Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005926.1 Hibiscus syriacus cultivar Beakdansim tig00013913_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: 215791
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:12700 original size:64 final size:66
Alignment explanation
Indices: 12595--12757 Score: 206
Period size: 65 Copynumber: 2.5 Consensus size: 66
12585 CGGTGCACCA
* * *
12595 AGTGTGCATCGATGCATGAAATTCATTCAATG-TTTGAAAAATAGCCTG-GTGCATCGATGCATG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGAGTGCATCGATGCATG
12658 G
66 G
** * **
12659 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGAGTGCATCGATGCATG
12723 G
66 G
* * *
12724 AGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
12758 CAATTAATTC
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
64 35 0.42
65 48 0.58
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (66 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGAGTGCATCGATGCATG
G
Found at i:12729 original size:19 final size:19
Alignment explanation
Indices: 12705--12755 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
12695 GAAAATATTC
12705 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
12724 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
12743 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
12756 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:12797 original size:65 final size:65
Alignment explanation
Indices: 12599--12806 Score: 189
Period size: 65 Copynumber: 3.2 Consensus size: 65
12589 GCACCAAGTG
* * * * ** *
12599 TGCATCGATGCATGAAATTCATTCAATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG-CTT
1 TGCATCGGTGCATGAAATGCATTCGATGTTT-CAAAATATTCAGAGTGCATCGATGCATGGAC-T
12662 G-
64 GA
* * *
12663 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA--G
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGTGCATCGATGCATGGACTG
12726 A
65 A
* *
12727 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGA-TGCATCGATGCATGGA
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GAGTGCATCGATGCATGGA
12789 CTGA
62 CTGA
12793 TGCATCGGTGCATG
1 TGCATCGGTGCATG
12807 CCTTTGAATA
Statistics
Matches: 122, Mismatches: 12, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
62 3 0.02
63 8 0.07
64 49 0.40
65 60 0.49
66 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (65 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGTGCATCGATGCATGGACTGA
Found at i:17341 original size:23 final size:23
Alignment explanation
Indices: 17315--17403 Score: 99
Period size: 23 Copynumber: 3.9 Consensus size: 23
17305 TATGTGATCC
17315 TTCGGGACAATTCTACGTGGTCA
1 TTCGGGACAATTCTACGTGGTCA
* * * *
17338 TTCGAGACATTTGTACGTGGTCC
1 TTCGGGACAATTCTACGTGGTCA
*
17361 TTCGGGAC-ATATCTATGTGGTCA
1 TTCGGGACAAT-TCTACGTGGTCA
* *
17384 TTCGTGACATTTCTACGTGG
1 TTCGGGACAATTCTACGTGG
17404 CACTTCAATG
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
22 1 0.02
23 50 0.96
24 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (23 bp):
TTCGGGACAATTCTACGTGGTCA
Found at i:17365 original size:46 final size:46
Alignment explanation
Indices: 17302--17403 Score: 143
Period size: 46 Copynumber: 2.2 Consensus size: 46
17292 GAGTCGAGGG
* *
17302 TTCTATGTGATCCTTCGGGACA-ATTCTACGTGGTCATTCGAGACAT
1 TTCTACGTGGTCCTTCGGGACATA-TCTACGTGGTCATTCGAGACAT
* * *
17348 TTGTACGTGGTCCTTCGGGACATATCTATGTGGTCATTCGTGACAT
1 TTCTACGTGGTCCTTCGGGACATATCTACGTGGTCATTCGAGACAT
17394 TTCTACGTGG
1 TTCTACGTGG
17404 CACTTCAATG
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
46 48 0.98
47 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.36
Consensus pattern (46 bp):
TTCTACGTGGTCCTTCGGGACATATCTACGTGGTCATTCGAGACAT
Found at i:19493 original size:29 final size:29
Alignment explanation
Indices: 19442--19527 Score: 129
Period size: 29 Copynumber: 3.0 Consensus size: 29
19432 TTATATTCCA
*
19442 TATGTTCATGTA-CTCATGTCATTTCTCT
1 TATGATCATGTAGCTCATGTCATTTCTCT
19470 TATGATCATGTAGCTCATGTCATTTCTCT
1 TATGATCATGTAGCTCATGTCATTTCTCT
* *
19499 TGTGATCATATAGCTCATGTCATGTTCTC
1 TATGATCATGTAGCTCATGTCAT-TTCTC
19528 ATATCACATA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
28 11 0.21
29 37 0.70
30 5 0.09
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.45
Consensus pattern (29 bp):
TATGATCATGTAGCTCATGTCATTTCTCT
Found at i:19976 original size:64 final size:63
Alignment explanation
Indices: 19907--20060 Score: 154
Period size: 64 Copynumber: 2.4 Consensus size: 63
19897 TGAAGGTATG
* * *
19907 CATCGATGCACTACTTGTGCATCGGTGCA-TAAAATGCATTCGA-TGTTTTATTATT-AATGGGA
1 CATCGATGCACTACTTGTGCATCGATGCACT-AAATGCATTCGACT-TTTTATT-TTAAAAGAG-
19969 TA
62 TA
* * * *
19971 CATCGATGCA-TGTCTTATGCATCGATGCACTAATTGCATTCGACCTTTTTATTTTAAAAGAGTG
1 CATCGATGCACT-ACTTGTGCATCGATGCACTAAATGCATTCGA-CTTTTTATTTTAAAAGAGTA
*
20035 CATCGATGCACTACCTGTGCATCGAT
1 CATCGATGCACTACTTGTGCATCGAT
20061 ACACCTTCAA
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
63 1 0.01
64 59 0.80
65 13 0.18
66 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (63 bp):
CATCGATGCACTACTTGTGCATCGATGCACTAAATGCATTCGACTTTTTATTTTAAAAGAGTA
Found at i:26427 original size:29 final size:29
Alignment explanation
Indices: 26387--26460 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
26377 TGTTCATGTA
26387 CTCATGTCATTTCTCTTATGATCATATAG
1 CTCATGTCATTTCTCTTATGATCATATAG
* * *
26416 CTCATGTTATTTCTCTTGTGATCATGTAG
1 CTCATGTCATTTCTCTTATGATCATATAG
26445 CTCATGTCATGTTCTC
1 CTCATGTCAT-TTCTC
26461 ATATCACATA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 35 0.88
30 5 0.12
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.46
Consensus pattern (29 bp):
CTCATGTCATTTCTCTTATGATCATATAG
Found at i:26906 original size:64 final size:63
Alignment explanation
Indices: 26837--26993 Score: 167
Period size: 64 Copynumber: 2.5 Consensus size: 63
26827 TAATGAAGGT
* * * **
26837 ATGCATCGATGCACTACTTGTGCATCGGTGCA-TAAAATGCATTCAATGT-TTTATTATTAATGG
1 ATGCATCGATGCACTACTTGTGCATCGATGCACT-AAATGCATTCAATCTGTTTATT-TCAA-AA
26900 G
63 G
* * * *
26901 ATGCATCGATGCA-TGTCTTATGCATCGATGCACTAATTGCATTCGATCTGTTTATTTCAAAAG
1 ATGCATCGATGCACT-ACTTGTGCATCGATGCACTAAATGCATTCAATCTGTTTATTTCAAAAG
26964 AGTGCATCGATGCACTACTTGTGCATCGAT
1 A-TGCATCGATGCACTACTTGTGCATCGAT
26994 ACACCTTCAA
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
63 3 0.04
64 66 0.86
65 8 0.10
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTGTGCATCGATGCACTAAATGCATTCAATCTGTTTATTTCAAAAG
Found at i:27867 original size:12 final size:13
Alignment explanation
Indices: 27850--27883 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
27840 TGTATATGTA
27850 ATTTAAGT-ATTT
1 ATTTAAGTGATTT
27862 ATTTAAGTGATTT
1 ATTTAAGTGATTT
*
27875 AATTAAGTG
1 ATTTAAGTG
27884 CATCTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (13 bp):
ATTTAAGTGATTT
Found at i:28204 original size:13 final size:13
Alignment explanation
Indices: 28186--28210 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28176 TGTTATATAC
28186 ATATATATGTTTT
1 ATATATATGTTTT
28199 ATATATATGTTT
1 ATATATATGTTT
28211 GAAATACCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (13 bp):
ATATATATGTTTT
Found at i:31510 original size:20 final size:20
Alignment explanation
Indices: 31482--31519 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31472 AGTTTTGCAA
*
31482 TACTGAAATTTAAATAATTT
1 TACTAAAATTTAAATAATTT
*
31502 TACTAAAATTTAAGTAAT
1 TACTAAAATTTAAATAAT
31520 CCATACAACT
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:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (20 bp):
TACTAAAATTTAAATAATTT
Found at i:31569 original size:22 final size:22
Alignment explanation
Indices: 31543--31750 Score: 290
Period size: 22 Copynumber: 9.5 Consensus size: 22
31533 ATAATAATTT
*
31543 TTTTAAAATAAATAAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
31565 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
*
31587 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
31609 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
31631 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
***
31653 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
* *
31675 TTTTAAAATAAATTAATCTATA
1 TTTTAAAATAAATCAATCCATA
*** *
31697 TTTTAAAATAAATTTTTTCATA
1 TTTTAAAATAAATCAATCCATA
**
31719 TTTTAAAATAAATCAATTTATA
1 TTTTAAAATAAATCAATCCATA
31741 TTTTAAAATA
1 TTTTAAAATA
31751 TATTTTAAAA
Statistics
Matches: 169, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 169 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:31772 original size:66 final size:64
Alignment explanation
Indices: 31543--31777 Score: 183
Period size: 66 Copynumber: 3.6 Consensus size: 64
31533 ATAATAATTT
* *** *
31543 TTTTAAAATAAA-TAAATCCATATTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATTCA
1 TTTTAAAATAAATTAAA---ATAATTTAAAATAAATTTTTTCATATTTTAAAATAAATCAATTTA
31607 TA
63 TA
* * * *** * *
31609 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAAT--TTTTCC
1 TTTTAAAATAAATTAA--AATAATTTAAAATAAATTTTTTCATATTTTAAAATAAATCAATTT--
31672 ATA
62 ATA
* *
31675 TTTTAAAATAAATTAATCTATATTTTAAAATAAATTTTTTCATATTTTAAAATAAATCAATTTAT
1 TTTTAAAATAAATTAA--AATAATTTAAAATAAATTTTTTCATATTTTAAAATAAATCAATTTAT
31740 A
64 A
*
31741 TTTTAAAATATATTTTAAAATAGATTT-AAAT-AATTTT
1 TTTTAAAATA-A-ATTAAAATA-ATTTAAAATAAATTTT
31778 AATTTCTTTG
Statistics
Matches: 144, Mismatches: 15, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
64 2 0.01
65 6 0.04
66 123 0.85
67 6 0.04
68 7 0.05
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (64 bp):
TTTTAAAATAAATTAAAATAATTTAAAATAAATTTTTTCATATTTTAAAATAAATCAATTTATA
Found at i:31778 original size:10 final size:12
Alignment explanation
Indices: 31740--31779 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
31730 ATCAATTTAT
*
31740 ATTTTAAAATAT
1 ATTTTAAAATAG
31752 ATTTTAAAATAG
1 ATTTTAAAATAG
31764 A-TTT-AAATA-
1 ATTTTAAAATAG
31773 ATTTTAA
1 ATTTTAA
31780 TTTCTTTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
9 1 0.04
10 8 0.32
11 4 0.16
12 12 0.48
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (12 bp):
ATTTTAAAATAG
Found at i:32493 original size:18 final size:18
Alignment explanation
Indices: 32466--32507 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
32456 ATTATCTCTA
32466 AATA-TATAAAGTAAAAT
1 AATATTATAAAGTAAAAT
*
32483 TATATTATAAAGTAAAAT
1 AATATTATAAAGTAAAAT
32501 AATATTA
1 AATATTA
32508 CGTTTAAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (18 bp):
AATATTATAAAGTAAAAT
Found at i:47576 original size:19 final size:18
Alignment explanation
Indices: 47552--47601 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
47542 AATATAAAAC
47552 ATATTATATATTATGTGTT
1 ATATTATATATTAT-TGTT
*
47571 ATATTATTTATTTATTGTT
1 ATATTATATA-TTATTGTT
* *
47590 TTATTACATATT
1 ATATTATATATT
47602 TCAGGCCTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 2 0.08
19 20 0.77
20 4 0.15
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (18 bp):
ATATTATATATTATTGTT
Found at i:48510 original size:20 final size:21
Alignment explanation
Indices: 48487--48525 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
48477 TTTTTAACAT
48487 TTTTTCTC-ACAATTTATTTA
1 TTTTTCTCTACAATTTATTTA
*
48507 TTTTTCTCTTCAATTTATT
1 TTTTTCTCTACAATTTATT
48526 CAGTATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTCTCTACAATTTATTTA
Found at i:49622 original size:19 final size:19
Alignment explanation
Indices: 49585--49628 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
49575 TCACTAACTC
* *
49585 TTTTTATTTTTTTTAATTT
1 TTTTTATTCTCTTTAATTT
*
49604 TTTTTATTCTCTTTCATTT
1 TTTTTATTCTCTTTAATTT
49623 TATTTT
1 T-TTTT
49629 CATCACTTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTATTCTCTTTAATTT
Found at i:52675 original size:84 final size:83
Alignment explanation
Indices: 52593--53390 Score: 718
Period size: 84 Copynumber: 9.6 Consensus size: 83
52583 AATGGCTATT
* * * * *
52593 TGTCAACCAAAGACCTTCGAGTTTGACTATGCTCAGCTCCAAGACACATCATTTGCAGCATAGCT
1 TGTC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACT
* * *
52658 TAAGTCGAGAAGAGCTATC
65 TAAGTCTAGAAGGGTTATC
** * ** * * * * **
52677 TG---CCAAAGACCCCCGAGTTCGATTATACTTATCTTCGAGGGCATATCATTCACAGCATAACT
1 TGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCATATCATTTGCAGCATAACT
*
52739 CAAGTCTAGAAGGGTTATC
65 TAAGTCTAGAAGGGTTATC
* ** * * * * * **
52758 TGTCACCAAAAACCCCCGAGTTCGATTACACTCAGCTTCGAGGGTATATCATTCACAGCATAACT
1 TGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCATATCATTTGCAGCATAACT
*
52823 CAAGTCTAGAAGGGTTATC
65 TAAGTCTAGAAGGGTTATC
*
52842 TGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTT
1 TGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTT
*
52907 AAGTCTAGAAGGGTTGTC
66 AAGTCTAGAAGGGTTATC
* * * * * * * *
52925 TGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGACACATCATTTGAAACATAGC
1 TGTC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCATATCATTTGCAGCATAAC
* * *
52989 TTAAGTCGAGAAGAGCTATC
64 TTAAGTCTAGAAGGGTTATC
** * * * * * ** *
53009 TG---CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGTATATCATTCACAACATAACT
1 TGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCATATCATTTGCAGCATAACT
*
53071 CAAGTCTAGAAGGGTTATC
65 TAAGTCTAGAAGGGTTATC
* * *
53090 TGTCACCAAAGACCTTCAAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAACACAACTT
1 TGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTT
*
53155 AAGTCTAGAAGGGTTGTC
66 AAGTCTAGAAGGGTTATC
* * * *
53173 TGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAATGGCACATCATTTGCAGCATAAC
1 TGTC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCATATCATTTGCAGCATAAC
* *
53237 TTAAGTCGAGAAGGGATATC
64 TTAAGTCTAGAAGGGTTATC
** * * * * * * * *
53257 TG---CCAAAGACCCCCGAGTTTGATTACACACAGCTTCGAGGGCATATCATTTACAGCACAACT
1 TGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCATATCATTTGCAGCATAACT
* * *
53319 CAAGGCTAGGAGGGTTATC
65 TAAGTCTAGAAGGGTTATC
* *
53338 TGTCACCAAAGACCTTCCAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
1 TGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTT
53391 ACAACATAGC
Statistics
Matches: 577, Mismatches: 119, Indels: 37
0.79 0.16 0.05
Matches are distributed among these distances:
80 72 0.12
81 109 0.19
82 2 0.00
83 104 0.18
84 290 0.50
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (83 bp):
TGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTT
AAGTCTAGAAGGGTTATC
Found at i:53036 original size:248 final size:248
Alignment explanation
Indices: 52763--53396 Score: 1079
Period size: 248 Copynumber: 2.6 Consensus size: 248
52753 TTATCTGTCA
*
52763 CCAAAAACCCCCGAGTTCGATTACACTCAGCTTCGAGGGTATATCATTCACAGCATAACTCAAGT
1 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGTATATCATTCACAGCATAACTCAAGT
*
52828 CTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCAT
66 CTAGAAGGGTTATCTGTCACCAAAGACCTTCAAGTTCGACTACGCTCAGCTCCAAGGCATATCAT
*
52893 TTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCT
131 TTGCAACACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCT
* *
52958 CAGCTCAACGACACATCATTTGAAACATAGCTTAAGTCGAGAAGAGCTATCTG
196 CAGCTCAACGACACATCATTTGAAACATAACTTAAGTCGAGAAGAGATATCTG
*
53011 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGTATATCATTCACAACATAACTCAAGT
1 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGTATATCATTCACAGCATAACTCAAGT
53076 CTAGAAGGGTTATCTGTCACCAAAGACCTTCAAGTTCGACTACGCTCAGCTCCAAGGCATATCAT
66 CTAGAAGGGTTATCTGTCACCAAAGACCTTCAAGTTCGACTACGCTCAGCTCCAAGGCATATCAT
53141 TTGCAACACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCT
131 TTGCAACACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCT
* * * * *
53206 CAGCTCAATGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGATATCTG
196 CAGCTCAACGACACATCATTTGAAACATAACTTAAGTCGAGAAGAGATATCTG
* * * * * *
53259 CCAAAGACCCCCGAGTTTGATTACACACAGCTTCGAGGGCATATCATTTACAGCACAACTCAAGG
1 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGTATATCATTCACAGCATAACTCAAGT
* * *
53324 CTAGGAGGGTTATCTGTCACCAAAGACCTTCCAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
66 CTAGAAGGGTTATCTGTCACCAAAGACCTTCAAGTTCGACTACGCTCAGCTCCAAGGCATATCAT
*
53389 TTACAACA
131 TTGCAACA
53397 TAGCCCAAAG
Statistics
Matches: 364, Mismatches: 22, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
248 364 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (248 bp):
CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGTATATCATTCACAGCATAACTCAAGT
CTAGAAGGGTTATCTGTCACCAAAGACCTTCAAGTTCGACTACGCTCAGCTCCAAGGCATATCAT
TTGCAACACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCT
CAGCTCAACGACACATCATTTGAAACATAACTTAAGTCGAGAAGAGATATCTG
Found at i:53187 original size:332 final size:332
Alignment explanation
Indices: 52596--53262 Score: 980
Period size: 332 Copynumber: 2.0 Consensus size: 332
52586 GGCTATTTGT
* * * * *
52596 CAACCAAAGACCTTCGAGTTTGACTATGCTCAGCTCCAAGACACATCATTTGCAGCATAGCTTAA
1 CAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCATTTGAAACATAGCTTAA
* * *
52661 GTCGAGAAGAGCTATCTGCCAAAGACCCCCGAGTTCGATTATACTTATCTTCGAGGGCATATCAT
66 GTCGAGAAGAGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCAT
* * *
52726 TCACAGCATAACTCAAGTCTAGAAGGGTTATCTGTCACCAAAAACCCCCGAGTTCGATTACACTC
131 TCACAACATAACTCAAGTCTAGAAGGGTTATCTGTCACCAAAAACCCCCAAGTTCGACTACACTC
* * * * * * *
52791 AGCTTCGAGGGTATATCATTCACAGCATAACTCAAGTCTAGAAGGGTTATCTGTCACCAAAGACC
196 AGCTTCCAAGGCATATCATTCACAACACAACTCAAGTCTAGAAGGGTTATCTGCCACAAAAGACC
* *
52856 TTCGAGTTCGACTACGCTCAGCTCCAA-GGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGG
261 TTCGAGTTCGACTACGCTCAGCT-CAATGGCACATCATTTGCAGCACAACTTAAGTCGAGAAGGG
* *
52920 TTGTCTGC
325 ATATCTGC
*
52928 CAACAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGACACATCATTTGAAACATAGCTTA
1 CAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GACACATCATTTGAAACATAGCTTA
*
52992 AGTCGAGAAGAGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGTATATCA
65 AGTCGAGAAGAGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCA
* ** *
53057 TTCACAACATAACTCAAGTCTAGAAGGGTTATCTGTCACCAAAGACCTTCAAGTTCGACTACGCT
130 TTCACAACATAACTCAAGTCTAGAAGGGTTATCTGTCACCAAAAACCCCCAAGTTCGACTACACT
** * *
53122 CAGC-TCCAAGGCATATCATTTGCAACACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGA
195 CAGCTTCCAAGGCATATCATTCACAACACAACTCAAGTCTAGAAGGGTTATCTGCC-ACAAAAGA
* *
53186 CCTTTGAGTTCGACTACGCTCAGCTCAATGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGG
259 CCTTCGAGTTCGACTACGCTCAGCTCAATGGCACATCATTTGCAGCACAACTTAAGTCGAGAAGG
53251 GATATCTGC
324 GATATCTGC
53260 CAA
1 CAA
53263 AGACCCCCGA
Statistics
Matches: 298, Mismatches: 34, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
331 47 0.16
332 251 0.84
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (332 bp):
CAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCATTTGAAACATAGCTTAA
GTCGAGAAGAGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCAT
TCACAACATAACTCAAGTCTAGAAGGGTTATCTGTCACCAAAAACCCCCAAGTTCGACTACACTC
AGCTTCCAAGGCATATCATTCACAACACAACTCAAGTCTAGAAGGGTTATCTGCCACAAAAGACC
TTCGAGTTCGACTACGCTCAGCTCAATGGCACATCATTTGCAGCACAACTTAAGTCGAGAAGGGA
TATCTGC
Found at i:53374 original size:332 final size:331
Alignment explanation
Indices: 52626--53398 Score: 835
Period size: 332 Copynumber: 2.3 Consensus size: 331
52616 TGACTATGCT
* * * * * *
52626 CAGCTCCAA-GACACATCATTTGCAGCATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCC
1 CAGCT-CAACGACACATCATTTGAAACACAACTCAAGGCGAGAAGAGCTATCTGCCAAAGACCCC
* * * * *
52690 CGAGTTCGATTATACTTATCTTCGAGGGCATATCATTCACAGCATAACTCAAGTCTAGAAGGGTT
65 CGAGTTCGACTACACTCAGCTTCGAGGGCATATCATTCACAACATAACTCAAGTCTAGAAGGGTT
* * * * * * *
52755 ATCTGTCACCAAAAACCCCCGAGTTCGATTACACTCAGCTTCGAGGGTATATCATTCACAGCATA
130 ATCTGTCACCAAAAACCCCCAAGTTCGACTACACTCAGCTTCCAAGGCATATCATTCACAACACA
* *
52820 ACTCAAGTCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
195 ACTCAAGTCTAGAAGGGTTATCTGCCACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
* * * * ***
52885 CATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCG
260 CACATCATTTGCAGCACAACTTAAGTCGAGAAGGGATATCTGCC-ACAAAAGACCCCCGAGTTCG
* *
52950 ACTACGCT
324 ACTACACA
* * * *
52958 CAGCTCAACGACACATCATTTGAAACATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCCC
1 CAGCTCAACGACACATCATTTGAAACACAACTCAAGGCGAGAAGAGCTATCTGCCAAAGACCCCC
* *
53023 GAGTTCGATTACACTCAGCTTCGAGGGTATATCATTCACAACATAACTCAAGTCTAGAAGGGTTA
66 GAGTTCGACTACACTCAGCTTCGAGGGCATATCATTCACAACATAACTCAAGTCTAGAAGGGTTA
* ** * **
53088 TCTGTCACCAAAGACCTTCAAGTTCGACTACGCTCAGC-TCCAAGGCATATCATTTGCAACACAA
131 TCTGTCACCAAAAACCCCCAAGTTCGACTACACTCAGCTTCCAAGGCATATCATTCACAACACAA
* * *
53152 CTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAATG
196 CTCAAGTCTAGAAGGGTTATCTGCC-ACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-G
* *
53216 GCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGATATCTG-C-C-AAAGACCCCCGAGTTTG
259 GCACATCATTTGCAGCACAACTTAAGTCGAGAAGGGATATCTGCCACAAAAGACCCCCGAGTTCG
*
53278 ATTACACA
324 ACTACACA
* * * * * * * * *
53286 CAGCTTCGAGGGCATATCATTT-ACAGCACAACTCAAGGCTAGGAGGGTTATCTGTCACCAAAGA
1 CAGC-TCAACGACACATCATTTGA-AACACAACTCAAGGCGAGAAGAGCTATCTG---CCAAAGA
* * * * * *
53350 CCTTCC-AGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTACAACATA
61 CC-CCCGAGTTCGACTACACTCAGCTTCGAGGGCATATCATTCACAACATA
53399 GCCCAAAGCA
Statistics
Matches: 374, Mismatches: 58, Indels: 19
0.83 0.13 0.04
Matches are distributed among these distances:
328 23 0.06
329 35 0.09
331 68 0.18
332 246 0.66
333 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (331 bp):
CAGCTCAACGACACATCATTTGAAACACAACTCAAGGCGAGAAGAGCTATCTGCCAAAGACCCCC
GAGTTCGACTACACTCAGCTTCGAGGGCATATCATTCACAACATAACTCAAGTCTAGAAGGGTTA
TCTGTCACCAAAAACCCCCAAGTTCGACTACACTCAGCTTCCAAGGCATATCATTCACAACACAA
CTCAAGTCTAGAAGGGTTATCTGCCACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
ACATCATTTGCAGCACAACTTAAGTCGAGAAGGGATATCTGCCACAAAAGACCCCCGAGTTCGAC
TACACA
Found at i:53942 original size:19 final size:18
Alignment explanation
Indices: 53918--53967 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
53908 AATATAAAAC
53918 ATATTATATATTATGTGTT
1 ATATTATATATTAT-TGTT
*
53937 ATATTATTTATTTATTGTT
1 ATATTATATA-TTATTGTT
* *
53956 TTATTACATATT
1 ATATTATATATT
53968 TCAGGCCTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 2 0.08
19 20 0.77
20 4 0.15
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (18 bp):
ATATTATATATTATTGTT
Found at i:54979 original size:20 final size:21
Alignment explanation
Indices: 54956--54994 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
54946 TTTTTAACAT
54956 TTTTTCTC-ACAATTTATTTA
1 TTTTTCTCTACAATTTATTTA
*
54976 TTTTTCTCTTCAATTTATT
1 TTTTTCTCTACAATTTATT
54995 CAGTATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTCTCTACAATTTATTTA
Found at i:59010 original size:90 final size:89
Alignment explanation
Indices: 58896--59070 Score: 307
Period size: 90 Copynumber: 2.0 Consensus size: 89
58886 TCCCGAATAT
*
58896 TTAATTTCAATTAATTAAATATAGATTT-AATTAATTTGAAATAATAAAATCCCTAATATGATTA
1 TTAAATTCAATTAATTAAATATAGATTTAAATTAATTTGAAATAATAAAA-CCCTAATATGATTA
58960 GGGTAACTTGGATATAAAAGGATTA
65 GGGTAACTTGGATATAAAAGGATTA
58985 TTAAATTCTAATTAATTAAATATAGATTTAAATTAATTTGAAATAATAAAACCCTAATATGATTA
1 TTAAATTC-AATTAATTAAATATAGATTTAAATTAATTTGAAATAATAAAACCCTAATATGATTA
*
59050 GGGTAACTTGGGTATAAAAGG
65 GGGTAACTTGGATATAAAAGG
59071 GTGTATTAGG
Statistics
Matches: 82, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
89 7 0.09
90 54 0.66
91 21 0.26
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (89 bp):
TTAAATTCAATTAATTAAATATAGATTTAAATTAATTTGAAATAATAAAACCCTAATATGATTAG
GGTAACTTGGATATAAAAGGATTA
Found at i:61140 original size:13 final size:13
Alignment explanation
Indices: 61122--61146 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61112 TATTGCTTAT
61122 TTTATTTTATTTA
1 TTTATTTTATTTA
61135 TTTATTTTATTT
1 TTTATTTTATTT
61147 CTCATTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:62329 original size:16 final size:18
Alignment explanation
Indices: 62302--62335 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
62292 GGAATTAAAG
62302 CATGTGGGGGTA-GATAT
1 CATGTGGGGGTAGGATAT
62319 CATGT-GGGGTAGGATAT
1 CATGTGGGGGTAGGATAT
62336 GTTCATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.24, C:0.06, G:0.41, T:0.29
Consensus pattern (18 bp):
CATGTGGGGGTAGGATAT
Found at i:66693 original size:84 final size:83
Alignment explanation
Indices: 66495--67829 Score: 1515
Period size: 84 Copynumber: 16.1 Consensus size: 83
66485 GAAAGGCTAC
* * * * ** * *
66495 CTGCC-ACCAAGACCTTCGAGTTTGACTACGTTCAGCTCCAAGGCACGTCATTTGCAGTATAGCT
1 CTGCCAACAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACT
* * *
66559 TAAGTCGAGAAGAGCTAT
66 TAAGTCTAGAAGGGTTAT
* * * * * * *
66577 CTG-C--CAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAAC
1 CTGCCAACAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCATATCATTTGCAGCATAAC
* *
66639 TCAAGGCTAGAAGGGTTAT
65 TTAAGTCTAGAAGGGTTAT
* * * * *
66658 CTGTCAGCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCT
1 CTGCCAACAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACT
* *
66723 TAAGTCGAGAAGGGCTAT
66 TAAGTCTAGAAGGGTTAT
* * * * * *
66741 CTG-C--CAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAGGGCATATCATTTACAGCATAAC
1 CTGCCAACAAAGACCTTTGAGTTCGACTACGCTCAGC-TCCAAGGCATATCATTTGCAGCATAAC
* *
66803 TCAAGGCTAGAAGGGTTAT
65 TTAAGTCTAGAAGGGTTAT
* * * *
66822 CTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACT
1 CTGCCAACAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACT
* *
66887 TAAGTCTAGAAAGGTTGT
66 TAAGTCTAGAAGGGTTAT
* * *
66905 CTGCCAACACAGGACCTTTGAGTTCGACTACGCTCAACT-CAACGGCACATCATTTGCAGCATAA
1 CTGCCAACA-AAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCATATCATTTGCAGCATAA
*
66969 CTTAAGTCGAGAAGGGTTAT
64 CTTAAGTCTAGAAGGGTTAT
* * * *
66989 CTGCCAACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAAC
1 CTGCCAA-CAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAAC
* *
67054 TCAAGGCTAGAAGGGTTAT
65 TTAAGTCTAGAAGGGTTAT
* * * * *
67073 CTGTCACCAAAGACCTTGGAGTTCGACTACGCTCAGCTCTAAGGCATATCATTTGCAGCACAACT
1 CTGCCAACAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACT
* * *
67138 CAAGGCTAGAAGGGTTGT
66 TAAGTCTAGAAGGGTTAT
* * * * *
67156 CTGCCTACACAAGACCTTTGAGTTCGACTACACTCAGCTCCAAGGCATATCATTTGTAGTACAAC
1 CTGCCAACA-AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAAC
*
67221 TTAAGTCTAGAAGGGTTGT
65 TTAAGTCTAGAAGGGTTAT
* * *
67240 CTGCCAACTCAAGACCTTTGAGTTCGACTACGCTCAACT-CAACGGCACATCATTTGCAGCATAA
1 CTGCCAAC-AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCATATCATTTGCAGCATAA
*
67304 CTTAAGTCGAGAAGGGTTAT
64 CTTAAGTCTAGAAGGGTTAT
* * *
67324 CTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAAC
1 CTGCCAA-CAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAAC
* *
67389 TCAAGGCTAGAAGGGTTAT
65 TTAAGTCTAGAAGGGTTAT
* * * *
67408 CTGTCACCAAAGACCTTGGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACT
1 CTGCCAACAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACT
*
67473 TAAGTCTAGAAGGGTTGT
66 TAAGTCTAGAAGGGTTAT
* * *
67491 CTGCCAACACAAGACCTTTGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCACAAC
1 CTGCCAACA-AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAAC
*
67556 TTAAGTCTAGAAGGGTTTT
65 TTAAGTCTAGAAGGGTTAT
* * * * * *
67575 CTGCCAACAAAATACCTTTGAGTTCGATTATGCTCAGCTACAAGGCATATCATTTGTAGCATAGC
1 CTGCCAAC-AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAAC
* *
67640 TTAAGTCGAGAAGGGCTAT
65 TTAAGTCTAGAAGGGTTAT
* * * * * * *
67659 CTG-C--CAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGTATAAC
1 CTGCCAACAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCATATCATTTGCAGCATAAC
* *
67721 TCAAGACTAGAAGGGTTAT
65 TTAAGTCTAGAAGGGTTAT
* * * * *
67740 CTGTCAACAAAGACCTTTGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCT
1 CTGCCAACAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACT
* *
67805 TAAGTCGAGAAGGGCTAT
66 TAAGTCTAGAAGGGTTAT
67823 CTGCCAA
1 CTGCCAA
67830 AGACCCCCGA
Statistics
Matches: 1066, Mismatches: 164, Indels: 45
0.84 0.13 0.04
Matches are distributed among these distances:
80 81 0.08
81 110 0.10
82 7 0.01
83 277 0.26
84 581 0.55
85 10 0.01
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (83 bp):
CTGCCAACAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACT
TAAGTCTAGAAGGGTTAT
Found at i:67109 original size:251 final size:250
Alignment explanation
Indices: 66495--67890 Score: 1574
Period size: 251 Copynumber: 5.6 Consensus size: 250
66485 GAAAGGCTAC
* * * * *
66495 CTGCC-ACC-AAGACCTTCGAGTTTGACTACGTTCAGCTCCAAGGCACGTCATTTGCAGTATAGC
1 CTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAAC
* * * * * *
66558 TTAAGTCGAGAAGAGCTATCTG---CCAAAGACCCTT-AAGTTCGATTACACTCAGCTTCAAGGG
66 TTAAGTCGAGAAGGGTTATCTGCCACCAAAGA-CCTTCGAGTTCGACTACGCTCAGCTCCAA-GG
* * * *
66619 CATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAGCAAAGACCTTTGAGTTCGA
129 CATATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGA
* * * * *
66684 CTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTAT
194 CTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTAT
* * * * * *
66741 CTG----CCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAGGGCATATCATTTACAGCATAA
1 CTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAA
* * * *
66802 CTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
65 CTTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
* * * * * *
66867 ATATCATTTGCAGCACAACTTAAGTCTAGAAAGGTTGTCTGCCAACACAGGACCTTTGAGTTCGA
130 ATATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACA-AAGACCTTTGAGTTCGA
* * *
66932 CTACGCTCAACT-CAACGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTAT
194 CTACGCTCAGCTCCAA-GGCATATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTAT
* *
66989 CTGCCAACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAAC
1 CTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAAC
* * * * * *
67054 TCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTGGAGTTCGACTACGCTCAGCTCTAAGGCA
66 TTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA
* * *
67119 TATCATTTGCAGCACAACTCAAGGCTAGAAGGGTTGTCTGCCTACACAAGACCTTTGAGTTCGAC
131 TATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACA-AAGACCTTTGAGTTCGAC
* * * * *
67184 TACACTCAGCTCCAAGGCATATCATTTGTAGTACAACTTAAGTCTAGAAGGGTTGT
195 TACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTAT
* *
67240 CTGCCAACTC-AAGACCTTTGAGTTCGACTACGCTCAACT-CAACGGCACATCATTTGCAGCATA
1 CTGCCAAC-CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATA
67303 ACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAG
64 ACTTAAGTCGAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAG
* * * * *
67368 GCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTGGAGTTCG
128 GCATATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCG
* *
67433 ACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGT
193 ACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTAT
* * *
67491 CTGCCAA-CACAAGACCTTTGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCACAA
1 CTGCCAACCA-AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAA
* * * * * * * *
67555 CTTAAGTCTAGAAGGGTTTTCTGCCAACAAAATACCTTTGAGTTCGATTATGCTCAGCTACAAGG
65 CTTAAGTCGAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
* * * * * * * *
67620 CATATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--CAAAGACCCTTAAGTTCGA
129 CATATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGA
* * * * * * *
67682 TTACACTCAGCTTCAAGGGCATATCATTTACAGTATAACTCAAGACTAGAAGGGTTAT
194 CTACGCTCAGCTCCAA-GGCATATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTAT
* * * * *
67740 CTGTCAA-CAAAGACCTTTGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGC
1 CTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAAC
* ** * * * * *
67804 TTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGTC
66 TTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG-C
* * *
67866 ATATCATTTACAACATAGCTCAAGG
130 ATATCATTTGCAGCATAACTCAAGG
67891 AAAGAAGGAC
Statistics
Matches: 1002, Mismatches: 127, Indels: 43
0.85 0.11 0.04
Matches are distributed among these distances:
243 2 0.00
244 54 0.05
245 58 0.06
246 3 0.00
247 48 0.05
248 195 0.19
249 44 0.04
250 4 0.00
251 481 0.48
252 113 0.11
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (250 bp):
CTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAAC
TTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA
TATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGACT
ACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTAT
Found at i:67199 original size:335 final size:332
Alignment explanation
Indices: 66495--67854 Score: 1706
Period size: 335 Copynumber: 4.1 Consensus size: 332
66485 GAAAGGCTAC
* ** * * * *
66495 CTGCCACCAAGACCTTCGAGTTTGACTACGTTCAGCTCCAAGGCACGTCATTTGCAGTATAGCTT
1 CTGCCACCAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCACAACTT
* * * * * * * * *
66560 AAGTCGAG-AAGAGCTATCTG-C--CA-AAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGC
66 AAGTCTAGAAAG-GTTGTCTGCCAACACAAGACCTTTGAGTTCGACTACGCTCAAC-TCAACGGC
* * * * * * * * *
66620 ATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAGCAAAGACCTTTGAGTTCGAC
129 ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGAC
* * * * * * *
66685 TACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTG---CCA
194 TACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCA
* * * * * * *
66747 AAGACCCTCGAGTTCGACTACGTTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTA
259 AAGACCTTGGAGTTCGACTACGCTCAGC-TCCAAGGCATATCATTTGCAGCACAACTCAAGGCTA
*
66812 GAAGGGTTAT
323 GAAGGGTTGT
* * *
66822 CTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACT
1 CTGCCACC-AAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCACAACT
*
66887 TAAGTCTAGAAAGGTTGTCTGCCAACACAGGACCTTTGAGTTCGACTACGCTCAACTCAACGGCA
65 TAAGTCTAGAAAGGTTGTCTGCCAACACAAGACCTTTGAGTTCGACTACGCTCAACTCAACGGCA
*
66952 CATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGAC
130 CATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGAC
67017 TACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCA
194 TACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCA
*
67082 AAGACCTTGGAGTTCGACTACGCTCAGCTCTAAGGCATATCATTTGCAGCACAACTCAAGGCTAG
259 AAGACCTTGGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTCAAGGCTAG
67147 AAGGGTTGT
324 AAGGGTTGT
* * * *
67156 CTGCCTACACAAGACCTTTGAGTTCGACTACACTCAGCTCCAAGGCATATCATTTGTAGTACAAC
1 CTGCC-AC-CAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCACAAC
* *
67221 TTAAGTCTAGAAGGGTTGTCTGCCAACTCAAGACCTTTGAGTTCGACTACGCTCAACTCAACGGC
64 TTAAGTCTAGAAAGGTTGTCTGCCAACACAAGACCTTTGAGTTCGACTACGCTCAACTCAACGGC
67286 ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGA
129 ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGA
67351 CTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACC
193 CTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACC
* *
67416 AAAGACCTTGGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTA
258 AAAGACCTTGGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTCAAGGCTA
67481 GAAGGGTTGT
323 GAAGGGTTGT
*
67491 CTGCCAACACAAGACCTTTGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCACAAC
1 CTGCC-AC-CAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCACAAC
* * * * * * *
67556 TTAAGTCTAGAAGGGTTTTCTGCCAACAAAATACCTTTGAGTTCGATTATGCTCAGCTACAA-GG
64 TTAAGTCTAGAAAGGTTGTCTGCCAACACAAGACCTTTGAGTTCGACTACGCTCAACT-CAACGG
* * * * *
67620 CATATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCTT-AAGTTCG
128 CACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGA-CCTTCGAGTTCG
* * * * * *
67681 ATTACACTCAGCTTCAAGGGCATATCATTTACAGTATAACTCAAGACTAGAAGGGTTATCTGTCA
192 ACTACGCTCAGCTCCAA-GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCA
* * * * * * * * *
67746 ACAAAGACCTTTGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTC
256 CCAAAGACCTTGGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTCAAGGC
* * *
67811 GAGAAGGGCTAT
321 TAGAAGGGTTGT
** *
67823 CTGCCA--AAGACCCCCGAGTTCGATTACACTCA
1 CTGCCACCAAGACCTTCGAGTTCGACTACACTCA
67855 ACTTCGAGGT
Statistics
Matches: 927, Mismatches: 91, Indels: 29
0.89 0.09 0.03
Matches are distributed among these distances:
327 7 0.01
328 85 0.09
329 4 0.00
331 73 0.08
332 213 0.23
334 45 0.05
335 496 0.54
336 4 0.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (332 bp):
CTGCCACCAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCACAACTT
AAGTCTAGAAAGGTTGTCTGCCAACACAAGACCTTTGAGTTCGACTACGCTCAACTCAACGGCAC
ATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTA
CGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAA
GACCTTGGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTCAAGGCTAGAA
GGGTTGT
Found at i:68482 original size:2 final size:2
Alignment explanation
Indices: 68471--68520 Score: 70
Period size: 2 Copynumber: 26.0 Consensus size: 2
68461 CCGCTCAAAT
68471 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
68512 TA T- TA TA TA
1 TA TA TA TA TA
68521 ATAAATTAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.07
2 39 0.89
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:69759 original size:13 final size:13
Alignment explanation
Indices: 69741--69765 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69731 TATTGCTTAT
69741 TTTATTTTATTTA
1 TTTATTTTATTTA
69754 TTTATTTTATTT
1 TTTATTTTATTT
69766 CTCATTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:71910 original size:2 final size:2
Alignment explanation
Indices: 71898--71957 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
71888 AAAAATATTA
*
71898 AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
71940 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
71958 TTTATAAATA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:72512 original size:28 final size:28
Alignment explanation
Indices: 72449--72532 Score: 77
Period size: 28 Copynumber: 2.9 Consensus size: 28
72439 AAAGCAATAG
*
72449 GATTAAAATATAAAAAGTAATAAAACTT-GT
1 GATTAAAA-AT-AAAAGTATTAAAA-TTAGT
72479 -AGTTAAAAATAAAAGTATTAAAATTAGT
1 GA-TTAAAAATAAAAGTATTAAAATTAGT
72507 GATT-AAAATACAACA-TATTAAAATTA
1 GATTAAAAATA-AA-AGTATTAAAATTA
72533 AAAGCTCTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
27 8 0.17
28 29 0.60
29 5 0.10
30 6 0.12
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (28 bp):
GATTAAAAATAAAAGTATTAAAATTAGT
Found at i:73805 original size:16 final size:16
Alignment explanation
Indices: 73786--73816 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
73776 TTTATTTAAT
*
73786 AATAATAATATTAAAC
1 AATAATAATAATAAAC
73802 AATAATAATAATAAA
1 AATAATAATAATAAA
73817 AGCAAACTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
AATAATAATAATAAAC
Found at i:73823 original size:22 final size:22
Alignment explanation
Indices: 73782--73823 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
73772 AATATTTATT
* **
73782 TAATAATAATAATATTAAACAA
1 TAATAATAATAAAAGCAAACAA
73804 TAATAATAATAAAAGCAAAC
1 TAATAATAATAAAAGCAAAC
73824 TAAAAAATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.26
Consensus pattern (22 bp):
TAATAATAATAAAAGCAAACAA
Found at i:74089 original size:45 final size:45
Alignment explanation
Indices: 73988--74375 Score: 659
Period size: 45 Copynumber: 8.6 Consensus size: 45
73978 GAGGTCTTAT
*
73988 CATCTTGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TTTTGAAAA
*
74034 CATCATGCACTGAAGGGCTTATAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
74079 CATCATGCACTGAAGGGCTTACAAATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* * *
74124 TATCATGCACTGAAGGGCTTACAAATGACCCAAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
74169 CATCATGCACTGAAGGGCTTACAGATGAACCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
**
74214 CATCATGCACTGAAGGGCTTACAGATGACCCGAACATTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* *
74259 TATCATGCACTGAAGGGCTTACAGATGACCTGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
74304 TATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
74349 CATCATGCACTGAAGGGCTTACAGATG
1 CATCATGCACTGAAGGGCTTACAGATG
74376 TGGGAAATAG
Statistics
Matches: 323, Mismatches: 19, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
45 289 0.89
46 34 0.11
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (45 bp):
CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
Found at i:75084 original size:22 final size:22
Alignment explanation
Indices: 75029--75085 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
75019 AATAAAGCTT
*
75029 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
75051 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
75073 TCATCTTTGAAGA
1 TCATCTTTGAAGA
75086 ATGTAGATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (22 bp):
TCATCTTTGAAGAGAGAATCTA
Found at i:76034 original size:57 final size:57
Alignment explanation
Indices: 75946--76057 Score: 215
Period size: 57 Copynumber: 2.0 Consensus size: 57
75936 CATATAGATG
75946 AAAACTCAGTTCATCCTGACTGTTAATGATAACCCCAGTAACAACGGGAAAGGGCGT
1 AAAACTCAGTTCATCCTGACTGTTAATGATAACCCCAGTAACAACGGGAAAGGGCGT
*
76003 AAAACTCAGTTCATCCTGATTGTTAATGATAACCCCAGTAACAACGGGAAAGGGC
1 AAAACTCAGTTCATCCTGACTGTTAATGATAACCCCAGTAACAACGGGAAAGGGC
76058 AATATACGTA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (57 bp):
AAAACTCAGTTCATCCTGACTGTTAATGATAACCCCAGTAACAACGGGAAAGGGCGT
Found at i:78719 original size:17 final size:17
Alignment explanation
Indices: 78694--78732 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
78684 AAACTTGGTA
*
78694 ATCCTGTAACCAAGGTT
1 ATCCAGTAACCAAGGTT
78711 ATCCAGTAACCAAGGTT
1 ATCCAGTAACCAAGGTT
78728 ATCCA
1 ATCCA
78733 TTATGAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (17 bp):
ATCCAGTAACCAAGGTT
Found at i:88361 original size:7 final size:7
Alignment explanation
Indices: 88351--88418 Score: 136
Period size: 7 Copynumber: 9.7 Consensus size: 7
88341 TTTTTCCTTT
88351 TTTTTCC
1 TTTTTCC
88358 TTTTTCC
1 TTTTTCC
88365 TTTTTCC
1 TTTTTCC
88372 TTTTTCC
1 TTTTTCC
88379 TTTTTCC
1 TTTTTCC
88386 TTTTTCC
1 TTTTTCC
88393 TTTTTCC
1 TTTTTCC
88400 TTTTTCC
1 TTTTTCC
88407 TTTTTCC
1 TTTTTCC
88414 TTTTT
1 TTTTT
88419 TTGATGAGTA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 61 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTCC
Found at i:92448 original size:20 final size:20
Alignment explanation
Indices: 92425--92468 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
92415 AATGAAATTT
*
92425 AATATCTAA-AATTAAAATAA
1 AATAT-TAATAATAAAAATAA
*
92445 AATATTAATAATAAAAATAT
1 AATATTAATAATAAAAATAA
92465 AATA
1 AATA
92469 AATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (20 bp):
AATATTAATAATAAAAATAA
Found at i:92459 original size:14 final size:13
Alignment explanation
Indices: 92432--92490 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 13
92422 TTTAATATCT
92432 AAAATTAA-AATA
1 AAAATTAATAATA
92444 AAATATTAATAATA
1 AAA-ATTAATAATA
92458 AAAA-T-ATAATA
1 AAAATTAATAATA
*
92469 AATATTATAAGTAATA
1 AA-AAT-TAA-TAATA
92485 AAAATT
1 AAAATT
92491 TTGAAAGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
11 8 0.21
12 5 0.13
13 6 0.16
14 9 0.24
15 3 0.08
16 7 0.18
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (13 bp):
AAAATTAATAATA
Found at i:92459 original size:25 final size:25
Alignment explanation
Indices: 92408--92475 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 25
92398 TTTGACAAAC
* *
92408 AAATAAAAATGAAAT-TTAATATCTA
1 AAATTAAAAT-AAATATTAATATATA
92433 AAATTAAAATAAAATATTAATA-ATA
1 AAATTAAAAT-AAATATTAATATATA
* *
92458 AAAATATAATAAATATTA
1 AAATTAAAATAAATATTA
92476 TAAGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
24 8 0.22
25 23 0.62
26 6 0.16
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (25 bp):
AAATTAAAATAAATATTAATATATA
Found at i:93012 original size:2 final size:2
Alignment explanation
Indices: 92999--93039 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
92989 TTTTAAGAAA
*
92999 AT AT AT -T A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93039 A
1 A
93040 AATAAGATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:93058 original size:23 final size:23
Alignment explanation
Indices: 93023--93066 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
93013 ATATATATAT
*
93023 ATATATATATATTTATAAATAAG
1 ATATATATATATTTAGAAATAAG
* *
93046 ATATTTATTTATTTAGAAATA
1 ATATATATATATTTAGAAATA
93067 TTAGAAAAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (23 bp):
ATATATATATATTTAGAAATAAG
Found at i:93591 original size:28 final size:30
Alignment explanation
Indices: 93528--93595 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 30
93518 AAAACAATAG
93528 GATTAAAATATAAAAAGTAATAAAACTTGT
1 GATTAAAATATAAAAAGTAATAAAACTTGT
*
93558 -AGTTAAAA-AT-AAAAGTATTAAAA-TTAGT
1 GA-TTAAAATATAAAAAGTAATAAAACTT-GT
93586 GATTAAAATA
1 GATTAAAATA
93596 CAACATATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
27 2 0.06
28 20 0.61
29 5 0.15
30 6 0.18
ACGTcount: A:0.57, C:0.01, G:0.10, T:0.31
Consensus pattern (30 bp):
GATTAAAATATAAAAAGTAATAAAACTTGT
Found at i:94885 original size:3 final size:3
Alignment explanation
Indices: 94877--94925 Score: 80
Period size: 3 Copynumber: 16.0 Consensus size: 3
94867 AATATTTATT
*
94877 TAA TAA TAA TAA TAA TAA TAA TAA TAA TGTA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
94923 TAA
1 TAA
94926 AATTGAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 41 0.95
4 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:95132 original size:21 final size:21
Alignment explanation
Indices: 95106--95158 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
95096 GTTTCCAGAT
95106 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACTTCGACTA
*
95127 TCGCAACGCGAACTTGGACTA
1 TCGCAACGCGAACTTCGACTA
*
95148 TCGCAATGCGA
1 TCGCAACGCGA
95159 TTTACATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (21 bp):
TCGCAACGCGAACTTCGACTA
Found at i:95197 original size:21 final size:21
Alignment explanation
Indices: 95166--95316 Score: 127
Period size: 21 Copynumber: 7.3 Consensus size: 21
95156 CGATTTACAT
*
95166 ATTCGCATTGCGATAGTCCAA
1 ATTCGCGTTGCGATAGTCCAA
* *
95187 GTTCGCGTTGCGATTTATTCCAA
1 ATTCGCGTTGCGA--TAGTCCAA
*
95210 ATT--CGTTGCGATAGTCGAA
1 ATTCGCGTTGCGATAGTCCAA
* **
95229 GTTCGCGTTGCGATTTTCCAA
1 ATTCGCGTTGCGATAGTCCAA
95250 ATT--CGTTGCGATAGT-CAA
1 ATTCGCGTTGCGATAGTCCAA
*
95268 AGTTCGCGTTGCGATTTATTCCAA
1 A-TTCGCGTTGCGA--TAGTCCAA
95292 ATT--CGTTGCGATAGTCCAA
1 ATTCGCGTTGCGATAGTCCAA
*
95311 AATCGC
1 ATTCGC
95317 AACGACTGGT
Statistics
Matches: 102, Mismatches: 16, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
18 4 0.04
19 29 0.28
21 51 0.50
23 14 0.14
24 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (21 bp):
ATTCGCGTTGCGATAGTCCAA
Found at i:95223 original size:42 final size:42
Alignment explanation
Indices: 95173--95310 Score: 244
Period size: 42 Copynumber: 3.3 Consensus size: 42
95163 CATATTCGCA
95173 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
95215 TTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
95255 TTGCGATAGTCAAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
95297 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
95311 AATCGCAACG
Statistics
Matches: 91, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
40 37 0.41
41 4 0.04
42 50 0.55
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:95411 original size:6 final size:6
Alignment explanation
Indices: 95400--95426 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
95390 GACACGTATT
95400 ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACC
95427 CGAGACGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:96284 original size:21 final size:21
Alignment explanation
Indices: 96057--96300 Score: 184
Period size: 21 Copynumber: 11.7 Consensus size: 21
96047 AATTTGGAAT
*
96057 AAATCGCAACGCGAACTTCGA
1 AAATCGCAACGCGAACTTGGA
**
96078 CTATCGCAA--CGAACTTGGAA
1 AAATCGCAACGCGAACTTGG-A
96098 TAAATCGCAACGCGAACTTGGA
1 -AAATCGCAACGCGAACTTGGA
** *
96120 CTATCGCAA--CGAATTTGGAA
1 AAATCGCAACGCGAACTTGG-A
*
96140 TAAATCGCAACGCGAACTTCGA
1 -AAATCGCAACGCGAACTTGGA
**
96162 CTATCGCAA--CGAACTTGGAA
1 AAATCGCAACGCGAACTTGG-A
96182 TAAATCGCAACGCGAACTTGGA
1 -AAATCGCAACGCGAACTTGGA
** *
96204 CTATCGCAA--CGAATTTGGAA
1 AAATCGCAACGCGAACTTGG-A
*
96224 TAAATCGCAACGCGAACTTCGA
1 -AAATCGCAACGCGAACTTGGA
** *
96246 CTATCGCAA--CGAATTTGGA
1 AAATCGCAACGCGAACTTGGA
96265 AAATCGCAACGCGAACTTGGA
1 AAATCGCAACGCGAACTTGGA
**
96286 CTATCGCAACGCGAA
1 AAATCGCAACGCGAA
96301 TATGTAAATT
Statistics
Matches: 172, Mismatches: 33, Indels: 36
0.71 0.14 0.15
Matches are distributed among these distances:
19 47 0.27
20 4 0.02
21 85 0.49
22 4 0.02
23 32 0.19
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (21 bp):
AAATCGCAACGCGAACTTGGA
Found at i:96301 original size:42 final size:42
Alignment explanation
Indices: 96031--96296 Score: 473
Period size: 42 Copynumber: 6.4 Consensus size: 42
96021 CGTTGCGATT
96031 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
* *
96073 TTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
96115 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
* *
96157 TTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
96199 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
*
96241 TTCGACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
96281 TTGGACTATCGCAACG
1 TTGGACTATCGCAACG
96297 CGAATATGTA
Statistics
Matches: 214, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
40 31 0.14
41 1 0.00
42 182 0.85
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.21
Consensus pattern (42 bp):
TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
Found at i:99501 original size:42 final size:42
Alignment explanation
Indices: 99451--99585 Score: 161
Period size: 42 Copynumber: 3.3 Consensus size: 42
99441 GATGAAAACA
*
99451 TTTTGTCACTAATCTTAGTTGGTGATTTGTGATGATAATTGT
1 TTTTGTCACTAGTCTTAGTTGGTGATTTGTGATGATAATTGT
* *
99493 TTTTGTCACTAGCCTTAGTTAGTGATTTGTG-TCGATAATTG-
1 TTTTGTCACTAGTCTTAGTTGGTGATTTGTGAT-GATAATTGT
* * *
99534 -TTTGTTACTAGTCTTAGTTGGTGATTTATGATGACAATAT-T
1 TTTTGTCACTAGTCTTAGTTGGTGATTTGTGATGATAAT-TGT
*
99575 TTTTATCACTA
1 TTTTGTCACTA
99586 TTGAAGTGAA
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
40 31 0.40
41 3 0.04
42 44 0.56
ACGTcount: A:0.22, C:0.10, G:0.19, T:0.49
Consensus pattern (42 bp):
TTTTGTCACTAGTCTTAGTTGGTGATTTGTGATGATAATTGT
Found at i:108661 original size:59 final size:59
Alignment explanation
Indices: 108519--108663 Score: 159
Period size: 60 Copynumber: 2.4 Consensus size: 59
108509 AAATAAATTG
* * * *
108519 GGGACCAATTTAGAATGAAGGTCATAGTTTTGGGATGAAATTAAAATTTTCAAAAGTTTA
1 GGGACTAATTTAGAATGAA-GTCATAGCTTAGGGATAAAATTAAAATTTTCAAAAGTTTA
* * * *
108579 AGGAATAATTTAGAATCATAGTCATGGCTTAGGGATAAAATT-AAATATTT-AAAAGTTTA
1 GGGACTAATTTAGAATGA-AGTCATAGCTTAGGGATAAAATTAAAAT-TTTCAAAAGTTTA
*
108638 GGGACTAATTTAAAATGAGAGTCATA
1 GGGACTAATTTAGAATGA-AGTCATA
108664 TATTGAGGAC
Statistics
Matches: 69, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
59 33 0.48
60 35 0.51
61 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.20, T:0.32
Consensus pattern (59 bp):
GGGACTAATTTAGAATGAAGTCATAGCTTAGGGATAAAATTAAAATTTTCAAAAGTTTA
Found at i:118752 original size:14 final size:14
Alignment explanation
Indices: 118729--118766 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
118719 TCTGTCTATA
* *
118729 TGCAGAGATTTTTT
1 TGCAGGGATTTATT
118743 TGCAGGGATTTATT
1 TGCAGGGATTTATT
118757 TGCAGGGATT
1 TGCAGGGATT
118767 ACTTCTCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.21, C:0.08, G:0.29, T:0.42
Consensus pattern (14 bp):
TGCAGGGATTTATT
Found at i:122059 original size:15 final size:14
Alignment explanation
Indices: 122039--122077 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
122029 ATCTCATTAT
122039 ATTTCTCTTCTCTTC
1 ATTTCTCTTC-CTTC
122054 ATTTCTTCTTCCTTC
1 ATTTC-TCTTCCTTC
122069 ATCTTCTCT
1 AT-TTCTCT
122078 AAGTATCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.08, C:0.33, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTTCTCTTCCTTC
Found at i:126151 original size:20 final size:21
Alignment explanation
Indices: 126126--126218 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
126116 TTTTCCCAAT
*
126126 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
126146 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
126167 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
126187 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
126208 TCGCAATGCGA
1 TCGCAATGCGA
126219 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:126171 original size:41 final size:41
Alignment explanation
Indices: 126126--126218 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
126116 TTTTCCCAAT
126126 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
126167 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
126208 TCGCAATGCGA
1 TCGCAATGCGA
126219 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:126231 original size:41 final size:41
Alignment explanation
Indices: 126145--126279 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
126135 GAATAAGTAA
* *
126145 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
126186 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
126227 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
126268 TTCGCAACGCGA
1 ATCGCAACGCGA
126280 TACTGACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:126232 original size:20 final size:20
Alignment explanation
Indices: 126207--126301 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
126197 AATTGGGAAA
*
126207 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
126227 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
126248 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
126268 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
126288 TTCGCAACGCGATA
1 ATCGCAACGCGATA
126302 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:126517 original size:22 final size:22
Alignment explanation
Indices: 126489--126532 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
126479 CACTCTCTCA
126489 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
126511 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
126533 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:126805 original size:20 final size:20
Alignment explanation
Indices: 126776--126819 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
126766 GCGATTTTAG
126776 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* **
126796 TTTCGTGTTGCGATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
126816 TTTC
1 TTTC
126820 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.11, C:0.18, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:128160 original size:18 final size:18
Alignment explanation
Indices: 128139--128183 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
128129 TCCACTTCGG
*
128139 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
128157 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
128175 GAGCCATCA
1 GAGCCATCA
128184 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:128718 original size:19 final size:20
Alignment explanation
Indices: 128664--128730 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
128654 TAGTTTACTT
* *
128664 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
* *
128684 TCGCAGCGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
128704 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
128723 TCGCAACG
1 TCGCAACG
128731 ACAAAATCGC
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
19 14 0.38
20 23 0.62
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:128738 original size:14 final size:13
Alignment explanation
Indices: 128719--128776 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 13
128709 ATGCGAAATG
128719 AAAATCGCAACGA
1 AAAATCGCAACGA
128732 CAAAATCGCAATGCGAA
1 -AAAATCGCAA--CG-A
128749 ATGAAATCGCAACGA
1 A--AAATCGCAACGA
128764 AAGAATCGCAACG
1 AA-AATCGCAACG
128777 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 1 0.03
14 20 0.53
15 2 0.05
16 5 0.13
17 1 0.03
18 9 0.24
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.10
Consensus pattern (13 bp):
AAAATCGCAACGA
Found at i:128761 original size:32 final size:33
Alignment explanation
Indices: 128703--128793 Score: 150
Period size: 32 Copynumber: 2.8 Consensus size: 33
128693 GGAAATGGCT
128703 ATCGCAATGCGAAATGAAAATCGCAACGACAA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGA-AAGA
128736 ATCGCAATGCGAAATG-AAATCGCAACGAAAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAAAGA
*
128768 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
128794 TGCGATTTTC
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
31 2 0.04
32 28 0.51
33 25 0.45
ACGTcount: A:0.47, C:0.21, G:0.20, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAAAGA
Found at i:128780 original size:16 final size:17
Alignment explanation
Indices: 128703--128798 Score: 87
Period size: 19 Copynumber: 5.6 Consensus size: 17
128693 GGAAATGGCT
128703 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATG-AA
*
128722 ATCGCAA-CGACA--AA
1 ATCGCAAGCGAAATGAA
128736 ATCGCAATGCGAAATGAA
1 ATCGCAA-GCGAAATGAA
128754 ATCGCAA-CGAAA-G-A
1 ATCGCAAGCGAAATGAA
128768 ATCGCAACGCGAAATGAAA
1 ATCGCAA-GCGAAATG-AA
128787 ATCGCAATGCGA
1 ATCGCAA-GCGA
128799 TTTTCATTTC
Statistics
Matches: 65, Mismatches: 3, Indels: 18
0.76 0.03 0.21
Matches are distributed among these distances:
14 17 0.26
15 1 0.02
16 14 0.22
17 5 0.08
18 9 0.14
19 19 0.29
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.12
Consensus pattern (17 bp):
ATCGCAAGCGAAATGAA
Found at i:128810 original size:19 final size:18
Alignment explanation
Indices: 128788--128883 Score: 91
Period size: 19 Copynumber: 5.7 Consensus size: 18
128778 GAAATGAAAA
*
128788 TCGCAATGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
*
128807 TCGCGTTGCGA-TTC-TT
1 TCGCATTGCGATTTCATT
128823 TCG--TTGCGATTTCATT
1 TCGCATTGCGATTTCATT
*
128839 TCGCATTGCGATTT--TG
1 TCGCATTGCGATTTCATT
128855 TCG--TTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
128872 TCGCATTGCGAT
1 TCGCATTGCGAT
128884 AGCCATTTCC
Statistics
Matches: 64, Mismatches: 4, Indels: 19
0.74 0.05 0.22
Matches are distributed among these distances:
14 12 0.19
15 6 0.09
16 14 0.22
17 7 0.11
18 10 0.16
19 15 0.23
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.45
Consensus pattern (18 bp):
TCGCATTGCGATTTCATT
Found at i:128829 original size:14 final size:14
Alignment explanation
Indices: 128810--128865 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
128800 TTTCATTTCG
128810 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
128824 CGTTGCGATTTCATTT
1 CGTTGCGA-TTC-TTT
128840 CGCATTGCGATT-TTGT
1 CG--TTGCGATTCTT-T
128856 CGTTGCGATT
1 CGTTGCGATT
128866 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
14 16 0.43
15 5 0.14
16 8 0.22
17 2 0.05
18 6 0.16
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:128874 original size:33 final size:33
Alignment explanation
Indices: 128794--128883 Score: 148
Period size: 32 Copynumber: 2.8 Consensus size: 33
128784 AAAATCGCAA
*
128794 TGCGATTTTCATTTCGCGTTGCGATTCTTTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTTTCGT
128827 TGCGA-TTTCATTTCGCATTGCGATT-TTGTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTT-TCGT
128859 TGCGATTTTCATTTCGCATTGCGAT
1 TGCGATTTTCATTTCGCATTGCGAT
128884 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
31 2 0.04
32 28 0.52
33 24 0.44
ACGTcount: A:0.12, C:0.20, G:0.21, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTTTCGT
Found at i:128903 original size:20 final size:20
Alignment explanation
Indices: 128878--128923 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
128868 CATTTCGCAT
128878 TGCGATAGCCATTTCCGCGC
1 TGCGATAGCCATTTCCGCGC
* * *
128898 TGCGATAGTCATTTTCGCGT
1 TGCGATAGCCATTTCCGCGC
128918 TGCGAT
1 TGCGAT
128924 TTTAAGTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.26, G:0.26, T:0.33
Consensus pattern (20 bp):
TGCGATAGCCATTTCCGCGC
Found at i:130949 original size:19 final size:19
Alignment explanation
Indices: 130925--131011 Score: 130
Period size: 19 Copynumber: 4.8 Consensus size: 19
130915 ATCGCAACGA
130925 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
130944 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
130963 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
130982 GAAAATTGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
130996 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
131012 TTTTCATTTC
Statistics
Matches: 63, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
14 10 0.16
15 1 0.02
16 2 0.03
17 2 0.03
19 48 0.76
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.15
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:130976 original size:38 final size:33
Alignment explanation
Indices: 130915--131011 Score: 140
Period size: 38 Copynumber: 2.8 Consensus size: 33
130905 AAAACAGACT
130915 ATCGCAACGAGAAAATCGCAATGCGAAATGAAA
1 ATCGCAACGAGAAAATCGCAATGCGAAATGAAA
130948 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAAA
*
130986 ATTGCAACGAGAAAATCGCAATGCGA
1 ATCGCAACGAGAAAATCGCAATGCGA
131012 TTTTCATTTC
Statistics
Matches: 58, Mismatches: 1, Indels: 10
0.84 0.01 0.14
Matches are distributed among these distances:
33 23 0.40
34 1 0.02
35 2 0.03
36 2 0.03
37 1 0.02
38 29 0.50
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (33 bp):
ATCGCAACGAGAAAATCGCAATGCGAAATGAAA
Found at i:131087 original size:20 final size:20
Alignment explanation
Indices: 131030--131087 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
131020 TCGCATTGCG
* *
131030 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
131050 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
131070 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
131088 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:132174 original size:24 final size:24
Alignment explanation
Indices: 132147--132200 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
132137 GTATTCGAAA
* *
132147 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
132171 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
132195 TTTGAT
1 TTTGAT
132201 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:132392 original size:12 final size:12
Alignment explanation
Indices: 132375--132399 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
132365 ATATAATCCT
132375 GAAGAAGAAAAA
1 GAAGAAGAAAAA
132387 GAAGAAGAAAAA
1 GAAGAAGAAAAA
132399 G
1 G
132400 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:134714 original size:19 final size:19
Alignment explanation
Indices: 134692--134822 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
134682 GGAAATTACT
134692 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
134711 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
134725 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
134744 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
134758 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
134777 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
134791 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
134810 ATCGCAACGCGAA
1 ATCGCAATGCGAA
134823 TTTAATTTCG
Statistics
Matches: 84, Mismatches: 13, Indels: 30
0.66 0.10 0.24
Matches are distributed among these distances:
14 27 0.32
15 3 0.04
16 6 0.07
17 6 0.07
18 3 0.04
19 39 0.46
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:134734 original size:33 final size:33
Alignment explanation
Indices: 134692--134818 Score: 202
Period size: 33 Copynumber: 3.8 Consensus size: 33
134682 GGAAATTACT
134692 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
134725 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
134757 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
134791 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
134819 CGAATTTAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
32 1 0.01
33 83 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:134799 original size:66 final size:66
Alignment explanation
Indices: 134693--134825 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
134683 GAAATTACTA
*
134693 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
134758 T
66 T
*
134759 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
134824 T
66 T
134825 T
1 T
134826 AATTTCGCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:134840 original size:19 final size:19
Alignment explanation
Indices: 134818--134880 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 19
134808 AAATCGCAAC
*
134818 GCGAATTTAATTTCGCGTT
1 GCGATTTTAATTTCGCGTT
*
134837 GCGATTTTCATTTTCGCGTT
1 GCGATTTT-AATTTCGCGTT
* *
134857 GCGATTTTCATTTCGCATT
1 GCGATTTTAATTTCGCGTT
134876 GCGAT
1 GCGAT
134881 AGTACTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
19 20 0.53
20 18 0.47
ACGTcount: A:0.16, C:0.19, G:0.21, T:0.44
Consensus pattern (19 bp):
GCGATTTTAATTTCGCGTT
Found at i:134853 original size:20 final size:19
Alignment explanation
Indices: 134827--134880 Score: 90
Period size: 20 Copynumber: 2.8 Consensus size: 19
134817 CGCGAATTTA
134827 ATTTCGCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
134846 ATTTTCGCGTTGCGATTTTC
1 A-TTTCGCGTTGCGATTTTC
*
134866 ATTTCGCATTGCGAT
1 ATTTCGCGTTGCGAT
134881 AGTACTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 14 0.42
20 19 0.58
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.46
Consensus pattern (19 bp):
ATTTCGCGTTGCGATTTTC
Found at i:135006 original size:14 final size:14
Alignment explanation
Indices: 134987--135022 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
134977 CATCAATTAA
*
134987 ACAAATCAACTTTT
1 ACAAATCAACCTTT
135001 ACAAATC-ACCTTT
1 ACAAATCAACCTTT
135014 ACAAATCAA
1 ACAAATCAA
135023 TTAAACAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (14 bp):
ACAAATCAACCTTT
Found at i:136067 original size:11 final size:11
Alignment explanation
Indices: 136035--136067 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
136025 TAATCAAATG
*
136035 AAAATATAAGG
1 AAAATATAAGA
136046 AAAATATAAGA
1 AAAATATAAGA
136057 AAAATATAAGA
1 AAAATATAAGA
136068 CTTACCCCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.18
Consensus pattern (11 bp):
AAAATATAAGA
Found at i:136467 original size:42 final size:42
Alignment explanation
Indices: 136391--136509 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
136381 GTGAATCGGG
* ** *
136391 CTCTTGAATGGTGGGA-GGGACCTCTTC-AACAATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGAATGACAGGGGC
*
136433 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGACAGGGGC
* * * * * *
136475 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGA
136510 TAGGCGAGTC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 2 0.03
42 58 0.91
43 4 0.06
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.23
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGACAGGGGC
Found at i:136510 original size:42 final size:42
Alignment explanation
Indices: 136421--136513 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
136411 CCTCTTCAAC
* * * * *
136421 AATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGG
1 AATGATAGGGGCCTCTTCAACGATAGGAGGGGACTCTCGAGG
* *
136463 AATGATAGGGGCCTCTTCAACGATAGGAGTGGACTCTTGAGG
1 AATGATAGGGGCCTCTTCAACGATAGGAGGGGACTCTCGAGG
*
136505 GATGATAGG
1 AATGATAGG
136514 CGAGTCGGGC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.25, C:0.16, G:0.38, T:0.22
Consensus pattern (42 bp):
AATGATAGGGGCCTCTTCAACGATAGGAGGGGACTCTCGAGG
Found at i:138585 original size:33 final size:33
Alignment explanation
Indices: 138528--138626 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
138518 ACGAGATAAT
*
138528 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
138562 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
138595 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
138627 GCGAAATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:138620 original size:19 final size:19
Alignment explanation
Indices: 138503--138687 Score: 174
Period size: 19 Copynumber: 10.1 Consensus size: 19
138493 TCTTTTGGTT
*
138503 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
138522 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
138542 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
138560 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
138576 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
138594 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
138609 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
138629 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
138648 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
138667 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
138686 GA
1 GA
138688 TTTTGGTTTC
Statistics
Matches: 138, Mismatches: 15, Indels: 26
0.77 0.08 0.15
Matches are distributed among these distances:
14 19 0.14
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.03
19 62 0.45
20 45 0.33
21 2 0.01
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:138641 original size:39 final size:38
Alignment explanation
Indices: 138598--138687 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 38
138588 GCGACCAGAC
138598 AATCGCAACGCGAAATGAAAATCGCAACCGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGCGAAATAAA
*
138637 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
*
138675 AATCGCAATGCGA
1 AATCGCAACGCGA
138688 TTTTGGTTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 22 0.45
39 27 0.55
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
Found at i:138716 original size:19 final size:19
Alignment explanation
Indices: 138683--138727 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
138673 AAAATCGCAA
*
138683 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
138702 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
138721 TACGATT
1 TGCGATT
138728 ATCTCGTTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:139286 original size:20 final size:20
Alignment explanation
Indices: 139261--139313 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
139251 GCGCTATGTA
139261 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
139281 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
139301 TATCTCGTTGCGA
1 AATCGCGTTGCGA
139314 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:139373 original size:21 final size:21
Alignment explanation
Indices: 139344--139436 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
139334 ATAGTAAGTA
139344 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
139365 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
139385 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
139406 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
139426 TCGCATTGCGA
1 TCGCATTGCGA
139437 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:139374 original size:41 final size:41
Alignment explanation
Indices: 139283--139417 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
139273 AAAGTCAGAA
* * * * ** *
139283 TCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTT-GTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
*
139323 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
139365 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
139406 TCGCGTTGCGAT
1 TCGCGTTGCGAT
139418 TTACTTATTC
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:139418 original size:41 final size:41
Alignment explanation
Indices: 139344--139436 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
139334 ATAGTAAGTA
139344 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
139385 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
139426 TCGCATTGCGA
1 TCGCATTGCGA
139437 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:139963 original size:157 final size:157
Alignment explanation
Indices: 139677--139979 Score: 543
Period size: 157 Copynumber: 1.9 Consensus size: 157
139667 CAGATAACAT
*
139677 ATAATTAGAGGAGTTTGTTTAATAGTTTTTTTTTTCAAAACAAAAACAACCCTAGAACCAATGAC
1 ATAATTAGAGGAGTTTATTTAATAGTTTTTTTTTTCAAAACAAAAACAACCCTAGAACCAATGAC
* * *
139742 AATCAAACAGATCAATCATTAAAATACGCGGCGCACGCTTATTGGCTGATCAGTATGCCTGTGAC
66 AATCAAACAGATCAACCATTAAAAGACGCGGCGAACGCTTATTGGCTGATCAGTATGCCTGTGAC
139807 GTCCTACCCAGTATATTTAATAGATAA
131 GTCCTACCCAGTATATTTAATAGATAA
*
139834 ATAATTAGAGGAGTTTATTTAATAGTTTTTTTTTTCAAAACCAAAACAACCCTAGAACCAATGAC
1 ATAATTAGAGGAGTTTATTTAATAGTTTTTTTTTTCAAAACAAAAACAACCCTAGAACCAATGAC
*
139899 AATCAAACAGATCAACCATTAAAGGACGCGGCGAACGCTTATTGGCTGATCAGTATGCCTGTGAC
66 AATCAAACAGATCAACCATTAAAAGACGCGGCGAACGCTTATTGGCTGATCAGTATGCCTGTGAC
*
139964 GTCCTGCCCAGTATAT
131 GTCCTACCCAGTATAT
139980 AGTTCTTTTG
Statistics
Matches: 139, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
157 139 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (157 bp):
ATAATTAGAGGAGTTTATTTAATAGTTTTTTTTTTCAAAACAAAAACAACCCTAGAACCAATGAC
AATCAAACAGATCAACCATTAAAAGACGCGGCGAACGCTTATTGGCTGATCAGTATGCCTGTGAC
GTCCTACCCAGTATATTTAATAGATAA
Found at i:142621 original size:26 final size:26
Alignment explanation
Indices: 142571--142621 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
142561 GACATCCATC
*
142571 AAAATGCACTACTAATAACATATATT
1 AAAATGCACTACTAATAACAAATATT
142597 AAAATGCA-TCACTAATATA-AAATAT
1 AAAATGCACT-ACTAATA-ACAAATAT
142622 GATAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 1 0.05
26 20 0.91
27 1 0.05
ACGTcount: A:0.53, C:0.14, G:0.04, T:0.29
Consensus pattern (26 bp):
AAAATGCACTACTAATAACAAATATT
Found at i:145052 original size:2 final size:2
Alignment explanation
Indices: 145045--145085 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
145035 ACTTTTAACT
145045 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
145086 AATTGTTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:145549 original size:28 final size:31
Alignment explanation
Indices: 145499--145558 Score: 90
Period size: 28 Copynumber: 2.0 Consensus size: 31
145489 TCTTTATGTA
*
145499 AAAATTAAATGTTAATTTTGTAAATATTTTT
1 AAAATTAAATGTTAATTATGTAAATATTTTT
145530 AAAA-TAAAT-TTAA-TATGTAAATATTTTT
1 AAAATTAAATGTTAATTATGTAAATATTTTT
145558 A
1 A
145559 TTAGGGTGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 15 0.54
29 4 0.14
30 5 0.18
31 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (31 bp):
AAAATTAAATGTTAATTATGTAAATATTTTT
Found at i:146521 original size:17 final size:18
Alignment explanation
Indices: 146496--146529 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
146486 ATTTTATAAT
*
146496 TTTTAAAAATTTATTGTC
1 TTTTAAAAATTAATTGTC
146514 TTTT-AAAATTAATTGT
1 TTTTAAAAATTAATTGT
146530 TTAAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTTAAAAATTAATTGTC
Found at i:147543 original size:608 final size:612
Alignment explanation
Indices: 146321--147539 Score: 2304
Period size: 608 Copynumber: 2.0 Consensus size: 612
146311 TTAAATTACT
*
146321 TACCTTGAAAGTTTTACTATACTATATTATATATATATTCTGTAATTTCATGCAAAAAAAATTTT
1 TACCTTCAAAGTTTTACTATACTATATTATATATATATTCTGTAATTTCATGCAAAAAAAA-TTT
* *
146386 GAAAAATTATAAAAACTTATTTTGAAATAAATTTCATATAATTTATTGTGTAATTTTTCAAACTT
65 GAAAAATTATAAAAAATTATTTTGAAATAAATTTAATATAATTTATTGTGTAATTTTTCAAACTT
*
146451 TTAATATTTTATAACTAGTAATTTAAATTATAAATATTTTATAATTTTTAAAAATTTATTGTCTT
130 TTAATATTTTATAACTAGTAATTTAAATTATAAATATTTTATAATTTTGAAAAATTTATTGTCTT
*
146516 TTAAAATTAATTGTTTAAAAATATAAAAAAATTTAAAATAAATTTTTTATTATAATTGTGGGATC
195 TTAAAATTAATTGTTTAAAAATATAAAAAAATTTAAAATAAATTTTTTATTACAATTGTGGGATC
146581 AAACGAATTATTATTCATTAATTATTATTTTTTAACAACAGTTAATAATGTTTATTCATTTTTAA
260 AAACGAATTATTATTCATTAATTATTATTTTTTAACAACAGTTAATAATGTTTATTCATTTTTAA
146646 TAAAATTAGAATTGCGAGATCAAATAAACTTTTAATTATAACTGCGAGATCAAATGAATTATTAT
325 TAAAATTAGAATTGCGAGATCAAATAAACTTTTAATTATAACTGCGAGATCAAATGAATTATTAT
146711 TCATTCATTATTAAAAATGAATAAACATTATTAACTATTGTTAAAAAAATAATAAATAATAATTC
390 TCATTCATTATTAAAAATGAATAAACATTATTAACTATTGTTAAAAAAATAATAAATAATAATTC
146776 ATTTGATCCGTAATTATAATTAAAAGTTTATTTTAATATTTTTTATATTTTTAAACAATTAATTT
455 ATTTGATCCGTAATTATAATTAAAAGTTTATTTTAATATTTTTTATATTTTTAAACAATTAATTT
*
146841 TAAAAGTCAATAAATTTTTCAAAAATATATGAAATTTATTATTTTTTAAATTATAAAATATTTCT
520 TAAAAGTCAATAAATTTTTCAAAAATATATAAAATTTATTATTTTTTAAATTATAAAATATTTCT
146906 TATTATTATCACCATCATCATCATTTTG
585 TATTATTATCACCATCATCATCATTTTG
*
146934 TACCTTCAAAGTTTTACTATACTATA-T-TATATATATTGTGTAATTTCATGCAAAAAAAA-TTG
1 TACCTTCAAAGTTTTACTATACTATATTATATATATATTCTGTAATTTCATGCAAAAAAAATTTG
*
146996 AAAAATTATAAAAAATTATTTTGAAATAAATTTAATATAATTTATTGTGTACTTTTTCAAACTTT
66 AAAAATTATAAAAAATTATTTTGAAATAAATTTAATATAATTTATTGTGTAATTTTTCAAACTTT
147061 TAATATTTTATAACTAGTAATTTAAATTATAAATATTTTATAATTTTGAAAAATTTATTGTCTTT
131 TAATATTTTATAACTAGTAATTTAAATTATAAATATTTTATAATTTTGAAAAATTTATTGTCTTT
147126 TAAAATTAATTGTTTAAAAATATAAAAAAATTTAAAATAAA-TTTTTATTACAATTGTGGGATCA
196 TAAAATTAATTGTTTAAAAATATAAAAAAATTTAAAATAAATTTTTTATTACAATTGTGGGATCA
147190 AACGAATTATTATTCATTAATTATTATTTTTTAACAACAGTTAATAATGTTTATTCATTTTTAAT
261 AACGAATTATTATTCATTAATTATTATTTTTTAACAACAGTTAATAATGTTTATTCATTTTTAAT
*
147255 AAAATTATAATTGCGAGATCAAATAAACTTTTAATTATAACTGCGAGATCAAATGAATTATTATT
326 AAAATTAGAATTGCGAGATCAAATAAACTTTTAATTATAACTGCGAGATCAAATGAATTATTATT
*
147320 CATTCATTATTAAAAATGAATAAACATTATTAACTGTTGTT-AAAAAATAATAAATAATAATTCA
391 CATTCATTATTAAAAATGAATAAACATTATTAACTATTGTTAAAAAAATAATAAATAATAATTCA
147384 TTTGATCCGTAATTATAATTAAAAGTTTATTTTAATATTTTTTATATTTTTAAACAATTAATTTT
456 TTTGATCCGTAATTATAATTAAAAGTTTATTTTAATATTTTTTATATTTTTAAACAATTAATTTT
147449 AAAAGTCAATAAATTTTTCAAAAATATATAAAATTTATTATTTTTTAAATTATAAAATATTTCTT
521 AAAAGTCAATAAATTTTTCAAAAATATATAAAATTTATTATTTTTTAAATTATAAAATATTTCTT
147514 ATTATTATCACCATCATCATCATTTT
586 ATTATTATCACCATCATCATCATTTT
147540 TGTAAAAGAT
Statistics
Matches: 596, Mismatches: 10, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
607 178 0.30
608 191 0.32
609 170 0.29
611 31 0.05
612 1 0.00
613 25 0.04
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (612 bp):
TACCTTCAAAGTTTTACTATACTATATTATATATATATTCTGTAATTTCATGCAAAAAAAATTTG
AAAAATTATAAAAAATTATTTTGAAATAAATTTAATATAATTTATTGTGTAATTTTTCAAACTTT
TAATATTTTATAACTAGTAATTTAAATTATAAATATTTTATAATTTTGAAAAATTTATTGTCTTT
TAAAATTAATTGTTTAAAAATATAAAAAAATTTAAAATAAATTTTTTATTACAATTGTGGGATCA
AACGAATTATTATTCATTAATTATTATTTTTTAACAACAGTTAATAATGTTTATTCATTTTTAAT
AAAATTAGAATTGCGAGATCAAATAAACTTTTAATTATAACTGCGAGATCAAATGAATTATTATT
CATTCATTATTAAAAATGAATAAACATTATTAACTATTGTTAAAAAAATAATAAATAATAATTCA
TTTGATCCGTAATTATAATTAAAAGTTTATTTTAATATTTTTTATATTTTTAAACAATTAATTTT
AAAAGTCAATAAATTTTTCAAAAATATATAAAATTTATTATTTTTTAAATTATAAAATATTTCTT
ATTATTATCACCATCATCATCATTTTG
Found at i:150406 original size:16 final size:15
Alignment explanation
Indices: 150387--150417 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
150377 TAAGTTTTTT
150387 TTAATATTATTTTTAA
1 TTAATATT-TTTTTAA
150403 TTAATATTTTTTTAA
1 TTAATATTTTTTTAA
150418 AAATTATATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTAATATTTTTTTAA
Found at i:151927 original size:40 final size:40
Alignment explanation
Indices: 151871--151984 Score: 210
Period size: 40 Copynumber: 2.8 Consensus size: 40
151861 CAATATAGCT
*
151871 TAAGAAACTACACTGCTGTTATATTGTAACACAAGAATCA
1 TAAGAAACTACGCTGCTGTTATATTGTAACACAAGAATCA
151911 TAAGAAACTACGCTGCTGTTATATTGTAACACAAGAATCA
1 TAAGAAACTACGCTGCTGTTATATTGTAACACAAGAATCA
151951 TAAGAAACTACGCTGCTGTTATATTGTAATCACA
1 TAAGAAACTACGCTGCTGTTATATTGTAA-CACA
151985 TGCGTCTGGT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
40 68 0.94
41 4 0.06
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (40 bp):
TAAGAAACTACGCTGCTGTTATATTGTAACACAAGAATCA
Found at i:152842 original size:32 final size:31
Alignment explanation
Indices: 152752--152844 Score: 87
Period size: 31 Copynumber: 2.9 Consensus size: 31
152742 TAAAAATATT
152752 ATATAAAAAATGTTAAAAGAAAAAAATAAAGAAA
1 ATATAAAAAATGTTAAAAG--AAAAAT-AAGAAA
* ** *** *
152786 ATATTAAATTTCAGAAAAGAAAAATAATAAA
1 ATATAAAAAATGTTAAAAGAAAAATAAGAAA
152817 ATATAAAAAATGTTAAAAGAGAAAATAA
1 ATATAAAAAATGTTAAAAGA-AAAATAA
152845 AAATAAAACA
Statistics
Matches: 45, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
31 19 0.42
32 13 0.29
34 13 0.29
ACGTcount: A:0.69, C:0.01, G:0.09, T:0.22
Consensus pattern (31 bp):
ATATAAAAAATGTTAAAAGAAAAATAAGAAA
Found at i:152868 original size:16 final size:16
Alignment explanation
Indices: 152838--152867 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
152828 GTTAAAAGAG
152838 AAAATAAAAATAAAAC
1 AAAATAAAAATAAAAC
152854 AAAAT-AAAATAAAA
1 AAAATAAAAATAAAA
152868 AAGAAGTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAATAAAAATAAAAC
Found at i:153636 original size:73 final size:73
Alignment explanation
Indices: 153550--153715 Score: 192
Period size: 73 Copynumber: 2.3 Consensus size: 73
153540 ATACCTAAGT
* * *
153550 CATAGGTACCGATACCCTTATATTGATTTTGGCT-TCAAGAAAAACATAATG-CCAAAAGGGTAT
1 CATAGGTACCGATACCCTTATATTAATTTTGGCTCT-AAGAAAAACAGAATGTCC-AAAGGGTAC
153613 CGATACCCCC
64 CGATACCCCC
* * * **
153623 CATAGGTACCGATACCCTTGTGTTAATTTTGGCTCTGAGAAAAACAGAATGTCCAATTGGTACCG
1 CATAGGTACCGATACCCTTATATTAATTTTGGCTCTAAGAAAAACAGAATGTCCAAAGGGTACCG
*
153688 ATACTCCC
66 ATACCCCC
* * *
153696 TAAAGGTACTGATACCCTTA
1 CATAGGTACCGATACCCTTA
153716 GTCATTTAAC
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
73 75 0.96
74 3 0.04
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (73 bp):
CATAGGTACCGATACCCTTATATTAATTTTGGCTCTAAGAAAAACAGAATGTCCAAAGGGTACCG
ATACCCCC
Found at i:155643 original size:21 final size:20
Alignment explanation
Indices: 155606--155644 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
155596 TCGGATTATG
* *
155606 AAAAATTATTTTTAAAATAC
1 AAAAATGATTTTCAAAATAC
155626 AAAAATGATATTTCAAAAT
1 AAAAATGAT-TTTCAAAAT
155645 TGAAAAACGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (20 bp):
AAAAATGATTTTCAAAATAC
Found at i:155650 original size:21 final size:20
Alignment explanation
Indices: 155604--155651 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
155594 CTTCGGATTA
* *
155604 TGAAAAATTATTTTTAAAAT
1 TGAAAAATGATTTTCAAAAT
**
155624 ACAAAAATGATATTTCAAAAT
1 TGAAAAATGAT-TTTCAAAAT
155645 TGAAAAA
1 TGAAAAA
155652 CGAAAATAAT
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.33
Consensus pattern (20 bp):
TGAAAAATGATTTTCAAAAT
Found at i:160804 original size:54 final size:54
Alignment explanation
Indices: 160734--160840 Score: 205
Period size: 54 Copynumber: 2.0 Consensus size: 54
160724 TCAAAAATGA
160734 ATTTCAAAGAAAATCTTAAAATTACTTAAATGTTTTGTTATATCAAAAAGGGGC
1 ATTTCAAAGAAAATCTTAAAATTACTTAAATGTTTTGTTATATCAAAAAGGGGC
*
160788 ATTTTAAAGAAAATCTTAAAATTACTTAAATGTTTTGTTATATCAAAAAGGGG
1 ATTTCAAAGAAAATCTTAAAATTACTTAAATGTTTTGTTATATCAAAAAGGGG
160841 GAGATTGTTG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.36
Consensus pattern (54 bp):
ATTTCAAAGAAAATCTTAAAATTACTTAAATGTTTTGTTATATCAAAAAGGGGC
Found at i:161202 original size:54 final size:54
Alignment explanation
Indices: 161116--161234 Score: 148
Period size: 54 Copynumber: 2.2 Consensus size: 54
161106 CTAAGTCATA
* * * *
161116 GGTACTGATACCCTAATGTTGATTTTGGCTCTGAGAAAAGCAGAATGTCAAACG
1 GGTACTGATACCCTAATGTTAATTTTAGCTCTGAGAAAAACAGAATGCCAAACG
** * * *
161170 GGTACTGATACCCTTGTGTTAATTTTATCTCTGAGAAAAACAGAATGCCCAATG
1 GGTACTGATACCCTAATGTTAATTTTAGCTCTGAGAAAAACAGAATGCCAAACG
*
161224 GGTACCGATAC
1 GGTACTGATAC
161235 TCCCTAAAGG
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (54 bp):
GGTACTGATACCCTAATGTTAATTTTAGCTCTGAGAAAAACAGAATGCCAAACG
Found at i:165081 original size:23 final size:23
Alignment explanation
Indices: 165037--165109 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
165027 AGTGTTATAT
*
165037 TATATTTTAAAAATATTAATTAG
1 TATATTTTAAAAATATTAATTAA
* * *
165060 TATATTTTAAATATCTTTATTAA
1 TATATTTTAAAAATATTAATTAA
* ** *
165083 AATATTTTTTAAATATTTAAATAA
1 TATATTTTAAAAATA-TTAATTAA
165107 TAT
1 TAT
165110 TATTCATTAT
Statistics
Matches: 37, Mismatches: 12, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
23 29 0.78
24 8 0.22
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (23 bp):
TATATTTTAAAAATATTAATTAA
Found at i:165142 original size:24 final size:28
Alignment explanation
Indices: 165091--165149 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
165081 AAAATATTTT
*
165091 TTAAATATTTAAATAATATTATTCATTA
1 TTAAATATATAAATAATATTATTCATTA
* *
165119 TTAAATATATAAAAAATTTTATT-ATATA
1 TTAAATATATAAATAATATTATTCAT-TA
165147 TTA
1 TTA
165150 TTAAAATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 2 0.07
28 25 0.93
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (28 bp):
TTAAATATATAAATAATATTATTCATTA
Found at i:165150 original size:31 final size:30
Alignment explanation
Indices: 165101--165189 Score: 103
Period size: 31 Copynumber: 2.9 Consensus size: 30
165091 TTAAATATTT
165101 AAATAATATTAT-TCATTATTAAATATATAAA
1 AAATAATATTATAT-ATTATTAAATATA-AAA
**
165132 AAATTTTATTATATATTATTAAA-ATAAAA
1 AAATAATATTATATATTATTAAATATAAAA
165161 AAATAATATCT-TATATTATTATAATATAA
1 AAATAATAT-TATATATTATTA-AATATAA
165190 TTGATTATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
29 20 0.40
30 6 0.12
31 23 0.46
32 1 0.02
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (30 bp):
AAATAATATTATATATTATTAAATATAAAA
Found at i:165175 original size:29 final size:30
Alignment explanation
Indices: 165101--165262 Score: 109
Period size: 29 Copynumber: 5.3 Consensus size: 30
165091 TTAAATATTT
165101 AAATAATATTAT-TCATTATTAAATATATAAA
1 AAATAATATTATAT-ATTATTAAA-ATATAAA
**
165132 AAATTTTATTATATATTATTAAAATA-AAA
1 AAATAATATTATATATTATTAAAATATAAA
* *
165161 AAATAATATCT-TATATTATTATAATATAAT
1 AAATAATAT-TATATATTATTAAAATATAAA
** * * * *
165191 TGATTATTTTATATAATATTAAAA-ATATA
1 AAATAATATTATATATTATTAAAATATAAA
* * *
165220 ATATTATATTATTATAAATATTAATAA-ATAAA
1 AAATAATATTA-TAT-ATTATTAA-AATATAAA
165252 TAAATAATATT
1 -AAATAATATT
165263 TTGATGAAAT
Statistics
Matches: 103, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
29 36 0.35
30 25 0.24
31 27 0.26
32 7 0.07
33 8 0.08
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (30 bp):
AAATAATATTATATATTATTAAAATATAAA
Found at i:165227 original size:22 final size:23
Alignment explanation
Indices: 165202--165245 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
165192 GATTATTTTA
165202 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
165224 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
165246 AATAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:165487 original size:42 final size:42
Alignment explanation
Indices: 165435--165554 Score: 170
Period size: 42 Copynumber: 2.9 Consensus size: 42
165425 ATGAATTACA
* * * *
165435 TTCCAAAAAACCAATTACTTGAAACAAATACGGAAAAACATT
1 TTCCGAAAAACGAATTACGTGAAACAAACACGGAAAAACATT
* *
165477 TTCCGAAAAACGAATTACGTAAAACAAACACGGGAAAACATT
1 TTCCGAAAAACGAATTACGTGAAACAAACACGGAAAAACATT
*
165519 TTCCGAAAAATGAATTACGTGAAACAAACAC-GAAAA
1 TTCCGAAAAACGAATTACGTGAAACAAACACGGAAAA
165555 TTCGAGAAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
41 4 0.06
42 65 0.94
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (42 bp):
TTCCGAAAAACGAATTACGTGAAACAAACACGGAAAAACATT
Found at i:167357 original size:27 final size:27
Alignment explanation
Indices: 167319--167373 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
167309 AGGCAGGAAG
167319 AGGTTTACAAAAGAAGCCGTATAACTT
1 AGGTTTACAAAAGAAGCCGTATAACTT
*
167346 AGGTTTACAAAAGAAGCCGTTTAACTT
1 AGGTTTACAAAAGAAGCCGTATAACTT
167373 A
1 A
167374 CTCTGGCACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (27 bp):
AGGTTTACAAAAGAAGCCGTATAACTT
Found at i:173278 original size:64 final size:65
Alignment explanation
Indices: 173137--173298 Score: 193
Period size: 65 Copynumber: 2.5 Consensus size: 65
173127 TTGTTTAAGG
* * * * ** *
173137 TGCATCGATGCACATGCAGTGCATCGATGCATGAATTTTAAATATAAAACATCGAATATGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCAACATTAAATATAAAACATCGAATAGGATTTA
** *
173202 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATA-CAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCAACATTAAATATAAAACATCGAATAGGATTTA
*
173266 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
173299 ACCTTCATTA
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
63 1 0.01
64 32 0.38
65 51 0.61
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (65 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCAACATTAAATATAAAACATCGAATAGGATTTA
Found at i:174700 original size:21 final size:21
Alignment explanation
Indices: 174674--174736 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
174664 GTCGAGGGTT
174674 TCATAGGTCCTTCGGGACAAC
1 TCATAGGTCCTTCGGGACAAC
*
174695 TCATAGGTCCTTCGGGACAAAT
1 TCATAGGTCCTTCGGGAC-AAC
*
174717 TCACAGGTCCTTCGGGACAA
1 TCATAGGTCCTTCGGGACAA
174737 ATTTCATATG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
21 20 0.51
22 19 0.49
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (21 bp):
TCATAGGTCCTTCGGGACAAC
Done.