Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008745.1 Hibiscus syriacus cultivar Beakdansim tig00111834_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1915556
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 8
Found at i:1254591 original size:39 final size:39
Alignment explanation
Indices: 1254548--1254633 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
1254538 TCTGATGCTC
*
1254548 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
* *
1254587 ATCAAAATTCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
1254626 ATCAAAAT
1 ATCAAAAT
1254634 ATACAACTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.49, C:0.19, G:0.14, T:0.19
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:1255087 original size:23 final size:23
Alignment explanation
Indices: 1255056--1255128 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1255046 ATAGGTAAAA
*
1255056 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1255079 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1255102 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1255125 ATAT
1 ATAT
1255129 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1255517 original size:23 final size:23
Alignment explanation
Indices: 1255486--1255558 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1255476 ATAGGTAAAC
*
1255486 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1255509 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1255532 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1255555 ATAT
1 ATAT
1255559 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1255944 original size:23 final size:23
Alignment explanation
Indices: 1255913--1255975 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1255903 ATAGGTAAAA
*
1255913 ATATGATGTAATAGGTAACGCTT
1 ATATAATGTAATAGGTAACGCTT
* * *
1255936 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAACGCTT
1255959 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
1255976 GTGGTTATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAACGCTT
Found at i:1255983 original size:23 final size:22
Alignment explanation
Indices: 1255913--1255985 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 22
1255903 ATAGGTAAAA
* *
1255913 ATATGATGTAATAGGTAACGCTT
1 ATATAATGTAATAGGT-ATGCTT
* *
1255936 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAT-GCTT
*
1255959 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTA-TGCTT
1255982 ATAT
1 ATAT
1255986 TGTAAAGTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
22 1 0.02
23 40 0.95
24 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.41
Consensus pattern (22 bp):
ATATAATGTAATAGGTATGCTT
Found at i:1256030 original size:427 final size:429
Alignment explanation
Indices: 1254853--1256334 Score: 2745
Period size: 430 Copynumber: 3.5 Consensus size: 429
1254843 GTTAATGTTG
1254853 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAA-AATCAAATAATTTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAA-TTTTTTGTGCAA
1254917 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
65 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACAT
1254982 AAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAA
129 AAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAA
1255047 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
194 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
* *
1255112 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTCCATTG
259 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
* *
1255177 TGAAAAACATTAATTTAAGGTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
324 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
1255242 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
389 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
1255283 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
*
1255348 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
* * * *
1255413 ATTACATAACTTTTAAAAAAAGTATTGATCCTTTTTATAAAAAATATGGACACTTTCAATATAAT
131 ATTACATAAC-TTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAAT
*
1255478 AGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
195 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
1255543 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
260 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
1255608 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
325 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
1255673 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
390 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
1255713 TTAAATTAAAAATTCTAAATAATA-TTTAT-AAATATCAAACAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
*
1255776 TAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
* *
1255841 ATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGAACACTTTAAATATAATA
131 ATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATA
* *
1255906 GGTAAAAATATGATGTAATAGGTAACGCTTATATAATGTAATATGTATCGTTTATATAATGTAAT
196 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
1255971 AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
261 AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
*
1256036 GAAAACATTAATTTAAAGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
326 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
1256101 TCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 TCTAATGATTTATTTTTTACGTTACGATATATATTATTA
1256140 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1256205 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
* *
1256270 ATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATTAAAAGTATGGACACTTTCAATATAATA
131 ATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATA
1256335 TAATGTAATA
Statistics
Matches: 1019, Mismatches: 29, Indels: 9
0.96 0.03 0.01
Matches are distributed among these distances:
427 303 0.30
428 111 0.11
429 191 0.19
430 404 0.40
431 10 0.01
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.39
Consensus pattern (429 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
ATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATA
GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
TCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:1257030 original size:31 final size:31
Alignment explanation
Indices: 1256995--1257077 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 31
1256985 ATTTTTTTTT
* *
1256995 ATCAAATTAAATATCTAAAGTTATTTTTTAA
1 ATCAAAATAGATATCTAAAGTTATTTTTTAA
*
1257026 ATCAAAATAGATAACTAAAG-TA--TTTTAA
1 ATCAAAATAGATATCTAAAGTTATTTTTTAA
*
1257054 ATCAAAATAGATATTTAAA-TTATT
1 ATCAAAATAGATATCTAAAGTTATT
1257078 CAAATATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
28 25 0.57
30 2 0.05
31 17 0.39
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (31 bp):
ATCAAAATAGATATCTAAAGTTATTTTTTAA
Found at i:1259243 original size:185 final size:183
Alignment explanation
Indices: 1259007--1259395 Score: 604
Period size: 185 Copynumber: 2.1 Consensus size: 183
1258997 ATTAAATTTT
* *
1259007 AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACAATTTAAAACCCAATTAATAA
* *
1259072 TTTAAGATCTAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATA-T-AATTT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATT-TACTGAA-AT
* *
1259135 TTTTATTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTTTAATTAAA
129 TTTTATTTTATAATTATATATTATTTAAATTAATTATAAACT-TTTTTTGAATT-AA
* *
1259192 AAATATTAAATATATTATATATAACATTTGGGCTAAGCCCAAACAATTTAAAACTCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACAATTTAAAACCCAATTAATAA
*
1259257 TTTAAGATCCAATAACTTTTAAATCTAAATCAATATTAATTAATTAAAAAAATTTACCTGAAATT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTTA-CTGAAATT
*
1259322 TTTATTTTATAATTATATATTATTTAAATTAATTATACACTTTTTTTGAATTAA
130 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAA
* *
1259376 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
1259396 AATTAGAAAA
Statistics
Matches: 189, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
183 8 0.04
184 14 0.07
185 123 0.65
186 42 0.22
187 2 0.01
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (183 bp):
AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACAATTTAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTTACTGAAATTT
TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAA
Found at i:1260646 original size:2 final size:2
Alignment explanation
Indices: 1260639--1260663 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1260629 ATCGACGTGC
1260639 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1260664 CACACTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1262267 original size:22 final size:22
Alignment explanation
Indices: 1262242--1262296 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
1262232 CATAAAGCTT
1262242 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
1262264 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
1262286 TCATCTTTGAA
1 TCATCTTTGAA
1262297 GAATGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:1263834 original size:36 final size:34
Alignment explanation
Indices: 1263794--1263867 Score: 78
Period size: 35 Copynumber: 2.1 Consensus size: 34
1263784 TGTTACTTCT
1263794 TATTG-AGATGAACCTCCAAGAATGCCCAAATATTC
1 TATTGCAG-TGAACCTCCAA-AATGCCCAAATATTC
* * * *
1263829 ATATTGCTGTGAGCCTTCAAAATGCCCCAATATTC
1 -TATTGCAGTGAACCTCCAAAATGCCCAAATATTC
1263864 TATT
1 TATT
1263868 TCTGGTGGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
34 4 0.12
35 14 0.42
36 14 0.42
37 1 0.03
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (34 bp):
TATTGCAGTGAACCTCCAAAATGCCCAAATATTC
Found at i:1265072 original size:83 final size:83
Alignment explanation
Indices: 1264932--1265113 Score: 287
Period size: 83 Copynumber: 2.2 Consensus size: 83
1264922 CTTATTTCTA
*
1264932 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCCAACCAGATTAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAA
*
1264997 GAACACTTCCAGAGGATG
66 GAACACTTCCAGAAGATG
* *
1265015 CTATGAACAAATTCATCTTCTAAATTCAATGATTGGTT-T-TACCAAACCAGATCAGATAACTCA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGT-CC-AACCAGATCAGATAACTCA
1265078 AAGAACACTTCCAGAAGATG
64 AAGAACACTTCCAGAAGATG
*
1265098 CTATGAGCACATTCAT
1 CTATGAGCAAATTCAT
1265114 TTGTTCCATT
Statistics
Matches: 91, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
81 1 0.01
82 3 0.03
83 87 0.96
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (83 bp):
CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:1275621 original size:83 final size:83
Alignment explanation
Indices: 1275473--1275654 Score: 287
Period size: 83 Copynumber: 2.2 Consensus size: 83
1275463 AATGGAACAA
* * *
1275473 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACC
1 ATGAATTTGCTCATAGCATCCTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGTAAAACC
1275538 AATCATTGAATTTAGAAG
66 AATCATTGAATTTAGAAG
*
1275556 ATGAATTTGTTCATAGCATCCTCTGGAAGTGTTCTTTGAGTTATCTAATCTGG-TTGG-ACAGAA
1 ATGAATTTGCTCATAGCATCCTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGTA-A-AA
*
1275619 CCAATCATTGAATTTGGAAG
64 CCAATCATTGAATTTAGAAG
1275639 ATGAATTTGCTCATAG
1 ATGAATTTGCTCATAG
1275655 TAGAAATAAG
Statistics
Matches: 91, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
81 1 0.01
82 5 0.05
83 85 0.93
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (83 bp):
ATGAATTTGCTCATAGCATCCTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGTAAAACC
AATCATTGAATTTAGAAG
Found at i:1278319 original size:22 final size:22
Alignment explanation
Indices: 1278291--1278345 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
1278281 ATCTACATTC
1278291 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
1278313 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
1278335 TTCAAAGATGA
1 TTCAAAGATGA
1278346 AAGCTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:1279077 original size:31 final size:29
Alignment explanation
Indices: 1279042--1279109 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
1279032 CTTCAGTGCA
*
1279042 TGATGTTTCCAAAAAGCATTCGGGAGCTTTT
1 TGATGTTTCC--AAAGCATTCAGGAGCTTTT
* *
1279073 TGATGTTTTCAAAGCCTTCAGGAGCTTTT
1 TGATGTTTCCAAAGCATTCAGGAGCTTTT
1279102 TGATGTTT
1 TGATGTTT
1279110 TTAAAGCCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 25 0.74
31 9 0.26
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (29 bp):
TGATGTTTCCAAAGCATTCAGGAGCTTTT
Found at i:1279096 original size:29 final size:29
Alignment explanation
Indices: 1279054--1279120 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
1279044 ATGTTTCCAA
* *
1279054 AAAGCATTCGGGAGCTTTTTGATGTTTTC
1 AAAGCCTTCAGGAGCTTTTTGATGTTTTC
*
1279083 AAAGCCTTCAGGAGCTTTTTGATGTTTTT
1 AAAGCCTTCAGGAGCTTTTTGATGTTTTC
1279112 AAAGCCTTC
1 AAAGCCTTC
1279121 GGGTCATCTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.40
Consensus pattern (29 bp):
AAAGCCTTCAGGAGCTTTTTGATGTTTTC
Found at i:1279209 original size:76 final size:76
Alignment explanation
Indices: 1279083--1279837 Score: 1422
Period size: 76 Copynumber: 9.9 Consensus size: 76
1279073 TGATGTTTTC
* *
1279083 AAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1279148 GATGTTTCCAA
66 GATGTTTCCAA
1279159 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1279224 GATGTTTCCAA
66 GATGTTTCCAA
*
1279235 AAAGCCTTCGGGAACTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1279300 GATGTTTCCAA
66 GATGTTTCCAA
1279311 AAAGCCTTCGGGAGCTTTTTGATG-TTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1279375 GATGTTTCCAA
66 GATGTTTCCAA
*
1279386 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTACAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1279451 GATGTTTCCAA
66 GATGTTTCCAA
1279462 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1279527 GATGTTTCCAA
66 GATGTTTCCAA
*
1279538 AAAGCCTTCGGGAACTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1279603 GATGTTTCCAA
66 GATGTTTCCAA
1279614 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1279679 GATGTTTCCAA
66 GATGTTTCCAA
1279690 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1279755 GATGTTTCCAA
66 GATGTTTCCAA
* * * *
1279766 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAATCCTTCGGGTCATCTGTAAGTCCTGCAATGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1279831 GATGTTT
66 GATGTTT
1279838 TTAAGACCTC
Statistics
Matches: 666, Mismatches: 12, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
75 75 0.11
76 591 0.89
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (76 bp):
AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
GATGTTTCCAA
Found at i:1280071 original size:3 final size:3
Alignment explanation
Indices: 1279991--1280060 Score: 77
Period size: 3 Copynumber: 23.3 Consensus size: 3
1279981 TTTTACTTAA
** ** * * *
1279991 ATT ATT ATT ATT AAA ATT AAA ATT ATT GTT ATT ATA AAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1280039 ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT A
1280061 AATAATTATT
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:1280390 original size:21 final size:22
Alignment explanation
Indices: 1280355--1280398 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
1280345 CCCCACATGT
*
1280355 CACAGCTATGGGGTGAGTCACCA
1 CACAGCTAT-GGGTGACTCACCA
1280378 CACAGCTAT-GGTGACTCACCA
1 CACAGCTATGGGTGACTCACCA
1280399 GAAGTCTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
23 9 0.45
ACGTcount: A:0.27, C:0.30, G:0.25, T:0.18
Consensus pattern (22 bp):
CACAGCTATGGGTGACTCACCA
Found at i:1281100 original size:2 final size:2
Alignment explanation
Indices: 1281093--1281122 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1281083 CCTTATCAGA
1281093 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1281123 TTAGGTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1281423 original size:20 final size:21
Alignment explanation
Indices: 1281377--1281423 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
1281367 TTGCTTTTGA
*
1281377 ATATATCGTTCTAATTGTATT
1 ATATATTGTTCTAATTGTATT
* *
1281398 -TTTATTGTTTTAATTGT-TT
1 ATATATTGTTCTAATTGTATT
1281417 ATATATT
1 ATATATT
1281424 AAATATTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.62
Consensus pattern (21 bp):
ATATATTGTTCTAATTGTATT
Found at i:1283516 original size:29 final size:29
Alignment explanation
Indices: 1283471--1283530 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
1283461 GTGTTGCCGT
*
1283471 AGGTCGCCATGGTATCCGGGCGAGCTTGG
1 AGGTCGCCATGGCATCCGGGCGAGCTTGG
1283500 AGGTCGCCATGGCATCCGGGCGAGCTTGG
1 AGGTCGCCATGGCATCCGGGCGAGCTTGG
1283529 AG
1 AG
1283531 TCTCTGCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.15, C:0.25, G:0.42, T:0.18
Consensus pattern (29 bp):
AGGTCGCCATGGCATCCGGGCGAGCTTGG
Found at i:1283582 original size:60 final size:60
Alignment explanation
Indices: 1283517--1283638 Score: 244
Period size: 60 Copynumber: 2.0 Consensus size: 60
1283507 CATGGCATCC
1283517 GGGCGAGCTTGGAGTCTCTGCATGGCTGTGCATGGCGGCATGGCAACGTGGCATGGGTCT
1 GGGCGAGCTTGGAGTCTCTGCATGGCTGTGCATGGCGGCATGGCAACGTGGCATGGGTCT
1283577 GGGCGAGCTTGGAGTCTCTGCATGGCTGTGCATGGCGGCATGGCAACGTGGCATGGGTCT
1 GGGCGAGCTTGGAGTCTCTGCATGGCTGTGCATGGCGGCATGGCAACGTGGCATGGGTCT
1283637 GG
1 GG
1283639 TGGCAGCATG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.13, C:0.21, G:0.43, T:0.23
Consensus pattern (60 bp):
GGGCGAGCTTGGAGTCTCTGCATGGCTGTGCATGGCGGCATGGCAACGTGGCATGGGTCT
Found at i:1283713 original size:29 final size:28
Alignment explanation
Indices: 1283671--1283754 Score: 123
Period size: 29 Copynumber: 2.9 Consensus size: 28
1283661 GGCAACGTGG
1283671 GTAGGTCGCCAGGGAATCCCAGCGACATT
1 GTAGGTCGCCAGGG-ATCCCAGCGACATT
1283700 GTAGGTCGCCAGGGCATCCCAGCGACATT
1 GTAGGTCGCCAGGG-ATCCCAGCGACATT
* *
1283729 GTAGGTCTCCAAGGGATCCCAACGAC
1 GTAGGTCGCC-AGGGATCCCAGCGAC
1283755 CTATGCCTTC
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
29 47 0.92
30 4 0.08
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.17
Consensus pattern (28 bp):
GTAGGTCGCCAGGGATCCCAGCGACATT
Found at i:1283841 original size:12 final size:11
Alignment explanation
Indices: 1283821--1283856 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
1283811 GAAATCAGCT
1283821 GCATTATTGCA
1 GCATTATTGCA
*
1283832 GCACTTATTGCT
1 GCA-TTATTGCA
1283844 GCATTATTGCA
1 GCATTATTGCA
1283855 GC
1 GC
1283857 CCGTGAACGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (11 bp):
GCATTATTGCA
Found at i:1284447 original size:21 final size:22
Alignment explanation
Indices: 1284413--1284462 Score: 86
Period size: 21 Copynumber: 2.4 Consensus size: 22
1284403 AACAAAAATT
1284413 AGTTA-ATTAGTTGTTAGTTTA
1 AGTTATATTAGTTGTTAGTTTA
1284434 AGTTATATTA-TTGTTAGTTTA
1 AGTTATATTAGTTGTTAGTTTA
1284455 AGTTATAT
1 AGTTATAT
1284463 CATATAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 24 0.86
22 4 0.14
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (22 bp):
AGTTATATTAGTTGTTAGTTTA
Found at i:1284709 original size:30 final size:31
Alignment explanation
Indices: 1284641--1284711 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 31
1284631 ATTAGTTAAT
*
1284641 TAGTTTTTTAGTAGTAAATTATAATTAAAAA
1 TAGTTTATTAGTAGTAAATTATAATTAAAAA
* *
1284672 TCA-TTTATTAGT-TTAATTTAT-ATTAAAGAA
1 T-AGTTTATTAGTAGTAAATTATAATTAAA-AA
1284702 TAGTTTATTA
1 TAGTTTATTA
1284712 ATTGTTTAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
29 7 0.21
30 17 0.50
31 9 0.26
32 1 0.03
ACGTcount: A:0.41, C:0.01, G:0.08, T:0.49
Consensus pattern (31 bp):
TAGTTTATTAGTAGTAAATTATAATTAAAAA
Found at i:1287042 original size:14 final size:14
Alignment explanation
Indices: 1287023--1287070 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
1287013 TTCAAGTCGT
1287023 AAATCATTACTATC
1 AAATCATTACTATC
1287037 AAATCATTAC--T-
1 AAATCATTACTATC
*
1287048 AAATCATTAATATC
1 AAATCATTACTATC
1287062 AAATCATTA
1 AAATCATTA
1287071 AATATTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 9 0.30
12 1 0.03
13 1 0.03
14 19 0.63
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:1287050 original size:25 final size:25
Alignment explanation
Indices: 1287022--1287070 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
1287012 GTTCAAGTCG
*
1287022 TAAATCATTACTATCAAATCATTAC
1 TAAATCATTAATATCAAATCATTAC
1287047 TAAATCATTAATATCAAATCATTA
1 TAAATCATTAATATCAAATCATTA
1287071 AATATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (25 bp):
TAAATCATTAATATCAAATCATTAC
Found at i:1287086 original size:21 final size:22
Alignment explanation
Indices: 1287022--1287080 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 22
1287012 GTTCAAGTCG
*
1287022 TAAATCATTACTATCAAATCATT
1 TAAATCATTAATATCAAATCA-T
1287045 ACTAAATCATTAATATCAAATCAT
1 --TAAATCATTAATATCAAATCAT
1287069 TAAAT-ATTAATA
1 TAAATCATTAATA
1287081 ATAAATTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
21 7 0.21
22 5 0.15
24 1 0.03
25 20 0.61
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAATCATTAATATCAAATCAT
Found at i:1287091 original size:21 final size:22
Alignment explanation
Indices: 1287022--1287091 Score: 63
Period size: 21 Copynumber: 3.1 Consensus size: 22
1287012 GTTCAAGTCG
* *
1287022 TAAATCATTACTATCAAATCATTAC
1 TAAATCATTAATATC-AA--ATTAT
*
1287047 TAAATCATTAATATCAAATCAT
1 TAAATCATTAATATCAAATTAT
1287069 TAAAT-ATTAATAAT-AAATTAT
1 TAAATCATTAAT-ATCAAATTAT
1287090 TA
1 TA
1287092 TTACTAATCA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
21 14 0.35
22 10 0.25
24 2 0.05
25 14 0.35
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAATCATTAATATCAAATTAT
Found at i:1287106 original size:10 final size:10
Alignment explanation
Indices: 1287091--1287117 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1287081 ATAAATTATT
1287091 ATTACTAATC
1 ATTACTAATC
1287101 ATTACTAATC
1 ATTACTAATC
1287111 ATTACTA
1 ATTACTA
1287118 TCAGATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTACTAATC
Found at i:1287189 original size:60 final size:60
Alignment explanation
Indices: 1287038--1287226 Score: 312
Period size: 60 Copynumber: 3.2 Consensus size: 60
1287028 ATTACTATCA
*
1287038 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATT-ATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
* *
1287097 AATCATTACT-AATCATTACTATCAGATCATTAAA-ATTTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATA-TTAATAATAATTTCATTATTACT
*
1287156 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTAAT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
1287216 AATCATTACTA
1 AATCATTACTA
1287227 TTAAATCATT
Statistics
Matches: 120, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
57 1 0.01
58 34 0.28
59 29 0.24
60 55 0.46
61 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.01, T:0.41
Consensus pattern (60 bp):
AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
Found at i:1287233 original size:49 final size:49
Alignment explanation
Indices: 1287160--1287877 Score: 657
Period size: 49 Copynumber: 13.3 Consensus size: 49
1287150 ATTACTAATC
* *
1287160 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
* *
1287210 ATTAATAATCATTACTATTAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
*
1287259 ATTATTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAAT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC------A-T--T
1287317 CATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 -ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1287368 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
* * * *
1287417 ATTACTGATCATTACTAAATCATTAAT-ATCAAATCATTAAATATTAATAATAATTTTATT
1 ATTACTAATCATTACT--ATCA--AATCATTAAA-AATT--A-A-TAA---TAATTTCATT
* * *
1287477 ATTACTAATCATTACTAATCATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTT
1 ATTACTAATCATTACT-ATC---A--AATCA-T--TA--AAA--ATTAATAA-TAAT-TTCA--T
1287542 T
49 T
* *
1287543 ATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTATTAAT
1 ATTACTA-A--TCATTACTATCAAATCATTAAAAATTAATAATAATTTC------A-T--T
*
1287604 CATTACTAATCATTACTATCAAATCATTAAAAATTAATTATAATTTCATT
1 -ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
* *
1287654 ATTACTAATTATTACTATCAAATCATTAAAAATTAATAATAATTTTATT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
* *
1287703 ATTACTAATCATTACTAAATCATTAAT-ATCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACTAATCATTACT--ATCA--AATCATTAAA-AATT--A-A-TAA---TAATTTCATT
1287763 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1287812 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1287861 ATTACTAATCATTACTA
1 ATTACTAATCATTACTA
1287878 AATCATTAAT
Statistics
Matches: 570, Mismatches: 36, Indels: 125
0.78 0.05 0.17
Matches are distributed among these distances:
49 279 0.49
50 12 0.02
51 9 0.02
52 14 0.02
53 15 0.03
54 3 0.01
55 7 0.01
56 16 0.03
57 11 0.02
58 8 0.01
59 48 0.08
60 92 0.16
61 1 0.00
62 12 0.02
63 10 0.02
64 3 0.01
65 3 0.01
66 10 0.02
67 1 0.00
68 5 0.01
69 11 0.02
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.42
Consensus pattern (49 bp):
ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
Found at i:1287235 original size:109 final size:108
Alignment explanation
Indices: 1287098--1287997 Score: 1047
Period size: 109 Copynumber: 8.2 Consensus size: 108
1287088 ATTATTACTA
* *
1287098 ATCATTACTAATCATTACTATCAGATCATTAAAATTTAATAATAATTTCATTATTACTAATCATT
1 ATCATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATT
1287163 ACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTC
66 ACT-AATCATTAATATCAAATCATTAAATATTAATAATAATTTC
* * * *
1287207 ATTATTAATAATCATTACTATTAAATCATTAAAAATTAATAATAATTTCATTATTATTAATCATT
1 ATCATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATT
* * * * * *
1287272 ACT-ATCA--AATCATTAAA-AATT-AATAATAATTTCATTATTACTA
66 ACTAATCATTAAT-ATCAAATCATTAAATATTAA--TAATAATT--TC
1287315 ATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCAT
1 ATCATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCAT
* * * * * *
1287380 TACT-ATCA--AATCATTAAA-AATT-AATAATAATTTCATTATTACTG
65 TACTAATCATTAAT-ATCAAATCATTAAATATTAA--TAATAATT--TC
* * *
1287424 ATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTTATTATTACTAATCAT
1 ATCATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCAT
* *
1287489 TACTAATCATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTT
65 TACTAATC---A-T--T-A--A-TATCAAATCATTAAATATTAATAATAATTTC
* *
1287543 ATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTATTAATCATT
1 ATCATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATT
* * *
1287608 ACTAATCATTACTATCAAATCATTAAAAATTAATTATAATTTC
66 ACTAATCATTAATATCAAATCATTAAATATTAATAATAATTTC
* * *
1287651 ATTATTACTAATTATTACTATCAAATCATTAAAAATTAATAATAATTTTATTATTACTAATCATT
1 ATCATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATT
1287716 ACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTC
66 ACT-AATCATTAATATCAAATCATTAAATATTAATAATAATTTC
*
1287760 ATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATT
1 ATCATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATT
* * * * * *
1287825 ACT-ATCA--AATCATTAAA-AATT-AATAATAATTTCATTATTACTA
66 ACTAATCATTAAT-ATCAAATCATTAAATATTAA--TAATAATT--TC
* *
1287868 ATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCAT
1 ATCATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCAT
*
1287933 TACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTC
65 TACT-AATCATTAATATCAAATCATTAAATATTAATAATAATTTC
1287978 ATCATTACTAATCATTACTA
1 ATCATTACTAATCATTACTA
1287998 AATCTTATAA
Statistics
Matches: 697, Mismatches: 60, Indels: 68
0.84 0.07 0.08
Matches are distributed among these distances:
104 14 0.02
105 12 0.02
106 22 0.03
107 8 0.01
108 111 0.16
109 394 0.57
110 13 0.02
111 5 0.01
112 12 0.02
113 6 0.01
114 8 0.01
115 1 0.00
118 59 0.08
119 10 0.01
121 12 0.02
122 4 0.01
123 6 0.01
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (108 bp):
ATCATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATT
ACTAATCATTAATATCAAATCATTAAATATTAATAATAATTTC
Found at i:1287246 original size:28 final size:28
Alignment explanation
Indices: 1287215--1287295 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 28
1287205 TCATTATTAA
1287215 TAATCATTACTATTAAATCATTAAAAAT
1 TAATCATTACTATTAAATCATTAAAAAT
* **
1287243 TAAT-AATA--ATT---TCATT-ATTAT
1 TAATCATTACTATTAAATCATTAAAAAT
*
1287264 TAATCATTACTATCAAATCATTAAAAAT
1 TAATCATTACTATTAAATCATTAAAAAT
1287292 TAAT
1 TAAT
1287296 AATAATTTCA
Statistics
Matches: 39, Mismatches: 7, Indels: 14
0.65 0.12 0.23
Matches are distributed among these distances:
21 7 0.18
22 8 0.21
24 2 0.05
25 3 0.08
27 8 0.21
28 11 0.28
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (28 bp):
TAATCATTACTATTAAATCATTAAAAAT
Found at i:1287334 original size:60 final size:60
Alignment explanation
Indices: 1287265--1287562 Score: 262
Period size: 60 Copynumber: 5.0 Consensus size: 60
1287255 CATTATTATT
1287265 AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTA
1 AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTA
1287325 AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTATCA
1 AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC--T-A
* * * * * * *
1287388 AATCATTA--A--AAATTAATAATAATT--TCATTATTACTGATCATTACTAAATCATTA--A
1 AATCATTACTATCAAATCATTAAAAATTAATAATAATT--TCATTATTACT-AATCATTACTA
* * * * * * * *
1287443 TATCA--AATCATTAAAT-ATTAATAA-TAATTTTATTATTACTAATCATTACTAATCATTACT-
1 AATCATTACT-ATCAAATCATTAAAAATTAA--TAATAATT--TCATTATTACTAATCATTACTA
*
1287503 AATCATTACTATCAAATCATTAAAAATTAATAATAATTTTATTATTACTAATCATTACTA
1 AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTA
1287563 TCAAATCATT
Statistics
Matches: 197, Mismatches: 19, Indels: 44
0.76 0.07 0.17
Matches are distributed among these distances:
53 1 0.01
55 5 0.03
56 2 0.01
57 13 0.07
58 4 0.02
59 48 0.24
60 89 0.45
61 13 0.07
62 10 0.05
63 12 0.06
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (60 bp):
AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTA
Found at i:1287492 original size:10 final size:10
Alignment explanation
Indices: 1287477--1287513 Score: 74
Period size: 10 Copynumber: 3.7 Consensus size: 10
1287467 TAATTTTATT
1287477 ATTACTAATC
1 ATTACTAATC
1287487 ATTACTAATC
1 ATTACTAATC
1287497 ATTACTAATC
1 ATTACTAATC
1287507 ATTACTA
1 ATTACTA
1287514 TCAAATCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTACTAATC
Found at i:1287687 original size:24 final size:24
Alignment explanation
Indices: 1287601--1287688 Score: 70
Period size: 24 Copynumber: 3.6 Consensus size: 24
1287591 CATTATTATT
** *
1287601 AATCATTACTAATCATTACTATCA
1 AATCATTAAAAATTATTACTATCA
**
1287625 AATCATTAAAAATTAATTA-TAATTT
1 AATCATTAAAAATT-ATTACT-ATCA
* * **
1287650 CATTATTACTAATTATTACTATCA
1 AATCATTAAAAATTATTACTATCA
1287674 AATCATTAAAAATTA
1 AATCATTAAAAATTA
1287689 ATAATAATTT
Statistics
Matches: 46, Mismatches: 15, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
24 29 0.63
25 17 0.37
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (24 bp):
AATCATTAAAAATTATTACTATCA
Found at i:1287733 original size:60 final size:60
Alignment explanation
Indices: 1287654--1287779 Score: 209
Period size: 60 Copynumber: 2.1 Consensus size: 60
1287644 TAATTTCATT
* * *
1287654 ATTACT-AATTATTACTATCAAATCATTAAAAATTAATAATAATTTTATTATTACTAATC
1 ATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
1287713 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1287773 ATTACTA
1 ATTACTA
1287780 TCAAATCATT
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
59 6 0.10
60 56 0.90
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (60 bp):
ATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
Found at i:1287885 original size:21 final size:21
Alignment explanation
Indices: 1287861--1288001 Score: 68
Period size: 21 Copynumber: 7.0 Consensus size: 21
1287851 TAATTTCATT
1287861 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
* * *
1287882 ATTAAT-ATCAAATCATTAAAT-
1 ATTACTAATC--ATTACTAAATC
* * * *
1287903 ATTAATAATAATT--T-CATT
1 ATTACTAATCATTACTAAATC
1287921 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
* *
1287942 ATTACT-ATCAAATCATTAAAT-
1 ATTACTAATC--ATTACTAAATC
* * *
1287963 ATTAATAATAATT--T-CATC
1 ATTACTAATCATTACTAAATC
1287981 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
1288002 TTATAAATAC
Statistics
Matches: 87, Mismatches: 19, Indels: 28
0.65 0.14 0.21
Matches are distributed among these distances:
17 4 0.05
18 24 0.28
20 12 0.14
21 27 0.31
22 20 0.23
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTACTAATCATTACTAAATC
Found at i:1287891 original size:60 final size:60
Alignment explanation
Indices: 1287812--1288001 Score: 346
Period size: 60 Copynumber: 3.2 Consensus size: 60
1287802 TAATTTCATT
*
1287812 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
*
1287871 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
*
1287931 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATCATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1287991 ATTACTAAATC
1 ATTACTAAATC
1288002 TTATAAATAC
Statistics
Matches: 126, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
59 6 0.05
60 120 0.95
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.41
Consensus pattern (60 bp):
ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
Found at i:1291102 original size:28 final size:28
Alignment explanation
Indices: 1291071--1291124 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
1291061 ATAATCTAAT
*
1291071 ATATAACTTAAACTAACAAATTAATATA
1 ATATAACTTAAACTAACAAACTAATATA
1291099 ATATAACTTAAACTAACAAACTAATA
1 ATATAACTTAAACTAACAAACTAATA
1291125 ATTTATACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (28 bp):
ATATAACTTAAACTAACAAACTAATATA
Found at i:1291131 original size:28 final size:28
Alignment explanation
Indices: 1291067--1291131 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
1291057 TTATATAATC
*
1291067 TAATATATAACTTAAACTAACAAATTAA
1 TAATATATAACTTAAACTAACAAACTAA
1291095 T-ATAATATAACTTAAACTAACAAACTAA
1 TAAT-ATATAACTTAAACTAACAAACTAA
*
1291123 TAATTTATA
1 TAATATATA
1291132 CTAACAAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 29 0.88
29 2 0.06
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (28 bp):
TAATATATAACTTAAACTAACAAACTAA
Found at i:1291134 original size:21 final size:21
Alignment explanation
Indices: 1291101--1291149 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
1291091 TTAATATAAT
1291101 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
1291122 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
1291143 ATTAACT
1 A-TAACT
1291150 AAATTTCTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:1291746 original size:98 final size:98
Alignment explanation
Indices: 1291631--1291825 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
1291621 ATAATACAGC
* *
1291631 TATTACAGCTGCATGCATGAGGTCTCCTGAGCAGATATAAGAGGAATCACGCGAGGAGCAGGAGG
1 TATTACAGCTGCATGCATGAGGTCTCCTAAGCAGATATAAGAGGAATCACGCGAGGAGCAGGAGA
1291696 AATAGGTTCTCCTGAGCAGCTGCAAGTGGAATT
66 AATAGGTTCTCCTGAGCAGCTGCAAGTGGAATT
* *
1291729 TATTACAGTTGCATGCATGAGGTCTCCTAAGCAGATGTAAGAGGAATCACGCGAGGAGCAGGAGA
1 TATTACAGCTGCATGCATGAGGTCTCCTAAGCAGATATAAGAGGAATCACGCGAGGAGCAGGAGA
1291794 AATAGGTTCTCCTGAGCAGCTGCAAGTGGAAT
66 AATAGGTTCTCCTGAGCAGCTGCAAGTGGAAT
1291826 CACACGCGAG
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (98 bp):
TATTACAGCTGCATGCATGAGGTCTCCTAAGCAGATATAAGAGGAATCACGCGAGGAGCAGGAGA
AATAGGTTCTCCTGAGCAGCTGCAAGTGGAATT
Found at i:1291812 original size:50 final size:49
Alignment explanation
Indices: 1291653--1291842 Score: 147
Period size: 50 Copynumber: 3.8 Consensus size: 49
1291643 ATGCATGAGG
**
1291653 TCTCCTGAGCAGATATAAGAGGAATCACGCGAGGAGCAGGAGGAATAGGT
1 TCTCCTGAGCAGATGCAAGAGGAATCACGCGAGGAGCAGGA-GAATAGGT
* * * ** ** * *
1291703 TCTCCTGAGCAGCTGCAAGTGGAATTTATTAC-AGTTGCA--TGCATGAGG-
1 TCTCCTGAGCAGATGCAAGAGGAA-TCA-CGCGAGGAGCAGGAGAAT-AGGT
* *
1291751 TCTCCTAAGCAGATGTAAGAGGAATCACGCGAGGAGCAGGAGAAATAGGT
1 TCTCCTGAGCAGATGCAAGAGGAATCACGCGAGGAGCAGGAG-AATAGGT
* *
1291801 TCTCCTGAGCAGCTGCAAGTGGAATCACACGCGAGGAG-AGGA
1 TCTCCTGAGCAGATGCAAGAGGAAT--CACGCGAGGAGCAGGA
1291843 CCATGATTGG
Statistics
Matches: 104, Mismatches: 26, Indels: 19
0.70 0.17 0.13
Matches are distributed among these distances:
46 1 0.01
47 7 0.07
48 23 0.22
49 7 0.07
50 43 0.41
51 11 0.11
52 12 0.12
ACGTcount: A:0.31, C:0.18, G:0.32, T:0.19
Consensus pattern (49 bp):
TCTCCTGAGCAGATGCAAGAGGAATCACGCGAGGAGCAGGAGAATAGGT
Found at i:1291899 original size:29 final size:29
Alignment explanation
Indices: 1291851--1291934 Score: 114
Period size: 29 Copynumber: 2.9 Consensus size: 29
1291841 GACCATGATT
* *
1291851 GGTCGCCGGGATTGCTTGGCGACCTACAA
1 GGTCGCTGGGAGTGCTTGGCGACCTACAA
* ***
1291880 GGTCGCTGGGAGTGCATGGCGACCTTGTA
1 GGTCGCTGGGAGTGCTTGGCGACCTACAA
1291909 GGTCGCTGGGAGTGCTTGGCGACCTA
1 GGTCGCTGGGAGTGCTTGGCGACCTA
1291935 TGGTTGGGTT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.14, C:0.24, G:0.39, T:0.23
Consensus pattern (29 bp):
GGTCGCTGGGAGTGCTTGGCGACCTACAA
Found at i:1291991 original size:15 final size:15
Alignment explanation
Indices: 1291971--1292003 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
1291961 CACGATCATT
1291971 CTCATGCACACGACC
1 CTCATGCACACGACC
1291986 CTCATGCACACGACC
1 CTCATGCACACGACC
1292001 CTC
1 CTC
1292004 CTGAGCAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.48, G:0.12, T:0.15
Consensus pattern (15 bp):
CTCATGCACACGACC
Found at i:1292286 original size:29 final size:29
Alignment explanation
Indices: 1292231--1292308 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
1292221 GTTGGACGTC
*
1292231 GGGCGTGCATGGCGACCTATAAGGTCGCT
1 GGGCGTGCATGGCGACCTACAAGGTCGCT
* *
1292260 GGGCGTGCATGGCGACCTACCATGTCGCT
1 GGGCGTGCATGGCGACCTACAAGGTCGCT
* *
1292289 GGG-ATGCCCTGGCGACCTAC
1 GGGCGTG-CATGGCGACCTAC
1292309 GCCAACACTG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 2 0.05
29 41 0.95
ACGTcount: A:0.15, C:0.29, G:0.36, T:0.19
Consensus pattern (29 bp):
GGGCGTGCATGGCGACCTACAAGGTCGCT
Found at i:1294789 original size:21 final size:22
Alignment explanation
Indices: 1294765--1294805 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1294755 ACATATGATG
*
1294765 TAAAATAA-AATATTTACAACA
1 TAAAATAACAACATTTACAACA
1294786 TAAAATAACAACATTTACAA
1 TAAAATAACAACATTTACAA
1294806 TATGTACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAAATAACAACATTTACAACA
Found at i:1294930 original size:30 final size:30
Alignment explanation
Indices: 1294894--1294983 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
1294884 TTGAAATTAT
*
1294894 AAAGGACTAAAATAGA-AAACACATAAACTC
1 AAAGGACTAAAATAGATAAA-ACAGAAACTC
* *
1294924 AAAGGACTAAAATGGATAAAACAGAAACTT
1 AAAGGACTAAAATAGATAAAACAGAAACTC
* *
1294954 AAAGAACTAAAAT-GACTAAAAACAAAAACT
1 AAAGGACTAAAATAGA-T-AAAACAGAAACT
1294984 TAAGGACAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
29 2 0.04
30 36 0.69
31 14 0.27
ACGTcount: A:0.61, C:0.13, G:0.11, T:0.14
Consensus pattern (30 bp):
AAAGGACTAAAATAGATAAAACAGAAACTC
Found at i:1297272 original size:29 final size:30
Alignment explanation
Indices: 1297239--1297318 Score: 76
Period size: 29 Copynumber: 2.7 Consensus size: 30
1297229 AAGAATCAAT
1297239 TTAGAATGAGTCATAGTTTAGA-GATAAAA
1 TTAGAATGAGTCATAGTTTAGAGGATAAAA
* * * *
1297268 TTAGAATG-TTCAAAAGTTT-GAGGATCAAT
1 TTAGAATGAGTC-ATAGTTTAGAGGATAAAA
1297297 TTAGAATGATGATCATAGTTTA
1 TTAGAATGA-G-TCATAGTTTA
1297319 AGTATGTTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
28 4 0.10
29 27 0.69
31 6 0.15
32 2 0.05
ACGTcount: A:0.40, C:0.05, G:0.20, T:0.35
Consensus pattern (30 bp):
TTAGAATGAGTCATAGTTTAGAGGATAAAA
Found at i:1302090 original size:21 final size:21
Alignment explanation
Indices: 1302062--1302112 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
1302052 ATTTAATTCG
1302062 TTTG-GTTCGGGCTTGGGTGT
1 TTTGAGTTCGGGCTTGGGTGT
1302082 TTTGAGTTCGGGCTTGGGTGT
1 TTTGAGTTCGGGCTTGGGTGT
1302103 TTTGAGTTCG
1 TTTGAGTTCG
1302113 TATAAACTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 4 0.13
21 26 0.87
ACGTcount: A:0.04, C:0.10, G:0.41, T:0.45
Consensus pattern (21 bp):
TTTGAGTTCGGGCTTGGGTGT
Found at i:1306325 original size:30 final size:31
Alignment explanation
Indices: 1306282--1306348 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
1306272 AAAAATTAAA
1306282 AGTTTAGGTACTAAAACTGACCAAAACCGAT
1 AGTTTAGGTACTAAAACTGACCAAAACCGAT
* * * *
1306313 AGTTTA-GTACTAAAATTGATCGAAACTGAT
1 AGTTTAGGTACTAAAACTGACCAAAACCGAT
1306343 AGTTTA
1 AGTTTA
1306349 AATACTAAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 26 0.81
31 6 0.19
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30
Consensus pattern (31 bp):
AGTTTAGGTACTAAAACTGACCAAAACCGAT
Found at i:1310702 original size:216 final size:216
Alignment explanation
Indices: 1310452--1311015 Score: 1021
Period size: 216 Copynumber: 2.6 Consensus size: 216
1310442 ATTTAAGAAT
*
1310452 TAAATTGAACAAATATAAAATTACAAATAAAAATTTAAATAAATTAAACAACACTCGTTGATGAG
1 TAAATTGAATAAATATAAAATTACAAATAAAAATTTAAATAAATTAAACAACACTCGTTGATGAG
1310517 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAATACTAAATTATACT
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAATACTAAATTATACT
1310582 CATTTAAAAAGTTATTGGCCAATTAAAAAAATATAATTAAGTAATAAGTATGGATCAATTTCATA
131 CATTTAAAAAGTTATTGGCCAATTAAAAAAATATAATTAAGTAATAAGTATGGATCAATTTCATA
1310647 TACAAATAAAATTTGGAGGAC
196 TACAAATAAAATTTGGAGGAC
1310668 TAAATTGAATAAATATAAAATTACAAATAAAAATTTAAATAAATTAAACAACACTCGTTGATGAG
1 TAAATTGAATAAATATAAAATTACAAATAAAAATTTAAATAAATTAAACAACACTCGTTGATGAG
1310733 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAATACTAAATTATACT
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAATACTAAATTATACT
1310798 CATTTAAAAAGTTATTGGCCAATTAAAAAAATATAATTAAGTAATAAGTATGGATCAATTTCATA
131 CATTTAAAAAGTTATTGGCCAATTAAAAAAATATAATTAAGTAATAAGTATGGATCAATTTCATA
1310863 TACAAATAAAATTTGGAGGAC
196 TACAAATAAAATTTGGAGGAC
* * *
1310884 TAAATTGAATAAATATAAAATTACAAAT-AAAA-TTAAATAAATTAAACAACGCACATTGATGAG
1 TAAATTGAATAAATATAAAATTACAAATAAAAATTTAAATAAATTAAACAACACTCGTTGATGAG
* *
1310947 GGATCAAATCG--A-AATTTTAAATTGTGATGTTAAAATTAATACAAAAAAGTACTAAATTATAC
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAA-TACTAAATTATAC
*
1311009 ACATTTA
130 TCATTTA
1311016 TGTACAATTA
Statistics
Matches: 340, Mismatches: 7, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
211 34 0.10
212 20 0.06
214 39 0.11
215 4 0.01
216 243 0.71
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.31
Consensus pattern (216 bp):
TAAATTGAATAAATATAAAATTACAAATAAAAATTTAAATAAATTAAACAACACTCGTTGATGAG
GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAATACTAAATTATACT
CATTTAAAAAGTTATTGGCCAATTAAAAAAATATAATTAAGTAATAAGTATGGATCAATTTCATA
TACAAATAAAATTTGGAGGAC
Found at i:1311227 original size:38 final size:38
Alignment explanation
Indices: 1311181--1311318 Score: 162
Period size: 38 Copynumber: 3.7 Consensus size: 38
1311171 TACTAAGGTT
1311181 TATA-TTTATATA-TGAAATATAGTTTACATATAAACTA
1 TATAGTTTATATACT-AAATATAGTTTACATATAAACTA
*
1311218 TATAGTTTATATACTAACTATAGTTTACATATAAACTA
1 TATAGTTTATATACTAAATATAGTTTACATATAAACTA
*
1311256 TATAGTTTATATACTAACTATATAGTTTATATACT-AAC--
1 TATAGTTTATATACTAA--ATATAGTTTACATA-TAAACTA
*
1311294 TATAGTTTACATA-TAAACTATAGTT
1 TATAGTTTATATACTAAA-TATAGTT
1311319 AATATTTACA
Statistics
Matches: 91, Mismatches: 4, Indels: 13
0.84 0.04 0.12
Matches are distributed among these distances:
35 1 0.01
36 7 0.08
37 7 0.08
38 59 0.65
39 1 0.01
40 15 0.16
41 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (38 bp):
TATAGTTTATATACTAAATATAGTTTACATATAAACTA
Found at i:1311346 original size:18 final size:17
Alignment explanation
Indices: 1311323--1311357 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 17
1311313 ATAGTTAATA
1311323 TTTACATATGAACTATAG
1 TTTACATAT-AACTATAG
1311341 TTTACATATGAACTATA
1 TTTACATAT-AACTATA
1311358 TATATAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (17 bp):
TTTACATATAACTATAG
Found at i:1311375 original size:33 final size:32
Alignment explanation
Indices: 1311336--1311455 Score: 119
Period size: 33 Copynumber: 3.9 Consensus size: 32
1311326 ACATATGAAC
1311336 TATAGTTTACATATGAACTATATATATAAACTA
1 TATAGTTTACATATGAACTATATATATAAA-TA
*
1311369 TATAGTTTACATATGACCTATATATAT--ATA
1 TATAGTTTACATATGAACTATATATATAAATA
* * *
1311399 TATA-TATA-ATAGTTG-A-TATTTATAT-ACTA
1 TATAGTTTACATA--TGAACTATATATATAAATA
*
1311428 TATAGTTTACATATGACCTATATATATA
1 TATAGTTTACATATGAACTATATATATA
1311456 CTATAGTTTA
Statistics
Matches: 71, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
28 11 0.15
29 11 0.15
30 11 0.15
31 12 0.17
33 26 0.37
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (32 bp):
TATAGTTTACATATGAACTATATATATAAATA
Found at i:1311394 original size:2 final size:2
Alignment explanation
Indices: 1311387--1311516 Score: 68
Period size: 2 Copynumber: 61.0 Consensus size: 2
1311377 ACATATGACC
*
1311387 TA TA TA TA TA TA TA TA TA TA -A TA GT- TGA TA TT TA TA TA CTA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA T-A TA TA TA TA TA -TA
* * ** * *
1311428 TA TA GTT TA CA TA TGA CC TA TA TA TA TA CTA TA GTT TA TA TT TA
1 TA TA -TA TA TA TA T-A TA TA TA TA TA TA -TA TA -TA TA TA TA TA
*
1311472 TA TA CTA TA TA T- TA TA TA TA TA AA CTA TA TA TA CTA TA TA GTA
1 TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA -TA
1311515 TA
1 TA
1311517 ATTTACATAT
Statistics
Matches: 98, Mismatches: 16, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
1 3 0.03
2 79 0.81
3 16 0.16
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1311422 original size:22 final size:22
Alignment explanation
Indices: 1311392--1311502 Score: 75
Period size: 22 Copynumber: 4.8 Consensus size: 22
1311382 TGACCTATAT
1311392 ATATATATATA-TATAATAGTTG
1 ATATATATATACTAT-ATAGTTG
* *
1311414 ATATTTATATACTATATAGTTTAC
1 ATATATATATACTATATAG-TT-G
* *
1311438 ATATGACCTATATATATACTATAGTTT
1 ATAT-A--TATATA-CTA-TATAGTTG
*
1311465 ATATTTATATACTATATA-TT-
1 ATATATATATACTATATAGTTG
*
1311485 ATATATATAAACTATATA
1 ATATATATATACTATATA
1311503 TACTATATAG
Statistics
Matches: 72, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
20 16 0.22
21 2 0.03
22 18 0.25
23 7 0.10
24 10 0.14
27 10 0.14
28 4 0.06
29 5 0.07
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (22 bp):
ATATATATATACTATATAGTTG
Found at i:1311441 original size:18 final size:19
Alignment explanation
Indices: 1311197--1311451 Score: 153
Period size: 20 Copynumber: 13.3 Consensus size: 19
1311187 TATATATGAA
1311197 ATATAGTTTACATATAAACT
1 ATATAGTTTACATAT-AACT
*
1311217 ATATAGTTTATATACTAAC-
1 ATATAGTTTACATA-TAACT
1311236 -TATAGTTTACATATAAACT
1 ATATAGTTTACATAT-AACT
*
1311255 ATATAGTTTATATACTAACT
1 ATATAGTTTACATA-TAACT
*
1311275 ATATAGTTTATATACTAAC-
1 ATATAGTTTACATA-TAACT
1311294 -TATAGTTTACATATAAACT
1 ATATAGTTTACATAT-AACT
*
1311313 ATAGTTAATATTTACATATGAAC-
1 ATA--T-A-GTTTACATAT-AACT
1311336 -TATAGTTTACATATGAACT
1 ATATAGTTTACATAT-AACT
1311355 ATATA---T--ATA-AACT
1 ATATAGTTTACATATAACT
*
1311368 ATATAGTTTACATATGACCT
1 ATATAGTTTACATAT-AACT
* *
1311388 ATATA-TATATATAT-A-T
1 ATATAGTTTACATATAACT
**
1311404 ATAATAGTTGATATTTATATACT
1 AT-ATAGTT--TACATATA-ACT
*
1311427 ATATAGTTTACATATGACCT
1 ATATAGTTTACATAT-AACT
1311447 ATATA
1 ATATA
1311452 TATACTATAG
Statistics
Matches: 190, Mismatches: 16, Indels: 58
0.72 0.06 0.22
Matches are distributed among these distances:
13 9 0.05
15 3 0.02
16 4 0.02
17 6 0.03
18 47 0.25
19 8 0.04
20 84 0.44
21 3 0.02
22 10 0.05
23 4 0.02
24 12 0.06
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (19 bp):
ATATAGTTTACATATAACT
Found at i:1311453 original size:51 final size:50
Alignment explanation
Indices: 1311395--1311513 Score: 159
Period size: 51 Copynumber: 2.3 Consensus size: 50
1311385 CCTATATATA
* *
1311395 TATATATATATAATAGTTGATATTTATATACTATATAGTT-TACATATGACC
1 TATATATATAT-ATAGTTGATATTTATATACTATATA-TTATACATATAAAC
* *
1311446 TATATATATACTATAGTTTATATTTATATACTATATATTATATATATAAAC
1 TATATATATA-TATAGTTGATATTTATATACTATATATTATACATATAAAC
1311497 TATATATACTATATAGT
1 TATATATA-TATATAGT
1311514 ATAATTTACA
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
50 2 0.03
51 56 0.92
52 3 0.05
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (50 bp):
TATATATATATATAGTTGATATTTATATACTATATATTATACATATAAAC
Found at i:1311460 original size:9 final size:9
Alignment explanation
Indices: 1311448--1311511 Score: 51
Period size: 9 Copynumber: 6.7 Consensus size: 9
1311438 ATATGACCTA
1311448 TATATATAC
1 TATATATAC
1311457 TATAGTTTATA-
1 TATA---TATAC
*
1311468 TTTATATAC
1 TATATATAC
1311477 TATATATTA-
1 TATATA-TAC
1311486 TATATATAAAC
1 TATATAT--AC
1311497 TATATATAC
1 TATATATAC
1311506 TATATA
1 TATATA
1311512 GTATAATTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 16
0.71 0.03 0.25
Matches are distributed among these distances:
8 5 0.11
9 23 0.51
10 3 0.07
11 10 0.22
12 4 0.09
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (9 bp):
TATATATAC
Found at i:1311475 original size:20 final size:20
Alignment explanation
Indices: 1311446--1311516 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
1311436 ACATATGACC
1311446 TATATATATACTATAGT-TTA
1 TATATATATACTATA-TATTA
*
1311466 TATTTATATACTATATATTA
1 TATATATATACTATATATTA
*
1311486 TATATATAAACTATATA-TA
1 TATATATATACTATATATTA
1311505 CTATATAGTATA
1 -TATATA-TATA
1311517 ATTTACATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
19 3 0.07
20 38 0.86
21 3 0.07
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.48
Consensus pattern (20 bp):
TATATATATACTATATATTA
Found at i:1311533 original size:34 final size:36
Alignment explanation
Indices: 1311470--1311538 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 36
1311460 AGTTTATATT
*
1311470 TATATACTATATATTATATATATAAACTATATATAC
1 TATATACTATATATTATACATATAAACTATATATAC
* *
1311506 TATATAGTATA-ATT-TACATATGAACTATATATA
1 TATATACTATATATTATACATATAAACTATATATA
1311539 AAAATTCTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 17 0.57
35 3 0.10
36 10 0.33
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.43
Consensus pattern (36 bp):
TATATACTATATATTATACATATAAACTATATATAC
Found at i:1311707 original size:18 final size:18
Alignment explanation
Indices: 1311577--1311707 Score: 103
Period size: 18 Copynumber: 7.5 Consensus size: 18
1311567 TATAATTTAT
1311577 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
* *
1311595 TAATATATATAGACTATA
1 TAGTATATATAAACTATA
*
1311613 TGGTATATATAAACTATA
1 TAGTATATATAAACTATA
* * **
1311631 CATTATATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
*
1311648 TAGTATACATAAACTATA
1 TAGTATATATAAACTATA
**
1311666 TA-T-TATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
1311681 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
*
1311699 TATTATATA
1 TAGTATATA
1311708 GTTCATTGGT
Statistics
Matches: 84, Mismatches: 21, Indels: 16
0.69 0.17 0.13
Matches are distributed among these distances:
15 4 0.05
16 7 0.08
17 19 0.23
18 54 0.64
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (18 bp):
TAGTATATATAAACTATA
Found at i:1311708 original size:33 final size:33
Alignment explanation
Indices: 1311553--1311768 Score: 253
Period size: 33 Copynumber: 6.5 Consensus size: 33
1311543 TTCTAAACCC
* * *
1311553 TAAACTATACATTATATAATTTATTAGTATATA
1 TAAACTATATATTATATAGTTCATTAGTATATA
* *
1311586 TAAACTATATAATATATATAG-ACTATATGGTATATA
1 TAAACTATAT-AT-TATATAGTTC-AT-TAGTATATA
* *
1311622 TAAACTATACATTATATATAGTTCATTAGTATACA
1 TAAACTATATA-T-TATATAGTTCATTAGTATATA
1311657 TAAACTATATATTATATAGTTCATTAGTATATA
1 TAAACTATATATTATATAGTTCATTAGTATATA
*
1311690 TAAACTATATATTATATAGTTCATTGGTA-ATA
1 TAAACTATATATTATATAGTTCATTAGTATATA
1311722 TAAA-T-TATA-TATATAGTTCATTAGTATATA
1 TAAACTATATATTATATAGTTCATTAGTATATA
* *
1311752 TAACCTATATAATATAT
1 TAAACTATATATTATAT
1311769 GGCAGATACA
Statistics
Matches: 159, Mismatches: 14, Indels: 20
0.82 0.07 0.10
Matches are distributed among these distances:
29 16 0.10
30 10 0.06
31 2 0.01
32 11 0.07
33 62 0.39
34 3 0.02
35 26 0.16
36 28 0.18
37 1 0.01
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
Consensus pattern (33 bp):
TAAACTATATATTATATAGTTCATTAGTATATA
Found at i:1311743 original size:95 final size:103
Alignment explanation
Indices: 1311553--1311768 Score: 288
Period size: 104 Copynumber: 2.2 Consensus size: 103
1311543 TTCTAAACCC
* *
1311553 TAAACTATACATTATATAATTTATTAGTATATATAAACTATATAATATATATAGACTATATGGTA
1 TAAACTATATATTATATAATTCATTAGTATATATAAACTATATAATATATATAGACTATATGGTA
1311618 TATATAAACTATACATTATATATAGTTCATTAGTATACA
66 TATATAAACTATA-ATTATATATAGTTCATTAGTATACA
* *
1311657 TAAACTATATATTATATAGTTCATTAGTATATATAAACTATAT-AT-TATATAG-TTCAT-TGGT
1 TAAACTATATATTATATAATTCATTAGTATATATAAACTATATAATATATATAGACT-ATATGGT
*
1311718 A-ATATAAA-T-T-A-TATATATAGTTCATTAGTATATA
65 ATATATAAACTATAATTATATATAGTTCATTAGTATACA
* *
1311752 TAACCTATATAATATAT
1 TAAACTATATATTATAT
1311769 GGCAGATACA
Statistics
Matches: 104, Mismatches: 7, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
95 37 0.36
96 1 0.01
98 1 0.01
99 1 0.01
100 7 0.07
101 6 0.06
102 9 0.09
103 2 0.02
104 40 0.38
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
Consensus pattern (103 bp):
TAAACTATATATTATATAATTCATTAGTATATATAAACTATATAATATATATAGACTATATGGTA
TATATAAACTATAATTATATATAGTTCATTAGTATACA
Found at i:1311818 original size:17 final size:18
Alignment explanation
Indices: 1311798--1311834 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
1311788 TATAGTTCAT
1311798 TAGTATATAT-AACTATA
1 TAGTATATATAAACTATA
1311815 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
1311833 TA
1 TA
1311835 TTAATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (18 bp):
TAGTATATATAAACTATA
Found at i:1315110 original size:19 final size:19
Alignment explanation
Indices: 1315080--1315125 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
1315070 AATAAAATTT
1315080 ATATATAAGAATTAT-AAATA
1 ATATA-AAGAATT-TGAAATA
*
1315100 ATATAAAGAATTTGAATTA
1 ATATAAAGAATTTGAAATA
1315119 ATATAAA
1 ATATAAA
1315126 ATCAGATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 1 0.04
19 18 0.75
20 5 0.21
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.35
Consensus pattern (19 bp):
ATATAAAGAATTTGAAATA
Found at i:1315150 original size:14 final size:14
Alignment explanation
Indices: 1315133--1315166 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
1315123 AAAATCAGAT
1315133 TTATAATATACA-AA
1 TTATAATATA-AGAA
1315147 TTATAATATAAGAA
1 TTATAATATAAGAA
1315161 TTATAA
1 TTATAA
1315167 AAAAATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 1 0.05
14 18 0.95
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (14 bp):
TTATAATATAAGAA
Found at i:1315228 original size:71 final size:69
Alignment explanation
Indices: 1315074--1315228 Score: 181
Period size: 71 Copynumber: 2.2 Consensus size: 69
1315064 GATTATAATA
* * *
1315074 AAATTTATATATAAGAATTATAAATAATATAAAGAATTTGAATTAATATAAAATCAGATTTATAA
1 AAATTTAT-TATAAGAATTATAAAAAATATAAAGAATTTGAATTAATATAAAAACAAATTTATAA
1315139 TATAC
65 TATAC
*
1315144 AAATTATAATATAAGAATTATAAAAAAATATAAAGAA-TTGTAATTAATATAAAAACTAAATTTA
1 AAATT-TATTATAAGAATTAT-AAAAAATATAAAGAATTTG-AATTAATATAAAAAC-AAATTTA
*
1315208 -ATTAT-C
62 TAATATAC
1315214 ATAAGTTTATTATAA
1 A-AA-TTTATTATAA
1315229 ATTTAAAATA
Statistics
Matches: 73, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
70 22 0.30
71 43 0.59
72 8 0.11
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (69 bp):
AAATTTATTATAAGAATTATAAAAAATATAAAGAATTTGAATTAATATAAAAACAAATTTATAAT
ATAC
Found at i:1315242 original size:26 final size:26
Alignment explanation
Indices: 1315200--1315251 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
1315190 ATATAAAAAC
*
1315200 TAAATTTAATTATCATAAGTT-TATTA
1 TAAATTTAAATATCATAA-TTATATTA
1315226 TAAATTTAAA-ATACATAATTATATTA
1 TAAATTTAAATAT-CATAATTATATTA
1315252 ATTGTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (26 bp):
TAAATTTAAATATCATAATTATATTA
Found at i:1315367 original size:17 final size:16
Alignment explanation
Indices: 1315330--1315369 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
1315320 TGAGTTAATT
* *
1315330 ACAGGTCAGGTGCATA
1 ACAGGTCAGGTGAAAA
1315346 ACAGGTCAGGTTGAAAA
1 ACAGGTCAGG-TGAAAA
1315363 ACAGGTC
1 ACAGGTC
1315370 GGGTAATACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.17
Consensus pattern (16 bp):
ACAGGTCAGGTGAAAA
Found at i:1329699 original size:23 final size:25
Alignment explanation
Indices: 1329661--1329710 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
1329651 TCGTAACCAT
*
1329661 AATAATGATTTCTTT-AATCATTAA
1 AATAATGATTTCTTTAAATCATCAA
*
1329685 AATAAT-ATTTTTTTAAATCATCAA
1 AATAATGATTTCTTTAAATCATCAA
1329709 AA
1 AA
1329711 AATTTCTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (25 bp):
AATAATGATTTCTTTAAATCATCAA
Found at i:1330248 original size:7 final size:7
Alignment explanation
Indices: 1330238--1330262 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1330228 TTGTTTAGTG
1330238 TTTATGA
1 TTTATGA
1330245 TTTATGA
1 TTTATGA
1330252 TTTATGA
1 TTTATGA
1330259 TTTA
1 TTTA
1330263 GATATAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TTTATGA
Found at i:1330248 original size:14 final size:15
Alignment explanation
Indices: 1330231--1330263 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
1330221 TAAATTATTG
1330231 TTTAGTG-TTTATGA
1 TTTAGTGATTTATGA
1330245 TTTA-TGATTTATGA
1 TTTAGTGATTTATGA
1330259 TTTAG
1 TTTAG
1330264 ATATAATGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 2 0.12
14 15 0.88
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (15 bp):
TTTAGTGATTTATGA
Found at i:1330538 original size:2 final size:2
Alignment explanation
Indices: 1330531--1330561 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1330521 ATAAGCAAAT
1330531 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1330562 GTAATGGCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1335090 original size:60 final size:59
Alignment explanation
Indices: 1335017--1335153 Score: 136
Period size: 60 Copynumber: 2.3 Consensus size: 59
1335007 TATTTAGGTT
* * *
1335017 AAAG-TACATAAATGGTCTTTTGACTATAAGATA-TTATTTTGTTAAGTC-TCTTGATCATTA
1 AAAGTTACA-AAATGGTC-TTCGACTACAAGA-AGTTACTTTGTTAAGTCGT-TTGATCATTA
* * * * *
1335077 AAAGTTATAAAATGGTGCTTCGACTACATGAAGTTGCTTTGTTGAGTCGTTTGATTATTA
1 AAAGTTACAAAATGGT-CTTCGACTACAAGAAGTTACTTTGTTAAGTCGTTTGATCATTA
1335137 AAAGTTACAAAATGGTC
1 AAAGTTACAAAATGGTC
1335154 GTCTAACTAT
Statistics
Matches: 64, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
59 2 0.03
60 57 0.89
61 5 0.08
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (59 bp):
AAAGTTACAAAATGGTCTTCGACTACAAGAAGTTACTTTGTTAAGTCGTTTGATCATTA
Found at i:1339654 original size:28 final size:28
Alignment explanation
Indices: 1339598--1339656 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
1339588 CTCACTTTTA
1339598 TATTAAACTAATTTTAATGATTGATCAAT
1 TATTAAACTAATTTTAAT-ATTGATCAAT
*
1339627 TATTAAATTAAATTTTAAT-TTGATCAAT
1 TATTAAACT-AATTTTAATATTGATCAAT
1339655 TA
1 TA
1339657 ACCGATTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 11 0.39
29 8 0.29
30 9 0.32
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (28 bp):
TATTAAACTAATTTTAATATTGATCAAT
Found at i:1342184 original size:63 final size:62
Alignment explanation
Indices: 1342105--1342285 Score: 213
Period size: 62 Copynumber: 2.9 Consensus size: 62
1342095 TCAATCTAAA
* * *
1342105 TACCCAACATTTTAAAGTTACTATTTAAGGTATTTGACAGCTAAAAGACGTTAAAAAATTCGT
1 TACCCAACATTTTAAAGTTACTATTTAAGGTACTTGACCG-TAAAAGACGTTAAAAAACTCGT
** * * * * *
1342168 TGTCCAACTTTTTAAAGTTACCATTTAAGGTACATGTCCGTCAAAAGATGTT-AAAAACTCGT
1 TACCCAACATTTTAAAGTTACTATTTAAGGTACTTGACCGT-AAAAGACGTTAAAAAACTCGT
*
1342230 TACCCGACATTTTAAAGTTA-TCATTTAAGGTACTTGACCGTTAAAAGACGTTAAAA
1 TACCCAACATTTTAAAGTTACT-ATTTAAGGTACTTGACCG-TAAAAGACGTTAAAA
1342286 GTTCGCTACT
Statistics
Matches: 96, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
62 51 0.53
63 45 0.47
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (62 bp):
TACCCAACATTTTAAAGTTACTATTTAAGGTACTTGACCGTAAAAGACGTTAAAAAACTCGT
Found at i:1343516 original size:2 final size:2
Alignment explanation
Indices: 1343509--1343554 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
1343499 GTGACTCACA
1343509 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1343551 AG AG
1 AG AG
1343555 GAAAAACAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1358741 original size:34 final size:34
Alignment explanation
Indices: 1358693--1358758 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
1358683 CATTAAACCT
*
1358693 TTTTATATTTTAAATTTTGTAAA-AAAATATAAA
1 TTTTATAATTTAAATTTTGTAAAGAAAATATAAA
*
1358726 TTTTATGAATTTAAATTTTTTAAAGAAAATATA
1 TTTTAT-AATTTAAATTTTGTAAAGAAAATATA
1358759 TAAATATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 6 0.21
34 15 0.52
35 8 0.28
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (34 bp):
TTTTATAATTTAAATTTTGTAAAGAAAATATAAA
Found at i:1361199 original size:28 final size:27
Alignment explanation
Indices: 1361140--1361191 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
1361130 CAAAAAATAG
* * *
1361140 GTTGGGTGGAAGGTGTATATTTTTCGA
1 GTTGGGTGAAAGATGTATAATTTTCGA
1361167 GTTGGGTGAAAGATGTATAATTTTC
1 GTTGGGTGAAAGATGTATAATTTTC
1361192 AGGTTTGGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.04, G:0.33, T:0.40
Consensus pattern (27 bp):
GTTGGGTGAAAGATGTATAATTTTCGA
Found at i:1361912 original size:60 final size:60
Alignment explanation
Indices: 1361845--1361969 Score: 162
Period size: 60 Copynumber: 2.1 Consensus size: 60
1361835 AACATAATGA
* * * * * *
1361845 ATAGTCGAGTGA-TCATTTTGTAACTTTTAATAGTCGAGGGATTTAATAAAGCAACATTTT
1 ATAGTCGAATGACT-ATTTTATAACCTTTAATAGTCGACGGATTTAATAAAACAACATCTT
* *
1361905 ATAGTCGAATGACTATTTTATAACCTTTAATAGTTGACGGATTTAATAAAACAATATCTT
1 ATAGTCGAATGACTATTTTATAACCTTTAATAGTCGACGGATTTAATAAAACAACATCTT
1361965 ATAGT
1 ATAGT
1361970 GGGAGACCAT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 55 0.98
61 1 0.02
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (60 bp):
ATAGTCGAATGACTATTTTATAACCTTTAATAGTCGACGGATTTAATAAAACAACATCTT
Found at i:1364255 original size:2 final size:2
Alignment explanation
Indices: 1364248--1364301 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
1364238 TTTTGCAATA
1364248 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1364290 AT AT AT AT AT AT
1 AT AT AT AT AT AT
1364302 GGTGTTTTGG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1376419 original size:25 final size:25
Alignment explanation
Indices: 1376378--1376430 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
1376368 TCGCGGCAAC
* *
1376378 TAAAAAATATATATATTAAAAATTT
1 TAAAAAATAAATATATTAAAAATAT
*
1376403 TAAAAAATTAAAT-TATTAATAATAT
1 TAAAAAA-TAAATATATTAAAAATAT
1376428 TAA
1 TAA
1376431 CGTTTATGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
TAAAAAATAAATATATTAAAAATAT
Found at i:1377029 original size:30 final size:31
Alignment explanation
Indices: 1376995--1377058 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
1376985 AATATTATAA
** *
1376995 AAAGT-ATCCTCAATTTTTAATGATTTTATT
1 AAAGTCATCCTCAATTACTAACGATTTTATT
* *
1377025 AAAGTCATCTTCAGTTACTAACGATTTTATT
1 AAAGTCATCCTCAATTACTAACGATTTTATT
1377056 AAA
1 AAA
1377059 ATTATTAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 5 0.18
31 23 0.82
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (31 bp):
AAAGTCATCCTCAATTACTAACGATTTTATT
Found at i:1377858 original size:2 final size:2
Alignment explanation
Indices: 1377851--1377879 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1377841 TTTCTTTTTA
1377851 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1377880 ATTTTAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1379013 original size:393 final size:387
Alignment explanation
Indices: 1378274--1379035 Score: 1025
Period size: 393 Copynumber: 2.0 Consensus size: 387
1378264 CTAACTTTTT
1378274 ATTTCAGGGCAAAAAGGCTCCTAACATTTGACAAGATAGTCACTTTGACCCTTAATCTTTTTTAC
1 ATTTCAGGGCAAAAAGGC-CCTAACATTTGACAAGATAGTCACTTTGACCCTTAATCTTTTTTAC
* *
1378339 TATAGCATTTTAGCCCTCAATGTTTTATTTTAGGGTAAAAAGACTCATATTTTGGAGCGTTGAAC
65 AATAGCATTTTAGCCCTCAATGTTTCATTTTAGGGTAAAAAGACTCATATTTTGGAGCGTTGAAC
* * * * * *
1378404 GTGTGCTAATTAAAGATTTCCATCTATATAGGGGGCTTTTTGTCCTAAAATGAAATGTTGGGGTC
130 GTGTGCTAACTAAAGATTTCCATATATAGAGGGGGCTTTTTGCCCCAAAATAAAATGTTGGGGTC
*
1378469 AAAATGCTCTAAAAAGAATATGGGCCAAAATAATCATTTTAGTAAATGTTAGGGGACTAATTTTG
195 AAAATGCTCTAAAAAGAATATGGGCCAAAATAATCATTTTAGTAAACGTTAGGGGACTAATTTTG
* * * * ** * * * *
1378534 GCATTATGCCTAAACATACACTCTCCCTTATTGAATGGTTGAAGCTAATTTGTATACGCACGAAC
260 ACATTATACATAAACATAAACTCTCCCTTATTGAATAATTGAAGCTAATATATATACACACAAAC
* *
1378599 CAAGCGACTTCGGTGGTAAAAAAATTGTTGTTGCTCCTTGAGGTCTCGGGTTCAAGCACCATGA
325 CAAACGACTTCGGTGGT-AAAAAATTGATGTTGCTCCTTGAGGTCTCGGGTTCAAGCACCATGA
*
1378663 ATTTCAAGGGCAAAAAGG-CCTAACATTTGAC-AGAATAGTCACTTTG-GCCTATAATC-TTTTT
1 ATTTC-AGGGCAAAAAGGCCCTAACATTTGACAAG-ATAGTCACTTTGACCCT-TAATCTTTTTT
* * * *
1378724 ACCAATAGCATTTTGGCCCTCAATGTTTCATTTTAGTGTAAAAAATACTCATATTTTGGAGTGTT
63 A-CAATAGCATTTTAGCCCTCAATGTTTCATTTTAGGGT-AAAAAGACTCATATTTTGGAGCGTT
* * **
1378789 GATA-GTGTGTTAACTAACGATTTCCATATATAGAGGGGTTTTTTTGCCCCAAAATAAAATGTTG
126 GA-ACGTGTGCTAACTAAAGATTTCCATATATAGAGGGGGCTTTTTGCCCCAAAATAAAATGTTG
1378853 AGGGATCAAAATGCTCTAAAAAAAGAATA-GAGGCCAAAATAATCATTTTAGTAAACGTT-GGGA
190 -GGG-TCAAAATGCTCT--AAAAAGAATATG-GGCCAAAATAATCATTTTAGTAAACGTTAGGG-
* * * *
1378916 GGCTAATTTTGACATTATATATAAACATAAACTCTTCCTTATTGAATAATTTAAGCTAATATATA
249 GACTAATTTTGACATTATACATAAACATAAACTCTCCCTTATTGAATAATTGAAGCTAATATATA
**
1378981 TTTACACAAACCAAACGACTTCGGTGGTAAAAAATTGATGTTGCTCCTTGAGGTC
314 TACACACAAACCAAACGACTTCGGTGGTAAAAAATTGATGTTGCTCCTTGAGGTC
1379036 CTATGTTCGA
Statistics
Matches: 325, Mismatches: 36, Indels: 21
0.85 0.09 0.05
Matches are distributed among these distances:
387 11 0.03
388 63 0.19
389 80 0.25
390 16 0.05
391 12 0.04
392 30 0.09
393 113 0.35
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (387 bp):
ATTTCAGGGCAAAAAGGCCCTAACATTTGACAAGATAGTCACTTTGACCCTTAATCTTTTTTACA
ATAGCATTTTAGCCCTCAATGTTTCATTTTAGGGTAAAAAGACTCATATTTTGGAGCGTTGAACG
TGTGCTAACTAAAGATTTCCATATATAGAGGGGGCTTTTTGCCCCAAAATAAAATGTTGGGGTCA
AAATGCTCTAAAAAGAATATGGGCCAAAATAATCATTTTAGTAAACGTTAGGGGACTAATTTTGA
CATTATACATAAACATAAACTCTCCCTTATTGAATAATTGAAGCTAATATATATACACACAAACC
AAACGACTTCGGTGGTAAAAAATTGATGTTGCTCCTTGAGGTCTCGGGTTCAAGCACCATGA
Found at i:1383954 original size:56 final size:58
Alignment explanation
Indices: 1383817--1383965 Score: 171
Period size: 56 Copynumber: 2.6 Consensus size: 58
1383807 CTCTATCCAT
* *
1383817 AAACTTTTGAATA-TTATAATTTCATCCCTAAACTATGACTCTTATTTTAAATTAGTCCTT
1 AAACTTTTGAATATTTA-AATTTCATCCCTAAA-TATGAC-CTTATTTCAAATTAGTCCTC
* * * *
1383877 AAAATTTTGAACATTTTAATTTTATCCCTAAATATGA-CTT-TTTCAAATTAGTTCC-C
1 AAACTTTTGAATATTTAAATTTCATCCCTAAATATGACCTTATTTCAAATTAG-TCCTC
*
1383933 AAACTTTTGAATATTTAAATTTCATCCCCAAAT
1 AAACTTTTGAATATTTAAATTTCATCCCTAAAT
1383966 CCATCTAGCT
Statistics
Matches: 76, Mismatches: 11, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
56 38 0.50
57 6 0.08
59 5 0.07
60 25 0.33
61 2 0.03
ACGTcount: A:0.35, C:0.17, G:0.05, T:0.44
Consensus pattern (58 bp):
AAACTTTTGAATATTTAAATTTCATCCCTAAATATGACCTTATTTCAAATTAGTCCTC
Found at i:1384334 original size:16 final size:16
Alignment explanation
Indices: 1384299--1384339 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
1384289 ATTACATAAT
* * *
1384299 TAAAAATAAAATTTAT
1 TAAATATAAAATTAAA
1384315 TAAATATAAAATTAAA
1 TAAATATAAAATTAAA
1384331 TAAATATAA
1 TAAATATAA
1384340 TTATGTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TAAATATAAAATTAAA
Found at i:1386248 original size:79 final size:79
Alignment explanation
Indices: 1386089--1386240 Score: 214
Period size: 80 Copynumber: 1.9 Consensus size: 79
1386079 TATACAGCTG
*
1386089 TTTATCATTAAAGAATAATAAGACAATTATTTATTAGGCCTTCAAATATTAATTTATTTTGACAT
1 TTTATCATTAAAGAATAATAAGACAATTACTTATTAGGCCTTCAAATATTAATTTATTTTGACAT
*
1386154 TGCCCCCAAATTTT
66 TGACCCCAAATTTT
* * * * * **
1386168 TTTATCATTTAAGAATAATGAGATAATTACTTATTTAGGCCTTTAAATTTTAATTTATTTTGATT
1 TTTATCATTAAAGAATAATAAGACAATTACTTA-TTAGGCCTTCAAATATTAATTTATTTTGACA
1386233 TTGACCCC
65 TTGACCCC
1386241 TCATTTTTAA
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
79 29 0.46
80 34 0.54
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.45
Consensus pattern (79 bp):
TTTATCATTAAAGAATAATAAGACAATTACTTATTAGGCCTTCAAATATTAATTTATTTTGACAT
TGACCCCAAATTTT
Found at i:1393358 original size:20 final size:20
Alignment explanation
Indices: 1393325--1393363 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1393315 CGGAAATTCA
*
1393325 ATAAACAATATTCGACATTT
1 ATAAACAACATTCGACATTT
* *
1393345 ATAAACAACCTTCGTCATT
1 ATAAACAACATTCGACATT
1393364 ATCTACAAGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.33
Consensus pattern (20 bp):
ATAAACAACATTCGACATTT
Found at i:1398202 original size:32 final size:33
Alignment explanation
Indices: 1398150--1398223 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 33
1398140 ATTAAATATA
1398150 AAAATTATTATAAAATATATTGA-TTTAACCATTT
1 AAAA-TATTATAAAATATATT-ATTTTAACCATTT
**
1398184 AAAATATTAT-AAATATATTATTTTAATTATTT
1 AAAATATTATAAAATATATTATTTTAACCATTT
1398216 AAAA-ATTA
1 AAAATATTA
1398224 ATATATTCAG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
31 5 0.14
32 22 0.59
33 6 0.16
34 4 0.11
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (33 bp):
AAAATATTATAAAATATATTATTTTAACCATTT
Found at i:1398384 original size:23 final size:21
Alignment explanation
Indices: 1398358--1398399 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1398348 AGAATTTTTA
*
1398358 TTTTTATATTATTAAAATATAT
1 TTTTTA-ATGATTAAAATATAT
1398380 TTTTTAATGATTAAAATATA
1 TTTTTAATGATTAAAATATA
1398400 AAAAATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTTTAATGATTAAAATATAT
Found at i:1398420 original size:40 final size:41
Alignment explanation
Indices: 1398363--1398483 Score: 145
Period size: 42 Copynumber: 2.8 Consensus size: 41
1398353 TTTTATTTTT
*
1398363 ATATTATTAAAATATATTTTTTAATGA-TTAAAATATAAAAA
1 ATATTA-TAAAATATATTTTTTAATCATTTAAAATATAAAAA
* *
1398404 ATATTATAAAATATATTTATTTAACCATTTAAAATATAATAA
1 ATATTATAAAATATATTT-TTTAATCATTTAAAATATAAAAA
*
1398446 ATAATTATAAATATATATTATTTTAATTATTTTAAAAT
1 AT-ATTATAAA-ATATATT-TTTTAATCA-TTTAAAAT
1398484 TAATATATTT
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
40 12 0.17
41 12 0.17
42 15 0.22
43 8 0.12
44 13 0.19
45 9 0.13
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (41 bp):
ATATTATAAAATATATTTTTTAATCATTTAAAATATAAAAA
Found at i:1398488 original size:44 final size:41
Alignment explanation
Indices: 1398363--1398488 Score: 148
Period size: 44 Copynumber: 3.0 Consensus size: 41
1398353 TTTTATTTTT
* *
1398363 ATATTATTAAAATATATTTTTTAATGA-TTAAAATATAAAAA
1 ATATTA-TAAAATATATTTTTTAATCATTTAAAATATAATAA
*
1398404 ATATTATAAAATATATTTATTTAACCATTTAAAATATAATAA
1 ATATTATAAAATATATTT-TTTAATCATTTAAAATATAATAA
*
1398446 ATAATTATAAATATATATTATTTTAATTATTTTAAAAT-TAATA
1 AT-ATTATAAA-ATATATT-TTTTAATCA-TTTAAAATATAATA
1398489 TATTTGGGTT
Statistics
Matches: 74, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
40 12 0.16
41 12 0.16
42 15 0.20
43 8 0.11
44 18 0.24
45 9 0.12
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.46
Consensus pattern (41 bp):
ATATTATAAAATATATTTTTTAATCATTTAAAATATAATAA
Found at i:1402454 original size:3 final size:3
Alignment explanation
Indices: 1402446--1402470 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1402436 ACAAAAACAG
1402446 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
1402471 ACCCCATTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:1403146 original size:9 final size:9
Alignment explanation
Indices: 1403132--1403164 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
1403122 GAAATTTAAA
1403132 ATATTATAT
1 ATATTATAT
1403141 ATATTATAT
1 ATATTATAT
1403150 ATAATT-TAT
1 AT-ATTATAT
1403159 ATATTA
1 ATATTA
1403165 GGAGTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 3 0.14
9 16 0.73
10 3 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
ATATTATAT
Found at i:1403227 original size:18 final size:17
Alignment explanation
Indices: 1403204--1403238 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1403194 TTAACCGAAA
1403204 ATATTAAATATAGAATAT
1 ATATTAAATATA-AATAT
*
1403222 ATATTAATTATAAATAT
1 ATATTAAATATAAATAT
1403239 CAGTTATTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
ATATTAAATATAAATAT
Found at i:1406135 original size:3 final size:3
Alignment explanation
Indices: 1406127--1406165 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
1406117 TTAAAGTTTT
*
1406127 TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1406166 AAGAGTATGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:1407565 original size:24 final size:24
Alignment explanation
Indices: 1407536--1407581 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
1407526 ATATTGGTTT
1407536 ATGGCTTATTTACTTTCACTTTTG
1 ATGGCTTATTTACTTTCACTTTTG
*
1407560 ATGGCTTATTTACTTTCCCTTT
1 ATGGCTTATTTACTTTCACTTT
1407582 CAAATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.15, C:0.20, G:0.11, T:0.54
Consensus pattern (24 bp):
ATGGCTTATTTACTTTCACTTTTG
Found at i:1410766 original size:60 final size:60
Alignment explanation
Indices: 1410644--1410767 Score: 142
Period size: 60 Copynumber: 2.1 Consensus size: 60
1410634 AACATAATGA
* * * *
1410644 ATAGTTAAGTAATCATTTTGTAACTTTTAATAGTCGAGAGACTCAACAAAGCAACACTCT
1 ATAGTTAAGTAACCATTTTATAACTTTTAATAGTCGAGAGACTCAACAAAACAACACCCT
* * * * * *
1410704 ATAGTTGAAG-AACCATTTTATAACTTTTAATTGTTGAGGGACTTAATAAAACAATACCCT
1 ATAGTT-AAGTAACCATTTTATAACTTTTAATAGTCGAGAGACTCAACAAAACAACACCCT
1410764 ATAG
1 ATAG
1410768 GTAGGGACTA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 50 0.94
61 3 0.06
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.33
Consensus pattern (60 bp):
ATAGTTAAGTAACCATTTTATAACTTTTAATAGTCGAGAGACTCAACAAAACAACACCCT
Found at i:1413308 original size:3 final size:3
Alignment explanation
Indices: 1413300--1413369 Score: 140
Period size: 3 Copynumber: 23.3 Consensus size: 3
1413290 TACACACACA
1413300 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1413348 TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
1413370 GTTGTTGTTG
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1414228 original size:122 final size:121
Alignment explanation
Indices: 1414003--1414294 Score: 467
Period size: 122 Copynumber: 2.4 Consensus size: 121
1413993 GTAAATTACA
* * *
1414003 CGTTTAATACCTAAGCTATCAGTTTTGGTTTGTTTTAGTATCTAAACTTTAAAAAAATCAAAAGC
1 CGTTTAGTACCTAAACTATCAGTTTTGGTTTGTTTTAGTATCTAAACTTAAAAAAAATCAAAAGC
1414068 AAACCTAACATTTAGTTTTTGTTTCATTTTAGTATCCCGTAGTTAAAAACTTAACG
66 AAACCTAACATTTAGTTTTTGTTTCATTTTAGTATCCCGTAGTTAAAAACTTAACG
* * * *
1414124 TGTTTAGTACCTAAACTATCAATTTTGGTTTATTTTAGTATCTAAACTTAAAAAAAATTCAAAAT
1 CGTTTAGTACCTAAACTATCAGTTTTGGTTTGTTTTAGTATCTAAACTTAAAAAAAA-TCAAAAG
*
1414189 CAAACCTAACATTTAGTTTTTGTTTCATTTTAGTATCCCGTCGTTAAAAACTTAACG
65 CAAACCTAACATTTAGTTTTTGTTTCATTTTAGTATCCCGTAGTTAAAAACTTAACG
** * *
1414246 CGTTTAGTACCTAAACTATCAGTTTTTATATGTTTTAGTACCTAAACTT
1 CGTTTAGTACCTAAACTATCAGTTTTGGTTTGTTTTAGTATCTAAACTT
1414295 TCAATTTTAA
Statistics
Matches: 155, Mismatches: 15, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
121 51 0.33
122 104 0.67
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (121 bp):
CGTTTAGTACCTAAACTATCAGTTTTGGTTTGTTTTAGTATCTAAACTTAAAAAAAATCAAAAGC
AAACCTAACATTTAGTTTTTGTTTCATTTTAGTATCCCGTAGTTAAAAACTTAACG
Found at i:1414238 original size:60 final size:60
Alignment explanation
Indices: 1414051--1414238 Score: 145
Period size: 60 Copynumber: 3.1 Consensus size: 60
1414041 TATCTAAACT
* *
1414051 TTAAAAAAA-TCAAAAGCAAACCTAACATTTAGTTTTTGTTTCATTTTAGTATCCCGTAG
1 TTAAAAAAATTCAAAATCAAACCTAACATTTAGTTTTTGTTTCATTTTAGTATCCCGTCG
* ** * * * * * ****
1414110 TT-AAAAACTT-AACGTGTTTAGTACCTAA-ACTATCAATTTTGGTTT-ATTTTAGTATCTAAAC
1 TTAAAAAAATTCAA---AATCA-AACCTAACA-T-TTAGTTTTTGTTTCATTTTAGTATCCCGTC
1414171 -
60 G
1414171 TTAAAAAAAATTCAAAATCAAACCTAACATTTAGTTTTTGTTTCATTTTAGTATCCCGTCG
1 TT-AAAAAAATTCAAAATCAAACCTAACATTTAGTTTTTGTTTCATTTTAGTATCCCGTCG
1414232 TTAAAAA
1 TTAAAAA
1414239 CTTAACGCGT
Statistics
Matches: 90, Mismatches: 26, Indels: 25
0.64 0.18 0.18
Matches are distributed among these distances:
58 7 0.08
59 13 0.14
60 24 0.27
61 9 0.10
62 18 0.20
63 17 0.19
64 2 0.02
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.39
Consensus pattern (60 bp):
TTAAAAAAATTCAAAATCAAACCTAACATTTAGTTTTTGTTTCATTTTAGTATCCCGTCG
Found at i:1418713 original size:81 final size:82
Alignment explanation
Indices: 1418560--1418736 Score: 225
Period size: 81 Copynumber: 2.1 Consensus size: 82
1418550 AGAGTAGTCA
* * * **
1418560 TTTTGTATAAAAACGCCGTAATAGGATTCATCTATAGTGGCGTTTTTTCAACAAATATCACGGCA
1 TTTT-TATAAAAACACCGCAATAGGATTCATCTATAGTGGCG-TTTTTCAACAAACATCACAACA
*
1418625 GAGTAGTACTTTAACGGCG
64 AAGTAGTACTTTAACGGCG
*
1418644 TTTTTATAAAAACACCGCAATAGG-TTCATCTATAGTGGTC-TTTTTCAACAAACGTCACAACAA
1 TTTTTATAAAAACACCGCAATAGGATTCATCTATAGTGG-CGTTTTTCAACAAACATCACAACAA
*
1418707 AGTAGTACTTTAGCGGCG
65 AGTAGTACTTTAACGGCG
1418725 TTTGTT-TAAAAA
1 TTT-TTATAAAAA
1418737 AATCCACTAT
Statistics
Matches: 83, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
81 44 0.53
82 16 0.19
83 19 0.23
84 4 0.05
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Consensus pattern (82 bp):
TTTTTATAAAAACACCGCAATAGGATTCATCTATAGTGGCGTTTTTCAACAAACATCACAACAAA
GTAGTACTTTAACGGCG
Found at i:1420013 original size:15 final size:15
Alignment explanation
Indices: 1419989--1420018 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1419979 TATCACAATC
*
1419989 GCGCAGGATTCCGGG
1 GCGCAAGATTCCGGG
1420004 GCGCAAGATTCCGGG
1 GCGCAAGATTCCGGG
1420019 AGCACCGTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.27, G:0.43, T:0.13
Consensus pattern (15 bp):
GCGCAAGATTCCGGG
Found at i:1442173 original size:17 final size:19
Alignment explanation
Indices: 1442151--1442194 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
1442141 ATAATTATAT
1442151 AAATATTAT-TTTA-ATAA
1 AAATATTATATTTACATAA
*
1442168 AAATATAATATTTACATAA
1 AAATATTATATTTACATAA
*
1442187 ATATATTA
1 AAATATTA
1442195 ATATAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 4 0.18
19 10 0.45
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
AAATATTATATTTACATAA
Found at i:1442186 original size:19 final size:18
Alignment explanation
Indices: 1442138--1442225 Score: 55
Period size: 17 Copynumber: 5.1 Consensus size: 18
1442128 TTCTAAATAA
* *
1442138 ATAATAATT-ATATAAAT
1 ATAATATTTAATAAAAAT
*
1442155 ATTAT-TTTAATAAAAAT
1 ATAATATTTAATAAAAAT
*
1442172 ATAATATTTACATAAATAT
1 ATAATATTTA-ATAAAAAT
1442191 ATTAATA--T-A-AAAAAT
1 A-TAATATTTAATAAAAAT
1442206 AATAACTATTTAA-AAAAAT
1 -ATAA-TATTTAATAAAAAT
1442225 A
1 A
1442226 CTTACATAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
15 8 0.14
16 6 0.11
17 15 0.27
18 7 0.12
19 15 0.27
20 5 0.09
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
ATAATATTTAATAAAAAT
Found at i:1447907 original size:4 final size:4
Alignment explanation
Indices: 1447887--1447933 Score: 62
Period size: 4 Copynumber: 12.0 Consensus size: 4
1447877 AAAGGTCTAC
*
1447887 ATTT ATAT ATATT -TTT ATTT A-TT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT AT-TT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1447934 TCATATCTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
3 5 0.13
4 32 0.84
5 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:1455403 original size:18 final size:18
Alignment explanation
Indices: 1455376--1455421 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
1455366 ATTATCAATA
1455376 TAAAAT-ATATAAAAATT
1 TAAAATAATATAAAAATT
*
1455393 TAAAATAATATAAAATTT
1 TAAAATAATATAAAAATT
* *
1455411 TGAAAGAATAT
1 TAAAATAATAT
1455422 GATCACCCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (18 bp):
TAAAATAATATAAAAATT
Found at i:1456298 original size:31 final size:31
Alignment explanation
Indices: 1456260--1456323 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
1456250 CAATGGTAAG
1456260 TAAACAACAAAATTTTAACAATTTAGCACAC
1 TAAACAACAAAATTTTAACAATTTAGCACAC
1456291 TAAACAACAAAATTTTAACAATTTAGCACAC
1 TAAACAACAAAATTTTAACAATTTAGCACAC
1456322 TA
1 TA
1456324 TCAAATCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.52, C:0.19, G:0.03, T:0.27
Consensus pattern (31 bp):
TAAACAACAAAATTTTAACAATTTAGCACAC
Found at i:1468605 original size:111 final size:111
Alignment explanation
Indices: 1468467--1468761 Score: 382
Period size: 111 Copynumber: 2.7 Consensus size: 111
1468457 CCTATTTGCG
* * * *
1468467 CCTACTTCCTCTACAGCATGCATATCCTTCAAATTTTCAGTTTGTTCAGACACATTATTCACCAT
1 CCTACTTCCCCTACAGCATGAATATCCTCCAAATTTTCAGTTTGTTCAGACACATTAGTCACCAT
*
1468532 TTTTCCTTCCATCACAGGGTCCTCCTGTGCCTC-GACCATATCCATA
66 TTTTCCTTCCATCACAGGGTCCTCCTCTGCCTCAG-CCATATCCATA
* *
1468578 CCTGCTTCCCCTACAGCATGAATATCCTCCAAACTTTCAGTTTGTTCAGACACATTAGTCACCAT
1 CCTACTTCCCCTACAGCATGAATATCCTCCAAATTTTCAGTTTGTTCAGACACATTAGTCACCAT
* ** * ***
1468643 TTTTCCTTCCATCACAGGGTTCTCCTCTGGTTCAGTCATATTGGTA
66 TTTTCCTTCCATCACAGGGTCCTCCTCTGCCTCAGCCATATCCATA
* * * *
1468689 CCTACTTCCCCTACAGCATGAATGTCCTCCAAATTTTCA---TGCTCAGACACAGTCGTCACCAT
1 CCTACTTCCCCTACAGCATGAATATCCTCCAAATTTTCAGTTTGTTCAGACACATTAGTCACCAT
*
1468751 TTTTTCTTCCA
66 TTTTCCTTCCA
1468762 AAGTTCCAAC
Statistics
Matches: 162, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
108 30 0.19
111 131 0.81
112 1 0.01
ACGTcount: A:0.22, C:0.32, G:0.11, T:0.35
Consensus pattern (111 bp):
CCTACTTCCCCTACAGCATGAATATCCTCCAAATTTTCAGTTTGTTCAGACACATTAGTCACCAT
TTTTCCTTCCATCACAGGGTCCTCCTCTGCCTCAGCCATATCCATA
Found at i:1473682 original size:5 final size:6
Alignment explanation
Indices: 1473655--1473690 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
1473645 CCTGTGGATT
1473655 GACCAC GACCAC GACCAC GACC-C GACC-C GACC-C GAC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GAC
1473691 TTGAGACGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 14 0.47
6 16 0.53
ACGTcount: A:0.28, C:0.53, G:0.19, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:1474322 original size:21 final size:21
Alignment explanation
Indices: 1474298--1474484 Score: 134
Period size: 21 Copynumber: 8.8 Consensus size: 21
1474288 TGCGATTTTG
1474298 GACTATCGCAACGCGAACTTC
1 GACTATCGCAACGCGAACTTC
* * *
1474319 GACTACCGCAA--CGAATTTG
1 GACTATCGCAACGCGAACTTC
* *
1474338 GAATAAATCGCAACACGAACTTC
1 GACT--ATCGCAACGCGAACTTC
* *
1474361 GACTATCGCAA--CGAATTTG
1 GACTATCGCAACGCGAACTTC
*
1474380 GAATAAATCGCAACGCGAACTTC
1 GACT--ATCGCAACGCGAACTTC
*
1474403 GACTATCGCAA--CGAACTTG
1 GACTATCGCAACGCGAACTTC
* *
1474422 GAATAAATCGTAACGCGAACTTC
1 GACT--ATCGCAACGCGAACTTC
*
1474445 GACTATCGCATTAACGCGAACTTG
1 GACTATCGC---AACGCGAACTTC
*
1474469 GACTATCGCAATGCGA
1 GACTATCGCAACGCGA
1474485 TAGTCGAAGT
Statistics
Matches: 129, Mismatches: 22, Indels: 30
0.71 0.12 0.17
Matches are distributed among these distances:
19 28 0.22
21 53 0.41
23 28 0.22
24 20 0.16
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (21 bp):
GACTATCGCAACGCGAACTTC
Found at i:1474349 original size:42 final size:42
Alignment explanation
Indices: 1474302--1474454 Score: 270
Period size: 42 Copynumber: 3.6 Consensus size: 42
1474292 ATTTTGGACT
*
1474302 ATCGCAACGCGAACTTCGACTACCGCAACGAATTTGGAATAA
1 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAA
*
1474344 ATCGCAACACGAACTTCGACTATCGCAACGAATTTGGAATAA
1 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAA
*
1474386 ATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAA
1 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAA
*
1474428 ATCGTAACGCGAACTTCGACTATCGCA
1 ATCGCAACGCGAACTTCGACTATCGCA
1474455 TTAACGCGAA
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 106 1.00
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.20
Consensus pattern (42 bp):
ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAA
Found at i:1474462 original size:24 final size:24
Alignment explanation
Indices: 1474432--1474478 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
1474422 GAATAAATCG
1474432 TAACGCGAACTTCGACTATCGCAT
1 TAACGCGAACTTCGACTATCGCAT
*
1474456 TAACGCGAACTTGGACTATCGCA
1 TAACGCGAACTTCGACTATCGCA
1474479 ATGCGATAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (24 bp):
TAACGCGAACTTCGACTATCGCAT
Done.