Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003268.1 Hibiscus syriacus cultivar Beakdansim tig00006868_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: 150736
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:9426 original size:25 final size:25
Alignment explanation
Indices: 9398--9462 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
9388 TTATCATTAA
9398 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
9423 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
9448 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
9463 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:9840 original size:23 final size:23
Alignment explanation
Indices: 9809--9881 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
9799 ATAGGTAAAC
*
9809 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
9832 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
9855 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
9878 ATAT
1 ATAT
9882 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:10245 original size:18 final size:18
Alignment explanation
Indices: 10224--10260 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10214 GTAATTGGAG
10224 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
10242 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
10260 T
1 T
10261 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:10268 original size:24 final size:24
Alignment explanation
Indices: 10216--10262 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
10206 TTTCATATGT
* *
10216 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
10240 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
10263 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:10562 original size:39 final size:39
Alignment explanation
Indices: 10519--10605 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
10509 TCCGATGCTC
*
10519 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
* *
10558 ATCAAAATTCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
10597 ATCAAAATC
1 ATCAAAATC
10606 TACAACTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:11058 original size:23 final size:23
Alignment explanation
Indices: 11027--11099 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
11017 ATAGGTAAAC
*
11027 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
11050 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
11073 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
11096 ATAT
1 ATAT
11100 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:11486 original size:23 final size:23
Alignment explanation
Indices: 11455--11527 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
11445 ATAGGTAAAC
*
11455 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
11478 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
11501 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
11524 ATAT
1 ATAT
11528 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:11799 original size:428 final size:430
Alignment explanation
Indices: 10824--13162 Score: 4460
Period size: 428 Copynumber: 5.5 Consensus size: 430
10814 GTTAATGTTG
*
10824 TTAAATT-TAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAA-AATCAAATAATTTTTTGTGCAA
10888 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
65 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
10953 AAATTACATAACTTTAAAATAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
130 AAATTACATAACTTTAAAATAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
11018 TAGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
195 TAGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
11083 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
260 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
11148 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
325 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
11213 CGTCTAATGA-TTATTTTTTACGTTACGATATATATTATTA
390 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
11253 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAAT-AAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
11317 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
11382 AATTACATAACTTTAAAATAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAATAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
11447 AGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
11512 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
*
11577 GGAAAACATTAATTTAAGGTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
11642 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
11682 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAAT-AAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
11746 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
11810 AATTACATAACTTTAAAATAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAATAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
* *
11875 AGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATATGTATCATTTATATAATGTAA
196 AGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
*
11940 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCAATGT
261 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
12005 GGAAAACATTAATTTAAGGTTATC-TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
12069 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
12109 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATTAAAAAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
*
12174 TGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
*
12239 AATTACATAACTTTAAAATAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTACAATATAAT
131 AATTACATAACTTTAAAATAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
*
12304 AGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATATGTATCGTTTATATAATGTAA
196 AGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
12369 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
12434 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
12499 GTCTAATGATTTA-TTTTTACGTTACGATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
12538 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
*
12603 TAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
* * *
12667 AATTACATAACTTTAAAATAAGTATCGATCCTTTTTATAAAAAGTATGAATACTTACAATATAAT
131 AATTACATAACTTTAAAATAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
12732 AGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
12797 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
*
12862 GAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
12927 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
12967 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
13032 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
* *
13097 AATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAATAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
13162 A
196 A
13163 TAATATAATA
Statistics
Matches: 1877, Mismatches: 26, Indels: 13
0.98 0.01 0.01
Matches are distributed among these distances:
427 124 0.07
428 935 0.50
429 654 0.35
430 164 0.09
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (430 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
AATTACATAACTTTAAAATAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
AGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:11914 original size:23 final size:23
Alignment explanation
Indices: 11883--11955 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
11873 ATAGGTAAAC
*
11883 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * **
11906 ATATAATGTAATATGTATCATTT
1 ATATAATGTAATAGGTAGCGCTT
* *
11929 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
11952 ATAT
1 ATAT
11956 TGTAAAGTGT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:12343 original size:23 final size:23
Alignment explanation
Indices: 12312--12384 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
12302 ATAGGTAAAC
*
12312 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
12335 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
12358 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
12381 ATAT
1 ATAT
12385 TGTAAAGTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:12590 original size:857 final size:859
Alignment explanation
Indices: 10824--13162 Score: 4465
Period size: 857 Copynumber: 2.7 Consensus size: 859
10814 GTTAATGTTG
*
10824 TTAAATT-TAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAA-AATCAAATAATTTTTTGTGCAA
10888 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
65 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACAT
10953 AAATTACATAACTTTAAAATAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
129 AAATTACATAACTTTAAAATAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
11018 TAGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
194 TAGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
11083 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
259 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
11148 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
324 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
11213 CGTCTAATGA-TTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATA
389 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATA
11277 TTTTATAAAATATCAAAAAAT-AAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTA
454 TTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTA
11341 GGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAATAAGTA
519 GGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAATAAGTA
11406 TCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGT
584 TCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGT
11471 AGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGT
649 AGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGT
11536 GTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATA
714 GTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATA
11601 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
779 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
11666 ACGATATATATTATTA
844 ACGATATATATTATTA
11682 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAAT-AAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
11746 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
11811 ATTACATAACTTTAAAATAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
131 ATTACATAACTTTAAAATAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
* *
11876 GGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATATGTATCATTTATATAATGTAAT
196 GGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
*
11941 AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCAATGTG
261 AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
12006 GAAAACATTAATTTAAGGTTATC-TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
326 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
12070 TCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATT
391 TCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATT
*
12135 TTATAAAATATTAAAAAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGG
456 TTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGG
*
12200 TAGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAATAAGTATC
521 TGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAATAAGTATC
*
12265 GATCCTTTTTATAAAAAGTATGGACACTTACAATATAATAGGTAAACATATGATGTAATAGGTAG
586 GATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAG
*
12330 CGCTTATATAATGTAATATGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGT
651 CGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGT
*
12395 CTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTT
716 CTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATATT
12460 TTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTTAC
781 TTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTAC
12524 GATATATATTATTA
846 GATATATATTATTA
*
12538 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
*
12603 TAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
* * *
12668 ATTACATAACTTTAAAATAAGTATCGATCCTTTTTATAAAAAGTATGAATACTTACAATATAATA
131 ATTACATAACTTTAAAATAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
12733 GGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
196 GGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
12798 AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
261 AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
*
12863 AAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
326 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
12928 TCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATT
391 TCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATT
12993 TTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGG
456 TTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGG
*
13058 TGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATC
521 TGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAATAAGTATC
*
13123 GATCATTTTTATAAAAAGTATGGACACTTTCAATATAATA
586 GATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
13163 TAATATAATA
Statistics
Matches: 1453, Mismatches: 23, Indels: 10
0.98 0.02 0.01
Matches are distributed among these distances:
855 49 0.03
856 377 0.26
857 713 0.49
858 281 0.19
859 33 0.02
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (859 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
ATTACATAACTTTAAAATAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
GGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
TCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATT
TTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGG
TGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAATAAGTATC
GATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAG
CGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGT
CTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATATT
TTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTAC
GATATATATTATTA
Found at i:12771 original size:23 final size:23
Alignment explanation
Indices: 12740--12812 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
12730 ATAGGTAAAC
*
12740 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
12763 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
12786 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
12809 ATAT
1 ATAT
12813 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:13017 original size:30 final size:29
Alignment explanation
Indices: 12958--13024 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
12948 GTTACGATAT
* *
12958 ATATTATTATTAAATTAAAAATTCTAAATA
1 ATATT-TTATAAAATTAAAAAATCTAAATA
12988 ATATTTTATAAAATATCAAAAAATC-AAATA
1 ATATTTTATAAAAT-T-AAAAAATCTAAATA
*
13018 ATTTTTT
1 ATATTTT
13025 GTGCAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 17 0.53
31 7 0.22
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (29 bp):
ATATTTTATAAAATTAAAAAATCTAAATA
Found at i:13626 original size:37 final size:37
Alignment explanation
Indices: 13576--13659 Score: 168
Period size: 37 Copynumber: 2.3 Consensus size: 37
13566 TACTTTCGTG
13576 GGAACCAAACAAGGAATCATCATCTCATATAAAACAA
1 GGAACCAAACAAGGAATCATCATCTCATATAAAACAA
13613 GGAACCAAACAAGGAATCATCATCTCATATAAAACAA
1 GGAACCAAACAAGGAATCATCATCTCATATAAAACAA
13650 GGAACCAAAC
1 GGAACCAAAC
13660 CAACATCATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.51, C:0.23, G:0.12, T:0.14
Consensus pattern (37 bp):
GGAACCAAACAAGGAATCATCATCTCATATAAAACAA
Found at i:14211 original size:2 final size:2
Alignment explanation
Indices: 14204--14234 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14194 TTCGCTCTAT
14204 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14235 TTCAATCCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15955 original size:20 final size:20
Alignment explanation
Indices: 15932--15971 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
15922 CATTCAAGAT
*
15932 GGTATTGATACATTCCTTAA
1 GGTATCGATACATTCCTTAA
* *
15952 GGTATCGGTACCTTCCTTAA
1 GGTATCGATACATTCCTTAA
15972 TTTTACTCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (20 bp):
GGTATCGATACATTCCTTAA
Found at i:17224 original size:2 final size:2
Alignment explanation
Indices: 17217--17241 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17207 AATCAAAATA
17217 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
17242 AACTTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17439 original size:21 final size:21
Alignment explanation
Indices: 17413--17475 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 21
17403 TCCTAATTGA
17413 ATAGTTTTTCATATTTTGAAT
1 ATAGTTTTTCATATTTTGAAT
17434 ATAG-TTTTCATTAATCTTTGAAT
1 ATAGTTTTTCA-T-AT-TTTGAAT
* *
17457 TTGAGTTTTT-ATCTTTTGA
1 AT-AGTTTTTCATATTTTGA
17476 TATTATGTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
20 6 0.17
21 10 0.29
22 3 0.09
23 9 0.26
24 3 0.09
25 4 0.11
ACGTcount: A:0.25, C:0.06, G:0.11, T:0.57
Consensus pattern (21 bp):
ATAGTTTTTCATATTTTGAAT
Found at i:22604 original size:24 final size:24
Alignment explanation
Indices: 22577--22623 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
22567 TTGAAATTTG
*
22577 CCTAATTTCGTGATATATTTTGTA
1 CCTAATTTCGTGACATATTTTGTA
* *
22601 CCTAGTTTTGTGACATATTTTGT
1 CCTAATTTCGTGACATATTTTGT
22624 GCGTGACTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.21, C:0.13, G:0.15, T:0.51
Consensus pattern (24 bp):
CCTAATTTCGTGACATATTTTGTA
Found at i:32401 original size:66 final size:66
Alignment explanation
Indices: 32325--32464 Score: 217
Period size: 66 Copynumber: 2.1 Consensus size: 66
32315 TTCATGAAAT
* * * * *
32325 TCATTTAAAATTGACGAAAATCCATCGAATAGTTCGATATGCGAATAATTTGAACTCCTCCAATG
1 TCATTCAAAATTGACGAAAATCCATCAAAAAATTCGACATGCGAATAATTTGAACTCCTCCAATG
32390 A
66 A
* *
32391 TCATTCAAAATTGATGAAAATCCATCAAAAAATTCGACATGCGAATAATTTGAACTCCTCCAGTG
1 TCATTCAAAATTGACGAAAATCCATCAAAAAATTCGACATGCGAATAATTTGAACTCCTCCAATG
32456 A
66 A
32457 TCATTCAA
1 TCATTCAA
32465 TGAGACTAGT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.29
Consensus pattern (66 bp):
TCATTCAAAATTGACGAAAATCCATCAAAAAATTCGACATGCGAATAATTTGAACTCCTCCAATG
A
Found at i:32811 original size:21 final size:21
Alignment explanation
Indices: 32781--32919 Score: 151
Period size: 21 Copynumber: 6.6 Consensus size: 21
32771 GATTTACATA
*
32781 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
32802 TTCGCGTTGCGATTTATTCTAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
32825 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
32844 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
32867 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
32886 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
32907 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
32920 TTATTCCAAA
Statistics
Matches: 99, Mismatches: 11, Indels: 16
0.79 0.09 0.13
Matches are distributed among these distances:
19 18 0.18
21 64 0.65
23 17 0.17
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:32838 original size:42 final size:42
Alignment explanation
Indices: 32787--32898 Score: 197
Period size: 42 Copynumber: 2.7 Consensus size: 42
32777 CATATTCGCA
* *
32787 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCTAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
32829 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
32871 TTGCGATAGTCCAAGTTCGCGTTGCGAT
1 TTGCGATAGTCCAAGTTCGCGTTGCGAT
32899 AGTCGAAGTT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:32856 original size:63 final size:60
Alignment explanation
Indices: 32781--32936 Score: 170
Period size: 63 Copynumber: 2.5 Consensus size: 60
32771 GATTTACATA
* * * *
32781 TTCGCATTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCTAAGTT-CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAATT--CGTTGCGA--TAGTCCAAGTTCCGTTGCGATAGTCGAAG
*
32844 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGA--TAGTCCAAATTCGTTGCGATAGTCCAAGTTC-CGTTGCGATAGTCGAAG
*
32907 TTCGCGTTGCGATTTATTCCAAATTCGTTG
1 TTCGCGTTGCGA--TAGTCCAAATTCGTTG
32937 ATATAGTCGA
Statistics
Matches: 84, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
61 9 0.11
63 66 0.79
65 9 0.11
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (60 bp):
TTCGCGTTGCGATAGTCCAAATTCGTTGCGATAGTCCAAGTTCCGTTGCGATAGTCGAAG
Found at i:32960 original size:63 final size:63
Alignment explanation
Indices: 32830--32960 Score: 192
Period size: 63 Copynumber: 2.1 Consensus size: 63
32820 CTAAGTTCGT
* * **
32830 TGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
1 TGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGAGATAGTCCAACTTCGCAA
* *
32893 TGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGATATAGT-CGACTATCGCAA
1 TGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGAGATAGTCCAACT-TCGCAA
32956 TGCGA
1 TGCGA
32961 ACTTAGACTA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
62 3 0.05
63 58 0.95
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (63 bp):
TGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGAGATAGTCCAACTTCGCAA
Found at i:33048 original size:62 final size:63
Alignment explanation
Indices: 32943--33077 Score: 204
Period size: 62 Copynumber: 2.2 Consensus size: 63
32933 GTTGATATAG
* *
32943 TCGACTATCGCAATGCGAACTTAGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAACT
1 TCGACTATCGCAATGCGAACTTAGACAATCGCAATGCGAACTTGGACTATCGCAACGCGAACT
*
33006 TGGACTATCGCAATGCGAA--TATGTA-AATCGCAATGCGAACTTGGACTATCGCAACGCGAACT
1 TCGACTATCGCAATGCGAACTTA-G-ACAATCGCAATGCGAACTTGGACTATCGCAACGCGAACT
33068 TCGACTATCG
1 TCGACTATCG
33078 TATTGCGATT
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
61 2 0.03
62 45 0.68
63 19 0.29
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (63 bp):
TCGACTATCGCAATGCGAACTTAGACAATCGCAATGCGAACTTGGACTATCGCAACGCGAACT
Found at i:33085 original size:21 final size:21
Alignment explanation
Indices: 32945--33077 Score: 198
Period size: 21 Copynumber: 6.4 Consensus size: 21
32935 TGATATAGTC
*
32945 GACTATCGCAATGCGAACTTA
1 GACTATCGCAATGCGAACTTG
32966 GACTATCGCAATGCGAACTTG
1 GACTATCGCAATGCGAACTTG
32987 GACTATCGCAATGCGAACTTG
1 GACTATCGCAATGCGAACTTG
33008 GACTATCGCAATGCGAA-TATG
1 GACTATCGCAATGCGAACT-TG
* *
33029 TA-AATCGCAATGCGAACTTG
1 GACTATCGCAATGCGAACTTG
* *
33049 GACTATCGCAACGCGAACTTC
1 GACTATCGCAATGCGAACTTG
33070 GACTATCG
1 GACTATCG
33078 TATTGCGATT
Statistics
Matches: 102, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
20 17 0.17
21 85 0.83
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (21 bp):
GACTATCGCAATGCGAACTTG
Found at i:33120 original size:21 final size:21
Alignment explanation
Indices: 33094--33147 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
33084 GATTTACATA
33094 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
33115 TTCGCATTACGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
33136 TTCGCGTTGCGA
1 TTCGCATTGCGA
33148 ATCTGGAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:33503 original size:20 final size:20
Alignment explanation
Indices: 33459--33759 Score: 230
Period size: 20 Copynumber: 14.9 Consensus size: 20
33449 AATGACCAAC
33459 AAAATCGCAACGCGATATC--
1 AAAATCGCAACGCGAT-TCAG
*
33478 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTCAG
* **
33498 AAAATCGCAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTCAG
33518 AAAATCGCAACG-G--TCAAAAG
1 AAAATCGCAACGCGATTC---AG
33538 AAAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
* * **
33560 AGAATCGCAATGCGAGCCA-
1 AAAATCGCAACGCGATTCAG
*
33579 AAGAATCGCAATGCGATCTTC-G
1 AA-AATCGCAACGCGA--TTCAG
*
33601 AAGAATCGCAATGCGATTCA-
1 AA-AATCGCAACGCGATTCAG
*
33621 AAGAATCGCAACGCGATTGAG
1 AA-AATCGCAACGCGATTCAG
33642 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
* *
33662 ATAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTCAG
*
33682 AAAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTCAG
33702 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
* *
33722 AGAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTCAG
*
33742 AAAATCGCAATGCGATTC
1 AAAATCGCAACGCGATTC
33760 CAAGAATCGC
Statistics
Matches: 235, Mismatches: 25, Indels: 43
0.78 0.08 0.14
Matches are distributed among these distances:
18 2 0.01
19 21 0.09
20 172 0.73
21 7 0.03
22 30 0.13
23 1 0.00
25 1 0.00
26 1 0.00
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.17
Consensus pattern (20 bp):
AAAATCGCAACGCGATTCAG
Found at i:33693 original size:60 final size:60
Alignment explanation
Indices: 33459--33758 Score: 283
Period size: 60 Copynumber: 5.0 Consensus size: 60
33449 AATGACCAAC
* * **
33459 AAAATCGCAACGCGATAT-CAA-AATCGCAACGCGATTTAGAAAATCGCAACGTTGA-AAAG
1 AAAATCGCAACGCGAT-TCCAAGAATCGCAACGCGATTGAGAAAATCGCAACG-CGATTGAG
* *** * ***
33518 AAAATCGCAACG-G--TCAAAAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGAGCCA-
1 AAAATCGCAACGCGATTC-CAAG--AATCGCAACGCGAT-TGAGAA-AATCGCAACGCGATTGAG
* * * *
33579 AAGAATCGCAATGCGATCTTCGAAGAATCGCAATGCGATTCA-AAGAATCGCAACGCGATTGAG
1 AA-AATCGCAACGCGA--TTCCAAGAATCGCAACGCGATTGAGAA-AATCGCAACGCGATTGAG
*
33642 AAAATCGCAACGCGATTCCAATAATCGCAACGCGATTGAGAAAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTGAGAAAATCGCAACGCGATTGAG
*
33702 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTGAGAAAATCGCAATGCGATT
1 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTGAGAAAATCGCAACGCGATT
33759 CCAAGAATCG
Statistics
Matches: 202, Mismatches: 23, Indels: 31
0.79 0.09 0.12
Matches are distributed among these distances:
55 1 0.00
57 2 0.01
58 1 0.00
59 12 0.06
60 107 0.53
61 10 0.05
62 47 0.23
63 4 0.02
64 13 0.06
66 3 0.01
67 2 0.01
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.17
Consensus pattern (60 bp):
AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTGAGAAAATCGCAACGCGATTGAG
Found at i:33894 original size:6 final size:6
Alignment explanation
Indices: 33883--33927 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
33873 GACACGTATT
33883 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
33928 CGAGACGAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:34680 original size:6 final size:6
Alignment explanation
Indices: 34671--34708 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
34661 CGCCGCCGCC
34671 GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GT
1 GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GT
34709 AATACGTGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.16, G:0.50, T:0.34
Consensus pattern (6 bp):
GTCGTG
Found at i:34844 original size:20 final size:20
Alignment explanation
Indices: 34819--34968 Score: 151
Period size: 20 Copynumber: 7.4 Consensus size: 20
34809 TTTTGCCGTT
*
34819 TTGCGATTCTTGGAATCGCG
1 TTGCGATTCTTTGAATCGCG
* * *
34839 TTGCGATT-TTCTCAATCTCA
1 TTGCGATTCTT-TGAATCGCG
* *
34859 TTGCGATTCCTGGAATCGCG
1 TTGCGATTCTTTGAATCGCG
* *
34879 TTGCGATTTTTTCAATCGCG
1 TTGCGATTCTTTGAATCGCG
*
34899 TTGCGATT-TTCTCAATCGCG
1 TTGCGATTCTT-TGAATCGCG
*
34919 TTGCGATTCTTTGAATCGCA
1 TTGCGATTCTTTGAATCGCG
*
34939 TTGCGATTCTTGGAAGATCGCG
1 TTGCGATTCTTTG-A-ATCGCG
34961 TTGCGATT
1 TTGCGATT
34969 TTCTTTTGAC
Statistics
Matches: 107, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
19 4 0.04
20 86 0.80
21 4 0.04
22 13 0.12
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.39
Consensus pattern (20 bp):
TTGCGATTCTTTGAATCGCG
Found at i:34866 original size:40 final size:40
Alignment explanation
Indices: 34819--34972 Score: 195
Period size: 40 Copynumber: 3.8 Consensus size: 40
34809 TTTTGCCGTT
*
34819 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCTCA
1 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
* * *
34859 TTGCGATTCCTGGAATCGCGTTGCGATTTTTTCAATCGCG
1 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
** *
34899 TTGCGATT-TTCTCAATCGCGTTGCGATTCTT-TGAATCGCA
1 TTGCGATTCTT-GGAATCGCGTTGCGATT-TTCTCAATCGCA
34939 TTGCGATTCTTGGAAGATCGCGTTGCGATTTTCT
1 TTGCGATTCTTGG-A-ATCGCGTTGCGATTTTCT
34973 TTTGACCGTT
Statistics
Matches: 97, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
39 1 0.01
40 74 0.76
41 7 0.07
42 15 0.15
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (40 bp):
TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
Found at i:34912 original size:60 final size:61
Alignment explanation
Indices: 34819--34972 Score: 213
Period size: 60 Copynumber: 2.5 Consensus size: 61
34809 TTTTGCCGTT
* *
34819 TTGCGATTCTTGG-AATCGCGTTGCGATTTTCTCAATCTCATTGCGATTCCTGGAATCGCG
1 TTGCGATTCTTGGAAATCGCGTTGCGATTTTCTCAATCGCATTGCGATTCCTGGAATCGCA
*** * * *
34879 TTGCGATT-TTTTCAATCGCGTTGCGATTTTCTCAATCGCGTTGCGATTCTTTGAATCGCA
1 TTGCGATTCTTGGAAATCGCGTTGCGATTTTCTCAATCGCATTGCGATTCCTGGAATCGCA
34939 TTGCGATTCTTGGAAGATCGCGTTGCGATTTTCT
1 TTGCGATTCTTGGAA-ATCGCGTTGCGATTTTCT
34973 TTTGACCGTT
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
59 2 0.02
60 58 0.72
61 3 0.04
62 18 0.22
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (61 bp):
TTGCGATTCTTGGAAATCGCGTTGCGATTTTCTCAATCGCATTGCGATTCCTGGAATCGCA
Found at i:34984 original size:20 final size:20
Alignment explanation
Indices: 34959--35012 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
34949 TGGAAGATCG
* *
34959 CGTTGCGATTTTCTTTTGAC
1 CGTTGCGATTTTCTTTTCAA
34979 CGTTGCGATTTTCTTTTCAA
1 CGTTGCGATTTTCTTTTCAA
*
34999 CATTGCGATTTTCT
1 CGTTGCGATTTTCT
35013 AAATCGCGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.13, C:0.20, G:0.17, T:0.50
Consensus pattern (20 bp):
CGTTGCGATTTTCTTTTCAA
Found at i:42183 original size:112 final size:112
Alignment explanation
Indices: 41980--42301 Score: 536
Period size: 112 Copynumber: 2.9 Consensus size: 112
41970 TTGTCGATTT
*
41980 GTGTTGATACTTTATAAAAATATATTGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
* *
42045 GGTCTATAAATTACAAAACAGGTAAAGCGCTACCTGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
* * * * * *
42092 GTGTCTATACTTTATAAAAATATATTGATTCATAATAATACAACATGTAAAAAAATAACAAAACC
1 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
42157 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
* *
42204 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAGGTAAAAAAATGACAAAAAC
1 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
*
42269 AGTCTATAAATGACAAAACAGGTAAAGCGCTAC
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTAC
42302 TGGATATTGT
Statistics
Matches: 193, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
112 193 1.00
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.26
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
Found at i:42585 original size:20 final size:20
Alignment explanation
Indices: 42556--42593 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
42546 TTTCAAAGTG
42556 ATGCACCGATGCACCAATAC
1 ATGCACCGATGCACCAATAC
*
42576 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
42594 TAATTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATAC
Found at i:42664 original size:45 final size:46
Alignment explanation
Indices: 42615--42703 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
42605 ACATCGAATG
*
42615 CATTTTATGCATCGATGCAC-ATACCATGCATCGATGCACTCAGTA
1 CATTTGATGCATCGATGCACAATACCATGCATCGATGCACTCAGTA
*
42660 CATTTGATGTATCGATGCACAATACCATGCATCGATGCACTCAG
1 CATTTGATGCATCGATGCACAATACCATGCATCGATGCACTCAG
42704 GCGTTTTCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 18 0.44
46 23 0.56
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (46 bp):
CATTTGATGCATCGATGCACAATACCATGCATCGATGCACTCAGTA
Found at i:50186 original size:21 final size:21
Alignment explanation
Indices: 50144--50188 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
50134 ACCCCGGGAG
*
50144 CTAGCTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* * *
50165 CTAGCTCTTCTCGTGTTCCTC
1 CTAGCTCTTCACGAGCTCCTC
50186 CTA
1 CTA
50189 CTCCTCCGGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.11, C:0.38, G:0.16, T:0.36
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:51170 original size:20 final size:20
Alignment explanation
Indices: 51141--51178 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
51131 TTTCAAAGTG
51141 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
51161 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
51179 TAATTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:51249 original size:45 final size:46
Alignment explanation
Indices: 51200--51288 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
51190 ACATCGAATG
*
51200 CATTTTATGCATCGATGCAC-ATACCATGCATCGATGCACTCAGTA
1 CATTTGATGCATCGATGCACAATACCATGCATCGATGCACTCAGTA
*
51245 CATTTGATGCATCGATGCACAATACCATGCATTGATGCACTCAG
1 CATTTGATGCATCGATGCACAATACCATGCATCGATGCACTCAG
51289 GCGTTTTCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 19 0.46
46 22 0.54
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (46 bp):
CATTTGATGCATCGATGCACAATACCATGCATCGATGCACTCAGTA
Found at i:52241 original size:112 final size:112
Alignment explanation
Indices: 52044--52294 Score: 457
Period size: 112 Copynumber: 2.2 Consensus size: 112
52034 TAACTCAATA
52044 GATATATTGAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAA
1 GATATATTGAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAA
*
52109 AATGAAAAAACCGGTCTATAAATGAGAAAACAGGTAAAGCGCTACCG
66 AATGAAAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCG
52156 GATATATTGAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAA
1 GATATATTGAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAA
*
52221 AATGACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCG
66 AATGAAAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCG
* * *
52268 GATATGTTGATAGTGTCAATACTTTAT
1 GATATATTGAAAGTGTCGATACTTTAT
52295 TATAAGTATC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
112 134 1.00
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.25
Consensus pattern (112 bp):
GATATATTGAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAA
AATGAAAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCG
Found at i:52474 original size:182 final size:182
Alignment explanation
Indices: 52165--52620 Score: 752
Period size: 182 Copynumber: 2.5 Consensus size: 182
52155 GGATATATTG
* *
52165 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAA
1 AAAGTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* * *
52230 ACCGGTCT-ATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGATAGTGTCAATACTTTA
66 ACCGGTCTCA-AAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGAAAGTGTCAATACTTTA
* *
52294 TTATAAGTATCGACACTTATGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
130 TTATAAGTATCGACACTTATGGAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
*
52347 AAAGTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
1 AAAGTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* * *
52412 ACCGGTCTCAAAATGAAAAAACCGGTAAAGAGCTATCGGATATGTTGAAAGTGTCGATACTTTAT
66 ACCGGTCTCAAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGAAAGTGTCAATACTTTAT
*
52477 TATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
131 TATAAGTATCGACACTTATGGAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
* *
52529 AAAGTGTCTATACTTTATAAAAATATATCGATACATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* *
52594 ATCGGTCTCCAAATGACAAAACCGGTA
66 ACCGGTCTCAAAATGACAAAACCGGTA
52621 GTAAAAAATT
Statistics
Matches: 255, Mismatches: 18, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
182 254 1.00
183 1 0.00
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (182 bp):
AAAGTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
ACCGGTCTCAAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGAAAGTGTCAATACTTTAT
TATAAGTATCGACACTTATGGAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
Found at i:53075 original size:23 final size:23
Alignment explanation
Indices: 53046--53093 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
53036 AAATAGGTCA
* *
53046 ATATAAGCGCTACCTATTACATT
1 ATATAAGCACTACCTAATACATT
*
53069 ATATAAGCACTACCTAATATATT
1 ATATAAGCACTACCTAATACATT
53092 AT
1 AT
53094 TGTACTTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.35
Consensus pattern (23 bp):
ATATAAGCACTACCTAATACATT
Found at i:56221 original size:50 final size:50
Alignment explanation
Indices: 56167--56261 Score: 127
Period size: 50 Copynumber: 1.9 Consensus size: 50
56157 GTTCCCTGCA
* * * * *
56167 CCGCGCTATATGCTGATTTGGCGCCACATGGGTATAGCGCGCCCCATGCC
1 CCGCGATATACGCTGATCTGACGCCACATGGGTATAACGCGCCCCATGCC
* *
56217 CCGCGATATACGGTGATCTGACGCCACGTGGGTATAACGCGCCCC
1 CCGCGATATACGCTGATCTGACGCCACATGGGTATAACGCGCCCC
56262 CTTATCCGCG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 38 1.00
ACGTcount: A:0.18, C:0.34, G:0.28, T:0.20
Consensus pattern (50 bp):
CCGCGATATACGCTGATCTGACGCCACATGGGTATAACGCGCCCCATGCC
Found at i:60187 original size:18 final size:18
Alignment explanation
Indices: 60161--60199 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
60151 ACTCCTTGCT
* *
60161 GTCATCATCGTCGTCGTC
1 GTCACCATCGTCATCGTC
60179 GTCACCATCGTCATCGTC
1 GTCACCATCGTCATCGTC
60197 GTC
1 GTC
60200 GTCCTGAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.13, C:0.36, G:0.21, T:0.31
Consensus pattern (18 bp):
GTCACCATCGTCATCGTC
Found at i:61194 original size:21 final size:21
Alignment explanation
Indices: 61168--61212 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
61158 GATTTCTGGG
* *
61168 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
61189 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
61210 CAA
1 CAA
61213 ACGACAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:61813 original size:18 final size:18
Alignment explanation
Indices: 61790--61824 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
61780 CTAGGAGATT
61790 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
61808 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
61825 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:61910 original size:21 final size:22
Alignment explanation
Indices: 61881--61924 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
61871 GTTGTATGAT
61881 AGAAAATTAT-GAAGTTATATG
1 AGAAAATTATAGAAGTTATATG
* *
61902 AGAAGATTATAGGAGTTATATG
1 AGAAAATTATAGAAGTTATATG
61924 A
1 A
61925 AATGGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (22 bp):
AGAAAATTATAGAAGTTATATG
Found at i:62823 original size:149 final size:149
Alignment explanation
Indices: 62642--62945 Score: 572
Period size: 149 Copynumber: 2.0 Consensus size: 149
62632 GAGTCGAGGG
62642 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
* *
62707 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
62772 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
* *
62791 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
62856 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
62921 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
62940 TCTACG
1 TCTACG
62946 GGGCACTTCG
Statistics
Matches: 151, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 151 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:62968 original size:23 final size:23
Alignment explanation
Indices: 62924--62968 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
62914 ATCATTATAT
*
62924 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
62947 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
62969 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:66128 original size:21 final size:21
Alignment explanation
Indices: 66102--66146 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
66092 GATTTCTGAG
* *
66102 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
66123 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
66144 CAA
1 CAA
66147 ACGACAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:66750 original size:18 final size:18
Alignment explanation
Indices: 66727--66761 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
66717 CTAGGAGATT
66727 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
66745 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
66762 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:66847 original size:21 final size:22
Alignment explanation
Indices: 66818--66861 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
66808 GTTGTATGAT
66818 AGAAAATTAT-GAAGTTATATG
1 AGAAAATTATAGAAGTTATATG
* *
66839 AGAAGATTATAGGAGTTATATG
1 AGAAAATTATAGAAGTTATATG
66861 A
1 A
66862 AATGGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (22 bp):
AGAAAATTATAGAAGTTATATG
Found at i:67757 original size:149 final size:149
Alignment explanation
Indices: 67576--67879 Score: 563
Period size: 149 Copynumber: 2.0 Consensus size: 149
67566 GAGTCGAGGG
*
67576 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTTTAGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
* *
67641 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
67706 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
* *
67725 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
67790 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
67855 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
67874 TCTACG
1 TCTACG
67880 GGGCACTTCG
Statistics
Matches: 150, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 150 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:67902 original size:23 final size:23
Alignment explanation
Indices: 67858--67902 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
67848 ATCATTATAT
*
67858 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
67881 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
67903 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:68633 original size:18 final size:18
Alignment explanation
Indices: 68607--68664 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
68597 AAAGGCGATG
* *
68607 GTGGTATCATATATGGAT
1 GTGGCATCATATATGGCT
68625 GTGGCATCATATATGGCT
1 GTGGCATCATATATGGCT
* *
68643 GCGACATCATATATGGCT
1 GTGGCATCATATATGGCT
68661 GTGG
1 GTGG
68665 TGGCTGCTGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (18 bp):
GTGGCATCATATATGGCT
Found at i:70296 original size:111 final size:111
Alignment explanation
Indices: 70159--70378 Score: 404
Period size: 111 Copynumber: 2.0 Consensus size: 111
70149 ATTACAAAAA
* * *
70159 TTAATTTTTAATCTAATAATCATGCATTAAATGAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
*
70224 AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTCGAGATGT
66 AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTAGAGATGT
70270 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
70335 AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTAGAGAT
66 AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTAGAGAT
70379 ATATGATTTT
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 105 1.00
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTAGAGATGT
Found at i:70719 original size:50 final size:49
Alignment explanation
Indices: 70665--70761 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 49
70655 AGATATCCAT
*
70665 GTATATCGCGGATCAGGGCGCACGCTATACCCACGTGACGCCAAATCACC
1 GTATATCGCAGA-CAGGGCGCACGCTATACCCACGTGACGCCAAATCACC
* * * * *
70715 GTATATCGTAGACAGGGGGCACGCTATACCTATGTGATGCCAAATCA
1 GTATATCGCAGACAGGGCGCACGCTATACCCACGTGACGCCAAATCA
70762 ACATATAACG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
49 31 0.76
50 10 0.24
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.20
Consensus pattern (49 bp):
GTATATCGCAGACAGGGCGCACGCTATACCCACGTGACGCCAAATCACC
Found at i:75833 original size:22 final size:22
Alignment explanation
Indices: 75762--75834 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
75752 TATCTAATTT
*
75762 GTAGTAAAAAATAATATTTTAG
1 GTAGAAAAAAATAATATTTTAG
* * * *
75784 GTA-ACACCCAATATTAACATTTTCG
1 GTAGA-A---AAAAATAATATTTTAG
75809 GTAGAAAAAAATAATATTTTAG
1 GTAGAAAAAAATAATATTTTAG
75831 GTAG
1 GTAG
75835 CGTTTTATGG
Statistics
Matches: 37, Mismatches: 9, Indels: 10
0.66 0.16 0.18
Matches are distributed among these distances:
22 20 0.54
25 16 0.43
26 1 0.03
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (22 bp):
GTAGAAAAAAATAATATTTTAG
Found at i:75862 original size:80 final size:80
Alignment explanation
Indices: 75777--75935 Score: 241
Period size: 80 Copynumber: 2.0 Consensus size: 80
75767 AAAAAATAAT
*
75777 ATTTTAGGTAACACCCAATATTAACATTT-TCGGTAGAAAAAAATAATATTTTAGGTAGCGTTTT
1 ATTTTAGGTAACACCCAATATTAACATTTCT-GGTAGAAAAAAATAATATTTTAGGTAGCGCTTT
*
75841 A-TGGAAAATGTTAAAC
65 ACT-GAAAATATTAAAC
* * *
75857 ATTTTAGGTAGCGCCTAATATTAACATTTCTGGTAGAAAAAAATAATATTTTAGGTAGCGCTTTA
1 ATTTTAGGTAACACCCAATATTAACATTTCTGGTAGAAAAAAATAATATTTTAGGTAGCGCTTTA
75922 CTGAAAATATTAAA
66 CTGAAAATATTAAA
75936 AAAAATATTA
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
80 70 0.97
81 2 0.03
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (80 bp):
ATTTTAGGTAACACCCAATATTAACATTTCTGGTAGAAAAAAATAATATTTTAGGTAGCGCTTTA
CTGAAAATATTAAAC
Found at i:81102 original size:42 final size:42
Alignment explanation
Indices: 81043--81122 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
81033 CCTTTTTCAT
81043 TAAGCATCTCACAAAGAAGTGCTTCCATTAACTAAAGTCTAC
1 TAAGCATCTCACAAAGAAGTGCTTCCATTAACTAAAGTCTAC
81085 TAAGCATC-CTACAAAGAAGTGCTTCCATTAACTAAAGT
1 TAAGCATCTC-ACAAAGAAGTGCTTCCATTAACTAAAGT
81123 GTCTGTTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
41 1 0.03
42 36 0.97
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.26
Consensus pattern (42 bp):
TAAGCATCTCACAAAGAAGTGCTTCCATTAACTAAAGTCTAC
Found at i:88332 original size:16 final size:16
Alignment explanation
Indices: 88311--88341 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
88301 TCCACTGGTT
88311 ATATTCAATCCATCTC
1 ATATTCAATCCATCTC
*
88327 ATATTCAGTCCATCT
1 ATATTCAATCCATCT
88342 ATGTATAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.39
Consensus pattern (16 bp):
ATATTCAATCCATCTC
Found at i:90058 original size:32 final size:33
Alignment explanation
Indices: 89999--90068 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 33
89989 ATACTTTAGC
*
89999 CCCCTCCTAAAAATTAATTATTTTTATATTTGAA
1 CCCCTCCTAAAAATTAATTAGTTTTATA-TTGAA
* *
90033 CCCCTCC-AAAAATTTA-TAGTTTTATATTGGA
1 CCCCTCCTAAAAATTAATTAGTTTTATATTGAA
90064 CCCCT
1 CCCCT
90069 ACACTAAGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 9 0.27
32 9 0.27
33 8 0.24
34 7 0.21
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (33 bp):
CCCCTCCTAAAAATTAATTAGTTTTATATTGAA
Found at i:91095 original size:15 final size:15
Alignment explanation
Indices: 91077--91107 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
91067 TGAACGATCG
91077 ATTAATTAAATTTTA
1 ATTAATTAAATTTTA
*
91092 ATTAATTTAATTTTA
1 ATTAATTAAATTTTA
91107 A
1 A
91108 CGGAACAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTAATTAAATTTTA
Found at i:91269 original size:2 final size:2
Alignment explanation
Indices: 91256--91292 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
91246 AAGCTCCATG
*
91256 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
91293 GATCTAACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:95735 original size:14 final size:14
Alignment explanation
Indices: 95716--95747 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
95706 CTAGCATTTC
95716 TCATTACAATCCAA
1 TCATTACAATCCAA
95730 TCATTACAATCCAA
1 TCATTACAATCCAA
95744 TCAT
1 TCAT
95748 AATCGGATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.28, G:0.00, T:0.31
Consensus pattern (14 bp):
TCATTACAATCCAA
Found at i:97534 original size:23 final size:23
Alignment explanation
Indices: 97508--97554 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
97498 GAATAGAGTA
97508 ATCTGGGTTGGAATGATCACCCC
1 ATCTGGGTTGGAATGATCACCCC
97531 ATCTGGGTTGGAATGATCACCCC
1 ATCTGGGTTGGAATGATCACCCC
97554 A
1 A
97555 AATGAACCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
ATCTGGGTTGGAATGATCACCCC
Found at i:102853 original size:2 final size:2
Alignment explanation
Indices: 102846--102884 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
102836 TCAAATTCTT
102846 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
102885 GGATAAACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:107785 original size:30 final size:30
Alignment explanation
Indices: 107749--107811 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
107739 TGATCGTTCT
* *
107749 ATTTATCAATTGTAACAATCAAATCACTTA
1 ATTTATCAATTATAACAATCAAATCACTCA
* *
107779 ATTTATCAATTATAATAATCATATCACTCA
1 ATTTATCAATTATAACAATCAAATCACTCA
107809 ATT
1 ATT
107812 ACAACTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.43, C:0.16, G:0.02, T:0.40
Consensus pattern (30 bp):
ATTTATCAATTATAACAATCAAATCACTCA
Found at i:109500 original size:21 final size:20
Alignment explanation
Indices: 109414--109570 Score: 93
Period size: 20 Copynumber: 7.8 Consensus size: 20
109404 AAATGACCAA
**
109414 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
109433 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
109453 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
109473 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * **
109494 GAAAATCGCAATGCGATAGT
1 CAAAATCGCAACGCGATTTT
* **
109514 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
109534 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
109555 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
109571 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 9
0.73 0.20 0.06
Matches are distributed among these distances:
19 16 0.15
20 56 0.54
21 32 0.31
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:109523 original size:41 final size:41
Alignment explanation
Indices: 109414--109570 Score: 126
Period size: 41 Copynumber: 3.9 Consensus size: 41
109404 AAATGACCAA
* **
109414 CAAAATCGCAACGCGAA-ATAAAAATCGCAACGCGA-TCCC
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
* ** * *
109453 CAGAATCGCAAATC-AGTTTCCAAAATCGCAACGCGATTCTT-
1 CAAAATCGCAACGCGAATAT-CAAAATCGCAACGCGATT-TTC
* * * **
109494 GAAAATCGCAATGCG-ATAGTCAAATTCGCATTGCGATTTTC
1 CAAAATCGCAACGCGAATA-TCAAAATCGCAACGCGATTTTC
*
109535 CAAAATCGCAACGCGAATATGAAAATCGCAACGCGA
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGA
109571 ACACATAAAT
Statistics
Matches: 87, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
38 1 0.01
39 12 0.14
40 17 0.20
41 53 0.61
42 4 0.05
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.19
Consensus pattern (41 bp):
CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
Found at i:109580 original size:20 final size:20
Alignment explanation
Indices: 109557--109730 Score: 118
Period size: 20 Copynumber: 8.7 Consensus size: 20
109547 GCGAATATGA
109557 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTAAC-CAT
* * *
109577 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
109597 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAACCAT
****
109617 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTAACCAT
* * *
109637 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * **
109657 ATATCGCAACGCGTATCGGT
1 AAATCGCAACGCGTAACCAT
* *
109677 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGTAA-CCAT
* *
109697 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTAACCAT
109718 AAATCGCAACGCG
1 AAATCGCAACGCG
109731 ATATTTAAAG
Statistics
Matches: 126, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
19 2 0.02
20 107 0.85
21 15 0.12
22 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTAACCAT
Found at i:109601 original size:40 final size:39
Alignment explanation
Indices: 109537--109731 Score: 183
Period size: 40 Copynumber: 4.9 Consensus size: 39
109527 CGATTTTCCA
* ** *
109537 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CAT
* * * *
109577 AAATCGCAATGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCAT
** * * *
109617 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCAT
* * ** *
109657 ATATCGCAACGCGTATCGGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CCAT
109697 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
109732 TATTTAAAGC
Statistics
Matches: 127, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 94 0.74
41 32 0.25
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (39 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACCAT
Found at i:109622 original size:60 final size:60
Alignment explanation
Indices: 109537--109730 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
109527 CGATTTTCCA
* ** * *
109537 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
* * ***
109597 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
* * ** *
109657 ATATCGCAACGCGTATCGGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAATGCGTATCCGT
109718 AAATCGCAACGCG
1 AAATCGCAACGCG
109731 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
Found at i:110153 original size:33 final size:33
Alignment explanation
Indices: 110114--110184 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
110104 TTCACTTAGA
110114 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
110147 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
110180 TTTCA
1 TTTCA
110185 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:110320 original size:19 final size:20
Alignment explanation
Indices: 110263--110337 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
110253 TGCAGAAGAG
* *
110263 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGACAA
**
110284 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGACAA
*
110304 TCGCAACGCGA-AATGACAA
1 TCGCAACGAGAGAATGACAA
110323 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
110338 CGCAACGCGA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
19 16 0.36
20 18 0.40
21 11 0.24
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.13
Consensus pattern (20 bp):
TCGCAACGAGAGAATGACAA
Found at i:110340 original size:14 final size:14
Alignment explanation
Indices: 110321--110377 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
110311 GCGAAATGAC
110321 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
110335 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
110354 AATCGCAACGAGAG
1 AATCGCAACGAGAG
110368 AATCGCAACG
1 AATCGCAACG
110378 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:110346 original size:33 final size:33
Alignment explanation
Indices: 110275--110393 Score: 157
Period size: 33 Copynumber: 3.4 Consensus size: 33
110265 GCAACGAGAT
110275 AAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGCG
1 AAATGAAAATCGCAACGAGAG-A--A---TCGCAACGCG
*
110314 AAATGACAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
110347 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
110380 AAACCAAAATCGCA
1 AAATGAAAATCGCA
110394 TTGCGATTTT
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
33 54 0.71
36 1 0.01
38 1 0.01
39 20 0.26
ACGTcount: A:0.45, C:0.23, G:0.23, T:0.10
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:110359 original size:19 final size:19
Alignment explanation
Indices: 110275--110363 Score: 80
Period size: 19 Copynumber: 4.9 Consensus size: 19
110265 GCAACGAGAT
*
110275 AAATGAAAATCGCAACGAG
1 AAATGAAAATCGCAACGCG
***
110294 AGAATGACTGTCGCAACGCG
1 A-AATGAAAATCGCAACGCG
*
110314 AAATGACAATCGCAA--CG
1 AAATGAAAATCGCAACGCG
*
110331 --A-GAGAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
110347 AAATGAAAATCGCAACG
1 AAATGAAAATCGCAACG
110364 AGAGAATCGC
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 25 0.45
20 15 0.27
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.11
Consensus pattern (19 bp):
AAATGAAAATCGCAACGCG
Found at i:110430 original size:14 final size:14
Alignment explanation
Indices: 110411--110500 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
110401 TTTTATTTCG
110411 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
110425 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
110444 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
110458 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
110477 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
110491 CGTTGCGATT
1 CGTTGCGATT
110501 TCATTTCAAC
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 1 0.02
16 5 0.08
17 5 0.08
18 1 0.02
19 20 0.32
ACGTcount: A:0.09, C:0.24, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:110436 original size:33 final size:33
Alignment explanation
Indices: 110394--110507 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
110384 CAAAATCGCA
*
110394 TTGCGATTTTTATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
110427 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
110460 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
110493 TTGCGA-TTTCATTTC
1 TTGCGATTTTCATTTC
110508 AACCAAAATA
Statistics
Matches: 78, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
32 8 0.10
33 70 0.90
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:110449 original size:19 final size:19
Alignment explanation
Indices: 110389--110486 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
110379 GAAACCAAAA
* *
110389 TCGCATTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
110408 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
110422 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
110441 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
110455 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
110474 TCGCGTTGCGATT
1 TCGCGTTGCGATT
110487 CTCTCGTTGC
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 5 0.08
19 32 0.52
ACGTcount: A:0.10, C:0.22, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:112505 original size:93 final size:93
Alignment explanation
Indices: 112200--112662 Score: 841
Period size: 93 Copynumber: 5.1 Consensus size: 93
112190 TAGATTGCTT
*
112200 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
112265 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
112293 AGTAAATTTGTTCGGTTGCTGCCAA-TCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
112357 -TTGTCTTTGTTTTGTC-TTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
112383 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTCAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
112448 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
112476 AGTAAATTTGTTCGGTTTCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
112541 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
112569 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTTTGTATTCTTTAACA-TGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
112633 TTTGTCTTTG-TTTGTC-TTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
112658 AGTAA
1 AGTAA
112663 TGCAATCCAT
Statistics
Matches: 361, Mismatches: 6, Indels: 10
0.96 0.02 0.03
Matches are distributed among these distances:
89 6 0.02
90 43 0.12
91 60 0.17
92 77 0.21
93 175 0.48
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:112655 original size:183 final size:183
Alignment explanation
Indices: 112200--112662 Score: 835
Period size: 183 Copynumber: 2.5 Consensus size: 183
112190 TAGATTGCTT
*
112200 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
112265 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATCTGCTAAACTG
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATCTGCTAAACTG
112330 TGTATTCTTTAACACTGTGAAATAGTATTGTCTTTGTTTTGTCTTTGGTTGAA
131 TGTATTCTTTAACACTGTGAAATAGTATTGTCTTTGTTTTGTCTTTGGTTGAA
*
112383 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTCAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
112448 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTTCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAA-TCTGCTAAACT
112513 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
130 GTGTATTCTTTAACACTGTGAAATAGTA-TTGTCTTTGTTTTGTC-TTTGGTTGAA
*
112569 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTTTGTATTCTTTAACA-TGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
112633 TTTGTCTTTG-TTTGTC-TTTGGTTG-AAGTAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAA
112663 TGCAATCCAT
Statistics
Matches: 272, Mismatches: 5, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
182 6 0.02
183 123 0.45
184 45 0.17
185 38 0.14
186 60 0.22
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (183 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATCTGCTAAACTG
TGTATTCTTTAACACTGTGAAATAGTATTGTCTTTGTTTTGTCTTTGGTTGAA
Found at i:112750 original size:19 final size:19
Alignment explanation
Indices: 112710--112838 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
112700 TAGTTTACTT
* *
112710 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
112730 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
112749 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
112768 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
112782 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
112801 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
112815 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
112834 TCGCA
1 TCGCA
112839 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:112789 original size:33 final size:32
Alignment explanation
Indices: 112746--112838 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
112736 CGCGAAACCA
**
112746 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
112778 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
112811 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
112839 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:112836 original size:52 final size:52
Alignment explanation
Indices: 112710--112838 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
112700 TAGTTTACTT
**
112710 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
112762 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
112815 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
112839 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:112856 original size:19 final size:18
Alignment explanation
Indices: 112834--112952 Score: 101
Period size: 19 Copynumber: 6.8 Consensus size: 18
112824 GAAACCAAAA
*
112834 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTC-TT
112853 TCGCGTTGCGA--TTCTT
1 TCGCGTTGCGATTTTCTT
*
112869 T--CGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTT-CTT
*
112886 TCGCGTTGCGA--TTCTG
1 TCGCGTTGCGATTTTCTT
112902 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTC-TT
*
112919 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTT-CTT
*
112938 TCACGTTGCGATTTT
1 TCGCGTTGCGATTTT
112953 AAGTTTCGTG
Statistics
Matches: 82, Mismatches: 7, Indels: 22
0.74 0.06 0.20
Matches are distributed among these distances:
14 16 0.20
16 10 0.12
17 10 0.12
19 46 0.56
ACGTcount: A:0.09, C:0.19, G:0.24, T:0.47
Consensus pattern (18 bp):
TCGCGTTGCGATTTTCTT
Found at i:112875 original size:14 final size:14
Alignment explanation
Indices: 112856--112912 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
112846 TTTCATTTCG
112856 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
*
112870 CGTTGCGATTTTGGTTT
1 CGTTGCGA--TT-CTTT
*
112887 CGCGTTGCGATTCTGT
1 --CGTTGCGATTCTTT
112903 CGTTGCGATT
1 CGTTGCGATT
112913 TTCATTTCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 18 0.51
16 4 0.11
17 5 0.14
19 8 0.23
ACGTcount: A:0.07, C:0.19, G:0.28, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:112881 original size:33 final size:33
Alignment explanation
Indices: 112839--112931 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
112829 CAAAATCGCA
*
112839 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
**
112872 TTGCGATTTTGGTTTCGCGTTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
112905 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
112932 TTGGTTTCAC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.09, C:0.19, G:0.25, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:112965 original size:20 final size:19
Alignment explanation
Indices: 112834--112968 Score: 96
Period size: 19 Copynumber: 7.6 Consensus size: 19
112824 GAAACCAAAA
*
112834 TCGCATTGCGATTTTCA-TT
1 TCGCGTTGCGATTTT-AGTT
*
112853 TCGCGTTGCGA--TT-CTT
1 TCGCGTTGCGATTTTAGTT
*
112869 T--CGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTAGTT
*
112886 TCGCGTTGCGATTCT-G--
1 TCGCGTTGCGATTTTAGTT
112902 T--CGTTGCGATTTTCA-TT
1 TCGCGTTGCGATTTT-AGTT
*
112919 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTAGTT
*
112938 TCACGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTT-AGTT
*
112958 TCGTGTTGCGA
1 TCGCGTTGCGA
112969 AAGTAAACTA
Statistics
Matches: 93, Mismatches: 9, Indels: 27
0.72 0.07 0.21
Matches are distributed among these distances:
14 19 0.20
16 6 0.06
17 6 0.06
18 1 0.01
19 49 0.53
20 12 0.13
ACGTcount: A:0.10, C:0.19, G:0.25, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTAGTT
Found at i:114906 original size:14 final size:13
Alignment explanation
Indices: 114887--114924 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
114877 ATTGTTTAAT
114887 TGATTTGTAAAAG
1 TGATTTGTAAAAG
114900 ATGATTTGTAAAAG
1 -TGATTTGTAAAAG
114914 TGATTGTGTAA
1 TGATT-TGTAA
114925 TTGATGCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 5 0.22
14 18 0.78
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (13 bp):
TGATTTGTAAAAG
Found at i:115042 original size:19 final size:19
Alignment explanation
Indices: 115026--115127 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
115016 AAAAATGACT
115026 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
115045 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
115064 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
115078 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
115097 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
115117 ATCGCAATGCG
1 ATCGCAATGCG
115128 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:115180 original size:19 final size:19
Alignment explanation
Indices: 115156--115448 Score: 401
Period size: 19 Copynumber: 16.4 Consensus size: 19
115146 GATTCTCTCG
115156 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
115175 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
115189 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
115208 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
115227 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
115246 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
115265 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
115284 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
115303 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
115322 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
115336 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
115355 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
115374 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
115388 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
115408 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
115422 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
115441 TTGCGATT
1 TTGCGATT
115449 GTAATTTCCG
Statistics
Matches: 247, Mismatches: 6, Indels: 42
0.84 0.02 0.14
Matches are distributed among these distances:
14 29 0.12
16 24 0.10
17 21 0.09
18 3 0.01
19 158 0.64
20 12 0.05
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:117932 original size:20 final size:20
Alignment explanation
Indices: 117904--118113 Score: 215
Period size: 20 Copynumber: 10.5 Consensus size: 20
117894 AAATTTCAGT
* * *
117904 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
117924 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
117944 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
117964 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
117984 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* **
118004 GTTGCGATATACGGAAACGC
1 GTTGCGATTTACGGATTCGC
* *
118024 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
118044 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
118064 ATTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
118084 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
118104 GTTGCGATTT
1 GTTGCGATTT
118114 TGGAAAATCG
Statistics
Matches: 164, Mismatches: 24, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
20 163 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:118130 original size:21 final size:20
Alignment explanation
Indices: 118080--118177 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
118070 ATTTATGTGT
* * * *
118080 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
*
118100 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTT-GAAAA
* * **
118121 TCGCAATGCGAATTTGACTA
1 TCGCATTGCGATTTTGAAAA
*
118141 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAA-AA
*
118162 TCGCGTTGCGATTTTG
1 TCGCATTGCGATTTTG
118178 GACACTGATT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 32 0.52
21 29 0.48
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTTGAAAA
Found at i:118172 original size:41 final size:41
Alignment explanation
Indices: 118080--118236 Score: 110
Period size: 41 Copynumber: 3.9 Consensus size: 41
118070 ATTTATGTGT
* * *
118080 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
** *
118121 TCGCAATGCGAATTTGACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGATTTTGA-TATTCGCATTGCGATTTTGCAA-AA
* * * ***
118162 TCGCGTTGCGATTTTGGACACT-G-ATTTGCGATTCTG-GGGA
1 TCGCGTTGCGATTTT-GATATTCGCA-TTGCGATTTTGCAAAA
* *
118202 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTG
118237 TTGGTCATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
38 1 0.01
39 12 0.13
40 19 0.21
41 52 0.58
42 5 0.06
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
Found at i:119140 original size:26 final size:26
Alignment explanation
Indices: 119105--119172 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 26
119095 AGTTCAAGCC
*
119105 TTTTCGAGTTCAAGTTTCAATATTATA
1 TTTT-GAGTTCGAGTTTCAATATTATA
* *
119132 TTTTGAGTTTGGGTTTCAATATTATA
1 TTTTGAGTTCGAGTTTCAATATTATA
119158 TTTTGAGTTCGAGTT
1 TTTTGAGTTCGAGTT
119173 GAACTTGATA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 32 0.89
27 4 0.11
ACGTcount: A:0.24, C:0.07, G:0.18, T:0.51
Consensus pattern (26 bp):
TTTTGAGTTCGAGTTTCAATATTATA
Found at i:119434 original size:28 final size:28
Alignment explanation
Indices: 119403--119465 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
119393 AACCGGTGTA
*
119403 GATTGAACCGGACTAGGCAACGGTTCCC
1 GATTGAACCGGACTAGACAACGGTTCCC
* * *
119431 GATTGAATCGGACTATACAGCGGTTCCC
1 GATTGAACCGGACTAGACAACGGTTCCC
119459 GATTGAA
1 GATTGAA
119466 GCGGTCGATC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (28 bp):
GATTGAACCGGACTAGACAACGGTTCCC
Found at i:120113 original size:20 final size:20
Alignment explanation
Indices: 120019--120387 Score: 451
Period size: 20 Copynumber: 18.4 Consensus size: 20
120009 GATTTTCCAT
* ** *
120019 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
120039 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
120059 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
120079 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
120099 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
120119 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
120139 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
120159 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
120179 AA-CTGCAACGTGTATCCGTA
1 AATC-GCAACGCGTATCCGTA
120199 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
120219 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
120239 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
120259 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
120279 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
120299 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
120319 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
120339 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
120359 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
120379 AATCACAAC
1 AATCGCAAC
120388 ACTTAAATTT
Statistics
Matches: 305, Mismatches: 34, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
19 4 0.01
20 297 0.97
21 4 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:120510 original size:21 final size:21
Alignment explanation
Indices: 120475--120514 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
120465 CTCTCTCCGG
120475 CGACATCCGTTCCTATATCCAA
1 CGACATCCGTTCCTA-ATCCAA
120497 CGACATCC-TTCCTAATCC
1 CGACATCCGTTCCTAATCC
120515 GGCAACAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 6 0.33
22 8 0.44
ACGTcount: A:0.25, C:0.40, G:0.07, T:0.28
Consensus pattern (21 bp):
CGACATCCGTTCCTAATCCAA
Found at i:121109 original size:24 final size:24
Alignment explanation
Indices: 121070--121116 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
121060 AAATTTGGTC
121070 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
121094 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
121117 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:121308 original size:12 final size:12
Alignment explanation
Indices: 121291--121315 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
121281 ATATAATCCT
121291 GAAGAAGAAAAA
1 GAAGAAGAAAAA
121303 GAAGAAGAAAAA
1 GAAGAAGAAAAA
121315 G
1 G
121316 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:123616 original size:19 final size:19
Alignment explanation
Indices: 123594--123886 Score: 392
Period size: 19 Copynumber: 16.4 Consensus size: 19
123584 CGGAAAATAC
*
123594 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
123613 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
123627 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
123647 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
123661 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
123680 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
123699 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
123713 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
123732 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
123751 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
123770 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
123789 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
123808 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
123827 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
123841 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
123860 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
123879 AATCGCAA
1 AATCGCAA
123887 CGAGATAATC
Statistics
Matches: 245, Mismatches: 8, Indels: 42
0.83 0.03 0.14
Matches are distributed among these distances:
14 38 0.16
15 1 0.00
16 14 0.06
17 12 0.05
18 2 0.01
19 165 0.67
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:123709 original size:52 final size:55
Alignment explanation
Indices: 123622--123908 Score: 356
Period size: 52 Copynumber: 5.4 Consensus size: 55
123612 AAATCCCAAC
*
123622 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA-CG-A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
123675 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGACA-G--AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGA-ATGAAAATCGCAATGCGAA
*
123727 ATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
123784 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
123839 A-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
*
123889 A-GATAATCGCAATGCGAAAT
1 ATGAAAATCGCAATGCGAAAT
123909 TATAAACGCA
Statistics
Matches: 222, Mismatches: 2, Indels: 21
0.91 0.01 0.09
Matches are distributed among these distances:
50 2 0.01
52 127 0.57
53 16 0.07
54 6 0.03
55 7 0.03
57 64 0.29
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (55 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
Found at i:123805 original size:128 final size:128
Alignment explanation
Indices: 123594--123908 Score: 462
Period size: 128 Copynumber: 2.6 Consensus size: 128
123584 CGGAAAATAC
* *
123594 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCA
* *
123654 A--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAG
65 ATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAG
*
123713 AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
123778 TGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAG
66 TGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAG
*
123841 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GATAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
123901 TGCGAAAT
66 TGCGAAAT
123909 TATAAACGCA
Statistics
Matches: 179, Mismatches: 7, Indels: 16
0.89 0.03 0.08
Matches are distributed among these distances:
119 24 0.13
121 1 0.01
123 34 0.19
124 17 0.09
125 2 0.01
126 2 0.01
127 1 0.01
128 98 0.55
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.15
Consensus pattern (128 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
TGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAG
Found at i:124024 original size:19 final size:19
Alignment explanation
Indices: 123915--124016 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
123905 AAATTATAAA
123915 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
123934 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
123954 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
123970 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
123987 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
124006 CGCATTGCGAT
1 CGCATTGCGAT
124017 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:124142 original size:14 final size:14
Alignment explanation
Indices: 124123--124159 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
124113 CATCAATTAC
124123 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
124137 ACAAATCATCTTTT
1 ACAAATCAACTTTT
124151 ACAAATCAA
1 ACAAATCAA
124160 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:124242 original size:12 final size:12
Alignment explanation
Indices: 124225--124260 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
124215 CAACTTTACA
124225 AATCAATTAAAC
1 AATCAATTAAAC
**
124237 AATCAAAAAAAC
1 AATCAATTAAAC
124249 AATCAATTAAAC
1 AATCAATTAAAC
124261 TATTGAATCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.64, C:0.17, G:0.00, T:0.19
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:126129 original size:14 final size:14
Alignment explanation
Indices: 126110--126166 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
126100 GCGAAATGAA
*
126110 AATCGCAACGACAG
1 AATCGCAACGAAAG
126124 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
126141 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
126157 AATCGCAACG
1 AATCGCAACG
126167 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:126137 original size:33 final size:33
Alignment explanation
Indices: 126091--126183 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
126081 GCGAAACCAA
*
126091 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
126124 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
126157 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
126184 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:126148 original size:19 final size:19
Alignment explanation
Indices: 126054--126188 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
126044 TAGTTTACTT
* *
126054 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
126074 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
126093 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
126112 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
126126 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
126145 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
126159 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
126178 TCGCAATGCGA
1 TCGCAACGCGA
126189 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:126206 original size:19 final size:19
Alignment explanation
Indices: 126184--126312 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
126174 AAAATCGCAA
126184 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
126203 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
126217 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
126236 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
126250 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
126269 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
126288 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
126308 TGCGA
1 TGCGA
126313 AAGTAAATTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:126226 original size:33 final size:33
Alignment explanation
Indices: 126184--126275 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
126174 AAAATCGCAA
126184 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
126217 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
126250 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
126276 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:126644 original size:93 final size:93
Alignment explanation
Indices: 126353--126824 Score: 903
Period size: 93 Copynumber: 5.1 Consensus size: 93
126343 TTGAATGGAT
126353 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
126418 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
126446 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
126510 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
126538 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
126603 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
126631 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATATAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
126695 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
126723 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAATGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
126788 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
126816 AAATTTACT
1 AAATTTACT
126825 AAGCAATCTA
Statistics
Matches: 373, Mismatches: 4, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
92 183 0.49
93 190 0.51
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:126665 original size:185 final size:185
Alignment explanation
Indices: 126353--126824 Score: 917
Period size: 185 Copynumber: 2.6 Consensus size: 185
126343 TTGAATGGAT
126353 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
126418 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
126483 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
126538 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
126603 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
126668 TATATTTCACAGTGTTAAAGAATATACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
*
126723 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAATGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
126788 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
126825 AAGCAATCTA
Statistics
Matches: 284, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
185 284 1.00
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.22
Consensus pattern (185 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:128561 original size:33 final size:33
Alignment explanation
Indices: 128516--128629 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
128506 TCTTTTGGTT
128516 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
128549 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
128582 GAAATG-AAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
128614 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
128630 TGCGATTTTG
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
32 31 0.41
33 45 0.59
ACGTcount: A:0.45, C:0.21, G:0.25, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:128562 original size:19 final size:18
Alignment explanation
Indices: 128523--128634 Score: 95
Period size: 14 Copynumber: 6.8 Consensus size: 18
128513 GTTGAAATGA
128523 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
128538 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
128555 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
128571 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
128588 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
*
128603 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
128620 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
128635 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 24
0.74 0.04 0.22
Matches are distributed among these distances:
14 24 0.30
15 1 0.01
16 18 0.23
17 8 0.10
18 8 0.10
19 20 0.25
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:128665 original size:14 final size:14
Alignment explanation
Indices: 128646--128700 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
128636 TTTGGTTTCG
128646 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
128660 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
128679 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
128693 CGTTGCGA
1 CGTTGCGA
128701 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Done.