Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 70 of 211
Found at i:18579306 original size:120 final size:120
Alignment explanation
Indices: 18579174--18579392 Score: 420
Period size: 120 Copynumber: 1.8 Consensus size: 120
18579164 AACACGATTT
*
18579174 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTGAGTAAATTCATATAAGAATACTAATTATTAAGAATTTTATTAAATTATATA
18579239 TTTTAATTATAATATATTTAATAATAATTATGTTAATTTAAATTTTATAGTATCA
66 TTTTAATTATAATATATTTAATAATAATTATGTTAATTTAAATTTTATAGTATCA
*
18579294 TATATTATGATTTGAGTAAATTCATATAAGAATACTGATTATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTGAGTAAATTCATATAAGAATACTAATTATTAAGAATTTTATTAAATTATATA
18579359 TTTTAATTATAATATATTTAATAATAATTATGTT
66 TTTTAATTATAATATATTTAATAATAATTATGTT
18579393 TAAATATGAT
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 97 1.00
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (120 bp):
TATATTATGATTTGAGTAAATTCATATAAGAATACTAATTATTAAGAATTTTATTAAATTATATA
TTTTAATTATAATATATTTAATAATAATTATGTTAATTTAAATTTTATAGTATCA
Found at i:18579358 original size:61 final size:60
Alignment explanation
Indices: 18579174--18579360 Score: 195
Period size: 61 Copynumber: 3.1 Consensus size: 60
18579164 AACACGATTT
*
18579174 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 TATATTATGATTTGAGTAAATTCATATAAGAATA-TGATTATTAAGAATTTTATTAAATTA
* * * * * * * * *
18579235 TATATTTTAATTAT-AATATATTTA-ATAATAATTATG-TTAATTTA-AATTTTA-TAGTATCA
1 TATATTATGATT-TGAGTAAATTCATATAAGAA-TATGATT-ATTAAGAATTTTATTA-AATTA
18579294 TATATTATGATTTGAGTAAATTCATATAAGAATACTGATTATTAAGAATTTTATTAAATTA
1 TATATTATGATTTGAGTAAATTCATATAAGAATA-TGATTATTAAGAATTTTATTAAATTA
18579355 TATATT
1 TATATT
18579361 TTAATTATAA
Statistics
Matches: 97, Mismatches: 19, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
58 3 0.03
59 31 0.32
60 23 0.24
61 37 0.38
62 3 0.03
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (60 bp):
TATATTATGATTTGAGTAAATTCATATAAGAATATGATTATTAAGAATTTTATTAAATTA
Found at i:18579375 original size:16 final size:16
Alignment explanation
Indices: 18579354--18579395 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
18579344 TTATTAAATT
*
18579354 ATATATTTTAATTATA
1 ATATATTTTAATAATA
18579370 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
18579385 AT-TATGTTTAA
1 ATATAT-TTTAA
18579396 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:18579380 original size:15 final size:15
Alignment explanation
Indices: 18579345--18579386 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
18579335 TTAAGAATTT
*
18579345 TATTAAATTAT-ATA
1 TATTTAATTATAATA
18579359 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
18579373 TATTTAATAATAAT
1 TATTTAATTATAAT
18579387 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:18579630 original size:16 final size:16
Alignment explanation
Indices: 18579609--18579678 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
18579599 TTGATTTGCT
*
18579609 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
18579625 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
18579641 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
18579657 ATTACGCCTCTAATCC
1 ATTACACCTCTAATCC
*
18579673 AATACA
1 ATTACA
18579679 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.30, C:0.36, G:0.01, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:18579650 original size:32 final size:32
Alignment explanation
Indices: 18579609--18579678 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
18579599 TTGATTTGCT
18579609 ATTACACCTCTATTCCATTACACCTCTAATCC
1 ATTACACCTCTATTCCATTACACCTCTAATCC
*
18579641 ATTACACCTCTATTCCATTACGCCTCTAATCC
1 ATTACACCTCTATTCCATTACACCTCTAATCC
*
18579673 AATACA
1 ATTACA
18579679 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.30, C:0.36, G:0.01, T:0.33
Consensus pattern (32 bp):
ATTACACCTCTATTCCATTACACCTCTAATCC
Found at i:18581835 original size:20 final size:20
Alignment explanation
Indices: 18581794--18581836 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
18581784 TAGATTGTTA
* *
18581794 ATATCAATATTTATATAAAT
1 ATATCAATATTTAAAGAAAT
18581814 ATAT-AATATTTAAAGAAGAT
1 ATATCAATATTTAAAGAA-AT
18581834 ATA
1 ATA
18581837 GTATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (20 bp):
ATATCAATATTTAAAGAAAT
Found at i:18583640 original size:3 final size:3
Alignment explanation
Indices: 18583634--18583681 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
18583624 TCAGATTTTT
* * * *
18583634 TTA TTA TCA TTG TTA TTA TTA ATA TTA TTA TCA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18583682 CTTTTTTTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:18586958 original size:31 final size:31
Alignment explanation
Indices: 18586895--18586959 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
18586885 TTAACATTCC
* * *
18586895 AATGATTTAAATGAAAAATTTTTCATAGTTT
1 AATGATTTAAATGAAAAACTTTTAATAATTT
*
18586926 AATGATTTAAAT-TAAAACTTTTAATTAATTT
1 AATGATTTAAATGAAAAACTTTTAA-TAATTT
18586957 AAT
1 AAT
18586960 AACTATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 9 0.31
31 20 0.69
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (31 bp):
AATGATTTAAATGAAAAACTTTTAATAATTT
Found at i:18592733 original size:23 final size:21
Alignment explanation
Indices: 18592707--18592751 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
18592697 ATTAATAAAA
18592707 ATAAAATTATTTATATTTATTAT
1 ATAAAA-TATTTATATTT-TTAT
*
18592730 ATAAAATATTTTTATTTTTAT
1 ATAAAATATTTATATTTTTAT
18592751 A
1 A
18592752 CATCCTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 10 0.48
23 6 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATAAAATATTTATATTTTTAT
Found at i:18592957 original size:20 final size:20
Alignment explanation
Indices: 18592915--18592995 Score: 76
Period size: 21 Copynumber: 4.0 Consensus size: 20
18592905 GATTTTATTA
* *
18592915 TTTT-TAAATTTATTTAATAT
1 TTTTATAAATTTA-TAAATTT
18592935 TTTTATAAATTT-TAATATTT
1 TTTTATAAATTTATAA-ATTT
*
18592955 TTTTACAAATTTATAAATTTT
1 TTTTATAAATTTATAAA-TTT
* *
18592976 TTTTAAAAATTTAAAAATTT
1 TTTTATAAATTTATAAATTT
18592996 AAATTTTTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
19 2 0.04
20 22 0.42
21 28 0.54
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTATAAATTTATAAATTT
Found at i:18605412 original size:20 final size:20
Alignment explanation
Indices: 18605336--18605418 Score: 78
Period size: 20 Copynumber: 4.1 Consensus size: 20
18605326 GCATCATAGA
* *
18605336 TGCATAACAGAGGCACTGAAG
1 TGCA-AACAAAGGCACCGAAG
18605357 TGCAAACAAAGGCA-CGAATG
1 TGCAAACAAAGGCACCGAA-G
* * *
18605377 TGCGATCAGAGGCACCGAAG
1 TGCAAACAAAGGCACCGAAG
* *
18605397 TGCAAACAAAGACACCAAAG
1 TGCAAACAAAGGCACCGAAG
18605417 TG
1 TG
18605419 TGACAGTGTA
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
19 3 0.06
20 39 0.78
21 8 0.16
ACGTcount: A:0.41, C:0.22, G:0.27, T:0.11
Consensus pattern (20 bp):
TGCAAACAAAGGCACCGAAG
Found at i:18606861 original size:50 final size:50
Alignment explanation
Indices: 18606781--18606965 Score: 199
Period size: 50 Copynumber: 3.6 Consensus size: 50
18606771 CAATGTCATA
* ** * *
18606781 TCCCAAATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATG
* * * * *
18606831 TCCTAGAGATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATG
* *
18606881 TCCCAAACATGGTCTTACATGGGACCTCTCATAACCTCAATGATGCCAATGCCATG
1 TCCCAAACATGGTCTTACATGGGACCTCTCAT-A--TC---GGTGCCAACGCCATG
*
18606937 TCCCAAACATGGTCTTACATGGGATCTCT
1 TCCCAAACATGGTCTTACATGGGACCTCT
18606966 TTACCCAAAT
Statistics
Matches: 112, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
50 69 0.62
53 2 0.02
56 41 0.37
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
TCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATG
Found at i:18611642 original size:278 final size:278
Alignment explanation
Indices: 18611140--18611702 Score: 1009
Period size: 278 Copynumber: 2.0 Consensus size: 278
18611130 ATAACAAAAA
*
18611140 TCATAGAGAGAGAACCATCTGACTCATTTGAATCAACCCGGATAATATCACCATTTTCACATTTC
1 TCATAGAGAGAGAACCATCTGACTCATCTGAATCAACCCGGATAATATCACCATTTTCACATTTC
* *
18611205 AACTCCATGTATTTCTTTCTGCAATTTACTATCACATCATGGGCAGTCAACCAATCCATACCAAG
66 AACTCAATGTATTTCTTTCCGCAATTTACTATCACATCATGGGCAGTCAACCAATCCATACCAAG
* * *
18611270 AATCACATCAAACTCATCAAATGACAATAGCAAGAGATCGGTCGAAAAACAATGACCTCTAATCA
131 AATCACATCAAACTCATCAAACGACAATAGCAAGAGATCAGCCGAAAAACAATGACCTCTAATCA
*
18611335 TCAAAGGGTAACTCTTACATACTTTATCTACTAACACATACTGGCCTAATGGATTTGATACTTTA
196 TCAAAGGGCAACTCTTACATACTTTATCTACTAACACATACTGGCCTAATGGATTTGATACTTTA
18611400 ATTACAAATTCAGTGGAT
261 ATTACAAATTCAGTGGAT
* *
18611418 TCATGGAGAGAGAACCATCTGACTCATCTGAATCAACCTGGATAATATCACCATTTTCACATTTC
1 TCATAGAGAGAGAACCATCTGACTCATCTGAATCAACCCGGATAATATCACCATTTTCACATTTC
18611483 AACTCAATGTATTTCTTTCCGCAATTTACTATCACATCATGGGCAGTCAACCAATCCATACCAAG
66 AACTCAATGTATTTCTTTCCGCAATTTACTATCACATCATGGGCAGTCAACCAATCCATACCAAG
* * *
18611548 AATCACATTAAACTCATCAAACGGCAATAGCATGAGATCAGCCGAAAAACAATGACCTCTAATCA
131 AATCACATCAAACTCATCAAACGACAATAGCAAGAGATCAGCCGAAAAACAATGACCTCTAATCA
18611613 TCAAAGGGCAACTCTTACATACTTTATCTACTAACACATACTGGCCTAATGGATTTGATACTTTA
196 TCAAAGGGCAACTCTTACATACTTTATCTACTAACACATACTGGCCTAATGGATTTGATACTTTA
18611678 ATTACAAATTCAGTGGAT
261 ATTACAAATTCAGTGGAT
18611696 TCTATAG
1 TC-ATAG
18611703 GCATGTTCAT
Statistics
Matches: 271, Mismatches: 13, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
278 268 0.99
279 3 0.01
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (278 bp):
TCATAGAGAGAGAACCATCTGACTCATCTGAATCAACCCGGATAATATCACCATTTTCACATTTC
AACTCAATGTATTTCTTTCCGCAATTTACTATCACATCATGGGCAGTCAACCAATCCATACCAAG
AATCACATCAAACTCATCAAACGACAATAGCAAGAGATCAGCCGAAAAACAATGACCTCTAATCA
TCAAAGGGCAACTCTTACATACTTTATCTACTAACACATACTGGCCTAATGGATTTGATACTTTA
ATTACAAATTCAGTGGAT
Found at i:18614822 original size:50 final size:51
Alignment explanation
Indices: 18614694--18614940 Score: 214
Period size: 50 Copynumber: 4.8 Consensus size: 51
18614684 GATAATAACA
* * ** * * *
18614694 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATACGG
* * * * * **
18614743 TACCAATGTCATATCCCAGATATGATCTTACATGGGAGTTCTCATAT-CGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATACGG
* ** *
18614793 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCT-CGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATACGG
* * * *
18614843 TGCTAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTTAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A---T-ACGG
*
18614899 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
18614941 TTACCCAAAT
Statistics
Matches: 156, Mismatches: 34, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
48 1 0.01
49 35 0.22
50 79 0.51
54 1 0.01
56 40 0.26
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATACGG
Found at i:18616175 original size:20 final size:20
Alignment explanation
Indices: 18616150--18616188 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
18616140 TCGGGATGTT
18616150 ACAGAGGCATCGAAGTGCAG
1 ACAGAGGCATCGAAGTGCAG
18616170 ACAGAGGCATCGAAGTGCA
1 ACAGAGGCATCGAAGTGCA
18616189 AACAAAGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.21, G:0.33, T:0.10
Consensus pattern (20 bp):
ACAGAGGCATCGAAGTGCAG
Found at i:18626696 original size:18 final size:18
Alignment explanation
Indices: 18626673--18626748 Score: 113
Period size: 18 Copynumber: 4.4 Consensus size: 18
18626663 CAAGGTCACG
*
18626673 ATCAATAGCGTCACTATC
1 ATCAATATCGTCACTATC
*
18626691 ATCAATATCGTCACTAGC
1 ATCAATATCGTCACTATC
18626709 ATCAATATCGTCACTATC
1 ATCAATATCGTCACTATC
18626727 ATCAATATCG--A-TATC
1 ATCAATATCGTCACTATC
18626742 ATCAATA
1 ATCAATA
18626749 AGAAAACCTT
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.20
16 1 0.02
18 43 0.78
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.30
Consensus pattern (18 bp):
ATCAATATCGTCACTATC
Found at i:18626735 original size:9 final size:9
Alignment explanation
Indices: 18626673--18626735 Score: 54
Period size: 9 Copynumber: 7.0 Consensus size: 9
18626663 CAAGGTCACG
*
18626673 ATCAATAGC
1 ATCAATATC
* *
18626682 GTCACTATC
1 ATCAATATC
18626691 ATCAATATC
1 ATCAATATC
* * *
18626700 GTCACTAGC
1 ATCAATATC
18626709 ATCAATATC
1 ATCAATATC
* *
18626718 GTCACTATC
1 ATCAATATC
18626727 ATCAATATC
1 ATCAATATC
18626736 GATATCATCA
Statistics
Matches: 39, Mismatches: 15, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
9 39 1.00
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.30
Consensus pattern (9 bp):
ATCAATATC
Found at i:18629189 original size:24 final size:21
Alignment explanation
Indices: 18629119--18629169 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
18629109 AAGTGAGTTA
*
18629119 ACAAAAAGAGAAGCAACTTGG
1 ACAAAAAGAGAAGTAACTTGG
18629140 ACAAAAAGAGAAGTAACTTGG
1 ACAAAAAGAGAAGTAACTTGG
18629161 ACAAAAAGA
1 ACAAAAAGA
18629170 AATGAAGTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.57, C:0.12, G:0.22, T:0.10
Consensus pattern (21 bp):
ACAAAAAGAGAAGTAACTTGG
Found at i:18645825 original size:18 final size:18
Alignment explanation
Indices: 18645756--18645826 Score: 51
Period size: 18 Copynumber: 4.1 Consensus size: 18
18645746 ATTAATTCTA
18645756 TTATA-TATTTATCTATT
1 TTATATTATTTATCTATT
* * *
18645773 CTAT-TATATATATTCTAAT
1 TTATAT-TATTTA-TCTATT
* *
18645792 ATATATTA-GTAT-TATT
1 TTATATTATTTATCTATT
18645808 TTATATTATTTATCTATT
1 TTATATTATTTATCTATT
18645826 T
1 T
18645827 CTTATCTATT
Statistics
Matches: 40, Mismatches: 8, Indels: 11
0.68 0.14 0.19
Matches are distributed among these distances:
16 10 0.25
17 7 0.17
18 12 0.30
19 10 0.25
20 1 0.03
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (18 bp):
TTATATTATTTATCTATT
Found at i:18650409 original size:17 final size:17
Alignment explanation
Indices: 18650387--18650420 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
18650377 ATAGACTCGC
*
18650387 TTAGATATACTTAGTAT
1 TTAGATATAATTAGTAT
18650404 TTAGATATAATTAGTAT
1 TTAGATATAATTAGTAT
18650421 AATATACGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (17 bp):
TTAGATATAATTAGTAT
Found at i:18659369 original size:29 final size:30
Alignment explanation
Indices: 18659332--18659388 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
18659322 TCCGAGCCTT
*
18659332 GGGGAAAAA-TGTAATTATGTAAAAGTTTA
1 GGGGAAAAATTGTAATTATGAAAAAGTTTA
* *
18659361 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGAAAAATTGTAATTATGAAAAAGTT
18659389 AGAGCCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.42, C:0.02, G:0.25, T:0.32
Consensus pattern (30 bp):
GGGGAAAAATTGTAATTATGAAAAAGTTTA
Found at i:18659618 original size:13 final size:13
Alignment explanation
Indices: 18659600--18659631 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
18659590 TTTCCAGCAA
18659600 TTATGAATTTATT
1 TTATGAATTTATT
18659613 TTATGAATTTATT
1 TTATGAATTTATT
*
18659626 TGATGA
1 TTATGA
18659632 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:18659803 original size:56 final size:52
Alignment explanation
Indices: 18659726--18659966 Score: 262
Period size: 50 Copynumber: 4.7 Consensus size: 52
18659716 ATTTGGGTAA
* * *
18659726 AGAGATCCCATGTAAGACCATGTCTGGGATATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCC---AGA-CATG
* *
18659782 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCATCGAGAC--G
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCCAGACATG
* * *
18659832 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCCAGACATG
* * * *
18659882 AG-GGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCA-CCA-TCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCCAGACATG
**
18659931 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
18659967 TTTGGCATGT
Statistics
Matches: 159, Mismatches: 21, Indels: 15
0.82 0.11 0.08
Matches are distributed among these distances:
48 2 0.01
49 42 0.26
50 43 0.27
51 28 0.18
52 1 0.01
53 3 0.02
56 40 0.25
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (52 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCCAGACATG
Found at i:18659919 original size:99 final size:103
Alignment explanation
Indices: 18659726--18659974 Score: 337
Period size: 99 Copynumber: 2.4 Consensus size: 103
18659716 ATTTGGGTAA
*
18659726 AGAGATCCCATGTAAGACCATGTCTGGGATATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* * *
18659791 CTGTAAGACCATGTCTGGGACATGGCATGGGCATCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCA-CCATCACG
* * *
18659832 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAG-GGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
18659893 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
18659931 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
18659975 GTTATTATCA
Statistics
Matches: 130, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
98 2 0.02
99 43 0.33
100 42 0.32
101 2 0.02
105 2 0.02
106 39 0.30
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:18666198 original size:27 final size:27
Alignment explanation
Indices: 18666168--18666219 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
18666158 AAGCATACTC
18666168 CAAACAAAAAGAGTAAA-AAAAAAGAGT
1 CAAACAAAAAGAG-AAACAAAAAAGAGT
*
18666195 CAAACAAATAGAGAAACAAAAAAGA
1 CAAACAAAAAGAGAAACAAAAAAGA
18666220 AAATAAATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.71, C:0.10, G:0.13, T:0.06
Consensus pattern (27 bp):
CAAACAAAAAGAGAAACAAAAAAGAGT
Found at i:18666207 original size:14 final size:14
Alignment explanation
Indices: 18666168--18666216 Score: 59
Period size: 13 Copynumber: 3.7 Consensus size: 14
18666158 AAGCATACTC
18666168 CAAACAAAAAGAGT
1 CAAACAAAAAGAGT
*
18666182 -AAAAAAAAAGAGT
1 CAAACAAAAAGAGT
*
18666195 CAAACAAATAGAG-
1 CAAACAAAAAGAGT
18666208 -AAACAAAAA
1 CAAACAAAAA
18666217 AGAAAATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 8 0.27
13 12 0.40
14 10 0.33
ACGTcount: A:0.71, C:0.10, G:0.12, T:0.06
Consensus pattern (14 bp):
CAAACAAAAAGAGT
Found at i:18666936 original size:19 final size:19
Alignment explanation
Indices: 18666884--18666939 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 19
18666874 GTGTCATAGG
*
18666884 AATTAAAATAGAATAA-AAT
1 AATTAAATTA-AATAATAAT
* **
18666903 AAAT-AATTAGTTAATAAT
1 AATTAAATTAAATAATAAT
18666921 AATTAAATTAAATAATAAT
1 AATTAAATTAAATAATAAT
18666940 GATATCAATA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
17 3 0.11
18 10 0.36
19 15 0.54
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (19 bp):
AATTAAATTAAATAATAAT
Found at i:18671939 original size:18 final size:20
Alignment explanation
Indices: 18671913--18671955 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
18671903 AGATGACACC
*
18671913 TTAACATTT-AAT-TAATTT
1 TTAAAATTTAAATATAATTT
18671931 TTAAAATTTAAATATAATTT
1 TTAAAATTTAAATATAATTT
18671951 TTAAA
1 TTAAA
18671956 TAATCTTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.36
19 3 0.14
20 11 0.50
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
TTAAAATTTAAATATAATTT
Found at i:18672296 original size:28 final size:29
Alignment explanation
Indices: 18672265--18672326 Score: 83
Period size: 28 Copynumber: 2.1 Consensus size: 29
18672255 AATTCTTTTT
18672265 AAAATA-ATAAAATTTTTGTAAAAA-ATTA
1 AAAATATATAAAA-TTTTGTAAAAATATTA
*
18672293 AAAATATTTAAAATTTTGTAAAAATTATTA
1 AAAATATATAAAATTTTGTAAAAA-TATTA
18672323 AAAA
1 AAAA
18672327 CTCTAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 17 0.57
29 5 0.17
30 8 0.27
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (29 bp):
AAAATATATAAAATTTTGTAAAAATATTA
Found at i:18672333 original size:29 final size:29
Alignment explanation
Indices: 18672272--18672334 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
18672262 TTTAAAATAA
*
18672272 TAAAATTTTTGTAAAAAATTAAAAATATT
1 TAAAATTTTTGTAAAAAATTAAAAATATC
*
18672301 TAAAA-TTTTGTAAAAATTATTAAAAA-CTC
1 TAAAATTTTTGTAAAAA--ATTAAAAATATC
18672330 TAAAA
1 TAAAA
18672335 AACTATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 11 0.37
29 11 0.37
30 8 0.27
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (29 bp):
TAAAATTTTTGTAAAAAATTAAAAATATC
Found at i:18681492 original size:14 final size:14
Alignment explanation
Indices: 18681473--18681505 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
18681463 TATTAATTTT
18681473 AAAAAAGAATAATA
1 AAAAAAGAATAATA
*
18681487 AAAAAATAATAATA
1 AAAAAAGAATAATA
18681501 AAAAA
1 AAAAA
18681506 GGAAAATCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (14 bp):
AAAAAAGAATAATA
Found at i:18681587 original size:28 final size:31
Alignment explanation
Indices: 18681534--18681609 Score: 90
Period size: 30 Copynumber: 2.6 Consensus size: 31
18681524 AAAAATATAC
*
18681534 TATTTACATTTTGGCCC-CT-ACTTTT-TAA
1 TATTTACATTTTGGCCCTCTAAATTTTCTAA
18681562 TATTTACATTTTGGCCCTC-AAATTTTTCTAA
1 TATTTACATTTTGGCCCTCTAAA-TTTTCTAA
*
18681593 -AATTACATTTTGGCCCT
1 TATTTACATTTTGGCCCT
18681610 GAGATTTTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
28 17 0.40
29 2 0.05
30 20 0.48
31 3 0.07
ACGTcount: A:0.24, C:0.21, G:0.08, T:0.47
Consensus pattern (31 bp):
TATTTACATTTTGGCCCTCTAAATTTTCTAA
Found at i:18682300 original size:10 final size:11
Alignment explanation
Indices: 18682275--18682305 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
18682265 TAGAGAGAGA
18682275 AAAAAAGAAAG
1 AAAAAAGAAAG
18682286 AAAAAAGAAAG
1 AAAAAAGAAAG
18682297 -AAAAAGAAA
1 AAAAAAGAAA
18682306 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:18689330 original size:292 final size:292
Alignment explanation
Indices: 18688806--18689681 Score: 1565
Period size: 292 Copynumber: 3.0 Consensus size: 292
18688796 AAGGTTATTA
* * *
18688806 AGCACAGTGAATATAACGTTGTTGAGTAATTAAACAAGCAGTCGGCG-AGAATCTCGATATTATC
1 AGCACAGTGAATATAGCGTTGTGGAGTAATTAAACAAGTAGTCGGCGCA-AATCTCGATATTATC
*
18688870 TCTATTGCTGAACTTAGAGCCACATCGAAACGTATTGCTAAAAGTGTTAAATCAAGCTTATGTGG
65 TCTATTGTTGAACTTAGAGCCACATCGAAACGTATTGCTAAAAGTGTTAAATCAAGCTTATGTGG
*
18688935 CGAGCAATGTATCTGTAGAAAAGCTCGATAGGTAGGTAAATAACCTGAATGCGGATAATTTCATC
130 CGAGCAATGTATCTGTAGAAAAGCTCGATAGGTGGGTAAATAACCTGAATGCGGATAATTTCATC
*
18689000 TGTTTTAGTGATGAGGAAATACCGCCAAATGGTAGGGGCTCTATAAAAACATTACACATCACAAC
195 TGTTTTAGTGATGAGGAAATACCGCCGAATGGTAGGGGCTCTATAAAAACATTACACATCACAAC
18689065 CAGTTGCAAGGGTTACATAGTACCGAATGTGCT
260 CAGTTGCAAGGGTTACATAGTACCGAATGTGCT
18689098 AGCACAGTGAATATAGCGTTGTGGAGTAATTAAACAAGTAGTCGGCGCAAATCTCGATATTATCT
1 AGCACAGTGAATATAGCGTTGTGGAGTAATTAAACAAGTAGTCGGCGCAAATCTCGATATTATCT
18689163 CTATTGTTGAACTTAGAGCCACATCGAAACGTATTGCTAAAAGTGTTAAATCAAGCTTATGTGGC
66 CTATTGTTGAACTTAGAGCCACATCGAAACGTATTGCTAAAAGTGTTAAATCAAGCTTATGTGGC
*
18689228 GAGCAATGTATCTGTAGAAAAGCTCGATAGGTGGGTAAATAACCTGAATGCGGATAATTTCATAT
131 GAGCAATGTATCTGTAGAAAAGCTCGATAGGTGGGTAAATAACCTGAATGCGGATAATTTCATCT
*
18689293 GTTTTAGTGATGAGGAAATATCGCCGAATGGTAGGGGCTCTATAAAAACATTACACATCACAACC
196 GTTTTAGTGATGAGGAAATACCGCCGAATGGTAGGGGCTCTATAAAAACATTACACATCACAACC
18689358 AGTTGCAAGGGTTACATAGTACCGAATGTGCT
261 AGTTGCAAGGGTTACATAGTACCGAATGTGCT
* * *
18689390 AGCACAGTGAATATAGCGTTGTGGAGTAATTAAACAAGTAGTCGGTGCGAATCTCAATATTATCT
1 AGCACAGTGAATATAGCGTTGTGGAGTAATTAAACAAGTAGTCGGCGCAAATCTCGATATTATCT
* *
18689455 CTATTTTTGAACTTAGAGCCACATCGAAACGTATTGCTAAAAGTGTTAAATCAAGCTTATGTGAC
66 CTATTGTTGAACTTAGAGCCACATCGAAACGTATTGCTAAAAGTGTTAAATCAAGCTTATGTGGC
* *
18689520 GAGTAATGTATCTGTAGAAAAGCTCGATAGGTGGGTAAATAACCTGAATGTGGATAATTTCATCT
131 GAGCAATGTATCTGTAGAAAAGCTCGATAGGTGGGTAAATAACCTGAATGCGGATAATTTCATCT
* * *
18689585 TTTTTAGTGATGACGAAATACCGCCGAATGGTAGGGGCTCTGTAAAAACATTACACATCACAACC
196 GTTTTAGTGATGAGGAAATACCGCCGAATGGTAGGGGCTCTATAAAAACATTACACATCACAACC
*
18689650 AGTTACAAGGGTTACATAGTACCGAATGTGCT
261 AGTTGCAAGGGTTACATAGTACCGAATGTGCT
18689682 CATCGATAAC
Statistics
Matches: 562, Mismatches: 21, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
292 561 1.00
293 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (292 bp):
AGCACAGTGAATATAGCGTTGTGGAGTAATTAAACAAGTAGTCGGCGCAAATCTCGATATTATCT
CTATTGTTGAACTTAGAGCCACATCGAAACGTATTGCTAAAAGTGTTAAATCAAGCTTATGTGGC
GAGCAATGTATCTGTAGAAAAGCTCGATAGGTGGGTAAATAACCTGAATGCGGATAATTTCATCT
GTTTTAGTGATGAGGAAATACCGCCGAATGGTAGGGGCTCTATAAAAACATTACACATCACAACC
AGTTGCAAGGGTTACATAGTACCGAATGTGCT
Found at i:18696442 original size:13 final size:13
Alignment explanation
Indices: 18696424--18696448 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18696414 TAACTAAAAT
18696424 AACACATAAATAA
1 AACACATAAATAA
18696437 AACACATAAATA
1 AACACATAAATA
18696449 TCTTATAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (13 bp):
AACACATAAATAA
Found at i:18697273 original size:41 final size:41
Alignment explanation
Indices: 18697118--18697264 Score: 231
Period size: 41 Copynumber: 3.6 Consensus size: 41
18697108 ACCGGCAGTT
*
18697118 AGCCTGCTAGACATAAAGTCTGGTATGTTTCACCAGCATCA
1 AGCCTGCTAGACATAATGTCTGGTATGTTTCACCAGCATCA
* * *
18697159 AGCCTGCTAGACGTAATGTCTGGTATGTTTCAACAACATCA
1 AGCCTGCTAGACATAATGTCTGGTATGTTTCACCAGCATCA
* *
18697200 AGCCTGCTAGACATAATGTCTAGTATGTTTCACCGGCATCA
1 AGCCTGCTAGACATAATGTCTGGTATGTTTCACCAGCATCA
*
18697241 AGCCTGCTAGACGTAATGTCTGGT
1 AGCCTGCTAGACATAATGTCTGGT
18697265 TTACTTCACT
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 95 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACATAATGTCTGGTATGTTTCACCAGCATCA
Found at i:18700016 original size:76 final size:76
Alignment explanation
Indices: 18699829--18700356 Score: 754
Period size: 76 Copynumber: 6.9 Consensus size: 76
18699819 ATCATTTCTT
* * * * *
18699829 TTTCTATTTTTTAAAAAATCAACTCATAATCCGATAGGTGAGTGGAGCATCGGGTCGCACGCCGA
1 TTTCTA-TTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGA
18699894 GGTA-TTTTCAA
65 GGTATTTTTCAA
* * * * *
18699905 TTTCTGTTTTTCAAATATCACCTCATAATCCGAGAGGTGAGTTGAGCCTCGAGTCGCACGCTGAG
1 TTTCTATTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
*
18699970 GTGTTTTTCAA
66 GTATTTTTCAA
* * *
18699981 TTTCTATTTTTCAAAGATCAAATCATAATCTGAGAGGTGAGTGGAGCCTCGGGTCGCACGCCGAG
1 TTTCTATTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
18700046 GTATTTTTCAA
66 GTATTTTTCAA
* *
18700057 TTTCTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACACCGAG
1 TTTCTATTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
18700122 GTATTTTTCAA
66 GTATTTTTCAA
* * * * *
18700133 TTTCTATTTTTCAAATATCAACTCATAATCCGAGAGGCGAGTTAAGCCTTGCGTCGCACGCCGAG
1 TTTCTATTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
*
18700198 GTATTTTTTAA
66 GTATTTTTCAA
*
18700209 TTTCTATTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGAGTCGCACGCCGAG
1 TTTCTATTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
18700274 GTATTTTTCAA
66 GTATTTTTCAA
* * * ** * *
18700285 TTTCTATTTTTCAAAGATTAACTCATAATCTGAGAGGTGA-TATGAGCTTTAGGCCGCACACCGA
1 TTTCTATTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGT-TGAGCCTCGGGTCGCACGCCGA
18700349 GGTATTTT
65 GGTATTTT
18700357 AAATTTCAGT
Statistics
Matches: 404, Mismatches: 46, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
75 54 0.13
76 350 0.87
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (76 bp):
TTTCTATTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
GTATTTTTCAA
Found at i:18700963 original size:28 final size:29
Alignment explanation
Indices: 18700914--18701001 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 29
18700904 TACAAAAATA
*
18700914 TACTAATTACATTTT-GCCCCCT-ACTTTT
1 TACTAATTACATTTTAG-CCCCTAAATTTT
*
18700942 TACTATTTACATTTTAGCCCCTAAATTTT
1 TACTAATTACATTTTAGCCCCTAAATTTT
* *
18700971 T-CTAAAATTACATTTTAGCCCCGAGATTTT
1 TACT--AATTACATTTTAGCCCCTAAATTTT
18701001 T
1 T
18701002 GCCTCTTCTA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
28 21 0.41
29 7 0.14
30 23 0.45
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.45
Consensus pattern (29 bp):
TACTAATTACATTTTAGCCCCTAAATTTT
Found at i:18701682 original size:20 final size:20
Alignment explanation
Indices: 18701659--18701702 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
18701649 AGGGCTAGAG
* *
18701659 AAAAAATAG-AAGAAGAAGA
1 AAAAAAAAGAAAGAAAAAGA
18701678 AAAAAAAAGAAAGAAAAAGA
1 AAAAAAAAGAAAGAAAAAGA
18701698 AAAAA
1 AAAAA
18701703 TAAAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (20 bp):
AAAAAAAAGAAAGAAAAAGA
Found at i:18701689 original size:10 final size:10
Alignment explanation
Indices: 18701674--18701717 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
18701664 ATAGAAGAAG
18701674 AAGAAAAAAA
1 AAGAAAAAAA
*
18701684 AAGAAAGAAA
1 AAGAAAAAAA
*
18701694 AAGAAAAAAT
1 AAGAAAAAAA
*
18701704 AA-AATAAAA
1 AAGAAAAAAA
18701713 AAGAA
1 AAGAA
18701718 CAGTCGGGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
9 7 0.25
10 21 0.75
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:18709625 original size:14 final size:14
Alignment explanation
Indices: 18709602--18709633 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
18709592 TGTCGCGTTC
*
18709602 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
18709616 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
18709630 TTAG
1 TTAG
18709634 AACAATCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.47
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:18709922 original size:22 final size:21
Alignment explanation
Indices: 18709879--18709931 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
18709869 TTGCATTTTA
*
18709879 TTTTTGTTTTTAGTTTAAATT
1 TTTTTGTTTTTAATTTAAATT
**
18709900 TTTTTGTTTTCTAATTTTTATT
1 TTTTTGTTTT-TAATTTAAATT
18709922 TTATTTGTTT
1 TT-TTTGTTT
18709932 CTGGTAGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 10 0.37
22 10 0.37
23 7 0.26
ACGTcount: A:0.15, C:0.02, G:0.08, T:0.75
Consensus pattern (21 bp):
TTTTTGTTTTTAATTTAAATT
Found at i:18715326 original size:37 final size:36
Alignment explanation
Indices: 18715276--18715348 Score: 85
Period size: 37 Copynumber: 2.0 Consensus size: 36
18715266 CCTTGTTCTT
* *
18715276 TTTCTTTTCTTATTGTTATTATATTATTATATTATTA
1 TTTCTTTTCTTATTCTAATTATATTATT-TATTATTA
* *
18715313 TTTCTTTAT-TTATTCTAATTATTTTATTTTTTATTA
1 TTTCTTT-TCTTATTCTAATTATATTATTTATTATTA
18715349 GTTTTACTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
36 7 0.23
37 23 0.74
38 1 0.03
ACGTcount: A:0.23, C:0.05, G:0.01, T:0.70
Consensus pattern (36 bp):
TTTCTTTTCTTATTCTAATTATATTATTTATTATTA
Found at i:18717015 original size:6 final size:6
Alignment explanation
Indices: 18716999--18717036 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
18716989 AGTCCATTTG
*
18716999 TTTTA- TTTTAT TTTTAT TTTTAT GTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
18717037 CTTAGACTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:18717028 original size:18 final size:17
Alignment explanation
Indices: 18716999--18717036 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 17
18716989 AGTCCATTTG
18716999 TTTTATTTTATTTTTAT
1 TTTTATTTTATTTTTAT
18717016 TTTTATGTTTATTTTTAT
1 TTTTAT-TTTATTTTTAT
18717034 TTT
1 TTT
18717037 CTTAGACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTATTTTATTTTTAT
Found at i:18719780 original size:14 final size:14
Alignment explanation
Indices: 18719757--18719788 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
18719747 CGTCGCGTTC
*
18719757 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
18719771 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
18719785 TTAG
1 TTAG
18719789 AACAATCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.47
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:18738033 original size:3 final size:3
Alignment explanation
Indices: 18738025--18738053 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
18738015 CCATTTTTTA
18738025 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18738054 ACCTTACCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18742314 original size:22 final size:22
Alignment explanation
Indices: 18742289--18742330 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
18742279 AAAGAGGGAG
* *
18742289 AAAATAACAAGAAAATAGCATT
1 AAAACAACAAAAAAATAGCATT
*
18742311 AAAACAATAAAAAAATAGCA
1 AAAACAACAAAAAAATAGCA
18742331 ATTTTTTTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.69, C:0.10, G:0.07, T:0.14
Consensus pattern (22 bp):
AAAACAACAAAAAAATAGCATT
Found at i:18760018 original size:4 final size:4
Alignment explanation
Indices: 18760009--18760049 Score: 57
Period size: 4 Copynumber: 10.0 Consensus size: 4
18759999 TATCATCGTT
18760009 TTTC TTTC TTTC TTTC TTTC TTTC TTT- TGTTC TTTCC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T-TTC TTT-C TTTC
18760050 CTTCCTTTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 1 0.03
4 28 0.82
5 5 0.15
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.73
Consensus pattern (4 bp):
TTTC
Found at i:18760058 original size:21 final size:20
Alignment explanation
Indices: 18760018--18760060 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
18760008 TTTTCTTTCT
* *
18760018 TTCTTTCTTTCTTTCTTTTG
1 TTCTTTCTTTCCTTCCTTTG
18760038 TTCTTTCCTTTCCTTCCTTTG
1 TTCTTT-CTTTCCTTCCTTTG
18760059 TT
1 TT
18760061 AATTTGGCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.00, C:0.26, G:0.05, T:0.70
Consensus pattern (20 bp):
TTCTTTCTTTCCTTCCTTTG
Found at i:18763820 original size:67 final size:67
Alignment explanation
Indices: 18763694--18763820 Score: 173
Period size: 67 Copynumber: 1.9 Consensus size: 67
18763684 AGCACACAGC
* * * * * *
18763694 CTGGCACATGGCCATGTGGCTTGGCTGTGTGACCTAAGTCAGTGAGTTACACGGGCACGGACACG
1 CTGGCACATGACCATGTGGCTTGGCCGTATGACCCAAGTCAGTGAGTTACACAGACACGGACACG
18763759 GG
66 GG
* * *
18763761 CTGGGACATGACCGTGTGGCTTGGCCGTATGACCCAAGTCAGTGAGTTACACATACACGG
1 CTGGCACATGACCATGTGGCTTGGCCGTATGACCCAAGTCAGTGAGTTACACAGACACGG
18763821 GCTAGGACAT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
67 51 1.00
ACGTcount: A:0.21, C:0.24, G:0.33, T:0.21
Consensus pattern (67 bp):
CTGGCACATGACCATGTGGCTTGGCCGTATGACCCAAGTCAGTGAGTTACACAGACACGGACACG
GG
Found at i:18763830 original size:61 final size:63
Alignment explanation
Indices: 18763699--18763839 Score: 160
Period size: 67 Copynumber: 2.2 Consensus size: 63
18763689 ACAGCCTGGC
* * * * *
18763699 ACATGGCCATGTGGCTTGGCTGTGTGACCTAAGTCAGTGAGTTACACGGGCACGGACACGGGCTG
1 ACATGACCATGTGGCTTGGCCGTATGACCCAAGTCAGTGAGTTACA---GCAC-GACACGGGCTA
18763764 GG
62 GG
* *
18763766 ACATGACCGTGTGGCTTGGCCGTATGACCCAAGTCAGTGAGTTACA-CA-TACACGGGCTAGG
1 ACATGACCATGTGGCTTGGCCGTATGACCCAAGTCAGTGAGTTACAGCACGACACGGGCTAGG
*
18763827 ACATGGCCATGTG
1 ACATGACCATGTG
18763840 TCCCTATTTC
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
61 22 0.34
63 2 0.03
67 41 0.63
ACGTcount: A:0.22, C:0.23, G:0.33, T:0.21
Consensus pattern (63 bp):
ACATGACCATGTGGCTTGGCCGTATGACCCAAGTCAGTGAGTTACAGCACGACACGGGCTAGG
Found at i:18774497 original size:43 final size:44
Alignment explanation
Indices: 18774384--18774498 Score: 139
Period size: 44 Copynumber: 2.6 Consensus size: 44
18774374 TGTGTTATTG
* * *
18774384 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGGCTTACG
1 TGTAAGACCACGTCTGGGACGATGGCATCGACTTGTGGATTACA
18774428 TGTAAGACC-CTGTCTGGGAC-AGTGGCATCGA-TATGT-GATTACA
1 TGTAAGACCAC-GTCTGGGACGA-TGGCATCGACT-TGTGGATTACA
*
18774471 TGTAAGACCACGTCTGAGACGATGGCAT
1 TGTAAGACCACGTCTGGGACGATGGCAT
18774499 TGTACGAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
43 30 0.48
44 32 0.52
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACGATGGCATCGACTTGTGGATTACA
Found at i:18783727 original size:9 final size:9
Alignment explanation
Indices: 18783713--18783738 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
18783703 ATTTTATATT
18783713 AATATTTTA
1 AATATTTTA
18783722 AATATTTTA
1 AATATTTTA
18783731 AATATTTT
1 AATATTTT
18783739 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
AATATTTTA
Found at i:18784883 original size:18 final size:18
Alignment explanation
Indices: 18784840--18784901 Score: 74
Period size: 20 Copynumber: 3.4 Consensus size: 18
18784830 AATGTAAAAG
*
18784840 AGATATATATATATAATA
1 AGATATAAATATATAATA
18784858 AGACATATAAATATATAATA
1 AG--ATATAAATATATAATA
*
18784878 AGATATAAAGATAT-AT-
1 AGATATAAATATATAATA
18784894 AGATATAA
1 AGATATAA
18784902 GGTATATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
16 8 0.20
17 2 0.05
18 13 0.32
20 17 0.43
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (18 bp):
AGATATAAATATATAATA
Found at i:18787005 original size:44 final size:43
Alignment explanation
Indices: 18786868--18787165 Score: 149
Period size: 44 Copynumber: 6.8 Consensus size: 43
18786858 ACTTACTGCG
** *
18786868 ATCTGCTCTTCTGCAACTTCAGAGAGATAAGATCT-ATTACTGT-A
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGAT-TGCTT-CT-TCA
* * * * * * ***
18786912 ATCCGCTCCACTACAACTCCAGGGAGATAGGATTATCGAATTCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATT-GCTTCTTCA
*
18786956 ATCTGCTCCACTGCAACCTCAGAGAGATAAGATGTGCTTCTTCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGAT-TGCTTCTTCA
* * * *** * *
18787000 GTCTGCCCCATTATGACTTCAG-GTGGATAAGACTTG-TTTTCTCA
1 ATCTGCTCCACTGCAACTTCAGAG-AGATAAGA-TTGCTTCT-TCA
* * * * *
18787044 GTCTGCTTCGCTGCAACTTCAGAGAGATAAGATCT-ATTACTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGAT-TGCTT-CTTCA
* * * **
18787088 ATCCGCTCCACTACAACTTCA-AGGAGATAGGATTGTCGACTTCA
1 ATCTGCTCCACTGCAACTTCAGA-GAGATAAGATTG-CTTCTTCA
* *
18787132 ATCTGCTCCACTGCAACCTCAGTGAGATAAGATT
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATT
18787166 CAATGCAATC
Statistics
Matches: 184, Mismatches: 55, Indels: 30
0.68 0.20 0.11
Matches are distributed among these distances:
43 9 0.05
44 171 0.93
45 4 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (43 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTGCTTCTTCA
Found at i:18787107 original size:88 final size:87
Alignment explanation
Indices: 18786868--18787164 Score: 276
Period size: 88 Copynumber: 3.4 Consensus size: 87
18786858 ACTTACTGCG
** * *
18786868 ATCTGCTCTTCTGCAACTTCAGAGAGATAAGATCTATTACTGTAATCCGCTCCACTACAACTCCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCA
*
18786933 GGGAGATAGGATTATCGAATTCA
66 GGGAGATAAGATTATC-AATTCA
* * * * * * * * **
18786956 ATCTGCTCCACTGCAACCTCAGAGAGATAAGATGTGCTT-CTTCAGTCTGCCCCATTATGACTTC
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCT-ATTACTTTAATCCGCTCCACTACAACTTC
* **
18787020 AGGTG-GATAAGACTTGT-TTTCTCA
65 AGG-GAGATAAGA-TTATCAAT-TCA
* * *
18787044 GTCTGCTTCGCTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCA
* * * *
18787109 AGGAGATAGGATTGTCGACTTCA
66 GGGAGATAAGATTATC-AATTCA
* *
18787132 ATCTGCTCCACTGCAACCTCAGTGAGATAAGAT
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGAT
18787165 TCAATGCAAT
Statistics
Matches: 161, Mismatches: 40, Indels: 16
0.74 0.18 0.07
Matches are distributed among these distances:
87 8 0.05
88 146 0.91
89 7 0.04
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (87 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCA
GGGAGATAAGATTATCAATTCA
Found at i:18787534 original size:129 final size:129
Alignment explanation
Indices: 18787253--18787697 Score: 620
Period size: 129 Copynumber: 3.4 Consensus size: 129
18787243 ATAGGATTTA
* * *
18787253 TGGCTTAAATCTGCTTCCTTACGCTTGAAGATAAGATTCGCTGTCTTCGATCTGTCCCACTGCTA
1 TGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGTCCCACTGCAA
* * * * *
18787318 CTTCAGTCGAGATAAGACCTGCTTACTTAGTCTGCTCTACTGCAACTTCAGGGAGAAAGGACTCG
66 CTTCAG-AGGGATAAGACCTGCTTACTTAGTCTGCTCCACTGTAACCTCAGGGAGAAAGGACTCG
* *
18787383 TGGCTTAAATCTGCTTCGTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGTTCCACTGCAA
1 TGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGTCCCACTGCAA
* * * * *
18787448 CTTCAGGGGGATAAAACCTACTTACTTAGTCCGCTCCACTGTAACCTCAAGGAGAAAGGACTCG
66 CTTCAGAGGGATAAGACCTGCTTACTTAGTCTGCTCCACTGTAACCTCAGGGAGAAAGGACTCG
* * *
18787512 TGGCTTAAATCTGCTTCCTTACACTTGAATATAAGATTCGCCATCTTCGATCTGTCCCACTACAA
1 TGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGTCCCACTGCAA
* * *
18787577 ATTCAGAGGGATAAGACCTGCTTACTTAGTCTGTTCCACTGTAACCTTAGGGAGAAAGGACTCG
66 CTTCAGAGGGATAAGACCTGCTTACTTAGTCTGCTCCACTGTAACCTCAGGGAGAAAGGACTCG
* * * * *
18787641 TGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGTCGTCTTCGATCTG
1 TGGCTTAAATCTGCTTCCTTAC-ACT--TGAAGATAAGATTCGCCGTCTTCGATCTG
18787698 CTCCGCTATT
Statistics
Matches: 278, Mismatches: 34, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
129 185 0.67
130 68 0.24
132 25 0.09
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (129 bp):
TGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGTCCCACTGCAA
CTTCAGAGGGATAAGACCTGCTTACTTAGTCTGCTCCACTGTAACCTCAGGGAGAAAGGACTCG
Found at i:18787943 original size:131 final size:131
Alignment explanation
Indices: 18787633--18788817 Score: 1736
Period size: 131 Copynumber: 9.1 Consensus size: 131
18787623 TTAGGGAGAA
*
18787633 AGGACTCGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCG-TCGTCTTCGATCT
1 AGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCT-GTCTTCGATCT
* * * ** *
18787697 GCTCCGCTATTGCTTATGGAGACAAGATCTGCAATTTCCAACCTA-TCCACTATTGGTCAAGGAC
65 GCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGGTCAGGGAC
18787761 AT
130 AT
* *
18787763 AGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTAGGGAAGATAAGATTCGCTGTCTTCGATCTA
1 AGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCTGTCTTCGATCTG
* *
18787828 CTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCTAACCTATTCCACTACTGGTCAGGGACA
66 CTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGGTCAGGGACA
18787893 T
131 T
* * * *
18787894 AGGACTTGTGGCTTAAATCTGTTTCCCTACTCTTGGGGAAAATAAGATTCACCGTCTTCGATCTG
1 AGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCTGTCTTCGATCTG
* * * *
18787959 TTCCGCTACTGCTTAGGGAGACAAGATTTGCAATTTCCAACCTATTCCACTGCTAGTCAGGGACA
66 CTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGGTCAGGGACA
18788024 T
131 T
* * *
18788025 AGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTTGATCTG
1 AGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCTGTCTTCGATCTG
* * *
18788090 CTCCGCTACTACTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCTACTGCTGGTCAGGGACA
66 CTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGGTCAGGGACA
18788155 T
131 T
* *
18788156 AGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTTGGGAAGATAAGATTCGTTGTCTTCGATCTG
1 AGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCTGTCTTCGATCTG
* ** * * * *
18788221 CTCCGCTACTGCTTAGGGAGACAAGATATACAATTTCTAACCTATTACACTGCTGGTC-TGTACA
66 CTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGGTCAGGGACA
18788285 T
131 T
* * * * * *
18788286 AGGACTTGTGGCTT-AATCTGTTTCCCTGCTCTTGGAGAAGATAAGATCCGCCGTCTTCGATCTA
1 AGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCTGTCTTCGATCTG
* * * * * *
18788350 CCCCGCTACTGCTTAGAGAGA-AAAATCTGTAATTTTCAACCTATTTCACTGCCGGTCAGGGACA
66 CTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGGTCAGGGACA
18788414 T
131 T
* * * * *
18788415 ATGACTTGTGGCTTAAATCTATTTCCCTACTCTTGGGGAAGATAAGATTCGCCGTCTTCAATCTG
1 AGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCTGTCTTCGATCTG
* *
18788480 CTCCGCTACTGCTTAGGAAGACAAGATCTGTAATTTCCAACCTATTCCACTGTTGGTCAGGGACA
66 CTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGGTCAGGGACA
18788545 T
131 T
* *
18788546 AGGACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTTG-TCGTCTTCGATCT
1 AGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCT-GTCTTCGATCT
* *
18788610 GCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTACCGGTCAGGGAC
65 GCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGGTCAGGGAC
18788675 AT
130 AT
18788677 AGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCG-TCGTCTTCGATCT
1 AGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCT-GTCTTCGATCT
* ** * *
18788741 GCTCCGCTACTGCTTAGGGAGACGAGATCTGTAATTTTTAACCTATTCCGCTGCTGGTTAGGGAC
65 GCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGGTCAGGGAC
18788806 AT
130 AT
18788808 AGGACTTGTG
1 AGGACTTGTG
18788818 ATTTCACCGA
Statistics
Matches: 953, Mismatches: 96, Indels: 11
0.90 0.09 0.01
Matches are distributed among these distances:
128 28 0.03
129 79 0.08
130 181 0.19
131 665 0.70
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (131 bp):
AGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCTGTCTTCGATCTG
CTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGGTCAGGGACA
T
Found at i:18788526 original size:652 final size:653
Alignment explanation
Indices: 18787633--18788817 Score: 1872
Period size: 652 Copynumber: 1.8 Consensus size: 653
18787623 TTAGGGAGAA
* * * *
18787633 AGGACTCGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGTCGTCTTCGATCTG
1 AGGACTCGTGGCTTAAATCTGTTTCCCTACTCCTGGAGAAGATAAGATCCGCCGTCTTCGATCTA
* * * **
18787698 CTCCGCTATTGCTTATGGAGACAAGATCTGCAATTTCCAACCTATCCACTATTGGTCAAGGACAT
66 CCCCGCTACTGCTTATGGAGACAAAATCTGCAATTTCCAACCTATCCACTACCGGTCAAGGACAT
* * *
18787763 AGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTAGGGAAGATAAGATTCGCTGTCTTCGATCTA
131 AGGACTTGTGGCTTAAATCTATTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCAATCTA
* *
18787828 CTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCTAACCTATTCCACTACTGGTCAGGGACA
196 CTCCGCTACTGCTTAGGAAGACAAGATCTGTAATTTCCAACCTATTCCACTACTGGTCAGGGACA
* *
18787893 TAGGACTTGTGGCTTAAATCTGTTTCCCTACTCTTGGGGAAAATAAGATTCACCGTCTTCGATCT
261 TAGGACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAAATAAGATTCACCGTCTTCGATCT
* * * *
18787958 GTTCCGCTACTGCTTAGGGAGACAAGATTTGCAATTTCCAACCTATTCCACTGCTAGTCAGGGAC
326 GCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTACCAGTCAGGGAC
*
18788023 ATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTTGATC
391 ATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCGATC
*
18788088 TGCTCCGCTACTACTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCTACTGCTGGTCAGGGA
456 TGCTCCGCTACTACTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGGGA
18788153 CATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTTGGGAAGATAAGATTCGTTGTCTTCGAT
521 CATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTTGGGAAGATAAGATTCGTTGTCTTCGAT
18788218 CTGCTCCGCTACTGCTTAGGGAGACAAGATATACAATTTCTAACCTATTACACTGCTGGTCTGTA
586 CTGCTCCGCTACTGCTTAGGGAGACAAGATATACAATTTCTAACCTATTACACTGCTGGTCTGTA
18788283 CAT
651 CAT
* * *
18788286 AGGACTTGTGGCTT-AATCTGTTTCCCTGCTCTTGGAGAAGATAAGATCCGCCGTCTTCGATCTA
1 AGGACTCGTGGCTTAAATCTGTTTCCCTACTCCTGGAGAAGATAAGATCCGCCGTCTTCGATCTA
* * * * *
18788350 CCCCGCTACTGCTTA-GAGAGA-AAAATCTGTAATTTTCAACCTATTTCACTGCCGGTCAGGGAC
66 CCCCGCTACTGCTTATG-GAGACAAAATCTGCAATTTCCAACCTA-TCCACTACCGGTCAAGGAC
* * *
18788413 ATATGACTTGTGGCTTAAATCTATTTCCCTACTCTTGGGGAAGATAAGATTCGCCGTCTTCAATC
129 ATAGGACTTGTGGCTTAAATCTATTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCAATC
* **
18788478 TGCTCCGCTACTGCTTAGGAAGACAAGATCTGTAATTTCCAACCTATTCCACTGTTGGTCAGGGA
194 TACTCCGCTACTGCTTAGGAAGACAAGATCTGTAATTTCCAACCTATTCCACTACTGGTCAGGGA
* ***
18788543 CATAGGACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTTGTCGTCTTCGAT
259 CATAGGACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAAATAAGATTCACCGTCTTCGAT
* *
18788608 CTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTACCGGTCAGGG
324 CTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTACCAGTCAGGG
* *
18788673 ACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGTCGTCTTCGA
389 ACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCGA
* * * ** * *
18788738 TCTGCTCCGCTACTGCTTAGGGAGACGAGATCTGTAATTTTTAACCTATTCCGCTGCTGGTTAGG
454 TCTGCTCCGCTACTACTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGG
18788803 GACATAGGACTTGTG
519 GACATAGGACTTGTG
18788818 ATTTCACCGA
Statistics
Matches: 479, Mismatches: 51, Indels: 5
0.90 0.10 0.01
Matches are distributed among these distances:
651 20 0.04
652 446 0.93
653 13 0.03
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (653 bp):
AGGACTCGTGGCTTAAATCTGTTTCCCTACTCCTGGAGAAGATAAGATCCGCCGTCTTCGATCTA
CCCCGCTACTGCTTATGGAGACAAAATCTGCAATTTCCAACCTATCCACTACCGGTCAAGGACAT
AGGACTTGTGGCTTAAATCTATTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCAATCTA
CTCCGCTACTGCTTAGGAAGACAAGATCTGTAATTTCCAACCTATTCCACTACTGGTCAGGGACA
TAGGACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAAATAAGATTCACCGTCTTCGATCT
GCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTACCAGTCAGGGAC
ATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCGATC
TGCTCCGCTACTACTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGGGA
CATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTTGGGAAGATAAGATTCGTTGTCTTCGAT
CTGCTCCGCTACTGCTTAGGGAGACAAGATATACAATTTCTAACCTATTACACTGCTGGTCTGTA
CAT
Found at i:18790517 original size:26 final size:27
Alignment explanation
Indices: 18790474--18790529 Score: 62
Period size: 26 Copynumber: 2.1 Consensus size: 27
18790464 CTTTGATTGA
18790474 TTTCTCTTTTTTGCTTTTGACTTTGATT
1 TTTCTCTTTTTT-CTTTTGACTTTGATT
**
18790502 TTT-TCTTTTCTT-TTTTGTTTTTGATT
1 TTTCTCTTTT-TTCTTTTGACTTTGATT
18790528 TT
1 TT
18790530 AATTTTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
26 14 0.56
27 6 0.24
28 5 0.20
ACGTcount: A:0.05, C:0.11, G:0.09, T:0.75
Consensus pattern (27 bp):
TTTCTCTTTTTTCTTTTGACTTTGATT
Found at i:18790529 original size:19 final size:19
Alignment explanation
Indices: 18790495--18790553 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
18790485 TGCTTTTGAC
**
18790495 TTTGATTTTTTCTTTTCTTT
1 TTTGATTTTTGATTTT-TTT
**
18790515 TTTG-TTTTTGATTTTAAT
1 TTTGATTTTTGATTTTTTT
18790533 TTTGATTTTTGATTTTTTT
1 TTTGATTTTTGATTTTTTT
18790552 TT
1 TT
18790554 CGATCAGAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
18 5 0.16
19 23 0.72
20 4 0.12
ACGTcount: A:0.10, C:0.03, G:0.08, T:0.78
Consensus pattern (19 bp):
TTTGATTTTTGATTTTTTT
Found at i:18794549 original size:20 final size:20
Alignment explanation
Indices: 18794524--18794570 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
18794514 TAAAAGAGAT
18794524 ATATATAATAAGACATATAA-
1 ATATATAATAAGACATA-AAG
*
18794544 ATATATAATAAGATATAAAG
1 ATATATAATAAGACATAAAG
18794564 ATATATA
1 ATATATA
18794571 GATATAAGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (20 bp):
ATATATAATAAGACATAAAG
Found at i:18794559 original size:18 final size:18
Alignment explanation
Indices: 18794524--18794577 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 18
18794514 TAAAAGAGAT
18794524 ATATATAATAAGACATATAA
1 ATATATAATAAG--ATATAA
18794544 ATATATAATAAGATATAA
1 ATATATAATAAGATATAA
*
18794562 AGATAT-AT-AGATATAA
1 ATATATAATAAGATATAA
18794578 GGTATATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
16 8 0.24
17 2 0.06
18 11 0.33
20 12 0.36
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.31
Consensus pattern (18 bp):
ATATATAATAAGATATAA
Found at i:18794786 original size:8 final size:8
Alignment explanation
Indices: 18794773--18794797 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
18794763 TTTAGACATA
18794773 AAAAAAAT
1 AAAAAAAT
18794781 AAAAAAAT
1 AAAAAAAT
18794789 AAAAAAAT
1 AAAAAAAT
18794797 A
1 A
18794798 CACAAATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAAAT
Found at i:18796620 original size:49 final size:49
Alignment explanation
Indices: 18796549--18796645 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
18796539 GTGATTCCAA
18796549 AAAAAAAATAAATTTTAAACTCAAACCCAACTTTCCCTATCTAAATTCC
1 AAAAAAAATAAATTTTAAACTCAAACCCAACTTTCCCTATCTAAATTCC
*
18796598 AAAAAAAATAAATTTTAGACTCAAACCCAACTTTCCCTATCTAAATTC
1 AAAAAAAATAAATTTTAAACTCAAACCCAACTTTCCCTATCTAAATTC
18796646 TCCATTTTAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.29
Consensus pattern (49 bp):
AAAAAAAATAAATTTTAAACTCAAACCCAACTTTCCCTATCTAAATTCC
Found at i:18796709 original size:22 final size:22
Alignment explanation
Indices: 18796684--18796732 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
18796674 AATATTTTTT
*
18796684 TATTTAAACGAAATTATATAAA
1 TATTTAAACAAAATTATATAAA
* * *
18796706 TATTTAAATAAAATTATTTATA
1 TATTTAAACAAAATTATATAAA
18796728 TATTT
1 TATTT
18796733 TTAAACAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
TATTTAAACAAAATTATATAAA
Found at i:18804816 original size:28 final size:28
Alignment explanation
Indices: 18804776--18804872 Score: 97
Period size: 28 Copynumber: 3.4 Consensus size: 28
18804766 CAATCACGAT
* *
18804776 TAGTTTGGTGACCAGTTTAAAAAAATCA
1 TAGTTAGGTGACCAATTTAAAAAAATCA
***
18804804 TAGTTAGGTGACCAAAAAAAAACAAATCTA
1 TAGTTAGGTGACCAATTTAAAA-AAATC-A
* *
18804834 TAGTT-GGATGACTAATTTAAAAAATTCA
1 TAGTTAGG-TGACCAATTTAAAAAAATCA
18804862 TAGTTAGGTGA
1 TAGTTAGGTGA
18804873 TAAAAAAATG
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
28 26 0.47
29 13 0.24
30 16 0.29
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (28 bp):
TAGTTAGGTGACCAATTTAAAAAAATCA
Found at i:18813283 original size:26 final size:26
Alignment explanation
Indices: 18813236--18813297 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
18813226 CTGTAAGTGT
* *
18813236 TCTGAAACTGATACATGCTATGATAA
1 TCTGAAACTAATAAATGCTATGATAA
* *
18813262 TCTGAAACTAATAAATGTTATGATAT
1 TCTGAAACTAATAAATGCTATGATAA
18813288 TCTGAAACTA
1 TCTGAAACTA
18813298 TCGTAGGTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (26 bp):
TCTGAAACTAATAAATGCTATGATAA
Found at i:18820967 original size:45 final size:46
Alignment explanation
Indices: 18820880--18820967 Score: 117
Period size: 45 Copynumber: 1.9 Consensus size: 46
18820870 CATTTAATTT
* *
18820880 GAAAACCATAATTCATTTCCAAGTCATTTTCATTTTTCATTTTGGA
1 GAAAACCATAATTCAATTCCAAATCATTTTCATTTTTCATTTTGGA
* *
18820926 GAAAACCA-CATTCAATTCCAAAT-ATTTTCATTTCTTGATTTT
1 GAAAACCATAATTCAATTCCAAATCATTTTCATTT-TTCATTTT
18820968 TATTTTCATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 10 0.27
45 19 0.51
46 8 0.22
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.43
Consensus pattern (46 bp):
GAAAACCATAATTCAATTCCAAATCATTTTCATTTTTCATTTTGGA
Found at i:18820973 original size:58 final size:58
Alignment explanation
Indices: 18820905--18821027 Score: 167
Period size: 57 Copynumber: 2.1 Consensus size: 58
18820895 TTTCCAAGTC
18820905 ATTTTCATTTTTCATTTTGGAGAAAACCACATTCAATTCCAAATATTT-TCATTTCTTG
1 ATTTTCA-TTTTCATTTTGGAGAAAACCACATTCAATTCCAAATATTTCTCATTTCTTG
* * * * * **
18820963 ATTTTTATTTTCATTTTGGAGAAAATCATATTCATTTCCAAATGTTTCTCATTTCTCC
1 ATTTTCATTTTCATTTTGGAGAAAACCACATTCAATTCCAAATATTTCTCATTTCTTG
18821021 ATTTTCA
1 ATTTTCA
18821028 CAATTTGTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 36 0.64
58 20 0.36
ACGTcount: A:0.28, C:0.17, G:0.07, T:0.49
Consensus pattern (58 bp):
ATTTTCATTTTCATTTTGGAGAAAACCACATTCAATTCCAAATATTTCTCATTTCTTG
Found at i:18826486 original size:17 final size:17
Alignment explanation
Indices: 18826464--18826499 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
18826454 ACATTGATAA
18826464 CATCTTGGTTGAGCTCG
1 CATCTTGGTTGAGCTCG
*
18826481 CATCTTTGTTGAGCTCG
1 CATCTTGGTTGAGCTCG
18826498 CA
1 CA
18826500 ACTTTGAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.14, C:0.25, G:0.25, T:0.36
Consensus pattern (17 bp):
CATCTTGGTTGAGCTCG
Found at i:18826504 original size:17 final size:17
Alignment explanation
Indices: 18826471--18826523 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
18826461 TAACATCTTG
*
18826471 GTTGAGCTCGCATCTTT
1 GTTGAGCTCGCAACTTT
18826488 GTTGAGCTCGCAACTTT
1 GTTGAGCTCGCAACTTT
* *
18826505 GAATGAGCTCGCAAGTTT
1 G-TTGAGCTCGCAACTTT
18826523 G
1 G
18826524 GATGGGCTCG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
17 17 0.53
18 15 0.47
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (17 bp):
GTTGAGCTCGCAACTTT
Found at i:18826513 original size:18 final size:17
Alignment explanation
Indices: 18826473--18826541 Score: 75
Period size: 18 Copynumber: 3.9 Consensus size: 17
18826463 ACATCTTGGT
* *
18826473 TGAGCTCGCATCTTTGT
1 TGAGCTCGCAACTTTGA
18826490 TGAGCTCGCAACTTTGAA
1 TGAGCTCGCAACTTTG-A
*
18826508 TGAGCTCGCAAGTTTGGA
1 TGAGCTCGCAACTTT-GA
* *
18826526 TGGGCTCGCAGCTTTG
1 TGAGCTCGCAACTTTG
18826542 CGACCTGAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
17 16 0.36
18 27 0.61
19 1 0.02
ACGTcount: A:0.17, C:0.22, G:0.29, T:0.32
Consensus pattern (17 bp):
TGAGCTCGCAACTTTGA
Found at i:18832135 original size:26 final size:24
Alignment explanation
Indices: 18832084--18832131 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
18832074 TTTCAACATG
* *
18832084 AAAAAAAAGGATTTGATTTTTATA
1 AAAAAAAAGGATTTGAATTTGATA
*
18832108 AAAAAAAATGGGTTTGAATTTGAT
1 AAAAAAAA-GGATTTGAATTTGAT
18832132 TAAATCTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (24 bp):
AAAAAAAAGGATTTGAATTTGATA
Found at i:18832345 original size:16 final size:16
Alignment explanation
Indices: 18832324--18832356 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
18832314 TTTGCTGTAT
18832324 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
18832340 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
18832356 T
1 T
18832357 AGCAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:18832607 original size:16 final size:16
Alignment explanation
Indices: 18832570--18832611 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
18832560 TTAATCATAT
*
18832570 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
18832586 TT-AAATATATTATAA
1 TTAAAATATATTATAA
18832601 TTAAAATATAT
1 TTAAAATATAT
18832612 ATTTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:18832611 original size:18 final size:17
Alignment explanation
Indices: 18832590--18832624 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18832580 TTATTATTAA
18832590 ATATATTATAATTAAAAT
1 ATATATTATAA-TAAAAT
*
18832608 ATATATTTTAATAAAAT
1 ATATATTATAATAAAAT
18832625 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATATTATAATAAAAT
Found at i:18832795 original size:47 final size:46
Alignment explanation
Indices: 18832727--18832894 Score: 136
Period size: 47 Copynumber: 3.7 Consensus size: 46
18832717 TTAATTAAAA
18832727 TATATG-ATTTA-ATAAATTTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTTATAT-AA-TTTAAAATAATTATAA-TAATAAATTTTCT
* * **
18832774 TATATGAATTTGTATAATTTAAAATAATTATTATTACATATAA-TTTAA
1 TATATGAATTTATATAATTTAAAATAATTA-TAATA-ATA-AATTTTCT
* * *
18832822 TA-AT-AA--TATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAATTTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
*
18832865 TATATGAATTTATACAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
18832895 ATATTAAATA
Statistics
Matches: 94, Mismatches: 14, Indels: 27
0.70 0.10 0.20
Matches are distributed among these distances:
42 2 0.02
43 8 0.09
44 18 0.19
45 5 0.05
46 5 0.05
47 36 0.38
48 16 0.17
49 4 0.04
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:18832815 original size:101 final size:98
Alignment explanation
Indices: 18832686--18832968 Score: 263
Period size: 91 Copynumber: 3.0 Consensus size: 98
18832676 ACTATAAAAG
* * * *
18832686 ATAAATTAACATAAGTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAATTTTAAAA
1 ATAATTTAAAATAATTATTATTAAATATAATTTAA-TAAAATATAT-ATTT-ATAAATTTTAAAA
*
18832751 TAATT-ATAACTAATAAATTTTCTTATATGAATTTGT
63 TAATTCATAA-TAATAAATTTTCTTATATGAATTTAT
* * *
18832787 ATAATTTAAAATAATTATTATTACATATAATTTAAT--AATA-ATA--TAT-AATTTCATAA-AA
1 ATAATTTAAAATAATTATTATTAAATATAATTTAATAAAATATATATTTATAAATTTTAAAATAA
* *
18832845 TTCTTGATAATAAATTTTCTTATATGAATTTAT
66 TTCATAATAATAAATTTTCTTATATGAATTTAT
* * * * *
18832878 ACAATTTAAAATAATTAATATTAAATATAATTTAAT--AAT-GATA--TAT-AATTTCATAA-AA
1 ATAATTTAAAATAATTATTATTAAATATAATTTAATAAAATATATATTTATAAATTTTAAAATAA
* *
18832936 TTCTTAATAATAAAATGTTCTTATATGAATTTA
66 TTCATAATAAT-AAATTTTCTTATATGAATTTA
18832969 CTAAAATCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 15
0.85 0.08 0.08
Matches are distributed among these distances:
91 93 0.57
92 30 0.18
93 2 0.01
94 1 0.01
96 1 0.01
97 2 0.01
98 4 0.02
100 1 0.01
101 30 0.18
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (98 bp):
ATAATTTAAAATAATTATTATTAAATATAATTTAATAAAATATATATTTATAAATTTTAAAATAA
TTCATAATAATAAATTTTCTTATATGAATTTAT
Found at i:18832816 original size:26 final size:28
Alignment explanation
Indices: 18832786--18832846 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
18832776 TATGAATTTG
*
18832786 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
18832812 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
18832840 TAAAATT
1 TATAATT
18832847 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:18832862 original size:91 final size:91
Alignment explanation
Indices: 18832761--18832968 Score: 344
Period size: 91 Copynumber: 2.3 Consensus size: 91
18832751 TAATTATAAC
* * * *
18832761 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
18832826 AATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTAA
18832852 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
18832917 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
18832943 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAATTTTCTTATATGAATTTA
18832969 CTAAAATCAA
Statistics
Matches: 109, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
91 89 0.82
92 20 0.18
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:18832928 original size:44 final size:43
Alignment explanation
Indices: 18832786--18832928 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
18832776 TATGAATTTG
* *
18832786 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
18832830 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
18832877 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
18832921 TATAATTT
1 TATAATTT
18832929 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:18832943 original size:47 final size:47
Alignment explanation
Indices: 18832811--18832949 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
18832801 TTATTATTAC
* *
18832811 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
18832858 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
18832902 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
18832949 A
1 A
18832950 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:18836722 original size:13 final size:13
Alignment explanation
Indices: 18836704--18836728 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18836694 ATCAAATTTG
18836704 TATGTACTCTTTT
1 TATGTACTCTTTT
18836717 TATGTACTCTTT
1 TATGTACTCTTT
18836729 CACTAATAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.08, T:0.60
Consensus pattern (13 bp):
TATGTACTCTTTT
Found at i:18837237 original size:29 final size:29
Alignment explanation
Indices: 18837205--18837284 Score: 110
Period size: 29 Copynumber: 2.8 Consensus size: 29
18837195 TCTTTAACCA
18837205 TAAACAAATGCA-ACAATTTCCAGTTTCAT
1 TAAA-AAATGCAGACAATTTCCAGTTTCAT
18837234 TAAAAACA-GCAGACAATTTCCAGTTTCAT
1 TAAAAA-ATGCAGACAATTTCCAGTTTCAT
* *
18837263 TGAAAACTGCAGACAATTTCCA
1 TAAAAAATGCAGACAATTTCCA
18837285 TTGCAACAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
28 5 0.11
29 41 0.89
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (29 bp):
TAAAAAATGCAGACAATTTCCAGTTTCAT
Found at i:18838391 original size:15 final size:15
Alignment explanation
Indices: 18838371--18838399 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18838361 GCAATACAAA
18838371 CATACAAAACAGAAC
1 CATACAAAACAGAAC
18838386 CATACAAAACAGAA
1 CATACAAAACAGAA
18838400 ACCACAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.24, G:0.07, T:0.07
Consensus pattern (15 bp):
CATACAAAACAGAAC
Found at i:18839825 original size:16 final size:15
Alignment explanation
Indices: 18839804--18839839 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
18839794 AATTTAATGT
*
18839804 ATATATTATTGTTATA
1 ATATATTATTGCTA-A
18839820 ATATATTATTGCTAA
1 ATATATTATTGCTAA
18839835 ATATA
1 ATATA
18839840 AATAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (15 bp):
ATATATTATTGCTAA
Found at i:18840767 original size:6 final size:7
Alignment explanation
Indices: 18840740--18840765 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
18840730 ATAAATATAT
18840740 ATTTTTA
1 ATTTTTA
18840747 ATTTTTA
1 ATTTTTA
18840754 ATTTTTA
1 ATTTTTA
18840761 ATTTT
1 ATTTT
18840766 AAAATACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
ATTTTTA
Found at i:18844471 original size:22 final size:22
Alignment explanation
Indices: 18844424--18844473 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
18844414 CTCTGATTAT
*
18844424 TAGCACATTAGTGCTCTTCGTT
1 TAGCACATTAGTGCTCTTCGTA
*
18844446 TAGCACATTCGTGCTC-TCTGTA
1 TAGCACATTAGTGCTCTTC-GTA
18844468 TAGCAC
1 TAGCAC
18844474 TTGTAATAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTTCGTA
Found at i:18844886 original size:4 final size:4
Alignment explanation
Indices: 18844877--18844911 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
18844867 ATCCACCAAA
18844877 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
18844912 CCTAATCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:18845758 original size:25 final size:25
Alignment explanation
Indices: 18845746--18845847 Score: 168
Period size: 25 Copynumber: 4.1 Consensus size: 25
18845736 TTTCGATTTA
*
18845746 CAACTCGCATGAGCTTCCCGATATT
1 CAACTCGCATGAGCTTCCCGTTATT
*
18845771 CAACTCGCATGAGTTTCCCGTTATT
1 CAACTCGCATGAGCTTCCCGTTATT
*
18845796 CAACTCGCATGAACTTCCCGTTATT
1 CAACTCGCATGAGCTTCCCGTTATT
*
18845821 CAACTCGCATGAGCTTCTCGTTATT
1 CAACTCGCATGAGCTTCCCGTTATT
18845846 CA
1 CA
18845848 GCTTGGAAGA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 71 1.00
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (25 bp):
CAACTCGCATGAGCTTCCCGTTATT
Found at i:18847819 original size:20 final size:20
Alignment explanation
Indices: 18847781--18847819 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
18847771 AAACTCTATC
*
18847781 TATTTTGGTTTTATTTGAAG
1 TATTTTGGTTTTATATGAAG
18847801 TATTTTGGTTCTT-TATGAA
1 TATTTTGGTT-TTATATGAA
18847820 ATGAATTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.21, C:0.03, G:0.18, T:0.59
Consensus pattern (20 bp):
TATTTTGGTTTTATATGAAG
Found at i:18853993 original size:15 final size:15
Alignment explanation
Indices: 18853956--18854006 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
18853946 AAATTACAAT
18853956 AATATTTAATAA-CA
1 AATATTTAATAATCA
18853970 AGA-ATTTAATAATCA
1 A-ATATTTAATAATCA
18853985 AATATTTAA-ACATCTA
1 AATATTTAATA-ATC-A
18854001 AATATT
1 AATATT
18854007 ATGCATACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
14 12 0.38
15 13 0.41
16 7 0.22
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (15 bp):
AATATTTAATAATCA
Found at i:18860383 original size:2 final size:2
Alignment explanation
Indices: 18860376--18860410 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
18860366 CCAGTACATC
* *
18860376 AT AT AT AT AT AT AC AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18860411 CAAGTATTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18868466 original size:34 final size:35
Alignment explanation
Indices: 18868422--18868488 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
18868412 CAGTAAAATA
* *
18868422 TTTTCCGTAAAATGATTT-TTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
18868456 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
18868489 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:18868492 original size:14 final size:15
Alignment explanation
Indices: 18868416--18868492 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
18868406 GATTGGCAGT
* *
18868416 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
18868430 AAAATGATTTT-TGG
1 AAAATGATTTTCTGG
*
18868444 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
18868464 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
18868479 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
18868493 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 20 0.40
15 16 0.32
16 1 0.02
18 1 0.02
19 4 0.08
20 8 0.16
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:18868600 original size:20 final size:20
Alignment explanation
Indices: 18868575--18868613 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
18868565 GTTTTTACAT
18868575 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
18868595 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
18868614 TTTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:18871004 original size:11 final size:11
Alignment explanation
Indices: 18870988--18871013 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
18870978 AACCATCTGT
18870988 ATATAACCAAA
1 ATATAACCAAA
18870999 ATATAACCAAA
1 ATATAACCAAA
18871010 ATAT
1 ATAT
18871014 CATCCAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (11 bp):
ATATAACCAAA
Found at i:18871378 original size:18 final size:19
Alignment explanation
Indices: 18871355--18871399 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
18871345 TTTGCAACCC
18871355 AAGGGGAAGGGAAACGGG-
1 AAGGGGAAGGGAAACGGGA
*
18871373 AAGGGGAAGGGAAAGGGGA
1 AAGGGGAAGGGAAACGGGA
18871392 AAGGGGAA
1 AAGGGGAA
18871400 AGGGGAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.42, C:0.02, G:0.56, T:0.00
Consensus pattern (19 bp):
AAGGGGAAGGGAAACGGGA
Found at i:18871379 original size:6 final size:6
Alignment explanation
Indices: 18871355--18871405 Score: 57
Period size: 6 Copynumber: 8.2 Consensus size: 6
18871345 TTTGCAACCC
* * *
18871355 AAGGGG AAGGGA AACGGG AAGGGG AAGGGA AAGGGG AAAGGGG AAAGGGG
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG -AAGGGG -AAGGGG
18871405 A
1 A
18871406 GAAGGTGTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
6 25 0.66
7 13 0.34
ACGTcount: A:0.41, C:0.02, G:0.57, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:18871391 original size:7 final size:7
Alignment explanation
Indices: 18871355--18871410 Score: 59
Period size: 7 Copynumber: 8.6 Consensus size: 7
18871345 TTTGCAACCC
18871355 AAGGGG-
1 AAGGGGA
18871361 AA-GGGA
1 AAGGGGA
*
18871367 AACGGG-
1 AAGGGGA
18871373 AAGGGG-
1 AAGGGGA
18871379 AA-GGGA
1 AAGGGGA
18871385 AAGGGGA
1 AAGGGGA
18871392 AAGGGGA
1 AAGGGGA
18871399 AAGGGGA
1 AAGGGGA
18871406 GAAGG
1 -AAGG
18871411 TGTCATTTTC
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
5 6 0.14
6 13 0.30
7 21 0.48
8 4 0.09
ACGTcount: A:0.41, C:0.02, G:0.57, T:0.00
Consensus pattern (7 bp):
AAGGGGA
Found at i:18878601 original size:36 final size:36
Alignment explanation
Indices: 18878560--18878629 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
18878550 AATTTATTAA
18878560 GAAACATTTATTTCAATATTTTTAATGTATTTTAGG
1 GAAACATTTATTTCAATATTTTTAATGTATTTTAGG
* * * *
18878596 GAAACATTTGTTTTAATGTTTTTACTGTATTTTA
1 GAAACATTTATTTCAATATTTTTAATGTATTTTA
18878630 TATATTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.53
Consensus pattern (36 bp):
GAAACATTTATTTCAATATTTTTAATGTATTTTAGG
Found at i:18880231 original size:15 final size:15
Alignment explanation
Indices: 18880222--18880254 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
18880212 CAAATGCTAT
18880222 AATAATAAATACAAC
1 AATAATAAATACAAC
*
18880237 AATAATAAATACATC
1 AATAATAAATACAAC
18880252 AAT
1 AAT
18880255 GGCATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:18880280 original size:13 final size:12
Alignment explanation
Indices: 18880262--18880300 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
18880252 AATGGCATAA
18880262 AAATAATATAAAC
1 AAATAA-ATAAAC
18880275 AAATAAATAAAC
1 AAATAAATAAAC
18880287 GAAATAAA-AAAC
1 -AAATAAATAAAC
18880299 AA
1 AA
18880301 TAATCCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 10 0.40
13 13 0.52
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.15
Consensus pattern (12 bp):
AAATAAATAAAC
Found at i:18881772 original size:5 final size:5
Alignment explanation
Indices: 18881762--18881788 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
18881752 AGAAATTTGC
18881762 TTGAT TTGAT TTGAT TTGAT TTGAT TT
1 TTGAT TTGAT TTGAT TTGAT TTGAT TT
18881789 TGTTTCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.63
Consensus pattern (5 bp):
TTGAT
Found at i:18882434 original size:44 final size:42
Alignment explanation
Indices: 18882319--18882872 Score: 261
Period size: 44 Copynumber: 12.7 Consensus size: 42
18882309 GGTTTTAATT
*
18882319 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTG-C-TCTT-AGTC
* *
18882364 AGC-CTCACTGCAACTTCA-GGAGGATAAGCCTTGCTTACTTAGTC
1 TGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGC-T-CTTAGTC
* * * *
18882408 TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGA-TC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTCTTAGTC
* ** ** * * *
18882449 TGCT-CTCTGCAACTTCAAAGAGATAAGATCCAAGGTTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA--CTTGCTCTTAGTC
** * * * **
18882492 CACTCCACTGCAACTTCAGGAAGATAGGATTATGGGCT-TTAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTCTTAGTC
* *
18882536 TGCTCCACTTCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTG-C-TCTT-AGTC
*
18882581 TGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTTCTTAGTT
1 TGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGC--TCTTAGTC
* * *
18882625 TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGC-GA-TC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGCT-CTTAGTC
* * * * * *
18882666 TGCT-CTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCTCTTAGTC
** * * * **
18882709 CACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCT-TTAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTCTTAGTC
* * * *
18882753 TGCTCCATTGCAACTTCAGAGAGACAAGATTTGCCATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTG-C-TCTT-AGTC
* ** *
18882798 TAC-CTCACTGCAACTTCA-GGAGGATAAGACTTAATTTCTTAGTT
1 TGCTC-CACTGCAACTTCAGGGA-GATAAGACTT--GCTCTTAGTC
* * *
18882842 TGCTCCATTGCAACTTCAAGAAGATAAGACT
1 TGCTCCACTGCAACTTCAGGGAGATAAGACT
18882873 AGATGCGATC
Statistics
Matches: 391, Mismatches: 79, Indels: 79
0.71 0.14 0.14
Matches are distributed among these distances:
40 43 0.11
41 15 0.04
42 16 0.04
43 16 0.04
44 200 0.51
45 101 0.26
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (42 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTCTTAGTC
Found at i:18882588 original size:217 final size:217
Alignment explanation
Indices: 18882191--18882957 Score: 1153
Period size: 217 Copynumber: 3.5 Consensus size: 217
18882181 ATCTACTTCT
* *
18882191 CTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCGACTTCAGAGAGATAAGATCC
1 CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCC
* * * * * **
18882256 AAGATTTGTGGTTCTAATCCGCTCCATTGCAACTTCAAGGAGATATGATTATTGGTTTTAATTTG
66 AAG----GT--TT-TAATCCACTCCACTGCAACTTCAAGGAGATAGGATTATCGGCTTTAACCTG
* *
18882321 CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCAGCCTCACTGCAACTTCAGGAG
124 CTCCACTTCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAG
* * *
18882386 GATAAGCCTTGCTTACTTAGTCTGCTCCA
189 GATAAGACTTGCTTTCTTAGTTTGCTCCA
* *
18882415 CTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCC
1 CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCC
*
18882480 AAGGTTTTAATCCACTCCACTGCAACTTC-AGGAAGATAGGATTATGGGCTTTAACCTGCTCCAC
66 AAGGTTTTAATCCACTCCACTGCAACTTCAAGG-AGATAGGATTATCGGCTTTAACCTGCTCCAC
18882544 TTCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAG
130 TTCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAG
18882609 ACTTGCTTTCTTAGTTTGCTCCA
195 ACTTGCTTTCTTAGTTTGCTCCA
*
18882632 CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
1 CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCC
18882697 AAGGTTTTAATCCACTCCACTGCAACTTC-AGGAAGATAGGATTATCGGCTTTAACCTGCTCCA-
66 AAGGTTTTAATCCACTCCACTGCAACTTCAAGG-AGATAGGATTATCGGCTTTAACCTGCTCCAC
* * *
18882760 TTGCAACTTCAGAGAGACAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAA
130 TT-CAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAA
**
18882825 GACTTAATTTCTTAGTTTGCTCCA
194 GACTTGCTTTCTTAGTTTGCTCCA
* * * * *
18882849 TTGCAACTTCAAGAAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAGACAAGATCC
1 CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCC
* *
18882914 AAGGTTTTAATCCACCCCATTGCAACTTCAAGGAGATAGGATTA
66 AAGGTTTTAATCCACTCCACTGCAACTTCAAGGAGATAGGATTA
18882958 CTAGCTACTG
Statistics
Matches: 509, Mismatches: 31, Indels: 13
0.92 0.06 0.02
Matches are distributed among these distances:
216 5 0.01
217 431 0.85
218 5 0.01
220 2 0.00
224 66 0.13
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (217 bp):
CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCC
AAGGTTTTAATCCACTCCACTGCAACTTCAAGGAGATAGGATTATCGGCTTTAACCTGCTCCACT
TCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGA
CTTGCTTTCTTAGTTTGCTCCA
Found at i:18894503 original size:13 final size:12
Alignment explanation
Indices: 18894485--18894523 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
18894475 AATGGCATAA
18894485 AAATAATATAAAC
1 AAATAA-ATAAAC
18894498 AAATAAATAAAC
1 AAATAAATAAAC
18894510 GAAATAAA-AAAC
1 -AAATAAATAAAC
18894522 AA
1 AA
18894524 TAATCCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 10 0.40
13 13 0.52
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.15
Consensus pattern (12 bp):
AAATAAATAAAC
Found at i:18906272 original size:5 final size:5
Alignment explanation
Indices: 18906243--18906286 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
18906233 AAAATTTAAC
* *
18906243 TCAAT TTAAT ACAAT TCACAT TCAAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCAAT TCA
18906287 CATCTTAGGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (5 bp):
TCAAT
Found at i:18913524 original size:24 final size:24
Alignment explanation
Indices: 18913407--18913537 Score: 95
Period size: 25 Copynumber: 5.3 Consensus size: 24
18913397 AATTCATTTT
* *
18913407 CGGGAATGCTCATACAAGCACATAAA
1 CGGGAA-GCTCATACGAGC-CATTAA
*
18913433 CGGGAAGCTC-TTCTGAGCCATATAA
1 CGGGAAGCTCATAC-GAGCCAT-TAA
* ** *
18913458 TGGGAAGCTCATGTGACCCATGTAA
1 CGGGAAGCTCATACGAGCCAT-TAA
* *
18913483 CGGGAAGCT-TTAGAGAGCCATTAA
1 CGGGAAGCTCATA-CGAGCCATTAA
* *
18913507 CGGGAAGCTCATACGAGCCAATAT
1 CGGGAAGCTCATACGAGCCATTAA
18913531 CGGGAAG
1 CGGGAAG
18913538 GTTCAAGCAA
Statistics
Matches: 83, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
24 33 0.40
25 43 0.52
26 7 0.08
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (24 bp):
CGGGAAGCTCATACGAGCCATTAA
Found at i:18914069 original size:68 final size:68
Alignment explanation
Indices: 18913960--18914096 Score: 238
Period size: 68 Copynumber: 2.0 Consensus size: 68
18913950 TTCAAACATA
* * *
18913960 TAAATATACATAATTTAGTTACATGAACTTACCTCGACAATTTTACGTTGATTTTTTGTATACTA
1 TAAATATACATAATTTAGTTACAGGAACTTACCTCGACAATTGTACGTTGATTTGTTGTATACTA
18914025 ATC
66 ATC
*
18914028 TAAATATACATAATTTAGTTAGAGGAACTTACCTCGACAATTGTACGTTGATTTGTTGTATACTA
1 TAAATATACATAATTTAGTTACAGGAACTTACCTCGACAATTGTACGTTGATTTGTTGTATACTA
18914093 ATC
66 ATC
18914096 T
1 T
18914097 GACACTTTCT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.41
Consensus pattern (68 bp):
TAAATATACATAATTTAGTTACAGGAACTTACCTCGACAATTGTACGTTGATTTGTTGTATACTA
ATC
Found at i:18919184 original size:90 final size:90
Alignment explanation
Indices: 18919029--18919208 Score: 227
Period size: 90 Copynumber: 2.0 Consensus size: 90
18919019 AGAATTTTCA
* * * * * *
18919029 ACAATCCAGTTGTCACAACCTGGAATATATATAGTTAAGAAATAAGATTAAACAAGAAATAAGCT
1 ACAATCCACTTGTCACAACCTGAAATAAATACAGTGAAGAAATAAGATTAAACAAGAAACAAGCT
18919094 ACAGGCTCAATGGTTAAGTGATAGT
66 ACAGGCTCAATGGTTAAGTGATAGT
* * *
18919119 ACAATCCACTTGTCAC-ACCTCTAAATAAATACAGTGAAGAAATAAGATTAAAGAAGAAACGAGC
1 ACAATCCACTTGTCACAACCT-GAAATAAATACAGTGAAGAAATAAGATTAAACAAGAAACAAGC
* * * *
18919183 TATATGCTTAATGGTTATGTGATAGT
65 TACAGGCTCAATGGTTAAGTGATAGT
18919209 GCATCCATAT
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
89 4 0.05
90 72 0.95
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (90 bp):
ACAATCCACTTGTCACAACCTGAAATAAATACAGTGAAGAAATAAGATTAAACAAGAAACAAGCT
ACAGGCTCAATGGTTAAGTGATAGT
Found at i:18922494 original size:13 final size:13
Alignment explanation
Indices: 18922478--18922503 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18922468 AATGTGGTTT
18922478 GCTCATGTTTTAA
1 GCTCATGTTTTAA
18922491 GCTCATGTTTTAA
1 GCTCATGTTTTAA
18922504 ATATTAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (13 bp):
GCTCATGTTTTAA
Found at i:18922651 original size:16 final size:16
Alignment explanation
Indices: 18922607--18922654 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
18922597 CATGTTTACG
18922607 TATGCTTTAATAT-TA
1 TATGCTTTAATATATA
*
18922622 -A-GCTTGT-ATGTATA
1 TATGCTT-TAATATATA
18922636 TATGCTTTAATATATA
1 TATGCTTTAATATATA
18922652 TAT
1 TAT
18922655 AGTTACTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 9
0.70 0.05 0.24
Matches are distributed among these distances:
13 7 0.27
14 4 0.15
15 2 0.08
16 13 0.50
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.50
Consensus pattern (16 bp):
TATGCTTTAATATATA
Found at i:18926908 original size:20 final size:19
Alignment explanation
Indices: 18926879--18926916 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
18926869 TAAAAATTGA
18926879 TTAGCCTTGGTTGTCCCTT
1 TTAGCCTTGGTTGTCCCTT
18926898 TTAGACCTTGGTTGTCCCT
1 TTAG-CCTTGGTTGTCCCT
18926917 CTCTTCCTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.08, C:0.26, G:0.21, T:0.45
Consensus pattern (19 bp):
TTAGCCTTGGTTGTCCCTT
Found at i:18929535 original size:30 final size:30
Alignment explanation
Indices: 18929499--18929559 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
18929489 AGGGGGAGTA
18929499 AGTATATATTCCTGGTTCTATATGTCAATG
1 AGTATATATTCCTGGTTCTATATGTCAATG
*
18929529 AGTATATATTCCTTGTTCTATATGTCAATG
1 AGTATATATTCCTGGTTCTATATGTCAATG
18929559 A
1 A
18929560 CATTTTGCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (30 bp):
AGTATATATTCCTGGTTCTATATGTCAATG
Found at i:18938957 original size:18 final size:17
Alignment explanation
Indices: 18938936--18938975 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
18938926 GATATATGTC
*
18938936 AATTAGTAATTTTGATTA
1 AATT-GTAATTTTGATCA
*
18938954 AATTGTGATTTTGATCA
1 AATTGTAATTTTGATCA
18938971 AATTG
1 AATTG
18938976 ATAGTTATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (17 bp):
AATTGTAATTTTGATCA
Found at i:18939572 original size:53 final size:53
Alignment explanation
Indices: 18939492--18939596 Score: 192
Period size: 53 Copynumber: 2.0 Consensus size: 53
18939482 ATATTTGACT
* *
18939492 TGTTACAAACATGTTCTATGATATGTTAAGATTAATTATTTCATTGTTGAACA
1 TGTTACAAACATGTTCCATGATATGTTAAGATTAATTATTTCATTATTGAACA
18939545 TGTTACAAACATGTTCCATGATATGTTAAGATTAATTATTTCATTATTGAAC
1 TGTTACAAACATGTTCCATGATATGTTAAGATTAATTATTTCATTATTGAAC
18939597 TCACTAACTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.43
Consensus pattern (53 bp):
TGTTACAAACATGTTCCATGATATGTTAAGATTAATTATTTCATTATTGAACA
Done.