Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 203 of 292
Found at i:60409488 original size:2 final size:2
Alignment explanation
Indices: 60409471--60409507 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
60409461 GTGTATATTT
* *
60409471 TA TA TA CA TA TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
60409508 TTTTATATTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:60409565 original size:13 final size:13
Alignment explanation
Indices: 60409544--60409573 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
60409534 ATATTATTGT
60409544 TGTAAATTTTTTA
1 TGTAAATTTTTTA
*
60409557 TGTATATTTTTTA
1 TGTAAATTTTTTA
60409570 TGTA
1 TGTA
60409574 CGTTTCCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (13 bp):
TGTAAATTTTTTA
Found at i:60409678 original size:19 final size:18
Alignment explanation
Indices: 60409606--60409682 Score: 64
Period size: 21 Copynumber: 3.8 Consensus size: 18
60409596 TTGTAGATAT
60409606 TATTATTATTATTATTACA
1 TATTATTATT-TTATTACA
*
60409625 TACTTTTATTATATATATATACA
1 TA---TTATTAT-TTTAT-TACA
60409648 TATATATGTATTTTATGTACA
1 TAT-TAT-TATTTTAT-TACA
60409669 TATTATTATTTTAT
1 TATTATTATTTTAT
60409683 ATTATTATTA
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
19 10 0.21
20 4 0.08
21 14 0.29
22 13 0.27
23 7 0.15
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (18 bp):
TATTATTATTTTATTACA
Found at i:60412399 original size:37 final size:37
Alignment explanation
Indices: 60412349--60412425 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
60412339 AAATTCGAGA
*
60412349 GTTAAATTTTGTTTTAGTTTGAAGTTTATAATAATAT
1 GTTAAATTTTGTTTTAGTTTGAAGTTTATAACAATAT
60412386 GTTAAATTTTGTTTTAGTTTGAAGTTTATAACAATAT
1 GTTAAATTTTGTTTTAGTTTGAAGTTTATAACAATAT
60412423 GTT
1 GTT
60412426 CTTATTTTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.53
Consensus pattern (37 bp):
GTTAAATTTTGTTTTAGTTTGAAGTTTATAACAATAT
Found at i:60412860 original size:36 final size:36
Alignment explanation
Indices: 60412813--60412884 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
60412803 TTAAAAGTGG
*
60412813 GCAAATAAGGACAATTAGTTATGACGTTAATTTTTT
1 GCAAATAAGGACAATTAATTATGACGTTAATTTTTT
60412849 GCAAATAAGGACAATTAATTATGACGTTAATTTTTT
1 GCAAATAAGGACAATTAATTATGACGTTAATTTTTT
60412885 TTCTGTCAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (36 bp):
GCAAATAAGGACAATTAATTATGACGTTAATTTTTT
Found at i:60413023 original size:51 final size:51
Alignment explanation
Indices: 60412962--60413099 Score: 181
Period size: 51 Copynumber: 2.7 Consensus size: 51
60412952 ATGTAAATGT
* *
60412962 TGACAG-ATGTGTAAATTTTGCAGGTTAAATTTGTTAAATCAGAATCAAGC
1 TGACAGAATGTGTAAATTTTGCAGGTTAAATTTGTTAAATCAAAATCAAAC
* * * *
60413012 TGACAGAATGTGTAAATGTTGCAGGTTAAATTTGTTAAATTAAAATTAAAT
1 TGACAGAATGTGTAAATTTTGCAGGTTAAATTTGTTAAATCAAAATCAAAC
* *
60413063 TGACAAAATGTGTAAATTTTG-AGGGTAAAATTTGTTA
1 TGACAGAATGTGTAAATTTTGCA-GGTTAAATTTGTTA
60413100 TCATATCAAT
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
50 7 0.09
51 70 0.91
ACGTcount: A:0.38, C:0.06, G:0.20, T:0.36
Consensus pattern (51 bp):
TGACAGAATGTGTAAATTTTGCAGGTTAAATTTGTTAAATCAAAATCAAAC
Found at i:60415525 original size:27 final size:27
Alignment explanation
Indices: 60415463--60415525 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
60415453 GCTCTAATTG
*
60415463 GATTAAGAAAATATTTTATATTTTTAA
1 GATTAAAAAAATATTTTATATTTTTAA
** * * *
60415490 TCTTCAAAAAATGTTTTTTATTTTTAA
1 GATTAAAAAAATATTTTATATTTTTAA
60415517 GATTAAAAA
1 GATTAAAAA
60415526 TCTTTTTTCA
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (27 bp):
GATTAAAAAAATATTTTATATTTTTAA
Found at i:60418580 original size:2 final size:2
Alignment explanation
Indices: 60418573--60418616 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
60418563 CATTATAGGG
* * *
60418573 TA TA TA TA -A TA TA TA TA CA CA TA CA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
60418614 TA T
1 TA T
60418617 TTGGTGTTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (2 bp):
TA
Found at i:60432297 original size:19 final size:20
Alignment explanation
Indices: 60432275--60432312 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
60432265 TAAAAAAATT
60432275 AATAA-AATAAAAAATATAC
1 AATAACAATAAAAAATATAC
* *
60432294 AATAACAGTAAAAGATATA
1 AATAACAATAAAAAATATA
60432313 ATATAATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.21
Consensus pattern (20 bp):
AATAACAATAAAAAATATAC
Found at i:60437868 original size:2 final size:2
Alignment explanation
Indices: 60437851--60437902 Score: 68
Period size: 2 Copynumber: 26.0 Consensus size: 2
60437841 ACTCCCACTG
* * *
60437851 AT AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
60437893 GT AT AT AT AT
1 AT AT AT AT AT
60437903 TCTCCAAATC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:60445812 original size:25 final size:25
Alignment explanation
Indices: 60445783--60445833 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
60445773 CAAAGGAAAA
**
60445783 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
60445808 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
60445833 T
1 T
60445834 TTATAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:60452324 original size:21 final size:22
Alignment explanation
Indices: 60452293--60452333 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
60452283 CAATTTAATT
60452293 TTTTCTTTTATGT-TCTTTTAAC
1 TTTTCTTTTAT-TATCTTTTAAC
60452315 TTTT-TTTTATTATCTTTTA
1 TTTTCTTTTATTATCTTTTA
60452334 CTTCTCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.06
21 13 0.72
22 4 0.22
ACGTcount: A:0.15, C:0.10, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTTCTTTTATTATCTTTTAAC
Found at i:60453382 original size:20 final size:20
Alignment explanation
Indices: 60453344--60453402 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
60453334 AATGATAAAA
*
60453344 TAAATAAATCATACATTAAATT
1 TAAA-AAATAATAC-TTAAATT
60453366 TAAAAAATAATACTT-AATT
1 TAAAAAATAATACTTAAATT
60453385 TAAAGAAAATAA-ACTTAA
1 T-AA-AAAATAATACTTAA
60453403 CTATCTAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
19 5 0.15
20 8 0.24
21 16 0.48
22 4 0.12
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (20 bp):
TAAAAAATAATACTTAAATT
Found at i:60453411 original size:23 final size:21
Alignment explanation
Indices: 60453367--60453418 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
60453357 CATTAAATTT
60453367 AAAAAATAATACTTAATTTAA
1 AAAAAATAATACTTAATTTAA
*
60453388 AGAAAATAA-ACTTAACTATCTAA
1 AAAAAATAATACTTAA-T-T-TAA
60453411 AAAAAATA
1 AAAAAATA
60453419 TTTCAAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 6 0.23
21 9 0.35
22 1 0.04
23 10 0.38
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAAAATAATACTTAATTTAA
Found at i:60453845 original size:15 final size:15
Alignment explanation
Indices: 60453825--60453855 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
60453815 TACCAAATTG
60453825 ATTAGTTAAAGCCTC
1 ATTAGTTAAAGCCTC
60453840 ATTAGTTAAAGCCTC
1 ATTAGTTAAAGCCTC
60453855 A
1 A
60453856 ATGTTGAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (15 bp):
ATTAGTTAAAGCCTC
Found at i:60456906 original size:18 final size:19
Alignment explanation
Indices: 60456878--60456913 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
60456868 TAAAAATAAA
60456878 AAATATTAAAATTTAATTG
1 AAATATTAAAATTTAATTG
60456897 AAAT-TTAAAATTTAATT
1 AAATATTAAAATTTAATT
60456914 AATTAACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
AAATATTAAAATTTAATTG
Found at i:60460048 original size:20 final size:21
Alignment explanation
Indices: 60460010--60460048 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
60460000 TGATTTGATT
60460010 AAATTTGTGATTAAATTAGTG
1 AAATTTGTGATTAAATTAGTG
*
60460031 AAATTTGT-ATTAATTTAG
1 AAATTTGTGATTAAATTAG
60460049 ATCAAGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (21 bp):
AAATTTGTGATTAAATTAGTG
Found at i:60460375 original size:43 final size:44
Alignment explanation
Indices: 60460327--60460498 Score: 144
Period size: 43 Copynumber: 4.0 Consensus size: 44
60460317 TATGATCACA
*
60460327 TGTAAGACCATGTCTGGGACATTGGCATTG-TATTGAGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATTGAGATTACG
** * *
60460370 TGTAAGACCATGTCTGGGACATTGTTATCGTTAATT-A-ATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGAT-ATTGAGATTACG
* * * * *
60460413 TGTAAGACCCTGTATGGGACAGTGGCATCGATATGTG-G-TAACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATAT-TGAGATTACG
* * * *
60460456 TGTAAGACCATATCTGGGATA-TGGCATTG-TA-TGAGCTTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATTGAGATTACG
60460497 TG
1 TG
60460499 ATTTTCGAGC
Statistics
Matches: 102, Mismatches: 20, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
39 2 0.02
40 1 0.01
41 7 0.07
42 9 0.09
43 78 0.76
44 2 0.02
45 3 0.03
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATTGAGATTACG
Found at i:60461490 original size:13 final size:13
Alignment explanation
Indices: 60461474--60461506 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
60461464 CATTTTACAC
60461474 AACCATTTCATAT
1 AACCATTTCATAT
60461487 AACCATTTCATAT
1 AACCATTTCATAT
60461500 AACCATT
1 AACCATT
60461507 CGTCATCTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.36
Consensus pattern (13 bp):
AACCATTTCATAT
Found at i:60461655 original size:46 final size:46
Alignment explanation
Indices: 60461595--60461817 Score: 331
Period size: 46 Copynumber: 4.8 Consensus size: 46
60461585 TTTGACATGA
* * * * * *
60461595 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCACGT
** * *
60461641 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
60461687 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
60461733 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
*
60461779 TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
60461818 TTCAAAGAGC
Statistics
Matches: 165, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 161 0.98
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
Found at i:60468678 original size:24 final size:24
Alignment explanation
Indices: 60468649--60468694 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
60468639 TAGATAACAT
*
60468649 TATTTTATTAATATTTTA-ATAAGA
1 TATTTT-TGAATATTTTATATAAGA
60468673 TATTTTTGAATATTTTATATAA
1 TATTTTTGAATATTTTATATAA
60468695 TTAAGGCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (24 bp):
TATTTTTGAATATTTTATATAAGA
Found at i:60469694 original size:36 final size:38
Alignment explanation
Indices: 60469647--60469739 Score: 109
Period size: 39 Copynumber: 2.5 Consensus size: 38
60469637 CAAAAAAGGT
* * *
60469647 TAGATCTCATTATAATC-CGAGAATCTGCAAC-AATGC
1 TAGATCTCATTATAATCTCAAGAATCTACAACAAATAC
**
60469683 TAGATCTCATTATGTTACTCAAGAATCTACAACAAATAC
1 TAGATCTCATTATAAT-CTCAAGAATCTACAACAAATAC
*
60469722 TAGATCTCGTTATAATCT
1 TAGATCTCATTATAATCT
60469740 ATAATAATCT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
36 14 0.30
37 1 0.02
38 14 0.30
39 17 0.37
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (38 bp):
TAGATCTCATTATAATCTCAAGAATCTACAACAAATAC
Found at i:60470745 original size:20 final size:16
Alignment explanation
Indices: 60470705--60470748 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
60470695 TTATACTATA
60470705 ATTAATCTTTAATTAC
1 ATTAATCTTTAATTAC
60470721 ATTAATCTTTAATTAC
1 ATTAATCTTTAATTAC
60470737 -TTAA-C-TTAATTA
1 ATTAATCTTTAATTA
60470749 ATTTAATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.25
14 1 0.04
15 4 0.14
16 16 0.57
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTAATCTTTAATTAC
Found at i:60471202 original size:35 final size:35
Alignment explanation
Indices: 60471151--60471224 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
60471141 AACTCAAGAG
60471151 TTTAAATATCAAACTAGATTACGACAATGAAATAA
1 TTTAAATATCAAACTAGATTACGACAATGAAATAA
*
60471186 TTTATATATCAAACTAGATTACGACAATGAAATAA
1 TTTAAATATCAAACTAGATTACGACAATGAAATAA
60471221 TTTA
1 TTTA
60471225 GGTAACAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (35 bp):
TTTAAATATCAAACTAGATTACGACAATGAAATAA
Found at i:60472599 original size:31 final size:31
Alignment explanation
Indices: 60472564--60472624 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
60472554 TCGAGGTAAA
60472564 TTCATGTAACTTGAATTATATTCTTAAATGC
1 TTCATGTAACTTGAATTATATTCTTAAATGC
60472595 TTCATGTAACTTGAATTATATTCTTAAATG
1 TTCATGTAACTTGAATTATATTCTTAAATG
60472625 TTTGAAATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.46
Consensus pattern (31 bp):
TTCATGTAACTTGAATTATATTCTTAAATGC
Found at i:60473553 original size:23 final size:24
Alignment explanation
Indices: 60473512--60473568 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
60473502 CCCAACAATC
60473512 AAACCCAAATATACCCTAACCCTA
1 AAACCCAAATATACCCTAACCCTA
60473536 AAACCC-AATA-ACCACTAACCC-A
1 AAACCCAAATATACC-CTAACCCTA
60473558 AGAA-CCAAATA
1 A-AACCCAAATA
60473569 CTTAGCCCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 7 0.23
23 17 0.57
24 6 0.20
ACGTcount: A:0.51, C:0.35, G:0.02, T:0.12
Consensus pattern (24 bp):
AAACCCAAATATACCCTAACCCTA
Found at i:60474561 original size:30 final size:31
Alignment explanation
Indices: 60474502--60474566 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
60474492 GATTTTTTTA
* *
60474502 TTTTCAATTTAGCCCCACAATTTGTTGCGC-
1 TTTTCAATTTAGCCCCACAATCTGCTGCGCG
*
60474532 TTTTCAATTTGGCCCC-CAATGCTGCTGCGCG
1 TTTTCAATTTAGCCCCACAAT-CTGCTGCGCG
60474563 TTTT
1 TTTT
60474567 GATTGAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 4 0.13
30 22 0.73
31 4 0.13
ACGTcount: A:0.15, C:0.28, G:0.17, T:0.40
Consensus pattern (31 bp):
TTTTCAATTTAGCCCCACAATCTGCTGCGCG
Found at i:60474778 original size:9 final size:9
Alignment explanation
Indices: 60474738--60474796 Score: 59
Period size: 9 Copynumber: 6.3 Consensus size: 9
60474728 CATTTTCTGT
60474738 TATTTATTA
1 TATTTATTA
*
60474747 TTATTAATTA
1 -TATTTATTA
60474757 TAATCTT-TATA
1 T-AT-TTAT-TA
60474768 TATTTATTA
1 TATTTATTA
60474777 TATTTATTA
1 TATTTATTA
60474786 TATTTA-TA
1 TATTTATTA
60474794 TAT
1 TAT
60474797 GTAGTAGTGT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
8 5 0.12
9 20 0.47
10 14 0.33
11 4 0.09
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTATTA
Found at i:60474786 original size:20 final size:20
Alignment explanation
Indices: 60474738--60474788 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
60474728 CATTTTCTGT
60474738 TATTTATTAT-TATTAATTA
1 TATTTATTATATATTAATTA
* *
60474757 TAATCT-TTATATATTTATTA
1 T-ATTTATTATATATTAATTA
60474777 TATTTATTATAT
1 TATTTATTATAT
60474789 TTATATATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TATTTATTATATATTAATTA
Found at i:60495756 original size:13 final size:13
Alignment explanation
Indices: 60495738--60495762 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60495728 GAATTAGTAT
60495738 GTGTGAAAATTTC
1 GTGTGAAAATTTC
60495751 GTGTGAAAATTT
1 GTGTGAAAATTT
60495763 AATCGTTTGT
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:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:60496977 original size:43 final size:44
Alignment explanation
Indices: 60496854--60497012 Score: 186
Period size: 43 Copynumber: 3.7 Consensus size: 44
60496844 TATGTGTTTT
* *
60496854 CATGTAAGACCACGTCTGGGACATTGGCATCGACT-TATGATTTA
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGATTTA
* * * *
60496898 CGTTTAAGATCACGTCTGGGACGTTAGCATCG-TATTTGATTT-
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTTA
*
60496940 CGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTT-ATTTA
1 CATGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTTA
60496983 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CATGTAAGACCACGTCTGGGACGTTGGCAT
60497013 TGTACGAGCA
Statistics
Matches: 98, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
41 1 0.01
42 31 0.32
43 38 0.39
44 28 0.29
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (44 bp):
CATGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTTA
Found at i:60497026 original size:86 final size:86
Alignment explanation
Indices: 60496851--60497027 Score: 207
Period size: 86 Copynumber: 2.1 Consensus size: 86
60496841 CACTATGTGT
* * * * *
60496851 TTTCATGTAAGACCACGTCTGGGACATTGGCATCGACTTATGATTTACGTTTAAGATCACGTCTG
1 TTTCGTGTAAGACCACGTCTGGGACAGTGGCATCGACTTATGATTTACATGTAAGACCACGTCTG
***
60496916 GGACGTTAGCATCGTATTTGA
66 GGACGTTAGCATCGTACGAGA
*
60496937 TTTCGTGTAAGACC-CTGTCTGGGACAGTGGCATCGA--TATTTATTTACATGTAAGACCACGTC
1 TTTCGTGTAAGACCAC-GTCTGGGACAGTGGCATCGACTTA-TGATTTACATGTAAGACCACGTC
* *
60496999 TGGGACGTTGGCATTGTACGAGCA
64 TGGGACGTTAGCATCGTACGAG-A
60497023 TTTCG
1 TTTCG
60497028 AGCTATCTAC
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
84 2 0.03
85 37 0.48
86 38 0.49
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (86 bp):
TTTCGTGTAAGACCACGTCTGGGACAGTGGCATCGACTTATGATTTACATGTAAGACCACGTCTG
GGACGTTAGCATCGTACGAGA
Found at i:60497924 original size:43 final size:43
Alignment explanation
Indices: 60497863--60497951 Score: 151
Period size: 43 Copynumber: 2.1 Consensus size: 43
60497853 GGTGGCAAAT
* * *
60497863 TGGCTTTTCAAATGGCTTATTTTTGTTCATACGGGCAGAGACA
1 TGGCTTCTCAAATGGCTTATTTTTGTCCATACGGGCAAAGACA
60497906 TGGCTTCTCAAATGGCTTATTTTTGTCCATACGGGCAAAGACA
1 TGGCTTCTCAAATGGCTTATTTTTGTCCATACGGGCAAAGACA
60497949 TGG
1 TGG
60497952 GCATGTGTCT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (43 bp):
TGGCTTCTCAAATGGCTTATTTTTGTCCATACGGGCAAAGACA
Found at i:60499366 original size:12 final size:12
Alignment explanation
Indices: 60499349--60499375 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
60499339 GTTCATAGTC
60499349 TTTTTTTTTGTT
1 TTTTTTTTTGTT
60499361 TTTTTTTTTGTT
1 TTTTTTTTTGTT
60499373 TTT
1 TTT
60499376 GTGAAGACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (12 bp):
TTTTTTTTTGTT
Found at i:60501803 original size:3 final size:3
Alignment explanation
Indices: 60501795--60501841 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
60501785 GAATGCTTAT
*
60501795 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
60501842 ACTCAATATC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 1 0.02
3 40 0.98
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:60502149 original size:21 final size:22
Alignment explanation
Indices: 60502125--60502171 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
60502115 TACCTTTAAA
**
60502125 TAAATTTTAA-ATTATTGTTAT
1 TAAATTTTAATAGGATTGTTAT
60502146 TAAATTTTAATAGGATTGTTAT
1 TAAATTTTAATAGGATTGTTAT
60502168 TAAA
1 TAAA
60502172 AATAAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
TAAATTTTAATAGGATTGTTAT
Found at i:60502190 original size:16 final size:16
Alignment explanation
Indices: 60502169--60502200 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
60502159 GATTGTTATT
60502169 AAAAATAAATTAATAA
1 AAAAATAAATTAATAA
*
60502185 AAAAATAATTTAATAA
1 AAAAATAAATTAATAA
60502201 TATTTTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAAATAAATTAATAA
Found at i:60502248 original size:10 final size:10
Alignment explanation
Indices: 60502235--60502264 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
60502225 ATTTTTTATT
60502235 TTATATTAAA
1 TTATATTAAA
60502245 TTATATTAAA
1 TTATATTAAA
60502255 TTATATTAAA
1 TTATATTAAA
60502265 ATATTATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
TTATATTAAA
Found at i:60502390 original size:16 final size:16
Alignment explanation
Indices: 60502361--60502406 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
60502351 AGCTATTCAT
60502361 TAGC-ATTACTAAAAAA
1 TAGCTATTAC-AAAAAA
60502377 TAGCTATTACAAAAAA
1 TAGCTATTACAAAAAA
* *
60502393 AAG-TAATACAAAAA
1 TAGCTATTACAAAAA
60502407 TAATGATCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 10 0.37
16 12 0.44
17 5 0.19
ACGTcount: A:0.61, C:0.11, G:0.07, T:0.22
Consensus pattern (16 bp):
TAGCTATTACAAAAAA
Found at i:60502391 original size:17 final size:17
Alignment explanation
Indices: 60502361--60502406 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
60502351 AGCTATTCAT
*
60502361 TAGC-ATTACTAAAAAA
1 TAGCTATTACAAAAAAA
60502377 TAGCTATTACAAAAAAA
1 TAGCTATTACAAAAAAA
*
60502394 -AG-TAATACAAAAA
1 TAGCTATTACAAAAA
60502407 TAATGATCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 10 0.37
16 6 0.22
17 11 0.41
ACGTcount: A:0.61, C:0.11, G:0.07, T:0.22
Consensus pattern (17 bp):
TAGCTATTACAAAAAAA
Found at i:60505186 original size:5 final size:6
Alignment explanation
Indices: 60505173--60505222 Score: 73
Period size: 6 Copynumber: 8.0 Consensus size: 6
60505163 ATAATTTAAT
*
60505173 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAATAA
60505223 GAAAACATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 35 0.88
8 5 0.12
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:60505227 original size:26 final size:25
Alignment explanation
Indices: 60505173--60505222 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
60505163 ATAATTTAAT
*
60505173 AAATAAAAATAAAAATCTAAAACTAA
1 AAATAAAAATAAAAA-CTAAAAATAA
60505199 AAATAAAAATAAAAA-TAAAAATAA
1 AAATAAAAATAAAAACTAAAAATAA
60505223 GAAAACATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.35
26 15 0.65
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (25 bp):
AAATAAAAATAAAAACTAAAAATAA
Found at i:60505267 original size:9 final size:9
Alignment explanation
Indices: 60505246--60505304 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
60505236 TTTATACAAA
60505246 TAATTCGGT
1 TAATTCGGT
* *
60505255 TAATTTGGG
1 TAATTCGGT
60505264 TAATTCGGT
1 TAATTCGGT
*
60505273 TAATTCGAT
1 TAATTCGGT
*
60505282 TAATTTGGT
1 TAATTCGGT
60505291 TAATTCGGT
1 TAATTCGGT
60505300 TAATT
1 TAATT
60505305 TTATACTTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.47
Consensus pattern (9 bp):
TAATTCGGT
Found at i:60505284 original size:27 final size:27
Alignment explanation
Indices: 60505246--60505304 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
60505236 TTTATACAAA
*
60505246 TAATTCGGTTAATTTGGGTAATTCGGT
1 TAATTCGATTAATTTGGGTAATTCGGT
*
60505273 TAATTCGATTAATTTGGTTAATTCGGT
1 TAATTCGATTAATTTGGGTAATTCGGT
60505300 TAATT
1 TAATT
60505305 TTATACTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.47
Consensus pattern (27 bp):
TAATTCGATTAATTTGGGTAATTCGGT
Found at i:60508364 original size:35 final size:35
Alignment explanation
Indices: 60508324--60508392 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
60508314 ACAAGCATCA
* *
60508324 AAATCATGAGTCAAAAACTCATAATAAAATAAATT
1 AAATCATGAATCAAAAACTAATAATAAAATAAATT
***
60508359 AAATCATGAATCATGTACTAATAATAAAATAAAT
1 AAATCATGAATCAAAAACTAATAATAAAATAAAT
60508393 AATTTAATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.57, C:0.10, G:0.06, T:0.28
Consensus pattern (35 bp):
AAATCATGAATCAAAAACTAATAATAAAATAAATT
Found at i:60508442 original size:31 final size:31
Alignment explanation
Indices: 60508404--60508467 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
60508394 ATTTAATGTT
*
60508404 AAAAAGAATCTATGCTTACTTGTGGAAATGG
1 AAAAAGAATCCATGCTTACTTGTGGAAATGG
*
60508435 AAAAAGAATCCATGTTTACTTGTGGAAATGG
1 AAAAAGAATCCATGCTTACTTGTGGAAATGG
60508466 AA
1 AA
60508468 TAGAAATAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (31 bp):
AAAAAGAATCCATGCTTACTTGTGGAAATGG
Found at i:60509506 original size:61 final size:62
Alignment explanation
Indices: 60509404--60509523 Score: 163
Period size: 61 Copynumber: 2.0 Consensus size: 62
60509394 ACCTACCCTT
* * ** *
60509404 ATCCAATTCTTATTTTAAAGGCCTAATGTAAATATTAAACCTACTTTTATGCAAGTCCTCCC
1 ATCCAATTCTCATTTTAAAGGCCTAAAGTAAATATTAAACCTACCGTTATCCAAGTCCTCCC
*
60509466 ATCCAATTCCTCA-TTTGAAGGCC-AAAGTAAATATTAAACCTACCGTTATCCAAGTCCT
1 ATCCAATT-CTCATTTTAAAGGCCTAAAGTAAATATTAAACCTACCGTTATCCAAGTCCT
60509524 TTGTTCCCAC
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
61 31 0.61
62 17 0.33
63 3 0.06
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.33
Consensus pattern (62 bp):
ATCCAATTCTCATTTTAAAGGCCTAAAGTAAATATTAAACCTACCGTTATCCAAGTCCTCCC
Found at i:60510797 original size:102 final size:102
Alignment explanation
Indices: 60510677--60510880 Score: 345
Period size: 102 Copynumber: 2.0 Consensus size: 102
60510667 TTGACATCTA
60510677 TCTCATTATGAAATATCATATATCTCAGGAAATATTATATTGGTGATTGTATTGATTCGAAATTA
1 TCTCATTATGAAATATCATATATCTCAGGAAATATTATATTGGTGATTGTATTGATTCGAAATTA
60510742 CCCAAGATAATCCCTTCGATCATGATTATGCTGGATG
66 CCCAAGATAATCCCTTCGATCATGATTATGCTGGATG
* * *
60510779 TCTCATTATGGAATATCATATATCTTAGGGAATATTATATTGGTGATTGTATTGATTCGAAATTA
1 TCTCATTATGAAATATCATATATCTCAGGAAATATTATATTGGTGATTGTATTGATTCGAAATTA
* * * *
60510844 CCTAAGATAATCCCTTCGCTCGTGATTATGTTGGATG
66 CCCAAGATAATCCCTTCGATCATGATTATGCTGGATG
60510881 AGATGCCAAG
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 95 1.00
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (102 bp):
TCTCATTATGAAATATCATATATCTCAGGAAATATTATATTGGTGATTGTATTGATTCGAAATTA
CCCAAGATAATCCCTTCGATCATGATTATGCTGGATG
Found at i:60511920 original size:28 final size:28
Alignment explanation
Indices: 60511889--60511944 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
60511879 AGGGATTGGG
60511889 GAGATAGTTAAGGGATTTAGTGTACCAT
1 GAGATAGTTAAGGGATTTAGTGTACCAT
60511917 GAGATAGTTAAGGGATTTAGTGTACCAT
1 GAGATAGTTAAGGGATTTAGTGTACCAT
60511945 TAGTTTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.32
Consensus pattern (28 bp):
GAGATAGTTAAGGGATTTAGTGTACCAT
Found at i:60513344 original size:22 final size:22
Alignment explanation
Indices: 60513316--60513359 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
60513306 ATTGTTTGAT
60513316 TGTATGCATGTTTTCTGTGGGG
1 TGTATGCATGTTTTCTGTGGGG
60513338 TGTATGCATGTTTTCTGTGGGG
1 TGTATGCATGTTTTCTGTGGGG
60513360 ATTACACACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.09, C:0.09, G:0.36, T:0.45
Consensus pattern (22 bp):
TGTATGCATGTTTTCTGTGGGG
Found at i:60525684 original size:19 final size:19
Alignment explanation
Indices: 60525647--60525695 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 19
60525637 ATTATCATCA
*
60525647 TCATTTTTT-TACTTTATT
1 TCATTTTTTATACTTAATT
60525665 T-ATTTTTTATATCTTAATT
1 TCATTTTTTATA-CTTAATT
60525684 TCATTTTCTTAT
1 TCATTTT-TTAT
60525696 TTGATTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 7 0.27
18 3 0.12
19 7 0.27
20 5 0.19
21 4 0.15
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.69
Consensus pattern (19 bp):
TCATTTTTTATACTTAATT
Found at i:60528132 original size:28 final size:30
Alignment explanation
Indices: 60528086--60528151 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 30
60528076 TTTTATGTAC
* *
60528086 TTAATTTTTCCACTAAATTTTTAATTTT-A
1 TTAAATTTTCCACTAAATTTCTAATTTTAA
* *
60528115 TTGAATTTTCCACT-AATTTCTATTTTTAA
1 TTAAATTTTCCACTAAATTTCTAATTTTAA
60528144 TTAAATTT
1 TTAAATTT
60528152 AACTATGATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 11 0.35
29 20 0.65
ACGTcount: A:0.30, C:0.11, G:0.02, T:0.58
Consensus pattern (30 bp):
TTAAATTTTCCACTAAATTTCTAATTTTAA
Found at i:60531418 original size:30 final size:30
Alignment explanation
Indices: 60531363--60531426 Score: 71
Period size: 30 Copynumber: 2.1 Consensus size: 30
60531353 TATTAACTTA
60531363 ATTTAATTAATTATATTATAGATATAGT-TT
1 ATTTAATTAATTATATTATAGATATA-TCTT
*
60531393 ATTTAATTTAATTATCA-TAT-TATATATCTT
1 ATTTAA-TTAATTAT-ATTATAGATATATCTT
60531423 ATTT
1 ATTT
60531427 TTAATCCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
29 1 0.03
30 17 0.57
31 11 0.37
32 1 0.03
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (30 bp):
ATTTAATTAATTATATTATAGATATATCTT
Found at i:60534328 original size:20 final size:21
Alignment explanation
Indices: 60534303--60534342 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
60534293 GTGAGTTGCA
60534303 ACTGAT-TATACAATGATAGC
1 ACTGATATATACAATGATAGC
*
60534323 ACTGATAATATTCAATGATA
1 ACTGAT-ATATACAATGATA
60534343 ATAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
22 11 0.65
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (21 bp):
ACTGATATATACAATGATAGC
Found at i:60536656 original size:18 final size:19
Alignment explanation
Indices: 60536622--60536658 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
60536612 TTTCATTTAC
*
60536622 TTTTAAAAATATTTTTATT
1 TTTTAAAAATATATTTATT
60536641 TTTTAAAAATA-ATTTATT
1 TTTTAAAAATATATTTATT
60536659 CAATTGAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTAAAAATATATTTATT
Found at i:60536798 original size:28 final size:28
Alignment explanation
Indices: 60536758--60536816 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
60536748 TTATAAAAAC
*
60536758 TTTATCTATTTTTGAAAATTTTATCTAT
1 TTTATCTAATTTTGAAAATTTTATCTAT
* * * * *
60536786 TTTATTTAATTTTTAGATTTTTATGTAT
1 TTTATCTAATTTTGAAAATTTTATCTAT
60536814 TTT
1 TTT
60536817 TGAAAAAGAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.66
Consensus pattern (28 bp):
TTTATCTAATTTTGAAAATTTTATCTAT
Found at i:60538079 original size:22 final size:22
Alignment explanation
Indices: 60538054--60538109 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
60538044 AAAAAACTTC
60538054 AATATATAATTAATCATGAGTG
1 AATATATAATTAATCATGAGTG
60538076 AATATATAATTAATCATGAGTG
1 AATATATAATTAATCATGAGTG
*
60538098 AACATAATAATT
1 AATAT-ATAATT
60538110 TAATTTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 26 0.81
23 6 0.19
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (22 bp):
AATATATAATTAATCATGAGTG
Found at i:60538653 original size:13 final size:13
Alignment explanation
Indices: 60538623--60538670 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
60538613 ATTTTTAAAA
* *
60538623 TTTTGAAATATAT
1 TTTTAAAATATTT
*
60538636 ATTTAAAATATTT
1 TTTTAAAATATTT
60538649 TTTTAATACATATTT
1 TTTTAA-A-ATATTT
60538664 TTTTAAA
1 TTTTAAA
60538671 TTTTAAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 15 0.52
14 2 0.07
15 12 0.41
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (13 bp):
TTTTAAAATATTT
Found at i:60538688 original size:35 final size:35
Alignment explanation
Indices: 60538636--60538750 Score: 110
Period size: 34 Copynumber: 3.3 Consensus size: 35
60538626 TGAAATATAT
* **
60538636 ATTTAAAATAT-TTTTTTAATACA-TATTTTTTTAA
1 ATTTTAAATATATTTTTTAATA-ATTACCTTTTTAA
*
60538670 ATTTTAAATATATATTTTAA-AATTACCTTTTTAA
1 ATTTTAAATATATTTTTTAATAATTACCTTTTTAA
* **
60538704 ATTTTAAATATTATTTTTTAATATTTAAATATTTTAA
1 ATTTTAAATA-TATTTTTTAATAATTACCT-TTTTAA
60538741 ACTTTTAAAT
1 A-TTTTAAAT
60538751 TTGTTATTAG
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
33 1 0.01
34 30 0.45
35 16 0.24
36 5 0.07
37 7 0.10
38 8 0.12
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (35 bp):
ATTTTAAATATATTTTTTAATAATTACCTTTTTAA
Found at i:60538707 original size:21 final size:22
Alignment explanation
Indices: 60538681--60538736 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
60538671 TTTTAAATAT
60538681 ATATTTTAAA-ATTACCTTTTTA
1 ATATTTTAAATATTA-CTTTTTA
*
60538703 A-ATTTTAAATATTATTTTTTA
1 ATATTTTAAATATTACTTTTTA
60538724 ATA-TTTAAATATT
1 ATATTTTAAATATT
60538737 TTAAACTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
21 25 0.81
22 6 0.19
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (22 bp):
ATATTTTAAATATTACTTTTTA
Found at i:60538823 original size:14 final size:15
Alignment explanation
Indices: 60538794--60538826 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
60538784 TTAATTTGTT
*
60538794 TTATAATATTTTAAA
1 TTATAATATTTAAAA
60538809 TTATAAT-TTTAAAA
1 TTATAATATTTAAAA
60538823 TTAT
1 TTAT
60538827 TTTTAAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTATAATATTTAAAA
Found at i:60538831 original size:66 final size:62
Alignment explanation
Indices: 60538662--60538833 Score: 154
Period size: 66 Copynumber: 2.7 Consensus size: 62
60538652 TAATACATAT
*
60538662 TTTTTTAA-ATTTTAAA-TATATATTTTAAAATTACCTTTTTAAATTTTAAATATTATTTTTTAA
1 TTTTATAATATTTTAAATTATA-ATTTTAAAATTA--TTTTTAAATTTTAAATATTATTTTTTAA
* * *** *
60538725 TATTTA-AATATTTTAAACTTTTAAATTTGTTATTAGTTTTATAATAATTTAAATATTATTTAAT
1 T-TTTATAATATTTTAAA-TTATAATTTTAAAATTA-TTTT-TAA-ATTTTAAATATTATTT--T
*
60538789 TT-G
59 TTAA
60538792 TTTTATAATATTTTAAATTATAATTTTAAAATTATTTTTAAA
1 TTTTATAATATTTTAAATTATAATTTTAAAATTATTTTTAAA
60538834 GATATTCGAT
Statistics
Matches: 86, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
63 4 0.05
64 18 0.21
65 15 0.17
66 34 0.40
67 12 0.14
68 3 0.03
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (62 bp):
TTTTATAATATTTTAAATTATAATTTTAAAATTATTTTTAAATTTTAAATATTATTTTTTAA
Found at i:60539226 original size:34 final size:34
Alignment explanation
Indices: 60539188--60539412 Score: 127
Period size: 34 Copynumber: 6.6 Consensus size: 34
60539178 AATATCTTTA
*
60539188 AAAATAATTTAAAAATCATAATTTAAAATATTAT
1 AAAATAATTTAAAAATAATAATTTAAAATATTAT
*
60539222 AAAATAAATT--AAATAAT-ATTTAAAATATTAT
1 AAAATAATTTAAAAATAATAATTTAAAATATTAT
**
60539253 AAAACTAA--TAAAAATTTTGAAAGTTTAAAATATT-T
1 AAAA-TAATTTAAAAATAAT--AA-TTTAAAATATTAT
* *
60539288 -AAAT-ATTAAAAAATAAT-ATTTAAAAT-TTAA
1 AAAATAATTTAAAAATAATAATTTAAAATATTAT
* *
60539318 AAAAGTAATTTCAAAAT-ATATATTTAAAAT-TTAAAA
1 AAAA-TAATTTAAAAATAATA-ATTTAAAATATT--AT
* *
60539354 AAAATATATATTAAAAA-AATATTTTAAATATATATTTT
1 AAAATA-AT-TTAAAAATAATAATTT-AA-A-ATATTAT
* *
60539392 AAAA-ATTTTAAAATTAATAAT
1 AAAATAATTTAAAAATAATAAT
60539413 AATAAATAAA
Statistics
Matches: 149, Mismatches: 17, Indels: 48
0.70 0.08 0.22
Matches are distributed among these distances:
29 2 0.01
30 9 0.06
31 22 0.15
32 18 0.12
33 9 0.06
34 30 0.20
35 10 0.07
36 28 0.19
37 12 0.08
38 5 0.03
39 2 0.01
40 2 0.01
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (34 bp):
AAAATAATTTAAAAATAATAATTTAAAATATTAT
Found at i:60539248 original size:9 final size:9
Alignment explanation
Indices: 60539208--60539298 Score: 55
Period size: 10 Copynumber: 9.9 Consensus size: 9
60539198 AAAAATCATA
60539208 ATTTAAAAT
1 ATTTAAAAT
60539217 ATTATAAAAT
1 ATT-TAAAAT
*
60539227 AAATTAAATAAT
1 --ATTTAA-AAT
60539239 ATTTAAAAT
1 ATTTAAAAT
60539248 ATTATAAAACT
1 ATT-TAAAA-T
* *
60539259 AATAAAAAT
1 ATTTAAAAT
*
60539268 -TTTGAAA-
1 ATTTAAAAT
*
60539275 GTTTAAAAT
1 ATTTAAAAT
60539284 ATTT-AAAT
1 ATTTAAAAT
60539292 A-TTAAAA
1 ATTTAAAA
60539299 AATAATATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 19
0.70 0.10 0.21
Matches are distributed among these distances:
7 2 0.03
8 18 0.28
9 13 0.20
10 20 0.31
11 5 0.08
12 6 0.09
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.38
Consensus pattern (9 bp):
ATTTAAAAT
Found at i:60539256 original size:66 final size:63
Alignment explanation
Indices: 60539186--60539359 Score: 166
Period size: 66 Copynumber: 2.7 Consensus size: 63
60539176 CGAATATCTT
60539186 TAAAAATAATTTAAAAATCATAATTTAAAATATTATAAAATAAATTAAATAATATTTAAAATATT
1 TAAAAATAATTTAAAAAT-ATAATTTAAAATATTATAAAATAAA-TAAATAATATTTAAAAT-TT
60539251 A
63 A
* *
60539252 TAAAACTAA--TAAAAATTTTGAAAGTTTAAAATATT-TAAATATTAAA-AAATAATATTTAAAA
1 TAAAAATAATTTAAAAA-TAT--AA-TTTAAAATATTATAAA-A-TAAATAAATAATATTTAAAA
60539313 TTTA
60 TTTA
*
60539317 -AAAAAGTAATTTCAAAATATATATTTAAAAT-TTA-AAAA-AAATA
1 TAAAAA-TAATTTAAAAATATA-ATTTAAAATATTATAAAATAAATA
60539360 TATATTAAAA
Statistics
Matches: 91, Mismatches: 5, Indels: 29
0.73 0.04 0.23
Matches are distributed among these distances:
60 3 0.03
61 1 0.01
62 1 0.01
63 5 0.05
64 20 0.22
65 8 0.09
66 32 0.35
67 17 0.19
68 4 0.04
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (63 bp):
TAAAAATAATTTAAAAATATAATTTAAAATATTATAAAATAAATAAATAATATTTAAAATTTA
Found at i:60539307 original size:21 final size:22
Alignment explanation
Indices: 60539281--60539334 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
60539271 GAAAGTTTAA
60539281 AATATTT-AAATATTAAAAAA-T
1 AATATTTAAAAT-TTAAAAAAGT
60539302 AATATTTAAAATTTAAAAAAGT
1 AATATTTAAAATTTAAAAAAGT
*
60539324 AAT-TTCAAAAT
1 AATATTTAAAAT
60539335 ATATATTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 22 0.73
22 8 0.27
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (22 bp):
AATATTTAAAATTTAAAAAAGT
Found at i:60539347 original size:13 final size:13
Alignment explanation
Indices: 60539312--60539395 Score: 52
Period size: 13 Copynumber: 6.6 Consensus size: 13
60539302 AATATTTAAA
*
60539312 ATTTAAAAAAGTA-
1 ATTTAAAATA-TAT
60539325 ATTTCAAAATATAT
1 ATTT-AAAATATAT
60539339 ATTTAAAAT-T-T
1 ATTTAAAATATAT
***
60539350 AAAAAAAATATAT
1 ATTTAAAATATAT
*
60539363 A-TTAAAA-AAAT
1 ATTTAAAATATAT
*
60539374 ATTTTAAATATAT
1 ATTTAAAATATAT
60539387 ATTTTAAAA
1 A-TTTAAAA
60539396 ATTTTAAAAT
Statistics
Matches: 54, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
11 11 0.20
12 11 0.20
13 17 0.31
14 15 0.28
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (13 bp):
ATTTAAAATATAT
Found at i:60539376 original size:35 final size:34
Alignment explanation
Indices: 60539289--60539382 Score: 102
Period size: 35 Copynumber: 2.7 Consensus size: 34
60539279 AAAATATTTA
*
60539289 AATATTAAAAAATAATATTTAAAATTTAAAAAAGT
1 AATATTAAAAAA-AATATTTAAAATTTAAAAAAAT
* *
60539324 AAT-TTCAAAATATATATTTAAAATTTAAAAAAAAT
1 AATATT-AAAAAAAATATTTAAAATTT-AAAAAAAT
*
60539359 ATATATT-AAAAAAATATTTTAAAT
1 A-ATATTAAAAAAAATATTTAAAAT
60539383 ATATATTTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
34 15 0.31
35 30 0.61
36 2 0.04
37 2 0.04
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (34 bp):
AATATTAAAAAAAATATTTAAAATTTAAAAAAAT
Found at i:60539395 original size:24 final size:23
Alignment explanation
Indices: 60539354--60539405 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
60539344 AAATTTAAAA
60539354 AAAATATATATTAAAAAAATATTT
1 AAAATATATATTAAAAAAAT-TTT
* **
60539378 TAAATATATATTTTAAAAATTTT
1 AAAATATATATTAAAAAAATTTT
60539401 AAAAT
1 AAAAT
60539406 TAATAATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AAAATATATATTAAAAAAATTTT
Found at i:60539430 original size:14 final size:15
Alignment explanation
Indices: 60539407--60539436 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
60539397 TTTTAAAATT
60539407 AATAATAATAAATAA
1 AATAATAATAAATAA
60539422 AATAA-AATAAATAA
1 AATAATAATAAATAA
60539436 A
1 A
60539437 GACAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAATAATAAATAA
Found at i:60539433 original size:51 final size:48
Alignment explanation
Indices: 60539331--60539434 Score: 111
Period size: 51 Copynumber: 2.1 Consensus size: 48
60539321 AGTAATTTCA
* ***
60539331 AAATATATATTTAAAATTTAAAAAAAATATATATTAAAAAAATATTTT
1 AAATATATATTTAAAATTTAAAAAAAATATATAATAAAAAAATAAAAT
**
60539379 AAATATATATTTTAAAAATTTTAAAATTAATA-ATAATAAATAAAATAAAAT
1 AAATATATA-TTT-AAAA-TTTAAAAAAAATATATAATAAA-AAAATAAAAT
60539430 AAATA
1 AAATA
60539435 AAGACAAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
48 9 0.20
49 3 0.07
50 11 0.24
51 23 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (48 bp):
AAATATATATTTAAAATTTAAAAAAAATATATAATAAAAAAATAAAAT
Found at i:60540594 original size:90 final size:86
Alignment explanation
Indices: 60540467--60540646 Score: 245
Period size: 90 Copynumber: 2.1 Consensus size: 86
60540457 TAAAAAGTCT
* * * * *
60540467 CTCTTTTTTTTTGCACTCATTTGAGTACTTGAACTTTCAAAATACGTCAAAAAGGCCCTTAAACT
1 CTCTTTTTTTTTCCACTCAATTGAGTACTTGAACTTTCAAAATACATCAAAAAGACCCTCAAA--
60540532 AATTTTAAAAAAAAGCAATTAAGC
64 AATTTT-AAAAAAAGCAATTAAGC
* *
60540556 CTCTATTTTTTTTCCACTCAATTGGGTACTTGAACTTTCAAAATACATCAAGAAGACCCTCAAAA
1 CTCT-TTTTTTTTCCACTCAATTGAGTACTTGAACTTTCAAAATACATCAAAAAGACCCTCAAAA
*
60540621 ATTTTCAAAAAAGCAATTAAG-
65 ATTTTAAAAAAAGCAATTAAGC
60540642 CTCTT
1 CTCTT
60540647 GCTCTTATTA
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
85 1 0.01
86 4 0.05
87 15 0.18
88 6 0.07
89 4 0.05
90 52 0.63
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.34
Consensus pattern (86 bp):
CTCTTTTTTTTTCCACTCAATTGAGTACTTGAACTTTCAAAATACATCAAAAAGACCCTCAAAAA
TTTTAAAAAAAGCAATTAAGC
Found at i:60540723 original size:18 final size:18
Alignment explanation
Indices: 60540675--60540724 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
60540665 AAAAAATTAT
*
60540675 AGAAAATAATAAATTTTA
1 AGAAAATATTAAATTTTA
* *
60540693 GGAAAGTTATTAAATTTTA
1 AGAAA-ATATTAAATTTTA
*
60540712 ATAAAATATTAAA
1 AGAAAATATTAAA
60540725 AATTAGATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (18 bp):
AGAAAATATTAAATTTTA
Found at i:60540878 original size:11 final size:9
Alignment explanation
Indices: 60540847--60540879 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 9
60540837 ATATGTGGCA
60540847 AAAAATAAT
1 AAAAATAAT
60540856 AAAAA-AAT
1 AAAAATAAT
60540864 AAAAATCAAT
1 AAAAAT-AAT
60540874 AAAAAT
1 AAAAAT
60540880 TTTAGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
9 5 0.23
10 9 0.41
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (9 bp):
AAAAATAAT
Found at i:60540989 original size:9 final size:9
Alignment explanation
Indices: 60540957--60541120 Score: 70
Period size: 9 Copynumber: 17.7 Consensus size: 9
60540947 ATTTCTTTGC
60540957 ATTTTGTATA
1 ATTTT-TATA
*
60540967 ATTTATA-A
1 ATTTTTATA
*
60540975 AATTTTATA
1 ATTTTTATA
*
60540984 ATTTTTTTA
1 ATTTTTATA
*
60540993 TATTTCTAT-
1 -ATTTTTATA
60541002 ATATTTTATA
1 AT-TTTTATA
60541012 ATTTTTTTATA
1 A--TTTTTATA
60541023 ATTTTTAT-
1 ATTTTTATA
*
60541031 ATTTTTCTA
1 ATTTTTATA
*
60541040 ATTATTAATA
1 ATT-TTTATA
*
60541050 AATTTT-TA
1 ATTTTTATA
* *
60541058 ATATTT-GA
1 ATTTTTATA
60541066 ATTTTTATTAA
1 ATTTTTA-T-A
* *
60541077 AATTTAATA
1 ATTTTTATA
*
60541086 ATATTTATA
1 ATTTTTATA
60541095 GA-TTTTATTA
1 -ATTTTTA-TA
*
60541105 ATTTTAATA
1 ATTTTTATA
60541114 ATATTTT
1 AT-TTTT
60541121 TTTTAATTTT
Statistics
Matches: 113, Mismatches: 26, Indels: 30
0.67 0.15 0.18
Matches are distributed among these distances:
8 27 0.24
9 43 0.38
10 28 0.25
11 14 0.12
12 1 0.01
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.61
Consensus pattern (9 bp):
ATTTTTATA
Found at i:60540993 original size:11 final size:11
Alignment explanation
Indices: 60540977--60541028 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
60540967 ATTTATAAAA
60540977 TTTTATAATTT
1 TTTTATAATTT
60540988 TTTTAT-A--T
1 TTTTATAATTT
* *
60540996 TTCTAT-A-TA
1 TTTTATAATTT
60541005 TTTTATAATTT
1 TTTTATAATTT
60541016 TTTTATAATTT
1 TTTTATAATTT
60541027 TT
1 TT
60541029 ATATTTTTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 7 0.21
9 5 0.15
10 2 0.06
11 20 0.59
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:60541036 original size:28 final size:28
Alignment explanation
Indices: 60540958--60541042 Score: 100
Period size: 28 Copynumber: 3.0 Consensus size: 28
60540948 TTTCTTTGCA
* * *
60540958 TTTTGTATAATTTATAAAATTTTATAAT
1 TTTTTTATAATTTATATATTTTTATAAT
*
60540986 TTTTTTAT-ATTTCTATATATTTTATAAT
1 TTTTTTATAATTTATATAT-TTTTATAAT
* *
60541014 TTTTTTATAATTTTTATATTTTTCTAAT
1 TTTTTTATAATTTATATATTTTTATAAT
60541042 T
1 T
60541043 ATTAATAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
27 7 0.14
28 33 0.67
29 9 0.18
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (28 bp):
TTTTTTATAATTTATATATTTTTATAAT
Found at i:60541054 original size:39 final size:39
Alignment explanation
Indices: 60540977--60541056 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 39
60540967 ATTTATAAAA
* *
60540977 TTTTATAATTTTTTTATATTTCTATATATTTTATAATTT
1 TTTTATAATTTTTATATATTTCTATATATTATATAATTT
* *
60541016 TTTTATAATTTTTATATTTTTCTA-ATTATTA-ATAAATT
1 TTTTATAATTTTTATATATTTCTATA-TATTATATAATTT
60541054 TTT
1 TTT
60541057 AATATTTGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 10 0.28
39 26 0.72
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (39 bp):
TTTTATAATTTTTATATATTTCTATATATTATATAATTT
Found at i:60541258 original size:92 final size:94
Alignment explanation
Indices: 60541135--60541324 Score: 255
Period size: 93 Copynumber: 2.0 Consensus size: 94
60541125 AATTTTTAAT
* * * *
60541135 AAAAGTAGGGACTTAATTGCTTTTCTTGAAAAA-GTTTTAGGG-TATTTTTGATGCATTTTGAAA
1 AAAAGTAGGGACTTAATTGCTTTTCTAGAAAAAGGTTTGAGGGCT-TTTTTGATACACTTTGAAA
* *
60541198 GTTCAAGTACCCAATTGAGTGCAAAA-AAA
65 GTTCAAGTACCCAAATGAGTACAAAAGAAA
*
60541227 AAAAGTAGGG-GTGTAATTGCTTTT-TCAGAAAAAGGTTTGAGGGCTTTTTTGATACACTTTGAA
1 AAAAGTAGGGACT-TAATTGCTTTTCT-AGAAAAAGGTTTGAGGGCTTTTTTGATACACTTTGAA
60541290 AGTTCAAGTACCCAAATGAGTACAAAAGAAA
64 AGTTCAAGTACCCAAATGAGTACAAAAGAAA
60541321 AAAA
1 AAAA
60541325 AAGCAAAGAC
Statistics
Matches: 86, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
91 2 0.02
92 27 0.31
93 49 0.57
94 8 0.09
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.32
Consensus pattern (94 bp):
AAAAGTAGGGACTTAATTGCTTTTCTAGAAAAAGGTTTGAGGGCTTTTTTGATACACTTTGAAAG
TTCAAGTACCCAAATGAGTACAAAAGAAA
Found at i:60542006 original size:8 final size:8
Alignment explanation
Indices: 60541972--60542006 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
60541962 GTTTTATAGG
60541972 AATATATAA
1 AATATA-AA
*
60541981 AATATTAA
1 AATATAAA
60541989 AATATAAA
1 AATATAAA
60541997 AATATAAA
1 AATATAAA
60542005 AA
1 AA
60542007 AAAAAGACAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 19 0.79
9 5 0.21
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (8 bp):
AATATAAA
Found at i:60548663 original size:42 final size:42
Alignment explanation
Indices: 60548604--60548688 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
60548594 GAAAAAGTAA
60548604 GAGGATTAAAAAGGTCAAATATTTTGGACCAGATTTCATTGT
1 GAGGATTAAAAAGGTCAAATATTTTGGACCAGATTTCATTGT
60548646 GAGGATTAAAAAGGTCAAATATTTTGGACCAGATTTCATTGT
1 GAGGATTAAAAAGGTCAAATATTTTGGACCAGATTTCATTGT
60548688 G
1 G
60548689 TTTCTTGTAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.33
Consensus pattern (42 bp):
GAGGATTAAAAAGGTCAAATATTTTGGACCAGATTTCATTGT
Found at i:60551387 original size:29 final size:29
Alignment explanation
Indices: 60551345--60551407 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
60551335 ACATGGCTTG
60551345 GAAT-TGATTCGGGCCG-GATGGGCCATAT
1 GAATGTGATTCGGGCCGAG-TGGGCCATAT
* *
60551373 GAATGTGATTTGGGCCTAGTGGGCCATAT
1 GAATGTGATTCGGGCCGAGTGGGCCATAT
*
60551402 GCATGT
1 GAATGT
60551408 ATGTAAACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 4 0.13
29 25 0.83
30 1 0.03
ACGTcount: A:0.21, C:0.16, G:0.35, T:0.29
Consensus pattern (29 bp):
GAATGTGATTCGGGCCGAGTGGGCCATAT
Found at i:60552721 original size:16 final size:17
Alignment explanation
Indices: 60552687--60552721 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
60552677 ATTTTAAAGA
60552687 AAGGTTTTCAATGAAAAC
1 AAGGTTTTCAA-GAAAAC
60552705 AAGGTTTTCAA-AAAAC
1 AAGGTTTTCAAGAAAAC
60552721 A
1 A
60552722 CTTCAATGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
18 11 0.65
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.26
Consensus pattern (17 bp):
AAGGTTTTCAAGAAAAC
Found at i:60557225 original size:7 final size:7
Alignment explanation
Indices: 60557213--60557250 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
60557203 TCTTTTTTTG
60557213 AAAATAA
1 AAAATAA
60557220 AAAATAA
1 AAAATAA
60557227 AAAA-AA
1 AAAATAA
60557233 ATAAATAA
1 A-AAATAA
*
60557241 CAAATAA
1 AAAATAA
60557248 AAA
1 AAA
60557251 TGAAGCAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 3 0.11
7 22 0.81
8 2 0.07
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAATAA
Found at i:60557235 original size:17 final size:17
Alignment explanation
Indices: 60557213--60557251 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
60557203 TCTTTTTTTG
*
60557213 AAAATAAAAAATAAAAA
1 AAAATAAAAAACAAAAA
* *
60557230 AAAATAAATAACAAATA
1 AAAATAAAAAACAAAAA
60557247 AAAAT
1 AAAAT
60557252 GAAGCAAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAATAAAAAACAAAAA
Found at i:60557245 original size:11 final size:11
Alignment explanation
Indices: 60557214--60557248 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
60557204 CTTTTTTTGA
60557214 AAATAAAAAAT
1 AAATAAAAAAT
60557225 AAA-AAAAAAT
1 AAATAAAAAAT
*
60557235 AAATAACAAAT
1 AAATAAAAAAT
60557246 AAA
1 AAA
60557249 AATGAAGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (11 bp):
AAATAAAAAAT
Found at i:60557873 original size:45 final size:45
Alignment explanation
Indices: 60557798--60557927 Score: 138
Period size: 44 Copynumber: 2.9 Consensus size: 45
60557788 AGCCATATAC
* * * *
60557798 TTCAATCTGCCCTACTGCAACTTT-AGGGAGATAAGATTTGTTATC
1 TTCAATCTGCTCTACTGCAA-TTTCAAGGAGATAAGATTTGTCATA
*
60557843 TTTAATCTGCTCTACTGCAATTTCAAGGAGATAAGATTTG-CATA
1 TTCAATCTGCTCTACTGCAATTTCAAGGAGATAAGATTTGTCATA
* * * * * *
60557887 TTCAATTTTCTCCACTGAAACTTCAAGGAGATAAGGTTTGT
1 TTCAATCTGCTCTACTGCAATTTCAAGGAGATAAGATTTGT
60557928 GGCTTCAATA
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
44 38 0.54
45 33 0.46
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (45 bp):
TTCAATCTGCTCTACTGCAATTTCAAGGAGATAAGATTTGTCATA
Found at i:60557935 original size:44 final size:44
Alignment explanation
Indices: 60557864--60557971 Score: 110
Period size: 44 Copynumber: 2.5 Consensus size: 44
60557854 CTACTGCAAT
* * *
60557864 TTCAAGGAGATAAGATTTGCATATTCAATTTTCTCCACTGAAAC
1 TTCAAGGAGATAAGATTTGCAGATTCAATATACTCCACTGAAAC
* ** * *
60557908 TTCAAGGAGATAAGGTTTGTGGCTTCAATATACTCCACTGCAAC
1 TTCAAGGAGATAAGATTTGCAGATTCAATATACTCCACTGAAAC
* *
60557952 TAC-AGAGAAATAAGATTTGC
1 TTCAAG-GAGATAAGATTTGC
60557972 CATGGTAATT
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
43 2 0.04
44 49 0.96
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (44 bp):
TTCAAGGAGATAAGATTTGCAGATTCAATATACTCCACTGAAAC
Found at i:60558271 original size:44 final size:44
Alignment explanation
Indices: 60558181--60558295 Score: 126
Period size: 44 Copynumber: 2.6 Consensus size: 44
60558171 TCAATTCGTC
* * * * *
60558181 CCACTGCAACTTCAGGG-GTATAGGATTTGTCGCTTTAATCTGCT
1 CCACTACAACTTCAGGGAG-ATAAGATTAGTGGCTTCAATCTGCT
* * *
60558225 CCACCT-TAACTTTAGGGAGATAAGATTAGTGGCTTCAATTTGCT
1 CCA-CTACAACTTCAGGGAGATAAGATTAGTGGCTTCAATCTGCT
60558269 CCACTACAACTTCAGGGAGATAAGATT
1 CCACTACAACTTCAGGGAGATAAGATT
60558296 CACCATAATA
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
43 2 0.03
44 54 0.92
45 3 0.05
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (44 bp):
CCACTACAACTTCAGGGAGATAAGATTAGTGGCTTCAATCTGCT
Found at i:60558313 original size:138 final size:138
Alignment explanation
Indices: 60558095--60558346 Score: 308
Period size: 138 Copynumber: 1.8 Consensus size: 138
60558085 TCTCTACTGC
* * * * *
60558095 ACTTTAGGGAGATAAAATTTGTGACTTTAATCTTTCCCATTACAACTTCAGGGAAATAAGATTCG
1 ACTTTAGGGAGATAAAATTAGTGACTTCAATCTTGCCCACTACAACTTCAGGGAAATAAGATTCA
* ** * * * *
60558160 TCACGGTGACCTCAATTCGTCCCACTGCAACTTCAGGGGTATAGGATTTGTCGCTTTAATCTGCT
66 CCACAATAACCTCAATACATCCCACTACAACTTCAGGGGTATAGGATTTGTCGCTTTAATCTGCT
60558225 CCACCTTA
131 CCACCTTA
* * *
60558233 ACTTTAGGGAGATAAGATTAGTGGCTTCAAT-TTGCTCCACTACAACTTCAGGGAGATAAGATTC
1 ACTTTAGGGAGATAAAATTAGTGACTTCAATCTTGC-CCACTACAACTTCAGGGAAATAAGATTC
* ** * *
60558297 ACCATAATAATTTCAATACATCCTACTACAACTTCAGGGGTGTAGGATTT
65 ACCACAATAACCTCAATACATCCCACTACAACTTCAGGGGTATAGGATTT
60558347 ATGGTTTCTC
Statistics
Matches: 93, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
137 3 0.03
138 90 0.97
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (138 bp):
ACTTTAGGGAGATAAAATTAGTGACTTCAATCTTGCCCACTACAACTTCAGGGAAATAAGATTCA
CCACAATAACCTCAATACATCCCACTACAACTTCAGGGGTATAGGATTTGTCGCTTTAATCTGCT
CCACCTTA
Found at i:60563996 original size:3 final size:3
Alignment explanation
Indices: 60563988--60564122 Score: 73
Period size: 3 Copynumber: 45.3 Consensus size: 3
60563978 ATAAAAGACC
** * * *
60563988 ATA ATA ATA ATA ATA ACG ATA ATA ACA ATA AT- ATA ATA CCT- ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
* * * * * *
60564032 ATA CTA ATA ATA GTA ATA ATA AGA A-A ATTA ATA TTA GTA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
* * *
60564077 ATA ATGGA A-A ATA ATA ATA ACA ATG ATA AT- ATA GTA ATA ATA ATA
1 ATA AT--A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
60564122 A
1 A
60564123 ACGTGAAATT
Statistics
Matches: 99, Mismatches: 24, Indels: 18
0.70 0.17 0.13
Matches are distributed among these distances:
2 9 0.09
3 85 0.86
4 3 0.03
5 2 0.02
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:60565249 original size:17 final size:17
Alignment explanation
Indices: 60565224--60565266 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
60565214 TTTTTCTCTC
* *
60565224 ATTTTTTTAATTTATGT
1 ATTTATTTAATATATGT
60565241 ATTTATTTAATATATGT
1 ATTTATTTAATATATGT
60565258 ATGTTATTT
1 AT-TTATTT
60565267 TTAATAAGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (17 bp):
ATTTATTTAATATATGT
Found at i:60565701 original size:18 final size:18
Alignment explanation
Indices: 60565680--60565715 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
60565670 AGTTTGGGGT
60565680 TTGGAGATTATTTGGGCC
1 TTGGAGATTATTTGGGCC
* *
60565698 TTGGGGGTTATTTGGGCC
1 TTGGAGATTATTTGGGCC
60565716 CAGGCCAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.11, G:0.39, T:0.39
Consensus pattern (18 bp):
TTGGAGATTATTTGGGCC
Found at i:60566358 original size:44 final size:43
Alignment explanation
Indices: 60566305--60566404 Score: 128
Period size: 44 Copynumber: 2.3 Consensus size: 43
60566295 ATCAACTCCA
* *
60566305 CTACTGCTTAGGGAGATAAGATCTATAATCTTCAACCTGCTGCC
1 CTACTGCTTAGGGAGATAAGATCTATAA-ATTCAACCTGCTACC
* * * * *
60566349 CTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCTATAAATTCAACCTGCTACC
60566392 CTACTGCTTAGGG
1 CTACTGCTTAGGG
60566405 GTTTAAGGCC
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 24 0.49
44 25 0.51
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (43 bp):
CTACTGCTTAGGGAGATAAGATCTATAAATTCAACCTGCTACC
Found at i:60566447 original size:44 final size:44
Alignment explanation
Indices: 60566384--60566535 Score: 137
Period size: 44 Copynumber: 3.5 Consensus size: 44
60566374 TAAATTCAGC
*
60566384 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGACTTCGAT
* * ****** * * *
60566428 CTGTTTCCCTACTGCTTAGGGGGTTAAAATTTGT-AAATTC-AGC
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGACTTCGA-T
* *
60566471 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTTGAT
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGACTTCGAT
* *
60566515 CTGTTTCCCTACTACTTAGGG
1 CTGTTACCCTACTGCTTAGGG
60566536 TGATAAGATC
Statistics
Matches: 78, Mismatches: 27, Indels: 6
0.70 0.24 0.05
Matches are distributed among these distances:
42 1 0.01
43 29 0.37
44 47 0.60
45 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.36
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGACTTCGAT
Found at i:60566587 original size:87 final size:87
Alignment explanation
Indices: 60566347--60566576 Score: 379
Period size: 87 Copynumber: 2.6 Consensus size: 87
60566337 CAACCTGCTG
60566347 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
60566412 GCCCATCGCCTTCGATCTGTTT
66 GCCCATCGCCTTCGATCTGTTT
* *
60566434 CCCTACTGCTTAGGGGGTTAAAATTTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
* *
60566499 GCCCATCGTCTTTGATCTGTTT
66 GCCCATCGCCTTCGATCTGTTT
* * * * *
60566521 CCCTACTACTTAGGGTGATAAGATCTGTAAACTCAGACTGTTACCCTACTGCTTAG
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAG
60566577 AGAGATAAGG
Statistics
Matches: 132, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 132 1.00
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (87 bp):
CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
GCCCATCGCCTTCGATCTGTTT
Found at i:60578749 original size:84 final size:85
Alignment explanation
Indices: 60578618--60578779 Score: 290
Period size: 84 Copynumber: 1.9 Consensus size: 85
60578608 TTTATTGGAA
60578618 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAG
1 AAAAACGCCGCTAAAGGTC-AGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAG
60578683 GCTTTTAGCGGCGTTTGTGGG
65 GCTTTTAGCGGCGTTTGTGGG
* *
60578704 AAAAGCGCCGCTAAAGGTC-GGCTTTTAGCGGTGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGG
1 AAAAACGCCGCTAAAGGTCAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGG
60578768 CTTTTAGCGGCG
66 CTTTTAGCGGCG
60578780 CTTTTTTTAC
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
84 56 0.76
86 18 0.24
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.23
Consensus pattern (85 bp):
AAAAACGCCGCTAAAGGTCAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGG
CTTTTAGCGGCGTTTGTGGG
Found at i:60578802 original size:43 final size:43
Alignment explanation
Indices: 60578618--60578779 Score: 292
Period size: 43 Copynumber: 3.8 Consensus size: 43
60578608 TTTATTGGAA
*
60578618 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
60578661 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
*
60578704 AAAAGCGCCGCTAAAGGTC--GGCTTTTAGCGGTGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
60578745 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
60578780 CTTTTTTTAC
Statistics
Matches: 114, Mismatches: 3, Indels: 4
0.94 0.02 0.03
Matches are distributed among these distances:
41 40 0.35
43 74 0.65
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.23
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
Found at i:60578889 original size:31 final size:31
Alignment explanation
Indices: 60578854--60578934 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
60578844 CTTCCTGCAT
* *
60578854 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
60578885 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
60578916 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
60578935 TATTAATTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:60579204 original size:21 final size:21
Alignment explanation
Indices: 60579180--60579225 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
60579170 GCTCGTGCCT
*
60579180 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
60579201 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
60579222 CTGC
1 CTGC
60579226 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:60583550 original size:9 final size:10
Alignment explanation
Indices: 60583533--60583557 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
60583523 AAAGAGGACG
60583533 AAATGGGGGA
1 AAATGGGGGA
60583543 AAATGGGGGA
1 AAATGGGGGA
60583553 AAATG
1 AAATG
60583558 ACTTAGCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.12
Consensus pattern (10 bp):
AAATGGGGGA
Found at i:60584628 original size:2 final size:2
Alignment explanation
Indices: 60584623--60584647 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
60584613 ACAAGTTTTA
60584623 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
60584648 ACAACGGACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:60585055 original size:39 final size:40
Alignment explanation
Indices: 60585000--60585101 Score: 118
Period size: 40 Copynumber: 2.5 Consensus size: 40
60584990 TTTTGCGACG
* *
60585000 TTTGTAGAAACAGCCGCTAATGCAT-CACCTATTG-GGCGTT
1 TTTGTA-AAAC-GCCGCTAATGCATGAACCTATAGCGGCGTT
* **
60585040 TTTGTTAAAACGCCGCTAATGCTTGAAGTTATAGCGGCGTT
1 TTTG-TAAAACGCCGCTAATGCATGAACCTATAGCGGCGTT
60585081 TTTGTAAAACGCCGCTAATGC
1 TTTGTAAAACGCCGCTAATGC
60585102 CTCAAAAGAG
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
39 12 0.22
40 30 0.56
41 12 0.22
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (40 bp):
TTTGTAAAACGCCGCTAATGCATGAACCTATAGCGGCGTT
Found at i:60585150 original size:155 final size:155
Alignment explanation
Indices: 60584934--60585220 Score: 377
Period size: 155 Copynumber: 1.9 Consensus size: 155
60584924 GTTTTACGAG
* * ** * *
60584934 AAACGCCGCTAATGCCTCAATAGCTTACCTACACACGGCGCCGTTTTGCTCAATACTTTTGCGAC
1 AAACGCCGCTAATGCCTCAAGAGCTCACAAACACACGGCACCGTTTTGCTCAACACTTTTGCGAC
*
60584999 GTTTGTAGA-AACAGCCGCTAATGC-ATCA-CCTATTG-GGCGTTTTTGTTA-AAACGCCGCTAA
66 GTTTGTAGACAACAGCCGCTAAT-CTATCAGCC-ATTGCGGCGTTCTT-TTATAAACGCCGCTAA
60585059 TGCTTGAAGTTATAGCGGCGTTTTTGTA
128 TGCTTGAAGTTATAGCGGCGTTTTTGTA
*
60585087 AAACGCCGCTAATGCCTCAAAAGAGCTCACAAACATACGGCACCGTTTTGCTCAACACTTTTGCG
1 AAACGCCGCTAATGCCTC--AAGAGCTCACAAACACACGGCACCGTTTTGCTCAACACTTTTGCG
* * * * *
60585152 GCGTTTTTTGACAACCGCCGCTAATCTGTCAGCCATTGCGGCGTTCTTTTATAAACGCCGCTAAT
64 ACGTTTGTAGACAACAGCCGCTAATCTATCAGCCATTGCGGCGTTCTTTTATAAACGCCGCTAAT
60585217 GCTT
129 GCTT
60585221 TATTTTTTGC
Statistics
Matches: 114, Mismatches: 13, Indels: 10
0.83 0.09 0.07
Matches are distributed among these distances:
153 18 0.16
155 47 0.41
156 22 0.19
157 27 0.24
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.29
Consensus pattern (155 bp):
AAACGCCGCTAATGCCTCAAGAGCTCACAAACACACGGCACCGTTTTGCTCAACACTTTTGCGAC
GTTTGTAGACAACAGCCGCTAATCTATCAGCCATTGCGGCGTTCTTTTATAAACGCCGCTAATGC
TTGAAGTTATAGCGGCGTTTTTGTA
Found at i:60585292 original size:40 final size:39
Alignment explanation
Indices: 60585144--60585361 Score: 126
Period size: 40 Copynumber: 5.4 Consensus size: 39
60585134 TTGCTCAACA
* * *
60585144 CTTTTGCGGCG-TTTTTTGACAACCGCCGCTAATCTGTCAG
1 CTTTTGCGGCGTTTTTTTGACAAACGCCACTAA--TGTCAT
** * * * *
60585184 CCATTGCGGCGTTCTTTT-ATAAACGCCGCTAATGCTTTAT
1 CTTTTGCGGCGTTTTTTTGACAAACGCCACTAATG--TCAT
* * *
60585224 TTTTTGCGGCG-TTTTCTG-CATAAGCGCCACTAATAGTGAT
1 CTTTTGCGGCGTTTTTTTGACA-AA-CGCCACTAAT-GTCAT
60585264 CTTTTGCGGCGTTTTTTTGACAAACGCCACT-ATAGCTCTGAT
1 CTTTTGCGGCGTTTTTTTGACAAACGCCACTAAT-G-TC--AT
* * *
60585306 CTATAGCGGCGTTTTTATT-A-AAACGCCACTGATGTACAT
1 CTTTTGCGGCGTTTTT-TTGACAAACGCCACTAATGT-CAT
*
60585345 ATTTTGCGGCGTTTTTT
1 CTTTTGCGGCGTTTTTT
60585362 GTCAAAACGC
Statistics
Matches: 140, Mismatches: 23, Indels: 32
0.72 0.12 0.16
Matches are distributed among these distances:
38 3 0.02
39 24 0.17
40 55 0.39
41 34 0.24
42 22 0.16
43 2 0.01
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.38
Consensus pattern (39 bp):
CTTTTGCGGCGTTTTTTTGACAAACGCCACTAATGTCAT
Found at i:60585451 original size:3 final size:3
Alignment explanation
Indices: 60585443--60585580 Score: 88
Period size: 3 Copynumber: 46.3 Consensus size: 3
60585433 ATAAAAGACC
** *
60585443 ATA ATA ATA ATA ATA ACG ATA ATA ATA ATA ATA AT- ATA ATA CCT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * * * *
60585487 ATG ATA CTA ATA ATA GTA ATA ATA AGA A-A ATTA ATA TTA GTA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
* * *
60585532 ATA ATA ATGGA A-A ATA ATA ATA ACA ATG ATA AT- ATA GTA ATA ATA
1 ATA ATA AT--A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
60585577 ATA A
1 ATA A
60585581 ACGTGAAATT
Statistics
Matches: 104, Mismatches: 22, Indels: 18
0.72 0.15 0.12
Matches are distributed among these distances:
2 9 0.09
3 90 0.87
4 3 0.03
5 2 0.02
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:60586052 original size:25 final size:22
Alignment explanation
Indices: 60586023--60586067 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 22
60586013 GTAACAGTAA
60586023 TAAAATATAATATTATGAATAATAT
1 TAAAAT-TAA-ATTA-GAATAATAT
60586048 TAAAATTAAATTAGAATAAT
1 TAAAATTAAATTAGAATAAT
60586068 GAGAAAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 4 0.20
24 3 0.15
25 6 0.30
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
TAAAATTAAATTAGAATAATAT
Found at i:60590727 original size:19 final size:20
Alignment explanation
Indices: 60590705--60590743 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
60590695 TTATGAAACT
*
60590705 TAATACATATG-ATGAAATG
1 TAATACAGATGAATGAAATG
*
60590724 TAATGCAGATGAATGAAATG
1 TAATACAGATGAATGAAATG
60590744 AATGCAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.46, C:0.05, G:0.21, T:0.28
Consensus pattern (20 bp):
TAATACAGATGAATGAAATG
Found at i:60596370 original size:22 final size:24
Alignment explanation
Indices: 60596327--60596370 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
60596317 GTGATAATAG
*
60596327 TTGGAACTGAATTTTGAAATTTTT
1 TTGGAACTAAATTTTGAAATTTTT
60596351 TTGG-ACTAAATTTT-AAATTT
1 TTGGAACTAAATTTTGAAATTT
60596371 GGAAGAATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 9 0.47
24 4 0.21
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.50
Consensus pattern (24 bp):
TTGGAACTAAATTTTGAAATTTTT
Found at i:60597033 original size:63 final size:63
Alignment explanation
Indices: 60596938--60597063 Score: 166
Period size: 63 Copynumber: 2.0 Consensus size: 63
60596928 TCGGATTTGA
* * * *
60596938 GTGTGAGTGTCGCCTATAGATATATGGAGTTGATACATCTATGTTCTTTTTGCTTATTTGAGT
1 GTGTGAGTGTCGCCTATAGATAAATGGAGTTGATACATCTATGTTCTCTTCGCGTATTTGAGT
* *
60597001 GTGTGCGTGTCGCCTATAGGTATAAAT-G-GTTGATACATTTATGTTCTCTTCGCGTATTTGAGT
1 GTGTGAGTGTCGCCTATA-G-ATAAATGGAGTTGATACATCTATGTTCTCTTCGCGTATTTGAGT
60597064 CTAAGTGTCA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
63 48 0.87
64 2 0.04
65 5 0.09
ACGTcount: A:0.20, C:0.13, G:0.25, T:0.43
Consensus pattern (63 bp):
GTGTGAGTGTCGCCTATAGATAAATGGAGTTGATACATCTATGTTCTCTTCGCGTATTTGAGT
Found at i:60597606 original size:234 final size:231
Alignment explanation
Indices: 60597127--60597829 Score: 875
Period size: 234 Copynumber: 2.9 Consensus size: 231
60597117 ATGTGGAAGG
*
60597127 TTGTTAGAGGATCATATCTCCTTTGAAAATGTGTTGTATAAGGGTACTTAAAAAGAAAAAAAATG
1 TTGTTAGAGGATCATATCTCCTTTGAAAATGTGTTGGAT-AGGGTACTTAAAAAG---AAAAATG
* * * *
60597192 AATAGTCCGAACAACATAGGAAAAATATTTATATCTTCTCATTTATTTGATTGTGAAAGTTAATG
62 AATAGT-CGAACAACATAGGAAAAA-ATTTACATCTTCCCATTTATTTGATTGTGAAAGTAAAGG
* * * *
60597257 AACAATAGGATATGATCTGTTAAGGCGTTGAAGTTACTGAATGTCTTTCTGGATATTTGATGTTT
125 AACAAT-GGATATGATCTATTAAGGTGTTGAAGTTACTGAAT-TCTTTCTGAATATTT-ATGTCT
** * *
60597322 GGTAATAATTTTTTTATTTATTTATGATCTACCGATAGGTGCCCT
187 GGTAATAAGCTATTCATTTATTTATGATCTACCGATAGGTGCCCT
*
60597367 TTGTTAGAGGATCATATCTCCTTTGGAAATGTGTTGGATAGGGATACTTAAAAAGAAAAATGAAT
1 TTGTTAGAGGATCATATCTCCTTTGAAAATGTGTTGGATAGGG-TACTTAAAAAGAAAAATGAAT
* *
60597432 AGTCGAAACAACAGAGGAAAAAAGTTACATCTTCCCATTTATTTGATTGTGAAAGTAAAGGAACA
65 AGTCG-AACAACATAGGAAAAAATTTACATCTTCCCATTTATTTGATTGTGAAAGTAAAGGAACA
* *
60597497 ATGGATATGATCTATTAAGGTGTTGAAGTTATTGAATTCTTTCTGAATATTTAATGGCTGGTAAT
129 ATGGATATGATCTATTAAGGTGTTGAAGTTACTGAATTCTTTCTGAATATTT-ATGTCTGGTAAT
* *
60597562 AAGCTATTCATTTATTTATGATCTACCGGTAGGTGCTCT
193 AAGCTATTCATTTATTTATGATCTACCGATAGGTGCCCT
* *
60597601 TTGTTAGAGGATCATATCTCCTTCGAAAATGTGTTGGATAGGGTTACTTAAAAAGAAAAACGAAT
1 TTGTTAGAGGATCATATCTCCTTTGAAAATGTGTTGGATAGGG-TACTTAAAAAGAAAAATGAAT
*
60597666 AGTCGGAAGAACATAGGAAAAAAATTTACATCTTTCCCATTTATTTGATTGTGAAAGTGAATGAA
65 AGTC-GAACAACATAGG-AAAAAATTTACATC-TTCCCATTTATTTGATTGTGAAAGT--A--AA
* * * * * * * * *
60597731 GTTGAACAATGAAATATAATATTTTGAGGTGTTCAAGTTACTGAACGTCTTTCTGCATATTTTTG
123 G--GAACAATG-GATATGATCTATTAAGGTGTTGAAGTTACTGAA-TTCTTTCTGAATATTTATG
** *
60597796 TCTGGTAATAAGCTATTGGTTTATTTCTGATCTA
184 TCTGGTAATAAGCTATTCATTTATTTATGATCTA
60597830 TCAATTGGTG
Statistics
Matches: 408, Mismatches: 42, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
234 131 0.32
235 46 0.11
236 67 0.16
237 28 0.07
238 1 0.00
239 4 0.01
240 51 0.12
242 8 0.02
243 58 0.14
244 14 0.03
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (231 bp):
TTGTTAGAGGATCATATCTCCTTTGAAAATGTGTTGGATAGGGTACTTAAAAAGAAAAATGAATA
GTCGAACAACATAGGAAAAAATTTACATCTTCCCATTTATTTGATTGTGAAAGTAAAGGAACAAT
GGATATGATCTATTAAGGTGTTGAAGTTACTGAATTCTTTCTGAATATTTATGTCTGGTAATAAG
CTATTCATTTATTTATGATCTACCGATAGGTGCCCT
Found at i:60599441 original size:96 final size:96
Alignment explanation
Indices: 60599277--60599525 Score: 324
Period size: 96 Copynumber: 2.6 Consensus size: 96
60599267 GTTCCCGTAG
* *
60599277 TTCTGTGAACAATACTGGGAATCCTCCTGCATCCCTACCAAACAGCCAACTGAACTCCTTTGCCA
1 TTCTGTGAACAATACTGGGAACCCTCCTGCATCCCTACCGAACAGCCAACTGAACTCCTTTGCCA
* ***
60599342 GTTTTAACAGCCTGAGTGC-GATCACT-TCTAA
66 GTTTTAACAGCC-CAACCCAGATCACTAT-TAA
* *
60599373 TTCTGTGAACAATTCTGGGAACCCTCCTGCATCCCTACCGAACAGCCAACTAAACTCCTCTT-CC
1 TTCTGTGAACAATACTGGGAACCCTCCTGCATCCCTACCGAACAGCCAACTGAACTCCT-TTGCC
* * *
60599437 AGTTTTAACAGCCCAACCCAGTTCAGTATTAG
65 AGTTTTAACAGCCCAACCCAGATCACTATTAA
* * *
60599469 TTCCGTGAACAATAGTGGGAACCCTCCTGCATCCCTACCGAACAACCAACTGAACTC
1 TTCTGTGAACAATACTGGGAACCCTCCTGCATCCCTACCGAACAGCCAACTGAACTC
60599526 TACTGCTTTT
Statistics
Matches: 134, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
95 2 0.01
96 129 0.96
97 3 0.02
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (96 bp):
TTCTGTGAACAATACTGGGAACCCTCCTGCATCCCTACCGAACAGCCAACTGAACTCCTTTGCCA
GTTTTAACAGCCCAACCCAGATCACTATTAA
Found at i:60603071 original size:31 final size:31
Alignment explanation
Indices: 60603033--60603091 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
60603023 AACAGTTCAA
* *
60603033 TGACTTAAGTAAAAACTTTTGAATAATTTAG
1 TGACTTAAATAAAAACTTTCGAATAATTTAG
60603064 TGACTTAAATAAAAACTTTCGAATAATT
1 TGACTTAAATAAAAACTTTCGAATAATT
60603092 CAATGATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.37
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCGAATAATTTAG
Found at i:60606516 original size:29 final size:29
Alignment explanation
Indices: 60606443--60606501 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
60606433 TTTGACTCAA
* *
60606443 TGTATAATGTCATACATAAATTTTAATTT
1 TGTATAATTTTATACATAAATTTTAATTT
*
60606472 TGTATGATTTTATACATAAAATTTTAATTT
1 TGTATAATTTTATACAT-AAATTTTAATTT
60606502 GATTTAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (29 bp):
TGTATAATTTTATACATAAATTTTAATTT
Found at i:60607146 original size:13 final size:13
Alignment explanation
Indices: 60607125--60607160 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
60607115 AAGGTTTTAT
*
60607125 AATTCAGTACAAA
1 AATTTAGTACAAA
60607138 AATTTAGTAC-AA
1 AATTTAGTACAAA
60607150 AATTTAGTACA
1 AATTTAGTACA
60607161 TAATCAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.31
Consensus pattern (13 bp):
AATTTAGTACAAA
Found at i:60619087 original size:15 final size:15
Alignment explanation
Indices: 60619067--60619099 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
60619057 GTGGCTATGC
*
60619067 GTAGTTTTAAGTATT
1 GTAGTTCTAAGTATT
60619082 GTAGTTCTAAGTATT
1 GTAGTTCTAAGTATT
60619097 GTA
1 GTA
60619100 TAAAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.27, C:0.03, G:0.21, T:0.48
Consensus pattern (15 bp):
GTAGTTCTAAGTATT
Found at i:60620134 original size:14 final size:14
Alignment explanation
Indices: 60620115--60620141 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
60620105 ATAATTTTAA
60620115 TAAATTAAAAATAT
1 TAAATTAAAAATAT
60620129 TAAATTAAAAATA
1 TAAATTAAAAATA
60620142 ATATAACAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAATTAAAAATAT
Found at i:60620868 original size:2 final size:2
Alignment explanation
Indices: 60620861--60620890 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
60620851 CTTCTAATCA
60620861 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
60620891 TAACATATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60621237 original size:16 final size:17
Alignment explanation
Indices: 60621216--60621251 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
60621206 ATTTATAAAA
60621216 ATAAAAAT-AACTTAAT
1 ATAAAAATAAACTTAAT
*
60621232 ATAAAAATAAATTTAAT
1 ATAAAAATAAACTTAAT
60621249 ATA
1 ATA
60621252 TTTTACTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAAAAATAAACTTAAT
Found at i:60622205 original size:20 final size:21
Alignment explanation
Indices: 60622166--60622205 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
60622156 AACATGCAAG
*
60622166 AAATTATTAATAATATTATTT
1 AAATTATTAATAATAATATTT
*
60622187 AAATTA-TAATAGTAATATT
1 AAATTATTAATAATAATATT
60622206 CAAACCATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (21 bp):
AAATTATTAATAATAATATTT
Done.