Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 55 of 230
Found at i:14907745 original size:16 final size:17
Alignment explanation
Indices: 14907726--14907764 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
14907716 AAACTTTAGA
*
14907726 TGTTCTC-AATAAGAGT
1 TGTTCTCAAATAACAGT
*
14907742 TGTTCTCAAATTACAGT
1 TGTTCTCAAATAACAGT
14907759 TGTTCT
1 TGTTCT
14907765 GAACTAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (17 bp):
TGTTCTCAAATAACAGT
Found at i:14909525 original size:61 final size:61
Alignment explanation
Indices: 14909425--14909542 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 61
14909415 GGCCTAGCAT
* * * *
14909425 ACACCCATGTCTCTGGCCCGTGTGACTCTAATTCCAAAATAGTGAGTTGCACGGCCTGTAC
1 ACACACATGTCTCTAGCCCGTATGACTCTAATTCCAAAATAGTGAGTTACACGGCCTGTAC
* ** *
14909486 ACACACATGTCTCTAGCCCGTATGACTTTAATTTTAAAATAGTGAGTTACGCGGCCT
1 ACACACATGTCTCTAGCCCGTATGACTCTAATTCCAAAATAGTGAGTTACACGGCCT
14909543 ACCGTACTGC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (61 bp):
ACACACATGTCTCTAGCCCGTATGACTCTAATTCCAAAATAGTGAGTTACACGGCCTGTAC
Found at i:14916880 original size:17 final size:18
Alignment explanation
Indices: 14916858--14916893 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
14916848 CAGAGCAACT
14916858 ACAAGT-AAATAAATAGC
1 ACAAGTAAAATAAATAGC
*
14916875 ACAAGTAAAATAGATAGC
1 ACAAGTAAAATAAATAGC
14916893 A
1 A
14916894 ATGCAATTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.58, C:0.11, G:0.14, T:0.17
Consensus pattern (18 bp):
ACAAGTAAAATAAATAGC
Found at i:14917937 original size:20 final size:21
Alignment explanation
Indices: 14917905--14917958 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
14917895 TTAAAAAATT
14917905 TAAATTAAATGAT-T-ATATAA
1 TAAATT-AATGATGTAATATAA
14917925 -AATATTTAATGATGTAATATAA
1 TAA-A-TTAATGATGTAATATAA
14917947 TAAATTAATGAT
1 TAAATTAATGAT
14917959 ATGAAATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
19 2 0.07
20 7 0.24
21 11 0.38
22 7 0.24
23 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (21 bp):
TAAATTAATGATGTAATATAA
Found at i:14919043 original size:16 final size:18
Alignment explanation
Indices: 14919015--14919054 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
14919005 GTTTATCAAT
14919015 AAAATTTTCATTTA-TTA
1 AAAATTTTCATTTAGTTA
14919032 AAAATTTT-ATTTAGTTA
1 AAAATTTTCATTTAGTTA
14919049 AAAATT
1 AAAATT
14919055 AGTTTTTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
AAAATTTTCATTTAGTTA
Found at i:14930974 original size:15 final size:15
Alignment explanation
Indices: 14930954--14931036 Score: 71
Period size: 15 Copynumber: 5.5 Consensus size: 15
14930944 CGATACCCAT
14930954 ATATTTGACTTTCCA
1 ATATTTGACTTTCCA
**
14930969 ATATTTGA-TACCCA
1 ATATTTGACTTTCCA
*
14930983 TATCTTTGACTTTCCA
1 -ATATTTGACTTTCCA
**
14930999 ATATTTGA-TACCCA
1 ATATTTGACTTTCCA
*
14931013 TATCTTTGACTTTCCA
1 -ATATTTGACTTTCCA
*
14931029 TTATTTGA
1 ATATTTGA
14931037 TACACATATC
Statistics
Matches: 51, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
14 8 0.16
15 35 0.69
16 8 0.16
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.46
Consensus pattern (15 bp):
ATATTTGACTTTCCA
Found at i:14931059 original size:30 final size:30
Alignment explanation
Indices: 14930935--14931058 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
14930925 ATTTATTATG
* *
14930935 CCAATATCTCGATACCCATATATTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
14930966 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
14930996 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
14931026 CCATTATTTGATACACATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
14931056 CCA
1 CCA
14931059 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.27, C:0.23, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:14935668 original size:15 final size:15
Alignment explanation
Indices: 14935648--14935730 Score: 62
Period size: 15 Copynumber: 5.5 Consensus size: 15
14935638 CGATACCCAT
14935648 ATATTTGACTTTCCA
1 ATATTTGACTTTCCA
** *
14935663 ATATTTGA-TACCCGT
1 ATATTTGACTTTCC-A
*
14935678 ATCTTTGACTTTCCA
1 ATATTTGACTTTCCA
**
14935693 ATATTTGA-TACCCA
1 ATATTTGACTTTCCA
*
14935707 TATCTTTGACTTTCCA
1 -ATATTTGACTTTCCA
*
14935723 TTATTTGA
1 ATATTTGA
14935731 TACACATATC
Statistics
Matches: 49, Mismatches: 15, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
14 7 0.14
15 35 0.71
16 7 0.14
ACGTcount: A:0.25, C:0.20, G:0.08, T:0.46
Consensus pattern (15 bp):
ATATTTGACTTTCCA
Found at i:14935753 original size:30 final size:30
Alignment explanation
Indices: 14935629--14935752 Score: 185
Period size: 30 Copynumber: 4.1 Consensus size: 30
14935619 TTTTATTATG
* *
14935629 CCAATATCTCGATACCCATATATTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
*
14935660 CCAATATTTGATACCCGTATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
14935690 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
14935720 CCATTATTTGATACACATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
14935750 CCA
1 CCA
14935753 TAAATATGGA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
30 79 0.92
31 7 0.08
ACGTcount: A:0.27, C:0.23, G:0.07, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:14941951 original size:57 final size:57
Alignment explanation
Indices: 14941890--14942024 Score: 175
Period size: 57 Copynumber: 2.4 Consensus size: 57
14941880 GTAAATTCAT
*
14941890 ATAATAATTATATTAAGAATTTTATTAAATTATATACT-TTTTATTAAATTATATTTA
1 ATAATAATTATATTAA-AATTTGATTAAATTATATACTATTTTATTAAATTATATTTA
* * * * * *
14941947 ATAATAATTATGTTAAAATATGGTTAAATTATTTATTATTTTATTAAATTATTTTTA
1 ATAATAATTATATTAAAATTTGATTAAATTATATACTATTTTATTAAATTATATTTA
14942004 ATAATAATCT-TATTAAAATTT
1 ATAATAAT-TATATTAAAATTT
14942025 AATAACAATA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
56 16 0.24
57 50 0.75
58 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (57 bp):
ATAATAATTATATTAAAATTTGATTAAATTATATACTATTTTATTAAATTATATTTA
Found at i:14942217 original size:16 final size:16
Alignment explanation
Indices: 14942188--14942256 Score: 75
Period size: 16 Copynumber: 4.3 Consensus size: 16
14942178 TTAATTACTG
*
14942188 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCC
* *
14942204 ATTGCAGCTCTATTCA
1 ATTACAGCTCTATTCC
** *
14942220 ATTACATTTCTATTTC
1 ATTACAGCTCTATTCC
*
14942236 ATTATAGCTCTATTCC
1 ATTACAGCTCTATTCC
14942252 ATTAC
1 ATTAC
14942257 CTTAGACACA
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.45
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:14947919 original size:42 final size:42
Alignment explanation
Indices: 14947872--14947955 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
14947862 CAAAATAACA
14947872 ACTGATATACAAACCATAGTTTGATTTTTGTTTAATTTCAAT
1 ACTGATATACAAACCATAGTTTGATTTTTGTTTAATTTCAAT
14947914 ACTGATATACAAACCATAGTTTGATTTTTGTTTAATTTCAAT
1 ACTGATATACAAACCATAGTTTGATTTTTGTTTAATTTCAAT
14947956 GAAATTGATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (42 bp):
ACTGATATACAAACCATAGTTTGATTTTTGTTTAATTTCAAT
Found at i:14954359 original size:34 final size:34
Alignment explanation
Indices: 14954292--14954379 Score: 151
Period size: 34 Copynumber: 2.6 Consensus size: 34
14954282 AGAAAAATCG
14954292 TTGTATATTGGTGTTTATAA-CGACTGTTATGCC
1 TTGTATATTGGTGTTTATAACCGACTGTTATGCC
*
14954325 TTGTATATTGGTGTTTATAACCGACTGTTCTGCC
1 TTGTATATTGGTGTTTATAACCGACTGTTATGCC
*
14954359 TTGTATATTGGTGTTTGTAAC
1 TTGTATATTGGTGTTTATAAC
14954380 GTGTAAATTG
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
33 20 0.38
34 32 0.62
ACGTcount: A:0.19, C:0.12, G:0.22, T:0.47
Consensus pattern (34 bp):
TTGTATATTGGTGTTTATAACCGACTGTTATGCC
Found at i:14966242 original size:11 final size:11
Alignment explanation
Indices: 14966222--14966251 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
14966212 ATTTTTTTAA
14966222 AAAAAGTATTTT
1 AAAAA-TATTTT
14966234 AAAAATATTTT
1 AAAAATATTTT
14966245 AAAAATA
1 AAAAATA
14966252 AAAAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:14968224 original size:16 final size:17
Alignment explanation
Indices: 14968200--14968244 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
14968190 GTTTAATTGA
*
14968200 TTTAGTTGTTTGTTTAT
1 TTTAGTTGTTTATTTAT
14968217 TTTA-TTGTTTATTTAT
1 TTTAGTTGTTTATTTAT
*
14968233 TTTAGTTATTTA
1 TTTAGTTGTTTA
14968245 ATTTCTAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.71
Consensus pattern (17 bp):
TTTAGTTGTTTATTTAT
Found at i:14968630 original size:7 final size:6
Alignment explanation
Indices: 14968608--14968658 Score: 54
Period size: 6 Copynumber: 8.7 Consensus size: 6
14968598 GATACAATAT
*
14968608 TTTTAA TTTTAA TTTTAA TTTT-- TTTTAAAA TTTTAA -TTTCA TTTTAA
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTT--AA TTTTAA TTTTAA TTTTAA
14968655 TTTT
1 TTTT
14968659 TTAGGTTGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
4 4 0.11
5 4 0.11
6 26 0.68
8 4 0.11
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTAA
Found at i:14976639 original size:260 final size:259
Alignment explanation
Indices: 14976170--14976881 Score: 1115
Period size: 260 Copynumber: 2.7 Consensus size: 259
14976160 TCCATTTTTC
* * * *
14976170 TTTGTATGAAAAAACATTTAAGACAATATACAAAGGATATAAATGTAATTTATGGATATTTTTAT
1 TTTGCATGAAAAAACATTGAGGACAATATACAAAGGATATAAATGTAATTAATGGATATTTTTAT
** * *
14976235 TAAACCAAATTGTTCGAAAAAA-ATAAGTATACAAAACAAATATACTATACTTAGGGCACTAGAT
66 TAAACCATTTTGTTCAAAAAAATATAAGTATACAAAACAAATATACTACACTTA-GGCACTAGAT
* *
14976299 CCAACATTATAATCCATAATTGATTACTCATTTTAGACTTATTGCTCTATGTAATGTTTCTTATA
130 CCAACATGATAATCCATAATTGATTACTCATTTTAGACTCATTGCTCTATGTAATGTTTCTTATA
*
14976364 CAAAACAAATATACTACACGTAGGACACTAGATCCAACATGATAATCCATAATTGATTACTCATT
195 CAAAAAAAATATACTACACGTAGGACACTAGATCCAACATGATAATCCATAATTGATTACTCATT
* * * *
14976429 TTTGCATGCAAAAACATTGAGGACAATATACAAATGATATAAATGTAATTGATGGGTATTTTTAT
1 TTTGCATGAAAAAACATTGAGGACAATATACAAAGGATATAAATGTAATTAATGGATATTTTTAT
* *
14976494 TAAACCATTTTGTTCAAAAAAATATAAGTATAAAAAATAAATATACTACACTTAGGACACTAGAT
66 TAAACCATTTTGTTCAAAAAAATATAAGTATACAAAACAAATATACTACACTTAGG-CACTAGAT
*
14976559 CCAACATGATAATCCATAATTGATTACTCATTTTAGACTCATTGTTCTATGTAATGTTTCTTATA
130 CCAACATGATAATCCATAATTGATTACTCATTTTAGACTCATTGCTCTATGTAATGTTTCTTATA
*
14976624 CAAAAAAAATATACTACACTTAGGACACTAGATCCAACATGATAATCCATAATTGATTACTCATT
195 CAAAAAAAATATACTACACGTAGGACACTAGATCCAACATGATAATCCATAATTGATTACTCATT
* * * *
14976689 TTTGCATGTAAAAACATTGAGTAC-A-ATACAAGGGATATAAATGTCATTAATGGATATTTTTAT
1 TTTGCATGAAAAAACATTGAGGACAATATACAAAGGATATAAATGTAATTAATGGATATTTTTAT
* * ***
14976752 TAAACTATTTTTTTTTGAAAAATATAAGTATACAAAACAAATATACTACACTTAAGGCACTAGAT
66 TAAACCATTTTGTTCAAAAAAATATAAGTATACAAAACAAATATACTACACTT-AGGCACTAGAT
*
14976817 CCAACATGATAATCCATAATTGATTACTCATTTTAGACTCATTGCTCTATGTAATATTTCTTATA
130 CCAACATGATAATCCATAATTGATTACTCATTTTAGACTCATTGCTCTATGTAATGTTTCTTATA
14976882 AGATTGTTTT
Statistics
Matches: 416, Mismatches: 34, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
258 150 0.36
259 83 0.20
260 183 0.44
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (259 bp):
TTTGCATGAAAAAACATTGAGGACAATATACAAAGGATATAAATGTAATTAATGGATATTTTTAT
TAAACCATTTTGTTCAAAAAAATATAAGTATACAAAACAAATATACTACACTTAGGCACTAGATC
CAACATGATAATCCATAATTGATTACTCATTTTAGACTCATTGCTCTATGTAATGTTTCTTATAC
AAAAAAAATATACTACACGTAGGACACTAGATCCAACATGATAATCCATAATTGATTACTCATT
Found at i:14979600 original size:28 final size:28
Alignment explanation
Indices: 14979569--14979628 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
14979559 TTGGGAAATG
14979569 GAAGAACAAGAGAAAAAGAAGAATAAG-A
1 GAAGAACAAGAGAAAAAGAAGAA-AAGAA
***
14979597 GAAGAAGTGGAGAAAAAGAAGAAAAGAA
1 GAAGAACAAGAGAAAAAGAAGAAAAGAA
14979625 GAAG
1 GAAG
14979629 GGGAAGAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 3 0.11
28 25 0.89
ACGTcount: A:0.65, C:0.02, G:0.30, T:0.03
Consensus pattern (28 bp):
GAAGAACAAGAGAAAAAGAAGAAAAGAA
Found at i:14979602 original size:3 final size:3
Alignment explanation
Indices: 14979569--14979737 Score: 123
Period size: 3 Copynumber: 58.0 Consensus size: 3
14979559 TTGGGAAATG
* * * * * *
14979569 GAA GAA CAA G-A GAA AAA GAA GAA TAA G-A GAA GAA G-T GGA GAA AAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
** * * * * * * *
14979614 GAA GAA -AA GAA GAA GGG GAA G-A GGA GGA GGA GAA GGA GGA GGA GGA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * *
14979660 GGA GGA GGA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA AAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
14979708 GAA GAA GAA GAA GAA AAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
14979738 ATAGAAGGAG
Statistics
Matches: 139, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
2 9 0.06
3 130 0.94
ACGTcount: A:0.60, C:0.01, G:0.38, T:0.01
Consensus pattern (3 bp):
GAA
Found at i:14981592 original size:20 final size:20
Alignment explanation
Indices: 14981544--14981651 Score: 67
Period size: 20 Copynumber: 5.4 Consensus size: 20
14981534 AGATGCAAAA
* * *
14981544 CAGGGGCACCAAAGTGCAAC
1 CAGGGGCACGAGAGTGCAAT
* * *
14981564 CAAGAGCACGAGTGTGCAAT
1 CAGGGGCACGAGAGTGCAAT
*
14981584 CAGGGGCACCG-GAGTGCATT
1 CAGGGGCA-CGAGAGTGCAAT
* *
14981604 CAGGGGCAC-AAATGTGCTAT
1 CAGGGGCACGAGA-GTGCAAT
* * *
14981624 CAGGAGCACCAGAGTGCATT
1 CAGGGGCACGAGAGTGCAAT
*
14981644 TAGGGGCA
1 CAGGGGCA
14981652 TAGTTGTGCA
Statistics
Matches: 65, Mismatches: 19, Indels: 8
0.71 0.21 0.09
Matches are distributed among these distances:
19 2 0.03
20 59 0.91
21 4 0.06
ACGTcount: A:0.30, C:0.23, G:0.33, T:0.14
Consensus pattern (20 bp):
CAGGGGCACGAGAGTGCAAT
Found at i:14981660 original size:40 final size:40
Alignment explanation
Indices: 14981576--14981651 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
14981566 AGAGCACGAG
* *
14981576 TGTGCAATCAGGGGCACCGGAGTGCATTCAGGGGCACAAA
1 TGTGCAATCAGGAGCACCAGAGTGCATTCAGGGGCACAAA
* *
14981616 TGTGCTATCAGGAGCACCAGAGTGCATTTAGGGGCA
1 TGTGCAATCAGGAGCACCAGAGTGCATTCAGGGGCA
14981652 TAGTTGTGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.26, C:0.21, G:0.34, T:0.18
Consensus pattern (40 bp):
TGTGCAATCAGGAGCACCAGAGTGCATTCAGGGGCACAAA
Found at i:14981689 original size:40 final size:40
Alignment explanation
Indices: 14981645--14981759 Score: 142
Period size: 40 Copynumber: 2.9 Consensus size: 40
14981635 GAGTGCATTT
*
14981645 AGGGGCATAGTTGTGCAAACAAGG-ACACCGAATTGTTTAC
1 AGGGGCATAGTTGTGCAAAC-AGGAACACCGAAGTGTTTAC
* ** *
14981685 AGGGGCTTAAATGTGCAAACAGGAACACCAAAGTGTTTAC
1 AGGGGCATAGTTGTGCAAACAGGAACACCGAAGTGTTTAC
* * *
14981725 AGAGGCACAGTTGTGCAAATAGGAACACCGAAGTG
1 AGGGGCATAGTTGTGCAAACAGGAACACCGAAGTG
14981760 CAATCAAGGG
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.05
40 59 0.95
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (40 bp):
AGGGGCATAGTTGTGCAAACAGGAACACCGAAGTGTTTAC
Found at i:14983501 original size:18 final size:18
Alignment explanation
Indices: 14983468--14983520 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
14983458 ATTCACCTAA
*
14983468 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
14983487 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
14983505 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
14983521 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:14983577 original size:25 final size:24
Alignment explanation
Indices: 14983545--14983592 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
14983535 AATAATTTAA
*
14983545 TAAATAAAAATAAAATTCTAAAAC
1 TAAATAAAAATAAAAGTCTAAAAC
*
14983569 TAAACTAAAACTAAAAGTCTAAAA
1 TAAA-TAAAAATAAAAGTCTAAAA
14983593 ATAATTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.65, C:0.10, G:0.02, T:0.23
Consensus pattern (24 bp):
TAAATAAAAATAAAAGTCTAAAAC
Found at i:14983630 original size:9 final size:9
Alignment explanation
Indices: 14983616--14983653 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
14983606 GTAGTGATTC
*
14983616 AATTCGATT
1 AATTCGGTT
*
14983625 AATTCGGGT
1 AATTCGGTT
14983634 AATTCGGTT
1 AATTCGGTT
14983643 AATTCGGTT
1 AATTCGGTT
14983652 AA
1 AA
14983654 ATTTTAACCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (9 bp):
AATTCGGTT
Found at i:14984398 original size:16 final size:16
Alignment explanation
Indices: 14984347--14984400 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
14984337 ATATTACGTT
14984347 ATTTTATTATTTT-AA
1 ATTTTATTATTTTAAA
**
14984362 ATTTT-TTATTTTAGG
1 ATTTTATTATTTTAAA
* *
14984377 ACTTTATCATTTTAAA
1 ATTTTATTATTTTAAA
14984393 ATTTTATT
1 ATTTTATT
14984401 TTTGTCTCTA
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
14 7 0.24
15 9 0.31
16 13 0.45
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.63
Consensus pattern (16 bp):
ATTTTATTATTTTAAA
Found at i:14987945 original size:17 final size:17
Alignment explanation
Indices: 14987921--14987973 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 17
14987911 ACTTTCCTTC
14987921 AAACTTTTATT-TCCCA
1 AAACTTTTATTCTCCCA
*
14987937 AAACTTTTTATTCTCCCCCT
1 AAAC-TTTTATTCT--CCCA
14987957 AAACTTTTACTTCTCCC
1 AAACTTTTA-TTCTCCC
14987974 CCTTTACTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
16 4 0.13
17 7 0.23
18 4 0.13
19 5 0.16
20 11 0.35
ACGTcount: A:0.25, C:0.32, G:0.00, T:0.43
Consensus pattern (17 bp):
AAACTTTTATTCTCCCA
Found at i:14987962 original size:20 final size:20
Alignment explanation
Indices: 14987937--14987976 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
14987927 TTATTTCCCA
14987937 AAACTTTTTA-TTCTCCCCCT
1 AAAC-TTTTACTTCTCCCCCT
14987957 AAACTTTTACTTCTCCCCCT
1 AAACTTTTACTTCTCCCCCT
14987977 TTACTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (20 bp):
AAACTTTTACTTCTCCCCCT
Found at i:14988803 original size:22 final size:24
Alignment explanation
Indices: 14988769--14988812 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
14988759 ATTTCTTATT
*
14988769 ATTTATTAAAAT-ATATTTTTAAG
1 ATTTATTAAAATAACATTTTTAAG
*
14988792 ATTT-TTAGAATAACATTTTTA
1 ATTTATTAAAATAACATTTTTA
14988813 GGGATATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (24 bp):
ATTTATTAAAATAACATTTTTAAG
Found at i:14991541 original size:22 final size:22
Alignment explanation
Indices: 14991506--14991563 Score: 102
Period size: 22 Copynumber: 2.7 Consensus size: 22
14991496 ACCGGCCACT
14991506 GCGCCGG--CCGCCGTTCTCCG
1 GCGCCGGCACCGCCGTTCTCCG
14991526 GCGCCGGCACCGCCGTTCTCCG
1 GCGCCGGCACCGCCGTTCTCCG
14991548 GCGCCGGCACCGCCGT
1 GCGCCGGCACCGCCGT
14991564 ATGCGATGGC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.19
22 29 0.81
ACGTcount: A:0.03, C:0.50, G:0.34, T:0.12
Consensus pattern (22 bp):
GCGCCGGCACCGCCGTTCTCCG
Found at i:14996659 original size:40 final size:39
Alignment explanation
Indices: 14996571--14996700 Score: 125
Period size: 40 Copynumber: 3.3 Consensus size: 39
14996561 GTTATATATG
* * * * * *
14996571 AATGCACATATGTGCCTCGATTTGGACTTTGGTACCTCTG
1 AATGCACATAAGTGCCCCTATTTGTACTTT-GTACCCCTA
*
14996611 AATACACATAAGTGCCCCTATTTGTACTTTAGTACCCCTA
1 AATGCACATAAGTGCCCCTATTTGTACTTT-GTACCCCTA
** * * *
14996651 AATGCACATGCGTACACCTATTTTTACTTTGATACCCCTA
1 AATGCACATAAGTGCCCCTATTTGTACTTTG-TACCCCTA
14996691 AATGCACATA
1 AATGCACATA
14996701 CATGTCGCTG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (39 bp):
AATGCACATAAGTGCCCCTATTTGTACTTTGTACCCCTA
Found at i:15004891 original size:17 final size:18
Alignment explanation
Indices: 15004869--15004909 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
15004859 TAATAAATGA
15004869 AAATATATAAAATT-ATT
1 AAATATATAAAATTAATT
*
15004886 AAATAT-TAAATTTAATT
1 AAATATATAAAATTAATT
*
15004903 TAATATA
1 AAATATA
15004910 AATATTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATATATAAAATTAATT
Found at i:15009246 original size:20 final size:21
Alignment explanation
Indices: 15009208--15009250 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
15009198 GTTCATCAAT
*
15009208 TTTTCTCTTCATTTTTCTTAGC
1 TTTTCTCTTCATTTCTCTT-GC
15009230 TTTTCT-TTC-TTTCTCTTGC
1 TTTTCTCTTCATTTCTCTTGC
15009249 TT
1 TT
15009251 GAATTCTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 7 0.35
21 3 0.15
22 6 0.30
ACGTcount: A:0.05, C:0.23, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTTCTCTTCATTTCTCTTGC
Found at i:15019928 original size:24 final size:24
Alignment explanation
Indices: 15019896--15019943 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
15019886 TCTTTCTTTC
15019896 GTGTACGCATCTAAGGCCTTGCTA
1 GTGTACGCATCTAAGGCCTTGCTA
15019920 GTGTACGCATCTAAGGCCTTGCTA
1 GTGTACGCATCTAAGGCCTTGCTA
15019944 ACAAATTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (24 bp):
GTGTACGCATCTAAGGCCTTGCTA
Found at i:15021128 original size:21 final size:22
Alignment explanation
Indices: 15021099--15021149 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
15021089 TCTCTCTCGC
*
15021099 TTTCCTTTTCGCCTTTTTCA-T
1 TTTCATTTTCGCCTTTTTCACT
**
15021120 TTTCATTTTCTTCTTTTTCACT
1 TTTCATTTTCGCCTTTTTCACT
15021142 TTT-ATTTT
1 TTTCATTTT
15021150 TCTCTTCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.08, C:0.22, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTCATTTTCGCCTTTTTCACT
Found at i:15024438 original size:14 final size:15
Alignment explanation
Indices: 15024410--15024455 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 15
15024400 AAAATCCTAG
*
15024410 ATCACTAAACACTAA
1 ATCACTAAACTCTAA
15024425 ATCA-TAAACTCTAA
1 ATCACTAAACTCTAA
* *
15024439 AT-ATTAAATTCTAA
1 ATCACTAAACTCTAA
15024453 ATC
1 ATC
15024456 TTATTCATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 1 0.04
14 22 0.81
15 4 0.15
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (15 bp):
ATCACTAAACTCTAA
Found at i:15029942 original size:2 final size:2
Alignment explanation
Indices: 15029935--15029980 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
15029925 TTTGTTGTTG
15029935 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
15029977 CT CT
1 CT CT
15029981 ACTCCTCCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:15031834 original size:30 final size:30
Alignment explanation
Indices: 15031782--15031840 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
15031772 GTTTCCGTAA
* *
15031782 GAAAACCTTTATGGTGAACTCTGTTAAAAT
1 GAAAACCTTTATGGCGAACTCTGATAAAAT
* * *
15031812 GAAAGCCTTTGTGGCGATCTCTGATAAAA
1 GAAAACCTTTATGGCGAACTCTGATAAAA
15031841 AAGATGCCTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (30 bp):
GAAAACCTTTATGGCGAACTCTGATAAAAT
Found at i:15033429 original size:13 final size:13
Alignment explanation
Indices: 15033411--15033440 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
15033401 GAAATGGGAA
15033411 AAAAACTAAAGAC
1 AAAAACTAAAGAC
*
15033424 AAAAACTAAAGAG
1 AAAAACTAAAGAC
15033437 AAAA
1 AAAA
15033441 TTATACAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.73, C:0.10, G:0.10, T:0.07
Consensus pattern (13 bp):
AAAAACTAAAGAC
Found at i:15044445 original size:16 final size:17
Alignment explanation
Indices: 15044424--15044456 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
15044414 TATAATCAAA
15044424 TTTCACTC-ATTCAATT
1 TTTCACTCTATTCAATT
15044440 TTTCACTCTATTCAATT
1 TTTCACTCTATTCAATT
15044457 AAATCCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTCACTCTATTCAATT
Found at i:15051750 original size:34 final size:34
Alignment explanation
Indices: 15051674--15051750 Score: 84
Period size: 34 Copynumber: 2.2 Consensus size: 34
15051664 ACCACAATGC
* **
15051674 CAGTAATCAGTAGGGCCTTTGCCCAATTTCAGTAA
1 CAGT-ATCAGTAGGGCCTTGGCCCAATAACAGTAA
* *
15051709 TAGTATCAGTGGGGCCTTGGCCC-ATAACAGTAA
1 CAGTATCAGTAGGGCCTTGGCCCAATAACAGTAA
15051742 CAGATATCA
1 CAG-TATCA
15051751 ATCTTGTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
33 10 0.29
34 22 0.63
35 3 0.09
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (34 bp):
CAGTATCAGTAGGGCCTTGGCCCAATAACAGTAA
Found at i:15051811 original size:29 final size:31
Alignment explanation
Indices: 15051755--15051813 Score: 86
Period size: 29 Copynumber: 1.9 Consensus size: 31
15051745 ATATCAATCT
*
15051755 TGTAGTGAACAGTATGTAATATCATTAATCGA
1 TGTAGTGAACAGTA-GTAAAATCATTAATCGA
15051787 TGTAGT-AACAGTA-TAAAATCATTAATC
1 TGTAGTGAACAGTAGTAAAATCATTAATC
15051814 AGTGCAGATC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 13 0.50
31 7 0.27
32 6 0.23
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (31 bp):
TGTAGTGAACAGTAGTAAAATCATTAATCGA
Found at i:15052230 original size:27 final size:26
Alignment explanation
Indices: 15052213--15052470 Score: 266
Period size: 27 Copynumber: 9.6 Consensus size: 26
15052203 GGGTATAACA
*
15052213 GTCATTTTACCCTATAGGGATATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* *
15052240 GTAATTTTACCCTATGGAGGTATTTTG
1 GTCATTTTACCCTATGG-GGTATTTCG
* * **
15052267 GTAATTTTACCCTAAAGGGGTATTTAA
1 GTCATTTTACCCT-ATGGGGTATTTCG
*
15052294 GTCATTTTACCCTATGGAGGTATTTTG
1 GTCATTTTACCCTATGG-GGTATTTCG
15052321 GTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATG-GGGTATTTCG
* * *
15052348 GTTATTTTACCTTATGAGGGTATTTCA
1 GTCATTTTACCCTATG-GGGTATTTCG
* *
15052375 TTTATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* *
15052402 GTTATTTTACCCTATAGGGGTATTTCA
1 GTCATTTTACCCTAT-GGGGTATTTCG
* *
15052429 ATCATTTTACCCTCTGAGGGTATTTCG
1 GTCATTTTACCCTATG-GGGTATTTCG
*
15052456 ATCATTTTA-CCTATG
1 GTCATTTTACCCTATG
15052471 TCTAAAGTCT
Statistics
Matches: 200, Mismatches: 25, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
26 11 0.05
27 184 0.92
28 5 0.03
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGTATTTCG
Found at i:15052436 original size:81 final size:79
Alignment explanation
Indices: 15052214--15052470 Score: 293
Period size: 81 Copynumber: 3.2 Consensus size: 79
15052204 GGTATAACAG
* * *
15052214 TCATTTTACCCTATAGGGATATTTCGGTAATTTTACCCTATGGAGGTATTTTGGTAATTTTACCC
1 TCATTTTACCCTATGGGGGTATTTCGGTAATTTTACCCTATGG-GGTATTTCGGTAATTTTACCC
* *
15052279 TA-AAGGGGTATTTAA
65 TATGA-GGGTATTTCA
* * * *
15052294 GTCATTTTACCCTATGGAGGTATTTTGGTCATTTTACCCTATGAGGGTATTTCGGTTATTTTACC
1 -TCATTTTACCCTATGGGGGTATTTCGGTAATTTTACCCTATG-GGGTATTTCGGTAATTTTACC
*
15052359 TTATGAGGGTATTTCA
64 CTATGAGGGTATTTCA
* * ** *
15052375 TTTATTTTACCCTATGGGGGTATTTCGGTTATTTTACCCTATAGGGGTATTTCAATCATTTTACC
1 -TCATTTTACCCTATGGGGGTATTTCGGTAATTTTACCCTAT-GGGGTATTTCGGTAATTTTACC
*
15052440 CTCTGAGGGTATTTCGA
64 CTATGAGGGTATTTC-A
15052457 TCATTTTA-CCTATG
1 TCATTTTACCCTATG
15052471 TCTAAAGTCT
Statistics
Matches: 151, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
80 6 0.04
81 141 0.93
82 4 0.03
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.44
Consensus pattern (79 bp):
TCATTTTACCCTATGGGGGTATTTCGGTAATTTTACCCTATGGGGTATTTCGGTAATTTTACCCT
ATGAGGGTATTTCA
Found at i:15058775 original size:6 final size:6
Alignment explanation
Indices: 15058764--15058808 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
15058754 ACAATTACAG
15058764 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAA
1 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAA
15058809 TACGGACTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (6 bp):
TAAGTT
Found at i:15066204 original size:31 final size:31
Alignment explanation
Indices: 15066132--15066204 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
15066122 CAAACTGGTA
*
15066132 ATTGAACTATTCGAAAGTTTTCATTTAAGTT
1 ATTGAACTATTCGAAAGTTTTCATTTAAGTC
* * *
15066163 ACTGAACTATTTGAAAGTTTTTATTTAAGTC
1 ATTGAACTATTCGAAAGTTTTCATTTAAGTC
*
15066194 ATTGAGCTATT
1 ATTGAACTATT
15066205 AAGGGTGTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.45
Consensus pattern (31 bp):
ATTGAACTATTCGAAAGTTTTCATTTAAGTC
Found at i:15071242 original size:16 final size:16
Alignment explanation
Indices: 15071217--15071258 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
15071207 AATAGTTTTG
*
15071217 TTTAGCACAACCAT-TA
1 TTTAGAACAA-CATATA
*
15071233 TTTAGAACAACTTATA
1 TTTAGAACAACATATA
15071249 TTTAGAACAA
1 TTTAGAACAA
15071259 TTGTGTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 2 0.09
16 21 0.91
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (16 bp):
TTTAGAACAACATATA
Found at i:15072163 original size:26 final size:27
Alignment explanation
Indices: 15072140--15072215 Score: 84
Period size: 27 Copynumber: 2.7 Consensus size: 27
15072130 AAATTCAATG
*
15072140 TATATAATTA-TAAAAATTTATCAAAT
1 TATAAAATTATTAAAAATTTATCAAAT
*
15072166 TATAAAATTATTAACAATTTAT-AAATT
1 TATAAAATTATTAAAAATTTATCAAA-T
15072193 TATCAAAAATTATTAAAATATTT
1 TAT--AAAATTATTAAAA-ATTT
15072216 TTTTTATAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
26 12 0.29
27 14 0.33
29 12 0.29
30 4 0.10
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (27 bp):
TATAAAATTATTAAAAATTTATCAAAT
Found at i:15072168 original size:18 final size:18
Alignment explanation
Indices: 15072145--15072199 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
15072135 CAATGTATAT
15072145 AATTATAAAAATTTATCA
1 AATTATAAAAATTTATCA
* *
15072163 AATTATAAAATTATTAAC-
1 AATTATAAAAAT-TTATCA
*
15072181 AATT-TATAAATTTATCA
1 AATTATAAAAATTTATCA
15072198 AA
1 AA
15072200 AATTATTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
16 4 0.13
17 7 0.23
18 15 0.50
19 4 0.13
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (18 bp):
AATTATAAAAATTTATCA
Found at i:15072189 original size:19 final size:19
Alignment explanation
Indices: 15072145--15072211 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
15072135 CAATGTATAT
* *
15072145 AATTATAAAAAT-TTATCA
1 AATTATAAAATTATTAACA
15072163 AATTATAAAATTATTAACA
1 AATTATAAAATTATTAACA
* * *
15072182 ATTTATAAATTTATCAA-A
1 AATTATAAAATTATTAACA
15072200 AATTATTAAAAT
1 AATTA-TAAAAT
15072212 ATTTTTTTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
18 16 0.40
19 24 0.60
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTATAAAATTATTAACA
Found at i:15072452 original size:16 final size:17
Alignment explanation
Indices: 15072412--15072453 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
15072402 TGTAGTCTTT
*
15072412 ATAAATTTATAATTTTC
1 ATAAATTTATAATTTAC
15072429 ATAAATTTATAA-TTAC
1 ATAAATTTATAATTTAC
*
15072445 ATATATTTA
1 ATAAATTTA
15072454 GATCCTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (17 bp):
ATAAATTTATAATTTAC
Found at i:15081380 original size:16 final size:16
Alignment explanation
Indices: 15081359--15081389 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15081349 TTCAGTATAA
*
15081359 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
15081375 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
15081390 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:15082457 original size:40 final size:41
Alignment explanation
Indices: 15082409--15082488 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 41
15082399 AATTTGGGAA
15082409 TAATTTAATTGAGTCAATTTATTCG-ATGGAATTAAATTGT
1 TAATTTAATTGAGTCAATTTATTCGAATGGAATTAAATTGT
*
15082449 TAATTTAATTGAGTCAATTTATTTGATATGGAATTAAATT
1 TAATTTAATTGAGTCAATTTATTCGA-ATGGAATTAAATT
15082489 AAGTGGTCGT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
40 24 0.65
42 13 0.35
ACGTcount: A:0.36, C:0.04, G:0.14, T:0.46
Consensus pattern (41 bp):
TAATTTAATTGAGTCAATTTATTCGAATGGAATTAAATTGT
Found at i:15089783 original size:37 final size:39
Alignment explanation
Indices: 15089727--15089838 Score: 95
Period size: 40 Copynumber: 2.9 Consensus size: 39
15089717 TGTATACATC
**
15089727 ACTTCGAATTTATTCGATGAAGCACTAGGTGCCAA-TT-T
1 ACTTCGAA-TTAACCGATGAAGCACTAGGTGCCAATTTAT
** * * *
15089765 ACTTCGGTTTAACCGATG-AGACATTGGGTGTCAATTTACT
1 ACTTCGAATTAACCGATGAAG-CACTAGGTGCCAATTTA-T
* *
15089805 ACTTCGAATTATCCGATGAGGCACTAGGTGCCAA
1 ACTTCGAATTAACCGATGAAGCACTAGGTGCCAA
15089839 ACTGGTGTGT
Statistics
Matches: 55, Mismatches: 14, Indels: 8
0.71 0.18 0.10
Matches are distributed among these distances:
36 2 0.04
37 18 0.33
38 8 0.15
40 26 0.47
41 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (39 bp):
ACTTCGAATTAACCGATGAAGCACTAGGTGCCAATTTAT
Found at i:15093412 original size:29 final size:29
Alignment explanation
Indices: 15093379--15093437 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
15093369 ATTTAATAGT
*
15093379 TTAATATTAGATTTTATTTAATACTTATC
1 TTAATATTAGATTTAATTTAATACTTATC
* *
15093408 TTAATATTATATTTAATTTAATATTTATC
1 TTAATATTAGATTTAATTTAATACTTATC
15093437 T
1 T
15093438 ACAAGATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.58
Consensus pattern (29 bp):
TTAATATTAGATTTAATTTAATACTTATC
Found at i:15100196 original size:41 final size:41
Alignment explanation
Indices: 15100151--15100249 Score: 153
Period size: 41 Copynumber: 2.4 Consensus size: 41
15100141 TCAGAACACT
* * *
15100151 GGCATTAAGCTTGCTAGACATGAAGTCTGAAATATTTTACC
1 GGCATTAAGCCTGCTAGACATAAAGTCTGAAATATTTCACC
**
15100192 GGCATTAAGCCTGCTAGATGTAAAGTCTGAAATATTTCACC
1 GGCATTAAGCCTGCTAGACATAAAGTCTGAAATATTTCACC
15100233 GGCATTAAGCCTGCTAG
1 GGCATTAAGCCTGCTAG
15100250 GCACAGAGCC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (41 bp):
GGCATTAAGCCTGCTAGACATAAAGTCTGAAATATTTCACC
Found at i:15100263 original size:41 final size:40
Alignment explanation
Indices: 15100151--15100263 Score: 124
Period size: 41 Copynumber: 2.8 Consensus size: 40
15100141 TCAGAACACT
* *
15100151 GGCATTAAGCTTGCTA-GACATGAAGTCTGAAATATTTTACC
1 GGCATTAAGCCTGCTAGGACA-G-AGTCTGAAATATTTCACC
15100192 GGCATTAAGCCTGCTAGATGTA-A-AGTCTGAAATATTTCACC
1 GGCATTAAGCCTGCTAG--G-ACAGAGTCTGAAATATTTCACC
*
15100233 GGCATTAAGCCTGCTAGGCACAGAGCCTGAA
1 GGCATTAAGCCTGCTAGG-ACAGAGTCTGAA
15100264 TAACTCAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 12
0.79 0.05 0.15
Matches are distributed among these distances:
39 2 0.03
40 1 0.02
41 56 0.90
44 2 0.03
45 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (40 bp):
GGCATTAAGCCTGCTAGGACAGAGTCTGAAATATTTCACC
Found at i:15103245 original size:37 final size:37
Alignment explanation
Indices: 15103202--15103276 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
15103192 ACGTGTCCTG
15103202 AAAGTAGAGGCTTAAAAATAGAATTTGTAGAAAACTT
1 AAAGTAGAGGCTTAAAAATAGAATTTGTAGAAAACTT
15103239 AAAGTAGAGGCTTAAAAATAGAATTTGTAGAAAACTT
1 AAAGTAGAGGCTTAAAAATAGAATTTGTAGAAAACTT
15103276 A
1 A
15103277 CTCTTAGAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.49, C:0.05, G:0.19, T:0.27
Consensus pattern (37 bp):
AAAGTAGAGGCTTAAAAATAGAATTTGTAGAAAACTT
Found at i:15105739 original size:42 final size:43
Alignment explanation
Indices: 15105677--15105785 Score: 148
Period size: 43 Copynumber: 2.5 Consensus size: 43
15105667 AGAAATAAAG
* * *
15105677 GCCGCTAAAGACCATGACCTTTAGCGGCGC-TTTTCCCACAAAC
1 GCCGCTAAA-AACATGACCTTTAACGGCACTTTTTCCCACAAAC
**
15105720 GCCGCTAAAAACATGACCTTTAACGGCACTTTTTGTCACAAAC
1 GCCGCTAAAAACATGACCTTTAACGGCACTTTTTCCCACAAAC
*
15105763 GCCGCTAAAAACATAACCTTTAA
1 GCCGCTAAAAACATGACCTTTAA
15105786 AAAAATTATT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 17 0.29
43 42 0.71
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCGCTAAAAACATGACCTTTAACGGCACTTTTTCCCACAAAC
Found at i:15108964 original size:17 final size:17
Alignment explanation
Indices: 15108942--15108975 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15108932 CTATTGCTTA
*
15108942 CCTTTTGCGGCGTTTTT
1 CCTTTTACGGCGTTTTT
*
15108959 CCTTTTACGGTGTTTTT
1 CCTTTTACGGCGTTTTT
15108976 AAAAAACGCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.21, G:0.21, T:0.56
Consensus pattern (17 bp):
CCTTTTACGGCGTTTTT
Found at i:15109574 original size:41 final size:41
Alignment explanation
Indices: 15109517--15109603 Score: 147
Period size: 41 Copynumber: 2.1 Consensus size: 41
15109507 TTATATGGAT
**
15109517 AAAATTTTTATATGGATAAGGTCGTATAACAAAGTCGGCCC
1 AAAATTTTTATATGGATAAGCCCGTATAACAAAGTCGGCCC
*
15109558 AAAATTTTTATATGGATATGCCCGTATAACAAAGTCGGCCC
1 AAAATTTTTATATGGATAAGCCCGTATAACAAAGTCGGCCC
15109599 AAAAT
1 AAAAT
15109604 CGTAGAACTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (41 bp):
AAAATTTTTATATGGATAAGCCCGTATAACAAAGTCGGCCC
Found at i:15109862 original size:24 final size:25
Alignment explanation
Indices: 15109821--15109868 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
15109811 GTCTTTTCTT
15109821 TAAAAGTATATAAATATTATAAAAA
1 TAAAAGTATATAAATATTATAAAAA
* *
15109846 TAAAAGTTTA-AAATATTTTAAAA
1 TAAAAGTATATAAATATTATAAAA
15109869 TTCATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
TAAAAGTATATAAATATTATAAAAA
Found at i:15111456 original size:41 final size:41
Alignment explanation
Indices: 15111411--15111606 Score: 284
Period size: 41 Copynumber: 4.8 Consensus size: 41
15111401 AGATTTTATT
* *
15111411 ATTAGCGGCGCTTTTTCAAAAACGCTGCTAAAGGTACGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCACGAGC
* * * *
15111452 ATTAGCGGCGCTTTTCCAAAAATGCCGCAAAAGGTACGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCACGAGC
* *
15111493 ATTAGCGGTGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCACGAGC
* *
15111534 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCACGAGC
* *
15111575 ATTAGCAGCGCTTTTTCAAAAACGCCACTAAA
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAA
15111607 TGCCCTAAAA
Statistics
Matches: 140, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 140 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.21
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCACGAGC
Found at i:15111740 original size:40 final size:39
Alignment explanation
Indices: 15111659--15111781 Score: 142
Period size: 40 Copynumber: 3.1 Consensus size: 39
15111649 TTTGCGGCAC
* * * *
15111659 TTTTTGGAAAA-CGCGGCTAATGCTTATTTTTAGTGGTG
1 TTTTTGCAAAAGCGCCGCTAATGCTGATTTTTAGTGGCG
* *
15111697 TTTTT-CAAAATGCGCCGCTAATGCTCGATCTTTAGCGGCG
1 TTTTTGCAAAA-GCGCCGCTAATGCT-GATTTTTAGTGGCG
*
15111737 TTTTTGTAAAAGCGCCGCTAATGCTTGATTTTTAGTGGCG
1 TTTTTGCAAAAGCGCCGCTAATGC-TGATTTTTAGTGGCG
15111777 TTTTT
1 TTTTT
15111782 TATCCAAACG
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
37 4 0.06
38 5 0.07
39 12 0.17
40 45 0.63
41 5 0.07
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.41
Consensus pattern (39 bp):
TTTTTGCAAAAGCGCCGCTAATGCTGATTTTTAGTGGCG
Found at i:15111794 original size:41 final size:41
Alignment explanation
Indices: 15111674--15111798 Score: 136
Period size: 40 Copynumber: 3.1 Consensus size: 41
15111664 GGAAAACGCG
* *
15111674 GCTAATGCTT-ATTTTTAGTGGTGTTTTTCA--AAATGCGCC
1 GCTAATGCTTGATTTTTAGTGGCGTTTTTTATCAAA-GCGCC
* * *
15111713 GCTAATGCTCGATCTTTAGCGGCGTTTTTGTA--AAAGCGCC
1 GCTAATGCTTGATTTTTAGTGGCGTTTTT-TATCAAAGCGCC
15111753 GCTAATGCTTGATTTTTAGTGGCGTTTTTTATCCAAA-CGCC
1 GCTAATGCTTGATTTTTAGTGGCGTTTTTTAT-CAAAGCGCC
15111794 GCTAA
1 GCTAA
15111799 AAATGCCGCT
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
39 11 0.15
40 46 0.63
41 13 0.18
42 3 0.04
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (41 bp):
GCTAATGCTTGATTTTTAGTGGCGTTTTTTATCAAAGCGCC
Found at i:15121496 original size:18 final size:18
Alignment explanation
Indices: 15121475--15121509 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15121465 TAAATGCATT
*
15121475 TATTTATTAAATAAAATA
1 TATTAATTAAATAAAATA
*
15121493 TATTAATTAAATTAAAT
1 TATTAATTAAATAAAAT
15121510 GTATATTTTG
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TATTAATTAAATAAAATA
Found at i:15121848 original size:94 final size:94
Alignment explanation
Indices: 15121729--15122065 Score: 363
Period size: 95 Copynumber: 3.6 Consensus size: 94
15121719 TTTTGGTGTT
* * ** * *
15121729 TTTAG-GTTTAGGGTTTTAAAGAAAAAAATTAAATAAA-TAGGGTTTAGGGTTTGTCAATTAAAT
1 TTTAGTGTTTAGGGTTTTTAAG-AAAAAATCAAATAAATTAGGGTTTAGGGTTAATTAAGTAAAT
*
15121792 TAATTATAAATTTTTTAAAATTAGATTAGG
65 TAATTATAAATTTTTAAAAATTAGATTAGG
* ** * * * *
15121822 TTTCGTGTTTATTGTTTTTAAGAAAAAATCAATTAAATTAGGATTTAGGGTTACTTAAGTAATTT
1 TTTAGTGTTTAGGGTTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTAATTAAGTAAATT
* * * *
15121887 AATTAAAAAATTTTAAAAATCATATTAGGG
66 AATTATAAATTTTTAAAAATTAGATTA-GG
** * * * * *
15121917 TTTAAAGTTAAGGGTTTTTAAGAAAAAATCAAATAAATTAGAGTTCAAGGTTAATTGAGTAAATT
1 TTTAGTGTTTAGGGTTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTAATTAAGTAAATT
15121982 AATTATAAATTTTTAAAAAATTAGATTAGAG
66 AATTATAAATTTTT-AAAAATTAGATTAG-G
* * *
15122013 TTTAGTGTTTAGGGTTTTTCAGTAAAAACTCAAATAAATTAGGGTTTGGGGTT
1 TTTAGTGTTTAGGGTTTTTAAG-AAAAAATCAAATAAATTAGGGTTTAGGGTT
15122066 TAGGGTTACT
Statistics
Matches: 194, Mismatches: 44, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
93 17 0.09
94 56 0.29
95 66 0.34
96 30 0.15
97 25 0.13
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.40
Consensus pattern (94 bp):
TTTAGTGTTTAGGGTTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTAATTAAGTAAATT
AATTATAAATTTTTAAAAATTAGATTAGG
Found at i:15127735 original size:61 final size:61
Alignment explanation
Indices: 15127660--15127784 Score: 223
Period size: 61 Copynumber: 2.0 Consensus size: 61
15127650 TGTTTGTTAT
15127660 TCAAAAGCAGAGTATGTGTTCCAAAAAATTCAGAGCTAATACAAAAGATTTTACATAAAGC
1 TCAAAAGCAGAGTATGTGTTCCAAAAAATTCAGAGCTAATACAAAAGATTTTACATAAAGC
* * *
15127721 TCAAAGGCAGAGTATGTGTTCCAAAGAATTCAGAGCTAATACAGAAGATTTTACATAAAGC
1 TCAAAAGCAGAGTATGTGTTCCAAAAAATTCAGAGCTAATACAAAAGATTTTACATAAAGC
15127782 TCA
1 TCA
15127785 TAGTGGTACT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (61 bp):
TCAAAAGCAGAGTATGTGTTCCAAAAAATTCAGAGCTAATACAAAAGATTTTACATAAAGC
Found at i:15129968 original size:6 final size:6
Alignment explanation
Indices: 15129947--15129979 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
15129937 ATATGTAAAT
15129947 TGAAT- TGAAT- TGAATG TGAATG TGAATG TGAAT
1 TGAATG TGAATG TGAATG TGAATG TGAATG TGAAT
15129980 TTTATTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (6 bp):
TGAATG
Found at i:15129974 original size:12 final size:11
Alignment explanation
Indices: 15129939--15129980 Score: 59
Period size: 12 Copynumber: 3.8 Consensus size: 11
15129929 TTTGCCTAAT
*
15129939 ATGTAAATTGA
1 ATGTGAATTGA
15129950 AT-TGAATTGA
1 ATGTGAATTGA
15129960 ATGTGAATGTGA
1 ATGTGAAT-TGA
15129972 ATGTGAATT
1 ATGTGAATT
15129981 TTATTAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 9 0.32
11 8 0.29
12 11 0.39
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (11 bp):
ATGTGAATTGA
Found at i:15130495 original size:25 final size:25
Alignment explanation
Indices: 15130467--15130527 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
15130457 GCTCTTTGTA
* * *
15130467 AGCTTCCCGATACGTGGGTATCTGG
1 AGCTTCCCGATACATGGCTATCTAG
* * *
15130492 AGCTTCTCAATACATGGCTATCTAT
1 AGCTTCCCGATACATGGCTATCTAG
15130517 AGCTTCCCGAT
1 AGCTTCCCGAT
15130528 TAATGACTCT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (25 bp):
AGCTTCCCGATACATGGCTATCTAG
Found at i:15133795 original size:42 final size:43
Alignment explanation
Indices: 15133721--15133802 Score: 105
Period size: 42 Copynumber: 1.9 Consensus size: 43
15133711 TTTTGCAATG
* * *
15133721 GTGAGGAGTGAGAGGGAACGGAGAGGTGGTGAA-ATTGGAAGA
1 GTGAGGAGTGAGAGGGAAAGGAGAGATAGTGAAGATTGGAAGA
*
15133763 GTGAGGAGTGAGA-GGAAAGGTGATGATAGTGAAGATTGGA
1 GTGAGGAGTGAGAGGGAAAGGAGA-GATAGTGAAGATTGGA
15133803 CACAATGGCA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 8 0.24
42 20 0.59
43 6 0.18
ACGTcount: A:0.34, C:0.01, G:0.48, T:0.17
Consensus pattern (43 bp):
GTGAGGAGTGAGAGGGAAAGGAGAGATAGTGAAGATTGGAAGA
Found at i:15136660 original size:9 final size:9
Alignment explanation
Indices: 15136646--15136670 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
15136636 CATTCTAAAC
15136646 ATAATTTTA
1 ATAATTTTA
15136655 ATAATTTTA
1 ATAATTTTA
15136664 ATAATTT
1 ATAATTT
15136671 CTATCATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATAATTTTA
Found at i:15137151 original size:11 final size:11
Alignment explanation
Indices: 15137129--15137178 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
15137119 AATTATTTTA
*
15137129 TCAATTTCCTC
1 TCAAATTCCTC
*
15137140 TCAAATTGCTC
1 TCAAATTCCTC
15137151 TCAAATTCCT-
1 TCAAATTCCTC
*
15137161 TCCAAATTTCTC
1 T-CAAATTCCTC
15137173 TCAAAT
1 TCAAAT
15137179 CCATATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 1 0.03
11 31 0.94
12 1 0.03
ACGTcount: A:0.28, C:0.30, G:0.02, T:0.40
Consensus pattern (11 bp):
TCAAATTCCTC
Found at i:15137200 original size:51 final size:51
Alignment explanation
Indices: 15137138--15137237 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
15137128 ATCAATTTCC
15137138 TCTCAAATTGCTCTCAAATTCCT-TCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAAATTGCTCTCAAATTCCTCT-CAAATTTCTCTCAAATCCATATTTAA
* * * * *
15137189 TCTCAATTTGCTCTCAATTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAAATTGCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTT
15137238 TTAAATAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.02, T:0.44
Consensus pattern (51 bp):
TCTCAAATTGCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTTAA
Found at i:15137566 original size:126 final size:125
Alignment explanation
Indices: 15137335--15137640 Score: 429
Period size: 125 Copynumber: 2.4 Consensus size: 125
15137325 TCGTCTTGAT
* * * **
15137335 AAGCGCATCCACGTGGGCGCGATTTCACAAATTCTTCTGATAAAGCATATTGCTTGAAGCGTTTT
1 AAGCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTGATAAAGCATCCTGCTTGAAGCGTTTT
* *
15137400 TATACTATTTGCTCAGAAACATCAACTCGAAATTTTTTTTTTCCAGGACCTACTGTAGCAA
66 TATACTATTTGCTCAGAAACATCAACTCGAAA-TTTATTTTTCCACGACCTACTGTAGCAA
* *
15137461 AAGCGTGTCCACGAGGGCGTGATTTCACAAATTCTTCTGATAAAGCATCCTGCTTGAAGCATTTT
1 AAGCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTGATAAAGCATCCTGCTTGAAGC-GTTT
*
15137526 TTATACTATTTGCTCAGAAACATCAACTCGAAA-TTATTTTTGCACGACCTACTGTAGCAA
65 TTATACTATTTGCTCAGAAACATCAACTCGAAATTTATTTTTCCACGACCTACTGTAGCAA
* * * *
15137586 AAGCGCGTACACGTA-GGCGTAACTTT-AGAATTTCTTCTGATAAAGCATCCTGCTT
1 AAGCGCGTCCACG-AGGGCGTGA-TTTCACAAATTCTTCTGATAAAGCATCCTGCTT
15137641 TGATTTTATC
Statistics
Matches: 162, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
125 68 0.42
126 58 0.36
127 36 0.22
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (125 bp):
AAGCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTGATAAAGCATCCTGCTTGAAGCGTTTT
TATACTATTTGCTCAGAAACATCAACTCGAAATTTATTTTTCCACGACCTACTGTAGCAA
Found at i:15137803 original size:21 final size:22
Alignment explanation
Indices: 15137762--15137804 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15137752 TCTCCAAAAT
**
15137762 CCTAAAAACCCTAAACACTAAC
1 CCTAAAAACCAAAAACACTAAC
15137784 CCTAAAAACCAAAAAC-CTAAC
1 CCTAAAAACCAAAAACACTAAC
15137805 GTGGGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.53, C:0.35, G:0.00, T:0.12
Consensus pattern (22 bp):
CCTAAAAACCAAAAACACTAAC
Found at i:15139252 original size:96 final size:94
Alignment explanation
Indices: 15139032--15139347 Score: 402
Period size: 96 Copynumber: 3.3 Consensus size: 94
15139022 GTTTTTAGAT
* * * * * *
15139032 TTTAGGGTTTTAAAGAAAAAATTAAATAAATAAGGGTTTAGGCTTTCTTAATTAAATTAATTATA
1 TTTAGGGTTTTAAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATA
* *
15139097 AATTTTAAAAATTAGATTAGGGTTTAGCA
66 AATTTAAAAAATTAGATTAGAGTTTAGCA
** * *
15139126 TTTATGATTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTCT
1 TTTA-GGGTTTTAAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
* **
15139191 AAATTTAAAAAAAATT-GATTAGTGTTTAGGG
65 AAATTT--AAAAAATTAGATTAGAGTTTAGCA
*
15139222 TTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
1 TTTAGGG-TTTTAAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
* *
15139287 AAATTTTGAAAAAATTAGATTGGAGTTTAGTA
65 AAA-TTT-AAAAAATTAGATTAGAGTTTAGCA
15139319 TTTAGGGTTTTAAAG-AAAAATCAAATAAA
1 TTTAGGGTTTTAAAGAAAAAATCAAATAAA
15139348 GGTAGTTGTT
Statistics
Matches: 193, Mismatches: 23, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
94 4 0.02
95 71 0.37
96 90 0.47
97 28 0.15
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.38
Consensus pattern (94 bp):
TTTAGGGTTTTAAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATA
AATTTAAAAAATTAGATTAGAGTTTAGCA
Found at i:15143339 original size:2 final size:2
Alignment explanation
Indices: 15143332--15143362 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15143322 CAAGCTCTAA
15143332 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
15143363 TTTTAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:15145977 original size:37 final size:36
Alignment explanation
Indices: 15145935--15146053 Score: 158
Period size: 37 Copynumber: 3.4 Consensus size: 36
15145925 TGGAGAGTTG
* *
15145935 TTTTCTTGATATTATTTGAGATTGATTCAAAAGTTTA
1 TTTTCTTGATATTATTT-AGATTGATTCAAAGGGTTA
*
15145972 TTTTCTTAATATTATTTAAGATTGATTCAAAGGGTTA
1 TTTTCTTGATATTATTT-AGATTGATTCAAAGGGTTA
15146009 TTTTCTTG--A-TA-TTA-ATTGATTCAAAGGGTTA
1 TTTTCTTGATATTATTTAGATTGATTCAAAGGGTTA
15146040 TTTTCTTGATATTA
1 TTTTCTTGATATTA
15146054 ATGTTGTTTG
Statistics
Matches: 74, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
31 25 0.34
32 1 0.01
33 3 0.04
34 4 0.05
35 1 0.01
37 40 0.54
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.51
Consensus pattern (36 bp):
TTTTCTTGATATTATTTAGATTGATTCAAAGGGTTA
Found at i:15146030 original size:31 final size:31
Alignment explanation
Indices: 15145992--15146055 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
15145982 ATTATTTAAG
15145992 ATTGATTCAAAGGGTTATTTTCTTGATATTA
1 ATTGATTCAAAGGGTTATTTTCTTGATATTA
15146023 ATTGATTCAAAGGGTTATTTTCTTGATATTA
1 ATTGATTCAAAGGGTTATTTTCTTGATATTA
15146054 AT
1 AT
15146056 GTTGTTTGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.30, C:0.06, G:0.16, T:0.48
Consensus pattern (31 bp):
ATTGATTCAAAGGGTTATTTTCTTGATATTA
Found at i:15146504 original size:5 final size:5
Alignment explanation
Indices: 15146494--15146519 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
15146484 TTATTTTTTA
15146494 TTAAT TTAAT TTAAT TTAAT TTAAT T
1 TTAAT TTAAT TTAAT TTAAT TTAAT T
15146520 AGAGATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTAAT
Found at i:15157420 original size:37 final size:37
Alignment explanation
Indices: 15157379--15157462 Score: 98
Period size: 37 Copynumber: 2.3 Consensus size: 37
15157369 TTACGAATTA
*
15157379 ATTAGCTCTTCAGAATATCTGGCGTGTTTATAGA-TGG
1 ATTAGCTCTTCAGAACATCTGGCGTGTTT-TAGATTGG
* * * * *
15157416 ATTAGCTCTTCGGAGCATTTGGTGTGTTTTCGATTGG
1 ATTAGCTCTTCAGAACATCTGGCGTGTTTTAGATTGG
15157453 ATTAGCTCTT
1 ATTAGCTCTT
15157463 ATGAGCGTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
36 3 0.08
37 37 0.93
ACGTcount: A:0.19, C:0.14, G:0.25, T:0.42
Consensus pattern (37 bp):
ATTAGCTCTTCAGAACATCTGGCGTGTTTTAGATTGG
Found at i:15157492 original size:36 final size:37
Alignment explanation
Indices: 15157398--15157481 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 37
15157388 TCAGAATATC
* *
15157398 TGGCGTGTTTATAGA-TGGATTAGCTCTTCGGAGCATT
1 TGGCGTGTTT-TCGATTGGATTAGCTCTTAGGAGCATT
* * *
15157435 TGGTGTGTTTTCGATTGGATTAGCTCTTATGAGCGTT
1 TGGCGTGTTTTCGATTGGATTAGCTCTTAGGAGCATT
15157472 TGGCGTGTTT
1 TGGCGTGTTT
15157482 CGTGTGGATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
36 3 0.08
37 37 0.93
ACGTcount: A:0.14, C:0.12, G:0.31, T:0.43
Consensus pattern (37 bp):
TGGCGTGTTTTCGATTGGATTAGCTCTTAGGAGCATT
Found at i:15166330 original size:35 final size:35
Alignment explanation
Indices: 15166291--15166459 Score: 196
Period size: 35 Copynumber: 4.8 Consensus size: 35
15166281 GTTTCAGTTA
15166291 GATTAGCTCTTATGAGCATTGGCGTGTTACGATTG
1 GATTAGCTCTTATGAGCATTGGCGTGTTACGATTG
* * * *
15166326 GATTAGCTCTTATGAGCATT-ACTCTGCTACGGTTG
1 GATTAGCTCTTATGAGCATTGGC-GTGTTACGATTG
* * * *
15166361 GACTAGCTCTTATGAGCACTGGCGTGTTTCGGTTG
1 GATTAGCTCTTATGAGCATTGGCGTGTTACGATTG
* * * *
15166396 GACTAGCTCTTATGAGCACTAGCGTGTTTCGATTG
1 GATTAGCTCTTATGAGCATTGGCGTGTTACGATTG
* *
15166431 AATTAGCTCTTATGAGCATTGGTGTGTTA
1 GATTAGCTCTTATGAGCATTGGCGTGTTA
15166460 TGGTTGGGTT
Statistics
Matches: 114, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
34 1 0.01
35 112 0.98
36 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.37
Consensus pattern (35 bp):
GATTAGCTCTTATGAGCATTGGCGTGTTACGATTG
Found at i:15169922 original size:21 final size:21
Alignment explanation
Indices: 15169881--15169923 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
15169871 AGGTAAGTTG
15169881 ATTTGTTATGATTGTGATTAA
1 ATTTGTTATGATTGTGATTAA
15169902 ATTT-TTATGTATT-TGAGTTAA
1 ATTTGTTATG-ATTGTGA-TTAA
15169923 A
1 A
15169924 AATATTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.53
Consensus pattern (21 bp):
ATTTGTTATGATTGTGATTAA
Found at i:15177197 original size:45 final size:45
Alignment explanation
Indices: 15177135--15177260 Score: 180
Period size: 45 Copynumber: 2.8 Consensus size: 45
15177125 CAAAAGATGG
* * *
15177135 CATAACATTTTTTAGCTATGGTCTTATTCATTTTTATCATGACGC
1 CATAACATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACGC
* *
15177180 CATAATATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACGT
1 CATAACATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACGC
** *
15177225 CATAACATCTTTCAGCTATAATCTTACTAATTTTTA
1 CATAACATCTTTCAGCTATGGTCTTACTCATTTTTA
15177261 GGCGTATAAC
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 72 1.00
ACGTcount: A:0.27, C:0.19, G:0.09, T:0.45
Consensus pattern (45 bp):
CATAACATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACGC
Found at i:15185710 original size:19 final size:19
Alignment explanation
Indices: 15185672--15185716 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
15185662 ATCAGGTATT
* *
15185672 GATACTAGGCAAGGGTATC
1 GATACCAGGCAAGGGCATC
*
15185691 GATACCAGGCAGGGGCATC
1 GATACCAGGCAAGGGCATC
15185710 GATACCA
1 GATACCA
15185717 TATAGAACGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.31, T:0.16
Consensus pattern (19 bp):
GATACCAGGCAAGGGCATC
Found at i:15189048 original size:17 final size:19
Alignment explanation
Indices: 15189011--15189049 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
15189001 ATACAATTTA
*
15189011 TTATTTTAATATTTCAATT
1 TTATTTTAATATATCAATT
15189030 TTATTTTAATA-AT-AATT
1 TTATTTTAATATATCAATT
15189047 TTA
1 TTA
15189050 AATAATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TTATTTTAATATATCAATT
Found at i:15190351 original size:9 final size:9
Alignment explanation
Indices: 15190314--15190398 Score: 53
Period size: 9 Copynumber: 9.0 Consensus size: 9
15190304 ATTTAAAATT
*
15190314 TTATTAAAA
1 TTATAAAAA
*
15190323 TTCTATAAAA
1 TTATA-AAAA
15190333 TTCATAAAAA
1 TT-ATAAAAA
15190343 TTATAAAAA
1 TTATAAAAA
** * *
15190352 AAATTAGAA
1 TTATAAAAA
* *
15190361 GTATTAAAA
1 TTATAAAAA
*
15190370 TTGATATAAAC
1 TT-ATA-AAAA
15190381 TTATAAAAA
1 TTATAAAAA
15190390 TTATAAAAA
1 TTATAAAAA
15190399 AATCATAAAA
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
9 34 0.59
10 17 0.29
11 7 0.12
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.34
Consensus pattern (9 bp):
TTATAAAAA
Found at i:15190415 original size:47 final size:47
Alignment explanation
Indices: 15190316--15190415 Score: 114
Period size: 47 Copynumber: 2.1 Consensus size: 47
15190306 TTAAAATTTT
* * **
15190316 ATTAAAATTCTATAAAATTCATAAAAATTATAAAAAAAATTAGAAGT
1 ATTAAAATTATATAAAATTCATAAAAATTATAAAAAAAATCAGAAAA
* *
15190363 ATTAAAATTGATATAAACTT-ATAAAAATTAT-AAAAAAATCATAAAA
1 ATTAAAATT-ATATAAAATTCATAAAAATTATAAAAAAAATCAGAAAA
15190409 ACTTAAA
1 A-TTAAA
15190416 CTAGATCATA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
46 12 0.27
47 25 0.56
48 8 0.18
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (47 bp):
ATTAAAATTATATAAAATTCATAAAAATTATAAAAAAAATCAGAAAA
Found at i:15190543 original size:16 final size:15
Alignment explanation
Indices: 15190522--15190551 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
15190512 TTGAATCGAT
15190522 TTTTTAATATTTTTAA
1 TTTTTAAT-TTTTTAA
15190538 TTTTTAATTTTTTA
1 TTTTTAATTTTTTA
15190552 TTTAATTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTAATTTTTTAA
Found at i:15191210 original size:4 final size:4
Alignment explanation
Indices: 15191203--15191236 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
15191193 GTATTTATTA
* *
15191203 TTTG TTTG TTTG TTTG CTTG TTTG CTTG TTTG TT
1 TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TT
15191237 ATTCATTAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.00, C:0.06, G:0.24, T:0.71
Consensus pattern (4 bp):
TTTG
Found at i:15191345 original size:26 final size:27
Alignment explanation
Indices: 15191304--15191361 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 27
15191294 GAACACATAT
*
15191304 AATTTTAAATAAACGAACATGATCAAA
1 AATTTTAAATAAACGAACATGAACAAA
*
15191331 AATTTTGAA-AAACGAACATGAACAAA
1 AATTTTAAATAAACGAACATGAACAAA
*
15191357 GATTT
1 AATTT
15191362 GTTCGTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 20 0.71
27 8 0.29
ACGTcount: A:0.53, C:0.10, G:0.10, T:0.26
Consensus pattern (27 bp):
AATTTTAAATAAACGAACATGAACAAA
Found at i:15191400 original size:15 final size:15
Alignment explanation
Indices: 15191362--15191400 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
15191352 ACAAAGATTT
*
15191362 GTTCGTTTAAGCTCG
1 GTTCGTTTAAACTCG
*
15191377 GTTTGTTTAAACTCG
1 GTTCGTTTAAACTCG
*
15191392 GTTCATTTA
1 GTTCGTTTA
15191401 CAACCCTAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.18, C:0.15, G:0.21, T:0.46
Consensus pattern (15 bp):
GTTCGTTTAAACTCG
Found at i:15191470 original size:19 final size:19
Alignment explanation
Indices: 15191424--15191474 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
15191414 ACCCATGCTC
*
15191424 TTATTAAATATTAGAAAAA
1 TTATTAAATTTTAGAAAAA
* ** *
15191443 ATAAAAAATTTTAGAAAAG
1 TTATTAAATTTTAGAAAAA
15191462 TTATTAAATTTTA
1 TTATTAAATTTTA
15191475 ATAAAAATAT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (19 bp):
TTATTAAATTTTAGAAAAA
Found at i:15191794 original size:10 final size:10
Alignment explanation
Indices: 15191779--15191863 Score: 54
Period size: 10 Copynumber: 8.9 Consensus size: 10
15191769 ATTTATAAAA
15191779 TTTTTATAAT
1 TTTTTATAAT
15191789 TTTTTAT-A-
1 TTTTTATAAT
*
15191797 TTTCTAT-AT
1 TTTTTATAAT
*
15191806 ATTTTAT-AT
1 TTTTTATAAT
**
15191815 TTTTT-TACG
1 TTTTTATAAT
*
15191824 TTTTTATAAA
1 TTTTTATAAT
* *
15191834 ATTTTACAATT
1 TTTTTATAA-T
15191845 TTTTTATAAT
1 TTTTTATAAT
*
15191855 TTTTAATAA
1 TTTTTATAA
15191864 AATTTTAATA
Statistics
Matches: 57, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
8 8 0.14
9 17 0.30
10 25 0.44
11 7 0.12
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.65
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:15191810 original size:27 final size:28
Alignment explanation
Indices: 15191753--15191848 Score: 88
Period size: 27 Copynumber: 3.4 Consensus size: 28
15191743 TTACATTTTG
*
15191753 TATAATTTTCTTAACAATT-TATAAAATTTT
1 TATAATTTT-TT-ACATTTCTATAAAA-TTT
* *
15191783 TATAATTTTTTATATTTCTAT-ATATTT
1 TATAATTTTTTACATTTCTATAAAATTT
* * *
15191810 TATATTTTTTTACGTTTTTATAAAATTT
1 TATAATTTTTTACATTTCTATAAAATTT
*
15191838 TACAATTTTTT
1 TATAATTTTTT
15191849 TATAATTTTT
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
27 20 0.37
28 20 0.37
29 5 0.09
30 9 0.17
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.61
Consensus pattern (28 bp):
TATAATTTTTTACATTTCTATAAAATTT
Found at i:15191884 original size:27 final size:28
Alignment explanation
Indices: 15191852--15191905 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
15191842 ATTTTTTTAT
15191852 AATTTTTAATAAAATTT-TAATATTTGA
1 AATTTTTAATAAAATTTATAATATTTGA
*
15191879 AATTTTTATTAAAATTTAATAATATTT
1 AATTTTTAATAAAATTT-ATAATATTT
15191906 ATAGCTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 16 0.67
29 8 0.33
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (28 bp):
AATTTTTAATAAAATTTATAATATTTGA
Found at i:15193464 original size:125 final size:125
Alignment explanation
Indices: 15193072--15193482 Score: 682
Period size: 124 Copynumber: 3.3 Consensus size: 125
15193062 ATTTATTAAG
* * * *
15193072 GAAATCGCTCCCACGTGGACGCGTTTTTGATATAGTAGGTCCAG-AAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* *
15193136 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGTTTTATAAGAAGAATTTCT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATAAGAAGAATTTTT
*
15193196 GAAATCGCTCCTACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
*
15193261 GTTTCTGAGCAAATAGTAT-AAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATAAGAAGAATTTTT
* * *
15193320 GAAATCGCTCCCACTTGGACGCGCTTTTGCTACAGTAGGTTCTGAAAAAATAATTTTGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* *
15193385 GTTTCTGAGCAAATAGTATAAAAAATGCTTCAAGCAGGATGCTTTATTAGAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATAAGAAGAATTTTT
*
15193445 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAG
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
15193483 CATGTTTGGG
Statistics
Matches: 270, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
124 156 0.58
125 114 0.42
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (125 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATAAGAAGAATTTTT
Found at i:15196042 original size:56 final size:56
Alignment explanation
Indices: 15195972--15196092 Score: 215
Period size: 56 Copynumber: 2.2 Consensus size: 56
15195962 GAATATTAAC
* *
15195972 TATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATAAACTATTTTG
1 TATTTTATTTTTTATTACATCAAATAATATCAAAATATTCAAAATAAACTATTTTG
*
15196028 TATTTTATTTTTTATTACATCAAATAATATCAAAATATTCAAATTAAACTATTTTG
1 TATTTTATTTTTTATTACATCAAATAATATCAAAATATTCAAAATAAACTATTTTG
15196084 TATTTTATT
1 TATTTTATT
15196093 ACATTAATAT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.49
Consensus pattern (56 bp):
TATTTTATTTTTTATTACATCAAATAATATCAAAATATTCAAAATAAACTATTTTG
Found at i:15198257 original size:10 final size:10
Alignment explanation
Indices: 15198233--15198283 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
15198223 TTTTTACGAT
*
15198233 TTAAAAAAAA
1 TTAAAAATAA
15198243 TTTAAAAATAA
1 -TTAAAAATAA
**
15198254 TTAAAAATTTT
1 TTAAAAA-TAA
15198265 TTAAAAATAA
1 TTAAAAATAA
15198275 TTAAAAATA
1 TTAAAAATA
15198284 GGAATTTAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
10 17 0.50
11 17 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
TTAAAAATAA
Found at i:15198259 original size:21 final size:21
Alignment explanation
Indices: 15198233--15198281 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
15198223 TTTTTACGAT
15198233 TTAAAAAAAATTTAAAAATAA
1 TTAAAAAAAATTTAAAAATAA
***
15198254 TTAAAAATTTTTTAAAAATAA
1 TTAAAAAAAATTTAAAAATAA
15198275 TTAAAAA
1 TTAAAAA
15198282 TAGGAATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
TTAAAAAAAATTTAAAAATAA
Found at i:15198282 original size:21 final size:21
Alignment explanation
Indices: 15198243--15198282 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
15198233 TTAAAAAAAA
15198243 TTTAAAAATAATTAAAAATTT
1 TTTAAAAATAATTAAAAATTT
15198264 TTTAAAAATAATTAAAAAT
1 TTTAAAAATAATTAAAAAT
15198283 AGGAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTAAAAATAATTAAAAATTT
Found at i:15198348 original size:51 final size:50
Alignment explanation
Indices: 15198279--15198378 Score: 123
Period size: 51 Copynumber: 2.0 Consensus size: 50
15198269 AAATAATTAA
15198279 AAATAGGAATTTAAGAGAAATTT-AAGAGGAAATTGAGAGCAAATTGAGATT
1 AAATAGGAATTTAAGAGAAATTTGAA-A-GAAATTGAGAGCAAATTGAGATT
* * *
15198330 AAATATGG-ATTTGAGAGAAATTTGGAAAGAAATTGAGAGTAATTTGAGA
1 AAATA-GGAATTTAAGAGAAATTT-GAAAGAAATTGAGAGCAAATTGAGA
15198379 GGAAATTAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
51 38 0.88
52 3 0.07
53 2 0.05
ACGTcount: A:0.47, C:0.01, G:0.25, T:0.27
Consensus pattern (50 bp):
AAATAGGAATTTAAGAGAAATTTGAAAGAAATTGAGAGCAAATTGAGATT
Found at i:15198352 original size:11 final size:11
Alignment explanation
Indices: 15198338--15198385 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
15198328 TTAAATATGG
15198338 ATTTGAGAGAA
1 ATTTGAGAGAA
*
15198349 ATTTGGAAAGAA
1 ATTT-GAGAGAA
*
15198361 A-TTGAGAGTA
1 ATTTGAGAGAA
15198371 ATTTGAGAGGAA
1 ATTTGAGA-GAA
15198383 ATT
1 ATT
15198386 AAGAAATGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
10 6 0.20
11 12 0.40
12 12 0.40
ACGTcount: A:0.44, C:0.00, G:0.27, T:0.29
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:15199178 original size:27 final size:27
Alignment explanation
Indices: 15199148--15199202 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
15199138 TTACTAAATG
15199148 AGTATTCTTTTTTAATTTTAAAATCTT
1 AGTATTCTTTTTTAATTTTAAAATCTT
15199175 AGTATTCTTTTTTAATTTTAAAATCTT
1 AGTATTCTTTTTTAATTTTAAAATCTT
15199202 A
1 A
15199203 CATCAACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (27 bp):
AGTATTCTTTTTTAATTTTAAAATCTT
Found at i:15206057 original size:89 final size:89
Alignment explanation
Indices: 15205897--15206412 Score: 622
Period size: 89 Copynumber: 5.8 Consensus size: 89
15205887 AACAAATCAG
* * * * * *
15205897 TGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAACAACCTTACCT
1 TGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* **
15205962 TTCTGTACTGACAATGGAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * *
15205986 TGAAGATAACAGATCTTGCTTTCCTATACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCT
1 TGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
15206051 TCCTGTACTGACAGCGGAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* ** * * *
15206075 TAAAGATAGTAGATCTTGCCTTCCTTGTACTGATAGCGAAGCAGATCAAAGACACCAGCCTCGCC
1 TGAAGATAACAGATCTTGCCTTCC-TGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
* * * *
15206140 TTCCTGTACTAACAGTGAAGTAGAC
65 TTCCTGTACTGACAGCGGAGCAGAC
* * * *
15206165 TGAAGATAACAAATATTGCCTTTCTGTACTGACAACGAAGCAGATCGAAGACACCAGCCTTG-CT
1 TGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
** *
15206229 TCCCTGTGTTTG-CAGCGGAACAGAC
66 T-CCTGT-ACTGACAGCGGAGCAGAC
* * *
15206254 TGAAGATAGCAGATCTTGCCTTCTTGTACTGACAGCGAAGCAGATCGAAGGCACCAGCCTTGCCT
1 TGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
15206319 TCCTGTACTGACAGCGAAGCAGAT
66 TCCTGTACTGACAGCGGAGCAGAC
* * * * * *
15206343 TGAAGATAACAGATATTACCTTCTTGTACTGATAGCGAAGAAGATCGAAGACACCAGTCTTGCCT
1 TGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
15206408 CCCTG
66 TCCTG
15206413 GGTTTGTAGC
Statistics
Matches: 360, Mismatches: 62, Indels: 10
0.83 0.14 0.02
Matches are distributed among these distances:
88 5 0.01
89 277 0.77
90 78 0.22
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (89 bp):
TGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
TCCTGTACTGACAGCGGAGCAGAC
Found at i:15206373 original size:178 final size:178
Alignment explanation
Indices: 15205899--15206445 Score: 704
Period size: 178 Copynumber: 3.1 Consensus size: 178
15205889 CAAATCAGTG
* * * * * * *
15205899 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAACAACCTTACCTTT
1 AAGATAGCAGATCTTGCCTTCTTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTC
* * * * * *
15205964 CTGTACTGACAATGGAGCAGACTGAAGATAACAGATCTTGCTTTCCTATACTGACAGCGAAGCAG
66 CTGTACTGACAGTGAAGCAGACTGAAGATAACAGATATTGCCTTCTTGTACTGACAGCGAAGCAG
* **
15206029 ATCGAAGACACTAGCCTTGCCTT-CCTGT-ACTGACAGCGGAGCAGACTA
131 ATCGAAGACACCAGCCTTG-CTTCCCTGTGTTTG-CAGCGGAGCAGACTA
* * * *
15206077 AAGATAGTAGATCTTGCCTTCCTTGTACTGATAGCGAAGCAGATCAAAGACACCAGCCTCGCCTT
1 AAGATAGCAGATCTTGCCTT-CTTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTT
* * * *
15206142 CCTGTACTAACAGTGAAGTAGACTGAAGATAACAAATATTGCCTT-TCTGTACTGACAACGAAGC
65 CCTGTACTGACAGTGAAGCAGACTGAAGATAACAGATATTGCCTTCT-TGTACTGACAGCGAAGC
* *
15206206 AGATCGAAGACACCAGCCTTGCTTCCCTGTGTTTGCAGCGGAACAGACTG
129 AGATCGAAGACACCAGCCTTGCTTCCCTGTGTTTGCAGCGGAGCAGACTA
*
15206256 AAGATAGCAGATCTTGCCTTCTTGTACTGACAGCGAAGCAGATCGAAGGCACCAGCCTTGCCTTC
1 AAGATAGCAGATCTTGCCTTCTTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTC
* * * * *
15206321 CTGTACTGACAGCGAAGCAGATTGAAGATAACAGATATTACCTTCTTGTACTGATAGCGAAGAAG
66 CTGTACTGACAGTGAAGCAGACTGAAGATAACAGATATTGCCTTCTTGTACTGACAGCGAAGCAG
* * * * *
15206386 ATCGAAGACACCAGTCTTGCCTCCCTGGGTTTGTAGCGGAGCAAACTA
131 ATCGAAGACACCAGCCTTGCTTCCCTGTGTTTGCAGCGGAGCAGACTA
15206434 AAGATAGCAGAT
1 AAGATAGCAGAT
15206446 GTAACACCCC
Statistics
Matches: 317, Mismatches: 47, Indels: 10
0.85 0.13 0.03
Matches are distributed among these distances:
178 170 0.54
179 145 0.46
180 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (178 bp):
AAGATAGCAGATCTTGCCTTCTTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTC
CTGTACTGACAGTGAAGCAGACTGAAGATAACAGATATTGCCTTCTTGTACTGACAGCGAAGCAG
ATCGAAGACACCAGCCTTGCTTCCCTGTGTTTGCAGCGGAGCAGACTA
Found at i:15206380 original size:45 final size:45
Alignment explanation
Indices: 15205898--15206407 Score: 343
Period size: 44 Copynumber: 11.4 Consensus size: 45
15205888 ACAAATCAGT
* * * *
15205898 GAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATC
1 GAAGATAACAGATCTTGCCTTCTTGTACTGACAGCGAAGCAGATC
* * * ** *
15205943 GAAGACAACA-ACCTTACCTT-TCTGTACTGACAATGGAGCAGA-C
1 GAAGATAACAGATCTTGCCTTCT-TGTACTGACAGCGAAGCAGATC
* * *
15205986 TGAAGATAACAGATCTTGCTTTCCTATACTGACAGCGAAGCAGATC
1 -GAAGATAACAGATCTTGCCTTCTTGTACTGACAGCGAAGCAGATC
* * * *
15206032 GAAGA-CACTAG-CCTTGCCTTCCTGTACTGACAGCGGAGCAGA-C
1 GAAGATAAC-AGATCTTGCCTTCTTGTACTGACAGCGAAGCAGATC
* ** *
15206075 TAAAGATAGTAGATCTTGCCTTCCTTGTACTGATAGCGAAGCAGATC
1 -GAAGATAACAGATCTTGCCTT-CTTGTACTGACAGCGAAGCAGATC
* * * * * * * * *
15206122 AAAGACACCAG-CCTCGCCTTCCTGTACTAACAGTGAAGTAGA-C
1 GAAGATAACAGATCTTGCCTTCTTGTACTGACAGCGAAGCAGATC
* * *
15206165 TGAAGATAACAAATATTGCCTT-TCTGTACTGACAACGAAGCAGATC
1 -GAAGATAACAGATCTTGCCTTCT-TGTACTGACAGCGAAGCAGATC
* * * *
15206211 GAAGACACCAG-CCTTG-CTTCCCTGTGT-TTG-CAGCGGAA-CAGA-C
1 GAAGATAACAGATCTTGCCTT--CT-TGTACTGACAGC-GAAGCAGATC
*
15206254 TGAAGATAGCAGATCTTGCCTTCTTGTACTGACAGCGAAGCAGATC
1 -GAAGATAACAGATCTTGCCTTCTTGTACTGACAGCGAAGCAGATC
** * * * *
15206300 GAAGGCACCAG-CCTTGCCTTCCTGTACTGACAGCGAAGCAGATT
1 GAAGATAACAGATCTTGCCTTCTTGTACTGACAGCGAAGCAGATC
* * * *
15206344 GAAGATAACAGATATTACCTTCTTGTACTGATAGCGAAGAAGATC
1 GAAGATAACAGATCTTGCCTTCTTGTACTGACAGCGAAGCAGATC
* *
15206389 GAAGACACCAG-TCTTGCCT
1 GAAGATAACAGATCTTGCCT
15206408 CCCTGGGTTT
Statistics
Matches: 352, Mismatches: 86, Indels: 55
0.71 0.17 0.11
Matches are distributed among these distances:
43 10 0.03
44 161 0.46
45 143 0.41
46 37 0.11
47 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (45 bp):
GAAGATAACAGATCTTGCCTTCTTGTACTGACAGCGAAGCAGATC
Found at i:15207106 original size:37 final size:37
Alignment explanation
Indices: 15207045--15207190 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
15207035 TACGTATGAT
* *
15207045 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
15207080 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
15207117 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
15207154 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
15207191 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:15207207 original size:46 final size:46
Alignment explanation
Indices: 15207154--15207422 Score: 331
Period size: 46 Copynumber: 5.6 Consensus size: 46
15207144 TAAGTGTAGC
* **
15207154 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
15207200 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
15207246 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
15207298 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
15207344 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
15207396 CACTTATCACTTTGTCATTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
15207423 AGTACTCAAA
Statistics
Matches: 198, Mismatches: 13, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
46 111 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:15207273 original size:52 final size:52
Alignment explanation
Indices: 15207197--15207408 Score: 292
Period size: 52 Copynumber: 4.2 Consensus size: 52
15207187 TAGCTAAAGC
* *
15207197 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
15207250 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
15207302 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
15207348 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
15207400 TATCACTTT
1 TATCACTTT
15207409 GTCATTTGAT
Statistics
Matches: 142, Mismatches: 11, Indels: 13
0.86 0.07 0.08
Matches are distributed among these distances:
46 43 0.30
49 1 0.01
52 86 0.61
53 12 0.08
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:15207319 original size:98 final size:98
Alignment explanation
Indices: 15207154--15207422 Score: 448
Period size: 98 Copynumber: 2.7 Consensus size: 98
15207144 TAAGTGTAGC
* * *
15207154 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
15207219 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
15207253 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
15207318 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * *
15207351 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCATTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
15207416 GATCAGA
66 GATCAGA
15207423 AGTACTCAAA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
98 150 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:15211380 original size:3 final size:3
Alignment explanation
Indices: 15211356--15211448 Score: 62
Period size: 3 Copynumber: 29.7 Consensus size: 3
15211346 TTTAATAGTG
* * * * * *
15211356 TTA TCA TTA TTT TTA CTA TTA TTA TTA TTT TTAA ATA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
* *
15211402 CTA TTA TTA -TA TTTA TTA TTA TTAA TTA CCTTA TTA TTA TAA TTA TT
1 TTA TTA TTA TTA -TTA TTA TTA TT-A TTA --TTA TTA TTA TTA TTA TT
15211449 TACTCATTCA
Statistics
Matches: 68, Mismatches: 16, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
2 2 0.03
3 57 0.84
4 6 0.09
5 3 0.04
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:15211696 original size:16 final size:16
Alignment explanation
Indices: 15211677--15211714 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
15211667 TTATAATTTT
15211677 TATATACATACATATA
1 TATATACATACATATA
15211693 TATATACATACATATA
1 TATATACATACATATA
15211709 TATATA
1 TATATA
15211715 TCCTTTTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (16 bp):
TATATACATACATATA
Found at i:15212200 original size:73 final size:71
Alignment explanation
Indices: 15212085--15212225 Score: 219
Period size: 73 Copynumber: 2.0 Consensus size: 71
15212075 TCTTTTTAAA
* *
15212085 CTCAAGTTTTAAACAATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATAATCCT
1 CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACT-GGCATAATCCC
15212150 TTTTTTC
65 TTTTTTC
* * *
15212157 CTCAAGTTTTTAAACGATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGCATGATCCC
1 CTCAAG-TTTTAAACAATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGCATAATCCC
15212222 TTTT
65 TTTT
15212226 CTAAACCCGA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
72 19 0.30
73 44 0.70
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (71 bp):
CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGCATAATCCCT
TTTTTC
Found at i:15213811 original size:17 final size:18
Alignment explanation
Indices: 15213779--15213817 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
15213769 TTCTTTTTTC
**
15213779 TTTTTTTTTACCTTT-AA
1 TTTTTTTTTAAATTTAAA
15213796 TTTTTTTTTAAATTTAAA
1 TTTTTTTTTAAATTTAAA
15213814 TTTT
1 TTTT
15213818 GCAGATAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTTTTTTAAATTTAAA
Found at i:15219898 original size:59 final size:60
Alignment explanation
Indices: 15219729--15219911 Score: 196
Period size: 59 Copynumber: 3.1 Consensus size: 60
15219719 ATTTGACAAA
* * * *
15219729 TACCAAATCGAA-C-AAAAAAA-A-TAGGTACCAAATTAGGAAAAAGAGTCATGTTTAGG
1 TACCAAATCAAACCTAAAAAAAGATTAGGTACCAAATTAAGAAAAAGTGTCAAGTTTAGG
* * * *
15219785 TACCAAATCAAACCTTAAAAAAGATTAAGTACCAACTTAATAAAAAGTGTCAAGTTTAGG
1 TACCAAATCAAACCTAAAAAAAGATTAGGTACCAAATTAAGAAAAAGTGTCAAGTTTAGG
*** * * * *
15219845 TACCAAATTGGACC-AAAAAAAGTTTAGGTATCAAATTAAGAGAAAGTGTCAAGTTTAGA
1 TACCAAATCAAACCTAAAAAAAGATTAGGTACCAAATTAAGAAAAAGTGTCAAGTTTAGG
15219904 TACCAAAT
1 TACCAAAT
15219912 ATTATATTAA
Statistics
Matches: 104, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
56 11 0.11
57 1 0.01
58 6 0.06
59 46 0.44
60 40 0.38
ACGTcount: A:0.48, C:0.13, G:0.15, T:0.23
Consensus pattern (60 bp):
TACCAAATCAAACCTAAAAAAAGATTAGGTACCAAATTAAGAAAAAGTGTCAAGTTTAGG
Found at i:15220078 original size:19 final size:18
Alignment explanation
Indices: 15220054--15220092 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
15220044 AATAAACATG
*
15220054 TTATTTTCACTTTTTTATT
1 TTATTTTCA-ATTTTTATT
*
15220073 TTATTTTTAATTTTTATT
1 TTATTTTCAATTTTTATT
15220091 TT
1 TT
15220093 TAATTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (18 bp):
TTATTTTCAATTTTTATT
Done.