Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 232 of 250
Found at i:71648307 original size:29 final size:29
Alignment explanation
Indices: 71648275--71648333 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
71648265 TGGTCACTAA
71648275 TTTTATATTTTTAAAAATTAATTTTAATTT
1 TTTTATATTTTTAAAAATTAA-TTTAATTT
* *
71648305 TTTTCTTTTTTTAAAAATTAATTTAATTT
1 TTTTATATTTTTAAAAATTAATTTAATTT
71648334 CTCCAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (29 bp):
TTTTATATTTTTAAAAATTAATTTAATTT
Found at i:71655776 original size:12 final size:12
Alignment explanation
Indices: 71655759--71655784 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
71655749 TTATCTATGA
71655759 TACTCAATATAT
1 TACTCAATATAT
71655771 TACTCAATATAT
1 TACTCAATATAT
71655783 TA
1 TA
71655785 ATGTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (12 bp):
TACTCAATATAT
Found at i:71656405 original size:34 final size:31
Alignment explanation
Indices: 71656367--71656441 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 31
71656357 TATATGCAAT
71656367 TTAACAAGTAAATGCCTCTAAAATAATAACAAAA
1 TTAACAAG-AAAT--CTCTAAAATAATAACAAAA
* *
71656401 TTAACAA-ATATCTTTAAAATAATAACAAAA
1 TTAACAAGAAATCTCTAAAATAATAACAAAA
*
71656431 TTAATAAGAAA
1 TTAACAAGAAA
71656442 ATAAGTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 24 0.67
31 2 0.06
32 3 0.08
34 7 0.19
ACGTcount: A:0.59, C:0.11, G:0.04, T:0.27
Consensus pattern (31 bp):
TTAACAAGAAATCTCTAAAATAATAACAAAA
Found at i:71656492 original size:22 final size:22
Alignment explanation
Indices: 71656467--71656509 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
71656457 TATCCAAACA
71656467 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
71656489 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
71656510 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:71656513 original size:11 final size:11
Alignment explanation
Indices: 71656474--71656514 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
71656464 ACAATAACAA
71656474 CAAAATAGTAG
1 CAAAATAGTAG
* *
71656485 CAACATAATAG
1 CAAAATAGTAG
*
71656496 TAAAATAGTAG
1 CAAAATAGTAG
71656507 CAAAATAG
1 CAAAATAG
71656515 GGAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:71656965 original size:15 final size:15
Alignment explanation
Indices: 71656942--71656978 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
71656932 AATTGTATTT
*
71656942 TTACCATCACATAAA
1 TTACAATCACATAAA
71656957 TTACAATCACATAAA
1 TTACAATCACATAAA
71656972 TTACAAT
1 TTACAAT
71656979 TTAATTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (15 bp):
TTACAATCACATAAA
Found at i:71669191 original size:2 final size:2
Alignment explanation
Indices: 71669184--71669208 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
71669174 TGAATCAGTC
71669184 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
71669209 ACACACACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:71671651 original size:6 final size:7
Alignment explanation
Indices: 71671636--71671660 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
71671626 GACATCAAGT
71671636 AAAATAA
1 AAAATAA
71671643 AAAATAA
1 AAAATAA
71671650 AAAATAA
1 AAAATAA
71671657 AAAA
1 AAAA
71671661 GCTAGCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:71676878 original size:21 final size:22
Alignment explanation
Indices: 71676847--71676887 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
71676837 TTTACATCTA
71676847 AAACACAGGCCCAAAAAAACCC
1 AAACACAGGCCCAAAAAAACCC
*
71676869 AAACA-AGGCCCAAACAAAC
1 AAACACAGGCCCAAAAAAAC
71676888 AGAAACCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.56, C:0.34, G:0.10, T:0.00
Consensus pattern (22 bp):
AAACACAGGCCCAAAAAAACCC
Found at i:71676893 original size:21 final size:22
Alignment explanation
Indices: 71676847--71676893 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
71676837 TTTACATCTA
*
71676847 AAACACAGGCCCAAAAAAACCC
1 AAACACAGGCCCAAAAAAACAC
* *
71676869 AAACA-AGGCCCAAACAAACAG
1 AAACACAGGCCCAAAAAAACAC
71676890 AAAC
1 AAAC
71676894 CTAAAGCTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.57, C:0.32, G:0.11, T:0.00
Consensus pattern (22 bp):
AAACACAGGCCCAAAAAAACAC
Found at i:71680925 original size:16 final size:18
Alignment explanation
Indices: 71680906--71680945 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
71680896 TATGTTTGTT
71680906 TACTGAG-AAG-TTTTTC
1 TACTGAGTAAGTTTTTTC
*
71680922 TACTGAGTTAGTTTTTTC
1 TACTGAGTAAGTTTTTTC
71680940 TACTGA
1 TACTGA
71680946 TTTTAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.33
17 2 0.10
18 12 0.57
ACGTcount: A:0.23, C:0.12, G:0.17, T:0.47
Consensus pattern (18 bp):
TACTGAGTAAGTTTTTTC
Found at i:71682157 original size:15 final size:17
Alignment explanation
Indices: 71682136--71682176 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
71682126 TAAATTTTTA
71682136 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
71682152 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
71682168 AAAATTATA
1 AAAATTATA
71682177 TTTTTACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:71682169 original size:24 final size:25
Alignment explanation
Indices: 71682126--71682176 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
71682116 AAAATTAATT
* *
71682126 TAAATTTTTAAAAATTATAAAAATA
1 TAAATTATTAAAAATAATAAAAATA
*
71682151 TAAATTATT-AAAATAATAAAATTA
1 TAAATTATTAAAAATAATAAAAATA
71682175 TA
1 TA
71682177 TTTTTACTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (25 bp):
TAAATTATTAAAAATAATAAAAATA
Found at i:71697158 original size:13 final size:14
Alignment explanation
Indices: 71697131--71697160 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
71697121 GGGTTTTCTG
71697131 TTTATTTTTCACTT
1 TTTATTTTTCACTT
71697145 TTTATTTTTC-CTT
1 TTTATTTTTCACTT
71697158 TTT
1 TTT
71697161 CAGAATTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTTTTCACTT
Found at i:71700300 original size:3 final size:3
Alignment explanation
Indices: 71700292--71700316 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
71700282 AATCCGACCC
71700292 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
71700317 CAAGAGTTAG
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:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:71711682 original size:7 final size:7
Alignment explanation
Indices: 71711670--71711702 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
71711660 GTTAGTTATG
71711670 GAGAGGA
1 GAGAGGA
71711677 GAGAGGA
1 GAGAGGA
71711684 GAGAGGA
1 GAGAGGA
71711691 GAGAGGA
1 GAGAGGA
71711698 GAGAG
1 GAGAG
71711703 AATATAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (7 bp):
GAGAGGA
Found at i:71711742 original size:14 final size:14
Alignment explanation
Indices: 71711706--71711748 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
71711696 GAGAGAGAAT
*
71711706 ATAAAGAAAAATGA
1 ATAAAGAAAAAAGA
* *
71711720 ATCATGAAAAAAGA
1 ATAAAGAAAAAAGA
*
71711734 ATAAGGAAAAAAGA
1 ATAAAGAAAAAAGA
71711748 A
1 A
71711749 GGGAGGGGGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.70, C:0.02, G:0.16, T:0.12
Consensus pattern (14 bp):
ATAAAGAAAAAAGA
Found at i:71715888 original size:2 final size:2
Alignment explanation
Indices: 71715881--71715911 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
71715871 ATAAATTAGG
71715881 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
71715912 CAGAAAACGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:71717016 original size:31 final size:30
Alignment explanation
Indices: 71716978--71717049 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 30
71716968 AATTATACAT
71716978 AAATTTTAATTTAATGTATAATTATATATAT-
1 AAATTTTAATTTAATG-A-AATTATATATATA
* * * *
71717009 GAATTTTAACTTAGTGAAATTATATATGTA
1 AAATTTTAATTTAATGAAATTATATATATA
71717039 AAATTTTAATT
1 AAATTTTAATT
71717050 GCAGTTTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
29 11 0.32
30 10 0.29
31 13 0.38
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.49
Consensus pattern (30 bp):
AAATTTTAATTTAATGAAATTATATATATA
Found at i:71717029 original size:29 final size:28
Alignment explanation
Indices: 71716967--71717035 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
71716957 ATAAATATTA
* *
71716967 AAATTATACATAAATTTTAATTTAATGT
1 AAATTATATATAAATTTTAACTTAATGT
*
71716995 ATAATTATATATATGAATTTTAACTTAGTG-
1 A-AATTATATATA--AATTTTAACTTAATGT
71717025 AAATTATATAT
1 AAATTATATAT
71717036 GTAAAATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 1 0.03
29 20 0.57
30 1 0.03
31 13 0.37
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (28 bp):
AAATTATATATAAATTTTAACTTAATGT
Found at i:71721570 original size:5 final size:6
Alignment explanation
Indices: 71721540--71721567 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
71721530 ACTTTGTGAA
71721540 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
71721568 TAATTAAATA
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:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:71722872 original size:24 final size:24
Alignment explanation
Indices: 71722845--71722892 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
71722835 TCCCTCCTAG
71722845 AGGTGTTATGATAAATTTATATAT
1 AGGTGTTATGATAAATTTATATAT
*
71722869 AGGTGTTATGATGAATTTATATAT
1 AGGTGTTATGATAAATTTATATAT
71722893 GGGGATAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (24 bp):
AGGTGTTATGATAAATTTATATAT
Found at i:71728087 original size:17 final size:16
Alignment explanation
Indices: 71728063--71728097 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
71728053 ATTTTTCTTA
*
71728063 AATTTATTGAAAATAT
1 AATTTATTAAAAATAT
71728079 AATTATATTAAAAATAT
1 AATT-TATTAAAAATAT
71728096 AA
1 AA
71728098 AAAATTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (16 bp):
AATTTATTAAAAATAT
Found at i:71728372 original size:16 final size:16
Alignment explanation
Indices: 71728351--71728402 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
71728341 TTTGGTTCGC
*
71728351 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
71728367 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
71728383 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
71728399 TGTA
1 TGTA
71728403 ATAGCAAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.27, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:71728659 original size:18 final size:17
Alignment explanation
Indices: 71728638--71728672 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
71728628 TTATTATTAA
*
71728638 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
71728656 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
71728673 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:71728834 original size:120 final size:120
Alignment explanation
Indices: 71728621--71729363 Score: 1432
Period size: 120 Copynumber: 6.2 Consensus size: 120
71728611 ATCATATTTA
*
71728621 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
*
71728686 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
71728741 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
*
71728806 TATTCTTATATTAATTTACTCAAATCATAATATATGATGCTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
71728861 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
*
71728926 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
71728981 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
*
71729046 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
71729101 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
71729166 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
71729221 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
71729286 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
71729341 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
71729364 AACTTGAAAA
Statistics
Matches: 615, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 615 1.00
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:71728899 original size:18 final size:17
Alignment explanation
Indices: 71728878--71728912 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
71728868 TTATTATTAA
*
71728878 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
71728896 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
71728913 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:71731389 original size:33 final size:33
Alignment explanation
Indices: 71731350--71731459 Score: 159
Period size: 33 Copynumber: 3.3 Consensus size: 33
71731340 ATTATAAAGC
71731350 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
71731383 ATGTATAATTGACCTAAAATTAATTCTTGGTTT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* * *
71731416 AT-TTTTATTTACCCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGA-CCTAAAATTAATTGTTGGTGT
71731449 ATGTATAATTG
1 ATGTATAATTG
71731460 TTGGTGTATG
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
32 6 0.09
33 54 0.83
34 5 0.08
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTGT
Found at i:71731459 original size:18 final size:18
Alignment explanation
Indices: 71731436--71731477 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
71731426 ACCCTAAAAT
71731436 TAATTGTTGGTGTATGTA
1 TAATTGTTGGTGTATGTA
71731454 TAATTGTTGGTGTATGTA
1 TAATTGTTGGTGTATGTA
71731472 TAATTG
1 TAATTG
71731478 ACCTAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (18 bp):
TAATTGTTGGTGTATGTA
Found at i:71732864 original size:28 final size:28
Alignment explanation
Indices: 71732831--71732942 Score: 73
Period size: 28 Copynumber: 3.6 Consensus size: 28
71732821 TTTTTATTAT
71732831 AATATTTTATTATTTCAGTTTATTTCAC
1 AATATTTTATTATTTCAGTTTATTTCAC
* * *
71732859 AATATTTATTTTAAGTATT-AGATATATTATACATT
1 AATATTT-TATT-A-T-TTCAG-TTTATT-T-CA-C
*
71732894 AATATTTATTTTATTATTTCAGTTCATTTCAC
1 AATA--T--TTTATTATTTCAGTTTATTTCAC
71732926 AATATTTTATTATTTCA
1 AATATTTTATTATTTCA
71732943 ACTTTTATTA
Statistics
Matches: 64, Mismatches: 7, Indels: 26
0.66 0.07 0.27
Matches are distributed among these distances:
28 19 0.30
29 3 0.05
30 2 0.03
31 3 0.05
32 11 0.17
33 3 0.05
34 3 0.05
35 10 0.16
36 3 0.05
37 2 0.03
38 3 0.05
39 2 0.03
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (28 bp):
AATATTTTATTATTTCAGTTTATTTCAC
Found at i:71732869 original size:32 final size:32
Alignment explanation
Indices: 71732833--71732932 Score: 105
Period size: 32 Copynumber: 3.0 Consensus size: 32
71732823 TTTATTATAA
71732833 TATTTTATTATTTCAGTTTATTTCACAATATT
1 TATTTTATTATTTCAGTTTATTTCACAATATT
* * *
71732865 TATTTTAAGTA-TT-AGATATATTATACATTAATATT
1 TATTTT-ATTATTTCAG-TTTATT-T-CA-CAATATT
*
71732900 TATTTTATTATTTCAGTTCATTTCACAATATT
1 TATTTTATTATTTCAGTTTATTTCACAATATT
71732932 T
1 T
71732933 TATTATTTCA
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
31 2 0.04
32 20 0.37
33 6 0.11
34 6 0.11
35 18 0.33
36 2 0.04
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (32 bp):
TATTTTATTATTTCAGTTTATTTCACAATATT
Found at i:71738725 original size:13 final size:12
Alignment explanation
Indices: 71738707--71738736 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
71738697 GTGTTTAATG
71738707 ATTTTTATTATGA
1 ATTTTTA-TATGA
71738720 ATTTTTATATGA
1 ATTTTTATATGA
71738732 ATTTT
1 ATTTT
71738737 CTGGTGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (12 bp):
ATTTTTATATGA
Found at i:71739751 original size:31 final size:31
Alignment explanation
Indices: 71739716--71739843 Score: 84
Period size: 31 Copynumber: 4.2 Consensus size: 31
71739706 CATTAGAGAT
*
71739716 TTAAAATTTGGGTAATTAAAATGAAAATACC
1 TTAAAATTTGGGTAACTAAAATGAAAATACC
* * * * *
71739747 TTAAAAATTGAGTGACCAATTTATGAAAAT---
1 TTAAAATTTGGGTAACTAA--AATGAAAATACC
* * * * * *
71739777 TT-TATTTTGGGTGACTAAAAGGAAAACACT
1 TTAAAATTTGGGTAACTAAAATGAAAATACC
* *
71739807 TTAAAACTTGGGTAATTAAAATGAAAATACC
1 TTAAAATTTGGGTAACTAAAATGAAAATACC
71739838 TTAAAA
1 TTAAAA
71739844 ATTGAGTGAC
Statistics
Matches: 69, Mismatches: 22, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
27 6 0.09
29 11 0.16
30 4 0.06
31 40 0.58
33 8 0.12
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.32
Consensus pattern (31 bp):
TTAAAATTTGGGTAACTAAAATGAAAATACC
Found at i:71739870 original size:91 final size:92
Alignment explanation
Indices: 71739715--71739903 Score: 326
Period size: 91 Copynumber: 2.1 Consensus size: 92
71739705 TCATTAGAGA
* * *
71739715 TTTAAAATTTGGGTAATTAAAATGAAAATACCTTAAAAATTGAGTGACCAATTTATGAAAATTTT
1 TTTAAAACTTGGGTAATTAAAATGAAAATACCTTAAAAATTGAGTGACCAAATTATAAAAATTTT
* *
71739780 ATTTTGGGTGACT-AAAAGGAAAACAC
66 ATTTTGGATGACTAAAAAGAAAAACAC
71739806 TTTAAAACTTGGGTAATTAAAATGAAAATACCTTAAAAATTGAGTGACCAAATTATAAAAATTTT
1 TTTAAAACTTGGGTAATTAAAATGAAAATACCTTAAAAATTGAGTGACCAAATTATAAAAATTTT
71739871 ATTTTGGATGACTAAAAAGAAAAACAC
66 ATTTTGGATGACTAAAAAGAAAAACAC
71739898 TTTAAA
1 TTTAAA
71739904 TTTTAAGTGA
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
91 74 0.80
92 18 0.20
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.32
Consensus pattern (92 bp):
TTTAAAACTTGGGTAATTAAAATGAAAATACCTTAAAAATTGAGTGACCAAATTATAAAAATTTT
ATTTTGGATGACTAAAAAGAAAAACAC
Found at i:71753643 original size:33 final size:33
Alignment explanation
Indices: 71753597--71753662 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
71753587 AAAAGAAAAG
*
71753597 AAAAGATGGATTTGGTTAAATCTGTGAAGAACT
1 AAAAGATGAATTTGGTTAAATCTGTGAAGAACT
71753630 AAAAGATGAATTTGGTTAAATCTGTGAAGAACT
1 AAAAGATGAATTTGGTTAAATCTGTGAAGAACT
71753663 CAAATTAGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.41, C:0.06, G:0.23, T:0.30
Consensus pattern (33 bp):
AAAAGATGAATTTGGTTAAATCTGTGAAGAACT
Found at i:71771178 original size:23 final size:23
Alignment explanation
Indices: 71771152--71771218 Score: 109
Period size: 23 Copynumber: 2.9 Consensus size: 23
71771142 AATTGATCAA
71771152 ATATCATTTAATATATGAATTTT
1 ATATCATTTAATATATGAATTTT
71771175 ATATCATTTAATATATGAATTTT
1 ATATCATTTAATATATGAATTTT
*
71771198 -TACTCATTTAATATATAAATT
1 ATA-TCATTTAATATATGAATT
71771219 ATTTATTAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
22 2 0.05
23 40 0.95
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (23 bp):
ATATCATTTAATATATGAATTTT
Found at i:71771196 original size:13 final size:13
Alignment explanation
Indices: 71771157--71771196 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
71771147 ATCAAATATC
71771157 ATTTAATATATGA
1 ATTTAATATATGA
*
71771170 ATTT--TATAT-C
1 ATTTAATATATGA
71771180 ATTTAATATATGA
1 ATTTAATATATGA
71771193 ATTT
1 ATTT
71771197 TTACTCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
10 4 0.18
11 5 0.23
12 5 0.23
13 8 0.36
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (13 bp):
ATTTAATATATGA
Found at i:71771620 original size:15 final size:17
Alignment explanation
Indices: 71771596--71771628 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
71771586 TTAATGTATT
71771596 AAAAATATAATGA-AAG
1 AAAAATATAATGATAAG
71771612 AAAAA-ATAATGATAAG
1 AAAAATATAATGATAAG
71771628 A
1 A
71771629 CCATCTCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.18
Consensus pattern (17 bp):
AAAAATATAATGATAAG
Found at i:71776150 original size:37 final size:37
Alignment explanation
Indices: 71776100--71776175 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
71776090 AATAGGACCA
71776100 AAATATTATAAATAGATAATGTTATTAATTATTTTAT
1 AAATATTATAAATAGATAATGTTATTAATTATTTTAT
*
71776137 AAATATTATAAATAGATAATGTTATTGATTATTTTAT
1 AAATATTATAAATAGATAATGTTATTAATTATTTTAT
71776174 AA
1 AA
71776176 TAAAAAATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (37 bp):
AAATATTATAAATAGATAATGTTATTAATTATTTTAT
Found at i:71776810 original size:3 final size:3
Alignment explanation
Indices: 71776802--71776833 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
71776792 TTCCTTTTTG
*
71776802 ATA ATA ATA ATA ATA ATA ATA ATA ATA TTA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
71776834 GAGTTTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:71777415 original size:13 final size:13
Alignment explanation
Indices: 71777397--71777421 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71777387 ATTCAATACT
71777397 TAATATAAATTTC
1 TAATATAAATTTC
71777410 TAATATAAATTT
1 TAATATAAATTT
71777422 AGTACTTAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
TAATATAAATTTC
Found at i:71779334 original size:191 final size:191
Alignment explanation
Indices: 71779010--71779393 Score: 723
Period size: 191 Copynumber: 2.0 Consensus size: 191
71779000 CATTAGAAAA
* *
71779010 AAACTCATCAAAATGATGTTTAATTGATAAGAAAGCTTACAACTACTTTTTCTTGTTTGTATTAT
1 AAACTCATCAAAACGATGTTTAATTAATAAGAAAGCTTACAACTACTTTTTCTTGTTTGTATTAT
71779075 AAATTTCAGGGTAATGAATTTTTATATAGGATGGTTGAACCAGTTTTGTCCTTTCCCTTAAAAGG
66 AAATTTCAGGGTAATGAATTTTTATATAGGATGGTTGAACCAGTTTTGTCCTTTCCCTTAAAAGG
* *
71779140 TGTCATATACCTACATAAAGCATCTTCTCACATTTCTACACAAGTTACAGCTCAATATAAC
131 TGTCATATACCTACATAAAGCATCTTCTCACATTTCTACAAAAGTTACAACTCAATATAAC
71779201 AAACTCATCAAAACGATGTTTAATTAATAAGAAAGCTTACAACTACTTTTTCTTGTTTGTATTAT
1 AAACTCATCAAAACGATGTTTAATTAATAAGAAAGCTTACAACTACTTTTTCTTGTTTGTATTAT
*
71779266 AAATTTCAGGGTAATGAATTTTTATATAGGATGGTTGAACCAGTTTTGTCCTTTCTCTTAAAAGG
66 AAATTTCAGGGTAATGAATTTTTATATAGGATGGTTGAACCAGTTTTGTCCTTTCCCTTAAAAGG
71779331 TGTCATATACCTACATAAAGCATCTTCTCACATTTCTACAAAAGTTACAACTCAATATAAC
131 TGTCATATACCTACATAAAGCATCTTCTCACATTTCTACAAAAGTTACAACTCAATATAAC
71779392 AA
1 AA
71779394 TTTTAAAAAA
Statistics
Matches: 188, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
191 188 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (191 bp):
AAACTCATCAAAACGATGTTTAATTAATAAGAAAGCTTACAACTACTTTTTCTTGTTTGTATTAT
AAATTTCAGGGTAATGAATTTTTATATAGGATGGTTGAACCAGTTTTGTCCTTTCCCTTAAAAGG
TGTCATATACCTACATAAAGCATCTTCTCACATTTCTACAAAAGTTACAACTCAATATAAC
Found at i:71783984 original size:19 final size:19
Alignment explanation
Indices: 71783960--71783997 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
71783950 AAAAATGAGC
*
71783960 CTAATTTTTTGAGCCTATA
1 CTAATTTTTCGAGCCTATA
71783979 CTAATTTTTCGAGCCTATA
1 CTAATTTTTCGAGCCTATA
71783998 TTTTTATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.18, G:0.11, T:0.45
Consensus pattern (19 bp):
CTAATTTTTCGAGCCTATA
Found at i:71786019 original size:20 final size:21
Alignment explanation
Indices: 71785985--71786038 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
71785975 TGATGATATT
*
71785985 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
71786006 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
71786026 TTTTATTATTTTA
1 TTATATTATTTTA
71786039 TTATTGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:71786052 original size:11 final size:11
Alignment explanation
Indices: 71786028--71786066 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
71786018 ATGAGATATT
71786028 TTATTATTTTA
1 TTATTATTTTA
* *
71786039 TTATTGTTTCA
1 TTATTATTTTA
71786050 TTATTATTTTA
1 TTATTATTTTA
71786061 TTATTA
1 TTATTA
71786067 ATTATTTAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:71788256 original size:46 final size:46
Alignment explanation
Indices: 71788204--71788431 Score: 289
Period size: 46 Copynumber: 5.0 Consensus size: 46
71788194 AGTGTGCTCT
*
71788204 CTGATATGAAATGTGTAAGACGATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
71788250 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCGTGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
71788296 CTAATA-GAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
71788342 GTGATATGAAATGAACAAGACCATGGTTGAAAGATATCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * * *
71788388 ATGACA-GAAAATGAGTAAGACTATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
71788432 TCATGTCAAA
Statistics
Matches: 160, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
45 2 0.01
46 157 0.98
47 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:71793444 original size:46 final size:43
Alignment explanation
Indices: 71793392--71793625 Score: 235
Period size: 37 Copynumber: 5.6 Consensus size: 43
71793382 TTTGAGTACT
**
71793392 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTAG---TAGCTACACTTA
71793438 TCTGATCAAGAAACAAAGTGATAAGT-G--GT---TACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTAGTAGCTACACTTA
71793475 TCTGATCAAGAAACAAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTAG---TAGCTACACTTA
71793521 TCTGATCAAGAAACAAAGTGATAA---GT-G--GCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTAGTAGCTACACTTA
****
71793558 TCTGATCAAGTGGTAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTAG--TAGCTACACTTA
*
71793603 TCTGATCAAG-GAC-AAGTGATAAG
1 TCTGATCAAGAAACAAAGTGATAAG
71793626 AGGTCATATG
Statistics
Matches: 163, Mismatches: 8, Indels: 37
0.78 0.04 0.18
Matches are distributed among these distances:
37 64 0.39
38 1 0.01
40 4 0.02
41 1 0.01
42 1 0.01
43 14 0.09
44 1 0.01
45 21 0.13
46 56 0.34
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.28
Consensus pattern (43 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGTAGTAGCTACACTTA
Found at i:71793496 original size:83 final size:83
Alignment explanation
Indices: 71793392--71793625 Score: 375
Period size: 83 Copynumber: 2.9 Consensus size: 83
71793382 TTTGAGTACT
71793392 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGAAACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGAAACAAAGT
*
71793457 GATAAGTGGTTACACTTA
66 GATAAGTGGCTACACTTA
**
71793475 TCTGATCAAGAAACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGAAACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGAAACAAAGT
71793540 GATAAGTGGCTACACTTA
66 GATAAGTGGCTACACTTA
** ** *
71793558 TCTGATCAAGTGGTAAAGTGATAAGTGGTAG-CCTAGCTACACTTATCTGATCAAG-GAC-AAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGAAACAAAGT
71793620 GATAAG
66 GATAAG
71793626 AGGTCATATG
Statistics
Matches: 141, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
80 10 0.07
81 2 0.01
82 22 0.16
83 107 0.76
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.28
Consensus pattern (83 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGAAACAAAGT
GATAAGTGGCTACACTTA
Found at i:71795839 original size:25 final size:25
Alignment explanation
Indices: 71795786--71795844 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
71795776 TTTATTTCAT
* * *
71795786 TAAATAAA-AAATTTTAAAATATAA
1 TAAATAAATACATTTAAAAACATAA
71795810 TAAATCAAATACATTTAAAAACATAA
1 TAAAT-AAATACATTTAAAAACATAA
71795836 -AAATAAATA
1 TAAATAAATA
71795845 TTAAAACAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 10 0.33
25 7 0.23
26 13 0.43
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAATACATTTAAAAACATAA
Found at i:71800496 original size:13 final size:13
Alignment explanation
Indices: 71800480--71800538 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
71800470 ACCAAATTTT
71800480 TCAAAAGCACTTC
1 TCAAAAGCACTTC
*
71800493 TCAAAAGCACTTT
1 TCAAAAGCACTTC
* *
71800506 TCCACAGCACTTC
1 TCAAAAGCACTTC
* *
71800519 TCAAAAACACTTT
1 TCAAAAGCACTTC
71800532 TCAAAAG
1 TCAAAAG
71800539 TATTGCCAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.39, C:0.29, G:0.07, T:0.25
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:71802590 original size:21 final size:20
Alignment explanation
Indices: 71802555--71802593 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
71802545 GTTTTCCATT
71802555 TTTAAAAATAAAAAATATAC
1 TTTAAAAATAAAAAATATAC
*
71802575 TTTAAATAATATAAAATAT
1 TTTAAA-AATAAAAAATAT
71802594 GAAAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
TTTAAAAATAAAAAATATAC
Found at i:71807161 original size:25 final size:25
Alignment explanation
Indices: 71807102--71807152 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
71807092 AAATGCTAAG
71807102 TATGAATCTACTGTTCAGAACTCTT
1 TATGAATCTACTGTTCAGAACTCTT
71807127 TATGAATCTACTGTTCAGAACTCTT
1 TATGAATCTACTGTTCAGAACTCTT
71807152 T
1 T
71807153 TCTTTTCTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (25 bp):
TATGAATCTACTGTTCAGAACTCTT
Found at i:71810054 original size:7 final size:7
Alignment explanation
Indices: 71810037--71810070 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
71810027 CCATTTAGAG
71810037 TTTTTGTT
1 TTTTTG-T
71810045 TTTTTGT
1 TTTTTGT
71810052 TTTTTGT
1 TTTTTGT
71810059 TTTTT-T
1 TTTTTGT
71810065 TTTTTG
1 TTTTTG
71810071 GGGGGGGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.24
7 13 0.52
8 6 0.24
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTTTGT
Found at i:71810057 original size:15 final size:14
Alignment explanation
Indices: 71810037--71810069 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
71810027 CCATTTAGAG
71810037 TTTTTGTTTTTTTGT
1 TTTTTGTTTTTTT-T
71810052 TTTTTGTTTTTTTT
1 TTTTTGTTTTTTTT
71810066 TTTT
1 TTTT
71810070 GGGGGGGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (14 bp):
TTTTTGTTTTTTTT
Found at i:71810995 original size:18 final size:19
Alignment explanation
Indices: 71810944--71810996 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 19
71810934 CATATATATG
71810944 AAATTTATAT-AATATTAT
1 AAATTTATATAAATATTAT
* *
71810962 AAA-ATAT-TAATGTATTA-
1 AAATTTATATAA-ATATTAT
71810979 AAATTTATATAAATATTA
1 AAATTTATATAAATATTA
71810997 CCCTACATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
16 1 0.04
17 7 0.26
18 16 0.59
19 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
AAATTTATATAAATATTAT
Found at i:71811619 original size:6 final size:6
Alignment explanation
Indices: 71811565--71811600 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
71811555 CTAGGGTTTT
71811565 TTAGGG TTAGGG TTAGGG TTAGGG -T-GGG TTAGGG TT
1 TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TT
71811601 TTTATGGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 3 0.11
5 2 0.07
6 23 0.82
ACGTcount: A:0.14, C:0.00, G:0.50, T:0.36
Consensus pattern (6 bp):
TTAGGG
Found at i:71811627 original size:16 final size:18
Alignment explanation
Indices: 71811611--71811651 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
71811601 TTTATGGTTT
71811611 AGGGTTA-GGTTTTTTTA
1 AGGGTTATGGTTTTTTTA
* *
71811628 AGGTTTATGGTTTTTGTA
1 AGGGTTATGGTTTTTTTA
71811646 AGGGTT
1 AGGGTT
71811652 TAATTAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.51
Consensus pattern (18 bp):
AGGGTTATGGTTTTTTTA
Found at i:71811632 original size:23 final size:22
Alignment explanation
Indices: 71811590--71811639 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
71811580 GGGTTAGGGT
*
71811590 GGGTTAGGGTTTTTATGGTTTA
1 GGGTTAGGGTTTTTAAGGTTTA
*
71811612 GGGTTAGGTTTTTTTAAGGTTTA
1 GGGTTAGG-GTTTTTAAGGTTTA
*
71811635 TGGTT
1 GGGTT
71811640 TTTGTAAGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.14, C:0.00, G:0.34, T:0.52
Consensus pattern (22 bp):
GGGTTAGGGTTTTTAAGGTTTA
Found at i:71811680 original size:22 final size:22
Alignment explanation
Indices: 71811654--71811706 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
71811644 TAAGGGTTTA
*
71811654 ATTAATTAAATTAGGGTGTAAG
1 ATTAATTAAATTAGGATGTAAG
71811676 ATTAATTAAATTAGGATGTAAG
1 ATTAATTAAATTAGGATGTAAG
71811698 ATTAATTAA
1 ATTAATTAA
71811707 TTAAATTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.45, C:0.00, G:0.17, T:0.38
Consensus pattern (22 bp):
ATTAATTAAATTAGGATGTAAG
Found at i:71811682 original size:26 final size:25
Alignment explanation
Indices: 71811651--71811714 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 25
71811641 TTGTAAGGGT
*
71811651 TTAATTAATTAAATTAGGGTGTAAG
1 TTAATTAATTAAATTAGGATGTAAG
71811676 ---ATTAATTAAATTAGGATGTAAG
1 TTAATTAATTAAATTAGGATGTAAG
71811698 ATTAATTAATTAAATTA
1 -TTAATTAATTAAATTA
71811715 AATATTAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
22 21 0.62
26 13 0.38
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (25 bp):
TTAATTAATTAAATTAGGATGTAAG
Found at i:71811740 original size:16 final size:16
Alignment explanation
Indices: 71811700--71811737 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
71811690 GATGTAAGAT
71811700 TAATTAATTAAATTAAA
1 TAATTAATTAAA-TAAA
71811717 T-ATTAATTAAA-AAA
1 TAATTAATTAAATAAA
71811731 TAATTAA
1 TAATTAA
71811738 ATTCGGGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.20
15 5 0.25
16 10 0.50
17 1 0.05
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATTAATTAAATAAA
Found at i:71812021 original size:125 final size:124
Alignment explanation
Indices: 71811840--71812225 Score: 427
Period size: 125 Copynumber: 3.1 Consensus size: 124
71811830 ATTTTTGGTT
* * * * * * * * *
71811840 TTTTTTTCT-TCAGTAGTATCTAGAAAAAAATTTTAAGAAGAAGTTTTTGAAGAAATAGTATCCA
1 TTTTTTTCTAT-AGTGGTATCTAGAAAATAATTTTGAGATGACGTTTCTGAAAAAATAGTGTCAA
*
71811904 AAACGCTTTAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAATGCTCCAATGTAGACG-
65 AAACGCTTTAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAA-GCTCCAACGTAGACGC
* *
71811964 TTTTTTTCTATAGTGGTATCTGAGAAAATAATTTTGAGATGACGTTTCTAAAAAAATAGTGTAAA
1 TTTTTTTCTATAGTGGTATCT-AGAAAATAATTTTGAGATGACGTTTCTGAAAAAATAGTGTCAA
* * *
71812029 AAACGCTTTAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAGCTCCTACGTGGACGC
65 AAACGCTTTAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAGCTCCAACGTAGACGC
* ** * * * * *
71812089 TCTTTTGATACAGTGGTATCTAAAAAAATAATTGTGAGATGACCTTTCTGAACAAATAGTGTCAA
1 TTTTTTTCTATAGTGGTATCT-AGAAAATAATTTTGAGATGACGTTTCTGAAAAAATAGTGTCAA
* * * * *
71812154 AAACGCTTCAAGCA-GATGCACTTTCAGCAAAATTATTGAGAAAAGCTCCCACGTGGACACGC
65 AAACGCTTTAAGCAGGATGCACTGTCAGCAAAATTACTGA-AAAAGCTCCAACGT--AGACGC
*
71812216 TCTTTTTCTA
1 TTTTTTTCTA
71812226 CAGTAGTTCC
Statistics
Matches: 221, Mismatches: 35, Indels: 9
0.83 0.13 0.03
Matches are distributed among these distances:
124 52 0.24
125 157 0.71
127 12 0.05
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (124 bp):
TTTTTTTCTATAGTGGTATCTAGAAAATAATTTTGAGATGACGTTTCTGAAAAAATAGTGTCAAA
AACGCTTTAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAGCTCCAACGTAGACGC
Found at i:71815345 original size:29 final size:29
Alignment explanation
Indices: 71815313--71815401 Score: 89
Period size: 29 Copynumber: 3.1 Consensus size: 29
71815303 AAAACATCAT
71815313 TTATTTTATTACAAATATAAAAGAGTAAA
1 TTATTTTATTACAAATATAAAAGAGTAAA
* * *
71815342 TTA--TAATTA-AAATACTAAAA-A-CAACTT
1 TTATTTTATTACAAATA-TAAAAGAGTAA--A
71815369 TTATTTTATTACAAATATAAAAGAGTAAA
1 TTATTTTATTACAAATATAAAAGAGTAAA
71815398 TTAT
1 TTAT
71815402 AATTAAAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 16
0.68 0.09 0.24
Matches are distributed among these distances:
25 2 0.04
26 6 0.13
27 13 0.28
29 17 0.37
30 6 0.13
31 2 0.04
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (29 bp):
TTATTTTATTACAAATATAAAAGAGTAAA
Found at i:71815360 original size:27 final size:27
Alignment explanation
Indices: 71815320--71815417 Score: 87
Period size: 27 Copynumber: 3.6 Consensus size: 27
71815310 CATTTATTTT
71815320 ATTACAAATATAAAAGAGTAAATTATA
1 ATTACAAATATAAAAGAGTAAATTATA
* * *
71815347 ATTA-AAATACTAAAA-A-CAACTTTTATTTT
1 ATTACAAATA-TAAAAGAGTAA--ATTA--TA
71815376 ATTACAAATATAAAAGAGTAAATTATA
1 ATTACAAATATAAAAGAGTAAATTATA
71815403 ATTA-AAATATTAAAA
1 ATTACAAATA-TAAAA
71815418 AAAATTATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
25 2 0.04
26 11 0.20
27 22 0.39
29 13 0.23
30 6 0.11
31 2 0.04
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (27 bp):
ATTACAAATATAAAAGAGTAAATTATA
Found at i:71815363 original size:56 final size:56
Alignment explanation
Indices: 71815303--71815418 Score: 205
Period size: 56 Copynumber: 2.1 Consensus size: 56
71815293 TTCCTTATTC
*
71815303 AAAACATCATTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
1 AAAACAACATTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
* *
71815359 AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATATTA
1 AAAACAACATTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
71815415 AAAA
1 AAAA
71815419 AAATTATTTA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (56 bp):
AAAACAACATTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
Found at i:71815872 original size:18 final size:18
Alignment explanation
Indices: 71815851--71815885 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
71815841 AAAAGGAAAC
* *
71815851 ATATAAGGGTTAGGATAT
1 ATATAAGAGCTAGGATAT
71815869 ATATAAGAGCTAGGATA
1 ATATAAGAGCTAGGATA
71815886 CGCGCCTGGC
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:0.43, C:0.03, G:0.26, T:0.29
Consensus pattern (18 bp):
ATATAAGAGCTAGGATAT
Found at i:71816513 original size:7 final size:7
Alignment explanation
Indices: 71816503--71816535 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
71816493 TTGTATACAT
71816503 AATACTA
1 AATACTA
71816510 AATACTA
1 AATACTA
*
71816517 AATATTA
1 AATACTA
71816524 AATACTA
1 AATACTA
71816531 AATAC
1 AATAC
71816536 GAAACAAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (7 bp):
AATACTA
Found at i:71817539 original size:48 final size:49
Alignment explanation
Indices: 71817448--71817546 Score: 146
Period size: 48 Copynumber: 2.0 Consensus size: 49
71817438 ATAAAATTAA
* **
71817448 AATTAAATTTGCATAAATGAAAAAAAATATTAAATTGTATTGAAAAATT
1 AATTAAAATTGCATAAATGAAAAAAAATATTAAATACTATTGAAAAATT
* *
71817497 AATTAAAATTGCATAAAT-TAAAAAAATATTAAATACTATTGAAATATT
1 AATTAAAATTGCATAAATGAAAAAAAATATTAAATACTATTGAAAAATT
71817545 AA
1 AA
71817547 AATTATCACT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
48 28 0.62
49 17 0.38
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (49 bp):
AATTAAAATTGCATAAATGAAAAAAAATATTAAATACTATTGAAAAATT
Found at i:71817726 original size:22 final size:21
Alignment explanation
Indices: 71817694--71817754 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 21
71817684 AAGAGAGCTT
71817694 TGAGA-AATTTTGAGAGAATA
1 TGAGAGAATTTTGAGAGAATA
*
71817714 TGAGAGAATTTTTTGA-AGAATT
1 TGAGAGAA--TTTTGAGAGAATA
71817736 TGAGAGAA-TTTGAGAGAAT
1 TGAGAGAATTTTGAGAGAAT
71817755 TTGGATAGGA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 5 0.14
20 10 0.28
21 2 0.06
22 13 0.36
23 6 0.17
ACGTcount: A:0.41, C:0.00, G:0.26, T:0.33
Consensus pattern (21 bp):
TGAGAGAATTTTGAGAGAATA
Found at i:71817757 original size:10 final size:10
Alignment explanation
Indices: 71817692--71817757 Score: 73
Period size: 10 Copynumber: 6.4 Consensus size: 10
71817682 TAAAGAGAGC
71817692 TTTGAGA-AA
1 TTTGAGAGAA
71817701 TTTTGAGAGAA
1 -TTTGAGAGAA
*
71817712 TATGAGAGAA
1 TTTGAGAGAA
71817722 TTTTTTGA-AGAA
1 ---TTTGAGAGAA
71817734 TTTGAGAGAA
1 TTTGAGAGAA
71817744 TTTGAGAGAA
1 TTTGAGAGAA
71817754 TTTG
1 TTTG
71817758 GATAGGAGGA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
9 5 0.10
10 34 0.69
11 2 0.04
12 4 0.08
13 4 0.08
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (10 bp):
TTTGAGAGAA
Found at i:71819532 original size:38 final size:38
Alignment explanation
Indices: 71819490--71819571 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
71819480 ATATTAAAAG
71819490 TAAAATATATTGTTAGAAGGATGAAAAGTAAACATGGT
1 TAAAATATATTGTTAGAAGGATGAAAAGTAAACATGGT
71819528 TAAAATATATTGTTAGAAGGATGAAAAGTAAACATGGT
1 TAAAATATATTGTTAGAAGGATGAAAAGTAAACATGGT
*
71819566 TGAAAT
1 TAAAAT
71819572 CTTATTGAGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.48, C:0.02, G:0.21, T:0.29
Consensus pattern (38 bp):
TAAAATATATTGTTAGAAGGATGAAAAGTAAACATGGT
Found at i:71827961 original size:30 final size:30
Alignment explanation
Indices: 71827900--71827962 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
71827890 AACTTGTTTA
**
71827900 TTGTTAATTTTGTTATTATTTTAGAGTCAT
1 TTGTTAATTTTGTTATTATTTTAGAACCAT
71827930 TTGTTAATTTTGTTATTATTTTAGAACCAT
1 TTGTTAATTTTGTTATTATTTTAGAACCAT
71827960 TTG
1 TTG
71827963 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.05, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAACCAT
Found at i:71828680 original size:27 final size:29
Alignment explanation
Indices: 71828645--71828699 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
71828635 TTAAACAAAA
71828645 AATTATTGAAT-TT-TTTTTAAAGAGATG
1 AATTATTGAATATTGTTTTTAAAGAGATG
*
71828672 AATTCTTGAATATTGTTTTTAAAGAGAT
1 AATTATTGAATATTGTTTTTAAAGAGAT
71828700 TTCAGTACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 10 0.40
28 2 0.08
29 13 0.52
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (29 bp):
AATTATTGAATATTGTTTTTAAAGAGATG
Found at i:71828963 original size:135 final size:135
Alignment explanation
Indices: 71828798--71829068 Score: 454
Period size: 135 Copynumber: 2.0 Consensus size: 135
71828788 ACTTCATTTA
** *
71828798 TTTACATTATTAAAAATTTAAAGGTAAACTAT-AAAATAATTACCCAAATTTAAATATTTTTTAA
1 TTTACATTATTAAAAATTTAAAAATAAACTATAAAAATAATCA-CCAAATTTAAATATTTTTTAA
* *
71828862 TACTCAATTATTAAATATTACATTTTAGTTATTAAAATTATGGAATTATAATATTTTAGTCACTC
65 TACTCAACTATTAAATATTACATTTTAGTTATTAAAATTATGGAATTATAATATTTTAGTCACCC
71828927 ATCTAT
130 ATCTAT
* *
71828933 TTTACATTATTAAAAATTTAAAAATAAACTATAAAAATAATCATCAAATTTAATTATTTTTTAAT
1 TTTACATTATTAAAAATTTAAAAATAAACTATAAAAATAATCACCAAATTTAAATATTTTTTAAT
*
71828998 ACTCAACTATTAAATATTACATTTTAGTTATTAAAATTATGGAGTTATAATATTTTAGTCACCCA
66 ACTCAACTATTAAATATTACATTTTAGTTATTAAAATTATGGAATTATAATATTTTAGTCACCCA
71829063 TCTAT
131 TCTAT
71829068 T
1 T
71829069 AACTACTTGT
Statistics
Matches: 127, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
135 118 0.93
136 9 0.07
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (135 bp):
TTTACATTATTAAAAATTTAAAAATAAACTATAAAAATAATCACCAAATTTAAATATTTTTTAAT
ACTCAACTATTAAATATTACATTTTAGTTATTAAAATTATGGAATTATAATATTTTAGTCACCCA
TCTAT
Found at i:71834458 original size:9 final size:10
Alignment explanation
Indices: 71834444--71834512 Score: 80
Period size: 9 Copynumber: 7.6 Consensus size: 10
71834434 ATAATTATAA
71834444 AATTAACT-G
1 AATTAACTCG
71834453 AATTAA-TCG
1 AATTAACTCG
71834462 AATTAAC-CG
1 AATTAACTCG
*
71834471 AATT-ACTCA
1 AATTAACTCG
71834480 AATT-ACTCG
1 AATTAACTCG
71834489 AATTAA-TCG
1 AATTAACTCG
71834498 AATTAACT-G
1 AATTAACTCG
71834507 AATTAA
1 AATTAA
71834513 TTGTATAAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
8 3 0.06
9 48 0.91
10 2 0.04
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (10 bp):
AATTAACTCG
Found at i:71834467 original size:18 final size:18
Alignment explanation
Indices: 71834444--71834513 Score: 97
Period size: 18 Copynumber: 3.9 Consensus size: 18
71834434 ATAATTATAA
71834444 AATTAACTGAATTAATCG
1 AATTAACTGAATTAATCG
* * *
71834462 AATTAACCGAATTACTCA
1 AATTAACTGAATTAATCG
71834480 AATT-ACTCGAATTAATCG
1 AATTAACT-GAATTAATCG
71834498 AATTAACTGAATTAAT
1 AATTAACTGAATTAAT
71834514 TGTATAAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
17 2 0.05
18 39 0.89
19 3 0.07
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (18 bp):
AATTAACTGAATTAATCG
Found at i:71834492 original size:36 final size:36
Alignment explanation
Indices: 71834443--71834511 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
71834433 AATAATTATA
71834443 AAATTAACTGAATTAATCGAATTAACCGAATTACTC
1 AAATTAACTGAATTAATCGAATTAACCGAATTACTC
*
71834479 AAATT-ACTCGAATTAATCGAATTAACTGAATTA
1 AAATTAACT-GAATTAATCGAATTAACCGAATTA
71834512 ATTGTATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 3 0.10
36 28 0.90
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (36 bp):
AAATTAACTGAATTAATCGAATTAACCGAATTACTC
Found at i:71834510 original size:27 final size:27
Alignment explanation
Indices: 71834444--71834513 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
71834434 ATAATTATAA
71834444 AATTAACTGAATTAATCGAATTAACCG
1 AATTAACTGAATTAATCGAATTAACCG
* * *
71834471 AATT-ACTCAAATTACTCGAATTAATCG
1 AATTAACT-GAATTAATCGAATTAACCG
71834498 AATTAACTGAATTAAT
1 AATTAACTGAATTAAT
71834514 TGTATAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 3 0.08
27 30 0.83
28 3 0.08
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (27 bp):
AATTAACTGAATTAATCGAATTAACCG
Found at i:71834546 original size:6 final size:6
Alignment explanation
Indices: 71834531--71834583 Score: 70
Period size: 6 Copynumber: 8.5 Consensus size: 6
71834521 AATTATAAGT
* *
71834531 TTTTTG TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTTTTA
71834581 TTT
1 TTT
71834584 ATTAAATTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
6 33 0.79
7 8 0.19
8 1 0.02
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:71834565 original size:20 final size:20
Alignment explanation
Indices: 71834542--71834580 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
71834532 TTTTGTTTTT
71834542 ATTTTTATTTTTAGTTTTAG
1 ATTTTTATTTTTAGTTTTAG
*
71834562 ATTTTTATTTTTATTTTTA
1 ATTTTTATTTTTAGTTTTA
71834581 TTTATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (20 bp):
ATTTTTATTTTTAGTTTTAG
Found at i:71840030 original size:21 final size:20
Alignment explanation
Indices: 71840001--71840040 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
71839991 GTAAATAAAA
71840001 AAATTAAAAAAATAAAAATT
1 AAATTAAAAAAATAAAAATT
*
71840021 AAATTAAAAATAATAGAAAT
1 AAATTAAAAA-AATAAAAAT
71840041 ATATTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (20 bp):
AAATTAAAAAAATAAAAATT
Found at i:71842915 original size:32 final size:32
Alignment explanation
Indices: 71842872--71842937 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
71842862 ATAACCCAAA
*
71842872 ATATATATTTAATACAATAAAATATTTATTAT
1 ATATATATTTAATACAATAAAACATTTATTAT
* *
71842904 ATATATTTTTAATATAATAAAACATTTATTAT
1 ATATATATTTAATACAATAAAACATTTATTAT
71842936 AT
1 AT
71842938 TTATGGTGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (32 bp):
ATATATATTTAATACAATAAAACATTTATTAT
Found at i:71843398 original size:66 final size:66
Alignment explanation
Indices: 71843291--71843420 Score: 208
Period size: 66 Copynumber: 2.0 Consensus size: 66
71843281 AATTATTCAA
*
71843291 TTGAGTTATTCACTTTCGTTATTATTTTATCGAATTATTTGATAGATTCAATGATATGATGTGGT
1 TTGAGTTATTCACTTTCATTATTATTTTATCGAATTATTTGATAGATTCAATGATATGATGTGGT
71843356 G
66 G
* * *
71843357 TTGAGTTATTCACTTTTATTATTATTTTAAT-GAATTGTTTGATAGATTCGATGATATGATGTGG
1 TTGAGTTATTCACTTTCATTATTATTTT-ATCGAATTATTTGATAGATTCAATGATATGATGTGG
71843421 CGATAAATTT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
66 57 0.97
67 2 0.03
ACGTcount: A:0.26, C:0.06, G:0.18, T:0.49
Consensus pattern (66 bp):
TTGAGTTATTCACTTTCATTATTATTTTATCGAATTATTTGATAGATTCAATGATATGATGTGGT
G
Found at i:71847929 original size:30 final size:30
Alignment explanation
Indices: 71847872--71847932 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
71847862 TTAAATGACG
*
71847872 TAATAATTTAGTGACTTAAATTAAATTTTT
1 TAATAATTTAGTGACTCAAATTAAATTTTT
**
71847902 TAATAATTTAGTGA-TCATTTTATAATTTTT
1 TAATAATTTAGTGACTCAAATTA-AATTTTT
71847932 T
1 T
71847933 TAAAATTAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.54
Consensus pattern (30 bp):
TAATAATTTAGTGACTCAAATTAAATTTTT
Found at i:71849636 original size:46 final size:46
Alignment explanation
Indices: 71849569--71849743 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
71849559 TGTAACCCGC
71849569 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
*
71849615 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGC-A--T
* *** * * *
71849661 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
*
71849708 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
71849744 ATGCCCAAAC
Statistics
Matches: 108, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 2 0.02
46 66 0.61
47 29 0.27
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
Found at i:71849689 original size:93 final size:93
Alignment explanation
Indices: 71849577--71849748 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
71849567 GCCCATAAGT
*
71849577 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
71849642 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
71849670 GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
71849735 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
71849749 CAAACATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:71852117 original size:46 final size:44
Alignment explanation
Indices: 71852013--71852120 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
71852003 TGTCTTTGAC
** * * *
71852013 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
71852057 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
71852103 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
71852121 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:71859419 original size:44 final size:45
Alignment explanation
Indices: 71859366--71859468 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 45
71859356 TGTCTTTGAC
* * *
71859366 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** * *
71859410 ATGGACTTACATGGCTCAATCTTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
71859456 ATGGACTTACATG
1 ATGGACTTACATG
71859469 GCTCATTTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 32 0.64
46 18 0.36
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:71859467 original size:46 final size:44
Alignment explanation
Indices: 71859388--71859473 Score: 136
Period size: 46 Copynumber: 1.9 Consensus size: 44
71859378 GAATTATTCC
*
71859388 TGTCTCCAATGCCATATATAATATGGACTTACATGGCTCAATCT
1 TGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAATCT
*
71859432 TGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 TGTCTCCAAAGCCATA--TATAATATGGACTTACATGGCTCA
71859474 TTTCTGTTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 15 0.39
46 23 0.61
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (44 bp):
TGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAATCT
Found at i:71861188 original size:28 final size:27
Alignment explanation
Indices: 71861112--71861192 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 27
71861102 CTTAATTTAA
* *
71861112 TTTTAAAATATTAAAAATATTTTATAAT
1 TTTTAAAATTTTAAAAAT-TTTAATAAT
* *
71861140 TTTTATACTTCTTAAACAATTTTAATAAAT
1 TTTTAAAATT-TTAAA-AATTTTAAT-AAT
*
71861170 TTTTAAAATTTTTAAAATTTTAA
1 TTTTAAAATTTTAAAAATTTTAA
71861193 AAAAATAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
28 15 0.35
29 14 0.33
30 14 0.33
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (27 bp):
TTTTAAAATTTTAAAAATTTTAATAAT
Found at i:71861195 original size:9 final size:9
Alignment explanation
Indices: 71861110--71861195 Score: 57
Period size: 9 Copynumber: 9.2 Consensus size: 9
71861100 TACTTAATTT
71861110 AATTTT-AA
1 AATTTTAAA
*
71861118 AATATTAAA
1 AATTTTAAA
* *
71861127 AATATTTTAT
1 AAT-TTTAAA
* *
71861137 AATTTTTAT
1 AATTTTAAA
*
71861146 ACTTCTTAAA
1 AATT-TTAAA
71861156 CAATTTTAATA
1 -AATTTTAA-A
*
71861167 AATTTTTAA
1 AATTTTAAA
*
71861176 AATTTTTAA
1 AATTTTAAA
71861185 AATTTTAAA
1 AATTTTAAA
71861194 AA
1 AA
71861196 AATAATTAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
8 5 0.08
9 34 0.54
10 20 0.32
11 4 0.06
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (9 bp):
AATTTTAAA
Found at i:71869892 original size:18 final size:18
Alignment explanation
Indices: 71869869--71869911 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
71869859 TTTTAAAATG
71869869 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
71869887 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
71869905 TAATTAA
1 TAATTAA
71869912 AAACTTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:71873168 original size:31 final size:31
Alignment explanation
Indices: 71873133--71873202 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
71873123 AGCTTATATA
* *
71873133 TTAAAAAAAACCCTAAACTATAATAATTTAT
1 TTAAAAAAAACCCTAAACTACAATAACTTAT
** * *
71873164 TTAAAAAAGTCCTTAAATTACAATAACTTAT
1 TTAAAAAAAACCCTAAACTACAATAACTTAT
71873195 TTAAAAAA
1 TTAAAAAA
71873203 TATTTTTATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.54, C:0.11, G:0.01, T:0.33
Consensus pattern (31 bp):
TTAAAAAAAACCCTAAACTACAATAACTTAT
Found at i:71878785 original size:20 final size:20
Alignment explanation
Indices: 71878760--71878799 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
71878750 TTGATACCAA
71878760 CGAAATATGACAAGTTACAT
1 CGAAATATGACAAGTTACAT
71878780 CGAAATATGACAAGTTACAT
1 CGAAATATGACAAGTTACAT
71878800 TGATCCATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
CGAAATATGACAAGTTACAT
Found at i:71881199 original size:3 final size:3
Alignment explanation
Indices: 71881191--71881218 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
71881181 TTTTACTTCT
71881191 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
71881219 ATAACAACGG
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:71881752 original size:30 final size:30
Alignment explanation
Indices: 71881718--71881802 Score: 84
Period size: 30 Copynumber: 2.8 Consensus size: 30
71881708 ATAACTGGAC
71881718 CTAAATTTTTAAATTTAAAAAATAAAAAAA
1 CTAAATTTTTAAATTTAAAAAATAAAAAAA
** * *
71881748 CTAAATTCCTAAATAT-AAAAATATAAAAA
1 CTAAATTTTTAAATTTAAAAAATAAAAAAA
* *
71881777 -TAAAATTTCAAATATATAAAAAATAA
1 CTAAATTTTTAAAT-T-TAAAAAATAA
71881803 CATATTTTAA
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
28 9 0.21
29 12 0.29
30 14 0.33
31 7 0.17
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (30 bp):
CTAAATTTTTAAATTTAAAAAATAAAAAAA
Found at i:71881782 original size:29 final size:28
Alignment explanation
Indices: 71881735--71881802 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
71881725 TTTAAATTTA
*
71881735 AAAAATAAAAAAACTAAATTCCTAAATAT
1 AAAAATATAAAAACTAAATTCC-AAATAT
*
71881764 AAAAATATAAAAA-TAAAATTTCAAATAT
1 AAAAATATAAAAACT-AAATTCCAAATAT
*
71881792 ATAAAAAATAA
1 A-AAAATATAA
71881803 CATATTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 8 0.24
29 26 0.76
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (28 bp):
AAAAATATAAAAACTAAATTCCAAATAT
Found at i:71885009 original size:20 final size:20
Alignment explanation
Indices: 71884984--71885029 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
71884974 ATGGGAGTAT
71884984 GGTGTTTGCTATTTGATTGC
1 GGTGTTTGCTATTTGATTGC
71885004 GGTGTTTGCTATTTGATTGC
1 GGTGTTTGCTATTTGATTGC
*
71885024 AGTGTT
1 GGTGTT
71885030 AGAAACATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.11, C:0.09, G:0.30, T:0.50
Consensus pattern (20 bp):
GGTGTTTGCTATTTGATTGC
Found at i:71894760 original size:19 final size:17
Alignment explanation
Indices: 71894728--71894762 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
71894718 CAATCATCAT
71894728 TTTAAAATTTTTAAATA
1 TTTAAAATTTTTAAATA
71894745 TTTAATAATATTTTAAAT
1 TTTAA-AAT-TTTTAAAT
71894763 GATGGTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 8 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTAAAATTTTTAAATA
Found at i:71896861 original size:16 final size:16
Alignment explanation
Indices: 71896824--71896866 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
71896814 ATCATTAATT
*
71896824 TTTTTAATTA-AATTTA
1 TTTTT-ATTACAATATA
*
71896840 TGTTTATTACAATATA
1 TTTTTATTACAATATA
71896856 TTTTTATTACA
1 TTTTTATTACA
71896867 TGATTATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (16 bp):
TTTTTATTACAATATA
Found at i:71897564 original size:10 final size:11
Alignment explanation
Indices: 71897548--71897573 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
71897538 TTGTAATTTT
71897548 TATTTTTTAAA
1 TATTTTTTAAA
71897559 TATTTTTTAAA
1 TATTTTTTAAA
71897570 TATT
1 TATT
71897574 CTTATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTTTTTAAA
Found at i:71901100 original size:30 final size:30
Alignment explanation
Indices: 71901065--71901136 Score: 103
Period size: 28 Copynumber: 2.4 Consensus size: 30
71901055 TCAAATGAAT
71901065 ATTTTATGTATAAAATTACACA-AAATTAA
1 ATTTTATGTATAAAATTACACATAAATTAA
*
71901094 ATTTT-TATATAAAATTACACATTAAATTAA
1 ATTTTATGTATAAAATTACACA-TAAATTAA
*
71901124 AATTTATGTATAA
1 ATTTTATGTATAA
71901137 TTTTGAGATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 15 0.41
29 5 0.14
30 11 0.30
31 6 0.16
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (30 bp):
ATTTTATGTATAAAATTACACATAAATTAA
Found at i:71913668 original size:22 final size:23
Alignment explanation
Indices: 71913638--71913683 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
71913628 ATTAAGATAA
*
71913638 AAAATAAATT-AAAT-TATGAAT
1 AAAATAAATTGAAATATATAAAT
71913659 AAAATGAAATTGAAATATATAAAT
1 AAAAT-AAATTGAAATATATAAAT
71913683 A
1 A
71913684 CATCATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 5 0.24
23 4 0.19
24 7 0.33
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (23 bp):
AAAATAAATTGAAATATATAAAT
Found at i:71926872 original size:21 final size:20
Alignment explanation
Indices: 71926848--71926899 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 20
71926838 TTATGCTACA
71926848 TCAGTATTCTTATCCTGAATT
1 TCAGTATT-TTATCCTGAATT
*
71926869 TCAGGATTTTATCCTGAATT
1 TCAGTATTTTATCCTGAATT
71926889 TCAGTATTTTA
1 TCAGTATTTTA
71926900 ATTTGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 22 0.76
21 7 0.24
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.48
Consensus pattern (20 bp):
TCAGTATTTTATCCTGAATT
Found at i:71926945 original size:20 final size:20
Alignment explanation
Indices: 71926920--71926968 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
71926910 AATTTTGTTC
*
71926920 AGGATAAAATCTTGAAATTT
1 AGGATAAAATCCTGAAATTT
71926940 AGGATAAAATCCTGAAATTT
1 AGGATAAAATCCTGAAATTT
71926960 AGGATAAAA
1 AGGATAAAA
71926969 ATACTAATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.49, C:0.06, G:0.16, T:0.29
Consensus pattern (20 bp):
AGGATAAAATCCTGAAATTT
Found at i:71935459 original size:39 final size:40
Alignment explanation
Indices: 71935405--71935480 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
71935395 AGATCTGTAG
71935405 TAAGCCTTTAGAAT-AAAAAAAGACATCAAGTTAAAGATC
1 TAAGCCTTTAGAATAAAAAAAAGACATCAAGTTAAAGATC
71935444 TAAGCCTTTAGAATAAAAAAAAGACATCAAGTTAAAG
1 TAAGCCTTTAGAATAAAAAAAAGACATCAAGTTAAAG
71935481 CTTAGGCTGG
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
39 14 0.39
40 22 0.61
ACGTcount: A:0.53, C:0.12, G:0.13, T:0.22
Consensus pattern (40 bp):
TAAGCCTTTAGAATAAAAAAAAGACATCAAGTTAAAGATC
Found at i:71937338 original size:3 final size:3
Alignment explanation
Indices: 71937330--71937366 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
71937320 CTTTATACCT
71937330 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
71937367 ACAGAAACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:71939013 original size:25 final size:25
Alignment explanation
Indices: 71938974--71939040 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
71938964 ATAGTAACAA
71938974 TTAAATATATATAATCTAACTCAAAC
1 TTAAA-ATATATAATCTAACTCAAAC
71939000 TTAAAATATATAATCTAACTCAAAC
1 TTAAAATATATAATCTAACTCAAAC
71939025 TT-AAATAT-T-ATCTAAC
1 TTAAAATATATAATCTAAC
71939041 GCAAGTCTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.17
23 1 0.02
24 6 0.15
25 22 0.54
26 5 0.12
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (25 bp):
TTAAAATATATAATCTAACTCAAAC
Found at i:71939592 original size:6 final size:7
Alignment explanation
Indices: 71939577--71939603 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
71939567 TCAATTTCTG
71939577 AAAATAA
1 AAAATAA
71939584 AAAATAA
1 AAAATAA
71939591 AAAATAA
1 AAAATAA
71939598 AAAATA
1 AAAATA
71939604 TTTTGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:71946259 original size:17 final size:17
Alignment explanation
Indices: 71946237--71946271 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
71946227 ACGTTACTCA
71946237 CCACTCTTACTAGTACG
1 CCACTCTTACTAGTACG
71946254 CCACTCTTACTAGTACG
1 CCACTCTTACTAGTACG
71946271 C
1 C
71946272 ATCTGATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.37, G:0.11, T:0.29
Consensus pattern (17 bp):
CCACTCTTACTAGTACG
Found at i:71950193 original size:23 final size:24
Alignment explanation
Indices: 71950157--71950202 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
71950147 CCATCATTTT
*
71950157 AAAACATTTGTTTATCTTT-AAAAG
1 AAAACATTAGTTTAT-TTTCAAAAG
71950181 AAAAC-TTAGTTTATTTTCAAAA
1 AAAACATTAGTTTATTTTCAAAA
71950203 AAATTCATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 3 0.15
23 12 0.60
24 5 0.25
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (24 bp):
AAAACATTAGTTTATTTTCAAAAG
Found at i:71953303 original size:52 final size:52
Alignment explanation
Indices: 71953246--71953345 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 52
71953236 TAATCAAGCG
* *
71953246 ATTAACAATAAATGAGGCCGCATATATTTAATAAAAATCTAAGATTTTAGCC
1 ATTAACAAGAAATGAGCCCGCATATATTTAATAAAAATCTAAGATTTTAGCC
* *
71953298 ATTAACAAGAAATGAGCCCGTATATATTTAATAAAAATTTAAGATTTT
1 ATTAACAAGAAATGAGCCCGCATATATTTAATAAAAATCTAAGATTTT
71953346 TATGTTATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (52 bp):
ATTAACAAGAAATGAGCCCGCATATATTTAATAAAAATCTAAGATTTTAGCC
Found at i:71953546 original size:3 final size:3
Alignment explanation
Indices: 71953538--71953598 Score: 56
Period size: 3 Copynumber: 20.3 Consensus size: 3
71953528 AAATAGATAT
* *
71953538 TTA TTA TTA TAA TTA TTAA TTA TTA TTA TTG TT- TATA TTA TTA -TA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA T-TA TTA TTA TTA
71953583 TTTA TTA TTA -TA TTA T
1 -TTA TTA TTA TTA TTA T
71953599 GGAATAAATT
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
2 5 0.10
3 38 0.78
4 6 0.12
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:71953555 original size:12 final size:11
Alignment explanation
Indices: 71953538--71953598 Score: 63
Period size: 12 Copynumber: 5.4 Consensus size: 11
71953528 AAATAGATAT
71953538 TTATTATTATAA
1 TTATTATTAT-A
71953550 TTATTAATTATTA
1 TTATT-ATTA-TA
*
71953563 TTATTGTT-TA
1 TTATTATTATA
71953573 -TATTATTATA
1 TTATTATTATA
71953583 TTTATTATTATA
1 -TTATTATTATA
71953595 TTAT
1 TTAT
71953599 GGAATAAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
9 6 0.14
10 4 0.10
11 4 0.10
12 17 0.40
13 10 0.24
14 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TTATTATTATA
Found at i:71954765 original size:46 final size:46
Alignment explanation
Indices: 71954715--71954803 Score: 119
Period size: 46 Copynumber: 1.9 Consensus size: 46
71954705 ATGTGTAATG
*
71954715 ATTGAACTTGAAATGTG-A-TTGAAATAAAAGTGAAATTGAATTGTAT
1 ATTGAA-TTGAAA-GTGAATTTAAAATAAAAGTGAAATTGAATTGTAT
**
71954761 ATTGAATTGAAAGTGAATTTAAAATGGAAGTGAAATTGAATTG
1 ATTGAATTGAAAGTGAATTTAAAATAAAAGTGAAATTGAATTG
71954804 AGAATTGAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 3 0.08
45 7 0.18
46 28 0.74
ACGTcount: A:0.44, C:0.01, G:0.21, T:0.34
Consensus pattern (46 bp):
ATTGAATTGAAAGTGAATTTAAAATAAAAGTGAAATTGAATTGTAT
Found at i:71954772 original size:23 final size:24
Alignment explanation
Indices: 71954742--71954803 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 24
71954732 ATTGAAATAA
* *
71954742 AAGTGAAATTGAATTGT-ATATTG
1 AAGTGAAATTGAATTGTAAAATGG
* *
71954765 AATTGAAAGTGAATT-TAAAATGG
1 AAGTGAAATTGAATTGTAAAATGG
71954788 AAGTGAAATTGAATTG
1 AAGTGAAATTGAATTG
71954804 AGAATTGAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
22 1 0.03
23 30 0.97
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.34
Consensus pattern (24 bp):
AAGTGAAATTGAATTGTAAAATGG
Found at i:71954811 original size:12 final size:11
Alignment explanation
Indices: 71954715--71954812 Score: 72
Period size: 11 Copynumber: 8.5 Consensus size: 11
71954705 ATGTGTAATG
71954715 ATTGAACTTGAA
1 ATTGAA-TTGAA
71954727 ATGTG-ATTGAA
1 AT-TGAATTGAA
** *
71954738 ATAAAAGTGAA
1 ATTGAATTGAA
*
71954749 ATTGAATTGTAT
1 ATTGAATTG-AA
71954761 ATTGAATTGAA
1 ATTGAATTGAA
* *
71954772 AGTGAATTTAAA
1 ATTGAA-TTGAA
* *
71954784 ATGGAAGTGAA
1 ATTGAATTGAA
71954795 ATTGAATTGAGA
1 ATTGAATTGA-A
71954807 ATTGAA
1 ATTGAA
71954813 AATCCTATTA
Statistics
Matches: 65, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
11 35 0.54
12 28 0.43
13 2 0.03
ACGTcount: A:0.45, C:0.01, G:0.21, T:0.33
Consensus pattern (11 bp):
ATTGAATTGAA
Found at i:71955811 original size:14 final size:13
Alignment explanation
Indices: 71955792--71955855 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 13
71955782 TTATATTAAC
*
71955792 TTAATATTTAAGTA
1 TTAATATATAA-TA
71955806 TTAATATATAATA
1 TTAATATATAATA
71955819 -TAATATATTATTATA
1 TTAATATA-TA--ATA
71955834 TT-ATATATAATA
1 TTAATATATAATA
71955846 -TAATATATAA
1 TTAATATATAA
71955856 AACATAAGTA
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
11 1 0.02
12 18 0.41
13 4 0.09
14 12 0.27
15 8 0.18
16 1 0.02
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (13 bp):
TTAATATATAATA
Found at i:71955833 original size:20 final size:22
Alignment explanation
Indices: 71955804--71955847 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
71955794 AATATTTAAG
71955804 TATTAATATA-TA-ATATAATA
1 TATTAATATATTATATATAATA
*
71955824 TATTATTATATTATATATAATA
1 TATTAATATATTATATATAATA
71955846 TA
1 TA
71955848 ATATATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.43
21 2 0.10
22 10 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TATTAATATATTATATATAATA
Found at i:71955835 original size:8 final size:7
Alignment explanation
Indices: 71955769--71955854 Score: 54
Period size: 7 Copynumber: 11.9 Consensus size: 7
71955759 GATATAAAAA
71955769 TATATAT
1 TATATAT
71955776 TATATAT
1 TATATAT
71955783 TATATTAACT
1 TATA-T-A-T
71955793 TA-ATAT
1 TATATAT
71955799 T-TAAGTAT
1 TAT-A-TAT
71955807 TA-ATA-
1 TATATAT
71955812 TATAATAT
1 TAT-ATAT
*
71955820 AATATAT
1 TATATAT
71955827 TATTATAT
1 TA-TATAT
71955835 TATATAT
1 TATATAT
* *
71955842 AATATAA
1 TATATAT
71955849 TATATA
1 TATATA
71955855 AAACATAAGT
Statistics
Matches: 63, Mismatches: 5, Indels: 22
0.70 0.06 0.24
Matches are distributed among these distances:
5 2 0.03
6 4 0.06
7 37 0.59
8 15 0.24
9 2 0.03
10 3 0.05
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (7 bp):
TATATAT
Done.