Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 94 of 189
Found at i:26141827 original size:17 final size:17
Alignment explanation
Indices: 26141786--26141844 Score: 61
Period size: 16 Copynumber: 3.6 Consensus size: 17
26141776 AAATAATTTA
26141786 TTTATATTTTATAAGTT
1 TTTATATTTTATAAGTT
26141803 TTT-TATTTTACTAA-TT
1 TTTATATTTTA-TAAGTT
* *
26141819 TTTAAATTTT-TAAATT
1 TTTATATTTTATAAGTT
*
26141835 TTTAGATTTT
1 TTTATATTTT
26141845 TTTATAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
15 3 0.08
16 23 0.62
17 11 0.30
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (17 bp):
TTTATATTTTATAAGTT
Found at i:26141864 original size:8 final size:8
Alignment explanation
Indices: 26141815--26141845 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
26141805 TTATTTTACT
26141815 AATTTTTA
1 AATTTTTA
26141823 AATTTTTA
1 AATTTTTA
26141831 AATTTTTA
1 AATTTTTA
*
26141839 GATTTTT
1 AATTTTT
26141846 TTATAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (8 bp):
AATTTTTA
Found at i:26145798 original size:23 final size:22
Alignment explanation
Indices: 26145772--26145853 Score: 67
Period size: 23 Copynumber: 3.6 Consensus size: 22
26145762 GTTATGGAAG
*
26145772 ACAAATGCCTACAATTTAGACAA
1 ACAAAT-CCTAAAATTTAGACAA
* *
26145795 ACAAATCCCTAAAATTGTGGA-AG
1 ACAAAT-CCTAAAATT-TAGACAA
* *
26145818 ACAAATACCTAGAATTTAGCCAA
1 ACAAAT-CCTAAAATTTAGACAA
*
26145841 AGAAATCCTAAAA
1 ACAAATCCTAAAA
26145854 ATTGTGGAAG
Statistics
Matches: 46, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
22 8 0.17
23 35 0.76
24 3 0.07
ACGTcount: A:0.49, C:0.20, G:0.11, T:0.21
Consensus pattern (22 bp):
ACAAATCCTAAAATTTAGACAA
Found at i:26145816 original size:46 final size:46
Alignment explanation
Indices: 26145747--26145867 Score: 163
Period size: 46 Copynumber: 2.6 Consensus size: 46
26145737 GATAAAAGAG
* * * *
26145747 AAACAAATCTCTAAAGTTATGGAAGACAAATGCCTACAATTTAGAC
1 AAACAAATCCCTAAAATTGTGGAAGACAAATACCTACAATTTAGAC
* *
26145793 AAACAAATCCCTAAAATTGTGGAAGACAAATACCTAGAATTTAGCC
1 AAACAAATCCCTAAAATTGTGGAAGACAAATACCTACAATTTAGAC
*
26145839 AAAGAAAT-CCTAAAAATTGTGGAAGACAA
1 AAACAAATCCCT-AAAATTGTGGAAGACAA
26145868 CTTGACTTGA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 3 0.04
46 64 0.96
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (46 bp):
AAACAAATCCCTAAAATTGTGGAAGACAAATACCTACAATTTAGAC
Found at i:26148016 original size:38 final size:38
Alignment explanation
Indices: 26147974--26148049 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
26147964 GCTAAGCATG
26147974 GTATAAATATTAAACTAAGTGGAGAAAGATGATAATTC
1 GTATAAATATTAAACTAAGTGGAGAAAGATGATAATTC
*
26148012 GTATAAATATTAAAGTAAGTGGAGAAAGATGATAATTC
1 GTATAAATATTAAACTAAGTGGAGAAAGATGATAATTC
26148050 ATCATCTTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.47, C:0.04, G:0.20, T:0.29
Consensus pattern (38 bp):
GTATAAATATTAAACTAAGTGGAGAAAGATGATAATTC
Found at i:26154438 original size:114 final size:113
Alignment explanation
Indices: 26154237--26154459 Score: 392
Period size: 114 Copynumber: 2.0 Consensus size: 113
26154227 TATAAACTTC
26154237 AAATACATAAACTGTAACAACCTAATTTTCAGTGGTGTCAAAATAGTGGTTCAAGACCACCAAAA
1 AAATACATAAACTGTAACAACCTAATTTTCAGTGGTGTCAAAATAGTGGTTCAAGACCACCAAAA
26154302 TCTGCCGAGTAAGCTCGTAAATTTTATTATTTAGTATTAACGAGTCAT
66 TCTGCCGAGTAAGCTCGTAAATTTTATTATTTAGTATTAACGAGTCAT
* ** *
26154350 AAATACATAAACTGTAACGACCTAATTTTCAGTGGTGTCAAAAATAGTTTTTCGAGACCACCAAA
1 AAATACATAAACTGTAACAACCTAATTTTCAGTGGTGTC-AAAATAGTGGTTCAAGACCACCAAA
*
26154415 ATCTGGCGAGTAAGCTCGTAAATTTTATTATTTAGTATTAACGAG
65 ATCTGCCGAGTAAGCTCGTAAATTTTATTATTTAGTATTAACGAG
26154460 ACAAATATGG
Statistics
Matches: 104, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
113 38 0.37
114 66 0.63
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (113 bp):
AAATACATAAACTGTAACAACCTAATTTTCAGTGGTGTCAAAATAGTGGTTCAAGACCACCAAAA
TCTGCCGAGTAAGCTCGTAAATTTTATTATTTAGTATTAACGAGTCAT
Found at i:26155681 original size:24 final size:25
Alignment explanation
Indices: 26155626--26155699 Score: 107
Period size: 24 Copynumber: 3.0 Consensus size: 25
26155616 TCATTCTGTG
* *
26155626 GCAAAGGATTAATTGATGATAAAAT
1 GCAAAGGATGAATTGATGGTAAAAT
*
26155651 GCAAAGGATGAATTGATGGT-ATAT
1 GCAAAGGATGAATTGATGGTAAAAT
26155675 GCAAAGGATGAATTGATGG-AAAAT
1 GCAAAGGATGAATTGATGGTAAAAT
26155699 G
1 G
26155700 TATCCAAGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
24 26 0.59
25 18 0.41
ACGTcount: A:0.43, C:0.04, G:0.27, T:0.26
Consensus pattern (25 bp):
GCAAAGGATGAATTGATGGTAAAAT
Found at i:26155808 original size:21 final size:21
Alignment explanation
Indices: 26155749--26155814 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
26155739 TCATGTTTAC
* *
26155749 TTTCTGTTTAGCTCTCATGAG
1 TTTCTGTTTAACTCTTATGAG
*
26155770 CTTT-TG-TTAACTCGTATGAG
1 -TTTCTGTTTAACTCTTATGAG
* *
26155790 TTTCTGTTTAACCCTTATGGG
1 TTTCTGTTTAACTCTTATGAG
26155811 TTTC
1 TTTC
26155815 CATTCAGCTC
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
19 3 0.08
20 13 0.36
21 17 0.47
22 3 0.08
ACGTcount: A:0.15, C:0.18, G:0.18, T:0.48
Consensus pattern (21 bp):
TTTCTGTTTAACTCTTATGAG
Found at i:26168333 original size:14 final size:14
Alignment explanation
Indices: 26168314--26168342 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
26168304 ATGTATGAAG
26168314 TATGCTTAAAATGT
1 TATGCTTAAAATGT
26168328 TATGCTTAAAATGT
1 TATGCTTAAAATGT
26168342 T
1 T
26168343 TAGATGAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (14 bp):
TATGCTTAAAATGT
Found at i:26177927 original size:11 final size:12
Alignment explanation
Indices: 26177901--26177925 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26177891 TAGATTAATT
26177901 AATTGAAAGAAA
1 AATTGAAAGAAA
26177913 AATTGAAAGAAA
1 AATTGAAAGAAA
26177925 A
1 A
26177926 TTATGGTAAT
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:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (12 bp):
AATTGAAAGAAA
Found at i:26181472 original size:7 final size:7
Alignment explanation
Indices: 26181460--26181484 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
26181450 TGATATAAAC
26181460 AAGGGTA
1 AAGGGTA
26181467 AAGGGTA
1 AAGGGTA
26181474 AAGGGTA
1 AAGGGTA
26181481 AAGG
1 AAGG
26181485 CAAGGCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.12
Consensus pattern (7 bp):
AAGGGTA
Found at i:26183854 original size:3 final size:3
Alignment explanation
Indices: 26183846--26183879 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
26183836 GTTGTAAGGT
26183846 TGG TGG TGGG TGG TGG TGG TGG TGG TGG TGG TGG
1 TGG TGG T-GG TGG TGG TGG TGG TGG TGG TGG TGG
26183880 CATAGTGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
TGG
Found at i:26185454 original size:12 final size:12
Alignment explanation
Indices: 26185420--26185458 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
26185410 ATTTATTTAA
*
26185420 AAATAAAATTAT
1 AAATTAAATTAT
*
26185432 AATTATAAATTAT
1 AAAT-TAAATTAT
26185445 AAATTAAATTAT
1 AAATTAAATTAT
26185457 AA
1 AA
26185459 TTATTTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAATTAAATTAT
Found at i:26196375 original size:10 final size:11
Alignment explanation
Indices: 26196354--26196382 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
26196344 AAAACACATA
26196354 TTTTAAATTTT
1 TTTTAAATTTT
26196365 TTTTAAATTTT
1 TTTTAAATTTT
26196376 TTTTAAA
1 TTTTAAA
26196383 AATTATTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTAAATTTT
Found at i:26196517 original size:31 final size:29
Alignment explanation
Indices: 26196444--26196520 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 29
26196434 TTTACCTCTG
*
26196444 GTTACATTTTAGTTACTTATGTTTGAAAT
1 GTTACATTTTAGTCACTTATGTTTGAAAT
*
26196473 GTTACGTTTTAGTCACTTATG-TT-AATAT
1 GTTACATTTTAGTCACTTATGTTTGAA-AT
26196501 GTTGTAACATTTTAGTCACT
1 G-T-T-ACATTTTAGTCACT
26196521 GAGCCATTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 2 0.05
28 5 0.12
29 20 0.49
30 1 0.02
31 13 0.32
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.49
Consensus pattern (29 bp):
GTTACATTTTAGTCACTTATGTTTGAAAT
Found at i:26197225 original size:19 final size:18
Alignment explanation
Indices: 26197203--26197238 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
26197193 AAAGGGTAAG
*
26197203 AAGAAAAGGAAAATAAAGA
1 AAGAAAAAGAAAA-AAAGA
26197222 AAGAAAAAGAAAAAAAG
1 AAGAAAAAGAAAAAAAG
26197239 TTAAATTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (18 bp):
AAGAAAAAGAAAAAAAGA
Found at i:26214167 original size:19 final size:18
Alignment explanation
Indices: 26214145--26214185 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
26214135 TTATATTTTT
*
26214145 AAAAATATTAGTTATTATA
1 AAAAATATTAG-TATGATA
26214164 AAAAATATTAGTATGATA
1 AAAAATATTAGTATGATA
26214182 AAAA
1 AAAA
26214186 TAATTTCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (18 bp):
AAAAATATTAGTATGATA
Found at i:26215432 original size:29 final size:29
Alignment explanation
Indices: 26215399--26215457 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
26215389 TCCACCTTGA
* * *
26215399 CACGAATTCTCAACGAACAAGTTCTTCAC
1 CACGAACTCTCAACAAACAAGTTCTCCAC
*
26215428 CACGAACTCTCAACAAATAAGTTCTCCAC
1 CACGAACTCTCAACAAACAAGTTCTCCAC
26215457 C
1 C
26215458 TCTTCCACGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.36, C:0.34, G:0.08, T:0.22
Consensus pattern (29 bp):
CACGAACTCTCAACAAACAAGTTCTCCAC
Found at i:26219216 original size:125 final size:125
Alignment explanation
Indices: 26218985--26219408 Score: 595
Period size: 125 Copynumber: 3.4 Consensus size: 125
26218975 ACATGGATGG
* * * *
26218985 GAAGAATTTGTGAAATCGCGCCCTCTTGGACGTGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAA
*
26219050 TTTCAAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGATTTATGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGATTTATGA
* * * *
26219110 GAAGAATTTGTTAAATCGCACCCACGTGGACGCGCTTTTGCTACAGTAGGTCCT-GAAAAAATTA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAA
* * * *
26219174 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAT-GCTTCAAGCAAGATGCTATT-TGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTAT--AAAATCGCTTCTACCAGGATGAT-TTATGA
* * * * *
26219235 GAAGAATTTCTGAAATCGCGGCCTCGTGGATGCGCTTTTGCTACAGTTA-GTCTTGGAAGAAATA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG-TAGGTCCTGGAAGAAATA
* *
26219299 ATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGGTTTATGA
65 ATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGATTTATGA
*
26219360 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGATTTTGCTACAGTAG
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAG
26219409 CATGTTTGGG
Statistics
Matches: 259, Mismatches: 32, Indels: 16
0.84 0.10 0.05
Matches are distributed among these distances:
124 47 0.18
125 165 0.64
126 47 0.18
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (125 bp):
GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAA
TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGATTTATGA
Found at i:26222632 original size:25 final size:25
Alignment explanation
Indices: 26222604--26222702 Score: 86
Period size: 25 Copynumber: 4.2 Consensus size: 25
26222594 TCAAAATAAC
26222604 TCAAAAAAATTTCTATTTTATTACA
1 TCAAAAAAATTTCTATTTTATTACA
* *
26222629 TCAAATAAACTTCTATTTTATTACA
1 TCAAAAAAATTTCTATTTTATTACA
* * * * *
26222654 T--AAATAATATC-A---AAATAAA
1 TCAAAAAAATTTCTATTTTATTACA
26222673 TCAAAAAAATTTCTATTTTATTACA
1 TCAAAAAAATTTCTATTTTATTACA
26222698 T-AAAA
1 TCAAAA
26222703 TAATATCAAA
Statistics
Matches: 54, Mismatches: 14, Indels: 13
0.67 0.17 0.16
Matches are distributed among these distances:
19 5 0.09
21 8 0.15
22 2 0.04
23 6 0.11
24 4 0.07
25 29 0.54
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.39
Consensus pattern (25 bp):
TCAAAAAAATTTCTATTTTATTACA
Found at i:26222669 original size:69 final size:70
Alignment explanation
Indices: 26222576--26222705 Score: 235
Period size: 69 Copynumber: 1.9 Consensus size: 70
26222566 TAAGCTCATG
* *
26222576 TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTATTACATCAAATAAACTT
1 TTATTACATCAAATAATATCAAAATAAATCAAAAAAATTTCTATTTTATTACATAAAATAAACTT
26222641 CTATT
66 CTATT
26222646 TTATTACAT-AAATAATATCAAAATAAATCAAAAAAATTTCTATTTTATTACATAAAATAA
1 TTATTACATCAAATAATATCAAAATAAATCAAAAAAATTTCTATTTTATTACATAAAATAA
26222706 TATCAAAATA
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
69 49 0.84
70 9 0.16
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.38
Consensus pattern (70 bp):
TTATTACATCAAATAATATCAAAATAAATCAAAAAAATTTCTATTTTATTACATAAAATAAACTT
CTATT
Found at i:26222691 original size:44 final size:45
Alignment explanation
Indices: 26222628--26222715 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 45
26222618 ATTTTATTAC
*
26222628 ATCAAATAAACTTCTATTTTATTACAT-AAATAATATCAAAATAA
1 ATCAAAAAAACTTCTATTTTATTACATAAAATAATATCAAAATAA
*
26222672 ATCAAAAAAATTTCTATTTTATTACATAAAATAATATCAAAATA
1 ATCAAAAAAACTTCTATTTTATTACATAAAATAATATCAAAATA
26222716 TTCAAAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 25 0.61
45 16 0.39
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.36
Consensus pattern (45 bp):
ATCAAAAAAACTTCTATTTTATTACATAAAATAATATCAAAATAA
Found at i:26225048 original size:51 final size:51
Alignment explanation
Indices: 26224993--26225090 Score: 130
Period size: 51 Copynumber: 1.9 Consensus size: 51
26224983 AATTCTTTAA
26224993 AAATAGGGATTT--AAGAGAAATTT-AAGAAGAACTTGAGAGCAAATTGAAATT
1 AAATAGGGATTTGAAAGA-AAATTTGAAG--GAACTTGAGAGCAAATTGAAATT
* *
26225044 AAATATGGATTTGAAAGAAAATTTGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTGAAAGAAAATTTGAAGGAACTTGAGAGCAAATTGA
26225091 GAGGAAATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
51 29 0.69
52 6 0.14
53 7 0.17
ACGTcount: A:0.48, C:0.03, G:0.22, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTGAAAGAAAATTTGAAGGAACTTGAGAGCAAATTGAAATT
Found at i:26225077 original size:22 final size:23
Alignment explanation
Indices: 26225052--26225102 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
26225042 TTAAATATGG
26225052 ATTTGAAAGAAAATTTGA-AGG-A
1 ATTTGAAAGAAAA-TTGAGAGGAA
* *
26225074 ATTTGAGAGCAAATTGAGAGGAA
1 ATTTGAAAGAAAATTGAGAGGAA
26225097 ATTTGA
1 ATTTGA
26225103 GAGAGGATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.16
22 14 0.56
23 7 0.28
ACGTcount: A:0.45, C:0.02, G:0.25, T:0.27
Consensus pattern (23 bp):
ATTTGAAAGAAAATTGAGAGGAA
Found at i:26225088 original size:12 final size:11
Alignment explanation
Indices: 26225052--26225106 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
26225042 TTAAATATGG
*
26225052 ATTTGAAAGAAA
1 ATTTGAGAG-AA
*
26225064 ATTTGA-AGGA
1 ATTTGAGAGAA
26225074 ATTTGAGAGCAA
1 ATTTGAGAG-AA
26225086 A-TTGAGAGGAA
1 ATTTGAGA-GAA
26225097 ATTTGAGAGA
1 ATTTGAGAGA
26225107 GGATTAGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
10 7 0.19
11 15 0.41
12 15 0.41
ACGTcount: A:0.45, C:0.02, G:0.27, T:0.25
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:26225092 original size:11 final size:12
Alignment explanation
Indices: 26225052--26225105 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
26225042 TTAAATATGG
* *
26225052 ATTTGAAAGAAA
1 ATTTGAGAGCAA
*
26225064 ATTTGA-AG-GA
1 ATTTGAGAGCAA
26225074 ATTTGAGAGCAA
1 ATTTGAGAGCAA
*
26225086 A-TTGAGAGGAA
1 ATTTGAGAGCAA
26225097 ATTTGAGAG
1 ATTTGAGAG
26225106 AGGATTAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 7 0.19
11 14 0.39
12 15 0.42
ACGTcount: A:0.44, C:0.02, G:0.28, T:0.26
Consensus pattern (12 bp):
ATTTGAGAGCAA
Found at i:26225360 original size:42 final size:42
Alignment explanation
Indices: 26225312--26225408 Score: 167
Period size: 42 Copynumber: 2.3 Consensus size: 42
26225302 CGCGCAGACG
26225312 TGGAAGCGATTTCCTGGAACGTCCCCTGACATCCCGCTGACA
1 TGGAAGCGATTTCCTGGAACGTCCCCTGACATCCCGCTGACA
* *
26225354 TGGAAGCGATTTCCTGGAACGTCCCCTGACATCGCGCTGACG
1 TGGAAGCGATTTCCTGGAACGTCCCCTGACATCCCGCTGACA
*
26225396 TGGACGCGATTTC
1 TGGAAGCGATTTC
26225409 AGGGAAAAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.20, C:0.31, G:0.27, T:0.23
Consensus pattern (42 bp):
TGGAAGCGATTTCCTGGAACGTCCCCTGACATCCCGCTGACA
Found at i:26227376 original size:27 final size:27
Alignment explanation
Indices: 26227297--26227376 Score: 117
Period size: 27 Copynumber: 2.9 Consensus size: 27
26227287 GGCCAATCAC
*
26227297 ATTGGCGGCACCAAAT-GTGCCAAAATTG
1 ATTGGCGGCACC-AATGGTGCC-AAAGTG
*
26227325 ATTGGTGGCACCAATGGTGCCAAAGTG
1 ATTGGCGGCACCAATGGTGCCAAAGTG
26227352 ATTGGCGGCACCAATGGTGCCAAAG
1 ATTGGCGGCACCAATGGTGCCAAAG
26227377 GACTAAAATG
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
27 32 0.67
28 16 0.33
ACGTcount: A:0.29, C:0.21, G:0.30, T:0.20
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAGTG
Found at i:26227418 original size:18 final size:19
Alignment explanation
Indices: 26227395--26227441 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
26227385 TGTGGCTAAT
* *
26227395 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
26227413 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
26227432 TTAAAT-AAAA
1 TTAAATGAAAA
26227442 AAATGAGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:26227449 original size:20 final size:19
Alignment explanation
Indices: 26227410--26227450 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
26227400 TGAGAATAGT
* *
26227410 TTATTAAATTAAAATAGAG
1 TTATTAAATAAAAAAAGAG
26227429 TTATTAAATAAAAAAATGAG
1 TTATTAAATAAAAAAA-GAG
26227449 TT
1 TT
26227451 GAAGGGGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (19 bp):
TTATTAAATAAAAAAAGAG
Found at i:26227635 original size:19 final size:19
Alignment explanation
Indices: 26227613--26227673 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
26227603 GAATTCTCTC
26227613 ATTTAATAACTCTATTTTA
1 ATTTAATAACTCTATTTTA
* *
26227632 ATTTAATAA-ACTA-TTAA
1 ATTTAATAACTCTATTTTA
26227649 GTATTTAATAACTCTATTTTA
1 --ATTTAATAACTCTATTTTA
26227670 ATTT
1 ATTT
26227674 TAAAAAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 3 0.09
18 3 0.09
19 22 0.65
20 3 0.09
21 3 0.09
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (19 bp):
ATTTAATAACTCTATTTTA
Found at i:26227655 original size:38 final size:36
Alignment explanation
Indices: 26227613--26227689 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 36
26227603 GAATTCTCTC
26227613 ATTTAATAACTCTATTTTAA-TTTAATAAACTATTAAGT
1 ATTTAATAACTCTATTTTAATTTTAA-AAA--ATTAAGT
26227651 ATTTAATAACTCTATTTTAATTTTAAAAAATTAAGT
1 ATTTAATAACTCTATTTTAATTTTAAAAAATTAAGT
26227687 ATT
1 ATT
26227690 ACTTAATAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
36 10 0.26
38 23 0.61
39 5 0.13
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (36 bp):
ATTTAATAACTCTATTTTAATTTTAAAAAATTAAGT
Found at i:26227742 original size:18 final size:19
Alignment explanation
Indices: 26227694--26227761 Score: 95
Period size: 19 Copynumber: 3.7 Consensus size: 19
26227684 AGTATTACTT
26227694 AATAG-TTTATTAAATTAA
1 AATAGATTTATTAAATTAA
* * *
26227712 AATAGAGTTATTAAATGAG
1 AATAGATTTATTAAATTAA
26227731 AATAG-TTTATTAAATTAA
1 AATAGATTTATTAAATTAA
26227749 AATAGATTTATTA
1 AATAGATTTATTA
26227762 GATAAAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
18 20 0.48
19 22 0.52
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (19 bp):
AATAGATTTATTAAATTAA
Found at i:26228027 original size:37 final size:37
Alignment explanation
Indices: 26227985--26228055 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
26227975 AGTATTACTT
26227985 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
26228022 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
26228056 AAAAAAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.39
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:26228060 original size:19 final size:19
Alignment explanation
Indices: 26227991--26228059 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
26227981 ACTTAATAGT
26227991 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
26228010 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
26228028 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
26228047 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
26228060 AAATGAGTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 20 0.47
19 23 0.53
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:26228221 original size:27 final size:27
Alignment explanation
Indices: 26228138--26228212 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 27
26228128 TTAGTCCTTC
* *
26228138 GGCACCTTTGTTGCCGCCAATCACTTT
1 GGCACCTTTGATGCCGCCAATCTCTTT
* *
26228165 GGCACCATTGATGCCACCAATCTCTTT
1 GGCACCTTTGATGCCGCCAATCTCTTT
*
26228192 GGCACCTTTGGTGCCGCCAAT
1 GGCACCTTTGATGCCGCCAAT
26228213 GTGATTGGCC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.17, C:0.33, G:0.20, T:0.29
Consensus pattern (27 bp):
GGCACCTTTGATGCCGCCAATCTCTTT
Found at i:26228768 original size:24 final size:25
Alignment explanation
Indices: 26228711--26228768 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 25
26228701 TGCTAAGTTA
* *
26228711 TAAT-TATTTTAGCGTTATTTATTT
1 TAATATATTTTAGCGTTATTTAATG
*
26228735 TAATAT-TTTTAGTG-TATTTAATG
1 TAATATATTTTAGCGTTATTTAATG
*
26228758 TATTATATTTT
1 TAATATATTTT
26228769 TTAAATTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 12 0.43
24 15 0.54
25 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.62
Consensus pattern (25 bp):
TAATATATTTTAGCGTTATTTAATG
Found at i:26229092 original size:24 final size:23
Alignment explanation
Indices: 26229052--26229097 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
26229042 AACATACCCA
*
26229052 CATATTTATAATAATAAATAATAT
1 CATATTTACAATAATAAA-AATAT
26229076 CATATTCTACAAT-ATAAAAATA
1 CATATT-TACAATAATAAAAATA
26229098 ATGGAAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 11 0.55
25 5 0.25
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (23 bp):
CATATTTACAATAATAAAAATAT
Found at i:26230009 original size:18 final size:18
Alignment explanation
Indices: 26229968--26230009 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
26229958 TATATTATTT
*
26229968 TTAAATATATATAATACA
1 TTAAAAATATATAATACA
*
26229986 TCAAAAATACTATAA-ACA
1 TTAAAAATA-TATAATACA
26230004 TTAAAA
1 TTAAAA
26230010 TAAATATTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (18 bp):
TTAAAAATATATAATACA
Found at i:26233022 original size:20 final size:20
Alignment explanation
Indices: 26232999--26233037 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26232989 AAATTTGGAA
* *
26232999 TTTAATCTTTTTATTTTTAT
1 TTTAATCTCTCTATTTTTAT
26233019 TTTAATCTCTCTATTTTTA
1 TTTAATCTCTCTATTTTTA
26233038 AGAAATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTAATCTCTCTATTTTTAT
Found at i:26235985 original size:3 final size:3
Alignment explanation
Indices: 26235977--26236052 Score: 143
Period size: 3 Copynumber: 25.3 Consensus size: 3
26235967 TTTAGACAGT
*
26235977 AGA AGA AGA TGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
26236025 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
26236053 ATGGAGATGT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (3 bp):
AGA
Found at i:26238854 original size:20 final size:20
Alignment explanation
Indices: 26238829--26238869 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
26238819 ACTTAATGCT
26238829 CTTGCAAATAAAAAAACAAA
1 CTTGCAAATAAAAAAACAAA
26238849 CTTGCAAATAAAAAAACAAA
1 CTTGCAAATAAAAAAACAAA
26238869 C
1 C
26238870 ATAAACCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.63, C:0.17, G:0.05, T:0.15
Consensus pattern (20 bp):
CTTGCAAATAAAAAAACAAA
Found at i:26243218 original size:37 final size:37
Alignment explanation
Indices: 26243168--26243246 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
26243158 TTATTACGAA
* * *
26243168 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
26243205 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
26243242 GTCTT
1 GTCTT
26243247 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:26243444 original size:48 final size:47
Alignment explanation
Indices: 26243363--26243673 Score: 465
Period size: 47 Copynumber: 6.6 Consensus size: 47
26243353 GCCCTTCGGG
*
26243363 ACTTATCACATTCATCACATCGGCCATTA-GCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
26243412 ACTTTCACATTCATCACATC-GCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
26243460 ACTTTCACATTCATCACATC-GCCATTAGGCCTTATCAC-TATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
26243505 ACTTTCACATTCATCACA-CGGCCATTAAGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
26243551 ACTTTCACATATAATTCACA-C-GCCATTAGGCATTATCACATATATAC
1 ACTTTCACAT-TCA-TCACATCGGCCATTAGGCCTTATCACATATATAC
26243598 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
26243645 ACTTTCACATTCATCACATCGGCCATTAG
1 ACTTTCACATTCATCACATCGGCCATTAG
26243674 CCATACTATC
Statistics
Matches: 248, Mismatches: 7, Indels: 16
0.92 0.03 0.06
Matches are distributed among these distances:
44 1 0.00
45 47 0.19
46 20 0.08
47 97 0.39
48 79 0.32
49 4 0.02
ACGTcount: A:0.32, C:0.30, G:0.07, T:0.32
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:26243521 original size:93 final size:94
Alignment explanation
Indices: 26243363--26243673 Score: 465
Period size: 93 Copynumber: 3.3 Consensus size: 94
26243353 GCCCTTCGGG
*
26243363 ACTTATCACATTCATCACATCGGCCATTA-GCCCTATCACATATATATACACTTTCACATTCATC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATC
*
26243427 ACATC-GCCATTAGGCCCTATCACATATATATAC
63 ACATCGGCCATTAGGCCTTATCAC--ATATATAC
26243460 ACTTTCACATTCATCACATC-GCCATTAGGCCTTATCAC-TATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
26243523 -CGGCCATTAAGCCTTATCACATATATAC
66 TCGGCCATTAGGCCTTATCACATATATAC
* *
26243551 ACTTTCACATATAATTCACA-C-GCCATTAGGCATTATCACATATATACACTTTCACATTCATCA
1 ACTTTCACAT-TCA-TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
26243614 CATCGGCCATTAGGCCTTATCACATATATAC
64 CATCGGCCATTAGGCCTTATCACATATATAC
26243645 ACTTTCACATTCATCACATCGGCCATTAG
1 ACTTTCACATTCATCACATCGGCCATTAG
26243674 CCATACTATC
Statistics
Matches: 199, Mismatches: 7, Indels: 19
0.88 0.03 0.08
Matches are distributed among these distances:
91 18 0.09
92 26 0.13
93 74 0.37
94 45 0.23
95 7 0.04
96 25 0.13
97 4 0.02
ACGTcount: A:0.32, C:0.30, G:0.07, T:0.32
Consensus pattern (94 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATAC
Found at i:26247368 original size:41 final size:40
Alignment explanation
Indices: 26247261--26247395 Score: 152
Period size: 43 Copynumber: 3.4 Consensus size: 40
26247251 AATGCTCCTC
* * * *
26247261 GACTTAGCCCGGATATTCACTA-CGTGAATGTTCTTTTCGCG
1 GACTTAGCCCGGATACTCACTAGCATGAAT-TGCTCTTCG-G
26247302 GAACTTAGCCCCGGATACTCACTAGCATGAATTGCTCTTCGG
1 G-ACTTAG-CCCGGATACTCACTAGCATGAATTGCTCTTCGG
*
26247344 GACTTAGCCCGGATACATCGCTAGCATGAA-TGCTCTTC-G
1 GACTTAGCCCGGATAC-TCACTAGCATGAATTGCTCTTCGG
26247383 GAC-TAGCCCGGAT
1 GACTTAGCCCGGAT
26247396 TTAGTAACTC
Statistics
Matches: 85, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
38 10 0.12
39 4 0.05
40 17 0.20
41 19 0.22
42 8 0.09
43 21 0.25
44 6 0.07
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
GACTTAGCCCGGATACTCACTAGCATGAATTGCTCTTCGG
Found at i:26247378 original size:40 final size:39
Alignment explanation
Indices: 26247140--26247395 Score: 163
Period size: 38 Copynumber: 6.4 Consensus size: 39
26247130 ATACTTCTCG
* * * * *
26247140 GGAC-TAGCCCGGATATAACACCAGCACGAATGCTCTTT
1 GGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTC
* * *
26247178 GG--TTAGCACGGATATATCACCTAAGCACGAAGTGCTCTGTC
1 GGACTTAGCCCGGATACATCA-CT-AGCATGAA-TGCTCT-TC
* *
26247219 GGAACACTTAG-CCGGATACATCAAC-ATGCACGAATGCTCCTC
1 GG---ACTTAGCCCGGATACATC-ACTA-GCATGAATGCTCTTC
* * *
26247261 -GACTTAGCCCGGATA-TTCACTA-CGTGAATGTTCTTTTCGC
1 GGACTTAGCCCGGATACATCACTAGCATGAATG--CTCTT--C
26247301 GGAACTTAGCCCCGGATAC-TCACTAGCATGAATTGCTCTTC
1 GG-ACTTAG-CCCGGATACATCACTAGCATGAA-TGCTCTTC
*
26247342 GGGACTTAGCCCGGATACATCGCTAGCATGAATGCTCTTC
1 -GGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTC
26247382 GGAC-TAGCCCGGAT
1 GGACTTAGCCCGGAT
26247396 TTAGTAACTC
Statistics
Matches: 177, Mismatches: 15, Indels: 52
0.73 0.06 0.21
Matches are distributed among these distances:
36 6 0.03
37 16 0.09
38 25 0.14
39 19 0.11
40 24 0.14
41 24 0.14
42 10 0.06
43 24 0.14
44 12 0.07
45 12 0.07
46 5 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
GGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTC
Found at i:26247894 original size:43 final size:43
Alignment explanation
Indices: 26247845--26247930 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
26247835 ATTTGTTCTT
26247845 CAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGC
1 CAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGC
26247888 CAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGC
1 CAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGC
26247931 TGAAAACCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.28, C:0.35, G:0.14, T:0.23
Consensus pattern (43 bp):
CAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGC
Found at i:26249843 original size:37 final size:37
Alignment explanation
Indices: 26249793--26249871 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
26249783 TTATTACGAA
* * *
26249793 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
26249830 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
26249867 GTCTT
1 GTCTT
26249872 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:26250137 original size:47 final size:47
Alignment explanation
Indices: 26249989--26250300 Score: 594
Period size: 47 Copynumber: 6.7 Consensus size: 47
26249979 GCCCTTCGGG
26249989 ACTTATCACATTCATCACATCGGCCATTAGGCC-TATCACATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
26250036 ACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
26250082 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
26250129 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
26250176 ACTTTCACATTCATCACATCGGCCATTAGG-CTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
26250222 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
26250269 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
26250301 ATACTATCAT
Statistics
Matches: 263, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
46 120 0.46
47 143 0.54
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:26250152 original size:93 final size:94
Alignment explanation
Indices: 26249989--26250300 Score: 594
Period size: 93 Copynumber: 3.3 Consensus size: 94
26249979 GCCCTTCGGG
26249989 ACTTATCACATTCATCACATCGGCCATTAGGCC-TATCACATATATACACTTTCACATTCATCAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
26250053 ATCGGCCATTAGGCC-TATCACATATATAC
65 ATCGGCCATTAGGCCTTATCACATATATAC
26250082 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
26250147 TCGGCCATTAGGCCTTATCACATATATAC
66 TCGGCCATTAGGCCTTATCACATATATAC
26250176 ACTTTCACATTCATCACATCGGCCATTAGG-CTTATCACATATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
26250240 TCGGCCATTAGGCCTTATCACATATATAC
66 TCGGCCATTAGGCCTTATCACATATATAC
26250269 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
26250301 ATACTATCAT
Statistics
Matches: 216, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
92 28 0.13
93 143 0.66
94 45 0.21
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (94 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATAC
Found at i:26250245 original size:140 final size:139
Alignment explanation
Indices: 26249989--26250300 Score: 597
Period size: 140 Copynumber: 2.2 Consensus size: 139
26249979 GCCCTTCGGG
26249989 ACTTATCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACTTTCACATTCATCACA
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACTTTCACATTCATCACA
26250054 TCGGCCATTAGGCCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
65 TCGGCCATTAGGCCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
26250119 ACATATATAC
130 ACATATATAC
26250129 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATACACTTTCACATTCATCACA
*
26250194 TCGGCCATTAGGCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
65 TCGGCCATTAGGCCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
26250259 ACATATATAC
130 ACATATATAC
26250269 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
26250301 ATACTATCAT
Statistics
Matches: 170, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
139 28 0.16
140 142 0.84
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (139 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
CATATATAC
Found at i:26254104 original size:40 final size:40
Alignment explanation
Indices: 26253824--26254163 Score: 393
Period size: 40 Copynumber: 8.5 Consensus size: 40
26253814 AGCATGATTA
* * *
26253824 CTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* ** *
26253864 CTCTTTGGGGTTTAGCACGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
26253904 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
26253944 CTCCTCGGGACTTAGCCCGGATATATCACTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* * *
26253984 CTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* * *
26254024 CTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* * * *
26254064 CTCTTCGGGACTTAG-CCGGATTTAGTAACTCGCACCAATG
1 CTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAATG
* * *
26254104 C-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AAAG
1 CTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAATG
26254144 C-CTTCGGGACTTAGCCCGGA
1 CTCTTCGGGACTTAGCCCGGA
26254164 CATCATTCGA
Statistics
Matches: 259, Mismatches: 35, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
38 3 0.01
39 16 0.06
40 232 0.90
41 8 0.03
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
Found at i:26254508 original size:29 final size:29
Alignment explanation
Indices: 26254469--26254547 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
26254459 CTTAATAATC
*
26254469 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
26254499 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
26254528 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
26254548 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:26254631 original size:43 final size:43
Alignment explanation
Indices: 26254529--26254671 Score: 265
Period size: 43 Copynumber: 3.4 Consensus size: 43
26254519 TGCATTTCAA
26254529 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTA-T
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
26254571 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
26254614 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
26254657 GCCCG--CACTTAGTGC
1 GCCCGCACACTTAGTGC
26254672 TGAAAACCAA
Statistics
Matches: 100, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
41 10 0.10
42 41 0.41
43 49 0.49
ACGTcount: A:0.27, C:0.36, G:0.15, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:26256587 original size:37 final size:37
Alignment explanation
Indices: 26256537--26256615 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
26256527 TTATTACGAA
* * *
26256537 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
26256574 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
26256611 GTCTT
1 GTCTT
26256616 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:26256892 original size:47 final size:47
Alignment explanation
Indices: 26256733--26257144 Score: 763
Period size: 47 Copynumber: 8.7 Consensus size: 47
26256723 GCCCTTCGGG
*
26256733 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
26256783 ACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
26256831 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
26256878 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
26256925 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
26256972 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
26257019 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
26257066 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
26257113 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
26257145 ATACTATCAT
Statistics
Matches: 361, Mismatches: 0, Indels: 5
0.99 0.00 0.01
Matches are distributed among these distances:
47 275 0.76
48 48 0.13
49 34 0.09
50 4 0.01
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:26261220 original size:24 final size:24
Alignment explanation
Indices: 26261174--26261223 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
26261164 TTATCAATGA
26261174 TATTTAAAAATAATAAAAAATAAAT
1 TATTTAAAAAT-ATAAAAAATAAAT
*
26261199 TATTTAAAAAT-TAAATACATAAAT
1 TATTTAAAAATATAAA-AAATAAAT
26261223 T
1 T
26261224 TACATGCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 8 0.35
25 11 0.48
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
TATTTAAAAATATAAAAAATAAAT
Found at i:26275175 original size:62 final size:62
Alignment explanation
Indices: 26275076--26275244 Score: 211
Period size: 62 Copynumber: 2.7 Consensus size: 62
26275066 ATCAGTGCAG
* * *
26275076 AGACCACA-GATCCAGGGACACAGG-GTGTGCCCAGGCCGTGTAACTCA-TTGTTTGTGGTATA
1 AGACCACACGA-CCAGGGACACGGGCGTGTGTCCAGGCCGTGTAACTCACTT-TTTGTGGTACA
*
26275137 AGACCACACGACCAGAGACACGGGCGTGTGTCCAGGCCGTGTAACTCACTTTTTGTGGTACA
1 AGACCACACGACCAGGGACACGGGCGTGTGTCCAGGCCGTGTAACTCACTTTTTGTGGTACA
* * * *
26275199 AGATCACACAGA-TAGGGACACGGGCATGTGTCCAGGCTGTGTAACT
1 AGACCACAC-GACCAGGGACACGGGCGTGTGTCCAGGCCGTGTAACT
26275245 TACTGTTTAT
Statistics
Matches: 95, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
61 19 0.20
62 72 0.76
63 4 0.04
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.21
Consensus pattern (62 bp):
AGACCACACGACCAGGGACACGGGCGTGTGTCCAGGCCGTGTAACTCACTTTTTGTGGTACA
Found at i:26275269 original size:62 final size:62
Alignment explanation
Indices: 26275080--26275269 Score: 170
Period size: 62 Copynumber: 3.0 Consensus size: 62
26275070 GTGCAGAGAC
* * * * * *
26275080 CACAGATCCAGGGACACAGGG--TGTGCCCAGGCCGTGTAACTCATTGTTTGTGGTATAAGACCA
1 CACAGAT--AGGGACAC-GGGCATGTGTCCAGGCCGTGTAACTCACTGTTTATGCTACAAAACCA
* * * * * * * *
26275143 CAC-GACCAGAGACACGGGCGTGTGTCCAGGCCGTGTAACTCACTTTTTGTGGTACAAGATCA
1 CACAGA-TAGGGACACGGGCATGTGTCCAGGCCGTGTAACTCACTGTTTATGCTACAAAACCA
* * *
26275205 CACAGATAGGGACACGGGCATGTGTCCAGGCTGTGTAACTTACTGTTTATGCTTCAAAACCA
1 CACAGATAGGGACACGGGCATGTGTCCAGGCCGTGTAACTCACTGTTTATGCTACAAAACCA
26275267 CAC
1 CAC
26275270 GGGTAAGACA
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
60 3 0.03
61 7 0.07
62 90 0.86
63 5 0.05
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (62 bp):
CACAGATAGGGACACGGGCATGTGTCCAGGCCGTGTAACTCACTGTTTATGCTACAAAACCA
Found at i:26276437 original size:26 final size:26
Alignment explanation
Indices: 26276408--26276508 Score: 111
Period size: 26 Copynumber: 3.9 Consensus size: 26
26276398 GGATTCACGA
26276408 ATGGTTAGACAAGAATAAATTCATAG
1 ATGGTTAGACAAGAATAAATTCATAG
* * *
26276434 ATGGTCATTATAAAAGATATGAA---ATAG
1 ATGG---TTAGACAAGA-ATAAATTCATAG
26276461 A-GGTTAGACAAGAATAAATTCATAG
1 ATGGTTAGACAAGAATAAATTCATAG
26276486 ATGGTTAGACAAGAATAAATTCA
1 ATGGTTAGACAAGAATAAATTCA
26276509 CGAAATAGAG
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
22 4 0.07
23 8 0.13
25 5 0.08
26 27 0.44
27 5 0.08
29 8 0.13
30 4 0.07
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.27
Consensus pattern (26 bp):
ATGGTTAGACAAGAATAAATTCATAG
Found at i:26297323 original size:41 final size:41
Alignment explanation
Indices: 26297278--26297436 Score: 203
Period size: 41 Copynumber: 3.9 Consensus size: 41
26297268 ATCTCCGAGT
* * * *
26297278 ATTAGCGGCGCTTTTTTAGAAACGCCTCTAAAACCTTGAGC
1 ATTAGCGGCGCTTTTTAAAAAACGCCTCTAAAACCCTAAGC
* * * *
26297319 ATTAGCGGTGCTTTTTTAAAAATG-CTGCTAAAGCCCTAAGC
1 ATTAGCGGCGCTTTTTAAAAAACGCCT-CTAAAACCCTAAGC
* *
26297360 ATTAGCGGCGCTTGTTAAAAAACGCCGCTAAAACCCTAAGC
1 ATTAGCGGCGCTTTTTAAAAAACGCCTCTAAAACCCTAAGC
*
26297401 ATTAGCGGCGCTTTTTAAAAAACGCCACTAAAACCC
1 ATTAGCGGCGCTTTTTAAAAAACGCCTCTAAAACCC
26297437 ACGAAAACTA
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
40 2 0.02
41 99 0.97
42 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTAAAAAACGCCTCTAAAACCCTAAGC
Found at i:26297324 original size:82 final size:81
Alignment explanation
Indices: 26297230--26297421 Score: 217
Period size: 82 Copynumber: 2.3 Consensus size: 81
26297220 CCACTATTGG
* * * * *
26297230 CCTGAGCATTAGCTGCGTTTCTTTAAAAATGCCGGTAAATCTCC-GAGTATTAGCGGCGCTTTTT
1 CCTGAGCATTAGCTGCGTTT-TTTAAAAATGCCGCTAAAGC-CCTAAGCATTAGCGGCGCTTGTT
* * *
26297294 TAGAAACGCCTCTAAAAC
64 AAAAAACGCCGCTAAAAC
* *
26297312 CTTGAGCATTAGCGGTGC-TTTTTTAAAAATGCTGCTAAAGCCCTAAGCATTAGCGGCGCTTGTT
1 CCTGAGCATTAGC--TGCGTTTTTTAAAAATGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTGTT
26297376 AAAAAACGCCGCTAAAAC
64 AAAAAACGCCGCTAAAAC
* * *
26297394 CCTAAGCATTAGCGGCGCTTTTTAAAAA
1 CCTGAGCATTAGCTGCGTTTTTTAAAAA
26297422 ACGCCACTAA
Statistics
Matches: 92, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
80 2 0.02
81 12 0.13
82 72 0.78
83 3 0.03
84 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (81 bp):
CCTGAGCATTAGCTGCGTTTTTTAAAAATGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTGTTAA
AAAACGCCGCTAAAAC
Found at i:26297539 original size:39 final size:39
Alignment explanation
Indices: 26297491--26297606 Score: 108
Period size: 40 Copynumber: 2.9 Consensus size: 39
26297481 GCACTTTTTG
* *
26297491 AAAAA-CGCCGCTAATGCTCATTTTTAGCGGTGTTTTCC
1 AAAAAGCGCCGCTAATACTCATTTTTAGCGGCGTTTTCC
* * **
26297529 AAAAAGCGCCGCTAATACTCAATCTTTAGTGGCGTTTTTT
1 AAAAAGCGCCGCTAATACTC-ATTTTTAGCGGCGTTTTCC
* * * * *
26297569 TAAAAGCGCTGCTAATTCTTGATTTTTAGCGGCATTTT
1 AAAAAGCGCCGCTAATAC-TCATTTTTAGCGGCGTTTT
26297607 TTTTTATCAA
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
38 5 0.08
39 13 0.21
40 43 0.69
41 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (39 bp):
AAAAAGCGCCGCTAATACTCATTTTTAGCGGCGTTTTCC
Found at i:26297597 original size:40 final size:40
Alignment explanation
Indices: 26297478--26297609 Score: 104
Period size: 40 Copynumber: 3.3 Consensus size: 40
26297468 TAAGTTTTTT
* * * * *
26297478 GCGGCACTTTTTGAAAAACGCCGCTAATGCTC-ATTTTTA
1 GCGGCATTTTTTTAAAAGCGCCGCTAATACTCAATCTTTA
** ***
26297517 GCGGTGTTTTCCAAAAAGCGCCGCTAATACTCAATCTTTA
1 GCGGCATTTTTTTAAAAGCGCCGCTAATACTCAATCTTTA
* * * * ** *
26297557 GTGGCGTTTTTTTAAAAGCGCTGCTAATTCTTGATTTTTA
1 GCGGCATTTTTTTAAAAGCGCCGCTAATACTCAATCTTTA
26297597 GCGGCATTTTTTT
1 GCGGCATTTTTTT
26297610 TTATCAAAAT
Statistics
Matches: 71, Mismatches: 21, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
39 24 0.34
40 47 0.66
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.39
Consensus pattern (40 bp):
GCGGCATTTTTTTAAAAGCGCCGCTAATACTCAATCTTTA
Found at i:26300864 original size:20 final size:20
Alignment explanation
Indices: 26300826--26300869 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
26300816 GTTTATTTTC
*
26300826 TTTAAATTAAGAGTTATTT-
1 TTTAAATTAAGAATTATTTA
*
26300845 TTTAAATTCATGAATTATTTA
1 TTTAAATT-AAGAATTATTTA
26300866 TTTA
1 TTTA
26300870 TTTTATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.38
20 9 0.43
21 4 0.19
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (20 bp):
TTTAAATTAAGAATTATTTA
Found at i:26304107 original size:20 final size:20
Alignment explanation
Indices: 26304077--26304114 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26304067 TTGAAAAGAA
26304077 AACTCAAAGAGAA-TTTATT
1 AACTCAAAGAGAAGTTTATT
26304096 AACTCAAAAGAGAAGTTTA
1 AACTC-AAAGAGAAGTTTA
26304115 ATATTAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 8 0.47
21 4 0.24
ACGTcount: A:0.50, C:0.11, G:0.13, T:0.26
Consensus pattern (20 bp):
AACTCAAAGAGAAGTTTATT
Found at i:26305046 original size:14 final size:14
Alignment explanation
Indices: 26305029--26305081 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
26305019 TGATATAGAG
*
26305029 ATACATATACAAAT
1 ATACAGATACAAAT
*
26305043 ATACGGATACAAAT
1 ATACAGATACAAAT
*
26305057 ATATAGATACAGAA-
1 ATACAGATACA-AAT
*
26305071 ATATAGATACA
1 ATACAGATACA
26305082 GATACTCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 32 0.94
15 2 0.06
ACGTcount: A:0.55, C:0.11, G:0.09, T:0.25
Consensus pattern (14 bp):
ATACAGATACAAAT
Found at i:26305082 original size:14 final size:15
Alignment explanation
Indices: 26305035--26305083 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 15
26305025 AGAGATACAT
**
26305035 ATACA-AATATACGG
1 ATACAGAATATATAG
26305049 ATACA-AATATATAG
1 ATACAGAATATATAG
26305063 ATACAGAA-ATATAG
1 ATACAGAATATATAG
26305077 ATACAGA
1 ATACAGA
26305084 TACTCATACA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 30 0.94
15 2 0.06
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.22
Consensus pattern (15 bp):
ATACAGAATATATAG
Found at i:26305995 original size:6 final size:6
Alignment explanation
Indices: 26305975--26306011 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
26305965 GGGAAGAGAG
*
26305975 AAAAAT TAAAA- AAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA
26306012 CCAATTTCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:26306007 original size:18 final size:17
Alignment explanation
Indices: 26305975--26306011 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
26305965 GGGAAGAGAG
*
26305975 AAAAATTAAAAAAAAAT
1 AAAAATAAAAAAAAAAT
26305992 AAAAATAAAAATAAAAAT
1 AAAAATAAAAA-AAAAAT
26306010 AA
1 AA
26306012 CCAATTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAAATAAAAAAAAAAT
Found at i:26309648 original size:27 final size:26
Alignment explanation
Indices: 26309618--26309680 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 26
26309608 AGGGCTAAAA
*
26309618 TGGTAATTTTACCC-CATAGGGGTATTT
1 TGGTCATTTTACCCTCA-A-GGGTATTT
26309645 TGGTCATTTTACCCTTCAAGGGTATTT
1 TGGTCATTTTACCC-TCAAGGGTATTT
26309672 TGGTCATTT
1 TGGTCATTT
26309681 AAAAACCTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
27 30 0.91
28 1 0.03
29 2 0.06
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (26 bp):
TGGTCATTTTACCCTCAAGGGTATTT
Found at i:26314710 original size:56 final size:56
Alignment explanation
Indices: 26314624--26314799 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
26314614 ACAAGGGATG
26314624 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
26314680 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
26314736 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
26314792 ATGGGCAA
1 ATGGGCAA
26314800 TAAACTAATA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:26316079 original size:40 final size:40
Alignment explanation
Indices: 26315927--26316072 Score: 152
Period size: 40 Copynumber: 3.6 Consensus size: 40
26315917 TCGAATGATG
* * * * *
26315927 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
26315967 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
26316007 TCTGGGTTAAGTCCAGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTA-AA
*
26316048 -CCGGGCTATGACCCGAAGGCATTTG
1 TCCGGGCTAAGACCCGAAGGCATTTG
26316073 AACGAGTAGC
Statistics
Matches: 86, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
40 77 0.90
41 9 0.10
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:26321925 original size:56 final size:56
Alignment explanation
Indices: 26321839--26322011 Score: 316
Period size: 56 Copynumber: 3.1 Consensus size: 56
26321829 ACAAGGGATG
26321839 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
26321895 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGG-AAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
26321950 ATGGGC-AAA-ATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
26322004 ATGGGCAA
1 ATGGGCAA
26322012 TAAACTAATA
Statistics
Matches: 114, Mismatches: 1, Indels: 5
0.95 0.01 0.04
Matches are distributed among these distances:
53 27 0.24
54 25 0.22
55 24 0.21
56 38 0.33
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:26323274 original size:79 final size:81
Alignment explanation
Indices: 26323138--26323322 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
26323128 TCGAATGATG
*
26323138 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
26323202 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
26323217 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
26323279 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
26323297 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
26323323 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:26323336 original size:40 final size:40
Alignment explanation
Indices: 26323139--26323322 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
26323129 CGAATGATGT
* * * *
26323139 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
26323179 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
26323219 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
26323257 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
26323298 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
26323323 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:26323344 original size:79 final size:79
Alignment explanation
Indices: 26323191--26323355 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
26323181 GGACTAAGAT
* **
26323191 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
26323256 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
26323270 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
26323333 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
26323349 CCGAAGG
1 CCGAAGG
26323356 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:26339426 original size:27 final size:26
Alignment explanation
Indices: 26339240--26339439 Score: 193
Period size: 27 Copynumber: 7.4 Consensus size: 26
26339230 GGGTATAACA
* *
26339240 GTCATTTTACCCTATAGGGGTACTTCT
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
26339267 GTCGTTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATG-GGGTATTTCG
*
26339294 GTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* * *
26339321 ATCATTCTACCTTATGGGAGTATTTCG
1 GTCATTTTACCCTATGGG-GTATTTCG
* *
26339348 GTCATTCTACTCTATGGGGCTATTTCG
1 GTCATTTTACCCTATGGGG-TATTTCG
* ** *
26339375 GTCATTCTATTCTATGGCGGTATTTCA
1 GTCATTTTACCCTATGG-GGTATTTCG
* *
26339402 GTCATTTTACCCTATGGGGACATTTTG
1 GTCATTTTACCCTATGGGG-TATTTCG
*
26339429 GTCCTTTTACC
1 GTCATTTTACC
26339440 TACTATTTTG
Statistics
Matches: 146, Mismatches: 21, Indels: 12
0.82 0.12 0.07
Matches are distributed among these distances:
26 7 0.05
27 136 0.93
28 3 0.02
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.42
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGTATTTCG
Found at i:26356158 original size:50 final size:50
Alignment explanation
Indices: 26356083--26356275 Score: 251
Period size: 50 Copynumber: 3.8 Consensus size: 50
26356073 ATTTGGGTAA
*
26356083 AGAGGTCCCATGTAAAACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** *
26356133 AGAGGTCCCGTGTAAGACCATGTCTGGGACATGGTGTTGGCAGCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
26356183 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGACATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
26356233 AGAACATCCCATGTAAGACCATGTCTGGAACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
26356276 TGTTATTATT
Statistics
Matches: 121, Mismatches: 21, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
50 89 0.74
51 32 0.26
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:26358291 original size:8 final size:7
Alignment explanation
Indices: 26358256--26358347 Score: 62
Period size: 7 Copynumber: 12.4 Consensus size: 7
26358246 TTTACCCTCT
26358256 TTTATTA
1 TTTATTA
*
26358263 -TTAATA
1 TTTATTA
26358269 TTTATTA
1 TTTATTA
*
26358276 TTCCATTA
1 TT-TATTA
26358284 CTTTATTA
1 -TTTATTA
26358292 TTT-TTA
1 TTTATTA
*
26358298 TTTTATTT
1 -TTTATTA
26358306 TTTGATTA
1 TTT-ATTA
26358314 TTTATTTA
1 TTTA-TTA
*
26358322 TTTATTC
1 TTTATTA
*
26358329 CTTATTA
1 TTTATTA
26358336 CTATTATTA
1 -T-TTATTA
26358345 TTT
1 TTT
26358348 TATGCTTTGT
Statistics
Matches: 66, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
6 8 0.12
7 26 0.39
8 24 0.36
9 8 0.12
ACGTcount: A:0.25, C:0.07, G:0.01, T:0.67
Consensus pattern (7 bp):
TTTATTA
Found at i:26358600 original size:17 final size:17
Alignment explanation
Indices: 26358578--26358612 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
26358568 TAGGGTTTTA
*
26358578 TTTATTATTATTATTAT
1 TTTATTAGTATTATTAT
*
26358595 TTTATTCGTATTATTAT
1 TTTATTAGTATTATTAT
26358612 T
1 T
26358613 CTTTATATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTATTAGTATTATTAT
Found at i:26359958 original size:6 final size:6
Alignment explanation
Indices: 26359949--26359993 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
26359939 TTTGTTTTCT
* *
26359949 TTTTAG TTTTAG TTTTAG TTTTAT TTTTAT TTTTA- TTTTATG TTT
1 TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTTTA-G TTT
26359994 ATGTTTATGT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
5 5 0.14
6 28 0.78
7 3 0.08
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.76
Consensus pattern (6 bp):
TTTTAG
Found at i:26359970 original size:24 final size:24
Alignment explanation
Indices: 26359941--26360018 Score: 74
Period size: 24 Copynumber: 3.3 Consensus size: 24
26359931 TGAGTTTATT
*
26359941 TGTTTTCTTTTTAGTTTTAGTTTTA
1 TGTTTTATTTTTAGTTTTA-TTTTA
*
26359966 -GTTTTATTTTTATTTTTATTTTA
1 TGTTTTATTTTTAGTTTTATTTTA
*
26359989 TG-TTTATGTTTA-TGTTTATTATTA
1 TGTTTTATTTTTAGT-TTTATT-TTA
26360013 T-TTTTA
1 TGTTTTA
26360019 GTTCTTTTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
22 1 0.02
23 20 0.43
24 25 0.54
ACGTcount: A:0.17, C:0.01, G:0.09, T:0.73
Consensus pattern (24 bp):
TGTTTTATTTTTAGTTTTATTTTA
Found at i:26359981 original size:29 final size:27
Alignment explanation
Indices: 26359949--26360038 Score: 76
Period size: 29 Copynumber: 3.1 Consensus size: 27
26359939 TTTGTTTTCT
26359949 TTTTAGTTTTAGTTTTAGTTTTATTTTTA
1 TTTTA-TTTTAGTTTTA-TTTTATTTTTA
*
26359978 TTTTTATTTTA-TGTTTATGTTTATGTTTA
1 -TTTTATTTTAGT-TTTAT-TTTATTTTTA
* *
26360007 TTATTATTTTTAGTTCT-TTTTATTCTTA
1 TT-TTA-TTTTAGTTTTATTTTATTTTTA
26360035 TTTT
1 TTTT
26360039 CTTAGACTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
27 2 0.04
28 14 0.27
29 22 0.43
30 12 0.24
31 1 0.02
ACGTcount: A:0.17, C:0.02, G:0.08, T:0.73
Consensus pattern (27 bp):
TTTTATTTTAGTTTTATTTTATTTTTA
Found at i:26359994 original size:6 final size:6
Alignment explanation
Indices: 26359968--26360007 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
26359958 TAGTTTTAGT
* *
26359968 TTTATT TTTATT TTTAT- TTTATG TTTATG TTTATG TTTAT
1 TTTATG TTTATG TTTATG TTTATG TTTATG TTTATG TTTAT
26360008 TATTATTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.15
6 28 0.85
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.75
Consensus pattern (6 bp):
TTTATG
Found at i:26360000 original size:12 final size:11
Alignment explanation
Indices: 26359968--26360018 Score: 57
Period size: 12 Copynumber: 4.4 Consensus size: 11
26359958 TAGTTTTAGT
*
26359968 TTTATTTTTATT
1 TTTA-TTTTATG
26359980 TTTATTTTATG
1 TTTATTTTATG
26359991 TTTATGTTTATG
1 TTTAT-TTTATG
*
26360003 TTTATTATTATT
1 TTTATT-TTATG
26360015 TTTA
1 TTTA
26360019 GTTCTTTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
11 12 0.34
12 23 0.66
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.75
Consensus pattern (11 bp):
TTTATTTTATG
Found at i:26360035 original size:22 final size:21
Alignment explanation
Indices: 26359955--26360038 Score: 62
Period size: 23 Copynumber: 3.7 Consensus size: 21
26359945 TTCTTTTTAG
* *
26359955 TTTTAGTTTTAGTTTTATTTTTAT
1 TTTTA-TTTTATTTTTA-TGTT-T
*
26359979 TTTTATTTTATGTTTATGTTT
1 TTTTATTTTATTTTTATGTTT
26360000 ATGTTTATTATTATTTTTA-GTTCT
1 -T-TTTATT-TTATTTTTATGTT-T
26360024 TTTTATTCTTATTTT
1 TTTTATT-TTATTTT
26360039 CTTAGACTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
21 1 0.02
22 17 0.33
23 19 0.37
24 14 0.27
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.74
Consensus pattern (21 bp):
TTTTATTTTATTTTTATGTTT
Found at i:26362572 original size:56 final size:50
Alignment explanation
Indices: 26362495--26362690 Score: 203
Period size: 50 Copynumber: 3.8 Consensus size: 50
26362485 ATTTGGGTAA
* * *
26362495 AGAGATCCCATGTAAGACCATGTCTTGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* **
26362551 AGAGGTCCCGTGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
26362601 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
26362651 AGAACTCCCATGTAAGACCATATCTGGGATATGGAATTGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
26362691 TAGAACAAGA
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
50 80 0.66
53 3 0.02
55 1 0.01
56 37 0.31
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:26367249 original size:10 final size:10
Alignment explanation
Indices: 26367236--26367299 Score: 51
Period size: 10 Copynumber: 6.3 Consensus size: 10
26367226 TTTTACATAC
26367236 TTTTTTTAAT
1 TTTTTTTAAT
26367246 TTTTTTTAA-
1 TTTTTTTAAT
**
26367255 -TTTTAAAAT
1 TTTTTTTAAT
**
26367264 ATTTTTAAAAT
1 -TTTTTTTAAT
26367275 ACTTTTTTTAAT
1 --TTTTTTTAAT
26367287 TTTTTTTAAT
1 TTTTTTTAAT
26367297 TTT
1 TTT
26367300 AAAATATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
8 6 0.13
10 22 0.49
11 9 0.20
12 8 0.18
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTTTTAAT
Found at i:26367260 original size:41 final size:41
Alignment explanation
Indices: 26367205--26367398 Score: 295
Period size: 41 Copynumber: 4.7 Consensus size: 41
26367195 AATAAATATA
* *
26367205 TTTTTTTAATTTTAAAATATTTTTTACATACTTTTTTTAAT
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
26367246 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
*
26367287 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAA
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
**
26367328 TTTTTTTAATTTTAAAATA-TTTTAAAATA-TTTTTAAAAT
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
26367367 ACTTTTTTTAATTTTTAAAA-ATTTTTAAAATA
1 --TTTTTTTAA-TTTTAAAATATTTTTAAAATA
26367399 AAACCGGGCC
Statistics
Matches: 143, Mismatches: 6, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
39 7 0.05
40 10 0.07
41 108 0.76
42 18 0.13
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (41 bp):
TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
Found at i:26367308 original size:10 final size:11
Alignment explanation
Indices: 26367296--26367398 Score: 80
Period size: 10 Copynumber: 9.9 Consensus size: 11
26367286 TTTTTTTTAA
26367296 TTTTAAAATAT
1 TTTTAAAATAT
26367307 TTTTAAAATACTT
1 TTTTAAAATA--T
*
26367320 TTTTTAAAT-T
1 TTTTAAAATAT
*
26367330 TTTT----TAA
1 TTTTAAAATAT
26367337 TTTTAAAATA-
1 TTTTAAAATAT
26367347 TTTTAAAATAT
1 TTTTAAAATAT
26367358 TTTTAAAATACT
1 TTTTAAAATA-T
**
26367370 TTTT-TTA-AT
1 TTTTAAAATAT
26367379 TTTTAAAA-AT
1 TTTTAAAATAT
26367389 TTTTAAAATA
1 TTTTAAAATA
26367399 AAACCGGGCC
Statistics
Matches: 75, Mismatches: 6, Indels: 22
0.73 0.06 0.21
Matches are distributed among these distances:
6 1 0.01
7 4 0.05
9 5 0.07
10 27 0.36
11 24 0.32
12 5 0.07
13 9 0.12
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:26367390 original size:51 final size:52
Alignment explanation
Indices: 26367295--26367398 Score: 167
Period size: 51 Copynumber: 2.0 Consensus size: 52
26367285 ATTTTTTTTA
**
26367295 ATTTTAAAATATTTTTAAAATACTTTTTTTAAATTTTTTTAA-TTTTAAAAT
1 ATTTTAAAATATTTTTAAAATACTTTTTTTAAATTTTTAAAATTTTTAAAAT
26367346 ATTTTAAAATATTTTTAAAATACTTTTTTT-AATTTTTAAAAATTTTTAAAAT
1 ATTTTAAAATATTTTTAAAATACTTTTTTTAAATTTTT-AAAATTTTTAAAAT
26367398 A
1 A
26367399 AAACCGGGCC
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
50 7 0.14
51 32 0.65
52 10 0.20
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (52 bp):
ATTTTAAAATATTTTTAAAATACTTTTTTTAAATTTTTAAAATTTTTAAAAT
Found at i:26367616 original size:22 final size:22
Alignment explanation
Indices: 26367588--26367630 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
26367578 AACTTAATAC
*
26367588 ACATTTATTGATTGAATGTAAT
1 ACATTTATTAATTGAATGTAAT
26367610 ACATTTATTAATTGAATGTAA
1 ACATTTATTAATTGAATGTAA
26367631 AGGAGCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (22 bp):
ACATTTATTAATTGAATGTAAT
Found at i:26367798 original size:18 final size:19
Alignment explanation
Indices: 26367757--26367799 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
26367747 AAAATATATT
26367757 AAAAATTAAAAAATTAAAC
1 AAAAATTAAAAAATTAAAC
* *
26367776 -TAAATTAAGAAA-TAAAC
1 AAAAATTAAAAAATTAAAC
26367793 AAAAATT
1 AAAAATT
26367800 TCTTCATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (19 bp):
AAAAATTAAAAAATTAAAC
Found at i:26370096 original size:19 final size:20
Alignment explanation
Indices: 26370049--26370097 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
26370039 TGTCAGTACT
* * *
26370049 ATGAATAGTGGGGTCAAGTC
1 ATGAACAGTGGAGTCAAATC
26370069 ATGAACAGTGGAGTCAAATC
1 ATGAACAGTGGAGTCAAATC
26370089 AT-AACAGTG
1 ATGAACAGTG
26370098 ATAATATGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.37, C:0.12, G:0.29, T:0.22
Consensus pattern (20 bp):
ATGAACAGTGGAGTCAAATC
Found at i:26376207 original size:61 final size:61
Alignment explanation
Indices: 26376088--26376208 Score: 143
Period size: 61 Copynumber: 2.0 Consensus size: 61
26376078 GTGGCGCGAG
* * ** *
26376088 CTCAAGCTCCCAATTGTAACCTTAAGGCTCGTAGGTTCAATATTGCAACCCCCGAAATAGA
1 CTCAAGCTCCCAATTGTAACCTTAAGACTCGCAGGTTCAATACCGCAACCCCCAAAATAGA
* * * * * *
26376149 CTCAAGCTCCCAGTTGTAACCTTATGACTTGCAGGTTCAATACCGTAGCCTCCAAAATAG
1 CTCAAGCTCCCAATTGTAACCTTAAGACTCGCAGGTTCAATACCGCAACCCCCAAAATAG
26376209 TTAGCGCGAG
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (61 bp):
CTCAAGCTCCCAATTGTAACCTTAAGACTCGCAGGTTCAATACCGCAACCCCCAAAATAGA
Found at i:26376269 original size:70 final size:69
Alignment explanation
Indices: 26376179--26376561 Score: 379
Period size: 70 Copynumber: 5.5 Consensus size: 69
26376169 CTTATGACTT
* * * *
26376179 GCAGGTTCAATACCGTAGCCTCCAAAATAGTTAGCGCGAGCTCAAGCTCACAATTGTAGCTTTAA
1 GCAGGTTCAATACCGCAGCCCCCAAAATAGTTAGCGTGAGCTCAAGCTC-CAACTGTAGCTTTAA
26376244 GGCTC
65 GGCTC
* * ** * * * ** * * *
26376249 TCATGTTCAATACTACAGCCTCTAAAATAGTTAGTGCAAGCTCAAGCTCTCAACTATAACTGTAA
1 GCAGGTTCAATACCGCAGCCCCCAAAATAGTTAGCGTGAGCTCAAGCTC-CAACTGTAGCTTTAA
26376314 GGCTC
65 GGCTC
* * * * **
26376319 GCGGGTTCAATACCGCAACCCCCAAAATAGTTAGTGTAAGCTCAAGCTCCCAGTTGTAGCTTTAA
1 GCAGGTTCAATACCGCAGCCCCCAAAATAGTTAGCGTGAGCTCAAGCT-CCAACTGTAGCTTTAA
26376384 GGCTC
65 GGCTC
* * * * * *
26376389 TCAGGTTTAATACTGCAGCCCCCAAAAGAGTTAGCGTGAGCTCAATCTCCTAACTGTAACTTTAA
1 GCAGGTTCAATACCGCAGCCCCCAAAATAGTTAGCGTGAGCTCAAGCTCC-AACTGTAGCTTTAA
*
26376454 GACTC
65 GGCTC
* *
26376459 GCAGGTTCAATACCGCAACCCCCAAAATAGTTAGCGTGAGCTCAAGCTCCTAACTATAGCTTTAA
1 GCAGGTTCAATACCGCAGCCCCCAAAATAGTTAGCGTGAGCTCAAGCTCC-AACTGTAGCTTTAA
* *
26376524 GGTTT
65 GGCTC
* * * * *
26376529 GTAGGTTTAATACCGCAGTCTCCAAAGTAGTTA
1 GCAGGTTCAATACCGCAGCCCCCAAAATAGTTA
26376562 ACTCGAGCCC
Statistics
Matches: 254, Mismatches: 57, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
69 2 0.01
70 251 0.99
71 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (69 bp):
GCAGGTTCAATACCGCAGCCCCCAAAATAGTTAGCGTGAGCTCAAGCTCCAACTGTAGCTTTAAG
GCTC
Found at i:26376543 original size:210 final size:210
Alignment explanation
Indices: 26376149--26376545 Score: 467
Period size: 210 Copynumber: 1.9 Consensus size: 210
26376139 CCGAAATAGA
* * * *
26376149 CTCAAGCTCCCAGTTGTAACCTTATGACTTGCAGGTTCAATACCGTAGCCTCCAAAATAGTTAGC
1 CTCAAGCTCCCAGTTGTAACCTTAAGACTTGCAGGTTCAATACCGCAGCCCCCAAAAGAGTTAGC
* * * * * * * * *
26376214 GCGAGCTCAAGCTCACAATTGTAGCTTTAAGGCTCTCATGTTCAATACTACAGCCTCTAAAATAG
66 GCGAGCTCAAGCTCACAACTGTAACTTTAAGACTCGCAGGTTCAATACCACAACCCCCAAAATAG
* *
26376279 TTAGTGCAAGCTCAAGCTCTCAACTATAACTGTAAGGCTCGCGGGTTCAATACCGCAACCCCCAA
131 TTAGCGCAAGCTCAAGCTCTCAACTATAACTGTAAGGCTCGCAGGTTCAATACCGCAACCCCCAA
26376344 AATAGTTAGTGTAAG
196 AATAGTTAGTGTAAG
* * * * *
26376359 CTCAAGCTCCCAGTTGTAGCTTTAAGGCTCT-CAGGTTTAATACTGCAGCCCCCAAAAGAGTTAG
1 CTCAAGCTCCCAGTTGTAACCTTAAGACT-TGCAGGTTCAATACCGCAGCCCCCAAAAGAGTTAG
* * *
26376423 CGTGAGCTCAATCTC-CTAACTGTAACTTTAAGACTCGCAGGTTCAATACCGCAACCCCCAAAAT
65 CGCGAGCTCAAGCTCAC-AACTGTAACTTTAAGACTCGCAGGTTCAATACCACAACCCCCAAAAT
** * * * * * *
26376487 AGTTAGCGTGAGCTCAAGCTC-CTAACTATAGCTTTAAGGTTTGTAGGTTTAATACCGCA
129 AGTTAGCGCAAGCTCAAGCTCTC-AACTATAACTGTAAGGCTCGCAGGTTCAATACCGCA
26376546 GTCTCCAAAG
Statistics
Matches: 153, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
209 2 0.01
210 150 0.98
211 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (210 bp):
CTCAAGCTCCCAGTTGTAACCTTAAGACTTGCAGGTTCAATACCGCAGCCCCCAAAAGAGTTAGC
GCGAGCTCAAGCTCACAACTGTAACTTTAAGACTCGCAGGTTCAATACCACAACCCCCAAAATAG
TTAGCGCAAGCTCAAGCTCTCAACTATAACTGTAAGGCTCGCAGGTTCAATACCGCAACCCCCAA
AATAGTTAGTGTAAG
Found at i:26376554 original size:140 final size:139
Alignment explanation
Indices: 26376149--26376554 Score: 456
Period size: 140 Copynumber: 2.9 Consensus size: 139
26376139 CCGAAATAGA
* ** * * * * * *
26376149 CTCAAGCTCCCAGTTGTAACCTTATGACTTGCAGGTTCAATACCGTAGCCTCCAAAATAGTTAGC
1 CTCAAGCTCTCAACTGTAACTTTAAGACTCGCAGGTTCAATACCGCAACCCCCAAAATAGTTAGC
* * * * * *
26376214 GCGAGCTCAAGCTCACAATTGTAGCTTTAAGGCTCTCATGTTCAATACTACAGCCTCTAAAATAG
66 GTGAGCTCAAGCTC-CAATTGTAGCTTTAAGGCTCTCAGGTTTAATACTGCAGCCTCCAAAAGAG
*
26376279 TTAGTGCAAG
130 TTAGCGCAAG
* * * * *
26376289 CTCAAGCTCTCAACTATAACTGTAAGGCTCGCGGGTTCAATACCGCAACCCCCAAAATAGTTAGT
1 CTCAAGCTCTCAACTGTAACTTTAAGACTCGCAGGTTCAATACCGCAACCCCCAAAATAGTTAGC
* * *
26376354 GTAAGCTCAAGCTCCCAGTTGTAGCTTTAAGGCTCTCAGGTTTAATACTGCAGCCCCCAAAAGAG
66 GTGAGCTCAAGCT-CCAATTGTAGCTTTAAGGCTCTCAGGTTTAATACTGCAGCCTCCAAAAGAG
**
26376419 TTAGCGTGAG
130 TTAGCGCAAG
*
26376429 CTCAATCTC-CTAACTGTAACTTTAAGACTCGCAGGTTCAATACCGCAACCCCCAAAATAGTTAG
1 CTCAAGCTCTC-AACTGTAACTTTAAGACTCGCAGGTTCAATACCGCAACCCCCAAAATAGTTAG
* * * * * *
26376493 CGTGAGCTCAAGCTCCTAACTATAGCTTTAAGG-TTTGTAGGTTTAATACCGCAGTCTCCAAA
65 CGTGAGCTCAAGCTCC-AATTGTAGCTTTAAGGCTCT-CAGGTTTAATACTGCAGCCTCCAAA
26376555 GTAGTTAACT
Statistics
Matches: 221, Mismatches: 41, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
139 5 0.02
140 215 0.97
141 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (139 bp):
CTCAAGCTCTCAACTGTAACTTTAAGACTCGCAGGTTCAATACCGCAACCCCCAAAATAGTTAGC
GTGAGCTCAAGCTCCAATTGTAGCTTTAAGGCTCTCAGGTTTAATACTGCAGCCTCCAAAAGAGT
TAGCGCAAG
Found at i:26376716 original size:18 final size:18
Alignment explanation
Indices: 26376695--26376735 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
26376685 GGTTTACTTG
*
26376695 AGTTTGAAAATTCGCTTA
1 AGTTTGAAAATTCGCTCA
*
26376713 AG-TTGAAAATTTGCTCA
1 AGTTTGAAAATTCGCTCA
26376730 AGTTTG
1 AGTTTG
26376736 CTTAAGCCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (18 bp):
AGTTTGAAAATTCGCTCA
Found at i:26379773 original size:24 final size:26
Alignment explanation
Indices: 26379746--26379800 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
26379736 ATAATTGGAG
*
26379746 TAAAAAC-AATA-ACAAACCTGATTA
1 TAAAAACAAATAGACAAACATGATTA
* *
26379770 T-AAAACAAATAGACACATATGATTA
1 TAAAAACAAATAGACAAACATGATTA
26379795 TAAAAA
1 TAAAAA
26379801 GAATCTCTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 5 0.20
24 5 0.20
25 11 0.44
26 4 0.16
ACGTcount: A:0.60, C:0.13, G:0.05, T:0.22
Consensus pattern (26 bp):
TAAAAACAAATAGACAAACATGATTA
Found at i:26386075 original size:12 final size:12
Alignment explanation
Indices: 26386041--26386080 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
26386031 ACCGCTACCC
*
26386041 CTTCATCATCAT
1 CTTCATCATCTT
*
26386053 CATCATCATCTT
1 CTTCATCATCTT
*
26386065 CTTCATCATCTG
1 CTTCATCATCTT
26386077 CTTC
1 CTTC
26386081 TGCTGCTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.20, C:0.35, G:0.03, T:0.42
Consensus pattern (12 bp):
CTTCATCATCTT
Found at i:26389203 original size:6 final size:6
Alignment explanation
Indices: 26389192--26389232 Score: 54
Period size: 5 Copynumber: 7.5 Consensus size: 6
26389182 TTTTTATGCC
26389192 TTTCTT TTTCTT TTTC-T TTTC-T TTTCTT TTT-TT TTT-TT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
26389233 GAGTATTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 20 0.59
6 14 0.41
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTCTT
Found at i:26389217 original size:22 final size:21
Alignment explanation
Indices: 26389192--26389232 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
26389182 TTTTTATGCC
26389192 TTTCTTTTTCTTTTTCTTTTCT
1 TTTCTTTTT-TTTTTCTTTTCT
*
26389214 TTTCTTTTTTTTTTTTTTT
1 TTTCTTTTTTTTTTCTTTT
26389233 GAGTATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (21 bp):
TTTCTTTTTTTTTTCTTTTCT
Found at i:26389232 original size:16 final size:16
Alignment explanation
Indices: 26389192--26389231 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
26389182 TTTTTATGCC
26389192 TTTCTTTTTCTTTTTCT
1 TTTCTTTTTCTTTTT-T
26389209 TTTC-TTTTCTTTTTT
1 TTTCTTTTTCTTTTTT
26389224 TTT-TTTTT
1 TTTCTTTTT
26389232 TGAGTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 8 0.36
16 10 0.45
17 4 0.18
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTCTTTTTCTTTTTT
Found at i:26395488 original size:15 final size:15
Alignment explanation
Indices: 26395464--26395501 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
26395454 ATTAATTGTG
*
26395464 ATTAATTTTTAATTA
1 ATTAAATTTTAATTA
26395479 ATTAAATTTTAATTA
1 ATTAAATTTTAATTA
*
26395494 ATTTAATT
1 ATTAAATT
26395502 AAGTTAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTAAATTTTAATTA
Found at i:26395498 original size:9 final size:9
Alignment explanation
Indices: 26395450--26395512 Score: 60
Period size: 9 Copynumber: 7.0 Consensus size: 9
26395440 TTCCGCTAAT
26395450 TTTAATTAA
1 TTTAATTAA
*
26395459 TTGTGATTAA
1 TT-TAATTAA
26395469 TTT--TTAA
1 TTTAATTAA
26395476 -TTAATTAAA
1 TTTAATT-AA
26395485 TTTTAATTAA
1 -TTTAATTAA
26395495 TTTAATTAA
1 TTTAATTAA
*
26395504 GTTAATTAA
1 TTTAATTAA
26395513 GTAATTAAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
6 2 0.04
7 4 0.09
8 2 0.04
9 22 0.48
10 10 0.22
11 6 0.13
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (9 bp):
TTTAATTAA
Found at i:26395513 original size:9 final size:9
Alignment explanation
Indices: 26395487--26395520 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
26395477 TAATTAAATT
*
26395487 TTAATTAAT
1 TTAATTAAG
26395496 TTAATTAAG
1 TTAATTAAG
26395505 TTAATTAAG
1 TTAATTAAG
26395514 -TAATTAA
1 TTAATTAA
26395521 AGATTTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (9 bp):
TTAATTAAG
Found at i:26399009 original size:28 final size:30
Alignment explanation
Indices: 26398978--26399036 Score: 70
Period size: 31 Copynumber: 2.0 Consensus size: 30
26398968 ATGCATACGC
26398978 ATAT-ATA-AATA-AATACAATAATAATACT
1 ATATAATACAATATAATACAATAATAA-ACT
* *
26399006 ATATAATACTATATAATATAATAATAAACT
1 ATATAATACAATATAATACAATAATAAACT
26399036 A
1 A
26399037 ACAATGATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 4 0.15
29 3 0.12
30 7 0.27
31 12 0.46
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (30 bp):
ATATAATACAATATAATACAATAATAAACT
Found at i:26399013 original size:10 final size:10
Alignment explanation
Indices: 26398998--26399031 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
26398988 AAATACAATA
26398998 ATAATACTAT
1 ATAATACTAT
26399008 ATAATACTAT
1 ATAATACTAT
26399018 ATAATA-TA-
1 ATAATACTAT
26399026 ATAATA
1 ATAATA
26399032 AACTAACAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 6 0.25
9 2 0.08
10 16 0.67
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (10 bp):
ATAATACTAT
Found at i:26403357 original size:17 final size:17
Alignment explanation
Indices: 26403337--26403388 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
26403327 GGCAAGCACC
26403337 AACAGAGAAAAAACAAA
1 AACAGAGAAAAAACAAA
*
26403354 AACAGAGCAAAATAA-AGA
1 AACAGAG-AAAA-AACAAA
*
26403372 AACAAAGAAACAAACAA
1 AACAGAGAAA-AAACAA
26403389 TCAAATGCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
17 12 0.43
18 14 0.50
19 2 0.07
ACGTcount: A:0.73, C:0.13, G:0.12, T:0.02
Consensus pattern (17 bp):
AACAGAGAAAAAACAAA
Found at i:26413283 original size:25 final size:26
Alignment explanation
Indices: 26413251--26413305 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
26413241 TTATTAAATT
*
26413251 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
26413276 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
26413301 A-ATAT
1 ATATAT
26413306 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:26413536 original size:16 final size:16
Alignment explanation
Indices: 26413515--26413547 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
26413505 TTGATTTGTT
*
26413515 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
26413531 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
26413547 A
1 A
26413548 ATATAGCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:26414236 original size:23 final size:25
Alignment explanation
Indices: 26414204--26414265 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 25
26414194 TTTTAGTCAC
26414204 TATTATTAAATATGTTTAT-TAATT-T
1 TATTA-TAAATATGTTT-TGTAATTGT
* *
26414229 T-TTATAAATATCTTTTGTATTTGT
1 TATTATAAATATGTTTTGTAATTGT
26414253 TATTATAAATATG
1 TATTATAAATATG
26414266 GTATGTTGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 1 0.03
23 14 0.45
24 5 0.16
25 11 0.35
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (25 bp):
TATTATAAATATGTTTTGTAATTGT
Found at i:26416019 original size:40 final size:40
Alignment explanation
Indices: 26415943--26416020 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
26415933 GAAGTTAGAG
* * *
26415943 GACGTGTCAGCAAATCGCGTCCACGTCAGAGCGCTTTGCT
1 GACGTGGCAACAAATCGCGTCCACGTAAGAGCGCTTTGCT
* * *
26415983 GACGTGGCAACAAATCGCGTCCATGTAAGCGTGCTTTG
1 GACGTGGCAACAAATCGCGTCCACGTAAGAGCGCTTTG
26416021 TTGCCACGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.22, C:0.27, G:0.28, T:0.23
Consensus pattern (40 bp):
GACGTGGCAACAAATCGCGTCCACGTAAGAGCGCTTTGCT
Found at i:26416511 original size:126 final size:128
Alignment explanation
Indices: 26416286--26416581 Score: 465
Period size: 126 Copynumber: 2.3 Consensus size: 128
26416276 AAAATCAACT
* * * * *
26416286 CAGGATGCTTTATCAGAAGAATTTCT-AAAGCCGCGCCCACGT-GTACGCGTTTTTGCTACAGTA
1 CAGGATGCTTTATGAGAAGAATTTGTGAAA-TCGCGCCCTCGTAGTACGCGCTTTTGCTACAGTA
*
26416349 GATCTTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTAT-AAAAAACGCTTCAAG
65 GATCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAAACGCTTCAAG
26416412 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTAG-ACGCGCTTTTGCTACAGTAG
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTAGTACGCGCTTTTGCTACAGTAG
* *
26416476 GTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTCAAG
66 ATCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAAACGCTTCAAG
* *
26416539 CAAGATGTTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTA
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTA
26416582 TCTCGGTCAA
Statistics
Matches: 157, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
126 97 0.62
127 60 0.38
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (128 bp):
CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTAGTACGCGCTTTTGCTACAGTAG
ATCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAAACGCTTCAAG
Found at i:26417125 original size:20 final size:20
Alignment explanation
Indices: 26417088--26417125 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
26417078 ATTATTTTTA
*
26417088 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
26417108 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
26417126 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:26418105 original size:11 final size:11
Alignment explanation
Indices: 26418091--26418190 Score: 50
Period size: 11 Copynumber: 9.4 Consensus size: 11
26418081 GAGAAATTTA
26418091 AGAGGAAATTG
1 AGAGGAAATTG
*
26418102 AGAGCAAATTG
1 AGAGGAAATTG
**
26418113 AGATTAAA-T-
1 AGAGGAAATTG
* *
26418122 A-TGG-ATTTG
1 AGAGGAAATTG
26418131 AGA-GAAATTTG
1 AGAGGAAA-TTG
*
26418142 -GAAGGAATTTG
1 AG-AGGAAATTG
* * *
26418153 AGAGCAATTTA
1 AGAGGAAATTG
26418164 AGAGGAAATTG
1 AGAGGAAATTG
26418175 AGAGGAAATTTG
1 AGAGGAAA-TTG
26418187 AGAG
1 AGAG
26418191 AGGATTAGTT
Statistics
Matches: 65, Mismatches: 15, Indels: 17
0.67 0.15 0.18
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 3 0.05
10 3 0.05
11 46 0.71
12 11 0.17
ACGTcount: A:0.43, C:0.02, G:0.30, T:0.25
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:26418151 original size:22 final size:23
Alignment explanation
Indices: 26418126--26418194 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 23
26418116 TTAAATATGG
*
26418126 ATTTGAGAGAAATTTGGA-AGGA
1 ATTTGAGAGAAATTTGAAGAGGA
*
26418148 ATTTGAGAGCAATTT-AAGAGGA
1 ATTTGAGAGAAATTTGAAGAGGA
*
26418170 AATTGAGAGGAAATTTGAGAGAGGA
1 ATTTGAGA-GAAATTTGA-AGAGGA
26418195 TTAGTTTGTG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
21 1 0.03
22 25 0.64
23 6 0.15
24 1 0.03
25 6 0.15
ACGTcount: A:0.42, C:0.01, G:0.32, T:0.25
Consensus pattern (23 bp):
ATTTGAGAGAAATTTGAAGAGGA
Done.