Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 340 of 343
Found at i:108864500 original size:25 final size:25
Alignment explanation
Indices: 108864472--108864551 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
108864462 AATTGTTCAT
*
108864472 AATAAATACGAATTTATTTACACAA
1 AATAAATACAAATTTATTTACACAA
* * * *
108864497 AATAAATA-TAA-TAATTGT--TCAT
1 AATAAATACAAATTTATT-TACACAA
*
108864519 AATAAATACAAATTTATTTACATAA
1 AATAAATACAAATTTATTTACACAA
108864544 AATAAATA
1 AATAAATA
108864552 AACATATTTA
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 10 0.24
23 7 0.17
24 7 0.17
25 17 0.41
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.35
Consensus pattern (25 bp):
AATAAATACAAATTTATTTACACAA
Found at i:108864512 original size:47 final size:47
Alignment explanation
Indices: 108864460--108864551 Score: 166
Period size: 47 Copynumber: 2.0 Consensus size: 47
108864450 TGCAACAATT
*
108864460 ATAATTGTTCATAATAAATACGAATTTATTTACACAAAATAAATATA
1 ATAATTGTTCATAATAAATACAAATTTATTTACACAAAATAAATATA
*
108864507 ATAATTGTTCATAATAAATACAAATTTATTTACATAAAATAAATA
1 ATAATTGTTCATAATAAATACAAATTTATTTACACAAAATAAATA
108864552 AACATATTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.52, C:0.08, G:0.03, T:0.37
Consensus pattern (47 bp):
ATAATTGTTCATAATAAATACAAATTTATTTACACAAAATAAATATA
Found at i:108870119 original size:25 final size:27
Alignment explanation
Indices: 108870071--108870121 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
108870061 AAAATACTTT
**
108870071 AAATTTATTTATATATTTTTAAAATTA
1 AAATTTATTTATATATTTACAAAATTA
108870098 AAATTTA-TT-TATATTTACAAAATT
1 AAATTTATTTATATATTTACAAAATT
108870122 TTTATTCATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 13 0.59
26 2 0.09
27 7 0.32
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (27 bp):
AAATTTATTTATATATTTACAAAATTA
Found at i:108874194 original size:189 final size:189
Alignment explanation
Indices: 108873944--108874440 Score: 543
Period size: 189 Copynumber: 2.6 Consensus size: 189
108873934 ATTTCAAAGT
* * * * * ** *
108873944 TGGAATCTCTTAGTGGTCTGACTCTTAGTCATTGCCCATTAGTTGAATTTCCGGAAATCCCAAGA
1 TGGAATCCCTTCGTGATCTGAATCTTAGTCATTGCCCAATAGTCAAATTTCCCGAAATCCCAAGA
* ** * *
108874009 AGCTTAAGAGTATTGAACTTACCTGGAACTCATATTGAAGAGGTGTACC-TGTCTCTCGACTCCC
66 AACTTAAGAAAATTAAACTTACCTGGAACTCAAATTGAAGAGGTGT-CCTTGTCTCTCGACTCCC
108874073 CAAGTAATCTTCAGACCTTAAATATGAGTGGCTCAAGAGTAAAAAATGCATCCATCAAGA
130 CAAGTAATCTTCAGACCTTAAATATGAGTGGCTCAAGAGTAAAAAATGCATCCATCAAGA
* *
108874133 TGGAATCCCTTCGTGATCTGAATCTTAGTGATTGCCCAATCGTCAAATTTCCCGAAATCCCAAGA
1 TGGAATCCCTTCGTGATCTGAATCTTAGTCATTGCCCAATAGTCAAATTTCCCGAAATCCCAAGA
* * * *
108874198 AACTTGAGAAAATTAAACTTATCTGGAACTCAAATTGAAGAGGTGTCCTTGTCTCTCGACTCTCT
66 AACTTAAGAAAATTAAACTTACCTGGAACTCAAATTGAAGAGGTGTCCTTGTCTCTCGACTCCCC
* * * * *
108874263 AGGTAATCTTCAGACCTTAAATATGAGTGGCTCAAGGGTAAAAAGTGTATCGATCAAGA
131 AAGTAATCTTCAGACCTTAAATATGAGTGGCTCAAGAGTAAAAAATGCATCCATCAAGA
* * * * * * *
108874322 TGGATTCCCTTCAT-AGTCT-AGATCTCAGTCATTTCCCAATGGTCGAA-TTCCCAGAAATTCCA
1 TGGAATCCCTTCGTGA-TCTGA-ATCTTAGTCATTGCCCAATAGTCAAATTTCCC-GAAATCCCA
* ** * * ** * * * * *
108874384 GGAAGTTTAAGAGAATTAAATTTATGTGGGACTCAAATTAAACAAGCGTCCTTGTCT
63 AGAAACTTAAGAAAATTAAACTTACCTGGAACTCAAATTGAAGAGGTGTCCTTGTCT
108874441 TTAAACTCTC
Statistics
Matches: 260, Mismatches: 44, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
188 9 0.03
189 251 0.97
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.30
Consensus pattern (189 bp):
TGGAATCCCTTCGTGATCTGAATCTTAGTCATTGCCCAATAGTCAAATTTCCCGAAATCCCAAGA
AACTTAAGAAAATTAAACTTACCTGGAACTCAAATTGAAGAGGTGTCCTTGTCTCTCGACTCCCC
AAGTAATCTTCAGACCTTAAATATGAGTGGCTCAAGAGTAAAAAATGCATCCATCAAGA
Found at i:108876284 original size:16 final size:17
Alignment explanation
Indices: 108876263--108876299 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
108876253 TTCTTATAAT
108876263 ATTTTACTATA-TTTTA
1 ATTTTACTATATTTTTA
*
108876279 ATTTTATTATATTTTTA
1 ATTTTACTATATTTTTA
108876296 ATTT
1 ATTT
108876300 CCGTTTTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTACTATATTTTTA
Found at i:108878208 original size:22 final size:22
Alignment explanation
Indices: 108878183--108878224 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
108878173 GTATGCCATG
108878183 TGATATAGGATATATG-TATGTA
1 TGATATAGGAT-TATGATATGTA
*
108878205 TGATATATGATTATGATATG
1 TGATATAGGATTATGATATG
108878225 CATGTGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (22 bp):
TGATATAGGATTATGATATGTA
Found at i:108878219 original size:13 final size:15
Alignment explanation
Indices: 108878191--108878223 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
108878181 TGTGATATAG
108878191 GATATATGTATGTAT
1 GATATATGTATGTAT
108878206 GATATATG-AT-TAT
1 GATATATGTATGTAT
108878219 GATAT
1 GATAT
108878224 GCATGTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 2 0.11
15 8 0.44
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (15 bp):
GATATATGTATGTAT
Found at i:108878460 original size:5 final size:5
Alignment explanation
Indices: 108878450--108878495 Score: 92
Period size: 5 Copynumber: 9.2 Consensus size: 5
108878440 AGGTAGAACG
108878450 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA T
1 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA T
108878496 TGGAACTCAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (5 bp):
TGATA
Found at i:108879053 original size:25 final size:25
Alignment explanation
Indices: 108879031--108879088 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
108879021 ATGTGATAAG
* *
108879031 ATATGCTATGTTATGATTTGATATA
1 ATATGATATGCTATGATTTGATATA
** *
108879056 ATATGATATGCTATGATTCAATATG
1 ATATGATATGCTATGATTTGATATA
108879081 ATATGATA
1 ATATGATA
108879089 CGTTAAGATA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (25 bp):
ATATGATATGCTATGATTTGATATA
Found at i:108879060 original size:20 final size:20
Alignment explanation
Indices: 108879037--108879088 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
108879027 TAAGATATGC
* *
108879037 TATGTTATGATTTGATAT-AA
1 TATGATATGATATGAT-TCAA
*
108879057 TATGATATGCTATGATTCAA
1 TATGATATGATATGATTCAA
108879077 TATGATATGATA
1 TATGATATGATA
108879089 CGTTAAGATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (20 bp):
TATGATATGATATGATTCAA
Found at i:108879065 original size:5 final size:5
Alignment explanation
Indices: 108879024--108879088 Score: 51
Period size: 5 Copynumber: 13.0 Consensus size: 5
108879014 GCGCAACATG
* * * * * *
108879024 TGATA AGATA TGCTA TGTTA TGATT TGATA TAATA TGATA TGCTA TGAT-
1 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
*
108879073 TCAATA TGATA TGATA
1 T-GATA TGATA TGATA
108879089 CGTTAAGATA
Statistics
Matches: 45, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
4 1 0.02
5 43 0.96
6 1 0.02
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.42
Consensus pattern (5 bp):
TGATA
Found at i:108883159 original size:189 final size:189
Alignment explanation
Indices: 108882911--108883407 Score: 597
Period size: 189 Copynumber: 2.6 Consensus size: 189
108882901 ATTTCAAAGT
* * * * * * *
108882911 TGGAATCTCTTAGTGGTCTGACTCTTAGTCATTGCCCATTAGTTGAATTTCCGGAAATCCCAAGA
1 TGGAATCCCTTCGTGATCTGAATCTTAGTCATTGCCCAATAGTCGAATTTCCCGAAATCCCAAGA
* * *
108882976 AGCTTAAGAGTATTGAACTTACCTGGAACTCATATTGAAGAGGTGTACC-TGTCTCTCGACTCCC
66 AGCTTAAGAGAATTAAACTTACCTGGAACTCAAATTGAAGAGGTGT-CCTTGTCTCTCGACTCCC
108883040 CAAGTAATCTTCAGACCTTAAATATGAGTGGCTCAAGGGTAAAAAATGCATCCATCAAGA
130 CAAGTAATCTTCAGACCTTAAATATGAGTGGCTCAAGGGTAAAAAATGCATCCATCAAGA
*
108883100 TGGAATCCCTTCGTGATCTGAATCTTAGTCATTGCCCAATAGTCAAATTTCCCGAAATCCCAAGA
1 TGGAATCCCTTCGTGATCTGAATCTTAGTCATTGCCCAATAGTCGAATTTCCCGAAATCCCAAGA
* * * * * * *
108883165 AACTTGACAAAATTAAACTTATCTGGAACTCAAATTGAAGAGGTGTCCTTGTCTCTCGACTCTCT
66 AGCTTAAGAGAATTAAACTTACCTGGAACTCAAATTGAAGAGGTGTCCTTGTCTCTCGACTCCCC
* * * *
108883230 AGGTAATCTTCAGACCTTAAATATGAGTGGCTCAAGGGTAAAAAGTGTATCGATCAAGA
131 AAGTAATCTTCAGACCTTAAATATGAGTGGCTCAAGGGTAAAAAATGCATCCATCAAGA
* * * * * *
108883289 TGGATTCCCTTCAT-AGCCT-AGATCTCAGTCATTGCCCAATGGTCGAA-TTCCCAGAAATTCCA
1 TGGAATCCCTTCGTGA-TCTGA-ATCTTAGTCATTGCCCAATAGTCGAATTTCCC-GAAATCCCA
* * * * * * * * *
108883351 GGAAGTTTAAGAGAATTAAATTTATCTGGGACTCAAATTAAACAAGCGTCCTTGTCT
63 AGAAGCTTAAGAGAATTAAACTTACCTGGAACTCAAATTGAAGAGGTGTCCTTGTCT
108883408 TTAAACTCCT
Statistics
Matches: 263, Mismatches: 41, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
188 9 0.03
189 254 0.97
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (189 bp):
TGGAATCCCTTCGTGATCTGAATCTTAGTCATTGCCCAATAGTCGAATTTCCCGAAATCCCAAGA
AGCTTAAGAGAATTAAACTTACCTGGAACTCAAATTGAAGAGGTGTCCTTGTCTCTCGACTCCCC
AAGTAATCTTCAGACCTTAAATATGAGTGGCTCAAGGGTAAAAAATGCATCCATCAAGA
Found at i:108886216 original size:16 final size:17
Alignment explanation
Indices: 108886195--108886232 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
108886185 TTATTTTAAT
108886195 ATTTTAATATA-TTTTA
1 ATTTTAATATATTTTTA
*
108886211 ATTTTATTATATTTTTA
1 ATTTTAATATATTTTTA
108886228 ATTTT
1 ATTTT
108886233 CGTTTTACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTAATATATTTTTA
Found at i:108886450 original size:199 final size:197
Alignment explanation
Indices: 108886204--108886590 Score: 625
Period size: 199 Copynumber: 2.0 Consensus size: 197
108886194 TATTTTAATA
* * *
108886204 TATTTTAATTTTATTATATTTTTAATTTTCGTTTTACTCACAATTTAATTTAATTTCTTTTTATT
1 TATTTTAATTTTAATATATTTTTAATTTCCATTTTACTCACAATTTAATTTAATTTCTTTTTATT
* *
108886269 TTAACATCGTACATATTTTATATGTTACTAATTTCTAATGTC-ACATGTGAAACCAATAATTAAT
66 TTAACATCGTACATACTTTATATGTTACTAATTTCTAATG-CAACATGTGAAACCAATAACTAAT
* *
108886333 CTTCCGCATTTTATAGGCGGGTAATCGAAACCCCCCCACCACCCATGAAAATCTTCGTTTCTCAC
130 CTTCCGCATTTTATAGGCGGGTAATCCAAA-ACCCCCACCACCCATGAAAATCTTCGTTTCTCAC
108886398 AATT
194 AATT
* *
108886402 TATTTTAATATTTTAATATA-TTTTAATTTCCATTTTATTCACAATTTAATTTACTTTCTTTTTA
1 TATTTT-A-ATTTTAATATATTTTTAATTTCCATTTTACTCACAATTTAATTTAATTTCTTTTTA
*
108886466 TTTTAGCATCGTACATACTTTATATGTTACTAATTTCTAATGCAACATGTGAAACCAATAACTAA
64 TTTTAACATCGTACATACTTTATATGTTACTAATTTCTAATGCAACATGTGAAACCAATAACTAA
*
108886531 TCTTCTGCATTTTATAGGCGGGTAATCCAAAACCCCCACCACCCATGAAAATCTTCGTTT
129 TCTTCCGCATTTTATAGGCGGGTAATCCAAAACCCCCACCACCCATGAAAATCTTCGTTT
108886591 GATTACAAAT
Statistics
Matches: 175, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
198 35 0.20
199 130 0.74
200 10 0.06
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.43
Consensus pattern (197 bp):
TATTTTAATTTTAATATATTTTTAATTTCCATTTTACTCACAATTTAATTTAATTTCTTTTTATT
TTAACATCGTACATACTTTATATGTTACTAATTTCTAATGCAACATGTGAAACCAATAACTAATC
TTCCGCATTTTATAGGCGGGTAATCCAAAACCCCCACCACCCATGAAAATCTTCGTTTCTCACAA
TT
Found at i:108888667 original size:5 final size:5
Alignment explanation
Indices: 108888657--108888739 Score: 78
Period size: 5 Copynumber: 16.6 Consensus size: 5
108888647 GAGGTAGAAC
* * * * * *
108888657 ATGAT ATGAT ATGAT ATGAT AAGAT ATGCT ATGTT ATGAT TTGAT GTAAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
* *
108888707 ATGAT ATGCT ATGAT -TCAAT ATGAT ATGAT ATG
1 ATGAT ATGAT ATGAT AT-GAT ATGAT ATGAT ATG
108888740 TTAAGATAAG
Statistics
Matches: 62, Mismatches: 14, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
4 1 0.02
5 60 0.97
6 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.41
Consensus pattern (5 bp):
ATGAT
Found at i:108892523 original size:3 final size:3
Alignment explanation
Indices: 108892515--108892539 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
108892505 TTGGATAAAT
108892515 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
108892540 CCACCTCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:108897918 original size:18 final size:19
Alignment explanation
Indices: 108897895--108897930 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
108897885 TCAAAACTTT
108897895 ATTTTAATTTTT-TTATAA
1 ATTTTAATTTTTATTATAA
108897913 ATTTTAATTTTTATTATA
1 ATTTTAATTTTTATTATA
108897931 CTTTAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTAATTTTTATTATAA
Found at i:108897939 original size:18 final size:18
Alignment explanation
Indices: 108897895--108897941 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
108897885 TCAAAACTTT
*
108897895 ATTTTAATTTTTTTATAA
1 ATTTAAATTTTTTTATAA
*
108897913 ATTTTAATTTTTATTAT-A
1 ATTTAAATTTTT-TTATAA
*
108897931 CTTTAAATTTT
1 ATTTAAATTTT
108897942 GTTTTACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTAAATTTTTTTATAA
Found at i:108901531 original size:34 final size:35
Alignment explanation
Indices: 108901480--108901551 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 35
108901470 GATATAAAGA
108901480 AAGAAGACTCTGTCATTTCCTGGAAAGTGCGAGGCT
1 AAGAAGAC-CTGTCATTTCCTGGAAAGTGCGAGGCT
*
108901516 AAGAAGA-CTGTCATTTCCTGGAAAGTGTGAGGCT
1 AAGAAGACCTGTCATTTCCTGGAAAGTGCGAGGCT
108901550 AA
1 AA
108901552 TCTCCAGTCG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 28 0.80
36 7 0.20
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (35 bp):
AAGAAGACCTGTCATTTCCTGGAAAGTGCGAGGCT
Found at i:108903975 original size:152 final size:152
Alignment explanation
Indices: 108903794--108904118 Score: 539
Period size: 152 Copynumber: 2.1 Consensus size: 152
108903784 TATAAAATTT
* * *
108903794 AGATTCGAAAATTTTAAAAATACAAACAAATGGACAAAGTTAAGG-TTATTTACTAAATAAATAT
1 AGATCCGAAAATTTTAAAAATACAAACAAAGGGACAAAATT-AGGATTATTTACTAAATAAATAT
* *
108903858 AAAAAAA-ACTAAAATAATACATTTGAAACATTATGTTCTAAAATAATATAAAAGAATAAAATAG
65 AAAAAAATACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAA-AATAAAATAC
108903922 GAAAATAGTATATTTTAAAAAATA
129 GAAAATAGTATATTTTAAAAAATA
*
108903946 AGATCCGAAAATTTTAAAAATACAAACAAAGGGACAAAATTAGGATTATTTACTAAATTAATATA
1 AGATCCGAAAATTTTAAAAATACAAACAAAGGGACAAAATTAGGATTATTTACTAAATAAATATA
108904011 AAAAAATACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGA
66 AAAAAATACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGA
108904076 AAATAGTATATTTTAAAAAATA
131 AAATAGTATATTTTAAAAAATA
*
108904098 AAATCTC-AAAATTTTAAAAAT
1 AGATC-CGAAAATTTTAAAAAT
108904119 TTTAAAATTT
Statistics
Matches: 163, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
151 3 0.02
152 114 0.70
153 46 0.28
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (152 bp):
AGATCCGAAAATTTTAAAAATACAAACAAAGGGACAAAATTAGGATTATTTACTAAATAAATATA
AAAAAATACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGA
AAATAGTATATTTTAAAAAATA
Found at i:108904119 original size:9 final size:8
Alignment explanation
Indices: 108904105--108904141 Score: 65
Period size: 8 Copynumber: 4.5 Consensus size: 8
108904095 ATAAAATCTC
108904105 AAAATTTT
1 AAAATTTT
108904113 AAAAATTTT
1 -AAAATTTT
108904122 AAAATTTT
1 AAAATTTT
108904130 AAAATTTT
1 AAAATTTT
108904138 AAAA
1 AAAA
108904142 GTACGAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 20 0.71
9 8 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
AAAATTTT
Found at i:108904632 original size:27 final size:27
Alignment explanation
Indices: 108904580--108904633 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
108904570 TATAATGGGG
* *
108904580 CGGTGCCGCCTCTGCTAGAGGCACAAC
1 CGGTGCCGCCTCTGCCAAAGGCACAAC
*
108904607 CGGTGCCGCCTCTGCCAAAGGTACAAC
1 CGGTGCCGCCTCTGCCAAAGGCACAAC
108904634 TGCACACCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.20, C:0.37, G:0.28, T:0.15
Consensus pattern (27 bp):
CGGTGCCGCCTCTGCCAAAGGCACAAC
Found at i:108906894 original size:23 final size:23
Alignment explanation
Indices: 108906863--108906912 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
108906853 ATTACTATTT
*
108906863 TTTTACTATCATTTTTTAAATTA
1 TTTTACTATCATTTATTAAATTA
* * *
108906886 TTTTCCTATTATTTATTATATTA
1 TTTTACTATCATTTATTAAATTA
108906909 TTTT
1 TTTT
108906913 TTTACACTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTTACTATCATTTATTAAATTA
Found at i:108906939 original size:16 final size:16
Alignment explanation
Indices: 108906892--108906941 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 16
108906882 ATTATTTTCC
108906892 TATTATTTATTATA-T
1 TATTATTTATTATACT
*
108906907 TATT-TTT-TTACAC-
1 TATTATTTATTATACT
108906920 TATTATTTATTATACT
1 TATTATTTATTATACT
108906936 TATTAT
1 TATTAT
108906942 ATCATTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
13 8 0.28
14 6 0.21
15 9 0.31
16 6 0.21
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTATTTATTATACT
Found at i:108907278 original size:14 final size:14
Alignment explanation
Indices: 108907259--108907288 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
108907249 TTTTTTACCG
108907259 TTTACTACTATTAT
1 TTTACTACTATTAT
*
108907273 TTTACTATTATTAT
1 TTTACTACTATTAT
108907287 TT
1 TT
108907289 ATAATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTACTACTATTAT
Found at i:108908756 original size:21 final size:20
Alignment explanation
Indices: 108908714--108908773 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
108908704 AGCTTATTTA
* * *
108908714 TATTTTAATTATTCCTATTT
1 TATTTTAATTAATCTTAATT
108908734 TAGTTTTAATTAATCTTAATT
1 TA-TTTTAATTAATCTTAATT
* *
108908755 TA-CTTAATTAAGCTTAATT
1 TATTTTAATTAATCTTAATT
108908774 GTTAATTTCG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 15 0.44
20 2 0.06
21 17 0.50
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (20 bp):
TATTTTAATTAATCTTAATT
Found at i:108911639 original size:3 final size:3
Alignment explanation
Indices: 108911631--108911679 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
108911621 ACTAAATGGC
108911631 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
108911679 A
1 A
108911680 ATTCCATCCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:108912109 original size:45 final size:46
Alignment explanation
Indices: 108912000--108912120 Score: 217
Period size: 46 Copynumber: 2.7 Consensus size: 46
108911990 AAACAAACAT
*
108912000 GACTAAACATTGCTGACTTTTACTGAAAGTAAGCAATTAATCTTAA
1 GACTAAACATTGCTGACTTTTACTGAAAGCAAGCAATTAATCTTAA
*
108912046 GACTCAACATTGCTGACTTTTACTGAAAGCAAGCAATTAATCTT-A
1 GACTAAACATTGCTGACTTTTACTGAAAGCAAGCAATTAATCTTAA
108912091 GACTAAACATTGCTGACTTTTACTGAAAGC
1 GACTAAACATTGCTGACTTTTACTGAAAGC
108912121 TTCAAATATT
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
45 30 0.42
46 42 0.58
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.31
Consensus pattern (46 bp):
GACTAAACATTGCTGACTTTTACTGAAAGCAAGCAATTAATCTTAA
Found at i:108916971 original size:21 final size:21
Alignment explanation
Indices: 108916945--108916985 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
108916935 ATCTGCTCAA
* *
108916945 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
108916966 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
108916986 TTGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:108924036 original size:9 final size:9
Alignment explanation
Indices: 108924001--108924113 Score: 72
Period size: 9 Copynumber: 12.3 Consensus size: 9
108923991 TATAAAATTC
108924001 TATAATTTT
1 TATAATTTT
*
108924010 T-TTATTTT
1 TATAATTTT
108924018 TAT-ATATTT
1 TATAAT-TTT
108924027 TATAATTTTTT
1 TATAA--TTTT
*
108924038 TACAATTTT
1 TATAATTTT
*
108924047 TATAAAATTT
1 TAT-AATTTT
*
108924057 TATGATTTT
1 TATAATTTT
*
108924066 TATGATTTT
1 TATAATTTT
*
108924075 TCTAATTTT
1 TATAATTTT
*
108924084 TAATAAATTT
1 T-ATAATTTT
*
108924094 T-TAATATT
1 TATAATTTT
108924102 TA-AACTTTT
1 TATAA-TTTT
108924111 TAT
1 TAT
108924114 TTAAATTTTA
Statistics
Matches: 81, Mismatches: 13, Indels: 19
0.72 0.12 0.17
Matches are distributed among these distances:
8 17 0.21
9 40 0.49
10 16 0.20
11 7 0.09
12 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.64
Consensus pattern (9 bp):
TATAATTTT
Found at i:108924093 original size:48 final size:48
Alignment explanation
Indices: 108924004--108924096 Score: 118
Period size: 48 Copynumber: 1.9 Consensus size: 48
108923994 AAAATTCTAT
* * *
108924004 AATTTTTTTATTTTTATATATTTTATAATTTTTTTACAATTTTTATAA
1 AATTTTATGATTTTTATATATTTTATAATTTTTATACAATTTTTATAA
*
108924052 AATTTTATGATTTTTATGAT-TTTTCTAATTTTTAATA-AATTTTTA
1 AATTTTATGATTTTTAT-ATATTTTATAATTTTT-ATACAATTTTTA
108924097 ATATTTAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
48 35 0.90
49 4 0.10
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (48 bp):
AATTTTATGATTTTTATATATTTTATAATTTTTATACAATTTTTATAA
Found at i:108924110 original size:27 final size:27
Alignment explanation
Indices: 108924080--108924132 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
108924070 ATTTTTCTAA
*
108924080 TTTTTA-ATAAATTTTTAATATTTAAAC
1 TTTTTATATAAA-TTTTAATATATAAAC
*
108924107 TTTTTATTTAAATTTTAATATATAAA
1 TTTTTATATAAATTTTAATATATAAA
108924133 ATCTCCCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTTTATATAAATTTTAATATATAAAC
Found at i:108924371 original size:30 final size:30
Alignment explanation
Indices: 108924335--108924424 Score: 180
Period size: 30 Copynumber: 3.0 Consensus size: 30
108924325 ATTTCATCAG
108924335 TAGTTTTTGTGGAAATAAGTTAGCCATAAC
1 TAGTTTTTGTGGAAATAAGTTAGCCATAAC
108924365 TAGTTTTTGTGGAAATAAGTTAGCCATAAC
1 TAGTTTTTGTGGAAATAAGTTAGCCATAAC
108924395 TAGTTTTTGTGGAAATAAGTTAGCCATAAC
1 TAGTTTTTGTGGAAATAAGTTAGCCATAAC
108924425 GTAGAGATTA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (30 bp):
TAGTTTTTGTGGAAATAAGTTAGCCATAAC
Found at i:108925193 original size:34 final size:34
Alignment explanation
Indices: 108925150--108925219 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
108925140 TGTCTTGGAG
108925150 TTCAATTTTAAGCAATCAAATGATAGTTAGAGAT
1 TTCAATTTTAAGCAATCAAATGATAGTTAGAGAT
108925184 TTCAATTTTAAGCAATCAAATGATAGTTAGAGAT
1 TTCAATTTTAAGCAATCAAATGATAGTTAGAGAT
108925218 TT
1 TT
108925220 TAGAATGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (34 bp):
TTCAATTTTAAGCAATCAAATGATAGTTAGAGAT
Found at i:108927473 original size:18 final size:16
Alignment explanation
Indices: 108927441--108927479 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
108927431 CCTAAAGGTG
*
108927441 ATTTTATCTTCTTTTTT
1 ATTTTATCTT-ATTTTT
108927458 ATTTTACTCTTATTTTT
1 ATTTTA-TCTTATTTTT
108927475 ATTTT
1 ATTTT
108927480 TATTTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTATCTTATTTTT
Found at i:108927553 original size:15 final size:14
Alignment explanation
Indices: 108927525--108927578 Score: 60
Period size: 15 Copynumber: 3.9 Consensus size: 14
108927515 TATATACATC
108927525 ATAATAAAAAATAT
1 ATAATAAAAAATAT
108927539 ATAATAAAAATATAT
1 ATAATAAAAA-ATAT
108927554 ATACA-AAACAAATAT
1 ATA-ATAAA-AAATAT
108927569 A-AA-AAAAAAT
1 ATAATAAAAAAT
108927579 TACCTTTTCC
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
12 4 0.11
13 4 0.11
14 11 0.30
15 15 0.41
16 3 0.08
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (14 bp):
ATAATAAAAAATAT
Found at i:108934148 original size:21 final size:22
Alignment explanation
Indices: 108934124--108934167 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
108934114 TTATTTCGAA
108934124 TATATAACATAGGTTTA-GACT
1 TATATAACATAGGTTTACGACT
*
108934145 TATATAGCATAGGTTTACGACT
1 TATATAACATAGGTTTACGACT
108934167 T
1 T
108934168 TCATAAGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (22 bp):
TATATAACATAGGTTTACGACT
Found at i:108935633 original size:21 final size:21
Alignment explanation
Indices: 108935609--108935650 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
108935599 GCCATCTTGC
*
108935609 TTATTGT-TCTTTCTTTTTGTT
1 TTATTGTAT-TTTATTTTTGTT
108935630 TTATTGTATTTTATTTTTGTT
1 TTATTGTATTTTATTTTTGTT
108935651 CTTCCACTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.10, C:0.05, G:0.10, T:0.76
Consensus pattern (21 bp):
TTATTGTATTTTATTTTTGTT
Found at i:108937596 original size:34 final size:34
Alignment explanation
Indices: 108937520--108937607 Score: 97
Period size: 34 Copynumber: 2.6 Consensus size: 34
108937510 CCGATCTGAC
*
108937520 TAGAAATATGACATTCTGATCCGATAAATGTTTC
1 TAGAAATATGACATTCTGATCCGATAAATGTTTA
* *
108937554 TAGAAATATGACATTCTGA-CTTGATATATGTTTA
1 TAGAAATATGACATTCTGATC-CGATAAATGTTTA
* * * *
108937588 TGGTAATATGATATTTTGAT
1 TAGAAATATGACATTCTGAT
108937608 ATGATATTTG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
33 1 0.02
34 44 0.98
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (34 bp):
TAGAAATATGACATTCTGATCCGATAAATGTTTA
Found at i:108937613 original size:34 final size:34
Alignment explanation
Indices: 108937558--108937623 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
108937548 TGTTTCTAGA
*
108937558 AATATGACATTCTGACTTGATATATGTTTATGGT
1 AATATGACATTCTGACTTGATATATGTATATGGT
* * *
108937592 AATATGATATTTTGA-TATGATATTTGTATATG
1 AATATGACATTCTGACT-TGATATATGTATATG
108937624 TGTACATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 1 0.04
34 26 0.96
ACGTcount: A:0.32, C:0.05, G:0.17, T:0.47
Consensus pattern (34 bp):
AATATGACATTCTGACTTGATATATGTATATGGT
Found at i:108940212 original size:3 final size:3
Alignment explanation
Indices: 108940204--108940236 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
108940194 TAACTTTAAA
108940204 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
108940237 GGCCAAATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:108943114 original size:31 final size:31
Alignment explanation
Indices: 108943079--108943145 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 31
108943069 ATATCTAATT
* *
108943079 ATTATTTTTCATAA-AAAAATAAAGTTAAATA
1 ATTATATTACATAACAAAAATAAA-TTAAATA
* * *
108943110 ATTATATTAGATAACAAAATTAAATTTAATA
1 ATTATATTACATAACAAAAATAAATTAAATA
108943141 ATTAT
1 ATTAT
108943146 GAACTCTCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 22 0.73
32 8 0.27
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (31 bp):
ATTATATTACATAACAAAAATAAATTAAATA
Found at i:108944492 original size:13 final size:12
Alignment explanation
Indices: 108944447--108944512 Score: 53
Period size: 14 Copynumber: 4.9 Consensus size: 12
108944437 TGCAACATAT
108944447 TTATTATTAAAATA
1 TTATTATT-AAA-A
108944461 TTAATGTATTAACAA
1 TT-AT-TATTAA-AA
108944476 -TATTATTTAAAA
1 TTATTA-TTAAAA
108944488 TTATTATTAAAA
1 TTATTATTAAAA
108944500 TCTTATTATTAAA
1 --TTATTATTAAA
108944513 TAAAATTTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
12 10 0.22
13 11 0.24
14 14 0.31
15 5 0.11
16 5 0.11
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (12 bp):
TTATTATTAAAA
Found at i:108944518 original size:18 final size:18
Alignment explanation
Indices: 108944495--108944533 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
108944485 AAATTATTAT
*
108944495 TAAAATCTTATTATTAAA
1 TAAAATCTTAATATTAAA
*
108944513 TAAAATTTTAATATTAAA
1 TAAAATCTTAATATTAAA
108944531 TAA
1 TAA
108944534 TTTATTGTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAAATCTTAATATTAAA
Found at i:108945579 original size:9 final size:9
Alignment explanation
Indices: 108945534--108945588 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
108945524 CATTCCAAGC
108945534 ATATTTTTA
1 ATATTTTTA
108945543 ATAATTTTTAA
1 AT-ATTTTT-A
* *
108945554 ACATATTTA
1 ATATTTTTA
* *
108945563 TTAATTTTA
1 ATATTTTTA
108945572 ATATTTTTA
1 ATATTTTTA
108945581 ATATTTTT
1 ATATTTTT
108945589 TTTATAACCT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
9 23 0.64
10 11 0.31
11 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (9 bp):
ATATTTTTA
Found at i:108946735 original size:3 final size:3
Alignment explanation
Indices: 108946729--108946783 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
108946719 TTATTTAGAC
108946729 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
108946777 TCT TCT T
1 TCT TCT T
108946784 TATTTTTTTG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:108951311 original size:46 final size:46
Alignment explanation
Indices: 108951142--108951304 Score: 236
Period size: 46 Copynumber: 3.5 Consensus size: 46
108951132 TACCACAGTG
* *
108951142 ATGGTATCTTTCAACCATGGTCTTATTCATTTCTTGTCACGTTGCT
1 ATGGTATCTTTCAACCATGGTCTTATTCATTTCTTGTCATGTTGCC
* * *
108951188 TTGGTATCTTTTAACCATGGTCTTATTCATTTCCTGTCATGTTGCC
1 ATGGTATCTTTCAACCATGGTCTTATTCATTTCTTGTCATGTTGCC
* *
108951234 ATGGTATCTTTCAACCATGGCCTTATTCATTTCTTGTCATATTGCC
1 ATGGTATCTTTCAACCATGGTCTTATTCATTTCTTGTCATGTTGCC
** *
108951280 ACAGTATCTTTCAACTATGGTCTTA
1 ATGGTATCTTTCAACCATGGTCTTA
108951305 CACATTTGAA
Statistics
Matches: 103, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 103 1.00
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (46 bp):
ATGGTATCTTTCAACCATGGTCTTATTCATTTCTTGTCATGTTGCC
Found at i:108951396 original size:45 final size:45
Alignment explanation
Indices: 108951285--108951396 Score: 152
Period size: 45 Copynumber: 2.5 Consensus size: 45
108951275 TTGCCACAGT
* * * *
108951285 ATCTTTCAACTATGGTCTTACACATTTGAATCGCGATGCCATAGC
1 ATCTTTCAGCTATGGTCTTACTCATCTGAATCGCGATGCCATAAC
* * * *
108951330 GTCTTTTAGCTATGGTCTTACTCGTCTGAATCGTGATGCCATAAC
1 ATCTTTCAGCTATGGTCTTACTCATCTGAATCGCGATGCCATAAC
108951375 ATCTTTCAGCTATGGTCTTACT
1 ATCTTTCAGCTATGGTCTTACT
108951397 TATTTATGGT
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (45 bp):
ATCTTTCAGCTATGGTCTTACTCATCTGAATCGCGATGCCATAAC
Found at i:108953120 original size:8 final size:8
Alignment explanation
Indices: 108953107--108953143 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
108953097 TATATATACT
108953107 AAATAATA
1 AAATAATA
108953115 AAATAATA
1 AAATAATA
108953123 AAATAATA
1 AAATAATA
*
108953131 AAACAATA
1 AAATAATA
108953139 AAATA
1 AAATA
108953144 TCATTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.22
Consensus pattern (8 bp):
AAATAATA
Found at i:108953462 original size:30 final size:31
Alignment explanation
Indices: 108953406--108953464 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
108953396 CACCCTTAAA
*
108953406 ATATTTACACTATTAGTCATTCAAATTTTTT
1 ATATTTACACTATTAATCATTCAAATTTTTT
108953437 ATATTTACACT-TTAATC-TCTCAAATTTT
1 ATATTTACACTATTAATCAT-TCAAATTTT
108953465 GAGTATTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 1 0.04
30 14 0.54
31 11 0.42
ACGTcount: A:0.32, C:0.15, G:0.02, T:0.51
Consensus pattern (31 bp):
ATATTTACACTATTAATCATTCAAATTTTTT
Found at i:108953472 original size:30 final size:31
Alignment explanation
Indices: 108953406--108953474 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
108953396 CACCCTTAAA
* *
108953406 ATATTTACACTATTAGTCATTCAAATTTTTT
1 ATATTTACACTATTAATCATTCAAATTTTTG
108953437 ATATTTACACT-TTAATC-TCTCAAA-TTTTG
1 ATATTTACACTATTAATCAT-TCAAATTTTTG
108953466 AGTATTTAC
1 A-TATTTAC
108953475 TCTTGTGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 6 0.18
30 17 0.50
31 11 0.32
ACGTcount: A:0.32, C:0.14, G:0.04, T:0.49
Consensus pattern (31 bp):
ATATTTACACTATTAATCATTCAAATTTTTG
Found at i:108969780 original size:21 final size:20
Alignment explanation
Indices: 108969741--108969780 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
108969731 CTTCGTATTC
*
108969741 AATTATTTCTAATATTTTAA
1 AATTATTTCTAAAATTTTAA
*
108969761 AATTATTTTTTAAAATTTTA
1 AATTA-TTTCTAAAATTTTA
108969781 TTTTTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (20 bp):
AATTATTTCTAAAATTTTAA
Found at i:108969793 original size:17 final size:15
Alignment explanation
Indices: 108969755--108969795 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 15
108969745 ATTTCTAATA
108969755 TTTTAAAA--TTATT
1 TTTTAAAATTTTATT
108969768 TTTTAAAATTTTATT
1 TTTTAAAATTTTATT
108969783 TTTAATAAAATTT
1 TTT--TAAAATTT
108969796 AAAAAATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 8 0.33
15 8 0.33
17 8 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTAAAATTTTATT
Found at i:108974827 original size:36 final size:35
Alignment explanation
Indices: 108974757--108974828 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
108974747 AATAAGGATG
108974757 ACTTATCTATCATTTTTTCGCTATCACCCTAAAAA
1 ACTTATCTATCATTTTTTCGCTATCACCCTAAAAA
*
108974792 ACTTATCTATCATTTTTTTGCTATCACCCTAAAAA
1 ACTTATCTATCATTTTTTCGCTATCACCCTAAAAA
108974827 AC
1 AC
108974829 CAAACTCTGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.25, G:0.03, T:0.40
Consensus pattern (35 bp):
ACTTATCTATCATTTTTTCGCTATCACCCTAAAAA
Found at i:108989158 original size:31 final size:31
Alignment explanation
Indices: 108989123--108989182 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
108989113 CTTTATTAAT
*
108989123 AAAATGTATTTTCTGAGAAAAAATCAAAAAA
1 AAAATGTATTTGCTGAGAAAAAATCAAAAAA
*
108989154 AAAATGTATTTGCTGATAAAAAATCAAAA
1 AAAATGTATTTGCTGAGAAAAAATCAAAA
108989183 TAGTGTCACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.57, C:0.07, G:0.10, T:0.27
Consensus pattern (31 bp):
AAAATGTATTTGCTGAGAAAAAATCAAAAAA
Found at i:109007663 original size:16 final size:16
Alignment explanation
Indices: 109007627--109007680 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
109007617 GAGTTGATAA
* *
109007627 ATTTTGAGTTTAGATT
1 ATTTTAAGTTCAGATT
*
109007643 GTTTTAAGTTCA-AGTT
1 ATTTTAAGTTCAGA-TT
*
109007659 ATTTTGAGTTCAGATT
1 ATTTTAAGTTCAGATT
109007675 ATTTTA
1 ATTTTA
109007681 GTCGGGTTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
15 1 0.03
16 28 0.93
17 1 0.03
ACGTcount: A:0.26, C:0.04, G:0.17, T:0.54
Consensus pattern (16 bp):
ATTTTAAGTTCAGATT
Found at i:109012281 original size:23 final size:23
Alignment explanation
Indices: 109012237--109012288 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
109012227 ATTTTGCATT
* * *
109012237 TTTTTATTAATTTATTAATTAAG
1 TTTTTATTAATTGAGTAATTAAA
* *
109012260 TTTTTATTAATTGGGTATTTAAA
1 TTTTTATTAATTGAGTAATTAAA
109012283 TTTTTA
1 TTTTTA
109012289 AAATATTATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (23 bp):
TTTTTATTAATTGAGTAATTAAA
Found at i:109015007 original size:40 final size:41
Alignment explanation
Indices: 109014916--109015204 Score: 299
Period size: 40 Copynumber: 7.3 Consensus size: 41
109014906 ACCCAAGTAT
* *** *
109014916 CTTCGGGATTTAG-CCGGATA-TAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
* * * * * * *
109014954 CGTCGGGTCTTAGCCTGGATA-TGGTCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
* *
109014994 CTTCGGGTCTTAGCCCGGATA-TAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
*
109015034 CTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACCAATGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
* * *
109015074 CTTCGGGACTTGGCCC-GAAATTAGTAACTCGCACAATTGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
* *
109015114 TTTCGGGACTTAGCCCGGAT-GTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
* * * *
109015154 CTTCGGGACTTAGCCCGGA-ATTAATCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
109015194 CTTCGGGACTT
1 CTTCGGGACTT
109015205 GACCCAGTTA
Statistics
Matches: 211, Mismatches: 34, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
38 10 0.05
39 18 0.09
40 181 0.86
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (41 bp):
CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
Found at i:109023999 original size:15 final size:15
Alignment explanation
Indices: 109023968--109024012 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
109023958 CCAACATTTC
109023968 TTTTTCTTTTTATTTAT
1 TTTTTC-TTTTA-TTAT
109023985 TTTTTCTTTTATTAT
1 TTTTTCTTTTATTAT
* *
109024000 TTATTATTTTATT
1 TTTTTCTTTTATT
109024013 TTTAATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 15 0.58
16 5 0.19
17 6 0.23
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTCTTTTATTAT
Found at i:109024001 original size:19 final size:18
Alignment explanation
Indices: 109023968--109024025 Score: 73
Period size: 19 Copynumber: 3.2 Consensus size: 18
109023958 CCAACATTTC
109023968 TTTTTC-TTTTTATTTAT
1 TTTTTCTTTTTTATTTAT
109023985 TTTTTCTTTTATTATTTAT
1 TTTTTCTTTT-TTATTTAT
* *
109024004 TATTTTATTTTTAATTTAT
1 T-TTTTCTTTTTTATTTAT
109024023 TTT
1 TTT
109024026 ATTTTATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
17 6 0.17
18 5 0.14
19 17 0.47
20 8 0.22
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTCTTTTTTATTTAT
Found at i:109024011 original size:5 final size:5
Alignment explanation
Indices: 109023975--109024034 Score: 50
Period size: 5 Copynumber: 11.6 Consensus size: 5
109023965 TTCTTTTTCT
* * * *
109023975 TTTTA TTTATT TTTTC TTTTA TTATT- TATTA TTTTA TTTTTA ATTTA
1 TTTTA TTT-TA TTTTA TTTTA TT-TTA TTTTA TTTTA -TTTTA TTTTA
109024022 TTTTA TTTTA TTT
1 TTTTA TTTTA TTT
109024035 AAATATTAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
4 2 0.05
5 31 0.70
6 11 0.25
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:109024026 original size:16 final size:14
Alignment explanation
Indices: 109023991--109024030 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 14
109023981 TTATTTTTTC
109023991 TTTTATTATTTATTA
1 TTTTATT-TTTATTA
109024006 TTTTATTTTTAATTTA
1 TTTTATTTTT-A-TTA
109024022 TTTTATTTT
1 TTTTATTTT
109024031 ATTTAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.13
15 8 0.35
16 12 0.52
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTATTTTTATTA
Found at i:109024217 original size:42 final size:42
Alignment explanation
Indices: 109024113--109024217 Score: 138
Period size: 42 Copynumber: 2.5 Consensus size: 42
109024103 ATCCATGGTA
*
109024113 CCAAACAGTTCTATTCCAGCCCAAAATGCCATATCCCTGCTG
1 CCAAACAGTTCTATTCCAGCCCAAAATGCCATATCCCTGCAG
* * * * *
109024155 CTAAATAGTTTTATTCCAGCCCAGAATGCCATATCTCTGCAG
1 CCAAACAGTTCTATTCCAGCCCAAAATGCCATATCCCTGCAG
* *
109024197 CCAAACAGTCCTATTTCAGCC
1 CCAAACAGTTCTATTCCAGCC
109024218 TTAGAATCCC
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.27
Consensus pattern (42 bp):
CCAAACAGTTCTATTCCAGCCCAAAATGCCATATCCCTGCAG
Found at i:109025176 original size:1 final size:1
Alignment explanation
Indices: 109025170--109025212 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
109025160 AATAAAATTT
* * * *
109025170 AAAAAAAATAAAAAAAGAAAAAAAGAAAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
109025213 TAAGTACTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.91, C:0.00, G:0.07, T:0.02
Consensus pattern (1 bp):
A
Found at i:109025192 original size:19 final size:19
Alignment explanation
Indices: 109025170--109025212 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
109025160 AATAAAATTT
*
109025170 AAAAAA-AATAAAAAAAGA
1 AAAAAAGAAAAAAAAAAGA
109025188 AAAAAAGAAAAAAAAAAGA
1 AAAAAAGAAAAAAAAAAGA
109025207 AAAAAA
1 AAAAAA
109025213 TAAGTACTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.91, C:0.00, G:0.07, T:0.02
Consensus pattern (19 bp):
AAAAAAGAAAAAAAAAAGA
Found at i:109027139 original size:11 final size:11
Alignment explanation
Indices: 109027123--109027149 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
109027113 TGGTTTAATT
109027123 AAAAAATTTTA
1 AAAAAATTTTA
109027134 AAAAAATTTTA
1 AAAAAATTTTA
109027145 AAAAA
1 AAAAA
109027150 TCTTATTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AAAAAATTTTA
Found at i:109034279 original size:168 final size:168
Alignment explanation
Indices: 109033996--109034331 Score: 566
Period size: 168 Copynumber: 2.0 Consensus size: 168
109033986 GGAGTAAAAT
* * *
109033996 GAGTACATGAAGAGGTTAGCCCCTTACACGTGGTGCATTCTGATTGGCCAACTTGATATTCAATT
1 GAGTACATAAAGAGGTTAGCCCCTTACACGTGGTGCATTCTGATTAGCCAACTCGATATTCAATT
* *
109034061 ATTCCTAGCTATGTCAACAACATGATGTGTTATTACTAAGATATAAGGTATGTGGGTGACCAATG
66 ATTCCTAGCTATGTCAACAACATGATGTGCTATTACTAAGATACAAGGTATGTGGGTGACCAATG
109034126 ATAAGTGTCTTGTCAGAGTGGTTAGGTTGTCATCGTAG
131 ATAAGTGTCTTGTCAGAGTGGTTAGGTTGTCATCGTAG
* *
109034164 GAGTACATAAATAGGTTAGCCCCTTACACGTGGTGCATTCTGATTAGCCAACTCGATATTTAATT
1 GAGTACATAAAGAGGTTAGCCCCTTACACGTGGTGCATTCTGATTAGCCAACTCGATATTCAATT
* *
109034229 ATTCCTAGCTATGTTAAC-ACAATGATGTGCTATTATTAAGATACAAGGTATGTGGGTGACCAAT
66 ATTCCTAGCTATGTCAACAAC-ATGATGTGCTATTACTAAGATACAAGGTATGTGGGTGACCAAT
*
109034293 GATAAGTGTCTTGTCAGAGTGGTTAGGTTGTCATGGTAG
130 GATAAGTGTCTTGTCAGAGTGGTTAGGTTGTCATCGTAG
109034332 CTAACTTGCG
Statistics
Matches: 157, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
167 2 0.01
168 155 0.99
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (168 bp):
GAGTACATAAAGAGGTTAGCCCCTTACACGTGGTGCATTCTGATTAGCCAACTCGATATTCAATT
ATTCCTAGCTATGTCAACAACATGATGTGCTATTACTAAGATACAAGGTATGTGGGTGACCAATG
ATAAGTGTCTTGTCAGAGTGGTTAGGTTGTCATCGTAG
Found at i:109041595 original size:44 final size:44
Alignment explanation
Indices: 109041545--109041632 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
109041535 GACACTCACC
109041545 CAAATTGAAGTGTATATATATATTATCATCAACACAAACAAAAA
1 CAAATTGAAGTGTATATATATATTATCATCAACACAAACAAAAA
109041589 CAAATTGAAGTGTATATATATATTATCATCAACACAAACAAAAA
1 CAAATTGAAGTGTATATATATATTATCATCAACACAAACAAAAA
109041633 AATTTAAGGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.27
Consensus pattern (44 bp):
CAAATTGAAGTGTATATATATATTATCATCAACACAAACAAAAA
Found at i:109043745 original size:22 final size:22
Alignment explanation
Indices: 109043720--109043761 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
109043710 TTAATATACT
*
109043720 ATTAGAATACCTTAAATATTTA
1 ATTACAATACCTTAAATATTTA
**
109043742 ATTACAATATTTTAAATATT
1 ATTACAATACCTTAAATATT
109043762 GAAATCAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTACAATACCTTAAATATTTA
Found at i:109049472 original size:11 final size:12
Alignment explanation
Indices: 109049450--109049486 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
109049440 ATTTCTCCAA
*
109049450 TTTATTTTAATT
1 TTTAATTTAATT
109049462 TTTAA-TTAA-T
1 TTTAATTTAATT
109049472 TTTAATTTAATT
1 TTTAATTTAATT
109049484 TTT
1 TTT
109049487 GAAATGAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
10 6 0.27
11 8 0.36
12 8 0.36
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTAATTTAATT
Found at i:109060578 original size:49 final size:48
Alignment explanation
Indices: 109060524--109060625 Score: 161
Period size: 49 Copynumber: 2.1 Consensus size: 48
109060514 ACTACTCTTA
109060524 TAAAGATTCAAATAAAGAGTCTAAGCAAATCTTA-GACGTTGGATCCATC
1 TAAAGATTCAAATAAAGAGTCTAAGCAAATCTTAGGA-GTTGGAT-CATC
* *
109060573 TAAAGATTCAAATGAAGAGTCTAAGCAAATCTTAGGAGTTGGATCGTC
1 TAAAGATTCAAATAAAGAGTCTAAGCAAATCTTAGGAGTTGGATCATC
109060621 TAAAG
1 TAAAG
109060626 GATAAGCCGA
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
48 8 0.16
49 40 0.80
50 2 0.04
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (48 bp):
TAAAGATTCAAATAAAGAGTCTAAGCAAATCTTAGGAGTTGGATCATC
Found at i:109064549 original size:6 final size:6
Alignment explanation
Indices: 109064538--109064565 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
109064528 GTAAAACATA
109064538 ATAATT ATAATT ATAATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAA
109064566 AAAGTCACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
ATAATT
Found at i:109076032 original size:36 final size:36
Alignment explanation
Indices: 109075985--109076056 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
109075975 GAGTGAGACA
109075985 TTGAATGTGATGGAAAAGGTGTAGTGGAGGTAGGTG
1 TTGAATGTGATGGAAAAGGTGTAGTGGAGGTAGGTG
* *
109076021 TTGAATGTGATGGGATAGGTGTAGTGGAGGTAGGTG
1 TTGAATGTGATGGAAAAGGTGTAGTGGAGGTAGGTG
109076057 GCATATTTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.25, C:0.00, G:0.46, T:0.29
Consensus pattern (36 bp):
TTGAATGTGATGGAAAAGGTGTAGTGGAGGTAGGTG
Found at i:109079689 original size:3 final size:3
Alignment explanation
Indices: 109079681--109079757 Score: 84
Period size: 3 Copynumber: 25.0 Consensus size: 3
109079671 TGGGTAAAAT
* *
109079681 ATA ATA ATA ATA ATA AT- ATA ATA GTA GTA ATA ATA ATA ATA AGGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA
* *
109079727 ATAA ATA ATA ATG ATA ATA GTA ATA ATA ATA
1 AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
109079758 TAAGTAAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
2 2 0.03
3 56 0.88
4 3 0.05
5 3 0.05
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:109080194 original size:18 final size:18
Alignment explanation
Indices: 109080173--109080207 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
109080163 ATATAATAAT
*
109080173 AATAATAATAATAATGGA
1 AATAATAATAAAAATGGA
*
109080191 AATAGTAATAAAAATGG
1 AATAATAATAAAAATGG
109080208 CATTCGAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (18 bp):
AATAATAATAAAAATGGA
Found at i:109080289 original size:21 final size:21
Alignment explanation
Indices: 109080220--109080298 Score: 69
Period size: 21 Copynumber: 3.8 Consensus size: 21
109080210 TTCGAATAAA
109080220 ATAAAT-ATAAGT-ATAAATAT
1 ATAAATAATAA-TAATAAATAT
*
109080240 A-ATGATAATAATAAT-AATA-
1 ATA-AATAATAATAATAAATAT
*
109080259 ATAATGATAATAATGATAAATAT
1 ATAA--ATAATAATAATAAATAT
109080282 ATAAATAATAATAATAA
1 ATAAATAATAATAATAA
109080299 TAAATAGAGC
Statistics
Matches: 47, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
19 2 0.04
20 9 0.19
21 28 0.60
22 4 0.09
23 4 0.09
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (21 bp):
ATAAATAATAATAATAAATAT
Found at i:109080324 original size:3 final size:3
Alignment explanation
Indices: 109080238--109080301 Score: 74
Period size: 3 Copynumber: 20.3 Consensus size: 3
109080228 AAGTATAAAT
* * *
109080238 ATA ATG ATA ATA ATA ATA ATA ATA ATG ATA ATA ATG ATAA ATA TATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA -AT-A
109080286 ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
109080302 ATAGAGCAAC
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
3 45 0.87
4 6 0.12
5 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:109080616 original size:14 final size:14
Alignment explanation
Indices: 109080599--109080650 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
109080589 ATAATAATAG
109080599 AAATATAAATAGAT
1 AAATATAAATAGAT
109080613 AAATA-AAATTAGAT
1 AAATATAAA-TAGAT
109080627 AAA-ATAAATATAGATT
1 AAATAT-AA-ATAGA-T
109080643 AAATATAA
1 AAATATAA
109080651 TAGTAATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
13 4 0.12
14 13 0.41
15 6 0.19
16 7 0.22
17 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (14 bp):
AAATATAAATAGAT
Found at i:109080653 original size:14 final size:14
Alignment explanation
Indices: 109080599--109080653 Score: 58
Period size: 15 Copynumber: 3.8 Consensus size: 14
109080589 ATAATAATAG
109080599 AAATATAAATAGA-T
1 AAATA-AAATAGATT
*
109080613 AAATAAAATTAGATA
1 AAATAAAA-TAGATT
109080628 AAATAAATATAGATT
1 AAATAAA-ATAGATT
*
109080643 AAATATAATAG
1 AAATAAAATAG
109080654 TAATAATGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
13 3 0.09
14 13 0.37
15 18 0.51
16 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (14 bp):
AAATAAAATAGATT
Found at i:109080829 original size:23 final size:21
Alignment explanation
Indices: 109080733--109080833 Score: 60
Period size: 23 Copynumber: 4.5 Consensus size: 21
109080723 AATAATAAGG
* *
109080733 AAAATAAT-AACAATAGTACA
1 AAAATAATAAAGAATAGTAAA
* * *
109080753 ATAATAATAAAGTAGTAATGAAA
1 AAAATAATAAAG-AATAGT-AAA
* *
109080776 ATAAAAAATAACTATAATAGTAAA
1 A-AAATAATAA--AGAATAGTAAA
*
109080800 AATATAATAAAGAATAGTAAA
1 AAAATAATAAAGAATAGTAAA
109080821 GGAAAATAATAAA
1 --AAAATAATAAA
109080834 ATTAACTAAT
Statistics
Matches: 59, Mismatches: 14, Indels: 13
0.69 0.16 0.15
Matches are distributed among these distances:
20 7 0.12
21 12 0.20
22 4 0.07
23 20 0.34
24 11 0.19
25 4 0.07
26 1 0.02
ACGTcount: A:0.65, C:0.03, G:0.09, T:0.23
Consensus pattern (21 bp):
AAAATAATAAAGAATAGTAAA
Found at i:109084283 original size:20 final size:22
Alignment explanation
Indices: 109084258--109084297 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
109084248 TTTAGATATA
109084258 TTTTTATAAT-TATA-ATCGTG
1 TTTTTATAATATATATATCGTG
109084278 TTTTTATAATATATATATCG
1 TTTTTATAATATATATATCG
109084298 ATTTAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 4 0.22
22 4 0.22
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (22 bp):
TTTTTATAATATATATATCGTG
Found at i:109084339 original size:25 final size:24
Alignment explanation
Indices: 109084281--109084339 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 24
109084271 AATCGTGTTT
109084281 TTATAA-TATATATATCGATTTAA
1 TTATAATTATATATATCGATTTAA
* *
109084304 TTAT-GTTTTATAATGATCGATTTTAA
1 TTATAATTATAT-AT-ATCGA-TTTAA
109084330 TTATAATTAT
1 TTATAATTAT
109084340 TTGAATATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
23 8 0.30
24 2 0.07
25 5 0.19
26 9 0.33
27 3 0.11
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (24 bp):
TTATAATTATATATATCGATTTAA
Found at i:109085708 original size:21 final size:21
Alignment explanation
Indices: 109085684--109085726 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
109085674 ACATTTTCTA
*
109085684 AAGTTAAAAGTCAAAATCATT
1 AAGTTAAAAGGCAAAATCATT
109085705 AAGTTAAAAGGCAAAATCATT
1 AAGTTAAAAGGCAAAATCATT
109085726 A
1 A
109085727 TATTGTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAATCATT
Found at i:109091127 original size:50 final size:50
Alignment explanation
Indices: 109091072--109091173 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
109091062 AATTAAGAGT
109091072 TAAAATATACACTTCCATTCATCCTTATCGAACTCGAGACCAAATTATGC
1 TAAAATATACACTTCCATTCATCCTTATCGAACTCGAGACCAAATTATGC
109091122 TAAAATATACACTTCCATTCATCCTTATCGAACTCGAGACCAAATTATGC
1 TAAAATATACACTTCCATTCATCCTTATCGAACTCGAGACCAAATTATGC
109091172 TA
1 TA
109091174 TTTTTGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.30
Consensus pattern (50 bp):
TAAAATATACACTTCCATTCATCCTTATCGAACTCGAGACCAAATTATGC
Found at i:109103560 original size:43 final size:43
Alignment explanation
Indices: 109103513--109103599 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
109103503 AAATGCTCGA
109103513 GATAGACTCTTACAAGCTCAGCAACGAATGAAAAACACTTATG
1 GATAGACTCTTACAAGCTCAGCAACGAATGAAAAACACTTATG
*
109103556 GATAGACTCTTACAAGCTCAGCAACGAATGAAGAACACTTATG
1 GATAGACTCTTACAAGCTCAGCAACGAATGAAAAACACTTATG
109103599 G
1 G
109103600 TTTGGGGCAC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (43 bp):
GATAGACTCTTACAAGCTCAGCAACGAATGAAAAACACTTATG
Found at i:109105795 original size:44 final size:44
Alignment explanation
Indices: 109105727--109105817 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
109105717 TGATAAATGA
*
109105727 ATTGATAGGTTGATCATGCATTTAGTCTCAAACACATTTTACCT
1 ATTGATAGGTAGATCATGCATTTAGTCTCAAACACATTTTACCT
*
109105771 ATTGATAGGTAGATCATGCGTTTAGTCTCAAACACATTTTACCT
1 ATTGATAGGTAGATCATGCATTTAGTCTCAAACACATTTTACCT
109105815 ATT
1 ATT
109105818 ACACATGCAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (44 bp):
ATTGATAGGTAGATCATGCATTTAGTCTCAAACACATTTTACCT
Found at i:109108723 original size:46 final size:46
Alignment explanation
Indices: 109108656--109108746 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
109108646 CTTTCTTTTA
* *
109108656 AAGTAAAAAAATTATTAAATCAATTTACATGCTAAATCAAATTATG
1 AAGTAAAAAAATGATTAAATCAATTCACATGCTAAATCAAATTATG
* *
109108702 AAGTAAAACAATGATTAAATCAATTCACATGTTAAATCAAATTAT
1 AAGTAAAAAAATGATTAAATCAATTCACATGCTAAATCAAATTAT
109108747 CTAATCTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.32
Consensus pattern (46 bp):
AAGTAAAAAAATGATTAAATCAATTCACATGCTAAATCAAATTATG
Found at i:109111338 original size:12 final size:12
Alignment explanation
Indices: 109111321--109111359 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
109111311 GTTATTAATA
109111321 TAATTTAGTTCT
1 TAATTTAGTTCT
109111333 TAATTTAGTTC-
1 TAATTTAGTTCT
109111344 TAATTT-GTT-T
1 TAATTTAGTTCT
109111354 TAATTT
1 TAATTT
109111360 TTTAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 9 0.35
11 6 0.23
12 11 0.42
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.62
Consensus pattern (12 bp):
TAATTTAGTTCT
Found at i:109111480 original size:19 final size:20
Alignment explanation
Indices: 109111440--109111481 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
109111430 CATTTTTTAT
* *
109111440 TTTTTTTGTTTTAATATTTG
1 TTTTTATGTTTTAATATGTG
109111460 TTTTTATGTTTTAA-ATGTG
1 TTTTTATGTTTTAATATGTG
109111479 TTT
1 TTT
109111482 GATTTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.17, C:0.00, G:0.12, T:0.71
Consensus pattern (20 bp):
TTTTTATGTTTTAATATGTG
Found at i:109111713 original size:7 final size:7
Alignment explanation
Indices: 109111701--109111729 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
109111691 GCACACCTCT
109111701 ACCCCCG
1 ACCCCCG
109111708 ACCCCCG
1 ACCCCCG
109111715 A-CCCCG
1 ACCCCCG
109111721 ACCCCCG
1 ACCCCCG
109111728 AC
1 AC
109111730 TCTGCCCCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.17, C:0.69, G:0.14, T:0.00
Consensus pattern (7 bp):
ACCCCCG
Found at i:109111721 original size:13 final size:13
Alignment explanation
Indices: 109111703--109111729 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
109111693 ACACCTCTAC
109111703 CCCCGACCCCCGA
1 CCCCGACCCCCGA
109111716 CCCCGACCCCCGA
1 CCCCGACCCCCGA
109111729 C
1 C
109111730 TCTGCCCCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.70, G:0.15, T:0.00
Consensus pattern (13 bp):
CCCCGACCCCCGA
Found at i:109129441 original size:33 final size:33
Alignment explanation
Indices: 109129404--109129468 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
109129394 AAAATTATAC
*
109129404 AAAACATTAAATT-GTAAATTGAAATAAATTTTG
1 AAAACATT-AATTAGTAAATTAAAATAAATTTTG
* *
109129437 AAAACATTAATTATTAATTTAAAATAAATTTT
1 AAAACATTAATTAGTAAATTAAAATAAATTTT
109129469 AATGCAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (33 bp):
AAAACATTAATTAGTAAATTAAAATAAATTTTG
Found at i:109131263 original size:9 final size:9
Alignment explanation
Indices: 109131249--109131324 Score: 84
Period size: 9 Copynumber: 8.6 Consensus size: 9
109131239 ATAAGTATAA
*
109131249 AATTAACAG
1 AATTAACCG
*
109131258 AATTAACTG
1 AATTAACCG
109131267 AATTAATCC-
1 AATTAA-CCG
109131276 AATTAACCG
1 AATTAACCG
*
109131285 AATTACCCG
1 AATTAACCG
*
109131294 AATTACCCG
1 AATTAACCG
109131303 AATTAACC-
1 AATTAACCG
*
109131311 AATTAACTG
1 AATTAACCG
109131320 AATTA
1 AATTA
109131325 TTTGTATAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
8 9 0.15
9 49 0.83
10 1 0.02
ACGTcount: A:0.45, C:0.20, G:0.08, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:109132756 original size:6 final size:6
Alignment explanation
Indices: 109132738--109132768 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
109132728 TATGACGAGC
*
109132738 ATGAGG ATAAGG ATGAGG ATGAGG ATGAGG A
1 ATGAGG ATGAGG ATGAGG ATGAGG ATGAGG A
109132769 GGACAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.45, T:0.16
Consensus pattern (6 bp):
ATGAGG
Found at i:109139256 original size:13 final size:16
Alignment explanation
Indices: 109139223--109139268 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 16
109139213 AAATGGACTC
109139223 TTTGGACTTATTTATT
1 TTTGGACTTATTTATT
109139239 TTTGGA-TT-TTTATT
1 TTTGGACTTATTTATT
* *
109139253 TTGGGTC-TATTTATT
1 TTTGGACTTATTTATT
109139268 T
1 T
109139269 ACAAATGAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 11 0.42
15 9 0.35
16 6 0.23
ACGTcount: A:0.15, C:0.04, G:0.15, T:0.65
Consensus pattern (16 bp):
TTTGGACTTATTTATT
Found at i:109145994 original size:16 final size:16
Alignment explanation
Indices: 109145973--109146003 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
109145963 TAATTTCTAA
109145973 ATTGTTTTGTATATTG
1 ATTGTTTTGTATATTG
*
109145989 ATTGTTTTTTATATT
1 ATTGTTTTGTATATT
109146004 ATTTCATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.13, T:0.68
Consensus pattern (16 bp):
ATTGTTTTGTATATTG
Found at i:109149495 original size:15 final size:16
Alignment explanation
Indices: 109149477--109149515 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
109149467 AAGATATTTT
109149477 AACAAATAAAATTA-A
1 AACAAATAAAATTAGA
* *
109149492 AACAAATGAAATTAGC
1 AACAAATAAAATTAGA
109149508 AACAAATA
1 AACAAATA
109149516 TGGTAGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.67, C:0.10, G:0.05, T:0.18
Consensus pattern (16 bp):
AACAAATAAAATTAGA
Found at i:109161231 original size:15 final size:16
Alignment explanation
Indices: 109161213--109161251 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
109161203 AAGATATTTT
109161213 AACAAATAAAATT-AA
1 AACAAATAAAATTAAA
*
109161228 AACAAATGAAATTAAA
1 AACAAATAAAATTAAA
109161244 AACAAATA
1 AACAAATA
109161252 TGGTGGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.72, C:0.08, G:0.03, T:0.18
Consensus pattern (16 bp):
AACAAATAAAATTAAA
Found at i:109166117 original size:15 final size:16
Alignment explanation
Indices: 109166099--109166137 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
109166089 AAGATATTTT
109166099 AACAAATAAAATTAA-
1 AACAAATAAAATTAAC
*
109166114 AACAAATGAAATTAAC
1 AACAAATAAAATTAAC
109166130 AACAAATA
1 AACAAATA
109166138 TGGTGGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.69, C:0.10, G:0.03, T:0.18
Consensus pattern (16 bp):
AACAAATAAAATTAAC
Found at i:109171806 original size:21 final size:21
Alignment explanation
Indices: 109171780--109171820 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
109171770 AGACAAGCGA
* *
109171780 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
109171801 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
109171821 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:109175006 original size:5 final size:5
Alignment explanation
Indices: 109174996--109175023 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
109174986 ATAGTATGTA
109174996 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
109175024 GAACACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:109177884 original size:18 final size:18
Alignment explanation
Indices: 109177861--109177901 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
109177851 ATATAATTAG
109177861 CTCCACCTCTCGAAGGCA
1 CTCCACCTCTCGAAGGCA
109177879 CTCCACCTCTCGAAGGCA
1 CTCCACCTCTCGAAGGCA
109177897 CTCCA
1 CTCCA
109177902 ATATCCCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.22, C:0.46, G:0.15, T:0.17
Consensus pattern (18 bp):
CTCCACCTCTCGAAGGCA
Found at i:109181959 original size:84 final size:84
Alignment explanation
Indices: 109181818--109181985 Score: 336
Period size: 84 Copynumber: 2.0 Consensus size: 84
109181808 ATGTGCATAC
109181818 AACAATAATATATTAGATAGTATCTATCGGTCTACAAACGTAACCATTTAACAGATTTAACAGTA
1 AACAATAATATATTAGATAGTATCTATCGGTCTACAAACGTAACCATTTAACAGATTTAACAGTA
109181883 TCACTAACCTCGAACCAAT
66 TCACTAACCTCGAACCAAT
109181902 AACAATAATATATTAGATAGTATCTATCGGTCTACAAACGTAACCATTTAACAGATTTAACAGTA
1 AACAATAATATATTAGATAGTATCTATCGGTCTACAAACGTAACCATTTAACAGATTTAACAGTA
109181967 TCACTAACCTCGAACCAAT
66 TCACTAACCTCGAACCAAT
109181986 GACCCAAGAT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.29
Consensus pattern (84 bp):
AACAATAATATATTAGATAGTATCTATCGGTCTACAAACGTAACCATTTAACAGATTTAACAGTA
TCACTAACCTCGAACCAAT
Found at i:109198911 original size:3 final size:3
Alignment explanation
Indices: 109198903--109198931 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
109198893 TGAATAGTAA
109198903 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
109198932 AGAATAATTT
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:109199657 original size:16 final size:15
Alignment explanation
Indices: 109199621--109199659 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
109199611 AAGATATTTT
109199621 AACAAATAAAGTTAA
1 AACAAATAAAGTTAA
109199636 AACAAATGAAA-TTAA
1 AACAAAT-AAAGTTAA
109199651 CAACAAATA
1 -AACAAATA
109199660 CATTGGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.67, C:0.10, G:0.05, T:0.18
Consensus pattern (15 bp):
AACAAATAAAGTTAA
Found at i:109213214 original size:16 final size:15
Alignment explanation
Indices: 109213178--109213216 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
109213168 AAGATATTTT
109213178 AACAAATAAAGTTAA
1 AACAAATAAAGTTAA
109213193 AACAAATGAAA-TTAA
1 AACAAAT-AAAGTTAA
109213208 CAACAAATA
1 -AACAAATA
109213217 CGGTGGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.67, C:0.10, G:0.05, T:0.18
Consensus pattern (15 bp):
AACAAATAAAGTTAA
Found at i:109216466 original size:15 final size:16
Alignment explanation
Indices: 109216446--109216475 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
109216436 TATAATACAT
109216446 TAAATACG-TGAAAAA
1 TAAATACGATGAAAAA
109216461 TAAATACGATGAAAA
1 TAAATACGATGAAAA
109216476 CACTGTTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.07, G:0.13, T:0.20
Consensus pattern (16 bp):
TAAATACGATGAAAAA
Found at i:109220692 original size:13 final size:13
Alignment explanation
Indices: 109220674--109220704 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
109220664 TTTTTAGTTC
*
109220674 AATTTGGTACCTA
1 AATTTGGTAACTA
109220687 AATTTGGTAACTA
1 AATTTGGTAACTA
109220700 AATTT
1 AATTT
109220705 TTTGTTCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (13 bp):
AATTTGGTAACTA
Found at i:109231786 original size:18 final size:18
Alignment explanation
Indices: 109231763--109231800 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
109231753 ATATTTTTCA
109231763 AATTCAGATATC-AAAATG
1 AATTCAGATA-CAAAAATG
*
109231781 AATTCAGGTACAAAAATG
1 AATTCAGATACAAAAATG
109231799 AA
1 AA
109231801 CCTTGTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.53, C:0.11, G:0.13, T:0.24
Consensus pattern (18 bp):
AATTCAGATACAAAAATG
Found at i:109247744 original size:111 final size:110
Alignment explanation
Indices: 109247515--109247714 Score: 258
Period size: 111 Copynumber: 1.8 Consensus size: 110
109247505 GACCAATGAC
* * *
109247515 CAAAAGTTTTATCTTTTGATTAATTACACCCATTCATTTATAGTTATTGGGATACTATAAATATT
1 CAAAAGTTATATCATTTGATTAATTAAACCCATTCATTTATAGTTATTGGGATACTATAAATATT
* * ** * ** *
109247580 TGAAAATATTCTAACAATCTTCCCCCATTTTCAAAATATTTAGAAT
66 TGAAAATATTCCAACAATATTCAACCA-TCTCAAAATACCTACAAT
**
109247626 CAAAAGTTATATCATTTGATTTTTTAAACCCATTCATTTATAGTTATTGGGATACTATAAATATT
1 CAAAAGTTATATCATTTGATTAATTAAACCCATTCATTTATAGTTATTGGGATACTATAAATATT
109247691 TGAAAATATTCCAACAGA-ATTCAA
66 TGAAAATATTCCAACA-ATATTCAA
109247715 GCACTGAAGG
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
111 78 0.99
112 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.41
Consensus pattern (110 bp):
CAAAAGTTATATCATTTGATTAATTAAACCCATTCATTTATAGTTATTGGGATACTATAAATATT
TGAAAATATTCCAACAATATTCAACCATCTCAAAATACCTACAAT
Found at i:109255035 original size:16 final size:18
Alignment explanation
Indices: 109255009--109255042 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
109254999 CACAATTCAC
109255009 TTTCTTTTCTT-TTTTTT
1 TTTCTTTTCTTCTTTTTT
109255026 TTTC-TTTCTTCTTTTTT
1 TTTCTTTTCTTCTTTTTT
109255043 CCGAGACATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTCTTTTCTTCTTTTTT
Found at i:109261223 original size:27 final size:27
Alignment explanation
Indices: 109261185--109261237 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
109261175 GGTCCATAGT
* *
109261185 AGGAGGATTTGTTAGCTTGTTAGTAGG
1 AGGAGGAGTTGTTAGCTTATTAGTAGG
109261212 AGGAGGAGTTGTTAGCTTATTAGTAG
1 AGGAGGAGTTGTTAGCTTATTAGTAG
109261238 CAATTTGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.04, G:0.36, T:0.36
Consensus pattern (27 bp):
AGGAGGAGTTGTTAGCTTATTAGTAGG
Found at i:109271068 original size:42 final size:42
Alignment explanation
Indices: 109271009--109271093 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
109270999 AAAGGGGAAG
*
109271009 TAGGGTCGAATCCTCAGGGACCGGATTATATGAATGCTTGTC
1 TAGGGTCGAATCCTCAGGGACCGGATTATACGAATGCTTGTC
109271051 TAGGGTCGAATCCTCAGGGACCGGATTATACGAATGCTTGTC
1 TAGGGTCGAATCCTCAGGGACCGGATTATACGAATGCTTGTC
109271093 T
1 T
109271094 CTCGAAATCC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (42 bp):
TAGGGTCGAATCCTCAGGGACCGGATTATACGAATGCTTGTC
Found at i:109274166 original size:9 final size:9
Alignment explanation
Indices: 109274152--109274176 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
109274142 TAACTAATTC
109274152 TATTTTATT
1 TATTTTATT
109274161 TATTTTATT
1 TATTTTATT
109274170 TATTTTA
1 TATTTTA
109274177 ATATTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TATTTTATT
Found at i:109274396 original size:15 final size:15
Alignment explanation
Indices: 109274370--109274419 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
109274360 ATAACTTAAA
*
109274370 TTTAGTACTTAATTT
1 TTTAATACTTAATTT
*
109274385 TTTAATATTTAA-TT
1 TTTAATACTTAATTT
* *
109274399 TTTGACACTTAATTT
1 TTTAATACTTAATTT
109274414 TTTAAT
1 TTTAAT
109274420 TTATCAAATA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (15 bp):
TTTAATACTTAATTT
Found at i:109274418 original size:22 final size:22
Alignment explanation
Indices: 109274408--109274451 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
109274398 TTTTGACACT
109274408 TAATTTTTTAATTTATCAAATA
1 TAATTTTTTAATTTATCAAATA
109274430 TAATTTTTTAATTTATCAAATA
1 TAATTTTTTAATTTATCAAATA
109274452 GCACCTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATTTTTTAATTTATCAAATA
Found at i:109277702 original size:13 final size:14
Alignment explanation
Indices: 109277684--109277714 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
109277674 TGGCTCACCC
109277684 ATATTATT-TTTTT
1 ATATTATTATTTTT
109277697 ATATTATTATTTTT
1 ATATTATTATTTTT
109277711 ATAT
1 ATAT
109277715 AAAAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
ATATTATTATTTTT
Found at i:109277706 original size:16 final size:16
Alignment explanation
Indices: 109277685--109277715 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
109277675 GGCTCACCCA
*
109277685 TATTATTTTTTTATAT
1 TATTATTTTTATATAT
109277701 TATTATTTTTATATA
1 TATTATTTTTATATA
109277716 AAAATAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTATTTTTATATAT
Found at i:109282790 original size:11 final size:11
Alignment explanation
Indices: 109282774--109282805 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
109282764 GAAATTTAAT
109282774 AATGGAAGAAG
1 AATGGAAGAAG
109282785 AATGGAAGAAG
1 AATGGAAGAAG
109282796 AATGGAAGAA
1 AATGGAAGAA
109282806 TTTGGATGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.34, T:0.09
Consensus pattern (11 bp):
AATGGAAGAAG
Found at i:109288138 original size:36 final size:36
Alignment explanation
Indices: 109288097--109288208 Score: 179
Period size: 36 Copynumber: 3.1 Consensus size: 36
109288087 GATGTAAAAA
* *
109288097 ATGGTACTACGAATGAAGTGGTTTCATTTGATGTTG
1 ATGGTACTACGAACGAAGTGGTTTCATCTGATGTTG
* *
109288133 CTGGTACAACGAACGAAGTGGTTTCATCTGATGTTG
1 ATGGTACTACGAACGAAGTGGTTTCATCTGATGTTG
*
109288169 ATGGTACTATGAACGAAGTGGTTTCATCTGATGTTG
1 ATGGTACTACGAACGAAGTGGTTTCATCTGATGTTG
109288205 ATGG
1 ATGG
109288209 GGGTAATAGG
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 69 1.00
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.35
Consensus pattern (36 bp):
ATGGTACTACGAACGAAGTGGTTTCATCTGATGTTG
Done.