Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008647.1 Hibiscus syriacus cultivar Beakdansim tig00111634_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: 1422586
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 8
Found at i:583649 original size:20 final size:19
Alignment explanation
Indices: 583626--583672 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
583616 CGATATAACA
583626 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
583646 GGTACCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
583666 GGTAAAA
1 GGTAAAA
583673 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.13, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:583674 original size:17 final size:18
Alignment explanation
Indices: 583635--583677 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
583625 AGGTAAAAAT
583635 ATGATAAAACCGGTACCAAA
1 ATGATAAAACCGGT--CAAA
583655 ATGATAAAACCGGT-AAA
1 ATGATAAAACCGGTCAAA
583672 ATGATA
1 ATGATA
583678 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
20 14 0.61
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (18 bp):
ATGATAAAACCGGTCAAA
Found at i:585818 original size:21 final size:21
Alignment explanation
Indices: 585794--585837 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
585784 AAGACAATCA
*
585794 AGAGTTGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
585815 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
585836 AG
1 AG
585838 GCATAAGGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.09, G:0.32, T:0.18
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:587749 original size:19 final size:19
Alignment explanation
Indices: 587725--587773 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
587715 AATGTAGGGT
587725 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
587744 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
587763 TATTTTTGTAT
1 TAATTTTGTAT
587774 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:588499 original size:197 final size:198
Alignment explanation
Indices: 587892--588659 Score: 1416
Period size: 197 Copynumber: 3.9 Consensus size: 198
587882 CAATATGGCC
* * *
587892 AACAGGGTGCAACCATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
587957 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* *
588022 GAATATGTCTAAATAATGTGTCGACACTTTTTACTTTGTGTCGATATTTTTGGTCCAGAATGAAG
130 GAATATGTCTAAATAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAAG
588087 TGAA
195 TGAA
*
588091 AACAGGGTGCACCCATAAAGTGTCGATCTATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
588156 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
588221 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAAGT
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAAGT
588286 GAA
196 GAA
* *
588289 AACAGGGTGCACCCATAAAATGTCGATCCATATATAAAAAGTGTCGATCCTAAAAACATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
588354 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
588418 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAA-T
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAAGT
588482 GGAA
196 -GAA
588486 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
588551 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTA-AAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
*
588615 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTGGTGTCGATA
588660 CTAATTTAAA
Statistics
Matches: 555, Mismatches: 12, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
196 1 0.00
197 259 0.47
198 237 0.43
199 58 0.10
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.30
Consensus pattern (198 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAAGT
GAA
Found at i:590149 original size:6 final size:6
Alignment explanation
Indices: 590125--590216 Score: 76
Period size: 6 Copynumber: 15.3 Consensus size: 6
590115 AGCGGTCGCA
* * * * * *
590125 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* * * * * *
590173 GACGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
590217 TGATCCAAAC
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 70 1.00
ACGTcount: A:0.38, C:0.08, G:0.34, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:590175 original size:36 final size:36
Alignment explanation
Indices: 590128--590204 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 36
590118 GGTCGCAGAA
*
590128 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
* *
590164 GATGAAGCTGACGATGAAGATGATGACGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
590200 GATGA
1 GATGA
590205 TGATGAAGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.36, C:0.09, G:0.34, T:0.21
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAC
Found at i:590208 original size:9 final size:9
Alignment explanation
Indices: 590140--590220 Score: 81
Period size: 9 Copynumber: 9.0 Consensus size: 9
590130 TGAAGCTGAC
*
590140 GATGAAGAT
1 GATGATGAT
*
590149 GACGATGAT
1 GATGATGAT
*
590158 GATGACGAT
1 GATGATGAT
* * *
590167 GAAGCTGAC
1 GATGATGAT
*
590176 GATGAAGAT
1 GATGATGAT
*
590185 GATGACGAT
1 GATGATGAT
590194 GATGATGAT
1 GATGATGAT
*
590203 GATGATGAA
1 GATGATGAT
590212 GATGATGAT
1 GATGATGAT
590221 CCAAACAAGT
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 56 1.00
ACGTcount: A:0.37, C:0.06, G:0.33, T:0.23
Consensus pattern (9 bp):
GATGATGAT
Found at i:590220 original size:12 final size:12
Alignment explanation
Indices: 590128--590216 Score: 97
Period size: 12 Copynumber: 7.4 Consensus size: 12
590118 GGTCGCAGAA
*
590128 GATGAAGCTGAC
1 GATGAAGATGAC
590140 GATGAAGATGAC
1 GATGAAGATGAC
*
590152 GATGATGATGAC
1 GATGAAGATGAC
*
590164 GATGAAGCTGAC
1 GATGAAGATGAC
*
590176 GATGAAGATGAT
1 GATGAAGATGAC
* * *
590188 GACGATGATGAT
1 GATGAAGATGAC
* *
590200 GATGATGATGAA
1 GATGAAGATGAC
590212 GATGA
1 GATGA
590217 TGATCCAAAC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 67 1.00
ACGTcount: A:0.37, C:0.08, G:0.34, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:591446 original size:16 final size:16
Alignment explanation
Indices: 591414--591447 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
591404 TATCCACAAC
* *
591414 AAAGTGTCGATTTAAA
1 AAAGTGTCGACTGAAA
591430 AAAGTGTCGACTGAAA
1 AAAGTGTCGACTGAAA
591446 AA
1 AA
591448 TGTAATAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.24
Consensus pattern (16 bp):
AAAGTGTCGACTGAAA
Found at i:591766 original size:22 final size:22
Alignment explanation
Indices: 591740--591785 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
591730 ATTACATAAC
*
591740 TTTTAAAAAAAGTATCGATCCT
1 TTTTAAAAAAAGTATCGATACT
* *
591762 TTTTATAAAAAGTATGGATACT
1 TTTTAAAAAAAGTATCGATACT
591784 TT
1 TT
591786 CAATATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (22 bp):
TTTTAAAAAAAGTATCGATACT
Found at i:591837 original size:23 final size:23
Alignment explanation
Indices: 591811--591875 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
591801 AAATATGATA
591811 TAATAGGTAGCGCTTATATAATG
1 TAATAGGTAGCGCTTATATAATG
* *
591834 TAATAGGTATCGTTTATATAATG
1 TAATAGGTAGCGCTTATATAATG
* *
591857 TAATAGGTAGTGGTTATAT
1 TAATAGGTAGCGCTTATAT
591876 TGTAAAGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.40
Consensus pattern (23 bp):
TAATAGGTAGCGCTTATATAATG
Found at i:592215 original size:22 final size:22
Alignment explanation
Indices: 592171--592215 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
592161 ATTACATATC
*
592171 TTTAAAAAAAGTATCGATCCTT
1 TTTAAAAAAAGTATCGAACCTT
*
592193 TTTATAAAAAGTAT-GAACACTT
1 TTTAAAAAAAGTATCGAAC-CTT
592215 T
1 T
592216 CAATATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (22 bp):
TTTAAAAAAAGTATCGAACCTT
Found at i:592264 original size:23 final size:23
Alignment explanation
Indices: 592233--592305 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
592223 ATAGGTAAAA
*
592233 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
592256 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
592279 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
592302 ATAT
1 ATAT
592306 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:592696 original size:23 final size:23
Alignment explanation
Indices: 592665--592737 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
592655 ATAGGTAAAA
*
592665 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
592688 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
592711 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
592734 ATAT
1 ATAT
592738 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:593078 original size:22 final size:22
Alignment explanation
Indices: 593034--593078 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
593024 ATTACATATC
*
593034 TTTAAAAAAAGTATCGATCCTT
1 TTTAAAAAAAGTATCGAACCTT
*
593056 TTTATAAAAAGTAT-GAACACTT
1 TTTAAAAAAAGTATCGAAC-CTT
593078 T
1 T
593079 CAATATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (22 bp):
TTTAAAAAAAGTATCGAACCTT
Found at i:593127 original size:23 final size:23
Alignment explanation
Indices: 593096--593168 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
593086 ATAGGTAAAA
*
593096 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
593119 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
593142 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
593165 ATAT
1 ATAT
593169 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:593292 original size:431 final size:431
Alignment explanation
Indices: 591600--593944 Score: 4419
Period size: 432 Copynumber: 5.4 Consensus size: 431
591590 GTTAATGTTG
* * *
591600 TTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAA
1 TTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
591664 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA-TT-AAAAAAATTGAAACA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACA-TACTTAAAAAAAATTGAAACA
* *
591727 TAAATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGATACTTTCAATAT
130 TAAATTACATATC-TTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAT
*
591792 AATAGGTAAAAATATGATATAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATG
194 AATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATG
*
591857 TAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCAC
259 TAATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCAC
*
591922 TGTGGAAAATATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA
324 TGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA
*
591987 AGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
389 GGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
* *
592030 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATGTTTTGTGCAA
1 TTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
592095 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTT-AAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
*
592159 AAATTACATATCTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAA
131 AAATTACATATCTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
592224 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
592289 ATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACTG
592354 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
*
592419 CGTCTAATGATTTATTTTTTACGTTATGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
592460 TTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
592525 ATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
592590 AAATTACATATCTTTAAAAAAAGTATCGATCCTTTTTTATAAAAAGTATGGACACTTTCAATATA
131 AAATTACATATCTTTAAAAAAAGTATCGATCC-TTTTTATAAAAAGTATGGACACTTTCAATATA
592655 ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGT
195 ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGT
592720 AATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACT
260 AATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACT
*
592785 GTGGAAAACATTAATTTAATGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
325 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
592850 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
390 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
592892 TTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
* *
592957 ATGAAATTAGTAAATTAATATTGTAGGTGTAAAACATGAAACATACTTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
*
593022 AAATTACATATCTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAA
131 AAATTACATATCTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
593087 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
593152 ATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACTG
593217 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
*
593282 CGTCTAATGATTTATTTTTTACGTTATGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
593323 TTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
593388 ATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
593453 AAATTACATATCTTTAAAAAAAGTATCGATCCTTTTTTATAAAAAGTATGGACACTTTCAATATA
131 AAATTACATATCTTTAAAAAAAGTATCGATCC-TTTTTATAAAAAGTATGGACACTTTCAATATA
593518 ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGT
195 ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGT
593583 AATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACT
260 AATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACT
*
593648 GTGGAAAACATTAATTTAATGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
325 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
593713 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
390 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
593755 TTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
593820 ATGAAATTAGTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
*
593885 AAATTACATATCTTTAAAAAAAATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
131 AAATTACATATCTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
593945 CATATTATAA
Statistics
Matches: 1878, Mismatches: 32, Indels: 9
0.98 0.02 0.00
Matches are distributed among these distances:
430 401 0.21
431 627 0.33
432 850 0.45
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (431 bp):
TTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
AAATTACATATCTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
ATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACTG
TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:593410 original size:863 final size:863
Alignment explanation
Indices: 591600--593944 Score: 4484
Period size: 863 Copynumber: 2.7 Consensus size: 863
591590 GTTAATGTTG
* * *
591600 TTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAA
1 TTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
591664 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA-TT-AAAAAAATTGAAACA
66 ATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACA-TACTTAAAAAAAATTGAAACA
* *
591727 TAAATTACATAACTTTTAAAAAAAGTATCGATCC-TTTTTATAAAAAGTATGGATACTTTCAATA
130 TAAATTACATATC-TTTAAAAAAAGTATCGATCCTTTTTTATAAAAAGTATGGACACTTTCAATA
*
591791 TAATAGGTAAAAATATGATATAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAAT
194 TAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAAT
*
591856 GTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCA
259 GTAATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCA
* *
591921 CTGTGGAAAATATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTAT
324 CTGTGGAAAACATTAATTTAATGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTAT
* *
591986 AAGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATA
389 AGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTTAATA
* *
592051 TTATTTTATAAAATATCAAAACAATCAAATAATGTTTTGTGCAAATGAAATTATTAAATTAATAT
454 TTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTAGTAAATTAATAT
592116 TGTAGGTGGAAAACATGAAACATACTT-AAAAAAATTGAAACATAAATTACATATCTTTAAAAAA
519 TGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACATAAATTACATATCTTTAAAAAA
592180 AGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGTAAT
584 AGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGTAAT
592245 AGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTA
649 AGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTA
592310 AAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGT
714 AAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGT
592375 TATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTA
779 TATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTA
592440 CGTTATGATATATATTATTA
844 CGTTATGATATATATTATTA
592460 TTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
592525 ATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
592590 AAATTACATATCTTTAAAAAAAGTATCGATCCTTTTTTATAAAAAGTATGGACACTTTCAATATA
131 AAATTACATATCTTTAAAAAAAGTATCGATCCTTTTTTATAAAAAGTATGGACACTTTCAATATA
592655 ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGT
196 ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGT
592720 AATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACT
261 AATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACT
592785 GTGGAAAACATTAATTTAATGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
326 GTGGAAAACATTAATTTAATGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
592850 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTTAATATT
391 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTTAATATT
592915 ATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTAGTAAATTAATATTG
456 ATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTAGTAAATTAATATTG
*
592980 TAGGTGTAAAACATGAAACATACTTAAAAAAAATTGAAACATAAATTACATATCTTTAAAAAAAG
521 TAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACATAAATTACATATCTTTAAAAAAAG
593045 TATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGTAATAG
586 TATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGTAATAG
593110 GTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAA
651 GTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAA
593175 GTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTA
716 GTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTA
593240 TCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
781 TCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
593305 TTATGATATATATTATTA
846 TTATGATATATATTATTA
593323 TTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
593388 ATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
593453 AAATTACATATCTTTAAAAAAAGTATCGATCCTTTTTTATAAAAAGTATGGACACTTTCAATATA
131 AAATTACATATCTTTAAAAAAAGTATCGATCCTTTTTTATAAAAAGTATGGACACTTTCAATATA
593518 ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGT
196 ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGT
593583 AATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACT
261 AATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACT
593648 GTGGAAAACATTAATTTAATGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
326 GTGGAAAACATTAATTTAATGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
593713 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTTAATATT
391 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTTAATATT
593778 ATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTAGTAAATTAATATTG
456 ATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTAGTAAATTAATATTG
*
593843 TAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACATAAATTACATATCTTTAAAAAAAA
521 TAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACATAAATTACATATCTTTAAAAAAAG
*
593908 TATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
586 TATCGATCCTTTTTATAAAAAGTATGAACACTTTCAA
593945 CATATTATAA
Statistics
Matches: 1462, Mismatches: 18, Indels: 7
0.98 0.01 0.00
Matches are distributed among these distances:
860 9 0.01
861 118 0.08
862 399 0.27
863 936 0.64
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (863 bp):
TTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
AAATTACATATCTTTAAAAAAAGTATCGATCCTTTTTTATAAAAAGTATGGACACTTTCAATATA
ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGT
AATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACT
GTGGAAAACATTAATTTAATGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTTAATATT
ATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTAGTAAATTAATATTG
TAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACATAAATTACATATCTTTAAAAAAAG
TATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGTAATAG
GTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAA
GTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTA
TCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
TTATGATATATATTATTA
Found at i:593559 original size:23 final size:23
Alignment explanation
Indices: 593528--593600 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
593518 ATAGGTAAAA
*
593528 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
593551 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
593574 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
593597 ATAT
1 ATAT
593601 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:596779 original size:25 final size:25
Alignment explanation
Indices: 596751--596810 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
596741 TTATCATTAA
596751 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
596776 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
596801 ATTTAGGTAT
1 ATTTAGGTAT
596811 ATAAATCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.43
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:597184 original size:23 final size:23
Alignment explanation
Indices: 597158--597229 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
597148 AATAGGTAAA
*
597158 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
597181 ATATAATGTAATA-GTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
597203 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
597226 ATAT
1 ATAT
597230 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 20 0.48
23 22 0.52
ACGTcount: A:0.35, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:597207 original size:22 final size:22
Alignment explanation
Indices: 597158--597216 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
597148 AATAGGTAAA
*
597158 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATA-GTAGCGCTT
* *
597181 ATATAATGTAATAGTATCGTTT
1 ATATAATGTAATAGTAGCGCTT
597203 ATATAATGTAATAG
1 ATATAATGTAATAG
597217 GTAGTGGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 21 0.64
23 12 0.36
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (22 bp):
ATATAATGTAATAGTAGCGCTT
Found at i:597213 original size:45 final size:42
Alignment explanation
Indices: 597158--597240 Score: 112
Period size: 45 Copynumber: 1.9 Consensus size: 42
597148 AATAGGTAAA
*
597158 ATATGATGTAATAGGTAGCGCTTATATAATGTAATAGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTTATAT--TGTAA-AGTATCGTTT
* *
597203 ATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATC
1 ATATAATGTAATAGGTAGCGCTTATATTGTAAAGTATC
597241 TATCTTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
42 6 0.17
43 5 0.14
45 24 0.69
ACGTcount: A:0.35, C:0.05, G:0.20, T:0.40
Consensus pattern (42 bp):
ATATAATGTAATAGGTAGCGCTTATATTGTAAAGTATCGTTT
Found at i:597534 original size:25 final size:25
Alignment explanation
Indices: 597496--597545 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
597486 AAATCAATTA
*
597496 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
597521 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
597546 GAAAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:597952 original size:18 final size:18
Alignment explanation
Indices: 597931--597967 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
597921 GTAATTGGAG
597931 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
597949 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
597967 T
1 T
597968 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:597975 original size:24 final size:24
Alignment explanation
Indices: 597923--597969 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
597913 TTTCATATGT
* *
597923 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
597947 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
597970 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:598281 original size:39 final size:39
Alignment explanation
Indices: 598238--598324 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
598228 TCCGATGCTC
* *
598238 ATCAAAATCCAAACCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCAAAACCTCATATGATGCCAAGCAAAAGGAA
*
598277 ATCAAAATCAAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCAAAACCTCATATGATGCCAAGCAAAAGGAA
598316 ATCAAAATC
1 ATCAAAATC
598325 TACAACTTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.49, C:0.21, G:0.13, T:0.17
Consensus pattern (39 bp):
ATCAAAATCAAAACCTCATATGATGCCAAGCAAAAGGAA
Found at i:598779 original size:23 final size:23
Alignment explanation
Indices: 598753--598817 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
598743 AAATATGATG
598753 TAATAGGTAGCGCTTATATAATA
1 TAATAGGTAGCGCTTATATAATA
* * *
598776 TAATAGGTATCGTTTATATAATG
1 TAATAGGTAGCGCTTATATAATA
* *
598799 TAATAGGTAGTGGTTATAT
1 TAATAGGTAGCGCTTATAT
598818 TGTAAAGTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.35, C:0.05, G:0.20, T:0.40
Consensus pattern (23 bp):
TAATAGGTAGCGCTTATATAATA
Found at i:598821 original size:21 final size:22
Alignment explanation
Indices: 598745--598822 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 22
598735 ATAAGTAAAA
*
598745 ATATGATGTAATAGGTAGCGCTT
1 ATAT-ATGTAATAGGTAGTGCTT
* *
598768 ATATAATATAATAGGTA-TCGTTT
1 ATAT-ATGTAATAGGTAGT-GCTT
*
598791 ATATAATGTAATAGGTAGTGGTT
1 ATAT-ATGTAATAGGTAGTGCTT
598814 ATAT-TGTAA
1 ATATATGTAA
598823 AGTATCTATC
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
21 5 0.11
23 41 0.87
24 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (22 bp):
ATATATGTAATAGGTAGTGCTT
Found at i:599206 original size:23 final size:23
Alignment explanation
Indices: 599175--599247 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
599165 ATAGGTAAAA
*
599175 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
599198 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
599221 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
599244 ATAT
1 ATAT
599248 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:599350 original size:430 final size:431
Alignment explanation
Indices: 598543--600456 Score: 3504
Period size: 430 Copynumber: 4.5 Consensus size: 431
598533 ATTAATGTTG
* *
598543 TTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTGGTGCAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
598607 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTT-AAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
* *
598671 AAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATAGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
* *
598736 TAAGTAAAAATATGATGTAATAGGTAGCGCTTATATAATATAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
*
598801 ATAGGTAGTGGTTATATTGTAAAGTATCTATCTTTTTTATAAAAGTGTCCATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
*
598866 TGGAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
598931 CGTCTAATGATTTA-TTTTTACGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
598971 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
599036 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
599101 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
599166 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
599231 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
*
599296 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
599361 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
599402 TTAAATTAAAAATTATAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
599467 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACA-TACTTAAAAAAAATTGAAACA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA-TTAAAAAAAATTGAAACA
* * * *
599531 TAAATTACATATCTTTAAAAAAAAGTATCGATCTTTTTTATAAAAAGTATGAACACTTTCAATAT
130 TAAATTACATAACTTT-AAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAT
* *
599596 AATAGGTAAAAATATGATGTAATAAGTAACGCTTATATAATGTAATAGGTATCGTTTATATAATG
194 AATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATG
*
599661 TAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAAACTTTTTTCAC
259 TAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCAC
*
599726 TGTGAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA
324 TGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA
599791 GGCGTCTAATGA--T-TTTTTTACGTTACGATATATATTATTA
389 GGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
599831 TT-AATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
599895 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
599959 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
600024 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
*
600089 ATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
*
600154 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAATATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
*
600219 CGACTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
600260 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
600325 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
* *
600390 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAATATAGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
600455 TA
196 TA
600457 TAATGTAATA
Statistics
Matches: 1436, Mismatches: 39, Indels: 19
0.96 0.03 0.01
Matches are distributed among these distances:
426 244 0.17
427 30 0.02
428 113 0.08
429 161 0.11
430 395 0.28
431 246 0.17
432 247 0.17
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.39
Consensus pattern (431 bp):
TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:599666 original size:23 final size:23
Alignment explanation
Indices: 599607--599669 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
599597 ATAGGTAAAA
* *
599607 ATATGATGTAATAAGTAACGCTT
1 ATATAATGTAATAGGTAACGCTT
* *
599630 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAACGCTT
599653 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
599670 GTGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAACGCTT
Found at i:599677 original size:23 final size:23
Alignment explanation
Indices: 599607--599679 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
599597 ATAGGTAAAA
* * * *
599607 ATATGATGTAATAAGTAACGCTT
1 ATATAATGTAATAGGTATCGGTT
*
599630 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
599653 ATATAATGTAATAGGTAGT-GGTT
1 ATATAATGTAATAGGTA-TCGGTT
599676 ATAT
1 ATAT
599680 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 43 0.98
24 1 0.02
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:600064 original size:23 final size:23
Alignment explanation
Indices: 600033--600105 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
600023 ATAGGTAAAA
*
600033 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
600056 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
600079 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
600102 ATAT
1 ATAT
600106 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:600203 original size:858 final size:861
Alignment explanation
Indices: 598543--600456 Score: 3531
Period size: 858 Copynumber: 2.2 Consensus size: 861
598533 ATTAATGTTG
* *
598543 TTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTGGTGCAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
598607 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAAC--ACTGTTAAAAAAATTGAAACA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACT-TAAAAAAAATTGAAACA
598670 TAAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATAGACACTTTCAATATA
130 TAAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATAGACACTTTCAATATA
* *
598735 ATAAGTAAAAATATGATGTAATAGGTAGCGCTTATATAATATAATAGGTATCGTTTATATAATGT
195 ATAAGTAAAAATATGATGTAATAAGTAACGCTTATATAATATAATAGGTATCGTTTATATAATGT
* *
598800 AATAGGTAGTGGTTATATTGTAAAGTATCTATCTTTTTTATAAAAGTGTCCATACTTTTTTCACT
260 AATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAAACTTTTTTCACT
*
598865 GTGGAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
325 GTGAAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
598930 GCGTCTAATGATTTATTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATA
390 GCGTCTAATGATTTATTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATA
598995 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGT
455 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGT
599060 AGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGT
520 AGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGT
599125 ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGG
585 ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGG
* *
599190 TAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAG
650 TAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAG
599255 TATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAT
715 TATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAT
*
599320 CTTTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
780 CTTTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGGCGACTAATGATTTATTTTTTACGT
599385 TACGATATATATTATTA
845 TACGATATATATTATTA
*
599402 TTAAATTAAAAATTATAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
599467 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
* * *
599532 AAATTACATATCTTTAAAAAAAAGTATCGATCTTTTTTATAAAAAGTAT-GAACACTTTCAATAT
131 AAATTACATAACTTT-AAAAGAAGTATCGATCATTTTTATAAAAAGTATAG-ACACTTTCAATAT
* *
599596 AATAGGTAAAAATATGATGTAATAAGTAACGCTTATATAATGTAATAGGTATCGTTTATATAATG
194 AATAAGTAAAAATATGATGTAATAAGTAACGCTTATATAATATAATAGGTATCGTTTATATAATG
599661 TAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAAACTTTTTTCAC
259 TAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAAACTTTTTTCAC
*
599726 TGTGAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA
324 TGTGAAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA
599791 GGCGTCTAATGA-TT-TTTTTACGTTACGATATATATTATTATT-AATTAAAAATTCTAAATAAT
389 GGCGTCTAATGATTTATTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAAT
599853 ATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTG
454 ATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTG
599918 TAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAG
519 TAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAG
599982 TATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAG
584 TATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAG
600047 GTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAA
649 GTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAA
600112 GTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTA
714 GTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTA
* *
600177 TCTTTTGAGTGAGTTTTAATATATTAATTTAGTAATTATAGGCGACTAATGATTTATTTTTTACG
779 TCTTTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGGCGACTAATGATTTATTTTTTACG
600242 TTACGATATATATTATTA
844 TTACGATATATATTATTA
600260 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
600325 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA-TTAAAAAAAATTGAAACA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACA-TACTTAAAAAAAATTGAAACA
* *
600389 TAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAATATAGACACTTTCAATATA
130 TAAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATAGACACTTTCAATATA
600454 ATA
195 ATA
600457 TAATGTAATA
Statistics
Matches: 1023, Mismatches: 25, Indels: 16
0.96 0.02 0.02
Matches are distributed among these distances:
857 47 0.05
858 453 0.44
859 119 0.12
860 124 0.12
861 34 0.03
862 246 0.24
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.39
Consensus pattern (861 bp):
TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
AAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATAGACACTTTCAATATAA
TAAGTAAAAATATGATGTAATAAGTAACGCTTATATAATATAATAGGTATCGTTTATATAATGTA
ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAAACTTTTTTCACTG
TGAAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
CGTCTAATGATTTATTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATAT
TTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTA
GGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTA
TCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGT
AGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGT
ATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
TTTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGGCGACTAATGATTTATTTTTTACGTT
ACGATATATATTATTA
Found at i:610455 original size:14 final size:15
Alignment explanation
Indices: 610436--610469 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
610426 TTTGTCTGGG
610436 TTATAAATATT-ATA
1 TTATAAATATTAATA
*
610450 TTATAATTATTAATA
1 TTATAAATATTAATA
610465 TTATA
1 TTATA
610470 TTATAACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTATAAATATTAATA
Found at i:610485 original size:3 final size:3
Alignment explanation
Indices: 610443--610531 Score: 56
Period size: 3 Copynumber: 30.3 Consensus size: 3
610433 GGGTTATAAA
* * * *
610443 TAT TA- TAT TAT AAT TAT TAA TAT TA- TAT TAT AAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * *
610489 TAT AAC AAT TAA AAT TAT AAT TAT TAG TAT TAT TAT TAA TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
610532 GCTTATGTTT
Statistics
Matches: 62, Mismatches: 22, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
2 4 0.06
3 58 0.94
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (3 bp):
TAT
Found at i:610492 original size:23 final size:20
Alignment explanation
Indices: 610436--610488 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
610426 TTTGTCTGGG
*
610436 TTATAAATATTATATTATAA
1 TTATTAATATTATATTATAA
610456 TTATTAATATTATATTATAA
1 TTATTAATATTATATTATAA
* *
610476 CTATTATTATTAT
1 TTATTAATATTAT
610489 TATAACAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
TTATTAATATTATATTATAA
Found at i:612121 original size:21 final size:20
Alignment explanation
Indices: 612083--612121 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
612073 TTAATTTAAT
* *
612083 TTTGTATTTTTAACATTTGG
1 TTTGTATTTTGAAAATTTGG
612103 TTTGTTATTTTGAAAATTT
1 TTTG-TATTTTGAAAATTT
612122 TCCATTACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.23, C:0.03, G:0.13, T:0.62
Consensus pattern (20 bp):
TTTGTATTTTGAAAATTTGG
Found at i:621855 original size:42 final size:43
Alignment explanation
Indices: 621793--621887 Score: 138
Period size: 42 Copynumber: 2.2 Consensus size: 43
621783 ACTTAGTAAG
* * *
621793 TCCTTTGGGCTATCAATAAGTCTTTCGAGCATGATGCTT-AAA
1 TCCTTAGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAAA
*
621835 TCCTTAGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAGAAA
1 TCCTTAGGGCCATCAATAAGTCTTTCGAGCATGATGATTA-AAA
621879 TCCTTAGGG
1 TCCTTAGGG
621888 TAATTTGTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
42 35 0.74
44 12 0.26
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (43 bp):
TCCTTAGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAAA
Found at i:622467 original size:14 final size:15
Alignment explanation
Indices: 622448--622481 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
622438 TTTGTCCGGG
622448 TTATAAATATT-ATA
1 TTATAAATATTAATA
*
622462 TTATAATTATTAATA
1 TTATAAATATTAATA
622477 TTATA
1 TTATA
622482 TTACAACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTATAAATATTAATA
Found at i:622476 original size:20 final size:20
Alignment explanation
Indices: 622448--622500 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
622438 TTTGTCCGGG
* *
622448 TTATAAATATTATATTATAA
1 TTATTAATATTATATTACAA
622468 TTATTAATATTATATTACAA
1 TTATTAATATTATATTACAA
* *
622488 CTATTATTATTAT
1 TTATTAATATTAT
622501 TATAACAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATTAATATTATATTACAA
Found at i:624139 original size:21 final size:20
Alignment explanation
Indices: 624101--624139 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
624091 TTAATTTATT
* *
624101 TTTGTATTTTTAACATTTGG
1 TTTGTATTTTGAAAATTTGG
624121 TTTGTTATTTTGAAAATTT
1 TTTG-TATTTTGAAAATTT
624140 TCCATTACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.23, C:0.03, G:0.13, T:0.62
Consensus pattern (20 bp):
TTTGTATTTTGAAAATTTGG
Found at i:628629 original size:21 final size:20
Alignment explanation
Indices: 628562--628700 Score: 82
Period size: 21 Copynumber: 6.8 Consensus size: 20
628552 AAATGACCAA
***
628562 CAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
628582 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
628602 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
628623 TAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
628644 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
628664 ACAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
628685 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
628701 ACACATAAAT
Statistics
Matches: 90, Mismatches: 24, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
19 1 0.01
20 42 0.47
21 47 0.52
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:628729 original size:20 final size:20
Alignment explanation
Indices: 628667--628896 Score: 223
Period size: 20 Copynumber: 11.5 Consensus size: 20
628657 CGATTTTACA
* ** *
628667 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
628687 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
*
628707 AAATCGCAACTCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
628727 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
628747 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
628767 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
628787 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
628807 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
628827 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
628847 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
628867 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
628887 AAATCACAAC
1 AAATCGCAAC
628897 ACTGAAATTT
Statistics
Matches: 174, Mismatches: 30, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 170 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:629265 original size:14 final size:14
Alignment explanation
Indices: 629246--629335 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
629236 CTGAAATGAA
629246 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
629260 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
629279 AATCGTAACGAGAG
1 AATCGCAACGAGAG
*
629293 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
629312 AATCGCAACGAGAG
1 AATCGCAACGAGAG
629326 AATCGCAACG
1 AATCGCAACG
629336 CGAAATGAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 29 0.48
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 19 0.32
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:629278 original size:33 final size:33
Alignment explanation
Indices: 629238--629352 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
629228 TCTTTTGGCT
629238 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
629271 GAAATGAAAATCGTAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
629304 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
629337 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
629353 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.47, C:0.19, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:629288 original size:19 final size:19
Alignment explanation
Indices: 629260--629357 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
629250 GCAACGAGAG
629260 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
* *
629279 AATCGTAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
629293 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
629312 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
629326 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
629345 AATCGCAATGCGA
1 AATCGCAACGCGA
629358 TTTTGGTTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 19 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.50
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:629388 original size:14 final size:14
Alignment explanation
Indices: 629369--629425 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
629359 TTTGGTTTCG
629369 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
629383 CGTTGCGATTTTCATATCG
1 CGTTGCGA--TTC---TCT
629402 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
629416 CGTTGCGATT
1 CGTTGCGATT
629426 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.11, C:0.25, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:629403 original size:33 final size:33
Alignment explanation
Indices: 629366--629430 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
629356 GATTTTGGTT
629366 TCGCGTTGCGATTCTCTCGTTGCGATTTTCATA
1 TCGCGTTGCGATTCTCTCGTTGCGATTTTCATA
629399 TCGCGTTGCGATTCTCTCGTTGCGATTTTCAT
1 TCGCGTTGCGATTCTCTCGTTGCGATTTTCAT
629431 TTCTCTCGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.11, C:0.25, G:0.22, T:0.43
Consensus pattern (33 bp):
TCGCGTTGCGATTCTCTCGTTGCGATTTTCATA
Found at i:629466 original size:41 final size:41
Alignment explanation
Indices: 629409--629486 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
629399 TCGCGTTGCG
*
629409 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
629450 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
629487 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:629471 original size:20 final size:21
Alignment explanation
Indices: 629410--629485 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
629400 CGCGTTGCGA
629410 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
629431 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
629451 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
629472 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
629486 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:629607 original size:33 final size:33
Alignment explanation
Indices: 629565--629635 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
629555 AATACTAACT
*
629565 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
629598 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
629631 TGAAA
1 TGAAA
629636 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:629868 original size:21 final size:22
Alignment explanation
Indices: 629817--629870 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
629807 TGGTTGTGAG
**
629817 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
629839 GGAAATCTTCGGAGAT-GGGAC
1 GGATTTCTTCGGAGATGGGGAC
629860 GGATTTCTTCG
1 GGATTTCTTCG
629871 CCGTAGAGAG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:630042 original size:20 final size:20
Alignment explanation
Indices: 630017--630210 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
630007 CTTTAAATAT
630017 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
630037 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
630059 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
630078 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
630098 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
630118 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
630138 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
630158 CGAGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
630178 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
630198 CGCGTTGCGATTT
1 CGCGTTGCGATTT
630211 TGGAAAATCG
Statistics
Matches: 145, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:630204 original size:60 final size:60
Alignment explanation
Indices: 630017--630210 Score: 237
Period size: 60 Copynumber: 3.2 Consensus size: 60
630007 CTTTAAATAT
* **
630017 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGAGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* *** *
630078 CGCGTTGCGATATACGGATACGCA-TTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACG-AGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
630138 CACGTTGCGATTTACGGATACGAGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGAGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
630198 CGCGTTGCGATTT
1 CGCGTTGCGATTT
630211 TGGAAAATCG
Statistics
Matches: 111, Mismatches: 20, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
59 1 0.01
60 83 0.75
61 27 0.24
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGAGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:630227 original size:21 final size:21
Alignment explanation
Indices: 630197--630279 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
630187 ATTTTCATAT
*
630197 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
630218 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
630239 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
630260 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
630280 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:630270 original size:42 final size:43
Alignment explanation
Indices: 630177--630275 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
630167 ATTTATGTGT
* *
630177 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
630218 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
630260 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
630276 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:634509 original size:45 final size:45
Alignment explanation
Indices: 634445--634531 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
634435 TGATCATTTT
*
634445 ATGATCAAACCCGTGACAGATGAACATTAAGGTTAATTTATCAAA
1 ATGATCAAACCCGTGACAGATGAACATTAAAGTTAATTTATCAAA
** *
634490 ATGATCAAACCCGTGACAGATGAATGTTAAAGTTAGTTTATC
1 ATGATCAAACCCGTGACAGATGAACATTAAAGTTAATTTATC
634532 TTGGATCGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (45 bp):
ATGATCAAACCCGTGACAGATGAACATTAAAGTTAATTTATCAAA
Found at i:635941 original size:16 final size:17
Alignment explanation
Indices: 635891--635942 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
635881 ATAAAAAATA
635891 AATTTGAAAGTTAGAGT
1 AATTTGAAAGTTAGAGT
*
635908 GA-TT-AAA-TTAGGAGT
1 AATTTGAAAGTTA-GAGT
635923 AATTTGAAAGTTA-AGT
1 AATTTGAAAGTTAGAGT
635939 AATT
1 AATT
635943 AAATTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 3 0.10
15 8 0.28
16 11 0.38
17 4 0.14
18 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (17 bp):
AATTTGAAAGTTAGAGT
Found at i:642892 original size:2 final size:2
Alignment explanation
Indices: 642885--642910 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
642875 CCTGCTTAAT
642885 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
642911 ATTTATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:644077 original size:45 final size:45
Alignment explanation
Indices: 644027--644155 Score: 249
Period size: 45 Copynumber: 2.9 Consensus size: 45
644017 ATTCTTCTAG
644027 TATGTGAAATATAATCGAGCATTAAAGCGGCGTTATAATTTAGTC
1 TATGTGAAATATAATCGAGCATTAAAGCGGCGTTATAATTTAGTC
*
644072 TATGTGAAATATAATCGAGCGTTAAAGCGGCGTTATAATTTAGTC
1 TATGTGAAATATAATCGAGCATTAAAGCGGCGTTATAATTTAGTC
644117 TATGTGAAATATAATCGAGCATTAAAGCGGCGTTATAAT
1 TATGTGAAATATAATCGAGCATTAAAGCGGCGTTATAAT
644156 CATCGTGATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 82 1.00
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.33
Consensus pattern (45 bp):
TATGTGAAATATAATCGAGCATTAAAGCGGCGTTATAATTTAGTC
Found at i:647051 original size:22 final size:22
Alignment explanation
Indices: 646982--647054 Score: 119
Period size: 22 Copynumber: 3.3 Consensus size: 22
646972 TTGTTATCGC
*
646982 CCGGCGATGGAAGCTGTGACTG
1 CCGGCGATGGAGGCTGTGACTG
* *
647004 CCGACAATGGAGGCTGTGACTG
1 CCGGCGATGGAGGCTGTGACTG
647026 CCGGCGATGGAGGCTGTGACTG
1 CCGGCGATGGAGGCTGTGACTG
647048 CCGGCGA
1 CCGGCGA
647055 AAAAGGAAGG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.18, C:0.25, G:0.41, T:0.16
Consensus pattern (22 bp):
CCGGCGATGGAGGCTGTGACTG
Found at i:658703 original size:21 final size:21
Alignment explanation
Indices: 658679--658718 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
658669 TTTTCAAAGG
658679 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
658700 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
658719 GAATAAGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:658768 original size:19 final size:19
Alignment explanation
Indices: 658744--658780 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
658734 TCGAATGCAT
658744 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
658763 TCCATGCATCGATGCACT
1 TCCATGCACCGATGCACT
658781 TTGATTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.38, G:0.16, T:0.24
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:658861 original size:64 final size:63
Alignment explanation
Indices: 658679--658888 Score: 197
Period size: 64 Copynumber: 3.2 Consensus size: 63
658669 TTTTCAAAGG
* * * * * *
658679 CATGCACCGATGCATCAATACCATGCATCGATGCATCAATGAATAAGTTGAAACATCGAATGCAT
1 CATGCATCGATGCA-CAAT-CCATGCATCGATGCA-CCAGGATTTA-TTAAAACATCGAATGCAT
*
658744 TC
62 TT
* ** ***
658746 CATGCACCGATGCACTCTCCATGCATCGATGCACTTTGATTTAATTAAAACATCGAATGCATTT
1 CATGCATCGATGCACAATCCATGCATCGATGCACCAGGATTT-ATTAAAACATCGAATGCATTT
* * *
658810 GATGCATCGATGCACAATCCATGCATCGATGCACCAGGCTATTT-TTCAAACATCGAATGCACTT
1 CATGCATCGATGCACAATCCATGCATCGATGCACCAGG--ATTTATTAAAACATCGAATGCATTT
*
658874 CATGCATCGTTGCAC
1 CATGCATCGATGCAC
658889 TCTTAGTGCA
Statistics
Matches: 121, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
64 85 0.70
65 16 0.13
66 6 0.05
67 14 0.12
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (63 bp):
CATGCATCGATGCACAATCCATGCATCGATGCACCAGGATTTATTAAAACATCGAATGCATTT
Found at i:664713 original size:24 final size:22
Alignment explanation
Indices: 664685--664764 Score: 83
Period size: 24 Copynumber: 3.5 Consensus size: 22
664675 CACTTAACAA
664685 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGATGCAT-CC-TTGAATG
* *
664709 TGCATCGATGAATCC--GCATG
1 TGCATCGATGCATCCTTGAATG
*
664729 ATGCACCGATGCATGCCTTGAATG
1 -TGCATCGATGCAT-CCTTGAATG
664753 TGCATCGATGCA
1 TGCATCGATGCA
664765 CAAGATCATG
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
20 4 0.09
21 11 0.24
22 2 0.04
23 13 0.28
24 16 0.35
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.28
Consensus pattern (22 bp):
TGCATCGATGCATCCTTGAATG
Found at i:667378 original size:19 final size:19
Alignment explanation
Indices: 667354--667392 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
667344 TCGAATGCAT
667354 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
667373 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
667392 T
1 T
667393 GATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:667417 original size:64 final size:65
Alignment explanation
Indices: 667289--667453 Score: 185
Period size: 64 Copynumber: 2.5 Consensus size: 65
667279 TTTTCAAAGG
* *
667289 CATGCACCGATGTATTAATACCATGCATCGATGCA-TCAATGAATAAGTTGAAACATCGAATGCA
1 CATGCACCGATGCA-TAAT-CCATGCATCGATGCACTC-ATGAATAAGTTAAAACATCGAATGCA
667353 TTC
63 TTC
* *
667356 CATGCACCGATGCACT-CTCCATGCATCGATGCACTC-TGATTTAA-TTAAAACATCGAATGCAT
1 CATGCACCGATGCA-TAATCCATGCATCGATGCACTCATGA-ATAAGTTAAAACATCGAATGCAT
*
667418 TT
64 TC
* **
667420 GATGCATTGATGCATAATCCATGCATCGATGCAC
1 CATGCACCGATGCATAATCCATGCATCGATGCAC
667454 CAGGCTATTT
Statistics
Matches: 85, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
63 1 0.01
64 49 0.58
65 18 0.21
66 3 0.04
67 14 0.16
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (65 bp):
CATGCACCGATGCATAATCCATGCATCGATGCACTCATGAATAAGTTAAAACATCGAATGCATTC
Found at i:667471 original size:64 final size:63
Alignment explanation
Indices: 667339--667500 Score: 177
Period size: 64 Copynumber: 2.5 Consensus size: 63
667329 GAATAAGTTG
* * * *
667339 AAACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGATTTAATTA
1 AAACATCGAATGCATTTCATGCATCGATGCACTATCCATGCATCGATGCACGCTGATTT-ATTA
* *
667403 AAACATCGAATGCATTTGATGCATTGATGCA-TAATCCATGCATCGATGCACCAGGCT-ATTT-T
1 AAACATCGAATGCATTTCATGCATCGATGCACT-ATCCATGCATCGATGCA-C--GCTGATTTAT
*
667465 TC
62 TA
* *
667467 AAACATCGAATGCACTTCATGCATCGGTGCACTA
1 AAACATCGAATGCATTTCATGCATCGATGCACTA
667501 GAGTGCACCG
Statistics
Matches: 82, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
63 1 0.01
64 73 0.89
65 2 0.02
66 4 0.05
67 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (63 bp):
AAACATCGAATGCATTTCATGCATCGATGCACTATCCATGCATCGATGCACGCTGATTTATTA
Found at i:680475 original size:7 final size:7
Alignment explanation
Indices: 680463--680690 Score: 82
Period size: 7 Copynumber: 31.0 Consensus size: 7
680453 AAAAAGAAAT
680463 GAAAAAA
1 GAAAAAA
680470 GAAAAATA
1 GAAAAA-A
680478 -AAAAAA
1 GAAAAAA
*
680484 TAAAAATGAA
1 -GAAAA--AA
*
680494 GAAAGAA
1 GAAAAAA
*
680501 GAAAAAT
1 GAAAAAA
*
680508 GAAAAAT
1 GAAAAAA
*
680515 GAAAAAT
1 GAAAAAA
680522 GAAAAAA
1 GAAAAAA
680529 TGAAAAAA
1 -GAAAAAA
680537 TG-AAAAA
1 -GAAAAAA
*
680544 -AAAAAT
1 GAAAAAA
680550 GAAAATAA
1 GAAAA-AA
680558 TGAAAAAA
1 -GAAAAAA
*
680566 TGAAAATA
1 -GAAAAAA
680574 -AAAAAA
1 GAAAAAA
680580 G--AAAA
1 GAAAAAA
680585 GAAAAATGA
1 GAAAAA--A
680594 GAAAAAAA
1 G-AAAAAA
680602 TGAAAAATGA
1 -GAAAAA--A
*
680612 TGAAAAAT
1 -GAAAAAA
*
680620 G-AAAAG
1 GAAAAAA
680626 GAAAAAA
1 GAAAAAA
*
680633 -TAAAAA
1 GAAAAAA
*
680639 -AAAATA
1 GAAAAAA
680645 GAAAATGGAA
1 GAAAA---AA
680655 GAAAAAA
1 GAAAAAA
680662 G--AAAA
1 GAAAAAA
680667 GAAAAATGA
1 GAAAAA--A
680676 TGAAAAAA
1 -GAAAAAA
680684 GAAAAAA
1 GAAAAAA
680691 ATAGAGAAAA
Statistics
Matches: 176, Mismatches: 16, Indels: 58
0.70 0.06 0.23
Matches are distributed among these distances:
5 10 0.06
6 24 0.14
7 72 0.41
8 31 0.18
9 12 0.07
10 27 0.15
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.10
Consensus pattern (7 bp):
GAAAAAA
Found at i:680543 original size:17 final size:16
Alignment explanation
Indices: 680459--680624 Score: 116
Period size: 17 Copynumber: 10.1 Consensus size: 16
680449 CCTAAAAAAG
680459 AAATG-AAAAAA-GAA
1 AAATGAAAAAAATGAA
680473 AAAT-AAAAAAAT-AA
1 AAATGAAAAAAATGAA
680487 AAATGAAGAAAGAA-GAA
1 AAATGAA-AAA-AATGAA
680504 AAATG--AAAAATGAA
1 AAATGAAAAAAATGAA
680518 AAATG-AAAAAATGAAA
1 AAATGAAAAAAATG-AA
680534 AAATGAAAAAAAAAATGAAA
1 AAATG---AAAAAAATG-AA
680554 ATAATG-AAAAAATGAA
1 A-AATGAAAAAAATGAA
** *
680570 AATAAAAAAAGAAAAGAA
1 AA-ATGAAAA-AAATGAA
680588 AAATGAGAAAAAAATGAA
1 AAAT--GAAAAAAATGAA
*
680606 AAATGATGAAAAATGAA
1 AAATGA-AAAAAATGAA
680623 AA
1 AA
680625 GGAAAAAATA
Statistics
Matches: 125, Mismatches: 7, Indels: 37
0.74 0.04 0.22
Matches are distributed among these distances:
13 2 0.02
14 27 0.22
15 10 0.08
16 16 0.13
17 32 0.26
18 18 0.14
19 4 0.03
20 12 0.10
21 4 0.03
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.11
Consensus pattern (16 bp):
AAATGAAAAAAATGAA
Found at i:680572 original size:35 final size:34
Alignment explanation
Indices: 680509--680607 Score: 96
Period size: 36 Copynumber: 2.8 Consensus size: 34
680499 AAGAAAAATG
*
680509 AAAAATG-AAA-AATGAAAAAATGAAAAAATGAAAA
1 AAAAATGAAAATAATGAAAAAATG--AAAATAAAAA
680543 AAAAAATGAAAATAATGAAAAAATGAAAATAAAAA
1 AAAA-ATGAAAATAATGAAAAAATGAAAATAAAAA
* *
680578 AAGAAAAGAAAAATGA-GAAAAAAATGAAAA
1 AA-AAATG-AAAATAATG-AAAAAATGAAAA
680608 ATGATGAAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
34 4 0.07
35 17 0.30
36 23 0.41
37 12 0.21
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.11
Consensus pattern (34 bp):
AAAAATGAAAATAATGAAAAAATGAAAATAAAAA
Found at i:680572 original size:65 final size:65
Alignment explanation
Indices: 680460--680609 Score: 150
Period size: 65 Copynumber: 2.3 Consensus size: 65
680450 CTAAAAAAGA
* *
680460 AATGAAAAAA-GAAAAATAAAAAAATAAAAATGAAGAAAGAAGAAAAATGAAAAATGAAAAATGA
1 AATGAAAAAATGAAAAATAAAAAAATAAAAATGAAGAAAGAAGAAAAATAAAAAAAG-AAAA-G-
680524 AAA
63 AAA
* *
680527 AATGAAAAAATGAAAAA-AAAAATGAA-AATAATGAA-AAA-ATG-AAAATAAAAAAAGAAAAGA
1 AATGAAAAAATGAAAAATAAAAA--AATAAAAATGAAGAAAGAAGAAAAATAAAAAAAGAAAAGA
680587 AA
64 AA
680589 AATGAGAAAAAAATGAAAAAT
1 AAT--G-AAAAAATGAAAAAT
680610 GATGAAAAAT
Statistics
Matches: 72, Mismatches: 4, Indels: 15
0.79 0.04 0.16
Matches are distributed among these distances:
62 6 0.08
63 1 0.01
64 5 0.07
65 24 0.33
66 2 0.03
67 18 0.25
68 14 0.19
69 2 0.03
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (65 bp):
AATGAAAAAATGAAAAATAAAAAAATAAAAATGAAGAAAGAAGAAAAATAAAAAAAGAAAAGAAA
Found at i:680598 original size:8 final size:7
Alignment explanation
Indices: 680459--680611 Score: 108
Period size: 7 Copynumber: 21.9 Consensus size: 7
680449 CCTAAAAAAG
680459 AAATGAA
1 AAATGAA
*
680466 AAAAGAA
1 AAATGAA
*
680473 AAATAAAA
1 AAAT-GAA
680481 AAAT-AA
1 AAATGAA
680487 AAATGAAGA
1 AAATG-A-A
*
680496 AAGAAGAA
1 AA-ATGAA
680504 AAATGAA
1 AAATGAA
680511 AAATGAA
1 AAATGAA
680518 AAATGAAA
1 AAATG-AA
680526 AAATGAAA
1 AAATG-AA
680534 AAATGAA
1 AAATGAA
680541 AAA--AA
1 AAATGAA
680546 AAATGAAA
1 AAATG-AA
680554 ATAATGAAA
1 A-AATG-AA
680563 AAATG-A
1 AAATGAA
*
680569 AAATAAA
1 AAATGAA
*
680576 AAAAG-A
1 AAATGAA
680582 AAA-GAA
1 AAATGAA
680588 AAATG-A
1 AAATGAA
*
680594 GAA--AA
1 AAATGAA
680599 AAATGAA
1 AAATGAA
680606 AAATGA
1 AAATGA
680612 TGAAAAATGA
Statistics
Matches: 120, Mismatches: 10, Indels: 32
0.74 0.06 0.20
Matches are distributed among these distances:
5 9 0.08
6 22 0.18
7 43 0.36
8 32 0.27
9 12 0.10
10 2 0.02
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (7 bp):
AAATGAA
Found at i:680622 original size:53 final size:52
Alignment explanation
Indices: 680466--680649 Score: 154
Period size: 53 Copynumber: 3.6 Consensus size: 52
680456 AAGAAATGAA
* *
680466 AAAAGAAAAATAAAAAAATAAAAATGA-AGAAAGAA-G-AAA-AATG-AAAAATG
1 AAAAGAAAAA-AAGAAAA-AAAAATGAGA-AAAAAATGAAAATAATGAAAAAATG
* *
680516 AAAAATGAAAAAATG---AAAAAATGAAAAAAAAAATGAAAATAATGAAAAAATG
1 -AAAA-GAAAAAAAGAAAAAAAAATG-AGAAAAAAATGAAAATAATGAAAAAATG
* *
680568 AAAATAAAAAAAGAAAAGAAAAATGAGAAAAAAATGAAAAATGATG-AAAAATG
1 AAAAGAAAAAAAGAAAA-AAAAATGAGAAAAAAATG-AAAATAATGAAAAAATG
* *
680621 AAAAGGAAAAAATAAAAAAAAAT-AGAAAA
1 AAAAGAAAAAAAGAAAAAAAAATGAGAAAA
680650 TGGAAGAAAA
Statistics
Matches: 111, Mismatches: 10, Indels: 24
0.77 0.07 0.17
Matches are distributed among these distances:
47 7 0.06
48 7 0.06
49 2 0.02
50 10 0.09
51 19 0.17
52 19 0.17
53 32 0.29
54 15 0.14
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (52 bp):
AAAAGAAAAAAAGAAAAAAAAATGAGAAAAAAATGAAAATAATGAAAAAATG
Found at i:680632 original size:42 final size:38
Alignment explanation
Indices: 680466--680701 Score: 150
Period size: 42 Copynumber: 5.9 Consensus size: 38
680456 AAGAAATGAA
*
680466 AAAAGAAAAAT--AAAAAAAT-AAAAATGAAGAAAGAAG
1 AAAAGAAAAATAGAAAAAAATGAAAAATG-AGAAAAAAG
*
680502 AAAAATGAAAAAT-G--AAAAATGAAAAAATGA-AAAAATG
1 -AAAA-GAAAAATAGAAAAAAATG-AAAAATGAGAAAAAAG
* * *
680539 AAAAAAAAAAT-GAAAATAATGAAAAAATGAAAATAAAAAAAG
1 AAAAGAAAAATAGAAAAAAATG-AAAAATG---A-GAAAAAAG
*
680581 AAAAGAAAAATGAGAAAAAAATGAAAAATGATGAAAAATG
1 AAAAGAAAAAT-AGAAAAAAATGAAAAATGA-GAAAAAAG
*
680621 AAAAGGAAAAAATAAAAAAAAAT-AGAAAATGGAAGAAAAAAG
1 AAAA-G-AAAAATAGAAAAAAATGA-AAAAT-G-AGAAAAAAG
*
680663 AAAAGAAAAATGATGAAAAAAGA-AAAAAATAGAGAAAAA
1 AAAAGAAAAAT-A-GAAAAAA-ATGAAAAAT-GAGAAAAA
680702 TAAAAAGGGG
Statistics
Matches: 164, Mismatches: 13, Indels: 40
0.76 0.06 0.18
Matches are distributed among these distances:
35 7 0.04
36 4 0.02
37 29 0.18
38 8 0.05
39 7 0.04
40 20 0.12
41 24 0.15
42 46 0.28
43 10 0.06
44 9 0.05
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.10
Consensus pattern (38 bp):
AAAAGAAAAATAGAAAAAAATGAAAAATGAGAAAAAAG
Found at i:680638 original size:95 final size:95
Alignment explanation
Indices: 680460--680672 Score: 244
Period size: 96 Copynumber: 2.2 Consensus size: 95
680450 CTAAAAAAGA
*
680460 AATGAAAAAAGAAAAATAAAAAAATAAAAATGAAGAAAGAAGAAAAATGAAAAATGAAAAATGAA
1 AATGAAAAAAG-AAAATAAAAAAATAAAAATGAAGAAAGAAAAAAAATGAAAAATGAAAAATG-A
*
680525 AAAATGAAAAAATGAAAAAAAAA-ATGAAAAT-
64 AAAAGGAAAAAATGAAAAAAAAATA-GAAAATG
*
680556 AATGAAAAAATGAAAATAAAAAAA-GAAAA-GAA-AAATGAGAAAAAAATGAAAAATGATGAAAA
1 AATGAAAAAA-GAAAATAAAAAAATAAAAATGAAGAAA-GA-AAAAAAATG-AAAA--ATGAAAA
680618 ATG-AAAAGGAAAAAAT-AAAAAAAAATAGAAAATGG
60 ATGAAAAAGGAAAAAATGAAAAAAAAATAGAAAAT-G
*
680653 AA-GAAAAAAGAAAAGAAAAA
1 AATGAAAAAAGAAAATAAAAA
680673 TGATGAAAAA
Statistics
Matches: 104, Mismatches: 4, Indels: 19
0.82 0.03 0.15
Matches are distributed among these distances:
93 3 0.03
94 5 0.05
95 37 0.36
96 46 0.44
97 3 0.03
98 10 0.10
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (95 bp):
AATGAAAAAAGAAAATAAAAAAATAAAAATGAAGAAAGAAAAAAAATGAAAAATGAAAAATGAAA
AAGGAAAAAATGAAAAAAAAATAGAAAATG
Found at i:680649 original size:17 final size:17
Alignment explanation
Indices: 680540--680672 Score: 56
Period size: 17 Copynumber: 7.3 Consensus size: 17
680530 GAAAAAATGA
680540 AAAAAAAAAT-GAAAAT
1 AAAAAAAAATAGAAAAT
*
680556 AATGAAAAAAT-GAAAAT
1 AA-AAAAAAATAGAAAAT
*
680573 AAAAAAAGAAAAGAAAAAT
1 AAAAAAA-AATAG-AAAAT
* *
680592 GAGAAAAAAATGAAAAATGAT
1 -AAAAAAAAAT-AGAAA--AT
* *
680613 GAAAAATGAAAAGGAAAAAAT
1 -AAAAA--AAAA-TAGAAAAT
680634 AAAAAAAAATAGAAAAT
1 AAAAAAAAATAGAAAAT
* * *
680651 GGAAGAAAAA-AGAAAAG
1 -AAAAAAAAATAGAAAAT
680668 AAAAA
1 AAAAA
680673 TGATGAAAAA
Statistics
Matches: 90, Mismatches: 15, Indels: 24
0.70 0.12 0.19
Matches are distributed among these distances:
16 9 0.10
17 29 0.32
18 12 0.13
19 10 0.11
20 12 0.13
21 9 0.10
23 9 0.10
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (17 bp):
AAAAAAAAATAGAAAAT
Found at i:680699 original size:41 final size:39
Alignment explanation
Indices: 680520--680701 Score: 139
Period size: 41 Copynumber: 4.6 Consensus size: 39
680510 AAAATGAAAA
* * *
680520 ATGAAAAAATGAAAAAATGA-AAAAAA-AAATG-AAAATA
1 ATGAAAAAA-AAAAAAATGAGAAAAAAGAAAAGAAAAATG
**
680557 ATG-AAAAAATGAAAAT-A-AAAAAAGAAAAGAAAAATG
1 ATGAAAAAAAAAAAAATGAGAAAAAAGAAAAGAAAAATG
* *
680593 A-GAAAAAAATGAAAAATGATGAAAAATGAAAAGGAAAAA--
1 ATGAAAAAAA-AAAAAATGA-GAAAAAAGAAAA-GAAAAATG
*
680632 ATAAAAAAAAATAGAAAATGGAAGAAAAAAGAAAAGAAAAATG
1 ATGAAAAAAAA-A-AAAAT-G-AGAAAAAAGAAAAGAAAAATG
680675 ATGAAAAAAGAAAAAAATAGAGAAAAA
1 ATGAAAAAA-AAAAAAAT-GAGAAAAA
680702 TAAAAAGGGG
Statistics
Matches: 116, Mismatches: 13, Indels: 28
0.74 0.08 0.18
Matches are distributed among these distances:
34 7 0.06
35 10 0.09
36 17 0.15
37 8 0.07
38 1 0.01
39 1 0.01
40 18 0.16
41 24 0.21
42 18 0.16
43 10 0.09
44 2 0.02
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (39 bp):
ATGAAAAAAAAAAAAATGAGAAAAAAGAAAAGAAAAATG
Found at i:680707 original size:19 final size:19
Alignment explanation
Indices: 680485--680701 Score: 63
Period size: 19 Copynumber: 10.8 Consensus size: 19
680475 ATAAAAAAAT
* *
680485 AAAAATGAAGAAAGAAGAA
1 AAAAATGATGAAAAAAGAA
** *
680504 AAATGAAAAATGAAAAATG-A
1 AAA--AATGATGAAAAAAGAA
*
680524 AAAAATGA--AAAAATGAA
1 AAAAATGATGAAAAAAGAA
**
680541 AAAAAAAATGAAAATAATG-A
1 AAAAATGATGAAAA-AA-GAA
*
680561 AAAAATGAAAATAAAAAAAGAAAA
1 AAAAATG---ATGAAAAAAG--AA
*
680585 GAAAAATGA-GAAAAAA-ATG
1 -AAAAATGATGAAAAAAGA-A
*
680604 AAAAATGATGAAAAATGAA
1 AAAAATGATGAAAAAAGAA
** *
680623 AAGGAAAAAAT-AAAAAAAAA
1 AA--AAATGATGAAAAAAGAA
*
680643 TAGAAAATGGAAGAAAAAAGAAAA
1 -A-AAAAT-GATGAAAAAAG--AA
680667 GAAAAATGATGAAAAAAGAA
1 -AAAAATGATGAAAAAAGAA
680687 AAAAATAGA-GAAAAA
1 AAAAAT-GATGAAAAA
680702 TAAAAAGGGG
Statistics
Matches: 145, Mismatches: 27, Indels: 52
0.65 0.12 0.23
Matches are distributed among these distances:
16 7 0.05
17 7 0.05
18 12 0.08
19 27 0.19
20 26 0.18
21 24 0.17
22 20 0.14
23 11 0.08
24 4 0.03
25 7 0.05
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (19 bp):
AAAAATGATGAAAAAAGAA
Found at i:680753 original size:44 final size:45
Alignment explanation
Indices: 680705--680789 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
680695 AGAAAAATAA
* * *
680705 AAAGGGGGT-TCAAGATGAAAATCCGCAAAGGGCGTCTTGAAACT
1 AAAGGAGGTCTCAAGATGAAAACCCGCAAAGGGCGACTTGAAACT
*
680749 AAAGGAGGTCTCAAGTTGAAAACCCGCAAAGGGCGACTTGA
1 AAAGGAGGTCTCAAGATGAAAACCCGCAAAGGGCGACTTGA
680790 GTTTTGTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 8 0.22
45 28 0.78
ACGTcount: A:0.36, C:0.18, G:0.29, T:0.16
Consensus pattern (45 bp):
AAAGGAGGTCTCAAGATGAAAACCCGCAAAGGGCGACTTGAAACT
Found at i:681768 original size:16 final size:17
Alignment explanation
Indices: 681731--681765 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
681721 AGGTTTCCCA
681731 AAGATAGTTGAAGATTG
1 AAGATAGTTGAAGATTG
681748 AAGATA-TTGAAGCATTG
1 AAGATAGTTGAAG-ATTG
681765 A
1 A
681766 GATGAAGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.43, C:0.03, G:0.26, T:0.29
Consensus pattern (17 bp):
AAGATAGTTGAAGATTG
Found at i:682145 original size:55 final size:55
Alignment explanation
Indices: 682074--682361 Score: 377
Period size: 55 Copynumber: 5.2 Consensus size: 55
682064 GTTGAAGATT
* *
682074 GAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATAAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
*
682129 GAGTTCTATACTCTCTGAATGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
682184 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
* * * *
682239 GAGTTATATACTCCCTGAACGG-ATTGGGAGCGGACCCG-TTTATTGAAGATTGTTC
1 GAGTTCTATACTCTCTGAA-GGAATAGAGAGCGGACCCGTTTTA-TGAAGATTGTTC
* * * * * ***
682294 GAGTAT-TATACTCCCTGAATGAATAGGGAGCAGACACGTTTGCCGAAGATTGTTC
1 GAGT-TCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
682349 GAG-TCTTATACTC
1 GAGTTC-TATACTC
682362 CTTAAAAGAA
Statistics
Matches: 211, Mismatches: 15, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
53 1 0.00
54 5 0.02
55 200 0.95
56 5 0.02
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (55 bp):
GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
Found at i:682362 original size:55 final size:55
Alignment explanation
Indices: 682074--682399 Score: 374
Period size: 55 Copynumber: 5.9 Consensus size: 55
682064 GTTGAAGATT
* * *
682074 GAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATAAAGATTGTTC
1 GAGTTCTATACTCCCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
* *
682129 GAGTTCTATACTCTCTGAATGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
1 GAGTTCTATACTCCCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
*
682184 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
1 GAGTTCTATACTCCCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
* * *
682239 GAGTTATATACTCCCTGAACGG-ATTGGGAGCGGACCCG-TTTATTGAAGATTGTTC
1 GAGTTCTATACTCCCTGAA-GGAATAGAGAGCGGACCCGTTTTA-TGAAGATTGTTC
* * * * ***
682294 GAGTAT-TATACTCCCTGAATGAATAGGGAGCAGACACGTTTGCCGAAGATTGTTC
1 GAGT-TCTATACTCCCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
* * * * **
682349 GAG-TCTTATACTCCTTAAAAGAATAGGGAGCAAACCCGTTATT-TGAAGATT
1 GAGTTC-TATACTCCCTGAAGGAATAGAGAGCGGACCCGTT-TTATGAAGATT
682400 TTTCAAGTCT
Statistics
Matches: 241, Mismatches: 22, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
53 1 0.00
54 5 0.02
55 229 0.95
56 6 0.02
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (55 bp):
GAGTTCTATACTCCCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
Found at i:685056 original size:105 final size:105
Alignment explanation
Indices: 684945--685159 Score: 430
Period size: 105 Copynumber: 2.0 Consensus size: 105
684935 CATACTTTAA
684945 TTTTTTATTTTAATTAAAATTAATTTTTATTTAAAATAACAAACATTTTTGGGTGCCCAATCACA
1 TTTTTTATTTTAATTAAAATTAATTTTTATTTAAAATAACAAACATTTTTGGGTGCCCAATCACA
685010 CTCTAATCAAAGATTGGTGGCGACTCTTTGAGCCGTATTT
66 CTCTAATCAAAGATTGGTGGCGACTCTTTGAGCCGTATTT
685050 TTTTTTATTTTAATTAAAATTAATTTTTATTTAAAATAACAAACATTTTTGGGTGCCCAATCACA
1 TTTTTTATTTTAATTAAAATTAATTTTTATTTAAAATAACAAACATTTTTGGGTGCCCAATCACA
685115 CTCTAATCAAAGATTGGTGGCGACTCTTTGAGCCGTATTT
66 CTCTAATCAAAGATTGGTGGCGACTCTTTGAGCCGTATTT
685155 TTTTT
1 TTTTT
685160 ATTGTAAAGG
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 110 1.00
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (105 bp):
TTTTTTATTTTAATTAAAATTAATTTTTATTTAAAATAACAAACATTTTTGGGTGCCCAATCACA
CTCTAATCAAAGATTGGTGGCGACTCTTTGAGCCGTATTT
Found at i:688625 original size:37 final size:36
Alignment explanation
Indices: 688566--688685 Score: 181
Period size: 35 Copynumber: 3.3 Consensus size: 36
688556 ATCCCATTAT
* *
688566 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
688602 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
688638 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
688673 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
688686 TTGGTTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
35 35 0.45
36 13 0.17
37 29 0.38
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:688641 original size:21 final size:21
Alignment explanation
Indices: 688617--688677 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
688607 TTCAAAGAAA
688617 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
688638 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
688652 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
688673 CATTT
1 CATTT
688678 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:688694 original size:35 final size:36
Alignment explanation
Indices: 688568--688712 Score: 142
Period size: 35 Copynumber: 4.1 Consensus size: 36
688558 CCCATTATCA
*
688568 TTTTTCAACA-AACA-TCTACCAAACTTTGAAAAAC-T
1 TTTTTCAA-AGAACAGT-TACCAAACTTTGAAAACCAT
*
688603 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACCA-
1 -TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
*
688640 -TTTTCAAAGAAACATTTACCAAACTTTGAAAACCAT
1 TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
***
688676 TTTTTCAAAG-TTGGTTACCAAAC-TTGAAAACCAT
1 TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
688710 TTT
1 TTT
688713 AATACTTTCA
Statistics
Matches: 98, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
34 14 0.14
35 45 0.46
36 8 0.08
37 30 0.31
38 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.33
Consensus pattern (36 bp):
TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
Found at i:692767 original size:16 final size:16
Alignment explanation
Indices: 692743--692776 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
692733 TATCGCCGAC
*
692743 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
692759 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
692775 CG
1 CG
692777 TGAATAGTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:693243 original size:37 final size:36
Alignment explanation
Indices: 693184--693303 Score: 172
Period size: 35 Copynumber: 3.3 Consensus size: 36
693174 ATCCTATTAT
* *
693184 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
* *
693220 TATTTTTCAAAGAAACATTTACCAAAATTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
693256 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
693291 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
693304 TTGGTTACCA
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
35 34 0.45
36 13 0.17
37 28 0.37
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:693259 original size:21 final size:21
Alignment explanation
Indices: 693235--693295 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
693225 TTCAAAGAAA
693235 CATTTACCAAAATTTGAAAAC
1 CATTTACCAAAATTTGAAAAC
*
693256 CATTT-TC-AAA---G-AAA-
1 CATTTACCAAAATTTGAAAAC
*
693270 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAAATTTGAAAAC
693291 CATTT
1 CATTT
693296 TTTCAAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 14
0.64 0.06 0.30
Matches are distributed among these distances:
14 5 0.17
15 4 0.13
16 3 0.10
19 4 0.13
20 4 0.13
21 10 0.33
ACGTcount: A:0.44, C:0.20, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAAATTTGAAAAC
Found at i:694834 original size:51 final size:51
Alignment explanation
Indices: 694769--694903 Score: 153
Period size: 51 Copynumber: 2.6 Consensus size: 51
694759 CACCCGTAGC
* * * *
694769 AGTAAAGCGCGCCCCCTGAACCGCGCTATATGCTGATTTGGCGCCACGTGG
1 AGTATAGCGCGCCCCCTGAACCGCGCTATATGCTGACTGGGCGACACGTGG
* * **
694820 AGTATAGCGCGCCCCCTGTACCGCGCTATACGCTGACTGGGTTACACGTGG
1 AGTATAGCGCGCCCCCTGAACCGCGCTATATGCTGACTGGGCGACACGTGG
* * * **
694871 GGTATAGCGTGGCCCCTGCTCCGCGCTATATGC
1 AGTATAGCGCGCCCCCTGAACCGCGCTATATGC
694904 CACGTAGGGG
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 70 1.00
ACGTcount: A:0.17, C:0.32, G:0.30, T:0.21
Consensus pattern (51 bp):
AGTATAGCGCGCCCCCTGAACCGCGCTATATGCTGACTGGGCGACACGTGG
Found at i:698544 original size:35 final size:34
Alignment explanation
Indices: 698459--698545 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
698449 ATTTGGTATT
*
698459 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
698493 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
698531 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
698546 AGTTAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:698778 original size:15 final size:15
Alignment explanation
Indices: 698758--698792 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
698748 ACTCCTCGCT
*
698758 GTCATCATCGTCGTC
1 GTCATCATCATCGTC
*
698773 GTCATCGTCATCGTC
1 GTCATCATCATCGTC
698788 GTCAT
1 GTCAT
698793 TGTTGTCCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.14, C:0.31, G:0.20, T:0.34
Consensus pattern (15 bp):
GTCATCATCATCGTC
Found at i:699162 original size:18 final size:18
Alignment explanation
Indices: 699139--699176 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
699129 AAGGCGATGA
699139 CGACATCATATATGGCTG
1 CGACATCATATATGGCTG
*
699157 CGACATCATATTTGGCTG
1 CGACATCATATATGGCTG
699175 CG
1 CG
699177 GTGGCTGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (18 bp):
CGACATCATATATGGCTG
Found at i:700894 original size:111 final size:111
Alignment explanation
Indices: 700686--701018 Score: 558
Period size: 111 Copynumber: 3.0 Consensus size: 111
700676 ATTACAAAAA
700686 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* * *
700751 AATTAAAATGTTAAAATCTTACCGTATTAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
* *
700797 TTAATTTTTAATCTAATAATCATACATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* * *
700862 AATTAAAACGTTAAAATGTTACTGTATCAGCAAAATATCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
* *
700908 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAATTTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* *
700973 AAATAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
701019 ATGATTTCCA
Statistics
Matches: 205, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
111 205 1.00
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
Found at i:701350 original size:50 final size:50
Alignment explanation
Indices: 701296--701410 Score: 135
Period size: 49 Copynumber: 2.3 Consensus size: 50
701286 AGATACGCAG
* *
701296 GTATAGCGCGGATCAGGGGGC-ACGTTATACCCACGTGGCGTCAAATCACC
1 GTATAGCGCGGATCAGGGGGCGA-GTTATACCCACGTGACGCCAAATCACC
* ** * *
701346 GTATATCGCGGGGCA-GGGGCGATTTATACCCACGTGACGCCAAATCAGC
1 GTATAGCGCGGATCAGGGGGCGAGTTATACCCACGTGACGCCAAATCACC
*
701395 GTATAGCGCGGTTCAG
1 GTATAGCGCGGATCAG
701411 AGAGCGCGCT
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
49 40 0.75
50 13 0.25
ACGTcount: A:0.23, C:0.26, G:0.31, T:0.19
Consensus pattern (50 bp):
GTATAGCGCGGATCAGGGGGCGAGTTATACCCACGTGACGCCAAATCACC
Found at i:707798 original size:73 final size:72
Alignment explanation
Indices: 707709--707959 Score: 176
Period size: 75 Copynumber: 3.5 Consensus size: 72
707699 AAAAATCGGG
* ** * *
707709 TTTTTGAAAATATAT-A-ATATGGTTTTGAAAATA-TGATTTAAAAACATATATTATATATTTTT
1 TTTTTGAAAACATATAATATATAATTTTAAAAATAGT-ATTTAAAAACATATATTATATA-ATTT
*
707771 TAAAAAATATT
64 T-AAAAATA-A
* * *
707782 TTTTTGAAAACGTATAATATATAATTTTAAAAATAGTTTTTGAAAACATATATTATATAATTTTA
1 TTTTTGAAAACATATAATATATAATTTTAAAAATAGTATTTAAAAACATATATTATATAATTTTA
707847 AAAATAA
66 AAAATAA
* * * * * *
707854 TTTTTGAAAAAATATATAAATTATATAGTTTTTAAAAACA--ATTT---AACGTATAATATATAG
1 TTTTTG--AAAACATAT-AA-TATATA-ATTTTAAAAATAGTATTTAAAAACATATATTATATAA
* *
707914 TTTAAAAAAACAA
61 TTT-TAAAAATAA
** *
707927 TTTTTGAAAACATATCTTATATAATTTGAAAAA
1 TTTTTGAAAACATATAATATATAATTTTAAAAA
707960 CATATATATA
Statistics
Matches: 145, Mismatches: 24, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
68 8 0.06
69 6 0.04
71 8 0.06
72 22 0.15
73 33 0.23
74 12 0.08
75 39 0.27
76 7 0.05
77 10 0.07
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (72 bp):
TTTTTGAAAACATATAATATATAATTTTAAAAATAGTATTTAAAAACATATATTATATAATTTTA
AAAATAA
Found at i:707839 original size:36 final size:36
Alignment explanation
Indices: 707749--707959 Score: 171
Period size: 36 Copynumber: 5.8 Consensus size: 36
707739 ATATGATTTA
* *
707749 AAAACATATATTATATATTTTTTAAAAAATATTTTTTTG
1 AAAACATATATTATATA-ATTTT-AAAAATA-ATTTTTG
* * *
707788 AAAACGTATAATATATAATTTTAAAAATAGTTTTTG
1 AAAACATATATTATATAATTTTAAAAATAATTTTTG
707824 AAAACATATATTATATAATTTTAAAAATAATTTTTG
1 AAAACATATATTATATAATTTTAAAAATAATTTTTG
* * *
707860 AAAAAATATATAAATTATATAGTTTTTAAAAACAA--TTT-
1 --AAAACATAT--ATTATATA-ATTTTAAAAATAATTTTTG
* * * * *
707898 --AACGTATAATATATAGTTTAAAAAAACAATTTTTG
1 AAAACATATATTATATAATTT-TAAAAATAATTTTTG
* *
707933 AAAACATATCTTATATAATTTGAAAAA
1 AAAACATATATTATATAATTTTAAAAA
707960 CATATATATA
Statistics
Matches: 141, Mismatches: 20, Indels: 25
0.76 0.11 0.13
Matches are distributed among these distances:
31 3 0.02
32 15 0.11
34 8 0.06
36 44 0.31
37 22 0.16
38 12 0.09
39 18 0.13
40 8 0.06
41 11 0.08
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.42
Consensus pattern (36 bp):
AAAACATATATTATATAATTTTAAAAATAATTTTTG
Found at i:707967 original size:57 final size:57
Alignment explanation
Indices: 707906--708015 Score: 159
Period size: 56 Copynumber: 1.9 Consensus size: 57
707896 TTAACGTATA
* *
707906 ATATATAGTTTAAAAAAACAATTTTTGAAAACATATCTTATATAA-TTTGAAAAACAT
1 ATATATAGTTTAAAAAAA-AACTTTTGAAAACATATATTATATAATTTTGAAAAACAT
* **
707963 ATATATATTTTTGAAAAAAACTTTTGAAAACATATATTATATAATTTTGAAAA
1 ATATATAGTTTAAAAAAAAACTTTTGAAAACATATATTATATAATTTTGAAAA
708016 TAATTTTTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
56 24 0.51
57 23 0.49
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (57 bp):
ATATATAGTTTAAAAAAAAACTTTTGAAAACATATATTATATAATTTTGAAAAACAT
Found at i:707981 original size:22 final size:22
Alignment explanation
Indices: 707926--707980 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
707916 TAAAAAAACA
*
707926 ATTTTTG-AAAACATATCTTAT
1 ATTTTTGAAAAACATATCATAT
*
707947 ATAATTTGAAAAACATAT-ATAT
1 AT-TTTTGAAAAACATATCATAT
707969 ATTTTTGAAAAA
1 ATTTTTGAAAAA
707981 AACTTTTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 11 0.38
22 9 0.31
23 9 0.31
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (22 bp):
ATTTTTGAAAAACATATCATAT
Found at i:708011 original size:36 final size:34
Alignment explanation
Indices: 707951--708050 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 34
707941 TCTTATATAA
707951 TTTGAAAAACATATA-TATATTTTTGAAAAAAACT
1 TTTG-AAAACATATATTATATTTTTGAAAAAAACT
* *
707985 TTTGAAAACATATATTATATAATTTTGAAAATAATT
1 TTTGAAAACATATATTATAT--TTTTGAAAAAAACT
* * *
708021 TTTGAAAGCATATATAAATGTTTTTGAAAA
1 TTTGAAAACATATAT-TATATTTTTGAAAA
708051 CATATTGTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
33 10 0.18
34 9 0.16
35 9 0.16
36 26 0.46
37 3 0.05
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (34 bp):
TTTGAAAACATATATTATATTTTTGAAAAAAACT
Found at i:708113 original size:15 final size:15
Alignment explanation
Indices: 708093--708123 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
708083 ATTTAATTCA
*
708093 TATTATTCATTTTTT
1 TATTATTAATTTTTT
708108 TATTATTAATTTTTT
1 TATTATTAATTTTTT
708123 T
1 T
708124 TCGTTTTTGT
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:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (15 bp):
TATTATTAATTTTTT
Found at i:713038 original size:24 final size:24
Alignment explanation
Indices: 713011--713058 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
713001 ACTTCAAGGG
713011 GACTCATCCACTGTAAAAGCACAA
1 GACTCATCCACTGTAAAAGCACAA
* ** *
713035 GACTCGTCTGCTGTAAAAGTACAA
1 GACTCATCCACTGTAAAAGCACAA
713059 ATTGATGTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.21
Consensus pattern (24 bp):
GACTCATCCACTGTAAAAGCACAA
Found at i:721582 original size:36 final size:34
Alignment explanation
Indices: 721534--721655 Score: 96
Period size: 36 Copynumber: 3.6 Consensus size: 34
721524 AAAAATTGAT
721534 TTTTG-AAA-ATATATAATATGGTTTTGAAAATATG
1 TTTTGAAAACATATATAATAT-GTTTTGAAAATA-G
* *
721568 TTTT-AAAA-ACATAT-ATA-GTTTTGAAAATAAA
1 TTTTGAAAACATATATAATATGTTTTGAAAAT-AG
* *
721599 TTTTGAAAACATATA-ATATATAGTTTTAAAAACAG
1 TTTTGAAAACATATATA-ATAT-GTTTTGAAAATAG
*
721634 TTTTTGAAAACATATATTATAT
1 -TTTTGAAAACATATATAATAT
721656 AATTTTAAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
31 15 0.21
32 5 0.07
33 7 0.10
34 15 0.21
35 1 0.01
36 28 0.39
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.42
Consensus pattern (34 bp):
TTTTGAAAACATATATAATATGTTTTGAAAATAG
Found at i:721649 original size:31 final size:30
Alignment explanation
Indices: 721532--721650 Score: 94
Period size: 31 Copynumber: 3.6 Consensus size: 30
721522 TCAAAAATTG
*
721532 ATTTTTGAAAATATATAATATGGTTTTGAAAAT
1 ATTTTTGAAAACATAT-ATA--GTTTTGAAAAT
*
721565 ATGTTTTAAAAACATATATAGTTTTGAAAAT
1 AT-TTTTGAAAACATATATAGTTTTGAAAAT
* * *
721596 AAATTTTGAAAACATATAATATATAGTTTTAAAAAC
1 -ATTTTTGAAAAC-----ATATATAGTTTTGAAAAT
721632 AGTTTTTGAAAACATATAT
1 A-TTTTTGAAAACATATAT
721651 TATATAATTT
Statistics
Matches: 71, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
31 26 0.37
32 1 0.01
33 5 0.07
34 12 0.17
35 1 0.01
36 26 0.37
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.41
Consensus pattern (30 bp):
ATTTTTGAAAACATATATAGTTTTGAAAAT
Found at i:721674 original size:72 final size:72
Alignment explanation
Indices: 721579--721715 Score: 213
Period size: 72 Copynumber: 1.9 Consensus size: 72
721569 TTTAAAAACA
* * * * *
721579 TATATAGTTTTGAAAATAAATTTTGAAAACATATAATATATAGTTT-TAAAAACAGTTTTTGAAA
1 TATATAATTTTAAAAACAAATTTTG-AAACATATAATATATAGTTTAAAAAAACAATTTTTGAAA
721643 ACATATAT
65 ACATATAT
721651 TATATAATTTTAAAAACAAATTTTGAAACATATAATATATAGTTTAAAAAAACAATTTTTGAAAA
1 TATATAATTTTAAAAACAAATTTTGAAACATATAATATATAGTTTAAAAAAACAATTTTTGAAAA
721716 ACAACTTTTA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 20 0.34
72 39 0.66
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (72 bp):
TATATAATTTTAAAAACAAATTTTGAAACATATAATATATAGTTTAAAAAAACAATTTTTGAAAA
CATATAT
Found at i:721690 original size:35 final size:36
Alignment explanation
Indices: 721578--721715 Score: 188
Period size: 36 Copynumber: 3.8 Consensus size: 36
721568 TTTTAAAAAC
* *
721578 ATATATAGTTTTGAAAATAAATTTTGAAAACATATA
1 ATATATAGTTTTAAAAACAAATTTTGAAAACATATA
**
721614 ATATATAGTTTTAAAAACAGTTTTTGAAAACATATA
1 ATATATAGTTTTAAAAACAAATTTTGAAAACATATA
* *
721650 TTATATAATTTTAAAAACAAATTTTG-AAACATATA
1 ATATATAGTTTTAAAAACAAATTTTGAAAACATATA
* *
721685 ATATATAGTTTAAAAAAACAATTTTTGAAAA
1 ATATATAGTTT-TAAAAACAAATTTTGAAAA
721716 ACAACTTTTA
Statistics
Matches: 88, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
35 18 0.20
36 67 0.76
37 3 0.03
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (36 bp):
ATATATAGTTTTAAAAACAAATTTTGAAAACATATA
Found at i:721728 original size:13 final size:14
Alignment explanation
Indices: 721698--721731 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
721688 TATAGTTTAA
*
721698 AAAAACAATTTTTG
1 AAAAACAACTTTTG
721712 AAAAACAACTTTT-
1 AAAAACAACTTTTG
721725 AAAAACA
1 AAAAACA
721732 TATATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.59, C:0.12, G:0.03, T:0.26
Consensus pattern (14 bp):
AAAAACAACTTTTG
Found at i:721755 original size:50 final size:50
Alignment explanation
Indices: 721658--721764 Score: 137
Period size: 50 Copynumber: 2.2 Consensus size: 50
721648 TATTATATAA
* *
721658 TTTT-AAAAACAAATTTTGAAACATATAATATATAGTTTAAAAAAACAAT
1 TTTTGAAAAACAAATTTTAAAACATATAATATATAATTTAAAAAAACAAT
* * **
721707 TTTTGAAAAACAACTTTTAAAAACATATATTATATAATTT-TGAAAACAAT
1 TTTTGAAAAACAAATTTT-AAAACATATAATATATAATTTAAAAAAACAAT
721757 TTTTGAAA
1 TTTTGAAA
721765 GAATATATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
49 4 0.08
50 28 0.56
51 18 0.36
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (50 bp):
TTTTGAAAAACAAATTTTAAAACATATAATATATAATTTAAAAAAACAAT
Found at i:721796 original size:86 final size:85
Alignment explanation
Indices: 721622--721780 Score: 223
Period size: 86 Copynumber: 1.9 Consensus size: 85
721612 TAATATATAG
** *
721622 TTTTAAAAACAGTTTTTGAAAACATATATTATATAATTTTAAAAACAAATTTTGAAACATATAAT
1 TTTTAAAAACAACTTTTAAAAACATATATTATATAATTTTAAAAACAAATTTTGAAACATATAAT
*
721687 ATATAGTTTAAAAAAACAAT
66 ATAAAGTTTAAAAAAACAAT
* * *
721707 TTTTGAAAAACAACTTTTAAAAACATATATTATATAATTTTGAAAACAATTTTTGAAAGA-AT-A
1 TTTT-AAAAACAACTTTTAAAAACATATATTATATAATTTTAAAAACAAATTTTGAAACATATAA
721770 TATAAACGTTT
65 TATAAA-GTTT
721781 TTGAAAACAT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
84 6 0.09
85 10 0.15
86 49 0.75
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (85 bp):
TTTTAAAAACAACTTTTAAAAACATATATTATATAATTTTAAAAACAAATTTTGAAACATATAAT
ATAAAGTTTAAAAAAACAAT
Found at i:721850 original size:17 final size:18
Alignment explanation
Indices: 721828--721861 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
721818 GTTTAATTCA
*
721828 TATTATTCA-TTTTTTTT
1 TATTATTAACTTTTTTTT
721845 TATTATTAACTTTTTTT
1 TATTATTAACTTTTTTT
721862 GGTTTTTGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTATTAACTTTTTTTT
Found at i:727322 original size:15 final size:16
Alignment explanation
Indices: 727302--727338 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
727292 AAGGTAGTAT
727302 CGATACC-AAGGGTAC
1 CGATACCAAAGGGTAC
727317 CGATACCATAAGGGTAC
1 CGATACCA-AAGGGTAC
727334 CGATA
1 CGATA
727339 TCATAAGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.35
17 13 0.65
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.16
Consensus pattern (16 bp):
CGATACCAAAGGGTAC
Found at i:727329 original size:17 final size:17
Alignment explanation
Indices: 727309--727347 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
727299 TATCGATACC
727309 AAGGGTACCGATACCAT
1 AAGGGTACCGATACCAT
*
727326 AAGGGTACCGATATCAT
1 AAGGGTACCGATACCAT
727343 AAGGG
1 AAGGG
727348 CAGTATCGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (17 bp):
AAGGGTACCGATACCAT
Found at i:728058 original size:22 final size:21
Alignment explanation
Indices: 727990--728058 Score: 59
Period size: 23 Copynumber: 3.1 Consensus size: 21
727980 GAGACATATT
*
727990 TGGTCCTT-TGGAATATGTATA
1 TGGTCCTTATGGAAT-TTTATA
* * *
728011 TGGTTCTGAAGGAGATTTCTATA
1 TGGTCCTTATGGA-ATTT-TATA
728034 TGGTCCTTATGGACATTTTATA
1 TGGTCCTTATGGA-ATTTTATA
728056 TGG
1 TGG
728059 CTCTTTGGTG
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
21 6 0.16
22 11 0.30
23 20 0.54
ACGTcount: A:0.23, C:0.10, G:0.25, T:0.42
Consensus pattern (21 bp):
TGGTCCTTATGGAATTTTATA
Found at i:728092 original size:23 final size:23
Alignment explanation
Indices: 728065--728119 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
728055 ATGGCTCTTT
*
728065 GGTGCATTTCTACGCGGTACTTC
1 GGTGCATTTCTACGCGGCACTTC
*
728088 GGTGCATTTCTACGTGGCACTTC
1 GGTGCATTTCTACGCGGCACTTC
728111 GGTGCATTT
1 GGTGCATTT
728120 ATATGAGCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.13, C:0.24, G:0.27, T:0.36
Consensus pattern (23 bp):
GGTGCATTTCTACGCGGCACTTC
Found at i:730821 original size:43 final size:42
Alignment explanation
Indices: 730774--730896 Score: 110
Period size: 43 Copynumber: 2.9 Consensus size: 42
730764 AATAGGATTT
730774 TTATTTAATATATATATAAAATATAAAAATAAGTAAATAAATA
1 TTATTTAATATATATATAAAATATAAAAATAA-TAAATAAATA
* * * * *
730817 TTATTTATTATATAT-TTATATGATACATAATAAT-AATCAATA
1 TTATTTAATATATATATAAAAT-ATA-AAAATAATAAATAAATA
* * *
730859 ATAATTAA-ATATATA-AACATATAAAAATAAATAAATAA
1 TTATTTAATATATATATAAAATATAAAAAT-AATAAATAA
730897 CGACTAAAAT
Statistics
Matches: 63, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
39 4 0.06
40 6 0.10
41 13 0.21
42 16 0.25
43 18 0.29
44 6 0.10
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (42 bp):
TTATTTAATATATATATAAAATATAAAAATAATAAATAAATA
Found at i:732321 original size:39 final size:38
Alignment explanation
Indices: 732273--732414 Score: 153
Period size: 39 Copynumber: 3.7 Consensus size: 38
732263 AGGTCGAACA
*
732273 AGTTCTTCTCATTATGAACTTCTTATTCCTCTCAAGATG
1 AGTTATTCTCATTATGAACTTCTTATTCCTCTC-AGATG
* * * *
732312 AGTTATTCTCATTATGAACTTATTCTTCTTCTTTAGATG
1 AGTTATTCTCATTATGAACTTCTTATTCCTC-TCAGATG
* *
732351 AG-TACTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
1 AGTTA-TTCTCATTATGAACTTCTTATTCC-TC-TCAGATG
*
732391 AGTTTTTCTCATTATGAAC-TCTTA
1 AGTTATTCTCATTATGAACTTCTTA
732415 CACTGGGGAT
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 59 0.68
40 25 0.29
41 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.48
Consensus pattern (38 bp):
AGTTATTCTCATTATGAACTTCTTATTCCTCTCAGATG
Done.