G:0.12, T:0.56
Consensus pattern (12 bp):
ATGCTTCTTCTT
Found at i:77043 original size:29 final size:29
Alignment explanation
Indices: 77000--77082 Score: 121
Period size: 29 Copynumber: 2.8 Consensus size: 29
76990 CTCACCTAAC
* *
77000 TAAATTGATATAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
77030 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
77059 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
77083 ATTTAGTTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 44 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:78254 original size:11 final size:11
Alignment explanation
Indices: 78165--78263 Score: 74
Period size: 11 Copynumber: 8.7 Consensus size: 11
78155 ATAAATTTCG
*
78165 TTTTATATTTA
1 TTTTATTTTTA
*
78176 ATTTATTTTTA
1 TTTTATTTTTA
*
78187 TTCTATTTTTA
1 TTTTATTTTTA
* *
78198 TTTTAATGTTA
1 TTTTATTTTTA
*
78209 TTTTAATTTTA
1 TTTTATTTTTA
*
78220 TTTAATTTAATTTA
1 TTTTA-TT--TTTA
* *
78234 TCTCATTTTTA
1 TTTTATTTTTA
78245 TTTT-TATTTTA
1 TTTTAT-TTTTA
78256 TTTTATTT
1 TTTTATTT
78264 CTACTAACTT
Statistics
Matches: 69, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
10 1 0.01
11 57 0.83
12 2 0.03
13 2 0.03
14 7 0.10
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:78277 original size:21 final size:21
Alignment explanation
Indices: 78251--78302 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
78241 TTTATTTTTA
78251 TTTTATTTTATTTCTACTAAC
1 TTTTATTTTATTTCTACTAAC
78272 TTTTATTTTATTTCTACTAAC
1 TTTTATTTTATTTCTACTAAC
78293 TTTTATTTTA
1 TTTTATTTTA
78303 ATCACTTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTATTTTATTTCTACTAAC
Found at i:78281 original size:31 final size:30
Alignment explanation
Indices: 78209--78284 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 30
78199 TTTAATGTTA
* *
78209 TTTTAATTTTATTTAATTTAATTTATCTCAT
1 TTTT-ATTTTATTTAATTTAATTTATCTAAC
* * *
78240 TTTTATTTTTATTTTATTTTATTTCTACTAAC
1 TTTTA-TTTTATTTAATTTAATTTAT-CTAAC
78272 TTTTATTTTATTT
1 TTTTATTTTATTT
78285 CTACTAACTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
30 1 0.03
31 29 0.76
32 8 0.21
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.70
Consensus pattern (30 bp):
TTTTATTTTATTTAATTTAATTTATCTAAC
Found at i:78283 original size:5 final size:5
Alignment explanation
Indices: 78165--78263 Score: 65
Period size: 5 Copynumber: 18.6 Consensus size: 5
78155 ATAAATTTCG
* * *
78165 TTTTA TATTTA ATTTA TTTTTA TTCTA TTTTTA TTTTAA TGTTA TTTTAA
1 TTTTA T-TTTA TTTTA -TTTTA TTTTA -TTTTA TTTT-A TTTTA TTTT-A
* * * *
78215 TTTTA -TTTA ATTTA ATTTA TCTCA TTTTTA TTTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA -TTTTA TTTTA TTTTA TTT
78264 CTACTAACTT
Statistics
Matches: 76, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
4 4 0.05
5 42 0.55
6 30 0.39
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (5 bp):
TTTTA
Found at i:79006 original size:17 final size:14
Alignment explanation
Indices: 78969--79012 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 14
78959 AAAAACCGAT
78969 AAACCGAACCGAAA
1 AAACCGAACCGAAA
*
78983 AACCCGAACCGTTAAAA
1 AAACCGAACCG---AAA
79000 AAACCGAACCGAA
1 AAACCGAACCGAA
79013 CCGAAAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 12 0.48
17 13 0.52
ACGTcount: A:0.52, C:0.30, G:0.14, T:0.05
Consensus pattern (14 bp):
AAACCGAACCGAAA
Found at i:97239 original size:13 final size:13
Alignment explanation
Indices: 97221--97251 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
97211 TGAAATGTTA
97221 TTCCTTAGTTAAT
1 TTCCTTAGTTAAT
97234 TTCCTTAGTTAAT
1 TTCCTTAGTTAAT
97247 TTCCT
1 TTCCT
97252 GCACATACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.55
Consensus pattern (13 bp):
TTCCTTAGTTAAT
Found at i:107042 original size:14 final size:14
Alignment explanation
Indices: 107023--107059 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
107013 GTTTTGATAA
107023 TGTTAAATGTTACT
1 TGTTAAATGTTACT
*
107037 TGTTAAACGTTACT
1 TGTTAAATGTTACT
*
107051 TGTCAAATG
1 TGTTAAATG
107060 CTCCAGTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (14 bp):
TGTTAAATGTTACT
Found at i:121488 original size:178 final size:178
Alignment explanation
Indices: 121189--121544 Score: 685
Period size: 178 Copynumber: 2.0 Consensus size: 178
121179 TAATTTTAAG
*
121189 AGTGAAAACGATAATATCTAATTATTTCCAATCAAGAATAAATAATCTTTCATGCATTAAAATAG
1 AGTGAAAACGATAATATCTAATTATTTCCAATCAAGAATAAATAATCTTTCATGCATTAAAACAG
121254 TCATTTGTTACCCCAATCGAAATAAAAATGTATTACTATTTCGTCTTAAAAATCGGTATTAATTC
66 TCATTTGTTACCCCAATCGAAATAAAAATGTATTACTATTTCGTCTTAAAAATCGGTATTAATTC
121319 AAGAGAAAACGACAATATCAAATTATTTCTAATCGATAATAAATGACC
131 AAGAGAAAACGACAATATCAAATTATTTCTAATCGATAATAAATGACC
*
121367 AGTGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATAATCTTTCATGCATTAAAACAG
1 AGTGAAAACGATAATATCTAATTATTTCCAATCAAGAATAAATAATCTTTCATGCATTAAAACAG
121432 TCATTTGTTACCCCAATCGAAATAAAAATGTATTACTATTTCGTCTTAAAAATCGGTATTAATTC
66 TCATTTGTTACCCCAATCGAAATAAAAATGTATTACTATTTCGTCTTAAAAATCGGTATTAATTC
*
121497 GAGAGAAAACGACAATATCAAATTATTTCTAATCGATAATAAATGACC
131 AAGAGAAAACGACAATATCAAATTATTTCTAATCGATAATAAATGACC
121545 TCTCATGCCT
Statistics
Matches: 175, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
178 175 1.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (178 bp):
AGTGAAAACGATAATATCTAATTATTTCCAATCAAGAATAAATAATCTTTCATGCATTAAAACAG
TCATTTGTTACCCCAATCGAAATAAAAATGTATTACTATTTCGTCTTAAAAATCGGTATTAATTC
AAGAGAAAACGACAATATCAAATTATTTCTAATCGATAATAAATGACC
Found at i:122978 original size:21 final size:20
Alignment explanation
Indices: 122953--123035 Score: 107
Period size: 20 Copynumber: 4.1 Consensus size: 20
122943 CCGTTAGATA
*
122953 GGGGGAATCTGTTCCCCCCTG
1 GGGGGAATCTG-TACCCCCTG
*
122974 GGGGGGATC-GATACCCCCTGG
1 GGGGGAATCTG-TACCCCCT-G
122995 GGGGGAATCTGTA-CCCCTG
1 GGGGGAATCTGTACCCCCTG
123014 GGGGGAATCTGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
123034 GG
1 GG
123036 CAATATGATT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
19 14 0.25
20 21 0.38
21 19 0.35
22 1 0.02
ACGTcount: A:0.13, C:0.29, G:0.39, T:0.19
Consensus pattern (20 bp):
GGGGGAATCTGTACCCCCTG
Found at i:126259 original size:20 final size:20
Alignment explanation
Indices: 126234--126354 Score: 174
Period size: 20 Copynumber: 6.1 Consensus size: 20
126224 CCGTTAGACA
*
126234 GGGGGAATCGGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
*
126254 GGGGGAAATCTGTTCCCCCTG
1 GGGGG-AATCTGTACCCCCTG
*
126275 GGGGGAATCGGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
**
126295 GGGGGAATCTGTTTCCCCTG
1 GGGGGAATCTGTACCCCCTG
126315 GGGGGAATCTGTA-CCCCT-
1 GGGGGAATCTGTACCCCCTG
126333 GGGGGAATCTGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
126353 GG
1 GG
126355 CAATCTGATT
Statistics
Matches: 90, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
18 13 0.14
19 10 0.11
20 49 0.54
21 18 0.20
ACGTcount: A:0.14, C:0.28, G:0.37, T:0.21
Consensus pattern (20 bp):
GGGGGAATCTGTACCCCCTG
Found at i:126290 original size:41 final size:40
Alignment explanation
Indices: 126234--126354 Score: 192
Period size: 40 Copynumber: 3.0 Consensus size: 40
126224 CCGTTAGACA
126234 GGGGGAATCGGTACCCCCTGGGGGGAAATCTGTTCCCCCTG
1 GGGGGAATCGGTACCCCCTGGGGGG-AATCTGTTCCCCCTG
*
126275 GGGGGAATCGGTACCCCCTGGGGGGAATCTGTTTCCCCTG
1 GGGGGAATCGGTACCCCCTGGGGGGAATCTGTTCCCCCTG
* *
126315 GGGGGAATCTGTA-CCCCT-GGGGGAATCTGTACCCCCTG
1 GGGGGAATCGGTACCCCCTGGGGGGAATCTGTTCCCCCTG
126353 GG
1 GG
126355 CAATCTGATT
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
38 20 0.26
39 5 0.07
40 26 0.34
41 25 0.33
ACGTcount: A:0.14, C:0.28, G:0.37, T:0.21
Consensus pattern (40 bp):
GGGGGAATCGGTACCCCCTGGGGGGAATCTGTTCCCCCTG
Found at i:128116 original size:134 final size:133
Alignment explanation
Indices: 127964--128436 Score: 531
Period size: 134 Copynumber: 3.5 Consensus size: 133
127954 GATCTGTTCC
* * * *
127964 TCTTCTTCTTGAGAGAAAATCAGATATGGGGACGTTGATTCATTCAACTGTCT-CTTAGGGAAGA
1 TCTTCTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCCACTGT-TACTCAGGGAAGA
* * * *
128028 TTGAATCGAGGCAGACTTGTTTCACTATAACTCAGGGAATATCAAATCATGAAATAGAGTGATTT
65 TTGAATCGAGGCAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGAAATAGAG-GATTT
128093 GTTTT
129 GTTTT
* * * *
128098 TCTTCTTCTTGAGGGAAAATTAGATCTAGGGACGTTGATTCATTCGACTGTTACTCAGGGATGAT
1 TCTTCTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCCACTGTTACTCAGGGAAGAT
* * * * * * * *
128163 TGAATCGAGGCAAACTTATTCCATTGTTACTTAGGGAACATCAAATCTTGGAAGAGAGGGTTCTG
66 TGAATCGAGGCAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGAAATAGAGGATT-TG
128228 TTTCAT
130 TTT--T
* *
128234 T-TTC-TCTTGAGGGAAAATCAAATCTGGGGACGTTGATTCATTCCACTGTTACTCAGAGAAGAT
1 TCTTCTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCCACTGTTACTCAGGGAAGAT
* * * * * * *
128297 TGAATCGAGGAAGACTTGTTCCACTGTTACTCAAGGAATATCAAATCTTAGAAGTGGGGGATCTA
66 TGAATCGAGGCAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTT-GAAATAGAGGATTTG
*
128362 TTTC
130 TTTT
* * * * * *
128366 ACTTCTTCTTGAGGGAGAATCAGATCTGGGGACGTCGATTAACTCCACAGTT-CTTCAGGGAAGA
1 TCTTCTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCCACTGTTAC-TCAGGGAAGA
128430 TTGAATC
65 TTGAATC
128437 AAGTTGATTC
Statistics
Matches: 282, Mismatches: 49, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
133 8 0.03
134 263 0.93
135 9 0.03
136 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (133 bp):
TCTTCTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCCACTGTTACTCAGGGAAGAT
TGAATCGAGGCAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGAAATAGAGGATTTGT
TTT
Found at i:129695 original size:18 final size:19
Alignment explanation
Indices: 129663--129706 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 19
129653 TTGTTTTTTC
129663 TTTTTCTTTTCTTTC-TTT
1 TTTTTCTTTTCTTTCATTT
129681 TTTTTCTTTAT-TTTCATTT
1 TTTTTCTTT-TCTTTCATTT
129700 TTCTTTC
1 TT-TTTC
129707 CATTTTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 13 0.57
19 6 0.26
20 4 0.17
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTCTTTTCTTTCATTT
Found at i:129713 original size:19 final size:18
Alignment explanation
Indices: 129691--129740 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
129681 TTTTTCTTTA
*
129691 TTTTCATTTTTCTTTCCAT
1 TTTTCATTTTTCATT-CAT
*
129710 TTTTCATTCTTTCATTCTT
1 TTTTCATT-TTTCATTCAT
*
129729 TTTTTATTTTTC
1 TTTTCATTTTTC
129741 CCTTTTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 4 0.15
19 17 0.63
20 6 0.22
ACGTcount: A:0.10, C:0.18, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTCATTTTTCATTCAT
Found at i:134562 original size:5 final size:5
Alignment explanation
Indices: 134552--134576 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
134542 ACAACACCTT
134552 AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA
134577 GAAAACCACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:135608 original size:59 final size:59
Alignment explanation
Indices: 135515--135632 Score: 184
Period size: 59 Copynumber: 2.0 Consensus size: 59
135505 CCTCTTCCAA
* * *
135515 CCTTGGCTCCCCTTCCCATAGTCATTTTCAGTTCCATTTT-AGTACAATCTAACAACTTG
1 CCTTGGCTCCCATTCCCAGAGTCATTTTCAGTTCCATTTTGA-TACAATATAACAACTTG
*
135574 CCTTGGCTCCCATTCCCAGAGTCATTTTCGGTTCCATTTTGATACAATATAACAACTTG
1 CCTTGGCTCCCATTCCCAGAGTCATTTTCAGTTCCATTTTGATACAATATAACAACTTG
135633 GGCCTTGAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
59 53 0.98
60 1 0.02
ACGTcount: A:0.23, C:0.29, G:0.12, T:0.36
Consensus pattern (59 bp):
CCTTGGCTCCCATTCCCAGAGTCATTTTCAGTTCCATTTTGATACAATATAACAACTTG
Found at i:136402 original size:17 final size:16
Alignment explanation
Indices: 136374--136413 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
136364 AACAAAAAAC
*
136374 ATTATGATATAATATAT
1 ATTAT-ATATAATAAAT
136391 ATATATATATAATAAAT
1 AT-TATATATAATAAAT
136408 ATTATA
1 ATTATA
136414 ACGAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 4 0.19
17 14 0.67
18 3 0.14
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
ATTATATATAATAAAT
Found at i:136451 original size:16 final size:16
Alignment explanation
Indices: 136430--136467 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
136420 AAAAATAATT
136430 TAATAAAGTAAAATAA
1 TAATAAAGTAAAATAA
* *
136446 TAATAATGTAATATAA
1 TAATAAAGTAAAATAA
136462 T-ATAAA
1 TAATAAA
136468 TACATGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAATAAAGTAAAATAA
Found at i:137987 original size:106 final size:107
Alignment explanation
Indices: 137767--138026 Score: 303
Period size: 106 Copynumber: 2.4 Consensus size: 107
137757 ATGCAGGTCT
** * * * *
137767 TGCTGT-TCCGAGTCCAATAT-CTTCTGTCGTGAAGTTGAAGTTGGTTCTGGAACTGGGAAATTG
1 TGCTGTCT-CGAGTCCAATATCCTTCAAT-GTGAAGTTGAAATTGGCTCCGAAACTGGGAAATTG
** *
137830 TTTTGTTGACAGTCAGACGTCCCTTCGTTGTGAAGTTAAACTTG
64 TTTTGTTGACAACCAGACGTCCATTCGTTGTGAAGTTAAACTTG
* *
137874 TGCTGTCTCGAGTCCAAT-GCTCTTCAATGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTG-
1 TGCTGTCTCGAGTCCAATATC-CTTCAATGTGAAGTTGAAATTGGCTCCGAAACTGGGAAATTGT
* * *
137937 TTTGTTGATAACCAGTCGTCCATTCGTTGTGAAGTTGAACTTG
65 TTTGTTGACAACCAGACGTCCATTCGTTGTGAAGTTAAACTTG
* * * *
137980 TGTTGTCTTGAGTCCAATATCCTTCACTGTAAAGTTGAAATTGGCTC
1 TGCTGTCTCGAGTCCAATATCCTTCAATGTGAAGTTGAAATTGGCTC
138027 TAGCTAAAAC
Statistics
Matches: 130, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
106 77 0.59
107 47 0.36
108 6 0.05
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.36
Consensus pattern (107 bp):
TGCTGTCTCGAGTCCAATATCCTTCAATGTGAAGTTGAAATTGGCTCCGAAACTGGGAAATTGTT
TTGTTGACAACCAGACGTCCATTCGTTGTGAAGTTAAACTTG
Found at i:138522 original size:67 final size:67
Alignment explanation
Indices: 138340--138532 Score: 251
Period size: 67 Copynumber: 2.8 Consensus size: 67
138330 GTCTTAAAAA
* * * * *
138340 AGACAGAATTCGTTTCAAGGGAAACAATCTTAAAGATATATGTTGTTTCATGAGAAACGGCCTCA
1 AGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGAT-TTTG-TGTTTCAAGAGAAACGGCCTCA
138405 AGGG
64 AGGG
* * * * *
138409 AGACAAAATTTTGTTTTAAGGGAAATAAACTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAA
1 AGACAAAA-TTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACGGCCTCAA
138474 GGG
65 GGG
* *
138477 AGACGAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTTGTGTTTCAAGAGAAAC
1 AGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAAC
138533 ATTTTCAAAG
Statistics
Matches: 108, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
67 44 0.41
68 30 0.28
69 10 0.09
70 24 0.22
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.28
Consensus pattern (67 bp):
AGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACGGCCTCAAG
GG
Found at i:138555 original size:33 final size:33
Alignment explanation
Indices: 138487--138600 Score: 169
Period size: 33 Copynumber: 3.5 Consensus size: 33
138477 AGACGAAATT
* *
138487 TGTTTCAAGGGAAACAATCTCAAAGG--TTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
*
138518 TGTTTCAAGAGAAACATTTTCAAAGGTTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
138551 TGTTTCAAGAGAAACAATTTCAAAGGTTATTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGG-T-TTTTTG
138586 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
138601 TGTATCAAGG
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
31 23 0.31
33 30 0.40
34 1 0.01
35 21 0.28
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (33 bp):
TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
Found at i:138682 original size:37 final size:36
Alignment explanation
Indices: 138641--138995 Score: 169
Period size: 36 Copynumber: 10.4 Consensus size: 36
138631 CAAGGATTGA
138641 TGTTTCAAGAGAAACTGTCTCAA-AGGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGA-GAGACAAAA-TT
* * *
138678 TGTTTTAAGAAAAACATGTCTTAAGAGAGACAAAATT
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATT
*
138715 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
138751 TGTTT-AATGTA-AAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAA-G-AGAAAC-TGTCTCAAGAGAGACAAAATT
* * *
138780 TGTTTCAAGGGAAACTGTTTTC-A-A-AG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
*
138809 ATGTTTCAATAGAAACTGTCTCAA-AGGAGACAAAATT
1 -TGTTTCAAGAGAAACTGTCTCAAGA-GAGACAAAATT
* *
138846 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
** * * * *
138882 CATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
* *
138910 ATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
138948 TGTTTCAAGGGAAACTATCTCAAGAGAGAC--AATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
138982 TATTTCAAGGGAAA
1 TGTTTCAAGAGAAA
138996 TGCTTTCAAT
Statistics
Matches: 251, Mismatches: 36, Indels: 65
0.71 0.10 0.18
Matches are distributed among these distances:
28 3 0.01
29 34 0.14
30 28 0.11
32 3 0.01
33 3 0.01
34 17 0.07
35 7 0.03
36 77 0.31
37 60 0.24
38 18 0.07
39 1 0.00
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.31
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:138805 original size:30 final size:30
Alignment explanation
Indices: 138769--138827 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
138759 GTAAAACATA
*
138769 TTCAAAGATTT-TGTTTCAAGGGAAACTGTT
1 TTCAAAG-TTTATGTTTCAAGAGAAACTGTT
*
138799 TTCAAAGTTTATGTTTCAATAGAAACTGT
1 TTCAAAGTTTATGTTTCAAGAGAAACTGT
138828 CTCAAAGGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (30 bp):
TTCAAAGTTTATGTTTCAAGAGAAACTGTT
Found at i:138993 original size:34 final size:36
Alignment explanation
Indices: 138913--138995 Score: 98
Period size: 37 Copynumber: 2.3 Consensus size: 36
138903 AATGTTTATG
* * * * *
138913 TTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTTG
1 TTTCAAGGGAAACTATCTCAAGAGAGAC-AAATTTTA
138950 TTTCAAGGGAAACTATCTCAAGAGAGAC-AA-TTTA
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAATTTTA
138984 TTTCAAGGGAAA
1 TTTCAAGGGAAA
138996 TGCTTTCAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
34 15 0.37
35 2 0.05
37 24 0.59
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (36 bp):
TTTCAAGGGAAACTATCTCAAGAGAGACAAATTTTA
Found at i:139018 original size:100 final size:101
Alignment explanation
Indices: 138782--139061 Score: 438
Period size: 100 Copynumber: 2.8 Consensus size: 101
138772 AAAGATTTTG
* * *
138782 TTTCAAGGGAAACTGTTTTCAAAGTTTATGTTTCAATAGAAACTGTCTCAAAGGAGACAAAA-TT
1 TTTCAAGGGAAA-TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
138846 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
65 TGTTTCAAGGGAAACTATCTCAAGAGAGAC-AAATTCA
*
138884 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
*
138949 GTTTCAAGGGAAACTATCTCAAGAGAGAC-AATTTA
66 GTTTCAAGGGAAACTATCTCAAGAGAGACAAATTCA
* * * *
138984 TTTCAAGGGAAATGCTTTCAATGTTTATATTTCAAGATAAACTATCTCAAGGGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
*
139049 GTTCCAAGGGAAA
66 GTTTCAAGGGAAA
139062 TGTTTTCAAT
Statistics
Matches: 166, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
100 77 0.46
101 45 0.27
102 44 0.27
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (101 bp):
TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
GTTTCAAGGGAAACTATCTCAAGAGAGACAAATTCA
Found at i:139083 original size:66 final size:65
Alignment explanation
Indices: 138948--139127 Score: 258
Period size: 66 Copynumber: 2.8 Consensus size: 65
138938 GACAAAATTT
* *
138948 TGTTTCAAGGGAAACTATCTCAAGAGAGAC--AATTTAT-TTCAAGGGAAATGCTTTCAATGTTT
1 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTT-TGTTCAAGGGAAATGCTTTCAATGTTT
139010 A
65 A
* * *
139011 TATTTCAAGATAAACTATCTCAAGGGAGACAAAATTTTGTTCCAAGGGAAATGTTTTCAATGTTT
1 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTT-CAAGGGAAATGCTTTCAATGTTT
139076 A
65 A
*
139077 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAA
1 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTG-TTCAAGGGAAA
139128 CTATCTCAAG
Statistics
Matches: 104, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
63 26 0.25
64 1 0.01
65 7 0.07
66 68 0.65
67 2 0.02
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (65 bp):
TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTTCAAGGGAAATGCTTTCAATGTTTA
Found at i:139083 original size:166 final size:166
Alignment explanation
Indices: 138848--139212 Score: 581
Period size: 166 Copynumber: 2.2 Consensus size: 166
138838 ACAAAATTTG
*
138848 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATG
1 TTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATG
*
138913 TTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
66 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
*
138978 -AATTTATTTCAAGGGAAATGCTTTCAATGTTTATA
131 AAATTCATTTCAAGGGAAATGCTTTCAATGTTTATA
* * *
139013 TTTCAAGATAAACTATCTCAAGGGAGACAAAATT-TTGTTCCAAGGGAAATGTTTTCAATGTTTA
1 TTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCAT-TT-CAAGGGAAATGTTTTCAATGTTTA
139077 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
64 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
* * *
139142 ACAAAATTCATTTCAAGGTAAATGTTTTCAATGTTTATG
129 AC-AAATTCATTTCAAGGGAAATGCTTTCAATGTTTATA
* * *
139181 TTTAAAGAGAAACTGTCTCAAGTGAGACAAAA
1 TTTCAAGAGAAACTATCTCAAGAGAGACAAAA
139213 CATTCTGTTT
Statistics
Matches: 183, Mismatches: 13, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
164 1 0.01
165 33 0.18
166 90 0.49
168 59 0.32
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.32
Consensus pattern (166 bp):
TTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATG
TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
AAATTCATTTCAAGGGAAATGCTTTCAATGTTTATA
Found at i:139128 original size:37 final size:37
Alignment explanation
Indices: 139077--139149 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
139067 TCAATGTTTA
* *
139077 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
*
139114 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
139150 CATTTCAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
Found at i:139190 original size:102 final size:105
Alignment explanation
Indices: 139013--139252 Score: 344
Period size: 102 Copynumber: 2.3 Consensus size: 105
139003 AATGTTTATA
** * *
139013 TTTCAAGATAAACTATCTCAAGGGAGACAAAATTTTGTTCCAAGGGAAATGTTTTCAATGTTTAT
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTATGTTCCAAGGGAAATGTTTTCAATGTTTAT
* *
139078 GTTTCAAGAGAAACTGTCTCAAGGGAGAC-AAA-ATTTTG
66 GTTTAAAGAGAAACTGTCTCAAGGGAGACAAAACATTCTG
*
139116 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT-TT-CAAGGTAAATGTTTTCAATGTTTA
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATT-ATGTTCCAAGGGAAATGTTTTCAATGTTTA
*
139179 TGTTTAAAGAGAAACTGTCTCAAGTGAGACAAAACATTCTG
65 TGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAACATTCTG
* * *
139220 TTTCGAGGGAAACTATCTCAAGCGAGATAAAAT
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAAT
139253 CTTGTTTTAA
Statistics
Matches: 123, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
102 51 0.41
103 36 0.29
104 36 0.29
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (105 bp):
TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTATGTTCCAAGGGAAATGTTTTCAATGTTTAT
GTTTAAAGAGAAACTGTCTCAAGGGAGACAAAACATTCTG
Found at i:140757 original size:183 final size:183
Alignment explanation
Indices: 140449--140798 Score: 637
Period size: 183 Copynumber: 1.9 Consensus size: 183
140439 GGTTTAACTA
140449 AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
1 AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
* **
140514 AGTGTCCGAGCAATGTCATTCTTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
66 AGTGTCCGAGCAATGTCATACTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
*
140579 CTATTACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCACTG
131 CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCACTG
*
140632 AAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
1 AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
* *
140697 AGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
66 AGTGTCCGAGCAATGTCATACTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
140762 CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
131 CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
140799 CAGTTTTAAT
Statistics
Matches: 160, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 160 1.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (183 bp):
AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
AGTGTCCGAGCAATGTCATACTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCACTG
Found at i:145016 original size:2 final size:2
Alignment explanation
Indices: 145006--145053 Score: 66
Period size: 2 Copynumber: 25.5 Consensus size: 2
144996 AAACATTATG
*
145006 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
145046 AT AT -T AT A
1 AT AT AT AT A
145054 ACGAAAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
1 3 0.07
2 38 0.93
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:145090 original size:16 final size:16
Alignment explanation
Indices: 145069--145106 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
145059 AAAAATAATT
145069 TAATAAAGTAAAATAA
1 TAATAAAGTAAAATAA
* *
145085 TAATAATGTAATATAA
1 TAATAAAGTAAAATAA
145101 T-ATAAA
1 TAATAAA
145107 TACATGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAATAAAGTAAAATAA
Found at i:148795 original size:11 final size:11
Alignment explanation
Indices: 148775--148808 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
148765 TGCGAAAAAA
148775 GTAAATGCAAT
1 GTAAATGCAAT
**
148786 GTGGATGCAAT
1 GTAAATGCAAT
148797 GTAAATGCAAT
1 GTAAATGCAAT
148808 G
1 G
148809 CAAGCTGTTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.26
Consensus pattern (11 bp):
GTAAATGCAAT
Found at i:149798 original size:131 final size:131
Alignment explanation
Indices: 149637--150002 Score: 414
Period size: 131 Copynumber: 2.8 Consensus size: 131
149627 AATTTTAAGA
* * *
149637 GTGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGACCTTTCG-GTCGTTAAAATAG
1 GTGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGACCTTTCGTG-CATTAAAACAA
149701 TCATTTATTACCCCAATCGAAATAAAGAA-ATATTACTATTTCGTCTTAAAATTCAATATTGATT
65 TCATTTATTACCCCAATCGAAATAAA-AAGATATTACTATTTCGTCTTAAAATTCAATATTGATT
149765 CAT
129 CAT
*
149768 GTGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTTTCGTGCATTAAAACAAT
1 GTGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGACCTTTCGTGCATTAAAACAAT
* * * * *** *
149833 CATTTGTTACCCCAATTGAAATAAAAAGATATTACTATTTCGTCTTAAAAATCGATAAAAATTTG
66 CATTTATTACCCCAATCGAAATAAAAAGATATTACTATTTCGTCTTAAAATTCAATATTGA-TTC
*
149898 AA
130 AT
* *** * * * * * * * *
149900 AT-AAAACGGCAATATCAAATTATTTCCAATCGAGAATACATGACATCTCATGCCTTAAAGCAGT
1 GTGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGACCTTTCGTGCATTAAAACAAT
* * * * *
149964 CATTTATTACTCCGACCAAAATGAAAAGATATTACTATT
66 CATTTATTACCCCAATCGAAATAAAAAGATATTACTATT
150003 CTCAAAATCG
Statistics
Matches: 201, Mismatches: 31, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
130 2 0.01
131 194 0.97
132 5 0.02
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (131 bp):
GTGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGACCTTTCGTGCATTAAAACAAT
CATTTATTACCCCAATCGAAATAAAAAGATATTACTATTTCGTCTTAAAATTCAATATTGATTCA
T
Found at i:151434 original size:2 final size:2
Alignment explanation
Indices: 151429--151456 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
151419 TGTTTCGAAC
151429 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
151457 ATACCTTTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:152046 original size:18 final size:17
Alignment explanation
Indices: 152021--152089 Score: 60
Period size: 15 Copynumber: 4.3 Consensus size: 17
152011 AAAAATGTAC
152021 TTATTAATAAT-AT-TA
1 TTATTAATAATAATATA
152036 TTATTAATAATAATGATA
1 TTATTAATAATAAT-ATA
* *
152054 TTAATAATACTAATA-A
1 TTATTAATAATAATATA
152070 -TA-TAAT-ATAATATTA
1 TTATTAATAATAATA-TA
152085 TTATT
1 TTATT
152090 TAACGGGATG
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
13 5 0.11
14 4 0.09
15 14 0.32
16 5 0.11
17 2 0.05
18 14 0.32
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (17 bp):
TTATTAATAATAATATA
Found at i:153204 original size:9 final size:9
Alignment explanation
Indices: 153189--153319 Score: 117
Period size: 9 Copynumber: 14.6 Consensus size: 9
153179 ACTACAGTTG
153189 AAAAAAAA-
1 AAAAAAAAT
* *
153197 AGAAAAAAG
1 AAAAAAAAT
153206 AAGAAAAATAT
1 AA-AAAAA-AT
*
153217 AAAAAATAT
1 AAAAAAAAT
* *
153226 ATAAAAAAG
1 AAAAAAAAT
* *
153235 AAGAAAGA-
1 AAAAAAAAT
**
153243 AGCAAAAAT
1 AAAAAAAAT
153252 AAAAAAAAT
1 AAAAAAAAT
153261 AAAAAAAAAT
1 -AAAAAAAAT
153271 AAAAAAAA-
1 AAAAAAAAT
153279 ATAAAAAAAT
1 A-AAAAAAAT
153289 -AAAAAAAT
1 AAAAAAAAT
153297 AAAAAAAAT
1 AAAAAAAAT
153306 AAAAAAAAT
1 AAAAAAAAT
153315 AAAAA
1 AAAAA
153320 GGAAAAATAT
Statistics
Matches: 100, Mismatches: 15, Indels: 15
0.77 0.12 0.12
Matches are distributed among these distances:
8 21 0.21
9 58 0.58
10 18 0.18
11 3 0.03
ACGTcount: A:0.84, C:0.01, G:0.05, T:0.10
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:153235 original size:26 final size:26
Alignment explanation
Indices: 153190--153319 Score: 102
Period size: 26 Copynumber: 4.9 Consensus size: 26
153180 CTACAGTTGA
* * *
153190 AAAAAAAAGAAAAAAGAAGAAAAATAT
1 AAAAAATATAAAAAA-AAGAAAAAAAT
* *
153217 AAAAAATATATAAAAAAGAAGAAAGAAG
1 AAAAAATATAAAAAAAAGAA-AAA-AAT
* *
153245 CAAAAATA-AAAAAAATAAAAAAAAAT
1 AAAAAATATAAAAAAA-AGAAAAAAAT
* *
153271 AAAAAA-AAATAAAAAAATAAAAAAAT
1 AAAAAATATA-AAAAAAAGAAAAAAAT
* *
153297 AAAAAAAATAAAAAAAATAAAAA
1 AAAAAATATAAAAAAAAGAAAAA
153320 GGAAAAATAT
Statistics
Matches: 85, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
25 1 0.01
26 41 0.48
27 32 0.38
28 11 0.13
ACGTcount: A:0.84, C:0.01, G:0.05, T:0.10
Consensus pattern (26 bp):
AAAAAATATAAAAAAAAGAAAAAAAT
Found at i:153242 original size:36 final size:36
Alignment explanation
Indices: 153190--153319 Score: 149
Period size: 36 Copynumber: 3.7 Consensus size: 36
153180 CTACAGTTGA
153190 AAAAAAAAGAAAAAAGAAGAAAAATATAAAAAATAT
1 AAAAAAAAGAAAAAAGAAGAAAAATATAAAAAATAT
* * *
153226 ATAAAAAAGAAGAAAGAAGCAAAAATAAAAAAAATA-
1 AAAAAAAAGAAAAAAGAAG-AAAAATATAAAAAATAT
* * * *
153262 AAAAAAAATAAAAAAAAATAAAAAAATAAAAAA-AT
1 AAAAAAAAGAAAAAAGAAGAAAAATATAAAAAATAT
* *
153297 AAAAAAAATAAAAAA-AATAAAAA
1 AAAAAAAAGAAAAAAGAAGAAAAA
153320 GGAAAAATAT
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
34 9 0.11
35 27 0.33
36 31 0.38
37 15 0.18
ACGTcount: A:0.84, C:0.01, G:0.05, T:0.10
Consensus pattern (36 bp):
AAAAAAAAGAAAAAAGAAGAAAAATATAAAAAATAT
Found at i:153338 original size:26 final size:23
Alignment explanation
Indices: 153247--153339 Score: 93
Period size: 24 Copynumber: 4.0 Consensus size: 23
153237 GAAAGAAGCA
153247 AAAATAAAAAAAATAAAAAAAAAT
1 AAAA-AAAAAAAATAAAAAAAAAT
*
153271 AAAAAAAAATAAA-AAAATAAAA-
1 AAAAAAAAA-AAATAAAAAAAAAT
*
153293 AAATAAAAAAAAT-AAAAAAAAT
1 AAAAAAAAAAAATAAAAAAAAAT
*
153315 AAAAAGGAAAAATATAAAAGAAAAA
1 AAAAA--AAAAAAATAAAA-AAAAA
153340 AAGGAGGTTC
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
21 10 0.18
22 12 0.21
23 13 0.23
24 14 0.25
25 3 0.05
26 5 0.09
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (23 bp):
AAAAAAAAAAAATAAAAAAAAAT
Found at i:153339 original size:1 final size:1
Alignment explanation
Indices: 153246--153319 Score: 76
Period size: 1 Copynumber: 74.0 Consensus size: 1
153236 AGAAAGAAGC
* * * * * * *
153246 AAAAATAAAAAAAATAAAAAAAAATAAAAAAAAATAAAAAAATAAAAAAATAAAAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
153311 AAATAAAAA
1 AAAAAAAAA
153320 GGAAAAATAT
Statistics
Matches: 57, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (1 bp):
A
Found at i:157113 original size:55 final size:54
Alignment explanation
Indices: 157054--157164 Score: 134
Period size: 54 Copynumber: 2.0 Consensus size: 54
157044 AATTCACCAC
** *
157054 CTCATTAAGAATTACGTGGGGATGCACAC-CTAATGCCAATACGGAAATTCATAAA
1 CTCATTAAGAATTAC-TGCAGATGCACACAC-AATGCCAATACGAAAATTCATAAA
* * * *
157109 CTCATTATGAATTTCTTCAGTTGCACACACAATGCCAATACGAAAATTCATAAA
1 CTCATTAAGAATTACTGCAGATGCACACACAATGCCAATACGAAAATTCATAAA
157163 CT
1 CT
157165 TATCATGAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
54 34 0.71
55 14 0.29
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.27
Consensus pattern (54 bp):
CTCATTAAGAATTACTGCAGATGCACACACAATGCCAATACGAAAATTCATAAA
Found at i:157150 original size:54 final size:55
Alignment explanation
Indices: 157076--157191 Score: 175
Period size: 54 Copynumber: 2.1 Consensus size: 55
157066 TACGTGGGGA
* *
157076 TGCACAC-CTAATGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTCA-GT
1 TGCACACACTAATGCCAATACGAAAATTCATAAACTCATCATGAATTTCTT-AGGT
*
157130 TGCACACAC-AATGCCAATACGAAAATTCATAAACTTATCATGAATTTCTTAGGT
1 TGCACACACTAATGCCAATACGAAAATTCATAAACTCATCATGAATTTCTTAGGT
157184 TGCACACA
1 TGCACACA
157192 TAGTGCCCAT
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
53 1 0.02
54 55 0.96
55 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.29
Consensus pattern (55 bp):
TGCACACACTAATGCCAATACGAAAATTCATAAACTCATCATGAATTTCTTAGGT
Found at i:160558 original size:2 final size:2
Alignment explanation
Indices: 160551--160575 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
160541 CCATAAAAGC
160551 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
160576 CTGACATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:161104 original size:89 final size:89
Alignment explanation
Indices: 160953--161130 Score: 338
Period size: 89 Copynumber: 2.0 Consensus size: 89
160943 TCTCGAGCAG
* *
160953 TTGAAACTTTTTCTATCTCAACTATGAAAGTCTAATTATCTAAATCATTTAATAAGAAGACTTGA
1 TTGAAACATTTTCTATCTCAACTATGAAAGTCTAATTATCCAAATCATTTAATAAGAAGACTTGA
161018 CAACTTTGTAGCAATATCCTCATA
66 CAACTTTGTAGCAATATCCTCATA
161042 TTGAAACATTTTCTATCTCAACTATGAAAGTCTAATTATCCAAATCATTTAATAAGAAGACTTGA
1 TTGAAACATTTTCTATCTCAACTATGAAAGTCTAATTATCCAAATCATTTAATAAGAAGACTTGA
161107 CAACTTTGTAGCAATATCCTCATA
66 CAACTTTGTAGCAATATCCTCATA
161131 GCACTTATTG
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 87 1.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (89 bp):
TTGAAACATTTTCTATCTCAACTATGAAAGTCTAATTATCCAAATCATTTAATAAGAAGACTTGA
CAACTTTGTAGCAATATCCTCATA
Found at i:162478 original size:45 final size:45
Alignment explanation
Indices: 162397--162508 Score: 181
Period size: 45 Copynumber: 2.5 Consensus size: 45
162387 TCATTTATGG
*
162397 CATCCTTTCATGCCGAT-ATGCACCGTTATGCATTTTATTTATAA
1 CATCCTTTCATGCCGGTAATGCACCGTTATGCATTTTATTTATAA
**
162441 CATCCTTTCATGCCGGTAATGCACCGTTATGCATTTTATTTATGG
1 CATCCTTTCATGCCGGTAATGCACCGTTATGCATTTTATTTATAA
*
162486 CATCCTTTCATGCAGGTAATGCA
1 CATCCTTTCATGCCGGTAATGCA
162509 TTCTTATTCA
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
44 16 0.25
45 47 0.75
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (45 bp):
CATCCTTTCATGCCGGTAATGCACCGTTATGCATTTTATTTATAA
Found at i:162914 original size:54 final size:55
Alignment explanation
Indices: 162840--162955 Score: 166
Period size: 54 Copynumber: 2.1 Consensus size: 55
162830 TACGTGGGGA
* *
162840 TGCACAC-CTAATGCCAATACGGAAATTCATAAACTCGTTATGAATTTCTTCA-GT
1 TGCACACACTAATGCCAATACGGAAATTCATAAACTCATCATGAATTTCTT-AGGT
* *
162894 TGCACACAC-AATGCTAATACGGAAATTCATAAACTTATCATGAATTTCTTAGGT
1 TGCACACACTAATGCCAATACGGAAATTCATAAACTCATCATGAATTTCTTAGGT
162948 TGCACACA
1 TGCACACA
162956 TAGTGCCCAA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
53 1 0.02
54 54 0.96
55 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (55 bp):
TGCACACACTAATGCCAATACGGAAATTCATAAACTCATCATGAATTTCTTAGGT
Found at i:163309 original size:20 final size:20
Alignment explanation
Indices: 163284--163336 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
163274 CAACTCAATA
*
163284 GTATCGATACCCCTACCATG
1 GTATCGATACCCATACCATG
*
163304 GTATCGATACTTCCATACTATG
1 GTATCGATAC--CCATACCATG
*
163326 GTACCGATACC
1 GTATCGATACC
163337 ACCTTTCAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 11 0.39
22 17 0.61
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.28
Consensus pattern (20 bp):
GTATCGATACCCATACCATG
Found at i:164047 original size:12 final size:12
Alignment explanation
Indices: 164032--164060 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
164022 TCCCTTTTTT
164032 TCCCTTCTTAAA
1 TCCCTTCTTAAA
164044 TCCCTTCTTAAA
1 TCCCTTCTTAAA
164056 TCCCT
1 TCCCT
164061 AGTTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.21, C:0.38, G:0.00, T:0.41
Consensus pattern (12 bp):
TCCCTTCTTAAA
Found at i:166989 original size:20 final size:20
Alignment explanation
Indices: 166966--167003 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
166956 AATATAAGTT
166966 TTATATACTAAATATATTGA
1 TTATATACTAAATATATTGA
* *
166986 TTATATATTACATATATT
1 TTATATACTAAATATATT
167004 TTTCTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (20 bp):
TTATATACTAAATATATTGA
Found at i:172951 original size:52 final size:52
Alignment explanation
Indices: 172889--172992 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
172879 GGCTTGTTTG
172889 TATGCTTCAGGCAAATTTTTAGGATCTAGAGCCTTCACCCTATGTTTAATAT
1 TATGCTTCAGGCAAATTTTTAGGATCTAGAGCCTTCACCCTATGTTTAATAT
172941 TATGCTTCAGGCAAATTTTTAGGATCTAGAGCCTTCACCCTATGTTTAATAT
1 TATGCTTCAGGCAAATTTTTAGGATCTAGAGCCTTCACCCTATGTTTAATAT
172993 CCTCCCTTAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.38
Consensus pattern (52 bp):
TATGCTTCAGGCAAATTTTTAGGATCTAGAGCCTTCACCCTATGTTTAATAT
Found at i:172977 original size:28 final size:28
Alignment explanation
Indices: 172893--172977 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 28
172883 TGTTTGTATG
172893 CTTCAGGCAAATTTTTAGGATCTAGAGC
1 CTTCAGGCAAATTTTTAGGATCTAGAGC
* ** * ** *
172921 CTTCA-CCCTATGTTTAATAT-TA-TG-
1 CTTCAGGCAAATTTTTAGGATCTAGAGC
172945 CTTCAGGCAAATTTTTAGGATCTAGAGC
1 CTTCAGGCAAATTTTTAGGATCTAGAGC
172973 CTTCA
1 CTTCA
172978 CCCTATGTTT
Statistics
Matches: 39, Mismatches: 14, Indels: 8
0.64 0.23 0.13
Matches are distributed among these distances:
24 5 0.13
25 10 0.26
26 4 0.10
27 10 0.26
28 10 0.26
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.36
Consensus pattern (28 bp):
CTTCAGGCAAATTTTTAGGATCTAGAGC
Found at i:178231 original size:19 final size:20
Alignment explanation
Indices: 178189--178239 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
178179 ACAAGTAACG
178189 AATTGACAAAACCGATTGGA
1 AATTGACAAAACCGATTGGA
*
178209 AATTGACAAAACCGGTT-GA
1 AATTGACAAAACCGATTGGA
178228 AATTTGACAAAA
1 AA-TTGACAAAA
178240 TCAGTAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 4 0.14
20 25 0.86
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.22
Consensus pattern (20 bp):
AATTGACAAAACCGATTGGA
Found at i:183681 original size:21 final size:21
Alignment explanation
Indices: 183620--183738 Score: 136
Period size: 21 Copynumber: 5.7 Consensus size: 21
183610 GGTTCTACGC
*
183620 GGTCCTTCGTGACATATATGA
1 GGTCCTTCGGGACATATATGA
*
183641 --TCCTTCGGGACAATTGTATGA
1 GGTCCTTCGGGAC-A-TATATGA
*
183662 GGTCCTTCGGGATATATATGA
1 GGTCCTTCGGGACATATATGA
*
183683 GGTCCTTCGGGAC-TATATGT
1 GGTCCTTCGGGACATATATGA
* *
183703 GGTCCTTCGGGGCATATATGT
1 GGTCCTTCGGGACATATATGA
*
183724 GGTCCTTCGAGACAT
1 GGTCCTTCGGGACAT
183739 TCTATATGGC
Statistics
Matches: 84, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
19 10 0.12
20 19 0.23
21 44 0.52
22 1 0.01
23 10 0.12
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (21 bp):
GGTCCTTCGGGACATATATGA
Found at i:183713 original size:41 final size:42
Alignment explanation
Indices: 183620--183738 Score: 136
Period size: 41 Copynumber: 2.9 Consensus size: 42
183610 GGTTCTACGC
* *
183620 GGTCCTTCGTGACATATATGA--TCCTTCGGGACAATTGTATGA
1 GGTCCTTCGGGACATATATGAGGTCCTTCGGGAC-A-TATATGA
* *
183662 GGTCCTTCGGGATATATATGAGGTCCTTCGGGAC-TATATGT
1 GGTCCTTCGGGACATATATGAGGTCCTTCGGGACATATATGA
* * *
183703 GGTCCTTCGGGGCATATATGTGGTCCTTCGAGACAT
1 GGTCCTTCGGGACATATATGAGGTCCTTCGGGACAT
183739 TCTATATGGC
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
41 35 0.53
42 20 0.30
44 11 0.17
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (42 bp):
GGTCCTTCGGGACATATATGAGGTCCTTCGGGACATATATGA
Found at i:184956 original size:12 final size:12
Alignment explanation
Indices: 184939--184964 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
184929 GAACCAAGGA
184939 ATTGTACTGTGT
1 ATTGTACTGTGT
184951 ATTGTACTGTGT
1 ATTGTACTGTGT
184963 AT
1 AT
184965 GAGTAAGAGT
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:0.19, C:0.08, G:0.23, T:0.50
Consensus pattern (12 bp):
ATTGTACTGTGT
Found at i:186908 original size:20 final size:19
Alignment explanation
Indices: 186856--186909 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
186846 TCTTTAAGAG
* *
186856 GTATCGATACCAAATGAGTA
1 GTATCGATACC-ATTGAGAA
186876 GTATCGATACCATTGAGCAA
1 GTATCGATACCATTGAG-AA
186896 GTATCGATACCATT
1 GTATCGATACCATT
186910 TTGAAGGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.16
20 26 0.84
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (19 bp):
GTATCGATACCATTGAGAA
Found at i:187750 original size:21 final size:21
Alignment explanation
Indices: 187721--187797 Score: 75
Period size: 21 Copynumber: 3.6 Consensus size: 21
187711 GGTTCTACGC
*
187721 GGTCATTTGGGATATATATGT
1 GGTCCTTTGGGATATATATGT
* *
187742 GGTCCTTTGGGATAATTCTACGAT
1 GGTCCTTTGGGAT-A-TATATG-T
* *
187766 -GTCCTTTGGGACATATATAT
1 GGTCCTTTGGGATATATATGT
187786 GGTCCTTTGGGA
1 GGTCCTTTGGGA
187798 CATTCTATAT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
20 1 0.02
21 26 0.58
22 2 0.04
23 15 0.33
24 1 0.02
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.39
Consensus pattern (21 bp):
GGTCCTTTGGGATATATATGT
Found at i:191298 original size:20 final size:21
Alignment explanation
Indices: 191270--191335 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
191260 ACTAGCATAA
*
191270 TATCGATACTGCTTCAATGGG
1 TATCAATACTGCTTCAATGGG
**
191291 TATC-ATACTG-TTCTTAA-CAG
1 TATCAATACTGCTTC--AATGGG
*
191311 TATCAATAGTGCTTCAATGGG
1 TATCAATACTGCTTCAATGGG
191332 TATC
1 TATC
191336 GATTCAATGG
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
19 3 0.09
20 13 0.37
21 16 0.46
22 3 0.09
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (21 bp):
TATCAATACTGCTTCAATGGG
Found at i:191363 original size:14 final size:15
Alignment explanation
Indices: 191325--191369 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
191315 AATAGTGCTT
*
191325 CAATGGGTATCGATT
1 CAATGGGTATCGATA
191340 CAATGGGTATCGATA
1 CAATGGGTATCGATA
*
191355 CCA-GGGTATCGATA
1 CAATGGGTATCGATA
191369 C
1 C
191370 TATGCGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (15 bp):
CAATGGGTATCGATA
Found at i:192911 original size:16 final size:16
Alignment explanation
Indices: 192865--192917 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
192855 AACATTTTGA
*
192865 TGGATTTATGTGT-TT
1 TGGATATATGTGTGTT
*
192880 TGGATATTAGGT-TGTT
1 TGGATA-TATGTGTGTT
192896 TGGATATATGTGTGTTT
1 TGGATATATGTGTG-TT
192913 TGGAT
1 TGGAT
192918 GTTTGATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 10 0.32
16 14 0.45
17 7 0.23
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (16 bp):
TGGATATATGTGTGTT
Found at i:192914 original size:17 final size:18
Alignment explanation
Indices: 192873--192917 Score: 60
Period size: 16 Copynumber: 2.7 Consensus size: 18
192863 GATGGATTTA
192873 TGTGTTTTGGATATTAGG
1 TGTGTTTTGGATATTAGG
*
192891 T-TG-TTTGGATA-TATG
1 TGTGTTTTGGATATTAGG
192906 TGTGTTTTGGAT
1 TGTGTTTTGGAT
192918 GTTTGATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 4 0.17
16 10 0.42
17 9 0.38
18 1 0.04
ACGTcount: A:0.16, C:0.00, G:0.31, T:0.53
Consensus pattern (18 bp):
TGTGTTTTGGATATTAGG
Found at i:193459 original size:169 final size:175
Alignment explanation
Indices: 193185--193521 Score: 496
Period size: 169 Copynumber: 2.0 Consensus size: 175
193175 TTTTAATTAA
*
193185 AAAAAAAGTTTATAATTAATTTAAATAATATATAAAATAAAAAATTCAGATAAATTTTTTAATTA
1 AAAAAAAGTTTACAATTAATTTAAATAATATATAAAATAAAAAATTCAGATAAATTTTTTAATTA
*
193250 ATTAATATTGATTTAGGTTTAAAAGATTGGATCTTAAATTATTAATTGGGTTTTAAAT-GTTTGG
66 ATTAATATTGATTTAGGTTTAAAAGATTAGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGG
* * *
193314 GCTTAG-CC-TATGTT-TATAT-ATATATTTAATATTTGTTAATT
131 GATGAGCCCATATGTTATATATAATATATTTAAAATTTGTTAATT
** *
193355 AAAAAAAGTTTACAATTAATTTAAA-AATATAATTAAAAT-AAAAATT-TTATAACTTTTTTAAT
1 AAAAAAAGTTTACAATTAATTTAAATAATAT-A-TAAAATAAAAAATTCAGATAAATTTTTTAAT
193417 TAATTAATA-TGATTTAGG-TTAAAAGTTATTAGATCTTAAATTATTAATTGGGTTTTAAATGGT
64 TAATTAATATTGATTTAGGTTTAAAAG--ATTAGATCTTAAATTATTAATTGGGTTTTAAATGGT
193480 TTGGGATGAGCCCATATGTTATATATAATATATTTAAAATTT
127 TTGGGATGAGCCCATATGTTATATATAATATATTTAAAATTT
193522 AAAATTTAAT
Statistics
Matches: 150, Mismatches: 8, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
167 7 0.05
168 9 0.06
169 59 0.39
170 42 0.28
171 8 0.05
172 6 0.04
173 5 0.03
174 14 0.09
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.44
Consensus pattern (175 bp):
AAAAAAAGTTTACAATTAATTTAAATAATATATAAAATAAAAAATTCAGATAAATTTTTTAATTA
ATTAATATTGATTTAGGTTTAAAAGATTAGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGG
GATGAGCCCATATGTTATATATAATATATTTAAAATTTGTTAATT
Found at i:194434 original size:44 final size:44
Alignment explanation
Indices: 194342--194439 Score: 142
Period size: 44 Copynumber: 2.2 Consensus size: 44
194332 ACCATGATCG
* ** * *
194342 GTATCAATACTACTTTACATAGTAGTATCGATACTCCCTGGACG
1 GTATCGATACTACACTACAAAGTAGTATCGATACTCCCTGGACA
*
194386 GTATCGATACTACACTACAAAGTAGTATCGATACTCCCTGGCCA
1 GTATCGATACTACACTACAAAGTAGTATCGATACTCCCTGGACA
194430 GTATCGATAC
1 GTATCGATAC
194440 CGTTGGTTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (44 bp):
GTATCGATACTACACTACAAAGTAGTATCGATACTCCCTGGACA
Found at i:195685 original size:108 final size:110
Alignment explanation
Indices: 195517--195934 Score: 368
Period size: 108 Copynumber: 3.8 Consensus size: 110
195507 ATGTACACAA
* *
195517 TAATATGTTGATAATACTG-TAACAAATCAAGTAATTAACCGATTATGTTATAGTCAGATTTCTA
1 TAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCGATTATGTTATCGTCAGATTTCTA
**
195581 AACCCCCATCAGC-TTAAATTTTGGTAACATTTTA-GTCGTTACC
66 AGGCCCCATCAGCTTTAAATTTTGGTAACATTTTACGTCGTTACC
* * **
195624 TAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCGTTGGATTTCTA
1 TAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCGATTATGTTATCGTCAGATTTCTA
* ** * * *
195689 AGGCCCCATCAACTTTAAA--AAGGCACTACCTATTACGTTACATAAGCGCTACC
66 AGGCCCCATCAGCTTTAAATTTTGG---TAAC-ATT---TTACGT---CGTTACC
* * ** *** * * * * *
195742 CAATATGTT-ATTATGGTTGATAA-TGTTTCTAGTAATTAACCGGTTATGTTATCATCGGATTTT
1 TAATATGTTGATAAT-ACTGATAACAAATT-AAGTAATTAACCGATTATGTTATCGTCAGATTTC
** * *
195805 TAAGGCTTCATCAGC-TTAAACTTTGGTAACATTTTAGGT-GTTACC
64 TAAGGCCCCATCAGCTTTAAATTTTGGTAACATTTTACGTCGTTACC
* *
195850 TAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTA
1 TAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCGATTATGTTATCGTCAGATTTCTA
*
195915 AGGCCCTATCAGCTTTAAAT
66 AGGCCCCATCAGCTTTAAAT
195935 AGATGCTACC
Statistics
Matches: 236, Mismatches: 55, Indels: 38
0.72 0.17 0.12
Matches are distributed among these distances:
107 21 0.09
108 107 0.45
109 16 0.07
110 3 0.01
111 3 0.01
112 4 0.02
114 3 0.01
115 4 0.02
116 3 0.01
117 11 0.05
118 59 0.25
119 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (110 bp):
TAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCGATTATGTTATCGTCAGATTTCTA
AGGCCCCATCAGCTTTAAATTTTGGTAACATTTTACGTCGTTACC
Found at i:195946 original size:226 final size:226
Alignment explanation
Indices: 195546--196024 Score: 728
Period size: 226 Copynumber: 2.1 Consensus size: 226
195536 TAACAAATCA
* *
195546 AGTAATTAACCGATTATGTTATAGTCAGATTTCTAAACCCCCATCAGCTTAAATTTTGGTAACAT
1 AGTAATTAACCGGTTATGTTATAGTCAGATTTCTAAACCCCCATCAGCTTAAACTTTGGTAACAT
195611 TTTAGTCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTAT
66 TTTAGTCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTAT
** *
195676 CGTTGGATTTCTAAGGCCCCATCAACTTTAAAAAGGCACTACCTATTACGTTACATAAGCGCTAC
131 CGTCAGATTTCTAAGGCCCCATCAACTTTAAAAAGACACTACCTATTACGTTACATAAGCGCTAC
*
195741 CCAATATGTTATTATGGTTGATAATGTTTCT
196 CCAATATGTTATTATGGTTGATAATGTTTCC
* * ** **
195772 AGTAATTAACCGGTTATGTTATCA-TCGGATTTTTAAGGCTTCATCAGCTTAAACTTTGGTAACA
1 AGTAATTAACCGGTTATGTTAT-AGTCAGATTTCTAAACCCCCATCAGCTTAAACTTTGGTAACA
195836 TTTTAGGT-GTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTT
65 TTTTA-GTCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTT
* * * ** *
195900 ATCGTCAGATTTCTAAGGCCCTATCAGCTTTAAATAGATGCTACCTATTATGTTACATAAGCGCT
129 ATCGTCAGATTTCTAAGGCCCCATCAACTTTAAAAAGACACTACCTATTACGTTACATAAGCGCT
*
195965 ACCTAATATGTTATTATGGTTGATAATGTTTCC
194 ACCCAATATGTTATTATGGTTGATAATGTTTCC
* * *
195998 AGTAATCAACCAGTTATGTTAAAGTCA
1 AGTAATTAACCGGTTATGTTATAGTCA
196025 ATATTTTTGG
Statistics
Matches: 227, Mismatches: 23, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
225 1 0.00
226 223 0.98
227 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (226 bp):
AGTAATTAACCGGTTATGTTATAGTCAGATTTCTAAACCCCCATCAGCTTAAACTTTGGTAACAT
TTTAGTCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTAT
CGTCAGATTTCTAAGGCCCCATCAACTTTAAAAAGACACTACCTATTACGTTACATAAGCGCTAC
CCAATATGTTATTATGGTTGATAATGTTTCC
Found at i:207785 original size:60 final size:60
Alignment explanation
Indices: 207669--207787 Score: 154
Period size: 60 Copynumber: 2.0 Consensus size: 60
207659 AAATCATTCA
* * *
207669 AAAGTTTGGGGACTAATATAGAATAAGGATTATAGTTTGGTGATGAATTTGAAATGTTTT
1 AAAGTTTGAGGACTAATATAGAATAAAGATTATAGTTTGGTGATGAATTAGAAATGTTTT
*
207729 AAAGTTTGAGGACTAATTTAGAATAAA-AGTTATAGTTTAGG-GATGAAATTAG-AATGTTT
1 AAAGTTTGAGGACTAATATAGAATAAAGA-TTATAGTTT-GGTGATG-AATTAGAAATGTTT
207788 AAACACTGAA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
59 1 0.02
60 44 0.85
61 7 0.13
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.37
Consensus pattern (60 bp):
AAAGTTTGAGGACTAATATAGAATAAAGATTATAGTTTGGTGATGAATTAGAAATGTTTT
Done.