Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_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: 8415618
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 26 of 40
Found at i:5183848 original size:23 final size:23
Alignment explanation
Indices: 5183817--5183875 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
5183807 ATAGGTAAAA
*
5183817 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
5183840 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
5183863 ATATAATGTAATA
1 ATATAATGTAATA
5183876 TGTAAAGTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:5183882 original size:416 final size:417
Alignment explanation
Indices: 5182788--5184650 Score: 3231
Period size: 416 Copynumber: 4.5 Consensus size: 417
5182778 GTTAATGTTG
*
5182788 TTAAATT-TAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
5182852 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTT--AAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
* *
5182915 AAATGACATAACTTTAAAAGAAGTATCAATCC-TTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
5182979 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCG-TTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
* *
5183043 ATATGTAAACTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAATATTAAT
261 ATATGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAAT
5183108 TTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA
326 TTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA
5183173 TTTTTTACGTTACGATATATATTATTA
391 TTTTTTACGTTACGATATATATTATTA
5183200 TTAAATT-AAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
5183264 ATGAAATTATTAAATT-ATA-TGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
5183327 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
5183392 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
5183457 ATATGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAAT
261 ATATGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAAT
*
5183522 TTAAGGTTATCCTTTGAGTCAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA
326 TTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA
5183587 TTTTTTACGTTACGATATATATTATTA
391 TTTTTTACGTTACGATATATATTATTA
5183614 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
5183679 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
5183743 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
5183808 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
*
5183873 ATATGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAAT
261 ATATGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAAT
*
5183938 TTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA
326 TTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA
5184003 TTTTTTACGTTACG--ATATATTATTA
391 TTTTTTACGTTACGATATATATTATTA
* *
5184028 TTAAATTAAAAATTCTAAATATTA-TTT-TAAAATATTAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
5184091 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
* *
5184156 AAATTACTTAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTCTGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
5184221 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCG-TT-TAT-A--TA
* * * * *
5184286 ATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAACGTTTCCATACTTTTTTGACTG
256 AT--GTA------ATA-TGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTG
5184351 TGGAAAACATTAATTTAAGGTTAT-CTTTGA-TGAGTTTTAAGATATTAATTTAGTAATTATAGG
312 TGGAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
*
5184414 TGTCTAATGATTTA-TTTTTACGTTACGATATATATTA-TA
377 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
5184453 -TAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
* *
5184517 ATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAATACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
* *
5184582 AAATTACATAACTTTAAAAGAATTATCGATCTTTTTTATAAAAAGTATGGACACTATTTCAATAT
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACAC--TTTCAATAT
5184647 AATA
194 AATA
5184651 TAATGTAATA
Statistics
Matches: 1395, Mismatches: 28, Indels: 40
0.95 0.02 0.03
Matches are distributed among these distances:
410 26 0.02
411 3 0.00
412 207 0.15
413 217 0.16
414 209 0.15
415 76 0.05
416 291 0.21
417 27 0.02
418 4 0.00
420 3 0.00
424 36 0.03
425 51 0.04
426 164 0.12
427 68 0.05
428 13 0.01
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (417 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
ATATGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAAT
TTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA
TTTTTTACGTTACGATATATATTATTA
Found at i:5184261 original size:23 final size:23
Alignment explanation
Indices: 5184230--5184302 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
5184220 ATAGGTAAAA
*
5184230 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
5184253 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
5184276 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
5184299 ATAT
1 ATAT
5184303 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:5184286 original size:829 final size:831
Alignment explanation
Indices: 5182788--5184650 Score: 3232
Period size: 829 Copynumber: 2.2 Consensus size: 831
5182778 GTTAATGTTG
*
5182788 TTAAATT-TAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
5182852 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTT-AAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
* *
5182916 AATGACATAACTTTAAAAGAAGTATCAATCC-TTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
5182980 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTATATAATGTAAT
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTATATAATGTAAT
*
5183045 ATGTAAACTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAATATTAATTT
261 ATGTAAACTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTT
5183110 AAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATT
326 AAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATT
5183175 TTTTACGTTACGATATATATTATTATTAAATTAAAATTCTAAATAATATTTTATAAAATATCAAA
391 TTTTACGTTACGA-ATATATTATTATTAAATTAAAATTCTAAATAATATTTTATAAAATATCAAA
5183240 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTATATGTAGGTGGAAAACATGAAACA
455 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTATATGTAGGTGGAAAACATGAAACA
5183305 CTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAA
520 CTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAA
5183370 AGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAA
585 AGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAA
* *
5183435 TAGGTATCG-TT-TAT-A-TAAT-GTA-ATA-TGTAAAGTGTCTATCATTTTTATAAAAGTGTCC
650 TAGGTAGCGTTTATATAAGTAATAGTATATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCC
5183493 ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCCTTTGAGTCAGTTTTAAGATATTAA
715 ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAT-CTTTGA-TCAGTTTTAAGATATTAA
5183558 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
778 TTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTTACGATATATATTA-TA
5183614 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
5183679 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
5183744 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
5183809 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCG-TTATATAATGTAA
* *
5183874 TATGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATT
260 TATGTAAACTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATT
*
5183939 TAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTAT
325 TAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTAT
* *
5184004 TTTTTACGTTACG-ATATATTATTATTAAATTAAAAATTCTAAATATTA-TTT-TAAAATATTAA
390 TTTTTACGTTACGAATATATTATTATTAAATT-AAAATTCTAAATAATATTTTATAAAATATCAA
5184066 AACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
454 AACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATT-ATA-TGTAGGTGGAAAACATGAA
*
5184131 ACACTATTAAAAAAAATTGAAACATAAATTACTTAACTTTAAAAGAAGTATCGATCCTTTTTATA
517 ACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATA
*
5184196 AAAAGTCTGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATG
582 AAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATG
*
5184261 TAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTAT
647 TAATAGGTAGCGTTTATATAA-GTAATA-GTA-----TATATTGTAAAGTATCTATCATTTTTAT
* * * *
5184326 AAACGTTTCCATACTTTTTTGACTGTGGAAAACATTAATTTAAGGTTATCTTTGATGAGTTTTAA
705 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTGATCAGTTTTAA
*
5184391 GATATTAATTTAGTAATTATAGGTGTCTAATGATTTATTTTTACGTTACGATATATATTATA
770 GATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTACGATATATATTATA
*
5184453 -TAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
* *
5184517 ATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAATACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACAT
* *
5184582 AAATTACATAACTTTAAAAGAATTATCGATCTTTTTTATAAAAAGTATGGACACTATTTCAATAT
130 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACAC--TTTCAATAT
5184647 AATA
193 AATA
5184651 TAATGTAATA
Statistics
Matches: 988, Mismatches: 25, Indels: 33
0.94 0.02 0.03
Matches are distributed among these distances:
826 7 0.01
827 154 0.16
828 69 0.07
829 257 0.26
830 154 0.16
831 3 0.00
832 1 0.00
834 4 0.00
836 3 0.00
838 109 0.11
839 70 0.07
840 23 0.02
841 58 0.06
842 9 0.01
843 67 0.07
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (831 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTATATAATGTAAT
ATGTAAACTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTT
AAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATT
TTTTACGTTACGAATATATTATTATTAAATTAAAATTCTAAATAATATTTTATAAAATATCAAAA
CAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTATATGTAGGTGGAAAACATGAAACAC
TATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAA
GTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAAT
AGGTAGCGTTTATATAAGTAATAGTATATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCA
TACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTGATCAGTTTTAAGATATTAATTT
AGTAATTATAGGCGTCTAATGATTTATTTTTACGTTACGATATATATTATA
Found at i:5185819 original size:25 final size:26
Alignment explanation
Indices: 5185770--5185821 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
5185760 TATTTTTTAA
* *
5185770 TGTTTTTATAAAACTTTGAATTATTT
1 TGTTTTTAAAAAACTTTCAATTATTT
*
5185796 TGTTTTTAAAAAATTTTCAA-TATTT
1 TGTTTTTAAAAAACTTTCAATTATTT
5185821 T
1 T
5185822 CATTTTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.58
Consensus pattern (26 bp):
TGTTTTTAAAAAACTTTCAATTATTT
Found at i:5185827 original size:26 final size:26
Alignment explanation
Indices: 5185772--5185828 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
5185762 TTTTTTAATG
* * *
5185772 TTTTTATAAAACTTTGAATTATTTTG
1 TTTTTAAAAAACTTTCAATTATTTTA
*
5185798 TTTTTAAAAAATTTTCAA-TATTTTCA
1 TTTTTAAAAAACTTTCAATTATTTT-A
5185824 TTTTT
1 TTTTT
5185829 TATTTGTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.60
Consensus pattern (26 bp):
TTTTTAAAAAACTTTCAATTATTTTA
Found at i:5186445 original size:22 final size:22
Alignment explanation
Indices: 5186420--5186467 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
5186410 AAAATTTAGA
5186420 CATTGGTGAAGAAACACTTCCT
1 CATTGGTGAAGAAACACTTCCT
*
5186442 CATTGGTGAAGAAATACTTCCT
1 CATTGGTGAAGAAACACTTCCT
5186464 CATT
1 CATT
5186468 TAATGATCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (22 bp):
CATTGGTGAAGAAACACTTCCT
Found at i:5187655 original size:22 final size:22
Alignment explanation
Indices: 5187627--5187673 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
5187617 AAGAACAACA
*
5187627 TTAACCTGTTTCTGAAGTGCCT
1 TTAACCTGTTTCTGAAGTCCCT
5187649 TTAACCTGTTTCTGAAGTCCCT
1 TTAACCTGTTTCTGAAGTCCCT
5187671 TTA
1 TTA
5187674 TACGTGCCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.43
Consensus pattern (22 bp):
TTAACCTGTTTCTGAAGTCCCT
Found at i:5205452 original size:62 final size:59
Alignment explanation
Indices: 5205380--5205503 Score: 135
Period size: 62 Copynumber: 2.0 Consensus size: 59
5205370 TTGTTACATT
* *
5205380 TTTAACTTTGAATATTAAAGAT-AATTATATACTTATT-ATATTTTAAATTAAAATAATATATA
1 TTTAACTTTGAATAGTAAA-ATGAATTATAT-CTT-TTAATATTTCAAATTAAAAT-ATAT-TA
* * *
5205442 TTTAAGTTTGAATGGTAAAATGAGTTATATCTTTTGAATATTTCAAATTAAAATATATTA
1 TTTAACTTTGAATAGTAAAATGAATTATATCTTTT-AATATTTCAAATTAAAATATATTA
5205502 TT
1 TT
5205504 ATCTGTTTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
60 6 0.11
61 9 0.17
62 39 0.72
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (59 bp):
TTTAACTTTGAATAGTAAAATGAATTATATCTTTTAATATTTCAAATTAAAATATATTA
Found at i:5214713 original size:15 final size:15
Alignment explanation
Indices: 5214693--5214736 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
5214683 GTTTATTTCA
5214693 GAATGATTAAGCGCT
1 GAATGATTAAGCGCT
**
5214708 GAATGATTCAAATGCT
1 GAATGATT-AAGCGCT
*
5214724 GAATGATTCAGCG
1 GAATGATTAAGCG
5214737 GCTCTGTATG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (15 bp):
GAATGATTAAGCGCT
Found at i:5227761 original size:13 final size:13
Alignment explanation
Indices: 5227743--5227769 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5227733 GCAGATGTAC
5227743 ATGACTCCGTAGG
1 ATGACTCCGTAGG
5227756 ATGACTCCGTAGG
1 ATGACTCCGTAGG
5227769 A
1 A
5227770 GAGTTATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (13 bp):
ATGACTCCGTAGG
Found at i:5235052 original size:34 final size:36
Alignment explanation
Indices: 5234983--5235053 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 36
5234973 GTTGAAAAAT
* *
5234983 ATTTATATATTTTTTAAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTTTAAAAAAATTGAAAATCATAAA
* *
5235019 ATTTATAT-TTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATATATTTTTTAAAAAAATTGAAAATCATAAA
5235053 A
1 A
5235054 AGGTTTAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 6 0.19
35 17 0.55
36 8 0.26
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (36 bp):
ATTTATATATTTTTTAAAAAAATTGAAAATCATAAA
Found at i:5236730 original size:31 final size:31
Alignment explanation
Indices: 5236692--5236753 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
5236682 AAAGGGAACT
5236692 TAGTGGAGAGTTTGGATACAATTTTCTTGGG
1 TAGTGGAGAGTTTGGATACAATTTTCTTGGG
*
5236723 TAGTGGAGAGTTTGGATGCAATTTTCTTGGG
1 TAGTGGAGAGTTTGGATACAATTTTCTTGGG
5236754 AAATTTTGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.21, C:0.06, G:0.34, T:0.39
Consensus pattern (31 bp):
TAGTGGAGAGTTTGGATACAATTTTCTTGGG
Found at i:5237382 original size:41 final size:41
Alignment explanation
Indices: 5237270--5237370 Score: 132
Period size: 41 Copynumber: 2.5 Consensus size: 41
5237260 GCAATAATTA
* * *
5237270 TAATCAATAGTTGCGTTTTTAGACAAACACAACAATAGTAC
1 TAATCAATAGTGGCGTTTTTAGACAAACGCCACAATAGTAC
* * * *
5237311 TAATCAATAGTGACATTTTTAGACAAACGCCATAATAGT-G
1 TAATCAATAGTGGCGTTTTTAGACAAACGCCACAATAGTAC
5237351 TAATCAATAGTGGCGTTTTT
1 TAATCAATAGTGGCGTTTTT
5237371 TGTATAAACG
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
40 18 0.35
41 33 0.65
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (41 bp):
TAATCAATAGTGGCGTTTTTAGACAAACGCCACAATAGTAC
Found at i:5238854 original size:42 final size:41
Alignment explanation
Indices: 5238763--5238888 Score: 141
Period size: 42 Copynumber: 3.0 Consensus size: 41
5238753 AAGTTATACT
* * *
5238763 TTAGTGGCGTTTTTG-ACATAAACACTGCAATAGAGTTGTT-A
1 TTAGTGGTGTTTTTGTA-ATAAACA-TGCAATAGAATAGTTCA
*
5238804 TTAGGTGGTGTTTTTGTAATAAACGATGCAATAGAATAGTTCC
1 TTA-GTGGTGTTTTTGTAATAAAC-ATGCAATAGAATAGTTCA
* *
5238847 TTAGTGGTGTTTTCGTAAAAAACA-GCAATAGAATAGTTCA
1 TTAGTGGTGTTTTTGTAATAAACATGCAATAGAATAGTTCA
5238887 TT
1 TT
5238889 TATGGCATTT
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.23
41 4 0.05
42 48 0.65
43 5 0.07
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (41 bp):
TTAGTGGTGTTTTTGTAATAAACATGCAATAGAATAGTTCA
Found at i:5239140 original size:31 final size:30
Alignment explanation
Indices: 5239105--5239198 Score: 79
Period size: 29 Copynumber: 3.2 Consensus size: 30
5239095 ACGGTTAGTT
5239105 GATTTATCACACTTGTTTATTTTTCTTTCTA
1 GATTTATC-CACTTGTTTATTTTTCTTTCTA
* * ** *
5239136 GA-TT-TCCTTCTT-TTCATTTTGATTCTCCA
1 GATTTATCC-ACTTGTTTATTTTTCTT-TCTA
*
5239165 GATGTAT-CACTTGTTTATTTTTCTTTCTA
1 GATTTATCCACTTGTTTATTTTTCTTTCTA
5239194 GATTT
1 GATTT
5239199 CCTTTACCCA
Statistics
Matches: 46, Mismatches: 12, Indels: 12
0.66 0.17 0.17
Matches are distributed among these distances:
28 10 0.22
29 20 0.43
30 13 0.28
31 3 0.07
ACGTcount: A:0.17, C:0.17, G:0.09, T:0.57
Consensus pattern (30 bp):
GATTTATCCACTTGTTTATTTTTCTTTCTA
Found at i:5243682 original size:23 final size:23
Alignment explanation
Indices: 5243651--5243705 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
5243641 CATCTTGTAT
*
5243651 AATTACACCAAAGTGCCACGTAG
1 AATTGCACCAAAGTGCCACGTAG
* *
5243674 AATTGCACCAGAGTGCCGCGTAG
1 AATTGCACCAAAGTGCCACGTAG
5243697 AATTGCACC
1 AATTGCACC
5243706 GTAATGCCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (23 bp):
AATTGCACCAAAGTGCCACGTAG
Found at i:5243713 original size:23 final size:23
Alignment explanation
Indices: 5243651--5243714 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
5243641 CATCTTGTAT
*
5243651 AATTACACCA-AAGTGCCACGTAG
1 AATTGCACCAGAA-TGCCACGTAG
* *
5243674 AATTGCACCAGAGTGCCGCGTAG
1 AATTGCACCAGAATGCCACGTAG
5243697 AATTGCACC-GTAATGCCA
1 AATTGCACCAG-AATGCCA
5243715 TATAATAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
22 1 0.03
23 32 0.94
24 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.19
Consensus pattern (23 bp):
AATTGCACCAGAATGCCACGTAG
Found at i:5244455 original size:63 final size:63
Alignment explanation
Indices: 5244305--5244457 Score: 209
Period size: 63 Copynumber: 2.4 Consensus size: 63
5244295 AATGGAGGTA
*
5244305 TGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGGG
1 TGCATCGATGCACTACA-TATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGGG
* * ** *
5244369 TGCATCGATGCACTCCTTATGCATCGATGCATCGATGGC-ATTCGATGTTTGTATTTAATGGGG
1 TGCATCGATGCACTACATATGCATCGATGCATAAAT-CCTATTCGATGTTTGTATTTAATGGGG
* *
5244432 TGCATCGATGCACTTCATGTGCATCG
1 TGCATCGATGCACTACATATGCATCG
5244458 GTATACCTTG
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
63 63 0.80
64 16 0.20
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (63 bp):
TGCATCGATGCACTACATATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGGG
Found at i:5250583 original size:23 final size:23
Alignment explanation
Indices: 5250552--5250643 Score: 112
Period size: 23 Copynumber: 4.0 Consensus size: 23
5250542 CACCACAAAT
* * *
5250552 CGTATAATTGCACTGAAGTGCCA
1 CGTAGAATTGCACCGGAGTGCCA
* *
5250575 CGTAGAATTGCACCGGAGTACCG
1 CGTAGAATTGCACCGGAGTGCCA
* *
5250598 CGTAAAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGGAGTGCCA
*
5250621 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGGAGTGCCA
5250644 TATAATAATG
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (23 bp):
CGTAGAATTGCACCGGAGTGCCA
Found at i:5250967 original size:25 final size:25
Alignment explanation
Indices: 5250938--5250995 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
5250928 ATGCATATGG
*
5250938 TATGAATTCATG-TCATGTATCATAA
1 TATGAATT-ATGATCATGTATCAAAA
* *
5250963 TATGAAATGTGATCATGTATCAAAA
1 TATGAATTATGATCATGTATCAAAA
5250988 TATTGAAT
1 TA-TGAAT
5250996 CTAGACTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 2 0.07
25 21 0.78
26 4 0.15
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38
Consensus pattern (25 bp):
TATGAATTATGATCATGTATCAAAA
Found at i:5255760 original size:21 final size:21
Alignment explanation
Indices: 5255742--5255788 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
5255732 ATGAAGCAAG
5255742 GGAAGCAGAG-AGAGCAGCAGC
1 GGAAGCAG-GCAGAGCAGCAGC
*
5255763 GGAAGCAGGCAGAGCAACAGC
1 GGAAGCAGGCAGAGCAGCAGC
5255784 GGAAG
1 GGAAG
5255789 TAGAGAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.38, C:0.19, G:0.43, T:0.00
Consensus pattern (21 bp):
GGAAGCAGGCAGAGCAGCAGC
Found at i:5256210 original size:43 final size:43
Alignment explanation
Indices: 5256160--5256251 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
5256150 AACATTAGCG
*
5256160 GCGTTTGTAAGAAAAACGCCGCAAAATATCGA-CACCTACTGCA
1 GCGTTTGTAAGAAAAACGCCGCAAAATATCAATC-CCTACTGCA
* * * *
5256203 GCGTTTGTAAGTAAAACGCCGCTAAATCTCAATCCCTACTGCG
1 GCGTTTGTAAGAAAAACGCCGCAAAATATCAATCCCTACTGCA
5256246 GCGTTT
1 GCGTTT
5256252 TTCTGATAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
43 42 0.98
44 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (43 bp):
GCGTTTGTAAGAAAAACGCCGCAAAATATCAATCCCTACTGCA
Found at i:5276379 original size:24 final size:24
Alignment explanation
Indices: 5276351--5276399 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
5276341 AAATTTATAT
*
5276351 TAAAATTTTAG-GAGTGTAAAATTA
1 TAAAATCTTAGCGA-TGTAAAATTA
5276375 TAAAATCTTAGCCGATGTAAAATTA
1 TAAAATCTTAG-CGATGTAAAATTA
5276400 AATAATTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 10 0.45
25 10 0.45
26 2 0.09
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.35
Consensus pattern (24 bp):
TAAAATCTTAGCGATGTAAAATTA
Found at i:5277142 original size:32 final size:32
Alignment explanation
Indices: 5277093--5277174 Score: 96
Period size: 32 Copynumber: 2.6 Consensus size: 32
5277083 CAAATCGGAT
*
5277093 TTTAACCCGATCCGAAAGCAATAC-GAACCGAA
1 TTTAACCCGAACCGAAAGCAAT-CTGAACCGAA
*
5277125 TTTAACCC-AACCTGAAAGCAATCTGAACGGAA
1 TTTAACCCGAACC-GAAAGCAATCTGAACCGAA
* *
5277157 ATTAACCCGAACCAAAAG
1 TTTAACCCGAACCGAAAG
5277175 GAAGAATCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
31 4 0.09
32 35 0.81
33 4 0.09
ACGTcount: A:0.43, C:0.27, G:0.15, T:0.16
Consensus pattern (32 bp):
TTTAACCCGAACCGAAAGCAATCTGAACCGAA
Found at i:5282760 original size:78 final size:78
Alignment explanation
Indices: 5282677--5282820 Score: 234
Period size: 78 Copynumber: 1.8 Consensus size: 78
5282667 TTGAATTTAT
* *
5282677 AATAAACTGTGATAATTAATATGATTAATTTTTAAAAGTTAAAACAAATTGTTACTTATGATAAT
1 AATAAACTATGATAATTAATATGATTAATCTTTAAAAGTTAAAACAAATTGTTACTTATGATAAT
5282742 TTTTTGACTATTA
66 TTTTTGACTATTA
* * * *
5282755 AATAAACTATGATAATTAATATGATTACTCTTTAAAAGTTAATATAAATTGTTAGTTATGATAAT
1 AATAAACTATGATAATTAATATGATTAATCTTTAAAAGTTAAAACAAATTGTTACTTATGATAAT
5282820 T
66 T
5282821 AAATTAATAA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 60 1.00
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (78 bp):
AATAAACTATGATAATTAATATGATTAATCTTTAAAAGTTAAAACAAATTGTTACTTATGATAAT
TTTTTGACTATTA
Found at i:5283633 original size:8 final size:8
Alignment explanation
Indices: 5283626--5283753 Score: 102
Period size: 8 Copynumber: 16.2 Consensus size: 8
5283616 TCATACATAC
5283626 ATATATACT
1 ATATATA-T
5283635 -TATATAT
1 ATATATAT
5283642 A-AT-TAT
1 ATATATAT
5283648 ATATATAT
1 ATATATAT
5283656 ATATATAT
1 ATATATAT
* *
5283664 AGATATAG
1 ATATATAT
*
5283672 ATATAGAT
1 ATATATAT
*
5283680 ATAAATAT
1 ATATATAT
*
5283688 ATATTTAT
1 ATATATAT
* *
5283696 ATACATAC
1 ATATATAT
* * *
5283704 CTATACAC
1 ATATATAT
*
5283712 AGATACT-T
1 ATATA-TAT
*
5283720 ACATATAT
1 ATATATAT
5283728 ATATATAT
1 ATATATAT
5283736 ATATATAT
1 ATATATAT
5283744 ATATATAT
1 ATATATAT
5283752 AT
1 AT
5283754 GTGTGTGTAA
Statistics
Matches: 93, Mismatches: 21, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
6 4 0.04
7 6 0.06
8 83 0.89
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (8 bp):
ATATATAT
Found at i:5283641 original size:10 final size:9
Alignment explanation
Indices: 5283626--5283753 Score: 52
Period size: 10 Copynumber: 13.9 Consensus size: 9
5283616 TCATACATAC
5283626 ATATATACTT
1 ATATATA-TT
5283636 ATATATAATT
1 ATATAT-ATT
5283646 ATATATA-T
1 ATATATATT
5283654 ATATATATAT
1 ATATATAT-T
* *
5283664 AGATATAGAT
1 ATATATA-TT
* *
5283674 ATAGATATAA
1 ATATATAT-T
5283684 ATATATATT
1 ATATATATT
*
5283693 -TATATA-C
1 ATATATATT
*
5283700 ATACCTATA-C
1 ATA--TATATT
* *
5283710 ACAGATACTT
1 ATATATA-TT
*
5283720 ACATATA-T
1 ATATATATT
5283728 ATATATA-T
1 ATATATATT
5283736 ATATATATAT
1 ATATATAT-T
5283746 ATATATAT
1 ATATATAT
5283754 GTGTGTGTAA
Statistics
Matches: 92, Mismatches: 14, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
8 34 0.37
9 1 0.01
10 56 0.61
11 1 0.01
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (9 bp):
ATATATATT
Found at i:5283641 original size:12 final size:12
Alignment explanation
Indices: 5283584--5283752 Score: 71
Period size: 12 Copynumber: 13.8 Consensus size: 12
5283574 TAATGATATA
*
5283584 TATATATGTACT
1 TATATATATACT
* *
5283596 TATGTAAATACT
1 TATATATATACT
*
5283608 TATATGCATCATACA
1 TATAT--AT-ATACT
*
5283623 TACATATATACT
1 TATATATATACT
5283635 TATATATA-A-T
1 TATATATATACT
5283645 TATATATATA--
1 TATATATATACT
**
5283655 TATATATATAGA
1 TATATATATACT
* *
5283667 TATAGATATAGAT
1 TATATATATA-CT
* *
5283680 ATAAATATATATT
1 -TATATATATACT
*
5283693 TATATACATACCT
1 TATATATATA-CT
* * *
5283706 ATACACAGATACT
1 -TATATATATACT
*
5283719 TACATATATA-T
1 TATATATATACT
5283730 ATATATATATA-T
1 -TATATATATACT
5283742 ATATATATATA
1 -TATATATATA
5283753 TGTGTGTGTA
Statistics
Matches: 122, Mismatches: 24, Indels: 22
0.73 0.14 0.13
Matches are distributed among these distances:
10 19 0.16
11 3 0.02
12 70 0.57
13 6 0.05
14 16 0.13
15 8 0.07
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (12 bp):
TATATATATACT
Found at i:5283654 original size:6 final size:6
Alignment explanation
Indices: 5283626--5283753 Score: 102
Period size: 6 Copynumber: 21.7 Consensus size: 6
5283616 TCATACATAC
* *
5283626 ATATAT ACT-TAT ATATA- AT-TAT ATATAT ATATAT ATATAG ATATAG
1 ATATAT A-TATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * ** * * *
5283672 ATATAG ATATAA ATATAT ATTTAT ATACAT ACCTAT ACACAG ATACT-T
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATA-TAT
*
5283720 ACATAT ATATAT ATATAT ATATAT ATATAT ATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATAT
5283754 GTGTGTGTAA
Statistics
Matches: 99, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
4 2 0.02
5 6 0.06
6 90 0.91
7 1 0.01
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (6 bp):
ATATAT
Found at i:5284472 original size:40 final size:40
Alignment explanation
Indices: 5284412--5284499 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
5284402 GATTTGACTT
*
5284412 TGACTCGACCTATATATGATTTGACCTGATCTGACAGGATC
1 TGACT-GACCTATATATGATTTGACCTGATCTGACAGGACC
* *
5284453 TGACTGACCTATATCTGATTTGACCTGATCTGATAGGACC
1 TGACTGACCTATATATGATTTGACCTGATCTGACAGGACC
5284493 TGACTGA
1 TGACTGA
5284500 AACCTGAACG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
40 39 0.89
41 5 0.11
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (40 bp):
TGACTGACCTATATATGATTTGACCTGATCTGACAGGACC
Found at i:5284665 original size:17 final size:17
Alignment explanation
Indices: 5284640--5284683 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
5284630 AAATTAAATC
* *
5284640 TTTAATTTTATATTTTA
1 TTTATTTTTATATTATA
*
5284657 TTTATTTTTGTATTATA
1 TTTATTTTTATATTATA
*
5284674 TTTTTTTTTA
1 TTTATTTTTA
5284684 CAAAAATACT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (17 bp):
TTTATTTTTATATTATA
Found at i:5296165 original size:20 final size:20
Alignment explanation
Indices: 5296136--5296178 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
5296126 CTCAAGGGCC
*
5296136 AACAAGAAGTGGATTAGGGG
1 AACAAAAAGTGGATTAGGGG
5296156 AACAAAAAGTGGATTAGGGG
1 AACAAAAAGTGGATTAGGGG
5296176 AAC
1 AAC
5296179 TTAGAAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.44, C:0.07, G:0.35, T:0.14
Consensus pattern (20 bp):
AACAAAAAGTGGATTAGGGG
Found at i:5303364 original size:3 final size:3
Alignment explanation
Indices: 5303356--5303393 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
5303346 ATGTTTTATT
5303356 TAA TAA TAA T-A TATA TAA TAA T-A TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
5303394 AATGAAAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.12
3 25 0.78
4 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:5304948 original size:17 final size:16
Alignment explanation
Indices: 5304926--5305014 Score: 60
Period size: 16 Copynumber: 5.6 Consensus size: 16
5304916 TGTTTAAGGT
5304926 ATATTTTATTATATTTA
1 ATATTTTATT-TATTTA
**
5304943 ATA-TTTA-ACATTTA
1 ATATTTTATTTATTTA
5304957 AT-TTATTAATTTATTTA
1 ATATT-TT-ATTTATTTA
* *
5304974 AGTATTTAAATTATTTA
1 A-TATTTTATTTATTTA
* *
5304991 ATATTATATTTAATTA
1 ATATTTTATTTATTTA
5305007 AT-TTTTAT
1 ATATTTTAT
5305015 ATATATATAA
Statistics
Matches: 55, Mismatches: 11, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
14 8 0.15
15 7 0.13
16 18 0.33
17 18 0.33
18 2 0.04
19 2 0.04
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (16 bp):
ATATTTTATTTATTTA
Found at i:5305363 original size:3 final size:3
Alignment explanation
Indices: 5305355--5305392 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
5305345 ATGTTTTATT
5305355 TAA TAA TAA T-A TATA TAA TAA T-A TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
5305393 AATGAAAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.12
3 25 0.78
4 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:5306947 original size:17 final size:16
Alignment explanation
Indices: 5306925--5307013 Score: 60
Period size: 16 Copynumber: 5.6 Consensus size: 16
5306915 TGTTTAAGGT
5306925 ATATTTTATTATATTTA
1 ATATTTTATT-TATTTA
**
5306942 ATA-TTTA-ACATTTA
1 ATATTTTATTTATTTA
5306956 AT-TTATTAATTTATTTA
1 ATATT-TT-ATTTATTTA
* *
5306973 AGTATTTAAATTATTTA
1 A-TATTTTATTTATTTA
* *
5306990 ATATTATATTTAATTA
1 ATATTTTATTTATTTA
5307006 AT-TTTTAT
1 ATATTTTAT
5307014 ATATATATAA
Statistics
Matches: 55, Mismatches: 11, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
14 8 0.15
15 7 0.13
16 18 0.33
17 18 0.33
18 2 0.04
19 2 0.04
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (16 bp):
ATATTTTATTTATTTA
Found at i:5314231 original size:15 final size:15
Alignment explanation
Indices: 5314213--5314241 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
5314203 TACCCGTCCT
5314213 GCATCCGCCCGCCCC
1 GCATCCGCCCGCCCC
5314228 GCATCCGCCCGCCC
1 GCATCCGCCCGCCC
5314242 AGCTAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.66, G:0.21, T:0.07
Consensus pattern (15 bp):
GCATCCGCCCGCCCC
Found at i:5316794 original size:13 final size:13
Alignment explanation
Indices: 5316776--5316803 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
5316766 TAAAAGTATT
5316776 TTGTAGTTTGTTG
1 TTGTAGTTTGTTG
5316789 TTGTAGTTTGTTG
1 TTGTAGTTTGTTG
5316802 TT
1 TT
5316804 TTTGTGCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.29, T:0.64
Consensus pattern (13 bp):
TTGTAGTTTGTTG
Found at i:5317454 original size:15 final size:15
Alignment explanation
Indices: 5317434--5317465 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
5317424 GGGACCCTTC
5317434 TTTCAATATTTATTT
1 TTTCAATATTTATTT
5317449 TTTCAATATTTATTT
1 TTTCAATATTTATTT
5317464 TT
1 TT
5317466 ATTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTCAATATTTATTT
Found at i:5320608 original size:2 final size:2
Alignment explanation
Indices: 5320601--5320628 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5320591 TTTATTGTTA
5320601 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5320629 GTGCATCTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5323704 original size:105 final size:105
Alignment explanation
Indices: 5323520--5323713 Score: 262
Period size: 105 Copynumber: 1.8 Consensus size: 105
5323510 CTGAGGAAAC
* * * * *
5323520 TGAGCAACAATCTATAGATAATCATGAGGCTAGTGATGCTGAGTTAGGTAAAGTTGAGAGTTTTG
1 TGAGCAACAATCTACAGATAATCATGAGACTACTGATGCTGACTTAGGTAAAGTTGAGAGTTTCG
* *
5323585 AGGCATATAATGGTCATGAACCACTTATTAAAGACGAGAG
66 AGGCAGATAATGGTCAGGAACCACTTATTAAAGACGAGAG
* * * * *
5323625 TGAGCAACAATTTACAGGTAATCTTGAGACTACTGATGGTGACTTGGGTAAAGTTGAGAGTTTCG
1 TGAGCAACAATCTACAGATAATCATGAGACTACTGATGCTGACTTAGGTAAAGTTGAGAGTTTCG
**
5323690 AGGCAGATGGTGGTCAGGAACCAC
66 AGGCAGATAATGGTCAGGAACCAC
5323714 CTTCTAAAGA
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
105 75 1.00
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (105 bp):
TGAGCAACAATCTACAGATAATCATGAGACTACTGATGCTGACTTAGGTAAAGTTGAGAGTTTCG
AGGCAGATAATGGTCAGGAACCACTTATTAAAGACGAGAG
Found at i:5334322 original size:16 final size:16
Alignment explanation
Indices: 5334293--5334325 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5334283 CCAGAAAGTC
5334293 AAAAGGTTGGGAGTTT
1 AAAAGGTTGGGAGTTT
5334309 AAAA-GTTGGTGAGTTT
1 AAAAGGTTGG-GAGTTT
5334325 A
1 A
5334326 CAGGTTTGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (16 bp):
AAAAGGTTGGGAGTTT
Found at i:5347891 original size:45 final size:45
Alignment explanation
Indices: 5347841--5347931 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
5347831 TCCTCTCCCC
* *
5347841 CTATTTCTTCATTTAATATTATATACATTATTTCTTTTAATCTAT
1 CTATTTCTTCATTTAATATAATATACATTATTTCTTTGAATCTAT
5347886 CTATTTCTTCATTTAATATAATATACATTATTTCTTTGAATCTAT
1 CTATTTCTTCATTTAATATAATATACATTATTTCTTTGAATCTAT
5347931 C
1 C
5347932 AAGTGATTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.30, C:0.14, G:0.01, T:0.55
Consensus pattern (45 bp):
CTATTTCTTCATTTAATATAATATACATTATTTCTTTGAATCTAT
Found at i:5347902 original size:21 final size:22
Alignment explanation
Indices: 5347841--5347903 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 22
5347831 TCCTCTCCCC
*
5347841 CTATTTCTTCATTTAATATTAT
1 CTATTTCTTCATTTAATACTAT
* *
5347863 ATACATTAT-TTCTTTTAAT-CTAT
1 CT--ATT-TCTTCATTTAATACTAT
5347886 CTATTTCTTCATTTAATA
1 CTATTTCTTCATTTAATA
5347904 TAATATACAT
Statistics
Matches: 31, Mismatches: 5, Indels: 10
0.67 0.11 0.22
Matches are distributed among these distances:
20 1 0.03
21 12 0.39
22 1 0.03
23 4 0.13
24 12 0.39
25 1 0.03
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (22 bp):
CTATTTCTTCATTTAATACTAT
Found at i:5347954 original size:24 final size:24
Alignment explanation
Indices: 5347927--5347972 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
5347917 TTCTTTGAAT
5347927 CTATCAAGTGATTAAAAGAAGCAA
1 CTATCAAGTGATTAAAAGAAGCAA
5347951 CTATCAAGTGATTAAAAGAAGC
1 CTATCAAGTGATTAAAAGAAGC
5347973 GTTATTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (24 bp):
CTATCAAGTGATTAAAAGAAGCAA
Found at i:5349940 original size:2 final size:2
Alignment explanation
Indices: 5349933--5349976 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
5349923 TCTTTACCAA
5349933 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5349975 AT
1 AT
5349977 CTCATTTGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5353456 original size:47 final size:47
Alignment explanation
Indices: 5353359--5353471 Score: 163
Period size: 47 Copynumber: 2.4 Consensus size: 47
5353349 ATGATATTCA
* * * *
5353359 TTCATACCAATTATGCATTGTTATACATTATATATATATGGCTTATT
1 TTCATACCACTTATGCATTGTTATACATTATATATATATGACATACT
* *
5353406 TTCATACCACTTATGCATTGTTGTACATTATATATATATGACATCCT
1 TTCATACCACTTATGCATTGTTATACATTATATATATATGACATACT
*
5353453 TTCATACTACTTATGCATT
1 TTCATACCACTTATGCATT
5353472 TTTTATATCA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 59 1.00
ACGTcount: A:0.30, C:0.17, G:0.08, T:0.45
Consensus pattern (47 bp):
TTCATACCACTTATGCATTGTTATACATTATATATATATGACATACT
Found at i:5353640 original size:81 final size:81
Alignment explanation
Indices: 5353504--5354160 Score: 764
Period size: 81 Copynumber: 8.1 Consensus size: 81
5353494 ATTCCTTTAG
* * * * * * * *
5353504 TCTTTTACCCAAAGGCATTTAGCCTTTCATCTAACTTGCATAATTGACACTTTTCTTCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
5353569 ACAACTAGTCCATTAA
66 ACAACTAGTCCATTAA
* *
5353585 TCTTTTACTCAACGGTATTTAACCGTTCATCTAATTGTCATAATTGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
*
5353650 A-AAGCTAG-GCATTTAA
66 ACAA-CTAGTCCA-TTAA
* ** * * * * * * *
5353666 TCTTTTACTTAACAATATTTAATCATTCTTCTAACTGGAATAATTGACATCTTGCTACCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
* *
5353731 ATAACTAGGCCATTAA
66 ACAACTAGTCCATTAA
* * *
5353747 TCTTTTACTCAATGGTATTTAACCGTTCATCTAATTGGCATAATTGACACATTTCTGCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
* * *
5353812 ATAGCTAGGCCATTAA
66 ACAACTAGTCCATTAA
* * ** * * **
5353828 TCTTTTACTCAACGATAATTAAATGTTCATCTACCTTGCATAATTGACACCTTTCTGTAAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
* *
5353893 ACATCTAGACCATTAA
66 ACAACTAGTCCATTAA
* * **
5353909 TCTTTTACTCAACGGTATTTAATCGTTCATATAACTAACATAATTGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
* * *
5353974 ATAGCTAGACCATTAA
66 ACAACTAGTCCATTAA
* * * *
5353990 TCTTTTACTCAAAGATATTTAATCGTTCATCTAACGGGCATAATTGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
*
5354055 ACAGCTAGGT-CATTAA
66 ACAACTA-GTCCATTAA
* * *
5354071 TCTTTTACTCAATGGTATTTAACTGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
5354136 ACAACTAGGT-CATTAA
66 ACAACTA-GTCCATTAA
5354152 TCTTTTACT
1 TCTTTTACT
5354161 TTAGAATTGT
Statistics
Matches: 492, Mismatches: 79, Indels: 10
0.85 0.14 0.02
Matches are distributed among these distances:
80 4 0.01
81 483 0.98
82 5 0.01
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (81 bp):
TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
ACAACTAGTCCATTAA
Found at i:5353771 original size:162 final size:162
Alignment explanation
Indices: 5353529--5354160 Score: 849
Period size: 162 Copynumber: 3.9 Consensus size: 162
5353519 CATTTAGCCT
* * * *
5353529 TTCATCTAACTTGCATAATTGACACTTTTCTTCCAAATGCACAACTAGTCCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACT
* * *
5353594 CAACGGTATTTAACCGTTCATCTAATTGTCATAATTGACACCTTTCTGCCAAATGCAAAGCTAGG
66 CAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCAAAGCTAGG
* *
5353659 -CATTTAATCTTTTACTTAACAATATTTAATCA
131 CCA-TTAATCTTTTACTCAACAATATTTAATCG
* * * * * *
5353691 TTCTTCTAACTGGAATAATTGACATCTTGCTACCAAATGCATAACTAGGCCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACT
* * *
5353756 CAATGGTATTTAACCGTTCATCTAATTGGCATAATTGACACATTTCTGCCAAATGCATAGCTAGG
66 CAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCAAAGCTAGG
* *
5353821 CCATTAATCTTTTACTCAACGATAATTAAAT-G
131 CCATTAATCTTTTACTCAACAAT-ATTTAATCG
* * ** * *
5353853 TTCATCTACCTTGCATAATTGACACCTTTCTGTAAAATGCACATCTAGACCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACT
* * ** * * *
5353918 CAACGGTATTTAATCGTTCATATAACTAACATAATTGACACCTTTCTGCCAAATGCATAGCTAGA
66 CAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCAAAGCTAGG
5353983 CCATTAATCTTTTACTCAA-AGATATTTAATCG
131 CCATTAATCTTTTACTCAACA-ATATTTAATCG
* * *
5354015 TTCATCTAACGGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGTCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACT
* *
5354080 CAATGGTATTTAACTGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAA-CTAG
66 CAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCA-AAGCTAG
*
5354144 GTCATTAATCTTTTACT
130 GCCATTAATCTTTTACT
5354161 TTAGAATTGT
Statistics
Matches: 408, Mismatches: 57, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
161 6 0.01
162 393 0.96
163 9 0.02
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (162 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACT
CAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCAAAGCTAGG
CCATTAATCTTTTACTCAACAATATTTAATCG
Found at i:5353932 original size:243 final size:241
Alignment explanation
Indices: 5353504--5354160 Score: 843
Period size: 243 Copynumber: 2.7 Consensus size: 241
5353494 ATTCCTTTAG
* * * * * *
5353504 TCTTTTACCCAAAGGCATTTAGCCTTTCATCTAACTT-GCATAATTGACACTTTTCTTCCAAATG
1 TCTTTTACTCAAAGGTATTTAACCGTTCATCTAA-TTGGCATAATTGACACATTTCTGCCAAATG
* * * *
5353568 CACAACTAGTCCATTAATCTTTTACTCAACGGTATTTAACCGTTCATCTAATTGTCATAATTGAC
65 CACAGCTAGGCCATTAATCTTTTACTCAACGGTATTTAACTGTTCATCTACTTG-CATAATTGAC
* * * *
5353633 ACCTTTCTGCCAAATGCA-AAGCTAGGCATTTAATCTTTTACTTAACAATATTTAATCATTCTTC
129 ACCTTTCTGCCAAATGCACAA-CTAGCCA-TTAATCTTTTACTCAACAATATTTAATCATTCATA
* * *
5353697 TAACTGGA-ATAATTGACATCTTGCTACCAAATGCATAACTAGGCCATTAA
192 TAACT-AACATAATTGACACCTTGCTACCAAATGCATAACTAGACCATTAA
*
5353747 TCTTTTACTCAATGGTATTTAACCGTTCATCTAATTGGCATAATTGACACATTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCGTTCATCTAATTGGCATAATTGACACATTTCTGCCAAATGC
* * * *
5353812 ATAGCTAGGCCATTAATCTTTTACTCAACGATAATTAAATGTTCATCTACCTTGCATAATTGACA
66 ACAGCTAGGCCATTAATCTTTTACTCAACGGTATTTAACTGTTCATCTA-CTTGCATAATTGACA
** * ** *
5353877 CCTTTCTGTAAAATGCACATCTAGACCATTAATCTTTTACTCAACGGTATTTAATCGTTCATATA
130 CCTTTCTGCCAAATGCACAACTAG-CCATTAATCTTTTACTCAACAATATTTAATCATTCATATA
* * *
5353942 ACTAACATAATTGACACCTTTCTGCCAAATGCATAGCTAGACCATTAA
194 ACTAACATAATTGACACCTTGCTACCAAATGCATAACTAGACCATTAA
* * ** *
5353990 TCTTTTACTCAAAGATATTTAATCGTTCATCTAACGGGCATAATTGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCGTTCATCTAATTGGCATAATTGACACATTTCTGCCAAATGC
* * *
5354055 ACAGCTAGGTCATTAATCTTTTACTCAATGGTATTTAACTGTTCATCTAACTGGCATAATTGACA
66 ACAGCTAGGCCATTAATCTTTTACTCAACGGTATTTAACTGTTCATCT-ACTTGCATAATTGACA
* *
5354120 CATTTCTGCCAAATGCACAACTAGGTCATTAATCTTTTACT
130 CCTTTCTGCCAAATGCACAACTA-GCCATTAATCTTTTACT
5354161 TTAGAATTGT
Statistics
Matches: 358, Mismatches: 49, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
242 3 0.01
243 347 0.97
244 8 0.02
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (241 bp):
TCTTTTACTCAAAGGTATTTAACCGTTCATCTAATTGGCATAATTGACACATTTCTGCCAAATGC
ACAGCTAGGCCATTAATCTTTTACTCAACGGTATTTAACTGTTCATCTACTTGCATAATTGACAC
CTTTCTGCCAAATGCACAACTAGCCATTAATCTTTTACTCAACAATATTTAATCATTCATATAAC
TAACATAATTGACACCTTGCTACCAAATGCATAACTAGACCATTAA
Found at i:5354390 original size:57 final size:57
Alignment explanation
Indices: 5354321--5354581 Score: 396
Period size: 57 Copynumber: 4.6 Consensus size: 57
5354311 AAATTCATAT
* * * *
5354321 AATTTCTTAACTTTTTACACACAAAGTACACATATAAAAATTCATAAACTAATCATG
1 AATTTCTTAACTTTTTGCACACAAAGTACCCATATGAAAATTCATAAACTAATTATG
*
5354378 AATTTCTTAACTTTTTGCACACAAAGTACCCATATGGAAATTCATAAACTAATTATG
1 AATTTCTTAACTTTTTGCACACAAAGTACCCATATGAAAATTCATAAACTAATTATG
* *
5354435 AATTTCTTAACTTTTTGCACATAAAGTGCCCATATGAAAATTCATAAACTAATTATG
1 AATTTCTTAACTTTTTGCACACAAAGTACCCATATGAAAATTCATAAACTAATTATG
* * *
5354492 AATTTCATAACTTTTTGCACACAAAGTGCCCATATGGAAATTCATAAACTAATTATG
1 AATTTCTTAACTTTTTGCACACAAAGTACCCATATGAAAATTCATAAACTAATTATG
* * * *
5354549 ATTTTTTTATCTTTTTGCACACAAAGTGCCCAT
1 AATTTCTTAACTTTTTGCACACAAAGTACCCAT
5354582 TGGGTAATCG
Statistics
Matches: 189, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 189 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (57 bp):
AATTTCTTAACTTTTTGCACACAAAGTACCCATATGAAAATTCATAAACTAATTATG
Found at i:5357973 original size:16 final size:16
Alignment explanation
Indices: 5357952--5357982 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5357942 AGCTGACAAG
5357952 GCTAGAAAGCTAAAAA
1 GCTAGAAAGCTAAAAA
*
5357968 GCTAGAAAGTTAAAA
1 GCTAGAAAGCTAAAA
5357983 CAAAATAACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.10, G:0.19, T:0.16
Consensus pattern (16 bp):
GCTAGAAAGCTAAAAA
Found at i:5359749 original size:15 final size:15
Alignment explanation
Indices: 5359707--5359765 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
5359697 ACTGTAATTG
*
5359707 TCTGTTATTATA-TT
1 TCTGTTATTGTATTT
* * *
5359721 TATATTATTATATTT
1 TCTGTTATTGTATTT
*
5359736 TGTGTTATTGTATTT
1 TCTGTTATTGTATTT
*
5359751 TCTTTTATTGTATTT
1 TCTGTTATTGTATTT
5359766 CATATTTTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
14 10 0.27
15 27 0.73
ACGTcount: A:0.20, C:0.03, G:0.08, T:0.68
Consensus pattern (15 bp):
TCTGTTATTGTATTT
Found at i:5362284 original size:53 final size:50
Alignment explanation
Indices: 5362227--5362343 Score: 146
Period size: 50 Copynumber: 2.3 Consensus size: 50
5362217 TTGATTGATG
* *
5362227 ATATCTGTATATCAGATTTAGGGGATAGAAA-ATATGTTTTTTTTATAACATAA
1 ATATCTCTATATCAGATGTAGGGGAT-GAAAGATA---TTTTTTTATAACATAA
* * *
5362280 ATATCTTTATATTAGATGTAGGTGATGAAAGATATTTTTTTATAACATAA
1 ATATCTCTATATCAGATGTAGGGGATGAAAGATATTTTTTTATAACATAA
5362330 ATATCTCTATATCA
1 ATATCTCTATATCA
5362344 ATCTATGTGA
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
50 28 0.49
52 4 0.07
53 25 0.44
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.43
Consensus pattern (50 bp):
ATATCTCTATATCAGATGTAGGGGATGAAAGATATTTTTTTATAACATAA
Found at i:5362945 original size:21 final size:19
Alignment explanation
Indices: 5362921--5362962 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 19
5362911 GATGGTAAAA
5362921 TTATTTATTATTATA-TTA-
1 TTATTTATT-TTATATTTAT
5362939 -TATTTATTTTATATTTAT
1 TTATTTATTTTATATTTAT
5362957 TTATTT
1 TTATTT
5362963 GACCATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.24
17 11 0.52
19 5 0.24
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTATTTATTTTATATTTAT
Found at i:5363589 original size:21 final size:19
Alignment explanation
Indices: 5363535--5363616 Score: 67
Period size: 20 Copynumber: 4.2 Consensus size: 19
5363525 AAACTCATTG
* *
5363535 TTGTCCAAGGGATCGATCCT
1 TTGT-CAAGGGATCAATCAT
* *
5363555 TTTTAAAGGGGATCAATCAT
1 TTGTCAA-GGGATCAATCAT
*
5363575 TTGGTCAAAGGGATCGATCAT
1 TT-GTC-AAGGGATCAATCAT
*
5363596 TT-TCTAGGGATCAATCAT
1 TTGTCAAGGGATCAATCAT
5363614 TTG
1 TTG
5363617 AGCCAAAAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
18 14 0.29
19 4 0.08
20 15 0.31
21 14 0.29
22 2 0.04
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (19 bp):
TTGTCAAGGGATCAATCAT
Found at i:5368464 original size:7 final size:7
Alignment explanation
Indices: 5368444--5368488 Score: 81
Period size: 7 Copynumber: 6.3 Consensus size: 7
5368434 CCCCACACCC
5368444 TCTCCCT
1 TCTCCCT
5368451 CTCTCCCT
1 -TCTCCCT
5368459 TCTCCCT
1 TCTCCCT
5368466 TCTCCCT
1 TCTCCCT
5368473 TCTCCCT
1 TCTCCCT
5368480 TCTCCCT
1 TCTCCCT
5368487 TC
1 TC
5368489 CCCGATGCCA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 30 0.81
8 7 0.19
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (7 bp):
TCTCCCT
Found at i:5380124 original size:13 final size:14
Alignment explanation
Indices: 5380106--5380146 Score: 66
Period size: 13 Copynumber: 3.0 Consensus size: 14
5380096 GTCAACGATC
5380106 ACGGTTAACGGTCA
1 ACGGTTAACGGTCA
5380120 A-GGTTAACGGTCA
1 ACGGTTAACGGTCA
*
5380133 ACGGTCAACGGTCA
1 ACGGTTAACGGTCA
5380147 GGTCGGGTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (14 bp):
ACGGTTAACGGTCA
Found at i:5380135 original size:7 final size:7
Alignment explanation
Indices: 5380096--5380146 Score: 61
Period size: 7 Copynumber: 7.6 Consensus size: 7
5380086 GTCAAAGGAA
5380096 GTCAACG
1 GTCAACG
*
5380103 ATC-ACG
1 GTCAACG
*
5380109 GTTAACG
1 GTCAACG
5380116 GTCAA-G
1 GTCAACG
*
5380122 GTTAACG
1 GTCAACG
5380129 GTCAACG
1 GTCAACG
5380136 GTCAACG
1 GTCAACG
5380143 GTCA
1 GTCA
5380147 GGTCGGGTCG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
6 9 0.25
7 27 0.75
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (7 bp):
GTCAACG
Found at i:5380165 original size:14 final size:15
Alignment explanation
Indices: 5380142--5380170 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5380132 AACGGTCAAC
5380142 GGTCAGGTCGGGTCG
1 GGTCAGGTCGGGTCG
5380157 GGTCA-GTCGGGTCG
1 GGTCAGGTCGGGTCG
5380171 AAATCGGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.07, C:0.21, G:0.52, T:0.21
Consensus pattern (15 bp):
GGTCAGGTCGGGTCG
Found at i:5380197 original size:21 final size:20
Alignment explanation
Indices: 5380171--5380209 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
5380161 AGTCGGGTCG
5380171 AAATCGGTCAGAACCGGTTGA
1 AAATCGGTCA-AACCGGTTGA
5380192 AAATCGGTCAAACCGGTT
1 AAATCGGTCAAACCGGTT
5380210 TTCAGCCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.21
Consensus pattern (20 bp):
AAATCGGTCAAACCGGTTGA
Found at i:5387398 original size:10 final size:10
Alignment explanation
Indices: 5387371--5387431 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
5387361 GTCAGTCGGG
5387371 TCAAACCGGT
1 TCAAACCGGT
**
5387381 TCGGACCGGT
1 TCAAACCGGT
*
5387391 TGAAACCGG-
1 TCAAACCGGT
5387400 TCAGAACCGGT
1 TCA-AACCGGT
*
5387411 TGAAAACCGG-
1 T-CAAACCGGT
5387421 TCAAACCGGT
1 TCAAACCGGT
5387431 T
1 T
5387432 TCCAGCCCTC
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
9 9 0.23
10 22 0.56
11 7 0.18
12 1 0.03
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.18
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:5387398 original size:20 final size:22
Alignment explanation
Indices: 5387373--5387431 Score: 74
Period size: 20 Copynumber: 2.9 Consensus size: 22
5387363 CAGTCGGGTC
*
5387373 AAACCGGTTC-GGACCGGTTG-
1 AAACCGGTTCAGAACCGGTTGA
5387393 AAACCGG-TCAGAACCGGTTGA
1 AAACCGGTTCAGAACCGGTTGA
5387414 AAACCGG-TCA-AACCGGTT
1 AAACCGGTTCAGAACCGGTT
5387432 TCCAGCCCTC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 2 0.06
20 24 0.67
21 10 0.28
ACGTcount: A:0.29, C:0.25, G:0.29, T:0.17
Consensus pattern (22 bp):
AAACCGGTTCAGAACCGGTTGA
Found at i:5387419 original size:21 final size:19
Alignment explanation
Indices: 5387385--5387431 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
5387375 ACCGGTTCGG
5387385 ACCGGTTGAAACCGGTCAGA
1 ACCGGTTGAAACCGGTCA-A
5387405 ACCGGTTGAAAACCGGTCAA
1 ACCGGTTG-AAACCGGTCAA
5387425 ACCGGTT
1 ACCGGTT
5387432 TCCAGCCCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.30, C:0.26, G:0.28, T:0.17
Consensus pattern (19 bp):
ACCGGTTGAAACCGGTCAA
Found at i:5394511 original size:5 final size:5
Alignment explanation
Indices: 5394501--5394543 Score: 70
Period size: 5 Copynumber: 8.6 Consensus size: 5
5394491 TATTATTTCC
5394501 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT-T ATTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT -TTTAT TTT
5394544 TATTCTTATC
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 1 0.03
5 34 0.94
6 1 0.03
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:5402673 original size:22 final size:23
Alignment explanation
Indices: 5402642--5402699 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 23
5402632 AATGCTTTAA
5402642 AAGA-GGAG-TAAGTGTTAAAGT
1 AAGAGGGAGATAAGTGTTAAAGT
5402663 AAGAGGGAGTAATTAAGTGTTAAAGT
1 AAGAGGGAG--A-TAAGTGTTAAAGT
*
5402689 AAGGGGGAGAT
1 AAGAGGGAGAT
5402700 TGTTGAAAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
21 4 0.13
22 4 0.13
23 1 0.03
24 1 0.03
26 21 0.68
ACGTcount: A:0.41, C:0.00, G:0.36, T:0.22
Consensus pattern (23 bp):
AAGAGGGAGATAAGTGTTAAAGT
Found at i:5411065 original size:40 final size:39
Alignment explanation
Indices: 5410981--5411068 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 39
5410971 TTCCACAAGC
* * *
5410981 TTCTAGAGAATTCTACACTTCTCTAGAGTTCTCCGAAATG
1 TTCTAGAAAATTCTACACTTCTCCAGAGTTCT-CAAAATG
*
5411021 TTCTAGAAAATTCTACACTTCTCCAGAAAGTTCT-AAAATT
1 TTCTAGAAAATTCTACACTTCTCCAG--AGTTCTCAAAATG
5411061 TTCTAGAA
1 TTCTAGAA
5411069 CATCTCCAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
40 36 0.86
42 6 0.14
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.35
Consensus pattern (39 bp):
TTCTAGAAAATTCTACACTTCTCCAGAGTTCTCAAAATG
Found at i:5411068 original size:20 final size:20
Alignment explanation
Indices: 5411016--5411068 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
5411006 GAGTTCTCCG
*
5411016 AAATGTTCTAGAAAATTCTA
1 AAATTTTCTAGAAAATTCTA
* * * * *
5411036 CACTTCTCCAGAAAGTTCTA
1 AAATTTTCTAGAAAATTCTA
5411056 AAATTTTCTAGAA
1 AAATTTTCTAGAA
5411069 CATCTCCAAT
Statistics
Matches: 23, Mismatches: 10, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (20 bp):
AAATTTTCTAGAAAATTCTA
Found at i:5411627 original size:11 final size:11
Alignment explanation
Indices: 5411606--5411637 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
5411596 GTGGCTATAC
5411606 TGTTT-GATTT
1 TGTTTGGATTT
5411616 TGTTTGGATTT
1 TGTTTGGATTT
5411627 TGTTTGGATTT
1 TGTTTGGATTT
5411638 CTATTTGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.09, C:0.00, G:0.25, T:0.66
Consensus pattern (11 bp):
TGTTTGGATTT
Found at i:5414125 original size:14 final size:13
Alignment explanation
Indices: 5414101--5414140 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
5414091 AATAATCAAC
5414101 TTTTT-CTTTTTT
1 TTTTTGCTTTTTT
5414113 TTTTCTGC-TTTTT
1 TTTT-TGCTTTTTT
5414126 TTTTTGCTTTTTT
1 TTTTTGCTTTTTT
5414139 TT
1 TT
5414141 GTTCAAACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 7 0.28
13 17 0.68
14 1 0.04
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (13 bp):
TTTTTGCTTTTTT
Found at i:5414126 original size:13 final size:12
Alignment explanation
Indices: 5414108--5414140 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
5414098 AACTTTTTCT
5414108 TTTTTTTTTCTGC
1 TTTTTTTTT-TGC
5414121 TTTTTTTTTTGC
1 TTTTTTTTTTGC
5414133 TTTTTTTT
1 TTTTTTTT
5414141 GTTCAAACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTTGC
Found at i:5416142 original size:20 final size:20
Alignment explanation
Indices: 5416099--5416142 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
5416089 AAGGCTCATG
* *
5416099 CTATCTAGTCTACTACTTTA
1 CTATCAAGTCTACTACTCTA
* *
5416119 CTATCAAGTCTATTACTCTC
1 CTATCAAGTCTACTACTCTA
5416139 CTAT
1 CTAT
5416143 GCTTTAGTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.27, G:0.05, T:0.43
Consensus pattern (20 bp):
CTATCAAGTCTACTACTCTA
Found at i:5421081 original size:104 final size:106
Alignment explanation
Indices: 5420962--5421167 Score: 301
Period size: 108 Copynumber: 1.9 Consensus size: 106
5420952 TAATTCACAT
* * *
5420962 TCATTATGAATACCATGC-ATG-CAC-ACATAGTGCCGAAAGTACACAAAGGTATTGATACGAAA
1 TCATTATGAACACCAT-CAATGACACAACATAGTGCCAAAAGTACACAAAGGTACTGATACGAAA
* * *
5421024 ATGCAACGTATGCATTAAACAAAATCGATTGATAACAAGTGC
65 ATGAAACATATGCATTAAACAAAATCGATCGATAACAAGTGC
5421066 TCATTATGAACACCATCAATGCACACATACATAGTGCCAAAAGTACACAAAGGTACTGATACGAA
1 TCATTATGAACACCATCAATG-ACACA-ACATAGTGCCAAAAGTACACAAAGGTACTGATACGAA
*
5421131 AATGAAACATGTGCATTAAACAAAATCGATCGATAAC
64 AATGAAACATATGCATTAAACAAAATCGATCGATAAC
5421168 CATCATACTC
Statistics
Matches: 90, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
103 1 0.01
104 18 0.20
106 3 0.03
108 68 0.76
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.22
Consensus pattern (106 bp):
TCATTATGAACACCATCAATGACACAACATAGTGCCAAAAGTACACAAAGGTACTGATACGAAAA
TGAAACATATGCATTAAACAAAATCGATCGATAACAAGTGC
Found at i:5427185 original size:18 final size:18
Alignment explanation
Indices: 5427139--5427185 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
5427129 AAATGAGTTT
*
5427139 TTAAGTAGTTGATGAAAA
1 TTAAGTAGTTTATGAAAA
5427157 TTAAGTAGTTTATGAAAA
1 TTAAGTAGTTTATGAAAA
*
5427175 TTGAGTAGTTT
1 TTAAGTAGTTT
5427186 TTGGATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.40
Consensus pattern (18 bp):
TTAAGTAGTTTATGAAAA
Found at i:5428209 original size:23 final size:23
Alignment explanation
Indices: 5428169--5428235 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
5428159 GTCGAGAGTT
* *
5428169 CTACGCGGTCCTTCGGGACAATC
1 CTACTCGGTCATTCGGGACAATC
* * *
5428192 CTA-TGTGGTCATTTGGGACAATT
1 CTACT-CGGTCATTCGGGACAATC
5428215 CTACTCGGTCATTCGGGACAA
1 CTACTCGGTCATTCGGGACAA
5428236 ATATACATGT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
23 34 0.97
24 1 0.03
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.28
Consensus pattern (23 bp):
CTACTCGGTCATTCGGGACAATC
Found at i:5428418 original size:22 final size:23
Alignment explanation
Indices: 5428383--5428429 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
5428373 GTGCATAACA
5428383 GTATATGTTATTTA-TATGAAAT
1 GTATATGTTATTTAGTATGAAAT
*
5428405 GTATCATGTT-TTTAGTATTAAAT
1 GTAT-ATGTTATTTAGTATGAAAT
5428428 GT
1 GT
5428430 TTTCTCTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.51
Consensus pattern (23 bp):
GTATATGTTATTTAGTATGAAAT
Found at i:5429397 original size:33 final size:33
Alignment explanation
Indices: 5429360--5429428 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
5429350 CATAAAAATT
* *
5429360 ATGTTGAATGGTCACAATTGTTCTCAAATGGAG
1 ATGTTGAATGGTAACAATTGTTCTAAAATGGAG
*
5429393 ATGTTGGATGGTAACAATTGTTCTAAAATGGAG
1 ATGTTGAATGGTAACAATTGTTCTAAAATGGAG
5429426 ATG
1 ATG
5429429 CTGGATGGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.33
Consensus pattern (33 bp):
ATGTTGAATGGTAACAATTGTTCTAAAATGGAG
Found at i:5429434 original size:33 final size:33
Alignment explanation
Indices: 5429367--5429436 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
5429357 ATTATGTTGA
* * *
5429367 ATGGTCACAATTGTTCTCAAATGGAGATGTTGG
1 ATGGTAACAATTGTTCTAAAATGGAGATGCTGG
5429400 ATGGTAACAATTGTTCTAAAATGGAGATGCTGG
1 ATGGTAACAATTGTTCTAAAATGGAGATGCTGG
5429433 ATGG
1 ATGG
5429437 AGTAGTCTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.10, G:0.29, T:0.31
Consensus pattern (33 bp):
ATGGTAACAATTGTTCTAAAATGGAGATGCTGG
Found at i:5434848 original size:17 final size:17
Alignment explanation
Indices: 5434826--5434862 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
5434816 TCCAATGATA
* *
5434826 CTTCAATGGATATGTGG
1 CTTCAACGGATATGCGG
5434843 CTTCAACGGATATGCGG
1 CTTCAACGGATATGCGG
5434860 CTT
1 CTT
5434863 ACGTAAAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (17 bp):
CTTCAACGGATATGCGG
Found at i:5438891 original size:12 final size:12
Alignment explanation
Indices: 5438862--5438923 Score: 62
Period size: 12 Copynumber: 5.6 Consensus size: 12
5438852 TTTAAAGAAA
5438862 TTAAAA-TTA-T
1 TTAAAATTTATT
5438872 TT-AAATTTATT
1 TTAAAATTTATT
5438883 TTAAAATTTATT
1 TTAAAATTTATT
* **
5438895 TTAAAATATAGA
1 TTAAAATTTATT
5438907 TT--AATTTATT
1 TTAAAATTTATT
5438917 TTAAAAT
1 TTAAAAT
5438924 ATCGATTGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
9 3 0.07
10 12 0.29
11 3 0.07
12 23 0.56
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (12 bp):
TTAAAATTTATT
Found at i:5438912 original size:22 final size:22
Alignment explanation
Indices: 5438888--5439076 Score: 301
Period size: 22 Copynumber: 8.6 Consensus size: 22
5438878 TTATTTTAAA
* *
5438888 ATTTATTTTAAAATATAGATTA
1 ATTTATTTTAAAATATGGATTG
*
5438910 ATTTATTTTAAAATATCGATTG
1 ATTTATTTTAAAATATGGATTG
*
5438932 ATTTATTTTAAAATATGAAAATT-
1 ATTTATTTTAAAATATG--GATTG
5438955 -TTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
5438976 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
5438998 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
*
5439020 ATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATATGGATTG
5439042 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
5439064 ATTTATTTTAAAA
1 ATTTATTTTAAAA
5439077 AATTTATTAT
Statistics
Matches: 156, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
20 3 0.02
22 150 0.96
24 3 0.02
ACGTcount: A:0.40, C:0.01, G:0.10, T:0.50
Consensus pattern (22 bp):
ATTTATTTTAAAATATGGATTG
Found at i:5442665 original size:20 final size:19
Alignment explanation
Indices: 5442619--5442670 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
5442609 TATAATAGTA
*
5442619 GAGTATCGATACTTGGGAC
1 GAGTATCGATACTAGGGAC
5442638 GAGTATCGATACTCAAGGGAC
1 GAGTATCGATACT--AGGGAC
*
5442659 G-GTATCGGTACT
1 GAGTATCGATACT
5442671 GAGAGGCATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 13 0.45
20 10 0.34
21 6 0.21
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (19 bp):
GAGTATCGATACTAGGGAC
Found at i:5446171 original size:16 final size:15
Alignment explanation
Indices: 5446143--5446202 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 15
5446133 TACTATTACA
5446143 TTATT-AATGTATTGAT
1 TTATTAAAT-TATTG-T
*
5446159 TTATTAAATTATTTT
1 TTATTAAATTATTGT
5446174 TATATTAATATT-TTGT
1 T-TATTAA-ATTATTGT
5446190 TTATTTAAATTAT
1 TTA-TTAAATTAT
5446203 AAGTAAGACA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
15 7 0.19
16 24 0.65
17 6 0.16
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (15 bp):
TTATTAAATTATTGT
Found at i:5459187 original size:29 final size:29
Alignment explanation
Indices: 5459145--5459200 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
5459135 ATTTTCACCT
5459145 AACTAAATTGATGTAAGCAATGACATCCA
1 AACTAAATTGATGTAAGCAATGACATCCA
*
5459174 AACTAAATTGATGTAAGCAATGCCATC
1 AACTAAATTGATGTAAGCAATGACATC
5459201 AAATTAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCCA
Found at i:5463865 original size:29 final size:29
Alignment explanation
Indices: 5463820--5463878 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
5463810 ATTTTCACCT
5463820 AACTAAATTGATATAAGCAATGACATCAA
1 AACTAAATTGATATAAGCAATGACATCAA
*
5463849 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATATAAGCAATGACATCAA
5463878 A
1 A
5463879 TTAATTTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.51, C:0.14, G:0.12, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATATAAGCAATGACATCAA
Found at i:5466634 original size:14 final size:14
Alignment explanation
Indices: 5466615--5466644 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5466605 ATAATTGATT
*
5466615 TTCTGGAAATTGAA
1 TTCTGGAAAATGAA
5466629 TTCTGGAAAATGAA
1 TTCTGGAAAATGAA
5466643 TT
1 TT
5466645 ACATTTCTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (14 bp):
TTCTGGAAAATGAA
Found at i:5466862 original size:24 final size:26
Alignment explanation
Indices: 5466810--5466876 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
5466800 TTAAATACAA
5466810 TAAATAATATTATTTATCATAAAACT
1 TAAATAATATTATTTATCATAAAACT
5466836 TAAATAATATTATTT-TC-TAAATA-T
1 TAAATAATATTATTTATCATAAA-ACT
5466860 TAAAATAAT-TTATTTAT
1 T-AAATAATATTATTTAT
5466877 TATTAAATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
24 12 0.32
25 11 0.29
26 15 0.39
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (26 bp):
TAAATAATATTATTTATCATAAAACT
Found at i:5466960 original size:31 final size:29
Alignment explanation
Indices: 5466892--5467022 Score: 70
Period size: 31 Copynumber: 4.3 Consensus size: 29
5466882 AATATTATTT
*
5466892 TTATAATTTTATTAATAAAAATATTAATAT
1 TTAT-ATTTTATTAATAAAAATATTAATAA
5466922 TGGTATATTTTATTGAAATAAAAATATT-ATAAA
1 T--TATATTTTATT--AATAAAAATATTAAT-AA
* * * * * *
5466955 TTATATTAATTATTTATTAAAGTAATAGT-G
1 TTATATT--TTATTAATAAAAATATTAATAA
* * *
5466985 TTATATTATATT-TTAAAAATATTAATTA
1 TTATATTTTATTAATAAAAATATTAATAA
*
5467013 GTATATTTTA
1 TTATATTTTA
5467023 AATATATTTA
Statistics
Matches: 76, Mismatches: 16, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
27 9 0.12
28 12 0.16
30 8 0.11
31 22 0.29
32 6 0.08
33 19 0.25
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (29 bp):
TTATATTTTATTAATAAAAATATTAATAA
Found at i:5467020 original size:23 final size:23
Alignment explanation
Indices: 5466991--5467035 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
5466981 AGTGTTATAT
5466991 TATATTTTAAAAATATTAATTAG
1 TATATTTTAAAAATATTAATTAG
* *
5467014 TATATTTTAAATATATTTATTA
1 TATATTTTAAAAATATTAATTA
5467036 AAATATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TATATTTTAAAAATATTAATTAG
Found at i:5467041 original size:23 final size:23
Alignment explanation
Indices: 5466992--5467042 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
5466982 GTGTTATATT
**
5466992 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* *
5467015 ATATTTTAAATATATTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
5467038 ATATT
1 ATATT
5467043 ATTATATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:5467082 original size:27 final size:27
Alignment explanation
Indices: 5467052--5467132 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 27
5467042 TATTATATTA
5467052 TATTAATATTAAATAAATAAATAATAT
1 TATTAATATTAAATAAATAAATAATAT
* * *
5467079 TATTCATTATT-AATAATTTAATAATAT
1 TATT-AATATTAAATAAATAAATAATAT
** * *
5467106 TATTTCTATGAAATTAATAAATAATAT
1 TATTAATATTAAATAAATAAATAATAT
5467133 AAATTTTATT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
26 3 0.07
27 35 0.81
28 5 0.12
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (27 bp):
TATTAATATTAAATAAATAAATAATAT
Found at i:5467240 original size:22 final size:23
Alignment explanation
Indices: 5467212--5467258 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
5467202 TTGATTATTT
5467212 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
5467234 TATTATATTATTAGAAATATTAA
1 TATTATAATATTAAAAATATTAA
5467257 TA
1 TA
5467259 AAATATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:5467245 original size:30 final size:33
Alignment explanation
Indices: 5467195--5467256 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 33
5467185 ATATTATTAT
* *
5467195 AATATAATTGATTATTTTATTA-TAATATTAAA
1 AATATAATTGATTATATTATTAGAAATATTAAA
5467227 AATATAA-T-ATTATATTATTAGAAATATTAA
1 AATATAATTGATTATATTATTAGAAATATTAA
5467257 TAAAATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 11 0.41
31 9 0.33
32 7 0.26
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (33 bp):
AATATAATTGATTATATTATTAGAAATATTAAA
Found at i:5467264 original size:23 final size:22
Alignment explanation
Indices: 5467220--5467270 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
5467210 TTTATTATAA
**
5467220 TATTAAAAATATAATATTATAT
1 TATTAAAAATATAATAAAATAT
*
5467242 TATTAGAAATATTAATAAAATAT
1 TATTAAAAATA-TAATAAAATAT
5467265 T-TTAAA
1 TATTAAA
5467271 TATTTTAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TATTAAAAATATAATAAAATAT
Found at i:5467473 original size:22 final size:22
Alignment explanation
Indices: 5467448--5467489 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
5467438 TATATTGACT
*
5467448 AGGAAAATGTTTTACGTTGATC
1 AGGAAAATGTTTTACATTGATC
5467470 AGGAAAATGTTTTACATTGA
1 AGGAAAATGTTTTACATTGA
5467490 CCAACCGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (22 bp):
AGGAAAATGTTTTACATTGATC
Found at i:5467556 original size:42 final size:42
Alignment explanation
Indices: 5467510--5467597 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
5467500 TTCCTCCAAC
**
5467510 CAAACACTTAAAAACATTTTCCGGAAAACGAATTACGTGAAA
1 CAAACACAGAAAAACATTTTCCGGAAAACGAATTACGTGAAA
*
5467552 CAAACACAGAAAAACATTTTTCGGAAAACGAATTACGTGAAA
1 CAAACACAGAAAAACATTTTCCGGAAAACGAATTACGTGAAA
5467594 CAAA
1 CAAA
5467598 TACGGGATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.50, C:0.18, G:0.12, T:0.19
Consensus pattern (42 bp):
CAAACACAGAAAAACATTTTCCGGAAAACGAATTACGTGAAA
Found at i:5468617 original size:89 final size:89
Alignment explanation
Indices: 5468494--5468659 Score: 262
Period size: 89 Copynumber: 1.9 Consensus size: 89
5468484 ATAACATTTC
*
5468494 TTATCAATAAATTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAACATACTTACCATT
1 TTATCAATAAACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAACATACTTACCA-T
5468559 TATTCCATAAGCTCGTAAGCTTATT
65 TATTCCATAAGCTCGTAAGCTTATT
* * * **
5468584 TTATCAATATACTTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTGTCATT
1 TTATCAATAAACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAACATACTTACCATT
5468648 ATTCCATAAGCT
66 ATTCCATAAGCT
5468660 TACGATTCCA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
88 14 0.20
89 40 0.57
90 16 0.23
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.40
Consensus pattern (89 bp):
TTATCAATAAACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAACATACTTACCATT
ATTCCATAAGCTCGTAAGCTTATT
Found at i:5468621 original size:44 final size:45
Alignment explanation
Indices: 5468506--5468659 Score: 249
Period size: 44 Copynumber: 3.5 Consensus size: 45
5468496 ATCAATAAAT
* *
5468506 TTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAACATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
*
5468551 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
5468596 TTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
**
5468640 TTGTCA-TTATTCCATAAGCT
1 TTACCATTTATTCCATAAGCT
5468660 TACGATTCCA
Statistics
Matches: 103, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
44 55 0.53
45 48 0.47
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.40
Consensus pattern (45 bp):
TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
Found at i:5468992 original size:59 final size:59
Alignment explanation
Indices: 5468929--5469499 Score: 496
Period size: 59 Copynumber: 9.7 Consensus size: 59
5468919 CCCTATGTGA
* * * *
5468929 AAATCCATAC-CATTAGTATGATTTCCTTATC-TTCGTAGCACCCTTAGTGCTTTATCTGG
1 AAATCCATACAC-TCAGTATGATTTCCTTATCATT-GTAGCACACTAAGTGCTCTATCTGG
* * * *
5468988 AAATCCATACACTCAGTATGATTCCCTTACCATTTTAGCACA-TAAAATG-TCCTATCTGG
1 AAATCCATACACTCAGTATGATTTCCTTATCATTGTAGCACACT-AAGTGCT-CTATCTGG
* *** * * * * * * * *
5469047 AAATTCATATTTTTAATATGATTTTCTTATCATT-TATCATACTCAGTGCTCCATATGG
1 AAATCCATACACTCAGTATGATTTCCTTATCATTGTAGCACACTAAGTGCTCTATCTGG
* * * *
5469105 AAATCTATACACTCAGTATGATTTCCTTATCTTTGTAGCACACAAAGTGCTTTATCTGG
1 AAATCCATACACTCAGTATGATTTCCTTATCATTGTAGCACACTAAGTGCTCTATCTGG
* * * * *
5469164 AAATCCATACACTCAGTATGATTCCCTTACCATTTTAGCACA-TAAAATGCCCTATCTGG
1 AAATCCATACACTCAGTATGATTTCCTTATCATTGTAGCACACT-AAGTGCTCTATCTGG
*** * * * * * *
5469223 AAATCCATATTTTCAATATGATTTCCTTATCATT-TAGTATACTCAGTGCTCCATATGG
1 AAATCCATACACTCAGTATGATTTCCTTATCATTGTAGCACACTAAGTGCTCTATCTGG
* * * *
5469281 AAATCTATACACTCAGTATGATTTCCTTATCTTTGTAGCACACAAAGTGCTTTATCTGG
1 AAATCCATACACTCAGTATGATTTCCTTATCATTGTAGCACACTAAGTGCTCTATCTGG
* * * * *
5469340 AAATCCATACACTCAGTATGATTCCCTTACCATTTTAGCACA-TAAAAT-ATCCTATCTGG
1 AAATCCATACACTCAGTATGATTTCCTTATCATTGTAGCACACT-AAGTGCT-CTATCTGG
* *** * * * *
5469399 AAATTCATATTTTCAATATGATTTCCTTATCATT-TAGCACACTCAGTGCTCCATATGG
1 AAATCCATACACTCAGTATGATTTCCTTATCATTGTAGCACACTAAGTGCTCTATCTGG
* *
5469457 AAATCTATACACTCAGTATGATTTCCTTATCATTTTAGCACAC
1 AAATCCATACACTCAGTATGATTTCCTTATCATTGTAGCACAC
5469500 AAATTGTCAT
Statistics
Matches: 396, Mismatches: 101, Indels: 30
0.75 0.19 0.06
Matches are distributed among these distances:
58 128 0.32
59 265 0.67
60 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (59 bp):
AAATCCATACACTCAGTATGATTTCCTTATCATTGTAGCACACTAAGTGCTCTATCTGG
Found at i:5469133 original size:117 final size:117
Alignment explanation
Indices: 5468884--5469507 Score: 521
Period size: 117 Copynumber: 5.3 Consensus size: 117
5468874 TCATACCATT
** * * * * * * * * *
5468884 AGTATGATTTTGTTACCATTTTAGAACATGAAATGCCCTATGTGAAAATCCATAC-CATTAGTAT
1 AGTATGATTTCCTTATCATTTTAGCACATAAAATGTCCTATCTGGAAATTCATACAC-TCAATAT
* * ** *
5468948 GATTTCCTTATC-TTCGTAGCACCCTTAGTGCTTTATCTGGAAATCCATACACTC
65 GATTTCCTTATCATT--TAGCACACTAAGTGCTCCATATGGAAATCCATACACTC
* * *** *
5469002 AGTATGATTCCCTTACCATTTTAGCACATAAAATGTCCTATCTGGAAATTCATATTTTTAATATG
1 AGTATGATTTCCTTATCATTTTAGCACATAAAATGTCCTATCTGGAAATTCATACACTCAATATG
* * * * *
5469067 ATTTTCTTATCATTTATCATACTCAGTGCTCCATATGGAAATCTATACACTC
66 ATTTCCTTATCATTTAGCACACTAAGTGCTCCATATGGAAATCCATACACTC
* * * * *
5469119 AGTATGATTTCCTTATC-TTTGTAGCACACAAAGTG-CTTTATCTGGAAATCCATACACTCAGTA
1 AGTATGATTTCCTTATCATTT-TAGCACATAAAATGTC-CTATCTGGAAATTCATACACTCAATA
* * * * ***
5469182 TGATTCCCTTACCATTTTAGCACA-TAAAATGC-CCTATCTGGAAATCCATATTTTC
64 TGATTTCCTTATCA-TTTAGCACACT-AAGTGCTCC-ATATGGAAATCCATACACTC
* * * * * * *
5469237 AATATGATTTCCTTATCA-TTTAGTATACT-CAGTGCTCC-ATATGGAAA-TCTATACACTCAGT
1 AGTATGATTTCCTTATCATTTTAGCACA-TAAAATG-TCCTATCTGGAAATTC-ATACACTCAAT
* * ** *
5469298 ATGATTTCCTTATCTTTGTAGCACACAAAGTGCTTTATCTGGAAATCCATACACTC
63 ATGATTTCCTTATCATT-TAGCACACTAAGTGCTCCATATGGAAATCCATACACTC
* * * ***
5469354 AGTATGATTCCCTTACCATTTTAGCACATAAAATATCCTATCTGGAAATTCATATTTTCAATATG
1 AGTATGATTTCCTTATCATTTTAGCACATAAAATGTCCTATCTGGAAATTCATACACTCAATATG
* *
5469419 ATTTCCTTATCATTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTC
66 ATTTCCTTATCATTTAGCACACTAAGTGCTCCATATGGAAATCCATACACTC
* *
5469471 AGTATGATTTCCTTATCATTTTAGCACACAAATTGTC
1 AGTATGATTTCCTTATCATTTTAGCACATAAAATGTC
5469508 ATTTGGTACA
Statistics
Matches: 400, Mismatches: 87, Indels: 39
0.76 0.17 0.07
Matches are distributed among these distances:
116 7 0.02
117 242 0.61
118 146 0.37
119 5 0.01
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.37
Consensus pattern (117 bp):
AGTATGATTTCCTTATCATTTTAGCACATAAAATGTCCTATCTGGAAATTCATACACTCAATATG
ATTTCCTTATCATTTAGCACACTAAGTGCTCCATATGGAAATCCATACACTC
Found at i:5469162 original size:176 final size:176
Alignment explanation
Indices: 5468943--5469502 Score: 989
Period size: 176 Copynumber: 3.2 Consensus size: 176
5468933 CCATACCATT
* * **
5468943 AGTATGATTTCCTTATCTTCGTAGCACCCTTAGTGCTTTATCTGGAAATCCATACACTCAGTATG
1 AGTATGATTTCCTTATCTTTGTAGCACACAAAGTGCTTTATCTGGAAATCCATACACTCAGTATG
* *
5469008 ATTCCCTTACCATTTTAGCACATAAAATGTCCTATCTGGAAATTCATATTTTTAATATGATTTTC
66 ATTCCCTTACCATTTTAGCACATAAAATGTCCTATCTGGAAATTCATATTTTCAATATGATTTCC
5469073 TTATCATTTATCATACTCAGTGCTCCATATGGAAATCTATACACTC
131 TTATCATTTATCATACTCAGTGCTCCATATGGAAATCTATACACTC
5469119 AGTATGATTTCCTTATCTTTGTAGCACACAAAGTGCTTTATCTGGAAATCCATACACTCAGTATG
1 AGTATGATTTCCTTATCTTTGTAGCACACAAAGTGCTTTATCTGGAAATCCATACACTCAGTATG
* *
5469184 ATTCCCTTACCATTTTAGCACATAAAATGCCCTATCTGGAAATCCATATTTTCAATATGATTTCC
66 ATTCCCTTACCATTTTAGCACATAAAATGTCCTATCTGGAAATTCATATTTTCAATATGATTTCC
5469249 TTATCATTTAGT-ATACTCAGTGCTCCATATGGAAATCTATACACTC
131 TTATCATTTA-TCATACTCAGTGCTCCATATGGAAATCTATACACTC
5469295 AGTATGATTTCCTTATCTTTGTAGCACACAAAGTGCTTTATCTGGAAATCCATACACTCAGTATG
1 AGTATGATTTCCTTATCTTTGTAGCACACAAAGTGCTTTATCTGGAAATCCATACACTCAGTATG
*
5469360 ATTCCCTTACCATTTTAGCACATAAAATATCCTATCTGGAAATTCATATTTTCAATATGATTTCC
66 ATTCCCTTACCATTTTAGCACATAAAATGTCCTATCTGGAAATTCATATTTTCAATATGATTTCC
* *
5469425 TTATCATTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTC
131 TTATCATTTATCATACTCAGTGCTCCATATGGAAATCTATACACTC
5469471 AGTATGATTTCCTTATCATTT-TAGCACACAAA
1 AGTATGATTTCCTTATC-TTTGTAGCACACAAA
5469503 TTGTCATTTG
Statistics
Matches: 368, Mismatches: 13, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
176 364 0.99
177 4 0.01
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (176 bp):
AGTATGATTTCCTTATCTTTGTAGCACACAAAGTGCTTTATCTGGAAATCCATACACTCAGTATG
ATTCCCTTACCATTTTAGCACATAAAATGTCCTATCTGGAAATTCATATTTTCAATATGATTTCC
TTATCATTTATCATACTCAGTGCTCCATATGGAAATCTATACACTC
Found at i:5473912 original size:15 final size:15
Alignment explanation
Indices: 5473894--5473929 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
5473884 TCGAGGGTAT
5473894 TGTAGTCCTTCGGGA
1 TGTAGTCCTTCGGGA
*
5473909 TGTAGTCCTTTGGGA
1 TGTAGTCCTTCGGGA
*
5473924 CGTAGT
1 TGTAGT
5473930 GGTCCTACGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.17, G:0.33, T:0.36
Consensus pattern (15 bp):
TGTAGTCCTTCGGGA
Found at i:5474329 original size:15 final size:14
Alignment explanation
Indices: 5474304--5474333 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
5474294 CCAAGAAACG
5474304 AGAAGAGCAAGAAT
1 AGAAGAGCAAGAAT
5474318 AGAAGTAGCAAGAAT
1 AGAAG-AGCAAGAAT
5474333 A
1 A
5474334 ATATTATTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.57, C:0.07, G:0.27, T:0.10
Consensus pattern (14 bp):
AGAAGAGCAAGAAT
Found at i:5480119 original size:21 final size:20
Alignment explanation
Indices: 5480080--5480117 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
5480070 AATATGTTCA
*
5480080 GGGGGTATCGATTCCCCCTG
1 GGGGGTATCAATTCCCCCTG
5480100 GGGGGTATCAATTCCCCC
1 GGGGGTATCAATTCCCCC
5480118 CTAAATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.32, G:0.32, T:0.24
Consensus pattern (20 bp):
GGGGGTATCAATTCCCCCTG
Found at i:5480458 original size:7 final size:7
Alignment explanation
Indices: 5480446--5480496 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
5480436 ATAGGTTATT
5480446 ATATATG
1 ATATATG
5480453 ATATATG
1 ATATATG
5480460 ATATGAT-
1 ATAT-ATG
*
5480467 ATACATG
1 ATATATG
5480474 ATTATATG
1 A-TATATG
*
5480482 CATATGTG
1 -ATATATG
5480490 ATATATG
1 ATATATG
5480497 CTATGAGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
6 2 0.06
7 21 0.58
8 12 0.33
9 1 0.03
ACGTcount: A:0.39, C:0.04, G:0.16, T:0.41
Consensus pattern (7 bp):
ATATATG
Found at i:5483648 original size:44 final size:45
Alignment explanation
Indices: 5483532--5483711 Score: 274
Period size: 44 Copynumber: 4.0 Consensus size: 45
5483522 ATTAATAAAT
* * *
5483532 TTACCATTTATCCCATAAGCTCGTAAACTTATTTTACCAACATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
*
5483577 TTACCATTTATTCCATAAGCTCATAAGCTTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
*
5483622 TTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAG
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
* * *
5483666 TTGCCA-ATATTGCATAAGCTCGTAAGCTTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
5483710 TT
1 TT
5483712 TTTATTAACC
Statistics
Matches: 125, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
44 78 0.62
45 47 0.38
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.38
Consensus pattern (45 bp):
TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
Found at i:5483705 original size:88 final size:90
Alignment explanation
Indices: 5483532--5483711 Score: 274
Period size: 89 Copynumber: 2.0 Consensus size: 90
5483522 ATTAATAAAT
*
5483532 TTACCATTTATCCCATAAGCTCGTAAACTTATTTTACCAACATACTTACCATTTATTCCATAAGC
1 TTACCATTTATCCCATAAGCTCGTAAACTTATTTTACCAACATACTTACCATATATTCCATAAGC
5483597 TCATAAGCTTATTTTACCAATATAC
66 TCATAAGCTTATTTTACCAATATAC
* * * * * *
5483622 TTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAGTTGCCA-ATATTGCATAAGC
1 TTACCATTTATCCCATAAGCTCGTAAACTTATTTTACCAACATACTTACCATATATTCCATAAGC
*
5483685 TCGTAAGCTTATTTTACCAATATAC
66 TCATAAGCTTATTTTACCAATATAC
5483710 TT
1 TT
5483712 TTTATTAACC
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
88 37 0.45
89 39 0.48
90 6 0.07
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.38
Consensus pattern (90 bp):
TTACCATTTATCCCATAAGCTCGTAAACTTATTTTACCAACATACTTACCATATATTCCATAAGC
TCATAAGCTTATTTTACCAATATAC
Found at i:5484016 original size:59 final size:58
Alignment explanation
Indices: 5483953--5484155 Score: 223
Period size: 59 Copynumber: 3.5 Consensus size: 58
5483943 CCATACCCTT
*
5483953 AGTATGATTTCCTTATC-TTTGTAGCACCCTTAGTGCTTTATCTGGAAATCTATACACTC
1 AGTATGATTTCCTTATCATTT-TAGCA-CCTTAGTGCTCTATCTGGAAATCTATACACTC
* * * * * ***
5484012 AGTATGATTCCCTTACCATTTTAGCA-CTTAAAATGCCCTATCTGGAAATCCATATTTTC
1 AGTATGATTTCCTTATCATTTTAGCACCTT--AGTGCTCTATCTGGAAATCTATACACTC
* * * *
5484071 AATATGATTTCCTTATCA-TTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTC
1 AGTATGATTTCCTTATCATTTTAGCAC-CTTAGTGCTCTATCTGGAAATCTATACACTC
5484129 AGTATGATTTCCTTATCATTTTAGCAC
1 AGTATGATTTCCTTATCATTTTAGCAC
5484156 AAAAATTGTC
Statistics
Matches: 116, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
57 3 0.03
58 44 0.38
59 64 0.55
60 5 0.04
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (58 bp):
AGTATGATTTCCTTATCATTTTAGCACCTTAGTGCTCTATCTGGAAATCTATACACTC
Found at i:5484149 original size:117 final size:118
Alignment explanation
Indices: 5483906--5484161 Score: 340
Period size: 117 Copynumber: 2.2 Consensus size: 118
5483896 TATGGTTTTG
* * * *
5483906 TTACCATTTTAGCACATGAAATGCCCTATGTGAAATTCCATACCCTTAGTATGATTTCCTTATCT
1 TTACCATTTTAGCACATAAAATGCCCTATCTGAAATTCCATACCCTTAATATGATTTCCTTATCA
* * ** *
5483971 TTGTAGCACCCTTAGTGCTTTATCTGGAAATCTATACACTCAGTATGATTCCC
66 TTGTAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAGTATGATTCCC
* **
5484024 TTACCATTTTAGCACTTAAAATGCCCTATCTGGAAA-TCCATA-TTTTCAATATGATTTCCTTAT
1 TTACCATTTTAGCACATAAAATGCCCTATCT-GAAATTCCATACCCTT-AATATGATTTCCTTAT
*
5484087 CATT-TAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAGTATGATTTCC
64 CATTGTAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAGTATGATTCCC
*
5484141 TTATCATTTTAGCACA-AAAAT
1 TTACCATTTTAGCACATAAAAT
5484162 TGTCATTCGG
Statistics
Matches: 121, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
116 5 0.04
117 60 0.50
118 52 0.43
119 4 0.03
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (118 bp):
TTACCATTTTAGCACATAAAATGCCCTATCTGAAATTCCATACCCTTAATATGATTTCCTTATCA
TTGTAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAGTATGATTCCC
Found at i:5486083 original size:15 final size:15
Alignment explanation
Indices: 5486063--5486092 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5486053 ATGTAACATA
*
5486063 TTAACTATTTAATAC
1 TTAACTATCTAATAC
5486078 TTAACTATCTAATAC
1 TTAACTATCTAATAC
5486093 AATTATTCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (15 bp):
TTAACTATCTAATAC
Found at i:5496507 original size:15 final size:14
Alignment explanation
Indices: 5496487--5496536 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
5496477 TGACACGACC
*
5496487 GAGTCAACATGGTCT
1 GAGTCAAC-TCGTCT
*
5496502 GAGTCAACTCTTCT
1 GAGTCAACTCGTCT
* *
5496516 GAGTCAACTCATTT
1 GAGTCAACTCGTCT
5496530 GAGTCAA
1 GAGTCAA
5496537 ACCATTGACT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 23 0.74
15 8 0.26
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (14 bp):
GAGTCAACTCGTCT
Found at i:5496518 original size:14 final size:15
Alignment explanation
Indices: 5496499--5496536 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
5496489 GTCAACATGG
5496499 TCTGAGTCAACTC-T
1 TCTGAGTCAACTCAT
5496513 TCTGAGTCAACTCAT
1 TCTGAGTCAACTCAT
5496528 T-TGAGTCAA
1 TCTGAGTCAA
5496537 ACCATTGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 21 0.91
15 2 0.09
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (15 bp):
TCTGAGTCAACTCAT
Found at i:5501938 original size:23 final size:23
Alignment explanation
Indices: 5501912--5501956 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
5501902 ATTTAGATTT
5501912 TTTTAATAAAATTATTAATTTAC
1 TTTTAATAAAATTATTAATTTAC
** * *
5501935 TTTTTTTAAGATTATTTATTTA
1 TTTTAATAAAATTATTAATTTA
5501957 ATTAATATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTTAATAAAATTATTAATTTAC
Found at i:5502480 original size:18 final size:18
Alignment explanation
Indices: 5502458--5502497 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
5502448 ATTTCATAAT
5502458 AAAAATATATGATTTTTTA
1 AAAAAT-TATGATTTTTTA
*
5502477 AAAAATTATTATTTTTTA
1 AAAAATTATGATTTTTTA
5502495 AAA
1 AAA
5502498 TTTATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
AAAAATTATGATTTTTTA
Found at i:5508414 original size:10 final size:10
Alignment explanation
Indices: 5508385--5508418 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
5508375 AAGCTTTCAC
5508385 TTTCAATTAT
1 TTTCAATTAT
5508395 TTTCACATTAT
1 TTTCA-ATTAT
*
5508406 TTTCGATTAT
1 TTTCAATTAT
5508416 TTT
1 TTT
5508419 ATCATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.24, C:0.12, G:0.03, T:0.62
Consensus pattern (10 bp):
TTTCAATTAT
Found at i:5509629 original size:3 final size:3
Alignment explanation
Indices: 5509623--5509677 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
5509613 TGCCTTTTTT
5509623 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5509671 TAA TAA T
1 TAA TAA T
5509678 TTATTTGCTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:5522038 original size:28 final size:28
Alignment explanation
Indices: 5521998--5522086 Score: 169
Period size: 28 Copynumber: 3.2 Consensus size: 28
5521988 ATGTCGAATC
5521998 ATATTTTCTTGTAACTTAGGTGATAATG
1 ATATTTTCTTGTAACTTAGGTGATAATG
*
5522026 ATATTTTCTTGTAACTTAGGTGATAATC
1 ATATTTTCTTGTAACTTAGGTGATAATG
5522054 ATATTTTCTTGTAACTTAGGTGATAATG
1 ATATTTTCTTGTAACTTAGGTGATAATG
5522082 ATATT
1 ATATT
5522087 GCTAGGTGTC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.29, C:0.08, G:0.16, T:0.47
Consensus pattern (28 bp):
ATATTTTCTTGTAACTTAGGTGATAATG
Found at i:5526315 original size:16 final size:16
Alignment explanation
Indices: 5526285--5526355 Score: 56
Period size: 16 Copynumber: 4.2 Consensus size: 16
5526275 TTCATAAATA
5526285 TAATAATAATA-ATTAT
1 TAAT-ATAATATATTAT
5526301 TAATATAATATATTAT
1 TAATATAATATATTAT
* *
5526317 TATTATTATTATTTATTAT
1 TA--A-TATAATATATTAT
5526336 TAA-ATATATATATATAT
1 TAATATA-ATATAT-TAT
5526353 TAA
1 TAA
5526356 AAATTACATC
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
15 8 0.18
16 16 0.36
17 7 0.16
18 1 0.02
19 13 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATATAATATATTAT
Found at i:5528088 original size:23 final size:24
Alignment explanation
Indices: 5528056--5528115 Score: 81
Period size: 23 Copynumber: 2.6 Consensus size: 24
5528046 ATTTGTAATA
5528056 TTATTATTACTTTTAA-TA-TATT
1 TTATTATTACTTTTAATTATTATT
5528078 TTAATTATTAC-TTTAATTATTATT
1 TT-ATTATTACTTTTAATTATTATT
*
5528102 TTATTATTATTTTT
1 TTATTATTACTTTT
5528116 TCTTAGCCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 7 0.21
23 17 0.52
24 9 0.27
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (24 bp):
TTATTATTACTTTTAATTATTATT
Done.