Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 67 of 325
Found at i:20741587 original size:26 final size:27
Alignment explanation
Indices: 20741553--20741611 Score: 93
Period size: 26 Copynumber: 2.2 Consensus size: 27
20741543 GGTTATTTTG
**
20741553 GTAATTTTGTATTCCAAGGGTATTT-A
1 GTAATTTTGTAAACCAAGGGTATTTCA
20741579 GTAATTTTGTAAACCAAGGGTATTTCA
1 GTAATTTTGTAAACCAAGGGTATTTCA
20741606 GTAATT
1 GTAATT
20741612 CTACCCTACA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 23 0.77
27 7 0.23
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
GTAATTTTGTAAACCAAGGGTATTTCA
Found at i:20741623 original size:27 final size:27
Alignment explanation
Indices: 20741593--20741676 Score: 123
Period size: 27 Copynumber: 3.1 Consensus size: 27
20741583 TTTTGTAAAC
20741593 CAAGGGTATTTCAGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
* * *
20741620 CAAGAGCATTTCAGTAATTCTATCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
* *
20741647 CAGGGGTATTTTAGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
20741674 CAA
1 CAA
20741677 ATATGATATT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.33
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTCTACCCTA
Found at i:20742012 original size:47 final size:47
Alignment explanation
Indices: 20741938--20742039 Score: 186
Period size: 47 Copynumber: 2.1 Consensus size: 47
20741928 TACACACTTG
20741938 TTTACAAGAACGGGTCGAAGTCCACCCTAACTCATCTGGTTCGCTCTA
1 TTTA-AAGAACGGGTCGAAGTCCACCCTAACTCATCTGGTTCGCTCTA
*
20741986 TTTAAAGAACGTGTCGAAGTCCACCCTAACTCATCTGGTTCGCTCTA
1 TTTAAAGAACGGGTCGAAGTCCACCCTAACTCATCTGGTTCGCTCTA
20742033 TTTAAAG
1 TTTAAAG
20742040 CTAGCTTCTC
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 49 0.92
48 4 0.08
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (47 bp):
TTTAAAGAACGGGTCGAAGTCCACCCTAACTCATCTGGTTCGCTCTA
Found at i:20742656 original size:15 final size:15
Alignment explanation
Indices: 20742633--20742663 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
20742623 TTATGGACCC
20742633 ATACGTCTAGGCCCA
1 ATACGTCTAGGCCCA
*
20742648 ATACTTCTAGGCCCA
1 ATACGTCTAGGCCCA
20742663 A
1 A
20742664 ATTTGGGGCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.32, G:0.16, T:0.23
Consensus pattern (15 bp):
ATACGTCTAGGCCCA
Found at i:20744540 original size:17 final size:18
Alignment explanation
Indices: 20744515--20744549 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
20744505 AGTACTCAAA
*
20744515 GCAACAATC-TCAAAAAC
1 GCAAAAATCATCAAAAAC
20744532 GCAAAAATCATCAAAAAC
1 GCAAAAATCATCAAAAAC
20744550 CGAGTTAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.57, C:0.26, G:0.06, T:0.11
Consensus pattern (18 bp):
GCAAAAATCATCAAAAAC
Found at i:20748233 original size:80 final size:80
Alignment explanation
Indices: 20748079--20748274 Score: 234
Period size: 80 Copynumber: 2.4 Consensus size: 80
20748069 GGCAAAATGG
* * ** **
20748079 TAATTTTACCCTACAAGGGTATCTCGGTAATTCTACCCTACAGAGGTATTTTGATATTTCTGTCC
1 TAATTCTA-CCTACAAGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCAATATTTCTACCC
20748144 TACAAGGGTATTTTGA
65 TACAAGGGTATTTTGA
* *
20748160 TAATTC-ATCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAATAATTT-TACC
1 TAATTCTA-CCTACAAGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCAAT-ATTTCTACC
* * *
20748223 CTATAGGGGTATTTTGG
64 CTACAAGGGTATTTTGA
*
20748240 TAATTCTACCTTACAGGGGTATTTCGGTAATTCTA
1 TAATTCTACC-TACAAGGGTATTTCGGTAATTCTA
20748275 TAACTTACCC
Statistics
Matches: 99, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
80 66 0.67
81 33 0.33
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (80 bp):
TAATTCTACCTACAAGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCAATATTTCTACCCT
ACAAGGGTATTTTGA
Found at i:20748272 original size:27 final size:27
Alignment explanation
Indices: 20748077--20748274 Score: 200
Period size: 27 Copynumber: 7.4 Consensus size: 27
20748067 GGGGCAAAAT
* * *
20748077 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
20748104 GGTAATTCTACCCTACAGAGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * ** * *
20748131 GATATTTCTGTCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
20748158 GATAATTC-ATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
20748184 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * * *
20748211 AATAATTTTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
20748238 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
20748265 GGTAATTCTA
1 GGTAATTCTA
20748275 TAACTTACCC
Statistics
Matches: 142, Mismatches: 28, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 23 0.16
27 119 0.84
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:20752634 original size:40 final size:39
Alignment explanation
Indices: 20752576--20752706 Score: 145
Period size: 40 Copynumber: 3.3 Consensus size: 39
20752566 TAACTCATTC
* *
20752576 AATGCCTTCGGGATTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-TTTAAAACTCGCACA
* *** *
20752616 AATGCCTTCGTGACTTAACCCGGAATTGGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAAAACTCGCACA
* *
20752656 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAA-AACTCGCACA
*
20752696 AATACCTTCGG
1 AATGCCTTCGG
20752707 ATCTTAGTCT
Statistics
Matches: 73, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
39 2 0.03
40 70 0.96
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAAAACTCGCACA
Found at i:20766200 original size:79 final size:79
Alignment explanation
Indices: 20766101--20766320 Score: 205
Period size: 79 Copynumber: 2.8 Consensus size: 79
20766091 TTCGTTCAAG
* * ** * *
20766101 TGCCTTCGGGACATAGCCCGGTCATAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATTT
1 TGCCTTCGGGACATAACCCGG-AATAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-AT
*
20766165 TAA-AACTCGCACGAA
64 TAATAACTCGCACAAA
* * * *
20766180 TGCCTTCGGGACTTAACCCGGAATTGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATTA
1 TGCCTTCGGGACATAACCCGGAATAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATTA
20766245 ATAACTCGCACAAA
66 ATAACTCGCACAAA
* * ** * * *
20766259 TACCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGA-ATAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
20766321 CAGCATTCAA
Statistics
Matches: 116, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
78 16 0.14
79 68 0.59
80 26 0.22
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
TGCCTTCGGGACATAACCCGGAATAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATTA
ATAACTCGCACAAA
Found at i:20766280 original size:40 final size:40
Alignment explanation
Indices: 20766138--20766320 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
20766128 TAACTCATTC
* *
20766138 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
20766178 AATGCCTTCGGGACTTAACCCGGAATT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
20766217 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
20766257 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
20766298 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
20766321 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
39 41 0.34
40 68 0.57
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:20771612 original size:27 final size:26
Alignment explanation
Indices: 20771564--20771623 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
20771554 GCGAGACTGC
*
20771564 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
20771591 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
20771617 CAGATAT
1 CAGATAT
20771624 ATATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:20771636 original size:33 final size:32
Alignment explanation
Indices: 20771585--20771648 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
20771575 ACGAAGTCAC
* *
20771585 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
20771617 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCGAAGCCACCAGA
20771649 TTGCTACGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:20772274 original size:26 final size:27
Alignment explanation
Indices: 20772245--20772298 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
20772235 TCACACAAGT
*
20772245 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
20772271 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
20772298 T
1 T
20772299 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:20772329 original size:27 final size:27
Alignment explanation
Indices: 20772299--20772498 Score: 283
Period size: 27 Copynumber: 7.4 Consensus size: 27
20772289 GGGGCAAAAT
* * * *
20772299 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
20772326 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
20772353 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
20772380 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
20772407 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
20772434 AATAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
20772461 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
20772488 GGTAATTCTAC
1 GGTAATTCTAC
20772499 AACTTATCCA
Statistics
Matches: 154, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 154 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:20783839 original size:40 final size:40
Alignment explanation
Indices: 20783785--20783874 Score: 135
Period size: 40 Copynumber: 2.2 Consensus size: 40
20783775 AAACATTCAC
* * *
20783785 AACATGCAAAATCGGGCTAGAAAATTTCATTTAAATTAAA
1 AACATTCAATATCGGGCCAGAAAATTTCATTTAAATTAAA
*
20783825 AACATTCAATATCGGGCCATAAAATTTCATTTAAATTAAA
1 AACATTCAATATCGGGCCAGAAAATTTCATTTAAATTAAA
*
20783865 AAAATTCAAT
1 AACATTCAAT
20783875 CACATGCATA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.30
Consensus pattern (40 bp):
AACATTCAATATCGGGCCAGAAAATTTCATTTAAATTAAA
Found at i:20800158 original size:24 final size:26
Alignment explanation
Indices: 20800126--20800177 Score: 90
Period size: 25 Copynumber: 2.1 Consensus size: 26
20800116 CAGAATCGGT
20800126 TCTGATGG-TGTTTGATC-TTAAAAA
1 TCTGATGGTTGTTTGATCTTTAAAAA
20800150 TCTGATGGTTGTTTGATCTTTAAAAA
1 TCTGATGGTTGTTTGATCTTTAAAAA
20800176 TC
1 TC
20800178 GGATTTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 8 0.31
25 9 0.35
26 9 0.35
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (26 bp):
TCTGATGGTTGTTTGATCTTTAAAAA
Found at i:20804941 original size:41 final size:43
Alignment explanation
Indices: 20804847--20804965 Score: 120
Period size: 42 Copynumber: 2.8 Consensus size: 43
20804837 GCTCGTACAG
* * * * *
20804847 TGCCTATGTCCCAGACAAGATCTTACAAGT-AATCA-ACTATCGA
1 TGCCAATGTCCAAGACAGGGTCTTACACGTAAATCATA-T-TCGA
* *
20804890 TGCCACTGTCC-CGACAGGGTCTTACAC-TAAATCATATTCGA
1 TGCCAATGTCCAAGACAGGGTCTTACACGTAAATCATATTCGA
*
20804931 TGCCAATGTCCAAGACATGGTCTTACACGTAAATC
1 TGCCAATGTCCAAGACAGGGTCTTACACGTAAATC
20804966 TCAAATCGAT
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
41 15 0.24
42 32 0.51
43 16 0.25
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (43 bp):
TGCCAATGTCCAAGACAGGGTCTTACACGTAAATCATATTCGA
Found at i:20804980 original size:44 final size:41
Alignment explanation
Indices: 20804885--20804985 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 41
20804875 GTAATCAACT
* *
20804885 ATCGATGCCACTGTCCCGACAGGGTCTTACACTAAATCATA
1 ATCGATGCCAATGTCCAGACAGGGTCTTACACTAAATCATA
* *
20804926 TTCGATGCCAATGTCCAAGACATGGTCTTACACGTAAATC-TCAA
1 ATCGATGCCAATGTCC-AGACAGGGTCTTACAC-TAAATCAT--A
*
20804970 ATCGATGCCAACGTCC
1 ATCGATGCCAATGTCC
20804986 TAAAGGTGGT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
41 14 0.28
42 15 0.30
43 6 0.12
44 15 0.30
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (41 bp):
ATCGATGCCAATGTCCAGACAGGGTCTTACACTAAATCATA
Found at i:20806830 original size:29 final size:30
Alignment explanation
Indices: 20806790--20806857 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
20806780 CTCATTGACT
* * *
20806790 TGTGACACACGACCATGTCG-TAGGCCGTG
1 TGTGTCACACGACCATGTAGCAAGGCCGTG
* * *
20806819 TGTGTCACACGATCGTGTAGCAAGGTCGTG
1 TGTGTCACACGACCATGTAGCAAGGCCGTG
20806849 TGTGTCACA
1 TGTGTCACA
20806858 TGGCCTTGTG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 16 0.50
30 16 0.50
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.25
Consensus pattern (30 bp):
TGTGTCACACGACCATGTAGCAAGGCCGTG
Found at i:20821760 original size:40 final size:40
Alignment explanation
Indices: 20821705--20821922 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
20821695 TGGATGGTAA
* *
20821705 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
20821745 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
20821785 CCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
20821825 CCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
20821865 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
20821905 CC-AGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
20821923 TCCTTGGTTT
Statistics
Matches: 166, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 16 0.10
40 149 0.90
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:20828415 original size:25 final size:24
Alignment explanation
Indices: 20828366--20828416 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
20828356 ATGTAAAAGA
* *
20828366 AAGGAAATAAATAAAAGAAATAAT
1 AAGGAAATAAAGAAAAGAAAGAAT
20828390 AAGGATAATAAAAGAAAAG-AAGAAT
1 AAGGA-AAT-AAAGAAAAGAAAGAAT
20828415 AA
1 AA
20828417 AAGGGAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 5 0.22
25 10 0.43
26 8 0.35
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.14
Consensus pattern (24 bp):
AAGGAAATAAAGAAAAGAAAGAAT
Found at i:20829684 original size:40 final size:40
Alignment explanation
Indices: 20829572--20829684 Score: 183
Period size: 40 Copynumber: 2.8 Consensus size: 40
20829562 CGGATGGTAA
* *
20829572 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATT
*
20829612 CCGGGCTAATTCCCGAAGGCATTTGTGCAAGTTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAT-T
20829652 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTT
20829685 GGAACAGGGG
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
39 2 0.03
40 66 0.97
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATT
Found at i:20830601 original size:46 final size:45
Alignment explanation
Indices: 20830534--20830708 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
20830524 TGTAACCCGC
*
20830534 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGCGTTCGCAT
* * *
20830580 CCATAAGTGAACTCGGACTCAACTCAACGATTTCGG-GTGC-CTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGCGTTCGC-A--T
* * *
20830626 ACATCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGG-CGTTCGCAT
*
20830673 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
20830709 ATGCTCAATC
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 4 0.04
46 62 0.58
47 30 0.28
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGCGTTCGCAT
Found at i:20843747 original size:18 final size:18
Alignment explanation
Indices: 20843716--20843753 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
20843706 TCACATAATA
*
20843716 TTTATATATTTTTATATT
1 TTTATATATTTTTACATT
20843734 TTTATAT-TATTTTACATT
1 TTTATATAT-TTTTACATT
20843752 TT
1 TT
20843754 AACAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATATATTTTTACATT
Found at i:20843982 original size:21 final size:22
Alignment explanation
Indices: 20843950--20844000 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
20843940 TATTTCAAAA
*
20843950 TTCATTATTTATT-ACTATGTT
1 TTCATTATTTATTAAATATGTT
20843971 TTCATGTA-TTATTAAATATG-T
1 TTCAT-TATTTATTAAATATGTT
20843992 TT-ATTATTT
1 TTCATTATTT
20844001 TATATTTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 2 0.08
20 4 0.15
21 13 0.50
22 7 0.27
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (22 bp):
TTCATTATTTATTAAATATGTT
Found at i:20849723 original size:16 final size:16
Alignment explanation
Indices: 20849683--20849715 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
20849673 ATCTTTAATA
*
20849683 TATAA-TTATATCTAT
1 TATAATTTATATATAT
20849698 TATAATTTATATATAT
1 TATAATTTATATATAT
20849714 TA
1 TA
20849716 ATATTTATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TATAATTTATATATAT
Found at i:20850396 original size:25 final size:24
Alignment explanation
Indices: 20850356--20850411 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
20850346 CTAGTTTCTC
* * *
20850356 TTAATTTTTAATTTTATTCAATTA
1 TTAATTTTTAAGTTTACTAAATTA
*
20850380 GTTAATTTTTCAGTTTACTAAATTA
1 -TTAATTTTTAAGTTTACTAAATTA
20850405 TTAATTT
1 TTAATTT
20850412 CTATAAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 7 0.26
25 20 0.74
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.59
Consensus pattern (24 bp):
TTAATTTTTAAGTTTACTAAATTA
Found at i:20867804 original size:39 final size:40
Alignment explanation
Indices: 20867600--20867822 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
20867590 TTGAATGCTG
* * * * * *
20867600 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
20867640 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
20867680 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
20867720 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
20867760 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
20867799 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
20867823 TGAACGAGGA
Statistics
Matches: 163, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 36 0.22
40 119 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:20867842 original size:79 final size:80
Alignment explanation
Indices: 20867674--20867857 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
20867664 TGTGCGAGAT
* * *
20867674 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAG
** *
20867739 GCATTCGTGCGAGTT
66 GCATTCGAACGAGTG
* * * *
20867754 ATTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAG
*
20867818 GCATTTGAACGAG-G
66 GCATTCGAACGAGTG
* *
20867832 AGCTATATCC-GGTTAAATCCCGAAGG
1 A-CTAAATCCGGGTTAAGTCCCGAAGG
20867858 TACGTGATTT
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 15 0.17
79 45 0.51
80 28 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAG
GCATTCGAACGAGTG
Found at i:20875553 original size:40 final size:40
Alignment explanation
Indices: 20875470--20875692 Score: 263
Period size: 40 Copynumber: 5.6 Consensus size: 40
20875460 TTGAATGCTG
* * * * * *
20875470 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
20875510 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
20875550 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
20875590 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
20875630 TCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
20875669 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
20875693 TGAACGAGGA
Statistics
Matches: 163, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 35 0.21
40 120 0.74
41 8 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:20875712 original size:79 final size:80
Alignment explanation
Indices: 20875544--20875727 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 80
20875534 TGTGCGAGAT
* * *
20875544 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAG
** *
20875609 GCATTCGTGCGAGTT
66 GCATTCGAACGAGTG
* * *
20875624 ATTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAG
*
20875688 GCATTTGAACGAG-G
66 GCATTCGAACGAGTG
* *
20875702 AGCTATATCC-GGTTAAATCCCGAAGG
1 A-CTAAATCCGGGTTAAGTCCCGAAGG
20875728 TACGTGATTT
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
78 16 0.18
79 45 0.50
80 29 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAG
GCATTCGAACGAGTG
Found at i:20882587 original size:30 final size:30
Alignment explanation
Indices: 20882551--20882614 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
20882541 CAGATGGGAG
20882551 TGTGGCCATCCCGTGTGGCTCACACGAGCA
1 TGTGGCCATCCCGTGTGGCTCACACGAGCA
*
20882581 TGTGGCCATCCCGTGTGGCTCACACGAGCG
1 TGTGGCCATCCCGTGTGGCTCACACGAGCA
20882611 TGTG
1 TGTG
20882615 TTCAGCCCGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.14, C:0.31, G:0.33, T:0.22
Consensus pattern (30 bp):
TGTGGCCATCCCGTGTGGCTCACACGAGCA
Found at i:20882614 original size:17 final size:17
Alignment explanation
Indices: 20882562--20882614 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
20882552 GTGGCCATCC
20882562 CGTGTGGCTCACACGAG
1 CGTGTGGCTCACACGAG
*
20882579 CATGTGGC-CATC-C---
1 CGTGTGGCTCA-CACGAG
20882592 CGTGTGGCTCACACGAG
1 CGTGTGGCTCACACGAG
20882609 CGTGTG
1 CGTGTG
20882615 TTCAGCCCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
13 8 0.29
14 3 0.11
16 3 0.11
17 14 0.50
ACGTcount: A:0.15, C:0.30, G:0.34, T:0.21
Consensus pattern (17 bp):
CGTGTGGCTCACACGAG
Found at i:20882624 original size:30 final size:30
Alignment explanation
Indices: 20882551--20882626 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
20882541 CAGATGGGAG
*
20882551 TGTGGCCATCCCGTGTGGCTCACACGAGCA
1 TGTGGCCAGCCCGTGTGGCTCACACGAGCA
* *
20882581 TGTGGCCATCCCGTGTGGCTCACACGAGCG
1 TGTGGCCAGCCCGTGTGGCTCACACGAGCA
**
20882611 TGTGTTCAGCCCGTGT
1 TGTGGCCAGCCCGTGT
20882627 AGAATTAGTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.13, C:0.32, G:0.32, T:0.24
Consensus pattern (30 bp):
TGTGGCCAGCCCGTGTGGCTCACACGAGCA
Found at i:20906634 original size:67 final size:64
Alignment explanation
Indices: 20906497--20906704 Score: 206
Period size: 64 Copynumber: 3.2 Consensus size: 64
20906487 CATAATTTTG
* * * * * *
20906497 GCTCTCTTGTAC-ACATGGTGA-ACACTTAGTACCACCCATGTGACCTAGCCA-ATTTATCTCGT
1 GCTCTCTTGT-CTACATGGT-ATACACATAGAACCACCCATGCGACCTAGCTACATATATTTCGT
20906559 A
64 A
* * * *
20906560 GCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCACGCATGCGACCTAGCTACATATATTTCG
1 GCTCTCTTGTCTACAT-G-GT-ATACACATAGAACCACCCATGCGACCTAGCTACATATATTTCG
20906625 TA
63 TA
* *
20906627 GCTCTCTTGTCTACATGGTATACACATAGTATCACCCATGCGACCTAGCTACATCATAATCTCTC
1 GCTCTCTTGTCTACATGGTATACACATAGAACCACCCATGCGACCTAGCTACAT-AT-AT-T-TC
20906692 GTA
62 GTA
20906695 GCTCTCTTGT
1 GCTCTCTTGT
20906705 ACACATGATG
Statistics
Matches: 120, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
62 1 0.01
63 14 0.12
64 30 0.25
65 6 0.05
66 27 0.22
67 27 0.22
68 15 0.12
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTATACACATAGAACCACCCATGCGACCTAGCTACATATATTTCGTA
Found at i:20913298 original size:13 final size:13
Alignment explanation
Indices: 20913276--20913308 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
20913266 TTGCTATAGT
*
20913276 TTAG-TTAGTTGA
1 TTAGTTTAGTTAA
20913288 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
20913301 TTAGTTTA
1 TTAGTTTA
20913309 ATAAACAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:20917112 original size:6 final size:6
Alignment explanation
Indices: 20917101--20917144 Score: 70
Period size: 6 Copynumber: 7.2 Consensus size: 6
20917091 TCCTCCTATC
*
20917101 TTTATT TTTATT TTTATT TTTATT TTTATTT TTTATT TTCATT T
1 TTTATT TTTATT TTTATT TTTATT TTTA-TT TTTATT TTTATT T
20917145 CAATTTTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
6 30 0.83
7 6 0.17
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTATT
Found at i:20917124 original size:18 final size:19
Alignment explanation
Indices: 20917101--20917159 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
20917091 TCCTCCTATC
20917101 TTTATTTTTA-TTTTTATT
1 TTTATTTTTATTTTTTATT
20917119 TTTATTTTTATTTTTTATT
1 TTTATTTTTATTTTTTATT
* **
20917138 TTCATTTCAATTTTATTATT
1 TTTATTTTTATTTT-TTATT
20917158 TT
1 TT
20917160 CTTTTGAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
18 10 0.28
19 19 0.53
20 7 0.19
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTATTTTTATTTTTTATT
Found at i:20917150 original size:25 final size:24
Alignment explanation
Indices: 20917101--20917164 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
20917091 TCCTCCTATC
* * *
20917101 TTTA-TTTTTATTTTTATTTTTATT
1 TTTATTTTTTATTTTCA-TTTCAAT
20917125 TTTATTTTTTATTTTCATTTCAAT
1 TTTATTTTTTATTTTCATTTCAAT
*
20917149 TTTATTATTTTCTTTT
1 TTTATT-TTTTATTTT
20917165 GAAAGACATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
24 15 0.44
25 19 0.56
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTATTTTTTATTTTCATTTCAAT
Found at i:20920027 original size:29 final size:29
Alignment explanation
Indices: 20919985--20920113 Score: 156
Period size: 29 Copynumber: 4.5 Consensus size: 29
20919975 GAGATTGGCG
*
20919985 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTTAAATTGTACAGCA
*
20920014 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTTAAATTGTACAGCA
* *
20920043 CTAAGTGTGCGAGTTTGATTATGT--AGCA
1 CTAAGTGTGCGAGTTTAAAT-TGTACAGCA
* * * *
20920071 CTAAGTGTCCGAGTTT-GATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTGTACAGCA
20920099 CTAAGTGTGCGAGTT
1 CTAAGTGTGCGAGTT
20920114 GATTATATAG
Statistics
Matches: 89, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
26 2 0.02
27 1 0.01
28 37 0.42
29 46 0.52
30 3 0.03
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.33
Consensus pattern (29 bp):
CTAAGTGTGCGAGTTTAAATTGTACAGCA
Found at i:20920083 original size:28 final size:28
Alignment explanation
Indices: 20919985--20920134 Score: 176
Period size: 28 Copynumber: 5.3 Consensus size: 28
20919975 GAGATTGGCG
* * * *
20919985 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
* * * *
20920014 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
20920043 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
20920071 CTAAGTGTCCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
20920099 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
20920126 CTGAGTGTG
1 CTAAGTGTG
20920135 TAACACCCCT
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.20
28 46 0.41
29 44 0.39
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:20921505 original size:26 final size:26
Alignment explanation
Indices: 20921476--20921528 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
20921466 ACCAATGAAA
*
20921476 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
20921502 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
20921528 T
1 T
20921529 TTCACATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.34, G:0.23, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:20921519 original size:104 final size:103
Alignment explanation
Indices: 20921339--20921604 Score: 414
Period size: 104 Copynumber: 2.6 Consensus size: 103
20921329 TAGCCGTTAT
*
20921339 TGGTGGATCCCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGAT-ACGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
20921403 GAATCAGCACATAGCAACCCCCCTTT-TCATTTCAAAGATA
65 GAATCAGCACATAGCAA--CCCCTTTCACATTTCAAAGATA
20921443 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTC-GGG
1 TGGTGGATA-CGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
20921507 GAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATA
* * *
20921546 TGGTGGATCACGCACATAGCACCACCCAT-AAATCGGGGAATCAGCACATAGCAACCCCT
1 TGGTGGAT-ACGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCT
20921605 TTTATATACA
Statistics
Matches: 153, Mismatches: 5, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
102 36 0.24
103 38 0.25
104 49 0.32
105 30 0.20
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (103 bp):
TGGTGGATACGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCTTTCACATTTCAAAGATA
Found at i:20928537 original size:103 final size:103
Alignment explanation
Indices: 20928349--20928714 Score: 589
Period size: 103 Copynumber: 3.6 Consensus size: 103
20928339 TAACCGTTAT
* *
20928349 TGGTGGAT-CCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
20928413 AATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
20928451 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
20928516 AATCAGCACATAGCAACCCCC-TTTCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
20928553 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTC-GGG
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
20928617 GAATCAGCACATAGCAA-CCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * * **
20928656 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
20928715 TTTATATACA
Statistics
Matches: 250, Mismatches: 9, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
101 4 0.02
102 102 0.41
103 143 0.57
104 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.20
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:20928615 original size:26 final size:26
Alignment explanation
Indices: 20928586--20928638 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
20928576 ACCAATGAAA
*
20928586 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
20928612 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
20928638 T
1 T
20928639 TTCACATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.34, G:0.23, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:20937583 original size:29 final size:29
Alignment explanation
Indices: 20937541--20937669 Score: 156
Period size: 29 Copynumber: 4.5 Consensus size: 29
20937531 GAGATTGGCG
*
20937541 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTTAAATTGTACAGCA
*
20937570 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTTAAATTGTACAGCA
* *
20937599 CTAAGTGTGCGAGTTTGATTATGT--AGCA
1 CTAAGTGTGCGAGTTTAAAT-TGTACAGCA
* * *
20937627 CTAAGTGTGCGAGTTT-GATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTGTACAGCA
*
20937655 CTAAGTGTGTGAGTT
1 CTAAGTGTGCGAGTT
20937670 GATTATATAG
Statistics
Matches: 90, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
26 2 0.02
27 1 0.01
28 38 0.42
29 46 0.51
30 3 0.03
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (29 bp):
CTAAGTGTGCGAGTTTAAATTGTACAGCA
Found at i:20937679 original size:27 final size:28
Alignment explanation
Indices: 20937541--20937692 Score: 180
Period size: 28 Copynumber: 5.4 Consensus size: 28
20937531 GAGATTGGCG
* * * *
20937541 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
* * * *
20937570 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
20937599 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
20937627 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
20937655 CTAAGTGTGTGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
20937682 CTGAGTGTGCG
1 CTAAGTGTGCG
20937693 GACTTAATAT
Statistics
Matches: 114, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.20
28 47 0.41
29 44 0.39
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:20937689 original size:55 final size:57
Alignment explanation
Indices: 20937541--20937692 Score: 182
Period size: 55 Copynumber: 2.7 Consensus size: 57
20937531 GAGATTGGCG
* * * * * *
20937541 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTTAAATTATACAGCA
* * *
20937599 CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTT-GATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTAAATTATACAGCA
* *
20937655 CTAAGTGTGTGAG-TTGATTATATAGCACTGAGTGTGCG
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCG
20937693 GACTTAATAT
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
55 23 0.28
56 21 0.26
57 23 0.28
58 15 0.18
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (57 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTAAATTATACAGCA
Found at i:20937703 original size:27 final size:27
Alignment explanation
Indices: 20937595--20937705 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 27
20937585 TAAATTGTAC
* * * *
20937595 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGGGA-CTTGAATATAT
* * *
20937623 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGGGA-CTTGAATATAT
* * *
20937651 AGCACTAAGTGTGTGAGTTGATTATAT
1 AGCACTAAGTGTGGGACTTGAATATAT
*
20937678 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTG-GGACTTGAATATAT
20937705 A
1 A
20937706 CTTTTGAATC
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 29 0.39
28 46 0.61
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGGGACTTGAATATAT
Found at i:20941077 original size:13 final size:13
Alignment explanation
Indices: 20941055--20941087 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
20941045 TTGCTTTAGT
20941055 TTAG-TTAGTTAA
1 TTAGTTTAGTTAA
20941067 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
20941080 TTAGTTTA
1 TTAGTTTA
20941088 ATAAACAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:20950758 original size:60 final size:60
Alignment explanation
Indices: 20950691--20950810 Score: 204
Period size: 60 Copynumber: 2.0 Consensus size: 60
20950681 ATCCAGCTAT
* * * *
20950691 TATCAGTTGCGAGTTGAGGAGTCGGGCGTGCCTAAGACAGCTTTCGGAATGAGGTATGGC
1 TATCAGTTGCGAGTTAAAGAGTCGGGCATGCCTAAGACAGCTTTCAGAATGAGGTATGGC
20950751 TATCAGTTGCGAGTTAAAGAGTCGGGCATGCCTAAGACAGCTTTCAGAATGAGGTATGGC
1 TATCAGTTGCGAGTTAAAGAGTCGGGCATGCCTAAGACAGCTTTCAGAATGAGGTATGGC
20950811 CACTATGAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (60 bp):
TATCAGTTGCGAGTTAAAGAGTCGGGCATGCCTAAGACAGCTTTCAGAATGAGGTATGGC
Found at i:20967810 original size:23 final size:23
Alignment explanation
Indices: 20967783--20967834 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
20967773 TGTCCTGAAG
20967783 CACACAGACATGTGCTTTGCCTC
1 CACACAGACATGTGCTTTGCCTC
* * * *
20967806 TACACGGGCGTGTGCTTTGCCTC
1 CACACAGACATGTGCTTTGCCTC
20967829 CACACA
1 CACACA
20967835 TAAGTGTGAG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.19, C:0.35, G:0.21, T:0.25
Consensus pattern (23 bp):
CACACAGACATGTGCTTTGCCTC
Found at i:20973417 original size:75 final size:76
Alignment explanation
Indices: 20973294--20973447 Score: 274
Period size: 75 Copynumber: 2.0 Consensus size: 76
20973284 AATTACCATG
*
20973294 TTAGAGTGTTTGGTATTTAAGTAGTATTAATTGTTAACTAAGAAATGTAATAATGTGTTGTAC-T
1 TTAGAGTGTTTGGTATTTAAGTAGTATAAATTGTTAACTAAGAAATGTAATAATGTGTTGTACTT
20973358 TTTTTTATAAA
66 TTTTTTATAAA
*
20973369 TTAGAGTGTTTGGTATTTAAGTAGTGTAAATTGTTAACTAAGAAATGTAATAATGTGTTGTACTT
1 TTAGAGTGTTTGGTATTTAAGTAGTATAAATTGTTAACTAAGAAATGTAATAATGTGTTGTAC-T
20973434 TTTTTTTATAAA
65 TTTTTTTATAAA
20973446 TT
1 TT
20973448 TGGTGAATAT
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
75 61 0.81
77 14 0.19
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.47
Consensus pattern (76 bp):
TTAGAGTGTTTGGTATTTAAGTAGTATAAATTGTTAACTAAGAAATGTAATAATGTGTTGTACTT
TTTTTTATAAA
Found at i:20974548 original size:26 final size:26
Alignment explanation
Indices: 20974517--20974566 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
20974507 TCTGATTAGA
20974517 ATTTTCATATTTTCAAAACATATATC
1 ATTTTCATATTTTCAAAACATATATC
*
20974543 ATTTTCATATTTTCAGAACATATA
1 ATTTTCATATTTTCAAAACATATA
20974567 GCATATCAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.38, C:0.14, G:0.02, T:0.46
Consensus pattern (26 bp):
ATTTTCATATTTTCAAAACATATATC
Found at i:20976593 original size:40 final size:40
Alignment explanation
Indices: 20976531--20976780 Score: 327
Period size: 39 Copynumber: 6.4 Consensus size: 40
20976521 AAGCCAAGTA
* * * * *
20976531 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
20976570 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
20976610 CCTTCGGGACTTAGCCC-GATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
20976649 CCTT-GGGACTTAGCCC-GA-ATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
20976686 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
20976726 CCTTCGGGACTTAG-CCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
20976765 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
20976781 TGGTTATCAT
Statistics
Matches: 191, Mismatches: 13, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
37 22 0.12
38 27 0.14
39 73 0.38
40 69 0.36
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:20984750 original size:40 final size:40
Alignment explanation
Indices: 20984723--20984861 Score: 192
Period size: 40 Copynumber: 3.5 Consensus size: 40
20984713 TACTTGCTCG
*
20984723 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACC
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACA
* *
20984763 AATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCACA
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACA
* *
20984803 AATGCCTTCGGGACATAGCCCGGA-ACTAGTCACTAG-AGCA
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCA-CA
*
20984843 AATGCCTTCGGGACTTAGC
1 AATGCCTTCGGGACATAGC
20984862 TCGGTTATCA
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 2 0.02
40 87 0.98
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (40 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACA
Found at i:20992475 original size:46 final size:45
Alignment explanation
Indices: 20992425--20992596 Score: 215
Period size: 46 Copynumber: 3.8 Consensus size: 45
20992415 TGGTTGAGCA
20992425 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
20992471 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
20992517 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
20992563 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
20992597 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 96 0.89
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:20992579 original size:92 final size:92
Alignment explanation
Indices: 20992422--20992591 Score: 313
Period size: 92 Copynumber: 1.8 Consensus size: 92
20992412 GGATGGTTGA
* *
20992422 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
20992487 TGAGTCCGAGTTCGTGAATGTAACTAG
66 TGAGTCCGAGTTCGTGAATGTAACTAG
*
20992514 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
20992579 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
20992592 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:20998881 original size:46 final size:46
Alignment explanation
Indices: 20998735--20998904 Score: 204
Period size: 46 Copynumber: 3.7 Consensus size: 46
20998725 GGTTGAGCAT
* *
20998735 CCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * * * *
20998780 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTA-AC-TAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATGGATGCGAACGC
20998824 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
20998872 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
20998905 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
44 2 0.02
45 22 0.21
46 75 0.72
47 2 0.02
48 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:20998887 original size:92 final size:91
Alignment explanation
Indices: 20998731--20998899 Score: 302
Period size: 92 Copynumber: 1.8 Consensus size: 91
20998721 GGATGGTTGA
* *
20998731 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
20998796 GAGTCCGAGTTCGTGAATGTAACTAG
66 GAGTCCGAGTTCGTGAATGTAACTAG
*
20998822 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
20998887 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
20998900 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
91 24 0.32
92 50 0.68
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (91 bp):
GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAATGTAACTAG
Found at i:21006333 original size:46 final size:46
Alignment explanation
Indices: 21006283--21006408 Score: 216
Period size: 46 Copynumber: 2.7 Consensus size: 46
21006273 TGGTTGAGCA
*
21006283 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
21006329 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
21006375 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
21006409 GGGGCGGGTT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:21008289 original size:17 final size:18
Alignment explanation
Indices: 21008257--21008291 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
21008247 CCGCGTTGTT
21008257 CACCCGTATGGGCCCACA
1 CACCCGTATGGGCCCACA
*
21008275 CACCCGTGT-GGCCCACA
1 CACCCGTATGGGCCCACA
21008292 TGACCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.20, C:0.46, G:0.23, T:0.11
Consensus pattern (18 bp):
CACCCGTATGGGCCCACA
Found at i:21022582 original size:16 final size:16
Alignment explanation
Indices: 21022563--21022594 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21022553 AATTGTTTTA
21022563 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
21022579 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
21022595 ACTTCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:21024124 original size:13 final size:13
Alignment explanation
Indices: 21024106--21024133 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
21024096 TAGAAATTCG
21024106 TTAATGGTACATT
1 TTAATGGTACATT
21024119 TTAATGGTACATT
1 TTAATGGTACATT
21024132 TT
1 TT
21024134 CCCCTATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (13 bp):
TTAATGGTACATT
Found at i:21027255 original size:23 final size:23
Alignment explanation
Indices: 21027212--21027255 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
21027202 CCAATTCAAT
*
21027212 ATATTTTCAAGATAAATTCATGC
1 ATATTTTCAAGATAAAGTCATGC
*
21027235 ATATTTAT-AAGATAACGTCAT
1 ATATTT-TCAAGATAAAGTCAT
21027256 CACATACCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.94
24 1 0.06
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (23 bp):
ATATTTTCAAGATAAAGTCATGC
Found at i:21031849 original size:19 final size:19
Alignment explanation
Indices: 21031825--21031866 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
21031815 TGGGTAGGAC
21031825 CTGCATACTACACTAATTA
1 CTGCATACTACACTAATTA
* *
21031844 CTGCATACTGCACTATTTA
1 CTGCATACTACACTAATTA
21031863 CTGC
1 CTGC
21031867 TACAGTAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (19 bp):
CTGCATACTACACTAATTA
Found at i:21038350 original size:22 final size:22
Alignment explanation
Indices: 21038322--21038367 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
21038312 GCTTGAATTA
* *
21038322 ATTGTCTTGTATTGTTTTGTTT
1 ATTGTCTTGTATTCTTTTATTT
21038344 ATTGTCTTGTATTCTTTTATTT
1 ATTGTCTTGTATTCTTTTATTT
21038366 AT
1 AT
21038368 GTGTTAAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.13, C:0.07, G:0.13, T:0.67
Consensus pattern (22 bp):
ATTGTCTTGTATTCTTTTATTT
Found at i:21049334 original size:50 final size:50
Alignment explanation
Indices: 21049270--21049612 Score: 352
Period size: 50 Copynumber: 6.8 Consensus size: 50
21049260 AACAATCCGG
* *
21049270 TACACGTAGTAGCCTGCACTTAGTCCTACACACGTGACCTAACCATCTGA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGA
* * * * *
21049320 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGTTGTCGGG
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA-CTATCTGA
* * * * * * *
21049371 TACGCATAGTATCTTGCACTTAGTACTACACATGCGA-CTAACTATCTGG
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGA
* * * *
21049420 TACACGTAGTAGCCTGCACATAGTACTTCACACATGACCTAACCATCTGA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGA
* * *
21049470 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGTTGTCAT-A
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA-CTATC-TGA
** * * * * *
21049521 TATGCATAGTAGCCTGCACTTAGTACAACACATGCGACCTAACTATCTGG
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGA
*
21049571 TACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
21049613 AACCATGTTA
Statistics
Matches: 233, Mismatches: 52, Indels: 16
0.77 0.17 0.05
Matches are distributed among these distances:
49 36 0.15
50 124 0.53
51 71 0.30
52 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (50 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGA
Found at i:21049452 original size:150 final size:150
Alignment explanation
Indices: 21049219--21049650 Score: 603
Period size: 150 Copynumber: 2.9 Consensus size: 150
21049209 GAAGCTATCT
* * * * * * * *
21049219 GGTACGCATAGTAGCCTGAAGTTCGTAATACACATGCAACCAACAATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTAACTATCTGGTACACGTAGTAGCC
*
21049284 TGCACTTAGTCCTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTAC
66 TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTAC
*
21049349 ACACGTGATTGAAGTTGTCG
131 ACACGTGATTGAAGTTGTCA
* *
21049369 GGTACGCATAGTATCTTGCACTTAGTACTACACATGCGACTAACTATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTAACTATCTGGTACACGTAGTAGCC
* * *
21049434 TGCACATAGTACTTCACACATGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTAC
66 TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTAC
21049499 ACACGTGATTGAAGTTGTCA
131 ACACGTGATTGAAGTTGTCA
** * * *
21049519 TATATGCATAGTAGCCTGCACTTAGTACAACACATGCGACCTAACTATCTGGTACATGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-CTAACTATCTGGTACACGTAGTAGC
* * * * * *
21049584 CTGCACTTAGTACTACACACGTGACCTAAAACCATGTTAAACACATAGTATCCTGCACATAGTAC
65 CTGCACTTAGTACTACACACGTGACCT--AACCATCTGATACACGTAGTAGCCTGCACTTAGTAC
21049649 TA
128 TA
21049651 TACATGTGTT
Statistics
Matches: 248, Mismatches: 31, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
150 168 0.68
151 48 0.19
153 32 0.13
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (150 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTAACTATCTGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTAC
ACACGTGATTGAAGTTGTCA
Found at i:21049569 original size:101 final size:100
Alignment explanation
Indices: 21049426--21049607 Score: 285
Period size: 101 Copynumber: 1.8 Consensus size: 100
21049416 CTGGTACACG
*
21049426 TAGTAGCCTGCACATAGTACTTCACACATGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACATAGTAC-TAACACATGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
21049491 AGTACTACACACGTGATTGAAGTTGTCATATATGCA
65 AGTACTACACACGTGATTGAAGTTGTCATATATGCA
* * * *
21049527 TAGTAGCCTGCACTTAGTAC-AACACATGCGACCTAACTATCTGGTACATGTAGTAGCCTGCACT
1 TAGTAGCCTGCACATAGTACTAACACAT--GACCTAACCATCTGATACACGTAGTAGCCTGCACT
21049591 TAGTACTACACACGTGA
64 TAGTACTACACACGTGA
21049608 CCTAAAACCA
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
99 6 0.08
101 68 0.92
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (100 bp):
TAGTAGCCTGCACATAGTACTAACACATGACCTAACCATCTGATACACGTAGTAGCCTGCACTTA
GTACTACACACGTGATTGAAGTTGTCATATATGCA
Found at i:21058407 original size:30 final size:30
Alignment explanation
Indices: 21058373--21058433 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
21058363 TCCTTAACTC
21058373 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
21058403 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
21058433 A
1 A
21058434 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:21072402 original size:56 final size:55
Alignment explanation
Indices: 21072314--21072463 Score: 230
Period size: 55 Copynumber: 2.7 Consensus size: 55
21072304 GAGATTGGCG
* * * *
21072314 CTAAGTGTGCGGGTTTAAATTGTATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCA
21072371 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
21072426 CTAAGTGTGCGAG-TTGATTATATAGCACTGAGTGTGCG
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCG
21072464 GACTTAATAT
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
54 24 0.27
55 26 0.30
56 23 0.26
57 15 0.17
ACGTcount: A:0.27, C:0.11, G:0.28, T:0.34
Consensus pattern (55 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:21072423 original size:27 final size:28
Alignment explanation
Indices: 21072314--21072463 Score: 232
Period size: 27 Copynumber: 5.4 Consensus size: 28
21072304 GAGATTGGCG
* * *
21072314 CTAAGTGTGCGGGTTTAAATTGTATAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
21072343 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
21072371 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
21072399 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
21072426 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
21072453 CTGAGTGTGCG
1 CTAAGTGTGCG
21072464 GACTTAATAT
Statistics
Matches: 115, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 51 0.44
28 49 0.43
29 15 0.13
ACGTcount: A:0.27, C:0.11, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:21079457 original size:27 final size:27
Alignment explanation
Indices: 21079427--21079604 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
21079417 ATATTGAGCC
* * *
21079427 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
21079454 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
21079481 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
21079509 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
21079536 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
21079563 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
21079590 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21079605 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:21079520 original size:55 final size:55
Alignment explanation
Indices: 21079427--21079604 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
21079417 ATATTGAGCC
* * *
21079427 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
21079481 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
21079536 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
21079590 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21079605 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:21079566 original size:82 final size:81
Alignment explanation
Indices: 21079448--21079603 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
21079438 TGCTATACAA
* * *
21079448 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
21079513 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
21079530 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
21079594 CACTTAGTGC
65 CACTTAGTGC
21079604 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:21084034 original size:56 final size:55
Alignment explanation
Indices: 21083946--21084095 Score: 230
Period size: 55 Copynumber: 2.7 Consensus size: 55
21083936 GAGATTGGCG
* * * *
21083946 CTAAGTGTGCGGGTTTAAATTGTATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCA
21084003 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
21084058 CTAAGTGTGCGAG-TTGATTATATAGCACTGAGTGTGCG
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCG
21084096 GACTTAATAT
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
54 24 0.27
55 26 0.30
56 23 0.26
57 15 0.17
ACGTcount: A:0.27, C:0.11, G:0.28, T:0.34
Consensus pattern (55 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:21084055 original size:27 final size:28
Alignment explanation
Indices: 21083946--21084095 Score: 232
Period size: 27 Copynumber: 5.4 Consensus size: 28
21083936 GAGATTGGCG
* * *
21083946 CTAAGTGTGCGGGTTTAAATTGTATAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
21083975 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
21084003 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
21084031 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
21084058 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
21084085 CTGAGTGTGCG
1 CTAAGTGTGCG
21084096 GACTTAATAT
Statistics
Matches: 115, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 51 0.44
28 49 0.43
29 15 0.13
ACGTcount: A:0.27, C:0.11, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:21086045 original size:8 final size:8
Alignment explanation
Indices: 21086032--21086069 Score: 67
Period size: 8 Copynumber: 4.8 Consensus size: 8
21086022 ACAAATGCCA
21086032 GCTTTTCG
1 GCTTTTCG
21086040 GCTTTTCG
1 GCTTTTCG
*
21086048 GCTTTTCA
1 GCTTTTCG
21086056 GCTTTTCG
1 GCTTTTCG
21086064 GCTTTT
1 GCTTTT
21086070 GCCGATCTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.03, C:0.24, G:0.21, T:0.53
Consensus pattern (8 bp):
GCTTTTCG
Found at i:21086600 original size:23 final size:21
Alignment explanation
Indices: 21086547--21086600 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 21
21086537 AAAGGAAATT
* *
21086547 AAAGAAGGAAGAGATGAGATA
1 AAAGAAGAAAGAAATGAGATA
21086568 AAAGAAAAGAAAGAAATGAAGAGTA
1 AAAG--AAGAAAGAAATG-AGA-TA
21086593 AAAGAAGA
1 AAAGAAGA
21086601 TAGTTTCGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
21 4 0.15
23 14 0.52
24 3 0.11
25 6 0.22
ACGTcount: A:0.65, C:0.00, G:0.28, T:0.07
Consensus pattern (21 bp):
AAAGAAGAAAGAAATGAGATA
Found at i:21091449 original size:64 final size:64
Alignment explanation
Indices: 21091369--21091552 Score: 210
Period size: 67 Copynumber: 2.8 Consensus size: 64
21091359 AGACATTATG
* * *
21091369 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
21091433 ATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGTAGACAAGAAAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
21091498 AA
63 AA
* * * *
21091500 AT-TGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
21091553 CAAAATTATG
Statistics
Matches: 99, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
62 1 0.01
63 18 0.18
64 26 0.26
66 23 0.23
67 31 0.31
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:21104138 original size:32 final size:32
Alignment explanation
Indices: 21104101--21104164 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
21104091 AAGAGAGAAA
21104101 ACCAAGATGTGACCAAAAATCCCTTGATTTTC
1 ACCAAGATGTGACCAAAAATCCCTTGATTTTC
**
21104133 ACCAAGATGTGACTGAAAATCCCTTGATTTTC
1 ACCAAGATGTGACCAAAAATCCCTTGATTTTC
21104165 TCCCACTATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (32 bp):
ACCAAGATGTGACCAAAAATCCCTTGATTTTC
Found at i:21105060 original size:16 final size:16
Alignment explanation
Indices: 21105039--21105097 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
21105029 AATGCCATTA
21105039 TTCTAAATAATAGTTG
1 TTCTAAATAATAGTTG
*
21105055 TTCTAAACT-TTAGTTG
1 TTCTAAA-TAATAGTTG
* **
21105071 TTCTCAATAGGAGTTG
1 TTCTAAATAATAGTTG
21105087 TTCTCAAATAA
1 TTCT-AAATAA
21105098 CAACACTGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
15 1 0.03
16 28 0.82
17 5 0.15
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (16 bp):
TTCTAAATAATAGTTG
Found at i:21109674 original size:3 final size:3
Alignment explanation
Indices: 21109666--21109709 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
21109656 ACTTTGAGGA
21109666 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
21109710 CATTAACTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:21110156 original size:12 final size:12
Alignment explanation
Indices: 21110139--21110163 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21110129 TATGTATGTT
21110139 TGAAAATTTTTA
1 TGAAAATTTTTA
21110151 TGAAAATTTTTA
1 TGAAAATTTTTA
21110163 T
1 T
21110164 TATTTTCTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TGAAAATTTTTA
Found at i:21110225 original size:3 final size:3
Alignment explanation
Indices: 21110217--21110253 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
21110207 TGTTTATGAA
21110217 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
21110254 GTAATTAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:21110920 original size:100 final size:100
Alignment explanation
Indices: 21110747--21110951 Score: 401
Period size: 100 Copynumber: 2.0 Consensus size: 100
21110737 TGGGCAACTT
*
21110747 GGAGGTCCTAAGTTCGAGTAGCGTTACATGCAAGAGGGTGCTTCTTTTTGCTATACGCACGTGGG
1 GGAGGTCCTAAGTTCGAGCAGCGTTACATGCAAGAGGGTGCTTCTTTTTGCTATACGCACGTGGG
21110812 AAGGACCGTACGGGATTGAAATTCTACCAGCAACA
66 AAGGACCGTACGGGATTGAAATTCTACCAGCAACA
21110847 GGAGGTCCTAAGTTCGAGCAGCGTTACATGCAAGAGGGTGCTTCTTTTTGCTATACGCACGTGGG
1 GGAGGTCCTAAGTTCGAGCAGCGTTACATGCAAGAGGGTGCTTCTTTTTGCTATACGCACGTGGG
21110912 AAGGACCGTACGGGATTGAAATTCTACCAGCAACA
66 AAGGACCGTACGGGATTGAAATTCTACCAGCAACA
21110947 GGAGG
1 GGAGG
21110952 AGTTGGCTAA
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 104 1.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (100 bp):
GGAGGTCCTAAGTTCGAGCAGCGTTACATGCAAGAGGGTGCTTCTTTTTGCTATACGCACGTGGG
AAGGACCGTACGGGATTGAAATTCTACCAGCAACA
Found at i:21112361 original size:26 final size:25
Alignment explanation
Indices: 21112333--21112381 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
21112323 TTATAATACA
** *
21112333 AAAAATGACTGTTTTACCCCTAGGT
1 AAAAATGACCATTGTACCCCTAGGT
21112358 AAAAATGACCATTGTACCCCTAGG
1 AAAAATGACCATTGTACCCCTAGG
21112382 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (25 bp):
AAAAATGACCATTGTACCCCTAGGT
Found at i:21112530 original size:25 final size:25
Alignment explanation
Indices: 21112494--21112588 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
21112484 GAGGAAGTGC
*
21112494 AAAAGGGTTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
21112519 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* * *
21112544 AAAAGGGTTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCG
21112569 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
21112589 ATTAAAAGAG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:21112573 original size:50 final size:50
Alignment explanation
Indices: 21112494--21112588 Score: 163
Period size: 50 Copynumber: 1.9 Consensus size: 50
21112484 GAGGAAGTGC
* *
21112494 AAAAGGGTTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGTTTTGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTACCG
*
21112544 AAAAGGGTTTTGCCCCAGTTTATCAAAAAGGGCTTTGCCCCAGTT
1 AAAAGGGTTTTGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTT
21112589 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (50 bp):
AAAAGGGTTTTGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:21112601 original size:24 final size:24
Alignment explanation
Indices: 21112493--21112615 Score: 83
Period size: 25 Copynumber: 5.0 Consensus size: 24
21112483 GGAGGAAGTG
* *
21112493 CAAAAG-GGTTTTGCCCCAGTTTAC
1 CAAAAGAGGCTTTGCCCCAG-TTAT
* *
21112517 CGAAAAG-GGCTTTGCCCTAGTTTAC
1 C-AAAAGAGGCTTTGCCCCAG-TTAT
*
21112542 CGAAAAG-GGTTTTGCCCCAGTTTAT
1 C-AAAAGAGGCTTTGCCCCAG-TTAT
21112567 CAAAA-AGGGCTTTGCCCCAGTTAT
1 CAAAAGA-GGCTTTGCCCCAGTTAT
* **
21112591 TAAAAGAGGCTAGGCCTCCAGTTAT
1 CAAAAGAGGCTTTGCC-CCAGTTAT
21112616 ATGATAAAGT
Statistics
Matches: 85, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
24 20 0.24
25 65 0.76
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (24 bp):
CAAAAGAGGCTTTGCCCCAGTTAT
Found at i:21112843 original size:30 final size:31
Alignment explanation
Indices: 21112809--21112891 Score: 125
Period size: 30 Copynumber: 2.7 Consensus size: 31
21112799 CGTTTACAGT
21112809 AAAGGCTTCGGCCCAGTGATATG-ATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
21112839 AAAGGCTTCGGCCCAGTGACATGAATAATGC
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
21112870 AAAGGCTTTGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
21112892 TTGAGATTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 26 0.54
31 22 0.46
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:21114604 original size:35 final size:35
Alignment explanation
Indices: 21114530--21114610 Score: 99
Period size: 35 Copynumber: 2.3 Consensus size: 35
21114520 TAGAGACAGT
* * * *
21114530 CAGACACAGATTCAGGCTTAAGCCTATTACTGATC
1 CAGATACAGATTCAGGCTTAAGCCCATTACAGATA
* * *
21114565 CAGATGCAGATTCGGGCTTAAGCCCATTCCAGATA
1 CAGATACAGATTCAGGCTTAAGCCCATTACAGATA
21114600 CAGATACAGAT
1 CAGATACAGAT
21114611 ACAAATACAG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (35 bp):
CAGATACAGATTCAGGCTTAAGCCCATTACAGATA
Found at i:21114605 original size:6 final size:6
Alignment explanation
Indices: 21114594--21114623 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
21114584 AAGCCCATTC
*
21114594 CAGATA CAGATA CAGATA CAAATA CAGATA
1 CAGATA CAGATA CAGATA CAGATA CAGATA
21114624 TGCAAATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.53, C:0.17, G:0.13, T:0.17
Consensus pattern (6 bp):
CAGATA
Found at i:21116298 original size:43 final size:43
Alignment explanation
Indices: 21116178--21116341 Score: 174
Period size: 43 Copynumber: 3.8 Consensus size: 43
21116168 AGCTCGTACA
*
21116178 ATGCCAACGTCCCAGATGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACGTAAATCAAATA-CG
** * *
21116221 ATGCCATTGTCCTAGATAG-GGTCTTACAC-AAAATCAAATACG
1 ATGCCAACGTCCCAGAT-GTGGTCTTACACGTAAATCAAATACG
* *
21116263 ATGCCAACGTCTCATATGTGGTCTTACACGTAAATCATAAGT-CG
1 ATGCCAACGTCCCAGATGTGGTCTTACACGTAAATCA-AA-TACG
* *
21116307 ATGCCAACGTCCCAGACGAGGTCTTACACAGTAAA
1 ATGCCAACGTCCCAGATGTGGTCTTACAC-GTAAA
21116342 ACATATCAAA
Statistics
Matches: 99, Mismatches: 15, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
41 1 0.01
42 24 0.24
43 38 0.38
44 30 0.30
45 6 0.06
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGATGTGGTCTTACACGTAAATCAAATACG
Found at i:21116335 original size:86 final size:85
Alignment explanation
Indices: 21116178--21116336 Score: 205
Period size: 86 Copynumber: 1.9 Consensus size: 85
21116168 AGCTCGTACA
* ** * *
21116178 ATGCCAACGTCCCAGATGTGGTCTTACATGTAATCAAATATCGATGCCATTGTCCTAGATAGGGT
1 ATGCCAACGTCCCAGATGTGGTCTTACACGTAATCAAATATCGATGCCAACGTCCCAGAGAGGGT
21116243 CTTACACAAAATCAAATACG
66 CTTACACAAAATCAAATACG
* * *
21116263 ATGCCAACGTCTCATATGTGGTCTTACACGTAAATCATAA-GTCGATGCCAACGTCCCAGACGA-
1 ATGCCAACGTCCCAGATGTGGTCTTACACGT-AATCA-AATATCGATGCCAACGTCCCAGA-GAG
21116326 GGTCTTACACA
63 GGTCTTACACA
21116337 GTAAAACATA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
85 28 0.44
86 32 0.51
87 3 0.05
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (85 bp):
ATGCCAACGTCCCAGATGTGGTCTTACACGTAATCAAATATCGATGCCAACGTCCCAGAGAGGGT
CTTACACAAAATCAAATACG
Found at i:21121706 original size:50 final size:50
Alignment explanation
Indices: 21121624--21121799 Score: 246
Period size: 50 Copynumber: 3.5 Consensus size: 50
21121614 TGATAATACG
* * *
21121624 ATCGGTACAAAGCC-ACTGATAATAGATTGGCACATAACCATCAATATCAT
1 ATCGGTACAAAGCCAAC-GATAACAGATCGGCACATAGCCATCAATATCAT
* *
21121674 ATCGGCACAAAGACAACGATAACAGATCGGCACATAGCCATCAATATCAT
1 ATCGGTACAAAGCCAACGATAACAGATCGGCACATAGCCATCAATATCAT
* ** *
21121724 ATCGGGACAAAGCCATTGATAATAGATCGGCACATAGCCATCAATATCAT
1 ATCGGTACAAAGCCAACGATAACAGATCGGCACATAGCCATCAATATCAT
*
21121774 ATCGGTACAAAGCCATCGATAACAGA
1 ATCGGTACAAAGCCAACGATAACAGA
21121800 ATAATTGGCT
Statistics
Matches: 112, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
50 110 0.98
51 2 0.02
ACGTcount: A:0.40, C:0.23, G:0.16, T:0.20
Consensus pattern (50 bp):
ATCGGTACAAAGCCAACGATAACAGATCGGCACATAGCCATCAATATCAT
Found at i:21121787 original size:25 final size:25
Alignment explanation
Indices: 21121652--21121790 Score: 138
Period size: 25 Copynumber: 5.6 Consensus size: 25
21121642 ATAATAGATT
21121652 GGCACATAA-CCATCAATATCATATC
1 GGCACA-AAGCCATCAATATCATATC
* * * * *
21121677 GGCACAAAGACAACGATAACAGATC
1 GGCACAAAGCCATCAATATCATATC
*
21121702 GGCACATAGCCATCAATATCATATC
1 GGCACAAAGCCATCAATATCATATC
* ** *
21121727 GGGACAAAGCCATTGATAAT-AGATC
1 GGCACAAAGCCATCAAT-ATCATATC
*
21121752 GGCACATAGCCATCAATATCATATC
1 GGCACAAAGCCATCAATATCATATC
*
21121777 GGTACAAAGCCATC
1 GGCACAAAGCCATC
21121791 GATAACAGAA
Statistics
Matches: 88, Mismatches: 23, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
24 4 0.05
25 82 0.93
26 2 0.02
ACGTcount: A:0.40, C:0.25, G:0.16, T:0.19
Consensus pattern (25 bp):
GGCACAAAGCCATCAATATCATATC
Found at i:21121986 original size:41 final size:41
Alignment explanation
Indices: 21121941--21122031 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 41
21121931 AAAAGCCACT
* * *
21121941 GTGGATCCACGGTAATCAAGCAACCATGTGATCCTTAATCA
1 GTGGATCCACGATAATCAAGCAACCATGCGATCCTCAATCA
** * *
21121982 GTGGATCCACGATTGTCAAGTAACCATGCGATCCTCAATCG
1 GTGGATCCACGATAATCAAGCAACCATGCGATCCTCAATCA
21122023 GTGGATCCA
1 GTGGATCCA
21122032 AAGTCGTCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (41 bp):
GTGGATCCACGATAATCAAGCAACCATGCGATCCTCAATCA
Found at i:21122041 original size:41 final size:41
Alignment explanation
Indices: 21121956--21122061 Score: 124
Period size: 41 Copynumber: 2.6 Consensus size: 41
21121946 TCCACGGTAA
* * * *
21121956 TCAAGCAACCATGTGATCCTTAATCAGTGGATCCACGATTG
1 TCAAGCAACCATGCGATCCTCAATCAGTGGATCCAAGATCG
* *
21121997 TCAAGTAACCATGCGATCCTCAATCGGTGGATCCAA-AGTCG
1 TCAAGCAACCATGCGATCCTCAATCAGTGGATCCAAGA-TCG
* *
21122038 TCAAACAACCATGCGGTCCTCAAT
1 TCAAGCAACCATGCGATCCTCAAT
21122062 TTCTTCCTTC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 1 0.02
41 54 0.98
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (41 bp):
TCAAGCAACCATGCGATCCTCAATCAGTGGATCCAAGATCG
Found at i:21122351 original size:27 final size:27
Alignment explanation
Indices: 21122321--21122641 Score: 245
Period size: 27 Copynumber: 11.9 Consensus size: 27
21122311 GGTAAATCTA
* *
21122321 CAAACCAAGGGTATTTCAGTAATTTTG
1 CAAATCAAGGGTATTTTAGTAATTTTG
* ** *
21122348 CAAACCAATAGTATTTTTGTAATTTTTG
1 CAAATCAAGGGTATTTTAGTAA-TTTTG
*
21122376 -AAAGTCAAGGGTATTTTTGTAATTTTG
1 CAAA-TCAAGGGTATTTTAGTAATTTTG
* * * *
21122403 TAAATCAAGAGTATTTTTGTAATTTTC
1 CAAATCAAGGGTATTTTAGTAATTTTG
* * *
21122430 CAAATCAAAGGTATTTCAGTAATTTTC
1 CAAATCAAGGGTATTTTAGTAATTTTG
* * * * *
21122457 CAAGTTAGGGGTATTTTGGTAATTTTA
1 CAAATCAAGGGTATTTTAGTAATTTTG
* * **
21122484 CAAATCGAGGGTATTTCAGTAATTTCA
1 CAAATCAAGGGTATTTTAGTAATTTTG
* * *
21122511 CAAATCAGGGGTATTTTGGTAATTTTA
1 CAAATCAAGGGTATTTTAGTAATTTTG
* * * *
21122538 CAAATTAGGGGTATTTTGGTAATTTTA
1 CAAATCAAGGGTATTTTAGTAATTTTG
* *
21122565 CAAA-CTAGGGGTATTTTGGTAATTTTG
1 CAAATC-AAGGGTATTTTAGTAATTTTG
* *
21122592 TAAACCAAGGGTA-TTTAGTAATTTTG
1 CAAATCAAGGGTATTTTAGTAATTTTG
* * *
21122618 TAAA-CTAATGGTATTTCAGTAATT
1 CAAATC-AAGGGTATTTTAGTAATT
21122642 CTACCCTATA
Statistics
Matches: 246, Mismatches: 41, Indels: 14
0.82 0.14 0.05
Matches are distributed among these distances:
25 1 0.00
26 22 0.09
27 199 0.81
28 24 0.10
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (27 bp):
CAAATCAAGGGTATTTTAGTAATTTTG
Found at i:21122471 original size:54 final size:54
Alignment explanation
Indices: 21122302--21122616 Score: 294
Period size: 54 Copynumber: 5.8 Consensus size: 54
21122292 CACCCTACAA
* * * * * * *
21122302 GGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGCAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTCCAAATCAG
** * ** ** ** *
21122356 TAGTATTTTTGTAATTTTTGAAAGTCAAGGGTATTTTTGTAATTTTGTAAATCAA
1 GGGTATTTTGGTAATTTTACAAA-TCAAGGGTATTTCAGTAATTTTCCAAATCAG
* * * * * *
21122411 GAGTATTTTTGTAATTTTCCAAATCAAAGGTATTTCAGTAATTTTCCAAGTTAG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTCCAAATCAG
*
21122465 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAA-TTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTC-CAAATCAG
* * ** *
21122519 GGGTATTTTGGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTACAAA-CTAG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTCCAAATC-AG
** *
21122573 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTT-AGTAATTTT
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTT
21122617 GTAAACTAAT
Statistics
Matches: 214, Mismatches: 43, Indels: 9
0.80 0.16 0.03
Matches are distributed among these distances:
53 13 0.06
54 152 0.71
55 49 0.23
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTCCAAATCAG
Found at i:21122499 original size:81 final size:81
Alignment explanation
Indices: 21122302--21122616 Score: 289
Period size: 81 Copynumber: 3.9 Consensus size: 81
21122292 CACCCTACAA
* * * * * *
21122302 GGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGCAAACCAATA-GTATTTTT
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTCCAAACCAA-AGGTATTTTA
* *
21122366 GTAATTTTTGA-AAGTCAA
65 GTAA-TTTT-ACAAGTTAG
* ** * ** * *
21122384 GGGTATTTTTGTAATTTTGTAAATCAAGAGTATTTTTGTAATTTTCCAAATCAAAGGTATTTCAG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTCCAAACCAAAGGTATTTTAG
*
21122449 TAATTTTCCAAGTTAG
66 TAATTTTACAAGTTAG
* * ** *
21122465 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAA-TTTCACAAATCAGGGGTATTTTG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTC-CAAACCAAAGGTATTTTA
*
21122529 GTAATTTTACAAATTAG
65 GTAATTTTACAAGTTAG
* ** ** *
21122546 GGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTA-TTTA
1 GGGTATTTTGGTAATTTTACAAATC-AAGGGTATTTCAGTAATTTTCCAAACCAAAGGTATTTTA
21122609 GTAATTTT
65 GTAATTTT
21122617 GTAAACTAAT
Statistics
Matches: 189, Mismatches: 39, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
80 16 0.08
81 118 0.62
82 55 0.29
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTCCAAACCAAAGGTATTTTAG
TAATTTTACAAGTTAG
Found at i:21122660 original size:27 final size:27
Alignment explanation
Indices: 21122630--21122703 Score: 130
Period size: 27 Copynumber: 2.7 Consensus size: 27
21122620 AACTAATGGT
21122630 ATTTCAGTAATTCTACCCTATAGGGGC
1 ATTTCAGTAATTCTACCCTATAGGGGC
21122657 ATTTCAGTAATTCTACCCTATAGGGGC
1 ATTTCAGTAATTCTACCCTATAGGGGC
* *
21122684 ATTTCAGTAATACTAGCCTA
1 ATTTCAGTAATTCTACCCTA
21122704 CAGATTTCAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTATAGGGGC
Found at i:21125522 original size:25 final size:25
Alignment explanation
Indices: 21125487--21125556 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
21125477 AATACGATCA
*
21125487 GCACAAAGCCATCGATAACAAATCG
1 GCACAAAGCCATCAATAACAAATCG
** * *
21125512 GCACATGGCCATCAATATCATATCG
1 GCACAAAGCCATCAATAACAAATCG
*
21125537 GTACAAAGCCATCAATAACA
1 GCACAAAGCCATCAATAACA
21125557 GAATAATTGG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.41, C:0.27, G:0.14, T:0.17
Consensus pattern (25 bp):
GCACAAAGCCATCAATAACAAATCG
Found at i:21125756 original size:41 final size:41
Alignment explanation
Indices: 21125699--21125821 Score: 192
Period size: 41 Copynumber: 3.0 Consensus size: 41
21125689 TTAAAGCCAC
21125699 CGGTGGATCCATAGTCATCAAGCAACCATGCGATCCTTAAT
1 CGGTGGATCCATAGTCATCAAGCAACCATGCGATCCTTAAT
* * * *
21125740 CGGTGGGTCCATAGTCATCAAGCAACCGTGCTATCCTGAAT
1 CGGTGGATCCATAGTCATCAAGCAACCATGCGATCCTTAAT
* *
21125781 CGGTGGATCCACAGTCGTCAAGCAACCATGCGATCCTTAAT
1 CGGTGGATCCATAGTCATCAAGCAACCATGCGATCCTTAAT
21125822 TTCTTCCTTC
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
CGGTGGATCCATAGTCATCAAGCAACCATGCGATCCTTAAT
Found at i:21126077 original size:26 final size:27
Alignment explanation
Indices: 21126047--21126102 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
21126037 TATAAGGGTG
21126047 TTTTGGTAAATCTACAAACCAA-GGTA
1 TTTTGGTAAATCTACAAACCAATGGTA
* * *
21126073 TTTTGGTAATTTTGCAAACCAATGGTA
1 TTTTGGTAAATCTACAAACCAATGGTA
21126100 TTT
1 TTT
21126103 CTGTAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.39
Consensus pattern (27 bp):
TTTTGGTAAATCTACAAACCAATGGTA
Found at i:21126108 original size:27 final size:27
Alignment explanation
Indices: 21126061--21126407 Score: 176
Period size: 27 Copynumber: 12.9 Consensus size: 27
21126051 GGTAAATCTA
21126061 CAAACCAA-GGTATTT-TGGTAATTTTG
1 CAAACCAAGGGTATTTCT-GTAATTTTG
*
21126087 CAAACCAATGGTATTTCTGTAATTTTTG
1 CAAACCAAGGGTATTTCTGTAA-TTTTG
*
21126115 -AAAGTCAAGGGTATTTCTGTAATTTTG
1 CAAA-CCAAGGGTATTTCTGTAATTTTG
* ** *
21126142 TAAATTAGGGGTATTTCTGTAATTTT-
1 CAAACCAAGGGTATTTCTGTAATTTTG
** * * *
21126168 CTAAATTAAGGGTATTTCAGCAATTTTC
1 C-AAACCAAGGGTATTTCTGTAATTTTG
* * *
21126196 CAAATCAAGGATATTT-TGGTAATTTTA
1 CAAACCAAGGGTATTTCT-GTAATTTTG
* * * **
21126223 CAAATCGAGTGTATTT-TGGTAATTTCA
1 CAAACCAAGGGTATTTCT-GTAATTTTG
* **** *
21126250 AAAATTTGGGGTATTT-TGGTAATTTTA
1 CAAACCAAGGGTATTTCT-GTAATTTTG
** * *
21126277 CAAATTAGGGGTATTT-TGGTAATTTTA
1 CAAACCAAGGGTATTTCT-GTAATTTTG
*
21126304 CAAACCAAGGGTATTT-TGGTAATTTTA
1 CAAACCAAGGGTATTTCT-GTAATTTTG
* ***
21126331 CTAATTGAGGGTATTT-TGGTAATTTTG
1 CAAACCAAGGGTATTTCT-GTAATTTTG
* * *
21126358 TAAACCAAGGGTA-TCCAGTAATTTTG
1 CAAACCAAGGGTATTTCTGTAATTTTG
* *
21126384 TAAACCAAGGGTATTTCAGTAATT
1 CAAACCAAGGGTATTTCTGTAATT
21126408 CTACCCTATA
Statistics
Matches: 270, Mismatches: 41, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
26 31 0.11
27 213 0.79
28 26 0.10
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
CAAACCAAGGGTATTTCTGTAATTTTG
Found at i:21126237 original size:54 final size:53
Alignment explanation
Indices: 21126040--21126371 Score: 233
Period size: 54 Copynumber: 6.2 Consensus size: 53
21126030 TTCACCCTAT
* * * ** * * *
21126040 AAGGGTGTTTTGGTAAATCTACAAACCAAGGTATTTTGGTAATTTTGCAAACC
1 AAGGGTATTTTGGTAATTTTACAAATGAGGGTATTTTGGTAATTTTCCAAATC
* ** * ** *
21126093 AATGGTATTTCT-GTAATTTTTGAAAGTCAAGGGTATTTCT-GTAATTTTGTAAATT
1 AAGGGTATTT-TGGTAATTTTACAAA-T-GAGGGTATTT-TGGTAATTTTCCAAATC
* * ** *
21126148 AGGGGTATTTCT-GTAATTTT-CTAAATTAAGGGTATTTCAGCAATTTTCCAAATC
1 AAGGGTATTT-TGGTAATTTTAC-AAA-TGAGGGTATTTTGGTAATTTTCCAAATC
* * * *
21126202 AAGGATATTTTGGTAATTTTACAAATCGAGTGTATTTTGGTAA-TTTCAAAAATT
1 AAGGGTATTTTGGTAATTTTACAAAT-GAGGGTATTTTGGTAATTTTC-CAAATC
** * * *
21126256 TGGGGTATTTTGGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAATGA-GGGTATTTTGGTAATTTTCCAAATC
* ** *
21126310 AAGGGTATTTTGGTAATTTTACTAATTGAGGGTATTTTGGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTAC-AAATGAGGGTATTTTGGTAATTTTCCAAATC
21126364 AAGGGTAT
1 AAGGGTAT
21126372 CCAGTAATTT
Statistics
Matches: 221, Mismatches: 45, Indels: 25
0.76 0.15 0.09
Matches are distributed among these distances:
53 24 0.11
54 146 0.66
55 50 0.23
56 1 0.00
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (53 bp):
AAGGGTATTTTGGTAATTTTACAAATGAGGGTATTTTGGTAATTTTCCAAATC
Found at i:21126245 original size:81 final size:82
Alignment explanation
Indices: 21126040--21126399 Score: 277
Period size: 81 Copynumber: 4.5 Consensus size: 82
21126030 TTCACCCTAT
* * * * ** *
21126040 AAGGGTGTTTTGGTAAATCTACAAACCAA-GGTATTTTGGTAATTTTGC-AAACCAATGGTATTT
1 AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACTAAATTAAGGGTATTT
* **
21126103 CTGTAATTTTTGAAAGTC
66 CAGTAATTTTACAAA-TC
** ** *
21126121 AAGGGTATTTCT-GTAATTTTGTAAATTAGGGGTATTTCT-GTAATTTT-CTAAATTAAGGGTAT
1 AAGGGTATTT-TGGTAATTTTACAAACCAAGGGTATTT-TGGTAATTTTACTAAATTAAGGGTAT
* *
21126183 TTCAGCAATTTTCCAAATC
64 TTCAGTAATTTTACAAATC
* * * * * * **
21126202 AAGGATATTTTGGTAATTTTACAAATCGAGTGTATTTTGGTAATTTCA-AAAATTTGGGGTATTT
1 AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACTAAATTAAGGGTATTT
** *
21126266 TGGTAATTTTACAAATT
66 CAGTAATTTTACAAATC
* *
21126283 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACT-AATTGAGGGTATTT
1 AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACTAAATTAAGGGTATTT
** ** *
21126347 TGGTAATTTTGTAAACC
66 CAGTAATTTTACAAATC
*** **
21126364 AAGGGTA-TCCAGTAATTTTGTAAACCAAGGGTATTT
1 AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
21126400 CAGTAATTCT
Statistics
Matches: 221, Mismatches: 50, Indels: 17
0.77 0.17 0.06
Matches are distributed among these distances:
80 26 0.12
81 155 0.70
82 39 0.18
83 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (82 bp):
AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACTAAATTAAGGGTATTT
CAGTAATTTTACAAATC
Found at i:21126383 original size:26 final size:27
Alignment explanation
Indices: 21126349--21126407 Score: 102
Period size: 26 Copynumber: 2.2 Consensus size: 27
21126339 GGGTATTTTG
21126349 GTAATTTTGTAAACCAAGGGTA-TCCA
1 GTAATTTTGTAAACCAAGGGTATTCCA
*
21126375 GTAATTTTGTAAACCAAGGGTATTTCA
1 GTAATTTTGTAAACCAAGGGTATTCCA
21126402 GTAATT
1 GTAATT
21126408 CTACCCTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 22 0.71
27 9 0.29
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.36
Consensus pattern (27 bp):
GTAATTTTGTAAACCAAGGGTATTCCA
Found at i:21126422 original size:27 final size:27
Alignment explanation
Indices: 21126396--21126496 Score: 130
Period size: 27 Copynumber: 3.7 Consensus size: 27
21126386 AACCAAGGGT
*
21126396 ATTTCAGTAATTCTACCCTATAGGGGT
1 ATTTCAGTAATTCTACCCTATAGGGGC
* *
21126423 ATTTTAGTAATTCTATCCTATAGGGGC
1 ATTTCAGTAATTCTACCCTATAGGGGC
* * *
21126450 ATTTTAGTAATTCTACCCTACAGGGAC
1 ATTTCAGTAATTCTACCCTATAGGGGC
* *
21126477 ATTTCAGTAATACTAGCCTA
1 ATTTCAGTAATTCTACCCTA
21126497 CAGATATGAG
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.37
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTATAGGGGC
Found at i:21128764 original size:26 final size:26
Alignment explanation
Indices: 21128710--21128843 Score: 198
Period size: 26 Copynumber: 5.1 Consensus size: 26
21128700 TGATATACTG
21128710 TTATGCCCCTAGTTTATTGTAAAAGGGC
1 TTATGCCCC-AGTTTATTG-AAAAGGGC
21128738 TTATGCCCCAGTTTATTGAAAAGGGC
1 TTATGCCCCAGTTTATTGAAAAGGGC
*
21128764 TTATGCCCTAGTTTATTGAAAAAGGGC
1 TTATGCCCCAGTTTATTG-AAAAGGGC
*
21128791 TTATGTCCCAGTTTATTGAAAAGGGC
1 TTATGCCCCAGTTTATTGAAAAGGGC
**
21128817 TT-TGCCCCAGTTTACCGAAAAGGGC
1 TTATGCCCCAGTTTATTGAAAAGGGC
21128842 TT
1 TT
21128844 TTCCCCAATT
Statistics
Matches: 99, Mismatches: 6, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
25 22 0.22
26 35 0.35
27 33 0.33
28 9 0.09
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (26 bp):
TTATGCCCCAGTTTATTGAAAAGGGC
Found at i:21128791 original size:53 final size:52
Alignment explanation
Indices: 21128710--21128843 Score: 198
Period size: 53 Copynumber: 2.5 Consensus size: 52
21128700 TGATATACTG
21128710 TTATGCCCCTAGTTTATTGTAAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGC
1 TTATG-CCCTAGTTTATTG-AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGC
*
21128764 TTATGCCCTAGTTTATTGAAAAAGGGCTTATGTCCCAGTTTATTGAAAAGGGC
1 TTATGCCCTAGTTTATTG-AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGC
* **
21128817 TT-TGCCCCAGTTTACCGAAAAGGGCTT
1 TTATGCCCTAGTTTATTGAAAAGGGCTT
21128844 TTCCCCAATT
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
51 10 0.13
52 12 0.16
53 48 0.64
54 5 0.07
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (52 bp):
TTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGC
Found at i:21132173 original size:53 final size:53
Alignment explanation
Indices: 21132110--21132216 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
21132100 AACAACTAAG
21132110 TTTACAAAGCTCATAATTTCATCAATGGCACATTTCAAAATCATCATCAAAAT
1 TTTACAAAGCTCATAATTTCATCAATGGCACATTTCAAAATCATCATCAAAAT
21132163 TTTACAAAGCTCATAATTTCATCAATGGCACATTTCAAAATCATCATCAAAAT
1 TTTACAAAGCTCATAATTTCATCAATGGCACATTTCAAAATCATCATCAAAAT
21132216 T
1 T
21132217 AGAAATTGAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.33
Consensus pattern (53 bp):
TTTACAAAGCTCATAATTTCATCAATGGCACATTTCAAAATCATCATCAAAAT
Found at i:21135215 original size:10 final size:10
Alignment explanation
Indices: 21135200--21135242 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
21135190 CAATTTACCA
21135200 ACCAAATCAT
1 ACCAAATCAT
*
21135210 ACCAAATCTAA
1 ACCAAATC-AT
21135221 ACCAAAATCAT
1 ACC-AAATCAT
*
21135232 ACCAAAGCAT
1 ACCAAATCAT
21135242 A
1 A
21135243 TATTTCAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 15 0.54
11 8 0.29
12 5 0.18
ACGTcount: A:0.53, C:0.28, G:0.02, T:0.16
Consensus pattern (10 bp):
ACCAAATCAT
Found at i:21140664 original size:19 final size:19
Alignment explanation
Indices: 21140642--21140679 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
21140632 ATACCAAACT
21140642 CAAAATT-AAAGTTCCAAAA
1 CAAAATTAAAAG-TCCAAAA
21140661 CAAAATTAAAAGTCCAAAA
1 CAAAATTAAAAGTCCAAAA
21140680 GTTCGTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.61, C:0.16, G:0.05, T:0.18
Consensus pattern (19 bp):
CAAAATTAAAAGTCCAAAA
Found at i:21149623 original size:27 final size:28
Alignment explanation
Indices: 21149514--21149636 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
21149504 GAGATTGGCG
* * * *
21149514 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
21149543 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
21149571 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
21149599 CTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
21149626 CTGAGTGTGCG
1 CTAAGTGTGCG
21149637 GACTTAATAT
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 23 0.27
28 47 0.55
29 15 0.18
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:21149626 original size:55 final size:57
Alignment explanation
Indices: 21149514--21149636 Score: 169
Period size: 55 Copynumber: 2.2 Consensus size: 57
21149504 GAGATTGGCG
* * * *
21149514 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCAAGTTTGATTATATAGCA
* *
21149571 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCAAGTTTGATTATATAGCA
*
21149626 CTGAGTGTGCG
1 CTAAGTGTGCG
21149637 GACTTAATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 23 0.39
56 21 0.36
57 15 0.25
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (57 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCAAGTTTGATTATATAGCA
Found at i:21149647 original size:27 final size:27
Alignment explanation
Indices: 21149539--21149649 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 27
21149529 TAAATTGTAC
** * *
21149539 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGC-AACTTGAATATAT
** *
21149567 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGC-AACTTGAATATAT
* *
21149595 AGCACTAAGTGTGCAAGTTGATTATAT
1 AGCACTAAGTGTGCAACTTGAATATAT
* *
21149622 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-AACTTGAATATAT
21149649 A
1 A
21149650 CTTTTGAATC
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 31 0.41
28 44 0.59
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCAACTTGAATATAT
Done.