Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 131 of 211
Found at i:38374379 original size:44 final size:44
Alignment explanation
Indices: 38374314--38374526 Score: 363
Period size: 44 Copynumber: 4.8 Consensus size: 44
38374304 AGTGGAATCA
* *
38374314 CAAAACCTAGCTCCCTAACCAGCAGTGGAATAGGTTGAAGATTC
1 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
*
38374358 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTAGAAGATTG
1 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
*
38374402 CAAAACCTAGCTCCCTCACCAGCAGTGGAATAGGTTGAAGATTG
1 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
38374446 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
1 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
* * *
38374490 CAAAATCTAGCTCTCTGACCAGTAGTGGAATAGGTTG
1 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTG
38374527 GAAATCACAG
Statistics
Matches: 160, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 160 1.00
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.21
Consensus pattern (44 bp):
CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
Found at i:38374581 original size:132 final size:132
Alignment explanation
Indices: 38374314--38374581 Score: 326
Period size: 132 Copynumber: 2.0 Consensus size: 132
38374304 AGTGGAATCA
38374314 CAAAACCTAGCTCCCTAACCAGCAGTGGAATAGGTTGAAGATTCCAAAACCTAGCTCCCTGACCA
1 CAAAACCTAGCTCCCTAACCAGCAGTGGAATAGGTTGAAGATTCCAAAACCTAGCTCCCTGACCA
* * * * *
38374379 GCAGTGGAATAGGTAGAAGATTGCAAAACCTAGCTCCCTCACCAGCAGTGGAATAGGTTGAAGAT
66 GCAGTGGAATAGGTAGAAGATTGCAAAACCTAGCTCCCTAACCAGCAGCGGAATAGATGGAAGAC
*
38374444 TG
131 GG
* * * *
38374446 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAAATCTAGCTCTCTGACCA
1 CAAAACCTAGCTCCCTAACCAGCAGTGGAATAGGTTGAAGATTCCAAAACCTAGCTCCCTGACCA
* * * * * * * *
38374511 GTAGTGGAATAGGTTGGAA-A-T-CACAGATCTTGTCTCCCTAAGCAGTAGCGGAGTAGATGGAA
66 GCAGTGGAATAGG-TAGAAGATTGCA-AAACCTAG-CTCCCTAACCAGCAGCGGAATAGATGGAA
38374573 GACGG
128 GACGG
38374578 CAAA
1 CAAA
38374582 TCTTATCTTC
Statistics
Matches: 115, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
130 2 0.02
131 6 0.05
132 103 0.90
133 4 0.03
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (132 bp):
CAAAACCTAGCTCCCTAACCAGCAGTGGAATAGGTTGAAGATTCCAAAACCTAGCTCCCTGACCA
GCAGTGGAATAGGTAGAAGATTGCAAAACCTAGCTCCCTAACCAGCAGCGGAATAGATGGAAGAC
GG
Found at i:38374850 original size:128 final size:128
Alignment explanation
Indices: 38374513--38374880 Score: 603
Period size: 129 Copynumber: 2.9 Consensus size: 128
38374503 TCTGACCAGT
* * *
38374513 AGTGGAATAGGTTGGAAATCACAGATCTTGTCTCCCTAAGCAGTAGCGGAGTAGAT-GGAAGACG
1 AGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAG-CG
* * * *
38374577 GCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGC
65 GAAAATCTTATCTTCAAGTGTAAGGAAGCAGATTCAAGCCACAAGTCCTATAGCCCTGGTCAGC
*
38374641 ACTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCG
1 AGTGGAATAGGTT-GGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCG
*
38374706 GAAAATCTTATCTTCAAGTGTAAGGAAGCAGATTCAAGCCACAAGTCCTATGGCCCTGGTCAGC
65 GAAAATCTTATCTTCAAGTGTAAGGAAGCAGATTCAAGCCACAAGTCCTATAGCCCTGGTCAGC
* *
38374770 AGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAAGCGG
1 AGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGG
*
38374835 AAAATCTTATCTTCAAGTGTAAGAAAGCAGATTCAAGCCACAAGTC
66 AAAATCTTATCTTCAAGTGTAAGGAAGCAGATTCAAGCCACAAGTC
38374881 TTATCCCTAT
Statistics
Matches: 225, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
128 108 0.48
129 113 0.50
130 4 0.02
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (128 bp):
AGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGG
AAAATCTTATCTTCAAGTGTAAGGAAGCAGATTCAAGCCACAAGTCCTATAGCCCTGGTCAGC
Found at i:38374926 original size:128 final size:125
Alignment explanation
Indices: 38374513--38374888 Score: 565
Period size: 128 Copynumber: 2.9 Consensus size: 125
38374503 TCTGACCAGT
* * *
38374513 AGTGGAATAGGTTGGAAATCACAGATCTTGTCTCCCTAAGCAGTAGCGGAGTAGAT-GGAAGACG
1 AGTGGAGTAGGTTGGAAAT-ACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAG-CG
* * *
38374577 GCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGC
64 GAAAATCTTATCTTCAAGTGTAAGGAAGCAGATTCAAGCCACAAGT-CT-TATCCCTGGTCAGC
* *
38374641 ACTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCG
1 AGTGGAGTAGGTT-GGAAA-TACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCG
*
38374706 GAAAATCTTATCTTCAAGTGTAAGGAAGCAGATTCAAGCCACAAGTCCTATGGCCCTGGTCAGC
64 GAAAATCTTATCTTCAAGTGTAAGGAAGCAGATTCAAGCCACAAGTCTTAT--CCCTGGTCAGC
*
38374770 AGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAAGCGG
1 AGTGGAGTAGGTTGGAAA-TACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGG
*
38374835 AAAATCTTATCTTCAAGTGTAAGAAAGCAGATTCAAGCCACAAGTCTTATCCCT
65 AAAATCTTATCTTCAAGTGTAAGGAAGCAGATTCAAGCCACAAGTCTTATCCCT
38374889 ATGAAGTCAT
Statistics
Matches: 231, Mismatches: 12, Indels: 12
0.91 0.05 0.05
Matches are distributed among these distances:
126 4 0.02
127 3 0.01
128 112 0.48
129 107 0.46
130 5 0.02
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.23
Consensus pattern (125 bp):
AGTGGAGTAGGTTGGAAATACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGA
AAATCTTATCTTCAAGTGTAAGGAAGCAGATTCAAGCCACAAGTCTTATCCCTGGTCAGC
Found at i:38375104 original size:217 final size:217
Alignment explanation
Indices: 38374874--38375533 Score: 779
Period size: 217 Copynumber: 3.0 Consensus size: 217
38374864 GATTCAAGCC
* *
38374874 ACAAGTCTTATCCCTATGAAGTCATAGTGGGGCAGATCGAAGAAGCAAATCTTATCTCCCTGAGG
1 ACAAGTCTTATCCC-CTGAAGTCACAGTGGGGCAGATCGAAGAAG-AAATCTTATCTCCCTGAGG
**
38374939 TTGCAGTGGAGTAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAGG
64 TTGCAGTGGAGTAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAA
* * * * *
38375004 TAATA-GATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAGGCCTTATCTCCCTAAGG
129 TAA-AGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTAAGA
* * * *
38375068 TTGCAGTGGAGCATACT-GAGAA-A
193 TTACAGTGGAACAGACTAAAGAATA
*
38375091 ACAAGTCTTATCCCCCTGAAGTCACAGTGGGGCAGACCGAAGAAGTAAATCTTATCTCCCTGAGG
1 ACAAGTCTTAT-CCCCTGAAGTCACAGTGGGGCAGATCGAAGAAG-AAATCTTATCTCCCTGAGG
* * * *
38375156 TTGTAGTGGAGCAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAATGGAGTGGATTAAAC
64 TTGCAGTGGAGTAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAA
* *
38375221 TAAAGGATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGAT
129 TAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTAAGAT
*
38375286 TACAGTGGAATAGACTAAAGAATTCCTA
194 TACAGTGGAACAGACTAAAGAA----TA
* * * * * *
38375314 ATCGAAAATGGTGAATATTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAAATCTTAT
1 A-C---AA----G--TCTTATC-CCCTGAAGTCACAGTGGGGCAGATCGAAG-AAGAAATCTTAT
* * * * *
38375379 CTCCCTGAGATTACAGTTGAGCT-GATTGAAGCCGATAATCCTATCTCCCTGAAGTTATAGTGGA
54 CTCCCTGAGGTTGCAGTGGAG-TAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAGTGGA
38375443 GTGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGTCTTAT
118 GTGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGTCTTAT
* * *
38375508 CTCCCTGAGATTATAGTGGAATAGAC
183 CTCCCTAAGATTACAGTGGAACAGAC
38375534 AGAAGAACTC
Statistics
Matches: 383, Mismatches: 39, Indels: 26
0.85 0.09 0.06
Matches are distributed among these distances:
216 1 0.00
217 185 0.48
218 7 0.02
223 2 0.01
224 1 0.00
227 2 0.01
231 1 0.00
232 1 0.00
233 181 0.47
234 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (217 bp):
ACAAGTCTTATCCCCTGAAGTCACAGTGGGGCAGATCGAAGAAGAAATCTTATCTCCCTGAGGTT
GCAGTGGAGTAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAATA
AAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTAAGATTA
CAGTGGAACAGACTAAAGAATA
Found at i:38375204 original size:44 final size:44
Alignment explanation
Indices: 38374921--38375202 Score: 166
Period size: 44 Copynumber: 6.5 Consensus size: 44
38374911 CGAAGAAGCA
* *
38374921 AATCTTATCTCCCTGAGGTTGCAGTGGAGTAGATTGAAGTCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGAT
* * ** *
38374965 AATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATT-AAGGT-AAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-GTCGAT
* * ** * *
38375008 AGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCA-TC-A-
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGAT
*** * * *** *
38375050 GGCCTTATCTCCCT-AAGGTTGCAGTGGAGCATACTG-AGAAAAC
1 AATCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTGAAGTCGAT
* ** * ** **
38375093 AAGTCTTATCCCCCTGAAGTCACAGTGGGGCAGACCGAAGAAG-T
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGAT
* *
38375137 AAATCTTATCTCCCTGAGGTTGTAGTGGAGCAGATTGAAGTCGAT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGAT
*
38375182 AATCCTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTG
38375203 TAATGGAGTG
Statistics
Matches: 179, Mismatches: 46, Indels: 26
0.71 0.18 0.10
Matches are distributed among these distances:
40 3 0.02
41 23 0.13
42 1 0.01
43 7 0.04
44 135 0.75
45 10 0.06
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGAT
Found at i:38375394 original size:44 final size:44
Alignment explanation
Indices: 38375331--38375443 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
38375321 ATGGTGAATA
*
38375331 TTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGA-AATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCC-GATAATC
* *
38375375 TTATCTCCCTGAGATTACAGTTGAGCTGATTGAAGCCGATAATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCGATAATC
* *
38375419 CTATCTCCCTGA-AGTTATAGTGGAG
1 TTATCTCCCTGAGA-TTACAGTGGAG
38375444 TGGATTAAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
43 3 0.05
44 58 0.95
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (44 bp):
TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCGATAATC
Found at i:38375528 original size:233 final size:233
Alignment explanation
Indices: 38375137--38375631 Score: 814
Period size: 233 Copynumber: 2.1 Consensus size: 233
38375127 CCGAAGAAGT
* ** *
38375137 AAATCTTATCTCCCTGAGGTTGTAGTGGAGCAGATTGAAGTCGATAATCCTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTT
* *
38375202 GTAATGGAGTGGATTAAACTAAAGGATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGCATCA
66 ATAATGGAGTGGATTAAAATAAAGGATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGCATCA
*
38375267 GGTCTTATCTCCCTGAGATTACAGTGGAATAGACTA-AAGAATTCCTAATCGAAAATGGTGAATA
131 GGTCTTATCTCCCTGAGATTACAGTGGAATAGAC-AGAAGAACTCCTAATCGAAAATGGTGAATA
*
38375331 TTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
195 TTATCTCCCTAAGGTTACAGTGGAGCAGATTGAAGCCAG
* *
38375370 AAATCTTATCTCCCTGAGATTACAGTTGAGCTGATTGAAGCCGATAATCCTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTT
* *
38375435 ATAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCA
66 ATAATGGAGTGGATTAAAATAAAGGATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGCATCA
* * *
38375500 GGTCTTATCTCCCTGAGATTATAGTGGAATAGACAGAAGAACTCTTAATCGAAAATGGTGAATCT
131 GGTCTTATCTCCCTGAGATTACAGTGGAATAGACAGAAGAACTCCTAATCGAAAATGGTGAATAT
38375565 TATCTCCCTAAGGTTACAGTGGAGCAGATTGAAGCCAG
196 TATCTCCCTAAGGTTACAGTGGAGCAGATTGAAGCCAG
* *
38375603 AAATCTTATCTCCCTGCG-GTACAGTGGAG
1 AAATCTTATCTCCCTGAGATTACAGTGGAG
38375632 AAGGTCAAAG
Statistics
Matches: 243, Mismatches: 18, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
232 10 0.04
233 233 0.96
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (233 bp):
AAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTT
ATAATGGAGTGGATTAAAATAAAGGATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGCATCA
GGTCTTATCTCCCTGAGATTACAGTGGAATAGACAGAAGAACTCCTAATCGAAAATGGTGAATAT
TATCTCCCTAAGGTTACAGTGGAGCAGATTGAAGCCAG
Found at i:38377146 original size:25 final size:24
Alignment explanation
Indices: 38377113--38377169 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 24
38377103 TTTGCTATTA
**
38377113 ATTA-ATTTACTATTATTATTTTT
1 ATTATATTTACTATTATTATCATT
* *
38377136 ATTACTATTTATTATTGTTATCATT
1 ATTA-TATTTACTATTATTATCATT
38377161 ATTATATTT
1 ATTATATTT
38377170 GATTACATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 4 0.14
24 5 0.18
25 19 0.68
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (24 bp):
ATTATATTTACTATTATTATCATT
Found at i:38377149 original size:19 final size:18
Alignment explanation
Indices: 38377119--38377156 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
38377109 ATTAATTAAT
*
38377119 TTACTATTATTATTTTTA
1 TTACTATTATTATTGTTA
38377137 TTACTATTTATTATTGTTA
1 TTACTA-TTATTATTGTTA
38377156 T
1 T
38377157 CATTATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (18 bp):
TTACTATTATTATTGTTA
Found at i:38377163 original size:19 final size:19
Alignment explanation
Indices: 38377121--38377168 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
38377111 TAATTAATTT
* *
38377121 ACTA-TTATTATTTTTATT
1 ACTATTTATTATTGTTATC
38377139 ACTATTTATTATTGTTATC
1 ACTATTTATTATTGTTATC
*
38377158 ATTATTATATT
1 ACTATT-TATT
38377169 TGATTACATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 4 0.16
19 17 0.68
20 4 0.16
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (19 bp):
ACTATTTATTATTGTTATC
Found at i:38385403 original size:27 final size:27
Alignment explanation
Indices: 38385366--38385570 Score: 223
Period size: 27 Copynumber: 7.6 Consensus size: 27
38385356 TAAATTGTAC
*
38385366 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
38385393 AGCACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** **
38385420 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38385446 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
38385474 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
38385501 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
38385529 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
38385556 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38385571 GACTTAATAT
Statistics
Matches: 152, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
27 128 0.84
28 24 0.16
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:38385427 original size:54 final size:54
Alignment explanation
Indices: 38385367--38385570 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
38385357 AAATTGTACA
* * *
38385367 GCACTAAGTGTGCGATTTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
** ** * *
38385421 GCACTAAGTGTGCGAAATGAAAATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGACTATGTA-GCACTAAGTGTGCGATTTGACCATGTG
**
38385475 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-TTTGACCATGTG
* * *
38385530 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
38385571 GACTTAATAT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 47 0.37
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
Found at i:38389681 original size:35 final size:34
Alignment explanation
Indices: 38389662--38389756 Score: 136
Period size: 35 Copynumber: 2.7 Consensus size: 34
38389652 TCAGTTGCAC
*
38389662 TAGCTCTTATGAGCATTGGTGTGTTTTGATGGGAT
1 TAGCTCTTATGAGCATTGGTGTGTTTAG-TGGGAT
* **
38389697 TATCTCTTATGAGCATTGGTGTGTTTTAAAGGGAT
1 TAGCTCTTATGAGCATTGGTGTG-TTTAGTGGGAT
38389732 TAGCTCTTATGAGCATTGGTGTGTT
1 TAGCTCTTATGAGCATTGGTGTGTT
38389757 GTAACACTTA
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
34 2 0.04
35 49 0.91
36 3 0.06
ACGTcount: A:0.19, C:0.09, G:0.28, T:0.43
Consensus pattern (34 bp):
TAGCTCTTATGAGCATTGGTGTGTTTAGTGGGAT
Found at i:38395236 original size:11 final size:10
Alignment explanation
Indices: 38395210--38395238 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
38395200 AAGAACAAGA
38395210 AGAAAAATAC
1 AGAAAAATAC
38395220 AGAAAAATAC
1 AGAAAAATAC
38395230 AGAAAAATA
1 AGAAAAATA
38395239 AATACTACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.72, C:0.07, G:0.10, T:0.10
Consensus pattern (10 bp):
AGAAAAATAC
Found at i:38399576 original size:6 final size:6
Alignment explanation
Indices: 38399565--38399589 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
38399555 ATCAATAATC
38399565 AAATAA AAATAA AAATAA AAATAA A
1 AAATAA AAATAA AAATAA AAATAA A
38399590 TTTCACTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:38400848 original size:17 final size:18
Alignment explanation
Indices: 38400822--38400858 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
38400812 ACACAAGGTC
38400822 CACCACCTTCT-GAATAT
1 CACCACCTTCTGGAATAT
*
38400839 CACCAGCTTCTGGAATAT
1 CACCACCTTCTGGAATAT
38400857 CA
1 CA
38400859 GATGTTGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.30, C:0.32, G:0.11, T:0.27
Consensus pattern (18 bp):
CACCACCTTCTGGAATAT
Found at i:38404825 original size:21 final size:21
Alignment explanation
Indices: 38404799--38404855 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
38404789 CTTTAGACCT
*
38404799 TGGACCCTAGACCCTAAACCA
1 TGGACCCTAAACCCTAAACCA
* *
38404820 TGGACCCTAAACCCTAGACCT
1 TGGACCCTAAACCCTAAACCA
*
38404841 TGGACCTTAAACCCT
1 TGGACCCTAAACCCT
38404856 TAAGTCTAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.30, C:0.37, G:0.14, T:0.19
Consensus pattern (21 bp):
TGGACCCTAAACCCTAAACCA
Found at i:38404839 original size:14 final size:14
Alignment explanation
Indices: 38404802--38404839 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
38404792 TAGACCTTGG
38404802 ACCCTAGACCCTAA
1 ACCCTAGACCCTAA
* *
38404816 ACCATGGACCCTAA
1 ACCCTAGACCCTAA
38404830 ACCCTAGACC
1 ACCCTAGACC
38404840 TTGGACCTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.34, C:0.42, G:0.11, T:0.13
Consensus pattern (14 bp):
ACCCTAGACCCTAA
Found at i:38406622 original size:19 final size:20
Alignment explanation
Indices: 38406585--38406622 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
38406575 ATTTAAAAAC
**
38406585 TTAATTATTACTTTGATATT
1 TTAATTATTACTTACATATT
38406605 TTAATTA-TACTTACATAT
1 TTAATTATTACTTACATAT
38406623 ATGCAAATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.34, C:0.08, G:0.03, T:0.55
Consensus pattern (20 bp):
TTAATTATTACTTACATATT
Found at i:38407014 original size:36 final size:36
Alignment explanation
Indices: 38406974--38407049 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 36
38406964 TGACATTATG
38406974 GAATA-AATTAATGA-ATGATTAATAGATAATTGAAGT
1 GAATATAA-TAATGAGATGATTAATAGATAA-TGAAGT
* * *
38407010 GAATATGATATTGAGTTGATTAATAGATAATGAAGT
1 GAATATAATAATGAGATGATTAATAGATAATGAAGT
38407046 GAAT
1 GAAT
38407050 GTGATATTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 20 0.57
37 15 0.43
ACGTcount: A:0.46, C:0.00, G:0.20, T:0.34
Consensus pattern (36 bp):
GAATATAATAATGAGATGATTAATAGATAATGAAGT
Found at i:38407022 original size:17 final size:17
Alignment explanation
Indices: 38407002--38407059 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
38406992 TTAATAGATA
38407002 ATTGAAGTGAATATGAT
1 ATTGAAGTGAATATGAT
*
38407019 ATTG-AGTTGATTAATAGAT
1 ATTGAAG-TGAAT-AT-GAT
* *
38407038 AATGAAGTGAATGTGAT
1 ATTGAAGTGAATATGAT
38407055 ATTGA
1 ATTGA
38407060 GTTATGAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
16 2 0.06
17 15 0.47
18 3 0.09
19 10 0.31
20 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (17 bp):
ATTGAAGTGAATATGAT
Found at i:38407055 original size:36 final size:37
Alignment explanation
Indices: 38406989--38407062 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 37
38406979 AATTAATGAA
38406989 TGATTAATAGATAATTGAAGTGAATATGATATTGAGT
1 TGATTAATAGATAATTGAAGTGAATATGATATTGAGT
*
38407026 TGATTAATAGATAA-TGAAGTGAATGTGATATTGAGT
1 TGATTAATAGATAATTGAAGTGAATATGATATTGAGT
38407062 T
1 T
38407063 ATGAAACGTG
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 22 0.61
37 14 0.39
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.38
Consensus pattern (37 bp):
TGATTAATAGATAATTGAAGTGAATATGATATTGAGT
Found at i:38407075 original size:20 final size:21
Alignment explanation
Indices: 38407050--38407089 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
38407040 TGAAGTGAAT
38407050 GTGATATTGAG-TTATGAAAC
1 GTGATATTGAGATTATGAAAC
38407070 GTGATATTGAGATTATGAAA
1 GTGATATTGAGATTATGAAA
38407090 TATGATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.35
Consensus pattern (21 bp):
GTGATATTGAGATTATGAAAC
Found at i:38407095 original size:21 final size:20
Alignment explanation
Indices: 38407051--38407095 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
38407041 GAAGTGAATG
*
38407051 TGATATTGAGTTATGAAACG
1 TGATATTGAGTTATGAAACA
*
38407071 TGATATTGAGATTATGAAATA
1 TGATATTGAG-TTATGAAACA
38407092 TGAT
1 TGAT
38407096 TTTATGGACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.38, C:0.02, G:0.22, T:0.38
Consensus pattern (20 bp):
TGATATTGAGTTATGAAACA
Found at i:38407219 original size:40 final size:40
Alignment explanation
Indices: 38407159--38407287 Score: 117
Period size: 40 Copynumber: 3.4 Consensus size: 40
38407149 GGGCACAATC
* *
38407159 ATCGTTGGTTCATCCAACTAGAGCTTGGCTCACTATTTAT
1 ATCGTCGGTTTATCCAACTAGAGCTTGGCTCACTATTTAT
* * * *
38407199 ATCGTCGGTTTATTCGACTAGCG-TTGGGCGCA--A---AT
1 ATCGTCGGTTTATCCAACTAGAGCTT-GGCTCACTATTTAT
* * *
38407234 ATCGTTGGTTTATCCAACTAGATCTGGGCTCACTATTTAT
1 ATCGTCGGTTTATCCAACTAGAGCTTGGCTCACTATTTAT
*
38407274 ATCGTCAGTTTATC
1 ATCGTCGGTTTATC
38407288 TGAATAGCGC
Statistics
Matches: 67, Mismatches: 15, Indels: 14
0.70 0.16 0.15
Matches are distributed among these distances:
35 25 0.37
36 1 0.01
37 1 0.01
38 1 0.01
39 2 0.03
40 37 0.55
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (40 bp):
ATCGTCGGTTTATCCAACTAGAGCTTGGCTCACTATTTAT
Found at i:38407250 original size:75 final size:75
Alignment explanation
Indices: 38407122--38407336 Score: 308
Period size: 75 Copynumber: 2.9 Consensus size: 75
38407112 TGAGTAATTG
* * * * * *
38407122 ATATTGTCGGTTCATTCGACTAGTGCTGGGCAC-AATCATCGTTGGTTCATCCAACTAGAGCTTG
1 ATATCGTCGGTTTATTCGACTAGCGCTGGGCGCAAAT-ATCGTTGGTTTATCCAACTAGAGCTGG
38407186 GCTCACTATTT
65 GCTCACTATTT
* *
38407197 ATATCGTCGGTTTATTCGACTAGCGTTGGGCGCAAATATCGTTGGTTTATCCAACTAGATCTGGG
1 ATATCGTCGGTTTATTCGACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGG
38407262 CTCACTATTT
66 CTCACTATTT
* *
38407272 ATATCGTCAGTTTA-TCTGAATAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGG
1 ATATCGTCGGTTTATTC-GACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGG
38407336 G
65 G
38407337 ATAACTGATT
Statistics
Matches: 126, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
74 2 0.02
75 121 0.96
76 3 0.02
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.34
Consensus pattern (75 bp):
ATATCGTCGGTTTATTCGACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGG
CTCACTATTT
Found at i:38407335 original size:35 final size:35
Alignment explanation
Indices: 38407140--38407336 Score: 128
Period size: 35 Copynumber: 5.3 Consensus size: 35
38407130 GGTTCATTCG
* * *
38407140 ACTAGTGCTGGGCAC-AATCATCGTTGGTTCATCCA
1 ACTAGAGCTGGGCGCAAAT-ATCGTTGGTTTATCCA
* * * * *
38407175 ACTAGAGCTTGGCTCACTATTTATATCGTCGGTTTATTCG
1 ACTAGAGCTGGGCGCA--A---ATATCGTTGGTTTATCCA
* *
38407215 ACTAGCGTTGGGCGCAAATATCGTTGGTTTATCCA
1 ACTAGAGCTGGGCGCAAATATCGTTGGTTTATCCA
* * ** *
38407250 ACTAGATCTGGGCTCACTATTTATATCGTCAGTTTATCTGA
1 ACTAGAGCTGGGCGCA--A---ATATCGTTGGTTTATC-CA
*
38407291 A-TAGCGCTGGGCGCAAATATCGTTGGTTTATCCA
1 ACTAGAGCTGGGCGCAAATATCGTTGGTTTATCCA
38407325 ACTAGAGCTGGG
1 ACTAGAGCTGGG
38407337 ATAACTGATT
Statistics
Matches: 121, Mismatches: 28, Indels: 26
0.69 0.16 0.15
Matches are distributed among these distances:
34 2 0.02
35 62 0.51
37 1 0.01
38 3 0.02
40 49 0.40
41 4 0.03
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (35 bp):
ACTAGAGCTGGGCGCAAATATCGTTGGTTTATCCA
Found at i:38420224 original size:47 final size:47
Alignment explanation
Indices: 38420173--38420444 Score: 411
Period size: 47 Copynumber: 5.7 Consensus size: 47
38420163 TTAGGATTCT
* * *
38420173 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
38420220 ATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGCCG
38420269 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
38420316 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
38420363 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
38420410 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
38420445 TCCCGAAGGG
Statistics
Matches: 209, Mismatches: 13, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 162 0.78
49 46 0.22
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:38420642 original size:37 final size:37
Alignment explanation
Indices: 38420562--38420675 Score: 178
Period size: 37 Copynumber: 3.1 Consensus size: 37
38420552 CCGAGCTCTA
38420562 AAGACCCGATGACTACGTGT-GGGATTTTGT-CGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
38420597 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
* * * *
38420634 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
38420671 AAGAC
1 AAGAC
38420676 TTCGTAATAA
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
35 20 0.27
36 10 0.14
37 43 0.59
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
Found at i:38422585 original size:43 final size:43
Alignment explanation
Indices: 38422537--38422639 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
38422527 TTGGTTTTCA
38422537 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
38422580 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
38422623 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
38422640 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:38422656 original size:29 final size:29
Alignment explanation
Indices: 38422621--38422694 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
38422611 GTTGTGAGAT
* *
38422621 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
38422650 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
38422679 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38422695 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:38423164 original size:79 final size:79
Alignment explanation
Indices: 38423016--38423223 Score: 228
Period size: 79 Copynumber: 2.6 Consensus size: 79
38423006 CGGGCTAAGT
* *
38423016 CCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGTTCCG-A-AGCATTCGTGCTAGTG
1 CCCGAAGAGCATTCGTGCT-AGTGA-TATATCCGGACTAAGTT-CGAAGAGCATTCGTGCTAGTG
* **
38423077 ATGTATCCG-GACTAAGT
63 ATATATCCGTG-CTAAAC
* *
38423094 TCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCGAAGAGCATTCGTGCTAGTGATA
1 CCCGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTTCGAAGAGCATTCGTGCTAGTGATA
38423159 TATCCGTGCTAAAC
66 TATCCGTGCTAAAC
* * * * *
38423173 CCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 CCCGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGT-TCGAAGAGCA
38423224 ATCATGCTGG
Statistics
Matches: 110, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
77 2 0.02
78 22 0.20
79 69 0.63
80 17 0.15
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (79 bp):
CCCGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTTCGAAGAGCATTCGTGCTAGTGATA
TATCCGTGCTAAAC
Found at i:38423235 original size:40 final size:40
Alignment explanation
Indices: 38423004--38423223 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
38422994 TTGAATGATG
* * *
38423004 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* *
38423044 TCCGGACTAAGTTCCG-A-AGCATTCGTGCTAGTGATGTA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
38423082 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
38423122 TCCGGACTAAGT-TCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
** * *
38423161 TCCGTG-CTAAACCCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCG-GACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
38423201 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGACTAAGTCCCGAAGAGCA
38423224 ATCATGCTGG
Statistics
Matches: 158, Mismatches: 15, Indels: 14
0.84 0.08 0.07
Matches are distributed among these distances:
38 18 0.11
39 43 0.27
40 97 0.61
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:38426643 original size:47 final size:47
Alignment explanation
Indices: 38426592--38426861 Score: 425
Period size: 47 Copynumber: 5.7 Consensus size: 47
38426582 TTAGGATTCT
* * *
38426592 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
38426639 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
38426686 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
38426733 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
38426780 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
38426827 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
38426862 TCCCGAAGGG
Statistics
Matches: 209, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 1 0.00
47 208 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:38427030 original size:37 final size:37
Alignment explanation
Indices: 38426980--38427095 Score: 187
Period size: 37 Copynumber: 3.1 Consensus size: 37
38426970 CCGAGCTCTA
38426980 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
*
38427017 AAGACCCGATGACTACGTGTGGGGAATTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
* * * *
38427054 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
38427091 AAGAC
1 AAGAC
38427096 TTCGTAATAA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 73 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
Found at i:38429016 original size:43 final size:43
Alignment explanation
Indices: 38428968--38429071 Score: 199
Period size: 43 Copynumber: 2.4 Consensus size: 43
38428958 TTGGTTTTCA
38428968 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
38429011 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
38429054 GCACTTAAGTGTGCGGGC
1 GCAC-TAAGTGTGCGGGC
38429072 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 47 0.78
44 13 0.22
ACGTcount: A:0.22, C:0.15, G:0.36, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:38429091 original size:29 final size:29
Alignment explanation
Indices: 38429052--38429126 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
38429042 GTTGTGAGAT
* *
38429052 TGGCACTTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCAC-TAAGTGTGCGAG-TTGAAAGTACA
*
38429082 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
38429111 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38429127 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
28 5 0.12
29 30 0.73
30 6 0.15
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:38429497 original size:40 final size:40
Alignment explanation
Indices: 38429478--38429663 Score: 232
Period size: 40 Copynumber: 4.6 Consensus size: 40
38429468 TAAGTGACCA
38429478 TATCCGGACT-AGATTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAG-TTCCGAAGAGCATTCGTGCTAGTGATG
38429518 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
* *
38429558 TATCCGGACTAAGTTTCGAAGAGCATTCGTGCTAGTGATA
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
*** * * *
38429598 TATCCGTG-CTAAACCCCGAAGAGCATTCGTGCTGGTGTTA
1 TATCCG-GACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
* * *
38429638 TAATCCGGGCTAGGTCCCGAAGAGCA
1 T-ATCCGGACTAAGTTCCGAAGAGCA
38429664 ATCATGCTGG
Statistics
Matches: 131, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
40 109 0.83
41 22 0.17
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
Found at i:38433070 original size:47 final size:47
Alignment explanation
Indices: 38433019--38433334 Score: 510
Period size: 47 Copynumber: 6.7 Consensus size: 47
38433009 TTAGGATTCT
* * *
38433019 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
38433066 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
38433113 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
38433160 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC-
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
38433206 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
38433253 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
38433300 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
38433335 TCCCGAAGGG
Statistics
Matches: 254, Mismatches: 13, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
46 47 0.19
47 207 0.81
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:38433272 original size:140 final size:141
Alignment explanation
Indices: 38433019--38433334 Score: 519
Period size: 140 Copynumber: 2.2 Consensus size: 141
38433009 TTAGGATTCT
* *
38433019 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGGATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
38433083 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
65 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAG
* *
38433148 GCCTAATGGCCG
130 GCCGAATGGCCA
*
38433160 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC-ATGTGATGAATGTGAAAG
1 ATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
38433224 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGG
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGG
*
38433289 CCGAGTGGCCA
131 CCGAATGGCCA
* *
38433300 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGGATGTGAAAGTGTATATATGTGATAAG
38433335 TCCCGAAGGG
Statistics
Matches: 163, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
140 122 0.75
141 41 0.25
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (141 bp):
ATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGG
CCGAATGGCCA
Found at i:38433508 original size:37 final size:37
Alignment explanation
Indices: 38433452--38433530 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
38433442 CCGAGCTCTA
* * *
38433452 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
38433489 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
38433526 AAGAC
1 AAGAC
38433531 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:38436696 original size:64 final size:63
Alignment explanation
Indices: 38436621--38436757 Score: 175
Period size: 63 Copynumber: 2.2 Consensus size: 63
38436611 AGACATGTGT
* * * *
38436621 TAATGCGGTACAAACGAAGACACCATTAATAGACTTAAAACAACTAAAACAATTACACATGTAA
1 TAATGCTGTACAAACCAAGACACAATTAATAGACTT-AAACAACTAAAACAATCACACATGTAA
* * * * *
38436685 TAATGCTGTACAAACCATGACACAATTAATAGGCTTAAACAACTAAGATAATCAGACATGTAA
1 TAATGCTGTACAAACCAAGACACAATTAATAGACTTAAACAACTAAAACAATCACACATGTAA
*
38436748 TAATGTTGTA
1 TAATGCTGTA
38436758 TGAAATCAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
63 32 0.51
64 31 0.49
ACGTcount: A:0.47, C:0.17, G:0.12, T:0.24
Consensus pattern (63 bp):
TAATGCTGTACAAACCAAGACACAATTAATAGACTTAAACAACTAAAACAATCACACATGTAA
Found at i:38456118 original size:264 final size:264
Alignment explanation
Indices: 38455621--38456130 Score: 720
Period size: 264 Copynumber: 1.9 Consensus size: 264
38455611 AAGATAACAA
* *
38455621 ATCTTGCCTTCCTGTACTGACAGTAAAGCAGATCGAAGACACTAGCCTTGCCTCCCTTAGTGGCA
1 ATCTTACCTTCCTGTACTGACAGTAAAGCAGATCGAAGACACCAGCCTTGCCTCCCTTAGTGGCA
* * * *
38455686 GCGGAGCAGGCTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACAC
66 GCAGAGCAGACTAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACAC
* * *
38455751 CAGCCTTGCCTCCCTAGGTTGCAGCAGAGCGGGCTGAAAATAGTACATCTTGCCTTCCTGCACCG
131 CAGCCTTGCCTCCCTAGGTTGCAGCAGAGCAGGCTAAAAATAGCACATCTTGCCTTCCTGCACCG
* * *
38455816 ACAACGAAGCAGATCGAAGTCACCAGCCTTGCCTCCCTGGGTT-GTAGTGGAGCAGACTAAAAAT
196 ACAACGAAGCAGATCGAAGACACCAGCCCTACCTCCCT-GGTTAGTAGTGGAGCAGACTAAAAAT
38455880 AGCAG
260 AGCAG
* * *
38455885 ATCTTACCTTCCT-TCACTGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCT-CCTTGGGTTG
1 ATCTTACCTTCCTGT-ACTGACAGTAAAGCAGATCGAAGACACCAGCCTTGCCTCCCTT-AGTGG
*
38455948 TAGCAGAGCAGACTAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGAC
64 CAGCAGAGCAGACTAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGAC
* ** * * *
38456013 ACCAGCCTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCTTGCAC
129 ACCAGCCTTGCCTCCCTAGGTTGCAGCAGAGCAGGCTAAAAATAGCACATCTTGCCTTCCTGCAC
* * * * * *
38456078 TGACAGCGAAGCAGATTGATGACCCCAGCCCTATCTCCCTGGTTAGTAGTGGA
194 CGACAACGAAGCAGATCGAAGACACCAGCCCTACCTCCCTGGTTAGTAGTGGA
38456131 ATAGGTTAAA
Statistics
Matches: 215, Mismatches: 28, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
263 9 0.04
264 206 0.96
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.22
Consensus pattern (264 bp):
ATCTTACCTTCCTGTACTGACAGTAAAGCAGATCGAAGACACCAGCCTTGCCTCCCTTAGTGGCA
GCAGAGCAGACTAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACAC
CAGCCTTGCCTCCCTAGGTTGCAGCAGAGCAGGCTAAAAATAGCACATCTTGCCTTCCTGCACCG
ACAACGAAGCAGATCGAAGACACCAGCCCTACCTCCCTGGTTAGTAGTGGAGCAGACTAAAAATA
GCAG
Found at i:38456119 original size:88 final size:88
Alignment explanation
Indices: 38455621--38456107 Score: 650
Period size: 88 Copynumber: 5.5 Consensus size: 88
38455611 AAGATAACAA
* * ** * ** *
38455621 ATCTTGCCTTCCTGTACTGACAGTAAAGCAGATCGAAGACACTAGCCTTGCCTCCCTTAGTGGCA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCA
38455686 GCGGAGCAGGCTAAAAATAGCAG
66 GCGGAGCAGGCTAAAAATAGCAG
* *
38455709 ATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTGCA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCA
* * * * *
38455774 GCAGAGCGGGCTGAAAATAGTAC
66 GCGGAGCAGGCTAAAAATAGCAG
* * *
38455797 ATCTTGCCTTCCTGCACCGACAACGAAGCAGATCGAAGTCACCAGCCTTGCCTCCCTGGGTTGTA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCA
* *
38455862 GTGGAGCAGACTAAAAATAGCAG
66 GCGGAGCAGGCTAAAAATAGCAG
* * * * * *
38455885 ATCTTACCTTCCTTCACTGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCTTGGGTTGTA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCA
* * *
38455950 GCAGAGCAGACTAAAAATAACAG
66 GCGGAGCAGGCTAAAAATAGCAG
38455973 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCA
* *
38456038 GTGGAGCAGGTTAAAAATAGCAG
66 GCGGAGCAGGCTAAAAATAGCAG
* * * * *
38456061 ATCTTGCCTTCTTGCACTGACAGCGAAGCAGATTGATGACCCCAGCC
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
38456108 CTATCTCCCT
Statistics
Matches: 349, Mismatches: 50, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 349 1.00
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.21
Consensus pattern (88 bp):
ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCA
GCGGAGCAGGCTAAAAATAGCAG
Found at i:38456173 original size:44 final size:44
Alignment explanation
Indices: 38456107--38456483 Score: 356
Period size: 44 Copynumber: 8.7 Consensus size: 44
38456097 TGACCCCAGC
** * *
38456107 CCTATCTCCCTGGTTAGTAGTGGAATAGGTTAAAGATTGTGAAC
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
* *
38456151 CCTATCTTCTTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * * * *
38456195 CCTATCTCCCTAGTCAGCAGTGGAAGAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * **
38456239 TCTATCTCCCTGGGCAGCAGTGGAATAAATT--A-A---TGAAT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
38456277 CTTATCTCCCTGGATAGTAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
** * * * *
38456321 CCTATCTCCCTGGTTAGTAGTGGAATATGTTGAAATATTGAGAAT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTT-AAAGATTGTGAAT
* * * * * *
38456366 TCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGGTTGT-AGGT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGA-AT
* * * *
38456410 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATCGTGAAC
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
*
38456454 CCTATCTCCCT-GAGCAGCAGTGGAGTAGGT
1 CCTATCTCCCTGGA-CAGCAGTGGAATAGGT
38456484 GGAAAATAGC
Statistics
Matches: 271, Mismatches: 52, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
38 28 0.10
40 1 0.00
41 2 0.01
42 1 0.00
43 2 0.01
44 200 0.74
45 37 0.14
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (44 bp):
CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
Found at i:38457552 original size:19 final size:21
Alignment explanation
Indices: 38457528--38457566 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
38457518 GGCTTACTGT
*
38457528 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
38457547 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
38457567 TTAAAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:38457797 original size:3 final size:3
Alignment explanation
Indices: 38457789--38457822 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
38457779 ATTAATTTTG
38457789 TTA TTA TTA TTA TTA -TA TTA TATA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T
38457823 ACCTACATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:38457819 original size:18 final size:17
Alignment explanation
Indices: 38457789--38457823 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
38457779 ATTAATTTTG
38457789 TTATTATTATTATTATA
1 TTATTATTATTATTATA
38457806 TTATATATTATTATTATA
1 TTAT-TATTATTATTATA
38457824 CCTACATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTATTATTATTATTATA
Found at i:38459831 original size:50 final size:50
Alignment explanation
Indices: 38459703--38459994 Score: 383
Period size: 50 Copynumber: 5.9 Consensus size: 50
38459693 GATAATAACA
* * * * *
38459703 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATGCT-TTTTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTTATCT-CGG
* * * * ** * *
38459752 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
* * * *
38459802 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
*
38459852 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
38459902 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
38459952 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
38459995 TACCCAAATG
Statistics
Matches: 217, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
48 3 0.01
49 35 0.16
50 179 0.82
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
Found at i:38460363 original size:29 final size:29
Alignment explanation
Indices: 38460330--38460389 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
38460320 CCTTGACTCG
38460330 AACTTTGGAAAAATTACAATTTTGCCCCA
1 AACTTTGGAAAAATTACAATTTTGCCCCA
* * * *
38460359 AACTTTTGCATAATTACACTTTTGCCCCA
1 AACTTTGGAAAAATTACAATTTTGCCCCA
38460388 AA
1 AA
38460390 GCTCGGAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.33
Consensus pattern (29 bp):
AACTTTGGAAAAATTACAATTTTGCCCCA
Found at i:38464461 original size:45 final size:44
Alignment explanation
Indices: 38464277--38464484 Score: 170
Period size: 45 Copynumber: 4.6 Consensus size: 44
38464267 CGAAATGAGA
* * * *
38464277 AAGACCATAATTGAAAGATACTATGGCACTAAACCGACAATGTGT
1 AAGACCATAGTTGAAAGATACTATGGCACTAAATCGAGAATG-AT
* * * ** *
38464322 AAAACCATAGTTGAAAGATATTGTGGCGTTAAATCCA-ATATGAAT
1 AAGACCATAGTTGAAAGATACTATGGCACTAAATCGAGA-ATG-AT
* * *
38464367 AAGACAATAGTTGAAAGATACTATGACA-TCACATCG-GTAATGAT
1 AAGACCATAGTTGAAAGATACTATGGCACT-AAATCGAG-AATGAT
**
38464411 CAAGACCATAGTTGAAAGATACTATGGCACTACTTCGAGAATGCAT
1 -AAGACCATAGTTGAAAGATACTATGGCACTAAATCGAGAATG-AT
* * *
38464457 AAGACCATGGTTGGAAGATACCATGGCA
1 AAGACCATAGTTGAAAGATACTATGGCA
38464485 TCCTTTGAAA
Statistics
Matches: 131, Mismatches: 24, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
44 4 0.03
45 122 0.93
46 5 0.04
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (44 bp):
AAGACCATAGTTGAAAGATACTATGGCACTAAATCGAGAATGAT
Found at i:38465662 original size:19 final size:17
Alignment explanation
Indices: 38465633--38465671 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
38465623 GTGACCCTTG
38465633 TTTTCAAAATTTTCTAAT
1 TTTTCAAAATTTTCT-AT
38465651 TTTTCTAAAATTTTCTAT
1 TTTTC-AAAATTTTCTAT
38465669 TTT
1 TTT
38465672 GTTTCAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTCAAAATTTTCTAT
Found at i:38465680 original size:19 final size:19
Alignment explanation
Indices: 38465633--38465681 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
38465623 GTGACCCTTG
38465633 TTTTCAAAATTTTCTAATTT
1 TTTTC-AAATTTTCTAATTT
* *
38465653 TTCTAAAATTTTCT-ATTT
1 TTTTCAAATTTTCTAATTT
38465671 TGTTTCAAATT
1 T-TTTCAAATT
38465682 AGTTTCTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.21
19 16 0.67
20 3 0.12
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTTCAAATTTTCTAATTT
Found at i:38466307 original size:34 final size:34
Alignment explanation
Indices: 38466268--38466335 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
38466258 CCATCCAAGA
38466268 CATAACTTTTGAGTAGGTGATATTGGCTTCAAAC
1 CATAACTTTTGAGTAGGTGATATTGGCTTCAAAC
38466302 CATAACTTTTGAGTAGGTGATATTGGCTTCAAAC
1 CATAACTTTTGAGTAGGTGATATTGGCTTCAAAC
38466336 TATGAACAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (34 bp):
CATAACTTTTGAGTAGGTGATATTGGCTTCAAAC
Found at i:38469457 original size:78 final size:81
Alignment explanation
Indices: 38469323--38469505 Score: 223
Period size: 78 Copynumber: 2.3 Consensus size: 81
38469313 TGAATGATGT
* *
38469323 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
*
38469387 GTGCGAGATACTA-AT
66 GTGCGAGATACTATAA
* * * * **
38469402 TCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAAT
*
38469464 TGTGCGAGTTACTATAA
65 TGTGCGAGATACTATAA
*
38469481 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
38469506 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 48 0.55
79 25 0.28
80 14 0.16
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTATAA
Found at i:38469467 original size:40 final size:40
Alignment explanation
Indices: 38469322--38469505 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
38469312 TTGAATGATG
* * * *
38469322 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
38469362 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38469401 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38469440 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38469481 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38469506 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 23 0.19
39 21 0.17
40 69 0.56
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38469523 original size:80 final size:77
Alignment explanation
Indices: 38469375--38469538 Score: 195
Period size: 79 Copynumber: 2.1 Consensus size: 77
38469365 GGACTAAGAT
* ** **
38469375 CCGAAGGCATTTGTGCGAGATACTAATTCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGAAGGCAATTGTGCGAGATACTAAACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
*
38469440 TCCGGGTTAAGTC
66 TCC-GGTTAAATC
* *
38469453 CCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 CCGAAGGCAATTGTGCGAGATACTA-AACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CT
* *
38469517 ATATCCGGTTAAATT
63 AAATCCGGTTAAATC
38469532 CCGAAGG
1 CCGAAGG
38469539 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
78 23 0.32
79 25 0.34
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (77 bp):
CCGAAGGCAATTGTGCGAGATACTAAACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
TCCGGTTAAATC
Found at i:38472310 original size:37 final size:37
Alignment explanation
Indices: 38472260--38472338 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
38472250 TTATTACGAA
* *
38472260 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
* *
38472297 GTCTTACCCGGACAAAATTCCCACACGTAGTCATTGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
38472334 GTCTT
1 GTCTT
38472339 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:38472535 original size:47 final size:47
Alignment explanation
Indices: 38472457--38473189 Score: 1178
Period size: 47 Copynumber: 15.4 Consensus size: 47
38472447 CCCTTCGGGA
* * * * * * *
38472457 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38472504 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38472551 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38472598 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38472645 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38472692 CTTATCACATATATACACTCTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
38472739 CTTATCACACATATACACTGTCACATCCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38472786 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38472833 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38472880 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38472927 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38472974 CTTATCACATATATACACTTTCACATTCATCACATCGACTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38473021 CTTATCACATATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38473068 CTTATCACATATATACACTCTCACATTCATCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--A----CAC-TT--TCACATTCATCACATCGGCCATTAGGC
*
38473124 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38473171 CTTATCACATATATACACT
1 CTTATCACATATATACACT
38473190 GTCTTGGCTG
Statistics
Matches: 647, Mismatches: 30, Indels: 18
0.93 0.04 0.03
Matches are distributed among these distances:
47 597 0.92
49 3 0.00
50 3 0.00
53 3 0.00
54 3 0.00
56 38 0.06
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38473173 original size:103 final size:103
Alignment explanation
Indices: 38472994--38473189 Score: 347
Period size: 103 Copynumber: 1.9 Consensus size: 103
38472984 ATATACACTT
* * *
38472994 TCACATTCATCACATCGACTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTGG
1 TCACATTCATCACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGG
*
38473059 CTATTAGGCCTTATCACATATATACACTCTCACATTCA
66 CCATTAGGCCTTATCACATATATACACTCTCACATTCA
*
38473097 TCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGG
1 TCACATTCATCACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGG
38473162 CCATTAGGCCTTATCACATATATACACT
66 CCATTAGGCCTTATCACATATATACACT
38473190 GTCTTGGCTG
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 88 1.00
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.32
Consensus pattern (103 bp):
TCACATTCATCACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGG
CCATTAGGCCTTATCACATATATACACTCTCACATTCA
Found at i:38479477 original size:40 final size:40
Alignment explanation
Indices: 38479433--38479513 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
38479423 GTGGACATAG
**
38479433 CTCACGACCTTGTCCCTGCGAGCCTTACGCGAACTCTCCT
1 CTCACGACCTCATCCCTGCGAGCCTTACGCGAACTCTCCT
* * * *
38479473 CTCACGACCTCATTCCTGCGAGGCTTACGTGAGCTCTCCT
1 CTCACGACCTCATCCCTGCGAGCCTTACGCGAACTCTCCT
38479513 C
1 C
38479514 GCGGGCTTCT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.15, C:0.41, G:0.19, T:0.26
Consensus pattern (40 bp):
CTCACGACCTCATCCCTGCGAGCCTTACGCGAACTCTCCT
Found at i:38486440 original size:45 final size:46
Alignment explanation
Indices: 38486376--38486511 Score: 170
Period size: 45 Copynumber: 2.9 Consensus size: 46
38486366 ACCGGTTCAC
38486376 ATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCC-G-
1 ATAGTAGCCTGCACATAGTACTACACATGTGACCATCACT-TCCGGA
*
38486421 ATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-TTCCGGTA
1 ATAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTTCCGG-A
* *
38486468 CACGTAGTAGCCTGCACGTAGTACTACACACGTGACCATCACTT
1 -A--TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTT
38486512 TCACTTTCAC
Statistics
Matches: 79, Mismatches: 4, Indels: 11
0.84 0.04 0.12
Matches are distributed among these distances:
44 3 0.04
45 35 0.44
46 4 0.05
48 1 0.01
49 4 0.05
50 32 0.41
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (46 bp):
ATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTTCCGGA
Found at i:38489354 original size:42 final size:42
Alignment explanation
Indices: 38489275--38489356 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
38489265 CGTTTTCTCT
* *
38489275 ATGCCATAGTCCAACCATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACCATGGTCTTACACATATGTACATATTG
* * *
38489317 ATGCCATAGCCCAGCTATGGTCTTACATAGTA-GTACATAT
1 ATGCCATAGCCCAACCATGGTCTTACACA-TATGTACATAT
38489357 CACACCGATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATAGCCCAACCATGGTCTTACACATATGTACATATTG
Found at i:38492171 original size:16 final size:16
Alignment explanation
Indices: 38492150--38492181 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38492140 GTTTTGTTGC
*
38492150 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
38492166 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
38492182 CTTTTAATCA
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:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:38492467 original size:51 final size:51
Alignment explanation
Indices: 38492408--38492598 Score: 216
Period size: 51 Copynumber: 3.8 Consensus size: 51
38492398 CCGGTTCACA
38492408 TAGTAGCCTGAACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGAACATAGTACTACACATGTGACCATCACTATCCGATACACG
* * ** *
38492459 TAGTAGCCTGCACATAGTACTACACACGTGATGGA--AGCTATCCAGTATGCA--
1 TAGTAGCCTGAACATAGTACTACACATGTGA-CCATCA-CTATCC-G-ATACACG
* *
38492510 TAGTAGCCTGTACATAGTACTACACATGCGACCTATCA-T-TCCGATACACG
1 TAGTAGCCTGAACATAGTACTACACATGTGACC-ATCACTATCCGATACACG
38492560 TAGTAGCCT-ACACATAGTACTACACATGTGACCATCACT
1 TAGTAGCCTGA-ACATAGTACTACACATGTGACCATCACT
38492599 TTCACTTTCA
Statistics
Matches: 116, Mismatches: 13, Indels: 23
0.76 0.09 0.15
Matches are distributed among these distances:
48 4 0.03
49 5 0.04
50 35 0.30
51 65 0.56
52 2 0.02
53 5 0.04
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGAACATAGTACTACACATGTGACCATCACTATCCGATACACG
Found at i:38492574 original size:101 final size:102
Alignment explanation
Indices: 38492406--38492590 Score: 311
Period size: 101 Copynumber: 1.8 Consensus size: 102
38492396 TACCGGTTCA
* *
38492406 CATAGTAGCCTGAACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGAACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTACA
38492471 CATAGTACTACACACGTGATGGAAGCTATCCAGTATG
66 CATAGTACTACACACGTGATGGAAGCTATCCAGTATG
*
38492508 CATAGTAGCCTGTACATAGTACTACACATGCGACCTATCA-T-TCCGATACACGTAGTAGCCTAC
1 CATAGTAGCCTGAACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGCCTAC
*
38492571 ACATAGTACTACACATGTGA
65 ACATAGTACTACACACGTGA
38492591 CCATCACTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
101 40 0.51
102 34 0.44
103 4 0.05
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTGAACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTACA
CATAGTACTACACACGTGATGGAAGCTATCCAGTATG
Found at i:38492613 original size:101 final size:103
Alignment explanation
Indices: 38492402--38492619 Score: 268
Period size: 101 Copynumber: 2.1 Consensus size: 103
38492392 ATGATACCGG
*
38492402 TTCACATAGTAGCCTGAACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCC
1 TTCACATAGTAGCCTGAACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCC
* ** *
38492467 TGCACATAGTACTACACACGTGATGGAAGCTATCCAGT
66 TACACATAGTACTACACACGTGATCCAAGCTATCCACT
* * *
38492505 AT-GCATAGTAGCCTGTACATAGTACTACACATGCGACCTATCA-T-TCCGATACACGTAGTAGC
1 TTCACATAGTAGCCTGAACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGC
* *
38492567 CTACACATAGTACTACACATGTGA-CCATCA-CT-TTCACT
65 CTACACATAGTACTACACACGTGATCCA--AGCTATCCACT
*
38492605 TTCACATAGTGGCCT
1 TTCACATAGTAGCCT
38492620 ACACACAGTC
Statistics
Matches: 98, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
100 6 0.06
101 52 0.53
102 35 0.36
103 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (103 bp):
TTCACATAGTAGCCTGAACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCC
TACACATAGTACTACACACGTGATCCAAGCTATCCACT
Found at i:38495362 original size:20 final size:19
Alignment explanation
Indices: 38495315--38495363 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
38495305 TTTATTGAAA
*
38495315 ATGAATCAATATATATGTT
1 ATGAAACAATATATATGTT
*
38495334 AT-AATACAATTTATCATGTT
1 ATGAA-ACAATATAT-ATGTT
38495354 ATGAAACAAT
1 ATGAAACAAT
38495364 GTAAATCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 2 0.08
19 9 0.36
20 12 0.48
21 2 0.08
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (19 bp):
ATGAAACAATATATATGTT
Found at i:38496211 original size:31 final size:31
Alignment explanation
Indices: 38496173--38496234 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
38496163 CGTAACATCG
38496173 ACACATGAAATACATTATGTATTTTATCTAA
1 ACACATGAAATACATTATGTATTTTATCTAA
*
38496204 ACACATGAAATACATTATGTATTTTCTCTAA
1 ACACATGAAATACATTATGTATTTTATCTAA
38496235 CTCAGACGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.39
Consensus pattern (31 bp):
ACACATGAAATACATTATGTATTTTATCTAA
Found at i:38500644 original size:42 final size:42
Alignment explanation
Indices: 38500536--38500730 Score: 206
Period size: 42 Copynumber: 4.7 Consensus size: 42
38500526 AACTCACACA
* * *
38500536 ATGCC-ATATCCCAGATATGGTCTTACATGCTATCAT-ATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATG-AATC-TCATATCG
* * *
38500578 ATGCCAATAG--CCAG-CTACGGTCTTACAAGAATCTCATATTG
1 ATGCCAAT-GTCCCAGAC-ATGGTCTTACATGAATCTCATATCG
* *
38500619 ATGCCAATGTCCTAGACATGTTCTTACATGAATCTCATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAATCTCATATCG
*
38500661 ATGCCAATGTCCCAGACATGGTCTTACATGAATCAT-ATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAATC-TCATATCG
38500703 AT-CACAATGTCCCAGACATGGTCTTACA
1 ATGC-CAATGTCCCAGACATGGTCTTACA
38500731 CGTAATCACA
Statistics
Matches: 130, Mismatches: 14, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
40 2 0.02
41 17 0.13
42 107 0.82
43 4 0.03
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGAATCTCATATCG
Found at i:38524762 original size:17 final size:18
Alignment explanation
Indices: 38524730--38524765 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
38524720 TACTTTAATC
*
38524730 TCTTTTTCAATTTTCTTT
1 TCTTTTTCAATATTCTTT
38524748 TCTTTTTCAA-ATTCTTT
1 TCTTTTTCAATATTCTTT
38524765 T
1 T
38524766 TCACTCTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (18 bp):
TCTTTTTCAATATTCTTT
Found at i:38524852 original size:22 final size:24
Alignment explanation
Indices: 38524801--38524853 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 24
38524791 TTTCACTCTC
*
38524801 TTTCGCTT-TTTCAATTTCTTGTT
1 TTTCGTTTCTTTCAATTTCTTGTT
38524824 TTT--TTTCTTTC-ATTTCTT-TT
1 TTTCGTTTCTTTCAATTTCTTGTT
38524844 TTTCGTTTCT
1 TTTCGTTTCT
38524854 CGATTTCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 5 0.19
21 9 0.35
22 9 0.35
23 3 0.12
ACGTcount: A:0.06, C:0.17, G:0.06, T:0.72
Consensus pattern (24 bp):
TTTCGTTTCTTTCAATTTCTTGTT
Found at i:38525909 original size:11 final size:12
Alignment explanation
Indices: 38525893--38525940 Score: 55
Period size: 13 Copynumber: 4.0 Consensus size: 12
38525883 ACCACAAAAT
38525893 TTTTTTTTC-AA
1 TTTTTTTTCAAA
*
38525904 -TTTTTTTCGAA
1 TTTTTTTTCAAA
38525915 TTTTTTTTCAAAA
1 TTTTTTTTC-AAA
38525928 TTTTTTTTGCAAA
1 TTTTTTTT-CAAA
38525941 CTTACTCCGG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 8 0.25
11 2 0.06
12 8 0.25
13 13 0.41
14 1 0.03
ACGTcount: A:0.23, C:0.08, G:0.04, T:0.65
Consensus pattern (12 bp):
TTTTTTTTCAAA
Found at i:38530180 original size:23 final size:23
Alignment explanation
Indices: 38530146--38530204 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
38530136 CTACCATGCT
* *
38530146 ATAAAAGTAGACATAATTGTGCT
1 ATAAAAGCAGACATAATTGTGCC
38530169 ATAGAAA-CAGACATAATTGTGCC
1 ATA-AAAGCAGACATAATTGTGCC
38530192 ATAAAAGCAGACA
1 ATAAAAGCAGACA
38530205 AAACCATTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 3 0.09
23 26 0.81
24 3 0.09
ACGTcount: A:0.47, C:0.14, G:0.17, T:0.22
Consensus pattern (23 bp):
ATAAAAGCAGACATAATTGTGCC
Found at i:38534569 original size:11 final size:12
Alignment explanation
Indices: 38534549--38534588 Score: 55
Period size: 11 Copynumber: 3.3 Consensus size: 12
38534539 TAAATGGTTC
38534549 ATTTATATATTT
1 ATTTATATATTT
*
38534561 -TTTAAATATTT
1 ATTTATATATTT
38534572 ATTTATATATTAT
1 ATTTATATATT-T
38534585 ATTT
1 ATTT
38534589 TTAGCTCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 10 0.42
12 9 0.38
13 5 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
ATTTATATATTT
Found at i:38545619 original size:20 final size:20
Alignment explanation
Indices: 38545591--38545628 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38545581 TATTTTCTAA
*
38545591 TAAATCATTTTACAGAAAAG
1 TAAAACATTTTACAGAAAAG
*
38545611 TAAAACATTTTCCAGAAA
1 TAAAACATTTTACAGAAA
38545629 TTATTTTACG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (20 bp):
TAAAACATTTTACAGAAAAG
Found at i:38546675 original size:17 final size:17
Alignment explanation
Indices: 38546653--38546685 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
38546643 AAACACTGTT
*
38546653 GACAAGTATGTAGACCC
1 GACAAGTATGCAGACCC
38546670 GACAAGTATGCAGACC
1 GACAAGTATGCAGACC
38546686 AAGCTGTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.15
Consensus pattern (17 bp):
GACAAGTATGCAGACCC
Found at i:38548328 original size:13 final size:13
Alignment explanation
Indices: 38548312--38548336 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38548302 AAATATATTT
38548312 TAAAAATAAAAAA
1 TAAAAATAAAAAA
38548325 TAAAAATAAAAA
1 TAAAAATAAAAA
38548337 TATTTTTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:38549760 original size:35 final size:37
Alignment explanation
Indices: 38549688--38549763 Score: 129
Period size: 37 Copynumber: 2.1 Consensus size: 37
38549678 TTATTACCAA
*
38549688 TTTAAGGTTTAGTTAGTATTTTTATCAAAAAAAAAGG
1 TTTAAGGTTTAGTCAGTATTTTTATCAAAAAAAAAGG
38549725 TTTAAGGTTTAGTCAGTA-TTTTAT-AAAAAAAAAGG
1 TTTAAGGTTTAGTCAGTATTTTTATCAAAAAAAAAGG
38549760 TTTA
1 TTTA
38549764 GGCAGTAGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
35 15 0.39
36 6 0.16
37 17 0.45
ACGTcount: A:0.41, C:0.03, G:0.16, T:0.41
Consensus pattern (37 bp):
TTTAAGGTTTAGTCAGTATTTTTATCAAAAAAAAAGG
Found at i:38550553 original size:26 final size:26
Alignment explanation
Indices: 38550517--38550568 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
38550507 CAAATTGTAG
38550517 ATGAAAAATACCAATTGGTTTCTAAC
1 ATGAAAAATACCAATTGGTTTCTAAC
38550543 ATGAAAAATACCAATTGGTTTCTAAC
1 ATGAAAAATACCAATTGGTTTCTAAC
38550569 CCTTAACCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (26 bp):
ATGAAAAATACCAATTGGTTTCTAAC
Found at i:38551567 original size:34 final size:34
Alignment explanation
Indices: 38551503--38551567 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
38551493 AAATATTTAA
*
38551503 AAAAAATAAAAAATCATAAAATTTATTAAATATG
1 AAAAAATAAAAAATCATAAAACTTATTAAATATG
* *
38551537 AAAAAATAAAAATTGATATAAACTTA-TAAAT
1 AAAAAATAAAAAATCATA-AAACTTATTAAAT
38551568 TTTATAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 21 0.78
35 6 0.22
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (34 bp):
AAAAAATAAAAAATCATAAAACTTATTAAATATG
Found at i:38551600 original size:43 final size:43
Alignment explanation
Indices: 38551518--38551600 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 43
38551508 ATAAAAAATC
38551518 ATAAAATTTATTAAATATGAAAAAATAAAAATTGATATAAACTT
1 ATAAAATTTATTAAATATGAAAAAATAAAAATT-ATATAAACTT
* *
38551562 ATAAATTTTA-TAAATATTATAAAAATATAAAATT-TATAA
1 ATAAAATTTATTAAATATGA-AAAAATA-AAAATTATATAA
38551601 TGAATTATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
43 13 0.37
44 16 0.46
45 6 0.17
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.37
Consensus pattern (43 bp):
ATAAAATTTATTAAATATGAAAAAATAAAAATTATATAAACTT
Found at i:38551620 original size:45 final size:43
Alignment explanation
Indices: 38551529--38551620 Score: 96
Period size: 45 Copynumber: 2.1 Consensus size: 43
38551519 TAAAATTTAT
* **
38551529 TAAATATGAAAAAATAAAAATTGATATAAACTTATAAATTTTA
1 TAAATATGAAAAAATAAAAATTGATATAAACTTATAAAATCAA
* * *
38551572 TAAATATTATAAAAATATAAAATTTATAATGAA-TTATAAAATCAA
1 TAAATATGA-AAAAATA-AAAATTGAT-ATAAACTTATAAAATCAA
38551617 TAAA
1 TAAA
38551621 AAATATTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
43 8 0.20
44 7 0.17
45 21 0.52
46 4 0.10
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (43 bp):
TAAATATGAAAAAATAAAAATTGATATAAACTTATAAAATCAA
Found at i:38552206 original size:8 final size:9
Alignment explanation
Indices: 38552157--38552400 Score: 79
Period size: 10 Copynumber: 25.8 Consensus size: 9
38552147 TTATGATTTT
38552157 TTTTTATAA
1 TTTTTATAA
38552166 TTTTTATAA
1 TTTTTATAA
*
38552175 GTTTATATCAA
1 -TTTTTAT-AA
*
38552186 TTTTAAT-A
1 TTTTTATAA
38552194 TTTTTAT-A
1 TTTTTATAA
*
38552202 TTTTTTTACCA
1 TTTTTATA--A
*
38552213 TTTTTATTAT
1 TTTTTA-TAA
*
38552223 TTTTTAAGAA
1 TTTTT-ATAA
* * *
38552233 TTCTAATACG
1 TTTTTATA-A
*
38552243 TTTTTTTAA
1 TTTTTATAA
*
38552252 TATTTAAAATAA
1 T-TTT--TATAA
*
38552264 GTTTTATTAA
1 TTTTTA-TAA
*
38552274 TTTCATTAT-T
1 TTT--TTATAA
38552284 TTTTTATAA
1 TTTTTATAA
*
38552293 TTTATTAGAA
1 TTT-TTATAA
*
38552303 CTTATTT-GAA
1 -TT-TTTATAA
38552313 TTTTTAT-A
1 TTTTTATAA
*
38552321 TTTTTATTA
1 TTTTTATAA
*
38552330 TATTTATAA
1 TTTTTATAA
38552339 TATTTTAT-A
1 T-TTTTATAA
38552348 TTTTTATAA
1 TTTTTATAA
*
38552357 TATTTTATCA
1 T-TTTTATAA
*
38552367 TTTTAATAA
1 TTTTTATAA
* *
38552376 GGTTATATAA
1 -TTTTTATAA
*
38552386 TTTTAAT-A
1 TTTTTATAA
38552394 TTTTTAT
1 TTTTTAT
38552401 TTTTATTTTT
Statistics
Matches: 172, Mismatches: 39, Indels: 49
0.66 0.15 0.19
Matches are distributed among these distances:
8 42 0.24
9 41 0.24
10 63 0.37
11 17 0.10
12 9 0.05
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:38552208 original size:19 final size:20
Alignment explanation
Indices: 38552186--38552227 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
38552176 TTTATATCAA
*
38552186 TTTTAATATTTTTA-TATTT
1 TTTTAACATTTTTATTATTT
*
38552205 TTTTACCATTTTTATTATTT
1 TTTTAACATTTTTATTATTT
38552225 TTT
1 TTT
38552228 AAGAATTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTAACATTTTTATTATTT
Found at i:38552348 original size:16 final size:16
Alignment explanation
Indices: 38552327--38552374 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 16
38552317 TATATTTTTA
38552327 TTATATTTATAATATT
1 TTATATTTATAATATT
38552343 TTATATTTTTATAATATT
1 TTATA--TTTATAATATT
38552361 TTATCATTT-TAATA
1 TTAT-ATTTATAATA
38552375 AGGTTATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 10 0.34
17 3 0.10
18 15 0.52
19 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATATTTATAATATT
Found at i:38552349 original size:27 final size:26
Alignment explanation
Indices: 38552305--38552407 Score: 97
Period size: 27 Copynumber: 4.0 Consensus size: 26
38552295 TATTAGAACT
*
38552305 TATTTGAAT-TTTTATATTTTTATTA
1 TATTTTAATATTTTATATTTTTATTA
*
38552330 TATTTATAATATTTTATATTTTTATAA
1 TATTT-TAATATTTTATATTTTTATTA
***
38552357 TATTTT-ATCATTTTAATAAGGTTA-TA
1 TATTTTAAT-ATTTT-ATATTTTTATTA
38552383 TAATTTTAATATTTT-TATTTTTATT
1 T-ATTTTAATATTTTATATTTTTATT
38552408 TTTAATATTT
Statistics
Matches: 62, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
25 12 0.19
26 12 0.19
27 36 0.58
28 2 0.03
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (26 bp):
TATTTTAATATTTTATATTTTTATTA
Found at i:38552400 original size:19 final size:19
Alignment explanation
Indices: 38552311--38552400 Score: 57
Period size: 19 Copynumber: 4.9 Consensus size: 19
38552301 AACTTATTTG
*
38552311 AATTTTTATATTTTTAT-T
1 AATTTTAATATTTTTATAT
38552329 ATATTTATAATA-TTTTATAT
1 A-ATTT-TAATATTTTTATAT
*
38552349 --TTTT-ATAATATTT-TAT
1 AATTTTAAT-ATTTTTATAT
* ***
38552365 CATTTTAATAAGGTTATAT
1 AATTTTAATATTTTTATAT
38552384 AATTTTAATATTTTTAT
1 AATTTTAATATTTTTAT
38552401 TTTTATTTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 17
0.68 0.11 0.21
Matches are distributed among these distances:
15 2 0.04
16 5 0.09
17 6 0.11
18 8 0.15
19 28 0.52
20 5 0.09
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.62
Consensus pattern (19 bp):
AATTTTAATATTTTTATAT
Found at i:38552430 original size:21 final size:21
Alignment explanation
Indices: 38552386--38552431 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
38552376 GGTTATATAA
*
38552386 TTTTAATATTTTTATTTTTAT
1 TTTTAATATTTTAATTTTTAT
38552407 TTTTAATA-TTTAATTTATT-T
1 TTTTAATATTTTAATTT-TTAT
38552427 TTTTA
1 TTTTA
38552432 TTTTTTCCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTAATATTTTAATTTTTAT
Found at i:38553656 original size:19 final size:19
Alignment explanation
Indices: 38553632--38553671 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
38553622 TGAATGAAGT
38553632 TATGCTAAAATTGACTGAG
1 TATGCTAAAATTGACTGAG
*
38553651 TATGCTAAAATTGATTGAG
1 TATGCTAAAATTGACTGAG
38553670 TA
1 TA
38553672 CATGAATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (19 bp):
TATGCTAAAATTGACTGAG
Found at i:38554005 original size:27 final size:27
Alignment explanation
Indices: 38553967--38554073 Score: 85
Period size: 27 Copynumber: 4.1 Consensus size: 27
38553957 TGCCATGACA
* *
38553967 TACTTTGAATGGATCGCCTTTGTGGCG
1 TACTCTGAATGGATCGCCTTTATGGCG
* * *
38553994 TACTCTGAATGGTTCACCTTAATGGCG
1 TACTCTGAATGGATCGCCTTTATGGCG
* * * *
38554021 TACTCCGTAT-GATTGCCTTTATGGTG
1 TACTCTGAATGGATCGCCTTTATGGCG
* * *
38554047 TATTCTGAAT-GA-AGGCTTTATGGCG
1 TACTCTGAATGGATCGCCTTTATGGCG
38554072 TA
1 TA
38554074 TTCCGTAATT
Statistics
Matches: 62, Mismatches: 18, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
25 12 0.19
26 20 0.32
27 30 0.48
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (27 bp):
TACTCTGAATGGATCGCCTTTATGGCG
Found at i:38564816 original size:12 final size:12
Alignment explanation
Indices: 38564799--38564823 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38564789 GGTGTTCATT
38564799 CGGTTAACCGAC
1 CGGTTAACCGAC
38564811 CGGTTAACCGAC
1 CGGTTAACCGAC
38564823 C
1 C
38564824 TAAAATAATA
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:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:38564971 original size:9 final size:9
Alignment explanation
Indices: 38564957--38565050 Score: 95
Period size: 9 Copynumber: 10.4 Consensus size: 9
38564947 TTTGGTTAAA
38564957 AATTAACCG
1 AATTAACCG
38564966 AATTAACCG
1 AATTAACCG
38564975 AATT-ACCTG
1 AATTAACC-G
* *
38564984 AATTACCCA
1 AATTAACCG
*
38564993 AATT-ACTCA
1 AATTAAC-CG
*
38565002 AATTACCCG
1 AATTAACCG
38565011 AATTAACCG
1 AATTAACCG
38565020 AATT-ACTCG
1 AATTAAC-CG
*
38565029 AATTACCCG
1 AATTAACCG
38565038 AATTAACCG
1 AATTAACCG
38565047 AATT
1 AATT
38565051 GAATCACTAC
Statistics
Matches: 71, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
8 6 0.08
9 61 0.86
10 4 0.06
ACGTcount: A:0.40, C:0.24, G:0.09, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:38564996 original size:27 final size:27
Alignment explanation
Indices: 38564957--38565050 Score: 136
Period size: 27 Copynumber: 3.5 Consensus size: 27
38564947 TTTGGTTAAA
*
38564957 AATTAACCGAATTAAC-CGAATTACCTG
1 AATTAACCGAATT-ACTCGAATTACCCG
* * *
38564984 AATTACCCAAATTACTCAAATTACCCG
1 AATTAACCGAATTACTCGAATTACCCG
38565011 AATTAACCGAATTACTCGAATTACCCG
1 AATTAACCGAATTACTCGAATTACCCG
38565038 AATTAACCGAATT
1 AATTAACCGAATT
38565051 GAATCACTAC
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
26 2 0.03
27 57 0.97
ACGTcount: A:0.40, C:0.24, G:0.09, T:0.27
Consensus pattern (27 bp):
AATTAACCGAATTACTCGAATTACCCG
Found at i:38565110 original size:20 final size:20
Alignment explanation
Indices: 38565087--38565130 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
38565077 TAGACTTTAG
38565087 TTTTAGTTTTAGTT-TTAGAA
1 TTTTAGTTTTAGTTATTA-AA
* *
38565107 TTTTATTTTTATTTATTAAA
1 TTTTAGTTTTAGTTATTAAA
38565127 TTTT
1 TTTT
38565131 TTGTAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (20 bp):
TTTTAGTTTTAGTTATTAAA
Found at i:38566650 original size:31 final size:29
Alignment explanation
Indices: 38566583--38566652 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
38566573 ACCTCAGATT
*
38566583 ACATTTTAGTCACTTATATTTGAAATGTT
1 ACATTTTAGTCACTTATATTTGAAATGTA
* *
38566612 ACATTTTAGTCACTT-TCATTATCGTATTGTA
1 ACATTTTAGTCACTTAT-ATT-T-GAAATGTA
38566643 ACATTTTAGT
1 ACATTTTAGT
38566653 TACTGAGCCG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.03
29 18 0.51
30 1 0.03
31 15 0.43
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.49
Consensus pattern (29 bp):
ACATTTTAGTCACTTATATTTGAAATGTA
Found at i:38566884 original size:203 final size:204
Alignment explanation
Indices: 38566645--38567056 Score: 781
Period size: 203 Copynumber: 2.0 Consensus size: 204
38566635 GTATTGTAAC
*
38566645 ATTTTAGTTACTGAGCCGTTAATTGCCGTTAACAGTATAACAGTAAGCTGACGTGGCATGTTAAA
1 ATTTTAGTCACTGAGCCGTTAATTGCCGTTAACAGTATAACAGTAAGCTGACGTGGCATGTTAAA
38566710 TCATCATTTTAAATGAAAATTTTAGATTAAATTATACAATTGATCCCTATATTTTTTTCGTTTTG
66 TCATCATTTTAAATGAAAATTTTAGATTAAATTATACAATTGATCCCTATATTTTTTTCGTTTTG
*
38566775 AGCAATTTAATTTTTTCTTTTATGTTTTTCAAC-TTTTTTTTCTTATTTTCCATTCTCTTTTGTT
131 AGCAATTTAATTTTTTCTTTTATGTTTTTCAACTTTTTTTTTCTTATTCTCCATTCTCTTTTGTT
38566839 TCTCCCTCT
196 TCTCCCTCT
*
38566848 ATTTTAGTCACTGAGCCGTTAATTGCCGTTAACAGTATAACGGTAAGCTGACGTGGCATGTTAAA
1 ATTTTAGTCACTGAGCCGTTAATTGCCGTTAACAGTATAACAGTAAGCTGACGTGGCATGTTAAA
38566913 TCATCATTTTAAATGAAAATTTTAGATTAAATTATACAATTGATCCCTATATTTTTTTCGTTTTG
66 TCATCATTTTAAATGAAAATTTTAGATTAAATTATACAATTGATCCCTATATTTTTTTCGTTTTG
*
38566978 AGCAATTTAATTTTTTCTTTTATGTTTTTTAACTTTTTTTTTCTTATTCTCCATTCTCTTTTGTT
131 AGCAATTTAATTTTTTCTTTTATGTTTTTCAACTTTTTTTTTCTTATTCTCCATTCTCTTTTGTT
38567043 TCTCCCTCT
196 TCTCCCTCT
38567052 ATTTT
1 ATTTT
38567057 CCTCCCTTTT
Statistics
Matches: 204, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
203 160 0.78
204 44 0.22
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.49
Consensus pattern (204 bp):
ATTTTAGTCACTGAGCCGTTAATTGCCGTTAACAGTATAACAGTAAGCTGACGTGGCATGTTAAA
TCATCATTTTAAATGAAAATTTTAGATTAAATTATACAATTGATCCCTATATTTTTTTCGTTTTG
AGCAATTTAATTTTTTCTTTTATGTTTTTCAACTTTTTTTTTCTTATTCTCCATTCTCTTTTGTT
TCTCCCTCT
Found at i:38573536 original size:20 final size:20
Alignment explanation
Indices: 38573499--38573537 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
38573489 AATGACTTGG
*
38573499 AAAATTTTAATTTCGAGACC
1 AAAATTTTAAATTCGAGACC
38573519 AAAATTTTTAAATT-GAGAC
1 AAAA-TTTTAAATTCGAGAC
38573538 GTTTCGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (20 bp):
AAAATTTTAAATTCGAGACC
Found at i:38576992 original size:40 final size:40
Alignment explanation
Indices: 38576955--38577138 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
38576945 GCTACTCGTT
*
38576955 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
38576995 CAATTGCCTTCGGGACTTAACCCGGATT-TAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
38577035 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
38577074 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
38577115 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
38577139 ACATCATTCA
Statistics
Matches: 120, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 74 0.62
41 14 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:38577057 original size:79 final size:81
Alignment explanation
Indices: 38576922--38577139 Score: 229
Period size: 79 Copynumber: 2.8 Consensus size: 81
38576912 AAATCACGTA
** * *
38576922 CCTTCGGAAT-TTAA-CCGGATATAGCT-ACTC-GTTCAAATGCCTTCGGGACATAGCCCGG-TT
1 CCTTCGG-ATCTTAACCCGGATATAG-TAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGAAT
*
38576982 ATAGTAACTCGCACAATTG
64 -TAGTAACTCGCACAAATG
*
38577001 CCTTCGGGA-CTTAACCCGGATTTAGTAACTCA-CACAAATGCCTTCGGG-CTTAGCCCGGAATT
1 CCTTC-GGATCTTAACCCGGATATAGTAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGAATT
*
38577063 AGTATCTCGCACAAATG
65 AGTAACTCGCACAAATG
** * * *
38577080 CCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGA
38577140 CATCATTCAA
Statistics
Matches: 117, Mismatches: 13, Indels: 17
0.80 0.09 0.12
Matches are distributed among these distances:
78 3 0.03
79 67 0.57
80 47 0.40
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
GTAACTCGCACAAATG
Found at i:38582536 original size:27 final size:27
Alignment explanation
Indices: 38582497--38582561 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
38582487 ATATAGAGTA
*
38582497 CGCCACCAAGGCATTCCATTCAGAATT
1 CGCCACAAAGGCATTCCATTCAGAATT
* * *
38582524 TGCCACAAAGGCATTCCTTTCAGAGTT
1 CGCCACAAAGGCATTCCATTCAGAATT
38582551 CGCCACAAAGG
1 CGCCACAAAGG
38582562 TTATTCTTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (27 bp):
CGCCACAAAGGCATTCCATTCAGAATT
Found at i:38588020 original size:14 final size:14
Alignment explanation
Indices: 38587998--38588036 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
38587988 ATAACGGTGA
38587998 TAATAATAATAAAT
1 TAATAATAATAAAT
* *
38588012 TAATTATAATAGAT
1 TAATAATAATAAAT
38588026 TAATAATAATA
1 TAATAATAATA
38588037 TTACTGAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (14 bp):
TAATAATAATAAAT
Found at i:38600889 original size:36 final size:36
Alignment explanation
Indices: 38600840--38600908 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
38600830 TTCTTTCTTC
* *
38600840 TTGATTTTTCAGCTCCTGTCCAGCAGCCAAACATTT
1 TTGATTTTCCAGCTCCTGTCCAACAGCCAAACATTT
38600876 TTGATTTTCCAGCTCCTGTCCAACAGCCAAACA
1 TTGATTTTCCAGCTCCTGTCCAACAGCCAAACA
38600909 CTCAGTCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (36 bp):
TTGATTTTCCAGCTCCTGTCCAACAGCCAAACATTT
Found at i:38611050 original size:11 final size:13
Alignment explanation
Indices: 38611034--38611065 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
38611024 ATTTCAAGGA
38611034 AAAATTTCG-T-G
1 AAAATTTCGTTCG
38611045 AAAATTTCGTTCG
1 AAAATTTCGTTCG
38611058 AAAATTTC
1 AAAATTTC
38611066 AACGTTTGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 9 0.47
12 1 0.05
13 9 0.47
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (13 bp):
AAAATTTCGTTCG
Found at i:38612430 original size:50 final size:50
Alignment explanation
Indices: 38612262--38612649 Score: 458
Period size: 51 Copynumber: 7.7 Consensus size: 50
38612252 TATCGATGAA
* * ***
38612262 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGGT
** ** * *
38612313 CATATGTGTAGTACTAAACT-AAGGCTACTATGTGTACCG-AAAAGCTTTGGT
1 CACGTGTGTAGTACT-ATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGGT
* * *
38612364 CACGTGTGTAGTACTATGTGAAGGCTACTACATGAATCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
* ***
38612414 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGGT
* * * *
38612465 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGGT
* *
38612516 CACGTGTGTAGTACTATGTGAAGGCTACTACATGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
* *
38612566 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
38612616 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
38612650 TATCGAATGA
Statistics
Matches: 287, Mismatches: 41, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
49 6 0.02
50 128 0.45
51 144 0.50
52 9 0.03
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
Found at i:38612498 original size:26 final size:26
Alignment explanation
Indices: 38612418--38612500 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
38612408 CTTGATCACG
*
38612418 TGTGTAGTACTATGTGAAGGCTACTA
1 TGTGTAGTACTAAGTGAAGGCTACTA
* * *
38612444 CGTGTACCG-A-TAAATGATGG-TCAC-A
1 TGTGTA--GTACTAAGTGAAGGCT-ACTA
38612469 TGTGTAGTACTAAGTGAAGGCTACTA
1 TGTGTAGTACTAAGTGAAGGCTACTA
38612495 TGTGTA
1 TGTGTA
38612501 CCGAAAAGCT
Statistics
Matches: 43, Mismatches: 7, Indels: 14
0.67 0.11 0.22
Matches are distributed among these distances:
23 1 0.02
24 1 0.02
25 17 0.40
26 22 0.51
27 1 0.02
28 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGAAGGCTACTA
Found at i:38612538 original size:152 final size:152
Alignment explanation
Indices: 38612262--38612656 Score: 632
Period size: 152 Copynumber: 2.6 Consensus size: 152
38612252 TATCGATGAA
* * *
38612262 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCATATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGATGGTCACATGTGTAGTAC
*
38612327 TAAACT-AAGGCTACTATGTGTACCGAAAAGCTTTGGTCACGTGTGTAGTACTATGTGAAGGCTA
66 T-AAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGTCACGTGTGTAGTACTATGTGAAGGCTA
*
38612391 CTACATGAATCGTAAAACTTGAT
130 CTACATGAACCGTAAAACTTGAT
*
38612414 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGATGGTCACATGTGTAGTAC
38612479 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGTCACGTGTGTAGTACTATGTGAAGGCTAC
66 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGTCACGTGTGTAGTACTATGTGAAGGCTAC
38612544 TACATGAACCGTAAAACTTGAT
131 TACATGAACCGTAAAACTTGAT
* *** * *
38612566 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTG-TAAAACTTGATCACGTGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGATGGTCACATGTGTAGTAC
* * *
38612630 TATGTGAAGGCTACTACGTGTATCGAA
66 TAAGTGAAGGCTACTATGTGTACCGAA
38612657 TGATAAAAGT
Statistics
Matches: 226, Mismatches: 16, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
151 47 0.21
152 179 0.79
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (152 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGTCACGTGTGTAGTACTATGTGAAGGCTAC
TACATGAACCGTAAAACTTGAT
Found at i:38617831 original size:55 final size:55
Alignment explanation
Indices: 38617747--38617861 Score: 203
Period size: 55 Copynumber: 2.1 Consensus size: 55
38617737 AATTATCTAC
*
38617747 AAATATGATTGTGTGTATTGTGATGTATGCATGAATATGTATGTATTGACTTTGT
1 AAATATGATTGTGTGTATTGTGATGTATGCATGAATATGTATGTATTGACTCTGT
* *
38617802 AAATATGATTGTGTGTATTGTGATGTATGCTTGACTATGTATGTATTGACTCTGT
1 AAATATGATTGTGTGTATTGTGATGTATGCATGAATATGTATGTATTGACTCTGT
38617857 AAATA
1 AAATA
38617862 AACTATTGAT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.44
Consensus pattern (55 bp):
AAATATGATTGTGTGTATTGTGATGTATGCATGAATATGTATGTATTGACTCTGT
Found at i:38619306 original size:50 final size:50
Alignment explanation
Indices: 38619248--38619384 Score: 166
Period size: 50 Copynumber: 2.7 Consensus size: 50
38619238 TATTGAGGTT
* * *
38619248 ATGAGAGGTCCCACGTAAGACCATATCTATGACATGGAATTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGTGACATGGAATGGGCACCGAG
* * * * * *
38619298 ATGAGAGGTCCCCCATAAGACCATGTCTGGGACATAGCATGGGCACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGTGACATGGAATGGGCACCGAG
** *
38619348 ATGAGAACTCCCATGTAAGACCATGTCTGTGACATGG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGTGACATGG
38619385 CTTTGGCATG
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 71 1.00
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGTGACATGGAATGGGCACCGAG
Found at i:38619617 original size:20 final size:20
Alignment explanation
Indices: 38619592--38619641 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
38619582 ATGAGTTATT
38619592 TAAGTAAGCAAGTAAGTAAA
1 TAAGTAAGCAAGTAAGTAAA
38619612 TAAGTAAG-AGAGTAAGTAAA
1 TAAGTAAGCA-AGTAAGTAAA
*
38619632 AAAG-AAGCAA
1 TAAGTAAGCAA
38619642 ATACCGTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 5 0.19
20 22 0.81
ACGTcount: A:0.58, C:0.04, G:0.22, T:0.16
Consensus pattern (20 bp):
TAAGTAAGCAAGTAAGTAAA
Found at i:38622451 original size:36 final size:36
Alignment explanation
Indices: 38622406--38622476 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
38622396 GTAAAGCACC
38622406 TCAGTCAGAATAGATCCGAAAGGCTGCTAAACTGAG
1 TCAGTCAGAATAGATCCGAAAGGCTGCTAAACTGAG
* *
38622442 TCAGTCAGAATAGATCCGAAAGGCTGTTGAACTGA
1 TCAGTCAGAATAGATCCGAAAGGCTGCTAAACTGA
38622477 ATAGAGTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.21
Consensus pattern (36 bp):
TCAGTCAGAATAGATCCGAAAGGCTGCTAAACTGAG
Found at i:38627573 original size:20 final size:20
Alignment explanation
Indices: 38627548--38627589 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
38627538 TATGTCGAGG
* *
38627548 TTGGAGCTGAATGAGGTGAC
1 TTGGAGCTAAATGAGGTAAC
38627568 TTGGAGCTAAATGAGGTAAC
1 TTGGAGCTAAATGAGGTAAC
38627588 TT
1 TT
38627590 CTTCACTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.10, G:0.33, T:0.29
Consensus pattern (20 bp):
TTGGAGCTAAATGAGGTAAC
Found at i:38631472 original size:25 final size:25
Alignment explanation
Indices: 38631444--38631491 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
38631434 TTTAAAGGGG
*
38631444 GTAAGGCATTTCGCATGAATTTTTA
1 GTAAGGCATTTCGCATAAATTTTTA
38631469 GTAAGGCATTTCGCATAAATTTT
1 GTAAGGCATTTCGCATAAATTTT
38631492 AAAGTATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (25 bp):
GTAAGGCATTTCGCATAAATTTTTA
Found at i:38635220 original size:7 final size:6
Alignment explanation
Indices: 38635204--38635245 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
38635194 TCACATATTT
*
38635204 AAAAAG AAAAAG AAAAAG AAAAAG AATAAAG AGCAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AA-AAAG A-AAAAG AAAA
38635246 GTTTAATCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.69
7 10 0.31
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:38647339 original size:51 final size:51
Alignment explanation
Indices: 38647284--38647421 Score: 258
Period size: 51 Copynumber: 2.7 Consensus size: 51
38647274 TATCATTTGA
*
38647284 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAGCCTTCCGT
1 TACACGTAATAGCCTGCACATAGTACTACACACGTGACCAAAGCCTTCCGT
38647335 TACACGTAATAGCCTGCACATAGTACTACACACGTGACCAAAGCCTTCCGT
1 TACACGTAATAGCCTGCACATAGTACTACACACGTGACCAAAGCCTTCCGT
*
38647386 TACACGTAATAGCCTGCACTTAGTACTACACACGTG
1 TACACGTAATAGCCTGCACATAGTACTACACACGTG
38647422 TTTATAGGCA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 85 1.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.22
Consensus pattern (51 bp):
TACACGTAATAGCCTGCACATAGTACTACACACGTGACCAAAGCCTTCCGT
Found at i:38654163 original size:19 final size:19
Alignment explanation
Indices: 38654059--38654250 Score: 113
Period size: 19 Copynumber: 10.1 Consensus size: 19
38654049 TTCAAAGTCA
*
38654059 ATACTGGCACACATAGTGC
1 ATACTGGCACAAATAGTGC
** **
38654078 ATACTAACACAAA-ATGTTA
1 ATACTGGCACAAATA-GTGC
* * ***
38654097 ATATTGGCACACATAACAC
1 ATACTGGCACAAATAGTGC
* *
38654116 ATACTAGAACATAA-AGTGC
1 ATACTGGCACA-AATAGTGC
* *
38654135 ATGCTAGCACAAATAGTGC
1 ATACTGGCACAAATAGTGC
*
38654154 ATACGGGCACAGAA-AGTGC
1 ATACTGGCACA-AATAGTGC
38654173 ATACTGGCACATAA-AGTGC
1 ATACTGGCACA-AATAGTGC
* * * * *
38654192 ATATTGACACACATTGTGT
1 ATACTGGCACAAATAGTGC
*
38654211 ATACTGGCACATATAGTGC
1 ATACTGGCACAAATAGTGC
* *
38654230 ATATTGGCACACATAGTGC
1 ATACTGGCACAAATAGTGC
38654249 AT
1 AT
38654251 CATCGGATAA
Statistics
Matches: 128, Mismatches: 39, Indels: 12
0.72 0.22 0.07
Matches are distributed among these distances:
18 4 0.03
19 120 0.94
20 4 0.03
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.23
Consensus pattern (19 bp):
ATACTGGCACAAATAGTGC
Found at i:38661742 original size:17 final size:17
Alignment explanation
Indices: 38661720--38661767 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
38661710 GCAAAAATAA
38661720 ATATATTTTCTTTTTCT
1 ATATATTTTCTTTTTCT
*
38661737 ATATATTTTTCTTTCTCT
1 ATATA-TTTTCTTTTTCT
*
38661755 -T-TCTTTTCTTTTT
1 ATATATTTTCTTTTT
38661768 ACTCAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 9 0.33
16 1 0.04
17 6 0.22
18 11 0.41
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (17 bp):
ATATATTTTCTTTTTCT
Found at i:38676080 original size:20 final size:20
Alignment explanation
Indices: 38676055--38676120 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
38676045 ATCAGGAAGC
*
38676055 TTTGGTAACTTGTCTGCAAT
1 TTTGGTAACTTGTCTACAAT
**
38676075 TTTGGTGGCTTGTCTACAAT
1 TTTGGTAACTTGTCTACAAT
** * *
38676095 ACTGGCAATTTGTCTACAAT
1 TTTGGTAACTTGTCTACAAT
*
38676115 TCTGGT
1 TTTGGT
38676121 GGCTTGTTGA
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (20 bp):
TTTGGTAACTTGTCTACAAT
Found at i:38676127 original size:20 final size:20
Alignment explanation
Indices: 38676063--38676127 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
38676053 GCTTTGGTAA
* *
38676063 CTTGTCTGCAATTTTGGTGG
1 CTTGTCTACAATTCTGGTGG
* ***
38676083 CTTGTCTACAATACTGGCAA
1 CTTGTCTACAATTCTGGTGG
*
38676103 TTTGTCTACAATTCTGGTGG
1 CTTGTCTACAATTCTGGTGG
38676123 CTTGT
1 CTTGT
38676128 TGATCTACCA
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.42
Consensus pattern (20 bp):
CTTGTCTACAATTCTGGTGG
Done.