Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 57 of 121
Found at i:9750697 original size:18 final size:17
Alignment explanation
Indices: 9750642--9750697 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 17
9750632 AAATAATAAT
* *
9750642 AATAATAACAATAACAAT
1 AATAA-AACAATAAAAAA
9750660 AATAAATA-AATAAAATAA
1 AATAAA-ACAATAAAA-AA
9750678 AATAAAACAATGAAAAAA
1 AATAAAACAAT-AAAAAA
9750696 AA
1 AA
9750698 AATCTTGGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
17 8 0.25
18 20 0.62
19 4 0.12
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (17 bp):
AATAAAACAATAAAAAA
Found at i:9751513 original size:13 final size:12
Alignment explanation
Indices: 9751487--9751666 Score: 62
Period size: 12 Copynumber: 14.3 Consensus size: 12
9751477 AAGAAGGAAG
*
9751487 AAAAATTAAAAT
1 AAAAAATAAAAT
9751499 AAAAAATAAAGAT
1 AAAAAATAAA-AT
* * * *
9751512 AATATATTAATT
1 AAAAAATAAAAT
* *
9751524 AATAGAT-AAAT
1 AAAAAATAAAAT
*
9751535 -AATAATAATAAT
1 AAAAAATAA-AAT
*
9751547 AGATAAATAATAAT
1 A-AAAAATAA-AAT
* *
9751561 AAATATATATTAAT
1 AAA-AAATA-AAAT
* *
9751575 AAATAGTAATAAT
1 AAAAAATAA-AAT
*
9751588 AAATAAATAAATAC
1 AAA-AAATAAA-AT
*
9751602 AAAAAATAGAA-
1 AAAAAATAAAAT
* *
9751613 AAAATACAAAAT
1 AAAAAATAAAAT
*
9751625 ACAAAATACAAAAT
1 A-AAAA-ATAAAAT
9751639 AAAAAATAAAA-
1 AAAAAATAAAAT
9751650 AATAAAATAAAAT
1 AA-AAAATAAAAT
9751663 AAAA
1 AAAA
9751667 TGAAATGGGC
Statistics
Matches: 125, Mismatches: 28, Indels: 30
0.68 0.15 0.16
Matches are distributed among these distances:
10 3 0.02
11 14 0.11
12 37 0.30
13 34 0.27
14 37 0.30
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.24
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:9751540 original size:3 final size:3
Alignment explanation
Indices: 9751510--9751589 Score: 54
Period size: 3 Copynumber: 24.3 Consensus size: 3
9751500 AAAAATAAAG
*
9751510 ATA AT- ATA TTA ATTA ATA GATAA ATA ATA ATA ATA ATA GATAA ATA
1 ATA ATA ATA ATA A-TA ATA -AT-A ATA ATA ATA ATA ATA -AT-A ATA
* *
9751556 ATA ATAA ATA TATA TTA ATAA ATA GTA ATA ATA A
1 ATA AT-A ATA -ATA ATA AT-A ATA ATA ATA ATA A
9751590 ATAAATAAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
2 2 0.03
3 38 0.61
4 20 0.32
5 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:9751546 original size:20 final size:20
Alignment explanation
Indices: 9751495--9751597 Score: 92
Period size: 20 Copynumber: 5.3 Consensus size: 20
9751485 AGAAAAATTA
9751495 AAATAA-AA-AATAA-AGAT
1 AAATAATAATAATAATAGAT
*
9751512 -AAT-ATATTAATTAATAGAT
1 AAATAATAATAA-TAATAGAT
9751531 AAATAATAATAATAATAGAT
1 AAATAATAATAATAATAGAT
*
9751551 AAATAATAATAA-ATATATAT
1 AAATAATAATAATA-ATAGAT
* * *
9751571 TAATAAATAGTAATAATAAAT
1 AAAT-AATAATAATAATAGAT
9751592 AAATAA
1 AAATAA
9751598 ATACAAAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
15 1 0.01
16 4 0.06
17 2 0.03
18 3 0.04
19 5 0.07
20 33 0.47
21 21 0.30
22 1 0.01
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (20 bp):
AAATAATAATAATAATAGAT
Found at i:9751555 original size:14 final size:14
Alignment explanation
Indices: 9751496--9751597 Score: 82
Period size: 14 Copynumber: 7.1 Consensus size: 14
9751486 GAAAAATTAA
*
9751496 AATAAAAAATAAA-
1 AATAATAAATAAAT
* * *
9751509 GATAATATATTAATT
1 AATAATA-AATAAAT
9751524 AATAGATAAATAATAAT
1 AATA-ATAAAT-A-AAT
*
9751541 AATAATAGATAAAT
1 AATAATAAATAAAT
*
9751555 AATAATAAATATAT
1 AATAATAAATAAAT
* *
9751569 ATTAATAAAT-AGT
1 AATAATAAATAAAT
9751582 AATAATAAATAAAT
1 AATAATAAATAAAT
9751596 AA
1 AA
9751598 ATACAAAAAA
Statistics
Matches: 68, Mismatches: 15, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
13 15 0.22
14 32 0.47
15 6 0.09
16 9 0.13
17 6 0.09
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (14 bp):
AATAATAAATAAAT
Found at i:9751654 original size:7 final size:7
Alignment explanation
Indices: 9751582--9751656 Score: 69
Period size: 7 Copynumber: 10.0 Consensus size: 7
9751572 AATAAATAGT
*
9751582 AATAATA
1 AATAAAA
9751589 AATAAATA
1 AATAAA-A
9751597 AATACAAAA
1 AAT--AAAA
9751606 AATAGAAAA
1 AAT--AAAA
*
9751615 AATACAA
1 AATAAAA
*
9751622 AATACAA
1 AATAAAA
*
9751629 AATACAA
1 AATAAAA
9751636 AATAAAA
1 AATAAAA
9751643 AATAAAA
1 AATAAAA
9751650 AATAAAA
1 AATAAAA
9751657 TAAAATAAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
7 42 0.69
8 4 0.07
9 12 0.20
10 3 0.05
ACGTcount: A:0.77, C:0.05, G:0.01, T:0.16
Consensus pattern (7 bp):
AATAAAA
Found at i:9752111 original size:177 final size:175
Alignment explanation
Indices: 9751736--9752895 Score: 859
Period size: 177 Copynumber: 6.5 Consensus size: 175
9751726 TCTACAATTG
* * * * * *
9751736 TTTGAATAATTATTTATTTCAAATAGTTATGATCTTTTGTTTTCTCATAAAACAATTATTTCTAT
1 TTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTATTTCTGT
* * * * * *
9751801 TCATACAAGTTTATTCCCAATAAAATAATATTAATTTATTAGTATTTTGAAAATTAATAGGCAAG
66 TCATACAAGATTATT-CAAAAAAAATAATACTAATTTATTAATATTTTAAAAATTAAT----AAG
* * * * * *
9751866 AGATTTAAAAAAATAAATCTATTTACCGAACAAGTTCATATAATCATGTCCA
126 AGATTT-AAAAAATAAATCTGTTTACCGAACAA-TTCAAATAGTTATGACTA
* * * * * *
9751918 TTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGCTTCGTTATAAAGCAATTGTTTCTGT
1 TTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTATTTCTGT
* * * *
9751983 TCATGCAAAATTATTCAAAAAATAATAATACTGATCTATTAATATTTTAAAAATTAATAAGAGAT
66 TCATACAAGATTATTCAAAAAA-AATAATACTAATTTATTAATATTTTAAAAATTAATAAGAGAT
* * *
9752048 TTAAAAACTAAATCTATTTACCGAAACAATTCACATAGTTATGACTA
130 TTAAAAAATAAATCTGTTTACCG-AACAATTCAAATAGTTATGACTA
* * * * * *
9752095 TTTGAATAATTATCTATTTCAAATCGTTATGATC-TTTATTTTATCATAAAACAATTGTTTCTTT
1 TTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTATTTCTGT
* * * *
9752159 TGATACAAGCTTATTCAAATTAAAAA-AATTACTAATTTAATAGA-ATTTCAAAAATTAATAAGT
66 TCATACAAGATTATTCAAA--AAAAATAA-TACTAATTTATTA-ATATTTTAAAAA-T--TAA-T
* * * *
9752222 AAGAGATTTAAAAAATAAATGTGTTTGCCGAACCAATTCAAATACTTAAGACTA
123 AAGAGATTTAAAAAATAAATCTGTTTACCGAA-CAATTCAAATAGTTATGACTA
* * * * * * * *
9752276 TTAGAACAATTATTTATTTCAATTTGTTCTAACCTTTT-CTTTGTCATAAAATAATTATTT-TAG
1 TTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTATTTCT-G
* * * * * * **
9752339 TTCATACATGCTTACTCAAAATAAATTAATACTAATGTATTAACATTCAAAAAATTAATGAGCAA
65 TTCATACAAGATTATTCAAAA-AAAATAATACTAATTTATTAATATTTTAAAAATTAAT----AA
* * *
9752404 GAGATTTAAAAAAAAAAAAAAT-TGTTTACTGAACAAGTTCAAATAGATT-TAACTA
125 GAGATTT----AAAAAATAAATCTGTTTACCGAACAA-TTCAAATAG-TTATGACTA
* * * * *
9752459 TTTTAACAATTAGCTATTT-AAAGTCATTATAACCTTTTGTTTTGTCATAAAACAATTATTTCAG
1 TTTGAACAATTATCTATTTCAAA-TCGTTATGACCTTTTGTTTTGTCATAAAACAATTATTTCTG
* * * * *
9752523 TTCATA-AAAACTTATCTGAAATAAAATAATACTACTTTATTAATATTTCAAAAATTAATAAGCA
65 TTCATACAAGA-TTAT-TCAAAAAAAATAATACTAATTTATTAATATTTTAAAAATTAATAAG--
* * ** * * *
9752587 AAAGATTTAAAAACTAAAGCTGTTT-TTGAACTAGTTCTAATAGTTATAACTA
126 --AGATTTAAAAAATAAATCTGTTTACCGAAC-AATTCAAATAGTTATGACTA
* * * * * * *
9752639 TTTGAACAAATATCAATCTT-AAATCATTATGATC-TTTGTTTTGTCATAAAATAATTGTTTCTA
1 TTTGAACAATTATCTAT-TTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTATTTCTG
* * * * * *
9752702 ATCATACAAGTTTATTTGGATAAAAAATAATACTAATTTAATAATATTCTAAAAATTAATAAGAG
65 TTCATACAAGATTA-TT-CAAAAAAAATAATACTAATTTATTAATATTTTAAAAATTAATAAGAG
* ** * *
9752767 ATTTAAAAAATAAATGTGTTTGTCGAATCAGTTCAAATAGTTAAGACTA
128 ATTTAAAAAATAAATCTGTTTACCGAA-CAATTCAAATAGTTATGACTA
* * * * * * * * * * *
9752816 TTAGAATAATTATCTATTTCAAATCGTTTTAACCTATTATTTAGTCATATAATAATTGTTTCAGT
1 TTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTATTTCTGT
*
9752881 TCATACAAGCTTATT
66 TCATACAAGATTATT
9752896 TTGTTTATTG
Statistics
Matches: 782, Mismatches: 150, Indels: 97
0.76 0.15 0.09
Matches are distributed among these distances:
176 63 0.08
177 134 0.17
178 55 0.07
179 39 0.05
180 131 0.17
181 124 0.16
182 104 0.13
183 49 0.06
184 79 0.10
185 4 0.01
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (175 bp):
TTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTATTTCTGT
TCATACAAGATTATTCAAAAAAAATAATACTAATTTATTAATATTTTAAAAATTAATAAGAGATT
TAAAAAATAAATCTGTTTACCGAACAATTCAAATAGTTATGACTA
Found at i:9752566 original size:541 final size:535
Alignment explanation
Indices: 9751743--9752893 Score: 1252
Period size: 541 Copynumber: 2.1 Consensus size: 535
9751733 TTGTTTGAAT
* * * * *
9751743 AATTATTTATTTCAAATAGTTATGATCTTTTGTTTTCTCATAAAACAATTATTTCTA-TTCATAC
1 AATTATTTATTTCAAATAGTTATAACCTTTT-ATTTGTCATAAAATAATTATTT-TAGTTCATAC
* * ** * * ** ***
9751807 AAGTTTATTCCCAATAAAATAATATTAATTTATTAGTATTTTGAAAATTAATAGGCAAGAGATTT
64 AAGCTTACTCAAAATAAAATAATACTAATGTATTAACATTCAAAAAATTAATAGGCAAGAGATTT
* * ** *
9751872 AAAAAAATAAATCTATTTACCGAACAAGTTCATATAATCATGTCCATTTGAACAATTATCTATTT
129 AAAAAAAAAAATCTATTTACCGAACAAGTTCAAATAATCATAACCATTTGAACAATTAGCTATTT
** * * * * * *
9751937 CAAATTGTTATGACCTTTTGCTTCGTTATAAAGCAATTGTTTCTGTTCATGCAAAATTATTCAAA
194 CAAATCATTATAACCTTTTGCTTCGTCATAAAACAATTATTTCAGTTCATGAAAAATTATTCAAA
* *
9752002 AAATAATAATACTGATCTATTAATATTTTAAAAATTAATAAG-AGATTTAAAAACTAAATCTATT
259 AAATAATAATACTGATCTATTAATATTTCAAAAATTAATAAGAAGATTTAAAAACTAAAGCTATT
* * * * *
9752066 TACCGAAAC-AATTC-ACATAGTTATGACTATTTGAATAATTATCTAT-TTCAAATCGTTATGAT
324 T-CCG-AACTAATTCTA-ATAGTTATAACTATTTGAACAAATATCAATCTT-AAATCATTATGAT
** * *
9752128 CTTTATTTTATCATAAAACAATTGTTTCTTTTGATACAAGCTTATTCAAATTAAAAAA-ATTACT
385 CTTTATTTTATCATAAAACAATTGTTTCTAATCATACAAGCTTATTCAAA-TAAAAAATAATACT
9752192 AATTTAATAGA-ATT-TCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATGTGTTTGCCGAAC
449 AATTTAATA-ATATTCT-AAAAA-T--TAA-TAAGAGATTTAAAAAATAAATGTGTTTGCCGAAC
9752255 CAATTCAAATACTTAAGACTATTAGAAC
508 CAATTCAAATACTTAAGACTATTAGAAC
* * * * *
9752283 AATTATTTATTTCAATTTGTTCTAACCTTTTCTTTGTCATAAAATAATTATTTTAGTTCATACAT
1 AATTATTTATTTCAAATAGTTATAACCTTTTATTTGTCATAAAATAATTATTTTAGTTCATACAA
*
9752348 GCTTACTCAAAATAAATTAATACTAATGTATTAACATTCAAAAAATTAAT-GAGCAAGAGATTTA
66 GCTTACTCAAAATAAAATAATACTAATGTATTAACATTCAAAAAATTAATAG-GCAAGAGATTT-
* * * * *
9752412 AAAAAAAAAAAAAT-TGTTTACTGAACAAGTTCAAATAGAT-TTAACTATTTTAACAATTAGCTA
129 --AAAAAAAAAAATCTATTTACCGAACAAGTTCAAATA-ATCATAACCATTTGAACAATTAGCTA
* *
9752475 TTT-AAAGTCATTATAACCTTTTGTTTTGTCATAAAACAATTATTTCAGTTCAT-AAAAACTTAT
191 TTTCAAA-TCATTATAACCTTTTGCTTCGTCATAAAACAATTATTTCAGTTCATGAAAAA-TTAT
* * *
9752538 CTGAAATAA-AATAATACT-ACTTTATTAATATTTCAAAAATTAATAAGCAAAAGATTTAAAAAC
254 -TCAAAAAATAATAATACTGA-TCTATTAATATTTCAAAAATTAATAAG---AAGATTTAAAAAC
* ** *
9752601 TAAAGCTGTTTTTGAACTAGTTCTAATAGTTATAACTATTTGAACAAATATCAATCTTAAATCAT
314 TAAAGCTATTTCCGAACTAATTCTAATAGTTATAACTATTTGAACAAATATCAATCTTAAATCAT
* * * * ***
9752666 TATGATCTTTGTTTTGTCATAAAATAATTGTTTCTAATCATACAAGTTTATTTGGATAAAAAATA
379 TATGATCTTTATTTTATCATAAAACAATTGTTTCTAATCATACAAGCTTATTCAAATAAAAAATA
* *
9752731 ATACTAATTTAATAATATTCTAAAAATTAATAAGAGATTTAAAAAATAAATGTGTTTGTCGAATC
444 ATACTAATTTAATAATATTCTAAAAATTAATAAGAGATTTAAAAAATAAATGTGTTTGCCGAACC
* * *
9752796 AGTTCAAATAGTTAAGACTATTAGAAT
509 AATTCAAATACTTAAGACTATTAGAAC
* * * * * * *
9752823 AATTATCTATTTCAAATCGTTTTAACCTATTATTTAGTCATATAATAATTGTTTCAGTTCATACA
1 AATTATTTATTTCAAATAGTTATAACCTTTTATTT-GTCATAAAATAATTATTTTAGTTCATACA
9752888 AGCTTA
65 AGCTTA
9752894 TTTTGTTTAT
Statistics
Matches: 509, Mismatches: 81, Indels: 41
0.81 0.13 0.06
Matches are distributed among these distances:
538 3 0.01
539 76 0.15
540 120 0.24
541 149 0.29
542 19 0.04
543 12 0.02
544 105 0.21
545 25 0.05
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (535 bp):
AATTATTTATTTCAAATAGTTATAACCTTTTATTTGTCATAAAATAATTATTTTAGTTCATACAA
GCTTACTCAAAATAAAATAATACTAATGTATTAACATTCAAAAAATTAATAGGCAAGAGATTTAA
AAAAAAAAATCTATTTACCGAACAAGTTCAAATAATCATAACCATTTGAACAATTAGCTATTTCA
AATCATTATAACCTTTTGCTTCGTCATAAAACAATTATTTCAGTTCATGAAAAATTATTCAAAAA
ATAATAATACTGATCTATTAATATTTCAAAAATTAATAAGAAGATTTAAAAACTAAAGCTATTTC
CGAACTAATTCTAATAGTTATAACTATTTGAACAAATATCAATCTTAAATCATTATGATCTTTAT
TTTATCATAAAACAATTGTTTCTAATCATACAAGCTTATTCAAATAAAAAATAATACTAATTTAA
TAATATTCTAAAAATTAATAAGAGATTTAAAAAATAAATGTGTTTGCCGAACCAATTCAAATACT
TAAGACTATTAGAAC
Found at i:9753000 original size:114 final size:113
Alignment explanation
Indices: 9752791--9753009 Score: 280
Period size: 114 Copynumber: 1.9 Consensus size: 113
9752781 TGTGTTTGTC
* *
9752791 GAATCAGTTCAAATAGTTAAGACTATTAGAATAATTATCTATTTCAAATCGTTTTAACCTATTAT
1 GAATCAGTTCAAATAATTAAGACTATTAGAATAACTATCTATTTCAAATCGTTTTAACCTATTAT
* * *
9752856 TTAGTCATATAATAATTGTTTCAGTTCATACAAGCTTATTTTGTTTATT
66 TTAGTCATAAAACAATTGTTTCAG-ACATACAAGCTTATTTTGTTTATT
* * * * *
9752905 GAATCAGTTCAAATAATTATGGCTATTTGAATAACTATCTATTTCAAATCGTTATT-ACCTTTTG
1 GAATCAGTTCAAATAATTAAGACTATTAGAATAACTATCTATTTCAAATCGTT-TTAACCTATTA
**
9752969 TTTTTTCATAAAACAATTGTTTTTCA-ACATACAAGCTTATT
65 TTTAGTCATAAAACAATTG--TTTCAGACATACAAGCTTATT
9753010 CAAAATAAAA
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
114 83 0.92
115 2 0.02
116 5 0.06
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (113 bp):
GAATCAGTTCAAATAATTAAGACTATTAGAATAACTATCTATTTCAAATCGTTTTAACCTATTAT
TTAGTCATAAAACAATTGTTTCAGACATACAAGCTTATTTTGTTTATT
Found at i:9753360 original size:471 final size:467
Alignment explanation
Indices: 9752472--9753366 Score: 1018
Period size: 471 Copynumber: 1.9 Consensus size: 467
9752462 TAACAATTAG
*
9752472 CTATTTAAAGTCATTATAACCTTTTGTTTTGTCATAAAACAATTATTTCAGTTCATAAAAACTTA
1 CTATTTAAAGTCATTATAACCTTTTGTTTTGTCATAAAACAATTATTTCAG-ACATAAAAACTTA
* * *
9752537 TCTGAAATAAAATAATACTACTTTATTAATATTTCAAAAATTAATAAGCAAAAGATTTAAAAACT
65 TCTAAAATAAAATAATACTAATTTACTAATATTTCAAAAATTAATAAG--AAAGATTTAAAAACT
* ** *
9752602 AAAGCTGTTTTTGAACTAGTTCTAATAGTTATAACTATTTGAACAAATATCAATCTTAAATCATT
128 AAAGCTATTTCCGAACTAGTTCAAATAGTTATAACTATTTGAACAAATATCAATCTTAAATCATT
* * * * ** ** *
9752667 ATGATCTTTGTTTTGTCATAAAATAATTGTTTCTAATCATACAAGTTTATTTGGATAAAAAATAA
193 ATAACCTTTGTTCTATCATAAAATAATTGTTTCTAATCATACAAACTTA-TTCCAAAAAAAATAA
* * *
9752732 TACTAATTTAATAATATTCTAAAAATTAATAAGAGATTTAAAAAATAAATGTGTTTGTCGAATCA
257 TACTAATTTAATAATATTCTAAAAAATAATAAGAGATTTAAAAAATAAATGTGTTTCTCGAACCA
* * * * *
9752797 GTTCAAATAGTTAAGACTATTAGAATAATTATCTATTTCAAATCGTTTTAACCTATTATTTAGTC
322 ATTCAAACAGTTAAGACTATTAGAACAATTATCTATTTCAAATCGTTATAACCTATTATTTAGCC
* * * *
9752862 ATATAATAATTGTTTCAGTTCATACAAGCTTATTTTGTTTATTGAATCAGTTCAAATAATTATGG
387 ATAAAACAATTATTTCACTTCATACAAGCTTATTTTGTTTATTGAATCAGTTCAAATAATTATGG
9752927 CTATTTGAATAACTAT
452 CTATTTGAATAACTAT
* * * * * *
9752943 CTATTTCAAA-TCGTTATTACCTTTTGTTTTTTCATAAAACAATTGTTTTTCA-ACATACAAGCT
1 CTATTT-AAAGTCATTATAACCTTTTGTTTTGTCATAAAACAA-T-TATTTCAGACATAAAAACT
* * * *
9753006 TAT-TCAAAATAAAATAATACTAATTTGCTAATATTTCAAGAATTAAT-AG-GAGATTTAAAAAT
63 TATCT-AAAATAAAATAATACTAATTTACTAATATTTCAAAAATTAATAAGAAAGATTTAAAAAC
* * * * * * * **
9753068 TAAATCTATTTACCGAATTAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTTAAATTG
127 TAAAGCTATTT-CCGAACTAGTTCAAATAGTTATAACTATTTGAACAAATATCAATCTTAAATCA
*
9753133 TTATAACCTTTTGTTCTATCATAAAATAATTGTTTCTATTCATACAAACTTA-TCCAAAATAAAA
191 TTATAACC-TTTGTTCTATCATAAAATAATTGTTTCTAATCATACAAACTTATTCCAAAA-AAAA
* *
9753197 TAATA-TCAATTTAGTAATATTCTCAAAATTAATAATAAGAGATTTAAAAAATAAATTTGTTTAC
254 TAATACT-AATTTAATAATATTCT-AAAA--AATAATAAGAGATTTAAAAAATAAATGTGTTT-C
* * * * ** *
9753261 T-GAACCAATTTAAACAGTTAAGACTA-TATGAACAATTATTTATTTCAAATTGTTATGATTTTT
314 TCGAACCAATTCAAACAGTTAAGACTATTA-GAACAATTATCTATTTCAAATCGTTATAACCTAT
* *
9753324 TGTTTTGCCATAAAACAATTATTTCAACTT-ATACAAGCTTATT
378 TATTTAGCCATAAAACAATTATTTC-ACTTCATACAAGCTTATT
9753367 CAGAAAAAGG
Statistics
Matches: 350, Mismatches: 60, Indels: 28
0.80 0.14 0.06
Matches are distributed among these distances:
467 25 0.07
468 72 0.21
469 42 0.12
470 5 0.01
471 192 0.55
472 8 0.02
473 6 0.02
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (467 bp):
CTATTTAAAGTCATTATAACCTTTTGTTTTGTCATAAAACAATTATTTCAGACATAAAAACTTAT
CTAAAATAAAATAATACTAATTTACTAATATTTCAAAAATTAATAAGAAAGATTTAAAAACTAAA
GCTATTTCCGAACTAGTTCAAATAGTTATAACTATTTGAACAAATATCAATCTTAAATCATTATA
ACCTTTGTTCTATCATAAAATAATTGTTTCTAATCATACAAACTTATTCCAAAAAAAATAATACT
AATTTAATAATATTCTAAAAAATAATAAGAGATTTAAAAAATAAATGTGTTTCTCGAACCAATTC
AAACAGTTAAGACTATTAGAACAATTATCTATTTCAAATCGTTATAACCTATTATTTAGCCATAA
AACAATTATTTCACTTCATACAAGCTTATTTTGTTTATTGAATCAGTTCAAATAATTATGGCTAT
TTGAATAACTAT
Found at i:9754577 original size:180 final size:180
Alignment explanation
Indices: 9752895--9755773 Score: 2065
Period size: 180 Copynumber: 16.1 Consensus size: 180
9752885 ACAAGCTTAT
** * * * * * *
9752895 TTTGTTTATTGAATCAGTTCAAATAATTATGGCTATTTGAATAACTATCTATTTCAAATCGTTAT
1 TTTGTTTACCGAACCAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATTGTTAT
* * * ***
9752960 TACCTTTTGTTTTTTCATAAAACAATTGTTTTTCAACATACAAGCTTATTCAAAATAAAATAATA
66 GACCTTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCAAAATAAAATAATA
* * *
9753025 CTAATTTGCTAATATTTCAAGAATTAAT-AG---GAGATTTAAAAATTAAA
131 CTAATTT-ATAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAA
* * ** * *
9753072 TCTATTTACCGAATTAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTTAAATTGTTAT
1 TTTGTTTACCGAACCAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATTGTTAT
* * * * * * *
9753137 AACCTTTTGTTCTATCATAAAATAATTGTTTCTATTCATACAAACTTATCCAAAATAAAATAATA
66 GACCTTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCAAAATAAAATAATA
9753202 -TCAATTTAGTAATATTCTC-AAAATTAATAA-TAAGAGATTTAAAAAATAAA
131 CT-AATTTA-TAATATT-TCAAAAATTAATAAGTAAGAGATTTAAAAAATAAA
* * * * * * *
9753252 TTTGTTTACTGAACCAATTTAAACAGTTAAGACTATATGAACAATTATTTATTTCAAATTGTTAT
1 TTTGTTTACCGAACCAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATTGTTAT
** * * ** *
9753317 GATTTTTTGTTTTGCCATAAAACAATTATTTCAACTT-ATACAAGCTTATTCAGAAA-AAGGATA
66 GACCTTTTGTTTTGTCATAAAACAATTGTTTC-TGTTCATACAAGCTTATTCA-AAATAA-AATA
* * *
9753380 AAACTAATTTATGAATATTTCAAAAATTTATAAGTAAGAGATTTAGAAAAT-AA
128 ATACTAATTTAT-AATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAA
* * * * * *
9753433 TTCTATTTACCGTACCCAG-T---A-A-TTATAACTATTTGAACAATTGTTTATTTCAACTCT-T
1 TT-TGTTTACCG-AACCAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAAT-TGT
* * * * * * * * **
9753491 TGTTACTTTTTGTTTTTTCATAAAACAATTGTTTCTATTAATAGAAGTTTATTTGAAATAAAATA
63 TATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCAAAATAAAATA
** * * *
9753556 ATACTAAGCTATTAATATTTAAAAAATTAATCAGTAAGAGATTTAAAAAGTAAA
128 ATACTAATTTA-TAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAA
** ** * * * **
9753610 TATT-TTTA-TAAACCTTTTCAAATAGTTTTGACTA-TTGAAAAAATTATCTATTTTAAATCATT
1 T-TTGTTTACCGAACCAGTTCAAATAGTTATGACTATTTG-AACAATTATCTATTTCAAATTGTT
* * * * * * * ** *
9753672 ATAAACTTTTATTTTATCATCAAACAATTGGTTCTGTTCATACAA-TTTCATTCGGAATAAAAAA
64 ATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTT-ATTCAAAATAAAATA
* * * * ** * *
9753736 ATAATAGTTTAATAATA-TTCTGAAACTTAATAACCAAGACAATTAAAAAATAAA
128 ATACTAATTT-ATAATATTTC-AAAAATTAATAAGTAAGAGATTTAAAAAATAAA
* ** ** * * * ** * * * *
9753790 TCTAATTGTCTAACTAGTTCAAATAGCTAAAAGTAATTGAACAATTATCTATTTGAAATCGTTAT
1 TTTGTTTACCGAACCAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATTGTTAT
* * * ** * ** ** * *
9753855 GACTTTTTTTTTTGTCGTACGACAATTATTT-TGTTTGTACTGGCTTATTTC-GATTAAAATAAT
66 GACCTTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTTA-TTCAAAATAAAATAAT
9753918 ACTAATTTAATAATATTTC-AAAATTAATAAGTAAGAGATTTAAAAAATAAA
130 ACTAATTT-ATAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAA
* * * * ** *
9753969 TTTGTTTACCGAATCAGTTCAAATGGTTAAGA-TATTAGAACAATTATCTATTTCAAATCATTTT
1 TTTGTTTACCGAACCAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATTGTTAT
* * * ** * * * *
9754033 AACTTTTTCTTTACTCATAAAACAATTGTTTCAGTTCATATAAACTTATTCAAAATAAATTAATA
66 GACCTTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCAAAATAAAATAATA
* * * *
9754098 GTAATTTATTAACA-TACGAAAAATTAATAAGAAAGAGATTTAAAAAAATAAA
131 CTAATTTA-TAATATTTC-AAAAATTAATAAGTAAGAGATTT-AAAAAATAAA
* * * ** * * * * *
9754150 TCTATTTACCAAATAAATTCAAATAGTTATTACTATTAGAACAATTGTCTATTTAAAATTGTTAT
1 TTTGTTTACCGAACCAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATTGTTAT
* * * * ** * * **
9754215 AACC-TTTGATTTGTCATAAGACAATTATTTCAATTAATACAAGCTTAAAT-GGAATAAAATAAT
66 GACCTTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTT-ATTCAAAATAAAATAAT
** * *
9754278 ACTAATTTATTAATATTTCCTAAATTAATAAGTAAAAAATTTTAAAAAATAAA
130 ACTAATTTA-TAATATTTCAAAAATTAATAAGTAAGAGA-TTTAAAAAATAAA
* * * * * * *
9754331 TGTGTTTACTGAATCAGTTAAAATAAG-TATGCAC-ATTTGAACGATTATCTTTTTCAAATCGTT
1 TTTGTTTACCGAACCAGTTCAAAT-AGTTATG-ACTATTTGAACAATTATCTATTTCAAATTGTT
** * * * * * *
9754394 ATGAAATTTTGTTTTGTTATAAAAAAATTGTTTTTGGTCATACAAGGTTATTCAAAATAAGATAA
64 ATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCAAAATAAAATAA
9754459 TACTAATTTATAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAA
129 TACTAATTTATAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAA
* * * *
9754511 TTTATTTATCGAACCAGTTCAAATAGTTATGACTATTTGAACAATTATCAATCTCAAATTGTTAT
1 TTTGTTTACCGAACCAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATTGTTAT
* * * * * * ** ***
9754576 GATC-TTTATTTTGTCATAAAACAACTATTT-TTTATCATAGAAATTTATTC-GGTTAAAACTAA
66 GACCTTTTGTTTTGTCATAAAACAATTGTTTCTGT-TCATACAAGCTTATTCAAAATAAAA-TAA
*
9754638 TGCTAATTTTATAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAA
129 TACTAA-TTTATAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAA
* * * ** * * * * *
9754691 TTTGTTTGCCAAACCAGATT-AAATAGGTAAAACTATTGGAATAATTATTTATTTCCAATTGTTC
1 TTTGTTTACCGAACCAG-TTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATTGTTA
* * * * * * * * * ***
9754755 TCACCTTTTGTTTAGTAATAAAATATTTGTTTCAT-ATCTTGCAAGTTTATTTGGAATAAAATAA
65 TGACCTTTTGTTTTGTCATAAAACAATTGTTTC-TGTTCATACAAGCTTATTCAAAATAAAATAA
* * * * * *
9754819 TTCAAATTTATTAACATTTGAAAAATTAATAAGCAAAAGATTTTAAAAAATAAA
129 TACTAATTTA-TAATATTTCAAAAATTAATAAGTAAGAGA-TTTAAAAAATAAA
* * * * * * * **
9754873 TCTGTTTACCGAACAAGTTCAAATAGTTATGATTATTTAAATAATTATTTATTTAAAATCATTAT
1 TTTGTTTACCGAACCAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATTGTTAT
* * * * *
9754938 GACATTTTGTTTTGAT-GTAAAACAATTGTTTCTGTTCATAAAAACTTATCCAAAATAAAATAAT
66 GACCTTTTGTTTTG-TCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCAAAATAAAATAAT
* * ** * *
9755002 ACTAGTTTCTTAATATTTTGAAAATTAATAAGCAAGAG-TTAAAAAAATAAA
130 ACTAATTT-ATAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAA
** * * ** * *
9755053 TTTGTTTACTAAACAAATTC-AATAGTTACAACTATTTGAACAATTGTCTATTTAAAATTGTTAT
1 TTTGTTTACCGAACCAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATTGTTAT
* * * * * *
9755117 GACTTTTTGCTTTGTCATAAAACAATTGTTTCAGTTTATACAAGCTTATTCAAAGTAAAATAGTA
66 GACCTTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCAAAATAAAATAATA
* * * *
9755182 TTAATTTATTAATATTTCAAAAATTAATAAGTTAGTGATTTAAAAAATGAA
131 CTAATTTA-TAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAA
** ** * * * *
9755233 TCCGTTTACC-AAGTTAGTTCAAATAATTACGACTATTTCAACAATTATC-ATTTTAAATTGTTA
1 TTTGTTTACCGAA-CCAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATTGTTA
* * * * * * *
9755296 TTACCTTTTGTTTGGTTATATAACAATTATTTTTTTATCATACAAGCTTATTCAAAATAAAATAA
65 TGACCTTTTGTTTTGTCATAAAACAATTGTTTCTGT-TCATACAAGCTTATTCAAAATAAAATAA
* *
9755361 TACTAATTTATTAATCTTTCAAAAA-T--TAA-TAAGAGATTTTAAAAATAAA
129 TACTAATTTA-TAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAA
* * * * * * **
9755410 TCTATTTACCAAACCAGTTTAAAATAGTTATGACTATTTGAACAATTATATACTTCAAATCATTA
1 TTTGTTTACCGAACCAG-TTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATTGTTA
** * * * **
9755475 CAACCATTTGTTTTGTCATAAAACAATTATTTCTATTCATACAAGCTTATTTGAAATAAAATAAT
65 TGACCTTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCAAAATAAAATAAT
* * * *
9755540 ATTAATATAATAATA-TTCTAAAAATTAATAACTAAGAGATTTCAAAAATAAA
130 ACTAAT-TTATAATATTTC-AAAAATTAATAAGTAAGAGATTTAAAAAATAAA
* ** * * * * * * *
9755592 TTTGATTGTCGAACTA-TCTTAAATAGTTAAGAGTGTATGAACAATTATCTATTTCAAA---TCA
1 TTTGTTTACCGAACCAGT-TCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATTGTTA
** * ** * **
9755653 T----TTTTGTTTTGTCATAAAA-AATT-TTTCAATTCACATTAGCTTTTTTGAAATAAAATAA-
65 TGACCTTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCAAAATAAAATAAT
* * * *
9755711 AATGAATTTATTAATATTTCAAAAATTAATATGTAAGACATTTAAAAAATAAT
130 ACT-AATTTA-TAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAA
9755764 TTTGTTTACC
1 TTTGTTTACC
9755774 AGGCATAAGT
Statistics
Matches: 2114, Mismatches: 500, Indels: 181
0.76 0.18 0.06
Matches are distributed among these distances:
171 4 0.00
172 73 0.03
173 7 0.00
174 20 0.01
175 1 0.00
176 54 0.03
177 235 0.11
178 144 0.07
179 293 0.14
180 525 0.25
181 466 0.22
182 286 0.14
183 6 0.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (180 bp):
TTTGTTTACCGAACCAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATTGTTAT
GACCTTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCAAAATAAAATAATA
CTAATTTATAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAA
Found at i:9754595 original size:542 final size:537
Alignment explanation
Indices: 9752895--9755774 Score: 1948
Period size: 542 Copynumber: 5.4 Consensus size: 537
9752885 ACAAGCTTAT
* * * * * * * *
9752895 TTTGTTTATTGAATCAGTTCAAATAATTATGGCTATTTGAATAACTATCTATTTCAAATCGTTAT
1 TTTGTTTA-CGAACCAGTTCAAATAGTTAAGACTATTTGAACAATTATCTATTTCAAATTGTTAT
* * * *
9752960 TACCTTTTGT-TTTTTCATAAAACAATTGTTTTTCA--ACATACAAGCTTATTCAAAATAAAATA
65 GA-CTTTT-TCTTTGTCATAAAACAATTG--TTTCAGTTCATACAAACTTATTCAAAATAAAATA
* ** * * * *
9753022 ATACTAATTTGCTAATATTTCAAGAATTAAT-AG---GAGATTTAAAAATTAAATCTATTTACCG
126 ATAGTAATTTATTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTGTTTACCA
* * ** * * *
9753083 AATTAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTTAAATTGTTATAACCTTTTGTT
191 AATAAATTCAAATAGTTAAAACTATTAGAACAATTATCTATTTAAAATTGTTATAACCTTTTGTT
* * * * * * ***
9753148 CTA-TCATAAAATAATTGTTTCTATTCATACAAACTT-ATCCAAAATAAAATAATA-TCAATTTA
256 -TAGTAAT-AAACAATTATTTCAATTAATACAAGCTTAAT-TGGAATAAAATAATACT-AATTTA
* * * * * * *
9753210 GTAATATTCTC-AAAATTAATAATAAGAGA-TTTAAAAAATAAATTTGTTTACTGAACCAATTTA
317 TTAATATT-TCAAAAATTAATAAGAAAAGATTTTAAAAAATAAATCTGTTTACCGAA-CAGTTAA
* * * ** ** **
9753273 AACAGTTAAGACTATATGAACAATTATTTATTTCAAATTGTTATGATTTTTTGTTTTGCCATAAA
380 AATAGTTATGAC-ATTTGAACAATTATTT-TTTCAAATCATTATGAAATTTTGTTTTGTTATAAA
* ** * *
9753338 ACAATTATTTCAACTT-ATACAAGCTTATTCAGAAA-AAGGATAAAACTAATTT-ATGAATATTT
443 ACAATTGTTTC-TGTTCATACAAGCTTATTCA-AAATAA-AATAATACTAATTTAAT-AATATTT
* *
9753400 CAAAAATTTATAAGTAAGAGATTTAGAAAAT-AA
504 CAAAAATTAATAAGTAAGAGATTTAAAAAATAAA
* * * * * *
9753433 TTCTATTTACCGTACCCAG-T-AATTA--T-A-ACTATTTGAACAATTGTTTATTTCAACTCT-T
1 TT-TGTTTA-CG-AACCAGTTCAAATAGTTAAGACTATTTGAACAATTATCTATTTCAAAT-TGT
* * * * * * ** **
9753491 TGTTACTTTTTGTTTTTTCATAAAACAATTGTTTCTA-TTAATAGAAGTTTATTTGAAATAAAAT
62 TATGACTTTTT-CTTTGTCATAAAACAATTGTTTC-AGTTCATACAAACTTATTCAAAATAAAAT
* ** * * * * * *
9753555 AATACTAAGCTATTAATATTTAAAAAATTAATCAGTAAGAGATTTAAAAAGTAAATATTTTTA-T
125 AATAGTAATTTATTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTGTTTACC
**** *** * * ** *
9753619 AAACCTTTTCAAATAGTTTTGACTATT-GAAAAAATTATCTATTTTAAATCATTATAAACTTTTA
190 AAATAAATTCAAATAGTTAAAACTATTAG-AACAATTATCTATTTAAAATTGTTATAACCTTTT-
* * ** ** * * * * * *
9753683 TTTTA-TCATCAAACAATTGGTTCTGTTCATACAA-TTTCATTCGGAATAAAAAAATAATAGTTT
253 GTTTAGTAAT-AAACAATTATTTCAATTAATACAAGCTTAATT-GGAATAAAATAATACTAATTT
* * * ** ** ** ** *
9753746 AATAATA-TTCTGAAACTTAATAA-CCAAGACAATTAAAAAATAAATCTAATTGTCTAACTAGTT
316 ATTAATATTTC-AAAAATTAATAAGAAAAGA-TTTTAAAAAATAAATCTGTTTACCGAAC-AGTT
* * ** * * * * * ** * **
9753809 CAAATAGCTAAAAGTAATTGAACAATTATCTATTTGAAATCGTTATGACTTTTTTTTTTGTCGTA
378 AAAATAGTTATGA-CATTTGAACAATTAT-TTTTTCAAATCATTATGAAATTTTGTTTTGTTATA
** * ** ** * *
9753874 CGACAATTATTT-TGTTTGTACTGGCTTATTTC-GATTAAAATAATACTAATTTAATAATATTTC
441 AAACAATTGTTTCTGTTCATACAAGCTTA-TTCAAAATAAAATAATACTAATTTAATAATATTTC
9753937 -AAAATTAATAAGTAAGAGATTTAAAAAATAAA
505 AAAAATTAATAAGTAAGAGATTTAAAAAATAAA
* * * ** *
9753969 TTTGTTTACCGAATCAGTTCAAATGGTTAAGA-TATTAGAACAATTATCTATTTCAAATCATTTT
1 TTTGTTTA-CGAACCAGTTCAAATAGTTAAGACTATTTGAACAATTATCTATTTCAAATTGTTAT
* * * *
9754033 AACTTTTTCTTTACTCATAAAACAATTGTTTCAGTTCATATAAACTTATTCAAAATAAATTAATA
65 GACTTTTTCTTT-GTCATAAAACAATTGTTTCAGTTCATACAAACTTATTCAAAATAAAATAATA
* * * *
9754098 GTAATTTATTAACA-TACGAAAAATTAATAAGAAAGAGATTTAAAAAAATAAATCTATTTACCAA
129 GTAATTTATTAATATTTC-AAAAATTAATAAGTAAGAGATTT-AAAAAATAAATCTGTTTACCAA
** *
9754162 ATAAATTCAAATAGTTATTACTATTAGAACAATTGTCTATTTAAAATTGTTATAACC-TTTGATT
192 ATAAATTCAAATAGTTAAAACTATTAGAACAATTATCTATTTAAAATTGTTATAACCTTTTG-TT
* *
9754226 T-GTCATAAGACAATTATTTCAATTAATACAAGCTTAAATGGAATAAAATAATACTAATTTATTA
256 TAGTAATAA-ACAATTATTTCAATTAATACAAGCTTAATTGGAATAAAATAATACTAATTTATTA
** * * *
9754290 ATATTTCCTAAATTAATAAGTAAAAAATTTTAAAAAATAAATGTGTTTACTGAATCAGTTAAAAT
320 ATATTTCAAAAATTAATAAG-AAAAGATTTTAAAAAATAAATCTGTTTACCGAA-CAGTTAAAAT
* * *
9754355 AAG-TATGCACATTTGAACGATTATCTTTTTCAAATCGTTATGAAATTTTGTTTTGTTATAAAAA
383 -AGTTATG-ACATTTGAACAATTAT-TTTTTCAAATCATTATGAAATTTTGTTTTGTTATAAAAC
* * * *
9754419 AATTGTTTTTGGTCATACAAGGTTATTCAAAATAAGATAATACTAATTT-ATAATATTTCAAAAA
445 AATTGTTTCTGTTCATACAAGCTTATTCAAAATAAAATAATACTAATTTAATAATATTTCAAAAA
9754483 TTAATAAGTAAGAGATTTAAAAAATAAA
510 TTAATAAGTAAGAGATTTAAAAAATAAA
* * * *
9754511 TTTATTTATCGAACCAGTTCAAATAGTTATGACTATTTGAACAATTATCAATCTCAAATTGTTAT
1 TTTGTTTA-CGAACCAGTTCAAATAGTTAAGACTATTTGAACAATTATCTATTTCAAATTGTTAT
* * * * * ***
9754576 GATCTTTAT-TTTGTCATAAAACAACTATTTTTTA--TCATAGAAATTTATTC-GGTTAAAACTA
65 GA-CTTTTTCTTTGTCATAAAACAA-T-TGTTTCAGTTCATACAAACTTATTCAAAATAAAA-TA
* *
9754637 AT-GCTAATTT-TATAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATTTGTTTGC
126 ATAG-TAATTTAT-TAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTGTTTAC
* * * * * * ** * *
9754700 CAAACCAGATT-AAATAGGTAAAACTATTGGAATAATTATTTATTTCCAATTGTTCTCACCTTTT
189 CAAA-TAAATTCAAATAGTTAAAACTATTAGAACAATTATCTATTTAAAATTGTTATAACCTTTT
* * * * * *
9754764 GTTTAGTAATAAA-ATATTTGTTTCATATCT--TGCAAGTTTATTTGGAATAAAATAATTCAAAT
253 GTTTAGTAATAAACA-A-TTATTTCA-AT-TAATACAAGCTTAATTGGAATAAAATAATACTAAT
* *
9754826 TTATTAACATTTGAAAAATTAATAAGCAAAAGATTTTAAAAAATAAATCTGTTTACCGAACAAGT
314 TTATTAATATTTCAAAAATTAATAAG-AAAAGATTTTAAAAAATAAATCTGTTTACCGAAC-AGT
* * * * * * * *
9754891 TCAAATAGTTATGATTATTTAAATAATTATTTATTTAAAATCATTATGACATTTTGTTTTGATGT
377 TAAAATAGTTATGA-CATTTGAACAATTATTT-TTTCAAATCATTATGAAATTTTGTTTTGTTAT
* * * * ** *
9754956 AAAACAATTGTTTCTGTTCATAAAAACTTATCCAAAATAAAATAATACTAGTTTCTTAATATTTT
440 AAAACAATTGTTTCTGTTCATACAAGCTTATTCAAAATAAAATAATACTAATTTAATAATATTTC
* * *
9755021 GAAAATTAATAAGCAAGAG-TTAAAAAAATAAA
505 AAAAATTAATAAGTAAGAGATTTAAAAAATAAA
* * * * *
9755053 TTTGTTTACTAAACAAATTC-AATAGTTACA-ACTATTTGAACAATTGTCTATTTAAAATTGTTA
1 TTTGTTTAC-GAACCAGTTCAAATAGTTA-AGACTATTTGAACAATTATCTATTTCAAATTGTTA
* * * *
9755116 TGACTTTTTGCTTTGTCATAAAACAATTGTTTCAGTTTATACAAGCTTATTCAAAGTAAAATAGT
64 TGACTTTTT-CTTTGTCATAAAACAATTGTTTCAGTTCATACAAACTTATTCAAAATAAAATAAT
* * * * * *
9755181 ATTAATTTATTAATATTTCAAAAATTAATAAGTTAGTGATTTAAAAAATGAATCCGTTTACCAAG
128 AGTAATTTATTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTGTTTACCAAA
* * * ** ** * * *
9755246 TTAGTTCAAATAATTACGACTATTTCAACAATTATC-ATTTTAAATTGTTATTACCTTTTGTTTG
193 TAAATTCAAATAGTTAAAACTATTAGAACAATTATCTATTTAAAATTGTTATAACCTTTTGTTTA
* ** **
9755310 GTTATATAACAATTATTT-TTTTATCATACAAGCTT-ATTCAAAATAAAATAATACTAATTTATT
258 GTAATA-AACAATTATTTCAATTA--ATACAAGCTTAATT-GGAATAAAATAATACTAATTTATT
* * *
9755373 AATCTTTCAAAAATTAATAAG---AGATTTT-AAAAATAAATCTATTTACCAAACCAGTTTAAAA
319 AATATTTCAAAAATTAATAAGAAAAGATTTTAAAAAATAAATCTGTTTACCGAA-CAG-TTAAAA
** * *
9755434 TAGTTATGACTATTTGAACAATTATATACTTCAAATCATTA-CAACCA-TTTGTTTTGTCATAAA
382 TAGTTATGAC-ATTTGAACAATTAT-TTTTTCAAATCATTATGAA--ATTTTGTTTTGTTATAAA
* * ** * *
9755497 ACAATTATTTCTATTCATACAAGCTTATTTGAAATAAAATAATATTAATATAATAATA-TTCTAA
443 ACAATTGTTTCTGTTCATACAAGCTTATTCAAAATAAAATAATACTAATTTAATAATATTTC-AA
* *
9755561 AAATTAATAACTAAGAGATTTCAAAAATAAA
507 AAATTAATAAGTAAGAGATTTAAAAAATAAA
* * * * * *
9755592 TTTGATTGT-CGAACTA-TCTTAAATAGTTAAGAGTGTATGAACAATTATCTATTTCAAA---TC
1 TTTG-TT-TACGAACCAGT-TCAAATAGTTAAGACTATTTGAACAATTATCTATTTCAAATTGTT
* * ** * * **
9755652 AT---TTTTGT-TTTGTCATAAAA-AATT-TTTCAATTCACATTAGCTTTTTTGAAATAAAATAA
63 ATGACTTTT-TCTTTGTCATAAAACAATTGTTTCAGTTCATACAAACTTATTCAAAATAAAATAA
* * * * *
9755711 -AATGAATTTATTAATATTTCAAAAATTAATATGTAAGACATTTAAAAAATAATTTTGTTTACCA
127 TAGT-AATTTATTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTGTTTACCA
9755775 GGCATAAGTG
Statistics
Matches: 1844, Mismatches: 392, Indels: 219
0.75 0.16 0.09
Matches are distributed among these distances:
530 2 0.00
531 77 0.04
532 9 0.00
533 18 0.01
534 99 0.05
535 41 0.02
536 38 0.02
537 152 0.08
538 241 0.13
539 140 0.08
540 124 0.07
541 297 0.16
542 528 0.29
543 67 0.04
544 11 0.01
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (537 bp):
TTTGTTTACGAACCAGTTCAAATAGTTAAGACTATTTGAACAATTATCTATTTCAAATTGTTATG
ACTTTTTCTTTGTCATAAAACAATTGTTTCAGTTCATACAAACTTATTCAAAATAAAATAATAGT
AATTTATTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTGTTTACCAAATAA
ATTCAAATAGTTAAAACTATTAGAACAATTATCTATTTAAAATTGTTATAACCTTTTGTTTAGTA
ATAAACAATTATTTCAATTAATACAAGCTTAATTGGAATAAAATAATACTAATTTATTAATATTT
CAAAAATTAATAAGAAAAGATTTTAAAAAATAAATCTGTTTACCGAACAGTTAAAATAGTTATGA
CATTTGAACAATTATTTTTTCAAATCATTATGAAATTTTGTTTTGTTATAAAACAATTGTTTCTG
TTCATACAAGCTTATTCAAAATAAAATAATACTAATTTAATAATATTTCAAAAATTAATAAGTAA
GAGATTTAAAAAATAAA
Found at i:9757611 original size:19 final size:19
Alignment explanation
Indices: 9757589--9757637 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
9757579 TTTTCATCAT
9757589 TTTCATTTAGTTCATATAA
1 TTTCATTTAGTTCATATAA
* *
9757608 TTTCATTTAGTTCATGTAT
1 TTTCATTTAGTTCATATAA
9757627 TTTCATTTAGT
1 TTTCATTTAGT
9757638 AGTTTAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.24, C:0.10, G:0.08, T:0.57
Consensus pattern (19 bp):
TTTCATTTAGTTCATATAA
Found at i:9757924 original size:19 final size:17
Alignment explanation
Indices: 9757873--9757917 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
9757863 TTTTTAGTTC
*
9757873 TAATAACTCTCCTTTTA
1 TAATAACTTTCCTTTTA
*
9757890 TAATAACTTTCCTTTTT
1 TAATAACTTTCCTTTTA
*
9757907 TAGTAACTTTC
1 TAATAACTTTC
9757918 ACCTTTTAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.27, C:0.20, G:0.02, T:0.51
Consensus pattern (17 bp):
TAATAACTTTCCTTTTA
Found at i:9758526 original size:85 final size:87
Alignment explanation
Indices: 9758361--9758529 Score: 243
Period size: 85 Copynumber: 1.9 Consensus size: 87
9758351 AAGTATATTA
*
9758361 AAATTCATATTAAAATAATATATAAAAATTTTTAAAAAAATTTAAATTTTAAACACTGATAAATT
1 AAATTCATATTAAAATAATATATAAAAA--TTTAAAAAAA-TTAAATTTTAAACACTGATAAACT
* ** * *
9758426 GAATTGACCTGGTAGAATTTAATTC
63 AAACCGAACTAGTAGAATTTAATTC
9758451 AAATTCATATTAAAATAATATATAAAAA-TTAAAAAAA-TAAATTTTAAACACTGATAAACTAAA
1 AAATTCATATTAAAATAATATATAAAAATTTAAAAAAATTAAATTTTAAACACTGATAAACTAAA
9758514 CCGAACTAGTAGAATT
66 CCGAACTAGTAGAATT
9758530 CAGTGCGAAT
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
85 36 0.49
87 9 0.12
90 28 0.38
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.34
Consensus pattern (87 bp):
AAATTCATATTAAAATAATATATAAAAATTTAAAAAAATTAAATTTTAAACACTGATAAACTAAA
CCGAACTAGTAGAATTTAATTC
Found at i:9764426 original size:17 final size:18
Alignment explanation
Indices: 9764393--9764427 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
9764383 TTTTCTTATT
*
9764393 GTTTTCTTGTTTTTTAAA
1 GTTTTCTTGTATTTTAAA
9764411 GTTTTCTT-TATTTTAAA
1 GTTTTCTTGTATTTTAAA
9764428 AGCTAGGGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.20, C:0.06, G:0.09, T:0.66
Consensus pattern (18 bp):
GTTTTCTTGTATTTTAAA
Found at i:9768394 original size:18 final size:18
Alignment explanation
Indices: 9768368--9768492 Score: 87
Period size: 18 Copynumber: 6.9 Consensus size: 18
9768358 CTTTGTTCTT
9768368 GATACATTTGAGGTGGAG
1 GATACATTTGAGGTGGAG
* *
9768386 GATATATTTGA---GGAT
1 GATACATTTGAGGTGGAG
*
9768401 GATACATTTGTGGTGGAG
1 GATACATTTGAGGTGGAG
* * * *
9768419 GGTACATTTGTGGT-AACT
1 GATACATTTGAGGTGGA-G
* *
9768437 AATACATTTGAGGTGGAC
1 GATACATTTGAGGTGGAG
* *
9768455 GATATATTTGAGGAGGTGGGG
1 GATACATTT---GAGGTGGAG
9768476 GATACATTTGAGGTGGA
1 GATACATTTGAGGTGGA
9768493 TAATAACCAT
Statistics
Matches: 80, Mismatches: 19, Indels: 16
0.70 0.17 0.14
Matches are distributed among these distances:
15 12 0.15
17 1 0.01
18 51 0.64
19 1 0.01
21 15 0.19
ACGTcount: A:0.27, C:0.06, G:0.35, T:0.32
Consensus pattern (18 bp):
GATACATTTGAGGTGGAG
Found at i:9768409 original size:33 final size:34
Alignment explanation
Indices: 9768367--9768468 Score: 125
Period size: 33 Copynumber: 3.0 Consensus size: 34
9768357 CCTTTGTTCT
9768367 TGATACATTTGAGGTGGAGGATATATTTGAGGA-
1 TGATACATTTGAGGTGGAGGATATATTTGAGGAC
* * * *
9768400 TGATACATTTGTGGTGGAGGGTACATTTGTGGTAAC
1 TGATACATTTGAGGTGGAGGATATATTTGAGG--AC
* *
9768436 TAATACATTTGAGGTGGACGATATATTTGAGGA
1 TGATACATTTGAGGTGGAGGATATATTTGAGGA
9768469 GGTGGGGGAT
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
33 28 0.50
34 1 0.02
35 1 0.02
36 26 0.46
ACGTcount: A:0.28, C:0.06, G:0.31, T:0.34
Consensus pattern (34 bp):
TGATACATTTGAGGTGGAGGATATATTTGAGGAC
Found at i:9768470 original size:21 final size:21
Alignment explanation
Indices: 9768446--9768488 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9768436 TAATACATTT
*
9768446 GAGGTGGACGATATATTTGAG
1 GAGGTGGACGATACATTTGAG
**
9768467 GAGGTGGGGGATACATTTGAG
1 GAGGTGGACGATACATTTGAG
9768488 G
1 G
9768489 TGGATAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.44, T:0.26
Consensus pattern (21 bp):
GAGGTGGACGATACATTTGAG
Found at i:9768847 original size:6 final size:6
Alignment explanation
Indices: 9768836--9768884 Score: 71
Period size: 6 Copynumber: 8.2 Consensus size: 6
9768826 CCAAAATTCG
* * *
9768836 CACCAT CACCAT CACCAT CACCAT CACCAT CTCTAT CACCAT CATCAT
1 CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT
9768884 C
1 C
9768885 TGGACTTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.31, C:0.47, G:0.00, T:0.22
Consensus pattern (6 bp):
CACCAT
Found at i:9771988 original size:25 final size:24
Alignment explanation
Indices: 9771960--9772017 Score: 64
Period size: 27 Copynumber: 2.3 Consensus size: 24
9771950 TTTTTATCAC
*
9771960 AAATAA-CTTCAAATAATTATATAA
1 AAATAATCTTC-AATAATTATACAA
9771984 TAAATACAATCTTCAATAATTATACAA
1 -AAAT--AATCTTCAATAATTATACAA
9772011 AAATAAT
1 AAATAAT
9772018 AAGAATTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
24 3 0.10
25 4 0.14
26 4 0.14
27 14 0.48
28 4 0.14
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (24 bp):
AAATAATCTTCAATAATTATACAA
Found at i:9772348 original size:26 final size:26
Alignment explanation
Indices: 9772299--9772347 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
9772289 TTTCAAAAAT
*
9772299 TAAAAGTTTTCAAACTTATATTTTAA
1 TAAAAGTTTTCAAACCTATATTTTAA
9772325 TAAAA-TTTTCAAACCTATATTTT
1 TAAAAGTTTTCAAACCTATATTTT
9772348 TTATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (26 bp):
TAAAAGTTTTCAAACCTATATTTTAA
Found at i:9772597 original size:19 final size:20
Alignment explanation
Indices: 9772573--9772610 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9772563 AGCAACAAAA
*
9772573 AAAATTA-AAATTCATATAC
1 AAAATTATAAATTAATATAC
9772592 AAAATTATAAATTAATATA
1 AAAATTATAAATTAATATA
9772611 TAACACAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATTATAAATTAATATAC
Found at i:9772923 original size:39 final size:40
Alignment explanation
Indices: 9772846--9772934 Score: 119
Period size: 40 Copynumber: 2.3 Consensus size: 40
9772836 CCACCCTTAT
* * *
9772846 CAATCCCTCTCCACCTTCCCCTCCAACATCCAATCACACC
1 CAATCCCTCCCCACCTTCCCCTCCAACACCCAACCACACC
* *
9772886 CAATCCCTCCCCACCTTCCCC-CCAACCCCCCACCACACC
1 CAATCCCTCCCCACCTTCCCCTCCAACACCCAACCACACC
9772925 CAAT-CCTCCC
1 CAATCCCTCCC
9772935 TACCCCATCC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
38 6 0.14
39 18 0.41
40 20 0.45
ACGTcount: A:0.22, C:0.62, G:0.00, T:0.16
Consensus pattern (40 bp):
CAATCCCTCCCCACCTTCCCCTCCAACACCCAACCACACC
Found at i:9777961 original size:34 final size:34
Alignment explanation
Indices: 9777903--9777970 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
9777893 AAACATTTTT
9777903 GGAAATAGATTTCTAAAAAGTTATATAA-CTTTCC
1 GGAAATAGATTTCTAAAAAGTTATA-AACCTTTCC
* *
9777937 GGAAATGGATTTCT-AGAAGATTATAAACCTTTCC
1 GGAAATAGATTTCTAAAAAG-TTATAAACCTTTCC
9777971 AGATATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 6 0.20
34 24 0.80
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (34 bp):
GGAAATAGATTTCTAAAAAGTTATAAACCTTTCC
Found at i:9778051 original size:34 final size:33
Alignment explanation
Indices: 9777987--9778070 Score: 98
Period size: 34 Copynumber: 2.5 Consensus size: 33
9777977 AAATTTTTAG
**
9777987 AAAGGTTTATGACTTTTCGAAAATCTATTTCCAA
1 AAAGGTTTATGACTTTTCGAAAATAAATTT-CAA
9778021 AAAGGTTTATGACTTTTC-ATAAATAAATTTCAA
1 AAAGGTTTATGACTTTTCGA-AAATAAATTTCAA
**
9778054 AAAAATTATATGACTTT
1 AAAGGTT-TATGACTTT
9778071 CTAGAAATTC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
33 9 0.20
34 35 0.80
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (33 bp):
AAAGGTTTATGACTTTTCGAAAATAAATTTCAA
Found at i:9787511 original size:24 final size:23
Alignment explanation
Indices: 9787467--9787510 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
9787457 TTAATTATCA
*
9787467 ATTTTTATTTTATTTTATTTTGC
1 ATTTTTATTCTATTTTATTTTGC
9787490 ATTTTTAATTCTA-TTTATTTT
1 ATTTTT-ATTCTATTTTATTTT
9787511 TTTTTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (23 bp):
ATTTTTATTCTATTTTATTTTGC
Found at i:9788468 original size:26 final size:24
Alignment explanation
Indices: 9788414--9788469 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 24
9788404 ATGAAAATTT
* * *
9788414 AAAATATAGTACAATAAAATGATA
1 AAAATATAATACAATAAAATCACA
*
9788438 TAAATATAATACGAATAAAAATCACA
1 AAAATATAATAC-AAT-AAAATCACA
9788464 AAAATA
1 AAAATA
9788470 ATATAATTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
24 10 0.40
25 3 0.12
26 12 0.48
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.23
Consensus pattern (24 bp):
AAAATATAATACAATAAAATCACA
Found at i:9788594 original size:13 final size:12
Alignment explanation
Indices: 9788548--9788596 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 12
9788538 TTATATCAAC
9788548 ATAAATTATAAT
1 ATAAATTATAAT
* *
9788560 ATATAATTTTCAT
1 ATA-AATTATAAT
*
9788573 ATAAAATATAAT
1 ATAAATTATAAT
9788585 ATAAATATATAA
1 ATAAAT-TATAA
9788597 ATTTTAATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
12 14 0.48
13 15 0.52
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (12 bp):
ATAAATTATAAT
Found at i:9791472 original size:8 final size:8
Alignment explanation
Indices: 9791459--9791514 Score: 62
Period size: 7 Copynumber: 6.9 Consensus size: 8
9791449 TAAAAATTAA
9791459 ACAAAAAT
1 ACAAAAAT
9791467 AC-AAAAT
1 ACAAAAAT
9791474 ATCAAAAAT
1 A-CAAAAAT
9791483 ACAAAATAT
1 ACAAAA-AT
*
9791492 CAAAAAAAT
1 -ACAAAAAT
9791501 AC-AAAAT
1 ACAAAAAT
9791508 ACAAAAA
1 ACAAAAA
9791515 AAAGAGAACA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
7 13 0.32
8 13 0.32
9 10 0.24
10 5 0.12
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.14
Consensus pattern (8 bp):
ACAAAAAT
Found at i:9791517 original size:18 final size:18
Alignment explanation
Indices: 9791461--9791516 Score: 91
Period size: 16 Copynumber: 3.3 Consensus size: 18
9791451 AAAATTAAAC
9791461 AAAAATACAAAATATC--
1 AAAAATACAAAATATCAA
9791477 AAAAATACAAAATATCAA
1 AAAAATACAAAATATCAA
9791495 AAAAATACAAAATA-CAA
1 AAAAATACAAAATATCAA
9791512 AAAAA
1 AAAAA
9791517 AGAGAACAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
16 16 0.42
17 8 0.21
18 14 0.37
ACGTcount: A:0.75, C:0.11, G:0.00, T:0.14
Consensus pattern (18 bp):
AAAAATACAAAATATCAA
Found at i:9792665 original size:14 final size:14
Alignment explanation
Indices: 9792631--9792673 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
9792621 TTTGTTGTTT
9792631 TATAATAATAATA-A
1 TATAATAA-AATATA
9792645 T-TAATAAAATATA
1 TATAATAAAATATA
*
9792658 TATAATAAAGTATA
1 TATAATAAAATATA
9792672 TA
1 TA
9792674 ATAAAAGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 4 0.15
13 8 0.31
14 14 0.54
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
TATAATAAAATATA
Found at i:9800559 original size:47 final size:47
Alignment explanation
Indices: 9800503--9800693 Score: 251
Period size: 47 Copynumber: 4.0 Consensus size: 47
9800493 GAACCGATGA
* * *
9800503 GATTTTTAAAGTTGTTGAGCCTCTATTGAAAGGAGTTTTTTCAAGAT
1 GATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAT
* *
9800550 GATTTTTAAAGTTGTTGAGTCTCTGTTGAGAGGAGCTTTTCCAA-AT
1 GATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAT
* * *
9800596 AAATTTTTAAAATTGTTGAGCCTCTGTTG-GACGAGCCTTTTTTCAAGAT
1 -GATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAG-C-TTTTTCAAGAT
* *
9800645 GATTTTTAAAGTTATTGAGTCTCTGTTGAGAGGAGCTTTTTCAAGAT
1 GATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAT
9800692 GA
1 GA
9800694 GATTTCCTAA
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
46 7 0.06
47 78 0.63
48 32 0.26
49 7 0.06
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.41
Consensus pattern (47 bp):
GATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAT
Found at i:9800834 original size:49 final size:48
Alignment explanation
Indices: 9800781--9801286 Score: 308
Period size: 47 Copynumber: 10.0 Consensus size: 48
9800771 TTTGAAGAAC
*
9800781 AGATGAGATTTTTAAAGTTGTTGAGCCTCTATTGAGAGGAGCTTTTTCA
1 AGAT-AGATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCA
*
9800830 AGAT-GATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTCCA
1 AGATAGATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCA
* * * *
9800877 A-ATAAATTTTTAAAGTTGTTGAGCTTCTGCTG-GACGAGCCTTTTTTCA
1 AGATAGATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAG-C-TTTTTCA
* * *
9800925 AGAT-GATTTTTAAAGTTATTGAGTCTCTGTTGAAAGGAGCTTTTTCA
1 AGATAGATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCA
* * *
9800972 AGATGAGATTTTTAAAATTGTTGAGCCTCTGCTGGGAGGAGC-TTTTCA
1 AGAT-AGATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCA
* * * * * * * **
9801020 AGATGAAATTTTTTTTCAAGATAAGAATTTTTAAAG-TTATTGAGCCTCTACTGAGAAGAGCCAT
1 AGAT-AGA---TTTTT----A-AAG--TTGTT-GAGCCT-CTG-T-------TGAGAGGAGCTTT
9801084 TTCA
45 TTCA
* * * * * *
9801088 AGAT-GAGATTTTTAAAATCGTTAAGCATCTGCTGAGAGGAGCTTTTTTCA
1 AGATAGA-TTTTT-AAAGTTGTTGAGCCTCTGTTGAGAGGAGC-TTTTTCA
* * **
9801138 AGATGAGAATTTTTAAAGTCGTTAAGCCTCTGTTGAGAAAAGTCTTTTTCA
1 AGAT-AG-ATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAG-CTTTTTCA
* * * *
9801189 AGATAAAATTTTTAAAGTTGTTGAGCCTCTGCTGTGAGAAGCTTTTTC-
1 AGAT-AGATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCA
* * *
9801237 AGATGAGATTTTTAAAGTTGGTAAGCCTCTGCTGAGAGGAGTCTTTTTCA
1 AGAT-AGATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAG-CTTTTTCA
9801287 GATTTTAATT
Statistics
Matches: 359, Mismatches: 62, Indels: 71
0.73 0.13 0.14
Matches are distributed among these distances:
46 7 0.02
47 79 0.22
48 79 0.22
49 63 0.18
50 38 0.11
51 40 0.11
52 6 0.02
53 1 0.00
55 1 0.00
56 2 0.01
57 5 0.01
58 9 0.03
59 4 0.01
60 2 0.01
61 1 0.00
64 4 0.01
66 1 0.00
67 8 0.02
68 9 0.03
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (48 bp):
AGATAGATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCA
Found at i:9800921 original size:284 final size:284
Alignment explanation
Indices: 9800411--9800982 Score: 1045
Period size: 284 Copynumber: 2.0 Consensus size: 284
9800401 TAGATTTTTC
* *
9800411 ATTTCCTAATGAAAAATAAGATCAAACAAAAGATTTCGAAAGAGAGAAATTTACTTGTTCAAAGA
1 ATTTCCTAATGAAAAATAAGATCAAACAAAAGATTTCAAAAGAGAAAAATTTACTTGTTCAAAGA
* *
9800476 TGAGAACTCGATTTGAAGAACCGATGAGATTTTTAAAGTTGTTGAGCCTCTATTGAAAGGAGTTT
66 TGAGAACTCGATTTGAAGAACAGATGAGATTTTTAAAGTTGTTGAGCCTCTATTGAAAGGAGCTT
*
9800541 TTTCAAGATGATTTTTAAAGTTGTTGAGTCTCTGTTGAGAGGAGCTTTTCCAAATAAATTTTTAA
131 TTTCAAGATGATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTCCAAATAAATTTTTAA
*
9800606 AATTGTTGAGCCTCTGTTGGACGAGCCTTTTTTCAAGATGATTTTTAAAGTTATTGAGTCTCTGT
196 AATTGTTGAGCCTCTGCTGGACGAGCCTTTTTTCAAGATGATTTTTAAAGTTATTGAGTCTCTGT
*
9800671 TGAGAGGAGCTTTTTCAAGATGAG
261 TGAAAGGAGCTTTTTCAAGATGAG
9800695 ATTTCCTAATGAAAAATAAGATCAAACAAAAGATTTCAAAAGAGAAAAATTTACTTGTTCAAAGA
1 ATTTCCTAATGAAAAATAAGATCAAACAAAAGATTTCAAAAGAGAAAAATTTACTTGTTCAAAGA
* *
9800760 TGAGAACTCGCTTTGAAGAACAGATGAGATTTTTAAAGTTGTTGAGCCTCTATTGAGAGGAGCTT
66 TGAGAACTCGATTTGAAGAACAGATGAGATTTTTAAAGTTGTTGAGCCTCTATTGAAAGGAGCTT
9800825 TTTCAAGATGATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTCCAAATAAATTTTTAA
131 TTTCAAGATGATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTCCAAATAAATTTTTAA
* *
9800890 AGTTGTTGAGCTTCTGCTGGACGAGCCTTTTTTCAAGATGATTTTTAAAGTTATTGAGTCTCTGT
196 AATTGTTGAGCCTCTGCTGGACGAGCCTTTTTTCAAGATGATTTTTAAAGTTATTGAGTCTCTGT
9800955 TGAAAGGAGCTTTTTCAAGATGAG
261 TGAAAGGAGCTTTTTCAAGATGAG
9800979 ATTT
1 ATTT
9800983 TTAAAATTGT
Statistics
Matches: 277, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
284 277 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (284 bp):
ATTTCCTAATGAAAAATAAGATCAAACAAAAGATTTCAAAAGAGAAAAATTTACTTGTTCAAAGA
TGAGAACTCGATTTGAAGAACAGATGAGATTTTTAAAGTTGTTGAGCCTCTATTGAAAGGAGCTT
TTTCAAGATGATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTCCAAATAAATTTTTAA
AATTGTTGAGCCTCTGCTGGACGAGCCTTTTTTCAAGATGATTTTTAAAGTTATTGAGTCTCTGT
TGAAAGGAGCTTTTTCAAGATGAG
Found at i:9800933 original size:142 final size:143
Alignment explanation
Indices: 9800503--9801032 Score: 431
Period size: 142 Copynumber: 3.7 Consensus size: 143
9800493 GAACCGATGA
* *
9800503 GATTTTTAAAGTTGTTGAGCCTCTATTGAAAGGAGTTTTTTCAAGAT-GATTTTTAAAGTTGTTG
1 GATTTTTAAAGTTATTGAGCCTCTATTGAAAGGAGCTTTTTCAAGATAGATTTTTAAAGTTGTTG
* *
9800567 AGTCTCTGTTGAGAGGAGCTTTTCCAA-ATAAATTTTTAAAATTGTTGAGCCTCTGTTGGACGAG
66 AGCCTCTGTTGAGAGGAGCTTTTCCAAGATAAATTTTTAAAATTGTTGAGCATCTG-TGGACGAG
9800631 CCTTTTTTCAAGAT
130 CCTTTTTTCAAGAT
* * * * * ***
9800645 GATTTTTAAAGTTATTGAGTCTCTGTTGAGAGGAGCTTTTTCAAGATGAGATTTCCTAATGAAAA
1 GATTTTTAAAGTTATTGAGCCTCTATTGAAAGGAGCTTTTTCAAGAT-AGATTT-TTAAAG-TTG
* * * ** * ** * * * ** * * * ** * *
9800710 ATAAG-ATC---AAACAAAAG-ATTTCAAAAGAGAAAAATTT--ACTTGTTCA-AAGATGAGAAC
63 TTGAGCCTCTGTTGAGAGGAGCTTTTC-CAAGATAAATTTTTAAAATTGTTGAGCATCTGTGGAC
** ****
9800767 TCG-CTTTGAAGAACAGAT
127 GAGCCTTT-TTTCA-AGAT
* *
9800785 GAGATTTTTAAAGTTGTTGAGCCTCTATTGAGAGGAGCTTTTTCAAGAT-GATTTTTAAAGTTGT
1 --GATTTTTAAAGTTATTGAGCCTCTATTGAAAGGAGCTTTTTCAAGATAGATTTTTAAAGTTGT
* *
9800849 TGAGCCTCTGTTGAGAGGAGCTTTTCCAA-ATAAATTTTTAAAGTTGTTGAGCTTCTGCTGGACG
64 TGAGCCTCTGTTGAGAGGAGCTTTTCCAAGATAAATTTTTAAAATTGTTGAGCATCTG-TGGACG
9800913 AGCCTTTTTTCAAGAT
128 AGCCTTTTTTCAAGAT
* * *
9800929 GATTTTTAAAGTTATTGAGTCTCTGTTGAAAGGAGCTTTTTCAAGATGAGATTTTTAAAATTGTT
1 GATTTTTAAAGTTATTGAGCCTCTATTGAAAGGAGCTTTTTCAAGAT-AGATTTTTAAAGTTGTT
* *
9800994 GAGCCTCTGCTGGGAGGAGCTTTT-CAAGATGAAATTTTT
65 GAGCCTCTGTTGAGAGGAGCTTTTCCAAGAT-AAATTTTT
9801033 TTTCAAGATA
Statistics
Matches: 285, Mismatches: 79, Indels: 45
0.70 0.19 0.11
Matches are distributed among these distances:
138 7 0.02
139 11 0.04
140 11 0.04
141 18 0.06
142 141 0.49
143 21 0.07
144 50 0.18
145 19 0.07
146 7 0.02
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (143 bp):
GATTTTTAAAGTTATTGAGCCTCTATTGAAAGGAGCTTTTTCAAGATAGATTTTTAAAGTTGTTG
AGCCTCTGTTGAGAGGAGCTTTTCCAAGATAAATTTTTAAAATTGTTGAGCATCTGTGGACGAGC
CTTTTTTCAAGAT
Found at i:9801018 original size:95 final size:96
Alignment explanation
Indices: 9800781--9801025 Score: 345
Period size: 95 Copynumber: 2.6 Consensus size: 96
9800771 TTTGAAGAAC
** *
9800781 AGATGAGATTTTTAAAGTTGTTGAGCCTCTATTGAGAGGAGCTTTTTCAAGATGATTTTTAAAGT
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGGGAGGAGCTTTTTCAAGATGATTTTTAAAGT
* *
9800846 TGTTGAGCCTCTGTTGAGAGGAGCTTTTCCA
66 TATTGAGCCTCTGTTGAAAGGAGCTTTTCCA
* * *
9800877 A-AT-AAATTTTTAAAGTTGTTGAGCTTCTGCT-GGACGAGCCTTTTTTCAAGATGATTTTTAAA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGGGAGGAG-C-TTTTTCAAGATGATTTTTAAA
* *
9800939 GTTATTGAGTCTCTGTTGAAAGGAGCTTTTTCA
64 GTTATTGAGCCTCTGTTGAAAGGAGCTTTTCCA
*
9800972 AGATGAGATTTTTAAAATTGTTGAGCCTCTGCTGGGAGGAGC-TTTTCAAGATGA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGGGAGGAGCTTTTTCAAGATGA
9801026 AATTTTTTTT
Statistics
Matches: 130, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
93 5 0.04
94 25 0.19
95 65 0.50
96 3 0.02
97 26 0.20
98 6 0.05
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (96 bp):
AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGGGAGGAGCTTTTTCAAGATGATTTTTAAAGT
TATTGAGCCTCTGTTGAAAGGAGCTTTTCCA
Found at i:9801037 original size:18 final size:19
Alignment explanation
Indices: 9801014--9801051 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
9801004 TGGGAGGAGC
*
9801014 TTTTCAAGATGA-AATTTT
1 TTTTCAAGATAAGAATTTT
9801032 TTTTCAAGATAAGAATTTT
1 TTTTCAAGATAAGAATTTT
9801051 T
1 T
9801052 AAAGTTATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (19 bp):
TTTTCAAGATAAGAATTTT
Found at i:9801064 original size:67 final size:67
Alignment explanation
Indices: 9800965--9801100 Score: 184
Period size: 67 Copynumber: 2.0 Consensus size: 67
9800955 TGAAAGGAGC
* * * * * *
9800965 TTTTTCAAGATGAGATTTTTAAAATTGTTGAGCCTCTGCTGGGAGGAG-CTTTTCAAGATGAAAT
1 TTTTTCAAGATAAGATTTTTAAAATTATTGAGCCTCTACTGAGAAGAGCCATTTCAAGATGAAAT
9801029 TT
66 TT
* *
9801031 TTTTTCAAGATAAGAATTTTTAAAGTTATTGAGCCTCTACTGAGAAGAGCCATTTCAAGATGAGA
1 TTTTTCAAGATAAG-ATTTTTAAAATTATTGAGCCTCTACTGAGAAGAGCCATTTCAAGATGAAA
9801096 TTT
65 TTT
9801099 TT
1 TT
9801101 AAAATCGTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 13 0.22
67 29 0.48
68 18 0.30
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (67 bp):
TTTTTCAAGATAAGATTTTTAAAATTATTGAGCCTCTACTGAGAAGAGCCATTTCAAGATGAAAT
TT
Found at i:9801098 original size:116 final size:115
Alignment explanation
Indices: 9800917--9801151 Score: 323
Period size: 116 Copynumber: 2.0 Consensus size: 115
9800907 TGGACGAGCC
* ** **
9800917 TTTTTTCAAGATGATTTTTAAAGTTATTGAGTCTCTGTTGAAAGGAGCTTTTTCAAGATGAGATT
1 TTTTTTCAAGATGATTTTTAAAGTTATTGAGCCTCTACTGAAAGGAGCCATTTCAAGATGAGATT
* * * *
9800982 TTTAAAATTGTTGAGCCTCTGCTGGGAGGAGC-TTTTCAAGATGA-AATT
66 TTTAAAATCGTTAAGCATCTGCTGAGAGGAGCTTTTTCAAGATGAGAATT
9801030 TTTTTTCAAGATAAGAATTTTTAAAGTTATTGAGCCTCTACTGAGAA-GAGCCATTTCAAGATGA
1 TTTTTTCAAGAT--G-ATTTTTAAAGTTATTGAGCCTCTACTGA-AAGGAGCCATTTCAAGATGA
9801094 GATTTTTAAAATCGTTAAGCATCTGCTGAGAGGAGCTTTTTTCAAGATGAGAATT
62 GATTTTTAAAATCGTTAAGCATCTGCTGAGAGGAGC-TTTTTCAAGATGAGAATT
9801149 TTT
1 TTT
9801152 AAAGTCGTTA
Statistics
Matches: 106, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
113 12 0.11
115 1 0.01
116 72 0.68
117 2 0.02
118 12 0.11
119 7 0.07
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (115 bp):
TTTTTTCAAGATGATTTTTAAAGTTATTGAGCCTCTACTGAAAGGAGCCATTTCAAGATGAGATT
TTTAAAATCGTTAAGCATCTGCTGAGAGGAGCTTTTTCAAGATGAGAATT
Found at i:9801160 original size:51 final size:51
Alignment explanation
Indices: 9801030--9801284 Score: 272
Period size: 50 Copynumber: 5.1 Consensus size: 51
9801020 AGATGAAATT
* * * * *
9801030 TTTTTTCAAGATAAGAATTTTTAAAGTTATTGAGCCTCTACTGAGAAGAGC
1 TTTTTTCAAGATGAGAATTTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGC
** * * *
9801081 -CATTTCAAGATGAG-ATTTTTAAAATCGTTAAGCATCTGCTGAGAGGAGC
1 TTTTTTCAAGATGAGAATTTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGC
* * **
9801130 TTTTTTCAAGATGAGAATTTTTAAAGTCGTTAAGCCTCTGTTGAGAAAAG-
1 TTTTTTCAAGATGAGAATTTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGC
* * * *
9801180 TCTTTTTCAAGAT-AAAATTTTTAAAGTTGTTGAGCCTCTGCTGTGAGAAGC
1 T-TTTTTCAAGATGAGAATTTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGC
*
9801231 -TTTTTC-AGATGAG-ATTTTTAAAGTTGGTAAGCCTCTGCTGAGAGGAGTC
1 TTTTTTCAAGATGAGAATTTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAG-C
9801280 TTTTT
1 TTTTT
9801285 CAGATTTTAA
Statistics
Matches: 169, Mismatches: 28, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
48 34 0.20
49 36 0.21
50 59 0.35
51 40 0.24
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (51 bp):
TTTTTTCAAGATGAGAATTTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGC
Found at i:9801593 original size:35 final size:35
Alignment explanation
Indices: 9801552--9801618 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
9801542 AAATACAATA
*
9801552 ATAAAAAT-TAAACAAAAATACAGAATACAAAAAAT
1 ATAAAAATATAAA-AAAAATACAAAATACAAAAAAT
*
9801587 ATAAAAATATCAAAAAAATACAAAATACAAAA
1 ATAAAAATATAAAAAAAATACAAAATACAAAA
9801619 TACAAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 26 0.90
36 3 0.10
ACGTcount: A:0.73, C:0.09, G:0.01, T:0.16
Consensus pattern (35 bp):
ATAAAAATATAAAAAAAATACAAAATACAAAAAAT
Found at i:9801611 original size:7 final size:7
Alignment explanation
Indices: 9801601--9801625 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9801591 AAATATCAAA
9801601 AAAATAC
1 AAAATAC
9801608 AAAATAC
1 AAAATAC
9801615 AAAATAC
1 AAAATAC
9801622 AAAA
1 AAAA
9801626 AAAAGAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAC
Found at i:9801628 original size:17 final size:17
Alignment explanation
Indices: 9801565--9801618 Score: 74
Period size: 17 Copynumber: 3.1 Consensus size: 17
9801555 AAAATTAAAC
*
9801565 AAAAATACAGAATACAA
1 AAAAATACAAAATACAA
9801582 AAAATATA-AAAATATCAA
1 AAAA-ATACAAAATA-CAA
9801600 AAAAATACAAAATACAA
1 AAAAATACAAAATACAA
9801617 AA
1 AA
9801619 TACAAAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 17 0.52
18 16 0.48
ACGTcount: A:0.74, C:0.09, G:0.02, T:0.15
Consensus pattern (17 bp):
AAAAATACAAAATACAA
Found at i:9802979 original size:17 final size:18
Alignment explanation
Indices: 9802939--9802983 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
9802929 TTTCTTATAA
9802939 AATAATAA-ATAAAAATT
1 AATAATAATATAAAAATT
9802956 AATTAATAATATAAAAA-T
1 AA-TAATAATATAAAAATT
9802974 AATAATAATA
1 AATAATAATA
9802984 CAAATAAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 10 0.38
18 9 0.35
19 7 0.27
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AATAATAATATAAAAATT
Found at i:9810697 original size:19 final size:20
Alignment explanation
Indices: 9810652--9810698 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
9810642 GATCGTAGGT
9810652 TTTTTTTTAAATTTATTTTC
1 TTTTTTTTAAATTTATTTTC
*
9810672 CTTTTTTT-AATTTATTTTC
1 TTTTTTTTAAATTTATTTTC
9810691 TTTTTTTT
1 TTTTTTTT
9810699 TTTTTTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTTTTAAATTTATTTTC
Found at i:9810698 original size:20 final size:21
Alignment explanation
Indices: 9810651--9810699 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
9810641 GGATCGTAGG
9810651 TTTTTTTTTAAATTTATTTTC
1 TTTTTTTTTAAATTTATTTTC
*
9810672 -CTTTTTTT-AATTTATTTTC
1 TTTTTTTTTAAATTTATTTTC
9810691 TTTTTTTTT
1 TTTTTTTTT
9810700 TTTTTTTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTTTTTAAATTTATTTTC
Found at i:9813359 original size:17 final size:18
Alignment explanation
Indices: 9813337--9813382 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
9813327 AAAAAAAACC
*
9813337 AAAATACAAAATATC-AA
1 AAAATACAAAATACCAAA
*
9813354 ATAATACAAAATACCAAA
1 AAAATACAAAATACCAAA
9813372 AAAATACAAAA
1 AAAATACAAAA
9813383 AAATAGAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.72, C:0.13, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAATACAAAATACCAAA
Found at i:9813382 original size:7 final size:7
Alignment explanation
Indices: 9813313--9813372 Score: 54
Period size: 7 Copynumber: 8.4 Consensus size: 7
9813303 AAATATTATT
9813313 AAATACA
1 AAATACA
9813320 AAATACA
1 AAATACA
9813327 AAA-A-A
1 AAATACA
*
9813332 AAA-CCA
1 AAATACA
9813338 AAATACA
1 AAATACA
9813345 AAATATCAA
1 AAATA-C-A
9813354 ATAATACA
1 A-AATACA
9813362 AAATACCA
1 AAATA-CA
9813370 AAA
1 AAA
9813373 AAATACAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
5 4 0.09
6 5 0.11
7 21 0.47
8 8 0.18
9 3 0.07
10 4 0.09
ACGTcount: A:0.72, C:0.15, G:0.00, T:0.13
Consensus pattern (7 bp):
AAATACA
Found at i:9814710 original size:18 final size:19
Alignment explanation
Indices: 9814684--9814721 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
9814674 TTTTCTTTTT
9814684 TTGAGTAATAAA-TAAAAA
1 TTGAGTAATAAATTAAAAA
*
9814702 TTGATTAATAAATTAAAAA
1 TTGAGTAATAAATTAAAAA
9814721 T
1 T
9814722 AAAAGAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (19 bp):
TTGAGTAATAAATTAAAAA
Found at i:9814937 original size:191 final size:192
Alignment explanation
Indices: 9814606--9814978 Score: 599
Period size: 191 Copynumber: 1.9 Consensus size: 192
9814596 TTTAGGTAAA
*
9814606 AAGATTTTTTTTTAAATACTATCAGTGTATTGAAGTGTTTATAAAAAATTTTTTCAATACAATAA
1 AAGATTTTTTTTTAAATACTACCAGTGTATTGAAGTGTTTATAAAAAATTTTTTCAATACAATAA
*** *
9814671 AAATTTTCTTTTTTTGAGTAATAAATAAAAATTGATTAATAAATTAAAAATAAAAGAAATAAAAA
66 AAAAAATCTTTTTTTAAGTAATAAATAAAAATTGATTAATAAATTAAAAATAAAAGAAATAAAAA
* * *
9814736 TGAGAAGAAAAGAAATTTTATCCGACGATGAGATTC-AAAGGTATTTTGAGTAGTCTAGGTGAG
131 TGAAAAGAAAA-AAATTTTATCCGACGATG-GATTCTAAAAGTATTTCGAGTAGTCTAGGTGAG
*
9814799 AAGATTTTTTTTTAAATACTACCAGTGTATTGGAGTGTTTATAAAAAA-TTTTTCAATACAATAA
1 AAGATTTTTTTTTAAATACTACCAGTGTATTGAAGTGTTTATAAAAAATTTTTTCAATACAATAA
* *
9814863 AAAAAAT-TTTTTTTAAGTAATAAATAAAAATTGATTAATATATTAAAAATATAAGAAATAAAAA
66 AAAAAATCTTTTTTTAAGTAATAAATAAAAATTGATTAATAAATTAAAAATAAAAGAAATAAAAA
*
9814927 TGAAAAGAAAAAAATTTTATCCGATGATGGATTCTAAAAGTATTTCGAGTAG
131 TGAAAAGAAAAAAATTTTATCCGACGATGGATTCTAAAAGTATTTCGAGTAG
9814979 AGATGCTTTA
Statistics
Matches: 167, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
189 5 0.03
190 32 0.19
191 64 0.38
192 20 0.12
193 46 0.28
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (192 bp):
AAGATTTTTTTTTAAATACTACCAGTGTATTGAAGTGTTTATAAAAAATTTTTTCAATACAATAA
AAAAAATCTTTTTTTAAGTAATAAATAAAAATTGATTAATAAATTAAAAATAAAAGAAATAAAAA
TGAAAAGAAAAAAATTTTATCCGACGATGGATTCTAAAAGTATTTCGAGTAGTCTAGGTGAG
Found at i:9815890 original size:23 final size:22
Alignment explanation
Indices: 9815852--9815895 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
9815842 AAAAGGTCAA
*
9815852 AAAATAAAAAATAAAACAAATTG
1 AAAATAAAAAACAAAA-AAATTG
*
9815875 AAAATAAAAAGCAAAAAAATT
1 AAAATAAAAAACAAAAAAATT
9815896 CACACACATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.16
Consensus pattern (22 bp):
AAAATAAAAAACAAAAAAATTG
Found at i:9826994 original size:25 final size:23
Alignment explanation
Indices: 9826945--9826994 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 23
9826935 CCCAATTTAA
*
9826945 AAGAAGTTAAAGAATAATAGAAT
1 AAGAAGTTAAAGAATAAAAGAAT
9826968 AAGAAGTTGAAAAGAA-AAAAGACAT
1 AAGAAGTT--AAAGAATAAAAGA-AT
9826993 AA
1 AA
9826995 AAAAGAGTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 8 0.35
24 5 0.22
25 10 0.43
ACGTcount: A:0.64, C:0.02, G:0.18, T:0.16
Consensus pattern (23 bp):
AAGAAGTTAAAGAATAAAAGAAT
Found at i:9827581 original size:41 final size:40
Alignment explanation
Indices: 9827520--9827602 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 40
9827510 AGTAAAAGAA
* *
9827520 AATTTTAAAGTCATAGCCTCTGGTTAGAGGAGCA-TTTTC
1 AATTTTAAAGTCATAGCCTCTAGCTAGAGGAGCAGTTTTC
*
9827559 AATTTTAAAGTTTCATAGCCTCTAGCTAGAGGAGTAGTTTTC
1 AATTTTAAAG--TCATAGCCTCTAGCTAGAGGAGCAGTTTTC
9827601 AA
1 AA
9827603 ATGATCTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 10 0.26
41 21 0.55
42 7 0.18
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.36
Consensus pattern (40 bp):
AATTTTAAAGTCATAGCCTCTAGCTAGAGGAGCAGTTTTC
Found at i:9835009 original size:178 final size:175
Alignment explanation
Indices: 9834709--9835047 Score: 488
Period size: 178 Copynumber: 1.9 Consensus size: 175
9834699 TCTTGTGCAG
* * *
9834709 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTCTTTTGAAACTTTAATTTCGAGGAAAAT
1 GAAAAATTGATACTTTCAACTGTTCCCCAAAAATATTCTTTTGAAAATTTAATTTCAAGGAAAAT
9834774 TGATACTTTCAACTTTTCCCTAAAAATTTATTTTTTGAAAATTTATTTTTAAGGAAAATTAATAC
66 TGATACTTTCAACTTTTCCCTAAAAA-TTATTTTTTGAAAATTTATTTTTAAGGAAAATTAATAC
9834839 TTTCAACTTTTT-CCCAAAAATATTTTTTGGAAACTTTGATTTTCGA
130 TTTCAA-TTTTTCCCCAAAAATATTTTTTGGAAACTTTGATTTTCGA
* * * *
9834885 GAAAAATTGATACTTTCAACTGTTCCTCAAAAACCCT-TTTTTTTGAAAATTTATTTTTAAGGAA
1 GAAAAATTGATACTTTCAACTGTTCCCCAAAAA---TATTCTTTTGAAAATTTAATTTCAAGGAA
* *
9834949 AATTGATACTTTCAACTTTT-CCTCAAAAA-TATTTTTTGGAAACTTTGATTTTTGAGGAAAATT
63 AATTGATACTTTCAACTTTTCCCT-AAAAATTATTTTTT-GAAAATTT-ATTTTTAAGGAAAATT
*
9835012 GATACTTTCAATTTTTCCCCAAAAATATTTTTTGGA
125 AATACTTTCAATTTTTCCCCAAAAATATTTTTTGGA
9835048 TTTTATTTAA
Statistics
Matches: 146, Mismatches: 10, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
176 39 0.27
177 15 0.10
178 91 0.62
179 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.43
Consensus pattern (175 bp):
GAAAAATTGATACTTTCAACTGTTCCCCAAAAATATTCTTTTGAAAATTTAATTTCAAGGAAAAT
TGATACTTTCAACTTTTCCCTAAAAATTATTTTTTGAAAATTTATTTTTAAGGAAAATTAATACT
TTCAATTTTTCCCCAAAAATATTTTTTGGAAACTTTGATTTTCGA
Found at i:9835046 original size:59 final size:58
Alignment explanation
Indices: 9834711--9835047 Score: 437
Period size: 59 Copynumber: 5.7 Consensus size: 58
9834701 TTGTGCAGGA
* *
9834711 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTCTTTT-GAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATT-TTTTGGAAACTTTATTTTTGAGG
* * *
9834769 AAAATTGATACTTTCAACTTTTCCCTAAAAATTTATTTTTT-GAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA--TATTTTTTGGAAACTTTATTTTTGAGG
* * * *
9834828 AAAATTAATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAACTTTGATTTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTT-ATTTTTGAGG
* * * * *
9834887 AAAATTGATACTTTCAACTGTTCCTCAAAAACCCT-TTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA---TATTTTTTGGAAACTTTATTTTTGAGG
*
9834947 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTGATTTTTGAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTT-ATTTTTGAGG
*
9835006 AAAATTGATACTTTCAATTTTTCCCCAAAAATATTTTTTGGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGA
9835048 TTTTATTTAA
Statistics
Matches: 243, Mismatches: 27, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
57 9 0.04
58 50 0.21
59 129 0.53
60 41 0.17
61 13 0.05
62 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTATTTTTGAGG
Found at i:9835056 original size:119 final size:116
Alignment explanation
Indices: 9834711--9835045 Score: 496
Period size: 119 Copynumber: 2.9 Consensus size: 116
9834701 TTGTGCAGGA
*
9834711 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTCTTTT-GAAACTTT-AATTTCGAGGAAAAT
1 AAAATTGATACTTTCAACTTTT-CCCAAAAATATT-TTTTGGAAACTTTGATTTTCGAGGAAAAT
* *
9834774 TGATACTTTCAACTTTTCCCTAAAAATTTATTTTTTGAAAATTTATTTTTAAGG
64 TGATACTTTCAACTTTTCCCCAAAAA-CTATTTTTTGAAAATTTATTTTTAAGG
* *
9834828 AAAATTAATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAACTTTGATTTTCGAGAAAAATT
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTGGAAACTTTGATTTTCGAGGAAAATT
* * *
9834893 GATACTTTCAACTGTTCCTCAAAAACCCTTTTTTTTGAAAATTTATTTTTAAGG
65 GATACTTTCAACTTTTCCCCAAAAA--CTATTTTTTGAAAATTTATTTTTAAGG
*
9834947 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTGATTTTTGAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTGGAAACTTTGATTTTCGAGGAAAATT
*
9835012 GATACTTTCAATTTTTCCCCAAAAA-TATTTTTTG
65 GATACTTTCAACTTTTCCCCAAAAACTATTTTTTG
9835046 GATTTTATTT
Statistics
Matches: 197, Mismatches: 16, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
116 12 0.06
117 37 0.19
118 46 0.23
119 102 0.52
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (116 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGGAAACTTTGATTTTCGAGGAAAATTG
ATACTTTCAACTTTTCCCCAAAAACTATTTTTTGAAAATTTATTTTTAAGG
Found at i:9835097 original size:6 final size:6
Alignment explanation
Indices: 9835060--9835142 Score: 70
Period size: 6 Copynumber: 14.5 Consensus size: 6
9835050 TTATTTAAAG
* *
9835060 AAAAT- AAAATA ATAAA-A CAAAATA AAAGTA AAAAT- AAAA-A AAAGT-
1 AAAATA AAAATA A-AAATA -AAAATA AAAATA AAAATA AAAATA AAAATA
* *
9835105 AAAACA AAAATA AAAATA AAAAT- AAAATA AAGATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
9835143 GAACATTAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
5 20 0.32
6 37 0.60
7 5 0.08
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:9835113 original size:21 final size:21
Alignment explanation
Indices: 9835070--9835120 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
9835060 AAAATAAAAT
*
9835070 AATAAAACAAAATAAAAGTAAA
1 AATAAAA-AAAATAAAAGCAAA
9835092 AATAAAAAAAAGTAAAA-CAAA
1 AATAAAAAAAA-TAAAAGCAAA
9835113 AATAAAAA
1 AATAAAAA
9835121 TAAAAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.12
Consensus pattern (21 bp):
AATAAAAAAAATAAAAGCAAA
Found at i:9835125 original size:33 final size:32
Alignment explanation
Indices: 9835060--9835142 Score: 107
Period size: 33 Copynumber: 2.6 Consensus size: 32
9835050 TTATTTAAAG
* *
9835060 AAAAT-AAAATAA-TAAAACAAAATAAAAGTA
1 AAAATAAAAAAAAGTAAAACAAAATAAAAATA
9835090 AAAATAAAAAAAAGTAAAACAAAAATAAAAATA
1 AAAATAAAAAAAAGTAAAAC-AAAATAAAAATA
*
9835123 AAAATAAAATAAAGATAAAA
1 AAAATAAAAAAAAG-TAAAA
9835143 GAACATTAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
30 5 0.11
31 6 0.13
32 6 0.13
33 24 0.52
34 5 0.11
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.14
Consensus pattern (32 bp):
AAAATAAAAAAAAGTAAAACAAAATAAAAATA
Found at i:9835140 original size:17 final size:16
Alignment explanation
Indices: 9835060--9835142 Score: 80
Period size: 17 Copynumber: 4.9 Consensus size: 16
9835050 TTATTTAAAG
*
9835060 AAAATAAAATAATAAAAC
1 AAAATAAAAT-A-AAAAT
9835078 AAAATAAAAGTAAAAAT
1 AAAATAAAA-TAAAAAT
9835095 AAAA-AAAAGTAAAACA-
1 AAAATAAAA-TAAAA-AT
9835111 AAAATAAAAATAAAAAT
1 AAAAT-AAAATAAAAAT
9835128 AAAATAAAGATAAAA
1 AAAATAAA-ATAAAA
9835143 GAACATTAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 13
0.81 0.01 0.18
Matches are distributed among these distances:
16 18 0.31
17 25 0.43
18 14 0.24
19 1 0.02
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.14
Consensus pattern (16 bp):
AAAATAAAATAAAAAT
Found at i:9836024 original size:13 final size:13
Alignment explanation
Indices: 9836006--9836030 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9835996 CGGATAAACC
9836006 AAAAAATAAAAAT
1 AAAAAATAAAAAT
9836019 AAAAAATAAAAA
1 AAAAAATAAAAA
9836031 AAATCATATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:9836076 original size:21 final size:24
Alignment explanation
Indices: 9836031--9836079 Score: 68
Period size: 21 Copynumber: 2.2 Consensus size: 24
9836021 AAAATAAAAA
9836031 AAATCATATGAAAATAAATCAGAT
1 AAATCATATGAAAATAAATCAGAT
*
9836055 AAATCA-A-GAAAATTAA-CAGAT
1 AAATCATATGAAAATAAATCAGAT
9836076 AAAT
1 AAAT
9836080 TAAAATTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 9 0.38
22 8 0.33
23 1 0.04
24 6 0.25
ACGTcount: A:0.61, C:0.08, G:0.08, T:0.22
Consensus pattern (24 bp):
AAATCATATGAAAATAAATCAGAT
Found at i:9836142 original size:3 final size:3
Alignment explanation
Indices: 9836134--9836301 Score: 54
Period size: 3 Copynumber: 55.7 Consensus size: 3
9836124 TTAACAGGAA
*
9836134 AAT AAT AAT AAT AAT AAT AAT AA- AGAT ATAT ACAT ATT AAT AAAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT A-AT AAT AAT -AAT -AAT
* * * * *
9836183 AAAT AAAT ACCT AA- GAT AAA AAT AA- AAGA AAT ATAT ATAT AAAC AAT
1 -AAT -AAT A-AT AAT AAT AAT AAT AAT AA-T AAT A-AT A-AT -AAT AAT
* *
9836230 AAT AAT AAT AAT AAT AAT AA- AA- AAT AGA- AAT -AG AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
*
9836272 AAA AAT AA- AA- AAT AA- AAT AA- AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9836302 AGAAAAAAAA
Statistics
Matches: 129, Mismatches: 19, Indels: 34
0.71 0.10 0.19
Matches are distributed among these distances:
2 20 0.16
3 74 0.57
4 34 0.26
5 1 0.01
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:9836271 original size:17 final size:16
Alignment explanation
Indices: 9836227--9836302 Score: 71
Period size: 17 Copynumber: 4.4 Consensus size: 16
9836217 ATATATAAAC
*
9836227 AATAATAATAATAATAA
1 AATAAAAATAA-AATAA
*
9836244 TAATAAAAAATAGAAATAG
1 -AAT-AAAAATA-AAATAA
9836263 AATAAAAATAAAAATAA
1 AATAAAAAT-AAAATAA
*
9836280 AAAATAAAATAAAATAA
1 AATA-AAAATAAAATAA
9836297 AATAAA
1 AATAAA
9836303 GAAAAAAAAG
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
16 2 0.04
17 24 0.49
18 12 0.24
19 10 0.20
20 1 0.02
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (16 bp):
AATAAAAATAAAATAA
Found at i:9836272 original size:24 final size:24
Alignment explanation
Indices: 9836233--9836311 Score: 74
Period size: 24 Copynumber: 3.3 Consensus size: 24
9836223 AAACAATAAT
*
9836233 AATAATAATAATAATAAAAAATAGA
1 AATAA-AATAAAAATAAAAAATAGA
* *
9836258 AATAGAATAAAAAT-AAAAATAAAA
1 AATAAAATAAAAATAAAAAAT-AGA
9836282 AATAAAAT-AAAATAAAATAA-AGA
1 AATAAAATAAAAATAAAA-AATAGA
*
9836305 AAAAAAA
1 AATAAAA
9836312 GAACATAGAC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
23 19 0.42
24 20 0.44
25 6 0.13
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (24 bp):
AATAAAATAAAAATAAAAAATAGA
Found at i:9836273 original size:30 final size:29
Alignment explanation
Indices: 9836227--9836311 Score: 102
Period size: 30 Copynumber: 2.9 Consensus size: 29
9836217 ATATATAAAC
* *
9836227 AATAATAATAATAATAATAATAAAAAATAGA
1 AATAA-AATAAAAATAAAAATAAAAAATA-A
*
9836258 AATAGAATAAAAATAAAAATAAAAAATAA
1 AATAAAATAAAAATAAAAATAAAAAATAA
9836287 AATAAAAT-AAAATAAAGAA-AAAAAA
1 AATAAAATAAAAATAAA-AATAAAAAA
9836312 GAACATAGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
28 14 0.29
29 10 0.20
30 21 0.43
31 4 0.08
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.19
Consensus pattern (29 bp):
AATAAAATAAAAATAAAAATAAAAAATAA
Found at i:9836306 original size:93 final size:93
Alignment explanation
Indices: 9836134--9836298 Score: 207
Period size: 93 Copynumber: 1.8 Consensus size: 93
9836124 TTAACAGGAA
* * * * ** *
9836134 AATAATAATAATAATAATAATAAAGATATATACATATTAATAAATAAATAAATAAATACCTAAGA
1 AATAATAATAATAATAATAATAAAGAAATAGAAATAATAATAAATAAATAAATAAATAAATAAAA
9836199 TAAAAATAAAAGAAATATATATATAAAC
66 TAAAAATAAAAGAAATATATATATAAAC
9836227 AATAATAATAATAATAATAATAAA-AAATAGAAATAGAATAA-AAAT-AA-AAATAAA-AAATAA
1 AATAATAATAATAATAATAATAAAGAAATAGAAAT--AATAATAAATAAATAAATAAATAAATAA
9836287 AAT-AAAATAAAA
64 AATAAAAATAAAA
9836299 TAAAGAAAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
89 9 0.14
90 6 0.10
91 7 0.11
92 9 0.14
93 28 0.44
94 4 0.06
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (93 bp):
AATAATAATAATAATAATAATAAAGAAATAGAAATAATAATAAATAAATAAATAAATAAATAAAA
TAAAAATAAAAGAAATATATATATAAAC
Found at i:9836310 original size:12 final size:11
Alignment explanation
Indices: 9836248--9836310 Score: 56
Period size: 12 Copynumber: 5.5 Consensus size: 11
9836238 TAATAATAAT
*
9836248 AAAAAATAGAA
1 AAAAAATAAAA
* *
9836259 ATAGAATAAAA
1 AAAAAATAAAA
9836270 ATAAAAATAAAA
1 A-AAAAATAAAA
9836282 AATAAAAT-AAA
1 AA-AAAATAAAA
*
9836293 ATAAAATAAAGA
1 AAAAAATAAA-A
9836305 AAAAAA
1 AAAAAA
9836311 AGAACATAGA
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
10 5 0.12
11 16 0.39
12 20 0.49
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (11 bp):
AAAAAATAAAA
Found at i:9836560 original size:42 final size:42
Alignment explanation
Indices: 9836501--9836631 Score: 183
Period size: 42 Copynumber: 3.1 Consensus size: 42
9836491 TTCGATCAAA
*
9836501 GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAAATAAATG
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAAATAAATT
* * * *
9836543 GCTCCTCTAATCAGAGGCTTAACAACTTTGAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAAATAAATT
* * *
9836585 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAAATAAATT
9836626 GCTCCT
1 GCTCCT
9836632 TAGCAATCAT
Statistics
Matches: 77, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
41 16 0.21
42 61 0.79
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAAATAAATT
Found at i:9837682 original size:10 final size:10
Alignment explanation
Indices: 9837642--9837683 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
9837632 TTTCATTCAC
9837642 TTTTTTC-TT
1 TTTTTTCATT
*
9837651 TTTTTTTATT
1 TTTTTTCATT
9837661 TTTTTTCA--
1 TTTTTTCATT
9837669 TTTTTTCATT
1 TTTTTTCATT
9837679 TTTTT
1 TTTTT
9837684 AAGCATAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 8 0.29
9 6 0.21
10 14 0.50
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTCATT
Found at i:9846424 original size:14 final size:15
Alignment explanation
Indices: 9846394--9846422 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9846384 ACTTTTCCTC
9846394 AAAAATTTATTTTTT
1 AAAAATTTATTTTTT
9846409 AAAAATTTATTTTT
1 AAAAATTTATTTTT
9846423 AAGGAAAATT
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AAAAATTTATTTTTT
Found at i:9846427 original size:59 final size:57
Alignment explanation
Indices: 9846364--9846703 Score: 430
Period size: 59 Copynumber: 5.8 Consensus size: 57
9846354 GTTCTTGTGC
*
9846364 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTAAAAATTTATTTTT
1 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTTGAAAATTTATTTTT
**
9846423 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTGAAAATTTATTTTTT
1 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTA-TTTTT
* * *
9846481 TAGGAAAATTGATACTTTCAACTGTTCCTCAAAAACTTTTTTTTTTTGAAAATTTATTTTT
1 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA----TATTTTTTGAAAATTTATTTTT
*
9846542 AAGGAAAATTGATACTTTCAACTTTTTCCT-AAAAATATTTTTTGAAAACTTTGATTTTC
1 AAGGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTGAAAA-TTT-ATTTTT
* * * * *
9846601 GAGGAAAATTGATGCTTTCAACTTTTCTTTAAAAAAAACTTTTTTGAAAATTTATTTTT
1 AAGGAAAATTGATACTTTCAACTTTTC-CTCAAAAATA-TTTTTTGAAAATTTATTTTT
* * *
9846660 AAAGACAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTG
1 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTG
9846704 GATTTTATTT
Statistics
Matches: 246, Mismatches: 24, Indels: 24
0.84 0.08 0.08
Matches are distributed among these distances:
57 33 0.13
58 52 0.21
59 89 0.36
60 9 0.04
61 42 0.17
62 21 0.09
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (57 bp):
AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTATTTTT
Found at i:9846561 original size:119 final size:118
Alignment explanation
Indices: 9846365--9846703 Score: 470
Period size: 119 Copynumber: 2.9 Consensus size: 118
9846355 TTCTTGTGCA
*
9846365 AGGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTAAAAATTTATTTTTAAGGAAA
1 AGGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTGAAAATTTATTTTTAAGGAAA
** **
9846430 ATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTGAAAA-TTT-ATTTTTTT
66 ATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAACTTTGA-TTTTCG
* *
9846482 AGGAAAATTGATACTTTCAACTGTTCCTCAAAAACTTTTTTTTTTTGAAAATTTATTTTTAAGGA
1 AGGAAAATTGATACTTTCAACTTTTCCTCAAAAA--TTTATTTTTTGAAAATTTATTTTTAAGGA
9846547 AAATTGATACTTTCAACTTTTTCCT-AAAAATATTTTTTGAAAACTTTGATTTTCG
64 AAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTGAAAACTTTGATTTTCG
* * * ** * *
9846602 AGGAAAATTGATGCTTTCAACTTTTCTTTAAAAA-AAACTTTTTTGAAAATTTATTTTTAAAGAC
1 AGGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTA-TTTTTTGAAAATTTATTTTTAAGGAA
*
9846666 AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTG
65 AATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTG
9846704 GATTTTATTT
Statistics
Matches: 198, Mismatches: 17, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
117 39 0.20
118 54 0.27
119 60 0.30
120 44 0.22
121 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (118 bp):
AGGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTGAAAATTTATTTTTAAGGAAA
ATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAACTTTGATTTTCG
Found at i:9846760 original size:16 final size:16
Alignment explanation
Indices: 9846730--9846783 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
9846720 AATAAAATAA
*
9846730 TAAAACAAAATAAAAG
1 TAAAACAAAAAAAAAG
9846746 TGAAAA-AAAAAAAAAG
1 T-AAAACAAAAAAAAAG
*
9846762 TAAAACAAAAATAAAG
1 TAAAACAAAAAAAAAG
9846778 ATAAAA
1 -TAAAA
9846784 GAACATTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
15 4 0.12
16 20 0.61
17 9 0.27
ACGTcount: A:0.78, C:0.04, G:0.07, T:0.11
Consensus pattern (16 bp):
TAAAACAAAAAAAAAG
Found at i:9847688 original size:13 final size:14
Alignment explanation
Indices: 9847665--9847694 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
9847655 CCCACCAGAT
9847665 AAATCAAAAAATAA
1 AAATCAAAAAATAA
9847679 AAAT-AAAAAATAA
1 AAATCAAAAAATAA
9847692 AAA
1 AAA
9847695 AATCAGATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.13
Consensus pattern (14 bp):
AAATCAAAAAATAA
Found at i:9847713 original size:16 final size:15
Alignment explanation
Indices: 9847690--9847728 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
9847680 AATAAAAAAT
9847690 AAAAAAATCAGATAA
1 AAAAAAATCAGATAA
9847705 AAAATAAATCAGATAA
1 AAAA-AAATCAGATAA
9847721 ATAAAAAA
1 A-AAAAAA
9847729 ATTTAACAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.18
16 15 0.68
17 3 0.14
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.15
Consensus pattern (15 bp):
AAAAAAATCAGATAA
Found at i:9847727 original size:21 final size:21
Alignment explanation
Indices: 9847703--9847748 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
9847693 AAAATCAGAT
9847703 AAAAAA-TAAATCAGATAAATA
1 AAAAAATTAAA-CAGATAAATA
* *
9847724 AAAAAATTTAACAGATAAATT
1 AAAAAATTAAACAGATAAATA
9847745 AAAA
1 AAAA
9847749 TTAAATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (21 bp):
AAAAAATTAAACAGATAAATA
Found at i:9847728 original size:20 final size:20
Alignment explanation
Indices: 9847665--9847712 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
9847655 CCCACCAGAT
* *
9847665 AAATCAAAAAATAAAAATAAA
1 AAATAAAAAAAT-CAAATAAA
*
9847686 AAATAAAAAAATCAGATAAA
1 AAATAAAAAAATCAAATAAA
9847706 AAATAAA
1 AAATAAA
9847713 TCAGATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.79, C:0.04, G:0.02, T:0.15
Consensus pattern (20 bp):
AAATAAAAAAATCAAATAAA
Found at i:9847808 original size:3 final size:3
Alignment explanation
Indices: 9847800--9847956 Score: 65
Period size: 3 Copynumber: 50.7 Consensus size: 3
9847790 AACAGGAAAA
*
9847800 AAT AAT AAT AAT AAT AAT AA- AGAT ATAT ACAT ATT AAT AAAT AACT
1 AAT AAT AAT AAT AAT AAT AAT A-AT A-AT A-AT AAT AAT -AAT AA-T
* * * * * *
9847846 AAAT ACCT AA- GAT AAA AAT AA- AAG AAA AAT ATAT ATAT AAAC AAT
1 -AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT -AAT AAT
* *
9847891 AAT AAT AAT AAT AAT AAT AAT AAT AAT AGA- AAT -AG AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
* * *
9847935 AAA AAA AAT AAA AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
9847957 AGAAAAAAAA
Statistics
Matches: 118, Mismatches: 22, Indels: 28
0.70 0.13 0.17
Matches are distributed among these distances:
2 8 0.07
3 85 0.72
4 22 0.19
5 3 0.03
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:9847936 original size:26 final size:26
Alignment explanation
Indices: 9847859--9847966 Score: 85
Period size: 26 Copynumber: 4.2 Consensus size: 26
9847849 TACCTAAGAT
* * *
9847859 AAAAATAAAAGA-AAAATATATATATA
1 AAAAATAAAA-ATAAAATAAAAATAAA
* * * *
9847885 AACAATAATAATAATAATAATAATAAT
1 AAAAATAAAAATAA-AATAAAAATAAA
* * *
9847912 AATAATAGAAATAGAATAAAAATAAA
1 AAAAATAAAAATAAAATAAAAATAAA
*
9847938 AAAAATAAAAATAAAATAAAGA-AAA
1 AAAAATAAAAATAAAATAAAAATAAA
9847963 AAAA
1 AAAA
9847967 GAACATAGAC
Statistics
Matches: 63, Mismatches: 17, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
25 8 0.13
26 38 0.60
27 17 0.27
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.20
Consensus pattern (26 bp):
AAAAATAAAAATAAAATAAAAATAAA
Found at i:9847943 original size:20 final size:19
Alignment explanation
Indices: 9847888--9847963 Score: 55
Period size: 20 Copynumber: 3.9 Consensus size: 19
9847878 ATATATAAAC
* * *
9847888 AATAATAATAATAATAAT-
1 AATAAAAATAAAAAAAATA
* * *
9847906 AATAATAATAATAGAAATA
1 AATAAAAATAAAAAAAATA
9847925 GAATAAAAATAAAAAAAATA
1 -AATAAAAATAAAAAAAATA
*
9847945 AAAATAAAATAAAGAAAAA
1 AATA-AAAATAAA-AAAAA
9847964 AAAGAACATA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
18 16 0.33
19 3 0.06
20 24 0.50
21 5 0.10
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAAAAATA
Found at i:9859935 original size:13 final size:15
Alignment explanation
Indices: 9859908--9859939 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
9859898 GGCCCAAAAG
9859908 TTTTCTTTATCTATT
1 TTTTCTTTATCTATT
9859923 TTTTCTTT-T-TATT
1 TTTTCTTTATCTATT
9859936 TTTT
1 TTTT
9859940 TATTTAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 1 0.06
15 8 0.47
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTCTTTATCTATT
Found at i:9860907 original size:24 final size:23
Alignment explanation
Indices: 9860880--9860925 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
9860870 TGGACCACTG
*
9860880 AATTTATTTTTATTTTCTTTTTTA
1 AATTTATTTGT-TTTTCTTTTTTA
*
9860904 AATTTCTTTGTTTTTCTTTTTT
1 AATTTATTTGTTTTTCTTTTTT
9860926 TTTTTTTGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (23 bp):
AATTTATTTGTTTTTCTTTTTTA
Found at i:9879810 original size:21 final size:18
Alignment explanation
Indices: 9879779--9879817 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 18
9879769 ACCAGAGGAT
9879779 AAAAAAAAAATTTAAGAAC
1 AAAAAAAAAA-TTAAGAAC
9879798 AAAAAACAGAAATTAAGAAC
1 AAAAAA-A-AAATTAAGAAC
9879818 TTACAATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 9 0.50
21 3 0.17
ACGTcount: A:0.72, C:0.08, G:0.08, T:0.13
Consensus pattern (18 bp):
AAAAAAAAAATTAAGAAC
Found at i:9880677 original size:33 final size:35
Alignment explanation
Indices: 9880640--9880715 Score: 104
Period size: 33 Copynumber: 2.3 Consensus size: 35
9880630 AAACTTAAGG
*
9880640 AAATGCAAAAT-TGTAAGATTTTAAA-ACTTACAA
1 AAATGCAAAATCCGTAAGATTTTAAAGACTTACAA
* *
9880673 AAATG-AAAATCCGTAAGCTTTTAAAGGCTTACAA
1 AAATGCAAAATCCGTAAGATTTTAAAGACTTACAA
9880707 AAATGCAAA
1 AAATGCAAA
9880716 CACATAAGCC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 5 0.14
33 17 0.46
34 12 0.32
35 3 0.08
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (35 bp):
AAATGCAAAATCCGTAAGATTTTAAAGACTTACAA
Found at i:9880724 original size:34 final size:33
Alignment explanation
Indices: 9880612--9880724 Score: 88
Period size: 33 Copynumber: 3.4 Consensus size: 33
9880602 AGGAAAATTC
* *
9880612 AAATCCATAAGCTCTTAAAAACTTA-AGGAAATGCA
1 AAATCCATAAGCT-TTTAAAACTTACA-AAAATG-A
** *
9880647 AAAT-TGTAAGATTTTAAAACTTACAAAAATGA
1 AAATCCATAAGCTTTTAAAACTTACAAAAATGA
* * *
9880679 AAATCCGTAAGCTTTTAAAGGCTTACAAAAATGC
1 AAATCCATAAGCTTTTAAA-ACTTACAAAAATGA
9880713 AAA-CACATAAGC
1 AAATC-CATAAGC
9880725 CTCTAAAAGT
Statistics
Matches: 64, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
32 5 0.08
33 28 0.44
34 27 0.42
35 4 0.06
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.25
Consensus pattern (33 bp):
AAATCCATAAGCTTTTAAAACTTACAAAAATGA
Found at i:9883293 original size:4 final size:4
Alignment explanation
Indices: 9883286--9883345 Score: 54
Period size: 4 Copynumber: 15.2 Consensus size: 4
9883276 TAATTATGAT
* * *
9883286 ATTA ATTA TTTA CTTA ATTA ATTTA ATT- ATTAA ATAA ATT- ATTA ATT-
1 ATTA ATTA ATTA ATTA ATTA A-TTA ATTA ATT-A ATTA ATTA ATTA ATTA
9883333 ATTA ATTA ATTA A
1 ATTA ATTA ATTA A
9883346 AGTTATTACT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
3 9 0.20
4 31 0.67
5 6 0.13
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:9883329 original size:24 final size:24
Alignment explanation
Indices: 9883314--9883360 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
9883304 TAATTTAATT
9883314 ATTAAATAAA-TTATTAATTATTA
1 ATTAAATAAAGTTATTAATTATTA
* *
9883337 ATTAATTAAAGTTATTACTTATTA
1 ATTAAATAAAGTTATTAATTATTA
9883361 TAATGATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (24 bp):
ATTAAATAAAGTTATTAATTATTA
Found at i:9883609 original size:30 final size:27
Alignment explanation
Indices: 9883575--9883639 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
9883565 AAGTTAATTA
9883575 TAATTTATGAAATTATGATTAATTATTAT-C
1 TAATTTATGAAA-TA--ATT-ATTATTATAC
*
9883605 TAATTTAATTAAATAATTATTATTATAC
1 TAATTT-ATGAAATAATTATTATTATAC
9883633 TAATTTA
1 TAATTTA
9883640 ATTATTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
27 9 0.28
28 10 0.31
30 8 0.25
31 5 0.16
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (27 bp):
TAATTTATGAAATAATTATTATTATAC
Found at i:9883667 original size:25 final size:25
Alignment explanation
Indices: 9883592--9883682 Score: 84
Period size: 24 Copynumber: 3.7 Consensus size: 25
9883582 TGAAATTATG
9883592 ATTAATTATTATCTAATT--TAAT-TA
1 ATTAATTATTAT-T-ATTAATAATCTA
* * *
9883616 AATAATTATTATTA-TACTAATTTA
1 ATTAATTATTATTATTAATAATCTA
*
9883640 ATTATTTATTGA-TATTAATAATCTA
1 ATTAATTATT-ATTATTAATAATCTA
9883665 ATTAATTATTATTATTAA
1 ATTAATTATTATTATTAA
9883683 CATGGATGTG
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
21 1 0.02
22 1 0.02
23 5 0.09
24 24 0.44
25 24 0.44
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (25 bp):
ATTAATTATTATTATTAATAATCTA
Found at i:9890819 original size:30 final size:30
Alignment explanation
Indices: 9890780--9890865 Score: 91
Period size: 30 Copynumber: 2.9 Consensus size: 30
9890770 ATTTTATTTT
* *
9890780 ATCTAAATAAACTTTTAATTTTTACTTTAC
1 ATCTAAATAAACTTTTAAATTTTAATTTAC
* * **
9890810 ATTTAAATAAATTTTTAAATTTTAATTTGT
1 ATCTAAATAAACTTTTAAATTTTAATTTAC
* **
9890840 ATCCAAATAAACTTTTATCTTTTAAT
1 ATCTAAATAAACTTTTAAATTTTAAT
9890866 ATATATATAT
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.51
Consensus pattern (30 bp):
ATCTAAATAAACTTTTAAATTTTAATTTAC
Found at i:9893618 original size:21 final size:21
Alignment explanation
Indices: 9893594--9893665 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 21
9893584 TTTTAGTGAC
9893594 GATGATTATGATGATGACTTG
1 GATGATTATGATGATGACTTG
* *
9893615 GATGATGATTATGAT--CTTG
1 GATGATTATGATGATGACTTG
*
9893634 ATGATGATGAATATGATGATGAGTTG
1 --GATGAT---TATGATGATGACTTG
9893660 GATGAT
1 GATGAT
9893666 CCTCACCATC
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
19 4 0.10
21 19 0.49
24 13 0.33
26 3 0.08
ACGTcount: A:0.31, C:0.03, G:0.29, T:0.38
Consensus pattern (21 bp):
GATGATTATGATGATGACTTG
Found at i:9895537 original size:13 final size:13
Alignment explanation
Indices: 9895519--9895552 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
9895509 TATTTAAATT
9895519 ATATAAAATTTTA
1 ATATAAAATTTTA
*
9895532 ATATAATATTTTA
1 ATATAAAATTTTA
9895545 ATTATAAA
1 A-TATAAA
9895553 TATATTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATAAAATTTTA
Found at i:9895549 original size:29 final size:31
Alignment explanation
Indices: 9895508--9895573 Score: 84
Period size: 29 Copynumber: 2.2 Consensus size: 31
9895498 ATTTTCTGTG
9895508 ATATTTAAATTATATAA-A-ATT-TTAATATA
1 ATATTTAAATTATA-AATATATTATTAATATA
*
9895537 ATATTTTAATTATAAATATATTAATTAATATA
1 ATATTTAAATTATAAATATATT-ATTAATATA
9895569 ATATT
1 ATATT
9895574 CACTTTTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
28 2 0.06
29 14 0.44
30 3 0.09
32 13 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (31 bp):
ATATTTAAATTATAAATATATTATTAATATA
Found at i:9895554 original size:15 final size:16
Alignment explanation
Indices: 9895508--9895573 Score: 68
Period size: 15 Copynumber: 4.3 Consensus size: 16
9895498 ATTTTCTGTG
*
9895508 ATATTTAAATTATATA
1 ATATTTTAATTATATA
*
9895524 AAATTTT-A--ATATA
1 ATATTTTAATTATATA
9895537 ATATTTTAATTATA-A
1 ATATTTTAATTATATA
*
9895552 ATATATTAATTAATATA
1 ATATTTTAATT-ATATA
9895569 ATATT
1 ATATT
9895574 CACTTTTAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
15 12 0.30
16 11 0.28
17 5 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATTTTAATTATATA
Found at i:9898783 original size:26 final size:27
Alignment explanation
Indices: 9898754--9898811 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
9898744 ACCCGAATAA
* *
9898754 GATAGGA-GTGAGTATTACATTATGAG
1 GATAGGATATGAGTATTACATCATGAG
* *
9898780 GATA-GATATGAGTATTATATCGTGAG
1 GATAGGATATGAGTATTACATCATGAG
9898806 GATAGG
1 GATAGG
9898812 TGCGGATATG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 2 0.08
26 23 0.88
27 1 0.04
ACGTcount: A:0.34, C:0.03, G:0.31, T:0.31
Consensus pattern (27 bp):
GATAGGATATGAGTATTACATCATGAG
Found at i:9901413 original size:2 final size:2
Alignment explanation
Indices: 9901406--9901434 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9901396 AGTAAGGGAC
9901406 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9901435 GTAAAATAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9912153 original size:31 final size:31
Alignment explanation
Indices: 9912115--9912211 Score: 110
Period size: 31 Copynumber: 3.1 Consensus size: 31
9912105 ACAATAATTA
9912115 CAAACATTTTAAGGTTTAGATAACATGAAAT
1 CAAACATTTTAAGGTTTAGATAACATGAAAT
* * * *
9912146 CAAACATTTCAAGGTTTACTTGGTAAAAT--TA-
1 CAAACATTTTAAGGTTTA---GATAACATGAAAT
9912177 CAAACATTTTAAGGTTTAGATAACATGAAAT
1 CAAACATTTTAAGGTTTAGATAACATGAAAT
9912208 CAAA
1 CAAA
9912212 TCAGTACCAT
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
28 6 0.12
30 1 0.02
31 38 0.73
32 1 0.02
34 6 0.12
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.32
Consensus pattern (31 bp):
CAAACATTTTAAGGTTTAGATAACATGAAAT
Found at i:9917821 original size:12 final size:12
Alignment explanation
Indices: 9917794--9917833 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
9917784 TAATGTCTTT
* *
9917794 ATATTTAATAAT
1 ATATTTAACAAC
9917806 ATATTTAACAAC
1 ATATTTAACAAC
9917818 ATATATTAACAAC
1 ATAT-TTAACAAC
9917831 ATA
1 ATA
9917834 CATGATAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (12 bp):
ATATTTAACAAC
Found at i:9917828 original size:13 final size:14
Alignment explanation
Indices: 9917804--9917833 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
9917794 ATATTTAATA
9917804 ATATATTTAACAAC
1 ATATATTTAACAAC
9917818 ATATA-TTAACAAC
1 ATATATTTAACAAC
9917831 ATA
1 ATA
9917834 CATGATAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (14 bp):
ATATATTTAACAAC
Found at i:9917952 original size:13 final size:13
Alignment explanation
Indices: 9917934--9917966 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
9917924 GGAATGTCAC
*
9917934 AAATAAAATAGTT
1 AAATAAAACAGTT
9917947 AAATAAAACAGTT
1 AAATAAAACAGTT
9917960 AAATAAA
1 AAATAAA
9917967 TTGATGATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.24
Consensus pattern (13 bp):
AAATAAAACAGTT
Found at i:9922570 original size:28 final size:29
Alignment explanation
Indices: 9922509--9922570 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
9922499 ACATACATTT
*
9922509 ACAT-TTAAATTACTTATTTATTTATTTA
1 ACATGTTAAATTACTTATTTATTTATGTA
* *
9922537 ACATGTTAAATTATTTCTTT-TTTATGTA
1 ACATGTTAAATTACTTATTTATTTATGTA
*
9922565 ATATGT
1 ACATGT
9922571 AATGGTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 16 0.55
29 13 0.45
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.56
Consensus pattern (29 bp):
ACATGTTAAATTACTTATTTATTTATGTA
Found at i:9924432 original size:30 final size:30
Alignment explanation
Indices: 9924398--9924455 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
9924388 TTATGACATC
9924398 TACATGTTGATTTATATCTTTAATTTAATT
1 TACATGTTGATTTATATCTTTAATTTAATT
9924428 TACATGTTGATTTATATCTTTAATTTAA
1 TACATGTTGATTTATATCTTTAATTTAA
9924456 GTGAAAATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (30 bp):
TACATGTTGATTTATATCTTTAATTTAATT
Found at i:9926425 original size:2 final size:2
Alignment explanation
Indices: 9926418--9926448 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9926408 TTCTTTTTCA
9926418 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9926449 GGGATCAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9930610 original size:2 final size:2
Alignment explanation
Indices: 9930605--9930630 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9930595 ATGTTTTTTA
9930605 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
9930631 TCTTTTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9931595 original size:3 final size:3
Alignment explanation
Indices: 9931580--9931630 Score: 84
Period size: 3 Copynumber: 16.7 Consensus size: 3
9931570 ATCTCTTTCA
*
9931580 TTG TTG TTA TTG TTG TTG TTG TTG TTG TTG TTTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG -TTG TTG TTG TTG TTG
9931626 TTG TT
1 TTG TT
9931631 ATTATTATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.02, C:0.00, G:0.29, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:9931635 original size:3 final size:3
Alignment explanation
Indices: 9931629--9931661 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
9931619 GTTGTTGTTG
9931629 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9931662 AATCATTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:9932269 original size:6 final size:7
Alignment explanation
Indices: 9932252--9932277 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9932242 TACATTTTTA
9932252 AAAAAAT
1 AAAAAAT
9932259 AAAAAAT
1 AAAAAAT
9932266 AAAAAAT
1 AAAAAAT
9932273 AAAAA
1 AAAAA
9932278 CAAAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:9935647 original size:22 final size:22
Alignment explanation
Indices: 9935605--9935647 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
9935595 ATTATAAGAT
**
9935605 ATGTATGTATGAAATGTAATGC
1 ATGTATGTATGAAATCCAATGC
9935627 ATGTAT-TATGCAAATCCAATG
1 ATGTATGTATG-AAATCCAATG
9935648 AAATTGACAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (22 bp):
ATGTATGTATGAAATCCAATGC
Found at i:9936962 original size:21 final size:21
Alignment explanation
Indices: 9936923--9936962 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9936913 AAAACTATTT
* *
9936923 TAAAAGATAATTTTAGGTTTG
1 TAAAAAATAATGTTAGGTTTG
*
9936944 TAAAAAATAATGTTGGGTT
1 TAAAAAATAATGTTAGGTT
9936963 CAACAATATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (21 bp):
TAAAAAATAATGTTAGGTTTG
Found at i:9937526 original size:15 final size:15
Alignment explanation
Indices: 9937506--9937539 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
9937496 TTTTATTCCA
9937506 TTATTTTCAAATTTT
1 TTATTTTCAAATTTT
* *
9937521 TTATTTTTATATTTT
1 TTATTTTCAAATTTT
9937536 TTAT
1 TTAT
9937540 CATTCTTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (15 bp):
TTATTTTCAAATTTT
Found at i:9938346 original size:33 final size:34
Alignment explanation
Indices: 9938304--9938369 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
9938294 CGACCTAAAT
*
9938304 TCTTGCAAAAT-TTTCATTTTTGCTAATATGAAG
1 TCTTGCAAAATCTTTCATTTTTGCAAATATGAAG
*
9938337 TCTTGCAAAATCTTTCATTTTTGCAAATTTGAA
1 TCTTGCAAAATCTTTCATTTTTGCAAATATGAA
9938370 AATTCTTGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 11 0.37
34 19 0.63
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (34 bp):
TCTTGCAAAATCTTTCATTTTTGCAAATATGAAG
Found at i:9938412 original size:18 final size:18
Alignment explanation
Indices: 9938391--9938473 Score: 55
Period size: 17 Copynumber: 4.7 Consensus size: 18
9938381 ATATGAAACT
*
9938391 TTTGTGAAACTTGGAACC
1 TTTGCGAAACTTGGAACC
*
9938409 TTTGCG-AATTTGGAA-C
1 TTTGCGAAACTTGGAACC
* * *
9938425 TTCTGCAAAAGTTGGAATC
1 TT-TGCGAAACTTGGAACC
* *
9938444 TTTGCG-AATTTAGAACC
1 TTTGCGAAACTTGGAACC
* *
9938461 TCTGTGAAACTTG
1 TTTGCGAAACTTG
9938474 AAATCCTTGT
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
16 3 0.06
17 23 0.47
18 20 0.41
19 3 0.06
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.35
Consensus pattern (18 bp):
TTTGCGAAACTTGGAACC
Found at i:9938423 original size:17 final size:17
Alignment explanation
Indices: 9938401--9938461 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
9938391 TTTGTGAAAC
9938401 TTGGAACCTTTGCGAAT
1 TTGGAACCTTTGCGAAT
* *
9938418 TTGGAA-CTTCTGCAAAAG
1 TTGGAACCTT-TGC-GAAT
*
9938436 TTGGAATCTTTGCGAAT
1 TTGGAACCTTTGCGAAT
*
9938453 TTAGAACCT
1 TTGGAACCT
9938462 CTGTGAAACT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
16 3 0.09
17 18 0.51
18 11 0.31
19 3 0.09
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.34
Consensus pattern (17 bp):
TTGGAACCTTTGCGAAT
Found at i:9938426 original size:35 final size:35
Alignment explanation
Indices: 9938387--9938473 Score: 111
Period size: 35 Copynumber: 2.5 Consensus size: 35
9938377 GGAAATATGA
* *
9938387 AACTTTTGTGAAACTTGGAACCTTTGCGAATTTGG
1 AACTTCTGTGAAACTTGGAACCTTTGCGAATTTAG
** * *
9938422 AACTTCTGCAAAAGTTGGAATCTTTGCGAATTTAG
1 AACTTCTGTGAAACTTGGAACCTTTGCGAATTTAG
*
9938457 AACCTCTGTGAAACTTG
1 AACTTCTGTGAAACTTG
9938474 AAATCCTTGT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (35 bp):
AACTTCTGTGAAACTTGGAACCTTTGCGAATTTAG
Found at i:9940205 original size:23 final size:24
Alignment explanation
Indices: 9940176--9940232 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
9940166 CTTATTTTAT
9940176 TTTTCTATTTTTTATA-TATAATA
1 TTTTCTATTTTTTATAGTATAATA
* *
9940199 TTTTCTA-TATTTATAGTTTAATA
1 TTTTCTATTTTTTATAGTATAATA
9940222 TTTAT-TATTTT
1 TTT-TCTATTTT
9940233 AAATGGTGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 7 0.25
23 18 0.64
24 3 0.11
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTTCTATTTTTTATAGTATAATA
Found at i:9940356 original size:19 final size:18
Alignment explanation
Indices: 9940332--9940426 Score: 91
Period size: 19 Copynumber: 4.9 Consensus size: 18
9940322 GAATTTAATA
9940332 TATTAATTGCATGATATTT
1 TATT-ATTGCATGATATTT
9940351 TATTAATTGCATGATAGTTT
1 TATT-ATTGCATGATA-TTT
* *
9940371 ATATTATTGTATGATGATAT
1 -TATTATTGCATGAT-ATTT
* *
9940391 TATTCTCGCATGATTATTAT
1 TATTATTGCATGA-TATT-T
9940411 TATTATTGCATGATAT
1 TATTATTGCATGATAT
9940427 AATACATTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
19 31 0.49
20 27 0.43
21 5 0.08
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.51
Consensus pattern (18 bp):
TATTATTGCATGATATTT
Found at i:9940451 original size:59 final size:58
Alignment explanation
Indices: 9940340--9940452 Score: 133
Period size: 59 Copynumber: 1.9 Consensus size: 58
9940330 TATATTAATT
* * *
9940340 GCATGATATTTTATTAATTGCATGATAGTTTATATTATTGTATGATGATATTATTCTC
1 GCATGATATTTTATTAATTGCATGATAGTATACATTATTATATGATGATATTATTCTC
*
9940398 GCATGATTATTATTATT-ATTGCATGATA-TAATACATTATTAT-TGCATGGTATTAT
1 GCATGA-TATT-TTATTAATTGCATGATAGT-ATACATTATTATATG-ATGATATTAT
9940453 GTGCATGATT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
58 9 0.19
59 33 0.70
60 5 0.11
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.49
Consensus pattern (58 bp):
GCATGATATTTTATTAATTGCATGATAGTATACATTATTATATGATGATATTATTCTC
Found at i:9943883 original size:23 final size:26
Alignment explanation
Indices: 9943857--9943903 Score: 64
Period size: 23 Copynumber: 1.9 Consensus size: 26
9943847 ATTTAAAACT
9943857 TTATATTTT-ATTTA-AAT-AAATCA
1 TTATATTTTAATTTACAATCAAATCA
*
9943880 TTATTTTTTAATTTACAATCAAAT
1 TTATATTTTAATTTACAATCAAAT
9943904 AAGTTAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 8 0.40
24 5 0.25
25 3 0.15
26 4 0.20
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.53
Consensus pattern (26 bp):
TTATATTTTAATTTACAATCAAATCA
Done.