Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 68 of 295
Found at i:19671719 original size:25 final size:25
Alignment explanation
Indices: 19671664--19671719 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
19671654 AAATATCCCT
* *
19671664 AGAATAATCAGAGTCTAATTGGGAA
1 AGAATAATCAGAGTATAACTGGGAA
* *
19671689 AAAATAA-CATAGTATAACTGGGAGA
1 AGAATAATCAGAGTATAACTGGGA-A
19671714 AGAATA
1 AGAATA
19671720 CGAGGCTCAC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.21
Consensus pattern (25 bp):
AGAATAATCAGAGTATAACTGGGAA
Found at i:19673100 original size:48 final size:48
Alignment explanation
Indices: 19673041--19673136 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 48
19673031 TCTCTAAATT
*
19673041 AGACACGTGCCTAAAATTTGACACGACACCACCTTCAAACGGATTATC
1 AGACACATGCCTAAAATTTGACACGACACCACCTTCAAACGGATTATC
* * *
19673089 AGACACATGCCTAACATTTGACATGACACCACCTTCAACCGGATTATC
1 AGACACATGCCTAAAATTTGACACGACACCACCTTCAAACGGATTATC
19673137 TTAAGAGTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.34, C:0.30, G:0.14, T:0.22
Consensus pattern (48 bp):
AGACACATGCCTAAAATTTGACACGACACCACCTTCAAACGGATTATC
Found at i:19673761 original size:25 final size:26
Alignment explanation
Indices: 19673706--19673761 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 26
19673696 AAATATCCCT
*
19673706 AGAATAATCAGAGTCTAATTGAGAAA
1 AGAATAATCAGAGTCTAACTGAGAAA
*
19673732 A-AATAAT-AGAGAT-TAACTGGGAAA
1 AGAATAATCAGAG-TCTAACTGAGAAA
19673756 AGAATA
1 AGAATA
19673762 CGAGGCACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 14 0.54
25 11 0.42
26 1 0.04
ACGTcount: A:0.54, C:0.05, G:0.20, T:0.21
Consensus pattern (26 bp):
AGAATAATCAGAGTCTAACTGAGAAA
Found at i:19675868 original size:40 final size:40
Alignment explanation
Indices: 19675811--19675898 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
19675801 GCACACCTCA
*
19675811 CAAAATTGTTAAGGTTTTACCAAAACT-TCTAAC-AATTTAC
1 CAAAATTTTTAAGGTTTTACCAAAA-TATCTAACGAA-TTAC
* *
19675851 CAAAATTTTTAATGTTTTACGAAAATATCTAACGAATTAC
1 CAAAATTTTTAAGGTTTTACCAAAATATCTAACGAATTAC
19675891 CAAAATTT
1 CAAAATTT
19675899 CTATCGATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
39 1 0.02
40 40 0.93
41 2 0.05
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (40 bp):
CAAAATTTTTAAGGTTTTACCAAAATATCTAACGAATTAC
Found at i:19675869 original size:20 final size:20
Alignment explanation
Indices: 19675811--19675898 Score: 68
Period size: 20 Copynumber: 4.4 Consensus size: 20
19675801 GCACACCTCA
* *
19675811 CAAAATTGTTAAGGTTTTAC
1 CAAAATTTTTAACGTTTTAC
* * **
19675831 CAAAACTTCTAACAATTTAC
1 CAAAATTTTTAACGTTTTAC
*
19675851 CAAAATTTTTAATGTTTTAC
1 CAAAATTTTTAACGTTTTAC
* * * **
19675871 GAAAATATCTAACGAATTAC
1 CAAAATTTTTAACGTTTTAC
19675891 CAAAATTT
1 CAAAATTT
19675899 CTATCGATTT
Statistics
Matches: 49, Mismatches: 19, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (20 bp):
CAAAATTTTTAACGTTTTAC
Found at i:19675910 original size:20 final size:20
Alignment explanation
Indices: 19675826--19675910 Score: 89
Period size: 20 Copynumber: 4.2 Consensus size: 20
19675816 TTGTTAAGGT
* *
19675826 TTTACCAAAACTTCTAACAA
1 TTTACCAAAATTTCTAACGA
* * *
19675846 TTTACCAAAATTTTTAATGT
1 TTTACCAAAATTTCTAACGA
* *
19675866 TTTACGAAAATATCTAACGA
1 TTTACCAAAATTTCTAACGA
* *
19675886 ATTACCAAAATTTCTATCGA
1 TTTACCAAAATTTCTAACGA
19675906 TTTAC
1 TTTAC
19675911 TAATATTTAT
Statistics
Matches: 50, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.38
Consensus pattern (20 bp):
TTTACCAAAATTTCTAACGA
Found at i:19676054 original size:20 final size:20
Alignment explanation
Indices: 19676031--19676126 Score: 86
Period size: 20 Copynumber: 4.8 Consensus size: 20
19676021 AATATTTAAG
*
19676031 GATTTACTAATGTATCTAAC
1 GATTTACTAATATATCTAAC
19676051 GATTTACTAATATATCTAAC
1 GATTTACTAATATATCTAAC
* * * * *
19676071 AATTTTCTAATATTTCCAAG
1 GATTTACTAATATATCTAAC
* *
19676091 GATTTTA-TCAAAATATCTTAC
1 GA-TTTACT-AATATATCTAAC
*
19676112 GATTTACCAATATAT
1 GATTTACTAATATAT
19676127 ATTTACCAAA
Statistics
Matches: 58, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
20 46 0.79
21 12 0.21
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.42
Consensus pattern (20 bp):
GATTTACTAATATATCTAAC
Found at i:19676145 original size:20 final size:20
Alignment explanation
Indices: 19676122--19676160 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19676112 GATTTACCAA
*
19676122 TATATATTTACCAAAATTTC
1 TATAGATTTACCAAAATTTC
*
19676142 TATAGATTTACCAACATTT
1 TATAGATTTACCAAAATTT
19676161 ACGAGGCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.44
Consensus pattern (20 bp):
TATAGATTTACCAAAATTTC
Found at i:19676300 original size:40 final size:41
Alignment explanation
Indices: 19676243--19676327 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 41
19676233 ATTACATAAA
* * *
19676243 TCTTTAACTATTTACCAAAGTTTATATGAATTTATCAATATT
1 TCTTTAAC-ATTTACCAAAATATATAAGAATTTATCAATATT
* *
19676285 TCTTTAA-ATTTACCAAAATATCTAAGACTTTATCAATATT
1 TCTTTAACATTTACCAAAATATATAAGAATTTATCAATATT
19676325 TCT
1 TCT
19676328 ATTATCTACC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
40 31 0.82
42 7 0.18
ACGTcount: A:0.36, C:0.14, G:0.04, T:0.46
Consensus pattern (41 bp):
TCTTTAACATTTACCAAAATATATAAGAATTTATCAATATT
Found at i:19676328 original size:20 final size:18
Alignment explanation
Indices: 19676271--19676328 Score: 53
Period size: 20 Copynumber: 3.0 Consensus size: 18
19676261 AGTTTATATG
19676271 AATTTATCAATATTTCTTTA
1 AATTTATCAATATTTC--TA
* * *
19676291 AATTTACCAAAATATCTA
1 AATTTATCAATATTTCTA
19676309 AGACTTTATCAATATTTCTA
1 A-A-TTTATCAATATTTCTA
19676329 TTATCTACCA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
18 3 0.10
19 1 0.03
20 26 0.87
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.45
Consensus pattern (18 bp):
AATTTATCAATATTTCTA
Found at i:19677081 original size:19 final size:18
Alignment explanation
Indices: 19677044--19677085 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
19677034 CAAAATTTAT
19677044 TTATTTTTAATTCTAATA
1 TTATTTTTAATTCTAATA
*
19677062 TATATTTTTATATT-TTATA
1 T-TATTTTTA-ATTCTAATA
19677081 TTATT
1 TTATT
19677086 AAAATTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 5 0.24
19 13 0.62
20 3 0.14
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
TTATTTTTAATTCTAATA
Found at i:19677157 original size:16 final size:15
Alignment explanation
Indices: 19677136--19677165 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
19677126 GCATTTGTTG
19677136 ATATTATTTATTTTTA
1 ATATTA-TTATTTTTA
19677152 ATATTATTATTTTT
1 ATATTATTATTTTT
19677166 GTAATTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
ATATTATTATTTTTA
Found at i:19690669 original size:91 final size:89
Alignment explanation
Indices: 19690513--19690716 Score: 234
Period size: 91 Copynumber: 2.3 Consensus size: 89
19690503 ACACTCCAAT
* * * * * * *
19690513 TTGTGGTTGAACCACAAGTG-TTGCAGGTTAATACGCTACTAGTAGTTGTGAATGCACAATGGGT
1 TTGTGGATAAACCACTAGTGTTTGCAGGTTAATACACTACCAGTAGTTGTAAATGCACAATAGGT
*
19690577 TTGCAAATAATAGCTACAAATAAAAA
66 TTGCAAATAAAAGCTACAAAT--AAA
*
19690603 TTGTGGATAAACCACTAGTGTTTGCAGGTTAATACAC-AGCCAGTGGTTGTAAATGCACAATAGG
1 TTGTGGATAAACCACTAGTGTTTGCAGGTTAATACACTA-CCAGTAGTTGTAAATGCACAATAGG
* * * *
19690667 TTTGCAGATAAAAGCTGCCAATAAT
65 TTTGCAAATAAAAGCTACAAATAAA
19690692 TTGTGGATAAACCA-TCAGTGTTTGC
1 TTGTGGATAAACCACT-AGTGTTTGC
19690717 TGTTAAAACT
Statistics
Matches: 98, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
88 1 0.01
89 25 0.26
90 18 0.18
91 54 0.55
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (89 bp):
TTGTGGATAAACCACTAGTGTTTGCAGGTTAATACACTACCAGTAGTTGTAAATGCACAATAGGT
TTGCAAATAAAAGCTACAAATAAA
Found at i:19691036 original size:61 final size:61
Alignment explanation
Indices: 19690971--19691089 Score: 220
Period size: 61 Copynumber: 2.0 Consensus size: 61
19690961 TTTTGGACTC
* *
19690971 ATTGTGCTATTAGGTTTGCTTTGTTAGTTTGATTCTCATACATTCTGATTGATTGATACTT
1 ATTGTGCTATTAGATTTGCTTTGTTAGTTTGATTCTAATACATTCTGATTGATTGATACTT
19691032 ATTGTGCTATTAGATTTGCTTTGTTAGTTTGATTCTAATACATTCTGATTGATTGATA
1 ATTGTGCTATTAGATTTGCTTTGTTAGTTTGATTCTAATACATTCTGATTGATTGATA
19691090 TGCACTTTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.22, C:0.10, G:0.18, T:0.50
Consensus pattern (61 bp):
ATTGTGCTATTAGATTTGCTTTGTTAGTTTGATTCTAATACATTCTGATTGATTGATACTT
Found at i:19700818 original size:31 final size:29
Alignment explanation
Indices: 19700772--19700839 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
19700762 CTTAAAATTT
19700772 TACATGAATTATGATTTAATGTGTAA-TTGTA
1 TACATGAATTATGATTT--TGTGTAACTT-TA
*
19700803 TATATGAACTT-TGATTTTGTGTAACTTTA
1 TACATGAA-TTATGATTTTGTGTAACTTTA
19700832 TACATGAA
1 TACATGAA
19700840 ATTTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
29 16 0.48
30 2 0.06
31 13 0.39
32 2 0.06
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.46
Consensus pattern (29 bp):
TACATGAATTATGATTTTGTGTAACTTTA
Found at i:19702959 original size:22 final size:21
Alignment explanation
Indices: 19702928--19702969 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
19702918 TAAATTGAAA
*
19702928 TTATAAAAGCATGTAAGTAAAG
1 TTATAAAAGCAT-TAAATAAAG
*
19702950 TTATACAAGCATTAAATAAA
1 TTATAAAAGCATTAAATAAA
19702970 ATGGCATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.52, C:0.07, G:0.12, T:0.29
Consensus pattern (21 bp):
TTATAAAAGCATTAAATAAAG
Found at i:19703154 original size:21 final size:21
Alignment explanation
Indices: 19703130--19703177 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
19703120 AAAAATAACA
*
19703130 AATATGATCAGAATCTATA-AT
1 AATATGATCA-AATATATATAT
*
19703151 AATATTGTTCAAATATATATAT
1 AATA-TGATCAAATATATATAT
19703173 AATAT
1 AATAT
19703178 TGAATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (21 bp):
AATATGATCAAATATATATAT
Found at i:19717223 original size:17 final size:17
Alignment explanation
Indices: 19717201--19717233 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
19717191 GAATCGTTTG
19717201 ATGCTCTTTACATTTTA
1 ATGCTCTTTACATTTTA
19717218 ATGCTCTTTACATTTT
1 ATGCTCTTTACATTTT
19717234 TGAATCGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.06, T:0.55
Consensus pattern (17 bp):
ATGCTCTTTACATTTTA
Found at i:19721820 original size:13 final size:13
Alignment explanation
Indices: 19721802--19721826 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19721792 TGTTGGTGCA
19721802 CACGGTCGTGTCG
1 CACGGTCGTGTCG
19721815 CACGGTCGTGTC
1 CACGGTCGTGTC
19721827 CTACTTCGTT
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:0.08, C:0.32, G:0.36, T:0.24
Consensus pattern (13 bp):
CACGGTCGTGTCG
Found at i:19726651 original size:40 final size:40
Alignment explanation
Indices: 19726528--19726702 Score: 179
Period size: 40 Copynumber: 4.4 Consensus size: 40
19726518 AGATCAACCG
* * * *
19726528 AACACACCAAACAGAAGCTCATAAGAGCTGGTCAAACCAA
1 AACACACCAAACAGAAGCTCATAAGAGCTGATCCAATCGA
* * * * * * *
19726568 AATACATCAAATAGAAGCTCATAATAGTTGATTCAATCAA
1 AACACACCAAACAGAAGCTCATAAGAGCTGATCCAATCGA
** *
19726608 AACATGCCAAACAGAAGCTCATAAGAGCTGATCCAATTGA
1 AACACACCAAACAGAAGCTCATAAGAGCTGATCCAATCGA
* * * *
19726648 AACACACCAGACAGAAACTCATAAAAGCTGATCCAACCGA
1 AACACACCAAACAGAAGCTCATAAGAGCTGATCCAATCGA
*
19726688 AACACGCCAAACAGA
1 AACACACCAAACAGA
19726703 GAGTATAACA
Statistics
Matches: 107, Mismatches: 28, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 107 1.00
ACGTcount: A:0.47, C:0.25, G:0.14, T:0.15
Consensus pattern (40 bp):
AACACACCAAACAGAAGCTCATAAGAGCTGATCCAATCGA
Found at i:19726669 original size:80 final size:80
Alignment explanation
Indices: 19726528--19726702 Score: 197
Period size: 80 Copynumber: 2.2 Consensus size: 80
19726518 AGATCAACCG
* * * * * * *
19726528 AACACACCAAACAGAAGCTCATAAGAGCTGGTCAAACCAAAATACATCAAATAGAAGCTCATAAT
1 AACACGCCAAACAGAAGCTCATAAGAGCTGATCAAACCAAAACACACCAAACAGAAACTCATAAA
* * *
19726593 AGTTGATTCAATCAA
66 AGCTGATCCAACCAA
* * *** *
19726608 AACATGCCAAACAGAAGCTCATAAGAGCTGATCCAATTGAAACACACCAGACAGAAACTCATAAA
1 AACACGCCAAACAGAAGCTCATAAGAGCTGATCAAACCAAAACACACCAAACAGAAACTCATAAA
*
19726673 AGCTGATCCAACCGA
66 AGCTGATCCAACCAA
19726688 AACACGCCAAACAGA
1 AACACGCCAAACAGA
19726703 GAGTATAACA
Statistics
Matches: 77, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.47, C:0.25, G:0.14, T:0.15
Consensus pattern (80 bp):
AACACGCCAAACAGAAGCTCATAAGAGCTGATCAAACCAAAACACACCAAACAGAAACTCATAAA
AGCTGATCCAACCAA
Found at i:19729392 original size:53 final size:52
Alignment explanation
Indices: 19729329--19729447 Score: 134
Period size: 53 Copynumber: 2.3 Consensus size: 52
19729319 TTAATATTTA
* * *
19729329 ATTAATATAATATTTATCAAGATAAATATTATATT-AATTAAATATTAAATCTT
1 ATTAAAATAATATTAATCAAGATAAATATTAAATTAAATTAAATATTAAA-C-T
* ** * *
19729382 ATTAAAATAATA-GAATGTAGATGAATATTAAATTAAATTTAATATTAAACT
1 ATTAAAATAATATTAATCAAGATAAATATTAAATTAAATTAAATATTAAACT
19729433 ATTAAAATAATATTA
1 ATTAAAATAATATTA
19729448 TTTTTTAATA
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
51 13 0.24
52 18 0.33
53 24 0.44
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.41
Consensus pattern (52 bp):
ATTAAAATAATATTAATCAAGATAAATATTAAATTAAATTAAATATTAAACT
Found at i:19731365 original size:33 final size:29
Alignment explanation
Indices: 19731328--19731406 Score: 90
Period size: 28 Copynumber: 2.7 Consensus size: 29
19731318 CAGTCCATGA
19731328 CCCAATTACATAAAACAACCCAAATAAACCCAG
1 CCCAATTAC-TAAAACAACCCAAAT---CCCAG
*
19731361 CCCAATTACT-AAATAACCCAAATCCCAG
1 CCCAATTACTAAAACAACCCAAATCCCAG
*
19731389 CCC-ATTCCTAAAACAACC
1 CCCAATTACTAAAACAACC
19731407 TAGATGGCCC
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 5 0.12
28 15 0.36
31 12 0.29
32 1 0.02
33 9 0.21
ACGTcount: A:0.46, C:0.37, G:0.03, T:0.15
Consensus pattern (29 bp):
CCCAATTACTAAAACAACCCAAATCCCAG
Found at i:19732372 original size:28 final size:28
Alignment explanation
Indices: 19732332--19732385 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
19732322 GCCCTCTTAA
*
19732332 GTTTGCACGTGTTGTGTTTTGGTCCTAG
1 GTTTGCACGTGTTGTATTTTGGTCCTAG
*
19732360 GTTTGCGCGTGTTGTATTTTGGTCCT
1 GTTTGCACGTGTTGTATTTTGGTCCT
19732386 TCATATTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.06, C:0.15, G:0.31, T:0.48
Consensus pattern (28 bp):
GTTTGCACGTGTTGTATTTTGGTCCTAG
Found at i:19735944 original size:16 final size:14
Alignment explanation
Indices: 19735916--19735963 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 14
19735906 TTATTTCATA
19735916 AACCCTAAAAACCTT
1 AACCCT-AAAACCTT
* *
19735931 AACCTTACAAAACCCT
1 AACCCT--AAAACCTT
19735947 AACCCTAAAACCTT
1 AACCCTAAAACCTT
19735961 AAC
1 AAC
19735964 AAAAATCTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
14 10 0.37
15 5 0.19
16 12 0.44
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (14 bp):
AACCCTAAAACCTT
Found at i:19735973 original size:25 final size:25
Alignment explanation
Indices: 19735931--19735980 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
19735921 TAAAAACCTT
*
19735931 AACCTTACAAAACCCT-AACCCTAA
1 AACCTTACAAAAACCTAAACCCTAA
*
19735955 AACCTTAACAAAAATCTAAACCCTAA
1 AACCTT-ACAAAAACCTAAACCCTAA
19735981 CCCTAAAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 6 0.27
25 8 0.36
26 8 0.36
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (25 bp):
AACCTTACAAAAACCTAAACCCTAA
Found at i:19736210 original size:17 final size:17
Alignment explanation
Indices: 19736188--19736220 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19736178 ATCCATTAAT
*
19736188 TAATATACTATCATAAA
1 TAATATACTATAATAAA
19736205 TAATATACTATAATAA
1 TAATATACTATAATAA
19736221 GAAATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (17 bp):
TAATATACTATAATAAA
Found at i:19736398 original size:31 final size:30
Alignment explanation
Indices: 19736305--19736402 Score: 90
Period size: 31 Copynumber: 3.1 Consensus size: 30
19736295 TCATCAATAC
* *
19736305 TATTATAAAAAATAATTTATTTATAATATCATT
1 TATTAT-AAAAATAATTTATCT-TAATATTA-T
* * * *
19736338 TATTAT-GAATTAATATATCATCAATATTAT
1 TATTATAAAAATAATTTATC-TTAATATTAT
19736368 TATTATAAAAATAATTTATCTGTAATATTAT
1 TATTATAAAAATAATTTATCT-TAATATTAT
19736399 TATT
1 TATT
19736403 TACCTTAATT
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
30 8 0.15
31 37 0.71
32 1 0.02
33 6 0.12
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (30 bp):
TATTATAAAAATAATTTATCTTAATATTAT
Found at i:19737667 original size:3 final size:3
Alignment explanation
Indices: 19737659--19737695 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
19737649 ACATGTAACT
19737659 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
19737696 CATTTCAGTA
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:19748161 original size:88 final size:88
Alignment explanation
Indices: 19748038--19748206 Score: 338
Period size: 88 Copynumber: 1.9 Consensus size: 88
19748028 AATATCAGCG
19748038 TTTCTGATGTCTTAGTACCAGCTCTATGAAAATTAAAGATCCAACTTATAACTCTTTGAAGTATC
1 TTTCTGATGTCTTAGTACCAGCTCTATGAAAATTAAAGATCCAACTTATAACTCTTTGAAGTATC
19748103 TTACTTTCATAGTTGCAATAGCA
66 TTACTTTCATAGTTGCAATAGCA
19748126 TTTCTGATGTCTTAGTACCAGCTCTATGAAAATTAAAGATCCAACTTATAACTCTTTGAAGTATC
1 TTTCTGATGTCTTAGTACCAGCTCTATGAAAATTAAAGATCCAACTTATAACTCTTTGAAGTATC
19748191 TTACTTTCATAGTTGC
66 TTACTTTCATAGTTGC
19748207 TCTTTGCTAT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 81 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.38
Consensus pattern (88 bp):
TTTCTGATGTCTTAGTACCAGCTCTATGAAAATTAAAGATCCAACTTATAACTCTTTGAAGTATC
TTACTTTCATAGTTGCAATAGCA
Found at i:19754988 original size:19 final size:19
Alignment explanation
Indices: 19754966--19755009 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
19754956 AAAAAATGTT
*
19754966 AAAAATAAAAAAATTCTAA
1 AAAAATAAAAAAATTATAA
* * *
19754985 AAAAATCAAAATATTATAT
1 AAAAATAAAAAAATTATAA
19755004 AAAAAT
1 AAAAAT
19755010 TGAATTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (19 bp):
AAAAATAAAAAAATTATAA
Found at i:19755201 original size:9 final size:9
Alignment explanation
Indices: 19755182--19755217 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
19755172 ACATTTTTAA
19755182 AAAAAAT-T
1 AAAAAATAT
19755190 AAAAAATAT
1 AAAAAATAT
19755199 --AAAATAT
1 AAAAAATAT
19755206 AAAAAATAT
1 AAAAAATAT
19755215 AAA
1 AAA
19755218 TTTTAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
7 7 0.28
8 7 0.28
9 11 0.44
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AAAAAATAT
Found at i:19755202 original size:16 final size:16
Alignment explanation
Indices: 19755183--19755233 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
19755173 CATTTTTAAA
19755183 AAAAATTAAAAAATAT
1 AAAAATTAAAAAATAT
19755199 -AAAATATAAAAAATAT
1 AAAAAT-TAAAAAATAT
**
19755215 AAATTTTAAAAAATA-
1 AAAAATTAAAAAATAT
19755230 AAAA
1 AAAA
19755234 TGATGCAAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 8 0.27
16 19 0.63
17 3 0.10
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAAATTAAAAAATAT
Found at i:19755209 original size:23 final size:23
Alignment explanation
Indices: 19755143--19755234 Score: 62
Period size: 23 Copynumber: 4.0 Consensus size: 23
19755133 TAAATATGTA
*
19755143 AAAAAATATAATATATAAATAATT
1 AAAAAATATAAAATATAAA-AATT
* **
19755167 CAAAAACATTTTTAA-A-AAAAATT
1 -AAAAA-ATATAAAATATAAAAATT
*
19755190 AAAAAATATAAAATATAAAAAAT
1 AAAAAATATAAAATATAAAAATT
* * * *
19755213 ATAAATTTTAAAAAATAAAAAT
1 AAAAAATATAAAATATAAAAAT
19755235 GATGCAAGCT
Statistics
Matches: 51, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
21 5 0.10
22 6 0.12
23 27 0.53
24 3 0.06
25 6 0.12
26 4 0.08
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (23 bp):
AAAAAATATAAAATATAAAAATT
Found at i:19758452 original size:25 final size:24
Alignment explanation
Indices: 19758410--19758462 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
19758400 ACATACCGCA
*
19758410 GCTCTTTATGAGCGTCCTGATATAG
1 GCTCTTTATGAGCGTCCTAATAT-G
**
19758435 GCTCTTTATGAGTTTCCTAATATG
1 GCTCTTTATGAGCGTCCTAATATG
19758459 GCTC
1 GCTC
19758463 GCTTGAACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.40
Consensus pattern (24 bp):
GCTCTTTATGAGCGTCCTAATATG
Found at i:19760555 original size:39 final size:39
Alignment explanation
Indices: 19760512--19760594 Score: 107
Period size: 39 Copynumber: 2.1 Consensus size: 39
19760502 AAAAAACATA
19760512 ATAATATAAAAATGACAT-AATATAAAATAATT-ATAATAT
1 ATAATATAAAAAT-ACATAAATAT-AAATAATTAATAATAT
* * *
19760551 ATAATATGAAAGTATATAAATATAAATAATTAATAATAT
1 ATAATATAAAAATACATAAATATAAATAATTAATAATAT
19760590 ATAAT
1 ATAAT
19760595 TCAAGTAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
38 11 0.28
39 28 0.72
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (39 bp):
ATAATATAAAAATACATAAATATAAATAATTAATAATAT
Found at i:19760588 original size:16 final size:16
Alignment explanation
Indices: 19760510--19760626 Score: 57
Period size: 16 Copynumber: 6.9 Consensus size: 16
19760500 ATAAAAAACA
19760510 TAATAATATAAA-AAT
1 TAATAATATAAATAAT
*
19760525 GACATAATATAAAATAAT
1 TA-ATAATAT-AAATAAT
*
19760543 T-ATAATATATAATATGAAAG
1 TAAT-A-ATATAA-AT--AAT
19760563 TATATAAATATAAATAAT
1 TA-AT-AATATAAATAAT
19760581 TAATAATAT--ATAAT
1 TAATAATATAAATAAT
*
19760595 TCAAGTAAAATATAATAA-
1 T-AA-TAATATA-AATAAT
19760613 TAAT-ATATAAATAA
1 TAATAATATAAATAA
19760627 GAATGTGAAA
Statistics
Matches: 81, Mismatches: 6, Indels: 31
0.69 0.05 0.26
Matches are distributed among these distances:
14 11 0.14
15 7 0.09
16 20 0.25
17 10 0.12
18 14 0.17
19 4 0.05
20 5 0.06
21 6 0.07
22 4 0.05
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (16 bp):
TAATAATATAAATAAT
Found at i:19760698 original size:13 final size:16
Alignment explanation
Indices: 19760659--19760700 Score: 68
Period size: 16 Copynumber: 2.6 Consensus size: 16
19760649 GTGAAAAGTG
19760659 ATATATAATAACAATA
1 ATATATAATAACAATA
19760675 ATATATAATAA-AATA
1 ATATATAATAACAATA
19760690 ATTATATAATA
1 A-TATATAATA
19760701 TGATATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.20
16 20 0.80
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATATAATAACAATA
Found at i:19764364 original size:48 final size:48
Alignment explanation
Indices: 19764293--19764384 Score: 184
Period size: 48 Copynumber: 1.9 Consensus size: 48
19764283 TTGTTCCTAG
19764293 TTCACTAAAAACGGATTGTTACAGGAATGGTCCAGTAAACTATCCGAT
1 TTCACTAAAAACGGATTGTTACAGGAATGGTCCAGTAAACTATCCGAT
19764341 TTCACTAAAAACGGATTGTTACAGGAATGGTCCAGTAAACTATC
1 TTCACTAAAAACGGATTGTTACAGGAATGGTCCAGTAAACTATC
19764385 GAAGTTTATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (48 bp):
TTCACTAAAAACGGATTGTTACAGGAATGGTCCAGTAAACTATCCGAT
Found at i:19771338 original size:40 final size:41
Alignment explanation
Indices: 19771287--19771372 Score: 165
Period size: 40 Copynumber: 2.1 Consensus size: 41
19771277 TGAGATATTT
19771287 ATTTATTCCTTCAATATTTATGTACTCTTAATTTATTTTCA
1 ATTTATTCCTTCAATATTTATGTACTCTTAATTTATTTTCA
19771328 ATTTA-TCCTTCAATATTTATGTACTCTTAATTTATTTTCA
1 ATTTATTCCTTCAATATTTATGTACTCTTAATTTATTTTCA
19771368 ATTTA
1 ATTTA
19771373 CTTATGTCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 40 0.89
41 5 0.11
ACGTcount: A:0.28, C:0.14, G:0.02, T:0.56
Consensus pattern (41 bp):
ATTTATTCCTTCAATATTTATGTACTCTTAATTTATTTTCA
Found at i:19772591 original size:12 final size:12
Alignment explanation
Indices: 19772575--19772616 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
19772565 TTAATACGGT
19772575 ATTTAA-ATTTA
1 ATTTAATATTTA
19772586 ATTTTAATATTTA
1 A-TTTAATATTTA
19772599 ATTTAATATTTA
1 ATTTAATATTTA
*
19772611 AATTAA
1 ATTTAA
19772617 ATAATATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 1 0.04
12 21 0.75
13 6 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTTAATATTTA
Found at i:19772598 original size:19 final size:19
Alignment explanation
Indices: 19772574--19772611 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
19772564 TTTAATACGG
19772574 TATTTAAATTTAAT-TTTAA
1 TATTT-AATTTAATATTTAA
19772593 TATTTAATTTAATATTTAA
1 TATTTAATTTAATATTTAA
19772612 ATTAAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTTAATTTAATATTTAA
Found at i:19772735 original size:23 final size:24
Alignment explanation
Indices: 19772703--19772758 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
19772693 AAAAATTCAG
*
19772703 ATATC-AATTTT-AAAATAGTTAA
1 ATATCAAATTTTAAAAAAAGTTAA
* *
19772725 ATATTAAATTTTAAAAAAATTTAA
1 ATATCAAATTTTAAAAAAAGTTAA
19772749 ATATCAAATT
1 ATATCAAATT
19772759 AAACATTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 4 0.14
23 6 0.21
24 18 0.64
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (24 bp):
ATATCAAATTTTAAAAAAAGTTAA
Found at i:19775452 original size:21 final size:20
Alignment explanation
Indices: 19775428--19775467 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
19775418 AGAAAGAAAT
19775428 AATTAAAATAAAAAGTAAAAG
1 AATTAAAAT-AAAAGTAAAAG
* *
19775449 AATTATAATAAGAGTAAAA
1 AATTAAAATAAAAGTAAAA
19775468 AGATTAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.23
Consensus pattern (20 bp):
AATTAAAATAAAAGTAAAAG
Found at i:19780244 original size:25 final size:25
Alignment explanation
Indices: 19780214--19780270 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
19780204 CTATAAATGG
*
19780214 TAAGCTCCTCCGAGCTGAATAACGA
1 TAAGCTCCTCCGAGCTAAATAACGA
*
19780239 TAAGCTCCTCCGAGCTAAATAACGG
1 TAAGCTCCTCCGAGCTAAATAACGA
19780264 TAAGCTC
1 TAAGCTC
19780271 ATACAAGCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (25 bp):
TAAGCTCCTCCGAGCTAAATAACGA
Found at i:19780279 original size:25 final size:25
Alignment explanation
Indices: 19780193--19780279 Score: 86
Period size: 25 Copynumber: 3.5 Consensus size: 25
19780183 GTACATGTAT
* *
19780193 GCTCATACGAGCTATA-AATGGTAA
1 GCTCATACGAGCTAAATAACGGTAA
* * * *
19780217 GCTCCTCCGAGCTGAATAACGATAA
1 GCTCATACGAGCTAAATAACGGTAA
* *
19780242 GCTCCTCCGAGCTAAATAACGGTAA
1 GCTCATACGAGCTAAATAACGGTAA
*
19780267 GCTCATACAAGCT
1 GCTCATACGAGCT
19780280 GAGTATCACT
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 12 0.24
25 39 0.76
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (25 bp):
GCTCATACGAGCTAAATAACGGTAA
Found at i:19782508 original size:53 final size:53
Alignment explanation
Indices: 19782392--19782501 Score: 177
Period size: 53 Copynumber: 2.1 Consensus size: 53
19782382 GCAACGATTT
** *
19782392 ATTTTAAACTTTGAATATTTTTAATATTTTTTTCATTTATGTAATTTTAATTA
1 ATTTTAATTTTTGAATATTTTTAATATTTTTTTCATTTATCTAATTTTAATTA
19782445 ATTTTAATTTTTGAATATTATTTAATA-TTTTTTCATTTATCTAATTTTAATTA
1 ATTTTAATTTTTGAATATT-TTTAATATTTTTTTCATTTATCTAATTTTAATTA
19782498 ATTT
1 ATTT
19782502 GTATTTTATA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
53 46 0.87
54 7 0.13
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.62
Consensus pattern (53 bp):
ATTTTAATTTTTGAATATTTTTAATATTTTTTTCATTTATCTAATTTTAATTA
Found at i:19783400 original size:7 final size:7
Alignment explanation
Indices: 19783388--19783412 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
19783378 AGTCGTTTCA
19783388 TATTTAG
1 TATTTAG
19783395 TATTTAG
1 TATTTAG
19783402 TATTTAG
1 TATTTAG
19783409 TATT
1 TATT
19783413 ATGTATATAA
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:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:19787797 original size:126 final size:126
Alignment explanation
Indices: 19787573--19788069 Score: 705
Period size: 126 Copynumber: 4.0 Consensus size: 126
19787563 CATGAAATAC
* * * *
19787573 TGTAGAAAAAGAGC-ATCCACATGGGAG-TTTTTTTAGAAATTTTGCTAACATTGCATCCTGCTT
1 TGTAGAAAAAGAGCGA-CCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATCCTACTT
* *
19787636 GAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTTTCAAAATTATTTTTTCAGGAACTAT
65 GAAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAGGAACTAT
* * * * ** *
19787698 TGTAGGAAAAGAACGACCACTTGGGAGCTTTTTTCAAAAATTTTGCTGACATTGCATATTGCTTG
1 TGTAGAAAAAGAGCGACCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATCCTACTTG
*
19787763 AAGCGTTTTTGACACTTTTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAGGAACTAT
66 AAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAGGAACTAT
*
19787824 TGTAGAAAAAGAGC-ATCCACGTGGGAGCTCTTTTCAGAAATTTTGCTGACATTGCATCCTACTT
1 TGTAGAAAAAGAGCGA-CCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATCCTACTT
*
19787888 GAAGCGTTTTTGACACTTTTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAGGAACTAT
65 GAAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAGGAACTAT
* * * * * *
19787950 TGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTATTTTTGCTGACAGTGCATCCTACTTG
1 TGTAGAAAAAGAGCGACCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATCCTACTTG
* * * *
19788015 AAGTGTTTTTGACACTATTTGTTTAGAAATGTCTTCTCAAAATT-TTTTTTGCAGG
66 AAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTT-CAGG
19788070 GTAAAAATAA
Statistics
Matches: 336, Mismatches: 31, Indels: 9
0.89 0.08 0.02
Matches are distributed among these distances:
125 29 0.09
126 307 0.91
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (126 bp):
TGTAGAAAAAGAGCGACCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATCCTACTTG
AAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAGGAACTAT
Found at i:19788141 original size:28 final size:30
Alignment explanation
Indices: 19788105--19788181 Score: 95
Period size: 28 Copynumber: 2.6 Consensus size: 30
19788095 AAATAAACAC
*
19788105 AAACCCTAATTTAATTAATTT-TAACCCT-
1 AAACCCTAATTTAATTAATTTAAAACCCTA
* * *
19788133 AAATCCTAAATTAATTTATTTAAAACCCTA
1 AAACCCTAATTTAATTAATTTAAAACCCTA
*
19788163 AAACCCTAATTTATTTAAT
1 AAACCCTAATTTAATTAAT
19788182 CTATTTAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 18 0.46
29 6 0.15
30 15 0.38
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (30 bp):
AAACCCTAATTTAATTAATTTAAAACCCTA
Found at i:19788173 original size:29 final size:27
Alignment explanation
Indices: 19788105--19788179 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 27
19788095 AAATAAACAC
* *
19788105 AAACCCTAATTTAATTAATTTTAACCCT
1 AAACCCTAA-TTAATTTATTTAAACCCT
*
19788133 AAATCCTAAATTAATTTATTTAAAACCCT
1 AAACCCT-AATTAATTTATTT-AAACCCT
*
19788162 AAAACCCTAATTTATTTA
1 -AAACCCTAATTAATTTA
19788180 ATCTATTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 16 0.41
29 17 0.44
30 6 0.15
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.39
Consensus pattern (27 bp):
AAACCCTAATTAATTTATTTAAACCCT
Found at i:19788244 original size:22 final size:22
Alignment explanation
Indices: 19788230--19788271 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
19788220 AACCTTAATT
19788230 TAATTTATTTTAAACCCTAACC
1 TAATTTATTTTAAACCCTAACC
* *
19788252 TAATTTATTTAAAATCCTAA
1 TAATTTATTTTAAACCCTAA
19788272 ACCCTTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (22 bp):
TAATTTATTTTAAACCCTAACC
Found at i:19788357 original size:22 final size:22
Alignment explanation
Indices: 19788328--19788380 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
19788318 TAATAAACAC
19788328 AAAACCCTAATTTAATTTATTT
1 AAAACCCTAATTTAATTTATTT
* *
19788350 TAAGCCCTAATTTAATTTATTT
1 AAAACCCTAATTTAATTTATTT
19788372 AAAACCCTA
1 AAAACCCTA
19788381 GAACCCTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.42
Consensus pattern (22 bp):
AAAACCCTAATTTAATTTATTT
Found at i:19788448 original size:57 final size:57
Alignment explanation
Indices: 19788373--19788677 Score: 169
Period size: 56 Copynumber: 5.6 Consensus size: 57
19788363 AATTTATTTA
* * *
19788373 AAACCCTAGAACCCTAATTTAATTCATTTCAACCAAAAAATATAAACCTTAATTTAAT
1 AAACCC-AAAACCCTAATTTAATTAATTTAAACCAAAAAATATAAACCTTAATTTAAT
* ** *
19788431 AAACCCAAAACCCTAATTTAATTTATTTTAAACC-CTAAAT-T-AA--TTTATTTAA-
1 AAACCCAAAACCCTAATTTAA-TTAATTTAAACCAAAAAATATAAACCTTAATTTAAT
* * * * * *
19788483 AATCCTAAAATCCTAATTTAATTAATTTTAACAAAAAAATATAAACCCTAATTT-AT
1 AAACCCAAAACCCTAATTTAATTAATTTAAACCAAAAAATATAAACCTTAATTTAAT
* ** * *** *
19788539 AAACCCGAAATGCT-ATTTAAATTATTTTAAACC-CTGACT-T-AA--TT-ATTT-A-
1 AAACCCAAAACCCTAATTT-AATTAATTTAAACCAAAAAATATAAACCTTAATTTAAT
* * * *** *
19788588 AAACCCTAAAACCCTAAATTACTTAATCT-ATTTAAAAAATATAAACCCTAATTTAAT
1 AAACCC-AAAACCCTAATTTAATTAATTTAAACCAAAAAATATAAACCTTAATTTAAT
*
19788645 AAA-CCATAAACCCTAATTTAATTTATTTTAAAC
1 AAACCCA-AAACCCTAATTTAA-TTAATTTAAAC
19788678 ACTAACTTAA
Statistics
Matches: 176, Mismatches: 50, Indels: 42
0.66 0.19 0.16
Matches are distributed among these distances:
49 7 0.04
50 18 0.10
51 14 0.08
52 24 0.14
53 11 0.06
54 4 0.02
55 14 0.08
56 42 0.24
57 26 0.15
58 16 0.09
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.35
Consensus pattern (57 bp):
AAACCCAAAACCCTAATTTAATTAATTTAAACCAAAAAATATAAACCTTAATTTAAT
Found at i:19788463 original size:22 final size:22
Alignment explanation
Indices: 19788437--19788491 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
19788427 TAATAAACCC
*
19788437 AAAACCCTAATTTAATTTATTT
1 AAAACCCTAAATTAATTTATTT
*
19788459 TAAACCCTAAATTAATTTATTT
1 AAAACCCTAAATTAATTTATTT
*
19788481 AAAATCCTAAA
1 AAAACCCTAAA
19788492 ATCCTAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAACCCTAAATTAATTTATTT
Found at i:19788467 original size:109 final size:108
Alignment explanation
Indices: 19788132--19788722 Score: 742
Period size: 109 Copynumber: 5.5 Consensus size: 108
19788122 ATTTTAACCC
* * * * *** *
19788132 TAAATCCTAAATTAATTTATTTAAAACCCTAAAACCCTAATTTATTTAATCTATTTAAAAAACAT
1 TAAACCCTAACTTAATTTATTTAAAACCCTAAAACCCTAATTTAATTAATTTAACAAAAAAATAT
* * *
19788197 AAGCCCTAATTTAATAAACTCAAAACCTTAATTTAATTTATTT
66 AAACCCTAATTTAATAAACCCAAAACCCTAATTTAATTTATTT
* *
19788240 TAAACCCTAACCTAATTTATTTAAAATCCT-AAACCCTTAATTTAATTAATTTTAACAAAAAAAA
1 TAAACCCTAACTTAATTTATTTAAAACCCTAAAACCC-TAATTTAATTAA-TTTAAC-AAAAAAA
* *
19788304 TACAAACCCTAATTTAATAAACACAAAACCCTAATTTAATTTATTT
63 TATAAACCCTAATTTAATAAACCCAAAACCCTAATTTAATTTATTT
* * * * *
19788350 TAAGCCCTAATTTAATTTATTTAAAACCCTAGAACCCTAATTTAATTCATTTCAACCAAAAAATA
1 TAAACCCTAACTTAATTTATTTAAAACCCTAAAACCCTAATTTAATTAATTT-AACAAAAAAATA
*
19788415 TAAACCTTAATTTAATAAACCCAAAACCCTAATTTAATTTATTT
65 TAAACCCTAATTTAATAAACCCAAAACCCTAATTTAATTTATTT
* * *
19788459 TAAACCCTAAATTAATTTATTTAAAATCCTAAAATCCTAATTTAATTAATTTTAACAAAAAAATA
1 TAAACCCTAACTTAATTTATTTAAAACCCTAAAACCCTAATTTAATTAA-TTTAACAAAAAAATA
* ** *
19788524 TAAACCCTAATTT-ATAAACCCGAAATGCT-ATTTAAATTATTT
65 TAAACCCTAATTTAATAAACCCAAAACCCTAATTTAATTTATTT
* * * * ***
19788566 TAAACCCTGACTTAA-TTATTTAAAACCCTAAAACCCTAAATTACTTAATCTATTTAAAAAATAT
1 TAAACCCTAACTTAATTTATTTAAAACCCTAAAACCCTAATTTAATTAATTTAACAAAAAAATAT
19788630 AAACCCTAATTTAATAAA-CCATAAACCCTAATTTAATTTATTT
66 AAACCCTAATTTAATAAACCCA-AAACCCTAATTTAATTTATTT
* * * *
19788673 TAAACACTAACTTAATTTATTTAAAATCCTAGAACCCTAATTTACTTAAT
1 TAAACCCTAACTTAATTTATTTAAAACCCTAAAACCCTAATTTAATTAAT
19788723 CTATTTAAAA
Statistics
Matches: 418, Mismatches: 55, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
105 26 0.06
106 39 0.09
107 56 0.13
108 81 0.19
109 121 0.29
110 90 0.22
111 5 0.01
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.37
Consensus pattern (108 bp):
TAAACCCTAACTTAATTTATTTAAAACCCTAAAACCCTAATTTAATTAATTTAACAAAAAAATAT
AAACCCTAATTTAATAAACCCAAAACCCTAATTTAATTTATTT
Found at i:19788489 original size:219 final size:214
Alignment explanation
Indices: 19788096--19788722 Score: 830
Period size: 219 Copynumber: 2.9 Consensus size: 214
19788086 TTGTTAAAAA
*
19788096 AATAAACACAAACCCTAATTTAATTAATTTTAACCCTAAATCCTAAATTAATTTATTTAAAACCC
1 AATAAACACAAACCCTAATTTAATTTATTTTAACCCT-AA---T---TTAATTTATTTAAAACCC
* * * * *
19788161 TAAAACCCTAATTTATTTAATCTATTTAAAAAACATAAGCCCTAATTTAATAAACTCAAAACCTT
59 TAAAACCCTAATTTAATTAATCTATTTAAAAAATATAAACCCTAATTTAATAAACCCAAAACCCT
*
19788226 AATTTAATTTATTTTAAACCCTAACCTAATTTATTTAAAATCCTAAACCCTTAATTTAATTAATT
124 AATTTAATTTATTTTAAACCCTAACTTAATTTATTTAAAATCCTAAACCC-TAATTTAATTAATT
19788291 TTAACAAAAAAAATACAAACCCTAATTT
188 TTAAC-AAAAAAATACAAACCCTAATTT
*
19788319 AATAAACACAAAACCCTAATTTAATTTATTTTAAGCCCTAATTTAATTTATTTAAAACCCTAGAA
1 AATAAACAC-AAACCCTAATTTAATTTATTTTAA-CCCTAATTTAATTTATTTAAAACCCTAAAA
* * *** *
19788384 CCCTAATTTAATTCATTTCAACCAAAAAATATAAACCTTAATTTAATAAACCCAAAACCCTAATT
64 CCCTAATTTAATTAATCT-ATTTAAAAAATATAAACCCTAATTTAATAAACCCAAAACCCTAATT
* *
19788449 TAATTTATTTTAAACCCTAAATTAATTTATTTAAAATCCTAAAATCCTAATTTAATTAATTTTAA
128 TAATTTATTTTAAACCCTAACTTAATTTATTTAAAATCCT-AAACCCTAATTTAATTAATTTTAA
*
19788514 CAAAAAAATATAAACCCTAATTT
192 CAAAAAAATACAAACCCTAATTT
* ** * * *
19788537 -ATAAACCCGAAATGCT-ATTTAAATTATTTTAAACCCTGACTTAA-TTATTTAAAACCCTAAAA
1 AATAAACAC-AAACCCTAATTTAATTTATTTT-AACCCTAATTTAATTTATTTAAAACCCTAAAA
* *
19788599 CCCTAAATTACTTAATCTATTTAAAAAATATAAACCCTAATTTAATAAA-CCATAAACCCTAATT
64 CCCTAATTTAATTAATCTATTTAAAAAATATAAACCCTAATTTAATAAACCCA-AAACCCTAATT
* *
19788663 TAATTTATTTTAAACACTAACTTAATTTATTTAAAATCCTAGAACCCTAATTTACTTAAT
128 TAATTTATTTTAAACCCTAACTTAATTTATTTAAAATCCTA-AACCCTAATTTAATTAAT
19788723 CTATTTAAAA
Statistics
Matches: 360, Mismatches: 37, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
213 4 0.01
214 92 0.26
215 31 0.09
216 22 0.06
217 14 0.04
218 58 0.16
219 95 0.26
220 5 0.01
221 1 0.00
223 9 0.03
224 25 0.07
225 4 0.01
ACGTcount: A:0.45, C:0.18, G:0.01, T:0.36
Consensus pattern (214 bp):
AATAAACACAAACCCTAATTTAATTTATTTTAACCCTAATTTAATTTATTTAAAACCCTAAAACC
CTAATTTAATTAATCTATTTAAAAAATATAAACCCTAATTTAATAAACCCAAAACCCTAATTTAA
TTTATTTTAAACCCTAACTTAATTTATTTAAAATCCTAAACCCTAATTTAATTAATTTTAACAAA
AAAATACAAACCCTAATTT
Found at i:19788634 original size:34 final size:33
Alignment explanation
Indices: 19788575--19788638 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
19788565 TTAAACCCTG
**
19788575 ACTTAATTATTTAAAACCCTAAAACCCTAAATT
1 ACTTAATTATTTAAAACAATAAAACCCTAAATT
19788608 ACTTAATCTATTTAAAA-AATATAAACCCTAA
1 ACTTAAT-TATTTAAAACAATA-AAACCCTAA
19788639 TTTAATAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 9 0.33
34 18 0.67
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (33 bp):
ACTTAATTATTTAAAACAATAAAACCCTAAATT
Found at i:19788641 original size:21 final size:22
Alignment explanation
Indices: 19788617--19788666 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
19788607 TACTTAATCT
*
19788617 ATTTAA-AAAATATAAACCCTA
1 ATTTAATAAAACATAAACCCTA
*
19788638 ATTTAATAAACCATAAACCCTA
1 ATTTAATAAAACATAAACCCTA
19788660 ATTTAAT
1 ATTTAAT
19788667 TTATTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (22 bp):
ATTTAATAAAACATAAACCCTA
Found at i:19788676 original size:22 final size:22
Alignment explanation
Indices: 19788651--19788703 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
19788641 TAATAAACCA
*
19788651 TAAACCCTAATTTAATTTATTT
1 TAAACCCTAACTTAATTTATTT
*
19788673 TAAACACTAACTTAATTTATTT
1 TAAACCCTAACTTAATTTATTT
* *
19788695 AAAATCCTA
1 TAAACCCTA
19788704 GAACCCTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.43
Consensus pattern (22 bp):
TAAACCCTAACTTAATTTATTT
Found at i:19790991 original size:15 final size:16
Alignment explanation
Indices: 19790971--19791007 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
19790961 TTTAGGTTAA
19790971 TTCAAA-ATCTTAAAT
1 TTCAAATATCTTAAAT
*
19790986 TTCAAATATCTTAATT
1 TTCAAATATCTTAAAT
19791002 TTCAAA
1 TTCAAA
19791008 CAAAGAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (16 bp):
TTCAAATATCTTAAAT
Found at i:19791040 original size:7 final size:7
Alignment explanation
Indices: 19791028--19791052 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
19791018 AAAAATAATA
19791028 AAATCAT
1 AAATCAT
19791035 AAATCAT
1 AAATCAT
19791042 AAATCAT
1 AAATCAT
19791049 AAAT
1 AAAT
19791053 TTCAAAGCTA
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:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATCAT
Found at i:19794446 original size:9 final size:10
Alignment explanation
Indices: 19794409--19794443 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
19794399 AGACTAAACC
19794409 GAAAACTTTA
1 GAAAACTTTA
19794419 GAAAACTTTGA
1 GAAAACTTT-A
19794430 GAAAA-TTTA
1 GAAAACTTTA
19794439 GAAAA
1 GAAAA
19794444 TTTTCTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 6 0.25
10 12 0.50
11 6 0.25
ACGTcount: A:0.54, C:0.06, G:0.14, T:0.26
Consensus pattern (10 bp):
GAAAACTTTA
Found at i:19809992 original size:35 final size:35
Alignment explanation
Indices: 19809953--19810022 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
19809943 ACAAAAGTAG
* * *
19809953 AAATGAAAACAATATGAAATAAAGATGAAACTAAA
1 AAATGAAAACAACATAAAATAAAGACGAAACTAAA
19809988 AAATGAAAACAACATAAAATAAAGACGAAACTAAA
1 AAATGAAAACAACATAAAATAAAGACGAAACTAAA
19810023 GTAAAACAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.67, C:0.09, G:0.10, T:0.14
Consensus pattern (35 bp):
AAATGAAAACAACATAAAATAAAGACGAAACTAAA
Found at i:19810040 original size:30 final size:32
Alignment explanation
Indices: 19809953--19810040 Score: 90
Period size: 35 Copynumber: 2.7 Consensus size: 32
19809943 ACAAAAGTAG
*
19809953 AAATGAAAACAATATGAAATAAAGATGAAACTAAA
1 AAATGAAAACAAT-T-AAATAAAGACGAAACT-AA
*
19809988 AAATGAAAACAACATAAAATAAAGACGAAACT-A
1 AAATGAAAAC-A-ATTAAATAAAGACGAAACTAA
*
19810021 AAGT-AAAACAATTAAATAAA
1 AAATGAAAACAATTAAATAAA
19810041 TGAAAAATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
30 9 0.19
31 1 0.02
32 5 0.11
33 4 0.09
35 25 0.53
36 1 0.02
37 2 0.04
ACGTcount: A:0.67, C:0.08, G:0.09, T:0.16
Consensus pattern (32 bp):
AAATGAAAACAATTAAATAAAGACGAAACTAA
Found at i:19813061 original size:15 final size:15
Alignment explanation
Indices: 19813041--19813071 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19813031 AAACCTATAA
*
19813041 AAATTAAATTAAACT
1 AAATTAAATAAAACT
19813056 AAATTAAATAAAACT
1 AAATTAAATAAAACT
19813071 A
1 A
19813072 CTAAGTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATTAAATAAAACT
Found at i:19814193 original size:23 final size:22
Alignment explanation
Indices: 19814154--19814207 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
19814144 TCTTTTTAAA
19814154 TTCTTTTTGGTTTAAAAATCCC
1 TTCTTTTTGGTTTAAAAATCCC
19814176 TTCTTTTTGGTTTAAAAATCCC
1 TTCTTTTTGGTTTAAAAATCCC
*
19814198 TTCCTTTTGG
1 TTCTTTTTGG
19814208 GTAAGTGGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.19, C:0.19, G:0.11, T:0.52
Consensus pattern (22 bp):
TTCTTTTTGGTTTAAAAATCCC
Found at i:19818013 original size:32 final size:32
Alignment explanation
Indices: 19817976--19818044 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
19817966 ACAAATTCTA
* *
19817976 CATGGAATGACTTCATTTAAAATTGTGGAATT
1 CATGGAATGAATTCATTTAAAATTATGGAATT
*
19818008 CATGGAATGAATTCATTTACAATTATGGAATT
1 CATGGAATGAATTCATTTAAAATTATGGAATT
*
19818040 TATGG
1 CATGG
19818045 CCCAATAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.38
Consensus pattern (32 bp):
CATGGAATGAATTCATTTAAAATTATGGAATT
Found at i:19823501 original size:4 final size:4
Alignment explanation
Indices: 19823492--19823532 Score: 55
Period size: 4 Copynumber: 10.0 Consensus size: 4
19823482 GTTAAGAAAA
* *
19823492 TAAT TAAT TAAA TAATT TAAT TAAC TAAT TAAT TAAT TAAT
1 TAAT TAAT TAAT TAA-T TAAT TAAT TAAT TAAT TAAT TAAT
19823533 ATTTTGGGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 29 0.91
5 3 0.09
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (4 bp):
TAAT
Found at i:19823504 original size:12 final size:12
Alignment explanation
Indices: 19823489--19823532 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
19823479 TGGGTTAAGA
19823489 AAATAATTAATT
1 AAATAATTAATT
19823501 AAATAATTTAATT
1 AAATAA-TTAATT
*
19823514 AACTAATTAATT
1 AAATAATTAATT
*
19823526 AATTAAT
1 AAATAAT
19823533 ATTTTGGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 18 0.62
13 11 0.38
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
AAATAATTAATT
Found at i:19826209 original size:15 final size:15
Alignment explanation
Indices: 19826189--19826219 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19826179 AAGTGAACAA
19826189 ATAATAAAAAATAAT
1 ATAATAAAAAATAAT
*
19826204 ATAATAAAAACTAAT
1 ATAATAAAAAATAAT
19826219 A
1 A
19826220 AAGTTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
ATAATAAAAAATAAT
Found at i:19826309 original size:3 final size:3
Alignment explanation
Indices: 19826301--19826334 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
19826291 GAATTAAAAT
*
19826301 TAA TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
19826335 GACACAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:19826559 original size:3 final size:3
Alignment explanation
Indices: 19826551--19826775 Score: 70
Period size: 3 Copynumber: 74.0 Consensus size: 3
19826541 TAATACTAAG
* * * * *
19826551 ATA ATA ATA ATA GTA ATA GAGA GTA ACA ATA CATTA TTA ATA ATA AT-
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -A-TA ATA ATA ATA ATA
* * * * * *
19826598 ATG TTA ATA ACA ATA ATA ATA TATA A-A AAA AGGGA ATA ATA ATA GT-
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA A--TA ATA ATA ATA ATA
* * * * *
19826644 ATA GTA AAA ATA ATA AT- GTA TTA ATA ATA ATG ATA ATA ATA A-A ATGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* * * * * * *
19826691 GATT ATA ATA ATA ATA TTA ATA AAA ATGG AT- GTA A-A AGAA ATA GTA
1 -ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA A-TA ATA ATA
* *
19826737 ATA ATA GTA ATA ATA ATA GTA ATA AT- ATAA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
19826776 TATGTTTGCA
Statistics
Matches: 159, Mismatches: 44, Indels: 38
0.66 0.18 0.16
Matches are distributed among these distances:
2 13 0.08
3 127 0.80
4 13 0.08
5 6 0.04
ACGTcount: A:0.58, C:0.01, G:0.09, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:19826672 original size:17 final size:17
Alignment explanation
Indices: 19826632--19826706 Score: 52
Period size: 17 Copynumber: 4.6 Consensus size: 17
19826622 AAAAAAAGGG
*
19826632 AATAATAATAGTATAGT
1 AATAATAATAATATAGT
* * *
19826649 AAAAATAATAATGTATT
1 AATAATAATAATATAGT
*
19826666 AATAATAATGATA-A-T
1 AATAATAATAATATAGT
19826681 AATAA-AATGAGAT-TA-T
1 AATAATAAT-A-ATATAGT
19826697 AATAATAATA
1 AATAATAATA
19826707 TTAATAAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
14 3 0.07
15 6 0.13
16 11 0.24
17 26 0.57
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (17 bp):
AATAATAATAATATAGT
Found at i:19826819 original size:18 final size:18
Alignment explanation
Indices: 19826798--19826840 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
19826788 ATAACGATAG
19826798 TAATAA-AAAATATAATAA
1 TAATAATAAAA-ATAATAA
**
19826816 TAATAATGGAAATAATAA
1 TAATAATAAAAATAATAA
19826834 TAATAAT
1 TAATAAT
19826841 GGCATTAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (18 bp):
TAATAATAAAAATAATAA
Found at i:19827490 original size:4 final size:4
Alignment explanation
Indices: 19827483--19827528 Score: 85
Period size: 4 Copynumber: 11.8 Consensus size: 4
19827473 TAAATATATA
19827483 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-G TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
19827529 TTTAAAAGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 3 0.07
4 38 0.93
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:19829685 original size:25 final size:24
Alignment explanation
Indices: 19829646--19829712 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 24
19829636 AAACGTTAAA
* * *
19829646 TTTAATTTAATATTAAGATAATCAC
1 TTTAATATAAAATTAAGAAAAT-AC
*
19829671 TTTAATATAAAATTAATAAAATAC
1 TTTAATATAAAATTAAGAAAATAC
*
19829695 TATTAAGATAAATATTAA
1 T-TTAATATAAA-ATTAA
19829713 ATTTAATTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
24 3 0.09
25 27 0.77
26 5 0.14
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.40
Consensus pattern (24 bp):
TTTAATATAAAATTAAGAAAATAC
Found at i:19831808 original size:2 final size:2
Alignment explanation
Indices: 19831801--19831827 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19831791 AAAATTACTG
19831801 CT 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 CT C
19831828 GATTGGTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:19835782 original size:19 final size:18
Alignment explanation
Indices: 19835755--19835802 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
19835745 TTCAAAACAA
19835755 AATAA-AAATATAAAAAT
1 AATAACAAATATAAAAAT
* *
19835772 AATAACCAAATAGAAATAT
1 AATAA-CAAATATAAAAAT
*
19835791 AGTAACAAATAT
1 AATAACAAATAT
19835803 TTATTAGCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 5 0.20
18 6 0.24
19 14 0.56
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.23
Consensus pattern (18 bp):
AATAACAAATATAAAAAT
Found at i:19836291 original size:36 final size:36
Alignment explanation
Indices: 19836210--19836292 Score: 103
Period size: 36 Copynumber: 2.3 Consensus size: 36
19836200 ACATTATAAA
* * *
19836210 CACTGTCACATGGCATGAATAACATACCCACATATT
1 CACTATCACATGGCATGAACAACACACCCACATATT
* *
19836246 TACTATCACATGGCATGAACAACACACCCTCATATT
1 CACTATCACATGGCATGAACAACACACCCACATATT
* *
19836282 CATTTTCACAT
1 CACTATCACAT
19836293 CAGTCATCAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.35, C:0.29, G:0.08, T:0.28
Consensus pattern (36 bp):
CACTATCACATGGCATGAACAACACACCCACATATT
Found at i:19836355 original size:8 final size:8
Alignment explanation
Indices: 19836339--19836369 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
19836329 CTCATATATG
*
19836339 TTCATAAT
1 TTCACAAT
19836347 TTCACAAT
1 TTCACAAT
19836355 TTCACAAT
1 TTCACAAT
19836363 TTCACAA
1 TTCACAA
19836370 GCATACATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (8 bp):
TTCACAAT
Found at i:19843690 original size:4 final size:4
Alignment explanation
Indices: 19843681--19843834 Score: 290
Period size: 4 Copynumber: 38.5 Consensus size: 4
19843671 TTTGAGTTCA
*
19843681 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
19843729 ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
19843777 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
19843825 ATAC ATAC AT
1 ATAC ATAC AT
19843835 GGTTGTTGCA
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 146 1.00
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:19849992 original size:21 final size:23
Alignment explanation
Indices: 19849966--19850008 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
19849956 ATCAGTTTTG
19849966 ATTCAAG-AGTT-AATTTATTTA
1 ATTCAAGTAGTTCAATTTATTTA
*
19849987 ATTCAAGTATTTCAATTTATTT
1 ATTCAAGTAGTTCAATTTATTT
19850009 TCTTTTGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.51
Consensus pattern (23 bp):
ATTCAAGTAGTTCAATTTATTTA
Found at i:19850567 original size:17 final size:17
Alignment explanation
Indices: 19850542--19850584 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
19850532 ATTTCGTTTG
19850542 TTTATTTTTC-TTCATTTA
1 TTTA-TTTTCGTT-ATTTA
*
19850560 TTTCTTTTCGTTATTTA
1 TTTATTTTCGTTATTTA
19850577 TTTATTTT
1 TTTATTTT
19850585 TATCTCTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTATTTTCGTTATTTA
Found at i:19852709 original size:19 final size:19
Alignment explanation
Indices: 19852666--19852709 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
19852656 AATATAAGTG
19852666 ATATTT-AAAATAAATAAA
1 ATATTTAAAAATAAATAAA
*
19852684 ATTTTTAAAAATAATATAAA
1 ATATTTAAAAATAA-ATAAA
19852704 A-ATTTA
1 ATATTTA
19852710 GAACTATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 11 0.50
20 6 0.27
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATATTTAAAAATAAATAAA
Found at i:19852749 original size:18 final size:18
Alignment explanation
Indices: 19852726--19852760 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19852716 TATTAGAAAG
* *
19852726 TAAATTATAATATTAAAT
1 TAAATTAAAAAATTAAAT
19852744 TAAATTAAAAAATTAAA
1 TAAATTAAAAAATTAAA
19852761 AAAAATTGAT
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TAAATTAAAAAATTAAAT
Found at i:19853403 original size:16 final size:15
Alignment explanation
Indices: 19853366--19853426 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
19853356 CTTTGTTAGA
* **
19853366 TTTCTCTTTATGAGT
1 TTTCTCTTTTTGTTT
19853381 TTTCTCTTTTTGTTT
1 TTTCTCTTTTTGTTT
* * *
19853396 TATTCTCTTTGTGATA
1 T-TTCTCTTTTTGTTT
19853412 TTTCTCTTTTTGTTT
1 TTTCTCTTTTTGTTT
19853427 ATTTTTCTGA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
15 24 0.67
16 12 0.33
ACGTcount: A:0.08, C:0.13, G:0.10, T:0.69
Consensus pattern (15 bp):
TTTCTCTTTTTGTTT
Found at i:19853405 original size:31 final size:31
Alignment explanation
Indices: 19853367--19853426 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
19853357 TTTGTTAGAT
19853367 TTCTCTTTATGAGT-TTTCTCTTTTTGTTTTA
1 TTCTCTTTATGA-TATTTCTCTTTTTGTTTTA
*
19853398 TTCTCTTTGTGATATTTCTCTTTTTGTTT
1 TTCTCTTTATGATATTTCTCTTTTTGTTT
19853427 ATTTTTCTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 1 0.04
31 26 0.96
ACGTcount: A:0.08, C:0.13, G:0.10, T:0.68
Consensus pattern (31 bp):
TTCTCTTTATGATATTTCTCTTTTTGTTTTA
Found at i:19859760 original size:18 final size:19
Alignment explanation
Indices: 19859739--19859774 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19859729 CTATTTTTCT
19859739 GAATTTT-CATAATATTTA
1 GAATTTTACATAATATTTA
*
19859757 GAATTTTATATAATATTT
1 GAATTTTACATAATATTT
19859775 TTATTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (19 bp):
GAATTTTACATAATATTTA
Found at i:19869134 original size:84 final size:84
Alignment explanation
Indices: 19868986--19869170 Score: 271
Period size: 84 Copynumber: 2.2 Consensus size: 84
19868976 TTATGGGCCT
* * *
19868986 ACATGCCCGTGTGGGCCCACACACCCAAATTGACCTTACCCATGTAGCCCATACGGTCTGGCCCA
1 ACATGCCCGTGTGGGCCCACACACCCAAATTGACATTACCCATGTAGCCCATACGATCTAGCCCA
*
19869051 AAACCCACACTCCCATGTG
66 AAACCCACACGCCCATGTG
* ** * * * *
19869070 GCATGCCCGTGTGGGCCCACATTCCCATATTGACATTACCCGTGTGGCCCATATGATCTAGCCCA
1 ACATGCCCGTGTGGGCCCACACACCCAAATTGACATTACCCATGTAGCCCATACGATCTAGCCCA
19869135 AAACCCACACGCCCATGTG
66 AAACCCACACGCCCATGTG
19869154 ACATGCCCGTGTGGGCC
1 ACATGCCCGTGTGGGCC
19869171 TATACGCCCA
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 89 1.00
ACGTcount: A:0.23, C:0.37, G:0.21, T:0.19
Consensus pattern (84 bp):
ACATGCCCGTGTGGGCCCACACACCCAAATTGACATTACCCATGTAGCCCATACGATCTAGCCCA
AAACCCACACGCCCATGTG
Found at i:19875425 original size:24 final size:23
Alignment explanation
Indices: 19875371--19875427 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
19875361 GATAATAATA
19875371 ATTTAATAATTTAATATAAAACT
1 ATTTAATAATTTAATATAAAACT
* *
19875394 ATAATAATAATTATAATA-AATATCT
1 AT-TTAATAATT-TAATATAA-AACT
19875419 ATTTAATAA
1 ATTTAATAA
19875428 AAAATACATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 2 0.07
24 16 0.57
25 10 0.36
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTTAATAATTTAATATAAAACT
Found at i:19876088 original size:21 final size:21
Alignment explanation
Indices: 19876064--19876108 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
19876054 CAAGAACATC
*
19876064 AAATTCGAAAATCGAAACCAA
1 AAATTCGAAAATCAAAACCAA
* *
19876085 AAATTCGAAATTCAAAACCCA
1 AAATTCGAAAATCAAAACCAA
19876106 AAA
1 AAA
19876109 CCAAAAGAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.58, C:0.20, G:0.07, T:0.16
Consensus pattern (21 bp):
AAATTCGAAAATCAAAACCAA
Found at i:19876777 original size:18 final size:16
Alignment explanation
Indices: 19876740--19876770 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
19876730 AGGAAACATG
19876740 TAAAAATTATATAAAT
1 TAAAAATTATATAAAT
19876756 TAAAAATTATATAAA
1 TAAAAATTATATAAA
19876771 AGTTAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAAAATTATATAAAT
Found at i:19877070 original size:32 final size:32
Alignment explanation
Indices: 19876998--19877072 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
19876988 AAAAAGTGAC
*
19876998 TTGTCATTTAATCAGCCACGTTGGAGTCCTTA
1 TTGTCATTTAATCAGCCACGTTGGAGGCCTTA
* * * ** *
19877030 CTGCCATTTAATCGGCCACGTTGGAGGGTTTG
1 TTGTCATTTAATCAGCCACGTTGGAGGCCTTA
19877062 TTGTCATTTAA
1 TTGTCATTTAA
19877073 ACAATCCCAT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (32 bp):
TTGTCATTTAATCAGCCACGTTGGAGGCCTTA
Found at i:19877823 original size:3 final size:3
Alignment explanation
Indices: 19877817--19877871 Score: 58
Period size: 3 Copynumber: 18.7 Consensus size: 3
19877807 TCATCTCCAT
* * * * *
19877817 TTC TTC -TC TTC TTC TTC TTC TCC TCC TTC TTC TTC TTT TTA TTT TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
19877864 TTC TTC TT
1 TTC TTC TT
19877872 TTATTGTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:19878340 original size:28 final size:28
Alignment explanation
Indices: 19878291--19878347 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
19878281 TATCTTAACT
19878291 CTTTTATTTATTATCATGTCTCCTTCTTA
1 CTTTTATTTATTATCATGTCTCCTT-TTA
** *
19878320 CTTTTA-TTATTATTTTTTCTCCTTTTA
1 CTTTTATTTATTATCATGTCTCCTTTTA
19878347 C
1 C
19878348 ATTCTTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 4 0.16
28 15 0.60
29 6 0.24
ACGTcount: A:0.16, C:0.19, G:0.02, T:0.63
Consensus pattern (28 bp):
CTTTTATTTATTATCATGTCTCCTTTTA
Found at i:19879456 original size:18 final size:18
Alignment explanation
Indices: 19879426--19879501 Score: 52
Period size: 17 Copynumber: 4.3 Consensus size: 18
19879416 TTCTTTATAT
*
19879426 ATTTTTAT-TTTTTTGAA
1 ATTTTTATAATTTTTGAA
*
19879443 ATTTTTATAATTTTTTAA
1 ATTTTTATAATTTTTGAA
** * *
19879461 AAATATA-AAATTTT-AA
1 ATTTTTATAATTTTTGAA
19879477 ATTTTTATAAATATTTTG-A
1 ATTTTTAT-AAT-TTTTGAA
19879496 ATTTTT
1 ATTTTT
19879502 GAAAATTATT
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
16 6 0.14
17 14 0.32
18 13 0.30
19 11 0.25
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTTTTATAATTTTTGAA
Found at i:19879511 original size:20 final size:19
Alignment explanation
Indices: 19879464--19879520 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
19879454 TTTTTAAAAA
*
19879464 TATAAA-ATTTTAAATTTT
1 TATAAATATTTTGAATTTT
19879482 TATAAATATTTTGAATTTT
1 TATAAATATTTTGAATTTT
19879501 TGA-AAATTATTTTG-ATTTT
1 T-ATAAA-TATTTTGAATTTT
19879520 T
1 T
19879521 TTTTGTAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 6 0.17
19 21 0.60
20 8 0.23
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:19886625 original size:16 final size:17
Alignment explanation
Indices: 19886604--19886637 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
19886594 CAGTCTCTAA
19886604 TAGTTT-ACTATAGTTT
1 TAGTTTAACTATAGTTT
19886620 TAGTTTAACTATAGTTT
1 TAGTTTAACTATAGTTT
19886637 T
1 T
19886638 CAGTGTACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.26, C:0.06, G:0.12, T:0.56
Consensus pattern (17 bp):
TAGTTTAACTATAGTTT
Found at i:19889704 original size:20 final size:20
Alignment explanation
Indices: 19889681--19889723 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
19889671 CACATGCCCT
19889681 TGTGGCCTGGGACATGGCCA
1 TGTGGCCTGGGACATGGCCA
* *
19889701 TGTGGCTTGGGACATGGTCA
1 TGTGGCCTGGGACATGGCCA
19889721 TGT
1 TGT
19889724 CGCCAGCCCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.19, G:0.40, T:0.28
Consensus pattern (20 bp):
TGTGGCCTGGGACATGGCCA
Found at i:19891736 original size:24 final size:25
Alignment explanation
Indices: 19891687--19891736 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
19891677 AACCTCAAAG
* *
19891687 CCCTATTTTTCCTTTCTTTTTCTTT
1 CCCTATTTTTCCTTTCTTTCTATTT
19891712 CCCT-TTTTT-CTTTCCTTTCTATTT
1 CCCTATTTTTCCTTT-CTTTCTATTT
19891736 C
1 C
19891737 GTTTTCATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 4 0.18
24 14 0.64
25 4 0.18
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.66
Consensus pattern (25 bp):
CCCTATTTTTCCTTTCTTTCTATTT
Found at i:19909295 original size:128 final size:128
Alignment explanation
Indices: 19909067--19909327 Score: 495
Period size: 128 Copynumber: 2.0 Consensus size: 128
19909057 GTAAACAGAT
* *
19909067 CAAAATGTCGTAGAGGTTTCATCAAACTTGAATGGCAAAACTGTGCATGCATGGTTATGGCAATG
1 CAAAATGTCGTAGAGGTTTCATCAAACTTGAATGGAAAAACTATGCATGCATGGTTATGGCAATG
*
19909132 CACTATTTTAGAAAACGAAATGTAGATTTTTCAGAAAATTTCCTACTCAACTCTATTACACAC
66 CACTATTTTAGAAAACGAAATGTAGATTTTTCAGAAAACTTCCTACTCAACTCTATTACACAC
19909195 CAAAATGTCGTAGAGGTTTCATCAAACTTGAATGGAAAAACTATGCATGCATGGTTATGGCAATG
1 CAAAATGTCGTAGAGGTTTCATCAAACTTGAATGGAAAAACTATGCATGCATGGTTATGGCAATG
19909260 CACTATTTTAGAAAACGAAATGTAGATTTTTCAGAAAACTTCCTACTCAACTCTATTACACAC
66 CACTATTTTAGAAAACGAAATGTAGATTTTTCAGAAAACTTCCTACTCAACTCTATTACACAC
19909323 CAAAA
1 CAAAA
19909328 GGAGTTCCCC
Statistics
Matches: 130, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 130 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.30
Consensus pattern (128 bp):
CAAAATGTCGTAGAGGTTTCATCAAACTTGAATGGAAAAACTATGCATGCATGGTTATGGCAATG
CACTATTTTAGAAAACGAAATGTAGATTTTTCAGAAAACTTCCTACTCAACTCTATTACACAC
Found at i:19910626 original size:9 final size:9
Alignment explanation
Indices: 19910612--19910661 Score: 66
Period size: 9 Copynumber: 5.6 Consensus size: 9
19910602 GAACAACAAC
19910612 AATAATAAA
1 AATAATAAA
19910621 AATAATAAA
1 AATAATAAA
19910630 AATAA-AAA
1 AATAATAAA
*
19910638 TAAAAATAAA
1 -AATAATAAA
*
19910648 AATAATAAT
1 AATAATAAA
19910657 AATAA
1 AATAA
19910662 CAGAGTTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
8 3 0.08
9 30 0.83
10 3 0.08
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AATAATAAA
Found at i:19910661 original size:6 final size:6
Alignment explanation
Indices: 19910624--19910658 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
19910614 TAATAAAAAT
*
19910624 AATAAA AATAAA AATAAA AATAAA AATAAT AATAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAA
19910659 TAACAGAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:19910891 original size:3 final size:3
Alignment explanation
Indices: 19910885--19911012 Score: 98
Period size: 3 Copynumber: 42.3 Consensus size: 3
19910875 ATGGTAAAAC
**
19910885 ATA ATA ATA ATA ATA ATA AT- ATGA ATA ATA ATA ACG ATA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA AT-A ATA
** * * * *
19910931 ATA GCA AGA ATA ATA ATA ATA ATG ATA ATA GAAA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * * * *
19910977 CTA ATA GTA ATG GTA ATA ATA AT- ATA AAA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
19911013 AAAAATGATG
Statistics
Matches: 96, Mismatches: 24, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
2 4 0.04
3 85 0.89
4 7 0.07
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:19910981 original size:22 final size:23
Alignment explanation
Indices: 19910937--19911021 Score: 74
Period size: 22 Copynumber: 3.9 Consensus size: 23
19910927 AATAATAGCA
19910937 AGAATAATAATAATAATGATAAT
1 AGAATAATAATAATAATGATAAT
*
19910960 AGAA-AATAATAATAGT-ACTAAT
1 AGAATAATAATAATAATGA-TAAT
**
19910982 AGTAATGGTAATAATAAT-ATAA-
1 AG-AATAATAATAATAATGATAAT
*
19911004 A-AATAATAA-AAAAATGAT
1 AGAATAATAATAATAATGAT
19911022 GACACTGATA
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
19 5 0.10
20 8 0.16
21 1 0.02
22 18 0.35
23 9 0.18
24 10 0.20
ACGTcount: A:0.61, C:0.01, G:0.09, T:0.28
Consensus pattern (23 bp):
AGAATAATAATAATAATGATAAT
Found at i:19914010 original size:31 final size:31
Alignment explanation
Indices: 19913975--19914057 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
19913965 CTTCCTGCAT
* *
19913975 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * *
19914006 TAAAATGCAGCCAAAAACAACAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
19914037 TAAAAAATACAACCAAAAACA
1 T--AAAATCCAACCAAAAACA
19914058 TTAATTCTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 27 0.63
33 16 0.37
ACGTcount: A:0.63, C:0.19, G:0.02, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:19919940 original size:9 final size:9
Alignment explanation
Indices: 19919926--19920053 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
19919916 ATGTATTAGT
19919926 TAAGTTATG
1 TAAGTTATG
19919935 TAAGTTGTTATG
1 TAA---GTTATG
*
19919947 TACGTTATG
1 TAAGTTATG
*
19919956 TGAGTTATG
1 TAAGTTATG
*
19919965 TAAATTATG
1 TAAGTTATG
19919974 TAAGTTATG
1 TAAGTTATG
*
19919983 TGAGTTATG
1 TAAGTTATG
19919992 TAAGTTGTTATG
1 TAA---GTTATG
*
19920004 TAAATTATG
1 TAAGTTATG
*
19920013 TAAGTTATA
1 TAAGTTATG
*
19920022 TGAGTTATG
1 TAAGTTATG
19920031 TAAGTTATG
1 TAAGTTATG
* *
19920040 TAATTTATT
1 TAAGTTATG
19920049 TAAGT
1 TAAGT
19920054 AATGATCAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 79 0.82
12 17 0.18
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:19920053 original size:57 final size:57
Alignment explanation
Indices: 19919926--19920053 Score: 175
Period size: 57 Copynumber: 2.2 Consensus size: 57
19919916 ATGTATTAGT
** * *
19919926 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* * *
19919983 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* *
19920040 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
19920054 AATGATCAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
Found at i:19920600 original size:241 final size:241
Alignment explanation
Indices: 19920172--19920606 Score: 807
Period size: 241 Copynumber: 1.8 Consensus size: 241
19920162 TGAATATAGT
19920172 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
*
19920237 TTGATATAAGGCAACCCATCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAACATTTAAAATA
66 TCGATATAAGGCAACCCATCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAACATTTAAAATA
*
19920302 AGGTTGGAGAGAAGGTCAGCTATTGCTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
131 AGGTTGGAGAGAAGGTCAGCTATTGCTGTAATTTTAATGGACAAGCAAGCAACATGGTAATAAAT
19920367 ATTCAATAGTAAATGAGCTTGATAGAACTTTTTTCAAGTCTTCTTG
196 ATTCAATAGTAAATGAGCTTGATAGAACTTTTTTCAAGTCTTCTTG
19920413 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
* *
19920478 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCATCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAACATTTAAAATA
* * *
19920543 AGGTTGGAGAGATGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAATCAACATGGTAATAAA
131 AGGTTGGAGAGAAGGTCAGCTATTGCTGTAATTTTAATGGACAAGCAAGCAACATGGTAATAAA
19920607 ATTAATTCAT
Statistics
Matches: 187, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
241 187 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (241 bp):
AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
TCGATATAAGGCAACCCATCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAACATTTAAAATA
AGGTTGGAGAGAAGGTCAGCTATTGCTGTAATTTTAATGGACAAGCAAGCAACATGGTAATAAAT
ATTCAATAGTAAATGAGCTTGATAGAACTTTTTTCAAGTCTTCTTG
Found at i:19920755 original size:23 final size:23
Alignment explanation
Indices: 19920729--19920778 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
19920719 GTTCAAGTTT
*
19920729 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTACAATTCATAC
19920752 ATTTAAAGGGCTACAATTCATAC
1 ATTTAAAGGGCTACAATTCATAC
19920775 ATTT
1 ATTT
19920779 GATTAATGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (23 bp):
ATTTAAAGGGCTACAATTCATAC
Found at i:19923263 original size:14 final size:15
Alignment explanation
Indices: 19923239--19923268 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
19923229 CACAAACTTC
19923239 AGAATTTATGTATTT
1 AGAATTTATGTATTT
19923254 AGAA-TTATGTATTT
1 AGAATTTATGTATTT
19923268 A
1 A
19923269 TATAAACACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (15 bp):
AGAATTTATGTATTT
Found at i:19925278 original size:29 final size:29
Alignment explanation
Indices: 19925227--19925282 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
19925217 TAGTGTTTAT
*
19925227 GTTTTATGTTTTAAAATTTAGGGTTTAGG
1 GTTTAATGTTTTAAAATTTAGGGTTTAGG
*
19925256 GTTTAATG-TTTAAGATTTAAGGGTTTA
1 GTTTAATGTTTTAAAATTT-AGGGTTTA
19925283 CAGAAAGCCA
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:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (29 bp):
GTTTAATGTTTTAAAATTTAGGGTTTAGG
Found at i:19925608 original size:41 final size:41
Alignment explanation
Indices: 19925571--19925868 Score: 311
Period size: 41 Copynumber: 7.3 Consensus size: 41
19925561 AATTTTTTGC
*
19925571 GGCGTTTGGACCAAAAACGCCGCTATTAATCAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * * *
19925612 GGCATTTTGGA-TAAAAACGCCACAATTGATCAGTTTTTTGT
1 GGC-GTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
* *
19925653 GGCGTTTGGGA-AAAAAACGCCGCAATTGATCAGTTTTTAGT
1 GGCGTTT-GGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
** *
19925694 GGCGTTTGAGA-TTAAAACGCCGCTATTGATCAGCTTTTAGT
1 GGCGTTTG-GACCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * *
19925735 GGCGTTTTG-CGAAAAACGCCGCTATTGACCAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
* *
19925775 GGCGTTTTTG-CCAAAAACGCCGCTATTGACCAGTTTTTAGT
1 GGCG-TTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * * *
19925816 GGCGTTTTTG-CCAAAAACGCCGCTATAGTTTAGCTTTTAGT
1 GGCG-TTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
19925857 GGCGTTTCGGAC
1 GGCGTTT-GGAC
19925869 AAACGCCACT
Statistics
Matches: 224, Mismatches: 26, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
40 38 0.17
41 179 0.80
42 7 0.03
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (41 bp):
GGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
Found at i:19925803 original size:122 final size:122
Alignment explanation
Indices: 19925571--19925877 Score: 359
Period size: 122 Copynumber: 2.5 Consensus size: 122
19925561 AATTTTTTGC
* * *
19925571 GGCGTTTG-GACCAAAAACGCCGCTATTAATCAGTTTTTAGTGGCATTTTGGATAAAAACGCCAC
1 GGCGTTTGAGA-CAAAAACGCCGCTATTGATCAGCTTTTAGTGGCGTTTTGGA-AAAAACGCCAC
* * *
19925635 AATTGATCAGTTTTTTGTGGCGTTTGGGAAAAAAACGCCGCAATTGATCAGTTTTTAGT
64 AATTGACCAGTTTTTAGTGGCGTTTGGGAAAAAAACGCCGCAATTGACCAGTTTTTAGT
** * *
19925694 GGCGTTTGAGATTAAAACGCCGCTATTGATCAGCTTTTAGTGGCGTTTTGCG-AAAAACGCCGCT
1 GGCGTTTGAGACAAAAACGCCGCTATTGATCAGCTTTTAGTGGCGTTTTG-GAAAAAACGCCACA
** ** *
19925758 ATTGACCAGTTTTTAGTGGCGTTTTTGCCAAAAACGCCGCTATTGACCAGTTTTTAGT
65 ATTGACCAGTTTTTAGTGGCGTTTGGGAAAAAAACGCCGCAATTGACCAGTTTTTAGT
** * * * * * *
19925816 GGCGTTTTTGCCAAAAACGCCGCTATAGTTTAGCTTTTAGTGGCGTTTCGG-ACAAACGCCAC
1 GGCGTTTGAGACAAAAACGCCGCTATTGATCAGCTTTTAGTGGCGTTTTGGAAAAAACGCCAC
19925878 TAAAAGCGCC
Statistics
Matches: 156, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
121 10 0.06
122 101 0.65
123 42 0.27
124 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.32
Consensus pattern (122 bp):
GGCGTTTGAGACAAAAACGCCGCTATTGATCAGCTTTTAGTGGCGTTTTGGAAAAAACGCCACAA
TTGACCAGTTTTTAGTGGCGTTTGGGAAAAAAACGCCGCAATTGACCAGTTTTTAGT
Found at i:19927011 original size:34 final size:34
Alignment explanation
Indices: 19926956--19927094 Score: 188
Period size: 34 Copynumber: 4.1 Consensus size: 34
19926946 TTATGGACTC
* *
19926956 AGTATGCGAACACTCATGTTATATAGTATGACAT
1 AGTATGCGAACCCTCACGTTATATAGTATGACAT
* *
19926990 GGTATGCAAACCCTCACGTTATATAGTATGACAT
1 AGTATGCGAACCCTCACGTTATATAGTATGACAT
* * *
19927024 AGTATGTGAACCCTCACGTTATATAGGAAGACAT
1 AGTATGCGAACCCTCACGTTATATAGTATGACAT
** *
19927058 AGTATGCGAACCCTCATTTTGTATAGTATGACAT
1 AGTATGCGAACCCTCACGTTATATAGTATGACAT
19927092 AGT
1 AGT
19927095 GAACTGTTAG
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 90 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (34 bp):
AGTATGCGAACCCTCACGTTATATAGTATGACAT
Found at i:19927292 original size:34 final size:34
Alignment explanation
Indices: 19927250--19927396 Score: 186
Period size: 34 Copynumber: 4.3 Consensus size: 34
19927240 GCGAACCCCA
* * * * *
19927250 TATGACATAGTATGCGAACCTTTATGTTATATAA
1 TATGACATAGTATGCTAACCCTCACGTTATATAG
* * *
19927284 TATGACATAATATGTTAACCCTCACATTATATAG
1 TATGACATAGTATGCTAACCCTCACGTTATATAG
* *
19927318 TAAGACATAGTATGCAAACCCTCACGTTATATAG
1 TATGACATAGTATGCTAACCCTCACGTTATATAG
* *
19927352 TAAGACATAGTATGCTAACCCTCATGTTATATAG
1 TATGACATAGTATGCTAACCCTCACGTTATATAG
19927386 TATGACATAGT
1 TATGACATAGT
19927397 GAACTGTTAG
Statistics
Matches: 97, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 97 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (34 bp):
TATGACATAGTATGCTAACCCTCACGTTATATAG
Found at i:19927507 original size:302 final size:303
Alignment explanation
Indices: 19926956--19927532 Score: 838
Period size: 302 Copynumber: 1.9 Consensus size: 303
19926946 TTATGGACTC
* ** * *
19926956 AGTATGCGAACACTCATGTTATATAGTATGACATGGTATGCAAACCCTCACGTTATATAGTATGA
1 AGTATGCGAACACTCATGTTATATAATATGACATAATATGCAAACCCTCACATTATATAGTAAGA
** * *
19927021 CATAGTATGTGAACCCTCACGTTATATAGGAAGACATAGTATGCGAACCCTCATTTTGTATAGTA
66 CATAGTATGCAAACCCTCACGTTATATAGGAAGACATAGTATGCGAACCCTCATGTTATATAGTA
** * * *
19927086 TGACATAGTGAACTGTTAGTACATGTATGTGAACCCTAGGTGAATTATTATGCGAACTTTTATGT
131 TGACATAGTGAACTGTTAGTACATGTATACGAACCCTAGATAAATTATTATGCAAACTTTTATGT
* *
19927151 GAACTGTTAAGCGAACCCTTAGTACATGTATGCGAACCACTTTAGAGAATATATGCGAACCC-AC
196 GAACTATTAAGCGAACCCTTAGTACATGTAGGCGAACCACTTTAGAGAATATATGCGAACCCTAC
19927215 ATGCAAACCCTTATGGATTCAGTATGCGAACCCCATATGACAT
261 ATGCAAACCCTTATGGATTCAGTATGCGAACCCCATATGACAT
* **
19927258 AGTATGCGAAC-CTTTATGTTATATAATATGACATAATATGTTAACCCTCACATTATATAGTAAG
1 AGTATGCGAACAC-TCATGTTATATAATATGACATAATATGCAAACCCTCACATTATATAGTAAG
* *
19927322 ACATAGTATGCAAACCCTCACGTTATATAGTAAGACATAGTATGCTAACCCTCATGTTATATAGT
65 ACATAGTATGCAAACCCTCACGTTATATAGGAAGACATAGTATGCGAACCCTCATGTTATATAGT
*
19927387 ATGACATAGTGAACTGTTAGTACATGTTTACGAACCCTAGATAAATTATTATGCAAACTTTTATG
130 ATGACATAGTGAACTGTTAGTACATGTATACGAACCCTAGATAAATTATTATGCAAACTTTTATG
* * * *
19927452 TGAACTATTAAGCGAACCTTTAGTACATGTAGGCGATCC-C-TTAGTGAATATATATGTGAACCC
195 TGAACTATTAAGCGAACCCTTAGTACATGTAGGCGAACCACTTTAGAG-A-ATATATGCGAACCC
** *
19927515 TTTATGCGAACCCTTATG
258 TACATGCAAACCCTTATG
19927533 CGATATAGTA
Statistics
Matches: 242, Mismatches: 29, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
300 5 0.02
301 3 0.01
302 220 0.91
303 14 0.06
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (303 bp):
AGTATGCGAACACTCATGTTATATAATATGACATAATATGCAAACCCTCACATTATATAGTAAGA
CATAGTATGCAAACCCTCACGTTATATAGGAAGACATAGTATGCGAACCCTCATGTTATATAGTA
TGACATAGTGAACTGTTAGTACATGTATACGAACCCTAGATAAATTATTATGCAAACTTTTATGT
GAACTATTAAGCGAACCCTTAGTACATGTAGGCGAACCACTTTAGAGAATATATGCGAACCCTAC
ATGCAAACCCTTATGGATTCAGTATGCGAACCCCATATGACAT
Found at i:19933850 original size:15 final size:16
Alignment explanation
Indices: 19933830--19933860 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
19933820 TAAGGATGAA
19933830 TTTATTTTTTA-TTTT
1 TTTATTTTTTACTTTT
19933845 TTTATTTTTTACTTTT
1 TTTATTTTTTACTTTT
19933861 GTATCAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTATTTTTTACTTTT
Found at i:19936095 original size:23 final size:23
Alignment explanation
Indices: 19936056--19936124 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
19936046 AATAATTCAT
*
19936056 ATATAATATATATAATTTTAAAAA
1 ATATAAT-TATAAAATTTTAAAAA
** * *
19936080 ATATTTTTATAAAATTCTAAAAT
1 ATATAATTATAAAATTTTAAAAA
19936103 ATATAATTAT-AAATTTTAAAAA
1 ATATAATTATAAAATTTTAAAAA
19936125 TTTAAAATAA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
22 10 0.28
23 21 0.58
24 5 0.14
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (23 bp):
ATATAATTATAAAATTTTAAAAA
Done.