Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 234 of 255
Found at i:76999143 original size:3 final size:3
Alignment explanation
Indices: 76999105--76999167 Score: 60
Period size: 3 Copynumber: 21.3 Consensus size: 3
76999095 AAAATTCATG
* * *
76999105 TTA TTA TT- TTAA TTA TCA TTC TTA TTA TTGA -CA TTA TTA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
76999150 TTA TTA TT- TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
76999168 ATATGTGTGT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
2 5 0.10
3 41 0.84
4 3 0.06
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:76999655 original size:30 final size:30
Alignment explanation
Indices: 76999621--76999679 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
76999611 ATTCGACGTA
* *
76999621 TTATTTATTTTCAA-TATTTTCATATATATG
1 TTATTTATCTTAAACTATTTT-ATATATATG
76999651 TTATTTATCTTAAACTATTTTATATATAT
1 TTATTTATCTTAAACTATTTTATATATAT
76999680 TCCTTTCAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (30 bp):
TTATTTATCTTAAACTATTTTATATATATG
Found at i:77005777 original size:149 final size:150
Alignment explanation
Indices: 77005623--77005917 Score: 506
Period size: 150 Copynumber: 2.0 Consensus size: 150
77005613 CAAAAGTTAC
*
77005623 AAATAATCTCAATTTAATTTTAATTCTAAAAAATTTCAAAGAAAATAAAAAAATACATAAAAAAT
1 AAATAATCTCAATTTAATCTTAATTCTAAAAAA-TTCAAAGAAAAT-AAAAAATACATAAAAAAT
*
77005688 TCAAACAAATAAT-A-A-ATTAAAATTTTATATTAATATTAAATAAAAACTCTCCCCGTCTACCT
64 TCAAACAAATAATAATATATTAAAATTTTAAATTAATATTAAATAAAAACTCTCCCCGTCTACCT
* *
77005750 CTTATCTCTCCCTCCCCTATAT
129 CTTACCCCTCCCTCCCCTATAT
77005772 AAATAATCTCAATTTAATCTTAATTCTAAAAAATTCAAAGAAAATAAAAAATACATAAAAAATTC
1 AAATAATCTCAATTTAATCTTAATTCTAAAAAATTCAAAGAAAATAAAAAATACATAAAAAATTC
77005837 AAACAAATAATAATATATTAAAATTTTAAATTAATATTAAATAAAAACTCTCCCCGTCTACCTCT
66 AAACAAATAATAATATATTAAAATTTTAAATTAATATTAAATAAAAACTCTCCCCGTCTACCTCT
*
77005902 TACCCCTCCCTGCCCT
131 TACCCCTCCCTCCCCT
77005918 GCCACGTCCC
Statistics
Matches: 138, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
147 31 0.22
148 13 0.09
149 33 0.24
150 61 0.44
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.32
Consensus pattern (150 bp):
AAATAATCTCAATTTAATCTTAATTCTAAAAAATTCAAAGAAAATAAAAAATACATAAAAAATTC
AAACAAATAATAATATATTAAAATTTTAAATTAATATTAAATAAAAACTCTCCCCGTCTACCTCT
TACCCCTCCCTCCCCTATAT
Found at i:77006251 original size:18 final size:17
Alignment explanation
Indices: 77006211--77006254 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
77006201 TTTTATTTTT
77006211 TATTTAATATTTATATAA
1 TATTTAA-ATTTATATAA
* *
77006229 AATTTAAATTTATCATTA
1 TATTTAAATTTAT-ATAA
77006247 TATTTAAA
1 TATTTAAA
77006255 AAATATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTTAAATTTATATAA
Found at i:77014174 original size:48 final size:49
Alignment explanation
Indices: 77014044--77014278 Score: 199
Period size: 48 Copynumber: 4.9 Consensus size: 49
77014034 TAACGGTGCT
* * *
77014044 GATGCCATGTCCCAAACATGGTCTTATACGGGACCTCATA-TCGATGCC
1 GATGCCATATCCCAGACATGGTCTTATACGGGATCTCATACTCGATGCC
* * * * * * ** * *
77014092 AACGCCATATCCAAGATATGGCCTTACATTGGATCTCATACT-AATGTC
1 GATGCCATATCCCAGACATGGTCTTATACGGGATCTCATACTCGATGCC
* ** *
77014140 GATGCCATATCCCAGACGTGGTCTTATACGGGATCTTTTA-TCGATACC
1 GATGCCATATCCCAGACATGGTCTTATACGGGATCTCATACTCGATGCC
* * * * *
77014188 GATGCCATATCCTAGACATAGTCTTACACGGGATCACAT-CTTGATGCC
1 GATGCCATATCCCAGACATGGTCTTATACGGGATCTCATACTCGATGCC
* ** *
77014236 AATGTTATATCCCAGATATGGTCTTATACGGGATCTCAATACT
1 GATGCCATATCCCAGACATGGTCTTATACGGGATCTC-ATACT
77014279 TGTAACACCC
Statistics
Matches: 138, Mismatches: 44, Indels: 8
0.73 0.23 0.04
Matches are distributed among these distances:
47 1 0.01
48 132 0.96
49 3 0.02
50 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (49 bp):
GATGCCATATCCCAGACATGGTCTTATACGGGATCTCATACTCGATGCC
Found at i:77014214 original size:96 final size:96
Alignment explanation
Indices: 77014044--77014273 Score: 246
Period size: 96 Copynumber: 2.4 Consensus size: 96
77014034 TAACGGTGCT
* * * * *
77014044 GATGCCATGTCCCAAACATGGTCTTATACGGGACCTCATATCGATGCCAACGCCATATCCAAGAT
1 GATGCCATATCCCAGACATGGTCTTATACGGGATCTCATATCGATACCAACGCCATATCCAAGAC
* ** * *
77014109 ATGGCCTTACATTGGATCTCATAC-TAATGTC
66 ATAGCCTTACACGGGATCACAT-CTTAATGCC
* ** * * *
77014140 GATGCCATATCCCAGACGTGGTCTTATACGGGATCTTTTATCGATACCGATGCCATATCCTAGAC
1 GATGCCATATCCCAGACATGGTCTTATACGGGATCTCATATCGATACCAACGCCATATCCAAGAC
* *
77014205 ATAGTCTTACACGGGATCACATCTTGATGCC
66 ATAGCCTTACACGGGATCACATCTTAATGCC
* ** *
77014236 AATGTTATATCCCAGATATGGTCTTATACGGGATCTCA
1 GATGCCATATCCCAGACATGGTCTTATACGGGATCTCA
77014274 ATACTTGTAA
Statistics
Matches: 108, Mismatches: 25, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
95 1 0.01
96 107 0.99
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (96 bp):
GATGCCATATCCCAGACATGGTCTTATACGGGATCTCATATCGATACCAACGCCATATCCAAGAC
ATAGCCTTACACGGGATCACATCTTAATGCC
Found at i:77015213 original size:46 final size:46
Alignment explanation
Indices: 77014942--77015215 Score: 343
Period size: 46 Copynumber: 6.0 Consensus size: 46
77014932 TTATCTTCGA
* * * * * *
77014942 CATGATGCCATAGTGTCTTTCAACTATAGTCTTACTCATTTTC-TAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
* * * **
77014988 CATGTTGCCATGGTATCCTTCAACCATTGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
*
77015034 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * **
77015080 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
77015126 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
77015172 CATGTTGCTATGGTATCTTTCTACCATGGTCTTACGCATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
77015216 TTCAGAAAGC
Statistics
Matches: 202, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 4 0.02
46 198 0.98
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:77015213 original size:92 final size:92
Alignment explanation
Indices: 77014942--77015205 Score: 395
Period size: 92 Copynumber: 2.9 Consensus size: 92
77014932 TTATCTTCGA
* * * * * *
77014942 CATGATGCCATAGTGTCTTTCAACTATAGTCTTACTCATTTTC-TATCATGTTGCCATGGTATCC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCATGTTGCCATGGTATCT
*
77015006 TTCAACCATTGTCTTATTCATTTCCCGT
65 TTCAACCATGGTCTTATTCATTTCCCGT
* * *
77015034 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATGGTATCTT
77015099 TCAACCATGGTCTTATTCATTTCCCGT
66 TCAACCATGGTCTTATTCATTTCCCGT
* *
77015126 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCTATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATGGTATCTT
*
77015191 TCTACCATGGTCTTA
66 TCAACCATGGTCTTA
77015206 CGCATTTCAT
Statistics
Matches: 155, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
91 4 0.03
92 151 0.97
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (92 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATGGTATCTT
TCAACCATGGTCTTATTCATTTCCCGT
Found at i:77016555 original size:12 final size:12
Alignment explanation
Indices: 77016538--77016582 Score: 90
Period size: 12 Copynumber: 3.8 Consensus size: 12
77016528 CGATTTCCAC
77016538 AATATGAAATTA
1 AATATGAAATTA
77016550 AATATGAAATTA
1 AATATGAAATTA
77016562 AATATGAAATTA
1 AATATGAAATTA
77016574 AATATGAAA
1 AATATGAAA
77016583 GTTCGACCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (12 bp):
AATATGAAATTA
Found at i:77023544 original size:49 final size:49
Alignment explanation
Indices: 77023337--77023573 Score: 244
Period size: 49 Copynumber: 4.8 Consensus size: 49
77023327 TAGACAAGGC
* * *
77023337 TATCTAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
** * * * ** *
77023386 TATCTGGTACATGTA-TAGCCTACACTTAGTACTACGCACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACC-AAT
* * * * * *
77023435 CATCTGATACACATAGTAGCTTGCACTTAATACTACACACATG-ATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACT--ACACATGCAACCAA-T
* *
77023486 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
*
77023535 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
77023574 CGTGACCTCA
Statistics
Matches: 149, Mismatches: 33, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
48 26 0.17
49 68 0.46
50 21 0.14
51 29 0.19
52 5 0.03
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
Found at i:77029717 original size:16 final size:17
Alignment explanation
Indices: 77029696--77029727 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
77029686 AAAAAAATCA
77029696 AACAAAACTAA-ATTTT
1 AACAAAACTAACATTTT
77029712 AACAAAACTAACATTT
1 AACAAAACTAACATTT
77029728 ATTTGTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (17 bp):
AACAAAACTAACATTTT
Found at i:77030296 original size:18 final size:19
Alignment explanation
Indices: 77030266--77030302 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
77030256 TCAATAAATA
77030266 TTTTATATAAT-AATTTAG
1 TTTTATATAATAAATTTAG
77030284 TTTTA-ATAGATAAATTTAG
1 TTTTATATA-ATAAATTTAG
77030303 AGTTAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.18
18 7 0.41
19 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (19 bp):
TTTTATATAATAAATTTAG
Found at i:77030442 original size:34 final size:34
Alignment explanation
Indices: 77030399--77030463 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
77030389 GGAGAGGTGT
*
77030399 GGTAGATGGTAATGAAAAGTTAAATGTGGGTAGG
1 GGTAGATGGTAATGAAAAGTTAAATGAGGGTAGG
** *
77030433 GGTAGATGGTCCTGAAAATTTAAATGAGGGT
1 GGTAGATGGTAATGAAAAGTTAAATGAGGGT
77030464 TTAGTAGAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.34, C:0.03, G:0.35, T:0.28
Consensus pattern (34 bp):
GGTAGATGGTAATGAAAAGTTAAATGAGGGTAGG
Found at i:77031997 original size:11 final size:11
Alignment explanation
Indices: 77031981--77032017 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
77031971 ATTAATTAAG
77031981 TAAAAATGAAA
1 TAAAAATGAAA
77031992 TAAAAA--ATAA
1 TAAAAATGA-AA
77032002 TAAAAATGAAA
1 TAAAAATGAAA
77032013 TAAAA
1 TAAAA
77032018 TGGTGATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
9 1 0.04
10 8 0.35
11 13 0.57
12 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (11 bp):
TAAAAATGAAA
Found at i:77032371 original size:23 final size:23
Alignment explanation
Indices: 77032345--77032389 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
77032335 TATATACTAA
**
77032345 ATATATATTTTTTATTTTTAATC
1 ATATATACATTTTATTTTTAATC
*
77032368 ATATTTACATTTTATTTTTAAT
1 ATATATACATTTTATTTTTAAT
77032390 TTTAATATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (23 bp):
ATATATACATTTTATTTTTAATC
Found at i:77032908 original size:18 final size:17
Alignment explanation
Indices: 77032878--77032917 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
77032868 TAAATCAGTT
77032878 TAATAGTATAATAATAA
1 TAATAGTATAATAATAA
77032895 TAATAGTGATAATAATAA
1 TAATAGT-ATAATAATAA
*
77032913 AAATA
1 TAATA
77032918 ATAATGTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (17 bp):
TAATAGTATAATAATAA
Found at i:77033623 original size:17 final size:16
Alignment explanation
Indices: 77033601--77033641 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
77033591 AAATAGCTTC
77033601 GAAAAAAAGAAAGAAAA
1 GAAAAAAAGAAA-AAAA
*
77033618 GAAAAATAATAAAAAAA
1 GAAAAA-AAGAAAAAAA
77033635 GAAAAAA
1 GAAAAAA
77033642 TAATAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 16 0.73
18 5 0.23
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (16 bp):
GAAAAAAAGAAAAAAA
Found at i:77033631 original size:24 final size:23
Alignment explanation
Indices: 77033604--77033660 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
77033594 TAGCTTCGAA
77033604 AAAAAGAAAGAAAAGAAAAATAAT
1 AAAAAGAAAGAAAA-AAAAATAAT
*
77033628 -AAAA-AAAGAAAAAATAATAAT
1 AAAAAGAAAGAAAAAAAAATAAT
* *
77033649 AATAAGGAAGAA
1 AAAAAGAAAGAA
77033661 CCATCTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 8 0.29
22 11 0.39
23 9 0.32
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.11
Consensus pattern (23 bp):
AAAAAGAAAGAAAAAAAAATAAT
Found at i:77033640 original size:18 final size:17
Alignment explanation
Indices: 77033601--77033647 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
77033591 AAATAGCTTC
*
77033601 GAAAAA-AAGAAAGAAAA
1 GAAAAATAATAAA-AAAA
77033618 GAAAAATAATAAAAAAA
1 GAAAAATAATAAAAAAA
77033635 GAAAAAATAATAA
1 G-AAAAATAATAA
77033648 TAATAAGGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.09
Consensus pattern (17 bp):
GAAAAATAATAAAAAAA
Found at i:77049378 original size:20 final size:21
Alignment explanation
Indices: 77049341--77049391 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
77049331 GAAAATTGTT
77049341 TAAAAAT-TCTTAAGAATTATA
1 TAAAAATAT-TTAAGAATTATA
77049362 TAAAAATATTTAA-AATTATA
1 TAAAAATATTTAAGAATTATA
*
77049382 -ATAAATATTT
1 TAAAAATATTT
77049392 GAATTGCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 9 0.32
20 7 0.25
21 11 0.39
22 1 0.04
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
TAAAAATATTTAAGAATTATA
Found at i:77049396 original size:18 final size:20
Alignment explanation
Indices: 77049353--77049396 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
77049343 AAAATTCTTA
77049353 AGAATTATATAAAAATATTT
1 AGAATTATATAAAAATATTT
* *
77049373 AAAATTATA-ATAAATATTT
1 AGAATTATATAAAAATATTT
77049392 -GAATT
1 AGAATT
77049397 GCAAATTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 4 0.19
19 9 0.43
20 8 0.38
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (20 bp):
AGAATTATATAAAAATATTT
Found at i:77050648 original size:22 final size:23
Alignment explanation
Indices: 77050609--77050660 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
77050599 TTCGAATTTT
77050609 TTTTTATTTCTTTGTTTT-TCTA
1 TTTTTATTTCTTTGTTTTCTCTA
* *
77050631 TTTTTATTT-TATTTTTTTCTCTC
1 TTTTTATTTCT-TTGTTTTCTCTA
77050654 TTTTTAT
1 TTTTTAT
77050661 GCACATATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.04
22 15 0.58
23 10 0.38
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.79
Consensus pattern (23 bp):
TTTTTATTTCTTTGTTTTCTCTA
Found at i:77051422 original size:27 final size:26
Alignment explanation
Indices: 77051330--77051423 Score: 86
Period size: 28 Copynumber: 3.5 Consensus size: 26
77051320 TACTTTTTAC
*
77051330 TATTT-TACATTATTATATTTATTATT
1 TATTTATATATTATTATATTTATT-TT
*
77051356 TATTTTAACATATTATTAT-TTTA-TTT
1 TA-TTT-ATATATTATTATATTTATTTT
* *
77051382 TCTTTATATCATTATTATACTTAGTTTT
1 TATTTATAT-ATTATTATATTTA-TTTT
77051410 TATTTATATATTAT
1 TATTTATATATTAT
77051424 ATTTTCTCTT
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
24 3 0.05
25 11 0.20
26 8 0.15
27 9 0.16
28 15 0.27
29 9 0.16
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (26 bp):
TATTTATATATTATTATATTTATTTT
Found at i:77051672 original size:27 final size:27
Alignment explanation
Indices: 77051635--77051689 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
77051625 ACATGTGCTA
* * *
77051635 TATATATATTTTTTATTCTATATTATG
1 TATATATATTTCTAATGCTATATTATG
*
77051662 TATATGTATTTCTAATGCTATATTATG
1 TATATATATTTCTAATGCTATATTATG
77051689 T
1 T
77051690 TTTCATGTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.58
Consensus pattern (27 bp):
TATATATATTTCTAATGCTATATTATG
Found at i:77051688 original size:21 final size:18
Alignment explanation
Indices: 77051664--77051708 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
77051654 ATATTATGTA
77051664 TATGTATTTCTAATGCTATAT
1 TATGTATTTC--ATG-TATAT
77051685 TATGT-TTTCATGTATAT
1 TATGTATTTCATGTATAT
77051702 TATGTAT
1 TATGTAT
77051709 ATATTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 10 0.43
18 4 0.17
20 4 0.17
21 5 0.22
ACGTcount: A:0.27, C:0.07, G:0.11, T:0.56
Consensus pattern (18 bp):
TATGTATTTCATGTATAT
Found at i:77056289 original size:18 final size:19
Alignment explanation
Indices: 77056250--77056290 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
77056240 TACAAAAAAA
* *
77056250 AAAATTCAAAATAATTTTT
1 AAAATACAAAATAATTTAT
77056269 AAAATACAAAAT-ATTTAT
1 AAAATACAAAATAATTTAT
77056287 AAAA
1 AAAA
77056291 GTTCTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATACAAAATAATTTAT
Found at i:77069240 original size:21 final size:21
Alignment explanation
Indices: 77069211--77069259 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
77069201 TAACTCAAAT
77069211 TATT-TTTAAAATTATTATT-
1 TATTATTTAAAATTATTATTA
* *
77069230 TATCTATTTAAATTTTTTATTA
1 TAT-TATTTAAAATTATTATTA
77069252 TATTATTT
1 TATTATTT
77069260 GCTAGAGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 3 0.12
20 1 0.04
21 18 0.72
22 3 0.12
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (21 bp):
TATTATTTAAAATTATTATTA
Found at i:77079896 original size:93 final size:93
Alignment explanation
Indices: 77079783--77079954 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
77079773 CGCCCATAAG
* * *
77079783 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGGCTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
77079848 ACAAGTTCGGATGCCTAGTTACATCTCA
66 ACAAGTTCGGATGCCTAGTTACATCTCA
*
77079876 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
77079941 ACGAGTTCGGATGC
66 ACAAGTTCGGATGC
77079955 TCAACCATCC
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:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATCTCA
Found at i:77079951 original size:46 final size:46
Alignment explanation
Indices: 77079776--77079951 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
77079766 TGTAACCCGC
* * *
77079776 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * * *
77079822 CCATAAGTGAACTCGGGCTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
77079872 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
77079915 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
77079952 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.57
47 27 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:77082114 original size:9 final size:8
Alignment explanation
Indices: 77082086--77082130 Score: 58
Period size: 7 Copynumber: 5.8 Consensus size: 8
77082076 GTTTTTTTTA
77082086 TAAAATA-
1 TAAAATAT
77082093 TAAAATA-
1 TAAAATAT
77082100 TAAAATAT
1 TAAAATAT
*
77082108 CTAAAATAA
1 -TAAAATAT
77082117 TAAAATAT
1 TAAAATAT
77082125 TAAAAT
1 TAAAAT
77082131 TATCAATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
7 14 0.41
8 13 0.38
9 7 0.21
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (8 bp):
TAAAATAT
Found at i:77082114 original size:16 final size:15
Alignment explanation
Indices: 77082084--77082130 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
77082074 TAGTTTTTTT
77082084 TATAAAATA-TAAAA
1 TATAAAATATTAAAA
77082098 TATAAAATATCTAAAA
1 TATAAAATAT-TAAAA
77082114 TAATAAAATATTAAAA
1 T-ATAAAATATTAAAA
77082130 T
1 T
77082131 TATCAATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.30
16 12 0.40
17 9 0.30
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (15 bp):
TATAAAATATTAAAA
Found at i:77085766 original size:14 final size:14
Alignment explanation
Indices: 77085728--77085773 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
77085718 TTCCACTAAC
*
77085728 TTTGGTTAATTAAAG
1 TTTGATTAATT-AAG
* *
77085743 TTTAATTAATTAAT
1 TTTGATTAATTAAG
77085757 TTTGATTAATTAAG
1 TTTGATTAATTAAG
77085771 TTT
1 TTT
77085774 AATCCAATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 17 0.65
15 9 0.35
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (14 bp):
TTTGATTAATTAAG
Found at i:77085782 original size:29 final size:29
Alignment explanation
Indices: 77085728--77085783 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
77085718 TTCCACTAAC
* *
77085728 TTTGGTTAATTAAAGTTTAATTAATTAAT
1 TTTGATTAATTAAAGTTTAATCAATTAAT
77085757 TTTGATTAATT-AAGTTTAATCCAATTA
1 TTTGATTAATTAAAGTTTAAT-CAATTA
77085784 TCTAAAGGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.50
Consensus pattern (29 bp):
TTTGATTAATTAAAGTTTAATCAATTAAT
Found at i:77088398 original size:28 final size:26
Alignment explanation
Indices: 77088367--77088426 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
77088357 TAAAACTCTA
77088367 AAATA-GAATATACATAAAGATTTAAAAT
1 AAATATGAATATA-A-AAA-ATTTAAAAT
*
77088395 AAATCATGTATATAAAAAATTTAAAAT
1 AAAT-ATGAATATAAAAAATTTAAAAT
77088422 AAATA
1 AAATA
77088427 ATGTAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
26 1 0.03
27 13 0.45
28 7 0.24
29 2 0.07
30 6 0.21
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (26 bp):
AAATATGAATATAAAAAATTTAAAAT
Found at i:77089239 original size:26 final size:22
Alignment explanation
Indices: 77089206--77089262 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
77089196 CAATAATAGA
*
77089206 ATTAA-TAATAAAAATAAAGTTG
1 ATTAATTAATAAAAA-ATAGTTG
*
77089228 ATTAATTAATAAAAAATGGTTG
1 ATTAATTAATAAAAAATAGTTG
77089250 ATTAATTAA-AAAA
1 ATTAATTAATAAAA
77089263 GGACTATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 4 0.12
22 19 0.59
23 9 0.28
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (22 bp):
ATTAATTAATAAAAAATAGTTG
Found at i:77090731 original size:26 final size:25
Alignment explanation
Indices: 77090702--77090771 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 25
77090692 GAAAATTTTG
77090702 AATAGATAATATATGAAATAATCTAA
1 AATA-ATAATATATGAAATAATCTAA
* * * *
77090728 AATAAAATATATATAAAATATTTTAA
1 AATAATA-ATATATGAAATAATCTAA
77090754 AATAAATAATATATGAAA
1 AAT-AATAATATATGAAA
77090772 GGTTTAAAGT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
25 2 0.06
26 31 0.86
27 3 0.08
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (25 bp):
AATAATAATATATGAAATAATCTAA
Found at i:77090763 original size:52 final size:52
Alignment explanation
Indices: 77090623--77090771 Score: 153
Period size: 52 Copynumber: 2.9 Consensus size: 52
77090613 AAAGAGCTTT
* * * * *
77090623 TAAAATAAACA-ATATATATAAATTTTAAAATTAATAACATAT-AAACAGTT
1 TAAAATAAACATATATATAAAAATTTTAAAATAAATAATATATGAAACAATC
* * * * * *
77090673 TAAATTAAACACTATACATGAAAATTTT-GAATAGATAATATATGAAATAATC
1 TAAAATAAACA-TATATATAAAAATTTTAAAATAAATAATATATGAAACAATC
77090725 TAAAATAAA-ATATATATAAAATATTTTAAAATAAATAATATATGAAA
1 TAAAATAAACATATATATAAAA-ATTTTAAAATAAATAATATATGAAA
77090772 GGTTTAAAGT
Statistics
Matches: 78, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
50 19 0.24
51 17 0.22
52 42 0.54
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.34
Consensus pattern (52 bp):
TAAAATAAACATATATATAAAAATTTTAAAATAAATAATATATGAAACAATC
Found at i:77090865 original size:24 final size:24
Alignment explanation
Indices: 77090589--77090870 Score: 124
Period size: 25 Copynumber: 11.3 Consensus size: 24
77090579 ATGGACAATG
*
77090589 TATAAAAACTTAAAATAAATAATA
1 TATAAAAATTTAAAATAAATAATA
** *
77090613 -A-AAGAGCTTTTAAAATAAACAATA
1 TATAA-A-AATTTAAAATAAATAATA
* * *
77090637 TATATAAATTTTAAAATTAATAACA
1 TATA-AAAATTTAAAATAAATAATA
* * *
77090662 TATAAACAGTTTAAATTAAACACTATA
1 TATAAA-AATTTAAAATAAATA--ATA
* * ** *
77090689 CATGAAAATTTTGAATAGATAATA
1 TATAAAAATTTAAAATAAATAATA
*
77090713 TATGAAATAATCTAAAATAAA-ATATA
1 TAT-AAA-AATTTAAAATAAATA-ATA
77090739 TATAAAATATTTTAAAATAAATAATA
1 TATAAAA-A-TTTAAAATAAATAATA
** *
77090765 TATGAAAGGTTTAAAGTAAATAATA
1 TAT-AAAAATTTAAAATAAATAATA
** * ** * *
77090790 -ATGATGAATTTTAAACGATTAACA
1 TAT-AAAAATTTAAAATAAATAATA
* * *
77090814 TAT-AAAATAGTATAACTAAATAACA
1 TATAAAAAT-TTA-AAATAAATAATA
*
77090839 TATAAAAATTTAAAATAGATAATA
1 TATAAAAATTTAAAATAAATAATA
77090863 TATAAAAA
1 TATAAAAA
77090871 ATAATTTAAC
Statistics
Matches: 186, Mismatches: 53, Indels: 38
0.67 0.19 0.14
Matches are distributed among these distances:
22 2 0.01
23 5 0.03
24 54 0.29
25 67 0.36
26 47 0.25
27 11 0.06
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.32
Consensus pattern (24 bp):
TATAAAAATTTAAAATAAATAATA
Found at i:77099581 original size:26 final size:25
Alignment explanation
Indices: 77099543--77099609 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
77099533 GCTAAAATCC
77099543 TTTTTTGTCTCATTTCTGGTGTAGGGTA
1 TTTTTT-T-TCATTTCTGGTGTA-GGTA
* *
77099571 TTTTTTTTCATTGCTGGTGTAGGTT
1 TTTTTTTTCATTTCTGGTGTAGGTA
*
77099596 TTTTTTTTCTTTTC
1 TTTTTTTTCATTTC
77099610 ATAGATAGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 15 0.43
26 13 0.37
27 1 0.03
28 6 0.17
ACGTcount: A:0.07, C:0.10, G:0.19, T:0.63
Consensus pattern (25 bp):
TTTTTTTTCATTTCTGGTGTAGGTA
Found at i:77105735 original size:81 final size:82
Alignment explanation
Indices: 77105626--77105847 Score: 313
Period size: 82 Copynumber: 2.7 Consensus size: 82
77105616 TTTGACATAT
*** *
77105626 ATTCATCCAAGGGTTAAAAGAAGTATTACAAACTAGTATAATACAGGACAGGATTCTTAATGTTT
1 ATTCATCCAAGGGTTAAAAGATCCATTACAAACTAGTATCATACAGGACAGGATTCTTAATGTTT
*
77105691 TT-GACATATAACTAGC
66 TTCAACATATAACTAGC
** *
77105707 ATTCATCTGAGGGTTAAAAGATCCATTACGAACTAGTATCATACA-GATCAGGATTCTTAATGTT
1 ATTCATCCAAGGGTTAAAAGATCCATTACAAACTAGTATCATACAGGA-CAGGATTCTTAATGTT
* *
77105771 TTTCAACATATAACTCGT
65 TTTCAACATATAACTAGC
* *
77105789 ATTCATCCAAGGGTTAAAAGATCCATTACAAACTAGTATCATACAGGACATGACTCTTA
1 ATTCATCCAAGGGTTAAAAGATCCATTACAAACTAGTATCATACAGGACAGGATTCTTA
77105848 CGCTGTGTTT
Statistics
Matches: 123, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
80 2 0.02
81 57 0.46
82 62 0.50
83 2 0.02
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (82 bp):
ATTCATCCAAGGGTTAAAAGATCCATTACAAACTAGTATCATACAGGACAGGATTCTTAATGTTT
TTCAACATATAACTAGC
Found at i:77105816 original size:82 final size:80
Alignment explanation
Indices: 77105625--77105834 Score: 303
Period size: 81 Copynumber: 2.6 Consensus size: 80
77105615 CTTTGACATA
*** *
77105625 TATTCATCCAAGGGTTAAAAGAAGTATTACAAACTAGTATAATACAGGACAGGATTCTTAATGTT
1 TATTCATCCAAGGGTTAAAAGATCCATTACAAACTAGTATCATACA-GACAGGATTCTTAATGTT
*
77105690 TTTGACATATAACTAG
65 TTTAACATATAACTAG
* ** *
77105706 CATTCATCTGAGGGTTAAAAGATCCATTACGAACTAGTATCATACAGATCAGGATTCTTAATGTT
1 TATTCATCCAAGGGTTAAAAGATCCATTACAAACTAGTATCATACAGA-CAGGATTCTTAATGTT
*
77105771 TTTCAACATATAACTCG
65 TTT-AACATATAACTAG
77105788 TATTCATCCAAGGGTTAAAAGATCCATTACAAACTAGTATCATACAG
1 TATTCATCCAAGGGTTAAAAGATCCATTACAAACTAGTATCATACAG
77105835 GACATGACTC
Statistics
Matches: 113, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
80 2 0.02
81 57 0.50
82 54 0.48
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (80 bp):
TATTCATCCAAGGGTTAAAAGATCCATTACAAACTAGTATCATACAGACAGGATTCTTAATGTTT
TTAACATATAACTAG
Found at i:77108417 original size:18 final size:17
Alignment explanation
Indices: 77108389--77108423 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
77108379 ATTATTAAGA
*
77108389 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
77108406 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
77108424 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:77108550 original size:144 final size:147
Alignment explanation
Indices: 77108378--77108648 Score: 467
Period size: 144 Copynumber: 1.9 Consensus size: 147
77108368 TAAGAATATC
* *
77108378 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAACAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTA
77108443 AATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAA-AATAATTTAC
66 AATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTAC
77108505 CAAAATAAATTTCTGCT
131 CAAAATAAATTTCTGCT
*
77108522 AATTATTAACCATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTA
1 AATTATTAACAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTA
*
77108587 AATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AATATGATTAAATTATTTATTATTGATAAT--ATAATCTTATTAAAATTTAAATAACAATAA
77108649 CAATAATCAT
Statistics
Matches: 118, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
144 88 0.75
145 2 0.02
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
AATTATTAACAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTA
AATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTAC
CAAAATAAATTTCTGCT
Found at i:77108561 original size:18 final size:17
Alignment explanation
Indices: 77108533--77108567 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
77108523 ATTATTAACC
*
77108533 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
77108550 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
77108568 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:77108779 original size:45 final size:45
Alignment explanation
Indices: 77108729--77108824 Score: 131
Period size: 45 Copynumber: 2.1 Consensus size: 45
77108719 TTACACCTCT
* *
77108729 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACC-TCTATTCC
** *
77108774 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
77108819 ATTACA
1 ATTACA
77108825 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
45 32 0.71
46 13 0.29
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:77108824 original size:16 final size:16
Alignment explanation
Indices: 77108803--77108835 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
77108793 TTGATTTGCT
*
77108803 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
77108819 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
77108835 A
1 A
77108836 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:77108845 original size:21 final size:21
Alignment explanation
Indices: 77108816--77108858 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
77108806 ACACCTCTAT
*
77108816 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
77108837 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
77108858 T
1 T
77108859 ACAGCGAACC
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:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:77112270 original size:21 final size:21
Alignment explanation
Indices: 77112244--77112283 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
77112234 ACGAATTGAT
*
77112244 AACAACAAAGACCAAAACAGC
1 AACAACAAACACCAAAACAGC
*
77112265 AACAACAAACTCCAAAACA
1 AACAACAAACACCAAAACA
77112284 TGGAGATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.62, C:0.30, G:0.05, T:0.03
Consensus pattern (21 bp):
AACAACAAACACCAAAACAGC
Found at i:77113716 original size:16 final size:16
Alignment explanation
Indices: 77113692--77113722 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
77113682 ATTAAAATTG
*
77113692 TTATGAAATATATTTA
1 TTATAAAATATATTTA
77113708 TTATAAAATATATTT
1 TTATAAAATATATTT
77113723 TTAAAATAAT
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:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
TTATAAAATATATTTA
Found at i:77114624 original size:28 final size:28
Alignment explanation
Indices: 77114591--77114647 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
77114581 CTAATATAAG
77114591 AACAAACTCATAAGATCTGATAATATCT
1 AACAAACTCATAAGATCTGATAATATCT
* *
77114619 AACAAACTCATAATATTTGATAATATCT
1 AACAAACTCATAAGATCTGATAATATCT
77114647 A
1 A
77114648 TTCTCTTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (28 bp):
AACAAACTCATAAGATCTGATAATATCT
Found at i:77115568 original size:21 final size:21
Alignment explanation
Indices: 77115542--77115594 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
77115532 CGCTGTTTCT
*
77115542 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
* *
77115563 AATCTCACTGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
77115584 AATCTCACCGC
1 AATCTCACCGC
77115595 CACCGCTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:77118902 original size:17 final size:18
Alignment explanation
Indices: 77118872--77118906 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
77118862 TTATTTGAAT
*
77118872 TTTTTTATATATTTTTAA
1 TTTTTTATAAATTTTTAA
77118890 TTTTTTA-AAATTTTTAA
1 TTTTTTATAAATTTTTAA
77118907 AGTTTTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTTATAAATTTTTAA
Found at i:77118912 original size:17 final size:18
Alignment explanation
Indices: 77118882--77118924 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
77118872 TTTTTTATAT
**
77118882 ATTTTTAATTTTTTA-AA
1 ATTTTTAAAGTTTTACAA
77118899 ATTTTTAAAGTTTTACAA
1 ATTTTTAAAGTTTTACAA
*
77118917 AATTTTAA
1 ATTTTTAA
77118925 GGGTAATCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (18 bp):
ATTTTTAAAGTTTTACAA
Found at i:77120792 original size:33 final size:35
Alignment explanation
Indices: 77120754--77120850 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
77120744 ATGGTTATAT
77120754 TTAAATATTTAAAATATAGTTTATATATT-C-TAA
1 TTAAATATTTAAAATATAGTTTATATATTGCTTAA
* *
77120787 TTAAAT-TTTATAA-ATAGTTAATATTTATTGCTTAA
1 TTAAATATTTAAAATATAGTT--TATATATTGCTTAA
*
77120822 --AAATATTTAAAATTTATATTTTATATATT
1 TTAAATATTTAAAA--TATAGTTTATATATT
77120851 AAAATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 7 0.14
35 10 0.20
37 5 0.10
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (35 bp):
TTAAATATTTAAAATATAGTTTATATATTGCTTAA
Found at i:77123095 original size:13 final size:13
Alignment explanation
Indices: 77123077--77123109 Score: 52
Period size: 11 Copynumber: 2.7 Consensus size: 13
77123067 TATAAGTTTA
77123077 ATTTTTAATATTT
1 ATTTTTAATATTT
77123090 ATTTTT-A-ATTT
1 ATTTTTAATATTT
77123101 ATTTTTAAT
1 ATTTTTAAT
77123110 TTAAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
11 10 0.56
12 2 0.11
13 6 0.33
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTTTTAATATTT
Found at i:77123102 original size:11 final size:11
Alignment explanation
Indices: 77123086--77123112 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
77123076 AATTTTTAAT
77123086 ATTTATTTTTA
1 ATTTATTTTTA
77123097 ATTTATTTTTA
1 ATTTATTTTTA
77123108 ATTTA
1 ATTTA
77123113 AATTTAAGTT
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:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
ATTTATTTTTA
Found at i:77123157 original size:15 final size:16
Alignment explanation
Indices: 77123128--77123166 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
77123118 AAGTTTGATA
77123128 ATTTAAAAAATTAAGT
1 ATTTAAAAAATTAAGT
*
77123144 GTTTAAAAAA-TAAGT
1 ATTTAAAAAATTAAGT
77123159 ATTTAAAA
1 ATTTAAAA
77123167 GTTAAGTTAT
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:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (16 bp):
ATTTAAAAAATTAAGT
Found at i:77123172 original size:15 final size:15
Alignment explanation
Indices: 77123128--77123173 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
77123118 AAGTTTGATA
77123128 ATTTAAAAAATTAAGT
1 ATTT-AAAAATTAAGT
* *
77123144 GTTTAAAAAATAAGT
1 ATTTAAAAATTAAGT
*
77123159 ATTTAAAAGTTAAGT
1 ATTTAAAAATTAAGT
77123174 TATGAAATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 22 0.88
16 3 0.12
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (15 bp):
ATTTAAAAATTAAGT
Found at i:77124010 original size:21 final size:21
Alignment explanation
Indices: 77123986--77124025 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
77123976 AATACTTTTA
*
77123986 TTTAAGAA-TTTAATATTTATT
1 TTTAA-AATTTTAAAATTTATT
77124007 TTTAAAATTTTAAAATTTA
1 TTTAAAATTTTAAAATTTA
77124026 AATTTAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (21 bp):
TTTAAAATTTTAAAATTTATT
Found at i:77124031 original size:21 final size:21
Alignment explanation
Indices: 77123985--77124032 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
77123975 CAATACTTTT
* *
77123985 ATTTAAGAATTTAATATTTAT
1 ATTTAAGAATTTAAAATTTAA
*
77124006 TTTTAA-AATTTTAAAATTTAA
1 ATTTAAGAA-TTTAAAATTTAA
77124027 ATTTAA
1 ATTTAA
77124033 TTGTTATTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
ATTTAAGAATTTAAAATTTAA
Found at i:77127085 original size:4 final size:4
Alignment explanation
Indices: 77127076--77127104 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
77127066 GATTTACAGG
77127076 TACA TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA TACA T
77127105 TTACAAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (4 bp):
TACA
Found at i:77131371 original size:38 final size:38
Alignment explanation
Indices: 77131298--77131409 Score: 143
Period size: 38 Copynumber: 2.9 Consensus size: 38
77131288 ATTTAATGAT
* *
77131298 TACATGTTAAACATGTCTATTGCTAGTGATGAATTGAG
1 TACATGTTAAATATGTCTATTACTAGTGATGAATTGAG
** * *
77131336 TGTATGTAAAATATGTTTATTACTAGTGATGAATTGAG
1 TACATGTTAAATATGTCTATTACTAGTGATGAATTGAG
** *
77131374 TACATGTTAAATATGTCTATTTTTAGTGTTGAATTG
1 TACATGTTAAATATGTCTATTACTAGTGATGAATTG
77131410 TTCTATTACA
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 61 1.00
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (38 bp):
TACATGTTAAATATGTCTATTACTAGTGATGAATTGAG
Found at i:77131903 original size:17 final size:18
Alignment explanation
Indices: 77131870--77131904 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
77131860 ATAAAAATAT
*
77131870 ATAACCCAATTAGCCCAA
1 ATAACCCAATTACCCCAA
77131888 ATAACCC-ATTACCCCAA
1 ATAACCCAATTACCCCAA
77131905 GCCCAAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.43, C:0.37, G:0.03, T:0.17
Consensus pattern (18 bp):
ATAACCCAATTACCCCAA
Found at i:77138298 original size:28 final size:28
Alignment explanation
Indices: 77138241--77138298 Score: 64
Period size: 29 Copynumber: 2.0 Consensus size: 28
77138231 AAAGGCATTC
*
77138241 AAAAAGAAAAACAAAAGTACAAAAATAGA
1 AAAAAGAAAAACAAAAG-ACAAAAACAGA
**
77138270 AAAAAGAAAAGGAAAA-ACAAACAACAGA
1 AAAAAGAAAAACAAAAGACAAA-AACAGA
77138298 A
1 A
77138299 CAAGGGTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 5 0.20
28 6 0.24
29 14 0.56
ACGTcount: A:0.76, C:0.09, G:0.12, T:0.03
Consensus pattern (28 bp):
AAAAAGAAAAACAAAAGACAAAAACAGA
Found at i:77138842 original size:6 final size:6
Alignment explanation
Indices: 77138831--77138903 Score: 71
Period size: 6 Copynumber: 11.8 Consensus size: 6
77138821 GAGACCTTAA
*
77138831 AAAAAT AAAAAT AAAAAA ACAGAAAT AAAAAAT AAAAATTT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT A-A-AAAT -AAAAAT AAAAA--T AAAAAT AAAAAT
77138884 -AAAAT --AAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAA
77138904 AATAAGAAAG
Statistics
Matches: 58, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
4 4 0.07
5 5 0.09
6 33 0.57
7 5 0.09
8 10 0.17
9 1 0.02
ACGTcount: A:0.81, C:0.01, G:0.01, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:77138847 original size:14 final size:14
Alignment explanation
Indices: 77138828--77138922 Score: 111
Period size: 14 Copynumber: 6.7 Consensus size: 14
77138818 CTTGAGACCT
77138828 TAAAAAAATAAAAA
1 TAAAAAAATAAAAA
* *
77138842 TAAAAAAACAGAAA
1 TAAAAAAATAAAAA
77138856 T-AAAAAATAAAAA
1 TAAAAAAATAAAAA
**
77138869 TTTAAAAATAAAAA
1 TAAAAAAATAAAAA
77138883 TAAAATAAATAAAAA
1 TAAAA-AAATAAAAA
77138898 TAAAAAAATAAGAAA
1 TAAAAAAATAA-AAA
* *
77138913 GAAAAGAATA
1 TAAAAAAATA
77138923 GGCCAGGGCG
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
13 11 0.16
14 33 0.48
15 25 0.36
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.16
Consensus pattern (14 bp):
TAAAAAAATAAAAA
Found at i:77138862 original size:27 final size:28
Alignment explanation
Indices: 77138828--77138905 Score: 104
Period size: 27 Copynumber: 2.8 Consensus size: 28
77138818 CTTGAGACCT
*
77138828 TAAAAAAATAAAAATAAAAAAACAGAAA
1 TAAAAAAATAAAAATAAAAAAACAAAAA
** *
77138856 T-AAAAAATAAAAATTTAAAAATAAAAA
1 TAAAAAAATAAAAATAAAAAAACAAAAA
77138883 TAAAATAAATAAAAATAAAAAAA
1 TAAAA-AAATAAAAATAAAAAAA
77138906 TAAGAAAGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 23 0.55
28 4 0.10
29 15 0.36
ACGTcount: A:0.81, C:0.01, G:0.01, T:0.17
Consensus pattern (28 bp):
TAAAAAAATAAAAATAAAAAAACAAAAA
Found at i:77138863 original size:21 final size:20
Alignment explanation
Indices: 77138831--77138903 Score: 92
Period size: 21 Copynumber: 3.5 Consensus size: 20
77138821 GAGACCTTAA
*
77138831 AAAAATAAAAATAAAAAAAC
1 AAAAATAAAAATAAAAAAAT
* **
77138851 AGAAATAAAAAATAAAAATTT
1 AAAAAT-AAAAATAAAAAAAT
77138872 AAAAATAAAAATAAAATAAAT
1 AAAAATAAAAATAAAA-AAAT
77138893 AAAAATAAAAA
1 AAAAATAAAAA
77138904 AATAAGAAAG
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.81, C:0.01, G:0.01, T:0.16
Consensus pattern (20 bp):
AAAAATAAAAATAAAAAAAT
Found at i:77138868 original size:35 final size:35
Alignment explanation
Indices: 77138828--77138917 Score: 110
Period size: 35 Copynumber: 2.5 Consensus size: 35
77138818 CTTGAGACCT
*
77138828 TAAAAAAATAAAAATAAAAA-AACAGAAATAAAAAA
1 TAAAAAAATAAAAATAAAAATAAAAGAAAT-AAAAA
** *
77138863 TAAAAATTTAAAAATAAAAATAAAATAAATAAAAA
1 TAAAAAAATAAAAATAAAAATAAAAGAAATAAAAA
*
77138898 TAAAAAAATAAGAAAGAAAA
1 TAAAAAAATAA-AAATAAAA
77138918 GAATAGGCCA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
35 32 0.70
36 14 0.30
ACGTcount: A:0.80, C:0.01, G:0.03, T:0.16
Consensus pattern (35 bp):
TAAAAAAATAAAAATAAAAATAAAAGAAATAAAAA
Found at i:77138917 original size:21 final size:21
Alignment explanation
Indices: 77138831--77138917 Score: 72
Period size: 21 Copynumber: 4.2 Consensus size: 21
77138821 GAGACCTTAA
*
77138831 AAAAATAAAAATAAAA-AAAC
1 AAAAATAAAAATAAAAGAAAG
* ***
77138851 AGAAATAAAAAATAAAA-ATTT
1 AAAAAT-AAAAATAAAAGAAAG
* *
77138872 AAAAATAAAAATAAAATAAAT
1 AAAAATAAAAATAAAAGAAAG
77138893 AAAAATAAAAA-AATAAGAAAG
1 AAAAATAAAAATAA-AAGAAAG
77138914 AAAA
1 AAAA
77138918 GAATAGGCCA
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
20 17 0.31
21 38 0.69
ACGTcount: A:0.80, C:0.01, G:0.03, T:0.15
Consensus pattern (21 bp):
AAAAATAAAAATAAAAGAAAG
Found at i:77140060 original size:64 final size:66
Alignment explanation
Indices: 77139982--77140166 Score: 257
Period size: 64 Copynumber: 2.8 Consensus size: 66
77139972 TCATTCATAA
* * *
77139982 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAACATCCTAATTATTTGACATCA-GC-A
1 CACATCTAGTTAGGAGCATTCGATTCATTTCGATCATAGCATCCTAATTATTTGACATCACACAA
77140045 T
66 T
* *
77140046 CACATCTAGTTAGGAGCATTCGATTCATTTTGATCGTAGCATCCTAATTATTTGACATCACACAT
1 CACATCTAGTTAGGAGCATTCGATTCATTTCGATCATAGCATCCTAATTATTTGACATCACACA-
77140111 AT
65 AT
* * * * *
77140113 CTCATTTAGTTAGGAGCGTTGGATTCATTTCAATCATAGCATCCTAATTATTTG
1 CACATCTAGTTAGGAGCATTCGATTCATTTCGATCATAGCATCCTAATTATTTG
77140167 GCACAAACAC
Statistics
Matches: 106, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
64 56 0.53
65 1 0.01
67 49 0.46
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.37
Consensus pattern (66 bp):
CACATCTAGTTAGGAGCATTCGATTCATTTCGATCATAGCATCCTAATTATTTGACATCACACAA
T
Found at i:77140644 original size:44 final size:45
Alignment explanation
Indices: 77140572--77140674 Score: 124
Period size: 44 Copynumber: 2.3 Consensus size: 45
77140562 AGCCCCAAGC
**
77140572 CTTATC-TCTCTAAGGTAGCAAGAGAGCAGGTTGAAGA-TGATAG-T
1 CTTATCTTC-CTAAGGTAGCAAGAGAGCAGACTGAAGATTGA-AGAT
77140616 CTTATCTTCCTAAGGTAGCAAG-GAAGCAGACTGAAGATTGAAGAT
1 CTTATCTTCCTAAGGTAGCAAGAG-AGCAGACTGAAGATTGAAGAT
*
77140661 ATTATCTTCCTAAG
1 CTTATCTTCCTAAG
77140675 CAGTAGTGGA
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
43 1 0.02
44 32 0.62
45 19 0.37
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (45 bp):
CTTATCTTCCTAAGGTAGCAAGAGAGCAGACTGAAGATTGAAGAT
Found at i:77140645 original size:147 final size:147
Alignment explanation
Indices: 77140378--77140661 Score: 378
Period size: 147 Copynumber: 1.9 Consensus size: 147
77140368 ACAGATGGTG
* * *
77140378 AATCTTATCTCCATGTATCGGCAATGGAGCGGATTTAAGCCACGAGCCTTATCTTCCTGAGGTTG
1 AATCTTATCTCCATGTATCGGCAATGGAGCGGATTTAAGCCACAAGCCTTATCTTCCTAAGGTAG
* * * * *
77140443 CAGTGGGGCAGGCTCAATATACAGGTCTTATCTCCCTAAGGTTGCAGTGGAGCAGACTGAAGATT
66 CAGTAGAGCAGGCTCAAGATACAGGTCTTATCTCCCTAAGGTAGCAGTGAAGCAGACTGAAGATT
77140508 GAAGATAGGAAGAGGCA
131 GAAGATAGGAAGAGGCA
* *
77140525 AATCTTATCTCCATGTATCGGTAATGGAGCGGATTTAAGCCCCAAGCCTTATC-TCTCTAAGGTA
1 AATCTTATCTCCATGTATCGGCAATGGAGCGGATTTAAGCCACAAGCCTTATCTTC-CTAAGGTA
* * * *
77140589 GCAAG-AGAGCAGGTTGAAGATGATA-GTCTTATCTTCCTAAGGTAGCAAG-GAAGCAGACTGAA
65 GC-AGTAGAGCAGGCTCAAGAT-ACAGGTCTTATCTCCCTAAGGTAGC-AGTGAAGCAGACTGAA
77140651 GATTGAAGATA
127 GATTGAAGATA
77140662 TTATCTTCCT
Statistics
Matches: 119, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
146 2 0.02
147 111 0.93
148 6 0.05
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (147 bp):
AATCTTATCTCCATGTATCGGCAATGGAGCGGATTTAAGCCACAAGCCTTATCTTCCTAAGGTAG
CAGTAGAGCAGGCTCAAGATACAGGTCTTATCTCCCTAAGGTAGCAGTGAAGCAGACTGAAGATT
GAAGATAGGAAGAGGCA
Found at i:77140832 original size:177 final size:177
Alignment explanation
Indices: 77140571--77140905 Score: 489
Period size: 177 Copynumber: 1.9 Consensus size: 177
77140561 AAGCCCCAAG
77140571 CCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATGATAGTCTTATCTTCCTAAGGTAGCA
1 CCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATGATAGTCTTATCTTCCTAAGGTAGCA
* * * *
77140636 AGGAAGCAGACTGAAGATTGAAGATATTATCTTC-CTAAGCAGT-AGTGGAGCAGATCG-AGGAT
66 AGGAAGCAGACTAAAGATTGAAGATATTAT-TTCTCTAAACA-TAAGCGGAGCAGATCGAAAGA-
77140698 GGCGAATATTATCTCCATGTATCGGCAATGGGGTTGATTTTAGCTATTGA
128 GGCGAATATTATCTCCATGTATCGGCAATGGGGTTGATTTTAGCTATTGA
* ** *
77140748 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGGTGACTG-TAGTCTTATCTTCCTGAGGTAGC
1 CCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGA-TGATAGTCTTATCTTCCTAAGGTAGC
* * * *
77140812 AAGGAAGCAGACTAAAGATTGAAGATCTTATTTCTCTAAATATAAGCGGAGTAGATTGAAAGAGG
65 AAGGAAGCAGACTAAAGATTGAAGATATTATTTCTCTAAACATAAGCGGAGCAGATCGAAAGAGG
*
77140877 CGAATCTTATCTCCATGTATCGGCAATGG
130 CGAATATTATCTCCATGTATCGGCAATGG
77140906 AGCAAATTTA
Statistics
Matches: 141, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
176 4 0.03
177 132 0.94
178 5 0.04
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (177 bp):
CCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATGATAGTCTTATCTTCCTAAGGTAGCA
AGGAAGCAGACTAAAGATTGAAGATATTATTTCTCTAAACATAAGCGGAGCAGATCGAAAGAGGC
GAATATTATCTCCATGTATCGGCAATGGGGTTGATTTTAGCTATTGA
Found at i:77141288 original size:177 final size:176
Alignment explanation
Indices: 77140959--77141717 Score: 793
Period size: 177 Copynumber: 4.3 Consensus size: 176
77140949 AACAAATTGT
* *
77140959 AGATGGTGAATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAAC-CATCAGCCTTATCTCT
1 AGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAATCAC-TCAGCCTTATCTCT
* * * * * * * *
77141023 ATGTA-GTAACAAGAGAGCATGCTGATGAT-TGAGTCTTATCTTTCTAAGGTAGCAAGAAAGTAG
65 CTG-AGGTAGCAAGAGAGCAGGTTGAAGATGT-AGTCTTATCTTCCTAAGGTAGCAAGGAAGCAG
* * *
77141086 ACTGAAGATTTAAGATCTTATCTCCC-TAGACAGTAGTGGAGCAGATCGA
128 ACTAAAGATTGAAGATCTTATCTCCCAAAG-CAGTAGTGGAGCAGATCGA
* * * * *
77141135 AGATGGTGAATTTTATCTCCATGTATCGGCAATAGAGTAGATTATAGTCACTGA-CCTTATCTCT
1 AGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATT-TAATCACTCAGCCTTATCTCT
* *
77141199 CTGAGGTAGCAAAAGAGCAGGTTGAAGATGATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA
65 CTGAGGTAGCAAGAGAGCAGGTTGAAGATG-TAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGA
* **
77141264 CTAAAGATTAAAGATCTTATCTCCCAAAGCAGTAGCAGAGCAGATCGA
129 CTAAAGATTGAAGATCTTATCTCCCAAAGCAGTAGTGGAGCAGATCGA
* **
77141312 AGATTGTGAATCTTATCTCCATGTATCGGCAATATAGCAGATTTAATCCAC-CAGCCTTATCTCT
1 AGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAT-CACTCAGCCTTATCTCT
* * * ** * *
77141376 CTGAGGTAGTAGGAGAGCCGGTTGGTGATTGTTGTCTTATCTTCCTAAGGTAGCACGGAAGCAGA
65 CTGAGGTAGCAAGAGAGCAGGTTGAAGA-TGTAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAG-
* *
77141441 AC-AAAGATTGAAGATCTTATCTCCCAAAGCAGTAATGGAGCAGATCAAA
128 ACTAAAGATTGAAGATCTTATCTCCCAAAGCAGTAGTGGAGCAGATC-GA
* * * * *
77141490 AGATGGCGAATCTTATATCCATGTATCAGCAATGGAGCAGATTTTAA-CTACT-GGCCTTATTTC
1 AGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGA-TTTAATC-ACTCAGCCTTATCTC
* * * * *
77141553 TCTGAGGTAGCAAGAGAGTAGGTTAAAGATGATAGTCTTATCTTCTTAAAGTAGCAAGGAAGCAA
64 TCTGAGGTAGCAAGAGAGCAGGTTGAAGATG-TAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAG
** * ** * ** *
77141618 ACCGAAGATTGAAGATC-TATTTCCCTAAAATAGTTGCAGAGCAGATTGA
128 ACTAAAGATTGAAGATCTTATCTCCC-AAAGCAGTAGTGGAGCAGATCGA
* *
77141667 GGACGGTGAATCTTATCTCCATGTAAT-GGCAATGGAGCAGATTTAAGTCAC
1 AGATGGTGAATCTTATCTCCATGT-ATCGGCAATGGAGCAGATTTAA-TCAC
77141718 CAGTCCTATT
Statistics
Matches: 486, Mismatches: 77, Indels: 39
0.81 0.13 0.06
Matches are distributed among these distances:
175 1 0.00
176 79 0.16
177 266 0.55
178 135 0.28
179 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (176 bp):
AGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAATCACTCAGCCTTATCTCTC
TGAGGTAGCAAGAGAGCAGGTTGAAGATGTAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACT
AAAGATTGAAGATCTTATCTCCCAAAGCAGTAGTGGAGCAGATCGA
Found at i:77141417 original size:441 final size:440
Alignment explanation
Indices: 77140526--77141377 Score: 1110
Period size: 441 Copynumber: 1.9 Consensus size: 440
77140516 GAAGAGGCAA
* * * * * *
77140526 ATCTTATCTCCATGTATCGGTAATGGAGCGGATTTAAGCCCCAAGCCTTATCTCTCTAAGGTAGC
1 ATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAACCCCAAGCCTTATCTCTATAAGGTAAC
* *
77140591 AAGAGAGCAGGTTGAAGATGATAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAGATTG
66 AAGAGAGCAGGCTGAAGATGA-AGTCTTATCTTCCTAAGGTAGCAAGAAAGCAGACTGAAGATTG
* *
77140656 AAGATATTATCTTCCTAAGCAGTAGTGGAGCAGATCGAGGATGGCGAATATTATCTCCATGTATC
130 AAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATATTATCTCCATGTATC
* * * * * * **
77140721 GGCAATGGGGTTGATTTTAGCTATTGACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGGTGA
195 GGCAATAGAGTAGATTATAGCTACTGACCTTATCTCTCTGAGGTAGCAAAAGAGCAGGTTGAAGA
* * *
77140786 CTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTGAAGATCTTATTTCTCTAA
260 CTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTAAAGATCTTATCTCTCCAA
* * * * *
77140851 ATATAAGCGGAGTAGATTGAAAGAGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAAATTTA
325 ACATAAGCAGAGCAGATCGAAAGAGGCGAATCTTATCTCCATGTATCGGCAATAGAGCAAATTTA
* * * *
77140916 AGCCCTAGATTTATTTTCTTGAAGTTGAAGCAGAACAAATTGTAGATGGTG
390 AGCCCCAGACTTATTCTCTTGAAGTAGAAGCAGAACAAATTGTAGATGGTG
* *
77140967 AATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAACCATC-AGCCTTATCTCTATGTA-GT
1 -ATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAACC-CCAAGCCTTATCTCTAT-AAGGT
* * * *
77141030 AACAAGAGAGCATGCTGATGATTG-AGTCTTATCTTTCTAAGGTAGCAAGAAAGTAGACTGAAGA
63 AACAAGAGAGCAGGCTGAAGA-TGAAGTCTTATCTTCCTAAGGTAGCAAGAAAGCAGACTGAAGA
* * * *
77141094 TTTAAGATCTTATCTCCCT-AGACAGTAGTGGAGCAGATCGAAGATGGTGAATTTTATCTCCATG
127 TTGAAGATATTATCTCCCTAAG-CAGTAGTGGAGCAGATCGAAGATGGCGAATATTATCTCCATG
77141158 TATCGGCAATAGAGTAGATTATAG-TCACTGACCTTATCTCTCTGAGGTAGCAAAAGAGCAGGTT
191 TATCGGCAATAGAGTAGATTATAGCT-ACTGACCTTATCTCTCTGAGGTAGCAAAAGAGCAGGTT
77141222 GAAGA-TGATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTAAAGATCTTATCT
255 GAAGACTG-TAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTAAAGATCTTATCT
* * *
77141286 C-CCAAAGCAGT-AGCAGAGCAGATCG-AAGATTGTGAATCTTATCTCCATGTATCGGCAATATA
319 CTCCAAA-CA-TAAGCAGAGCAGATCGAAAGA-GGCGAATCTTATCTCCATGTATCGGCAATAGA
* * *
77141348 GCAGATTTAATCCACCAGCCTTATCTCTCT
381 GCAAATTTAAGCC-CCAGACTTAT-TCTCT
77141378 GAGGTAGTAG
Statistics
Matches: 354, Mismatches: 45, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
440 13 0.04
441 257 0.73
442 76 0.21
443 8 0.02
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (440 bp):
ATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAACCCCAAGCCTTATCTCTATAAGGTAAC
AAGAGAGCAGGCTGAAGATGAAGTCTTATCTTCCTAAGGTAGCAAGAAAGCAGACTGAAGATTGA
AGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATATTATCTCCATGTATCG
GCAATAGAGTAGATTATAGCTACTGACCTTATCTCTCTGAGGTAGCAAAAGAGCAGGTTGAAGAC
TGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTAAAGATCTTATCTCTCCAAA
CATAAGCAGAGCAGATCGAAAGAGGCGAATCTTATCTCCATGTATCGGCAATAGAGCAAATTTAA
GCCCCAGACTTATTCTCTTGAAGTAGAAGCAGAACAAATTGTAGATGGTG
Found at i:77141613 original size:355 final size:353
Alignment explanation
Indices: 77140959--77141720 Score: 935
Period size: 355 Copynumber: 2.2 Consensus size: 353
77140949 AACAAATTGT
* * *
77140959 AGATGGTGAATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAACCATCAGCCTTATCTCTA
1 AGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAATCCACCAGCCTTATCTCTA
* * *
77141024 TGTAGTAACAAGAGAGCATGCTGATGATTGAGTCTTATCTTTCTAAGGTAGCAAGAAAGTAGACT
66 TGTAGTAACAAGAGAGCAGGCTGATGATTGAGTCTTATCTTCCTAAGGTAGCAAGAAAGCAGACT
* * * * * * * *
77141089 GAAGATTTAAGATCTTATCTCCCTAGACAGTAGTGGAGCAGATCGAAGATGGTGAATTTTATCTC
131 AAAGATTGAAGATCTTATCTCCCAAGACAGTAATGGAGCAGATCAAAGATGGCGAATCTTATATC
* * *
77141154 CATGTATCGGCAATAGAGTAGATTATAGTCACTGACCTTATCTCTCTGAGGTAGCAAAAGAGCAG
196 CATGTATCAGCAATAGAGCAGATTATACTCACTGACCTTATCTCTCTGAGGTAGCAAAAGAGCAG
* * * * *
77141219 GTTGAAGATGATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTAAAGATCTTAT
261 GTTAAAGATGATAGTCTTATCTTCCTAAAGTAGCAAGGAAGCAAACCAAAGATTAAAGATC-TAT
*
77141284 CTCCC-AAAGCAGTAGCAGAGCAGATCGA
325 CTCCCTAAAACAGTAGCAGAGCAGATCGA
* ** *
77141312 AGATTGTGAATCTTATCTCCATGTATCGGCAATATAGCAGATTTAATCCACCAGCCTTATCTCTC
1 AGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAATCCACCAGCCTTATCTCTA
** * * * * * * *
77141377 TG-AGGTAGTAGGAGAGCCGGTTGGTGATTGTTGTCTTATCTTCCTAAGGTAGCACGGAAGCAGA
66 TGTA-GTAACAAGAGAGCAGGCTGATGATTG-AGTCTTATCTTCCTAAGGTAGCAAGAAAGCAG-
77141441 AC-AAAGATTGAAGATCTTATCTCCCAA-AGCAGTAATGGAGCAGATCAAAAGATGGCGAATCTT
128 ACTAAAGATTGAAGATCTTATCTCCCAAGA-CAGTAATGGAGCAGATC-AAAGATGGCGAATCTT
* * * * *
77141504 ATATCCATGTATCAGCAATGGAGCAGATTTTAACT-ACTGGCCTTATTTCTCTGAGGTAGCAAGA
191 ATATCCATGTATCAGCAATAGAGCAGATTAT-ACTCACTGACCTTATCTCTCTGAGGTAGCAAAA
* * * *
77141568 GAGTAGGTTAAAGATGATAGTCTTATCTTCTTAAAGTAGCAAGGAAGCAAACCGAAGATTGAAGA
255 GAGCAGGTTAAAGATGATAGTCTTATCTTCCTAAAGTAGCAAGGAAGCAAACCAAAGATTAAAGA
* * * *
77141633 TCTATTTCCCTAAAATAGTTGCAGAGCAGATTGA
320 TCTATCTCCCTAAAACAGTAGCAGAGCAGATCGA
* *
77141667 GGACGGTGAATCTTATCTCCATGTAAT-GGCAATGGAGCAGATTTAAGT-CACCAG
1 AGATGGTGAATCTTATCTCCATGT-ATCGGCAATGGAGCAGATTTAA-TCCACCAG
77141721 TCCTATTTTC
Statistics
Matches: 346, Mismatches: 54, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
352 1 0.00
353 80 0.23
354 72 0.21
355 188 0.54
356 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (353 bp):
AGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAATCCACCAGCCTTATCTCTA
TGTAGTAACAAGAGAGCAGGCTGATGATTGAGTCTTATCTTCCTAAGGTAGCAAGAAAGCAGACT
AAAGATTGAAGATCTTATCTCCCAAGACAGTAATGGAGCAGATCAAAGATGGCGAATCTTATATC
CATGTATCAGCAATAGAGCAGATTATACTCACTGACCTTATCTCTCTGAGGTAGCAAAAGAGCAG
GTTAAAGATGATAGTCTTATCTTCCTAAAGTAGCAAGGAAGCAAACCAAAGATTAAAGATCTATC
TCCCTAAAACAGTAGCAGAGCAGATCGA
Found at i:77141775 original size:21 final size:21
Alignment explanation
Indices: 77141749--77141791 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
77141739 ACAATCAAGA
77141749 TTCAGCAAAACTGGGCAAACT
1 TTCAGCAAAACTGGGCAAACT
77141770 TTCAGCAAAACTGGGCAAACT
1 TTCAGCAAAACTGGGCAAACT
77141791 T
1 T
77141792 GGCCCTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (21 bp):
TTCAGCAAAACTGGGCAAACT
Found at i:77142025 original size:17 final size:18
Alignment explanation
Indices: 77141992--77142026 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
77141982 ATAAAAATAT
*
77141992 ATAACCCAATTAGCCCAA
1 ATAACCCAATTACCCCAA
77142010 ATAACCC-ATTACCCCAA
1 ATAACCCAATTACCCCAA
77142027 GCCCAAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.43, C:0.37, G:0.03, T:0.17
Consensus pattern (18 bp):
ATAACCCAATTACCCCAA
Found at i:77146282 original size:35 final size:35
Alignment explanation
Indices: 77146236--77146317 Score: 119
Period size: 35 Copynumber: 2.3 Consensus size: 35
77146226 TACTTTTTGT
*
77146236 TTGGCGTGTTTCGGTTGGACTATCTCTTATGAGCA
1 TTGGCGTGTTTCGGTTGGACTAGCTCTTATGAGCA
* *
77146271 TTGGCTTGTTTCGGTTGGACTAGCTCTTGTGAGCA
1 TTGGCGTGTTTCGGTTGGACTAGCTCTTATGAGCA
*
77146306 TTTGGTGTGTTT
1 -TTGGCGTGTTT
77146318 TGGAGGGATT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
35 32 0.78
36 9 0.22
ACGTcount: A:0.11, C:0.15, G:0.30, T:0.44
Consensus pattern (35 bp):
TTGGCGTGTTTCGGTTGGACTAGCTCTTATGAGCA
Found at i:77158646 original size:3 final size:3
Alignment explanation
Indices: 77158638--77158666 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
77158628 AGTTATAAAA
77158638 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
77158667 ATTGGTTTGG
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:77158648 original size:27 final size:30
Alignment explanation
Indices: 77158578--77158649 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 30
77158568 TAAGTCCGAG
**
77158578 AAAATTATTAAAATTTAATAGAAGTTTATA
1 AAAATTATTATTATTTAATAGAAGTTTATA
**
77158608 AAATAAAATT-TTATTTAA-A-AAG-TTATA
1 AAA-ATTATTATTATTTAATAGAAGTTTATA
77158635 AAAATTATTATTATT
1 AAAATTATTATTATT
77158650 ATTATTATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
26 4 0.12
27 13 0.38
28 3 0.09
29 1 0.03
30 9 0.26
31 4 0.12
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (30 bp):
AAAATTATTATTATTTAATAGAAGTTTATA
Found at i:77159613 original size:45 final size:45
Alignment explanation
Indices: 77159511--77159729 Score: 329
Period size: 45 Copynumber: 4.9 Consensus size: 45
77159501 CGAATTCATC
* * *
77159511 CACCGGCATT-TCGCCTGCTAGGCTCGAA-GCCCG-ATA-TCATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCT
*
77159553 CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
77159598 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
* *
77159643 CACAGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
* *
77159688 CACCGGCATCATAACCTGCTAGGCTCAAAGGCCCGAATAGTA
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
77159730 CCGTATGATA
Statistics
Matches: 166, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
42 10 0.06
43 17 0.10
44 5 0.03
45 133 0.80
46 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.21
Consensus pattern (45 bp):
CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
Found at i:77161885 original size:14 final size:14
Alignment explanation
Indices: 77161866--77161896 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
77161856 ATAATATAAA
77161866 ATGATCCATAAAAT
1 ATGATCCATAAAAT
77161880 ATGATCCATAAAAT
1 ATGATCCATAAAAT
77161894 ATG
1 ATG
77161897 TACAAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (14 bp):
ATGATCCATAAAAT
Found at i:77165806 original size:32 final size:33
Alignment explanation
Indices: 77165770--77165849 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 33
77165760 TTATTCTAAA
77165770 TTTTTTTATAACATTT-A-AAATTTGTCTATA-C
1 TTTTTTTATAA-ATTTAATAAATTTGTCTATATC
* * *
77165801 -TTTTTTATAATTTTTAATAAATTTTTCTATATGT
1 TTTTTTTATAA-ATTTAATAAATTTGTCTATAT-C
77165835 TTTTTTTATAAATTT
1 TTTTTTTATAAATTT
77165850 TGTAATATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
30 13 0.33
31 1 0.03
32 12 0.31
34 3 0.08
35 10 0.26
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (33 bp):
TTTTTTTATAAATTTAATAAATTTGTCTATATC
Found at i:77165817 original size:30 final size:32
Alignment explanation
Indices: 77165771--77165831 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 32
77165761 TATTCTAAAT
77165771 TTTTTTATAACATTT-A-AAATTTGTCTATAC
1 TTTTTTATAACATTTAATAAATTTGTCTATAC
** *
77165801 TTTTTTATAATTTTTAATAAATTTTTCTATA
1 TTTTTTATAACATTTAATAAATTTGTCTATA
77165832 TGTTTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 13 0.50
31 1 0.04
32 12 0.46
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.59
Consensus pattern (32 bp):
TTTTTTATAACATTTAATAAATTTGTCTATAC
Found at i:77165857 original size:25 final size:24
Alignment explanation
Indices: 77165811--77165863 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
77165801 TTTTTTATAA
*
77165811 TTTTTAATAAATTTTTCTATATGTT
1 TTTTTAATAAATTTTTCAATAT-TT
*
77165836 TTTTTTATAAATTTTGT-AATATTT
1 TTTTTAATAAATTTT-TCAATATTT
77165860 TTTT
1 TTTT
77165864 AAAAAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.24
25 18 0.72
26 1 0.04
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (24 bp):
TTTTTAATAAATTTTTCAATATTT
Found at i:77165900 original size:10 final size:10
Alignment explanation
Indices: 77165889--77165941 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
77165879 ATTTAAATAT
77165889 TTTTTTAT-A
1 TTTTTTATAA
77165898 -TTTTTATAA
1 TTTTTTATAA
*
77165907 TTATTTATAA
1 TTTTTTATAA
* *
77165917 TTTTCTATTA
1 TTTTTTATAA
77165927 TTTTTTATGAA
1 TTTTTTAT-AA
77165938 TTTT
1 TTTT
77165942 ATAATTTATA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
8 7 0.20
9 1 0.03
10 22 0.63
11 5 0.14
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:77165901 original size:8 final size:8
Alignment explanation
Indices: 77165890--77165972 Score: 51
Period size: 8 Copynumber: 9.6 Consensus size: 8
77165880 TTTAAATATT
77165890 TTTTTATA
1 TTTTTATA
77165898 TTTTTATAA
1 TTTTTAT-A
77165907 TTATTTATAA
1 TT-TTTAT-A
77165917 TTTTCTATTA
1 TTTT-TA-TA
77165927 TTTTTTATGA
1 -TTTTTAT-A
*
77165937 ATTTTATA
1 TTTTTATA
*
77165945 -ATTTATA
1 TTTTTATA
*
77165952 TTTTTAAA
1 TTTTTATA
* *
77165960 ATTATATA
1 TTTTTATA
77165968 TTTTT
1 TTTTT
77165973 TAGAATTTTA
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
7 6 0.10
8 21 0.36
9 12 0.20
10 15 0.25
11 5 0.08
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (8 bp):
TTTTTATA
Found at i:77165913 original size:18 final size:18
Alignment explanation
Indices: 77165892--77165979 Score: 67
Period size: 20 Copynumber: 4.9 Consensus size: 18
77165882 TAAATATTTT
77165892 TTTATATTTTTATAATTA
1 TTTATATTTTTATAATTA
* *
77165910 TTTATAATTTTCTATTATTT
1 TTTAT-ATTTT-TATAATTA
*
77165930 TTTATGAATTTTAT-A--A
1 TTTAT-ATTTTTATAATTA
*
77165946 TTTATATTTTTAAAATTA
1 TTTATATTTTTATAATTA
* *
77165964 TATAT-TTTTTAGAATT
1 TTTATATTTTTATAATT
77165980 TTAACATTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
15 6 0.11
16 6 0.11
17 10 0.18
18 11 0.20
19 8 0.14
20 15 0.27
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTATATTTTTATAATTA
Found at i:77165967 original size:16 final size:15
Alignment explanation
Indices: 77165938--77165972 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
77165928 TTTTTATGAA
*
77165938 TTTTATAATTTATAT
1 TTTTAAAATTTATAT
77165953 TTTTAAAATTATATAT
1 TTTTAAAATT-TATAT
77165969 TTTT
1 TTTT
77165973 TAGAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTTAAAATTTATAT
Found at i:77168712 original size:9 final size:9
Alignment explanation
Indices: 77168698--77168740 Score: 50
Period size: 10 Copynumber: 4.4 Consensus size: 9
77168688 ATTAAAAAAA
77168698 TTTATATTT
1 TTTATATTT
77168707 TTTATATTTT
1 TTTATA-TTT
77168717 TTTATATATT
1 TTTATAT-TT
*
77168727 TTTAATAATT
1 TTT-ATATTT
77168737 TTTA
1 TTTA
77168741 GTTCTTAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
9 8 0.27
10 19 0.63
11 3 0.10
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTATATTT
Found at i:77168726 original size:21 final size:21
Alignment explanation
Indices: 77168700--77168739 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
77168690 TAAAAAAATT
* *
77168700 TATATTTTTTATATTTTTTTA
1 TATATTTTTAATAATTTTTTA
77168721 TATATTTTTAATAATTTTT
1 TATATTTTTAATAATTTTT
77168740 AGTTCTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (21 bp):
TATATTTTTAATAATTTTTTA
Found at i:77171754 original size:18 final size:17
Alignment explanation
Indices: 77171731--77171768 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
77171721 AATCGAAATT
77171731 TATTTTATAATAATATAA
1 TATTTTATAATAAT-TAA
*
77171749 TATTTTGTAATAATTAA
1 TATTTTATAATAATTAA
77171766 TAT
1 TAT
77171769 CATATATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TATTTTATAATAATTAA
Found at i:77183658 original size:19 final size:18
Alignment explanation
Indices: 77183629--77183689 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 18
77183619 AATATTTTAA
*
77183629 ATAAGTTTTATTGTTTTT
1 ATAATTTTTATTGTTTTT
*
77183647 ATAATTTATTA-TATTTTT
1 ATAATTT-TTATTGTTTTT
* *
77183665 A-AATTTTTATAGTATTT
1 ATAATTTTTATTGTTTTT
77183682 AT-ATTTTT
1 ATAATTTTT
77183690 TTATAATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
16 3 0.09
17 16 0.46
18 13 0.37
19 3 0.09
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (18 bp):
ATAATTTTTATTGTTTTT
Found at i:77183783 original size:15 final size:16
Alignment explanation
Indices: 77183741--77183783 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
77183731 TATATCATTG
77183741 TTAATATTTTTTAATAT
1 TTAATA-TTTTTAATAT
* *
77183758 TTAATAATTTT-ATTT
1 TTAATATTTTTAATAT
77183773 TTAATATTTTT
1 TTAATATTTTT
77183784 TTCCTGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 13 0.57
16 4 0.17
17 6 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTAATATTTTTAATAT
Found at i:77184387 original size:3 final size:3
Alignment explanation
Indices: 77184381--77184408 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
77184371 TGCAATTTTG
77184381 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
77184409 ATTTTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:77185780 original size:15 final size:14
Alignment explanation
Indices: 77185753--77185782 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
77185743 AACATTTTTT
77185753 TAATATTTATATTA
1 TAATATTTATATTA
77185767 TAATATTATATATTA
1 TAATATT-TATATTA
77185782 T
1 T
77185783 TATAGATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TAATATTTATATTA
Found at i:77188503 original size:17 final size:17
Alignment explanation
Indices: 77188481--77188514 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
77188471 GTTGTAGGGG
77188481 GAAGCCGAGAACAGAGA
1 GAAGCCGAGAACAGAGA
77188498 GAAGCCGAGAACAGAGA
1 GAAGCCGAGAACAGAGA
77188515 CGGCGCCACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.35, T:0.00
Consensus pattern (17 bp):
GAAGCCGAGAACAGAGA
Found at i:77190759 original size:17 final size:18
Alignment explanation
Indices: 77190726--77190772 Score: 71
Period size: 17 Copynumber: 2.7 Consensus size: 18
77190716 TATTGTTTGT
77190726 GATAATTATATATTTAATA
1 GATAATTATA-ATTTAATA
77190745 -ATAATTATAATTTAATA
1 GATAATTATAATTTAATA
77190762 GA-AATTATAAT
1 GATAATTATAAT
77190773 AATTACATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 17 0.63
18 10 0.37
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (18 bp):
GATAATTATAATTTAATA
Found at i:77199079 original size:12 final size:13
Alignment explanation
Indices: 77199050--77199077 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
77199040 TTCATTGAAC
77199050 TTTCAGTTGTATT
1 TTTCAGTTGTATT
77199063 TTTCAGTTGTATT
1 TTTCAGTTGTATT
77199076 TT
1 TT
77199078 CATCACCCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.14, T:0.64
Consensus pattern (13 bp):
TTTCAGTTGTATT
Found at i:77199698 original size:30 final size:30
Alignment explanation
Indices: 77199662--77199836 Score: 269
Period size: 30 Copynumber: 5.8 Consensus size: 30
77199652 ACTTTTCTCA
* *
77199662 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACATTTTCCACCACCAACTCC
77199692 ACTAGCCACACATTTTCCACCACCAACTCC
1 ACTAGCCACACATTTTCCACCACCAACTCC
* *
77199722 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACATTTTCCACCACCAACTCC
77199752 ACTAGCCACACATTTTCCACCACCAACTCC
1 ACTAGCCACACATTTTCCACCACCAACTCC
* * *
77199782 ATTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACATTTTCCACCACCAACTCC
* *
77199812 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACATTTTCCACCACCA
77199837 CTTGTACCTA
Statistics
Matches: 132, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 132 1.00
ACGTcount: A:0.26, C:0.47, G:0.03, T:0.23
Consensus pattern (30 bp):
ACTAGCCACACATTTTCCACCACCAACTCC
Found at i:77199727 original size:60 final size:60
Alignment explanation
Indices: 77199662--77199836 Score: 314
Period size: 60 Copynumber: 2.9 Consensus size: 60
77199652 ACTTTTCTCA
*
77199662 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACATTTTCCACCACCAACTCC
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACATTTTCCACCACCAACTCC
77199722 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACATTTTCCACCACCAACTCC
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACATTTTCCACCACCAACTCC
* * *
77199782 ATTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACATTTTCCACCACCA
77199837 CTTGTACCTA
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 111 1.00
ACGTcount: A:0.26, C:0.47, G:0.03, T:0.23
Consensus pattern (60 bp):
ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACATTTTCCACCACCAACTCC
Found at i:77200397 original size:25 final size:25
Alignment explanation
Indices: 77200332--77200542 Score: 98
Period size: 25 Copynumber: 8.4 Consensus size: 25
77200322 ATTATATTTC
* *
77200332 TTAATATTATATTATATATAT-TCT
1 TTAATATTATATTATGTATATATAT
*
77200356 TT--TAATATATTA-G-ATATAT-T
1 TTAATATTATATTATGTATATATAT
*
77200376 TTAAATTTTATATTATGTATATATATAT
1 TT-AATATTATATTATG--TATATATAT
* * * *
77200404 TTTATACTATTTTATGTATATATCT
1 TTAATATTATATTATGTATATATAT
*
77200429 TTAATATTATATTATTTATATATATATTTTT
1 TTAATATTATATTA--TGTATATATA----T
* * *
77200460 TTACATGTTATCTTATGTATATAT-C
1 TTA-ATATTATATTATGTATATATAT
* * *
77200485 TT-A-ACTATATTATGTATGTATTT
1 TTAATATTATATTATGTATATATAT
* * * *
77200508 TTAACACTATATTATGTACATATTT
1 TTAATATTATATTATGTATATATAT
77200533 TTAATATTAT
1 TTAATATTAT
77200543 CACGTATTTT
Statistics
Matches: 141, Mismatches: 27, Indels: 37
0.69 0.13 0.18
Matches are distributed among these distances:
20 7 0.05
21 1 0.01
22 23 0.16
23 11 0.08
24 4 0.03
25 47 0.33
27 24 0.17
28 3 0.02
30 8 0.06
31 4 0.03
32 9 0.06
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.57
Consensus pattern (25 bp):
TTAATATTATATTATGTATATATAT
Found at i:77200418 original size:27 final size:27
Alignment explanation
Indices: 77200384--77200530 Score: 108
Period size: 25 Copynumber: 5.6 Consensus size: 27
77200374 TTTTAAATTT
77200384 TATATTATGTATATATATATTTTATAC
1 TATATTATGTATATATATATTTTATAC
* * * *
77200411 TATTTTATG--TATATATCTTTAATAT
1 TATATTATGTATATATATATTTTATAC
* *
77200436 TATATTATTTATATATATATTTTTTTAC
1 TATATTATGTATATATATA-TTTTATAC
* * * *
77200464 -ATGTTATCTTATGTATATATCTTA-AC
1 TATATTAT-GTATATATATATTTTATAC
* * *
77200490 TATATTATGTATGTAT-T-TTTAACAC
1 TATATTATGTATATATATATTTTATAC
*
77200515 TATATTATGTACATAT
1 TATATTATGTATATAT
77200531 TTTTAATATT
Statistics
Matches: 94, Mismatches: 20, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
24 3 0.03
25 37 0.39
26 9 0.10
27 30 0.32
28 15 0.16
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.56
Consensus pattern (27 bp):
TATATTATGTATATATATATTTTATAC
Found at i:77200445 original size:30 final size:30
Alignment explanation
Indices: 77200405--77200486 Score: 80
Period size: 28 Copynumber: 2.8 Consensus size: 30
77200395 TATATATATT
*
77200405 TTATACTATTTTATGTATATATCTTTAATA
1 TTATATTATTTTATGTATATATCTTTAATA
* **
77200435 TTATATTA-TTTATATATATAT-TTTTTTA
1 TTATATTATTTTATGTATATATCTTTAATA
* * *
77200463 -CATGTTATCTTATGTATATATCTT
1 TTATATTATTTTATGTATATATCTT
77200487 AACTATATTA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
27 5 0.12
28 16 0.38
29 14 0.33
30 7 0.17
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (30 bp):
TTATATTATTTTATGTATATATCTTTAATA
Found at i:77200541 original size:20 final size:20
Alignment explanation
Indices: 77200516--77200571 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
77200506 TTTTAACACT
77200516 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
* * *
77200536 ATATTAT-CACGTATTTTTT
1 ATATTATGTACATATTTTTA
*
77200555 TTATATATGTACATATT
1 ATAT-TATGTACATATT
77200572 GATGTAGTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 12 0.43
20 10 0.36
21 6 0.21
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:77200711 original size:16 final size:14
Alignment explanation
Indices: 77200692--77200725 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 14
77200682 TATTATTCTA
77200692 ATATTTTGATATTTT
1 ATATTTT-ATATTTT
77200707 GATATTTTATATTTT
1 -ATATTTTATATTTT
77200722 ATAT
1 ATAT
77200726 ATTTTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 7 0.39
16 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (14 bp):
ATATTTTATATTTT
Found at i:77200720 original size:7 final size:8
Alignment explanation
Indices: 77200692--77200725 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
77200682 TATTATTCTA
77200692 ATATTTTG
1 ATATTTTG
77200700 ATATTTTG
1 ATATTTTG
77200708 ATATTTT-
1 ATATTTTG
77200715 ATATTTT-
1 ATATTTTG
77200722 ATAT
1 ATAT
77200726 ATTTTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 11 0.42
8 15 0.58
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (8 bp):
ATATTTTG
Found at i:77200727 original size:16 final size:15
Alignment explanation
Indices: 77200692--77200732 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
77200682 TATTATTCTA
77200692 ATATTTTGATATTTTG
1 ATATTTT-ATATTTTG
*
77200708 ATATTTTATATTTTAT
1 ATATTTTATATTTT-G
77200724 ATATTTTAT
1 ATATTTTAT
77200733 TATTCACATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (15 bp):
ATATTTTATATTTTG
Found at i:77201515 original size:111 final size:111
Alignment explanation
Indices: 77201321--77201543 Score: 446
Period size: 111 Copynumber: 2.0 Consensus size: 111
77201311 TGGGGAAAGC
77201321 CTTTTTGAGAGTCGTGTCTGGAATTAAACACGTTTTGTCAAAATTTTCAAATTTCCTTGTTCAAA
1 CTTTTTGAGAGTCGTGTCTGGAATTAAACACGTTTTGTCAAAATTTTCAAATTTCCTTGTTCAAA
77201386 GTAAATATTTGGTCGTGATCCGAAAATCTCGTTTTCAAAATTCATG
66 GTAAATATTTGGTCGTGATCCGAAAATCTCGTTTTCAAAATTCATG
77201432 CTTTTTGAGAGTCGTGTCTGGAATTAAACACGTTTTGTCAAAATTTTCAAATTTCCTTGTTCAAA
1 CTTTTTGAGAGTCGTGTCTGGAATTAAACACGTTTTGTCAAAATTTTCAAATTTCCTTGTTCAAA
77201497 GTAAATATTTGGTCGTGATCCGAAAATCTCGTTTTCAAAATTCATG
66 GTAAATATTTGGTCGTGATCCGAAAATCTCGTTTTCAAAATTCATG
77201543 C
1 C
77201544 ATTTGTATCG
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 112 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (111 bp):
CTTTTTGAGAGTCGTGTCTGGAATTAAACACGTTTTGTCAAAATTTTCAAATTTCCTTGTTCAAA
GTAAATATTTGGTCGTGATCCGAAAATCTCGTTTTCAAAATTCATG
Found at i:77209272 original size:70 final size:70
Alignment explanation
Indices: 77209151--77209325 Score: 221
Period size: 70 Copynumber: 2.5 Consensus size: 70
77209141 CTTTCCAAGG
**
77209151 AAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTATTTT-
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTATTTTA
*
77209214 TTTTTT
65 TGTTTT
** *
77209220 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTATTTTA
1 -AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTATTTTA
77209285 TGTTTT
65 TGTTTT
** * *
77209291 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
77209326 TTTAATTTTT
Statistics
Matches: 93, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
69 31 0.33
70 55 0.59
71 7 0.08
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTATTTTAT
GTTTT
Found at i:77209701 original size:79 final size:75
Alignment explanation
Indices: 77209343--77209681 Score: 384
Period size: 72 Copynumber: 4.5 Consensus size: 75
77209333 TTTGTTTTTC
* *
77209343 AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCA-GACACGCTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT-
*
77209407 TTGT-TAAAAA
65 TTTTCTAAAAA
* ** * *
77209417 AAATTAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTGAATTTC-T
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTT
* *
77209481 GTTCT--CAA
66 TTTCTAAAAA
* * ** * *
77209489 AATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT-
*
77209554 TTTTCAAAAAA
65 TTTTCTAAAAA
* *
77209565 AAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAATTT
*
77209629 CTATTTTTTTAAAAA
63 C--TTTTTCTAAAAA
*
77209644 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
77209682 ATTACACACT
Statistics
Matches: 225, Mismatches: 28, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
72 58 0.26
73 2 0.01
74 38 0.17
75 25 0.11
76 35 0.16
78 22 0.10
79 43 0.19
80 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (75 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTT
TTTCTAAAAA
Found at i:77209911 original size:70 final size:69
Alignment explanation
Indices: 77209834--77209969 Score: 220
Period size: 70 Copynumber: 2.0 Consensus size: 69
77209824 TCAAAATCAG
*
77209834 CTCATATTGCAAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTTGTGTTTTAA
1 CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGA-GTA-TTTCAATTTTGTGTTTTAA
77209898 TTTCAA
64 TTTCAA
* *
77209904 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGTATTTCAATTTTGTTTTTTAATT
1 CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGTATTTCAATTTTGTGTTTTAATT
77209969 T
66 T
77209970 ATGTTTCAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
69 21 0.34
70 31 0.50
71 10 0.16
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.38
Consensus pattern (69 bp):
CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGTATTTCAATTTTGTGTTTTAATT
TCAA
Found at i:77210187 original size:14 final size:14
Alignment explanation
Indices: 77210168--77210202 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
77210158 CGCTGAGGTA
77210168 TTTTCAATTTCTGG
1 TTTTCAATTTCTGG
*
77210182 TTTTCAATTTCTGT
1 TTTTCAATTTCTGG
77210196 TTTTCAA
1 TTTTCAA
77210203 AAATCGACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.14, G:0.09, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGG
Found at i:77210302 original size:73 final size:74
Alignment explanation
Indices: 77210183--77210350 Score: 266
Period size: 73 Copynumber: 2.3 Consensus size: 74
77210173 AATTTCTGGT
* *
77210183 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GACATG
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCCACATG
77210247 CTGAGGTAA
66 CTGAGGTAA
* *
77210256 TTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGC-CACAT
**
77210321 GCTGAGGTCT
65 GCTGAGGTAA
77210331 TTTCAATTTCTGTTTTTCAA
1 TTTCAATTTCTGTTTTTCAA
77210351 TTTCTGTTCG
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
73 55 0.64
75 31 0.36
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.37
Consensus pattern (74 bp):
TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCCACATG
CTGAGGTAA
Found at i:77210327 original size:162 final size:161
Alignment explanation
Indices: 77210024--77210670 Score: 839
Period size: 162 Copynumber: 4.1 Consensus size: 161
77210014 ACCTGAGTAA
*
77210024 TTTCAATTT-TGTTTGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* * * * ** * * *
77210087 TGATGT-GTTTTAATTTATGTTCATCAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTG
66 TGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
* *
77210151 GCTCAAACGCTGAGGTATTTTCAATTTCTGGT
131 GCTCACACGCTGAGGTCTTTTCAATTTCT-GT
* * *
77210183 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGC
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
77210248 TGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
66 TGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
*
77210313 GCTCACATGCTGAGGTCTTTTCAATTTCTGTT
131 GCTCACACGCTGAGGTCTTTTCAATTTCTG-T
* **
77210345 TTTCAATTTCTGTTCGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTCAATTTCTGTT-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
* * * *
77210410 CTGAGGTATTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
65 CTGAGGTA-ATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCT
77210475 CAGG---ACACGCTGAGG-----T--A----T-T
129 C-GGCTCACACGCTGAGGTCTTTTCAATTTCTGT
* *
77210494 TTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
*
77210559 TGAGGTAATTTCAATTTCTGTTTGTC-AAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCG
66 TGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
* *
77210623 GCTCACATGCTGAGGTCTTTTTAATTTCTGCT
131 GCTCACACGCTGAGGTCTTTTCAATTTCTG-T
*
77210655 TTTC-ATTTCTATTTTT
1 TTTCAATTTCTGTTTTT
77210671 TCAATTTATA
Statistics
Matches: 425, Mismatches: 40, Indels: 45
0.83 0.08 0.09
Matches are distributed among these distances:
145 2 0.00
146 35 0.08
147 16 0.04
148 64 0.15
149 14 0.03
151 1 0.00
153 1 0.00
155 2 0.00
157 1 0.00
159 10 0.02
160 18 0.04
161 53 0.12
162 101 0.24
163 52 0.12
164 53 0.12
165 2 0.00
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (161 bp):
TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
GCTCACACGCTGAGGTCTTTTCAATTTCTGT
Found at i:77210349 original size:14 final size:14
Alignment explanation
Indices: 77210330--77210358 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
77210320 TGCTGAGGTC
77210330 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
77210344 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
77210358 T
1 T
77210359 CGTAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:77210437 original size:89 final size:87
Alignment explanation
Indices: 77210256--77210439 Score: 262
Period size: 90 Copynumber: 2.1 Consensus size: 87
77210246 GCTGAGGTAA
* * * *
77210256 TTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTTCAATTTCTGTTCGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--CACAC
*
77210321 GCTGAGGTCTTTTCAATTTCTGTT
64 GCTGAGGTCTTTTAAATTTCTGTT
77210345 TTTCAATTTCTGTTCGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC
1 TTTCAATTTCTGTTCGT-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCACAC
*
77210409 GCTGAGGTATTTTTAAATTTCTGTT
64 GCTGAGGT-CTTTTAAATTTCTGTT
77210434 TTTCAA
1 TTTCAA
77210440 AAATCAACTC
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
88 11 0.13
89 36 0.42
90 37 0.43
91 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.38
Consensus pattern (87 bp):
TTTCAATTTCTGTTCGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGC
TGAGGTCTTTTAAATTTCTGTT
Found at i:77210465 original size:74 final size:74
Alignment explanation
Indices: 77210364--77210659 Score: 456
Period size: 74 Copynumber: 4.0 Consensus size: 74
77210354 CTGTTCGTAA
77210364 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
77210429 CTGTTTTTC
66 CTGTTTTTC
77210438 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
77210503 CTGTTTTTC
66 CTGTTTTTC
* * *
77210512 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-ATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
*
77210576 CTGTTTGTC
66 CTGTTTTTC
* * * *
77210585 -AAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTC-GGCTCACATGCTGAGGTCTTTTT-AA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTTAAA
*
77210647 TTTCTGCTTTTC
63 TTTCTGTTTTTC
77210659 A
1 A
77210660 TTTCTATTTT
Statistics
Matches: 206, Mismatches: 11, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
71 2 0.01
72 35 0.17
73 16 0.08
74 150 0.73
75 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
CTGTTTTTC
Done.