Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 169 of 213
Found at i:50745675 original size:3 final size:3
Alignment explanation
Indices: 50745667--50745698 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
50745657 TCAAAAAGGC
50745667 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
50745699 TCCCTCGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:50748276 original size:16 final size:16
Alignment explanation
Indices: 50748255--50748289 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
50748245 ACTCAGCTTT
50748255 AGTATTTAAA-AATGTA
1 AGTATTTAAAGAA-GTA
50748271 AGTATTTAAAGAAGTA
1 AGTATTTAAAGAAGTA
50748287 AGT
1 AGT
50748290 TCGATTCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (16 bp):
AGTATTTAAAGAAGTA
Found at i:50759918 original size:5 final size:5
Alignment explanation
Indices: 50759908--50760031 Score: 51
Period size: 5 Copynumber: 23.4 Consensus size: 5
50759898 ACCTTCCTTT
* * *
50759908 TTTTA TTTTA -TTTA GTTATTA TTTTTA TATTA TTTTC TTTTC TTTT-
1 TTTTA TTTTA TTTTA -TT-TTA -TTTTA TTTTA TTTTA TTTTA TTTTA
* **
50759954 TATTTA TTTTTA TTTTA TCTTA TTTT- TCTTT- TCTTTA -TTGC TTTTA
1 T-TTTA -TTTTA TTTTA TTTTA TTTTA T-TTTA T-TTTA TTTTA TTTTA
50760000 TTTTA TGTTTA GTATTTA TATTTA TTATTA TT
1 TTTTA T-TTTA -T-TTTA T-TTTA TT-TTA TT
50760032 GCATTATCAT
Statistics
Matches: 96, Mismatches: 11, Indels: 23
0.74 0.08 0.18
Matches are distributed among these distances:
4 8 0.08
5 53 0.55
6 24 0.25
7 11 0.11
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:50759964 original size:31 final size:32
Alignment explanation
Indices: 50759926--50759985 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
50759916 TATTTAGTTA
50759926 TTATTTTTATATTAT-TT-TCTTTTCTTTTTAT
1 TTATTTTTATATTATCTTAT-TTTTCTTTTTAT
*
50759957 TTATTTTTATTTTATCTTATTTTTCTTTT
1 TTATTTTTATATTATCTTATTTTTCTTTT
50759986 CTTTATTGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 14 0.54
32 11 0.42
33 1 0.04
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (32 bp):
TTATTTTTATATTATCTTATTTTTCTTTTTAT
Found at i:50759970 original size:11 final size:11
Alignment explanation
Indices: 50759907--50759971 Score: 57
Period size: 10 Copynumber: 6.1 Consensus size: 11
50759897 CACCTTCCTT
50759907 TTTTTATTTTA
1 TTTTTATTTTA
50759918 --TTTAGTTATTA
1 TTTTTA-TT-TTA
*
50759929 TTTTTATATTA
1 TTTTTATTTTA
* *
50759940 -TTTTCTTTTC
1 TTTTTATTTTA
50759950 TTTTTA-TTTA
1 TTTTTATTTTA
50759960 TTTTTATTTTA
1 TTTTTATTTTA
50759971 T
1 T
50759972 CTTATTTTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
9 4 0.10
10 18 0.43
11 15 0.36
12 1 0.02
13 4 0.10
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:50759981 original size:37 final size:38
Alignment explanation
Indices: 50759913--50759989 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 38
50759903 CCTTTTTTTA
50759913 TTTTATTTAGTTATTATTTTTATATTATTTTCTTTTCT
1 TTTTATTTAGTTATTATTTTTATATTATTTTCTTTTCT
* *
50759951 TTTTATTTA-TTTTTA-TTTTATCTTATTTTTCTTTTCT
1 TTTTATTTAGTTATTATTTTTATATTA-TTTTCTTTTCT
50759988 TT
1 TT
50759990 ATTGCTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
36 9 0.25
37 18 0.50
38 9 0.25
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (38 bp):
TTTTATTTAGTTATTATTTTTATATTATTTTCTTTTCT
Found at i:50759991 original size:15 final size:15
Alignment explanation
Indices: 50759926--50759992 Score: 64
Period size: 16 Copynumber: 4.3 Consensus size: 15
50759916 TATTTAGTTA
* *
50759926 TTATTTTTATATTAT
1 TTATTTTTCTTTTAT
50759941 TT-TCTTTTCTTTTTAT
1 TTAT-TTTTC-TTTTAT
*
50759957 TTATTTTTATTTTAT
1 TTATTTTTCTTTTAT
*
50759972 CTTATTTTTCTTTTCT
1 -TTATTTTTCTTTTAT
50759988 TTATT
1 TTATT
50759993 GCTTTTATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
14 1 0.02
15 17 0.40
16 24 0.56
17 1 0.02
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (15 bp):
TTATTTTTCTTTTAT
Found at i:50761717 original size:7 final size:7
Alignment explanation
Indices: 50761705--50761735 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
50761695 TTTAGTTTTA
50761705 TTTTATT
1 TTTTATT
50761712 TTTTATT
1 TTTTATT
50761719 TTTTATT
1 TTTTATT
50761726 TTTTATT
1 TTTTATT
50761733 TTT
1 TTT
50761736 GCTTTTAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTATT
Found at i:50761741 original size:14 final size:14
Alignment explanation
Indices: 50761700--50761741 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
50761690 TTGATTTTAG
50761700 TTTTA-TTTT-ATT
1 TTTTATTTTTGATT
*
50761712 TTTTATTTTTTATT
1 TTTTATTTTTGATT
*
50761726 TTTTATTTTTGCTT
1 TTTTATTTTTGATT
50761740 TT
1 TT
50761742 AGTTGTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 5 0.19
13 4 0.15
14 17 0.65
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.83
Consensus pattern (14 bp):
TTTTATTTTTGATT
Found at i:50777900 original size:16 final size:17
Alignment explanation
Indices: 50777873--50777904 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
50777863 ATAAGTATTG
50777873 TATTACAACAATTAAAC
1 TATTACAACAATTAAAC
50777890 TATTA-AACAATTAAA
1 TATTACAACAATTAAA
50777905 TAACACAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (17 bp):
TATTACAACAATTAAAC
Found at i:50781626 original size:42 final size:41
Alignment explanation
Indices: 50781577--50781708 Score: 131
Period size: 42 Copynumber: 3.1 Consensus size: 41
50781567 ACTTCCGAGG
*
50781577 TGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATTGTA
1 TGTGATTTCATGTAAGACCATGTCTGGGACA-TGGCATTGTA
* * * * *
50781619 TATGATTTCATATAAGACCCTGTTTGGGACAGTGGCATCGATA
1 TGTGATTTCATGTAAGACCATGTCTGGGACA-TGGCATTG-TA
* * * *
50781662 TGTGATAAT-ATGTAATACCATATCTGGGATATGGCATTGTA
1 TGTGAT-TTCATGTAAGACCATGTCTGGGACATGGCATTGTA
50781703 TGTGAT
1 TGTGAT
50781709 ATATGTGTTT
Statistics
Matches: 72, Mismatches: 16, Indels: 5
0.77 0.17 0.05
Matches are distributed among these distances:
41 8 0.11
42 40 0.56
43 23 0.32
44 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.36
Consensus pattern (41 bp):
TGTGATTTCATGTAAGACCATGTCTGGGACATGGCATTGTA
Found at i:50788112 original size:20 final size:20
Alignment explanation
Indices: 50788087--50788129 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
50788077 TTTTTGGTAC
*
50788087 CACTAAAAACTGGGCTGTTA
1 CACTAAAAAATGGGCTGTTA
*
50788107 CACTAAAAAATGGGTTGTTA
1 CACTAAAAAATGGGCTGTTA
50788127 CAC
1 CAC
50788130 CCTTATCTCT
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:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (20 bp):
CACTAAAAAATGGGCTGTTA
Found at i:50789993 original size:20 final size:18
Alignment explanation
Indices: 50789968--50790016 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
50789958 AGCCATACAC
50789968 TAAAATCAAAGACATTAAAA
1 TAAAATCAAA-AC-TTAAAA
*
50789988 TAAAATTAATAACTTAAAA
1 TAAAATCAA-AACTTAAAA
*
50790007 TTAAATCAAA
1 TAAAATCAAA
50790017 TAAAAATAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 1 0.04
19 13 0.52
20 10 0.40
21 1 0.04
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (18 bp):
TAAAATCAAAACTTAAAA
Found at i:50792441 original size:15 final size:16
Alignment explanation
Indices: 50792414--50792451 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
50792404 GATTCAATTA
*
50792414 ATAATAAAGTATA-AT
1 ATAATAAAATATATAT
*
50792429 ATCATAAAATATATAT
1 ATAATAAAATATATAT
50792445 ATAATAA
1 ATAATAA
50792452 GAAATAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (16 bp):
ATAATAAAATATATAT
Found at i:50793460 original size:24 final size:25
Alignment explanation
Indices: 50793414--50793460 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
50793404 GTGGACTATT
50793414 GTGTTATATTGACAGTGTTTCTGCC
1 GTGTTATATTGACAGTGTTTCTGCC
*
50793439 GTGTTATATTGGC-GTGTTTCTG
1 GTGTTATATTGACAGTGTTTCTG
50793461 AATATACCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.13, C:0.13, G:0.28, T:0.47
Consensus pattern (25 bp):
GTGTTATATTGACAGTGTTTCTGCC
Found at i:50794971 original size:15 final size:15
Alignment explanation
Indices: 50794953--50794993 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
50794943 GGTTTATTTT
*
50794953 TATTTTTATTTTTAC
1 TATTTTTATTTTAAC
50794968 TATTTTTATTTTAAC
1 TATTTTTATTTTAAC
*
50794983 T-TATTTATTTT
1 TATTTTTATTTT
50794994 CATGATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (15 bp):
TATTTTTATTTTAAC
Found at i:50798722 original size:30 final size:30
Alignment explanation
Indices: 50798666--50798738 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
50798656 ACGGCCTGAG
*
50798666 ACACGGACGTGTGTCTCAGCCATGTGAGGC
1 ACACGGACGTGTGTCTCAGCCATGTGACGC
* * ***
50798696 ACATGGACGTGTGTTTCAGTTGTGTGACGC
1 ACACGGACGTGTGTCTCAGCCATGTGACGC
*
50798726 ACACGGCCGTGTG
1 ACACGGACGTGTG
50798739 ACCCTTGTAG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.18, C:0.23, G:0.34, T:0.25
Consensus pattern (30 bp):
ACACGGACGTGTGTCTCAGCCATGTGACGC
Found at i:50798882 original size:22 final size:21
Alignment explanation
Indices: 50798857--50798897 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
50798847 GGAGGATATG
50798857 TATGTAGATGATTATTATATCA
1 TATGTAGATGA-TATTATATCA
**
50798879 TATGTTTATGATATTATAT
1 TATGTAGATGATATTATAT
50798898 GAGACGTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.34, C:0.02, G:0.12, T:0.51
Consensus pattern (21 bp):
TATGTAGATGATATTATATCA
Found at i:50804975 original size:109 final size:109
Alignment explanation
Indices: 50804843--50805174 Score: 514
Period size: 109 Copynumber: 3.1 Consensus size: 109
50804833 ACAAAAAAGG
*
50804843 AAAAAG-AAGAAAAAATTT-GGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTCAAAAAA
1 AAAAAGTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTCAAAAAA
50804906 AAATTCTTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGA
66 AAATTCTTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGA
*
50804950 AAAAAGTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCAGCACCCAGTACAATTTC-AAAAA
1 AAAAAGTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTCAAAAAA
*
50805014 AAA-T-TTATTTTTTTCGTGTCAGAATCAGATATCAGTATACGA
66 AAATTCTTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGA
* * *
50805056 AAAAAATAAAAATAAAAAATTTGGGTGCTGGCCTGTCAATGGTCGGCACCCAGTACAATTTTAAA
1 AAAAAGT--AAA-AAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTCAAA
* *
50805121 AAAAAAGTTC-TTTTTTTTTCGTTTCAAAATCAGATATCAGTATACGA
63 AAAAAA-TTCTTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGA
50805168 AAAAAGT
1 AAAAAGT
50805175 GACAGGCCAG
Statistics
Matches: 205, Mismatches: 11, Indels: 13
0.90 0.05 0.06
Matches are distributed among these distances:
106 43 0.21
107 7 0.03
108 22 0.11
109 84 0.41
110 8 0.04
112 41 0.20
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (109 bp):
AAAAAGTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTCAAAAAA
AAATTCTTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGA
Found at i:50805638 original size:71 final size:72
Alignment explanation
Indices: 50805553--50805691 Score: 226
Period size: 72 Copynumber: 1.9 Consensus size: 72
50805543 TGACAGGCCA
* *
50805553 AAACCCAAAAAATTAA-TTTTTTAAGTCTGACACAATTATTAGGCAATCATGGTTACAAAAAACG
1 AAACCCAAAAAATTAATTTTTTTAAGTCTGACACAATTACTAGGCAATCATGGGTACAAAAAACG
50805617 AGTGGGT
66 AGTGGGT
* * *
50805624 AAACCCAAAGAATTAATTTTTTTAAGTCTGACATAATTACTAGGCAATCATGGGTGCAAAAAACG
1 AAACCCAAAAAATTAATTTTTTTAAGTCTGACACAATTACTAGGCAATCATGGGTACAAAAAACG
50805689 AGT
66 AGT
50805692 AGATACTGTT
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
71 15 0.24
72 47 0.76
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (72 bp):
AAACCCAAAAAATTAATTTTTTTAAGTCTGACACAATTACTAGGCAATCATGGGTACAAAAAACG
AGTGGGT
Found at i:50807218 original size:2 final size:2
Alignment explanation
Indices: 50807213--50807250 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
50807203 TGTATGTGAC
*
50807213 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AC AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
50807251 TTTGTTTCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:50813473 original size:50 final size:50
Alignment explanation
Indices: 50813408--50813802 Score: 275
Period size: 50 Copynumber: 7.8 Consensus size: 50
50813398 ACTATTATCA
* * *
50813408 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTT
1 TTCGGTACACATAGTAGCCTACACATAGTACTACACACGTGATCAAACTT
* * * * *
50813458 TTCGGTTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAA-TA
1 TTCGGTACACATAGTAGCCTACACATAGTACTACACACGTGATCA--AACTT
* * * * *
50813509 TCCGATACACATA-TCAGCTTGCACATAGTACTACACACGTGATCGAAGC-T
1 TTCGGTACACATAGT-AGCCTACACATAGTACTACACACGTGATC-AAACTT
* * * * * ***
50813559 ATCCGTACGCATAGTAGCCTACACATAGTACTACACATGCGA-C-CTTTT
1 TTCGGTACACATAGTAGCCTACACATAGTACTACACACGTGATCAAACTT
* * * *
50813607 ATTCCGGTACACGTAGTAGCCTACACATAGTACTACACATGTGACCATTAA-TA
1 -TT-CGGTACACATAGTAGCCTACACATAGTACTACACACGTGATCA--AACTT
* * * * * * *
50813660 TCCGATACACATAGCAGCTTGCACATAGTACTACACACGTGATCGAAGCTA
1 TTCGGTACACATAGTAGCCTACACATAGTACTACACACGTGATC-AAACTT
* * * * ***
50813711 TCCGGTACGCATAGTAGCCTACACATAGTACTACACATGCGA-C-CTTTT
1 TTCGGTACACATAGTAGCCTACACATAGTACTACACACGTGATCAAACTT
*
50813759 ATTCCGGTACACGTAGTAGCCTACACATAGTACTACACACGTGA
1 -TT-CGGTACACATAGTAGCCTACACATAGTACTACACACGTGA
50813803 CCATCACTTT
Statistics
Matches: 270, Mismatches: 58, Indels: 34
0.75 0.16 0.09
Matches are distributed among these distances:
48 2 0.01
49 3 0.01
50 148 0.55
51 111 0.41
52 5 0.02
53 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (50 bp):
TTCGGTACACATAGTAGCCTACACATAGTACTACACACGTGATCAAACTT
Found at i:50813552 original size:101 final size:101
Alignment explanation
Indices: 50813413--50813806 Score: 354
Period size: 101 Copynumber: 3.9 Consensus size: 101
50813403 TATCATTCGA
* * * *
50813413 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTTTTCGGTTCACGTAGTAGCCT
1 TACACATAGTAGCCTACACATAGTACTACACACGTGATCAAACTTTTCGGTACACATAGTAGCCT
* *
50813478 GCACATAGTACTACACACGTGACCATTAATATCCGA
66 ACACATAGTACTACACACGTGACCATTAATATCCGG
* * * * * *
50813514 TACACATA-TCAGCTTGCACATAGTACTACACACGTGATCGAAGC-TATCCGTACGCATAGTAGC
1 TACACATAGT-AGCCTACACATAGTACTACACACGTGATC-AAACTTTTCGGTACACATAGTAGC
* * * *
50813577 CTACACATAGTACTACACATGCGACCTTTTAT-TCCGG
64 CTACACATAGTACTACACACGTGACCATTAATATCCGG
* * * * * * *
50813614 TACACGTAGTAGCCTACACATAGTACTACACATGTGACCATTAA-TATCCGATACACATAGCAGC
1 TACACATAGTAGCCTACACATAGTACTACACACGTGATCA--AACTTTTCGGTACACATAGTAGC
* * * *
50813678 TTGCACATAGTACTACACACGTGATCGA--AGCTATCCGG
64 CTACACATAGTACTACACACGTGA-CCATTA-ATATCCGG
* * * *** *
50813716 TACGCATAGTAGCCTACACATAGTACTACACATGCGA-C-CTTTTATTCCGGTACACGTAGTAGC
1 TACACATAGTAGCCTACACATAGTACTACACACGTGATCAAACTT-TT-CGGTACACATAGTAGC
50813779 CTACACATAGTACTACACACGTGACCAT
64 CTACACATAGTACTACACACGTGACCAT
50813807 CACTTTCACT
Statistics
Matches: 231, Mismatches: 49, Indels: 26
0.75 0.16 0.08
Matches are distributed among these distances:
99 2 0.01
100 40 0.17
101 146 0.63
102 43 0.19
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (101 bp):
TACACATAGTAGCCTACACATAGTACTACACACGTGATCAAACTTTTCGGTACACATAGTAGCCT
ACACATAGTACTACACACGTGACCATTAATATCCGG
Found at i:50813693 original size:151 final size:152
Alignment explanation
Indices: 50813460--50813806 Score: 651
Period size: 151 Copynumber: 2.3 Consensus size: 152
50813450 TCAAACTTTT
* * *
50813460 CGGTTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAATATCCGATACACATATCA
1 CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCATTAATATCCGATACACATAGCA
50813525 GCTTGCACATAGTACTACACACGTGATCGAAGCTATCC-GTACGCATAGTAGCCTACACATAGTA
66 GCTTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCATAGTAGCCTACACATAGTA
50813589 CTACACATGCGACCTTTTATTC
131 CTACACATGCGACCTTTTATTC
*
50813611 CGGTACACGTAGTAGCCTACACATAGTACTACACATGTGACCATTAATATCCGATACACATAGCA
1 CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCATTAATATCCGATACACATAGCA
50813676 GCTTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCATAGTAGCCTACACATAGTA
66 GCTTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCATAGTAGCCTACACATAGTA
50813741 CTACACATGCGACCTTTTATTC
131 CTACACATGCGACCTTTTATTC
50813763 CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCAT
1 CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCAT
50813807 CACTTTCACT
Statistics
Matches: 190, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
151 99 0.52
152 91 0.48
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (152 bp):
CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCATTAATATCCGATACACATAGCA
GCTTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCATAGTAGCCTACACATAGTA
CTACACATGCGACCTTTTATTC
Found at i:50813735 original size:102 final size:101
Alignment explanation
Indices: 50813609--50813802 Score: 289
Period size: 102 Copynumber: 1.9 Consensus size: 101
50813599 GACCTTTTAT
* *
50813609 TCCGGTACACGTAGTAGCCTACACATAGTACTACACATGTGACCATTAATATCCGATACACATAG
1 TCCGGTACACATAGTAGCCTACACATAGTACTACACATGCGACCATTAAT-TCCGATACACATAG
* *
50813674 CAGCTTGCACATAGTACTACACACGTGATCGAAGCTA
65 CAGCCTACACATAGTACTACACACGTGATCGAAGCTA
* * * * * *
50813711 TCCGGTACGCATAGTAGCCTACACATAGTACTACACATGCGACCTTTTATTCCGGTACACGTAGT
1 TCCGGTACACATAGTAGCCTACACATAGTACTACACATGCGACCATTAATTCCGATACACATAGC
50813776 AGCCTACACATAGTACTACACACGTGA
66 AGCCTACACATAGTACTACACACGTGA
50813803 CCATCACTTT
Statistics
Matches: 82, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
101 37 0.45
102 45 0.55
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (101 bp):
TCCGGTACACATAGTAGCCTACACATAGTACTACACATGCGACCATTAATTCCGATACACATAGC
AGCCTACACATAGTACTACACACGTGATCGAAGCTA
Found at i:50817611 original size:18 final size:18
Alignment explanation
Indices: 50817545--50817635 Score: 57
Period size: 18 Copynumber: 5.2 Consensus size: 18
50817535 ATTTTCAATA
50817545 TTATTATAAATACAT-ATT
1 TTATTATAAATA-ATAATT
* *
50817563 TAATTAT--ATAATAA-A
1 TTATTATAAATAATAATT
* *
50817578 TTATT-TACTATTATAATT
1 TTATTATA-AATAATAATT
* *
50817596 TTATTTTAAATAATAAAT
1 TTATTATAAATAATAATT
* *
50817614 TTAATATGAATAATAATT
1 TTATTATAAATAATAATT
50817632 TTAT
1 TTAT
50817636 ATTCTGAGAA
Statistics
Matches: 54, Mismatches: 13, Indels: 12
0.68 0.16 0.15
Matches are distributed among these distances:
14 1 0.02
15 6 0.11
16 4 0.07
17 6 0.11
18 35 0.65
19 2 0.04
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (18 bp):
TTATTATAAATAATAATT
Found at i:50818415 original size:2 final size:2
Alignment explanation
Indices: 50818408--50818432 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
50818398 ATAACTATGA
50818408 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
50818433 ATAAATCTCA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50818848 original size:29 final size:27
Alignment explanation
Indices: 50818782--50818848 Score: 80
Period size: 31 Copynumber: 2.3 Consensus size: 27
50818772 GAGTTTCACG
*
50818782 TGTATAATTGCACCAAATTAAAGTTCA
1 TGTATAATTGCACCAAATCAAAGTTCA
*
50818809 TGTATACAATTGCACATTAAATCAAAGTTCA
1 TGTAT--AATTGCAC--CAAATCAAAGTTCA
50818840 TGTATAATT
1 TGTATAATT
50818849 TTGAGATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 5 0.15
29 12 0.35
31 17 0.50
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.36
Consensus pattern (27 bp):
TGTATAATTGCACCAAATCAAAGTTCA
Found at i:50820969 original size:19 final size:20
Alignment explanation
Indices: 50820945--50820988 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
50820935 AAAGCAGAAA
*
50820945 AAATCC-AAAATTATATTAT
1 AAATCCAAAAATTATATCAT
50820964 AAATCCTAAAAAATTATATCAT
1 AAATCC--AAAAATTATATCAT
50820986 AAA
1 AAA
50820989 AAATAACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
22 15 0.71
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (20 bp):
AAATCCAAAAATTATATCAT
Found at i:50822884 original size:39 final size:39
Alignment explanation
Indices: 50822836--50822965 Score: 201
Period size: 39 Copynumber: 3.3 Consensus size: 39
50822826 TTTAAAAATT
50822836 TTAAAAAATTAAAAAAAAGTATTTTAAAAATA-TTTAAAA
1 TTAAAAAATT-AAAAAAAGTATTTTAAAAATATTTTAAAA
50822875 TTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA
1 TTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA
* *
50822914 TTAAAAAAATT-AAAAAAGTATGTAAAAAATATTTTAAAA
1 TT-AAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA
*
50822953 TTAAAAAAATAAA
1 TTAAAAAATTAAA
50822966 TATATTTATT
Statistics
Matches: 85, Mismatches: 3, Indels: 6
0.90 0.03 0.06
Matches are distributed among these distances:
38 28 0.33
39 49 0.58
40 8 0.09
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (39 bp):
TTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA
Found at i:50829151 original size:19 final size:20
Alignment explanation
Indices: 50829128--50829173 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
50829118 TATTTTCAGT
50829128 AATTTATTTAATTTA-AATA
1 AATTTATTTAATTTATAATA
*
50829147 TATTTGA--TAATTTATAATA
1 AATTT-ATTTAATTTATAATA
50829166 AATTTATT
1 AATTTATT
50829174 AGATAGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 7
0.70 0.07 0.23
Matches are distributed among these distances:
18 8 0.38
19 12 0.57
20 1 0.05
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
AATTTATTTAATTTATAATA
Found at i:50829844 original size:30 final size:30
Alignment explanation
Indices: 50829810--50829871 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
50829800 CTTAACAAGA
50829810 AAATGCCTCTAAAAAAATAACAAAATTAAC
1 AAATGCCTCTAAAAAAATAACAAAATTAAC
* *
50829840 AAATGCCTTTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAAAAATAACAAAATTAAC
50829870 AA
1 AA
50829872 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.60, C:0.15, G:0.03, T:0.23
Consensus pattern (30 bp):
AAATGCCTCTAAAAAAATAACAAAATTAAC
Found at i:50832791 original size:13 final size:14
Alignment explanation
Indices: 50832760--50832796 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
50832750 TTTATGTGTT
50832760 TATTA-TGTGTGAA
1 TATTATTGTGTGAA
*
50832773 TTTTATTGTGTGAA
1 TATTATTGTGTGAA
50832787 -ATTATTGTGT
1 TATTATTGTGT
50832797 TCTAATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.24, C:0.00, G:0.22, T:0.54
Consensus pattern (14 bp):
TATTATTGTGTGAA
Found at i:50833920 original size:43 final size:43
Alignment explanation
Indices: 50833872--50833992 Score: 131
Period size: 43 Copynumber: 2.8 Consensus size: 43
50833862 TTTTTGATAA
50833872 GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGA-CTT
1 GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATC-T
* ***
50833915 GTGTTTTTGTGTAAGACC-CTGT-TCGGGACAAGGGCATCGATCT
1 GTGTTTTCGTGTAAGACCAC-GTCT-GGGACGTTGGCATCGATCT
* * *
50833958 GTGATTACATGTAAGACCACGTCTGGGACGTTGGC
1 GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGC
50833993 GTTGTACGAA
Statistics
Matches: 62, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
42 2 0.03
43 57 0.92
44 3 0.05
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.31
Consensus pattern (43 bp):
GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATCT
Found at i:50838249 original size:23 final size:23
Alignment explanation
Indices: 50838162--50838245 Score: 123
Period size: 23 Copynumber: 3.7 Consensus size: 23
50838152 TCTGTAGAGG
50838162 TGGCGTATTCTGTAAAGCCTTTA
1 TGGCGTATTCTGTAAAGCCTTTA
50838185 TGGCGTATTCTGTAAAGCCTTTA
1 TGGCGTATTCTGTAAAGCCTTTA
* * * *
50838208 TGGCGTATTCTGTGATGCCTGTG
1 TGGCGTATTCTGTAAAGCCTTTA
*
50838231 TGGCATATTCTGTAA
1 TGGCGTATTCTGTAA
50838246 TGCCCTTGGG
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (23 bp):
TGGCGTATTCTGTAAAGCCTTTA
Found at i:50846963 original size:43 final size:43
Alignment explanation
Indices: 50846897--50847166 Score: 271
Period size: 43 Copynumber: 6.3 Consensus size: 43
50846887 TTTTAGAAAT
** * *
50846897 AAACGCCGCTAAAGGTCATGACCTTTAGTGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
* *
50846940 AAACGCCGCTAAAGACCAGGACCTTTAGCGACGC-TTTCTCAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
* * * *
50846982 GAACACCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
* * * * * * *
50847025 AAACGCTGCTAAATACCATGACCTTTAGTGACGCTTTACTCAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
* * **
50847068 AAACGCCACTATAGACCATGG-CCTTTAGCGGCGCTTTTGTCAC
1 AAACGCCGCTAAAGACCA-GGACCTTTAGCGGCGCTTTTCCCAC
*
50847111 AAACGCCGCTAAAGA--ATGTGACCTTTAGCGGCGCTTCTCGCCA-
1 AAACGCCGCTAAAGACCA-G-GACCTTTAGCGGCGCTTTTC-CCAC
50847154 AAACGCCGCTAAA
1 AAACGCCGCTAAA
50847167 AACATATCAT
Statistics
Matches: 187, Mismatches: 35, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
41 3 0.02
42 37 0.20
43 144 0.77
44 3 0.02
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
Found at i:50847048 original size:85 final size:86
Alignment explanation
Indices: 50846913--50847146 Score: 326
Period size: 86 Copynumber: 2.7 Consensus size: 86
50846903 CGCTAAAGGT
* *
50846913 CATGACCTTTAGTGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGACCTTTAGCGACGCTTT-
1 CATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTA
* *
50846977 CTCACGAACACCGCTATAGAC
66 CTCACAAACACCACTATAGAC
* * *
50846998 CATGACCTTTAGCGGCGCTTTTCCCACAAACGCTGCTAAATACCATGACCTTTAGTGACGCTTTA
1 CATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTA
*
50847063 CTCACAAACGCCACTATAGAC
66 CTCACAAACACCACTATAGAC
* ** *** *
50847084 CATGGCCTTTAGCGGCGCTTTTGTCACAAACGCCGCTAAAGAATGTGACCTTTAGCGGCGCTT
1 CATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGACGCTT
50847147 CTCGCCAAAA
Statistics
Matches: 130, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
85 59 0.45
86 71 0.55
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (86 bp):
CATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTA
CTCACAAACACCACTATAGAC
Found at i:50848507 original size:16 final size:16
Alignment explanation
Indices: 50848488--50848522 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
50848478 TTTCCACTGA
*
50848488 CAAATTATAACAAAGG
1 CAAAATATAACAAAGG
50848504 CAAAATATAACAAAGG
1 CAAAATATAACAAAGG
50848520 CAA
1 CAA
50848523 TACCTTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.60, C:0.14, G:0.11, T:0.14
Consensus pattern (16 bp):
CAAAATATAACAAAGG
Found at i:50850430 original size:15 final size:15
Alignment explanation
Indices: 50850410--50850438 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
50850400 GTCCATTATA
50850410 GTGATTACCTGAATC
1 GTGATTACCTGAATC
50850425 GTGATTACCTGAAT
1 GTGATTACCTGAAT
50850439 AATACAAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (15 bp):
GTGATTACCTGAATC
Found at i:50851741 original size:32 final size:32
Alignment explanation
Indices: 50851700--50851763 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
50851690 CGCGTTTTTT
50851700 ACGCCGCTATTGCTTAAAAACACCGTAAAAAA
1 ACGCCGCTATTGCTTAAAAACACCGTAAAAAA
*
50851732 ACGCCGCTATTGCTTAAAAACGCCGTAAAAAA
1 ACGCCGCTATTGCTTAAAAACACCGTAAAAAA
50851764 TTATTTCATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.42, C:0.25, G:0.14, T:0.19
Consensus pattern (32 bp):
ACGCCGCTATTGCTTAAAAACACCGTAAAAAA
Found at i:50852115 original size:11 final size:11
Alignment explanation
Indices: 50852101--50852160 Score: 56
Period size: 10 Copynumber: 5.7 Consensus size: 11
50852091 AAAATAAAAG
*
50852101 TTTAAAATCTT
1 TTTAAAATCAT
50852112 TTTAAAAT--T
1 TTTAAAATCAT
* *
50852121 TTTAAAA-AAA
1 TTTAAAATCAT
50852131 TTTAAAATC-T
1 TTTAAAATCAT
50852141 TTTAAAATTCAT
1 TTTAAAA-TCAT
50852153 TTTAAAAT
1 TTTAAAAT
50852161 TTTAAATCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
9 8 0.20
10 14 0.34
11 11 0.27
12 8 0.20
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (11 bp):
TTTAAAATCAT
Found at i:50852159 original size:29 final size:29
Alignment explanation
Indices: 50852094--50852168 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 29
50852084 TATTATAAAA
50852094 ATAAAAGTTTAAAATCTTTTTAAAATTTTT
1 ATAAAA-TTTAAAATCTTTTTAAAATTTTT
*
50852124 AAAAAAATTTAAAATC-TTTTAAAATTCATTT
1 -ATAAAATTTAAAATCTTTTTAAAATT--TTT
*
50852155 -TAAAATTTTAAATC
1 ATAAAATTTAAAATC
50852169 ACGAAAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
29 22 0.56
30 9 0.23
31 8 0.21
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.45
Consensus pattern (29 bp):
ATAAAATTTAAAATCTTTTTAAAATTTTT
Found at i:50852165 original size:30 final size:30
Alignment explanation
Indices: 50852094--50852166 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
50852084 TATTATAAAA
*
50852094 ATAAAAGTTTAAAATCTTTTTAAAATTTTT
1 ATAAAAATTTAAAATCTTTTTAAAATTTTT
*
50852124 AAAAAAATTTAAAATC-TTTTAAAATTCATTT
1 ATAAAAATTTAAAATCTTTTTAAAATT--TTT
*
50852155 -TAAAATTTTAAA
1 ATAAAAATTTAAA
50852167 TCACGAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 10 0.27
30 24 0.65
31 3 0.08
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (30 bp):
ATAAAAATTTAAAATCTTTTTAAAATTTTT
Found at i:50852166 original size:20 final size:20
Alignment explanation
Indices: 50852101--50852163 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
50852091 AAAATAAAAG
*
50852101 TTTAAAATCTTTTTAAAATT
1 TTTAAAATCATTTTAAAATT
* *
50852121 TTTAAAA-AAATTTAAAATCT
1 TTTAAAATCATTTTAAAAT-T
50852141 TTTAAAATTCATTTTAAAATT
1 TTTAAAA-TCATTTTAAAATT
50852162 TT
1 TT
50852164 AAATCACGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 8 0.23
20 15 0.43
21 3 0.09
22 9 0.26
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTAAAATCATTTTAAAATT
Found at i:50853472 original size:41 final size:41
Alignment explanation
Indices: 50853413--50853676 Score: 367
Period size: 41 Copynumber: 6.6 Consensus size: 41
50853403 AGATTTTATT
*
50853413 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACTAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
*
50853454 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGTACGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
*
50853495 ATTAGCGGCGGTTTTTCAAAAACGCCGCTAAA---A-GAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
*
50853532 A-TAGCAGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
* * * * *
50853572 ATTCGCGGCACCTTTTCAAAAACGCCACTGAAGGTACGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
* * * * *
50853613 ATTAGCAGCGCTTGTTCAAAAATGCTGCTAAAGGTACCAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
50853654 ATTAGCGGCGCTTTTTCAAAAAC
1 ATTAGCGGCGCTTTTTCAAAAAC
50853677 ACCACTATAG
Statistics
Matches: 193, Mismatches: 25, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
36 28 0.15
37 5 0.03
38 1 0.01
39 1 0.01
40 5 0.03
41 153 0.79
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
Found at i:50853573 original size:118 final size:121
Alignment explanation
Indices: 50853413--50853676 Score: 365
Period size: 118 Copynumber: 2.2 Consensus size: 121
50853403 AGATTTTATT
* *
50853413 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACTAGCATTAGCGGC-GCTTCTTCAAAAAC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGCATTAGCGGCACCTT-TTCAAAAAC
* * * * *
50853477 GCCGCTAAAGGTACGAGCATTAGCGGCGGTTTTTCAAAAACGCCGCTAAA-A-GAGC
65 GCCACTAAAGGTACGAGCATTAGCAGCGCTTGTTCAAAAACGCCGCTAAAGACCAGC
* *
50853532 A-TAGCAGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGCATTCGCGGCACCTTTTCAAAAACG
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGCATTAGCGGCACCTTTTCAAAAACG
* * *
50853596 CCACTGAAGGTACGAGCATTAGCAGCGCTTGTTCAAAAATGCTGCTAAAGGTACCAGC
66 CCACTAAAGGTACGAGCATTAGCAGCGCTTGTTCAAAAACGCCGCTAAA-G-ACCAGC
50853654 ATTAGCGGCGCTTTTTCAAAAAC
1 ATTAGCGGCGCTTTTTCAAAAAC
50853677 ACCACTATAG
Statistics
Matches: 126, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
118 97 0.77
119 4 0.03
121 1 0.01
122 4 0.03
123 20 0.16
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (121 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGCATTAGCGGCACCTTTTCAAAAACG
CCACTAAAGGTACGAGCATTAGCAGCGCTTGTTCAAAAACGCCGCTAAAGACCAGC
Found at i:50853797 original size:39 final size:38
Alignment explanation
Indices: 50853754--50853859 Score: 104
Period size: 40 Copynumber: 2.7 Consensus size: 38
50853744 AAAAATGCCA
*
50853754 CTAATGCTTATTTTTAGCGACGTTTTCAAAAATGCGCCG
1 CTAATGCTTATTTTTAGCGGCGTTTTCAAAAA-GCGCCG
* * ** * *
50853793 CTAATGCTCGATCTTTAGCGGCGTTTTTGTAAAAGTGCTG
1 CTAATGCT-TATTTTTAGCGGCG-TTTTCAAAAAGCGCCG
*
50853833 CTAATGCTTGATTTTTAGTGGCGTTTT
1 CTAATGCTT-ATTTTTAGCGGCGTTTT
50853860 TTGTCCAAAC
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
39 12 0.22
40 34 0.63
41 8 0.15
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.41
Consensus pattern (38 bp):
CTAATGCTTATTTTTAGCGGCGTTTTCAAAAAGCGCCG
Found at i:50854899 original size:12 final size:12
Alignment explanation
Indices: 50854884--50854925 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
50854874 TTTGAATGAA
50854884 GGAGTGAATCAT
1 GGAGTGAATCAT
*
50854896 GGAGTG-ATTAGT
1 GGAGTGAATCA-T
50854908 GGGAGTGAATCAT
1 -GGAGTGAATCAT
50854921 GGAGT
1 GGAGT
50854926 TTGAGGAGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 3 0.12
12 12 0.48
13 7 0.28
14 3 0.12
ACGTcount: A:0.29, C:0.05, G:0.40, T:0.26
Consensus pattern (12 bp):
GGAGTGAATCAT
Found at i:50856151 original size:27 final size:27
Alignment explanation
Indices: 50856031--50856172 Score: 144
Period size: 27 Copynumber: 5.3 Consensus size: 27
50856021 GTAATGGGCC
*
50856031 TAAAATGACCG-AATACCCTCGATGGT
1 TAAAATGACCGAAATACCCTCGATGGG
* * *
50856057 TAAAATGATCGAAAAACCCT-GAAGGG
1 TAAAATGACCGAAATACCCTCGATGGG
* * *
50856083 TAAAATTACCGAAACACCATCGATGGG
1 TAAAATGACCGAAATACCCTCGATGGG
* *
50856110 TAAAATAACCAAAATACCCTCGATGGG
1 TAAAATGACCGAAATACCCTCGATGGG
* * * * *
50856137 TAAAACGACCGAAATACCTTTGAAGGA
1 TAAAATGACCGAAATACCCTCGATGGG
50856164 TAAAATGAC
1 TAAAATGAC
50856173 TATTATACCC
Statistics
Matches: 93, Mismatches: 21, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
26 30 0.32
27 63 0.68
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCGATGGG
Found at i:50856564 original size:30 final size:31
Alignment explanation
Indices: 50856524--50856582 Score: 102
Period size: 30 Copynumber: 1.9 Consensus size: 31
50856514 ACTGCATTGT
50856524 ACTGTTTACTGTACTGGGCTAAGGCCCACTC
1 ACTGTTTACTGTACTGGGCTAAGGCCCACTC
*
50856555 ACTG-TTACTGTACTGGGCTTAGGCCCAC
1 ACTGTTTACTGTACTGGGCTAAGGCCCAC
50856583 ATTGTACTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.19, C:0.29, G:0.24, T:0.29
Consensus pattern (31 bp):
ACTGTTTACTGTACTGGGCTAAGGCCCACTC
Found at i:50864148 original size:26 final size:26
Alignment explanation
Indices: 50864093--50864225 Score: 162
Period size: 26 Copynumber: 5.2 Consensus size: 26
50864083 AGGGTTGATC
* * *
50864093 TTTTACATATGCCAC-AAGACTTTCA
1 TTTTAGATATGCCACAAAGGCTTCCA
50864118 TTTTAGAT-TAGCCACAAAGGCTTCCA
1 TTTTAGATAT-GCCACAAAGGCTTCCA
* *
50864144 TTTTAGATACGCCACAAAGGCTTCTA
1 TTTTAGATATGCCACAAAGGCTTCCA
* * *
50864170 TTATAGATATGCCATAAAGGCTTCTA
1 TTTTAGATATGCCACAAAGGCTTCCA
*
50864196 TTTTAGATATGCCACAAAGGCTTTCA
1 TTTTAGATATGCCACAAAGGCTTCCA
50864222 TTTT
1 TTTT
50864226 CTGATACGTT
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
24 1 0.01
25 12 0.13
26 80 0.86
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (26 bp):
TTTTAGATATGCCACAAAGGCTTCCA
Found at i:50874275 original size:91 final size:91
Alignment explanation
Indices: 50874128--50874335 Score: 344
Period size: 91 Copynumber: 2.3 Consensus size: 91
50874118 TTGATTTTAG
* *
50874128 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
50874193 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
50874220 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
50874285 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
*
50874311 CAAATTCATATAAGAAAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
50874336 GTTATAATTA
Statistics
Matches: 109, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
91 93 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:50874304 original size:26 final size:28
Alignment explanation
Indices: 50874250--50874310 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
50874240 TATTATCAAG
* *
50874250 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
50874278 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
50874304 AATTATA
1 AATTATA
50874311 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:50874310 original size:44 final size:43
Alignment explanation
Indices: 50874168--50874310 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
50874158 GAATTTTATG
* *
50874168 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
50874212 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
50874259 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
50874303 AAATTATA
1 AAATTATA
50874311 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:50874428 original size:59 final size:58
Alignment explanation
Indices: 50874362--50874752 Score: 220
Period size: 66 Copynumber: 6.5 Consensus size: 58
50874352 ATTTTATTAA
*
50874362 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAAATTATCTTTTA-AGT
* * ** *
50874421 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTA-TTAAGAATT-T-TATTAA-
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTAA-AATTATCTTTTAAG
50874482 -
58 T
* *
50874482 ATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTACAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAAATTATCTTTTA-AGT
* * ** *
50874541 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTA-TTAAGAATT-T-TATTAA-
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTAA-AATTATCTTTTAAG
50874602 -
58 T
* * *
50874602 ATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTT-AAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAAATTATCTTTTA-AGT
* * * *
50874661 ATCATATATTATGATATAAGCAAATTCATATAATAATATTAATTA-TTAAGAATT-T-TATTAA-
1 ATCATATATT-TTA-ATTA--AAA-T-ATAT-TTAATATTAATTATTTAA-AATTATCTTTTAAG
50874722 -
58 T
* *
50874722 ATTATATATTTTAATTATAATATATTTAATA
1 ATCATATATTTTAATTAAAATATATTTAATA
50874753 ATGTTAAGTA
Statistics
Matches: 254, Mismatches: 40, Indels: 81
0.68 0.11 0.22
Matches are distributed among these distances:
54 34 0.13
55 17 0.07
56 13 0.05
57 10 0.04
59 33 0.13
60 20 0.08
61 32 0.13
63 12 0.05
64 17 0.07
65 21 0.08
66 45 0.18
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.49
Consensus pattern (58 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAAATTATCTTTTAAGT
Found at i:50874475 original size:120 final size:120
Alignment explanation
Indices: 50874351--50874752 Score: 707
Period size: 120 Copynumber: 3.4 Consensus size: 120
50874341 AATTATTTTA
*
50874351 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTT
50874416 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
50874471 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTT
*
50874536 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
50874591 AATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTT-AAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
* * * *
50874655 TATAGTATCATATATTATGATATAAGCAAATTCATATAATAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
50874711 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATA
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
50874753 ATGTTAAGTA
Statistics
Matches: 270, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
120 268 0.99
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:50874500 original size:18 final size:17
Alignment explanation
Indices: 50874472--50874506 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
50874462 ATTATTAAGA
*
50874472 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
50874489 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
50874507 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:50888488 original size:23 final size:23
Alignment explanation
Indices: 50888436--50888489 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
50888426 TAAACATTGA
* * *
50888436 GGTGTACTGTGTAAAGCCTTTGT
1 GGTGTATTCTGTAAAGCCTTTAT
**
50888459 GACGTATTCTGTAAAGCCTTTAT
1 GGTGTATTCTGTAAAGCCTTTAT
50888482 GGTGTATT
1 GGTGTATT
50888490 TTGCGATGCT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.20, C:0.13, G:0.26, T:0.41
Consensus pattern (23 bp):
GGTGTATTCTGTAAAGCCTTTAT
Found at i:50891188 original size:21 final size:21
Alignment explanation
Indices: 50891144--50891203 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 21
50891134 GTCGACCCAT
* * *
50891144 ACCTTGTGTTGACCCGTAGCA
1 ACCTTGTGTTGAGCCATAACA
*
50891165 ACCTTGTGTTGAGCCATAATA
1 ACCTTGTGTTGAGCCATAACA
* * *
50891186 ACCATATGTTGGGCCATA
1 ACCTTGTGTTGAGCCATA
50891204 GCTTGAATGT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (21 bp):
ACCTTGTGTTGAGCCATAACA
Found at i:50894048 original size:18 final size:18
Alignment explanation
Indices: 50894025--50894069 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
50894015 TGAAATAACG
50894025 GTTCACAT-GAAAGAAACA
1 GTTCACATAG-AAGAAACA
*
50894043 GTTCACATAGAAGAAGCA
1 GTTCACATAGAAGAAACA
*
50894061 GCTCACATA
1 GTTCACATA
50894070 AAATAGTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 23 0.96
19 1 0.04
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (18 bp):
GTTCACATAGAAGAAACA
Found at i:50894641 original size:21 final size:22
Alignment explanation
Indices: 50894602--50894656 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
50894592 TCACATACCG
* *
50894602 CATAC-AGGCTTGTATGTTAA-
1 CATACAAGGTTTGCATGTTAAT
50894622 CATACAAGGTTTGCATGTTAAT
1 CATACAAGGTTTGCATGTTAAT
50894644 CA-ACATAGGTTTG
1 CATACA-AGGTTTG
50894657 TATCTCATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 5 0.17
21 16 0.53
22 9 0.30
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.35
Consensus pattern (22 bp):
CATACAAGGTTTGCATGTTAAT
Found at i:50894875 original size:37 final size:37
Alignment explanation
Indices: 50894831--50894915 Score: 98
Period size: 38 Copynumber: 2.3 Consensus size: 37
50894821 TGGTTTGCAC
*
50894831 ATAGGTAGGGCTCACACATCACATACAGGGTTCAAAA
1 ATAGGTAGGGCTCACACATCAAATACAGGGTTCAAAA
* ** * * *
50894868 ATAGGTAGGGGTTTGCACCTCAAATACAGGGTTCATAT
1 ATAGGTA-GGGCTCACACATCAAATACAGGGTTCAAAA
50894906 ATAGGTAGGG
1 ATAGGTAGGG
50894916 GTTCGCACTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
37 10 0.25
38 30 0.75
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (37 bp):
ATAGGTAGGGCTCACACATCAAATACAGGGTTCAAAA
Found at i:50895058 original size:17 final size:18
Alignment explanation
Indices: 50895015--50895059 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
50895005 ACAAAGGGAA
* *
50895015 GGTTCGCACTATGGTAGG
1 GGTTAGCACAATGGTAGG
*
50895033 GGTTTGCACAATGGTA-G
1 GGTTAGCACAATGGTAGG
50895050 GGTTAGCACA
1 GGTTAGCACA
50895060 TGGCTTGGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.27
Consensus pattern (18 bp):
GGTTAGCACAATGGTAGG
Found at i:50895190 original size:23 final size:22
Alignment explanation
Indices: 50895163--50895226 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
50895153 ACAAAATAGA
*
50895163 GGTTCGTATATTTATAAAGTAG
1 GGTTCGTATGTTTATAAAGTAG
*
50895185 GTGTTCGCT-TGTTTACAAAGTAG
1 G-GTTCG-TATGTTTATAAAGTAG
*
50895208 GGCTTCGCATGTTTATAAA
1 GG-TTCGTATGTTTATAAA
50895227 ACAATGGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
22 2 0.06
23 31 0.91
24 1 0.03
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (22 bp):
GGTTCGTATGTTTATAAAGTAG
Found at i:50913795 original size:21 final size:22
Alignment explanation
Indices: 50913753--50913796 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
50913743 CCTAGTTTAT
*
50913753 TTATGTTATAATTGTTGCAAAA
1 TTATGTTATAATTGTTACAAAA
50913775 TTATGTT-TAATT-TTACTAAAA
1 TTATGTTATAATTGTTAC-AAAA
50913796 T
1 T
50913797 CTATTTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 3 0.15
21 10 0.50
22 7 0.35
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (22 bp):
TTATGTTATAATTGTTACAAAA
Found at i:50921129 original size:13 final size:12
Alignment explanation
Indices: 50921111--50921142 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
50921101 CACTTTCAGG
50921111 TCATTTTCATTTT
1 TCATTTTC-TTTT
50921124 TCATTTTCTTTT
1 TCATTTTCTTTT
50921136 TCATTTT
1 TCATTTT
50921143 GGAGAAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:50924293 original size:28 final size:28
Alignment explanation
Indices: 50924236--50924386 Score: 225
Period size: 28 Copynumber: 5.5 Consensus size: 28
50924226 TAAATTGTGC
* *
50924236 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
50924263 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
50924291 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
50924319 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* * *
50924347 AGCACTAGGTGTGCGAG-CTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
50924374 AGCACTGAGTGTG
1 AGCACTAAGTGTG
50924387 TGGACTTAAT
Statistics
Matches: 114, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 35 0.31
28 79 0.69
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:50932455 original size:28 final size:28
Alignment explanation
Indices: 50932398--50932550 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
50932388 TAAATTGTGC
* *
50932398 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
50932425 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
50932453 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
50932481 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* * *
50932509 AGCACTAGGTGTGCGAG-CTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
50932536 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
50932551 GACTTAATAT
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 37 0.32
28 79 0.68
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:50932541 original size:83 final size:83
Alignment explanation
Indices: 50932398--50932550 Score: 236
Period size: 83 Copynumber: 1.8 Consensus size: 83
50932388 TAAATTGTGC
* *
50932398 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGT
50932463 GTGCGAGTTTGACTATGT
66 GTGCGAGTTTGACTATGT
* * * *
50932481 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAGGTGTGCGAG-CTGATTATATAGCACTGAG
1 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAG
50932545 TGTGCG
65 TGTGCG
50932551 GACTTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
83 38 0.60
84 25 0.40
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (83 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGT
GTGCGAGTTTGACTATGT
Found at i:50936588 original size:24 final size:24
Alignment explanation
Indices: 50936546--50936597 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
50936536 AATCAAAGTC
* * *
50936546 AAATATATTGTGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
50936570 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
50936594 AAAT
1 AAAT
50936598 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:50945455 original size:3 final size:3
Alignment explanation
Indices: 50945447--50945487 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
50945437 ACAAAGAAAA
*
50945447 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AGAG AAT AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A-AG AAG AAG A
50945488 GAATTGATGA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:50951080 original size:24 final size:24
Alignment explanation
Indices: 50951038--50951089 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
50951028 AATCAAATTC
** *
50951038 AAATATATTATGTTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
50951062 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
50951086 AAAT
1 AAAT
50951090 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:50955890 original size:16 final size:16
Alignment explanation
Indices: 50955869--50955899 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
50955859 ATCGGGTTGA
50955869 GAAAATTAATTAATTG
1 GAAAATTAATTAATTG
50955885 GAAAATTAATTAATT
1 GAAAATTAATTAATT
50955900 TAATTAAATT
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:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:50958151 original size:25 final size:26
Alignment explanation
Indices: 50958116--50958166 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
50958106 TTAAGTAGAT
*
50958116 GATTATCATT-ATTAAATTTTAATAA
1 GATTATCATTAAATAAATTTTAATAA
* *
50958141 GATTATTATTAAATATATTTTAATAA
1 GATTATCATTAAATAAATTTTAATAA
50958167 AATAATAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (26 bp):
GATTATCATTAAATAAATTTTAATAA
Found at i:50958206 original size:60 final size:60
Alignment explanation
Indices: 50958142--50958302 Score: 177
Period size: 60 Copynumber: 2.7 Consensus size: 60
50958132 TTTTAATAAG
* *
50958142 ATTATTATTAAATATATTTTAATAAAATAATAATAAATAATTTAATCATATT-TTAACATA
1 ATTATTATTAAATATATTTTAATAAAATAATAAT-AATAATTTAATAACATTCTTAACATA
* * * *
50958202 ATTATTATTAAATAAAATTTAATAAAATAAT-AT-ACAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATATATTTTAATAAAATAATAATAATAATTTAATAACATTCTTAACATA
* *
50958260 ATTATTATTAAA-ATATGAATTAATAAAACTCATAATATATAAT
1 ATTATTATTAAATATAT--TTTAATAAAA-TAATAATA-ATAAT
50958303 ATTATAAAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
57 15 0.18
58 19 0.23
59 11 0.13
60 32 0.39
61 2 0.02
63 4 0.05
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (60 bp):
ATTATTATTAAATATATTTTAATAAAATAATAATAATAATTTAATAACATTCTTAACATA
Found at i:50959482 original size:28 final size:28
Alignment explanation
Indices: 50959405--50959515 Score: 106
Period size: 28 Copynumber: 4.1 Consensus size: 28
50959395 ATGTTTATCG
* * *
50959405 TATTATTTCGCACTTTGGTGCTTATCGT
1 TATTATTTTGCACTTTGGTGCTTATTGA
* * * *
50959433 TGTAAAATTTGCACTTTAGTGCTTATTGA
1 TAT-TATTTTGCACTTTGGTGCTTATTGA
50959462 TATTATTTTGCACTTTGGTGCTTATTG-
1 TATTATTTTGCACTTTGGTGCTTATTGA
*
50959489 --TTA-TTTGCACTTT-GTGCTTAGTGA
1 TATTATTTTGCACTTTGGTGCTTATTGA
50959513 TAT
1 TAT
50959516 ATGATATGTG
Statistics
Matches: 67, Mismatches: 12, Indels: 10
0.75 0.13 0.11
Matches are distributed among these distances:
23 9 0.13
24 10 0.15
25 3 0.04
26 1 0.01
28 23 0.34
29 21 0.31
ACGTcount: A:0.19, C:0.13, G:0.18, T:0.50
Consensus pattern (28 bp):
TATTATTTTGCACTTTGGTGCTTATTGA
Found at i:50963136 original size:18 final size:18
Alignment explanation
Indices: 50963108--50963155 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
50963098 TTTGGGTCGA
50963108 GTGGG-CCACACGAGCGT
1 GTGGGCCCACACGAGCGT
50963125 GTGGGCCCACACGAGCGT
1 GTGGGCCCACACGAGCGT
50963143 GTGGGCCCACACG
1 GTGGGCCCACACG
50963156 GGCAGACCAC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 5 0.17
18 25 0.83
ACGTcount: A:0.17, C:0.33, G:0.40, T:0.10
Consensus pattern (18 bp):
GTGGGCCCACACGAGCGT
Found at i:50985169 original size:105 final size:105
Alignment explanation
Indices: 50984923--50985293 Score: 540
Period size: 103 Copynumber: 3.6 Consensus size: 105
50984913 AACCGTTATT
* * * *
50984923 GGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAACACTTAGCAACCCCTCGGGGGA
1 GGTGGATCACGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
50984988 ATCAGCACATAGCAACCCCCTTTT--CATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATAC
* * *
50985026 GGTGGAT-ATCGCACTTAGCACCACCAATGAACCCGGGAATCTGCACTTAGCAACTCCTCGGGGG
1 GGTGGATCA-CGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
50985090 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATAT
65 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATAC
*
50985131 GGTGGATCACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATCACGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
* *
50985196 ATTAGCACATAGCAACCCCC-TTTCACATTT-AAAAATAC
66 ATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATAC
**
50985234 GGTGGACTCA-GCACTTAGCAACCACCAAT-AAGTAGGGGAATCAGCACTTAGCAACCCCTC
1 GGTGGA-TCACGCACTTAGC-ACCACCAATGAA-CCGGGGAATCAGCACTTAGCAACCCCTC
50985294 TATATGTAAT
Statistics
Matches: 243, Mismatches: 18, Indels: 13
0.89 0.07 0.05
Matches are distributed among these distances:
103 103 0.42
104 48 0.20
105 91 0.37
106 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (105 bp):
GGTGGATCACGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATAC
Found at i:50992535 original size:21 final size:21
Alignment explanation
Indices: 50992509--50992553 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
50992499 GAAATCAAAC
50992509 GAGAAAGAGAAAACAAGATTA
1 GAGAAAGAGAAAACAAGATTA
50992530 GAGAAAGAGAAAACAAGATTA
1 GAGAAAGAGAAAACAAGATTA
50992551 GAG
1 GAG
50992554 GTGTGGTGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.60, C:0.04, G:0.27, T:0.09
Consensus pattern (21 bp):
GAGAAAGAGAAAACAAGATTA
Found at i:50994482 original size:24 final size:23
Alignment explanation
Indices: 50994454--50994506 Score: 88
Period size: 24 Copynumber: 2.3 Consensus size: 23
50994444 TATTTAGTAT
*
50994454 TAAATATTTTTATAATATAAGATA
1 TAAATATTTTAATAATATAA-ATA
50994478 TAAATATTTTAATAATATAAATA
1 TAAATATTTTAATAATATAAATA
50994501 TAAATA
1 TAAATA
50994507 ATGATTCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 9 0.32
24 19 0.68
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
TAAATATTTTAATAATATAAATA
Found at i:51002358 original size:108 final size:108
Alignment explanation
Indices: 51002168--51002362 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 108
51002158 TTTTCTTTGC
* *
51002168 TTAAGAATATATTGAACCTTTTGATGCGAAGAGAGATGACAACCAAGCACCCCAACTCGGTTACT
1 TTAAGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAACCAAGCACCCCAACCCGGTTACT
*
51002233 CAGCCCAACATACTCCTAATTTATTATATTTATATATATATTT
66 CAGCCCAACACACTCCTAATTTATTATATTTATATATATATTT
* * *
51002276 TTAAGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGTACCCCACCCCGGTTACT
1 TTAAGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAACCAAGCACCCCAACCCGGTTACT
*
51002341 CAGCCCAACACATTCCTAATTT
66 CAGCCCAACACACTCCTAATTT
51002363 TTTTTGTTTA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
108 80 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.29
Consensus pattern (108 bp):
TTAAGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAACCAAGCACCCCAACCCGGTTACT
CAGCCCAACACACTCCTAATTTATTATATTTATATATATATTT
Found at i:51010697 original size:16 final size:17
Alignment explanation
Indices: 51010675--51010718 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
51010665 CATCTCGTAA
51010675 TCATTTCTCATATTTTC
1 TCATTTCTCATATTTTC
*
51010692 -CATTTC-AATATTTTC
1 TCATTTCTCATATTTTC
51010707 TCA--TCTCATATT
1 TCATTTCTCATATT
51010719 CATTTCTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
14 2 0.09
15 13 0.57
16 8 0.35
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (17 bp):
TCATTTCTCATATTTTC
Found at i:51013550 original size:44 final size:44
Alignment explanation
Indices: 51013360--51013551 Score: 233
Period size: 44 Copynumber: 4.4 Consensus size: 44
51013350 ATACCCGTAA
* * *
51013360 AAATTAGATTCATTGCACCAAACTTGGAACCAA-TTTGTAATTT
1 AAATTAGATTCATTGGAACAAACTTGGAACAAACTTTGTAATTT
* * *
51013403 AAATTAGATTCATTGTAACAAACTTGGAACCAACTTTGTACTTT
1 AAATTAGATTCATTGGAACAAACTTGGAACAAACTTTGTAATTT
* * * * * *
51013447 AAATTAGATTAATTAGAACAAACTTGAAACAAAATTTTTCATTT
1 AAATTAGATTCATTGGAACAAACTTGGAACAAACTTTGTAATTT
* *
51013491 CAATTAGATTCATTGGAACAAACTTGGAACAAACTTTGTAATAT
1 AAATTAGATTCATTGGAACAAACTTGGAACAAACTTTGTAATTT
* *
51013535 AAATTATATACATTGGA
1 AAATTAGATTCATTGGA
51013552 GTAAATTAGA
Statistics
Matches: 125, Mismatches: 23, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
43 31 0.25
44 94 0.75
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (44 bp):
AAATTAGATTCATTGGAACAAACTTGGAACAAACTTTGTAATTT
Found at i:51015490 original size:24 final size:25
Alignment explanation
Indices: 51015458--51015506 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
51015448 CTTGAGCCAG
51015458 ATAACAGG-AAGCTCACAAAGAGCC
1 ATAACAGGAAAGCTCACAAAGAGCC
* * *
51015482 ATAATAGGAAAGCTCATAAGGAGCC
1 ATAACAGGAAAGCTCACAAAGAGCC
51015507 TTTCAAGAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.12
Consensus pattern (25 bp):
ATAACAGGAAAGCTCACAAAGAGCC
Found at i:51015740 original size:65 final size:65
Alignment explanation
Indices: 51015659--51015808 Score: 246
Period size: 65 Copynumber: 2.3 Consensus size: 65
51015649 CGAGCCATAT
51015659 CAGGACGCTCACAAAGAGCTGCATTTGTGTCTGCAACATATGCAGGATCACAACCGATCATAAAA
1 CAGGACGCTCACAAAGAGCTGCATTTGTGTCTGCAACATATGCAGGATCACAACCGATCATAAAA
* * * * *
51015724 CAGGACGCTCACAAAGAGTTTCATTTGTGTCTGTAATATATGCAGGATCATAACCGATCATAAAA
1 CAGGACGCTCACAAAGAGCTGCATTTGTGTCTGCAACATATGCAGGATCACAACCGATCATAAAA
*
51015789 TAGGACGCTCACAAAGAGCT
1 CAGGACGCTCACAAAGAGCT
51015809 ACGGTAGTCC
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 78 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (65 bp):
CAGGACGCTCACAAAGAGCTGCATTTGTGTCTGCAACATATGCAGGATCACAACCGATCATAAAA
Found at i:51019355 original size:41 final size:41
Alignment explanation
Indices: 51019310--51019469 Score: 293
Period size: 41 Copynumber: 3.9 Consensus size: 41
51019300 ACTGGTACTT
*
51019310 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
*
51019351 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
51019392 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
*
51019433 AGCCTTCTAGACTTAAAGTCTGAAATGTTTCACCGGC
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGC
51019470 ATAAACCTGA
Statistics
Matches: 115, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 115 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
Found at i:51039837 original size:41 final size:41
Alignment explanation
Indices: 51039699--51039833 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
51039689 TACCATTAGT
** * *
51039699 GGCGTTTTTCTTAAAAACGCGGCAAAAGGT-AGGCAATAGC
1 GGCGTTTTTCCCAAAAACGCCGTAAAAGGTAAGGCAATAGC
* * *
51039739 GGCGTTTCTCCCAAAAACACCATAAAAGGTAAGGCAATAGC
1 GGCGTTTTTCCCAAAAACGCCGTAAAAGGTAAGGCAATAGC
** * * *
51039780 GATG-TTTTCTCCATAAACGCTGTAAAAGGTAAGGCAATAGT
1 GGCGTTTTTC-CCAAAAACGCCGTAAAAGGTAAGGCAATAGC
51039821 GGCGTTTTTCCCA
1 GGCGTTTTTCCCA
51039834 TAAATGCTAG
Statistics
Matches: 75, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
40 27 0.36
41 43 0.57
42 5 0.07
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (41 bp):
GGCGTTTTTCCCAAAAACGCCGTAAAAGGTAAGGCAATAGC
Found at i:51040060 original size:278 final size:278
Alignment explanation
Indices: 51039560--51040097 Score: 934
Period size: 278 Copynumber: 1.9 Consensus size: 278
51039550 CGTATATATT
* * *
51039560 TGCTAGAACCGTATTTAGCTTGGGTGAATATACTAAGAGTGGTGCCGCCTATCAACTAGCCTCAC
1 TGCTAGAACCGTATTTAGCCTGGCTAAATATACTAAGAGTGGTGCCGCCTATCAACTAGCCTCAC
* * *
51039625 TCCAACAAATTAAGCTTTTAGCGGCATTTTTAGTGGCGTTTGGACCAAAAATGCCGCAAATATAT
66 TACAACAAATTAAGCTTTTAACAGCATTTTTAGTGGCGTTTGGACCAAAAATGCCGCAAATATAT
* * *
51039690 ACCATTAGTGGCGTTTTTCTTAAAAACGCGGCAAAAGGTAGGCAATAGCGGCGTTTCTCCCAAAA
131 ACCATTAGTGGCATTTTTCTTAAAAAAGCGGCAAAAGGTAGGCAATAGCGGCATTTCTCCCAAAA
* *
51039755 ACACCATAAAAGGTAAGGCAATAGCGATGTTTTCTCC-ATAAACGCTGTAAAAGGTAAGGCAATA
196 ACACCACAAAAGGTAAGGCAATAGCGATGTTTT-TCCTATAAACGCTGCAAAAGGTAAGGCAATA
51039819 GTGGCGTTTTTCCCATAAA
260 GTGGCGTTTTTCCCATAAA
*
51039838 TGCTAGAACCGTATTTAGCCTGGCTAAATATACTAGGAGTGGTGCCGCCTATCAACTAGCCTCAC
1 TGCTAGAACCGTATTTAGCCTGGCTAAATATACTAAGAGTGGTGCCGCCTATCAACTAGCCTCAC
51039903 TACAACAAATTAAGCTTTTAACAGCATTTTTAGTGGCGTTTGGACCAAAAATGCCGCAAATATAT
66 TACAACAAATTAAGCTTTTAACAGCATTTTTAGTGGCGTTTGGACCAAAAATGCCGCAAATATAT
*
51039968 ACCATTAGTGGCATTTTTCTTAAAAAAGCGGCAAAAGGTAGGCAATAGCGGCATTTCTCCCATAA
131 ACCATTAGTGGCATTTTTCTTAAAAAAGCGGCAAAAGGTAGGCAATAGCGGCATTTCTCCCAAAA
*
51040033 ACACCACAAAAGGTAAGGCAGTAGCGATGTTTTTCCTATAAACGCTGCAAAAGGTAAGGCAATAG
196 ACACCACAAAAGGTAAGGCAATAGCGATGTTTTTCCTATAAACGCTGCAAAAGGTAAGGCAATAG
51040098 CAATGTTTTC
Statistics
Matches: 245, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
277 3 0.01
278 242 0.99
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (278 bp):
TGCTAGAACCGTATTTAGCCTGGCTAAATATACTAAGAGTGGTGCCGCCTATCAACTAGCCTCAC
TACAACAAATTAAGCTTTTAACAGCATTTTTAGTGGCGTTTGGACCAAAAATGCCGCAAATATAT
ACCATTAGTGGCATTTTTCTTAAAAAAGCGGCAAAAGGTAGGCAATAGCGGCATTTCTCCCAAAA
ACACCACAAAAGGTAAGGCAATAGCGATGTTTTTCCTATAAACGCTGCAAAAGGTAAGGCAATAG
TGGCGTTTTTCCCATAAA
Found at i:51040074 original size:41 final size:41
Alignment explanation
Indices: 51039998--51040171 Score: 192
Period size: 41 Copynumber: 4.3 Consensus size: 41
51039988 TAAAAAAGCG
*
51039998 GCAAAAGGT-AGGCAATAGCG--GCATTTCTCCCATAAACACC
1 GCAAAAGGTAAGGCAATAGCGATG-TTTTC-CCCATAAACACC
* * * * * *
51040038 ACAAAAGGTAAGGCAGTAGCGATGTTTTTCCTATAAACGCT
1 GCAAAAGGTAAGGCAATAGCGATGTTTTCCCCATAAACACC
*
51040079 GCAAAAGGTAAGGCAATAGCAATGTTTTCCCCATAAACACC
1 GCAAAAGGTAAGGCAATAGCGATGTTTTCCCCATAAACACC
* ** *
51040120 GTAAAAGGTAAGGCAATAGCGGCGTTTTCCCCATAAACGCC
1 GCAAAAGGTAAGGCAATAGCGATGTTTTCCCCATAAACACC
*
51040161 GTAAAAGGTAA
1 GCAAAAGGTAA
51040172 AGAAAACGTC
Statistics
Matches: 112, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 8 0.07
41 100 0.89
42 3 0.03
43 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (41 bp):
GCAAAAGGTAAGGCAATAGCGATGTTTTCCCCATAAACACC
Found at i:51040241 original size:23 final size:23
Alignment explanation
Indices: 51040215--51040266 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
51040205 ATGGCGCCAT
*
51040215 TTTTATGAT-ACAAACTGATTCCA
1 TTTTATGATCACAAA-TGATACCA
* *
51040238 TTTTCT-TTCACAAATGATACCA
1 TTTTATGATCACAAATGATACCA
51040260 TTTTATG
1 TTTTATG
51040267 TCTCCCCCGA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.31, C:0.17, G:0.08, T:0.44
Consensus pattern (23 bp):
TTTTATGATCACAAATGATACCA
Found at i:51040287 original size:44 final size:44
Alignment explanation
Indices: 51040231--51040332 Score: 141
Period size: 44 Copynumber: 2.3 Consensus size: 44
51040221 GATACAAACT
*
51040231 GATTCCATTTTCTTTCACAAATGATACCATTTTATGTCTCCCCC
1 GATTCCATTTTCTTTCACAAACGATACCATTTTATGTCTCCCCC
* * * * *
51040275 GATTCCCTTTTCTTTCGCAAACGATGCCGTTTTATTTCTCCCCC
1 GATTCCATTTTCTTTCACAAACGATACCATTTTATGTCTCCCCC
*
51040319 AATTCCATTTTCTT
1 GATTCCATTTTCTT
51040333 CCCTAATTCC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.19, C:0.30, G:0.08, T:0.43
Consensus pattern (44 bp):
GATTCCATTTTCTTTCACAAACGATACCATTTTATGTCTCCCCC
Found at i:51040340 original size:18 final size:18
Alignment explanation
Indices: 51040309--51040350 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
51040299 TGCCGTTTTA
*
51040309 TTTCTCCCCCAATTCCAT
1 TTTCTTCCCCAATTCCAT
* *
51040327 TTTCTTCCCTAATTCCCT
1 TTTCTTCCCCAATTCCAT
51040345 TTTCTT
1 TTTCTT
51040351 TCTCAGCATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.12, C:0.38, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTCTTCCCCAATTCCAT
Found at i:51042839 original size:13 final size:14
Alignment explanation
Indices: 51042803--51042845 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
51042793 TGAATTTCTA
51042803 TGAACTTTTTATATTT
1 TGAA-TTTTTA-ATTT
51042819 TGAA-TTTTAATTT
1 TGAATTTTTAATTT
51042832 T-AATTTTTAATTT
1 TGAATTTTTAATTT
51042845 T
1 T
51042846 TATAAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 2 0.08
13 15 0.58
14 5 0.19
16 4 0.15
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (14 bp):
TGAATTTTTAATTT
Found at i:51042844 original size:26 final size:26
Alignment explanation
Indices: 51042771--51042845 Score: 68
Period size: 26 Copynumber: 2.9 Consensus size: 26
51042761 ATATGAATGC
* *
51042771 ATTTTAATTTTAATATAT-ATTTTGA
1 ATTTTAATTTTAATTTTTAATTTTGA
*
51042796 ATTTCT-A--TGAACTTTTTATATTTTGA
1 ATTT-TAATTTTAA-TTTTTA-ATTTTGA
51042822 ATTTTAATTTTAATTTTTAATTTT
1 ATTTTAATTTTAATTTTTAATTTT
51042846 TATAAATTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
23 3 0.08
24 3 0.08
25 6 0.15
26 18 0.46
27 6 0.15
28 3 0.08
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.63
Consensus pattern (26 bp):
ATTTTAATTTTAATTTTTAATTTTGA
Found at i:51042916 original size:13 final size:14
Alignment explanation
Indices: 51042891--51042924 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
51042881 TACTATGTTA
51042891 AATTTTATTTTTAT
1 AATTTTATTTTTAT
51042905 AATTTT-TTTTTAT
1 AATTTTATTTTTAT
51042918 AATTTTA
1 AATTTTA
51042925 AATTTAGCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
AATTTTATTTTTAT
Found at i:51043311 original size:14 final size:13
Alignment explanation
Indices: 51043292--51043321 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
51043282 TTAACTTGTT
51043292 ATTTTAAATTTTAA
1 ATTTTAAA-TTTAA
51043306 ATTTTAAATTTAA
1 ATTTTAAATTTAA
51043319 ATT
1 ATT
51043322 CATTAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
ATTTTAAATTTAA
Found at i:51043319 original size:6 final size:7
Alignment explanation
Indices: 51043292--51043321 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
51043282 TTAACTTGTT
51043292 ATTTTAA
1 ATTTTAA
51043299 ATTTTAA
1 ATTTTAA
51043306 ATTTTAA
1 ATTTTAA
51043313 A-TTTAA
1 ATTTTAA
51043319 ATT
1 ATT
51043322 CATTAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTTTAA
Found at i:51043472 original size:18 final size:19
Alignment explanation
Indices: 51043441--51043516 Score: 54
Period size: 19 Copynumber: 3.9 Consensus size: 19
51043431 AATAAAACAT
51043441 AATATAATATTTATCTTAAA
1 AATATAATATTTAT-TTAAA
51043461 AATA-AATA-TTATTTAATTA
1 AATATAATATTTATTTAA--A
51043480 AA-ATAA-ATTT-TTTAAA
1 AATATAATATTTATTTAAA
*
51043496 GGAAAATAATATTTATCTTAA
1 --AATATAATATTTAT-TTAA
51043517 TGTTAAAATT
Statistics
Matches: 46, Mismatches: 0, Indels: 18
0.72 0.00 0.28
Matches are distributed among these distances:
16 1 0.02
17 4 0.09
18 13 0.28
19 15 0.33
20 8 0.17
21 1 0.02
22 4 0.09
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (19 bp):
AATATAATATTTATTTAAA
Found at i:51047975 original size:818 final size:818
Alignment explanation
Indices: 51046400--51048032 Score: 2858
Period size: 818 Copynumber: 2.0 Consensus size: 818
51046390 CCTTCTTCAC
51046400 TATTATGGCGCACTTGCTAATCCATCTCCCTCATGAAACAAAACTTGGTGGACCGGTTTTCTACC
1 TATTATGGCGCACTTGCTAATCCATCTCCCTCATGAAACAAAACTTGGTGGACCGGTTTTCTACC
* *
51046465 AGGGTGCTAATTTATTTGTAAAGTTTTCATTCAGTCATGAATATACCTTTAGTTACTACTTTTGA
66 AGGGTGCTAATTTATCTGTAAAGTTTTCATTCAGTCATGAATATACCTTTAGTTACAACTTTTGA
* * * *
51046530 TAATGTTGTATATTATGTTTAGGTTCCTATACAAATTGAATTCTTATTGTTGTAATGAGTGTTAT
131 TAATATTGTATATCATGTTTAGGTTCCTATACAAATTGAATTATTATTGTTGTAATAAGTGTTAT
* *
51046595 CCAGAAGGATCAATTGCTGAAGGTTACTTGGCAGAGGAGTGTATGACTTTCTGCTCTAGATATTT
196 CCAGAAGGATCAATTACTGAAGGTTACTTGGCAGAGGAGTGTATGACTTTCTGCCCTAGATATTT
*
51046660 AGAAGATGTTGAAACAAGACTGAATAGAGCAAGTAGAAATGCTGGGTTCAATAATCATAACTTAG
261 AGAAGATGTTGAAACAAGACTGAATAGAGCAAGTAGAAATGCTCGGTTCAATAATCATAACTTAG
* *
51046725 CCAAAACTTATCTATTTCGAAGTTATGGAGAACCAATCGGTAAAGTTGAAATTTCACACTTAGAT
326 CCAAAACTTATCTATTTCGAAGTTATGGAGAACCAATCGATAAAGTTGAAATTGCACACTTAGAT
*
51046790 GATAAATCTTGGGTACAAGAACATCGATATGTTCTTTGTCACCACGATTCAGTTGAACCATTACA
391 GATAAATCTTGGGTACAAGAACATCGATATGTTCTTTGTCACCACGATTCAGTTGAACAATTACA
51046855 CAAGTAAGTTTTAAAATTTGATAAATATTCATCTTTTTAATTTTTTATCTTCTAACCAAGTAATC
456 CAAGTAAGTTTTAAAATTTGATAAATATTCATCTTTTTAATTTTTTATCTTCTAACCAAGTAATC
*
51046920 CACATTTTAAAGTGAGTACAAACAAGTCTTGAGATCTCGTTCACGCTCCCGAATATTACTACATC
521 CACATTTTAAAGTGAGTACAAACAAGTCTTGAGATCTCGTTCACGCTCCCGAAGATTACTACATC
51046985 GAGAGATTCATAAGTTATTCACAGAATCTTTTCATGAATGGTTAAGGAAAACGGTATGCAACTGA
586 GAGAGATTCATAAGTTATTCACAGAATCTTTTCATGAATGGTTAAGGAAAACGGTATGCAACTGA
*
51047050 AGCTTTCATTGACAAATAATAATTTTTTCGTATAACATTTATAATTAATCAATTTACTTTCGATT
651 AGCTTTCATTGACAAATAATAATGTTTTCGTATAACATTTATAATTAATCAATTTACTTTCGATT
* * *
51047115 CAATAGGTTTGGAGTGGAAAGGATGTCAATGACGAAGTTAAATGGTTTTCCCAAGGTCCGAATAG
716 CAATAGGTTTGGAGTGGAAAGGACGTCAATGACGAAGTTAAATGGCTTTCCCAAGGTCCGAATAA
*
51047180 AGTAGTAAAAAGATATATTGTCTTCCTCATTAATGGAT
781 AGTAGTAAAAAGATATATTGCCTTCCTCATTAATGGAT
* * * * * * *
51047218 TATTATGGTGTACTTGTTAATCTATCTCCCTCATGAAGCAAAACTTGGTGGATCGGTTTTCTATC
1 TATTATGGCGCACTTGCTAATCCATCTCCCTCATGAAACAAAACTTGGTGGACCGGTTTTCTACC
* *
51047283 -GATGTGCTAATTTATCTGTAAAGTTTTCATTCATTCATGAATATACCTTTAGTTACAACTTTTG
66 AG-GGTGCTAATTTATCTGTAAAGTTTTCATTCAGTCATGAATATACCTTTAGTTACAACTTTTG
*
51047347 ATAATATTGTATATCATGTTTAGGTTCCTATGCAAATTGAATTATTATTGTTGTAATAAGTGTTA
130 ATAATATTGTATATCATGTTTAGGTTCCTATACAAATTGAATTATTATTGTTGTAATAAGTGTTA
* *
51047412 TCTAGAAGGATCAATTACTGAAGGTTACTTGGTAGAGGAGTGTATGACTTTCTGCCCTAGATATT
195 TCCAGAAGGATCAATTACTGAAGGTTACTTGGCAGAGGAGTGTATGACTTTCTGCCCTAGATATT
*
51047477 TAGAAGATGTTGAAACAAGACTGAATAGAGCAAGTAGAAATGCTCGGTTCACTAATCATAACTTA
260 TAGAAGATGTTGAAACAAGACTGAATAGAGCAAGTAGAAATGCTCGGTTCAATAATCATAACTTA
*
51047542 GTCAAAACTTATCTATTTCGAAGTTATGGAGAACCAATCGATAAAGTTGAAATTGCACACTTAGA
325 GCCAAAACTTATCTATTTCGAAGTTATGGAGAACCAATCGATAAAGTTGAAATTGCACACTTAGA
* *
51047607 TGATAAATCTTGGGTACAA-ACACATCGATATGTTCTTTTTCACCACGATTTAGTTGAACAATTA
390 TGATAAATCTTGGGTACAAGA-ACATCGATATGTTCTTTGTCACCACGATTCAGTTGAACAATTA
* * *
51047671 CGCAAGTAAGTTTTAGAATTTGATAAATATTCATCTTTTTAATTTTTTATCTTCTAACCACGTAA
454 CACAAGTAAGTTTTAAAATTTGATAAATATTCATCTTTTTAATTTTTTATCTTCTAACCAAGTAA
* *
51047736 TCCACTTTTTAAATTGAGTACAAACAAGTCTTGAGATCTCGTTCACGCTCCCGAAGATTACTACA
519 TCCACATTTTAAAGTGAGTACAAACAAGTCTTGAGATCTCGTTCACGCTCCCGAAGATTACTACA
51047801 TCGAGAGATTCATAAGTTATTCACAGAATCTTTTCATGAATGGTT-AGGACAAACGGTATGCAAC
584 TCGAGAGATTCATAAGTTATTCACAGAATCTTTTCATGAATGGTTAAGGA-AAACGGTATGCAAC
51047865 TGAAGCTTTCATTGACAAATAATAATGTTTTCGTATAACATTTATAATTAATCAATTTACTTTCG
648 TGAAGCTTTCATTGACAAATAATAATGTTTTCGTATAACATTTATAATTAATCAATTTACTTTCG
*
51047930 ATTCAATAGGTTTGGAGTGGAAAGGACGTCAATGACGAAGTTAAATGGCTTTCCCAAGGTCTGAA
713 ATTCAATAGGTTTGGAGTGGAAAGGACGTCAATGACGAAGTTAAATGGCTTTCCCAAGGTCCGAA
51047995 TAAAGTAGTAAAAAGATATATTGCCTTCCTCATTAATG
778 TAAAGTAGTAAAAAGATATATTGCCTTCCTCATTAATG
51048033 AATTCAGGTT
Statistics
Matches: 772, Mismatches: 40, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
817 6 0.01
818 766 0.99
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (818 bp):
TATTATGGCGCACTTGCTAATCCATCTCCCTCATGAAACAAAACTTGGTGGACCGGTTTTCTACC
AGGGTGCTAATTTATCTGTAAAGTTTTCATTCAGTCATGAATATACCTTTAGTTACAACTTTTGA
TAATATTGTATATCATGTTTAGGTTCCTATACAAATTGAATTATTATTGTTGTAATAAGTGTTAT
CCAGAAGGATCAATTACTGAAGGTTACTTGGCAGAGGAGTGTATGACTTTCTGCCCTAGATATTT
AGAAGATGTTGAAACAAGACTGAATAGAGCAAGTAGAAATGCTCGGTTCAATAATCATAACTTAG
CCAAAACTTATCTATTTCGAAGTTATGGAGAACCAATCGATAAAGTTGAAATTGCACACTTAGAT
GATAAATCTTGGGTACAAGAACATCGATATGTTCTTTGTCACCACGATTCAGTTGAACAATTACA
CAAGTAAGTTTTAAAATTTGATAAATATTCATCTTTTTAATTTTTTATCTTCTAACCAAGTAATC
CACATTTTAAAGTGAGTACAAACAAGTCTTGAGATCTCGTTCACGCTCCCGAAGATTACTACATC
GAGAGATTCATAAGTTATTCACAGAATCTTTTCATGAATGGTTAAGGAAAACGGTATGCAACTGA
AGCTTTCATTGACAAATAATAATGTTTTCGTATAACATTTATAATTAATCAATTTACTTTCGATT
CAATAGGTTTGGAGTGGAAAGGACGTCAATGACGAAGTTAAATGGCTTTCCCAAGGTCCGAATAA
AGTAGTAAAAAGATATATTGCCTTCCTCATTAATGGAT
Found at i:51050295 original size:66 final size:65
Alignment explanation
Indices: 51050223--51050360 Score: 170
Period size: 66 Copynumber: 2.1 Consensus size: 65
51050213 AGCAAATGCT
** * * * *
51050223 CAACTTAAAGCGGAGGTAGCATCGAGAGAAGTAGAAGCTCAA-AGAAAATATGAAGAACTCCAGC
1 CAACTTAAAGCGGAGACAGCAGCGAGAGAAGCAG-AG-GCAACAGAAAATATGAAGAACTCCAAC
51050287 TA
64 TA
* *
51050289 CAACTTAAAGTGGAGACAGCAGCGAGAGAAGCAGAGGCAAGCAGAAAATATGACGAACTCCAACT
1 CAACTTAAAGCGGAGACAGCAGCGAGAGAAGCAGAGGCAA-CAGAAAATATGAAGAACTCCAACT
51050354 A
65 A
51050355 CAACTT
1 CAACTT
51050361 CAGAATATGA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
64 3 0.05
65 2 0.03
66 57 0.92
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.14
Consensus pattern (65 bp):
CAACTTAAAGCGGAGACAGCAGCGAGAGAAGCAGAGGCAACAGAAAATATGAAGAACTCCAACTA
Found at i:51053935 original size:2 final size:2
Alignment explanation
Indices: 51053928--51053981 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
51053918 GAGTATAATA
51053928 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
51053970 CT CT CT CT CT CT
1 CT CT CT CT CT CT
51053982 GTGTTTTATA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:51057632 original size:6 final size:6
Alignment explanation
Indices: 51057621--51057667 Score: 69
Period size: 6 Copynumber: 7.8 Consensus size: 6
51057611 AGGTTTCCAA
*
51057621 AAATGG AAATGG AAATGA AAAT-G AAGATGG AAATGG AAATGG AAATG
1 AAATGG AAATGG AAATGG AAATGG AA-ATGG AAATGG AAATGG AAATG
51057668 ATCTATCTGC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 2 0.05
6 32 0.86
7 3 0.08
ACGTcount: A:0.53, C:0.00, G:0.30, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:51057654 original size:24 final size:24
Alignment explanation
Indices: 51057623--51057668 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
51057613 GTTTCCAAAA
51057623 ATGGAAATGGAAATGAAAATGAAG
1 ATGGAAATGGAAATGAAAATGAAG
*
51057647 ATGGAAATGGAAATGGAAATGA
1 ATGGAAATGGAAATGAAAATGA
51057669 TCTATCTGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.30, T:0.17
Consensus pattern (24 bp):
ATGGAAATGGAAATGAAAATGAAG
Found at i:51063399 original size:14 final size:14
Alignment explanation
Indices: 51063380--51063407 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
51063370 ATGCCAGTGA
51063380 AAGGTATCCAAAGC
1 AAGGTATCCAAAGC
51063394 AAGGTATCCAAAGC
1 AAGGTATCCAAAGC
51063408 TTCCTTGGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.14
Consensus pattern (14 bp):
AAGGTATCCAAAGC
Found at i:51064908 original size:23 final size:23
Alignment explanation
Indices: 51064882--51064932 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
51064872 TGGAACACAA
51064882 TGTAATATCCT-GAAAATTACTAC
1 TGTAATA-CCTCGAAAATTACTAC
51064905 TGTAATACCTCGAAAATTACTAC
1 TGTAATACCTCGAAAATTACTAC
*
51064928 AGTAA
1 TGTAA
51064933 GAAACTAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (23 bp):
TGTAATACCTCGAAAATTACTAC
Found at i:51065431 original size:11 final size:11
Alignment explanation
Indices: 51065412--51065440 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
51065402 TTTTTAAATA
51065412 ATTTT-TTATT
1 ATTTTATTATT
51065422 ATTTTATTATT
1 ATTTTATTATT
51065433 ATTTTATT
1 ATTTTATT
51065441 TAGTATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
ATTTTATTATT
Found at i:51069225 original size:20 final size:20
Alignment explanation
Indices: 51069179--51069227 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
51069169 ATCATGGTCT
51069179 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTCTTTACTTAC
* *
51069198 TCT-TTTACTTGTTTACTTAC
1 T-TGCTTACTTCTTTACTTAC
51069218 TTGCTTACTT
1 TTGCTTACTT
51069228 AAATAACTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.12, C:0.22, G:0.06, T:0.59
Consensus pattern (20 bp):
TTGCTTACTTCTTTACTTAC
Found at i:51069497 original size:49 final size:49
Alignment explanation
Indices: 51069432--51069559 Score: 127
Period size: 49 Copynumber: 2.6 Consensus size: 49
51069422 TAATAACATG
* *
51069432 CCAAAGCCATGTCCCAGACATGGTCTTACAGGGGATGTTTCCTATA-C-TA
1 CCAATGCCATATCCCAGACATGGTCTTACAGGGGA-G-TTCCTATATCGTA
* * * *
51069481 CCAATGTCATATCCCAGATC-TGGTCTTACATGGGAGTTCTTATATCGGTG
1 CCAATGCCATATCCCAGA-CATGGTCTTACAGGGGAGTTCCTATATC-GTA
* *
51069531 CCTATGCCATGTCCCAGACATGGTCTTAC
1 CCAATGCCATATCCCAGACATGGTCTTAC
51069560 GGAAGACCTC
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
47 7 0.11
48 2 0.03
49 30 0.46
50 26 0.40
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (49 bp):
CCAATGCCATATCCCAGACATGGTCTTACAGGGGAGTTCCTATATCGTA
Found at i:51069555 original size:50 final size:49
Alignment explanation
Indices: 51069430--51069609 Score: 154
Period size: 50 Copynumber: 3.6 Consensus size: 49
51069420 GATAATAACA
* *
51069430 TGCCAAAGCCATGTCCCAGACATGGTCTTACAGGGGATGTTTCCTATA-C--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA-GGGA-G-TTCTTATATCGG
* * *
51069479 TACCAATGTCATATCCCAGATC-TGGTCTTACATGGGAGTTCTTATATCGG
1 TGCCAATGCCATGTCCCAGA-CATGGTCTTACA-GGGAGTTCTTATATCGG
* ** * *
51069529 TGCCTATGCCATGTCCCAGACATGGTCTTAC-GGAAGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGG--GAGTTCTTATATCGG
* *
51069579 TGCCAACGCTATGTCCCAGACATGGTCTTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC
51069610 GTTGGACCTC
Statistics
Matches: 107, Mismatches: 17, Indels: 13
0.78 0.12 0.09
Matches are distributed among these distances:
47 7 0.07
48 4 0.04
49 31 0.29
50 65 0.61
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGAGTTCTTATATCGG
Found at i:51075297 original size:15 final size:15
Alignment explanation
Indices: 51075277--51075392 Score: 62
Period size: 15 Copynumber: 7.5 Consensus size: 15
51075267 GTCTGCTTTA
51075277 TGTTTCTCTATTTTC
1 TGTTTCTCTATTTTC
*
51075292 TGTTTCTGTACCATGTTT-
1 TGTTTC--T-CTAT-TTTC
51075310 TGTTTCTCTATTTTC
1 TGTTTCTCTATTTTC
*
51075325 TGTTTCTGTACCATGTTT-
1 TGTTTC--T-CTAT-TTTC
*
51075343 TGTTCCTCTATTTTC
1 TGTTTCTCTATTTTC
* **
51075358 TGTAGT-GGT-TTTT-
1 TGT-TTCTCTATTTTC
51075371 TGTTTCTCTATTTTC
1 TGTTTCTCTATTTTC
51075386 TGTTTCT
1 TGTTTCT
51075393 GTACCATGTT
Statistics
Matches: 75, Mismatches: 12, Indels: 28
0.65 0.10 0.24
Matches are distributed among these distances:
12 1 0.01
13 4 0.05
14 14 0.19
15 29 0.39
16 2 0.03
17 2 0.03
18 17 0.23
19 6 0.08
ACGTcount: A:0.08, C:0.17, G:0.13, T:0.62
Consensus pattern (15 bp):
TGTTTCTCTATTTTC
Found at i:51075314 original size:33 final size:33
Alignment explanation
Indices: 51075277--51075412 Score: 185
Period size: 33 Copynumber: 4.3 Consensus size: 33
51075267 GTCTGCTTTA
51075277 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
1 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
51075310 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
1 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
* * *
51075343 TGTTCCTCTATTTTCTGTAGT-GGT----T-TTT
1 TGTTTCTCTATTTTCTGT-TTCTGTACCATGTTT
51075371 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
1 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
*
51075404 TGTTCCTCT
1 TGTTTCTCT
51075413 TGCCATTTTT
Statistics
Matches: 89, Mismatches: 7, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
27 1 0.01
28 22 0.25
29 1 0.01
32 1 0.01
33 63 0.71
34 1 0.01
ACGTcount: A:0.08, C:0.18, G:0.13, T:0.60
Consensus pattern (33 bp):
TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
Found at i:51075315 original size:18 final size:18
Alignment explanation
Indices: 51075292--51075346 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
51075282 CTCTATTTTC
51075292 TGTTTCTGTACCATGTTT
1 TGTTTCTGTACCATGTTT
*
51075310 TGTTTC--T-CTAT-TTT
1 TGTTTCTGTACCATGTTT
51075324 CTGTTTCTGTACCATGTTT
1 -TGTTTCTGTACCATGTTT
51075343 TGTT
1 TGTT
51075347 CCTCTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 3 0.10
15 9 0.30
16 1 0.03
17 1 0.03
18 13 0.43
19 3 0.10
ACGTcount: A:0.09, C:0.16, G:0.15, T:0.60
Consensus pattern (18 bp):
TGTTTCTGTACCATGTTT
Found at i:51076510 original size:21 final size:22
Alignment explanation
Indices: 51076484--51076539 Score: 87
Period size: 21 Copynumber: 2.6 Consensus size: 22
51076474 AGTTTCCCCC
51076484 GTTTGCAGTGGCTATACAA-TT
1 GTTTGCAGTGGCTATACAATTT
*
51076505 GTTTGCAGTGGCTATATAATTT
1 GTTTGCAGTGGCTATACAATTT
*
51076527 ATTTGCAGTGGCT
1 GTTTGCAGTGGCT
51076540 CCATCTGCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 18 0.56
22 14 0.44
ACGTcount: A:0.21, C:0.12, G:0.25, T:0.41
Consensus pattern (22 bp):
GTTTGCAGTGGCTATACAATTT
Found at i:51079724 original size:18 final size:17
Alignment explanation
Indices: 51079696--51079730 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
51079686 ATTATTAAGA
*
51079696 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
51079713 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
51079731 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:51079751 original size:120 final size:120
Alignment explanation
Indices: 51079605--51080227 Score: 1228
Period size: 120 Copynumber: 5.2 Consensus size: 120
51079595 TTTTCAAGTT
*
51079605 ATATATTTAATAATTATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
51079670 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
51079725 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTTAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
51079790 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
51079845 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
51079910 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
51079965 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
51080030 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
51080085 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
51080150 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
51080205 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
51080228 TAAATATGAT
Statistics
Matches: 500, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 500 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
Found at i:51079844 original size:18 final size:17
Alignment explanation
Indices: 51079816--51079850 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
51079806 ATTATTAAGA
*
51079816 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
51079833 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
51079851 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:51079964 original size:18 final size:17
Alignment explanation
Indices: 51079936--51079970 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
51079926 ATTATTAAGA
*
51079936 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
51079953 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
51079971 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:51080084 original size:18 final size:17
Alignment explanation
Indices: 51080056--51080090 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
51080046 ATTATTAAGA
*
51080056 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
51080073 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
51080091 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:51080204 original size:18 final size:17
Alignment explanation
Indices: 51080176--51080210 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
51080166 ATTATTAAGA
*
51080176 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
51080193 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
51080211 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:51080471 original size:16 final size:16
Alignment explanation
Indices: 51080446--51080513 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
51080436 GATTTGCTAT
*
51080446 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
51080462 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
51080478 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
51080494 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
51080510 TACA
1 TACA
51080514 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Done.