Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 312 of 325
Found at i:100979769 original size:5 final size:5
Alignment explanation
Indices: 100979753--100979784 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
100979743 CAATTTGTGA
100979753 AAAAT -AAA- AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
100979785 AATACACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 6 0.24
5 19 0.76
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:100984840 original size:6 final size:6
Alignment explanation
Indices: 100984829--100984865 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
100984819 TTTTCTTGGT
* *
100984829 TAGGAA TGGGAA TAGGAA TAGGAA TAGGAA TTGGAA T
1 TAGGAA TAGGAA TAGGAA TAGGAA TAGGAA TAGGAA T
100984866 CCCACTGCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.35, T:0.22
Consensus pattern (6 bp):
TAGGAA
Found at i:100999617 original size:60 final size:58
Alignment explanation
Indices: 100999493--100999657 Score: 224
Period size: 60 Copynumber: 2.8 Consensus size: 58
100999483 AATATTTGGC
* * *
100999493 ACCTAAACTTTACACTTTTTCCTAATTTGGTACCT-AATTTTTTTTACCCAAATTAGT
1 ACCTGAACTTGACATTTTTTCCTAATTTGGTACCTAAATTTTTTTTACCCAAATTAGT
* * *
100999550 ACCTGAACTTGATATTTTTTCCTAATTTGGTACTTAAATTTTTTTTGGACCCAAGTTAGT
1 ACCTGAACTTGACATTTTTTCCTAATTTGGTACCTAAATTTTTTTT--ACCCAAATTAGT
* *
100999610 ACCTGAACTTGGCATGTTTTCCTAATTTGGTACCTAAACTTTTTTTTA
1 ACCTGAACTTGACATTTTTTCCTAATTTGGTACCTAAA-TTTTTTTTA
100999658 GATTCAATTT
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
57 30 0.32
58 10 0.11
59 1 0.01
60 45 0.48
61 8 0.09
ACGTcount: A:0.25, C:0.18, G:0.10, T:0.46
Consensus pattern (58 bp):
ACCTGAACTTGACATTTTTTCCTAATTTGGTACCTAAATTTTTTTTACCCAAATTAGT
Found at i:101000086 original size:9 final size:9
Alignment explanation
Indices: 101000067--101000105 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
101000057 TTATTCAGAT
101000067 ATTAT-AAA
1 ATTATAAAA
101000075 ATTATAAAA
1 ATTATAAAA
101000084 ATTATAAAA
1 ATTATAAAA
**
101000093 AAAATAAAA
1 ATTATAAAA
101000102 ATTA
1 ATTA
101000106 CTTTTGAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
8 5 0.19
9 21 0.81
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
ATTATAAAA
Found at i:101000262 original size:9 final size:9
Alignment explanation
Indices: 101000248--101000277 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
101000238 TTTTGAATGA
101000248 ATATATATT
1 ATATATATT
101000257 ATATATATT
1 ATATATATT
101000266 ATATATA-T
1 ATATATATT
101000274 ATAT
1 ATAT
101000278 TTGGGTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.24
9 16 0.76
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
ATATATATT
Found at i:101001757 original size:11 final size:11
Alignment explanation
Indices: 101001741--101001779 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
101001731 CAATCTATTA
101001741 AAAAAACAAGT
1 AAAAAACAAGT
101001752 AAAAAA-AGAGT
1 AAAAAACA-AGT
*
101001763 ATAAAACAAGT
1 AAAAAACAAGT
101001774 AAAAAA
1 AAAAAA
101001780 TTAGTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 1 0.04
11 22 0.92
12 1 0.04
ACGTcount: A:0.74, C:0.05, G:0.10, T:0.10
Consensus pattern (11 bp):
AAAAAACAAGT
Found at i:101001770 original size:22 final size:22
Alignment explanation
Indices: 101001743--101001789 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
101001733 ATCTATTAAA
101001743 AAAACAAGTAAAAAAAGAGTAT
1 AAAACAAGTAAAAAAAGAGTAT
**
101001765 AAAACAAGTAAAAAATTAGTAT
1 AAAACAAGTAAAAAAAGAGTAT
101001787 AAA
1 AAA
101001790 GTTGAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.68, C:0.04, G:0.11, T:0.17
Consensus pattern (22 bp):
AAAACAAGTAAAAAAAGAGTAT
Found at i:101002028 original size:6 final size:6
Alignment explanation
Indices: 101002017--101002047 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
101002007 GAAGGGAAGA
101002017 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A
101002048 GAAGGAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:101002138 original size:10 final size:11
Alignment explanation
Indices: 101002123--101002151 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
101002113 TATTGTTGAT
101002123 TTTAATTTA-A
1 TTTAATTTAGA
101002133 TTTAATTTAGA
1 TTTAATTTAGA
101002144 TTTAATTT
1 TTTAATTT
101002152 TTAATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (11 bp):
TTTAATTTAGA
Found at i:101002470 original size:16 final size:16
Alignment explanation
Indices: 101002451--101002510 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
101002441 GAAATAGTAT
101002451 AAAAATAAAATATGAA
1 AAAAATAAAATATGAA
***
101002467 AAAAATATCTTAATG-A
1 AAAAATAAAAT-ATGAA
*
101002483 AAAAATAGAATATGAA
1 AAAAATAAAATATGAA
*
101002499 AAAAATACAATA
1 AAAAATAAAATA
101002511 AAATAAGAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
15 3 0.09
16 29 0.83
17 3 0.09
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.22
Consensus pattern (16 bp):
AAAAATAAAATATGAA
Found at i:101002523 original size:19 final size:19
Alignment explanation
Indices: 101002499--101002535 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
101002489 AGAATATGAA
101002499 AAAAATACAATAAAATAAG
1 AAAAATACAATAAAATAAG
**
101002518 AAAAATAGTATAAAATAA
1 AAAAATACAATAAAATAA
101002536 TATAAGAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (19 bp):
AAAAATACAATAAAATAAG
Found at i:101002867 original size:23 final size:24
Alignment explanation
Indices: 101002805--101002867 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 24
101002795 AAGATAAAAT
101002805 AAAATACGAA-AATAGTATATTTTAA
1 AAAATACGAATAATA--ATATTTTAA
* *
101002830 AAAATA-AAATCATAATATTTT-A
1 AAAATACGAATAATAATATTTTAA
*
101002852 TAAATACGAATAATAA
1 AAAATACGAATAATAA
101002868 AGGGACAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
22 6 0.19
23 14 0.45
24 2 0.06
25 9 0.29
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (24 bp):
AAAATACGAATAATAATATTTTAA
Found at i:101003129 original size:134 final size:133
Alignment explanation
Indices: 101002528--101003530 Score: 1563
Period size: 134 Copynumber: 7.5 Consensus size: 133
101002518 AAAAATAGTA
* * * *
101002528 TAAAATAATAT-AAGAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATTTTA
1 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
* * * * * *
101002592 -AAA-ATATA-AACAAAGGGACAAAATTAGGGTTATTTAAAAAACACTAAAGTAATACATTTATG
66 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAAACTAAAGTTATACATTTATG
101002654 TAC
131 TAC
* * **
101002657 TAAAATACGAT-AAAAATGAAATACGAAAATAGTATATTTTAAAAAATAAAATCTAAATATTTTA
1 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
* * *
101002721 GAAATAAAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAACACTAAAGTAATACATTTATG
66 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAAACTAAAGTTATACATTTATG
101002786 TAC
131 TAC
**
101002789 TAAAATAAGAT--AAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCATAATATTTTA
1 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
* * *
101002852 TAAATACGAATAATAAAGGGACAAAATTAGGGTTATA-AAAAAAACACTAAAGTAATACATTTAT
66 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAA-ACTAAAGTTATACATTTAT
101002916 GTAC
130 GTAC
* *
101002920 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAATCTTTTA
1 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
101002985 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAAACTAAAGTTATACATTTATG
66 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAAACTAAAGTTATACATTTATG
101003050 TAC
131 TAC
101003053 TAAAATAAGATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTT
1 TAAAATAAGAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTT
* *
101003118 AGAAATACAAATAATAAAGGGATAAAATTAGGGTTATATAAAAAACACTAAAGTTATACATTTAT
65 AGAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAAACTAAAGTTATACATTTAT
101003183 GTAC
130 GTAC
*
101003187 TAAAATATTAGATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCGAATATTT
1 TAAAATA--AGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTT
* * * *
101003252 TAAAAATAGAAATAATAAAAGGACAAAATTAAGGTTATATAAAAAAATACTAAAGTTATACATTT
64 TAGAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAA-ACTAAAGTTATACATTT
101003317 ATGTAC
128 ATGTAC
*
101003323 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTCGAATATTTTA
1 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
101003388 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAAAACTAAAGTTATACATTTAT
66 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATAT-AAAAAAAACTAAAGTTATACATTTAT
101003453 GTAC
130 GTAC
* * **
101003457 TAAAATAAGATAAAAAAATAAAATACTAAAATAGTATATTTTAAAAAATAAATTCATAATATTTT
1 TAAAATAAGAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTT
101003522 AGAAATACA
65 AGAAATACA
101003531 CCTATTCAAT
Statistics
Matches: 815, Mismatches: 46, Indels: 20
0.93 0.05 0.02
Matches are distributed among these distances:
129 58 0.07
130 9 0.01
131 120 0.15
132 65 0.08
133 117 0.14
134 256 0.31
135 156 0.19
136 34 0.04
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.29
Consensus pattern (133 bp):
TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAAACTAAAGTTATACATTTATG
TAC
Found at i:101003356 original size:269 final size:265
Alignment explanation
Indices: 101002528--101003528 Score: 1582
Period size: 269 Copynumber: 3.8 Consensus size: 265
101002518 AAAAATAGTA
* * * *
101002528 TAAAATAATATAAGAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATTTTA-
1 TAAAATAAGATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
* * * *
101002592 AAA-ATATA-AACAAAGGGACAAAATTAGGGTTATTTAAAAAACACTAAAGTAATACATTTATGT
66 AAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAACACTAAAGTAATACATTTATGT
* * *
101002655 ACTAAAATACGAT-AAAAATGAAATACGAAAATAGTATATTTTAAAAAATAAAATCTAAATATTT
131 ACTAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAATATTT
* *
101002719 TAGAAATAAAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAACACTAAAGTAATACATTTA
196 TAGAAATAAAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAAACTAAAGTTATACATTTA
101002784 TGTAC
261 TGTAC
** *
101002789 TAAAATAAGAT-AAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCATAATATTTTAT
1 TAAAATAAGATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
* *
101002853 AAATACGAATAATAAAGGGACAAAATTAGGGTTATAAAAAAAACACTAAAGTAATACATTTATGT
66 AAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAACACTAAAGTAATACATTTATGT
*
101002918 ACTAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAATCTTT
131 ACTAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAATATTT
*
101002983 TAGAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAAACTAAAGTTATACATTTA
196 TAGAAATAAAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAAACTAAAGTTATACATTTA
101003048 TGTAC
261 TGTAC
101003053 TAAAATAAGATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTT
1 TAAAATAAGAT--AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTT
* *
101003118 AGAAATACAAATAATAAAGGGATAAAATTAGGGTTATATAAAAAACACTAAAGTTATACATTTAT
64 AGAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAACACTAAAGTAATACATTTAT
* *
101003183 GTACTAAAATATTAGATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCGAAT
129 GTACTAAAATA--AGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAT
* * * *
101003248 ATTTTAAAAATAGAAATAATAAAAGGACAAAATTAAGGTTATATAAAAAAATACTAAAGTTATAC
192 ATTTTAGAAATAAAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAA-ACTAAAGTTATAC
101003313 ATTTATGTAC
256 ATTTATGTAC
*
101003323 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTCGAATATTTTA
1 TAAAATAAGAT-AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
* *
101003388 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAAAACTAAAGTTATACATTTAT
65 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATAT-AAAAAACACTAAAGTAATACATTTAT
* *
101003453 GTACTAAAATAAGATAAAAAAATAAAATACTAAAATAGTATATTTTAAAAAATAAATTCAT-AAT
129 GTACTAAAATAAGAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATC-TGAAT
101003517 ATTTTAGAAATA
192 ATTTTAGAAATA
101003529 CACCTATTCA
Statistics
Matches: 687, Mismatches: 40, Indels: 18
0.92 0.05 0.02
Matches are distributed among these distances:
260 48 0.07
261 13 0.02
262 2 0.00
263 64 0.09
264 126 0.18
267 120 0.17
268 4 0.01
269 240 0.35
270 70 0.10
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.29
Consensus pattern (265 bp):
TAAAATAAGATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
AAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAACACTAAAGTAATACATTTATGT
ACTAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAATATTT
TAGAAATAAAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAAACTAAAGTTATACATTTA
TGTAC
Found at i:101004205 original size:200 final size:198
Alignment explanation
Indices: 101003779--101004238 Score: 857
Period size: 200 Copynumber: 2.3 Consensus size: 198
101003769 CTAATAAAAC
*
101003779 ATAATAGTTATTTTTCAAATAACATATTGTTTTATTTCTTATTTAATATTTCAATTTAATTTTAA
1 ATAATAGTTATTTTCCAAATAACATATTGTTTTATTTCTTATTTAATATTTCAATTTAATTTTAA
* *
101003844 TAATGCATACTTTACCCGGGTAAAGTATGTATTAGCAGATTCACTAATATGATTATATATATTTA
66 TAATGAACACTTTACCCGGGTAAAGTATGTATTAGCAGATTCACTAATATGATTATATATATTTA
101003909 CACATGTTTCACATTACAAAAACAAAAATTTAAATACTTATACCTAATAAAACATGTATGTCATT
131 CACATGTTTCACATTACAAAAACAAAAATTTAAATACTTATACCTAATAAAACATGTATGTCATT
101003974 ACA
196 ACA
101003977 ATAATAGTTATTTTCCAAATAACATATTGTTTTATTTCTTATTTAATATTTCAATTTAATTTTAA
1 ATAATAGTTATTTTCCAAATAACATATTGTTTTATTTCTTATTTAATATTTCAATTTAATTTTAA
*
101004042 TAATGAACACTTTACCCGGGTAAAGTATTTATTAGCAGATTCACTAATATGATTATATATATATT
66 TAATGAACACTTTACCCGGGTAAAGTATGTATTAGCAGATTCACTAATATGA-T-TATATATATT
101004107 TACACATGTTTCACATTACAAAAACAAAAATTTAAATACTTATACCTAATAAAACATGTATGTCA
129 TACACATGTTTCACATTACAAAAACAAAAATTTAAATACTTATACCTAATAAAACATGTATGTCA
101004172 TTACA
194 TTACA
*
101004177 ATAATAGTTATTTTCCAAATAGCATATTGTTTTATTTCTTATTTAATATTTCAATTTAATTT
1 ATAATAGTTATTTTCCAAATAACATATTGTTTTATTTCTTATTTAATATTTCAATTTAATTT
101004239 ATGTACTAAT
Statistics
Matches: 255, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
198 113 0.44
199 1 0.00
200 141 0.55
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.43
Consensus pattern (198 bp):
ATAATAGTTATTTTCCAAATAACATATTGTTTTATTTCTTATTTAATATTTCAATTTAATTTTAA
TAATGAACACTTTACCCGGGTAAAGTATGTATTAGCAGATTCACTAATATGATTATATATATTTA
CACATGTTTCACATTACAAAAACAAAAATTTAAATACTTATACCTAATAAAACATGTATGTCATT
ACA
Found at i:101006059 original size:72 final size:72
Alignment explanation
Indices: 101005963--101006107 Score: 202
Period size: 72 Copynumber: 2.0 Consensus size: 72
101005953 AATCTGAGCA
* * * * *
101005963 ATCGTATTCACATTCGGCTAATACTTCTTATCATCCAGATTTCCAGAGTAATGACTATTTAC-CG
1 ATCGCATTCACATTCGGCCAATACTTCTTATCATCCAGATTTACAGAGCAATAACTATTT-CTCG
101006027 GGCTCGTC
65 GGCTCGTC
* * *
101006035 ATCGCATTCACATTCGGCCGATACTTCTTATCATCCAGATTTACTGGGCAATAACTATTTCTCGG
1 ATCGCATTCACATTCGGCCAATACTTCTTATCATCCAGATTTACAGAGCAATAACTATTTCTCGG
101006100 GCTCGTC
66 GCTCGTC
101006107 A
1 A
101006108 GGGGGCGGAT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
71 1 0.02
72 63 0.98
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (72 bp):
ATCGCATTCACATTCGGCCAATACTTCTTATCATCCAGATTTACAGAGCAATAACTATTTCTCGG
GCTCGTC
Found at i:101009868 original size:126 final size:125
Alignment explanation
Indices: 101009630--101009874 Score: 417
Period size: 126 Copynumber: 2.0 Consensus size: 125
101009620 TTCTTATTAT
*
101009630 AATCTGTTATATTTAAAAATAACAAAAAAATACCTTTAATTTTTTCTTCTCCTTCTTTCTCCCTC
1 AATCTGTTATATTTAAAAATAACAAAAAAATACCTTTAATTTCTTCTTCTCCTTCTTTCTCCCTC
101009695 TCTTCTCTTCTGTAATCTTTTTTTTTTACTGAAATTTTTTTCCTTCTTTCTTTTTTTCAGAA
66 TCTTCTCTTCTGTAATC-TTTTTTTTTACTGAAATTTTTTTCCTTCTTT-TTTTTTTCAGAA
*
101009757 AATCTGTTGTATTTAAAAATAAC-AAAAAATACCTTTAATTTCTTCTTCTCCTTCTTTCTCCCTC
1 AATCTGTTATATTTAAAAATAACAAAAAAATACCTTTAATTTCTTCTTCTCCTTCTTTCTCCCTC
101009821 TCTTCTCTTCTGTAATC-TTTTTTTTACTG-AATTTTTTT-CTTCTTTCTTTTTTTC
66 TCTTCTCTTCTGTAATCTTTTTTTTTACTGAAATTTTTTTCCTTCTTT-TTTTTTTC
101009875 TTCTGTTCTC
Statistics
Matches: 116, Mismatches: 2, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
122 16 0.14
123 9 0.08
124 12 0.10
126 57 0.49
127 22 0.19
ACGTcount: A:0.22, C:0.20, G:0.03, T:0.54
Consensus pattern (125 bp):
AATCTGTTATATTTAAAAATAACAAAAAAATACCTTTAATTTCTTCTTCTCCTTCTTTCTCCCTC
TCTTCTCTTCTGTAATCTTTTTTTTTACTGAAATTTTTTTCCTTCTTTTTTTTTTCAGAA
Found at i:101009870 original size:15 final size:16
Alignment explanation
Indices: 101009852--101009883 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
101009842 TTTTACTGAA
101009852 TTTTTTTCTTCT-TTC
1 TTTTTTTCTTCTGTTC
101009867 TTTTTTTCTTCTGTTC
1 TTTTTTTCTTCTGTTC
101009883 T
1 T
101009884 CCCTCCCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTTTTTCTTCTGTTC
Found at i:101010101 original size:26 final size:28
Alignment explanation
Indices: 101010063--101010116 Score: 85
Period size: 26 Copynumber: 2.0 Consensus size: 28
101010053 CCGATATTTT
101010063 TTTTTTCAAATTC-A-TTTTTTTAACAG
1 TTTTTTCAAATTCAATTTTTTTTAACAG
*
101010089 TTTTTTCAGATTCAATTTTTTTTAACAG
1 TTTTTTCAAATTCAATTTTTTTTAACAG
101010117 ATTGTGTCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 12 0.48
27 1 0.04
28 12 0.48
ACGTcount: A:0.26, C:0.11, G:0.06, T:0.57
Consensus pattern (28 bp):
TTTTTTCAAATTCAATTTTTTTTAACAG
Found at i:101010601 original size:19 final size:19
Alignment explanation
Indices: 101010561--101010601 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
101010551 TCAACAATTT
** *
101010561 TTTTTTAAAATTCATTATA
1 TTTTTTAAAATTCAAAACA
101010580 TTTTTTAAAATTCAAAACA
1 TTTTTTAAAATTCAAAACA
101010599 TTT
1 TTT
101010602 AGAAAAAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTTTAAAATTCAAAACA
Found at i:101012804 original size:16 final size:16
Alignment explanation
Indices: 101012783--101012815 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
101012773 TTTTTATACA
101012783 AACATATATTTCATGT
1 AACATATATTTCATGT
101012799 AACATATATTTCATGT
1 AACATATATTTCATGT
101012815 A
1 A
101012816 CACACAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (16 bp):
AACATATATTTCATGT
Found at i:101020480 original size:19 final size:18
Alignment explanation
Indices: 101020447--101020502 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
101020437 ATACAGAAAA
* *
101020447 TATAAAAAATTAAAAATT
1 TATAAAACATAAAAAATT
101020465 TATCAAAACATAAAAAACTT
1 TAT-AAAACATAAAAAA-TT
* *
101020485 TGTAAAATATAAAAAATT
1 TATAAAACATAAAAAATT
101020503 ATTAAATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 5 0.16
19 23 0.72
20 4 0.12
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.30
Consensus pattern (18 bp):
TATAAAACATAAAAAATT
Found at i:101020508 original size:18 final size:18
Alignment explanation
Indices: 101020452--101020508 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 18
101020442 GAAAATATAA
* *
101020452 AAAAT-TAAAAATTTATC
1 AAAATATAAAAAATTATT
*
101020469 AAAACATAAAAAACTT-TGT
1 AAAATATAAAAAA-TTAT-T
101020488 AAAATATAAAAAATTATT
1 AAAATATAAAAAATTATT
101020506 AAA
1 AAA
101020509 TTTTATTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
17 4 0.12
18 13 0.41
19 15 0.47
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (18 bp):
AAAATATAAAAAATTATT
Found at i:101020583 original size:24 final size:25
Alignment explanation
Indices: 101020550--101020596 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
101020540 TAGAAATAGA
101020550 AATTTATTAAAAAATATAAAAAAAT
1 AATTTATTAAAAAATATAAAAAAAT
*
101020575 AATTT-TTAAAAAATATAGAAAA
1 AATTTATTAAAAAATATAAAAAA
101020597 GTCTTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (25 bp):
AATTTATTAAAAAATATAAAAAAAT
Found at i:101020665 original size:11 final size:11
Alignment explanation
Indices: 101020639--101020676 Score: 53
Period size: 10 Copynumber: 3.6 Consensus size: 11
101020629 ATCATAAAAG
101020639 ATAAAAA-TAT
1 ATAAAAATTAT
*
101020649 AGAAAAATTAT
1 ATAAAAATTAT
101020660 -TAAAAATTAT
1 ATAAAAATTAT
101020670 ATAAAAA
1 ATAAAAA
101020677 GAAAGAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (11 bp):
ATAAAAATTAT
Found at i:101020678 original size:39 final size:39
Alignment explanation
Indices: 101020601--101020675 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
101020591 AGAAAAGTCT
* * *
101020601 TAAAAATATTAAAATTTATTATAAATTTATCATAAAAGA
1 TAAAAATATGAAAAATTATTAAAAATTTATCATAAAAGA
101020640 TAAAAATATAGAAAAATTATTAAAAA-TTAT-ATAAAA
1 TAAAAATAT-GAAAAATTATTAAAAATTTATCATAAAA
101020676 AGAAAGAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 6 0.19
39 13 0.41
40 13 0.41
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (39 bp):
TAAAAATATGAAAAATTATTAAAAATTTATCATAAAAGA
Found at i:101022009 original size:7 final size:7
Alignment explanation
Indices: 101021996--101022034 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
101021986 CTTTATAATA
101021996 ACATTAT
1 ACATTAT
*
101022003 TCATTAT
1 ACATTAT
101022010 ACATTAT
1 ACATTAT
*
101022017 GCATTAT
1 ACATTAT
101022024 ACATTAT
1 ACATTAT
101022031 ACAT
1 ACAT
101022035 ATGTGCTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.44
Consensus pattern (7 bp):
ACATTAT
Found at i:101026659 original size:114 final size:119
Alignment explanation
Indices: 101026532--101026754 Score: 357
Period size: 121 Copynumber: 1.9 Consensus size: 119
101026522 TTATATATGT
101026532 AGGTATGATGGTGTTATAATTTGATATTATGT-CA-CATTA-TTATTTTT-TT-AAAAATTATAC
1 AGGTATGATGGTGTTATAATTTGATATTATGTACATCATTACTTATTTTTCTTAAAAAATTATAC
*
101026592 ATTTTTCAATTACATATATTTTTAAGAATTTTTAATTGATGACAGAATCCGTTA
66 ATTTTTCAATTACATATATTTTTAAGAATTTTTAAGTGATGACAGAATCCGTTA
* *
101026646 AGGTATGATGGTGTTATAGTTTGATATTATGTCACATCATTATCTTTTTTTTCTTAAAAAATTAT
1 AGGTATGATGGTGTTATAATTTGATATTATGT-ACATCATTA-CTTATTTTTCTTAAAAAATTAT
*
101026711 ACATTTTTCAATTATATATATTTTTAAGAATTTTTAAGTGATGA
64 ACATTTTTCAATTACATATATTTTTAAGAATTTTTAAGTGATGA
101026755 TATGACACAA
Statistics
Matches: 98, Mismatches: 4, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
114 31 0.32
116 2 0.02
117 5 0.05
119 7 0.07
120 2 0.02
121 51 0.52
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (119 bp):
AGGTATGATGGTGTTATAATTTGATATTATGTACATCATTACTTATTTTTCTTAAAAAATTATAC
ATTTTTCAATTACATATATTTTTAAGAATTTTTAAGTGATGACAGAATCCGTTA
Found at i:101028851 original size:48 final size:48
Alignment explanation
Indices: 101028780--101028875 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
101028770 TATACAAGGC
101028780 TTATTTGTTTTTGCTGCTATTTCACATTTGATCAATTTGATAAGCAAT
1 TTATTTGTTTTTGCTGCTATTTCACATTTGATCAATTTGATAAGCAAT
101028828 TTATTTGTTTTTGCTGCTATTTCACATTTGATCAATTTGATAAGCAAT
1 TTATTTGTTTTTGCTGCTATTTCACATTTGATCAATTTGATAAGCAAT
101028876 CATCAGATCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (48 bp):
TTATTTGTTTTTGCTGCTATTTCACATTTGATCAATTTGATAAGCAAT
Found at i:101030236 original size:16 final size:16
Alignment explanation
Indices: 101030215--101030247 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
101030205 TTCAATGGGT
101030215 CTTAACTTTTCTGTTC
1 CTTAACTTTTCTGTTC
101030231 CTTAACTTTTCTGTTC
1 CTTAACTTTTCTGTTC
101030247 C
1 C
101030248 GTGAAAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.27, G:0.06, T:0.55
Consensus pattern (16 bp):
CTTAACTTTTCTGTTC
Found at i:101038212 original size:7 final size:7
Alignment explanation
Indices: 101038200--101038224 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
101038190 TATATTTAGG
101038200 TATATAT
1 TATATAT
101038207 TATATAT
1 TATATAT
101038214 TATATAT
1 TATATAT
101038221 TATA
1 TATA
101038225 CTTAGTTATT
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:0.00, T:0.56
Consensus pattern (7 bp):
TATATAT
Found at i:101039858 original size:43 final size:42
Alignment explanation
Indices: 101039688--101039916 Score: 269
Period size: 42 Copynumber: 5.4 Consensus size: 42
101039678 CGTCAGAAGT
* *** *
101039688 ATCCTAATTGAGGAGGGATTAAATGAAATTGTAAAAACATAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAACTAAAAAGATAA
* * * * *
101039730 ATCTTATTTGATGTAGGATTAAATGAAAAACTAAAAACATAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAACTAAAAAGATAA
* * * *
101039772 ATCCTATTTGACGTGAGATTAAATGAAAAATTAAAAAGATAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAACTAAAAAGATAA
* *
101039814 ATCCTAATTGAGGTGGGATTAAATAAAAAAACTACAAAGATAA
1 ATCCTAATTGAGGTGGGATTAAAT-GAAAAACTAAAAAGATAA
* *
101039857 ATTCTAATTGAGGTGGGATTAAATGAAAAGCTAAAAAGATAAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAACTAAAAAGAT-AA
*
101039900 ATCTTAATTGAGGTGGG
1 ATCCTAATTGAGGTGGG
101039917 TTGTGGGGCT
Statistics
Matches: 159, Mismatches: 26, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
42 104 0.65
43 55 0.35
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.28
Consensus pattern (42 bp):
ATCCTAATTGAGGTGGGATTAAATGAAAAACTAAAAAGATAA
Found at i:101039885 original size:85 final size:84
Alignment explanation
Indices: 101039688--101039916 Score: 280
Period size: 85 Copynumber: 2.7 Consensus size: 84
101039678 CGTCAGAAGT
* * * * * *
101039688 ATCCTAATTGAGGAGGGATTAAATG-AAATTGTAAAAACATAAATCTTATTTGATGTAGGATTAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAAT-TAAAAAGATAAATCTTAATTGAGGTGGGATTAA
*
101039752 ATGAAAAACTAAAAACATAA
65 ATAAAAAACTAAAAACATAA
* * * *
101039772 ATCCTATTTGACGTGAGATTAAATGAAAAATTAAAAAGATAAATCCTAATTGAGGTGGGATTAAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAATTAAAAAGATAAATCTTAATTGAGGTGGGATTAAA
* *
101039837 TAAAAAAACTACAAAGATAA
66 T-AAAAAACTAAAAACATAA
* **
101039857 ATTCTAATTGAGGTGGGATTAAATGAAAAGCTAAAAAGATAAAATCTTAATTGAGGTGGG
1 ATCCTAATTGAGGTGGGATTAAATGAAAAATTAAAAAGAT-AAATCTTAATTGAGGTGGG
101039917 TTGTGGGGCT
Statistics
Matches: 122, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
84 51 0.42
85 53 0.43
86 18 0.15
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.28
Consensus pattern (84 bp):
ATCCTAATTGAGGTGGGATTAAATGAAAAATTAAAAAGATAAATCTTAATTGAGGTGGGATTAAA
TAAAAAACTAAAAACATAA
Found at i:101042019 original size:21 final size:22
Alignment explanation
Indices: 101041991--101042056 Score: 89
Period size: 21 Copynumber: 3.0 Consensus size: 22
101041981 CCTAATCAGT
101041991 ATACGACACATAAAGTGCCTAA
1 ATACGACACATAAAGTGCCTAA
** *
101042013 A-ACGACACACGACGTGCCTGAA
1 ATACGACACATAAAGTGCCT-AA
101042035 ATACGACACATAAAGTGCCTAA
1 ATACGACACATAAAGTGCCTAA
101042057 TCGGTAAAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 15 0.42
22 6 0.17
23 15 0.42
ACGTcount: A:0.42, C:0.26, G:0.17, T:0.15
Consensus pattern (22 bp):
ATACGACACATAAAGTGCCTAA
Found at i:101043480 original size:21 final size:20
Alignment explanation
Indices: 101043456--101043495 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
101043446 CTCCTCTCTG
*
101043456 TTTCGTTTCATTCTGCTTCTA
1 TTTCCTTTCATT-TGCTTCTA
101043477 TTTCCTTTCATTTGCTTCT
1 TTTCCTTTCATTTGCTTCT
101043496 TTAGTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.07, C:0.25, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTCCTTTCATTTGCTTCTA
Found at i:101043515 original size:5 final size:5
Alignment explanation
Indices: 101043502--101043533 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
101043492 TTCTTTAGTT
101043502 TATATA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA T
101043534 TAAATCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TATAA
Found at i:101043527 original size:15 final size:16
Alignment explanation
Indices: 101043502--101043579 Score: 60
Period size: 16 Copynumber: 5.1 Consensus size: 16
101043492 TTCTTTAGTT
101043502 TATATATATAATATAA
1 TATATATATAATATAA
101043518 TATA-ATATAATATAA
1 TATATATATAATATAA
*
101043533 T-TA-A-ATCATA-AA
1 TATATATATAATATAA
* * *
101043545 GTATCTTTATTATATAA
1 -TATATATATAATATAA
101043562 TA-ATATAATAATATAA
1 TATATAT-ATAATATAA
101043578 TA
1 TA
101043580 ATAAACTAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
12 2 0.04
13 6 0.12
14 4 0.08
15 14 0.29
16 21 0.43
17 2 0.04
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (16 bp):
TATATATATAATATAA
Found at i:101043569 original size:8 final size:8
Alignment explanation
Indices: 101043556--101043582 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
101043546 TATCTTTATT
101043556 ATATAATA
1 ATATAATA
101043564 ATATAATA
1 ATATAATA
101043572 ATATAATA
1 ATATAATA
101043580 ATA
1 ATA
101043583 AACTAAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
ATATAATA
Found at i:101046666 original size:18 final size:18
Alignment explanation
Indices: 101046645--101046679 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
101046635 AAATCAAATT
101046645 AATTATTTTATTTTTTTG
1 AATTATTTTATTTTTTTG
*
101046663 AATTGTTTTATTTTTTT
1 AATTATTTTATTTTTTT
101046680 ATTATTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (18 bp):
AATTATTTTATTTTTTTG
Found at i:101047714 original size:21 final size:21
Alignment explanation
Indices: 101047690--101047730 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
101047680 GTTGCTACCT
*
101047690 TTTCCACCACTTCCGCCACCG
1 TTTCCACCACTTCCACCACCG
*
101047711 TTTCCACCCCTTCCACCACC
1 TTTCCACCACTTCCACCACC
101047731 ATCTCTGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.56, G:0.05, T:0.24
Consensus pattern (21 bp):
TTTCCACCACTTCCACCACCG
Found at i:101049730 original size:21 final size:21
Alignment explanation
Indices: 101049694--101049737 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
101049684 ATTAAATTAA
101049694 ATAAAAAATATGAATAG-TTT
1 ATAAAAAATATGAATAGCTTT
101049714 ATAAATAAATAAT-AATAGCTTT
1 ATAAA-AAAT-ATGAATAGCTTT
101049736 AT
1 AT
101049738 TTAAATCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (21 bp):
ATAAAAAATATGAATAGCTTT
Found at i:101050306 original size:29 final size:31
Alignment explanation
Indices: 101050246--101050321 Score: 104
Period size: 29 Copynumber: 2.5 Consensus size: 31
101050236 ATCTTTTTAG
*
101050246 TTTTAAGGG-TCCAAAATTTTTTTTACTAAC
1 TTTTAAGGGATCTAAAATTTTTTTTACTAAC
*
101050276 TTTTAAGGGATCTACAATTTTTTTT-C-AAC
1 TTTTAAGGGATCTAAAATTTTTTTTACTAAC
*
101050305 TTTTAAGGAATCTAAAA
1 TTTTAAGGGATCTAAAA
101050322 CCCAATTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
29 18 0.44
30 10 0.24
31 13 0.32
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.45
Consensus pattern (31 bp):
TTTTAAGGGATCTAAAATTTTTTTTACTAAC
Found at i:101051089 original size:11 final size:11
Alignment explanation
Indices: 101051073--101051097 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
101051063 AAATAAAGGT
101051073 AAAAAAAAAAG
1 AAAAAAAAAAG
101051084 AAAAAAAAAAG
1 AAAAAAAAAAG
101051095 AAA
1 AAA
101051098 CTTCAAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:101053703 original size:14 final size:14
Alignment explanation
Indices: 101053663--101053703 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
101053653 GGTTAATGAT
101053663 TTAATATAAATATAA
1 TTAATAT-AATATAA
101053678 TTGAATAT-ATATAA
1 TT-AATATAATATAA
101053692 TTAATATAATAT
1 TTAATATAATAT
101053704 TTTTTATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 5 0.21
14 12 0.50
15 2 0.08
16 5 0.21
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (14 bp):
TTAATATAATATAA
Found at i:101056828 original size:18 final size:19
Alignment explanation
Indices: 101056791--101056828 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
101056781 ATCGAATTGA
* *
101056791 TGAATCTTATTTTAATAAT
1 TGAATCTTAATTTAAAAAT
101056810 TGAAT-TTAATTTAAAAAT
1 TGAATCTTAATTTAAAAAT
101056828 T
1 T
101056829 TTTCAAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (19 bp):
TGAATCTTAATTTAAAAAT
Found at i:101058937 original size:15 final size:16
Alignment explanation
Indices: 101058902--101058940 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
101058892 TATAATATTA
101058902 TTAATAATTAATAAATGT
1 TTAAT-ATTAATAAA-GT
101058920 TTAATATTAATAAA-T
1 TTAATATTAATAAAGT
101058935 TTAATA
1 TTAATA
101058941 ATTCTCAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.33
17 9 0.43
18 5 0.24
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (16 bp):
TTAATATTAATAAAGT
Found at i:101060187 original size:32 final size:32
Alignment explanation
Indices: 101060150--101060215 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
101060140 ATTATAATCC
*
101060150 AATTAAGATAGGTGAAATAATAGCAGAATAGT
1 AATTAAGATAGGTGAAATAATAGCAAAATAGT
* *
101060182 AATTAAGATAGGTGAAATGATAGTAAAATAGT
1 AATTAAGATAGGTGAAATAATAGCAAAATAGT
101060214 AA
1 AA
101060216 AAAAAAAGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.52, C:0.02, G:0.21, T:0.26
Consensus pattern (32 bp):
AATTAAGATAGGTGAAATAATAGCAAAATAGT
Found at i:101063515 original size:44 final size:43
Alignment explanation
Indices: 101063466--101063876 Score: 202
Period size: 44 Copynumber: 9.5 Consensus size: 43
101063456 ATCTACTCTG
*
101063466 CTGTAA-CTTCAGAGAGATAAGATCCTTCATTTTAATCCGCTCCA
1 CTGTAATC-TCAGAGAGATAAGAT-CTTCATTTTAATCTGCTCCA
* * * * **
101063510 CTGTAATCTCAGGGAGATAGGAT-TACTAGCTTTAATCTGCTCTG
1 CTGTAATCTCAGAGAGATAAGATCTTC-A-TTTTAATCTGCTCCA
* ** * *
101063554 CTGTAATCTCA-AGGAGATAAGATCTGACA---CGATCTACTCTA
1 CTGTAATCTCAGA-GAGATAAGATCT-TCATTTTAATCTGCTCCA
* *
101063595 CTGTAA-CTTCAGAGAGATAAGATCCTTCGTTTTAATCCGCTCCA
1 CTGTAATC-TCAGAGAGATAAGAT-CTTCATTTTAATCTGCTCCA
* * * * * *
101063639 CTGTAATATCAGGGAGATAGGAT-TACTATCTTCAATCTGCTCCG
1 CTGTAATCTCAGAGAGATAAGATCTTC-AT-TTTAATCTGCTCCA
* * *** * *
101063683 CTGTAATCTCAGGGAGATAAGATC-TGA--ACGATCTACTCTA
1 CTGTAATCTCAGAGAGATAAGATCTTCATTTTAATCTGCTCCA
* *
101063723 CTGTAA-CTTCAGAGAGATAAGATCCTTCGTTTTAATCCGCTCCA
1 CTGTAATC-TCAGAGAGATAAGAT-CTTCATTTTAATCTGCTCCA
* * * * * *
101063767 CTGTAATATCAGGGAGATAGGAT-TACTATCTTCAATCTGCTCCG
1 CTGTAATCTCAGAGAGATAAGATCTTC-AT-TTTAATCTGCTCCA
* ** ** *
101063811 CTGTAATCTCAGGGAGATAAGATCTGAAATTCTTGGTCTGTTCCA
1 CTGTAATCTCAGAGAGATAAGATCT-TCATT-TTAATCTGCTCCA
*
101063856 CTGTAATCTCAGGGA-ATAAGA
1 CTGTAATCTCAGAGAGATAAGA
101063877 CATGTATAAT
Statistics
Matches: 278, Mismatches: 62, Indels: 54
0.71 0.16 0.14
Matches are distributed among these distances:
39 1 0.00
40 29 0.10
41 29 0.10
42 10 0.04
43 4 0.01
44 173 0.62
45 29 0.10
46 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (43 bp):
CTGTAATCTCAGAGAGATAAGATCTTCATTTTAATCTGCTCCA
Found at i:101063838 original size:128 final size:129
Alignment explanation
Indices: 101063421--101063837 Score: 746
Period size: 129 Copynumber: 3.2 Consensus size: 129
101063411 TTCAGTCTAT
* * *
101063421 TCCGCTGTAATCTCAGGGAAATAAGACCTGACACGATCTACTCTGCTGTAACTTCAGAGAGATAA
1 TCCGCTGTAATCTCAGGGAGATAAGATCTGACACGATCTACTCTACTGTAACTTCAGAGAGATAA
* * * *
101063486 GATCCTTCATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTTAATCTGC
66 GATCCTTCGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTCAATCTGC
* *
101063550 TCTGCTGTAATCTCAAGGAGATAAGATCTGACACGATCTACTCTACTGTAACTTCAGAGAGATAA
1 TCCGCTGTAATCTCAGGGAGATAAGATCTGACACGATCTACTCTACTGTAACTTCAGAGAGATAA
101063615 GATCCTTCGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTCAATCTGC
66 GATCCTTCGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTCAATCTGC
101063679 TCCGCTGTAATCTCAGGGAGATAAGATCTGA-ACGATCTACTCTACTGTAACTTCAGAGAGATAA
1 TCCGCTGTAATCTCAGGGAGATAAGATCTGACACGATCTACTCTACTGTAACTTCAGAGAGATAA
101063743 GATCCTTCGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTCAATCTGC
66 GATCCTTCGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTCAATCTGC
101063807 TCCGCTGTAATCTCAGGGAGATAAGATCTGA
1 TCCGCTGTAATCTCAGGGAGATAAGATCTGA
101063838 AATTCTTGGT
Statistics
Matches: 277, Mismatches: 11, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
128 128 0.46
129 149 0.54
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (129 bp):
TCCGCTGTAATCTCAGGGAGATAAGATCTGACACGATCTACTCTACTGTAACTTCAGAGAGATAA
GATCCTTCGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTCAATCTGC
Found at i:101083639 original size:39 final size:39
Alignment explanation
Indices: 101083585--101083663 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
101083575 CCAACATAAT
101083585 TGCCTTCGGAATTTAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGAATTTAGCCCGGATATAACACCAGCACGAA
* *
101083624 TGCCTTCGGGATTTAGCCCGGATATAACACTAGCACGAA
1 TGCCTTCGGAATTTAGCCCGGATATAACACCAGCACGAA
101083663 T
1 T
101083664 AACACCAGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (39 bp):
TGCCTTCGGAATTTAGCCCGGATATAACACCAGCACGAA
Found at i:101083694 original size:54 final size:54
Alignment explanation
Indices: 101083608--101083717 Score: 184
Period size: 54 Copynumber: 2.0 Consensus size: 54
101083598 TAGCCCGGAT
* * * *
101083608 ATAACACCAGCACGAATGCCTTCGGGATTTAGCCCGGATATAACACTAGCACGA
1 ATAACACCAGAACGAATGCCTTCGGGACTTAGCCCGAATATAACACCAGCACGA
101083662 ATAACACCAGAACGAATGCCTTCGGGACTTAGCCCGAATATAACACCAGCACGA
1 ATAACACCAGAACGAATGCCTTCGGGACTTAGCCCGAATATAACACCAGCACGA
101083716 AT
1 AT
101083718 GCCTTTGGGA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.17
Consensus pattern (54 bp):
ATAACACCAGAACGAATGCCTTCGGGACTTAGCCCGAATATAACACCAGCACGA
Found at i:101083716 original size:39 final size:39
Alignment explanation
Indices: 101083662--101083743 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
101083652 ACTAGCACGA
101083662 ATAACACCAGAACGAATGCCTTCGGGACTTAGCCCGAAT
1 ATAACACCAGAACGAATGCCTTCGGGACTTAGCCCGAAT
* * *
101083701 ATAACACCAGCACGAATGCCTTTGGGACTTAGCCCGGAT
1 ATAACACCAGAACGAATGCCTTCGGGACTTAGCCCGAAT
101083740 ATAA
1 ATAA
101083744 ATCTCACACA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.20
Consensus pattern (39 bp):
ATAACACCAGAACGAATGCCTTCGGGACTTAGCCCGAAT
Found at i:101086538 original size:20 final size:20
Alignment explanation
Indices: 101086502--101086541 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
101086492 TCCTATTGTT
101086502 GTTTTGTTACTGTTTGCTGC
1 GTTTTGTTACTGTTTGCTGC
*
101086522 GTTTCTGTTTCTG-TTGCTGC
1 GTTT-TGTTACTGTTTGCTGC
101086542 TTCCGTCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.03, C:0.17, G:0.25, T:0.55
Consensus pattern (20 bp):
GTTTTGTTACTGTTTGCTGC
Found at i:101096763 original size:7 final size:7
Alignment explanation
Indices: 101096751--101096777 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
101096741 ACCATAAAAC
101096751 AAAAATG
1 AAAAATG
101096758 AAAAATG
1 AAAAATG
101096765 AAAAATG
1 AAAAATG
101096772 AAAAAT
1 AAAAAT
101096778 ACAAATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:101097760 original size:13 final size:13
Alignment explanation
Indices: 101097742--101097766 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101097732 GTGGAACATT
101097742 GAAAAGAAGAAAA
1 GAAAAGAAGAAAA
101097755 GAAAAGAAGAAA
1 GAAAAGAAGAAA
101097767 CTAAATAATC
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:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
GAAAAGAAGAAAA
Found at i:101103548 original size:12 final size:11
Alignment explanation
Indices: 101103529--101103559 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
101103519 CGTATAACTC
101103529 TTATTTTATTA
1 TTATTTTATTA
101103540 TTAATTTTATTA
1 TT-ATTTTATTA
101103552 TTATTTTA
1 TTATTTTA
101103560 GTGACATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:101104976 original size:3 final size:3
Alignment explanation
Indices: 101104968--101104996 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
101104958 AAGCAAAATA
101104968 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
101104997 AAGGTATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:101106848 original size:5 final size:5
Alignment explanation
Indices: 101106838--101106875 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
101106828 AATTTGTGTG
*
101106838 TTATT TTATT TTTTCT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT TT
101106876 TTTCACAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:101107124 original size:40 final size:40
Alignment explanation
Indices: 101107079--101107157 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
101107069 AGATGAAGAG
101107079 AAGAAGCGTAAGGATCGAAAGGCGTTAACACAATTACATA
1 AAGAAGCGTAAGGATCGAAAGGCGTTAACACAATTACATA
101107119 AAGAAGCGTAAGGATCGAAAGGCGTTAACACAATTACAT
1 AAGAAGCGTAAGGATCGAAAGGCGTTAACACAATTACAT
101107158 CTGCATTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.18
Consensus pattern (40 bp):
AAGAAGCGTAAGGATCGAAAGGCGTTAACACAATTACATA
Found at i:101112982 original size:25 final size:25
Alignment explanation
Indices: 101112954--101113032 Score: 60
Period size: 25 Copynumber: 3.3 Consensus size: 25
101112944 CGAATGGCCA
101112954 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * * *
101112979 ATGTG-TTAAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
101113001 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
*
101113026 GTGTGAT
1 ATGTGAT
101113033 AAGGCCGAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 14
0.62 0.15 0.23
Matches are distributed among these distances:
22 6 0.16
23 10 0.26
24 10 0.26
25 12 0.32
ACGTcount: A:0.32, C:0.10, G:0.28, T:0.30
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:101112997 original size:47 final size:47
Alignment explanation
Indices: 101112928--101113053 Score: 207
Period size: 47 Copynumber: 2.7 Consensus size: 47
101112918 TTTTATGTGT
*
101112928 ATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
*
101112975 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* * *
101113022 ATATGTGTGATAAGGCCGAATGACTAATGTGA
1 ATATATGTGATAAGGCCGAATGGCCAATGTGA
101113054 AACATGTATG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
Found at i:101113090 original size:48 final size:48
Alignment explanation
Indices: 101113022--101113157 Score: 218
Period size: 48 Copynumber: 2.8 Consensus size: 48
101113012 GTGAACATGC
* * * *
101113022 ATATGTGTGATAAGGCCGAATGACTAATGTGAAACATGTATGAGATATGT
1 ATATGTG-G-TAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGT
101113072 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGT
101113120 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
101113158 GGCGATGTGC
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
48 74 0.90
49 1 0.01
50 7 0.09
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (48 bp):
ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGT
Found at i:101113412 original size:37 final size:37
Alignment explanation
Indices: 101113304--101113412 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
101113294 GGAAATATAT
*
101113304 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
101113341 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
101113378 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
101113413 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:101116167 original size:16 final size:16
Alignment explanation
Indices: 101116148--101116184 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
101116138 TTTTAATAAT
101116148 TTAAATTT-AAATTTGG
1 TTAAATTTCAAA-TTGG
101116164 TTAAATTTCAAATTGG
1 TTAAATTTCAAATTGG
101116180 TTAAA
1 TTAAA
101116185 CCAATTTCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.41, C:0.03, G:0.11, T:0.46
Consensus pattern (16 bp):
TTAAATTTCAAATTGG
Found at i:101121743 original size:30 final size:30
Alignment explanation
Indices: 101121709--101121768 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
101121699 TGAAAAAGAA
101121709 GGAGCCATTTGTTGACAATAATGCCTATAC
1 GGAGCCATTTGTTGACAATAATGCCTATAC
101121739 GGAGCCATTTGTTGACAATAATGCCTATAC
1 GGAGCCATTTGTTGACAATAATGCCTATAC
101121769 TTTTATTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (30 bp):
GGAGCCATTTGTTGACAATAATGCCTATAC
Found at i:101122992 original size:18 final size:18
Alignment explanation
Indices: 101122950--101122998 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
101122940 ACTTTCATTC
101122950 TTTTATTACTATTGTTGT
1 TTTTATTACTATTGTTGT
** * *
101122968 TGCTATTTCTCTTGTTGT
1 TTTTATTACTATTGTTGT
*
101122986 TTTTATTATTATT
1 TTTTATTACTATT
101122999 TATATTATTG
Statistics
Matches: 22, Mismatches: 9, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.14, C:0.08, G:0.10, T:0.67
Consensus pattern (18 bp):
TTTTATTACTATTGTTGT
Found at i:101122994 original size:3 final size:3
Alignment explanation
Indices: 101122988--101123144 Score: 83
Period size: 3 Copynumber: 52.3 Consensus size: 3
101122978 CTTGTTGTTT
* * * *
101122988 TTA TTA TTA TT- TATA TTA TTG TTA GTA TTA TTA TTA TTCC TTA GT-
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA
* * *
101123033 TTA TTA TTA TTA TTA TT- TTA TCA TTA TTT TCTA TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * * * * * *
101123078 TCA ATA -CA CTA TTA TTA TTC TTA TTAA TGTA TTA CTA TTA TTT TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TTA T-TA
*
101123125 CT- TTA TTA TTA TTA -TA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
101123145 AACTATTGCT
Statistics
Matches: 114, Mismatches: 28, Indels: 24
0.69 0.17 0.14
Matches are distributed among these distances:
2 8 0.07
3 95 0.83
4 10 0.09
5 1 0.01
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:101123076 original size:30 final size:29
Alignment explanation
Indices: 101122986--101123078 Score: 96
Period size: 30 Copynumber: 3.0 Consensus size: 29
101122976 CTCTTGTTGT
* *
101122986 TTTTATTATTATTTATATTATTGTTAGTA
1 TTTTATTATTATTTTTATTATTGTTATTA
* *
101123015 TTATTATTATTCCTTAGTTTATTATTATTATTA
1 TT-TTATTATT-ATT--TTTATTATTGTTATTA
*
101123048 TTTTATCATTATTTTCTATTATTGTTATTA
1 TTTTATTATTATTTT-TATTATTGTTATTA
101123078 T
1 T
101123079 CAATACACTA
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
29 4 0.08
30 22 0.42
31 4 0.08
32 7 0.13
33 15 0.29
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (29 bp):
TTTTATTATTATTTTTATTATTGTTATTA
Found at i:101124307 original size:127 final size:127
Alignment explanation
Indices: 101124081--101124452 Score: 453
Period size: 127 Copynumber: 2.9 Consensus size: 127
101124071 GTCGACTTTG
* * * *
101124081 TAAAACAAAGGTGAAGTTTGATGTTTAGAAATTCGAGGGATCATGCCCTAATGTGTTGGGTTTCG
1 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGGAATCATGCCCTAATGTGCTGGGTTTCG
* *
101124146 ATCTTTTGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCGTTT-TCTAAACCT
66 ATCTTTTGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCATTTAT-TAAACCT
* * *
101124208 TAAAACAAAGGCGATGTTTGATATCTAGAAATTCGAGGAATCATGCCCTAATATGCTGGGTTTCG
1 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGGAATCATGCCCTAATGTGCTGGGTTTCG
* * * * *
101124273 ATCTTTCGTTTGTCTAAATAATCAGATTTCCCTTTTAAACTTCGTCCGCATTTATTAAACTT
66 ATCTTTTGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCATTTATTAAACCT
* * * * * * *
101124335 TAAGACAAAAGCGATGATTGATGTTTGGGAATTCG-GGAAATCGTGCCCTAATGTGCTGAGTTTC
1 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGG-AATCATGCCCTAATGTGCTGGGTTTC
* * ** * *
101124399 GAT-TTCTTGTTTATCCAAATAATCAAACATCCCTTTAAAATTCCGTCCACATTT
65 GATCTT-TTGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCATTT
101124453 TTCTTCAAAA
Statistics
Matches: 208, Mismatches: 34, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
126 4 0.02
127 203 0.98
128 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (127 bp):
TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGGAATCATGCCCTAATGTGCTGGGTTTCG
ATCTTTTGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCATTTATTAAACCT
Found at i:101129138 original size:21 final size:21
Alignment explanation
Indices: 101129114--101129156 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
101129104 AGATTTAATT
*
101129114 AAAATTTCTAAAAA-TTTCAAA
1 AAAATATC-AAAAATTTTCAAA
101129135 AAAATATCAAAAATTTTCAAA
1 AAAATATCAAAAATTTTCAAA
101129156 A
1 A
101129157 TTTGGGGGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAATATCAAAAATTTTCAAA
Found at i:101130902 original size:3 final size:3
Alignment explanation
Indices: 101130894--101130941 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
101130884 AGCCCTTTTA
* * *
101130894 TTC TTC TTCC TT- TTC TTT TTC CTC ATC TTC TTC TTC TTC TTC TTC
1 TTC TTC TT-C TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
101130939 TTC
1 TTC
101130942 ACTTCATCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:101132394 original size:2 final size:2
Alignment explanation
Indices: 101132387--101132413 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
101132377 ATCCCCCTTT
101132387 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
101132414 TTAGATCAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:101134232 original size:19 final size:19
Alignment explanation
Indices: 101134191--101134232 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
101134181 TATTTCATAC
*
101134191 CTTTCATATCCAATTTCAA
1 CTTTCATATCCAAATTCAA
101134210 -TTTCA-ATCCACAATTCAA
1 CTTTCATATCCA-AATTCAA
101134228 CTTTC
1 CTTTC
101134233 TCATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (19 bp):
CTTTCATATCCAAATTCAA
Found at i:101134442 original size:21 final size:21
Alignment explanation
Indices: 101134418--101134458 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
101134408 CAAAAGCAGT
101134418 ATACGACACATA-AAGTGCCTA
1 ATACGACACATATAA-TGCCTA
101134439 ATACGACACATATAATGCCT
1 ATACGACACATATAATGCCT
101134459 GATCGGCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.22
Consensus pattern (21 bp):
ATACGACACATATAATGCCTA
Found at i:101134940 original size:17 final size:18
Alignment explanation
Indices: 101134906--101134941 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
101134896 TGAATTTCTA
101134906 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
101134924 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
101134941 T
1 T
101134942 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:101135931 original size:3 final size:3
Alignment explanation
Indices: 101135918--101135998 Score: 60
Period size: 3 Copynumber: 27.0 Consensus size: 3
101135908 ATTTTATTTT
* * *
101135918 ATA AT- ATA ATA ATA TTA ATA AT- ATA ATTA ATA ATA TTT A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
* * *
101135961 GAAA ATC ATA ATA ATA ATTA ATA ATA ATT ATA ATA ATA
1 -ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
101135999 GATTAATAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
2 5 0.08
3 47 0.78
4 8 0.13
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:101137545 original size:23 final size:23
Alignment explanation
Indices: 101137515--101137571 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
101137505 CGAAGTGCCA
101137515 TTCACTTGCACCATAATGCCACT
1 TTCACTTGCACCATAATGCCACT
*** *
101137538 TTCACTTGCATTGTAGTGCCACT
1 TTCACTTGCACCATAATGCCACT
*
101137561 ATCACTTGCAC
1 TTCACTTGCAC
101137572 ATTTAGTGTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.23, C:0.32, G:0.12, T:0.33
Consensus pattern (23 bp):
TTCACTTGCACCATAATGCCACT
Found at i:101138097 original size:18 final size:19
Alignment explanation
Indices: 101138063--101138098 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
101138053 TATTATTTAT
101138063 TATAATTATTAAATTAAAA
1 TATAATTATTAAATTAAAA
*
101138082 TATATTTATT-AATTAAA
1 TATAATTATTAAATTAAA
101138099 TTACTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TATAATTATTAAATTAAAA
Found at i:101139495 original size:17 final size:17
Alignment explanation
Indices: 101139473--101139512 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
101139463 ATAATATATA
* *
101139473 AAAATATCATATGGAGT
1 AAAATATAATATGGAAT
*
101139490 AAAATATAATATGTAAT
1 AAAATATAATATGGAAT
101139507 AAAATA
1 AAAATA
101139513 ATATGAAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (17 bp):
AAAATATAATATGGAAT
Found at i:101139714 original size:25 final size:28
Alignment explanation
Indices: 101139663--101139716 Score: 69
Period size: 30 Copynumber: 2.0 Consensus size: 28
101139653 TTTAATTAAT
101139663 ACAATATAAATAATACATATGCCATATAAA
1 ACAATATAAATAATA-ATATG-CATATAAA
101139693 ACAATAT-AATAAT-ATATG-ATATAA
1 ACAATATAAATAATAATATGCATATAA
101139717 TGGATTTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 6 0.25
27 5 0.21
29 6 0.25
30 7 0.29
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (28 bp):
ACAATATAAATAATAATATGCATATAAA
Found at i:101140961 original size:17 final size:17
Alignment explanation
Indices: 101140939--101140971 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
101140929 GTATTTGGGC
101140939 TTGGGT-GTAACCGGGTT
1 TTGGGTAGTAA-CGGGTT
101140956 TTGGGTAGTAACGGGT
1 TTGGGTAGTAACGGGT
101140972 CTGCCGGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.15, C:0.09, G:0.42, T:0.33
Consensus pattern (17 bp):
TTGGGTAGTAACGGGTT
Found at i:101142241 original size:18 final size:18
Alignment explanation
Indices: 101142218--101142254 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
101142208 TTTGTGATCA
101142218 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
*
101142236 AAATTGAAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
101142254 A
1 A
101142255 TAAGAATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:101142243 original size:12 final size:12
Alignment explanation
Indices: 101142218--101142254 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
101142208 TTTGTGATCA
101142218 AAATTGAAAGTG
1 AAATTGAAAGTG
* *
101142230 AAAGTGAAATTG
1 AAATTGAAAGTG
101142242 AAATTGAAAGTG
1 AAATTGAAAGTG
101142254 A
1 A
101142255 TAAGAATTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (12 bp):
AAATTGAAAGTG
Found at i:101148365 original size:19 final size:19
Alignment explanation
Indices: 101148341--101148378 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
101148331 CCTTCCAAAA
101148341 CATACAAAGCGGCCACCTT
1 CATACAAAGCGGCCACCTT
*
101148360 CATACAAAGCGGCCGCCTT
1 CATACAAAGCGGCCACCTT
101148379 TGCATATGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.37, G:0.18, T:0.16
Consensus pattern (19 bp):
CATACAAAGCGGCCACCTT
Found at i:101148772 original size:20 final size:20
Alignment explanation
Indices: 101148734--101148781 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
101148724 TAAATTCTAA
**
101148734 AAAGATAAATACATTTAATT
1 AAAGATAAATACAGATAATT
*
101148754 AAAGATAAATAGAGATAATT
1 AAAGATAAATACAGATAATT
101148774 AAA-ATAAA
1 AAAGATAAA
101148782 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.27
Consensus pattern (20 bp):
AAAGATAAATACAGATAATT
Found at i:101149441 original size:11 final size:11
Alignment explanation
Indices: 101149425--101149449 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
101149415 AATTAATATA
101149425 TAAAATATTTT
1 TAAAATATTTT
101149436 TAAAATATTTT
1 TAAAATATTTT
101149447 TAA
1 TAA
101149450 TAAATTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TAAAATATTTT
Found at i:101151145 original size:30 final size:30
Alignment explanation
Indices: 101151111--101151208 Score: 111
Period size: 30 Copynumber: 3.5 Consensus size: 30
101151101 GCAATATAGG
101151111 AGGAAGTGGTGGAAGAACGGTGGTAGGGTT
1 AGGAAGTGGTGGAAGAACGGTGGTAGGGTT
* *
101151141 AGGAAGTGGT-G--GAA--TTGGTA--CTAT
1 AGGAAGTGGTGGAAGAACGGTGGTAGGGT-T
*
101151165 GGGAAGTGGTGGAAGAACGGTGGTAGGGTT
1 AGGAAGTGGTGGAAGAACGGTGGTAGGGTT
101151195 AGGAAGTGGTGGAA
1 AGGAAGTGGTGGAA
101151209 TTGGTAATCT
Statistics
Matches: 54, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
23 1 0.02
24 10 0.19
25 6 0.11
27 6 0.11
29 6 0.11
30 24 0.44
31 1 0.02
ACGTcount: A:0.28, C:0.03, G:0.48, T:0.21
Consensus pattern (30 bp):
AGGAAGTGGTGGAAGAACGGTGGTAGGGTT
Found at i:101151175 original size:54 final size:54
Alignment explanation
Indices: 101151112--101151288 Score: 282
Period size: 54 Copynumber: 3.3 Consensus size: 54
101151102 CAATATAGGA
* * *
101151112 GGAAGTGGTGGAAGAACGGTGGTAGGGTTAGGAAGTGGTGGAATTGGTACTATG
1 GGAAGTGGCGGAAGAACGGTGGTAGGGTTAGGAAGTGGTGGAATTGGTAATCTG
*
101151166 GGAAGTGGTGGAAGAACGGTGGTAGGGTTAGGAAGTGGTGGAATTGGTAATCTG
1 GGAAGTGGCGGAAGAACGGTGGTAGGGTTAGGAAGTGGTGGAATTGGTAATCTG
* ** *
101151220 GGGAGTGGCGGAAGAACAATGGTAGGGTTAGGAAGCGGTGGAATTGGTAATCTG
1 GGAAGTGGCGGAAGAACGGTGGTAGGGTTAGGAAGTGGTGGAATTGGTAATCTG
101151274 GGAAGTGGCGGAAGA
1 GGAAGTGGCGGAAGA
101151289 TTAGGAAGTG
Statistics
Matches: 115, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 115 1.00
ACGTcount: A:0.27, C:0.05, G:0.46, T:0.21
Consensus pattern (54 bp):
GGAAGTGGCGGAAGAACGGTGGTAGGGTTAGGAAGTGGTGGAATTGGTAATCTG
Found at i:101151297 original size:18 final size:18
Alignment explanation
Indices: 101151274--101151360 Score: 147
Period size: 18 Copynumber: 4.8 Consensus size: 18
101151264 TGGTAATCTG
101151274 GGAAGTGGCGGAAGATTA
1 GGAAGTGGCGGAAGATTA
101151292 GGAAGTGGCGGAAGATTA
1 GGAAGTGGCGGAAGATTA
*
101151310 GGAAGTGGTGGAAGATTA
1 GGAAGTGGCGGAAGATTA
*
101151328 GGAAGTGGCGGAAGGTTA
1 GGAAGTGGCGGAAGATTA
*
101151346 GGAAGTGGTGGAAGA
1 GGAAGTGGCGGAAGA
101151361 ACAACGATAG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.32, C:0.03, G:0.47, T:0.17
Consensus pattern (18 bp):
GGAAGTGGCGGAAGATTA
Found at i:101152999 original size:21 final size:20
Alignment explanation
Indices: 101152947--101153001 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
101152937 AAAAAAACGA
* *
101152947 AAATACAAAAGAATATCAAC
1 AAATTCAAAAAAATATCAAC
* *
101152967 AAATTCAGAAAAATATCAAAT
1 AAATTCAAAAAAATATC-AAC
*
101152988 AAATTTAAAAAAAT
1 AAATTCAAAAAAAT
101153002 GGAAAGCTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.65, C:0.09, G:0.04, T:0.22
Consensus pattern (20 bp):
AAATTCAAAAAAATATCAAC
Found at i:101153482 original size:24 final size:24
Alignment explanation
Indices: 101153431--101153484 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
101153421 AATAAATTAT
* * *
101153431 ATTTTATTTATATTTTAAATGAAT
1 ATTTTACTTATATTTTAAATAAAA
**
101153455 ATTTTACTTATATTTTCTATAAAA
1 ATTTTACTTATATTTTAAATAAAA
101153479 ATTTTA
1 ATTTTA
101153485 TACAAGCCTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (24 bp):
ATTTTACTTATATTTTAAATAAAA
Found at i:101153531 original size:21 final size:21
Alignment explanation
Indices: 101153493--101153533 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
101153483 TATACAAGCC
*
101153493 TAAATTAATCATATTCAATAA
1 TAAATTAATAATATTCAATAA
101153514 TAAATTAAATAATA-TCAATA
1 TAAATT-AATAATATTCAATA
101153534 TCAATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAATTAATAATATTCAATAA
Found at i:101155331 original size:42 final size:42
Alignment explanation
Indices: 101155275--101155364 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
101155265 AACATGTTTT
* * *
101155275 AAAACATAGACTTGCATAGGAGCATGCGTAAAACATATCTTC
1 AAAACACAGACTTGCATAGGAGCATGCATAAAACATATATTC
* *
101155317 AAAACACAGGCTTGCATAGGAGCATGCATAAAACATATATTT
1 AAAACACAGACTTGCATAGGAGCATGCATAAAACATATATTC
101155359 AAAACA
1 AAAACA
101155365 TAGCTTAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.22
Consensus pattern (42 bp):
AAAACACAGACTTGCATAGGAGCATGCATAAAACATATATTC
Found at i:101155363 original size:13 final size:13
Alignment explanation
Indices: 101155345--101155390 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
101155335 GGAGCATGCA
*
101155345 TAAAACATATATT
1 TAAAACATATCTT
*
101155358 TAAAACATAGCTT
1 TAAAACATATCTT
*
101155371 AAAAACATATCTT
1 TAAAACATATCTT
*
101155384 GAAAACA
1 TAAAACA
101155391 GAGTATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.54, C:0.13, G:0.04, T:0.28
Consensus pattern (13 bp):
TAAAACATATCTT
Found at i:101155401 original size:26 final size:26
Alignment explanation
Indices: 101155345--101155402 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
101155335 GGAGCATGCA
* *
101155345 TAAAACATATATTTAAAACATAGCTT
1 TAAAACATATATTGAAAACAGAGCTT
* *
101155371 AAAAACATATCTTGAAAACAGAG-TAT
1 TAAAACATATATTGAAAACAGAGCT-T
101155397 TAAAAC
1 TAAAAC
101155403 TTTAAAAAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (26 bp):
TAAAACATATATTGAAAACAGAGCTT
Found at i:101158622 original size:20 final size:18
Alignment explanation
Indices: 101158580--101158622 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
101158570 TTCAATCAAA
* *
101158580 ATTTTGTTGTGTTTGATT
1 ATTTTGGTGTGTTTGACT
101158598 ATTTTGGTGTGTTTCGACCT
1 ATTTTGGTGTGTTT-GA-CT
101158618 ATTTT
1 ATTTT
101158623 TGTCAATATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 13 0.62
19 2 0.10
20 6 0.29
ACGTcount: A:0.12, C:0.07, G:0.21, T:0.60
Consensus pattern (18 bp):
ATTTTGGTGTGTTTGACT
Found at i:101158947 original size:19 final size:19
Alignment explanation
Indices: 101158919--101158966 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
101158909 TTATAAAATT
*
101158919 ATATAAAAATGA-A-AAAA
1 ATATATAAATGATACAAAA
101158936 ATTAGTATAAATGATACAAAA
1 A-TA-TATAAATGATACAAAA
101158957 ATATATAAAT
1 ATATATAAAT
101158967 TATTAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 1 0.04
18 2 0.08
19 15 0.58
20 3 0.12
21 5 0.19
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (19 bp):
ATATATAAATGATACAAAA
Found at i:101158975 original size:19 final size:19
Alignment explanation
Indices: 101158925--101158977 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
101158915 AATTATATAA
101158925 AAATGA-AAAAAATTAGTAT
1 AAATGATAAAAAA-TAGTAT
101158944 AAATGATACAAAAATA-TAT
1 AAATGATA-AAAAATAGTAT
*
101158963 AAATTATTAAAAAAT
1 AAATGA-TAAAAAAT
101158978 TGAAAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 20 0.67
20 5 0.17
21 5 0.17
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (19 bp):
AAATGATAAAAAATAGTAT
Found at i:101159040 original size:14 final size:14
Alignment explanation
Indices: 101158997--101159041 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 14
101158987 TTAAAAAAGC
101158997 TTAAAATAATAATAAA
1 TTAAAA-AAT-ATAAA
*
101159013 TTAAATATATATAAA
1 TTAAA-AAATATAAA
101159028 TTAAAAAATATAAA
1 TTAAAAAATATAAA
101159042 AATGTAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 8 0.31
15 10 0.38
16 7 0.27
17 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TTAAAAAATATAAA
Found at i:101159044 original size:16 final size:16
Alignment explanation
Indices: 101158999--101159050 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
101158989 AAAAAAGCTT
101158999 AAAATAATAATAAATT-A
1 AAAAT-ATAA-AAATTAA
* *
101159016 AATATATATAAATTAA
1 AAAATATAAAAATTAA
101159032 AAAATATAAAAATGTAA
1 AAAATATAAAAAT-TAA
101159049 AA
1 AA
101159051 GAATGTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 5 0.17
16 15 0.52
17 9 0.31
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (16 bp):
AAAATATAAAAATTAA
Found at i:101159845 original size:18 final size:17
Alignment explanation
Indices: 101159818--101159854 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
101159808 GTATTACGCT
*
101159818 ATTATTAATTCGGTTAA
1 ATTATTAATTCAGTTAA
101159835 ATTAGTTAATTCAGTTAA
1 ATTA-TTAATTCAGTTAA
101159853 AT
1 AT
101159855 GAACATTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.46
Consensus pattern (17 bp):
ATTATTAATTCAGTTAA
Found at i:101162495 original size:51 final size:51
Alignment explanation
Indices: 101162419--101162519 Score: 175
Period size: 51 Copynumber: 2.0 Consensus size: 51
101162409 AGACTTTGTC
*
101162419 GTCCTCACTAATGTTGGCCACTGCCCTCAGGTTTGCTCTCTCATGAAACTA
1 GTCCTCACCAATGTTGGCCACTGCCCTCAGGTTTGCTCTCTCATGAAACTA
* *
101162470 GTCCTCCCCAATGTTGGCCACTGCCCTCAGGTTTGCTCTTTCATGAAACT
1 GTCCTCACCAATGTTGGCCACTGCCCTCAGGTTTGCTCTCTCATGAAACT
101162520 TTGGTTCGGC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.18, C:0.33, G:0.18, T:0.32
Consensus pattern (51 bp):
GTCCTCACCAATGTTGGCCACTGCCCTCAGGTTTGCTCTCTCATGAAACTA
Found at i:101168785 original size:26 final size:26
Alignment explanation
Indices: 101168756--101168863 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
101168746 TGATACAAAT
*
101168756 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
101168782 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
101168808 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
101168834 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
101168860 TGAT
1 TGAT
101168864 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:101171500 original size:46 final size:46
Alignment explanation
Indices: 101171447--101171622 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
101171437 TGGTTGAGCA
101171447 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
101171493 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
101171538 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
101171586 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
101171623 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:101171603 original size:93 final size:93
Alignment explanation
Indices: 101171444--101171615 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
101171434 GGATGGTTGA
* * *
101171444 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
101171509 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
101171537 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
101171602 TGAGTCTGAGTTCG
66 TGAGTCCGAGTTCG
101171616 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:101175264 original size:24 final size:24
Alignment explanation
Indices: 101175230--101175295 Score: 114
Period size: 24 Copynumber: 2.8 Consensus size: 24
101175220 ACTACAATGG
101175230 CGAGGAAGACAAACCTAAACCTGA
1 CGAGGAAGACAAACCTAAACCTGA
*
101175254 CTAGGAAGACAAACCTAAACCTGA
1 CGAGGAAGACAAACCTAAACCTGA
*
101175278 CGAGTAAGACAAACCTAA
1 CGAGGAAGACAAACCTAA
101175296 GCTAGATCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.47, C:0.24, G:0.18, T:0.11
Consensus pattern (24 bp):
CGAGGAAGACAAACCTAAACCTGA
Found at i:101175482 original size:3 final size:3
Alignment explanation
Indices: 101175474--101175510 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
101175464 TATTAAGTTG
* *
101175474 TTA TTA TTA TTA TTA CTA CTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
101175511 GTAATCTCGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:101175911 original size:12 final size:12
Alignment explanation
Indices: 101175882--101175927 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
101175872 TGATGTGGAA
101175882 ATTATTAATATT
1 ATTATTAATATT
*
101175894 AATATTAATATT
1 ATTATTAATATT
* *
101175906 GTTATTATTATT
1 ATTATTAATATT
101175918 ATTATGTAAT
1 ATTAT-TAAT
101175928 CTCCGTTGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
12 24 0.89
13 3 0.11
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (12 bp):
ATTATTAATATT
Found at i:101176010 original size:21 final size:21
Alignment explanation
Indices: 101175980--101176029 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
101175970 GTGGTATATG
101175980 GTTAGTCAAGTGGTTAGTATTT
1 GTTA-TCAAGTGGTTAGTATTT
*
101176002 GTTATCAAGTGGTTAGTGTTT
1 GTTATCAAGTGGTTAGTATTT
101176023 GTTATCA
1 GTTATCA
101176030 CTCACTAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.22, C:0.06, G:0.26, T:0.46
Consensus pattern (21 bp):
GTTATCAAGTGGTTAGTATTT
Found at i:101176403 original size:3 final size:3
Alignment explanation
Indices: 101176391--101176420 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
101176381 ATGCATTAAG
101176391 TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
101176421 GTAATCTCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:101176802 original size:3 final size:3
Alignment explanation
Indices: 101176794--101176819 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
101176784 TGGTGTGGAA
101176794 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
101176820 GTAATCTCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:101176906 original size:21 final size:21
Alignment explanation
Indices: 101176882--101176924 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
101176872 ATACGATTAG
101176882 TCAAGTGGTTAATATTTGTTA
1 TCAAGTGGTTAATATTTGTTA
* *
101176903 TCAAGTGGTTAGTGTTTGTTA
1 TCAAGTGGTTAATATTTGTTA
101176924 T
1 T
101176925 TACTCACTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.49
Consensus pattern (21 bp):
TCAAGTGGTTAATATTTGTTA
Found at i:101177171 original size:42 final size:42
Alignment explanation
Indices: 101177063--101177171 Score: 139
Period size: 42 Copynumber: 2.6 Consensus size: 42
101177053 ATGAAAAGGA
*
101177063 AAGAA-GGAAGCAGCACAGGGTCCTTAGAGATACTTGTAGGTG
1 AAGAAGGGAA-CAGCACAGGGTCCTTAGAGATACTTGCAGGTG
* *
101177105 AAGAAGGGAACAGCACATGATCCTTAGAGATACTTGCAGGTG
1 AAGAAGGGAACAGCACAGGGTCCTTAGAGATACTTGCAGGTG
* ** *
101177147 AAGAATGGAGTAGCACGGGGTCCTT
1 AAGAAGGGAACAGCACAGGGTCCTT
101177172 TTCAAGTAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 53 0.93
43 4 0.07
ACGTcount: A:0.33, C:0.16, G:0.32, T:0.19
Consensus pattern (42 bp):
AAGAAGGGAACAGCACAGGGTCCTTAGAGATACTTGCAGGTG
Found at i:101177309 original size:63 final size:64
Alignment explanation
Indices: 101177238--101177368 Score: 228
Period size: 63 Copynumber: 2.0 Consensus size: 64
101177228 AATTGATGGA
* *
101177238 ATTAATAATTTAAAAGATATTAATAAATGGGAAAGT-AAAAAATTGTTTTGATGATGATATGTT
1 ATTAATAATTTAAAAGATATTAATAAATAGGAAAGTAAAAAAATTGTTTTGATGATGATACGTT
101177301 ATTAATAATTTAAAAGATATTAATAAATAGGAAAGTAAAAAAAATTGTTTTGATGATGATACGTT
1 ATTAATAATTTAAAAGATATTAATAAATAGGAAAGT-AAAAAAATTGTTTTGATGATGATACGTT
101177366 ATT
1 ATT
101177369 TTATTATTAT
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
63 35 0.55
65 29 0.45
ACGTcount: A:0.47, C:0.01, G:0.15, T:0.37
Consensus pattern (64 bp):
ATTAATAATTTAAAAGATATTAATAAATAGGAAAGTAAAAAAATTGTTTTGATGATGATACGTT
Found at i:101177788 original size:3 final size:3
Alignment explanation
Indices: 101177780--101177805 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
101177770 TGGTGTGGAA
101177780 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
101177806 GTAATCTCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:101177892 original size:21 final size:21
Alignment explanation
Indices: 101177863--101177912 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
101177853 CTGATATATG
101177863 GTTAGTCAAGTCGTTAGTATTT
1 GTTA-TCAAGTCGTTAGTATTT
* *
101177885 GTTATCAAGTGGTTAGTGTTT
1 GTTATCAAGTCGTTAGTATTT
101177906 GTTATCA
1 GTTATCA
101177913 CTCACTAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.22, C:0.08, G:0.24, T:0.46
Consensus pattern (21 bp):
GTTATCAAGTCGTTAGTATTT
Found at i:101178111 original size:42 final size:42
Alignment explanation
Indices: 101178049--101178141 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
101178039 ACGAAAAGGA
* * *
101178049 AAGAAGGGAGCAACATAAGGTCCTTAGAGATACTTGCAGGTG
1 AAGAAGGGAACAACACAAGGTCCTTAGAGATACTTGCAAGTG
* *
101178091 AATAAGGGAACAACACAAGGTTCTTAGAGATACTTGCAAGTG
1 AAGAAGGGAACAACACAAGGTCCTTAGAGATACTTGCAAGTG
101178133 AAGAAGGGA
1 AAGAAGGGA
101178142 GCAGCACAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.40, C:0.13, G:0.29, T:0.18
Consensus pattern (42 bp):
AAGAAGGGAACAACACAAGGTCCTTAGAGATACTTGCAAGTG
Found at i:101178813 original size:21 final size:21
Alignment explanation
Indices: 101178769--101178827 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
101178759 AGTTAAAATC
* *
101178769 TAGTATATGGTTACTCAAGTGGT
1 TAGTAT-TTGTTA-TCATGTGGT
*
101178792 TAGTATTTTTTATCATGTGGT
1 TAGTATTTGTTATCATGTGGT
*
101178813 TAGTGTTTGTTATCA
1 TAGTATTTGTTATCA
101178828 CTCACTAGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 21 0.68
22 4 0.13
23 6 0.19
ACGTcount: A:0.22, C:0.07, G:0.22, T:0.49
Consensus pattern (21 bp):
TAGTATTTGTTATCATGTGGT
Found at i:101180869 original size:19 final size:19
Alignment explanation
Indices: 101180844--101180934 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
101180834 ATAATCTTCA
101180844 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
101180863 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
101180882 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
101180899 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
101180917 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
101180935 AGATATGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 35 0.52
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:101180884 original size:14 final size:15
Alignment explanation
Indices: 101180865--101180920 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
101180855 TCTTAGATGT
101180865 GATATG-CAATCTTA
1 GATATGACAATCTTA
101180879 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
101180896 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
101180914 GATATGA
1 GATATGA
101180921 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Done.