Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008693.1 Hibiscus syriacus cultivar Beakdansim tig00111721_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: 2243253
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 10
Found at i:860461 original size:181 final size:181
Alignment explanation
Indices: 860115--860585 Score: 662
Period size: 179 Copynumber: 2.6 Consensus size: 181
860105 GATCCAAATT
* * * * * **
860115 AAAAATGTGTCGATCTAAAACGTTATAACAGGTAAAACTATGACAAAATCGGTATTGAAATGATA
1 AAAAATGTATCGATCTAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * *
860180 AAACTGGTAAAGCGCTACCGGATACATTTAAAGTGTC-AGTACTTTAATATAAGGATCGACACTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGA-TACTTTAATATAAGGATCGACACTT
*
860244 CGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
130 CGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATAC-TTTA
860297 AAAAATGTATCGATCTAAAACGATAT-ACGAGGTAAAAATATGATAAAACCGGTATCAAAATGAT
1 AAAAATGTATCGATCTAAAACGATATAAC-AGGTAAAAATATGATAAAACCGGTATCAAAATGAT
* *
860361 AAAACCGGTAAAACGTTACAGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTT
65 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* * ** *
860425 TGTGATTTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTA
130 CGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTA
* * * *
860477 AAAAA-ATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATT
1 AAAAATGTATCGATCTAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
*
860541 AAACCGGTAAAAAGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
860586 CGTAAGTGCG
Statistics
Matches: 260, Mismatches: 26, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
179 94 0.36
180 11 0.04
181 62 0.24
182 92 0.35
183 1 0.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (181 bp):
AAAAATGTATCGATCTAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTA
Found at i:860529 original size:20 final size:19
Alignment explanation
Indices: 860506--860553 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
860496 CGATATAACA
860506 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
* *
860526 GGTATCAAAATGATTAAACC
1 GGTA-AAAAATGATAAAACC
860546 GGTAAAAA
1 GGTAAAAA
860554 GATACCGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 3 0.12
20 18 0.75
21 3 0.12
ACGTcount: A:0.52, C:0.10, G:0.17, T:0.21
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:862880 original size:33 final size:33
Alignment explanation
Indices: 862838--862901 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
862828 ATAGATGGAT
*
862838 TGGTGAAAGAAGTAGAGGTGTTGAGGGGTGAAG
1 TGGTGAAAGAAGTAGAGGTGTTAAGGGGTGAAG
* *
862871 TGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 TGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
862902 TATTAAGATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.28, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
TGGTGAAAGAAGTAGAGGTGTTAAGGGGTGAAG
Found at i:864717 original size:19 final size:19
Alignment explanation
Indices: 864693--864741 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
864683 AATGTAGGGT
864693 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
864712 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
864731 TAATTTTGTAT
1 TAATTTTGTAT
864742 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:865917 original size:401 final size:400
Alignment explanation
Indices: 864997--866118 Score: 1985
Period size: 401 Copynumber: 2.8 Consensus size: 400
864987 GTGCAACCAT
*
864997 AAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
* * *
865062 TCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTTTAAATAATGTATTGACACTTTTGTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTT
*
865127 TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCTATA
131 TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATA
* *
865192 TATAAAAAGTGTCGATCCGATAAACATCGAAACCTATAAGTATAATGTAATAGGTAATTTTTCAA
196 TATAAAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAA
*
865257 TCTAACCAGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTG
261 TCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTG
*
865322 TAGTTTGTGTAGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGAT
326 TAGTTTGTGTAGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGAAACAATAAAGTGTCGAT
*
865387 CCATATATAA
391 CCAAATATAA
*
865397 AAAGTGTCGATCTCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
865462 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTT
865527 TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATA
131 TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATA
865592 TATAAAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAA
196 TATAAAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAA
* * *
865657 ACTAACCGGTACAAGTATATCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGATACTTTTT
261 TCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACAC-TTTT
*
865722 GTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGAAACAATAAAGTGTCGA
325 GTAGTTTGTGTAGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGAAACAATAAAGTGTCGA
865787 TCCAAATATAA
390 TCCAAATATAA
865798 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
* * *
865863 CCGGTACAAGTATATCGATTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTT
* *
865928 TGTGTCGATATTTTTGGTCCAAAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATA
131 TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATA
* *
865993 TATAAAAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTATTAGGTAATTTTTCAA
196 TATAAAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAA
* * * *
866058 TCTAACCGGTATAAGTATACCGGTTTTATGGGAGAATTGGTATATAAT-ATGTATCGACACT
261 TCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTA-AATAATGTATCGACACT
866119 GTTTAATGTT
Statistics
Matches: 690, Mismatches: 30, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
400 309 0.45
401 378 0.55
402 3 0.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (400 bp):
AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTT
TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATA
TATAAAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAA
TCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTG
TAGTTTGTGTAGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGAAACAATAAAGTGTCGAT
CCAAATATAA
Found at i:866137 original size:200 final size:200
Alignment explanation
Indices: 864997--866118 Score: 1985
Period size: 200 Copynumber: 5.6 Consensus size: 200
864987 GTGCAACCAT
*
864997 AAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
* * *
865062 TCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTTTAAATAATGTATTGACACTTTTGTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTT
*
865127 TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCTATA
131 TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATA
865192 TATAA
196 TATAA
* *
865197 AAAGTGTCGATCCGATAAACATCGAAACCTATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
*
865262 CCAGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTT
*
865327 TGTGTAGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATA
131 TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATA
865392 TATAA
196 TATAA
*
865397 AAAGTGTCGATCTCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
865462 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTT
865527 TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATA
131 TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATA
865592 TATAA
196 TATAA
*
865597 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAAACTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
* *
865662 CCGGTACAAGTATATCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGATACTTTTTGTAGT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACAC-TTTTGTAGT
* *
865727 TTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGAAACAATAAAGTGTCGATCCAA
130 TTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCAT
865792 ATATAA
195 ATATAA
865798 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
* * *
865863 CCGGTACAAGTATATCGATTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTT
* *
865928 TGTGTCGATATTTTTGGTCCAAAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATA
131 TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATA
865993 TATAA
196 TATAA
* *
865998 AAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTATTAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
* * * *
866063 CCGGTATAAGTATACCGGTTTTATGGGAGAATTGGTATATAAT-ATGTATCGACACT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTA-AATAATGTATCGACACT
866119 GTTTAATGTT
Statistics
Matches: 883, Mismatches: 37, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
200 686 0.78
201 197 0.22
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (200 bp):
AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTT
TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATA
TATAA
Found at i:867631 original size:6 final size:6
Alignment explanation
Indices: 867620--867683 Score: 65
Period size: 6 Copynumber: 10.7 Consensus size: 6
867610 CAAGCGGTCA
* * * * *
867620 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGAAG ATGACG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* *
867668 ATGATG ATGATG ATGA
1 ATGAAG ATGAAG ATGA
867684 TCCAAACAAG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.22
Consensus pattern (6 bp):
ATGAAG
Found at i:867669 original size:3 final size:3
Alignment explanation
Indices: 867637--867684 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
867627 TGAAGCTGAC
* * * *
867637 GAT GAA GAT GAC GAT GAA GAT GAC GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
867685 CCAAACAAGT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.38, C:0.04, G:0.33, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:867684 original size:12 final size:12
Alignment explanation
Indices: 867620--867683 Score: 83
Period size: 12 Copynumber: 5.3 Consensus size: 12
867610 CAAGCGGTCA
*
867620 ATGAAGATGAAG
1 ATGACGATGAAG
*
867632 CTGACGATGAAG
1 ATGACGATGAAG
867644 ATGACGATGAAG
1 ATGACGATGAAG
*
867656 ATGACGATGATG
1 ATGACGATGAAG
* *
867668 ATGATGATGATG
1 ATGACGATGAAG
867680 ATGA
1 ATGA
867684 TCCAAACAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 47 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.22
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:869222 original size:183 final size:182
Alignment explanation
Indices: 868889--869290 Score: 673
Period size: 183 Copynumber: 2.2 Consensus size: 182
868879 GTTTTCACAT
* *
868889 TTTTTAATATTATGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTTCAAA
1 TTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAA
*
868954 AAGAGCCGATTGAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAT
66 AAGAGCCGATT--AAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAT
869019 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACAC
129 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACAC
869073 TTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAA
1 TTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAA
* * * *
869138 AAGTGTCGACATT-TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAA-
66 AAGAGCCG--ATTAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAT
869201 CTGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACAC
129 C-GGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACAC
*
869256 TTTTTAATTTTGTGTCGGTACTTTATGTCCAGAAT
1 TTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
869291 TATAATGTAC
Statistics
Matches: 207, Mismatches: 8, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
182 1 0.00
183 134 0.65
184 69 0.33
186 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (182 bp):
TTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAA
AAGAGCCGATTAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAATCG
GTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACAC
Found at i:869377 original size:120 final size:120
Alignment explanation
Indices: 869164--869530 Score: 680
Period size: 120 Copynumber: 3.1 Consensus size: 120
869154 ACATCGGAAC
* * *
869164 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACTGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATGAGC
869229 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
*
869284 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATGAAC
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATGAGC
869349 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
*
869404 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATGAGT
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATGAGC
*
869469 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
869524 CCAGAAT
1 CCAGAAT
869531 GGAAGAAAAA
Statistics
Matches: 240, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 240 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (120 bp):
CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
Found at i:869593 original size:303 final size:303
Alignment explanation
Indices: 869284--869998 Score: 1349
Period size: 303 Copynumber: 2.4 Consensus size: 303
869274 TACTTTATGT
* * *
869284 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATGAAC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
869349 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATTAT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATTAT
*
869414 AATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATGAGTGAATAGGTCT
131 AATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATGAGCGAATAGGTCT
869479 ACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGT
196 ACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGT
*
869544 GTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAAC
261 GTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCAGAAC
869587 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
869652 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATTAT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATTAT
*
869717 AATGTACTAGATAATTTTGTAATATAACTGGTATAAGTATACCGGTTTTATGAGCGAATAGGTCT
131 AATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATGAGCGAATAGGTCT
*
869782 ACAACCTATATCGATACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGT
196 ACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGT
869847 GTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCAGAAC
261 GTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCAGAAC
*
869890 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
*
869955 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCG
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCG
869999 CTAATTTTAA
Statistics
Matches: 403, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
303 403 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (303 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATTAT
AATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATGAGCGAATAGGTCT
ACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGT
GTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCAGAAC
Found at i:869777 original size:423 final size:423
Alignment explanation
Indices: 868985--869833 Score: 1617
Period size: 423 Copynumber: 2.0 Consensus size: 423
868975 CGGAACCCAT
*
868985 AATTATAATGTAATAGATAATTTTGTAATATAATCGGTATAAATATACCGGTTTTATGAGCGAAT
1 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
869050 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
66 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
869115 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
131 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
*
869180 ATAGATAATTTTGTAATATAACTGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
196 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
869245 TATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATTATAATGTACTAGATAATT
261 TATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATTATAATGTACTAGATAATT
869310 TTGTAATATAACCGGTATAAGTATACCGGTTTTATGAACGAATAGGTCTACAACCTATATCGACA
326 TTGTAATATAACCGGTATAAGTATACCGGTTTTATGAACGAATAGGTCTACAACCTATATCGACA
*
869375 CTTTTTAATTTTGTGTCGGTACTTTATGTCCAG
391 CTTTTTAATATTGTGTCGGTACTTTATGTCCAG
* * *
869408 AATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATGAGTGAAT
1 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
869473 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
66 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
869538 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
131 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
869603 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
196 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
869668 TATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATTATAATGTACTAGATAATT
261 TATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATTATAATGTACTAGATAATT
* * *
869733 TTGTAATATAACTGGTATAAGTATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGATA
326 TTGTAATATAACCGGTATAAGTATACCGGTTTTATGAACGAATAGGTCTACAACCTATATCGACA
869798 CTTTTTAATATTGTGTCGGTACTTTATGTCCAG
391 CTTTTTAATATTGTGTCGGTACTTTATGTCCAG
869831 AAT
1 AAT
869834 GGAAGAAAAA
Statistics
Matches: 417, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
423 417 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (423 bp):
AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
TATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATTATAATGTACTAGATAATT
TTGTAATATAACCGGTATAAGTATACCGGTTTTATGAACGAATAGGTCTACAACCTATATCGACA
CTTTTTAATATTGTGTCGGTACTTTATGTCCAG
Found at i:869801 original size:120 final size:120
Alignment explanation
Indices: 869587--869833 Score: 449
Period size: 120 Copynumber: 2.1 Consensus size: 120
869577 ACATCGGAAC
869587 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
*
869652 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* * *
869707 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACTGGTATAAGTATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
*
869772 GAATAGGTCTACAACCTATATCGATACTTTTTAATATTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
869827 CCAGAAT
1 CCAGAAT
869834 GGAAGAAAAA
Statistics
Matches: 122, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 122 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.38
Consensus pattern (120 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:872913 original size:21 final size:21
Alignment explanation
Indices: 872887--872957 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
872877 TAAAAATATG
872887 ATGTAATAGGTAGCACTTATA
1 ATGTAATAGGTAGCACTTATA
**
872908 ATGTAATAGGTAGCGTTTATATA
1 ATGTAATAGGTAGC-ACT-TATA
**
872931 ATGTAATAGGTAGTGCTTATA
1 ATGTAATAGGTAGCACTTATA
*
872952 TTGTAA
1 ATGTAA
872958 AGTATCTATC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
21 23 0.55
22 2 0.05
23 17 0.40
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (21 bp):
ATGTAATAGGTAGCACTTATA
Found at i:872934 original size:23 final size:23
Alignment explanation
Indices: 872882--872952 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
872872 ATAGGTAAAA
* *
872882 ATATGATGTAATAGGTAGC-ACT
1 ATATAATGTAATAGGTAGCGATT
*
872904 -TATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGATT
* *
872926 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGATT
872949 ATAT
1 ATAT
872953 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
21 17 0.40
22 1 0.02
23 24 0.57
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGATT
Found at i:873389 original size:23 final size:23
Alignment explanation
Indices: 873358--873430 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
873348 ATAGGTAAAA
* *
873358 ATATGATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGCGCTT
*
873381 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
873404 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
873427 ATAT
1 ATAT
873431 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:873815 original size:493 final size:493
Alignment explanation
Indices: 872429--874823 Score: 4057
Period size: 493 Copynumber: 4.9 Consensus size: 493
872419 AACCAATAAT
*
872429 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTTATAAAAGTGTCCATACT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTAT-CATTTTTATAAAAGTGTCCATACT
*
872494 TTTTTCACTGTGGAAATCATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAG
65 TTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAG
872559 TAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACA
130 TAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACA
872624 ATAAACATATATACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAA
195 AT-AAC--ATATAC--ATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAA
* *
872689 TTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTATGTAAATGAAATTATTA
255 TTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTA
872754 AATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAAC
320 AATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAAC
872819 TTTAAAAAAAAGTATCGATCTTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAAT
385 TTT-AAAAAAAGTATCGATCTTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAAT
872884 ATGATGTAATAGGTAGCAC-T-TATAATGTAATAGGTAGCGTTTA
449 ATGATGTAATAGGTAGCACTTATATAATGTAATAGGTAGCGTTTA
872927 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATC-TTTTTATAAAAGTGTCCATACTT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTT
*
872991 TTTTCACTGTGGAAAACGTTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
66 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
*
873056 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
131 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAA
873121 T---A-A-AC----A-T--ATA--TATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAA
196 TAACATATACATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAA
* *
873172 ATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGAAAATGAAATTATTAAATTAA
261 ATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
* * *
873237 TATTGTTGGTGGAAAACATGAAACATTATTAAAAATAATTGAAACATAAATTACATAACTTTAAA
326 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAA
*
873302 AAAAGTATCGATCTTTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGT
391 AAAAGTATCGATCTTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGT
873367 AATAGGTAGCACTTATATAATGTAATAGGTAGCGTTTA
456 AATAGGTAGCACTTATATAATGTAATAGGTAGCGTTTA
873405 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTT
873470 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
66 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
*
873535 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATCATTAAATTAAAAACAA
131 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAA
873600 TAACATATACATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAA
196 TAACATATACATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAA
* *
873665 ATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTATGTAAATGAAATTATTAAATTAA
261 ATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
873730 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAA
326 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAA
* *
873795 AAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATAT
391 AAAAGTATCGATCTTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGT
873860 AATAGGTAGCACTTATATAATGTAATAGGTAGCGTTTA
456 AATAGGTAGCACTTATATAATGTAATAGGTAGCGTTTA
873898 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTT
* *
873963 TTTTCACTGTGGAAAACGTTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGACATTAATTTAGT
66 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
*
874028 AATTATAGGTGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAA
131 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAA
874093 TAAACATATATACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAAT
196 T-AAC--ATATAC--ATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAAT
874158 TCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAA
256 TCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAA
*
874223 ATTAATATTGTAGGTTGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACT
321 ATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACT
* * * * *
874287 TTAAAAAAAGTATCGATCCTTTTTATAAAAAGGATCGATACTTTACAATAT-ATCAAGTAAAAAT
386 TTAAAAAAAGTATCGATCTTTTTTATAAAAAGTATGGACACTTT-CAATATAAT-AGGTAAAAAT
* *
874351 ATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTA
449 ATGATGTAATAGGTAGCACTTATATAATGTAATAGGTAGCGTTTA
* * * *
874396 TATAATGTAATAGGTAGCGCTTATATTGTAAAGTATCTATCCTTTTTATAGAAGTGTCAATACTT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTT
* * * *
874461 ATTTCACTATGAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGT
66 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
* ** * * *
874526 AATTATATGTATCTAATGATTTATTTTTTATGTTACTGTATATATTATCATTAAATTAAAAACAA
131 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAA
* *
874591 TAA-ACAT--ATATATTACATATTTATTATTATCTTTTGTTAATATTGTTAAATTTAAATTCTAA
196 TAACATATACATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAA
*
874653 ATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
261 ATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
874718 TATTGTAGGTGGAAAACATGAAACACTATT--AAAAAATTGAAACATAAATTACATAAC-TTAAA
326 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAA
*
874780 AAAAGTATCGATCCTTTTTTATAAAAAAATATGGACACTTTCAA
391 AAAAGTATCGAT-CTTTTTTAT-AAAAAGTATGGACACTTTCAA
874824 CTTATTATAA
Statistics
Matches: 1810, Mismatches: 61, Indels: 61
0.94 0.03 0.03
Matches are distributed among these distances:
476 79 0.04
477 163 0.09
478 64 0.04
479 154 0.09
481 1 0.00
482 2 0.00
483 1 0.00
484 2 0.00
488 20 0.01
489 40 0.02
490 162 0.09
491 3 0.00
493 457 0.25
494 6 0.00
496 157 0.09
497 74 0.04
498 425 0.23
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (493 bp):
TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTT
TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAA
TAACATATACATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAA
ATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAA
AAAAGTATCGATCTTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGT
AATAGGTAGCACTTATATAATGTAATAGGTAGCGTTTA
Found at i:873885 original size:23 final size:23
Alignment explanation
Indices: 873859--873923 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
873849 AAATATGATA
*
873859 TAATAGGTAGCACTTATATAATG
1 TAATAGGTAGCGCTTATATAATG
*
873882 TAATAGGTAGCGTTTATATAATG
1 TAATAGGTAGCGCTTATATAATG
*
873905 TAATAGGTAGTGCTTATAT
1 TAATAGGTAGCGCTTATAT
873924 TGTAAAGTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
TAATAGGTAGCGCTTATATAATG
Found at i:874311 original size:22 final size:22
Alignment explanation
Indices: 874286--874330 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
874276 ATTACATAAC
* *
874286 TTTAAAAAAAGTATCGATCCTT
1 TTTAAAAAAAGGATCGATACTT
*
874308 TTTATAAAAAGGATCGATACTT
1 TTTAAAAAAAGGATCGATACTT
874330 T
1 T
874331 ACAATATATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (22 bp):
TTTAAAAAAAGGATCGATACTT
Found at i:874375 original size:23 final size:23
Alignment explanation
Indices: 874349--874421 Score: 137
Period size: 23 Copynumber: 3.2 Consensus size: 23
874339 TCAAGTAAAA
*
874349 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
874372 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
874395 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
874418 ATAT
1 ATAT
874422 TGTAAAGTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:874383 original size:991 final size:969
Alignment explanation
Indices: 872429--874823 Score: 4079
Period size: 991 Copynumber: 2.4 Consensus size: 969
872419 AACCAATAAT
*
872429 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTTATAAAAGTGTCCATACT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTAT-CATTTTTATAAAAGTGTCCATACT
*
872494 TTTTTCACTGTGGAAATCATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAG
65 TTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAG
*
872559 TAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACA
130 TAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATCATTAAATTAAAAACA
872624 ATAAACATATATACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAA
195 AT-AAC--ATATAC--ATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAA
872689 TTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTATGTAAATGAAATTATTA
255 TTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTATGTAAATGAAATTATTA
872754 AATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAAC
320 AATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAAC
872819 TTTAAAAAAAAGTATCGATCTTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAAT
385 TTT-AAAAAAAGTATCGATCTTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAAT
*
872884 ATGATGTAATAGGTAGCACTTATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTT
449 ATGATATAATAGGTAGCACTTATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTT
872949 ATATTGTAAAGTATCTATCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACGTTAAT
514 ATATTGTAAAGTATCTATCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACGTTAAT
*
873014 TTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA
579 TTAAGGTTATCTTTTGAGTGAGTTTTAAGACATTAATTTAGTAATTATAGGCGTCTAATGATTTA
873079 TTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTATTATCTTT
644 TTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTATTATCTTT
*
873144 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
709 GGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATT
* *
873209 TTTTGTGAAAATGAAATTATTAAATTAATATTGTTGGTGGAAAACATGAAACATTATTAAAAATA
774 TTTTGTGAAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAATA
* *
873274 ATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAAGTATGAACACT
839 ATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGGATGAACACT
* *
873339 TTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTAGCGTTT
904 TTCAATATAATAAGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTAGCGCTT
873404 A
969 A
873405 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTT
873470 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
66 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
873535 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATCATTAAATTAAAAACAA
131 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATCATTAAATTAAAAACAA
873600 TAACATATACATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAA
196 TAACATATACATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAA
873665 ATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTATGTAAATGAAATTATTAAATTAA
261 ATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTATGTAAATGAAATTATTAAATTAA
873730 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAA
326 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAA
*
873795 AAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATAT
391 AAAAGTATCGATCTTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATAT
873860 AATAGGTAGCACTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATT
456 AATAGGTAGCAC-T-TATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATT
873925 GTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACGTTAATTTAA
519 GTAAAGTATCTATC-TTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACGTTAATTTAA
*
873990 GGTTATCTTTTGAGTGAGTTTTAAGACATTAATTTAGTAATTATAGGTGTCTAATGATTTATTTT
583 GGTTATCTTTTGAGTGAGTTTTAAGACATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTT
*
874055 TTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATACATATATATTACATA
648 TTACGTTACGATATATATTATTATTAAATTAAAAAC-----A-ATA-A-AC------A-T--ATA
874120 TTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAA
696 --TATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAA
* *
874185 AACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTTGAAAACATGAA
759 AACAATCAAATAATTTTTTGTGAAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
874250 ACACTATTAAAAA-AATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATA
824 ACACTATTAAAAATAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATA
* *
874314 AAAAGGATCG-ATACTTTACAATAT-ATCAAGTAAAAATATGATGTAATAGGTAGCGCTTATATA
889 AAAAGGAT-GAACACTTT-CAATATAAT-AAGTAAAAATATGATGTAATAGGTAGCACTTATATA
874377 ATGTAATAGGTAGCGCTTA
951 ATGTAATAGGTAGCGCTTA
* * * *
874396 TATAATGTAATAGGTAGCGCTTATATTGTAAAGTATCTATCCTTTTTATAGAAGTGTCAATACTT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTT
* * * *
874461 ATTTCACTATGAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGT
66 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
* ** * *
874526 AATTATATGTATCTAATGATTTATTTTTTATGTTACTGTATATATTATCATTAAATTAAAAACAA
131 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATCATTAAATTAAAAACAA
* *
874591 TAA-ACAT--ATATATTACATATTTATTATTATCTTTTGTTAATATTGTTAAATTTAAATTCTAA
196 TAACATATACATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAA
* * *
874653 ATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
261 ATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTATGTAAATGAAATTATTAAATTAA
874718 TATTGTAGGTGGAAAACATGAAACACTATT--AAAAAATTGAAACATAAATTACATAAC-TTAAA
326 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAA
*
874780 AAAAGTATCGATCCTTTTTTATAAAAAAATATGGACACTTTCAA
391 AAAAGTATCGAT-CTTTTTTAT-AAAAAGTATGGACACTTTCAA
874824 CTTATTATAA
Statistics
Matches: 1353, Mismatches: 39, Indels: 43
0.94 0.03 0.03
Matches are distributed among these distances:
969 78 0.06
970 183 0.14
971 64 0.05
972 154 0.11
974 3 0.00
975 153 0.11
976 40 0.03
977 1 0.00
978 3 0.00
979 1 0.00
980 2 0.00
985 17 0.01
986 36 0.03
987 21 0.02
988 146 0.11
989 3 0.00
990 68 0.05
991 380 0.28
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (969 bp):
TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTT
TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATCATTAAATTAAAAACAA
TAACATATACATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAA
ATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTATGTAAATGAAATTATTAAATTAA
TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAA
AAAAGTATCGATCTTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATAT
AATAGGTAGCACTTATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGT
AAAGTATCTATCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACGTTAATTTAAGGT
TATCTTTTGAGTGAGTTTTAAGACATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTA
CGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTATTATCTTTGGTTAAT
ATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTG
AAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAATAATTGAAA
CATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGGATGAACACTTTCAATA
TAATAAGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTAGCGCTTA
Found at i:876066 original size:20 final size:20
Alignment explanation
Indices: 876034--876099 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 20
876024 ATTTTATATA
*
876034 ATAT-GTATGTATAAACCAT
1 ATATAGTATATATAAACCAT
* *
876053 GTATAGTATATATAAACTAT
1 ATATAGTATATATAAACCAT
* *
876073 ATATA-TATATAAAAACTAT
1 ATATAGTATATATAAACCAT
*
876092 ATAAAGTA
1 ATATAGTA
876100 AATTACTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
19 20 0.51
20 19 0.49
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (20 bp):
ATATAGTATATATAAACCAT
Found at i:876083 original size:19 final size:20
Alignment explanation
Indices: 876028--876099 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
876018 TAAATAATTT
*
876028 TATATAATATGTATGTATAAAC
1 TATAT-ATA-GTATATATAAAC
* *
876050 CATGTATAGTATATATAAAC
1 TATATATAGTATATATAAAC
*
876070 TATATATA-TATATAAAAAC
1 TATATATAGTATATATAAAC
*
876089 TATATAAAGTA
1 TATATATAGTA
876100 AATTACTTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
19 17 0.40
20 19 0.45
21 3 0.07
22 3 0.07
ACGTcount: A:0.50, C:0.06, G:0.07, T:0.38
Consensus pattern (20 bp):
TATATATAGTATATATAAAC
Found at i:876193 original size:21 final size:21
Alignment explanation
Indices: 876169--876240 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
876159 TAGTTTATAG
*
876169 AAACATTAAATCATAAACCAT
1 AAACACTAAATCATAAACCAT
* *
876190 AAACACTAAA-CTTTAAACCAC
1 AAACACTAAATC-ATAAACCAT
*
876211 AAACACTAAAT-ATTAAATCAT
1 AAACACTAAATCA-TAAACCAT
*
876232 AAACCCTAA
1 AAACACTAA
876241 TATAAATAGA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
20 1 0.02
21 40 0.98
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (21 bp):
AAACACTAAATCATAAACCAT
Found at i:876632 original size:15 final size:15
Alignment explanation
Indices: 876607--876643 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
876597 ATAAACCATG
876607 TATAGTATATATAAAC
1 TATA-TATATATAAAC
876623 TATATATATATAAAC
1 TATATATATATAAAC
876638 TATATA
1 TATATA
876644 AAGTAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:876747 original size:14 final size:14
Alignment explanation
Indices: 876724--876774 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
876714 ATAGAAACTC
*
876724 TAAACTCTAAATCA
1 TAAACCCTAAATCA
*
876738 TAAACCCTAATTC-
1 TAAACCCTAAATCA
** *
876751 TAAACTTTAAACCA
1 TAAACCCTAAATCA
876765 TAAACCCTAA
1 TAAACCCTAA
876775 TTTAAATAGA
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
13 9 0.32
14 19 0.68
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAACCCTAAATCA
Found at i:876761 original size:27 final size:27
Alignment explanation
Indices: 876722--876780 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
876712 TTATAGAAAC
*
876722 TCTAAACTCTAAATCATAAACCCTAAT
1 TCTAAACTCTAAACCATAAACCCTAAT
*
876749 TCTAAACTTTAAACCATAAACCCTAAT
1 TCTAAACTCTAAACCATAAACCCTAAT
876776 T-TAAA
1 TCTAAA
876781 TAGACTAGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 4 0.13
27 26 0.87
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.31
Consensus pattern (27 bp):
TCTAAACTCTAAACCATAAACCCTAAT
Found at i:877166 original size:15 final size:15
Alignment explanation
Indices: 877141--877177 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
877131 ATAAACCATG
877141 TATAGTATATATAAAC
1 TATA-TATATATAAAC
877157 TATATATATATAAAC
1 TATATATATATAAAC
877172 TATATA
1 TATATA
877178 AAGTAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:877279 original size:14 final size:14
Alignment explanation
Indices: 877251--877321 Score: 63
Period size: 14 Copynumber: 5.1 Consensus size: 14
877241 TAGTTTATAG
* *
877251 AAACCCTAAATCCT
1 AAACCATAAACCCT
*
877265 AAATCATAAACCCT
1 AAACCATAAACCCT
** **
877279 AATTC-TAAACTTT
1 AAACCATAAACCCT
*
877292 AAACCATAAACACT
1 AAACCATAAACCCT
877306 AAACCATAAACCCT
1 AAACCATAAACCCT
877320 AA
1 AA
877322 TTTAAATAGA
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
13 9 0.20
14 36 0.80
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (14 bp):
AAACCATAAACCCT
Found at i:877561 original size:547 final size:548
Alignment explanation
Indices: 875690--877944 Score: 3698
Period size: 534 Copynumber: 4.1 Consensus size: 548
875680 ATTTAAAATG
* * * *
875690 TAAATGGACTATCACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTGCATTGTGCCTATCT
1 TAAATAGACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGT
* *
875755 AAATTAATGTTAATGGACTAGCACTATTACAAATGGACTTGTTTTTGGGTTTTATTATTACTTAT
66 AAACTAATGTTAATGGACTAGCACTATTACAAATGGACTTATTTTTGGGTTTTATTATTACTTAT
* * * *
875820 TCATAATAACAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATT
131 TCATAACAACAAAATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATT
* * * *
875885 ATGCAAATGAAATTAATATGACATATACTACTATTTATGAACCATATAATATGGAATGTGACATA
196 ATGCAATTTAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATA
*
875950 CTAATTATTTAACACCTAATTAATCATGTTTTATATAGTTTACATTTAAATAATTTTATTAATTT
261 CTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTT
876015 TATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATATATA
326 TATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGTATATATAAAC-ATATATATA
*
876080 TATAAAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATACATAAACTATATAA
390 TAT--AAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAACTATATAA
* ** * * * *
876145 AGTAGTAAAATATATAGTTTATAGAAACATTAAATCATAAACCATAAACACTAAACTT-TAAACC
453 AGTAATAAAATATATAGTTTATAGAAACCCTAAATCCTAAATCATAAACCCT-AA-TTCTAAACT
** * * *
876209 ACAAACACTAAATATTAAATCATAAACCCTAATA
516 TTAAACA-TAAACATTAAACCATAAACCCTAATT
* *
876243 TAAATAGACTAGTACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTGCACTGGGCCTATGT
1 TAAATAGACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGT
* *
876308 AAACTAATGTTAATGGACTAACACTATTACAAATGGACATATTTTTGGGTTTTATTATTACTTAT
66 AAACTAATGTTAATGGACTAGCACTATTACAAATGGACTTATTTTTGGGTTTTATTATTACTTAT
*
876373 TCATAACAACAAAATAAATGAGCCATTAATGTGAATTAACCTAACATGCAATTAAAATACAAATT
131 TCATAACAACAAAATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATT
876438 ATGCAATTTAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATA
196 ATGCAATTTAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATA
*
876503 CTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTATATTAATTT
261 CTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTT
876568 TATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGTATATATAAAC-TATATATAT
326 TATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGTATATATAAACATATATATAT
876632 ATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGT
391 ATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGT
*
876697 AATAAAATATATAGTTTATAGAAACTCTAAA-CTCTAAATCATAAACCCTAA-T-T---C--TAA
456 AATAAAATATATAGTTTATAGAAACCCTAAATC-CTAAATCATAAACCCTAATTCTAAACTTTAA
876754 AC-T-----TTAAACCATAAACCCTAATT
520 ACATAAACATTAAACCATAAACCCTAATT
876777 TAAATAGACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGT
1 TAAATAGACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGT
* *
876842 AAACTAATGTTAATGGACTAGCACTATTGCAAATGGACTTATTTTTTGGTTTTATTATTACTTAT
66 AAACTAATGTTAATGGACTAGCACTATTACAAATGGACTTATTTTTGGGTTTTATTATTACTTAT
* *
876907 TCATAACAACAAAATAAATGAGTCATTAATGTGAATTAACCTAACATGCAATTAAAATACAAATT
131 TCATAACAACAAAATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATT
876972 ATGCAATTTAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATA
196 ATGCAATTTAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATA
*
877037 CTAATTATTTAACACCTAATTAATCATGCTTTATATAATTTACATTTAAATAATTTTATTAATTT
261 CTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTT
877102 TATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGTATATATAAAC-TATATATAT
326 TATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGTATATATAAACATATATATAT
877166 ATAAACTATATAAAGTAAATTACTTATATAG-TTATAGAAACACTATGCATAAACTATATAAAGT
391 ATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGT
877230 AATAAAATATATAGTTTATAGAAACCCTAAATCCTAAATCATAAACCCTAATTCTAAACTTTAAA
456 AATAAAATATATAGTTTATAGAAACCCTAAATCCTAAATCATAAACCCTAATTCTAAACTTTAAA
*
877295 CCATAAACACTAAACCATAAACCCTAATT
521 -CATAAACATTAAACCATAAACCCTAATT
*
877324 TAAATAGACTAGCACTACTGCATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGT
1 TAAATAGACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGT
* * *
877389 AAACTAATGTTAATGGACTAGCACTATTGCAAAGGGACTTATTTTTTGGTTTTATTATTACTTAT
66 AAACTAATGTTAATGGACTAGCACTATTACAAATGGACTTATTTTTGGGTTTTATTATTACTTAT
*
877454 TCATAACAACAAAATAAATGTGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATT
131 TCATAACAACAAAATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATT
*
877519 ATGCAATTTAAATTAATATGACATGTAATACTATTTATGAACCATATAATATGCAATGTGACATA
196 ATGCAATTTAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATA
877584 CTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTT
261 CTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTT
877649 TATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATATATA
326 TATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGTATATATAAAC-ATATATATA
* * *
877714 TATATATATTATATAAAGTAAATTACTTATATAATTTATAGAAACACCATGCATAAACTATATAA
390 TATA-A-ACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAACTATATAA
*
877779 AGTAATAAAATATACAGTTTATAGAAACCCTAAATCCT-AA--AT----CCTAATTCTAAACTTT
453 AGTAATAAAATATATAGTTTATAGAAACCCTAAATCCTAAATCATAAACCCTAATTCTAAACTTT
877837 AAACCATAAACATTAAACCATAAACCCTAATT
518 AAA-CATAAACATTAAACCATAAACCCTAATT
* * * * *
877869 TAAATGGACTAGCACTAATGCATATATATTTATAATAAAAGAGTGGGCTTATGTATT-GGCATTT
1 TAAATAGACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGGGC-T-TGCATTGGGCCTAT
877933 GTAAACTAATGT
64 GTAAACTAATGT
877945 ATTGCCAAAA
Statistics
Matches: 1619, Mismatches: 60, Indels: 53
0.93 0.03 0.03
Matches are distributed among these distances:
533 81 0.05
534 431 0.27
535 1 0.00
538 1 0.00
539 1 0.00
540 4 0.00
541 5 0.00
542 1 0.00
543 1 0.00
545 92 0.06
546 20 0.01
547 397 0.25
548 3 0.00
549 117 0.07
550 1 0.00
551 38 0.02
552 66 0.04
553 359 0.22
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (548 bp):
TAAATAGACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGT
AAACTAATGTTAATGGACTAGCACTATTACAAATGGACTTATTTTTGGGTTTTATTATTACTTAT
TCATAACAACAAAATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATT
ATGCAATTTAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATA
CTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTT
TATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGTATATATAAACATATATATAT
ATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGT
AATAAAATATATAGTTTATAGAAACCCTAAATCCTAAATCATAAACCCTAATTCTAAACTTTAAA
CATAAACATTAAACCATAAACCCTAATT
Found at i:877726 original size:19 final size:20
Alignment explanation
Indices: 877662--877733 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
877652 TAAATAATTT
*
877662 TATATAATATGTATGTATAAAC
1 TATAT-ATA-GTATATATAAAC
* *
877684 CATGTATAGTATATATAAAC
1 TATATATAGTATATATAAAC
* *
877704 TATATATA-TATATATATAT
1 TATATATAGTATATATAAAC
*
877723 TATATAAAGTA
1 TATATATAGTA
877734 AATTACTTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 16 0.39
20 19 0.46
21 3 0.07
22 3 0.07
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (20 bp):
TATATATAGTATATATAAAC
Found at i:877852 original size:14 final size:14
Alignment explanation
Indices: 877829--877861 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
877819 ATCCTAATTC
*
877829 TAAACTTTAAACCA
1 TAAACATTAAACCA
877843 TAAACATTAAACCA
1 TAAACATTAAACCA
877857 TAAAC
1 TAAAC
877862 CCTAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACATTAAACCA
Found at i:878346 original size:16 final size:16
Alignment explanation
Indices: 878327--878441 Score: 122
Period size: 16 Copynumber: 7.2 Consensus size: 16
878317 TCATTTACAA
*
878327 GTCAGGTTAAAAACAG
1 GTCAGGTTGAAAACAG
*
878343 GTCAGGTTGAAAACAA
1 GTCAGGTTGAAAACAG
* * *
878359 GTCAAGTTAAAAATAG
1 GTCAGGTTGAAAACAG
* *
878375 GTCATGTTGAAAACAA
1 GTCAGGTTGAAAACAG
* *
878391 GTCAGGTTAAAAACAA
1 GTCAGGTTGAAAACAG
*
878407 GTCAGGTTGAAAATAG
1 GTCAGGTTGAAAACAG
* *
878423 ATTAGGTTGAAAACAG
1 GTCAGGTTGAAAACAG
878439 GTC
1 GTC
878442 GGGTAATACC
Statistics
Matches: 79, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 79 1.00
ACGTcount: A:0.43, C:0.10, G:0.23, T:0.23
Consensus pattern (16 bp):
GTCAGGTTGAAAACAG
Found at i:878359 original size:32 final size:32
Alignment explanation
Indices: 878323--878441 Score: 159
Period size: 32 Copynumber: 3.7 Consensus size: 32
878313 TGGATCATTT
878323 ACAAGTCAGGTTAAAAACAGGTCAGGTTGAAA
1 ACAAGTCAGGTTAAAAACAGGTCAGGTTGAAA
* * *
878355 ACAAGTCAAGTTAAAAATAGGTCATGTTGAAA
1 ACAAGTCAGGTTAAAAACAGGTCAGGTTGAAA
*
878387 ACAAGTCAGGTTAAAAACAAGTCAGGTTGAAA
1 ACAAGTCAGGTTAAAAACAGGTCAGGTTGAAA
* * *
878419 A-TAGATTAGGTTGAAAACAGGTC
1 ACAAG-TCAGGTTAAAAACAGGTC
878442 GGGTAATACC
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
31 2 0.03
32 73 0.97
ACGTcount: A:0.45, C:0.11, G:0.23, T:0.22
Consensus pattern (32 bp):
ACAAGTCAGGTTAAAAACAGGTCAGGTTGAAA
Found at i:878388 original size:48 final size:48
Alignment explanation
Indices: 878327--878441 Score: 158
Period size: 48 Copynumber: 2.4 Consensus size: 48
878317 TCATTTACAA
* *
878327 GTCAGGTTAAAAACAGGTCAGGTTGAAAACAAGTCAAGTTAAAAATAG
1 GTCAGGTTGAAAACAGGTCAGGTTAAAAACAAGTCAAGTTAAAAATAG
* * * *
878375 GTCATGTTGAAAACAAGTCAGGTTAAAAACAAGTCAGGTTGAAAATAG
1 GTCAGGTTGAAAACAGGTCAGGTTAAAAACAAGTCAAGTTAAAAATAG
* *
878423 ATTAGGTTGAAAACAGGTC
1 GTCAGGTTGAAAACAGGTC
878442 GGGTAATACC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.43, C:0.10, G:0.23, T:0.23
Consensus pattern (48 bp):
GTCAGGTTGAAAACAGGTCAGGTTAAAAACAAGTCAAGTTAAAAATAG
Found at i:883023 original size:7 final size:7
Alignment explanation
Indices: 883011--883036 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
883001 CGGGATTACT
883011 CTAAACC
1 CTAAACC
883018 CTAAACC
1 CTAAACC
883025 CTAAACC
1 CTAAACC
883032 CTAAA
1 CTAAA
883037 TAATTAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.15
Consensus pattern (7 bp):
CTAAACC
Found at i:886324 original size:3 final size:3
Alignment explanation
Indices: 886316--886341 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
886306 AATTGTAACT
886316 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
886342 TATGTTTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:886459 original size:38 final size:38
Alignment explanation
Indices: 886417--886553 Score: 134
Period size: 38 Copynumber: 3.6 Consensus size: 38
886407 GCTCCCCTAT
* * *
886417 GAGTCACCTTATTCATCAATATTTTGGTGTTATTGTAC
1 GAGTCACCTTATTCATCAATATTTTGATGTTCTTGTGC
* * *
886455 GAGTCACCTTATT-ATCATTACTTTGATGCTCCTT-TGC
1 GAGTCACCTTATTCATCAATATTTTGATG-TTCTTGTGC
* * * * *
886492 AAGTCACCTTATTCATCAATAATTTGATGCTCTGGTGT
1 GAGTCACCTTATTCATCAATATTTTGATGTTCTTGTGC
* *
886530 GAGTCATCTTATTTATCAATATTT
1 GAGTCACCTTATTCATCAATATTT
886554 AGGTGCTCCC
Statistics
Matches: 79, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
37 28 0.35
38 51 0.65
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.44
Consensus pattern (38 bp):
GAGTCACCTTATTCATCAATATTTTGATGTTCTTGTGC
Found at i:886483 original size:75 final size:75
Alignment explanation
Indices: 886376--886517 Score: 189
Period size: 75 Copynumber: 1.9 Consensus size: 75
886366 AATACTCTTA
* * *
886376 TACGAGTCAACTTGTTTATCAATATTTTGATGCTCCCCTATG-AGTCACCTTATTCATCAATATT
1 TACGAGTCAACTTGATTATCAATACTTTGATGCT--CCTATGAAGTCACCTTATTCATCAATAAT
886440 TTGGTGTTATTG
64 TTGGTGTTATTG
* * *
886452 TACGAGTCACCTT-ATTATCATTACTTTGATGCTCCTTTGCAAGTCACCTTATTCATCAATAATT
1 TACGAGTCAACTTGATTATCAATACTTTGATGCTCCTATG-AAGTCACCTTATTCATCAATAATT
886516 TG
65 TG
886518 ATGCTCTGGT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
73 5 0.09
75 41 0.71
76 12 0.21
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.42
Consensus pattern (75 bp):
TACGAGTCAACTTGATTATCAATACTTTGATGCTCCTATGAAGTCACCTTATTCATCAATAATTT
GGTGTTATTG
Found at i:888428 original size:3 final size:3
Alignment explanation
Indices: 888422--888467 Score: 74
Period size: 3 Copynumber: 15.0 Consensus size: 3
888412 TTCTCTCAAT
*
888422 TTA TTA TTA TTA TTA TTA TTA TTA TTA TGA TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
888468 AATAATAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 38 0.95
4 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:889935 original size:30 final size:31
Alignment explanation
Indices: 889879--889942 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
889869 CATATAAATA
*
889879 TATATATAATAAATAATATTTTATATTTTTT
1 TATATATAATAAATAATATTTTATATTTATT
*
889910 TATATAT-ATAAA-ATTATTTTAATATTTATT
1 TATATATAATAAATAATATTTT-ATATTTATT
889940 TAT
1 TAT
889943 TTATTTTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 7 0.23
30 16 0.53
31 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (31 bp):
TATATATAATAAATAATATTTTATATTTATT
Found at i:890030 original size:18 final size:19
Alignment explanation
Indices: 890007--890042 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
889997 CTGGTATTTT
890007 AAAA-TTAAATATTATAAA
1 AAAATTTAAATATTATAAA
*
890025 AAAATTTAATTATTATAA
1 AAAATTTAAATATTATAA
890043 TATATATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATTTAAATATTATAAA
Found at i:895087 original size:2 final size:2
Alignment explanation
Indices: 895080--895109 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
895070 ATCCTTTTAA
895080 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
895110 CATTTGTTGT
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:895448 original size:11 final size:11
Alignment explanation
Indices: 895434--895458 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
895424 AGAAGAAAAG
895434 AAAAAAAACAA
1 AAAAAAAACAA
895445 AAAAAAAACAA
1 AAAAAAAACAA
895456 AAA
1 AAA
895459 GGAAAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:901013 original size:113 final size:112
Alignment explanation
Indices: 900815--901137 Score: 409
Period size: 113 Copynumber: 2.9 Consensus size: 112
900805 TAGTAAAGAT
* * **
900815 TCAAACCCATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCA-AGTAAGTTCATAATGAGAAGAACTCATCTGA
* *
900880 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT-AC
65 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCAC
* *
900928 TCAAATCCATCATTTGTTGGATCAACTTTTCCAAGTCAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAAGT-AAGTTCATAATGAGAAGAACTCATCTGA
*
900993 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGC
65 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCAC
** * * * * * *
901041 TTGAATTCATCATTCGATGGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCGTCAT-
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAAGTA-AGTTCATAATGAGAAGAACTCATC-TG
**
901105 CTGAA-GAAGAAGAAGTTCATAATGAGAAGAACT
64 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
901138 CATCTGAAAG
Statistics
Matches: 185, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
112 35 0.19
113 149 0.81
114 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (112 bp):
TCAAATCCATCATTTGATGGATCAGCTTTTCCAAGTAAGTTCATAATGAGAAGAACTCATCTGAA
GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCAC
Found at i:901132 original size:20 final size:20
Alignment explanation
Indices: 901079--901136 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 20
901069 TACCAGGTAG
*
901079 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACA
* * *
901099 CG-TCAT-CTGAAGAAGAAGA
1 AGTTCATAATG-AGAAGAACA
901118 AGTTCATAATGAGAAGAAC
1 AGTTCATAATGAGAAGAAC
901137 TCATCTGAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 6
0.68 0.17 0.15
Matches are distributed among these distances:
18 2 0.07
19 12 0.43
20 12 0.43
21 2 0.07
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.21
Consensus pattern (20 bp):
AGTTCATAATGAGAAGAACA
Found at i:901134 original size:17 final size:16
Alignment explanation
Indices: 901112--901171 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
901102 CATCTGAAGA
901112 AGAAGAAGTTCATAATG
1 AGAAGAA-TTCATAATG
* *
901129 AGAAGAACTCAT-CTG
1 AGAAGAATTCATAATG
901144 AAAGAAGAAATTCATAATG
1 --AGAAG-AATTCATAATG
901163 AGAAGAATT
1 AGAAGAATT
901172 TGTTCAACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
15 2 0.06
16 8 0.23
17 17 0.49
18 6 0.17
19 2 0.06
ACGTcount: A:0.50, C:0.08, G:0.20, T:0.22
Consensus pattern (16 bp):
AGAAGAATTCATAATG
Found at i:901158 original size:34 final size:38
Alignment explanation
Indices: 901081--901169 Score: 132
Period size: 34 Copynumber: 2.4 Consensus size: 38
901071 CCAGGTAGAG
*
901081 TTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAG
1 TTCATAATGAGAAGAAC-CGTCATCTGAAGAAGAAGAAA
901120 TTCATAATGAGAAGAA-C-TCATCTG-A-AAGAAGAAA
1 TTCATAATGAGAAGAACCGTCATCTGAAGAAGAAGAAA
901154 TTCATAATGAGAAGAA
1 TTCATAATGAGAAGAA
901170 TTTGTTCAAC
Statistics
Matches: 49, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
34 24 0.49
35 1 0.02
36 7 0.14
37 1 0.02
39 16 0.33
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.21
Consensus pattern (38 bp):
TTCATAATGAGAAGAACCGTCATCTGAAGAAGAAGAAA
Found at i:901175 original size:146 final size:153
Alignment explanation
Indices: 900965--901282 Score: 449
Period size: 146 Copynumber: 2.1 Consensus size: 153
900955 TTTCCAAGTC
900965 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* *
901030 CAACTTTTCGCTT-GAATTCATCATTCGATGGATCAGCATTACCAG-GTAGAGTTCATAATGAGA
66 CAACTTTTCG-TTCAAATCCATCATTCGATGGATCAGCATTACCAGAG-AGAGTTCATAATGAGA
* **
901093 AGAACTCGTCAT-CTGAA-GAAGAAG
129 AGAACTCATC-TGAAGAAGGAAGAAG
*
901117 AAGTTCATAATGAGAAGAACTCATCTG-A-AA-GAAG-A-AA-TTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * *
901176 CAACTTTTTGTTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAGAGTTCATAATGAGAAG
66 CAACTTTTCGTTCAAATCCATCATTCGATGGATCAGCATTACCAGAGAGAGTTCATAATGAGAAG
901241 AACTCATCTGAAGAAGGAAGAAG
131 AACTCATCTGAAGAAGGAAGAAG
901264 AAGTTCATAATGAGAAGAA
1 AAGTTCATAATGAGAAGAA
901283 TTTGTTCAAC
Statistics
Matches: 152, Mismatches: 10, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
145 3 0.02
146 85 0.56
147 29 0.19
148 1 0.01
149 4 0.03
150 2 0.01
151 1 0.01
152 27 0.18
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (153 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACTTTTCGTTCAAATCCATCATTCGATGGATCAGCATTACCAGAGAGAGTTCATAATGAGAAG
AACTCATCTGAAGAAGGAAGAAG
Found at i:901317 original size:259 final size:256
Alignment explanation
Indices: 900847--901389 Score: 808
Period size: 259 Copynumber: 2.1 Consensus size: 256
900837 CAGCTTTTCC
*
900847 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
1 AGAAGAAGTTCATAATGAGAAGAACTCATCT--AGAA-GAAGAAGAAATTCATAATGAGAAGAAT
*
900912 TTGTTCAACCTTTTACTCAAATCCATCATTTGTTGGATCAACTTTTCCAAGTCAAGTTCATAATG
63 TTGTTCAACCTTTTACTCAAATCCATCATTTGATGGATCAACTTTTCCAAG-CAAGTTCATAATG
900977 AGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCT
127 AGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCT
*
901042 TGAATTCATCATTCGATGGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCT
192 TGAATTCATCATTCGATGGATCAGCATTACCAGGGAGAGTTCATAATGAGAAGAA--C-TCATCT
901107 GAAGA
254 G-A-A
901112 AGAAGAAGTTCATAATGAGAAGAACTCATCT-G-A-AAGAAGAAATTCATAATGAGAAGAATTTG
1 AGAAGAAGTTCATAATGAGAAGAACTCATCTAGAAGAAGAAGAAATTCATAATGAGAAGAATTTG
* ** *
901174 TTCAACTTTTTGTTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAG-AGAGTTCATAATGAG
66 TTCAACCTTTTACTCAAATCCATCATTTGATGGATCAACTTTTCCA-AGCA-AGTTCATAATGAG
* *
901238 AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-GTTT
129 AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGCTT
*** * *
901302 TTTTTCATCATTCGATGGATCAGCATTGCCAGGGCGAGTTCATAATGAGAAGAACTCATCTGAA
193 GAATTCATCATTCGATGGATCAGCATTACCAGGGAGAGTTCATAATGAGAAGAACTCATCTGAA
*
901366 AGAAGAAATTCATAATGAGAAGAA
1 AGAAGAAGTTCATAATGAGAAGAA
901390 TTTGTTCAAC
Statistics
Matches: 260, Mismatches: 15, Indels: 17
0.89 0.05 0.06
Matches are distributed among these distances:
254 24 0.09
255 1 0.00
256 7 0.03
257 1 0.00
258 1 0.00
259 187 0.72
260 7 0.03
261 1 0.00
262 1 0.00
265 30 0.12
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (256 bp):
AGAAGAAGTTCATAATGAGAAGAACTCATCTAGAAGAAGAAGAAATTCATAATGAGAAGAATTTG
TTCAACCTTTTACTCAAATCCATCATTTGATGGATCAACTTTTCCAAGCAAGTTCATAATGAGAA
GAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAA
TTCATCATTCGATGGATCAGCATTACCAGGGAGAGTTCATAATGAGAAGAACTCATCTGAA
Found at i:901357 original size:220 final size:220
Alignment explanation
Indices: 901118--901577 Score: 911
Period size: 220 Copynumber: 2.1 Consensus size: 220
901108 AAGAAGAAGA
901118 AGTTCATAATGAGAAGAACTCATCTGAAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTT
901183 TTGTTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAGAGTTCATAATGAGAAGAACTCAT
66 TTGTTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAGAGTTCATAATGAGAAGAACTCAT
901248 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTTTTTTCATCAT
131 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTTTTTTCATCAT
901313 TCGATGGATCAGCATTGCCAGGGCG
196 TCGATGGATCAGCATTGCCAGGGCG
901338 AGTTCATAATGAGAAGAACTCATCTGAAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTT
901403 TTGTTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAGAGTTCATAATGAGAAGAACTCAT
66 TTGTTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAGAGTTCATAATGAGAAGAACTCAT
901468 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTTTTTTCATCAT
131 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTTTTTTCATCAT
*
901533 TCGATGGATCAGCATTGCCAGGGTG
196 TCGATGGATCAGCATTGCCAGGGCG
901558 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
901578 TGTTTAACTT
Statistics
Matches: 239, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
220 239 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (220 bp):
AGTTCATAATGAGAAGAACTCATCTGAAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTT
TTGTTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAGAGTTCATAATGAGAAGAACTCAT
CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTTTTTTCATCAT
TCGATGGATCAGCATTGCCAGGGCG
Found at i:901386 original size:17 final size:17
Alignment explanation
Indices: 901340--901389 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
901330 CCAGGGCGAG
901340 TTCATAATGAGAAG-AA
1 TTCATAATGAGAAGAAA
* *
901356 CTCAT-CTGAAAGAAGAAA
1 TTCATAATG--AGAAGAAA
901374 TTCATAATGAGAAGAA
1 TTCATAATGAGAAGAA
901390 TTTGTTCAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
15 2 0.08
16 4 0.15
17 12 0.46
18 6 0.23
19 2 0.08
ACGTcount: A:0.50, C:0.10, G:0.18, T:0.22
Consensus pattern (17 bp):
TTCATAATGAGAAGAAA
Found at i:901419 original size:107 final size:113
Alignment explanation
Indices: 901118--901577 Score: 638
Period size: 113 Copynumber: 4.2 Consensus size: 113
901108 AAGAAGAAGA
901118 AGTTCATAATGAGAAGAACTCATCTG-A-AA-GAAG-A-AA-TTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * *
901177 AACTTTTTGTTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAG
66 AACCTTTTGTTCAAATCCATCATTCGATGGATCAGCATTGCCAGAGAG
901225 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
**** * * *
901290 AACCTTTTGTTTTTTTTCATCATTCGATGGATCAGCATTGCCAGGGCG
66 AACCTTTTGTTCAAATCCATCATTCGATGGATCAGCATTGCCAGAGAG
901338 AGTTCATAATGAGAAGAACTCATCTG-A-AA-GAAG-A-AA-TTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * *
901397 AACTTTTTGTTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAG
66 AACCTTTTGTTCAAATCCATCATTCGATGGATCAGCATTGCCAGAGAG
901445 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
**** * * *
901510 AACCTTTTGTTTTTTTTCATCATTCGATGGATCAGCATTGCCAGGGTG
66 AACCTTTTGTTCAAATCCATCATTCGATGGATCAGCATTGCCAGAGAG
901558 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
901578 TGTTTAACTT
Statistics
Matches: 308, Mismatches: 33, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
107 112 0.36
108 4 0.01
109 5 0.02
110 12 0.04
111 4 0.01
112 5 0.02
113 166 0.54
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
AACCTTTTGTTCAAATCCATCATTCGATGGATCAGCATTGCCAGAGAG
Found at i:901604 original size:73 final size:73
Alignment explanation
Indices: 901484--901648 Score: 188
Period size: 73 Copynumber: 2.3 Consensus size: 73
901474 AAGGAAGAAG
* * **** * * *
901484 AAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTTTTTTCATCATTCGATGGATCAGC-AT
1 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTCGATAGATCAACTAT
* *
901548 TGCCAGGGT
66 T-CCAGAGA
* * *
901557 GAGTTCATAATGAGAAGAACTTGTTTAACTTTTTGCTCGAATTCATCACTCGATAGATCAACTAT
1 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTCGATAGATCAACTAT
901622 TCCAGAGA
66 TCCAGAGA
901630 AAGTTCATAATGAGAAGAA
1 AAGTTCATAATGAGAAGAA
901649 ATCATCTGAA
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
73 73 0.96
74 3 0.04
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (73 bp):
AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTCGATAGATCAACTAT
TCCAGAGA
Found at i:901668 original size:293 final size:293
Alignment explanation
Indices: 901265--902122 Score: 1202
Period size: 293 Copynumber: 2.9 Consensus size: 293
901255 AGGAAGAAGA
* * * * **** * * *
901265 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTTTTTTCATCATTCGATGGATCAGC-ATT
1 AGTTCATAATGAGAAGAACTTGTTTAACTTTTTGCTCGAATTCATCACTCGATAGATCAACTATT
* *
901329 GCCAGGGCGAGTTCATAATGAGAAGAACTCATCTGAAAGAAGAAATTCATAATGAGAAGAATTTG
66 -CCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAAGAAGAAATTCATAATGAGAAGAATTTG
901394 TTCAACTTTTTGTTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAGAGTTCATAATGAGA
130 TTCAACTTTTTGTTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAGAGTTCATAATGAGA
901459 AGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTTT
195 AGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTTT
*
901524 TTTCATCATTCGATGGATCAGCATTGCCAGGGTG
260 TTTCATCATTCGATGGATCAGCATTGCCAGGGCG
901558 AGTTCATAATGAGAAGAACTTGTTTAACTTTTTGCTCGAATTCATCACTCGATAGATCAACTATT
1 AGTTCATAATGAGAAGAACTTGTTTAACTTTTTGCTCGAATTCATCACTCGATAGATCAACTATT
* *
901623 CCAGAGAAAGTTCATAATGAGAAGAAATCATCTGAAAGAAGAAATTCATAATGAGAAGAATTTGT
66 CCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAAGAAGAAATTCATAATGAGAAGAATTTGT
*
901688 TCAACTTTTTGTTCAAATCCATCATTTGATGGATAAGCTTTTCCAGAGAGAGTTCATAATGAGAA
131 TCAACTTTTTGTTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAGAGTTCATAATGAGAA
901753 GAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG-TTTTT
196 GAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTTTT
901817 TTCATCATTCGATGGATCAGCATTGCCAGGGCG
261 TTCATCATTCGATGGATCAGCATTGCCAGGGCG
901850 AGTTCATAATGAGAAGAACTTGTTTAACTTTTTGCTCGAATTCATCACTCGATAGATCAACTATT
1 AGTTCATAATGAGAAGAACTTGTTTAACTTTTTGCTCGAATTCATCACTCGATAGATCAACTATT
901915 CCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGA
66 CCAGAGAGAGTTCATAATGAGAAGAACTCATCT---GAAAGAAG-A-AA-TTCATAATGAGAAGA
** * * * ** * * ** *
901980 GCTTGTTCGACCTTTTGCATGACTC-TATCACAGAAGGAGATAGATCAACATCAACTTTTCCAGA
125 ATTTGTTC-AACTTTT---TG-TTCAAATC-C---ATCA-TTTGAT--GGATCAGCTTTTCCAGA
* * ** *
902044 GAAAGTTCATAATGAGAAGAACTTATCTGAA-AAGGAAGAAGAAGTTCATAATGAGAAGAGCTTA
178 GAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
*
902108 TTTAACCTTTTGTTT
243 TTCAACCTTTTGTTT
902123 AACTCTATCA
Statistics
Matches: 507, Mismatches: 38, Indels: 24
0.89 0.07 0.04
Matches are distributed among these distances:
292 133 0.26
293 234 0.46
294 3 0.01
295 8 0.02
296 1 0.00
297 2 0.00
298 21 0.04
299 6 0.01
302 5 0.01
303 3 0.01
306 2 0.00
307 4 0.01
308 41 0.08
309 44 0.09
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.31
Consensus pattern (293 bp):
AGTTCATAATGAGAAGAACTTGTTTAACTTTTTGCTCGAATTCATCACTCGATAGATCAACTATT
CCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAAGAAGAAATTCATAATGAGAAGAATTTGT
TCAACTTTTTGTTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAGAGTTCATAATGAGAA
GAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTTTT
TTCATCATTCGATGGATCAGCATTGCCAGGGCG
Found at i:901679 original size:17 final size:17
Alignment explanation
Indices: 901627--901682 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
901617 ACTATTCCAG
901627 AGAAAGTTCATAATGAGA
1 AGAAA-TTCATAATGAGA
*
901645 AGAAA-TCAT-CTGAAAGA
1 AGAAATTCATAATG--AGA
901662 AGAAATTCATAATGAGA
1 AGAAATTCATAATGAGA
901679 AGAA
1 AGAA
901683 TTTGTTCAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
15 2 0.06
16 4 0.12
17 15 0.47
18 9 0.28
19 2 0.06
ACGTcount: A:0.54, C:0.07, G:0.20, T:0.20
Consensus pattern (17 bp):
AGAAATTCATAATGAGA
Found at i:901688 original size:107 final size:113
Alignment explanation
Indices: 901558--901811 Score: 342
Period size: 107 Copynumber: 2.3 Consensus size: 113
901548 TGCCAGGGTG
* * * *
901558 AGTTCATAATGAGAAGAACTTGTTTAACTTTTTGCTCGAATTCATCACTCGATAGATCAA-CTAT
1 AGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCCATCACTCGATAGAT-AAGCTAT
901622 TCCAGAGAAAGTTCATAATGAGAAGAAATCATCTG-A-AA-GAAG-A-A
65 TCCAGAGAAAGTTCATAATGAGAAGAAATCATCTGAAGAAGGAAGAAGA
* * * * *
901666 A-TTCATAATGAGAAGAATTTGTTCAACTTTTTGTTCAAATCCATCATTTGATGGATAAGCTTTT
1 AGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCCATCACTCGATAGATAAGCTATT
* *
901730 CCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
66 CCAGAGAAAGTTCATAATGAGAAGAAATCATCTGAAGAAGGAAGAAGA
*
901778 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
1 AGTTCATAATGAGAAGAATTTGTTCAACTTTTTG
901812 TTTTTTTCAT
Statistics
Matches: 127, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
106 2 0.02
107 83 0.65
108 2 0.02
109 2 0.02
110 4 0.03
111 1 0.01
112 2 0.02
113 31 0.24
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCCATCACTCGATAGATAAGCTATT
CCAGAGAAAGTTCATAATGAGAAGAAATCATCTGAAGAAGGAAGAAGA
Found at i:901743 original size:180 final size:186
Alignment explanation
Indices: 901374--901757 Score: 510
Period size: 186 Copynumber: 2.1 Consensus size: 186
901364 AAAGAAGAAA
* * * * * * *
901374 TTCATAATGAGAAGAATTTGTTCAACTTTTTGTTCAAATCCATCATTTGATGGATCAGCTTTTCC
1 TTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCAAATCCATCACTCGATAGATCAACTATTCC
* *
901439 AGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
66 AGAGAAAGTTCATAATGAGAAGAAATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
**** * * * *
901504 TTGTTCAACCTTTTGTTTTTTTTCATCATTCGATGGATCAGCATTGCCAGGGTGAG
131 TTGTTCAACCTTTTGTTCAAATCCATCATTCGATGGATAAGCATTGCCAGAGAGAG
* * *
901560 TTCATAATGAGAAGAACTTGTTTAACTTTTTGCTCGAATTCATCACTCGATAGATCAACTATTCC
1 TTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCAAATCCATCACTCGATAGATCAACTATTCC
901625 AGAGAAAGTTCATAATGAGAAGAAATCATCTG-A-AA-GAAG-A-AA-TTCATAATGAGAAGAAT
66 AGAGAAAGTTCATAATGAGAAGAAATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
* * * *
901684 TTGTTCAACTTTTTGTTCAAATCCATCATTTGATGGATAAGCTTTTCCAGAGAGAG
131 TTGTTCAACCTTTTGTTCAAATCCATCATTCGATGGATAAGCATTGCCAGAGAGAG
901740 TTCATAATGAGAAGAACT
1 TTCATAATGAGAAGAACT
901758 CATCTGAAGA
Statistics
Matches: 174, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
180 79 0.45
181 2 0.01
182 1 0.01
183 4 0.02
184 2 0.01
185 1 0.01
186 85 0.49
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (186 bp):
TTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCAAATCCATCACTCGATAGATCAACTATTCC
AGAGAAAGTTCATAATGAGAAGAAATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
TTGTTCAACCTTTTGTTCAAATCCATCATTCGATGGATAAGCATTGCCAGAGAGAG
Found at i:901932 original size:73 final size:72
Alignment explanation
Indices: 901778--901942 Score: 197
Period size: 73 Copynumber: 2.3 Consensus size: 72
901768 AGGAAGAAGA
* **** * * *
901778 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTTTTTCATCATTCGATGGATCAGCATTGC
1 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTCGAATTCATCACTCGATAGATCAACATTGC
* *
901843 CAGGGCG
66 CAGAGAG
* *
901850 AGTTCATAATGAGAAGAACTTGTTTAACTTTTTGCTCGAATTCATCACTCGATAGATCAACTATT
1 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTG-TCGAATTCATCACTCGATAGATCAAC-ATT
901915 -CCAGAGAG
64 GCCAGAGAG
901923 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
901943 CATCTGAAGA
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
72 31 0.39
73 45 0.57
74 3 0.04
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (72 bp):
AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTCGAATTCATCACTCGATAGATCAACATTGC
CAGAGAG
Found at i:902129 original size:123 final size:124
Alignment explanation
Indices: 901905--902163 Score: 385
Period size: 123 Copynumber: 2.1 Consensus size: 124
901895 CACTCGATAG
* *
901905 ATCAACTATTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCAT
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCAT
* * * * *
901970 AATGAGAAGAGCTTGTTCGACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAC
66 AATGAGAAGAGCTTATTCAACCTTTTGCATAACTCTATCACAGAAGCAGATAGATAAAC
* *
902029 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAA-AAGGAAGAAGAAGTTCAT
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCAT
* ** *
902093 AATGAGAAGAGCTTATTTAACCTTTTGTTTAACTCTATCATAGAAGCAGATAGATAAAC
66 AATGAGAAGAGCTTATTCAACCTTTTGCATAACTCTATCACAGAAGCAGATAGATAAAC
*
902152 ATCAACATTTCC
1 ATCAACTTTTCC
902164 GAGTGAAGAT
Statistics
Matches: 121, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
123 78 0.64
124 43 0.36
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.26
Consensus pattern (124 bp):
ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCAT
AATGAGAAGAGCTTATTCAACCTTTTGCATAACTCTATCACAGAAGCAGATAGATAAAC
Found at i:902190 original size:123 final size:124
Alignment explanation
Indices: 901905--902192 Score: 325
Period size: 123 Copynumber: 2.3 Consensus size: 124
901895 CACTCGATAG
* * * * *
901905 ATCAAC-TATTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCA
1 ATCAACAT-TTCCAGAGAAAGTTCATAATAAAAAAAACTTATCTGAAGAAAGAAGAAGAAGTTCA
* * * * *
901969 TAATGAGAAGAGCTTGTTCGACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAC
65 TAATGAGAAGAGCTTATTCAACCTTTTGCATAACTCTATCACAGAAGCAGATAGATAAAC
* * * * *
902029 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAA-AAGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGAGAAAGTTCATAATAAAAAAAACTTATCTGAAGAAAGAAGAAGAAGTTCAT
* ** *
902093 AATGAGAAGAGCTTATTTAACCTTTTGTTTAACTCTATCATAGAAGCAGATAGATAAAC
66 AATGAGAAGAGCTTATTCAACCTTTTGCATAACTCTATCACAGAAGCAGATAGATAAAC
*
902152 ATCAACATTTCC-GAGTGAAGATT-A-AATAAAAAAAAACTTAT
1 ATCAACATTTCCAGAG-AAAG-TTCATAAT-AAAAAAAACTTAT
902193 TGTCTTTTCG
Statistics
Matches: 143, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
122 6 0.04
123 92 0.64
124 44 0.31
125 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (124 bp):
ATCAACATTTCCAGAGAAAGTTCATAATAAAAAAAACTTATCTGAAGAAAGAAGAAGAAGTTCAT
AATGAGAAGAGCTTATTCAACCTTTTGCATAACTCTATCACAGAAGCAGATAGATAAAC
Found at i:902301 original size:3 final size:3
Alignment explanation
Indices: 902295--902340 Score: 74
Period size: 3 Copynumber: 15.0 Consensus size: 3
902285 TTCTCTCAAT
*
902295 TTA TTA TTA TTA TTA TTA TTA TTA TTA TGA TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
902341 AATAATAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 38 0.95
4 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:904781 original size:3 final size:3
Alignment explanation
Indices: 904773--904825 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
904763 AATTGTAACT
904773 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
904821 TTA TT
1 TTA TT
904826 TATGTTTGTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:904943 original size:38 final size:38
Alignment explanation
Indices: 904901--905037 Score: 134
Period size: 38 Copynumber: 3.6 Consensus size: 38
904891 GCTCCCCTAT
* * *
904901 GAGTCACCTTATTCATCAATATTTTGGTGTTATTGTAC
1 GAGTCACCTTATTCATCAATATTTTGATGTTCTTGTGC
* * *
904939 GAGTCACCTTATT-ATCATTACTTTGATGCTCCTT-TGC
1 GAGTCACCTTATTCATCAATATTTTGATG-TTCTTGTGC
* * * * *
904976 AAGTCACCTTATTCATCAATAATTTGATGCTCTGGTGT
1 GAGTCACCTTATTCATCAATATTTTGATGTTCTTGTGC
* *
905014 GAGTCATCTTATTTATCAATATTT
1 GAGTCACCTTATTCATCAATATTT
905038 AGGTGCTCCC
Statistics
Matches: 79, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
37 28 0.35
38 51 0.65
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.44
Consensus pattern (38 bp):
GAGTCACCTTATTCATCAATATTTTGATGTTCTTGTGC
Found at i:904967 original size:75 final size:75
Alignment explanation
Indices: 904860--905001 Score: 189
Period size: 75 Copynumber: 1.9 Consensus size: 75
904850 AATACTCTTA
* * *
904860 TACGAGTCAACTTGTTTATCAATATTTTGATGCTCCCCTATG-AGTCACCTTATTCATCAATATT
1 TACGAGTCAACTTGATTATCAATACTTTGATGCT--CCTATGAAGTCACCTTATTCATCAATAAT
904924 TTGGTGTTATTG
64 TTGGTGTTATTG
* * *
904936 TACGAGTCACCTT-ATTATCATTACTTTGATGCTCCTTTGCAAGTCACCTTATTCATCAATAATT
1 TACGAGTCAACTTGATTATCAATACTTTGATGCTCCTATG-AAGTCACCTTATTCATCAATAATT
905000 TG
65 TG
905002 ATGCTCTGGT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
73 5 0.09
75 41 0.71
76 12 0.21
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.42
Consensus pattern (75 bp):
TACGAGTCAACTTGATTATCAATACTTTGATGCTCCTATGAAGTCACCTTATTCATCAATAATTT
GGTGTTATTG
Found at i:908218 original size:22 final size:21
Alignment explanation
Indices: 908193--908233 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
908183 TATAAAAAAT
908193 TATTTTTATTAAATATTTTTGG
1 TATTTTTATTAAAT-TTTTTGG
*
908215 TATTTTTATTTAATTTTTT
1 TATTTTTATTAAATTTTTT
908234 AAATAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (21 bp):
TATTTTTATTAAATTTTTTGG
Found at i:915345 original size:16 final size:17
Alignment explanation
Indices: 915307--915349 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 17
915297 ATTTTTTAAT
*
915307 TTAATTAAATTATATAA
1 TTAATAAAATTATATAA
915324 TT--TAAAATT-TATAA
1 TTAATAAAATTATATAA
915338 TTAATAAAATTA
1 TTAATAAAATTA
915350 AATTATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
14 7 0.32
15 6 0.27
16 7 0.32
17 2 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAATAAAATTATATAA
Found at i:916052 original size:24 final size:24
Alignment explanation
Indices: 916020--916073 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
916010 GCTAGATTTT
916020 AATCTGCTGACAGCGATATGATAA
1 AATCTGCTGACAGCGATATGATAA
* *
916044 AATCTGCTGATAGTGATATGATAA
1 AATCTGCTGACAGCGATATGATAA
916068 AATCTG
1 AATCTG
916074 ATCACAGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (24 bp):
AATCTGCTGACAGCGATATGATAA
Found at i:916567 original size:20 final size:20
Alignment explanation
Indices: 916485--916575 Score: 64
Period size: 20 Copynumber: 4.5 Consensus size: 20
916475 AAGAGAATTT
916485 AAAATGTAATAT-A-CTAATA
1 AAAAT-TAATATAACCTAATA
*
916504 AAAATTTAAACTATAACCTAATTT
1 AAAA-TT-AA-TATAACCTAA-TA
* *
916528 TAAATT-ATATGACCTAATA
1 AAAATTAATATAACCTAATA
*
916547 AAAATGTAATAT-ACATAATA
1 AAAAT-TAATATAACCTAATA
916567 AAAATTAAT
1 AAAATTAAT
916576 TAAATCAGTC
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
19 14 0.24
20 25 0.43
21 8 0.14
22 1 0.02
23 6 0.10
24 4 0.07
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATTAATATAACCTAATA
Found at i:923400 original size:13 final size:13
Alignment explanation
Indices: 923382--923414 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
923372 TATATTTAAG
923382 TTTATTTTGGTTC
1 TTTATTTTGGTTC
923395 TTTATTTTGGTTC
1 TTTATTTTGGTTC
923408 TTTATTT
1 TTTATTT
923415 GCTTTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.09, C:0.06, G:0.12, T:0.73
Consensus pattern (13 bp):
TTTATTTTGGTTC
Found at i:934492 original size:21 final size:21
Alignment explanation
Indices: 934463--934529 Score: 107
Period size: 21 Copynumber: 3.2 Consensus size: 21
934453 ATTCTGACTA
* *
934463 TCGCATTGCGATTTCCCAAAT
1 TCGCGTTGCGATTTTCCAAAT
934484 TCGCGTTGCGATTTTCCAAAT
1 TCGCGTTGCGATTTTCCAAAT
*
934505 TCGCGTTGCGATTTTCCTAAT
1 TCGCGTTGCGATTTTCCAAAT
934526 TCGC
1 TCGC
934530 AATGCGAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.37
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCCAAAT
Found at i:934551 original size:20 final size:20
Alignment explanation
Indices: 934526--934571 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
934516 TTTTCCTAAT
934526 TCGCAATGCGAATAC-GTAAA
1 TCGCAATGCGAAT-CTGTAAA
934546 TCGCAATGCGAATCTGTAAA
1 TCGCAATGCGAATCTGTAAA
934566 TCGCAA
1 TCGCAA
934572 CGAGATTCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATCTGTAAA
Found at i:934581 original size:20 final size:20
Alignment explanation
Indices: 934541--934581 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
934531 ATGCGAATAC
* *
934541 GTAAATCGCAATGCGAATCT
1 GTAAATCGCAACGAGAATCT
*
934561 GTAAATCGCAACGAGATTCT
1 GTAAATCGCAACGAGAATCT
934581 G
1 G
934582 ACTATCGCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (20 bp):
GTAAATCGCAACGAGAATCT
Found at i:935484 original size:24 final size:24
Alignment explanation
Indices: 935433--935486 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
935423 GTATTCGAAA
*
935433 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
935457 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
935481 TTTGAT
1 TTTGAT
935487 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:935695 original size:15 final size:14
Alignment explanation
Indices: 935677--935712 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
935667 GAAAAAGAAG
935677 AAGAAGAAATCCCCA
1 AAGAA-AAATCCCCA
*
935692 AAGAAAAGTCCCCA
1 AAGAAAAATCCCCA
935706 AAGAAAA
1 AAGAAAA
935713 TGCCACGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.58, C:0.22, G:0.14, T:0.06
Consensus pattern (14 bp):
AAGAAAAATCCCCA
Found at i:937984 original size:20 final size:20
Alignment explanation
Indices: 937891--937984 Score: 127
Period size: 20 Copynumber: 4.7 Consensus size: 20
937881 GACATTCATT
*
937891 TGACTATCGCAACAC-GAATA
1 TGACTATCGCAACGCGGAA-A
* * *
937911 AGACTATCGCAACACGAAAA
1 TGACTATCGCAACGCGGAAA
*
937931 TGACTATCGCAACGCGGAAT
1 TGACTATCGCAACGCGGAAA
937951 TGACTATCGCAACGCGGAAA
1 TGACTATCGCAACGCGGAAA
937971 TGACTATCGCAACG
1 TGACTATCGCAACG
937985 AGAGAATTGC
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
20 64 0.97
21 2 0.03
ACGTcount: A:0.37, C:0.26, G:0.20, T:0.17
Consensus pattern (20 bp):
TGACTATCGCAACGCGGAAA
Found at i:938010 original size:19 final size:19
Alignment explanation
Indices: 937986--938076 Score: 93
Period size: 19 Copynumber: 5.0 Consensus size: 19
937976 ATCGCAACGA
*
937986 GAGAATTGCAATGCGAAAT
1 GAGAATCGCAATGCGAAAT
*
938005 GAGAATCACAATGCGAAAT
1 GAGAATCGCAATGCGAAAT
*
938024 GAAAATCGCAA--CG--A-
1 GAGAATCGCAATGCGAAAT
938038 GAGAATCGCAATGCGAAAAT
1 GAGAATCGCAATGCG-AAAT
* *
938058 GAAAATCGCAACGCGAAAT
1 GAGAATCGCAATGCGAAAT
938077 TAGTTTCGCG
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
14 10 0.17
15 1 0.02
16 2 0.03
17 2 0.03
19 31 0.53
20 13 0.22
ACGTcount: A:0.46, C:0.16, G:0.23, T:0.14
Consensus pattern (19 bp):
GAGAATCGCAATGCGAAAT
Found at i:938049 original size:52 final size:53
Alignment explanation
Indices: 937960--938076 Score: 164
Period size: 52 Copynumber: 2.2 Consensus size: 53
937950 TTGACTATCG
** * *
937960 CAACGCGGAAATGACTATCGCAACGAGAGAATTGCAATGCG-AAATGAGAATCA
1 CAACGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAATGAAAATCA
* *
938013 CAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAATGAAAATCG
1 CAACGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAATGAAAATCA
938066 CAACGCGAAAT
1 CAACGCGAAAT
938077 TAGTTTCGCG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 31 0.55
53 25 0.45
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (53 bp):
CAACGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAATGAAAATCA
Found at i:938050 original size:33 final size:34
Alignment explanation
Indices: 938005--938070 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
937995 AATGCGAAAT
938005 GAGAATCACAATGCG-AAATGAAAATCGCAACGA
1 GAGAATCACAATGCGAAAATGAAAATCGCAACGA
*
938038 GAGAATCGCAATGCGAAAATGAAAATCGCAACG
1 GAGAATCACAATGCGAAAATGAAAATCGCAACG
938071 CGAAATTAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 14 0.45
34 17 0.55
ACGTcount: A:0.47, C:0.18, G:0.23, T:0.12
Consensus pattern (34 bp):
GAGAATCACAATGCGAAAATGAAAATCGCAACGA
Found at i:938142 original size:33 final size:34
Alignment explanation
Indices: 938085--938157 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 34
938075 ATTAGTTTCG
*
938085 CGTTGCGATTTTCATTTTCGCATTGTGATTCACT
1 CGTTGCAATTTTCATTTTCGCATTGTGATTCACT
*
938119 CGTTGCAATTTTCA-TTTCGCATTGTGATTCTCT
1 CGTTGCAATTTTCATTTTCGCATTGTGATTCACT
*
938152 CATTGC
1 CGTTGC
938158 GATAGTCATT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 23 0.64
34 13 0.36
ACGTcount: A:0.15, C:0.22, G:0.16, T:0.47
Consensus pattern (34 bp):
CGTTGCAATTTTCATTTTCGCATTGTGATTCACT
Found at i:938167 original size:33 final size:33
Alignment explanation
Indices: 938100--938169 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
938090 CGATTTTCAT
* **
938100 TTTCGCATTGTGATTCACTCGTTGCAATTTTCA
1 TTTCGCATTGTGATTCACTCATTGCAATAGTCA
* *
938133 TTTCGCATTGTGATTCTCTCATTGCGATAGTCA
1 TTTCGCATTGTGATTCACTCATTGCAATAGTCA
938166 TTTC
1 TTTC
938170 CGTGTTGCGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.17, C:0.21, G:0.16, T:0.46
Consensus pattern (33 bp):
TTTCGCATTGTGATTCACTCATTGCAATAGTCA
Found at i:938301 original size:14 final size:14
Alignment explanation
Indices: 938282--938318 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
938272 CATCAATTAA
938282 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
938296 ACAAATCATCTTTT
1 ACAAATCAACATTT
938310 ACAAATCAA
1 ACAAATCAA
938319 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:939775 original size:42 final size:42
Alignment explanation
Indices: 939668--939779 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 42
939658 TCTAGAATGT
* * * *
939668 TGGGAG-GGACCTCTTCAACGATGACAGTGGCCTCTTGAACGG
1 TGGGAGAGG-CCTCTTGAACGATGACAGGGGCCTCTTCAACGA
* * ** *
939710 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTCAACGA
1 TGGGAGAGGCCTCTTGAACGATGACAGGGGCCTCTTCAACGA
939752 TAGGG-GAGGCCTCTTGAACGATGACAGG
1 T-GGGAGAGGCCTCTTGAACGATGACAGG
939780 TGAGTCGGGC
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
42 50 0.91
43 5 0.09
ACGTcount: A:0.22, C:0.20, G:0.38, T:0.21
Consensus pattern (42 bp):
TGGGAGAGGCCTCTTGAACGATGACAGGGGCCTCTTCAACGA
Found at i:940282 original size:20 final size:20
Alignment explanation
Indices: 940259--940305 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
940249 GAAACTTAAA
940259 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
940279 ATCGCAACGTGAAAATGACT
1 ATCGCAACGCGAAAATGACT
940299 ATCGCAA
1 ATCGCAA
940306 TGAGAGAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:940371 original size:20 final size:20
Alignment explanation
Indices: 940346--940414 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
940336 CAACAACAAA
*
940346 ATCGCAACCCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* *
940366 ATCGCAATGCAAAAATGACT
1 ATCGCAACGCGAAAATGACT
* * **
940386 ATCACAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
940406 ATCGCAACG
1 ATCGCAACG
940415 AGAGAATCAC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:940478 original size:34 final size:34
Alignment explanation
Indices: 940438--940559 Score: 136
Period size: 34 Copynumber: 3.4 Consensus size: 34
940428 GCGATTTTCA
*
940438 TTTCGCATTGCGATTCTTTCGTTGCGATAGTCAA
1 TTTCGCATTGCGATTCTTTCGTTGCGATAGTCAT
* *
940472 ATTCGCATTGCGATAGTCATTTTCGCATTGTGATAGTCAT
1 TTTCGCATTGCGAT--TC--TTTCG--TTGCGATAGTCAT
* *
940512 TTTCGTATTGCGATTCTCTCGTTGCGATAGTCAT
1 TTTCGCATTGCGATTCTTTCGTTGCGATAGTCAT
*
940546 TTTCGCGTTGCGAT
1 TTTCGCATTGCGAT
940560 AGTTATTTTC
Statistics
Matches: 73, Mismatches: 9, Indels: 12
0.78 0.10 0.13
Matches are distributed among these distances:
34 37 0.51
36 6 0.08
38 7 0.10
40 23 0.32
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.42
Consensus pattern (34 bp):
TTTCGCATTGCGATTCTTTCGTTGCGATAGTCAT
Found at i:940484 original size:20 final size:20
Alignment explanation
Indices: 940459--940582 Score: 143
Period size: 20 Copynumber: 6.5 Consensus size: 20
940449 GATTCTTTCG
**
940459 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
940479 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
940499 TTGTGATAGTCATTTTCGTA
1 TTGCGATAGTCATTTTCGCA
*
940519 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
*
940533 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
*
940553 TTGCGATAGTTATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
940573 TTGCGATAGT
1 TTGCGATAGT
940583 AAACTATTCT
Statistics
Matches: 89, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
14 7 0.08
16 6 0.07
18 6 0.07
20 70 0.79
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.41
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:940559 original size:74 final size:74
Alignment explanation
Indices: 940438--940582 Score: 227
Period size: 74 Copynumber: 2.0 Consensus size: 74
940428 GCGATTTTCA
* *
940438 TTTCGCATTGCGATTCTTTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTGT
1 TTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTGC
940503 GATAGTCAT
66 GATAGTCAT
* ** * *
940512 TTTCGTATTGCGATTCTCTCGTTGCGATAGTCATTTTCGCGTTGCGATAGTTATTTTCGCATTGC
1 TTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTGC
940577 GATAGT
66 GATAGT
940583 AAACTATTCT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
74 64 1.00
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (74 bp):
TTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTGC
GATAGTCAT
Found at i:942478 original size:20 final size:20
Alignment explanation
Indices: 942455--942543 Score: 81
Period size: 20 Copynumber: 4.5 Consensus size: 20
942445 CTGAAACTTT
942455 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
942475 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
** * * **
942495 CTATCACAACGCGAATTTGA
1 AAATCGCAACACGAAAATGA
** **
942515 CTATCGCAACGTG-AAATGA
1 AAATCGCAACACGAAAATGA
942534 AAATCGCAAC
1 AAATCGCAAC
942544 GACAGAATCG
Statistics
Matches: 57, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
19 12 0.21
20 45 0.79
ACGTcount: A:0.46, C:0.22, G:0.16, T:0.16
Consensus pattern (20 bp):
AAATCGCAACACGAAAATGA
Found at i:943129 original size:20 final size:20
Alignment explanation
Indices: 943101--943252 Score: 198
Period size: 20 Copynumber: 7.5 Consensus size: 20
943091 GCTATGTAAA
943101 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
* *
943121 TCTCATTGCGATTTAGGTAAT
1 TCGCATTGCGATTTACGT-AT
943142 T-GCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
943161 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
*
943181 TCGCATTGCGATTTACGTAA
1 TCGCATTGCGATTTACGTAT
* * **
943201 TCGCATTGCAATTTTCCAAAT
1 TCGCATTGCGA-TTTACGTAT
* *
943222 TCGCGTTGTGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
943242 TCGCATTGCGA
1 TCGCATTGCGA
943253 ATTAGGAAAA
Statistics
Matches: 111, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
19 3 0.03
20 92 0.83
21 16 0.14
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:943194 original size:60 final size:61
Alignment explanation
Indices: 943101--943267 Score: 219
Period size: 60 Copynumber: 2.7 Consensus size: 61
943091 GCTATGTAAA
* * * **
943101 TCGCATTGCGATTTACGTATTCTCATTGCGATTTAGGTAATTGCATTGCGA-TTTACGTAT
1 TCGCATTGCGATTTACGTATTCGCATTGCGATTTAGGTAATCGCATTGCAATTTTACAAAT
* *
943161 TCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTAATCGCATTGCAATTTTCCAAAT
1 TCGCATTGCGATTTACGTATTCGCATTGCGATTTAGGTAATCGCATTGCAATTTTACAAAT
* * * *
943222 TCGCGTTGTGATTTACGTATTCGCATTGCGAATTAGGAAAATCGCA
1 TCGCATTGCGATTTACGTATTCGCATTGCGATTTAGG-TAATCGCA
943268 ACGCGAATTT
Statistics
Matches: 93, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
60 47 0.51
61 39 0.42
62 7 0.08
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.38
Consensus pattern (61 bp):
TCGCATTGCGATTTACGTATTCGCATTGCGATTTAGGTAATCGCATTGCAATTTTACAAAT
Found at i:943273 original size:21 final size:21
Alignment explanation
Indices: 943249--943289 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
943239 TATTCGCATT
943249 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
943270 GCGAATTTGGGAAATCGCAA
1 GCGAATTAGGAAAATCGCAA
943290 TGCAATAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.27, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:947197 original size:22 final size:22
Alignment explanation
Indices: 947169--947235 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
947159 ACGGTCAACA
*
947169 GTCAACGGTCTGGTCGGGTCGG
1 GTCAACGGTCGGGTCGGGTCGG
*
947191 GTCAACGGTCGGGTCAGGTCGG
1 GTCAACGGTCGGGTCGGGTCGG
**
947213 GTTGGACGGTCGGGTCGGGTCGG
1 G-TCAACGGTCGGGTCGGGTCGG
947236 TCGATCAGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
22 21 0.54
23 18 0.46
ACGTcount: A:0.09, C:0.21, G:0.49, T:0.21
Consensus pattern (22 bp):
GTCAACGGTCGGGTCGGGTCGG
Found at i:947246 original size:18 final size:18
Alignment explanation
Indices: 947204--947246 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
947194 AACGGTCGGG
* *
947204 TCAGGTCGGGTTGGACGG
1 TCAGGTCGGGTCGGACGA
* *
947222 TCGGGTCGGGTCGGTCGA
1 TCAGGTCGGGTCGGACGA
947240 TCAGGTC
1 TCAGGTC
947247 AGACCGGTCA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.47, T:0.23
Consensus pattern (18 bp):
TCAGGTCGGGTCGGACGA
Found at i:947255 original size:9 final size:9
Alignment explanation
Indices: 947243--947312 Score: 68
Period size: 9 Copynumber: 7.3 Consensus size: 9
947233 CGGTCGATCA
*
947243 GGTCAGACC
1 GGTCAAACC
947252 GGTCAAACC
1 GGTCAAACC
*
947261 GGTTCGAACC
1 GG-TCAAACC
947271 GGTCGAAACC
1 GGTC-AAACC
947281 GGTCAAACC
1 GGTCAAACC
*
947290 GGTTGAAAACC
1 GG-T-CAAACC
*
947301 GGTTAAACC
1 GGTCAAACC
947310 GGT
1 GGT
947313 TTCCAGTAGC
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
9 27 0.52
10 18 0.35
11 7 0.13
ACGTcount: A:0.29, C:0.27, G:0.29, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:947272 original size:10 final size:9
Alignment explanation
Indices: 947249--947292 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 9
947239 ATCAGGTCAG
*
947249 ACCGGTCAA
1 ACCGGTCGA
947258 ACCGGTTCGA
1 ACCGG-TCGA
947268 ACCGGTCGAA
1 ACCGGTCG-A
*
947278 ACCGGTCAA
1 ACCGGTCGA
947287 ACCGGT
1 ACCGGT
947293 TGAAAACCGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 15 0.48
10 16 0.52
ACGTcount: A:0.27, C:0.32, G:0.27, T:0.14
Consensus pattern (9 bp):
ACCGGTCGA
Found at i:947308 original size:20 final size:19
Alignment explanation
Indices: 947256--947313 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
947246 CAGACCGGTC
* *
947256 AAACCGGTTCGAACCGGTCG
1 AAACCGGTT-AAACCGGTTG
*
947276 AAACCGGTCAAACCGGTTG
1 AAACCGGTTAAACCGGTTG
947295 AAAACCGGTTAAACCGGTT
1 -AAACCGGTTAAACCGGTT
947314 TCCAGTAGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.24
20 25 0.76
ACGTcount: A:0.31, C:0.26, G:0.26, T:0.17
Consensus pattern (19 bp):
AAACCGGTTAAACCGGTTG
Found at i:954451 original size:18 final size:18
Alignment explanation
Indices: 954413--954474 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 18
954403 TCAACGGTCT
* *
954413 GGTCGGGACGGGTC-AAC
1 GGTCGGGTCGGGTCGGAC
954430 GGTCGGGTCGGGTCGGAC
1 GGTCGGGTCGGGTCGGAC
* *
954448 GGTCGGGTCGGGTGGGTC
1 GGTCGGGTCGGGTCGGAC
*
954466 GGTCAGGTC
1 GGTCGGGTC
954475 AGACCGGTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
17 13 0.33
18 26 0.67
ACGTcount: A:0.08, C:0.21, G:0.53, T:0.18
Consensus pattern (18 bp):
GGTCGGGTCGGGTCGGAC
Found at i:954483 original size:9 final size:9
Alignment explanation
Indices: 954471--954530 Score: 57
Period size: 9 Copynumber: 6.3 Consensus size: 9
954461 GGGTCGGTCA
*
954471 GGTCAGACC
1 GGTCAAACC
954480 GGTCAAACC
1 GGTCAAACC
*
954489 GGTTCGAACC
1 GG-TCAAACC
954499 GGTCGAAACC
1 GGTC-AAACC
*
954509 TGTCAAACC
1 GGTCAAACC
*
954518 AGTCAGAACC
1 GGTCA-AACC
954528 GGT
1 GGT
954531 TGAAAACCGG
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
9 21 0.50
10 21 0.50
ACGTcount: A:0.28, C:0.30, G:0.27, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:954501 original size:19 final size:19
Alignment explanation
Indices: 954477--954541 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
954467 GTCAGGTCAG
*
954477 ACCGGTCAAACCGGTTCGA
1 ACCGGTCAAACCGGTTCAA
*
954496 ACCGGTCGAAACCTG-TCAA
1 ACCGGTC-AAACCGGTTCAA
* *
954515 ACCAGTCAGAACCGGTTGAAA
1 ACCGGTCA-AACCGGTT-CAA
954536 ACCGGT
1 ACCGGT
954542 TTCCAGCAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
18 1 0.03
19 21 0.58
20 7 0.19
21 7 0.19
ACGTcount: A:0.31, C:0.29, G:0.25, T:0.15
Consensus pattern (19 bp):
ACCGGTCAAACCGGTTCAA
Found at i:956049 original size:17 final size:18
Alignment explanation
Indices: 956029--956085 Score: 82
Period size: 17 Copynumber: 3.2 Consensus size: 18
956019 GGTCCGGTCG
*
956029 GGTCGGGTTGGGTCA-AC
1 GGTCGGGTCGGGTCAGAC
956046 GGTCGGGTCGGGTCAGAC
1 GGTCGGGTCGGGTCAGAC
956064 GGTC-GGTCGGGTCAGACC
1 GGTCGGGTCGGGTCAGA-C
956082 GGTC
1 GGTC
956086 AAACCGGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
17 26 0.70
18 11 0.30
ACGTcount: A:0.11, C:0.23, G:0.47, T:0.19
Consensus pattern (18 bp):
GGTCGGGTCGGGTCAGAC
Found at i:970142 original size:16 final size:16
Alignment explanation
Indices: 970122--970188 Score: 80
Period size: 16 Copynumber: 4.2 Consensus size: 16
970112 ACTTTTAGTT
*
970122 GAACCGAAAACAACCC
1 GAACCGAAAGCAACCC
* * *
970138 AAACCGAAAGTAACCT
1 GAACCGAAAGCAACCC
* *
970154 GAATCGAAATCAACCC
1 GAACCGAAAGCAACCC
970170 GAACCGAAAGCAACCC
1 GAACCGAAAGCAACCC
970186 GAA
1 GAA
970189 TTTAATTTAC
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.48, C:0.31, G:0.15, T:0.06
Consensus pattern (16 bp):
GAACCGAAAGCAACCC
Found at i:970168 original size:32 final size:32
Alignment explanation
Indices: 970121--970189 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
970111 GACTTTTAGT
* *
970121 TGAACCGAAAACAACCCAAACCGAAAGTAACC
1 TGAATCGAAAACAACCCAAACCGAAAGCAACC
* *
970153 TGAATCGAAATCAACCCGAACCGAAAGCAACC
1 TGAATCGAAAACAACCCAAACCGAAAGCAACC
*
970185 CGAAT
1 TGAAT
970190 TTAATTTACC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.46, C:0.30, G:0.14, T:0.09
Consensus pattern (32 bp):
TGAATCGAAAACAACCCAAACCGAAAGCAACC
Found at i:971275 original size:13 final size:13
Alignment explanation
Indices: 971257--971283 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
971247 TTTTGAATAC
971257 TCATCAATACATT
1 TCATCAATACATT
971270 TCATCAATACATT
1 TCATCAATACATT
971283 T
1 T
971284 GGGGATCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (13 bp):
TCATCAATACATT
Found at i:979992 original size:23 final size:22
Alignment explanation
Indices: 979949--980022 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 22
979939 CACGTAGAGT
*
979949 TTGTCCCGAAGGACAGCGTAGAA
1 TTGTCCCGAAGGACA-TGTAGAA
*
979972 TTGTCCCTAAGGACCATGTAGGAA
1 TTGTCCCGAAGGA-CATGTA-GAA
* *
979996 -TATCCCGAAGGATCATATA-AA
1 TTGTCCCGAAGGA-CATGTAGAA
980017 TTGTCC
1 TTGTCC
980023 TGTAGGACCG
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
21 2 0.05
22 4 0.10
23 30 0.73
24 5 0.12
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (22 bp):
TTGTCCCGAAGGACATGTAGAA
Found at i:985505 original size:320 final size:320
Alignment explanation
Indices: 984924--985887 Score: 1445
Period size: 320 Copynumber: 3.0 Consensus size: 320
984914 TAATAATAAC
* * * *
984924 AACAATATGATTTAA-AATATAATCTAATTAATTTAATTTTATAAATGTTTTAACATTTTTACTA
1 AACAATATTATTTAACAAAATAATCTAATTACTTTAATTTTATAATTGTTTTAACATTTTTACTA
* * * *
984988 CAATAGTAAATCGATCAATACTAATAAAAAATTGTAATAATGATT-AGGAAAGTAAAATAAAACT
66 CAATAGTAAATCAATCAATACTATTAAAAAATTATAATAATGATTCA-AAAAGTAAAATAAAACT
*
985052 AATAATATTATTTTTTTAAAGGTAAACTAAAAATATTATAAAACTGATATATATTAACATAACAA
130 AAAAATATTATTTTTTTAAAGGTAAACTAAAAATATTATAAAACTGATATATATTAACATAACAA
* * *
985117 TAAATCATAAAATATTTCAAATAAAATCTCTTCATATTTACTCGAGAACTTCTTCCCTCAACTTG
195 TAAATCATAAAATATTTCAAATAAAATATCTTCATA-TTACTTGAGAACTTCTTCCCACAACTTG
* * *
985182 ATTTAAAAAGAAAAATCTTTTGAAACAACTACTCGCTCACTCTTTAAT-TGCAAAAGAACAT
259 ATTTAAAAAGAAAAATCTTTCGAAACAACTTCTCACTCACTCTTTAATCTGCAAAAGAACAT
*
985243 AACAATATTTTTTAACAAAATAATCTAATTACTTTAATTTTATAATTGTTTTAACATTTTTACTA
1 AACAATATTATTTAACAAAATAATCTAATTACTTTAATTTTATAATTGTTTTAACATTTTTACTA
* *
985308 CAATAGTAAATCAATCAATACTATTAAAAAATTATAACAATTATTCAAAAAGTAAAATAAAACTA
66 CAATAGTAAATCAATCAATACTATTAAAAAATTATAATAATGATTCAAAAAGTAAAATAAAACTA
* * * * *
985373 AAAATATTA-TTTTTTAAAGGTAGACTAAAAATATTATAAAATTGATATTTATTAGCATATAAAA
131 AAAATATTATTTTTTTAAAGGTAAACTAAAAATATTATAAAACTGATATATATTAACATA-ACAA
*
985437 TAAATCATAAAATATTTCAAATAAAATATCTTCATACTTACTTGAGAACTTCTTCTCACAACTTG
195 TAAATCATAAAATATTTCAAATAAAATATCTTCATA-TTACTTGAGAACTTCTTCCCACAACTTG
* * *
985502 ATTTAAAAGGAAAAATCTTTCAAAACAACTTCTCACTCACTCTTTAATCTGTAAAAGAACAT
259 ATTTAAAAAGAAAAATCTTTCGAAACAACTTCTCACTCACTCTTTAATCTGCAAAAGAACAT
*
985564 AACAATACTATTTAACAAAATAATCTAATTACTTTAATTTTATAATTGTTTTAACATTTTTACTA
1 AACAATATTATTTAACAAAATAATCTAATTACTTTAATTTTATAATTGTTTTAACATTTTTACTA
985629 CAATAGTAAATCAATCAATACTATT-AAAAATTATAATAATGATTCAAAAAGTAAAATAAAACTA
66 CAATAGTAAATCAATCAATACTATTAAAAAATTATAATAATGATTCAAAAAGTAAAATAAAACTA
985693 AAAATATTATTTTTTTTGAAAGGTAAACTAAAAATATTATAAAACTGATATATATTAACATAACA
131 AAAATATTA-TTTTTTT-AAAGGTAAACTAAAAATATTATAAAACTGATATATATTAACATAACA
*
985758 ATAAATCATAAAATATCTC--A-AAAA-ATC-TC-T-TTA--T-AGAACTTCTTCCCACAACTTG
194 ATAAATCATAAAATATTTCAAATAAAATATCTTCATATTACTTGAGAACTTCTTCCCACAACTTG
* * * * * * *
985813 CTATAAAAAGGAAAATATTTCGAAACAACTTCTCACTCACTCTTTAATCAGCAAAAGATCAC
259 ATTTAAAAAGAAAAATCTTTCGAAACAACTTCTCACTCACTCTTTAATCTGCAAAAGAACAT
985875 AACAATATTATTT
1 AACAATATTATTT
985888 TTCTCTCCTT
Statistics
Matches: 588, Mismatches: 50, Indels: 22
0.89 0.08 0.03
Matches are distributed among these distances:
311 84 0.14
312 1 0.00
314 3 0.01
316 1 0.00
317 2 0.00
318 3 0.01
319 63 0.11
320 264 0.45
321 101 0.17
322 26 0.04
323 40 0.07
ACGTcount: A:0.47, C:0.13, G:0.05, T:0.36
Consensus pattern (320 bp):
AACAATATTATTTAACAAAATAATCTAATTACTTTAATTTTATAATTGTTTTAACATTTTTACTA
CAATAGTAAATCAATCAATACTATTAAAAAATTATAATAATGATTCAAAAAGTAAAATAAAACTA
AAAATATTATTTTTTTAAAGGTAAACTAAAAATATTATAAAACTGATATATATTAACATAACAAT
AAATCATAAAATATTTCAAATAAAATATCTTCATATTACTTGAGAACTTCTTCCCACAACTTGAT
TTAAAAAGAAAAATCTTTCGAAACAACTTCTCACTCACTCTTTAATCTGCAAAAGAACAT
Found at i:989434 original size:2 final size:2
Alignment explanation
Indices: 989429--989486 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
989419 TTAATTATTA
989429 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T 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
989470 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
989487 ATGATATAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1007870 original size:26 final size:26
Alignment explanation
Indices: 1007841--1007900 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
1007831 CAAAATAGTA
*
1007841 TTTTTTTCTGAAAACCAGTAATATTT
1 TTTTTTTCTGAAAACCAGTAAAATTT
*
1007867 TTTTCTTCTGAAAACCAGTAAAATTT
1 TTTTTTTCTGAAAACCAGTAAAATTT
1007893 TGTTTTTT
1 T-TTTTTT
1007901 TCTAATATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 25 0.83
27 5 0.17
ACGTcount: A:0.28, C:0.12, G:0.08, T:0.52
Consensus pattern (26 bp):
TTTTTTTCTGAAAACCAGTAAAATTT
Found at i:1009702 original size:44 final size:44
Alignment explanation
Indices: 1009654--1009752 Score: 128
Period size: 46 Copynumber: 2.2 Consensus size: 44
1009644 TTATGATTTG
*
1009654 AGTTGAAAT-AGATGTTTGTTCAAATCTAATATCCTTCATTGTGA
1 AGTTGAAATGACATG-TTGTTCAAATCTAATATCCTTCATTGTGA
* *
1009698 AGTTGAAATTTGACATGTTGTTCGAGTCTAATATCCTTCATTGTGA
1 AGTTGAAA--TGACATGTTGTTCAAATCTAATATCCTTCATTGTGA
*
1009744 AGTTAAAAT
1 AGTTGAAAT
1009753 TTGACTAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
44 9 0.19
46 35 0.73
47 4 0.08
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (44 bp):
AGTTGAAATGACATGTTGTTCAAATCTAATATCCTTCATTGTGA
Found at i:1009728 original size:46 final size:46
Alignment explanation
Indices: 1009669--1009757 Score: 151
Period size: 46 Copynumber: 1.9 Consensus size: 46
1009659 AAATAGATGT
*
1009669 TTGTTCAAATCTAATATCCTTCATTGTGAAGTTGAAATTTGACATG
1 TTGTTCAAATCTAATATCCTTCATTGTGAAGTTAAAATTTGACATG
* *
1009715 TTGTTCGAGTCTAATATCCTTCATTGTGAAGTTAAAATTTGAC
1 TTGTTCAAATCTAATATCCTTCATTGTGAAGTTAAAATTTGAC
1009758 TAAAAACTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (46 bp):
TTGTTCAAATCTAATATCCTTCATTGTGAAGTTAAAATTTGACATG
Found at i:1010483 original size:393 final size:401
Alignment explanation
Indices: 1009971--1010765 Score: 1525
Period size: 398 Copynumber: 2.0 Consensus size: 401
1009961 ACTATTCCTT
1009971 GTTGAGCTAAGCTAAATTGTATATGATAACTCTCCAAAAGAGTTATCAATTTAGCACTTTTTACC
1 GTTGAGCTAAGCTAAATTGTATATGATAACTCTCCAAAAGAGTTATCAATTTAGCACTTTTTACC
1010036 ATGTTTGGCATAGAATTAAGTATGTTTAAAATTATTTTAGGTTTTGTTTAGTCTTA-TTTTATAT
66 ATGTTTGGCATAGAATTAAGTATGTTTAAAATTATTTTAGGTTTTGTTTAGTCTTATTTTTATAT
1010100 ATTTTTACATTTTTTAAAG-TTGGTTATCTTGGACTAA-TTCT-TCTTTTTTGCTAAAAAGTGCA
131 ATTTTTACATTTTTTAAAGTTTGGTTATCTTGGACTAATTTCTATCTTTTTTGCTAAAAAGTGCA
1010162 GAAGTTGCAGTGAAGAAGCAAATGTTACAGCAACTGATGACTCACCAGGCTAGGCAGAACCTTTT
196 GAAGTTGCAGTGAAGAAGCAAATGTTACAGCAACTGATGACTCACCAGGCTAGGCAGAACCTTTT
1010227 GGACCGGGATAGCTGGCTAGGATAGTTGTATCGTCTCCAACCAGCTGCTGCTACGTGGAGAATAC
261 GGACCGGGATAGCTGGCTAGGATAGTTGTATCGTCTCCAACCAGCTGCTGCTACGTGGAGAATAC
1010292 CTATTAGAGGC-AATTTGACCTCCTCGCCTAT-AATAGTACCTTCCCCAACTCATTTAATC-TCA
326 CTATTAGAGGCAAATTTGACCTCCTCGCCTATAAATAGTACCTTCCCCAACTCATTTAATCATCA
1010354 A-TCTTCATTC
391 ATTCTTCATTC
1010364 GTTGAGCTAAGCTAAATTGTATATGATAACTCTCCAAAAGAGTTATCAATTTAGCACTTTTTACC
1 GTTGAGCTAAGCTAAATTGTATATGATAACTCTCCAAAAGAGTTATCAATTTAGCACTTTTTACC
1010429 ATGTTTGGCATAGAATTAAGTATGTTTAAAATTATTTTAGGTTTTGTTTAGTCTTATTTTTATAT
66 ATGTTTGGCATAGAATTAAGTATGTTTAAAATTATTTTAGGTTTTGTTTAGTCTTATTTTTATAT
1010494 ATTTTTACATTTTTTAAAGTTTGGTTATCTTGGACTAATTTCTAGTCTTTTTTGCTAAAAAGTGC
131 ATTTTTACATTTTTTAAAGTTTGGTTATCTTGGACTAATTTCTA-TCTTTTTTGCTAAAAAGTGC
1010559 AGAAGTTGCAGTGAAGAAGCAAATGTTACAGCAACTGATGACTCACCAGGCTAGGCAGAACCTTT
195 AGAAGTTGCAGTGAAGAAGCAAATGTTACAGCAACTGATGACTCACCAGGCTAGGCAGAACCTTT
1010624 TGGACCGGGATAGCTGGCTAGGATAGTTGTATCGTCTCCAACCAGCTGCTGCTACGTGGAGAATA
260 TGGACCGGGATAGCTGGCTAGGATAGTTGTATCGTCTCCAACCAGCTGCTGCTACGTGGAGAATA
1010689 CCTATTAGAGGCAAATTTGACCTCCTCGCCTATAAATAGTACCTTCCCCAACTCATTTAATCATC
325 CCTATTAGAGGCAAATTTGACCTCCTCGCCTATAAATAGTACCTTCCCCAACTCATTTAATCATC
1010754 AATTCTTCATTC
390 AATTCTTCATTC
1010766 TAGCTTCTTC
Statistics
Matches: 393, Mismatches: 0, Indels: 9
0.98 0.00 0.02
Matches are distributed among these distances:
393 121 0.31
394 27 0.07
395 18 0.05
396 4 0.01
398 162 0.41
399 20 0.05
400 28 0.07
401 4 0.01
402 9 0.02
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (401 bp):
GTTGAGCTAAGCTAAATTGTATATGATAACTCTCCAAAAGAGTTATCAATTTAGCACTTTTTACC
ATGTTTGGCATAGAATTAAGTATGTTTAAAATTATTTTAGGTTTTGTTTAGTCTTATTTTTATAT
ATTTTTACATTTTTTAAAGTTTGGTTATCTTGGACTAATTTCTATCTTTTTTGCTAAAAAGTGCA
GAAGTTGCAGTGAAGAAGCAAATGTTACAGCAACTGATGACTCACCAGGCTAGGCAGAACCTTTT
GGACCGGGATAGCTGGCTAGGATAGTTGTATCGTCTCCAACCAGCTGCTGCTACGTGGAGAATAC
CTATTAGAGGCAAATTTGACCTCCTCGCCTATAAATAGTACCTTCCCCAACTCATTTAATCATCA
ATTCTTCATTC
Found at i:1015015 original size:16 final size:17
Alignment explanation
Indices: 1014989--1015021 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1014979 TTTTAATTCA
1014989 TTTGTAAAAGTAAATGT
1 TTTGTAAAAGTAAATGT
*
1015006 TTTG-AAAAGTCAATGT
1 TTTGTAAAAGTAAATGT
1015022 GATACCTCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.39
Consensus pattern (17 bp):
TTTGTAAAAGTAAATGT
Found at i:1019836 original size:15 final size:17
Alignment explanation
Indices: 1019811--1019842 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1019801 TTTTAATTCA
1019811 TTTGTAAAAGT-AATGT
1 TTTGTAAAAGTCAATGT
1019827 TTTG-AAAAGTCAATGT
1 TTTGTAAAAGTCAATGT
1019843 GATACATCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.41
Consensus pattern (17 bp):
TTTGTAAAAGTCAATGT
Found at i:1040494 original size:97 final size:95
Alignment explanation
Indices: 1040322--1040523 Score: 244
Period size: 97 Copynumber: 2.1 Consensus size: 95
1040312 ACTACTGTAG
** * **
1040322 GTATCGATATTAAGAGAAAGGTATCAATACCAGGGATTCTAGAATGTAAAAATGGTATCGATGTT
1 GTATCGATACAAAGAGAAAGGTATCAATACCAGGGATTCTAGAATGTAAAAATGGTATCAATACT
*
1040387 GAAAGGGAGTATCGGTACCATAATAAATAGAA
66 GAAAGAGAGTATCGGTACCATAAT--ATAGAA
* * * * *
1040419 GTATCGATACAAAGAGAAATGTATTAATACCATGTATTAC-AGGATGTAAAAATGGTATCAATAC
1 GTATCGATACAAAGAGAAAGGTATCAATACCAGGGATT-CTAGAATGTAAAAATGGTATCAATAC
* *
1040483 TGAACGAGAGTATCGGTACCATAGTATAGAA
65 TGAAAGAGAGTATCGGTACCATAATATAGAA
*
1040514 GGATCGATAC
1 GTATCGATAC
1040524 CATGGTAGGG
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
95 15 0.17
97 74 0.82
98 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (95 bp):
GTATCGATACAAAGAGAAAGGTATCAATACCAGGGATTCTAGAATGTAAAAATGGTATCAATACT
GAAAGAGAGTATCGGTACCATAATATAGAA
Found at i:1040988 original size:45 final size:45
Alignment explanation
Indices: 1040939--1041297 Score: 400
Period size: 45 Copynumber: 8.0 Consensus size: 45
1040929 AAATGGATGA
1040939 ATATATGAAATGCATAACAGTGCATTATAGGCATGAAAGGATGCC
1 ATATATGAAATGCATAACAGTGCATTATAGGCATGAAAGGATGCC
* * * * *
1040984 ATATATGAAATGCATAACGGTGCACTATAGACATGAAATGATGCT
1 ATATATGAAATGCATAACAGTGCATTATAGGCATGAAAGGATGCC
* * * *
1041029 ATATATGAAATGCATAATATTGCATTATAGGTATGAGAGGATGCC
1 ATATATGAAATGCATAACAGTGCATTATAGGCATGAAAGGATGCC
* * *
1041074 ATATATGTAATGCATAACAGAGCATTATAGGCATGAAATGATGCC
1 ATATATGAAATGCATAACAGTGCATTATAGGCATGAAAGGATGCC
* * * * ** *
1041119 ATATATGTAATGTATAACGGTGAATTGCATGCATGAAAGGATGCC
1 ATATATGAAATGCATAACAGTGCATTATAGGCATGAAAGGATGCC
*
1041164 ATA-ATGAGATGCATAACGACGT--ATTATAGGCATGAAAGGATGCC
1 ATATATGAAATGCATAAC-A-GTGCATTATAGGCATGAAAGGATGCC
* * * * *
1041208 ATAAATGAGATGCATAACGGTGCATTATCGACATGAAAGGATGCC
1 ATATATGAAATGCATAACAGTGCATTATAGGCATGAAAGGATGCC
* * * * *
1041253 ATAAATGAAAATGCACAACGGAGCATTATAAGCATGAAAGGATGC
1 ATATATG-AAATGCATAACAGTGCATTATAGGCATGAAAGGATGC
1041298 TATAAATGCA
Statistics
Matches: 263, Mismatches: 45, Indels: 11
0.82 0.14 0.03
Matches are distributed among these distances:
43 2 0.01
44 33 0.13
45 195 0.74
46 33 0.13
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.25
Consensus pattern (45 bp):
ATATATGAAATGCATAACAGTGCATTATAGGCATGAAAGGATGCC
Found at i:1041234 original size:179 final size:181
Alignment explanation
Indices: 1040969--1041297 Score: 437
Period size: 179 Copynumber: 1.8 Consensus size: 181
1040959 TGCATTATAG
** * * *
1040969 GCATGAAAGGATGCCATATATGAAATGCATAACGGTGCACTATAGACATGAAATGATGCTATATA
1 GCATGAAAGGATGCCATATATGAAATGCATAACGACGCACTATAGACATGAAAGGATGCCATAAA
* * ** * * * *
1041034 TGAAATGCATAATATTGCATTATAGGTATGAGAGGATGCCATATATG-TAATGCATAACAGAGCA
66 TGAAATGCATAACAGTGCATTATAGACATGAAAGGATGCCATAAATGAAAATGCACAACAGAGCA
* *
1041098 TTATAGGCATGAAATGATGCCATATATGTAATGTATAACGGTGAATTGCAT
131 TTATAAGCATGAAAGGATGCCATATATGTAATGTATAACGGTGAATTGCAT
* * * *
1041149 GCATGAAAGGATGCCATA-ATGAGATGCATAACGACGTATTATAGGCATGAAAGGATGCCATAAA
1 GCATGAAAGGATGCCATATATGAAATGCATAACGACGCACTATAGACATGAAAGGATGCCATAAA
* * * *
1041213 TGAGATGCATAACGGTGCATTATCGACATGAAAGGATGCCATAAATGAAAATGCACAACGGAGCA
66 TGAAATGCATAACAGTGCATTATAGACATGAAAGGATGCCATAAATGAAAATGCACAACAGAGCA
1041278 TTATAAGCATGAAAGGATGC
131 TTATAAGCATGAAAGGATGC
1041298 TATAAATGCA
Statistics
Matches: 125, Mismatches: 23, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
179 75 0.60
180 50 0.40
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (181 bp):
GCATGAAAGGATGCCATATATGAAATGCATAACGACGCACTATAGACATGAAAGGATGCCATAAA
TGAAATGCATAACAGTGCATTATAGACATGAAAGGATGCCATAAATGAAAATGCACAACAGAGCA
TTATAAGCATGAAAGGATGCCATATATGTAATGTATAACGGTGAATTGCAT
Found at i:1043140 original size:23 final size:23
Alignment explanation
Indices: 1043114--1043158 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
1043104 GCATAAATAG
*
1043114 TGTCGCGTAGAATTGCACATAAT
1 TGTCACGTAGAATTGCACATAAT
1043137 TGTCACGTAGAATTGCACATAA
1 TGTCACGTAGAATTGCACATAA
1043159 AGTGCCACGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (23 bp):
TGTCACGTAGAATTGCACATAAT
Found at i:1043196 original size:24 final size:24
Alignment explanation
Indices: 1043112--1043197 Score: 104
Period size: 24 Copynumber: 3.6 Consensus size: 24
1043102 ATGCATAAAT
*
1043112 AGTGTCGCGTAGAATTGCACAT-A
1 AGTGTCACGTAGAATTGCACATAA
*
1043135 ATTGTCACGTAGAATTGCACATAA
1 AGTGTCACGTAGAATTGCACATAA
* *
1043159 AGTGCCACGAAGAATT-CTACATAA
1 AGTGTCACGTAGAATTGC-ACATAA
*
1043183 AGTGTCGCGTAGAAT
1 AGTGTCACGTAGAAT
1043198 GTACACGAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 21 0.40
24 32 0.60
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (24 bp):
AGTGTCACGTAGAATTGCACATAA
Found at i:1049816 original size:18 final size:18
Alignment explanation
Indices: 1049793--1049828 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1049783 CCTAGGGCAA
1049793 GTTCATCTGATGGGGTAG
1 GTTCATCTGATGGGGTAG
1049811 GTTCATCTGATGGGGTAG
1 GTTCATCTGATGGGGTAG
1049829 CTATGCCACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.11, G:0.39, T:0.33
Consensus pattern (18 bp):
GTTCATCTGATGGGGTAG
Done.