Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 38 of 130
Found at i:9346070 original size:28 final size:28
Alignment explanation
Indices: 9346015--9346105 Score: 92
Period size: 28 Copynumber: 3.2 Consensus size: 28
9346005 TTTTATGAAG
* * * *
9346015 CCCTAAACCCCAAACCTTAGATCTTAAA
1 CCCTAAACCCCAAACCTCAAAACCTAAA
*
9346043 CCCTAAACCCCAAACCCCAAAACCTAAA
1 CCCTAAACCCCAAACCTCAAAACCTAAA
* * ** *
9346071 CCCCAAATCTTAAACATCAAAACCTAAA
1 CCCTAAACCCCAAACCTCAAAACCTAAA
9346099 CCCTAAA
1 CCCTAAA
9346106 ACTCTAAGCC
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.45, C:0.38, G:0.01, T:0.15
Consensus pattern (28 bp):
CCCTAAACCCCAAACCTCAAAACCTAAA
Found at i:9346121 original size:14 final size:14
Alignment explanation
Indices: 9346039--9346120 Score: 67
Period size: 14 Copynumber: 5.8 Consensus size: 14
9346029 CCTTAGATCT
*
9346039 TAAACCCTAAACCC
1 TAAACCCTAAAACC
* *
9346053 CAAACCCCAAAACC
1 TAAACCCTAAAACC
* * *
9346067 TAAACCCCAAATCT
1 TAAACCCTAAAACC
*
9346081 TAAA-CATCAAAACC
1 TAAACCCT-AAAACC
9346095 TAAACCCTAAAACTC
1 TAAACCCTAAAAC-C
*
9346110 TAAGCCCTAAA
1 TAAACCCTAAA
9346121 CCCAATCTAG
Statistics
Matches: 53, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
13 1 0.02
14 39 0.74
15 13 0.25
ACGTcount: A:0.48, C:0.37, G:0.01, T:0.15
Consensus pattern (14 bp):
TAAACCCTAAAACC
Found at i:9347119 original size:14 final size:15
Alignment explanation
Indices: 9347100--9347131 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9347090 GTGTTTAACA
9347100 TTAATT-TCTTGATT
1 TTAATTATCTTGATT
9347114 TTAATTATCTTGATT
1 TTAATTATCTTGATT
9347129 TTA
1 TTA
9347132 TAAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.62
Consensus pattern (15 bp):
TTAATTATCTTGATT
Found at i:9347188 original size:47 final size:49
Alignment explanation
Indices: 9347108--9347199 Score: 129
Period size: 47 Copynumber: 1.9 Consensus size: 49
9347098 CATTAATTTC
9347108 TTGATTTTAATTATCTTGATTTTAT-AAAAAAAAA-TCAAAAAAATGTT
1 TTGATTTTAATTATCTTGATTTTATAAAAAAAAAATTCAAAAAAATGTT
*
9347155 TTGATTTTAATTTTCTTG-TTTTCA-AAAAGAAAAAATTCAAAAAAA
1 TTGATTTTAATTATCTTGATTTT-ATAAAA-AAAAAATTCAAAAAAA
9347200 AAGTGTGTGT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
46 4 0.10
47 21 0.52
48 6 0.15
49 9 0.22
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (49 bp):
TTGATTTTAATTATCTTGATTTTATAAAAAAAAAATTCAAAAAAATGTT
Found at i:9350670 original size:21 final size:22
Alignment explanation
Indices: 9350639--9350725 Score: 90
Period size: 21 Copynumber: 4.0 Consensus size: 22
9350629 AATCTGCAAT
* * *
9350639 AGGAAGAGAAGGGGAAACGAGC
1 AGGAAAAGAAGAGGAAACCAGC
9350661 A-GAAAAGAAGAGGAAACCAGC
1 AGGAAAAGAAGAGGAAACCAGC
* *
9350682 AGGAAAAGAA-AAGAAAGCCAAC
1 AGGAAAAGAAGAGGAAA-CCAGC
*
9350704 A-TAAAAGAAGAGGAAACCAGC
1 AGGAAAAGAAGAGGAAACCAGC
9350725 A
1 A
9350726 AAAACCAGGA
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
21 35 0.65
22 19 0.35
ACGTcount: A:0.56, C:0.13, G:0.30, T:0.01
Consensus pattern (22 bp):
AGGAAAAGAAGAGGAAACCAGC
Found at i:9351753 original size:17 final size:17
Alignment explanation
Indices: 9351731--9351771 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
9351721 TTAGTAAGCT
9351731 TAATAATTAAA-AATATA
1 TAATAATTAAACAATA-A
9351748 TAATAA-TAAACAATAA
1 TAATAATTAAACAATAA
9351764 TAAATAAT
1 T-AATAAT
9351772 AATAATCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (17 bp):
TAATAATTAAACAATAA
Found at i:9351755 original size:10 final size:10
Alignment explanation
Indices: 9351731--9351792 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
9351721 TTAGTAAGCT
*
9351731 TAATAATTAA
1 TAATAAATAA
* *
9351741 AAATATATAA
1 TAATAAATAA
*
9351751 TAATAAACAA
1 TAATAAATAA
9351761 TAATAAATAA
1 TAATAAATAA
9351771 TAATAATCATAA
1 TAATAA--ATAA
9351783 GTAATAAATA
1 -TAATAAATA
9351793 TGTAAAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
10 29 0.69
11 3 0.07
12 4 0.10
13 6 0.14
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (10 bp):
TAATAAATAA
Found at i:9351772 original size:17 final size:16
Alignment explanation
Indices: 9351731--9351812 Score: 60
Period size: 16 Copynumber: 5.0 Consensus size: 16
9351721 TTAGTAAGCT
9351731 TAATAATTAAAAATATA
1 TAATAA-TAAAAATATA
9351748 TAATAATAAACAATA-A
1 TAATAATAAA-AATATA
*
9351764 TAAATAATAATAATCATA
1 T-AATAATAAAAAT-ATA
* * *
9351782 -AGTAATAAATATGTA
1 TAATAATAAAAATATA
* *
9351797 AAAAAATAAAAATATA
1 TAATAATAAAAATATA
9351813 ACAAAAAATA
Statistics
Matches: 51, Mismatches: 9, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
15 2 0.04
16 29 0.57
17 19 0.37
18 1 0.02
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (16 bp):
TAATAATAAAAATATA
Found at i:9351818 original size:16 final size:16
Alignment explanation
Indices: 9351785--9351827 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
9351775 AATCATAAGT
* *
9351785 AATAAATATGTAAAAA
1 AATAAAAATATAAAAA
9351801 AATAAAAATATAACAAAA
1 AATAAAAATAT-A-AAAA
9351819 AATAAAAAT
1 AATAAAAAT
9351828 TTGAAAACCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 9 0.39
17 1 0.04
18 13 0.57
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (16 bp):
AATAAAAATATAAAAA
Found at i:9352172 original size:13 final size:13
Alignment explanation
Indices: 9352154--9352190 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
9352144 AATTTTTTAA
*
9352154 AAACCTTAAAGTG
1 AAACCTTAAAATG
9352167 AAACCTTAAAATG
1 AAACCTTAAAATG
*
9352180 AAACCCTAAAA
1 AAACCTTAAAA
9352191 CAAAACTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.54, C:0.19, G:0.08, T:0.19
Consensus pattern (13 bp):
AAACCTTAAAATG
Found at i:9352225 original size:19 final size:19
Alignment explanation
Indices: 9352203--9352265 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
9352193 AAACTCTAAA
9352203 TGAAACTCTAAACCCTAGG
1 TGAAACTCTAAACCCTAGG
*
9352222 TGAAA-TCTTAAACCCAAGG
1 TGAAACTC-TAAACCCTAGG
* * *
9352241 TAAAACTCGAAATCCTAGG
1 TGAAACTCTAAACCCTAGG
9352260 TGAAAC
1 TGAAAC
9352266 CTGAAACCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 2 0.06
19 32 0.89
20 2 0.06
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.21
Consensus pattern (19 bp):
TGAAACTCTAAACCCTAGG
Found at i:9352271 original size:19 final size:19
Alignment explanation
Indices: 9352203--9352273 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
9352193 AAACTCTAAA
9352203 TGAAACTCT-AAACCCTAGG
1 TGAAAC-CTGAAACCCTAGG
* * *
9352222 TGAAATCTTAAACCCAAGG
1 TGAAACCTGAAACCCTAGG
* *
9352241 T-AAAACTCGAAATCCTAGG
1 TGAAACCT-GAAACCCTAGG
9352260 TGAAACCTGAAACC
1 TGAAACCTGAAACC
9352274 TTAAAATGAA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
18 7 0.17
19 29 0.71
20 5 0.12
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.20
Consensus pattern (19 bp):
TGAAACCTGAAACCCTAGG
Found at i:9356015 original size:3 final size:3
Alignment explanation
Indices: 9356007--9356037 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
9355997 AAAGAGATTG
9356007 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
9356038 TATACCATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:9358248 original size:27 final size:29
Alignment explanation
Indices: 9358212--9358279 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
9358202 TGTAAGTATT
9358212 ATATTA-ATTAATAAATTTAT-AA-TTAA
1 ATATTATATTAATAAATTTATAAATTTAA
* *
9358238 ATATT-TGATTAAAAAATTTTTAAATTTAA
1 ATATTAT-ATTAATAAATTTATAAATTTAA
9358267 ATATTATATTAAT
1 ATATTATATTAAT
9358280 TTGGTTTCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
26 5 0.15
27 12 0.35
28 2 0.06
29 14 0.41
30 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (29 bp):
ATATTATATTAATAAATTTATAAATTTAA
Found at i:9358855 original size:63 final size:62
Alignment explanation
Indices: 9358787--9359368 Score: 208
Period size: 62 Copynumber: 9.4 Consensus size: 62
9358777 TATTTTGTTA
* *
9358787 GGGATTATTTAAGGTATTTTCTGGCAAAAAATACCTTTAATAATCCCCTCATAAAAATTAAAG
1 GGGATTATTCAAGGTATTTT-TGGCAAAAAATACCTTCAATAATCCCCTCATAAAAATTAAAG
** * * * * * ** *
9358850 GGGATTATTCAAGGTATTTTTCACTAGAAACACCTTCAATTA-CCCCATTCA-ATATTTTGTAA-
1 GGGATTATTCAAGGTATTTTTGGCAAAAAATACCTTCAATAATCCCC--TCATAAAAATT-AAAG
* * * * * * * *
9358912 GGGATTGTTTAACGTGTTTTCTAGCAAAAAATCCCTTCAATAATCTCCTCATAAAAATTGAAG
1 GGGATTATTCAAGGTATTTT-TGGCAAAAAATACCTTCAATAATCCCCTCATAAAAATTAAAG
* * * * *** **** *
9358975 GGGATTATTCAAGGCATTTTTGGCTATAAACACCTTGGCTAA-CCCCATTCA-ATTTTTTCTAA-
1 GGGATTATTCAAGGTATTTTTGGCAAAAAATACCTTCAATAATCCCC--TCATAAAAATT-AAAG
** * ** * * * * ** * ***
9359037 GAAATTATTCAAGG-AGTTTTCTCACAAAAATGCTTTGAACAAT--CCAAAAAAAAATGGGAG
1 GGGATTATTCAAGGTATTTTTGGCA-AAAAATACCTTCAATAATCCCCTCATAAAAATTAAAG
* * * * *
9359097 GGGATTATTGAAGGTGTTTTTGGCCAAAAACACCTTCAATAATCCCAGCT-A-AAAAATTGAAG
1 GGGATTATTCAAGGTATTTTTGGCAAAAAATACCTTCAATAATCCC--CTCATAAAAATTAAAG
* * * * * *
9359159 GGTATTATTCAA-TTCATTTTTGGCTAAAAATGCCTTCAATAATCCACTCATAAAAATTTAAG
1 GGGATTATTCAAGGT-ATTTTTGGCAAAAAATACCTTCAATAATCCCCTCATAAAAATTAAAG
** * * * * * ***
9359221 GGGATTATTCAAGACA-TTTTGGCTAGAAATGCCTTCAAGAATCCCATTCA-ACATTTTGTAAA-
1 GGGATTATTCAAGGTATTTTTGGCAAAAAATACCTTCAATAATCCC-CTCATA-AAAAT-TAAAG
* * * * * *
9359283 -GGATTATTCAAGGCATTTTCTGACTAAAAACACCTTCAATAATCCCGTCACAAAAATTGAAA-
1 GGGATTATTCAAGGTATTTT-TGGCAAAAAATACCTTCAATAATCCCCTCATAAAAATT-AAAG
* *
9359345 GGGATTATTTAAGGCATTTTTGGC
1 GGGATTATTCAAGGTATTTTTGGC
9359369 CATAAAGACC
Statistics
Matches: 371, Mismatches: 117, Indels: 63
0.67 0.21 0.11
Matches are distributed among these distances:
59 2 0.01
60 28 0.08
61 64 0.17
62 166 0.45
63 107 0.29
64 4 0.01
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (62 bp):
GGGATTATTCAAGGTATTTTTGGCAAAAAATACCTTCAATAATCCCCTCATAAAAATTAAAG
Found at i:9358954 original size:125 final size:125
Alignment explanation
Indices: 9358728--9359365 Score: 463
Period size: 125 Copynumber: 5.1 Consensus size: 125
9358718 TGATCTAGGA
* ** * * *
9358728 ATTATTCAATGCATTTTTTGCCAGAAACACCTCCAATAACCCCATTCAATATTTTGTTAGGGATT
1 ATTATTCAAGGCATTTTTCACTAGAAACACCTTCAATAACCCCATTCAATATTTTGTAAGGGATT
* * *
9358793 ATTTAAGGTATTTTCTGGCAAAAAATACCTTTAATAATCCCCTCATAAAAATTAAAGGGG
66 ATTTAACGTATTTTCTAGCAAAAAATACCTTCAATAATCCCCTCATAAAAATTAAAGGGG
* *
9358853 ATTATTCAAGGTATTTTTCACTAGAAACACCTTCAATTACCCCATTCAATATTTTGTAAGGGATT
1 ATTATTCAAGGCATTTTTCACTAGAAACACCTTCAATAACCCCATTCAATATTTTGTAAGGGATT
* * * * *
9358918 GTTTAACGTGTTTTCTAGCAAAAAATCCCTTCAATAATCTCCTCATAAAAATTGAAGGGG
66 ATTTAACGTATTTTCTAGCAAAAAATACCTTCAATAATCCCCTCATAAAAATTAAAGGGG
** * *** * * **
9358978 ATTATTCAAGGCATTTTTGGCTATAAACACCTTGGCTAACCCCATTCAATTTTTTCTAAGAAATT
1 ATTATTCAAGGCATTTTTCACTAGAAACACCTTCAATAACCCCATTCAATATTTTGTAAGGGATT
* * * * * * ** * ***
9359043 ATTCAA-GGAGTTTTCT--CACAAAAATGCTTTGAACAAT--CCAAAAAAAAATGGGAGGGG
66 ATTTAACGTA-TTTTCTAGCA-AAAAATACCTTCAATAATCCCCTCATAAAAATTAAAGGGG
* ** ** * * * * * **
9359100 ATTATTGAAGGTGTTTTTGGCCAAAAACACCTTCAATAATCCCA-GCTAAAAAATTG-AAGGGTA
1 ATTATTCAAGGCATTTTTCACTAGAAACACCTTCAATAACCCCATTC-AATATTTTGTAAGGG-A
* * * * * * *
9359163 TTATTCAA-TTCATTTT-TGGCTAAAAATGCCTTCAATAATCCACTCATAAAAATTTAAGGGG
64 TTATTTAACGT-ATTTTCTAGCAAAAAATACCTTCAATAATCCCCTCATAAAAATTAAAGGGG
* ** ** * * * *
9359224 ATTATTCAAGACA-TTTTGGCTAGAAATGCCTTCAAGAATCCCATTCAACATTTTGTAAAGGATT
1 ATTATTCAAGGCATTTTTCACTAGAAACACCTTCAATAACCCCATTCAATATTTTGTAAGGGATT
* * * * * * *
9359288 ATTCAAGGCATTTTCT-GACTAAAAACACCTTCAATAATCCCGTCACAAAAATTGAAA-GGG
66 ATTTAACGTATTTTCTAG-CAAAAAATACCTTCAATAATCCCCTCATAAAAATT-AAAGGGG
*
9359348 ATTATTTAAGGCATTTTT
1 ATTATTCAAGGCATTTTT
9359366 GGCCATAAAG
Statistics
Matches: 402, Mismatches: 95, Indels: 32
0.76 0.18 0.06
Matches are distributed among these distances:
121 5 0.01
122 82 0.20
123 50 0.12
124 87 0.22
125 178 0.44
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.33
Consensus pattern (125 bp):
ATTATTCAAGGCATTTTTCACTAGAAACACCTTCAATAACCCCATTCAATATTTTGTAAGGGATT
ATTTAACGTATTTTCTAGCAAAAAATACCTTCAATAATCCCCTCATAAAAATTAAAGGGG
Found at i:9359179 original size:62 final size:63
Alignment explanation
Indices: 9359097--9359368 Score: 245
Period size: 62 Copynumber: 4.4 Consensus size: 63
9359087 AAAATGGGAG
* ** *
9359097 GGGATTATTGAAGGTGTTTTTGGCCAAAAACACCTTCAATAATCCCAGCT-A-AAAAATTG-AA
1 GGGATTATTCAAGGCATTTTTGGCTAAAAACACCTTCAATAATCCCA-CTCACAAAAATTGAAA
** ** * * *
9359158 GGGTATTATTCAATTCATTTTTGGCTAAAAATGCCTTCAATAAT-CCACTCATAAAAATTTAAG
1 GGG-ATTATTCAAGGCATTTTTGGCTAAAAACACCTTCAATAATCCCACTCACAAAAATTGAAA
* * ** * * * **
9359221 GGGATTATTCAAGACA-TTTTGGCTAGAAATGCCTTCAAGAATCCCATTCA-ACATTTTGTAAA
1 GGGATTATTCAAGGCATTTTTGGCTAAAAACACCTTCAATAATCCCACTCACAAAAATTG-AAA
* *
9359283 -GGATTATTCAAGGCATTTTCTGACTAAAAACACCTTCAATAATCCC-GTCACAAAAATTGAAA
1 GGGATTATTCAAGGCATTTT-TGGCTAAAAACACCTTCAATAATCCCACTCACAAAAATTGAAA
*
9359345 GGGATTATTTAAGGCATTTTTGGC
1 GGGATTATTCAAGGCATTTTTGGC
9359369 CATAAAGACC
Statistics
Matches: 169, Mismatches: 32, Indels: 19
0.77 0.15 0.09
Matches are distributed among these distances:
60 2 0.01
61 49 0.29
62 70 0.41
63 48 0.28
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (63 bp):
GGGATTATTCAAGGCATTTTTGGCTAAAAACACCTTCAATAATCCCACTCACAAAAATTGAAA
Found at i:9363496 original size:62 final size:62
Alignment explanation
Indices: 9363415--9363581 Score: 178
Period size: 63 Copynumber: 2.6 Consensus size: 62
9363405 GAGGATTATT
* ** *
9363415 GGATTATTGAAGGCTTTTTTAGCAAAAAATACCTT-AAGTAATCC-CTTTTAAAA-AATTGGAGG
1 GGATTATTCAAGG-TTTTTTAGCAAAAAATACCTTGAA-TAATCCACTCATAAAATAATT-AAGG
9363477 GGATTATTCAAGGTGTTTTTAGCCAAAAAATACCTTGAATAATCCACTCATAAAATAATTAAGG
1 GGATTATTCAAGGT-TTTTTAG-CAAAAAATACCTTGAATAATCCACTCATAAAATAATTAAGG
* * * * *
9363541 GGATTATTCGAGGTATTTCTAGCCAAAAACACCTTCAATAA
1 GGATTATTCAAGGT-TTTTTAGCAAAAAATACCTTGAATAA
9363582 CCTTATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
61 1 0.01
62 19 0.21
63 35 0.39
64 31 0.34
65 4 0.04
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (62 bp):
GGATTATTCAAGGTTTTTTAGCAAAAAATACCTTGAATAATCCACTCATAAAATAATTAAGG
Found at i:9363510 original size:63 final size:63
Alignment explanation
Indices: 9363415--9363569 Score: 183
Period size: 64 Copynumber: 2.4 Consensus size: 63
9363405 GAGGATTATT
* ** *
9363415 GGATTATTGAAGGCTTTTTTAG-CAAAAAATACCTT-AAGTAATCC-CTTTTAAAA-AATTGGAG
1 GGATTATTCAAGG-TTTTTTAGCCAAAAAATACCTTGAA-TAATCCACTCATAAAATAATT-AAG
9363476 G
63 G
9363477 GGATTATTCAAGGTGTTTTTAGCCAAAAAATACCTTGAATAATCCACTCATAAAATAATTAAGG
1 GGATTATTCAAGGT-TTTTTAGCCAAAAAATACCTTGAATAATCCACTCATAAAATAATTAAGG
* *
9363541 GGATTATTCGAGGTATTTCTAGCCAAAAA
1 GGATTATTCAAGGT-TTTTTAGCCAAAAA
9363570 CACCTTCAAT
Statistics
Matches: 81, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
61 1 0.01
62 19 0.23
63 19 0.23
64 38 0.47
65 4 0.05
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (63 bp):
GGATTATTCAAGGTTTTTTAGCCAAAAAATACCTTGAATAATCCACTCATAAAATAATTAAGG
Found at i:9363667 original size:55 final size:56
Alignment explanation
Indices: 9363607--9363712 Score: 160
Period size: 56 Copynumber: 1.9 Consensus size: 56
9363597 TGTAAGGATG
*
9363607 ATTCAAGGCATTTTT-AGGCAAAAACACCTTGAATAATGACCTTATAAAAATGATT
1 ATTCAAGGCATTTTTCAGGCAAAAACACCTTGAATAATCACCTTATAAAAATGATT
* * * *
9363662 ATTCAAGGCATTTTTCAGGCTAAAACTCCTTGATTAATCCCCTTATAAAAA
1 ATTCAAGGCATTTTTCAGGCAAAAACACCTTGAATAATCACCTTATAAAAA
9363713 ATGGAGGGGA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
55 15 0.33
56 30 0.67
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (56 bp):
ATTCAAGGCATTTTTCAGGCAAAAACACCTTGAATAATCACCTTATAAAAATGATT
Found at i:9370878 original size:68 final size:68
Alignment explanation
Indices: 9370765--9370891 Score: 193
Period size: 68 Copynumber: 1.9 Consensus size: 68
9370755 GCATTACACT
9370765 AATGAATAGGATATTTATAAAATTATTTTAGCCGGTATATAAATGGATGATTACCTTCTATATAT
1 AATGAATAGGATATTTATAAAATTATTTTAGCCGGTATATAAATGGATGATTACCTTCTATATAT
9370830 ATG
66 ATG
* * * * *
9370833 AATGAATATGATGTTTATAAAATTATTTCTA-CTGGTATATGAATGGATGGTTACCTTCT
1 AATGAATAGGATATTTATAAAATTATTT-TAGCCGGTATATAAATGGATGATTACCTTCT
9370892 TACCTTCTGT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
68 51 0.96
69 2 0.04
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (68 bp):
AATGAATAGGATATTTATAAAATTATTTTAGCCGGTATATAAATGGATGATTACCTTCTATATAT
ATG
Found at i:9371799 original size:55 final size:55
Alignment explanation
Indices: 9371707--9371953 Score: 235
Period size: 55 Copynumber: 4.5 Consensus size: 55
9371697 ATACAATAAA
* * ** *
9371707 AAAATTAAAACATATAAGTCTATACTGACAATATCTAACCGTCGGTATAGGTAAG
1 AAAATTAAAACATACAAGTCTATACTAACGGTCTCTAACCGTCGGTATAGGTAAG
* * * * * * * *
9371762 GAAATTAAAGCATACAATTCTATAATGACGGTCTCTAATCATCGGTATAGGTAAA
1 AAAATTAAAACATACAAGTCTATACTAACGGTCTCTAACCGTCGGTATAGGTAAG
* * * ** * *
9371817 AAAATTAAAAAATACAAGTCTATACTAATGGAT-GCTAAGTGTTGATATAGGTAAG
1 AAAATTAAAACATACAAGTCTATACTAACGG-TCTCTAACCGTCGGTATAGGTAAG
* * * * *
9371872 AAAAATTAAAACATATAAGTCTATACTAACGGGCACTAGCCGTCGGTATAGGTGAG
1 -AAAATTAAAACATACAAGTCTATACTAACGGTCTCTAACCGTCGGTATAGGTAAG
*
9371928 AAAATTAAAACATACAAATCTATACT
1 AAAATTAAAACATACAAGTCTATACT
9371954 GATAGGCTTT
Statistics
Matches: 151, Mismatches: 38, Indels: 6
0.77 0.19 0.03
Matches are distributed among these distances:
55 107 0.71
56 44 0.29
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (55 bp):
AAAATTAAAACATACAAGTCTATACTAACGGTCTCTAACCGTCGGTATAGGTAAG
Found at i:9374834 original size:29 final size:29
Alignment explanation
Indices: 9374800--9374884 Score: 98
Period size: 29 Copynumber: 2.9 Consensus size: 29
9374790 CTAAAAAAGA
*
9374800 ATTTAAGCCCAATTTAGTTGGCACCCAAG
1 ATTTAAGCCCAGTTTAGTTGGCACCCAAG
* * *
9374829 ATTTAAGCCCAGTTTAGCTAGCATCCAAG
1 ATTTAAGCCCAGTTTAGTTGGCACCCAAG
* ** *
9374858 TTTTAAGCATAGTTTAGTTGGCGCCCA
1 ATTTAAGCCCAGTTTAGTTGGCACCCA
9374885 TGAAAATTTA
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (29 bp):
ATTTAAGCCCAGTTTAGTTGGCACCCAAG
Found at i:9375216 original size:32 final size:31
Alignment explanation
Indices: 9375180--9375471 Score: 160
Period size: 32 Copynumber: 8.9 Consensus size: 31
9375170 ATATGGCGCT
*
9375180 AATGAATATTTAAACCTAGTCTAGCTAGCACC
1 AATGAA-ATTTAAGCCTAGTCTAGCTAGCACC
9375212 AATGAAAATTTAAGCCTAGTCTAGCTAGCACCC
1 AATG-AAATTTAAGCCTAGTCTAGCTAGCA-CC
* * * *
9375245 AATGAAA-TTAAGCCCAGTCTAGTTGGTACC
1 AATGAAATTTAAGCCTAGTCTAGCTAGCACC
* * *
9375275 AATGAAATTTAAG-CTCAGTTTAACTAGAACC
1 AATGAAATTTAAGCCT-AGTCTAGCTAGCACC
* *
9375306 AATACAAATTTAAGCGTAGAT-TAGCT-GACACCC
1 AAT-GAAATTTAAGCCTAG-TCTAGCTAG-CA-CC
* * *
9375339 AATTAAAATTTAAACCCAGTCTAAATTAGCTAGCACCC
1 AA-TGAAATTTAAGCCTAGTC-----TAGCTAGCA-CC
* * * * **
9375377 AATGAAAATTTAAGCCCAATGTAACTAATACC
1 AATG-AAATTTAAGCCTAGTCTAGCTAGCACC
* * * *
9375409 ACTGTAAATTTAAGCCTAGTTTAGTTGGCACC
1 AATG-AAATTTAAGCCTAGTCTAGCTAGCACC
* *
9375441 TTATGAAAATTTAAGCCTAGTCTAACTAGCA
1 -AATG-AAATTTAAGCCTAGTCTAGCTAGCA
9375472 TTTAATGAAA
Statistics
Matches: 198, Mismatches: 43, Indels: 37
0.71 0.15 0.13
Matches are distributed among these distances:
30 10 0.05
31 36 0.18
32 70 0.35
33 54 0.27
34 1 0.01
37 1 0.01
38 25 0.13
39 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (31 bp):
AATGAAATTTAAGCCTAGTCTAGCTAGCACC
Found at i:9375799 original size:15 final size:16
Alignment explanation
Indices: 9375743--9375815 Score: 67
Period size: 18 Copynumber: 4.4 Consensus size: 16
9375733 TTAAGGGAAA
*
9375743 AAAAGAATAAAAACATAA
1 AAAA-AATAAAAA-ATAG
**
9375761 AAAAAATCAAAAAATTTT
1 AAAAAAT-AAAAAA-TAG
*
9375779 AAAAAATAAACAATA-
1 AAAAAATAAAAAATAG
9375794 AAAAAATAAAAAATAG
1 AAAAAATAAAAAATAG
9375810 AAAAAA
1 AAAAAA
9375816 CTTTCATTAG
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
15 14 0.30
16 7 0.15
17 9 0.19
18 17 0.36
ACGTcount: A:0.78, C:0.04, G:0.03, T:0.15
Consensus pattern (16 bp):
AAAAAATAAAAAATAG
Found at i:9375801 original size:8 final size:8
Alignment explanation
Indices: 9375742--9375815 Score: 53
Period size: 9 Copynumber: 8.9 Consensus size: 8
9375732 CTTAAGGGAA
9375742 AAAAAGAAT
1 AAAAA-AAT
*
9375751 AAAAACAT
1 AAAAAAAT
9375759 AAAAAAAAT
1 -AAAAAAAT
*
9375768 CAAAAAATTT
1 -AAAAAA-AT
*
9375778 TAAAAAAT
1 AAAAAAAT
*
9375786 -AAACAAT
1 AAAAAAAT
9375793 AAAAAAAT
1 AAAAAAAT
9375801 -AAAAAAT
1 AAAAAAAT
9375808 AGAAAAAA
1 A-AAAAAA
9375816 CTTTCATTAG
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
7 13 0.25
8 9 0.17
9 29 0.56
10 1 0.02
ACGTcount: A:0.78, C:0.04, G:0.03, T:0.15
Consensus pattern (8 bp):
AAAAAAAT
Found at i:9378035 original size:24 final size:24
Alignment explanation
Indices: 9377984--9378037 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
9377974 ATTTTTTTTC
* * *
9377984 TTTTTTCCTCTTTCTTCTTTCGTG
1 TTTTTTCCTCTTTCTTCTTCCCTA
9378008 TTTTTTCCTCTCTTCTTC-TCCCTA
1 TTTTTTCCTCT-TTCTTCTTCCCTA
9378032 TTTTTT
1 TTTTTT
9378038 GTGTTTTTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.02, C:0.28, G:0.04, T:0.67
Consensus pattern (24 bp):
TTTTTTCCTCTTTCTTCTTCCCTA
Found at i:9379070 original size:20 final size:20
Alignment explanation
Indices: 9379047--9379114 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
9379037 TTAACCAAAA
9379047 TTGACCAATTTTGATTTTGT
1 TTGACCAATTTTGATTTTGT
*
9379067 TTGACTAATTTTGATTTTGT
1 TTGACCAATTTTGATTTTGT
** * *
9379087 TTGAATAATTTTGACTTTAT
1 TTGACCAATTTTGATTTTGT
*
9379107 TTAACCAA
1 TTGACCAA
9379115 GTTCGGCTAG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.53
Consensus pattern (20 bp):
TTGACCAATTTTGATTTTGT
Found at i:9379620 original size:22 final size:22
Alignment explanation
Indices: 9379590--9379651 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
9379580 AATATTATCT
*
9379590 GAAAAACTTAGAGATTATGCCC
1 GAAAAACTTTGAGATTATGCCC
* * *
9379612 GAAATACTTTGAAATTGTGCCC
1 GAAAAACTTTGAGATTATGCCC
9379634 -AAAAGACTTTGAGATTAT
1 GAAAA-ACTTTGAGATTAT
9379652 TCTTGGAAGA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
21 3 0.09
22 29 0.91
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.29
Consensus pattern (22 bp):
GAAAAACTTTGAGATTATGCCC
Found at i:9379779 original size:41 final size:39
Alignment explanation
Indices: 9379734--9379825 Score: 112
Period size: 41 Copynumber: 2.3 Consensus size: 39
9379724 AGATTTTGAG
* *
9379734 ATCTTTCAAAATTTTAAGATTTTGCCTGAAAGTCTTTGGAA
1 ATCTTTCAAAA-TTTAAAATTTTACCTGAAAGTC-TTGGAA
* *
9379775 ATCTTTTGAAAATTTAAAATTTTACTTGAAAGTCTTGGAA
1 ATC-TTTCAAAATTTAAAATTTTACCTGAAAGTCTTGGAA
*
9379815 ATCATTCAAAA
1 ATCTTTCAAAA
9379826 ATTCAAAGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
39 6 0.14
40 9 0.20
41 22 0.50
42 7 0.16
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (39 bp):
ATCTTTCAAAATTTAAAATTTTACCTGAAAGTCTTGGAA
Found at i:9379827 original size:40 final size:41
Alignment explanation
Indices: 9379738--9379837 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 41
9379728 TTTGAGATCT
* * * *
9379738 TTCAAAATTTTAAGATTTTGCCTGAAAGTCTTTGGAAATCT
1 TTCAAAAATTTAAAATTTTACCTGAAAGTCTTTGGAAATCA
** *
9379779 TTTGAAAATTTAAAATTTTACTTGAAAGTC-TTGGAAATCA
1 TTCAAAAATTTAAAATTTTACCTGAAAGTCTTTGGAAATCA
* *
9379819 TTCAAAAATTCAAAGTTTT
1 TTCAAAAATTTAAAATTTT
9379838 GCTCAGAGAT
Statistics
Matches: 48, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
40 24 0.50
41 24 0.50
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (41 bp):
TTCAAAAATTTAAAATTTTACCTGAAAGTCTTTGGAAATCA
Found at i:9379855 original size:40 final size:41
Alignment explanation
Indices: 9379807--9379906 Score: 123
Period size: 41 Copynumber: 2.5 Consensus size: 41
9379797 TACTTGAAAG
*
9379807 TCTTGGAAATCATTCAAAAA-TTCAAAGTTTTGCTCAGAGA
1 TCTTGGAAATCATTCAAAAACTTCAAAGTTTTGCACAGAGA
* * *
9379847 T-TTCGGAAATCATTTAAAAACTTTAACGTTTTGCACAGAGA
1 TCTT-GGAAATCATTCAAAAACTTCAAAGTTTTGCACAGAGA
* *
9379888 TCTTGAAAATTATTCAAAA
1 TCTTGGAAATCATTCAAAA
9379907 TTTTCAAGAT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
39 2 0.04
40 16 0.32
41 30 0.60
42 2 0.04
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (41 bp):
TCTTGGAAATCATTCAAAAACTTCAAAGTTTTGCACAGAGA
Found at i:9380009 original size:22 final size:22
Alignment explanation
Indices: 9379980--9380021 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
9379970 TTAAAGTTGG
*
9379980 AAAA-TTTTCACTTTTTGTTCT
1 AAAATTTTTCACTCTTTGTTCT
9380001 AAAAGTTTTTCACTCTTTGTT
1 AAAA-TTTTTCACTCTTTGTT
9380022 TCAAAACATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
23 14 0.78
ACGTcount: A:0.24, C:0.14, G:0.07, T:0.55
Consensus pattern (22 bp):
AAAATTTTTCACTCTTTGTTCT
Found at i:9383467 original size:79 final size:79
Alignment explanation
Indices: 9383307--9383476 Score: 189
Period size: 79 Copynumber: 2.2 Consensus size: 79
9383297 ATTACATCCA
* * * * * *
9383307 CATCATAAGAAAGACATTTGATTTACATGTTGTAAAAACAAAAAGAGTCTTCGCATTTGCATATT
1 CATCATAAGAAAGACATATGATTTACATATAGCAAAAACAAAAAGAGTCTTCGCATTCGCATACT
* *
9383372 TAGGCTTCCATATG
66 TAGACTTACATATG
* * * *
9383386 CATCATAAGAAAGACATATGATTTTCATATAGCCAAAACAAAAAGAGTTTTTGCATTCGCATACT
1 CATCATAAGAAAGACATATGATTTACATATAGCAAAAACAAAAAGAGTCTTCGCATTCGCATACT
*
9383451 T-GCACTTACATGTG
66 TAG-ACTTACATATG
* *
9383465 CATTATTAGAAA
1 CATCATAAGAAA
9383477 AATATTTTAT
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 1 0.01
79 74 0.99
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (79 bp):
CATCATAAGAAAGACATATGATTTACATATAGCAAAAACAAAAAGAGTCTTCGCATTCGCATACT
TAGACTTACATATG
Found at i:9384274 original size:34 final size:36
Alignment explanation
Indices: 9384200--9384582 Score: 232
Period size: 36 Copynumber: 10.8 Consensus size: 36
9384190 CTTTCTAATT
* * * ** **
9384200 ATTGGTATTATCTCGATCATTTTTATCTTTTTGATA
1 ATTGGTGTTGTCTCGATCATCTTTATCTTTTCAACC
* *
9384236 ATTGGTGTTGTC-CGTTTATC-TTATCTTTTCAACC
1 ATTGGTGTTGTCTCGATCATCTTTATCTTTTCAACC
*
9384270 ATTGGTGTTGTCTCGATCATCTTTATCTTTTCAATC
1 ATTGGTGTTGTCTCGATCATCTTTATCTTTTCAACC
* * * * *
9384306 ATTGGTGTTGTTTCAATCATTTTTAT-ATTCCTAACC
1 ATTGGTGTTGTCTCGATCATCTTTATCTTTTC-AACC
* * ** *
9384342 ATTGGTATTGTCTTGATCATCTTTA-CTTTTTGACT
1 ATTGGTGTTGTCTCGATCATCTTTATCTTTTCAACC
** * *
9384377 ATTGGTAATGTCTTGATCATCTTTATC-TTTCAATC
1 ATTGGTGTTGTCTCGATCATCTTTATCTTTTCAACC
* * *
9384412 A-TGGTGTTGTCTCAATCATCTTTA-CTTCTT-GATC
1 ATTGGTGTTGTCTCGATCATCTTTATCTT-TTCAACC
* ** * ** *
9384446 GTTGGTGTTGTCTTAATCATATTTATCTTCGCGACC
1 ATTGGTGTTGTCTCGATCATCTTTATCTTTTCAACC
* * * *
9384482 GTTGGTGTTGTC-CTAGTCATATTCATC-TTTCTAACC
1 ATTGGTGTTGTCTCGA-TCATCTTTATCTTTTC-AACC
* * *
9384518 ATTGGTGTTGTC-CTGGTCAT-TTTATCTTTTTAACT
1 ATTGGTGTTGTCTC-GATCATCTTTATCTTTTCAACC
* * * *
9384553 ATTGATGTTGTCCCAATCATTTTTATCTTT
1 ATTGGTGTTGTCTCGATCATCTTTATCTTT
9384583 CTGACCTTTG
Statistics
Matches: 272, Mismatches: 59, Indels: 32
0.75 0.16 0.09
Matches are distributed among these distances:
33 1 0.00
34 45 0.17
35 94 0.35
36 132 0.49
ACGTcount: A:0.18, C:0.17, G:0.14, T:0.50
Consensus pattern (36 bp):
ATTGGTGTTGTCTCGATCATCTTTATCTTTTCAACC
Found at i:9384523 original size:36 final size:36
Alignment explanation
Indices: 9384236--9384623 Score: 162
Period size: 36 Copynumber: 11.0 Consensus size: 36
9384226 CTTTTTGATA
*
9384236 ATTGGTGTTGTCC--GT-TTATCTTATCTTT-TCAACC
1 ATTGGTGTTGTCCTAGTCATAT-TTATCTTTCT-AACC
* * *
9384270 ATTGGTGTTGT-CTCGATCATCTTTATCTTT-TCAATC
1 ATTGGTGTTGTCCTAG-TCATATTTATCTTTCT-AACC
* * * * *
9384306 ATTGGTGTTGT-TTCAATCATTTTTATATTCCTAACC
1 ATTGGTGTTGTCCT-AGTCATATTTATCTTTCTAACC
* * * * * *
9384342 ATTGGTATTGT-CTTGATCATCTTTA-CTTTTTGACT
1 ATTGGTGTTGTCCTAG-TCATATTTATCTTTCTAACC
** * * *
9384377 ATTGGTAATGT-CTTGATCATCTTTATCTTTC-AATC
1 ATTGGTGTTGTCCTAG-TCATATTTATCTTTCTAACC
* * * *
9384412 A-TGGTGTTGT-CTCAATCATCTTTA-C-TTCTTGATC
1 ATTGGTGTTGTCCT-AGTCATATTTATCTTTC-TAACC
* * * **
9384446 GTTGGTGTTGTCTTAATCATATTTATC-TTCGCGACC
1 ATTGGTGTTGTCCTAGTCATATTTATCTTTC-TAACC
* *
9384482 GTTGGTGTTGTCCTAGTCATATTCATCTTTCTAACC
1 ATTGGTGTTGTCCTAGTCATATTTATCTTTCTAACC
* * *
9384518 ATTGGTGTTGTCCTGGTCAT-TTTATCTTTTTAACT
1 ATTGGTGTTGTCCTAGTCATATTTATCTTTCTAACC
* * * * *
9384553 ATTGATGTTGTCCCAATCATTTTTATCTTTCTGACC
1 ATTGGTGTTGTCCTAGTCATATTTATCTTTCTAACC
* * * * * *
9384589 TTTGGTGTTATTCTAGTCATTTTTATTTTTTTAAC
1 ATTGGTGTTGTCCTAGTCATATTTATCTTTCTAAC
9384624 TTGTGATATT
Statistics
Matches: 276, Mismatches: 62, Indels: 30
0.75 0.17 0.08
Matches are distributed among these distances:
32 3 0.01
33 2 0.01
34 32 0.12
35 79 0.29
36 154 0.56
37 6 0.02
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.50
Consensus pattern (36 bp):
ATTGGTGTTGTCCTAGTCATATTTATCTTTCTAACC
Found at i:9384562 original size:71 final size:72
Alignment explanation
Indices: 9384487--9384624 Score: 179
Period size: 71 Copynumber: 1.9 Consensus size: 72
9384477 CGACCGTTGG
* * * *
9384487 TGTTGTCCTAGTCATATTCATCTTTCTAACCATTGGTGTTGTCCTGGTCA-TTTTATCTTTTTAA
1 TGTTGTCCCAATCATATTCATCTTTCTAACCATTGGTGTTATCCTAGTCATTTTTATCTTTTTAA
9384551 CTATTGA
66 CTATTGA
* * * * * *
9384558 TGTTGTCCCAATCATTTTTATCTTTCTGACCTTTGGTGTTATTCTAGTCATTTTTATTTTTTTAA
1 TGTTGTCCCAATCATATTCATCTTTCTAACCATTGGTGTTATCCTAGTCATTTTTATCTTTTTAA
9384623 CT
66 CT
9384625 TGTGATATTA
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
71 41 0.73
72 15 0.27
ACGTcount: A:0.17, C:0.17, G:0.12, T:0.53
Consensus pattern (72 bp):
TGTTGTCCCAATCATATTCATCTTTCTAACCATTGGTGTTATCCTAGTCATTTTTATCTTTTTAA
CTATTGA
Found at i:9384962 original size:36 final size:35
Alignment explanation
Indices: 9384921--9385011 Score: 121
Period size: 35 Copynumber: 2.6 Consensus size: 35
9384911 GTGTTGCCTG
* *
9384921 ATCATCTTTATCTTTTTGACTGTT-GAAGTTGTCTCT
1 ATCATCTTTAT-TTTTTGACTATTGGAA-TTGTCTCA
* *
9384957 ATCATCTTTATTTTTTGACCATTGGTATTGTCTCA
1 ATCATCTTTATTTTTTGACTATTGGAATTGTCTCA
9384992 ATCATCTTTATTTTTTGACT
1 ATCATCTTTATTTTTTGACT
9385012 TGTAGTGTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
35 36 0.73
36 13 0.27
ACGTcount: A:0.19, C:0.16, G:0.11, T:0.54
Consensus pattern (35 bp):
ATCATCTTTATTTTTTGACTATTGGAATTGTCTCA
Found at i:9385093 original size:36 final size:35
Alignment explanation
Indices: 9384958--9385188 Score: 121
Period size: 35 Copynumber: 6.5 Consensus size: 35
9384948 GTTGTCTCTA
* * * * *
9384958 TCATCTTTATTTTTTGAC-CATTGGTATTGTCTCAA
1 TCATCTTTATTTTTTGACTTA-TAGTGTTGTTTCAG
* * **
9384993 TCATCTTTATTTTTTGACTTGTAGTGTTATTTTGG
1 TCATCTTTATTTTTTGACTTATAGTGTTGTTTCAG
* * * * *
9385028 TCATATTCATTTTTTTAAC-CATTAGTGTTGTTTCAT
1 TCATCTTTA-TTTTTTGACTTA-TAGTGTTGTTTCAG
*
9385064 TCATCTTTATTTTTTTGACTTATAGTGTTG-TCCTAG
1 TCATCTTTA-TTTTTTGACTTATAGTGTTGTTTC-AG
* * * *
9385100 TAATCTTTATTTTTTGACTTATGGTGTT-ATCCTAG
1 TCATCTTTATTTTTTGACTTATAGTGTTGTTTC-AG
* * * * * * *
9385135 TCATATTTGTTTGTTCGA-TCATTGGTGTTGTCTCAA
1 TCATCTTTATTT-TTTGACTTA-TAGTGTTGTTTCAG
9385171 TCATCTTTATTTTTTGAC
1 TCATCTTTATTTTTTGAC
9385189 CTATGATGTT
Statistics
Matches: 148, Mismatches: 38, Indels: 19
0.72 0.19 0.09
Matches are distributed among these distances:
35 73 0.49
36 73 0.49
37 2 0.01
ACGTcount: A:0.18, C:0.13, G:0.13, T:0.55
Consensus pattern (35 bp):
TCATCTTTATTTTTTGACTTATAGTGTTGTTTCAG
Found at i:9385113 original size:71 final size:70
Alignment explanation
Indices: 9384921--9385114 Score: 187
Period size: 71 Copynumber: 2.7 Consensus size: 70
9384911 GTGTTGCCTG
* * * *
9384921 ATCATCTTTATCTTTTTGACTGTT-GAAGTTGTCTCTA-TCATCTTTATTTTTTGACCATTGGTA
1 ATCATCTTTATTTTTTTGACT-TTAG-TGTTGTC-CTAGTCATCTTTATTTTTTAACCATTAGTA
9384984 TTGTCTCA
63 TTGTCTCA
* ** * * * *
9384992 ATCATCTTTA-TTTTTTGACTTGTAGTGTTATTTTGGTCATATTCATTTTTTTAACCATTAGTGT
1 ATCATCTTTATTTTTTTGACTT-TAGTGTTGTCCTAGTCATCTTTA-TTTTTTAACCATTAGTAT
*
9385056 TGTTTCA
64 TGTCTCA
* *
9385063 TTCATCTTTATTTTTTTGACTTATAGTGTTGTCCTAGTAATCTTTATTTTTT
1 ATCATCTTTATTTTTTTGACTT-TAGTGTTGTCCTAGTCATCTTTATTTTTT
9385115 GACTTATGGT
Statistics
Matches: 97, Mismatches: 21, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
69 2 0.02
70 21 0.22
71 47 0.48
72 27 0.28
ACGTcount: A:0.19, C:0.13, G:0.12, T:0.56
Consensus pattern (70 bp):
ATCATCTTTATTTTTTTGACTTTAGTGTTGTCCTAGTCATCTTTATTTTTTAACCATTAGTATTG
TCTCA
Found at i:9385127 original size:71 final size:70
Alignment explanation
Indices: 9384921--9385362 Score: 172
Period size: 71 Copynumber: 6.2 Consensus size: 70
9384911 GTGTTGCCTG
* * *
9384921 ATCATCTTTATCTTTTTGACTGTT-GAAGTTGTCTCTA-TCATCTTTATTTTTTGAC-CATTGGT
1 ATCATCTTTATTTTTTTGACT-TTAG-TGTTGTC-CTAGTCATCTTTATTTTTTGACTTA-TGGT
*
9384983 ATTGTCTCA
62 GTTGTCTCA
* ** * * * *
9384992 ATCATCTTTA-TTTTTTGACTTGTAGTGTTATTTTGGTCATATTCATTTTTTTAACCATTA--GT
1 ATCATCTTTATTTTTTTGACTT-TAGTGTTGTCCTAGTCATCTTTA-TTTTTTGA-C-TTATGGT
*
9385054 GTTGTTTCA
62 GTTGTCTCA
* *
9385063 TTCATCTTTATTTTTTTGACTTATAGTGTTGTCCTAGTAATCTTTATTTTTTGACTTATGGTGTT
1 ATCATCTTTATTTTTTTGACTT-TAGTGTTGTCCTAGTCATCTTTATTTTTTGACTTATGGTGTT
*
9385128 ATC-CTA
65 GTCTC-A
* * * * * * * * * *
9385134 GTCATATTTGTTTGTTCGATCATTGGTGTTGT-CTCAATCATCTTTATTTTTTGACCTATGATGT
1 ATCATCTTTATTTTTTTGA-CTTTAGTGTTGTCCT-AGTCATCTTTATTTTTTGACTTATGGTGT
* *
9385198 TATC-CTG
64 TGTCTC-A
* * * * * *
9385205 GTCATATTTGA-TTTTTTAACTGCT-GATGTTGT-CTCGGTTATCTTTATTTTTTTGACTTATGG
1 ATCATCTTT-ATTTTTTTGACT-TTAG-TGTTGTCCT-AGTCATCTTTA-TTTTTTGACTTATGG
*
9385267 TGTTGTCT-G
61 TGTTGTCTCA
* * * * * * * * * * **
9385276 ATTATATTTATTTTCTCGACCATTGGTGTTGTCCCAATCATTTTTATTTTTTTGACCTACAGTGT
1 ATCATCTTTATTTTTTTGA-CTTTAGTGTTGTCCTAGTCATCTTTA-TTTTTTGACTTATGGTGT
*
9385341 TGTCTCG
64 TGTCTCA
* *
9385348 GTCATTTTTATTTTT
1 ATCATCTTTATTTTT
9385363 CAACCTGCGT
Statistics
Matches: 281, Mismatches: 67, Indels: 45
0.72 0.17 0.11
Matches are distributed among these distances:
69 5 0.02
70 28 0.10
71 183 0.65
72 64 0.23
74 1 0.00
ACGTcount: A:0.17, C:0.14, G:0.14, T:0.54
Consensus pattern (70 bp):
ATCATCTTTATTTTTTTGACTTTAGTGTTGTCCTAGTCATCTTTATTTTTTGACTTATGGTGTTG
TCTCA
Found at i:9385184 original size:142 final size:141
Alignment explanation
Indices: 9385089--9385449 Score: 308
Period size: 142 Copynumber: 2.5 Consensus size: 141
9385079 TGACTTATAG
*
9385089 TGTTGTC-CTAGTAATCTTTA-TTTTTTGACTTATGGTGTTATCCT-AGTCATATTTGTTTGT-T
1 TGTTGTCTC-AGTAATCTTTATTTTTTTGACTTATGGTGTTAT-CTGA-TCATATTTATTT-TCT
* * * *
9385150 CGATCATTGGTGTTGTCTCAATCATCTTTATTTTTTGACCTATGATGTTATCCTGGTCATATTTG
62 CGACCATTGGTGTTGTCCCAATCATCTTTATTTTTTAACCTATGATGTTATCAT-GTCATATTTG
*
9385215 ATTTTTTAACTGCTGA
126 ATTTTTTAACTGATGA
* * * *
9385231 TGTTGTCTCGGTTATCTTTATTTTTTTGACTTATGGTGTTGTCTGATTATATTTATTTTCTCGAC
1 TGTTGTCTCAGTAATCTTTATTTTTTTGACTTATGGTGTTATCTGATCATATTTATTTTCTCGAC
* * * * *
9385296 CATTGGTGTTGTCCCAATCATTTTTATTTTTTTGACCTA-CAGTGTTGTC-TCGGTCAT-TTTTA
66 CATTGGTGTTGTCCCAATCATCTTTA-TTTTTTAACCTATGA-TGTTATCAT--GTCATATTTGA
* * *
9385358 TTTTTCAACCTG-CGT
127 TTTTTTAA-CTGATGA
* * * ** * * * *
9385373 TGTTTTCTCAGTCATTTTTA-TTTTTTGACTTACAGTGTTGTCTTGATTATATTCATTTTCTTGA
1 TGTTGTCTCAGTAATCTTTATTTTTTTGACTTATGGTGTTATC-TGATCATATTTATTTTCTCGA
*
9385437 CTATTGGTGTTGT
65 CCATTGGTGTTGT
9385450 ATTGGTCATC
Statistics
Matches: 187, Mismatches: 23, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
141 21 0.11
142 117 0.63
143 49 0.26
ACGTcount: A:0.16, C:0.14, G:0.16, T:0.53
Consensus pattern (141 bp):
TGTTGTCTCAGTAATCTTTATTTTTTTGACTTATGGTGTTATCTGATCATATTTATTTTCTCGAC
CATTGGTGTTGTCCCAATCATCTTTATTTTTTAACCTATGATGTTATCATGTCATATTTGATTTT
TTAACTGATGA
Found at i:9385286 original size:35 final size:36
Alignment explanation
Indices: 9384911--9385879 Score: 150
Period size: 36 Copynumber: 27.2 Consensus size: 36
9384901 CTGATCGTTA
* *
9384911 GTGTTG-CCTGATCATCTTTATCTTTTTGACTGT-TG
1 GTGTTGTCCTGATCATATTTATTTTTTTGACT-TATG
** * *
9384946 AAGTTGTCTCT-ATCATCTTTA-TTTTTTGAC-CATTG
1 GTGTTGTC-CTGATCATATTTATTTTTTTGACTTA-TG
* * * * *
9384981 GTATTGT-CTCAATCATCTTTA-TTTTTTGACTTGTA
1 GTGTTGTCCT-GATCATATTTATTTTTTTGACTTATG
* ** * * *
9385016 GTGTTATTTTGGTCATATTCATTTTTTTAACCATTA--
1 GTGTTGTCCTGATCATATTTATTTTTTTGA-C-TTATG
* * * *
9385052 GTGTTGT-TTCATTCATCTTTATTTTTTTGACTTATA
1 GTGTTGTCCTGA-TCATATTTATTTTTTTGACTTATG
* *
9385088 GTGTTGTCCT-AGTAATCTTTA-TTTTTTGACTTATG
1 GTGTTGTCCTGA-TCATATTTATTTTTTTGACTTATG
* * * * *
9385123 GTGTTATCCT-AGTCATATTTGTTTGTTCGA-TCATTG
1 GTGTTGTCCTGA-TCATATTTATTTTTTTGACTTA-TG
* * *
9385159 GTGTTGT-CTCAATCATCTTTA-TTTTTTGACCTATG
1 GTGTTGTCCT-GATCATATTTATTTTTTTGACTTATG
* * * * **
9385194 ATGTTATCCTGGTCATATTTGA-TTTTTTAACTGCTG
1 GTGTTGTCCTGATCATATTT-ATTTTTTTGACTTATG
* * * *
9385230 ATGTTGT-CTCGGTTATCTTTATTTTTTTGACTTATG
1 GTGTTGTCCT-GATCATATTTATTTTTTTGACTTATG
* * * *
9385266 GTGTTGT-CTGATTATATTTATTTTCTCGAC-CATTG
1 GTGTTGTCCTGATCATATTTATTTTTTTGACTTA-TG
** * * **
9385301 GTGTTGTCCCAATCATTTTTATTTTTTTGACCTACA
1 GTGTTGTCCTGATCATATTTATTTTTTTGACTTATG
* * ** * **
9385337 GTGTTGT-CTCGGTCATTTTTA-TTTTTCAACCTGCG
1 GTGTTGTCCT-GATCATATTTATTTTTTTGACTTATG
* * * * **
9385372 TTGTT-TTCTCAGTCATTTTTA-TTTTTTGACTTACA
1 GTGTTGTCCTGA-TCATATTTATTTTTTTGACTTATG
* * * *
9385407 GTGTTGTCTTGATTATATTCATTTTCTTGAC-TATTG
1 GTGTTGTCCTGATCATATTTATTTTTTTGACTTA-TG
** * * * *** *
9385443 GTGTTGTATTGGTCATCTCTATTTTTCCAACTTGTG
1 GTGTTGTCCTGATCATATTTATTTTTTTGACTTATG
* * * * *
9385479 GTGTTATCATGGTCACT-TTTA-TTTTTTGACGTACG
1 GTGTTGTCCTGATCA-TATTTATTTTTTTGACTTATG
* * *
9385514 GTGTTGTCCT-AGTCATATTCATTTTCTTGACCGT-TG
1 GTGTTGTCCTGA-TCATATTTATTTTTTTGA-CTTATG
* * * * *
9385550 GTGTTATCCTG-GC-TACTTTTATCTTTTCGA-TCTATT
1 GTGTTGTCCTGATCATA--TTTATTTTTTTGACT-TATG
** * * * *
9385586 GCATTGTCCCT-ATTATATTTGTTTTCTTGATCGT-TG
1 GTGTTGT-CCTGATCATATTTATTTTTTTGA-CTTATG
* * * * * *
9385622 GTATTGTTCGGGTCATCTTTATTTTTTTAACTTATG
1 GTGTTGTCCTGATCATATTTATTTTTTTGACTTATG
* * * * **
9385658 GTATTGT-CTCAATCATTTTTA-TTTTTTGACCTACA
1 GTGTTGTCCT-GATCATATTTATTTTTTTGACTTATG
* * * *
9385693 GTGTTGT-TTCGATCATATTCATTTTTTT-AGTTGTTG
1 GTGTTGTCCT-GATCATATTTATTTTTTTGACTT-ATG
* * * * * * **
9385729 ATGTTATCCCGATCATCTTTA-TTTTTCGACCTACA
1 GTGTTGTCCTGATCATATTTATTTTTTTGACTTATG
* * * * * *
9385764 ATATTGACCCT-ATCATATTTGTTTTCTTGA-TTGTTG
1 GTGTTG-TCCTGATCATATTTATTTTTTTGACTT-ATG
** * *
9385800 GTGTTGTCCCAATCATTTTTATTTTTTTGATTTATG
1 GTGTTGTCCTGATCATATTTATTTTTTTGACTTATG
* * * * *
9385836 GTGTTGTCCCGGTCATTTTTA-TTTTTTGACCTGTG
1 GTGTTGTCCTGATCATATTTATTTTTTTGACTTATG
*
9385871 ATGTTGTCC
1 GTGTTGTCC
9385880 CCGATCATTT
Statistics
Matches: 663, Mismatches: 210, Indels: 122
0.67 0.21 0.12
Matches are distributed among these distances:
33 2 0.00
34 8 0.01
35 278 0.42
36 354 0.53
37 17 0.03
38 4 0.01
ACGTcount: A:0.17, C:0.15, G:0.15, T:0.53
Consensus pattern (36 bp):
GTGTTGTCCTGATCATATTTATTTTTTTGACTTATG
Found at i:9385305 original size:178 final size:178
Alignment explanation
Indices: 9384976--9385305 Score: 408
Period size: 178 Copynumber: 1.9 Consensus size: 178
9384966 ATTTTTTGAC
**
9384976 CATTGGTATTGTCTCAATCATCTTTATTTTTTGACTTGTAGTGTTATTTTGGTCATATTCATTTT
1 CATTGGTATTGTCTCAATCATCTTTATTTTTTGACTTGTAGTGTTATCCTGGTCATATTCATTTT
* * *
9385041 TTTAACCATTAGTGTTGTTTCATTCATCTTTATTTTTTTGACTTATAGTGTTGTCCTAGTAATCT
66 TTTAACCATGAGTGTTGTCTCATTCATCTTTATTTTTTTGACTTATAGTGTTGTCCTAGTAATAT
* *
9385106 TTATTTTTTGACTTATGGTGTTATCCTAGTCATATTTGTTTGTTCGAT
131 TTATTTTTCGACATATGGTGTTATCCTAGTCATATTTGTTTGTTCGAT
* *
9385154 CATTGGTGTTGTCTCAATCATCTTTATTTTTTGACCTATG-A-TGTTATCCTGGTCATATTTGA-
1 CATTGGTATTGTCTCAATCATCTTTATTTTTTGA-CT-TGTAGTGTTATCCTGGTCATA-TTCAT
* *
9385216 TTTTTTAACTGC-TGA-TGTTGTCTCGGTT-ATCTTTATTTTTTTGACTTATGGTGTTGT-CT-G
63 TTTTTTAAC--CATGAGTGTTGTCTC-ATTCATCTTTATTTTTTTGACTTATAGTGTTGTCCTAG
*
9385276 ATTATATTTATTTTCTCGACCAT-TGGTGTT
125 -TAATATTTATTTT-TCGA-CATATGGTGTT
9385306 GTCCCAATCA
Statistics
Matches: 131, Mismatches: 12, Indels: 18
0.81 0.07 0.11
Matches are distributed among these distances:
176 1 0.01
177 13 0.10
178 102 0.78
179 12 0.09
180 3 0.02
ACGTcount: A:0.18, C:0.13, G:0.15, T:0.54
Consensus pattern (178 bp):
CATTGGTATTGTCTCAATCATCTTTATTTTTTGACTTGTAGTGTTATCCTGGTCATATTCATTTT
TTTAACCATGAGTGTTGTCTCATTCATCTTTATTTTTTTGACTTATAGTGTTGTCCTAGTAATAT
TTATTTTTCGACATATGGTGTTATCCTAGTCATATTTGTTTGTTCGAT
Found at i:9385341 original size:36 final size:35
Alignment explanation
Indices: 9385301--9385415 Score: 133
Period size: 35 Copynumber: 3.3 Consensus size: 35
9385291 TCGACCATTG
* *
9385301 GTGTTGTCCCAATCATTTTTATTTTTTTGACCTACA
1 GTGTTGTCTCAGTCATTTTTA-TTTTTTGACCTACA
* ** *
9385337 GTGTTGTCTCGGTCATTTTTATTTTTCAACCTGC-
1 GTGTTGTCTCAGTCATTTTTATTTTTTGACCTACA
* *
9385371 GTTGTTTTCTCAGTCATTTTTATTTTTTGACTTACA
1 G-TGTTGTCTCAGTCATTTTTATTTTTTGACCTACA
9385407 GTGTTGTCT
1 GTGTTGTCT
9385416 TGATTATATT
Statistics
Matches: 64, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
34 1 0.02
35 44 0.69
36 19 0.30
ACGTcount: A:0.15, C:0.17, G:0.15, T:0.53
Consensus pattern (35 bp):
GTGTTGTCTCAGTCATTTTTATTTTTTGACCTACA
Found at i:9385343 original size:178 final size:178
Alignment explanation
Indices: 9384957--9385362 Score: 384
Period size: 178 Copynumber: 2.3 Consensus size: 178
9384947 AGTTGTCTCT
* * ** *
9384957 ATCATCTTTATTT-TTTGACCATTGGTATTGTCTCAATCATCTTTATTTTTTGACTTGTAGTGTT
1 ATCATATTTATTTGTTCGACCATCAGTGTTGTCTCAATCATCTTTATTTTTTGACTTGTAGTGTT
** * *
9385021 ATTTTGGTCATATTCATTTTTTTAACCATTAGTGTTGTTTCATTCATCTTTATTTTTTTGACTTA
66 ATCCTGGTCATATTCATTTTTTTAACCATGAGTGTTGTCTCATTCATCTTTATTTTTTTGACTTA
* * * *
9385086 TAGTGTTGTCCTAGTAATCTTTATTTTTTGACTTATGGTGTTATCCTA
131 TAGTGTTGTCCTAGTAATATTTATTTTTCGACATATGGTGTTATCCCA
* * * **
9385134 GTCATATTTGTTTGTTCGATCATTGGTGTTGTCTCAATCATCTTTATTTTTTGACCTATG-A-TG
1 ATCATATTTATTTGTTCGACCATCAGTGTTGTCTCAATCATCTTTATTTTTTGA-CT-TGTAGTG
* *
9385197 TTATCCTGGTCATATTTGA-TTTTTTAACTGC-TGA-TGTTGTCTCGGTT-ATCTTTATTTTTTT
64 TTATCCTGGTCATA-TTCATTTTTTTAAC--CATGAGTGTTGTCTC-ATTCATCTTTATTTTTTT
* * *
9385258 GACTTATGGTGTTGT-CT-GATTATATTTATTTTCTCGACCAT-TGGTGTTGTCCCA
125 GACTTATAGTGTTGTCCTAG-TAATATTTATTTT-TCGA-CATATGGTGTTATCCCA
* * * ** *
9385312 ATCATTTTTATTTTTTTGACC-TACAGTGTTGTCTCGGTCATTTTTATTTTT
1 ATCATATTTATTTGTTCGACCAT-CAGTGTTGTCTCAATCATCTTTATTTTT
9385363 CAACCTGCGT
Statistics
Matches: 188, Mismatches: 30, Indels: 21
0.79 0.13 0.09
Matches are distributed among these distances:
176 1 0.01
177 24 0.13
178 148 0.79
179 12 0.06
180 3 0.02
ACGTcount: A:0.17, C:0.14, G:0.15, T:0.54
Consensus pattern (178 bp):
ATCATATTTATTTGTTCGACCATCAGTGTTGTCTCAATCATCTTTATTTTTTGACTTGTAGTGTT
ATCCTGGTCATATTCATTTTTTTAACCATGAGTGTTGTCTCATTCATCTTTATTTTTTTGACTTA
TAGTGTTGTCCTAGTAATATTTATTTTTCGACATATGGTGTTATCCCA
Found at i:9385744 original size:71 final size:71
Alignment explanation
Indices: 9385667--9385826 Score: 178
Period size: 71 Copynumber: 2.3 Consensus size: 71
9385657 GGTATTGTCT
* * *** *
9385667 CAATCATTTTTATTTTTTGACCTACAGTGTTGTTTCGATCATATTCATTTT-TTTAGTTGTTGAT
1 CAATCATTTTTATTTTTTGACCTACAATATTGACCCGATCATATTCATTTTCTTGA-TTGTTGAT
9385731 GTTATCC
65 GTTATCC
* * * * ** *
9385738 CGATCATCTTTATTTTTCGACCTACAATATTGACCCTATCATATTTGTTTTCTTGATTGTTGGTG
1 CAATCATTTTTATTTTTTGACCTACAATATTGACCCGATCATATTCATTTTCTTGATTGTTGATG
*
9385803 TTGTCC
66 TTATCC
9385809 CAATCATTTTTATTTTTT
1 CAATCATTTTTATTTTTT
9385827 TGATTTATGG
Statistics
Matches: 71, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
71 68 0.96
72 3 0.04
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (71 bp):
CAATCATTTTTATTTTTTGACCTACAATATTGACCCGATCATATTCATTTTCTTGATTGTTGATG
TTATCC
Found at i:9397381 original size:7 final size:7
Alignment explanation
Indices: 9397369--9397714 Score: 102
Period size: 7 Copynumber: 51.7 Consensus size: 7
9397359 CTTGGCTTAA
9397369 GGTTTAG
1 GGTTTAG
*
9397376 GGTTTAA
1 GGTTTAG
9397383 GG-TT-G
1 GGTTTAG
*
9397388 GTTTTAG
1 GGTTTAG
* *
9397395 GGATTAA
1 GGTTTAG
*
9397402 AGTTTA-
1 GGTTTAG
9397408 GGTTTAG
1 GGTTTAG
* *
9397415 GATTTAA
1 GGTTTAG
9397422 GGTTTAG
1 GGTTTAG
9397429 GGTTTAG
1 GGTTTAG
* *
9397436 GATTTAA
1 GGTTTAG
* *
9397443 GATTTAA
1 GGTTTAG
*
9397450 GGTATAAG
1 GGT-TTAG
* *
9397458 GTTTTAA
1 GGTTTAG
9397465 GGTTTAG
1 GGTTTAG
* *
9397472 CGTTAAG
1 GGTTTAG
*
9397479 GTTTTAG
1 GGTTTAG
* *
9397486 AGTTTAA
1 GGTTTAG
*
9397493 GGTTTAA
1 GGTTTAG
*
9397500 GGTATAG
1 GGTTTAG
*
9397507 GGTTTAAA
1 GGTTT-AG
*
9397515 GTTTTAG
1 GGTTTAG
*
9397522 GTTTTA-
1 GGTTTAG
*
9397528 GGTTT-T
1 GGTTTAG
*
9397534 GATTTAG
1 GGTTTAG
9397541 AGG-TTA-
1 -GGTTTAG
*
9397547 AGTTTAG
1 GGTTTAG
*
9397554 GGTTT-T
1 GGTTTAG
9397560 GGTTTAG
1 GGTTTAG
*
9397567 AGTCTT--
1 GGT-TTAG
*
9397573 GATTTAG
1 GGTTTAG
9397580 GGTTT-G
1 GGTTTAG
**
9397586 CATTTAG
1 GGTTTAG
*
9397593 GGTCTAG
1 GGTTTAG
**
9397600 ATTTTAG
1 GGTTTAG
9397607 GG-TT-G
1 GGTTTAG
*
9397612 GGTTTAA
1 GGTTTAG
** *
9397619 AATTT-T
1 GGTTTAG
9397625 GGTTTAG
1 GGTTTAG
*
9397632 GGTCTA-
1 GGTTTAG
* *
9397638 AGTTTAA
1 GGTTTAG
9397645 GGTTT-G
1 GGTTTAG
9397651 GGTTTAG
1 GGTTTAG
*
9397658 AGTTTA-
1 GGTTTAG
9397664 GGTTTAG
1 GGTTTAG
*
9397671 GGCTT-G
1 GGTTTAG
9397677 GGTTTAG
1 GGTTTAG
9397684 GGTTTA-
1 GGTTTAG
*
9397690 GGTTTAA
1 GGTTTAG
9397697 GGTTT-G
1 GGTTTAG
9397703 GGTTTAG
1 GGTTTAG
*
9397710 AGTTT
1 GGTTT
9397715 TCATTTAGGG
Statistics
Matches: 237, Mismatches: 78, Indels: 48
0.65 0.21 0.13
Matches are distributed among these distances:
5 7 0.03
6 67 0.28
7 151 0.64
8 12 0.05
ACGTcount: A:0.22, C:0.02, G:0.32, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:9397415 original size:20 final size:20
Alignment explanation
Indices: 9397368--9397436 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
9397358 GCTTGGCTTA
* *
9397368 AGGTTTAGGG-TTTAAGGTT
1 AGGTTTAGGGATTAAAGTTT
9397387 -GGTTTTAGGGATTAAAGTTT
1 AGG-TTTAGGGATTAAAGTTT
*
9397407 AGGTTTA-GGATTTAAGGTTT
1 AGGTTTAGGGA-TTAAAGTTT
9397427 AGGGTTTAGG
1 A-GGTTTAGG
9397437 ATTTAAGATT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
18 2 0.05
19 10 0.24
20 20 0.49
21 8 0.20
22 1 0.02
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (20 bp):
AGGTTTAGGGATTAAAGTTT
Found at i:9397465 original size:43 final size:43
Alignment explanation
Indices: 9397417--9397502 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
9397407 AGGTTTAGGA
* *
9397417 TTTAAGGTTTAGGGTTTAGGATTTAAGA-TTTAAGGTATAAGGT
1 TTTAAGGTTTAGCGTTAAGG-TTTAAGAGTTTAAGGTATAAGGT
* *
9397460 TTTAAGGTTTAGCGTTAAGGTTTTAGAGTTTAAGGTTTAAGGT
1 TTTAAGGTTTAGCGTTAAGGTTTAAGAGTTTAAGGTATAAGGT
9397503 ATAGGGTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 6 0.16
43 32 0.84
ACGTcount: A:0.28, C:0.01, G:0.28, T:0.43
Consensus pattern (43 bp):
TTTAAGGTTTAGCGTTAAGGTTTAAGAGTTTAAGGTATAAGGT
Found at i:9397557 original size:26 final size:25
Alignment explanation
Indices: 9397524--9397610 Score: 72
Period size: 26 Copynumber: 3.4 Consensus size: 25
9397514 AGTTTTAGGT
9397524 TTTA-GGTTTTGATTTAGAGGTTAA
1 TTTAGGGTTTTGATTTAGAGGTTAA
* * *
9397548 GTTTAGGGTTTTGGTTTAGAGTCTTGA
1 -TTTAGGGTTTTGATTTAGAG-GTTAA
9397575 TTTAGGG-TTTGCATTTAG-GGTCTAGA
1 TTTAGGGTTTTG-ATTTAGAGGT-TA-A
9397601 TTTTAGGGTT
1 -TTTAGGGTT
9397611 GGGTTTAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
24 1 0.02
25 10 0.20
26 27 0.55
27 10 0.20
28 1 0.02
ACGTcount: A:0.18, C:0.03, G:0.30, T:0.48
Consensus pattern (25 bp):
TTTAGGGTTTTGATTTAGAGGTTAA
Found at i:9397564 original size:13 final size:13
Alignment explanation
Indices: 9397548--9397727 Score: 94
Period size: 13 Copynumber: 13.8 Consensus size: 13
9397538 TAGAGGTTAA
9397548 GTTTAGGGTTTTG
1 GTTTAGGGTTTTG
* *
9397561 GTTTAGAGTCTTG
1 GTTTAGGGTTTTG
*
9397574 ATTTAGGG-TTTG
1 GTTTAGGGTTTTG
* * *
9397586 CATTTAGGGTCTAG
1 -GTTTAGGGTTTTG
* *
9397600 ATTTTAGGG-TTGG
1 -GTTTAGGGTTTTG
***
9397613 GTTTAAAATTTTG
1 GTTTAGGGTTTTG
* **
9397626 GTTTAGGGTCTAA
1 GTTTAGGGTTTTG
* *
9397639 GTTTAAGGTTTGG
1 GTTTAGGGTTTTG
* *
9397652 GTTTAGAGTTTAG
1 GTTTAGGGTTTTG
* *
9397665 GTTTAGGGCTTGG
1 GTTTAGGGTTTTG
*
9397678 GTTTAGGGTTTAG
1 GTTTAGGGTTTTG
* *
9397691 GTTTAAGGTTTGG
1 GTTTAGGGTTTTG
* *
9397704 GTTTAGAGTTTTC
1 GTTTAGGGTTTTG
*
9397717 ATTTAGGGTTT
1 GTTTAGGGTTT
9397728 GCACAGGGAA
Statistics
Matches: 122, Mismatches: 42, Indels: 6
0.72 0.25 0.04
Matches are distributed among these distances:
12 7 0.06
13 106 0.87
14 9 0.07
ACGTcount: A:0.17, C:0.03, G:0.33, T:0.47
Consensus pattern (13 bp):
GTTTAGGGTTTTG
Found at i:9397631 original size:39 final size:39
Alignment explanation
Indices: 9397588--9397672 Score: 109
Period size: 39 Copynumber: 2.2 Consensus size: 39
9397578 AGGGTTTGCA
* *
9397588 TTTAGGGTCT-AGATTTTAGGGTTGGGTTTAAAATTTTGG
1 TTTAGGGTCTAAG-TTTAAGGGTTGGGTTTAAAATTTAGG
* * *
9397627 TTTAGGGTCTAAGTTTAAGGTTTGGGTTTAGAGTTTAGG
1 TTTAGGGTCTAAGTTTAAGGGTTGGGTTTAAAATTTAGG
9397666 TTTAGGG
1 TTTAGGG
9397673 CTTGGGTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 38 0.95
40 2 0.05
ACGTcount: A:0.20, C:0.02, G:0.33, T:0.45
Consensus pattern (39 bp):
TTTAGGGTCTAAGTTTAAGGGTTGGGTTTAAAATTTAGG
Found at i:9397654 original size:26 final size:26
Alignment explanation
Indices: 9397602--9397714 Score: 129
Period size: 26 Copynumber: 4.4 Consensus size: 26
9397592 GGGTCTAGAT
* ** *
9397602 TTTAGGG-TTGGGTTTAAAATTTTGG
1 TTTAGGGTTTAGGTTTAAGGTTTGGG
* *
9397627 TTTAGGGTCTAAGTTTAAGGTTTGGG
1 TTTAGGGTTTAGGTTTAAGGTTTGGG
* * *
9397653 TTTAGAGTTTAGGTTTAGGGCTTGGG
1 TTTAGGGTTTAGGTTTAAGGTTTGGG
9397679 TTTAGGGTTTAGGTTTAAGGTTTGGG
1 TTTAGGGTTTAGGTTTAAGGTTTGGG
*
9397705 TTTAGAGTTT
1 TTTAGGGTTT
9397715 TCATTTAGGG
Statistics
Matches: 72, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
25 7 0.10
26 65 0.90
ACGTcount: A:0.18, C:0.02, G:0.35, T:0.46
Consensus pattern (26 bp):
TTTAGGGTTTAGGTTTAAGGTTTGGG
Found at i:9397668 original size:52 final size:52
Alignment explanation
Indices: 9397612--9397714 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 52
9397602 TTTAGGGTTG
* *
9397612 GGTTTAAAATTTTGGTTTAGGGTCTAAGTTTAAGGTTTGGGTTTAGAGTTTA
1 GGTTTAAAACTTGGGTTTAGGGTCTAAGTTTAAGGTTTGGGTTTAGAGTTTA
*** * *
9397664 GGTTTAGGGCTTGGGTTTAGGGTTTAGGTTTAAGGTTTGGGTTTAGAGTTT
1 GGTTTAAAACTTGGGTTTAGGGTCTAAGTTTAAGGTTTGGGTTTAGAGTTT
9397715 TCATTTAGGG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.18, C:0.02, G:0.34, T:0.46
Consensus pattern (52 bp):
GGTTTAAAACTTGGGTTTAGGGTCTAAGTTTAAGGTTTGGGTTTAGAGTTTA
Found at i:9397722 original size:52 final size:52
Alignment explanation
Indices: 9397625--9397724 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
9397615 TTAAAATTTT
**
9397625 GGTTTAGGGTCTAAGTTTAAGGTTTGGGTTTAGAGTTTAGGTTTAGGGCTTG
1 GGTTTAGGGTCTAAGTTTAAGGTTTGGGTTTAGAGTTTACATTTAGGGCTTG
* * *
9397677 GGTTTAGGGTTTAGGTTTAAGGTTTGGGTTTAGAGTTTTCATTTAGGG
1 GGTTTAGGGTCTAAGTTTAAGGTTTGGGTTTAGAGTTTACATTTAGGG
9397725 TTTGCACAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.17, C:0.03, G:0.36, T:0.44
Consensus pattern (52 bp):
GGTTTAGGGTCTAAGTTTAAGGTTTGGGTTTAGAGTTTACATTTAGGGCTTG
Found at i:9403086 original size:7 final size:7
Alignment explanation
Indices: 9403074--9403110 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
9403064 GCGGTGCTTG
9403074 CTTCAAA
1 CTTCAAA
9403081 CTTCAAA
1 CTTCAAA
*
9403088 ATTCAAA
1 CTTCAAA
9403095 CTTCAAA
1 CTTCAAA
9403102 CTTCAAA
1 CTTCAAA
9403109 CT
1 CT
9403111 CTAGCCTCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (7 bp):
CTTCAAA
Found at i:9405584 original size:32 final size:33
Alignment explanation
Indices: 9405548--9405664 Score: 105
Period size: 32 Copynumber: 3.6 Consensus size: 33
9405538 TTAATAAGCT
*
9405548 TTATA-ATTTTTCTAAAATAAATTTTCAAAAAG
1 TTATATATTTTTCTAAAATAAATTTTCAAAAAA
* *
9405580 TTATATATCTTTT-AAGAAAAAAATTTTCAAAAAA
1 TTATATAT-TTTTCTA-AAATAAATTTTCAAAAAA
* * ** *
9405614 TCATA-CTTTTTAGAAAATAAATTTTTAAAAAA
1 TTATATATTTTTCTAAAATAAATTTTCAAAAAA
* *
9405646 TTATATACTTTTCTTAAAT
1 TTATATATTTTTCTAAAAT
9405665 CCGTTTCCAA
Statistics
Matches: 66, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
32 29 0.44
33 13 0.20
34 24 0.36
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.44
Consensus pattern (33 bp):
TTATATATTTTTCTAAAATAAATTTTCAAAAAA
Found at i:9405604 original size:34 final size:33
Alignment explanation
Indices: 9405561--9405657 Score: 119
Period size: 34 Copynumber: 2.9 Consensus size: 33
9405551 TAATTTTTCT
9405561 AAAATAAATTTTCAAAAAGTTATATATCTTTTAAG
1 AAAATAAATTTTCAAAAA-TTATATA-CTTTTAAG
*
9405596 AAAA-AAATTTTCAAAAA--ATCATACTTTTTAG
1 AAAATAAATTTTCAAAAATTAT-ATACTTTTAAG
*
9405627 AAAATAAATTTTTAAAAAATTATATACTTTT
1 AAAATAAA-TTTTCAAAAATTATATACTTTT
9405658 CTTAAATCCG
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
31 13 0.24
32 6 0.11
33 9 0.16
34 21 0.38
35 6 0.11
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (33 bp):
AAAATAAATTTTCAAAAATTATATACTTTTAAG
Found at i:9407558 original size:2 final size:2
Alignment explanation
Indices: 9407514--9407541 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9407504 TTCATGCAAG
9407514 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9407542 GAACATAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9407584 original size:6 final size:6
Alignment explanation
Indices: 9407566--9407604 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
9407556 ATACTTATTT
* * *
9407566 AGTAGA AGCAGA AGTAGA AGCAGA AGTAGA AGCAGA AGT
1 AGTAGA AGTAGA AGTAGA AGTAGA AGTAGA AGTAGA AGT
9407605 GAAAGCGAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.49, C:0.08, G:0.33, T:0.10
Consensus pattern (6 bp):
AGTAGA
Found at i:9407610 original size:12 final size:12
Alignment explanation
Indices: 9407566--9407604 Score: 78
Period size: 12 Copynumber: 3.2 Consensus size: 12
9407556 ATACTTATTT
9407566 AGTAGAAGCAGA
1 AGTAGAAGCAGA
9407578 AGTAGAAGCAGA
1 AGTAGAAGCAGA
9407590 AGTAGAAGCAGA
1 AGTAGAAGCAGA
9407602 AGT
1 AGT
9407605 GAAAGCGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.49, C:0.08, G:0.33, T:0.10
Consensus pattern (12 bp):
AGTAGAAGCAGA
Found at i:9410912 original size:21 final size:21
Alignment explanation
Indices: 9410886--9410929 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
9410876 AATAGGTGGC
*
9410886 AATTAATAATGCATCGTCCTA
1 AATTAATAATGCATCATCCTA
*
9410907 AATTAATAATGCATTATCCTA
1 AATTAATAATGCATCATCCTA
9410928 AA
1 AA
9410930 AGGTGATTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (21 bp):
AATTAATAATGCATCATCCTA
Found at i:9413235 original size:21 final size:22
Alignment explanation
Indices: 9413194--9413235 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
9413184 ATAAAATTAA
*
9413194 AAAAACATTAAATCTTTAAAAC
1 AAAAACATTAAATCTTAAAAAC
9413216 AAAAAC-TTGAAA-CTTAAAAA
1 AAAAACATT-AAATCTTAAAAA
9413236 AAGCTATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.62, C:0.12, G:0.02, T:0.24
Consensus pattern (22 bp):
AAAAACATTAAATCTTAAAAAC
Found at i:9415289 original size:22 final size:22
Alignment explanation
Indices: 9415264--9415306 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
9415254 ACAATGGGAG
*
9415264 TCTTCATGACAATAAT-CAAGAT
1 TCTTCATAACAA-AATACAAGAT
*
9415286 TCTTTATAACAAAATACAAGA
1 TCTTCATAACAAAATACAAGA
9415307 AAAAAATCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.30
Consensus pattern (22 bp):
TCTTCATAACAAAATACAAGAT
Found at i:9416016 original size:26 final size:26
Alignment explanation
Indices: 9415980--9416032 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
9415970 GGTGGCAATT
*
9415980 TCTTTAACATTTAAGCTTTTGTAAAC
1 TCTTTAACATTTAAGCTTCTGTAAAC
9416006 TCTTTAACATTTAAGCTTCTGTAAAC
1 TCTTTAACATTTAAGCTTCTGTAAAC
9416032 T
1 T
9416033 ACCTAAGGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.17, G:0.08, T:0.45
Consensus pattern (26 bp):
TCTTTAACATTTAAGCTTCTGTAAAC
Found at i:9418705 original size:60 final size:60
Alignment explanation
Indices: 9418641--9418755 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
9418631 CATAAATGGT
* * *
9418641 CCATGCATTAAAATTTGCATTCTCATTAATGGAATTTTTGTAATTTTTGTCACATTACTC
1 CCATGCATCAAAATTTGCATTCTCATCAATGGAACTTTTGTAATTTTTGTCACATTACTC
* * * * * *
9418701 CCATGCATCAAAGTTTGCTTTTTTATCAATGGCACTTTTGTAATTTTTGTTACAT
1 CCATGCATCAAAATTTGCATTCTCATCAATGGAACTTTTGTAATTTTTGTCACAT
9418756 GCCTTTCTCA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 46 1.00
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.46
Consensus pattern (60 bp):
CCATGCATCAAAATTTGCATTCTCATCAATGGAACTTTTGTAATTTTTGTCACATTACTC
Found at i:9420227 original size:12 final size:13
Alignment explanation
Indices: 9420212--9420334 Score: 64
Period size: 13 Copynumber: 9.8 Consensus size: 13
9420202 AACTACCATG
9420212 CAAACCCTAAA-T
1 CAAACCCTAAACT
*
9420224 CAAATCCTAAACT
1 CAAACCCTAAACT
*
9420237 AAAACCCTAAAC-
1 CAAACCCTAAACT
* * *
9420249 CTAAA-CATCAACC
1 C-AAACCCTAAACT
* *
9420262 CTAATCCTAAAC-
1 CAAACCCTAAACT
9420274 CTAAACCC-AAAC-
1 C-AAACCCTAAACT
9420286 CAAACCCTAAAC-
1 CAAACCCTAAACT
*
9420298 CAAAACCCTAACCT
1 C-AAACCCTAAACT
* *
9420312 TAAACCC-AAAAT
1 CAAACCCTAAACT
9420324 CAAAACCCTAA
1 C-AAACCCTAA
9420335 CCTATAACCT
Statistics
Matches: 85, Mismatches: 16, Indels: 18
0.71 0.13 0.15
Matches are distributed among these distances:
11 6 0.07
12 31 0.36
13 46 0.54
14 2 0.02
ACGTcount: A:0.50, C:0.36, G:0.00, T:0.15
Consensus pattern (13 bp):
CAAACCCTAAACT
Found at i:9420251 original size:6 final size:6
Alignment explanation
Indices: 9420229--9420317 Score: 58
Period size: 6 Copynumber: 14.3 Consensus size: 6
9420219 TAAATCAAAT
* * *
9420229 CCTAAA -CTAAAA CCCTAAA CCTAAA CATCAAC CCTAAT CCTAAA CCTAAA
1 CCTAAA CCT-AAA -CCTAAA CCTAAA CCT-AAA CCTAAA CCTAAA CCTAAA
* *
9420279 CCCAAA CC-AAA CCCTAAA CCAAAA CCCT-AA CCTTAAA CC
1 CCTAAA CCTAAA -CCTAAA CCTAAA -CCTAAA CC-TAAA CC
9420318 CAAAATCAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 17
0.73 0.09 0.19
Matches are distributed among these distances:
5 7 0.11
6 41 0.62
7 16 0.24
8 2 0.03
ACGTcount: A:0.47, C:0.38, G:0.00, T:0.15
Consensus pattern (6 bp):
CCTAAA
Found at i:9420251 original size:19 final size:19
Alignment explanation
Indices: 9420229--9420290 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
9420219 TAAATCAAAT
9420229 CCTAAACTAAAACCCTAAA
1 CCTAAACTAAAACCCTAAA
* *
9420248 CCTAAAC-ATCAACCCTAAT
1 CCTAAACTA-AAACCCTAAA
9420267 CCTAAACCT-AAACCC-AAA
1 CCTAAA-CTAAAACCCTAAA
9420285 CC-AAAC
1 CCTAAAC
9420291 CCTAAACCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
16 1 0.03
17 3 0.08
18 5 0.14
19 26 0.72
20 1 0.03
ACGTcount: A:0.48, C:0.37, G:0.00, T:0.15
Consensus pattern (19 bp):
CCTAAACTAAAACCCTAAA
Found at i:9420296 original size:18 final size:19
Alignment explanation
Indices: 9420273--9420321 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
9420263 TAATCCTAAA
9420273 CCTAAACCCAAA-CCAAAC
1 CCTAAACCCAAACCCAAAC
* *
9420291 CCTAAACCAAAACCCTAAC
1 CCTAAACCCAAACCCAAAC
*
9420310 CTTAAACCCAAA
1 CCTAAACCCAAA
9420322 ATCAAAACCC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.49, C:0.41, G:0.00, T:0.10
Consensus pattern (19 bp):
CCTAAACCCAAACCCAAAC
Found at i:9420327 original size:26 final size:26
Alignment explanation
Indices: 9420270--9420337 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 26
9420260 CCCTAATCCT
* * *
9420270 AAACCTAAACCCAAACC--AAACCCT
1 AAACCAAAACCCTAACCTTAAACCCA
9420294 AAACCAAAACCCTAACCTTAAACCCA
1 AAACCAAAACCCTAACCTTAAACCCA
*
9420320 AAATCAAAACCCTAACCT
1 AAACCAAAACCCTAACCT
9420338 ATAACCTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
24 15 0.39
26 23 0.61
ACGTcount: A:0.50, C:0.38, G:0.00, T:0.12
Consensus pattern (26 bp):
AAACCAAAACCCTAACCTTAAACCCA
Found at i:9421315 original size:21 final size:21
Alignment explanation
Indices: 9421291--9421330 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
9421281 TTTTGGTTTA
9421291 GTGGTCCTAGTTATTGTTTTG
1 GTGGTCCTAGTTATTGTTTTG
*
9421312 GTGGTCTTAGTTATTGTTT
1 GTGGTCCTAGTTATTGTTT
9421331 AATCTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.07, G:0.28, T:0.55
Consensus pattern (21 bp):
GTGGTCCTAGTTATTGTTTTG
Found at i:9421390 original size:13 final size:13
Alignment explanation
Indices: 9421368--9421408 Score: 52
Period size: 11 Copynumber: 3.4 Consensus size: 13
9421358 TTGTTTTCTT
9421368 AAAAAGTGAAAAA
1 AAAAAGTGAAAAA
*
9421381 AAAAATTG--AAA
1 AAAAAGTGAAAAA
9421392 AAAAAGT-AAAAA
1 AAAAAGTGAAAAA
9421404 AAAAA
1 AAAAA
9421409 TAATGGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
11 9 0.38
12 8 0.33
13 7 0.29
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (13 bp):
AAAAAGTGAAAAA
Found at i:9421426 original size:24 final size:22
Alignment explanation
Indices: 9421368--9421429 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
9421358 TTGTTTTCTT
*
9421368 AAAAAGTGAAAAAAAAAATTGA
1 AAAAAATGAAAAAAAAAATTGA
* *
9421390 AAAAAAAGTAAAAAAAAAATAATGG
1 AAAAAATG-AAAAAAAAAAT--TGA
9421415 AAAAAATGAAAAAAA
1 AAAAAATGAAAAAAA
9421430 TGTTTTGATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 6 0.18
23 11 0.33
24 7 0.21
25 9 0.27
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (22 bp):
AAAAAATGAAAAAAAAAATTGA
Found at i:9422500 original size:73 final size:73
Alignment explanation
Indices: 9422397--9422724 Score: 250
Period size: 73 Copynumber: 4.5 Consensus size: 73
9422387 AAGTTGGAAA
* * *
9422397 TAATAAGATAGTGCATGCTTTCCATCTCATGCACATTTTAATAGATAATACAT-CATTCCATTTC
1 TAAT-AGATAGTACATGC-ATCCATCTCATGCACATTTTAATAGATAATACATACATTCCATCTC
*
9422461 ATGCACATAT
64 ATGCACATCT
* * * * * *
9422471 TAATAGATAGTACATACAGTCCATTTCATGCACATATTAATAGATAGTA-ATGCATTTCATCTCA
1 TAATAGATAGTACATGCA-TCCATCTCATGCACATTTTAATAGATAATACATACATTCCATCTCA
*
9422535 TGCACTTCT
65 TGCACATCT
* * * * * * *
9422544 TAATAGCTACTACATGTACTCAATTTCATG--CA---T-A-A-ATAATATATGCACTT-CAT-TA
1 TAATAGATAGTACATGCA-TCCATCTCATGCACATTTTAATAGATAATACATACA-TTCCATCT-
* *
9422599 CATACACATTT
63 CATGCACATCT
** * **
9422610 TAAT-GTATAGTACATGCATCCCATCTCATGCACACCTTAATAGATGATACATACATTCCATCGA
1 TAATAG-ATAGTACATGCAT-CCATCTCATGCACATTTTAATAGATAATACATACATTCCATCTC
9422674 ATGCACATCT
64 ATGCACATCT
*
9422684 TAATAGATAGTATATGCATTCCATCTCATGCACATTTTAAT
1 TAATAGATAGTACATGCA-TCCATCTCATGCACATTTTAAT
9422725 GTGGTTTTCA
Statistics
Matches: 200, Mismatches: 35, Indels: 38
0.73 0.13 0.14
Matches are distributed among these distances:
65 8 0.04
66 38 0.19
67 3 0.01
68 3 0.01
71 3 0.01
72 3 0.01
73 82 0.41
74 58 0.29
75 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (73 bp):
TAATAGATAGTACATGCATCCATCTCATGCACATTTTAATAGATAATACATACATTCCATCTCAT
GCACATCT
Found at i:9422503 original size:37 final size:37
Alignment explanation
Indices: 9422397--9422724 Score: 261
Period size: 37 Copynumber: 9.1 Consensus size: 37
9422387 AAGTTGGAAA
* * *
9422397 TAATAAGATAGTGCATGCTTTCCATCTCATGCACATTT
1 TAAT-AGATAGTACATGCATTCCATCTCATGCACATAT
* *
9422435 TAATAGATAATACAT-CATTCCATTTCATGCACATAT
1 TAATAGATAGTACATGCATTCCATCTCATGCACATAT
* * *
9422471 TAATAGATAGTACATACAGTCCATTTCATGCACATAT
1 TAATAGATAGTACATGCATTCCATCTCATGCACATAT
* * *
9422508 TAATAGATAGTA-ATGCATTTCATCTCATGCACTTCT
1 TAATAGATAGTACATGCATTCCATCTCATGCACATAT
* * * * * *
9422544 TAATAGCTACTACATGTACTCAATTTCATG--CATA-
1 TAATAGATAGTACATGCATTCCATCTCATGCACATAT
* *
9422578 -AATA-ATA-T--ATGCACTT-CAT-TACATACACATTT
1 TAATAGATAGTACATGCA-TTCCATCT-CATGCACATAT
* **
9422610 TAAT-GTATAGTACATGCATCCCATCTCATGCACACCT
1 TAATAG-ATAGTACATGCATTCCATCTCATGCACATAT
* ** *
9422647 TAATAGAT-GATACATACATTCCATCGAATGCACATCT
1 TAATAGATAG-TACATGCATTCCATCTCATGCACATAT
* *
9422684 TAATAGATAGTATATGCATTCCATCTCATGCACATTT
1 TAATAGATAGTACATGCATTCCATCTCATGCACATAT
9422721 TAAT
1 TAAT
9422725 GTGGTTTTCA
Statistics
Matches: 230, Mismatches: 42, Indels: 37
0.74 0.14 0.12
Matches are distributed among these distances:
28 1 0.00
29 9 0.04
30 1 0.00
31 4 0.02
32 2 0.01
33 7 0.03
34 3 0.01
35 3 0.01
36 62 0.27
37 131 0.57
38 7 0.03
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (37 bp):
TAATAGATAGTACATGCATTCCATCTCATGCACATAT
Found at i:9422530 original size:31 final size:34
Alignment explanation
Indices: 9422418--9422530 Score: 124
Period size: 36 Copynumber: 3.3 Consensus size: 34
9422408 TGCATGCTTT
* * * *
9422418 CCATCTCATGCACATTTTAATAGATAATACATCATT
1 CCATTTCATGCACATATTAATAGATAGTACAT-A-G
9422454 CCATTTCATGCACATATTAATAGATAGTACATACAG
1 CCATTTCATGCACATATTAATAGATAGTACAT--AG
9422490 TCCATTTCATGCACATATTAATAGATAGTA-AT-G
1 -CCATTTCATGCACATATTAATAGATAGTACATAG
9422523 -CATTTCAT
1 CCATTTCAT
9422531 CTCATGCACT
Statistics
Matches: 71, Mismatches: 4, Indels: 9
0.85 0.05 0.11
Matches are distributed among these distances:
31 8 0.11
33 1 0.01
36 31 0.44
37 31 0.44
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.35
Consensus pattern (34 bp):
CCATTTCATGCACATATTAATAGATAGTACATAG
Found at i:9424234 original size:35 final size:35
Alignment explanation
Indices: 9424195--9424272 Score: 138
Period size: 35 Copynumber: 2.2 Consensus size: 35
9424185 AATACCCCTC
9424195 AGCACATTTCACCATGTACTATCAAAAAATGACAA
1 AGCACATTTCACCATGTACTATCAAAAAATGACAA
* *
9424230 AGCACATATCACCATGTACTATCAGAAAATGACAA
1 AGCACATTTCACCATGTACTATCAAAAAATGACAA
9424265 AGCACATT
1 AGCACATT
9424273 CACAAGGACA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.45, C:0.23, G:0.10, T:0.22
Consensus pattern (35 bp):
AGCACATTTCACCATGTACTATCAAAAAATGACAA
Found at i:9426679 original size:14 final size:15
Alignment explanation
Indices: 9426660--9426688 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9426650 AAAGAACTAA
9426660 GAAAAGAAA-GAAGG
1 GAAAAGAAATGAAGG
9426674 GAAAAGAAATGAAGG
1 GAAAAGAAATGAAGG
9426689 ATGATCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.00, G:0.34, T:0.03
Consensus pattern (15 bp):
GAAAAGAAATGAAGG
Found at i:9428741 original size:21 final size:21
Alignment explanation
Indices: 9428715--9428767 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
9428705 AAAGCACCAA
9428715 AAGGGATCGATCCTCTACAAG
1 AAGGGATCGATCCTCTACAAG
*
9428736 AAGGGATCGATCCTCTACAAT
1 AAGGGATCGATCCTCTACAAG
9428757 AAGGGATCGAT
1 AAGGGATCGAT
9428768 TGGGTAAGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (21 bp):
AAGGGATCGATCCTCTACAAG
Found at i:9432567 original size:2 final size:2
Alignment explanation
Indices: 9432560--9432586 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9432550 AGCTTGAGTT
9432560 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
9432587 CTAATTTCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9440716 original size:10 final size:10
Alignment explanation
Indices: 9440703--9440739 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
9440693 GCATCTTGGT
9440703 CAATCTCAGA
1 CAATCTCAGA
9440713 CAATCTCAGA
1 CAATCTCAGA
*
9440723 CAATCTCGGA
1 CAATCTCAGA
9440733 CAATCTC
1 CAATCTC
9440740 CTCTATTAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.35, C:0.32, G:0.11, T:0.22
Consensus pattern (10 bp):
CAATCTCAGA
Found at i:9441888 original size:6 final size:5
Alignment explanation
Indices: 9441875--9441971 Score: 56
Period size: 5 Copynumber: 18.6 Consensus size: 5
9441865 ATGAGAAAAT
* *
9441875 AAAGA AAGGA AAAGA AAATG- AAA-A AAA-A AAAGAA AAAAA AAAGAA
1 AAAGA AAAGA AAAGA AAA-GA AAAGA AAAGA AAAG-A AAAGA AAAG-A
* * * *
9441920 AAAAA AAAGA AAAAA AAAGAAA AAAGA AGAACA AAAGA AATAAA AAAGA
1 AAAGA AAAGA AAAGA AAAG--A AAAGA A-AAGA AAAGA AA-AGA AAAGA
9441969 AAA
1 AAA
9441972 AGAGGGAAGA
Statistics
Matches: 71, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
4 7 0.10
5 42 0.59
6 17 0.24
7 5 0.07
ACGTcount: A:0.84, C:0.01, G:0.13, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:9441901 original size:1 final size:1
Alignment explanation
Indices: 9441895--9441972 Score: 66
Period size: 1 Copynumber: 78.0 Consensus size: 1
9441885 AAAGAAAATG
* * * * * * * *
9441895 AAAAAAAAAAAGAAAAAAAAAAGAAAAAAAAAAGAAAAAAAAAGAAAAAAGAAGAACAAAAGAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
9441960 TAAAAAAGAAAAA
1 AAAAAAAAAAAAA
9441973 GAGGGAAGAA
Statistics
Matches: 57, Mismatches: 20, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.87, C:0.01, G:0.10, T:0.01
Consensus pattern (1 bp):
A
Found at i:9441904 original size:12 final size:11
Alignment explanation
Indices: 9441868--9441971 Score: 95
Period size: 11 Copynumber: 9.1 Consensus size: 11
9441858 TGAAAGAATG
9441868 AGAAAATAAAGAA
1 AGAAAA-AAA-AA
*
9441881 AGGAAAAGAAAA
1 A-GAAAAAAAAA
*
9441893 TGAAAAAAAAAA
1 AG-AAAAAAAAA
9441905 AGAAAAAAAAA
1 AGAAAAAAAAA
9441916 AGAAAAAAAAA
1 AGAAAAAAAAA
9441927 AG-AAAAAAAA
1 AGAAAAAAAAA
*
9441937 AG-AAAAAAGA
1 AGAAAAAAAAA
*
9441947 AGAACAAAAGAA
1 AGAA-AAAAAAA
*
9441959 ATAAAAAAGAAA
1 AGAAAAAA-AAA
9441971 A
1 A
9441972 AGAGGGAAGA
Statistics
Matches: 77, Mismatches: 9, Indels: 11
0.79 0.09 0.11
Matches are distributed among these distances:
10 19 0.25
11 28 0.36
12 22 0.29
13 3 0.04
14 5 0.06
ACGTcount: A:0.83, C:0.01, G:0.13, T:0.03
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:9441973 original size:28 final size:27
Alignment explanation
Indices: 9441871--9441974 Score: 95
Period size: 28 Copynumber: 3.7 Consensus size: 27
9441861 AAGAATGAGA
*
9441871 AAATAAAGAAAGGAAAAGAAAATGAAAAA-
1 AAATAAA-AAAGAAAAAGAAAA--AAAAAG
* *
9441900 AAAAAAGAAAAAAAAAAGAAAAAAAAAAG
1 AAATAA-AAAAGAAAAAG-AAAAAAAAAG
*
9441929 AAA-AAAAAAGAAAAAAGAAGAACAAAAG
1 AAATAAAAAAG-AAAAAGAA-AAAAAAAG
9441957 AAATAAAAAAGAAAAAGA
1 AAATAAAAAAGAAAAAGA
9441975 GGGAAGAAAG
Statistics
Matches: 64, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
27 6 0.09
28 30 0.47
29 23 0.36
30 5 0.08
ACGTcount: A:0.83, C:0.01, G:0.13, T:0.03
Consensus pattern (27 bp):
AAATAAAAAAGAAAAAGAAAAAAAAAG
Found at i:9441986 original size:39 final size:39
Alignment explanation
Indices: 9441884--9441972 Score: 126
Period size: 39 Copynumber: 2.3 Consensus size: 39
9441874 TAAAGAAAGG
9441884 AAAAGAAAATGAAAAA-AAAAAAGAAAAAAAAAAGAAAAAA
1 AAAAGAAAA--AAAAAGAAAAAAGAAAAAAAAAAGAAAAAA
* * *
9441924 AAAAGAAAAAAAAAGAAAAAAGAAGAACAAAAGAAATAA
1 AAAAGAAAAAAAAAGAAAAAAGAAAAAAAAAAGAAAAAA
9441963 AAAAGAAAAA
1 AAAAGAAAAA
9441973 GAGGGAAGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
38 5 0.11
39 31 0.69
40 9 0.20
ACGTcount: A:0.85, C:0.01, G:0.11, T:0.02
Consensus pattern (39 bp):
AAAAGAAAAAAAAAGAAAAAAGAAAAAAAAAAGAAAAAA
Found at i:9441988 original size:28 final size:29
Alignment explanation
Indices: 9441907--9441972 Score: 100
Period size: 28 Copynumber: 2.3 Consensus size: 29
9441897 AAAAAAAAAG
* *
9441907 AAAA-AAAAAAGAAAAAAAAAAGAAA-AA
1 AAAAGAAAAAAGAAGAACAAAAGAAATAA
9441934 AAAAGAAAAAAGAAGAACAAAAGAAATAA
1 AAAAGAAAAAAGAAGAACAAAAGAAATAA
9441963 AAAAGAAAAA
1 AAAAGAAAAA
9441973 GAGGGAAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 4 0.11
28 19 0.54
29 12 0.34
ACGTcount: A:0.86, C:0.02, G:0.11, T:0.02
Consensus pattern (29 bp):
AAAAGAAAAAAGAAGAACAAAAGAAATAA
Found at i:9443631 original size:20 final size:20
Alignment explanation
Indices: 9443603--9443656 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
9443593 GCATAATCAC
9443603 AAGATCATTTGCATCAAG-AAA
1 AAGA-CATTTGCATC-AGCAAA
* *
9443624 AAGACATTTACATCTGCAAA
1 AAGACATTTGCATCAGCAAA
9443644 AAGACATTTGCAT
1 AAGACATTTGCAT
9443657 ATTCGCATAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 1 0.03
20 24 0.83
21 4 0.14
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (20 bp):
AAGACATTTGCATCAGCAAA
Found at i:9444084 original size:41 final size:40
Alignment explanation
Indices: 9444021--9444140 Score: 102
Period size: 40 Copynumber: 3.0 Consensus size: 40
9444011 GACTTTCGGA
* * * *
9444021 TGAAATTTTTTCAA-AACCTCTAGGTGAAATTTTGAGTTTT
1 TGAAAATTTTTCAAGAACCTCTA-GCGAAATTTTAAATTTT
* *
9444061 TGAAAATTTTTCAAGAGCTTCTAGCGAAATTTTAAATTTT
1 TGAAAATTTTTCAAGAACCTCTAGCGAAATTTTAAATTTT
** * *
9444101 TGAAAAGATTTCAAG-TCCTCCAG-GTAGAATTTTAAATTTT
1 TGAAAATTTTTCAAGAACCTCTAGCG-A-AATTTTAAATTTT
9444141 CAAGGCCTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
38 1 0.02
39 6 0.09
40 53 0.80
41 6 0.09
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (40 bp):
TGAAAATTTTTCAAGAACCTCTAGCGAAATTTTAAATTTT
Found at i:9444475 original size:21 final size:21
Alignment explanation
Indices: 9444449--9444497 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
9444439 TGAATGATTT
*
9444449 TTAAGGCCCCCAAGCAAAACC
1 TTAAGGCACCCAAGCAAAACC
* * *
9444470 TTAAGGCATCTAGGCAAAACC
1 TTAAGGCACCCAAGCAAAACC
9444491 TTAAGGC
1 TTAAGGC
9444498 TTACAAGCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.37, C:0.29, G:0.18, T:0.16
Consensus pattern (21 bp):
TTAAGGCACCCAAGCAAAACC
Found at i:9444507 original size:21 final size:20
Alignment explanation
Indices: 9444459--9444514 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
9444449 TTAAGGCCCC
9444459 CAAGCAAAACCTTAAGGCAT
1 CAAGCAAAACCTTAAGGCAT
* *
9444479 CTAGGCAAAACCTTAAGGCTT
1 C-AAGCAAAACCTTAAGGCAT
*
9444500 ACAAGCAAAATCTTA
1 -CAAGCAAAACCTTA
9444515 GATTTTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 1 0.03
21 28 0.93
22 1 0.03
ACGTcount: A:0.43, C:0.23, G:0.14, T:0.20
Consensus pattern (20 bp):
CAAGCAAAACCTTAAGGCAT
Found at i:9444630 original size:20 final size:19
Alignment explanation
Indices: 9444602--9444655 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
9444592 AAGGCTCTAA
9444602 AAAAAAATAACAACAACAC
1 AAAAAAATAACAACAACAC
* *
9444621 AAAAATAATAATAATAACAC
1 AAAAA-AATAACAACAACAC
9444641 -AAAAAATAACAACAA
1 AAAAAAATAACAACAA
9444656 GAAAACAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 9 0.30
19 9 0.30
20 12 0.40
ACGTcount: A:0.74, C:0.15, G:0.00, T:0.11
Consensus pattern (19 bp):
AAAAAAATAACAACAACAC
Found at i:9444663 original size:21 final size:21
Alignment explanation
Indices: 9444616--9444673 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
9444606 AAATAACAAC
* * *
9444616 AACACAAAAATAATAATAATAA
1 AACA-AAAAATAACAACAAGAA
*
9444638 CACAAAAAATAACAACAAGAA
1 AACAAAAAATAACAACAAGAA
* *
9444659 AACAACAAACAACAA
1 AACAAAAAATAACAA
9444674 ATAGTGACAA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.72, C:0.17, G:0.02, T:0.09
Consensus pattern (21 bp):
AACAAAAAATAACAACAAGAA
Found at i:9446501 original size:6 final size:6
Alignment explanation
Indices: 9446490--9446529 Score: 62
Period size: 6 Copynumber: 6.3 Consensus size: 6
9446480 AAATTGAAAC
9446490 CCTAAA CCTAAA CCTAAA CCTAAA CCATAAA CCATAAA CC
1 CCTAAA CCTAAA CCTAAA CCTAAA CC-TAAA CC-TAAA CC
9446530 CAAAACCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 20 0.61
7 13 0.39
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (6 bp):
CCTAAA
Found at i:9446522 original size:7 final size:7
Alignment explanation
Indices: 9446486--9446542 Score: 61
Period size: 6 Copynumber: 8.7 Consensus size: 7
9446476 CCATAAATTG
*
9446486 AAACCCT
1 AAACCAT
9446493 AAACC-T
1 AAACCAT
9446499 AAACC-T
1 AAACCAT
9446505 AAACC-T
1 AAACCAT
9446511 AAACCAT
1 AAACCAT
9446518 AAACCAT
1 AAACCAT
9446525 AAACCCA-
1 AAA-CCAT
9446532 AAACCA-
1 AAACCAT
9446538 AAACC
1 AAACC
9446543 CTTACCTTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
6 26 0.54
7 19 0.40
8 3 0.06
ACGTcount: A:0.54, C:0.35, G:0.00, T:0.11
Consensus pattern (7 bp):
AAACCAT
Found at i:9446579 original size:26 final size:27
Alignment explanation
Indices: 9446486--9446586 Score: 93
Period size: 26 Copynumber: 3.9 Consensus size: 27
9446476 CCATAAATTG
* * *
9446486 AAACCCTAAACCTAAA-CCT-AAACCT
1 AAACCCTTAACATAAACCCTAAAACCA
* *
9446511 AAACCATAAACCATAAACCC-AAAACCA
1 AAACCCTTAA-CATAAACCCTAAAACCA
* * *
9446538 AAACCCTTACCTTAAACCCTAAAATCA
1 AAACCCTTAACATAAACCCTAAAACCA
9446565 AAACCC-TAACATAAACCCTAAA
1 AAACCCTTAACATAAACCCTAAA
9446587 TTAACCCTAA
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
25 9 0.15
26 27 0.44
27 26 0.42
ACGTcount: A:0.51, C:0.34, G:0.00, T:0.15
Consensus pattern (27 bp):
AAACCCTTAACATAAACCCTAAAACCA
Found at i:9446594 original size:11 final size:12
Alignment explanation
Indices: 9446550--9446597 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 12
9446540 ACCCTTACCT
*
9446550 TAAACCCTAAAA
1 TAAACCCTAACA
9446562 TCAAAACCCTAACA
1 T--AAACCCTAACA
9446576 TAAACCCTAA-A
1 TAAACCCTAACA
*
9446587 TTAACCCTAAC
1 TAAACCCTAAC
9446598 CCTCAATGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
11 10 0.32
12 10 0.32
14 11 0.35
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (12 bp):
TAAACCCTAACA
Found at i:9447092 original size:26 final size:28
Alignment explanation
Indices: 9447046--9447097 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
9447036 TTTTGCTTTT
9447046 TTTTCAAAAAAAATAAAATTT-ATTTAC
1 TTTTCAAAAAAAATAAAATTTGATTTAC
* *
9447073 TTTT-AAAAAAAATGAGATTTGATTT
1 TTTTCAAAAAAAATAAAATTTGATTT
9447098 TTTTGGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (28 bp):
TTTTCAAAAAAAATAAAATTTGATTTAC
Found at i:9447641 original size:15 final size:15
Alignment explanation
Indices: 9447597--9447641 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
9447587 ATACATACTA
9447597 AAGTGATTTATATCG
1 AAGTGATTTATATCG
*
9447612 -AGATGAATCTATATCG
1 AAG-TG-ATTTATATCG
9447628 AAGTGATTTATATC
1 AAGTGATTTATATC
9447642 ATGACGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 2 0.08
15 10 0.40
16 11 0.44
17 2 0.08
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.38
Consensus pattern (15 bp):
AAGTGATTTATATCG
Found at i:9447671 original size:15 final size:14
Alignment explanation
Indices: 9447651--9447694 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
9447641 CATGACGAAT
9447651 TTATACCAAGGTGA
1 TTATACCAAGGTGA
*
9447665 CTTATACCGAGGTGA
1 -TTATACCAAGGTGA
*
9447680 TTTTCACCAAGGTGA
1 TTAT-ACCAAGGTGA
9447695 ATGTACACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 3 0.12
15 22 0.88
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (14 bp):
TTATACCAAGGTGA
Found at i:9447818 original size:15 final size:15
Alignment explanation
Indices: 9447781--9447819 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
9447771 GTGCAACGAG
*
9447781 GTGATTTGTACTGAA
1 GTGATTTATACTGAA
9447796 GTGAATTTATACTGAA
1 GTG-ATTTATACTGAA
9447812 GTGATTTA
1 GTGATTTA
9447820 CACATAGGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.41
Consensus pattern (15 bp):
GTGATTTATACTGAA
Found at i:9449813 original size:30 final size:30
Alignment explanation
Indices: 9449779--9449907 Score: 98
Period size: 30 Copynumber: 4.3 Consensus size: 30
9449769 TTGAGCTGAG
*
9449779 CCTTTATGAAGGTGATTTGACCAAGTTGGT
1 CCTTTATGAAGGTAATTTGACCAAGTTGGT
* * * * *
9449809 CCTTTATGATGGAAATTTGACTAATTTGAT
1 CCTTTATGAAGGTAATTTGACCAAGTTGGT
* * * *
9449839 CTTTTATGAAGGTAAATTGGCCAAGTTAAG-
1 CCTTTATGAAGGTAATTTGACCAAGTT-GGT
* * * * * *
9449869 CCTTTATGAAGGCAACTTGGCTAAGCTGAT
1 CCTTTATGAAGGTAATTTGACCAAGTTGGT
9449899 CCTTTATGA
1 CCTTTATGA
9449908 GGAAAATTTG
Statistics
Matches: 75, Mismatches: 22, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
30 75 1.00
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (30 bp):
CCTTTATGAAGGTAATTTGACCAAGTTGGT
Found at i:9449873 original size:60 final size:60
Alignment explanation
Indices: 9449772--9449948 Score: 162
Period size: 60 Copynumber: 3.0 Consensus size: 60
9449762 AATTTGGTTG
* * * * * *
9449772 AGCTGAGCCTTTATGAAGGTGATTTGACCAAGTT-GGTCCTTTATGATGGAAATTTGACTA
1 AGCTGATCCTTTATGAAGGTAAATTGGCCAAGTTAAG-CCTTTATGAAGGAAATTTGACTA
** * * * *
9449832 ATTTGATCTTTTATGAAGGTAAATTGGCCAAGTTAAGCCTTTATGAAGGCAACTTGGCTA
1 AGCTGATCCTTTATGAAGGTAAATTGGCCAAGTTAAGCCTTTATGAAGGAAATTTGACTA
* ** *
9449892 AGCTGATCCTTTATG-AGGAAAATTTGGCTGAGCTAATG-CTTTATGAAGGAAATTTGA
1 AGCTGATCCTTTATGAAGGTAAA-TTGGCCAAGTTAA-GCCTTTATGAAGGAAATTTGA
9449949 TCGAGTTGAA
Statistics
Matches: 92, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
59 6 0.07
60 84 0.91
61 2 0.02
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.34
Consensus pattern (60 bp):
AGCTGATCCTTTATGAAGGTAAATTGGCCAAGTTAAGCCTTTATGAAGGAAATTTGACTA
Found at i:9449919 original size:30 final size:30
Alignment explanation
Indices: 9449808--9449947 Score: 122
Period size: 30 Copynumber: 4.7 Consensus size: 30
9449798 ACCAAGTTGG
* * ** *
9449808 TCCTTTATGATGGAAATTTGACTAATTTGA
1 TCCTTTATGAAGGAAATTTGGCTAAGCTAA
* * *
9449838 TCTTTTATGAAGGTAAA-TTGGCCAAGTTAA
1 TCCTTTATGAAGG-AAATTTGGCTAAGCTAA
* * * *
9449868 GCCTTTATGAAGGCAACTTGGCTAAGCTGA
1 TCCTTTATGAAGGAAATTTGGCTAAGCTAA
*
9449898 TCCTTTATG-AGGAAAATTTGGCTGAGCTAA
1 TCCTTTATGAAGG-AAATTTGGCTAAGCTAA
*
9449928 TGCTTTATGAAGGAAATTTG
1 TCCTTTATGAAGGAAATTTG
9449948 ATCGAGTTGA
Statistics
Matches: 88, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
29 5 0.06
30 77 0.88
31 6 0.07
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (30 bp):
TCCTTTATGAAGGAAATTTGGCTAAGCTAA
Found at i:9450183 original size:59 final size:58
Alignment explanation
Indices: 9450016--9450184 Score: 155
Period size: 58 Copynumber: 2.9 Consensus size: 58
9450006 GGTCAAACCA
* * * * **
9450016 ATCCTTACGAAGGAAATTTGGCCCAGTTAAGACTTTAAAAAGGTAATTTGGCTGAATG
1 ATCCTTATGAAGGAAATTTGGCCAAGCTAAGACTTTATAAACATAATTTGGCTGAATG
* ** *
9450074 TTTTTTATGAAGGAAATTTGGCCAAGCTAAG-CATTTATGAAAGCAT--TTTGGCTTAACTG
1 ATCCTTATGAAGGAAATTTGGCCAAGCTAAGAC-TTTAT-AAA-CATAATTTGGCTGAA-TG
*** *
9450133 ATCCTTATGAAGGAAATTTGGTGGAGCTAAGACTTTATAAATATAATTTGGC
1 ATCCTTATGAAGGAAATTTGGCCAAGCTAAGACTTTATAAACATAATTTGGC
9450185 CAAGTTGATT
Statistics
Matches: 87, Mismatches: 17, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
57 3 0.03
58 41 0.47
59 41 0.47
60 2 0.02
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (58 bp):
ATCCTTATGAAGGAAATTTGGCCAAGCTAAGACTTTATAAACATAATTTGGCTGAATG
Found at i:9451089 original size:18 final size:18
Alignment explanation
Indices: 9451043--9451090 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
9451033 ATAAAATTAA
9451043 AAAATTAAAAATCAAATC
1 AAAATTAAAAATCAAATC
*
9451061 AAAATCAAAAATCAAATC
1 AAAATTAAAAATCAAATC
*
9451079 AAAATTTAAAAT
1 AAAATTAAAAAT
9451091 TAAAATAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAATTAAAAATCAAATC
Found at i:9451527 original size:20 final size:21
Alignment explanation
Indices: 9451486--9451531 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
9451476 ATTTAGTCAT
*
9451486 AACCTCAAAAACTCACATTCA
1 AACCTCAAAAACTCACAATCA
9451507 AACC-CAAAAACTTCA-AATCA
1 AACCTCAAAAAC-TCACAATCA
9451527 AACCT
1 AACCT
9451532 AGAAATCTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (21 bp):
AACCTCAAAAACTCACAATCA
Found at i:9451909 original size:3 final size:3
Alignment explanation
Indices: 9451898--9452139 Score: 142
Period size: 3 Copynumber: 85.7 Consensus size: 3
9451888 AAAAAATATA
* * * *
9451898 AAT AA- AAT AAT AAT AGT -AT AAT -AT AAT AAT AAT AGT AGT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
9451943 TAT ACT -AT AAT AAT AAT -AT AAT -AT AAT -AT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
9451986 AGT AAT AAT AGT TAT AAT AAT AAGTT ACT -AT AAT -AT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AA--T AAT AAT AAT AAT AAT AAT AAT
* *
9452030 AAT AAT AAT AAT AA- AAT -AT GAT AAT -GT AAT AAT AAT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
9452074 AAAT CAT ACT -AT ACT AGT AAC AAT AAT -AT AAT AAT ATT AAT ACT
1 -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
9452118 AAT AAC AA- AAT AAT AAC AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
9452140 AAACAAAGTC
Statistics
Matches: 183, Mismatches: 35, Indels: 42
0.70 0.13 0.16
Matches are distributed among these distances:
2 31 0.17
3 147 0.80
4 3 0.02
5 2 0.01
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:9451922 original size:5 final size:5
Alignment explanation
Indices: 9451892--9452106 Score: 113
Period size: 5 Copynumber: 40.8 Consensus size: 5
9451882 AAGGGAAAAA
* * *
9451892 AATAT AA-AT AAAAT AATAAT AGTAT AATAT AATAAT AATAGT AGTAGT
1 AATAT AATAT AATAT AAT-AT AATAT AATAT AAT-AT AATA-T AATA-T
*
9451940 AATTAT ACTAT AATAAT AATAT AATAT AATAT AATAAT AATAT AATAGT
1 AA-TAT AATAT AAT-AT AATAT AATAT AATAT AAT-AT AATAT AATA-T
* *
9451989 AATAAT AGTTAT AATAAT AAGT-T ACTAT AATAT AATAT AATAAT AATAAT
1 AAT-AT A-ATAT AAT-AT AA-TAT AATAT AATAT AATAT AAT-AT AAT-AT
*
9452039 AATA- AA-AT -ATGAT AATGT AATAAT AATA- AA-AT AATA- AATCAT
1 AATAT AATAT AAT-AT AATAT AAT-AT AATAT AATAT AATAT AAT-AT
* * *
9452081 ACTAT ACTAGT AACAAT AATAT AATA
1 AATAT AATA-T AA-TAT AATAT AATA
9452107 ATATTAATAC
Statistics
Matches: 168, Mismatches: 17, Indels: 50
0.71 0.07 0.21
Matches are distributed among these distances:
3 3 0.02
4 14 0.08
5 80 0.48
6 65 0.39
7 6 0.04
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.35
Consensus pattern (5 bp):
AATAT
Found at i:9451992 original size:35 final size:36
Alignment explanation
Indices: 9451892--9452121 Score: 146
Period size: 35 Copynumber: 6.4 Consensus size: 36
9451882 AAGGGAAAAA
9451892 AATATAAATAA-AATAATAATAGT-ATAATATAATAAT
1 AATAT-AATAATAAT-ATAATAGTAATAATATAATAAT
* * *
9451928 AATAGTAGTAGTAATTATACTATAATAATAATATAAT-AT
1 AATA-TAATAATAA-TATA--ATAGTAATAATATAATAAT
*
9451967 AATATAATAATAATATAATAGTAATAATAGTTATAAT
1 AATATAATAATAATATAATAGTAATAATA-TAATAAT
* *
9452004 AATA-AGT--TACTATAATA-TAAT-ATAATAATAAT
1 AATATAATAATAATATAATAGTAATAAT-ATAATAAT
9452036 AATAATAA-AAT-ATGATAAT-GTAATAATAATAA-AAT
1 AAT-ATAATAATAAT-ATAATAGTAATAAT-ATAATAAT
* * * *
9452071 AATA-AATCATACTATACTAGTAACAATA-ATATAAT
1 AATATAATAATAATATAATAGTAATAATATA-ATAAT
*
9452106 AATATTAATACTAATA
1 AATA-TAATAATAATA
9452122 ACAAAATAAT
Statistics
Matches: 152, Mismatches: 19, Indels: 45
0.70 0.09 0.21
Matches are distributed among these distances:
32 11 0.07
33 9 0.06
34 20 0.13
35 42 0.28
36 19 0.12
37 23 0.15
38 8 0.05
39 10 0.07
40 10 0.07
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.35
Consensus pattern (36 bp):
AATATAATAATAATATAATAGTAATAATATAATAAT
Found at i:9452431 original size:55 final size:55
Alignment explanation
Indices: 9452363--9452554 Score: 233
Period size: 55 Copynumber: 3.5 Consensus size: 55
9452353 TCAGAAAAAT
* * ** * *
9452363 AAAATGATCTGGACTTAGCCAAGATAGGGCAACCGGGATTGAACCACAAGTCAAG
1 AAAATGATCTGGACTAAGCCAAGATCGGATAACCAGGATTGAGCCACAAGTCAAG
* * *
9452418 AAAATGACCTGGACTAAGCCAAGATCGAATGACCAGGATTGAGCCACAAGTCAAG
1 AAAATGATCTGGACTAAGCCAAGATCGGATAACCAGGATTGAGCCACAAGTCAAG
* *
9452473 AAAATGATCTGTACTGAGCCAAGATCGGATAACCAGGATTGAGCCACAAGTC-AG
1 AAAATGATCTGGACTAAGCCAAGATCGGATAACCAGGATTGAGCCACAAGTCAAG
* * * *
9452527 AAAAATAATTTGGACTGAGCTAAGATCG
1 -AAAATGATCTGGACTAAGCCAAGATCG
9452555 AATGACCGGG
Statistics
Matches: 118, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
54 2 0.02
55 116 0.98
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.18
Consensus pattern (55 bp):
AAAATGATCTGGACTAAGCCAAGATCGGATAACCAGGATTGAGCCACAAGTCAAG
Found at i:9452552 original size:110 final size:110
Alignment explanation
Indices: 9452363--9452561 Score: 274
Period size: 110 Copynumber: 1.8 Consensus size: 110
9452353 TCAGAAAAAT
* * * *
9452363 AAAATGATCTGGACTTAGCCAAGATAGGGCAACCGGGATTGAACCACAAGTCAAGAAAATGACCT
1 AAAATGATCTGGACTGAGCCAAGATAGGACAACCAGGATTGAACCACAAGTCAAGAAAATAACCT
9452428 GGACTAAGCCAAGATCGAATGACCAGGATTGAGCCACAAGTCAAG
66 GGACTAAGCCAAGATCGAATGACCAGGATTGAGCCACAAGTCAAG
* * * * **
9452473 AAAATGATCTGTACTGAGCCAAGATCGGATAACCAGGATTGAGCCACAAGTC-AGAAAAATAATT
1 AAAATGATCTGGACTGAGCCAAGATAGGACAACCAGGATTGAACCACAAGTCAAG-AAAATAACC
* *
9452537 TGGACTGAGCTAAGATCGAATGACC
65 TGGACTAAGCCAAGATCGAATGACC
9452562 GGGACTAAGC
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
109 2 0.03
110 74 0.97
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.18
Consensus pattern (110 bp):
AAAATGATCTGGACTGAGCCAAGATAGGACAACCAGGATTGAACCACAAGTCAAGAAAATAACCT
GGACTAAGCCAAGATCGAATGACCAGGATTGAGCCACAAGTCAAG
Found at i:9453774 original size:7 final size:7
Alignment explanation
Indices: 9453758--9453786 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
9453748 TTCTCTTTCA
9453758 TTTT-TT
1 TTTTCTT
9453764 TTTTCTT
1 TTTTCTT
9453771 TTTTCTT
1 TTTTCTT
9453778 TTTTCTT
1 TTTTCTT
9453785 TT
1 TT
9453787 CATCAGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (7 bp):
TTTTCTT
Found at i:9458225 original size:15 final size:15
Alignment explanation
Indices: 9458207--9458271 Score: 59
Period size: 14 Copynumber: 4.5 Consensus size: 15
9458197 GTTAATAAAT
9458207 AATAAAAAT-CAGTAA
1 AATAAAAATGCA-TAA
9458222 AAT-AAAATGCATAA
1 AATAAAAATGCATAA
*
9458236 AATAAACAATAACAT--
1 AATAAA-AAT-GCATAA
9458251 AAT-AAAATGCATAA
1 AATAAAAATGCATAA
9458265 AATAAAA
1 AATAAAA
9458272 TAAAAAACTA
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
12 3 0.07
13 3 0.07
14 16 0.39
15 13 0.32
16 3 0.07
17 3 0.07
ACGTcount: A:0.68, C:0.08, G:0.05, T:0.20
Consensus pattern (15 bp):
AATAAAAATGCATAA
Found at i:9458240 original size:29 final size:28
Alignment explanation
Indices: 9458220--9458284 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 28
9458210 AAAAATCAGT
9458220 AAAATAAAATGCATAAAATAAACAATAAC
1 AAAATAAAATGCATAAAATAAA-AATAAC
*
9458249 ATAATAAAATGCATAAAAT-AAAATAA-
1 AAAATAAAATGCATAAAATAAAAATAAC
9458275 AAAACTAAAA
1 AAAA-TAAAA
9458285 ATCAAATCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 3 0.09
27 10 0.30
28 2 0.06
29 18 0.55
ACGTcount: A:0.71, C:0.08, G:0.03, T:0.18
Consensus pattern (28 bp):
AAAATAAAATGCATAAAATAAAAATAAC
Found at i:9458310 original size:19 final size:19
Alignment explanation
Indices: 9458288--9458328 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
9458278 ACTAAAAATC
9458288 AAATCAAAATCAAAATAAA
1 AAATCAAAATCAAAATAAA
* *
9458307 AAATTAAAATTAAAATAAA
1 AAATCAAAATCAAAATAAA
9458326 AAA
1 AAA
9458329 AATTTACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.20
Consensus pattern (19 bp):
AAATCAAAATCAAAATAAA
Found at i:9458758 original size:20 final size:20
Alignment explanation
Indices: 9458719--9458778 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
9458709 TAGTTTTAAC
*
9458719 CCCAGAAACTCACATCCAAA
1 CCCAGAAACTCAAATCCAAA
9458739 CCCAGAAACTTCAAAT-CAAA
1 CCCAGAAAC-TCAAATCCAAA
* *
9458759 TCCA-AAAATCTAAATCCAAA
1 CCCAGAAACTC-AAATCCAAA
9458779 ATTCTCGATA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 2 0.06
19 7 0.21
20 20 0.59
21 5 0.15
ACGTcount: A:0.50, C:0.32, G:0.03, T:0.15
Consensus pattern (20 bp):
CCCAGAAACTCAAATCCAAA
Found at i:9459157 original size:3 final size:3
Alignment explanation
Indices: 9459151--9459210 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
9459141 GAAGAGGAAG
9459151 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9459199 AAT AAT AAT AAT
1 AAT AAT AAT AAT
9459211 TGTTAGCTTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Done.