Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008103.1 Hibiscus syriacus cultivar Beakdansim tig00110633_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1996589
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 11
Found at i:723158 original size:64 final size:60
Alignment explanation
Indices: 723078--723202 Score: 196
Period size: 64 Copynumber: 2.0 Consensus size: 60
723068 ATGTTATATC
* *
723078 ATTTAACTGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 ATTTAACCGGAAATATTATCAAGTAAAATAACATATTA---A-CGCTTATATAATGTAATAGGT
723142 ATTTAACCGGAAATATTATCAAGTAAAATAACATATTAACGCTTATATAATGTAATAGGT
1 ATTTAACCGGAAATATTATCAAGTAAAATAACATATTAACGCTTATATAATGTAATAGGT
723202 A
1 A
723203 GCGCTTATAT
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
60 22 0.37
61 1 0.02
64 36 0.61
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.34
Consensus pattern (60 bp):
ATTTAACCGGAAATATTATCAAGTAAAATAACATATTAACGCTTATATAATGTAATAGGT
Found at i:723211 original size:23 final size:24
Alignment explanation
Indices: 723181--723236 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
723171 AACATATTAA
723181 CGCTTATATAATGTA-ATAGGTAG
1 CGCTTATATAATGTACATAGGTAG
*
723204 CGCTTATATAATGTACCTAGGTAG
1 CGCTTATATAATGTACATAGGTAG
723228 CGCTTATAT
1 CGCTTATAT
723237 TAATAGGTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 15 0.48
24 16 0.52
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (24 bp):
CGCTTATATAATGTACATAGGTAG
Found at i:723718 original size:200 final size:198
Alignment explanation
Indices: 723266--723730 Score: 668
Period size: 200 Copynumber: 2.3 Consensus size: 198
723256 TTTTCTAACT
*
723266 AAACCGGTATA-TTATACCGGTAACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
1 AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
*
723330 TGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTCATTGGGCATTC
66 TGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTCATTAGGCATTC
*
723395 ATTCTGGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTAAACCTATTTTCTC
131 ATTCTGGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTAAACCTATTCTCTC
723460 ATA
196 ATA
* * *
723463 AAACTGGTATATTTCTACCGAG-TACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCG
1 AAACCGGTATATTTATACCG-GTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCG
* *
723527 ATGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTAGGCA
65 ATGTTTTTGGGATCGATACAATTT--TAAATGTATCGACACTTTATGCGTGCACCTCATTAGGCA
* *** ** * * ** *
723591 TTCATTTTGGAAAAAATGTATCGACAC-TTTTTAAATTTGTTTGGATACATTATGTTGACTTATT
128 TTCATTCTGGAAAAAA-GTATCGACACAAACTTAAA-ACGTGTCGATACATTATGTAAACCTATT
723655 CTCTCATA
191 CTCTCATA
* *
723663 AAACCGGTATATTTATACCGGTTACATTGTAAATTTACATATTATATTATAATTATCGGTTTCGA
1 AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
723728 TGT
66 TGT
723731 AACATATGTG
Statistics
Matches: 237, Mismatches: 24, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
197 13 0.05
198 66 0.28
199 59 0.25
200 99 0.42
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (198 bp):
AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
TGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTCATTAGGCATTC
ATTCTGGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTAAACCTATTCTCTC
ATA
Found at i:723872 original size:31 final size:30
Alignment explanation
Indices: 723831--723924 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
723821 TTATAATAAA
*
723831 TAAT-AAATATAATTTATAATAATTTTGTT-T
1 TAATAAAATATAA-TAATAATAATTTT-TTAT
*
723861 TAATAAAATATAATAATCATAATTTTTTAT
1 TAATAAAATATAATAATAATAATTTTTTAT
* * *
723891 TTATAAAAT-T-ATAGAT-ATAATATTTTAA
1 TAATAAAATATAATA-ATAATAATTTTTTAT
723919 TAATAA
1 TAATAA
723925 TATTGACATA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
28 18 0.33
29 5 0.09
30 24 0.44
31 8 0.15
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (30 bp):
TAATAAAATATAATAATAATAATTTTTTAT
Found at i:723924 original size:28 final size:30
Alignment explanation
Indices: 723861--723924 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 30
723851 AATTTTGTTT
* *
723861 TAATAAAATATAATAATCATAATTTTTTAT
1 TAATAAAATATAATAATCATAATATTTTAA
*
723891 TTATAAAAT-T-ATAGAT-ATAATATTTTAA
1 TAATAAAATATAATA-ATCATAATATTTTAA
723919 TAATAA
1 TAATAA
723925 TATTGACATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 18 0.62
29 3 0.10
30 8 0.28
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (30 bp):
TAATAAAATATAATAATCATAATATTTTAA
Found at i:724640 original size:42 final size:43
Alignment explanation
Indices: 724572--724655 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 43
724562 CTCTCCTTAT
* * *
724572 AATATAATTAATGATATATTATTTTTATTATAATA-AATAATA
1 AATATAATTAATAATATATTATTTTTAATAAAATATAATAATA
* *
724614 AATATAATTTATAATA-ATTTTATTTTAATAAAATATAATAAT
1 AATATAATTAATAATATATTAT-TTTTAATAAAATATAATAAT
724656 CATAATTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.11
42 25 0.71
43 6 0.17
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (43 bp):
AATATAATTAATAATATATTATTTTTAATAAAATATAATAATA
Found at i:724643 original size:30 final size:31
Alignment explanation
Indices: 724609--724693 Score: 83
Period size: 30 Copynumber: 2.8 Consensus size: 31
724599 TTATAATAAA
*
724609 TAAT-AAATATAATTTATAATAA-TTTTATTT
1 TAATAAAATATAA-TAATAATAATTTTTATTT
*
724639 TAATAAAATATAATAATCATAATTTTTA-TT
1 TAATAAAATATAATAATAATAATTTTTATTT
724669 T-ATAAAATTATAGAT-ATAAT-ATTTT
1 TAATAAAA-TATA-ATAATAATAATTTT
724694 AATAATAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
29 11 0.23
30 22 0.46
31 15 0.31
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (31 bp):
TAATAAAATATAATAATAATAATTTTTATTT
Found at i:724701 original size:14 final size:14
Alignment explanation
Indices: 724620--724705 Score: 52
Period size: 14 Copynumber: 6.2 Consensus size: 14
724610 AATAAATATA
**
724620 ATTTATAATAATTTT
1 ATTT-TAATAATAAT
724635 ATTTTAATAA-AAT
1 ATTTTAATAATAAT
** *
724648 ATAATAATCATAAT
1 ATTTTAATAATAAT
* * *
724662 -TTTTATTTATAAA
1 ATTTTAATAATAAT
*
724675 ATTATAGAT-ATAAT
1 ATTTTA-ATAATAAT
724689 ATTTTAATAATAAT
1 ATTTTAATAATAAT
724703 ATT
1 ATT
724706 GAGATAAATA
Statistics
Matches: 53, Mismatches: 14, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
13 18 0.34
14 30 0.57
15 5 0.09
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (14 bp):
ATTTTAATAATAAT
Found at i:724772 original size:24 final size:25
Alignment explanation
Indices: 724720--724781 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 25
724710 TAAATAATAT
724720 TAAATAAT-TTATTATAATATTTTAA
1 TAAATAATATTATTAT-ATATTTTAA
724745 -AAATAATATTATTAT-T-TTGTTAA
1 TAAATAATATTATTATATATT-TTAA
724768 TAAATAATATTATT
1 TAAATAATATTATT
724782 TTATTATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
22 2 0.06
23 5 0.15
24 20 0.59
25 7 0.21
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAAATAATATTATTATATATTTTAA
Found at i:725318 original size:770 final size:771
Alignment explanation
Indices: 723676--726626 Score: 4208
Period size: 774 Copynumber: 3.8 Consensus size: 771
723666 CCGGTATATT
* *
723676 TATACCGGTTACATTGTAAATTTACATATTATATTATAATTATCGGTTTCGATGTAACATATGTG
1 TATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACATATGTG
* *
723741 TCGATACTTTTAGAAAATATATCGACACATATGTTTAACTATTCTCTCATTATAATATAATTAAT
66 TCGATACTTTTAGAAAATGTATCGACACATATATTTAACTATTCTCTCATTATAATATAATTAAT
*
723806 GATATATTATTCTTATTATAATAAATAATAAATATAATTTATAATAATTTTGTTTTAATAAAATA
131 GATATATTATTCTTATTATAATAAATAATAAATATAATTTATAATAATTTTATTTTAATAAAATA
723871 TAATAATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATAATAATATTGACATAA
196 TAATAATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATAATAATATTGACATAA
*
723936 ATAATATTAAATAATTTATTCTAATATTTAACAAAATAATATTATTATTTTGTTAATAAATAATA
261 ATAATATTAAATAAATTATTCTAATATTTAA-AAAATAATATTATTATTTTGTTAATAAATAATA
*
724001 TTATTTTATTATATTTGATGTTTATAATTATATTGTAATTATGATTATTTTTCATCACTTCATTA
325 TTATTTTATTATATTTGATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCACTTCATTA
* * *
724066 TGATTTTTTTTAAATTATATTGTAATTATACATAA-----T-TTTT-TTATTAGAAAGCTAATAT
390 TGATTTTTTTAAAATTATATTGTAATTATATATAATTTTTTATTTTATTATTAGAAAACTAATAT
* * * *
724124 CGAAATAGAAATACCGT-CCTTTTTTTCAA-TAGTTATATTGTGGCAACTTACAAACTAAAAAAA
455 CAAAATAGAAATACCGTATCTTTTTTTTAATTAGTTATATTGTGACAACTTACAAACT-AAAAAA
724187 TTAAAATTAATTTGTATAATTTGTGTTTACTAATTTTATCATTAAAAAGTCTATTTTTACCGGTT
519 TT-AAA-TAA--T-TATAATTTGTG-----T--TTTTATCATTAAAAAGTCTATTTTTACCGGTT
* * * *
724252 TTGTTATTGTTTGGCATAACAAAATCGGTAAAAATTACCTAAAATATTATTATTTCTACCTAAAA
572 TTGTTATTGTTGGGCATAACAAAACCGGTAAAAATTACCTAAAACATTATTATTTCTATCTAAAA
* * ***
724317 CATTAATGTTTTTTAACTTTTCAAAAAAATGCCCAACAATAACAAAACCGGTAAAAAATAACAAA
637 CATCAATGTTTTTTAACATTTCGGTAAAATGCCCAA-AATAACAAAACCGGTAAAAAATAACAAA
*
724382 ACCGGTAGAGCTTTATCAGTTTTGTTAAAATAATGATGTTTTCGATAATTTTTACTGGTTTTGTT
701 ACCGGTAGAGCTTTATCGGTTTTGTTAAAATAATGATGTTTTCGATAATTTTTAC-GGTTTTGTT
724447 ATTGTTG
765 ATTGTTG
* * *
724454 TATGCCGGTTACATTATAAATTTACCTATTATATTATAATTATCGGTTTCGATGTAACATATGTG
1 TATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACATATGTG
* * *
724519 TCGATACTTTTAGAAAATGTATTGACACATATATTTAAATATTCTCTCCTTATAATATAATTAAT
66 TCGATACTTTTAGAAAATGTATCGACACATATATTTAACTATTCTCTCATTATAATATAATTAAT
*
724584 GATATATTATTTTTATTATAATAAATAATAAATATAATTTATAATAATTTTATTTTAATAAAATA
131 GATATATTATTCTTATTATAATAAATAATAAATATAATTTATAATAATTTTATTTTAATAAAATA
*
724649 TAATAATCATAA-TTTTTATTTATAAAATTATAGATATAATATTTTAATAATAATATTGAGATAA
196 TAATAATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATAATAATATTGACATAA
* * *
724713 ATAATATTAAATAATTTATTATAATATTTTAAAAATAATATTATTATTTTGTTAATAAATAATAT
261 ATAATATTAAATAAATTATTCTAATATTTAAAAAATAATATTATTATTTTGTTAATAAATAATAT
724778 TATTTTATTATATTTGATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCACTTCATTAT
326 TATTTTATTATATTTGATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCACTTCATTAT
*
724843 GATTTTTTTAAAAATTATATTGTAATTATATATAATTTTTTAATTTATTATTAGAAAACTAATAT
391 GATTTTTTT-AAAATTATATTGTAATTATATATAATTTTTTATTTTATTATTAGAAAACTAATAT
* * *
724908 CAAAATAGAAATACCGTGTCTTTTTTTTAATTAGTTATATTGTGGCAACTTATAAACTAAAAAAT
455 CAAAATAGAAATACCGTATCTTTTTTTTAATTAGTTATATTGTGACAACTTACAAACTAAAAAAT
724973 T-AA-AA-T-TAA-TT-TG-TTTTATCATTAAAAAGTCTATTTTTACCGGTTTT-TTATTGTTGG
520 TAAATAATTATAATTTGTGTTTTTATCATTAAAAAGTCTATTTTTACCGGTTTTGTTATTGTTGG
725030 GCATAACAAAACCGGTAAAAATTACCTAAAACATTATTATTTCTATCTAAAACATCAATGTTTTT
585 GCATAACAAAACCGGTAAAAATTACCTAAAACATTATTATTTCTATCTAAAACATCAATGTTTTT
*
725095 TAACATTTCCGGTAAAATGCCCAATAATAACAAAACCGGTAAAAAAAAAATAAAAAAACCGGTAG
650 TAACATTT-CGGTAAAATGCCCAA-AATAACAAAACCGGT----AAAAAATAACAAAACCGGTAG
*
725160 TGCTTTATCGGTTTTGTTAAAATAATGATGTTTTCGATAATTTTTATCGGTTTTGTTATTGTTG
709 AGCTTTATCGGTTTTGTTAAAATAATGATGTTTTCGATAATTTTTA-CGGTTTTGTTATTGTTG
725224 TATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACATATGTG
1 TATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACATATGTG
*
725289 TCGATACTTTTAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAATTAAT
66 TCGATACTTTTAGAAAATGTATCGACACATATATTTAACTATTCTCTCATTATAATATAATTAAT
* *
725354 GATATATTATTTTTATTATAATATATAATAAATATAATTTATAATAATTTTATTTTAATAAAATA
131 GATATATTATTCTTATTATAATAAATAATAAATATAATTTATAATAATTTTATTTTAATAAAATA
* *
725419 TAATAATCATAATATTTTATTTATAAAATTATAGATATAATATTTTAATAATAATATTGACATAG
196 TAATAATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATAATAATATTGACATAA
* *
725484 GTAATATTAAATAAATTATTCTAATATTTTAAAAATAATATTATTATTTTGTTAATAAATAATAT
261 ATAATATTAAATAAATTATTCTAATATTTAAAAAATAATATTATTATTTTGTTAATAAATAATAT
* *
725549 TATTTTATTGTATTTGATGTTTATAGTTATATTATAATTATGATTATTTTTCATCACTTCATTAT
326 TATTTTATTATATTTGATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCACTTCATTAT
* * *
725614 GATTTTTTTTAAATTATA---T-A-TA-AT-T-GTTTTTTATTTTATTATTAGAAAGCTAATATC
391 GATTTTTTTAAAATTATATTGTAATTATATATAATTTTTTATTTTATTATTAGAAAACTAATATC
*
725671 AAAATAGAAATACCGTAT-TATTTTTTTCATTAGTTATATTGTGACAACTTACAAACTAAAAAAT
456 AAAATAGAAATACCGTATCT-TTTTTTTAATTAGTTATATTGTGACAACTTACAAACTAAAAAAT
* **
725735 TAAAATTAATTTGTATAATTTGTGTTTACTAATTTTATTATTAAAAAGTCTATTTTTATTGGTTT
520 T-AAA-TAA--T-TATAATTTGTG-----T--TTTTATCATTAAAAAGTCTATTTTTACCGGTTT
* *
725800 TGTTATTGTTGGGCATAACAAAACCTGTAAAAATTACCTAAAACATCAATACTT-TTTAATATTT
573 TGTTATTGTTGGGCATAACAAAACCGGTAAAAATTACCTAAAACAT---TA-TTATTT-CTA--T
* * *** ** *
725864 CCGGTAAAATGACCAA----CAATAACAAAATCGGT-AAA-----AAAATAACAAAATCGGTAAA
631 -C--TAAAA-CATCAATGTTTTTTAAC-ATTTCGGTAAAATGCCCAAAATAACAAAACCGGTAAA
* * * *
725919 AAATAACAAAACCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATATTTTCGGTAATTTTTAC
691 AAATAACAAAACCGGTAGAGCTTTATCGGTTTTGTTAAAATAATGATGTTTTCGATAATTTTTA-
*
725984 CGATTTTGTTATTGTTG
755 CGGTTTTGTTATTGTTG
726001 TATACCGGTTACATTGTAAATTTACCTATTACATTAT-A--ATCGGTTTCGATGTAACATATGTG
1 TATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACATATGTG
*
726063 TCGATACTTTTAGAAAATGTATCGACGCATATATTTAACTATTCTCTCATTATAATATAATTAAT
66 TCGATACTTTTAGAAAATGTATCGACACATATATTTAACTATTCTCTCATTATAATATAATTAAT
726128 GATATATTATTCTTATTATAATAAATAATAAATATAATTTATAATAATTTTATTTTAATAAAATA
131 GATATATTATTCTTATTATAATAAATAATAAATATAATTTATAATAATTTTATTTTAATAAAATA
726193 TAATAATCATAATTTTTTTATTTATAAAA-TATAGATATAATATTTTAATAATAATATTGACATA
196 TAATAATCATAA-TTTTTTATTTATAAAATTATAGATATAATATTTTAATAATAATATTGACATA
726257 AATAATATTAAATAAATTATTCTAATATTTAAAAAATAATATTATTATTTTGTTAATAAATAATA
260 AATAATATTAAATAAATTATTCTAATATTTAAAAAATAATATTATTATTTTGTTAATAAATAATA
* *
726322 TTATTTTATTATATTTTATGTTTATAGTTATATTGTAATTATGATTATTTTTTATCACTTCATTA
325 TTATTTTATTATATTTGATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCACTTCATTA
* * *
726387 TGATTATTTTTTAAAATTATATTGTAATTATATATATATTTTTTTATTTTTTTATTAAAAAATTA
390 TGA-T-TTTTTTAAAATTATATTGTAATTATATATA-A-TTTTTTATTTTATTATTAGAAAACTA
*
726452 ATATCGAAATAGAAATACCGTATC-TTTTTTT-ATTAGTTATATTGTGACAACTTACAAACTAAA
451 ATATCAAAATAGAAATACCGTATCTTTTTTTTAATTAGTTATATTGTGACAACTTACAAACTAAA
* **
726515 AAATTACAATTAATTTATATAATTTGTGTTTATTAAATTTATCATTAAAAAGTATATTTTTACTT
516 AAATTA-AA-TAA--T-TATAATTTGTG----TT---TTTATCATTAAAAAGTCTATTTTTACCG
* * ** *
726580 ATTTTATTATTGTTGGGCATAACAAAATTGATAAAAATTACCTAAAA
569 GTTTTGTTATTGTTGGGCATAACAAAACCGGTAAAAATTACCTAAAA
726627 TATCAATGTT
Statistics
Matches: 1994, Mismatches: 111, Indels: 130
0.89 0.05 0.06
Matches are distributed among these distances:
761 1 0.00
762 88 0.04
763 1 0.00
764 4 0.00
765 79 0.04
766 64 0.03
767 1 0.00
770 288 0.14
771 187 0.09
772 2 0.00
773 2 0.00
774 325 0.16
775 18 0.01
776 125 0.06
777 219 0.11
778 197 0.10
779 1 0.00
780 1 0.00
781 50 0.03
782 48 0.02
783 10 0.01
784 155 0.08
785 30 0.02
786 74 0.04
787 3 0.00
788 9 0.00
789 3 0.00
791 5 0.00
792 4 0.00
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (771 bp):
TATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACATATGTG
TCGATACTTTTAGAAAATGTATCGACACATATATTTAACTATTCTCTCATTATAATATAATTAAT
GATATATTATTCTTATTATAATAAATAATAAATATAATTTATAATAATTTTATTTTAATAAAATA
TAATAATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATAATAATATTGACATAA
ATAATATTAAATAAATTATTCTAATATTTAAAAAATAATATTATTATTTTGTTAATAAATAATAT
TATTTTATTATATTTGATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCACTTCATTAT
GATTTTTTTAAAATTATATTGTAATTATATATAATTTTTTATTTTATTATTAGAAAACTAATATC
AAAATAGAAATACCGTATCTTTTTTTTAATTAGTTATATTGTGACAACTTACAAACTAAAAAATT
AAATAATTATAATTTGTGTTTTTATCATTAAAAAGTCTATTTTTACCGGTTTTGTTATTGTTGGG
CATAACAAAACCGGTAAAAATTACCTAAAACATTATTATTTCTATCTAAAACATCAATGTTTTTT
AACATTTCGGTAAAATGCCCAAAATAACAAAACCGGTAAAAAATAACAAAACCGGTAGAGCTTTA
TCGGTTTTGTTAAAATAATGATGTTTTCGATAATTTTTACGGTTTTGTTATTGTTG
Found at i:725410 original size:16 final size:16
Alignment explanation
Indices: 725370--725422 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
725360 TTATTTTTAT
*
725370 TATAATATATAATAAA
1 TATAATTTATAATAAA
725386 TATAATTTATAAT-AA
1 TATAATTTATAATAAA
* *
725401 TTTTATTT-TAATAAAA
1 TATAATTTATAAT-AAA
725417 TATAAT
1 TATAAT
725423 AATCATAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 4 0.13
15 8 0.27
16 18 0.60
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTTATAATAAA
Found at i:725410 original size:42 final size:40
Alignment explanation
Indices: 725342--725424 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 40
725332 CTCTCATTAT
* *
725342 AATATAATTAATGATATATTATTTTTATTATAATATATAATA
1 AATATAATTAATAATATATTATTTTTA--ATAAAATATAATA
* *
725384 AATATAATTTATAATA-ATTTTATTTTAATAAAATATAATA
1 AATATAATTAATAATATATTAT-TTTTAATAAAATATAATA
725424 A
1 A
725425 TCATAATATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
40 13 0.36
41 4 0.11
42 19 0.53
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (40 bp):
AATATAATTAATAATATATTATTTTTAATAAAATATAATA
Found at i:725413 original size:30 final size:31
Alignment explanation
Indices: 725379--725465 Score: 87
Period size: 30 Copynumber: 2.9 Consensus size: 31
725369 TTATAATATA
*
725379 TAAT-AAATATAAT-TTATAATAATTTTATTT
1 TAATAAAATATAATATCATAAT-ATTTTATTT
725409 TAATAAAATATAATAATCATAATATTTTA-TT
1 TAATAAAATATAAT-ATCATAATATTTTATTT
*
725440 T-ATAAAAT-TATAGAT-ATAATATTTTA
1 TAATAAAATATA-ATATCATAATATTTTA
725466 ATAATAATAT
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
28 11 0.22
29 4 0.08
30 12 0.24
31 12 0.24
32 6 0.12
33 6 0.12
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (31 bp):
TAATAAAATATAATATCATAATATTTTATTT
Found at i:725413 original size:37 final size:36
Alignment explanation
Indices: 725364--725470 Score: 98
Period size: 37 Copynumber: 3.0 Consensus size: 36
725354 GATATATTAT
*
725364 TTTTATTATAATATATAATAAATATAATTTATAATAA
1 TTTTATTTTAATA-ATAATAAATATAATTTATAATAA
* *
725401 TTTTATTTTAATAA-AATATA-ATAA-TCATAAT-A
1 TTTTATTTTAATAATAATAAATATAATTTATAATAA
* * *
725433 TTTTATTTATAA-AATTATAGATATAATATTTTAATAA
1 TTTTATTT-TAATAATAATAAATATAAT-TTATAATAA
725470 T
1 T
725471 AATATTGACA
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
32 11 0.19
33 13 0.23
34 8 0.14
35 5 0.09
36 6 0.11
37 14 0.25
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (36 bp):
TTTTATTTTAATAATAATAAATATAATTTATAATAA
Found at i:725444 original size:14 final size:14
Alignment explanation
Indices: 725337--725476 Score: 52
Period size: 14 Copynumber: 9.8 Consensus size: 14
725327 CTATTCTCTC
*
725337 ATTATAATATAATTA
1 ATTATAATAT-TTTA
* *
725352 ATGATATATTATTTTT
1 AT--TATAATATTTTA
*
725368 ATTATAATATATAATA
1 ATTATAATAT-T-TTA
* *
725384 AATATAAT-TTATA
1 ATTATAATATTTTA
* **
725397 ATAATTTTATTTTA
1 ATTATAATATTTTA
* **
725411 A-TAAAATATAATA
1 ATTATAATATTTTA
*
725424 ATCATAATATTTTA
1 ATTATAATATTTTA
* * *
725438 TTTATAAAATTATA
1 ATTATAATATTTTA
725452 GA-TATAATATTTTA
1 -ATTATAATATTTTA
*
725466 ATAATAATATT
1 ATTATAATATT
725477 GACATAGGTA
Statistics
Matches: 87, Mismatches: 30, Indels: 17
0.65 0.22 0.13
Matches are distributed among these distances:
13 15 0.17
14 49 0.56
15 4 0.05
16 12 0.14
17 7 0.08
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (14 bp):
ATTATAATATTTTA
Found at i:725461 original size:28 final size:31
Alignment explanation
Indices: 725379--725465 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 31
725369 TTATAATATA
*
725379 TAAT-AAATATAAT-TTATAATAATTTTATTT
1 TAATAAAATATAATAATATAAT-ATTTTATTT
725409 TAATAAAATATAATAATCATAATATTTTA-TT
1 TAATAAAATATAATAAT-ATAATATTTTATTT
725440 T-ATAAAAT-T-ATAGATATAATATTTTA
1 TAATAAAATATAATA-ATATAATATTTTA
725466 ATAATAATAT
Statistics
Matches: 52, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
28 14 0.27
29 3 0.06
30 11 0.21
31 12 0.23
32 7 0.13
33 5 0.10
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (31 bp):
TAATAAAATATAATAATATAATATTTTATTT
Found at i:725472 original size:28 final size:28
Alignment explanation
Indices: 725404--725472 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
725394 ATAATAATTT
*
725404 TATTTTAATAA-AATATAATAATCATAA
1 TATTTTAATAATAAAATAATAATCATAA
* * *
725431 TATTTTATTTATAAAATTATAGAT-ATAA
1 TATTTTAATAATAAAATAATA-ATCATAA
725459 TATTTTAATAATAA
1 TATTTTAATAATAA
725473 TATTGACATA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
27 9 0.26
28 23 0.68
29 2 0.06
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (28 bp):
TATTTTAATAATAAAATAATAATCATAA
Found at i:725559 original size:24 final size:25
Alignment explanation
Indices: 725491--725559 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 25
725481 TAGGTAATAT
*
725491 TAAATAA-ATTATTCTAATATT-TTAA
1 TAAATAATATTA-T-TATTATTGTTAA
725516 -AAATAATATTATTATT-TTGTTAA
1 TAAATAATATTATTATTATTGTTAA
725539 TAAATAATATTATT-TTATTGT
1 TAAATAATATTATTATTATTGT
725560 ATTTGATGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
22 2 0.05
23 9 0.23
24 24 0.62
25 4 0.10
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.52
Consensus pattern (25 bp):
TAAATAATATTATTATTATTGTTAA
Found at i:725906 original size:20 final size:20
Alignment explanation
Indices: 725881--725935 Score: 94
Period size: 19 Copynumber: 2.8 Consensus size: 20
725871 AATGACCAAC
725881 AATAACAAAATCGGTAAAAA
1 AATAACAAAATCGGTAAAAA
725901 AATAACAAAATCGGT-AAAA
1 AATAACAAAATCGGTAAAAA
*
725920 AATAACAAAACCGGTA
1 AATAACAAAATCGGTA
725936 GCGCTTTACC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.62, C:0.13, G:0.11, T:0.15
Consensus pattern (20 bp):
AATAACAAAATCGGTAAAAA
Found at i:726194 original size:31 final size:31
Alignment explanation
Indices: 726153--726248 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 31
726143 TTATAATAAA
*
726153 TAAT-AAATATAATTTATAATAATTTTATT-T
1 TAATAAAATATAA-TAATAATAATTTTATTAT
* *
726183 TAATAAAATATAATAATCATAATTTTTTTAT
1 TAATAAAATATAATAATAATAATTTTATTAT
* * *
726214 TTATAAAATATAGAT-ATAAT-ATTTTAATAA
1 TAATAAAATATA-ATAATAATAATTTTATTAT
726244 TAATA
1 TAATA
726249 TTGACATAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
30 28 0.52
31 24 0.44
32 2 0.04
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (31 bp):
TAATAAAATATAATAATAATAATTTTATTAT
Found at i:726205 original size:33 final size:30
Alignment explanation
Indices: 726153--726225 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 30
726143 TTATAATAAA
*
726153 TAAT-AAATATAATTTATAATAATTTTATTT
1 TAATAAAATATAATTCATAATAATTTTA-TT
**
726183 TAATAAAATATAATAATCATAATTTTTTTATT
1 TAATAAAATATAAT--TCATAATAATTTTATT
726215 T-ATAAAATATA
1 TAATAAAATATA
726226 GATATAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 4 0.11
31 19 0.51
32 3 0.08
33 11 0.30
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (30 bp):
TAATAAAATATAATTCATAATAATTTTATT
Found at i:731436 original size:41 final size:42
Alignment explanation
Indices: 731389--731501 Score: 183
Period size: 42 Copynumber: 2.7 Consensus size: 42
731379 CCCCGAAATT
* * *
731389 CCGTGTTTGTTTCATGTAATTCGTTTTTCG-AAAATGTTTTC
1 CCGTGTTTGTTTCACGTAATTCGTTTTCCGAAAAATATTTTC
*
731430 CCGTGTTTGTTTCACGTAATTCATTTTCCGAAAAATATTTTC
1 CCGTGTTTGTTTCACGTAATTCGTTTTCCGAAAAATATTTTC
731472 CCGTGTTTGTTTCACGTAATTCGTTTTCCG
1 CCGTGTTTGTTTCACGTAATTCGTTTTCCG
731502 GAACGTAATT
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
41 27 0.41
42 39 0.59
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.48
Consensus pattern (42 bp):
CCGTGTTTGTTTCACGTAATTCGTTTTCCGAAAAATATTTTC
Found at i:731726 original size:23 final size:21
Alignment explanation
Indices: 731674--731734 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 21
731664 CATTTTCATC
731674 AAAATATTAATTATTAAAATATTT
1 AAAATA-TAATTATT--AATATTT
*
731698 AAAATATATTTATTAATATTAT
1 AAAATATAATTATTAATATT-T
731720 AATAATATAATTATT
1 AA-AATATAATTATT
731735 TTTAGTTTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 6 0.18
22 3 0.09
23 18 0.55
24 6 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AAAATATAATTATTAATATTT
Found at i:731787 original size:25 final size:26
Alignment explanation
Indices: 731759--731815 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
731749 ATCAATTATA
*
731759 TTATAATAATAAGATAT-TATATTTT
1 TTATAATAATAAGATATATAAATTTT
** *
731784 TTATTTTAATAATATATAATAAATTTT
1 TTATAATAATAAGATAT-ATAAATTTT
731811 TTATA
1 TTATA
731816 TACTTAATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 14 0.56
27 11 0.44
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (26 bp):
TTATAATAATAAGATATATAAATTTT
Found at i:731854 original size:30 final size:28
Alignment explanation
Indices: 731754--731854 Score: 82
Period size: 27 Copynumber: 3.5 Consensus size: 28
731744 GTAATATCAA
*
731754 TTATATTATAATAATAA-GATATTATATTTT
1 TTAT-TTA-AATAATAATGA-ATAATATTTT
*
731784 TTATTTTAATAATATAT-AATAA-ATTTT
1 TTATTTAAATAATA-ATGAATAATATTTT
* **
731811 TTATATACTTAATAATGAATAATATTTT
1 TTATTTAAATAATAATGAATAATATTTT
731839 ATATATTTAAATAATA
1 -T-TATTTAAATAATA
731855 TTTTAGTAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
26 2 0.04
27 20 0.36
28 15 0.27
29 5 0.09
30 14 0.25
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (28 bp):
TTATTTAAATAATAATGAATAATATTTT
Found at i:732016 original size:17 final size:19
Alignment explanation
Indices: 731994--732029 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
731984 TAATAAAATT
731994 ATAAAAAA-TA-TTTAATA
1 ATAAAAAATTATTTTAATA
732011 ATAAAAAATTATTTTAATA
1 ATAAAAAATTATTTTAATA
732030 TTTTAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 2 0.12
19 7 0.41
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATAAAAAATTATTTTAATA
Found at i:732202 original size:20 final size:20
Alignment explanation
Indices: 732177--732226 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
732167 TTTCCAGATG
*
732177 TTTTCCATAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
732197 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
*
732217 TTTTGCAGAA
1 TTTTCCAGAA
732227 TTCAAATTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:732234 original size:20 final size:20
Alignment explanation
Indices: 732177--732235 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 20
732167 TTTCCAGATG
* **
732177 TTTTCCATAAATGTAATTCA
1 TTTTCCAGAAATCAAATTCA
**
732197 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATCAAATTCA
* *
732217 TTTTGCAGAATTCAAATTC
1 TTTTCCAGAAATCAAATTC
732236 CAGTAATTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.42
Consensus pattern (20 bp):
TTTTCCAGAAATCAAATTCA
Found at i:732245 original size:15 final size:15
Alignment explanation
Indices: 732225--732290 Score: 87
Period size: 15 Copynumber: 4.4 Consensus size: 15
732215 CATTTTGCAG
732225 AATTCAAATTCCAGT
1 AATTCAAATTCCAGT
** *
732240 AATTCATTTTCCAAT
1 AATTCAAATTCCAGT
**
732255 AATTCAAATTTTAGT
1 AATTCAAATTCCAGT
732270 AATTCAAATTCCAGT
1 AATTCAAATTCCAGT
732285 AATTCA
1 AATTCA
732291 TTTTCCGGAA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 41 1.00
ACGTcount: A:0.39, C:0.17, G:0.05, T:0.39
Consensus pattern (15 bp):
AATTCAAATTCCAGT
Found at i:732261 original size:30 final size:30
Alignment explanation
Indices: 732209--732290 Score: 94
Period size: 30 Copynumber: 2.8 Consensus size: 30
732199 TTCCAGAAAT
* *
732209 GTAATTCATTTTGC-AGAATTCAAATTCCA
1 GTAATTCATTTTCCAATAATTCAAATTCCA
**
732238 GTAATTCATTTTCCAATAATTCAAATTTTA
1 GTAATTCATTTTCCAATAATTCAAATTCCA
** *
732268 GTAATTCAAATTCCAGTAATTCA
1 GTAATTCATTTTCCAATAATTCA
732291 TTTTCCGGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 13 0.29
30 32 0.71
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (30 bp):
GTAATTCATTTTCCAATAATTCAAATTCCA
Found at i:732296 original size:15 final size:15
Alignment explanation
Indices: 732209--732296 Score: 83
Period size: 15 Copynumber: 5.9 Consensus size: 15
732199 TTCCAGAAAT
*
732209 GTAATTCATTTTGCA
1 GTAATTCATTTTCCA
**
732224 G-AATTCAAATTCCA
1 GTAATTCATTTTCCA
732238 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
*
732253 ATAATTCAAATTTT--A
1 GTAATTC--ATTTTCCA
**
732268 GTAATTCAAATTCCA
1 GTAATTCATTTTCCA
732283 GTAATTCATTTTCC
1 GTAATTCATTTTCC
732297 GGAAAACCAA
Statistics
Matches: 57, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
13 3 0.05
14 11 0.19
15 38 0.67
17 5 0.09
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.42
Consensus pattern (15 bp):
GTAATTCATTTTCCA
Found at i:736664 original size:26 final size:26
Alignment explanation
Indices: 736635--736686 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
736625 GAGAACCGAG
736635 TAAACGAGTTTACTT-ATGAACATAAA
1 TAAACGAGTTTA-TTCATGAACATAAA
*
736661 TAAACGAGTTTATTCGTGAACATAAA
1 TAAACGAGTTTATTCATGAACATAAA
736687 CGAACCGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 2 0.08
26 22 0.92
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (26 bp):
TAAACGAGTTTATTCATGAACATAAA
Found at i:743898 original size:24 final size:23
Alignment explanation
Indices: 743853--743905 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
743843 CCTTTAATTC
*
743853 AATTTTACCCCGATTTCCTTTTT
1 AATTTTACCCCGATTTCATTTTT
* *
743876 AATTTTACCCTCTATTTTATTTTT
1 AATTTTACCC-CGATTTCATTTTT
743900 -ATTTTA
1 AATTTTA
743906 ATTTAGTCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.21, C:0.19, G:0.02, T:0.58
Consensus pattern (23 bp):
AATTTTACCCCGATTTCATTTTT
Found at i:744083 original size:6 final size:5
Alignment explanation
Indices: 744055--744124 Score: 58
Period size: 5 Copynumber: 13.8 Consensus size: 5
744045 TTTAATTCCA
*
744055 TTATT TTATT TTATT TTATT TT-TAG TT-TT TTATT CTTATT CTTATT
1 TTATT TTATT TTATT TTATT TTAT-T TTATT TTATT -TTATT -TTATT
744101 CTTA-T TTATT CTTA-T TTATT TTAT
1 -TTATT TTATT -TTATT TTATT TTAT
744125 GCATCTTATC
Statistics
Matches: 57, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
4 9 0.16
5 30 0.53
6 18 0.32
ACGTcount: A:0.19, C:0.06, G:0.01, T:0.74
Consensus pattern (5 bp):
TTATT
Found at i:746581 original size:19 final size:19
Alignment explanation
Indices: 746557--746593 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
746547 ACCTCACTAA
*
746557 CTCTTTCCTTTTATTTTTT
1 CTCTTTCATTTTATTTTTT
746576 CTCTTTCATTTTATTTTT
1 CTCTTTCATTTTATTTTT
746594 ATCATTTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (19 bp):
CTCTTTCATTTTATTTTTT
Found at i:749471 original size:99 final size:99
Alignment explanation
Indices: 749364--749558 Score: 336
Period size: 99 Copynumber: 2.0 Consensus size: 99
749354 ATATTAAATG
* * * *
749364 TATACAATAAAGCTTAAGTTGTCCCTCTAGAGCAATTGGTTAAACTCCCCGGCTTTATGGATAAG
1 TATACAATAAAGCTTAAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTATGGATAAG
*
749429 ATTCAGCTAGCCTGATAAAGGTGATTATAATGTA
66 ATTCAGCTAGCCTGATAAAGGTAATTATAATGTA
*
749463 TATACAATAAAGCTTTAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTATGGATAAG
1 TATACAATAAAGCTTAAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTATGGATAAG
749528 ATTCAGCTAGCCTGATAAAGGTAATTATAAT
66 ATTCAGCTAGCCTGATAAAGGTAATTATAAT
749559 ATTGAGTTGT
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
99 90 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (99 bp):
TATACAATAAAGCTTAAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTATGGATAAG
ATTCAGCTAGCCTGATAAAGGTAATTATAATGTA
Found at i:751673 original size:19 final size:21
Alignment explanation
Indices: 751649--751700 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
751639 CGGCCAAGAG
*
751649 CATGTATCTTCA-TTAAAA-T
1 CATGTATTTTCATTTAAAAGT
751668 CATGTATTTTCATTTAAAAGT
1 CATGTATTTTCATTTAAAAGT
751689 CATGTATTTTCA
1 CATGTATTTTCA
751701 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 6 0.20
21 13 0.43
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAGT
Found at i:755798 original size:19 final size:21
Alignment explanation
Indices: 755774--755825 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
755764 CGGCCAAGAG
*
755774 CATGTATCTTCA-TTAAAA-T
1 CATGTATTTTCATTTAAAAGT
755793 CATGTATTTTCATTTAAAAGT
1 CATGTATTTTCATTTAAAAGT
755814 CATGTATTTTCA
1 CATGTATTTTCA
755826 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 6 0.20
21 13 0.43
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAGT
Found at i:757241 original size:68 final size:68
Alignment explanation
Indices: 757154--757284 Score: 208
Period size: 68 Copynumber: 1.9 Consensus size: 68
757144 AGTTTGATTA
* *
757154 CATTCAGCTCAAGGGCATATCAAATTTACAACATAGCTCAAGGCGAGAAGAGTTATATGTCAACA
1 CATTCAGCTCAAGGCCATATCAAATTTACAACATAGCTCAAGGCGAGAAGAGCTATATGTCAACA
757219 ATC
66 ATC
* * * *
757222 CATTCAGCTCAAGGCCATATCAAATTTACAGCATAGCTCGAGGTGAGAAGAGCTATCTGTCAA
1 CATTCAGCTCAAGGCCATATCAAATTTACAACATAGCTCAAGGCGAGAAGAGCTATATGTCAA
757285 TAAAAACCTT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 57 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (68 bp):
CATTCAGCTCAAGGCCATATCAAATTTACAACATAGCTCAAGGCGAGAAGAGCTATATGTCAACA
ATC
Found at i:757364 original size:85 final size:85
Alignment explanation
Indices: 757220--757401 Score: 265
Period size: 85 Copynumber: 2.1 Consensus size: 85
757210 ATGTCAACAA
* * *
757220 TCCATTCAGCTCAAGGCCATATCAAATTTACAGCATAGCTCGAGGTGAGAAGAGCTATCTGTCAA
1 TCCATTCAGCTCAAGGCCATATCAAATTTACAGCATAGCTCAAGGCGAAAAGAGCTATCTGTCAA
* *
757285 TAAAAACCTTCGAGTTCGAT
66 CAAAAACCTTCAAGTTCGAT
* * * * *
757305 TCCATTAAGCTCAAGGCCATATCAAATTTACAGCATGGCTTAAGGCGAAAAGGGTTATCTGTCAA
1 TCCATTCAGCTCAAGGCCATATCAAATTTACAGCATAGCTCAAGGCGAAAAGAGCTATCTGTCAA
757370 CAAAAACCTTCAAGTTCGAT
66 CAAAAACCTTCAAGTTCGAT
*
757390 TTCATTCAGCTC
1 TCCATTCAGCTC
757402 GATGACAGCA
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.27
Consensus pattern (85 bp):
TCCATTCAGCTCAAGGCCATATCAAATTTACAGCATAGCTCAAGGCGAAAAGAGCTATCTGTCAA
CAAAAACCTTCAAGTTCGAT
Found at i:759301 original size:5 final size:5
Alignment explanation
Indices: 759275--759319 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
759265 TCTCTCTTTT
*
759275 TTAT- TTAT- TTAT- TTATA CTATA TTATA TTATA TTATA TATATA TT
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA T-TATA TT
759320 TTGTTTTTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
4 12 0.32
5 20 0.54
6 5 0.14
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:763962 original size:41 final size:42
Alignment explanation
Indices: 763917--763996 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
763907 AAGGTCTTCT
* *
763917 AGATGACCCGAAGGACTT-ATCATCTTGCTCGAAAGACTGAA
1 AGATGACCAGAAGGACTTAATCATCATGCTCGAAAGACTGAA
*
763958 AGATGACCAGAAGGATTTAATCATCATGCTCGAAAGACT
1 AGATGACCAGAAGGACTTAATCATCATGCTCGAAAGACT
763997 TACTGATGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
41 16 0.46
42 19 0.54
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (42 bp):
AGATGACCAGAAGGACTTAATCATCATGCTCGAAAGACTGAA
Found at i:764014 original size:42 final size:41
Alignment explanation
Indices: 763917--764018 Score: 107
Period size: 42 Copynumber: 2.5 Consensus size: 41
763907 AAGGTCTTCT
* * *
763917 AGATGACCCGAAGGACTTATCATCTTGCTCGAAAGACTGAA
1 AGATGGCCCAAAGGACTTATCATCATGCTCGAAAGACTGAA
* * * *
763958 AGAT-GACCAGAAGGATTTAATCATCATGCTCGAAAGACTTAC
1 AGATGGCCCA-AAGGACTT-ATCATCATGCTCGAAAGACTGAA
*
764000 TGATGGCCCAAAGGACTTA
1 AGATGGCCCAAAGGACTTA
764019 CCAATTTTGG
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
40 2 0.04
41 12 0.25
42 30 0.62
43 4 0.08
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.23
Consensus pattern (41 bp):
AGATGGCCCAAAGGACTTATCATCATGCTCGAAAGACTGAA
Found at i:764220 original size:41 final size:41
Alignment explanation
Indices: 764170--764276 Score: 133
Period size: 42 Copynumber: 2.6 Consensus size: 41
764160 GCCCAAATGT
* * *
764170 CTGATAGATGGCCCGAATGACTTATCATCTTGCTCGAAAGA
1 CTGACAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGA
* * *
764211 CTGGCAGATGACCCGAAGGATTTTATCATCATGCTCGAAAGA
1 CTGACAGATGGCCCGAAGGA-CTTATCATCATGCTCGAAAGA
* *
764253 CTTACTGATGGCCCGAAGGACTTA
1 CTGACAGATGGCCCGAAGGACTTA
764277 CCAATTTTGG
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 19 0.35
42 35 0.65
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.25
Consensus pattern (41 bp):
CTGACAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGA
Found at i:764343 original size:258 final size:258
Alignment explanation
Indices: 763840--764667 Score: 1211
Period size: 258 Copynumber: 3.2 Consensus size: 258
763830 TTTAAAAAAT
* * *
763840 TAAATGAGAAACTTTGAAAATCACTTTCTCATTCTCTTACAAA-TACCATATGAAAACATCTTGC
1 TAAATAAGAAACTTTGAAAATCGCTTTCTCATT-T-TT-CAAATTATCATATGAAAACATCTTGC
* * * *
763904 CCAAAGGTCTTCTAGATGACCCGAAGGACTTATCATCTTGCTCGAAAGACTGAAAGATGACCAGA
63 CCAAAGGTCTTATAGATGGCCCGAATGACTTATCATCTTGCTCGAAAGACTGACAGATGACCAGA
*
763969 AGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCAAAGGACTTACCAATTTTGGAAATA
128 AGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATA
* *
764034 GTTTACTAGGTGAGAAACTTTGGAAATCGCTTTCTTATTTTTCAAAAATTTCATTTTATGAAATA
193 GTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTATGAAATA
*
764099 T
258 C
*
764100 TAAATAAGAAATTTTGAAAAAT-G-TCTTCTCATTTTTCAAATTATCATATGAAAACATCTTGCC
1 TAAATAAGAAACTTTG-AAAATCGCT-TTCTCATTTTTCAAATTATCATATGAAAACATCTTGCC
* * * *
764163 CAAATGTCTGATAGATGGCCCGAATGACTTATCATCTTGCTCGAAAGACTGGCAGATGACCCGAA
64 CAAAGGTCTTATAGATGGCCCGAATGACTTATCATCTTGCTCGAAAGACTGACAGATGACCAGAA
*
764228 GGATTTTATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAG
129 GGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAG
*
764293 TTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATA
194 TTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTATG-AAATA
764358 C
258 C
* ** * *
764359 TAAATGAGAAACTTT-ATAAATCGGGTTCTCATTTTTCAAATTATCATATGAAAACATATTACCC
1 TAAATAAGAAACTTTGA-AAATCGCTTTCTCATTTTTCAAATTATCATATGAAAACATCTTGCCC
* * * *
764423 AGAGGTCTTATAGATGG-CCGAATGACTTATCATCTTGCTTGAAAGACTGACATATGACCTGAAG
65 AAAGGTCTTATAGATGGCCCGAATGACTTATCATCTTGCTCGAAAGACTGACAGATGACCAGAAG
* * *
764487 GATTTAATCATCATGCTCGAAAGACTTATTGATGGTCCGAATGG-CTTACCAATTTTGCAAATAG
130 GATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAA-GGACTTACCAATTTTGGAAATAG
* * **
764551 TTTACTAGGTAAGAAACTTTAGAAATCGTTTTCTTACTTTTCAAAAATTTCA-TTTAAAAAATAC
194 TTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTATGAAATAC
* *
764615 AAAATAAAAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTATCATATGAAA
1 TAAATAAGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTATCATATGAAA
764668 GCAACTTAAT
Statistics
Matches: 515, Mismatches: 44, Indels: 22
0.89 0.08 0.04
Matches are distributed among these distances:
256 52 0.10
257 9 0.02
258 353 0.69
259 74 0.14
260 22 0.04
261 5 0.01
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (258 bp):
TAAATAAGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTATCATATGAAAACATCTTGCCCA
AAGGTCTTATAGATGGCCCGAATGACTTATCATCTTGCTCGAAAGACTGACAGATGACCAGAAGG
ATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTT
TACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTATGAAATAC
Found at i:766776 original size:19 final size:18
Alignment explanation
Indices: 766751--766847 Score: 88
Period size: 19 Copynumber: 4.9 Consensus size: 18
766741 CTTCTTTTCA
766751 TTTTTTCTCTTTTTTTTT
1 TTTTTTCTCTTTTTTTTT
766769 TTTATTTCTCTTATTTTCTTT
1 TTT-TTTCTCTT-TTTT-TTT
*
766790 TCTTTTTGT-TTTTTTCTATT
1 T-TTTTTCTCTTTTTT-T-TT
766810 TTTTTTCTCTTCTCTTTTTT
1 TTTTTTCTCTT-T-TTTTTT
766830 CTTTTTCTCTCTTTTTTT
1 -TTTTT-TCTCTTTTTTT
766848 CGAATATGAA
Statistics
Matches: 67, Mismatches: 2, Indels: 18
0.77 0.02 0.21
Matches are distributed among these distances:
18 3 0.04
19 20 0.30
20 17 0.25
21 16 0.24
22 11 0.16
ACGTcount: A:0.03, C:0.15, G:0.01, T:0.80
Consensus pattern (18 bp):
TTTTTTCTCTTTTTTTTT
Found at i:766826 original size:32 final size:31
Alignment explanation
Indices: 766751--766848 Score: 98
Period size: 29 Copynumber: 3.2 Consensus size: 31
766741 CTTCTTTTCA
*
766751 TTTTTTCTCTT-T-TTTTTTTTTATTTCT-CT
1 TTTTTTCTCTTCTCTTTTTTTTT-TTTCTATT
*
766780 TATTTTCT-TT-TCTTTTTGTTTTTTTCTATT
1 TTTTTTCTCTTCTCTTTTT-TTTTTTTCTATT
* *
766810 TTTTTTCTCTTCTCTTTTTTCTTTTTCTCTCT
1 TTTTTTCTCTTCTCTTTTTTTTTTTTCTAT-T
766842 TTTTTTC
1 TTTTTTC
766849 GAATATGAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
28 3 0.05
29 17 0.29
30 12 0.21
31 11 0.19
32 15 0.26
ACGTcount: A:0.03, C:0.16, G:0.01, T:0.80
Consensus pattern (31 bp):
TTTTTTCTCTTCTCTTTTTTTTTTTTCTATT
Found at i:766827 original size:26 final size:26
Alignment explanation
Indices: 766780--766837 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
766770 TTATTTCTCT
* *
766780 TATTTTCTTTTCTTTTTGTTTTTTTC
1 TATTTTCTTTTCTTTCTCTTTTTTTC
766806 TATTTT-TTTTCTCTTCTC-TTTTTTC
1 TATTTTCTTTTCT-TTCTCTTTTTTTC
766831 T-TTTTCT
1 TATTTTCT
766838 CTCTTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 4 0.14
25 15 0.54
26 9 0.32
ACGTcount: A:0.03, C:0.16, G:0.02, T:0.79
Consensus pattern (26 bp):
TATTTTCTTTTCTTTCTCTTTTTTTC
Found at i:774653 original size:2 final size:2
Alignment explanation
Indices: 774646--774749 Score: 140
Period size: 2 Copynumber: 52.0 Consensus size: 2
774636 CATTCATGAA
774646 AT AT AT AT AT 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 AT AT AT AT AT AT
* ** *
774687 AC GC AT -T CAT GAA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT -AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
774730 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
774750 CATAACTTGA
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
1 2 0.02
2 89 0.96
3 2 0.02
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:774657 original size:54 final size:54
Alignment explanation
Indices: 774599--774740 Score: 180
Period size: 54 Copynumber: 2.6 Consensus size: 54
774589 CCAATACATG
774599 TATATATATAT-TATACATCACACACATATATA-ACACGCATTCATGAAATATATA
1 TATATATATATATATACAT-ACACACATATATATA-ACGCATTCATGAAATATATA
* * * *
774653 TATATATATATATATATATATATATATATATATAACGCATTCATGAAATATATA
1 TATATATATATATATACATACACACATATATATAACGCATTCATGAAATATATA
* * * *
774707 TATATATATATATATATATATATATATATATATA
1 TATATATATATATATACATACACACATATATATA
774741 TATATATATC
Statistics
Matches: 82, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
54 75 0.91
55 7 0.09
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (54 bp):
TATATATATATATATACATACACACATATATATAACGCATTCATGAAATATATA
Found at i:782724 original size:21 final size:21
Alignment explanation
Indices: 782700--782739 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
782690 AATCAAGAAT
*
782700 CAAGGAAATCTGTTACAAATC
1 CAAGGAAATCTATTACAAATC
* *
782721 CAAGTAACTCTATTACAAA
1 CAAGGAAATCTATTACAAA
782740 GCCATAGCTC
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:0.45, C:0.20, G:0.10, T:0.25
Consensus pattern (21 bp):
CAAGGAAATCTATTACAAATC
Found at i:794336 original size:294 final size:295
Alignment explanation
Indices: 793807--794396 Score: 1128
Period size: 294 Copynumber: 2.0 Consensus size: 295
793797 TGATTTTGGC
793807 TTCATCCCTGATGACGGTTGAAAAAGTAAAATGTTATAACTGAAAAATCGATATACTCTTAAAAT
1 TTCATCCCTGATGACGGTTGAAAAAGTAAAATGTTATAACTGAAAAATCGATATACTCTTAAAAT
* * *
793872 TCATTGTCTAAAAATTTTATCATTTTTGACATTAATAGTCGCATCAAAGCGATTTTATTTTTCTC
66 TCATTGTCTAAAAATTTTATCATTTTCGACATCAATAGTCGCATCAAAACGATTTTATTTTTCTC
*
793937 TATATCATCATGTCTTTTGAATTTTAACAACCCAATGGTATATTGAAGCTAAAACCAAAGTTCAT
131 TATATCATCATGTCTTTTGAATTTTAACAACCCAATGGTATATTGAAGCTAAAACCAAAGTTCAA
794002 TACTCTAATTAAAATAATTAAAAAATTAATGATATAAATAATATATCATCTAAAGTTTAATGGTA
196 TACTCTAATTAAAATAATTAAAAAATTAATGATATAAATAATATATCATCTAAAGTTTAATGGTA
794067 GTTGATAAAATTTACCC-TATTATTGCGAAGAATT
261 GTTGATAAAATTTACCCTTATTATTGCGAAGAATT
794101 TTCATCCCTGATGACGGTTGAAAAAGTAAAATGTTATAACTGAAAAATCGATATACTCTTAAAAT
1 TTCATCCCTGATGACGGTTGAAAAAGTAAAATGTTATAACTGAAAAATCGATATACTCTTAAAAT
794166 TCATTGTCTAAAAATTTTATCATTTTCGACATCAATAGTCGCATCAAAACGATTTTATTTTTCTC
66 TCATTGTCTAAAAATTTTATCATTTTCGACATCAATAGTCGCATCAAAACGATTTTATTTTTCTC
*
794231 TATATCATCATGTCTTTTGAATTTTAACAACCCAATGGTATATTGAAGGTAAAACCAAAGTTCAA
131 TATATCATCATGTCTTTTGAATTTTAACAACCCAATGGTATATTGAAGCTAAAACCAAAGTTCAA
794296 TACTCTAATTAAAATAATTAAAAAATTAATGATATAAATAATATATCATCTAAAGTTTAATGGTA
196 TACTCTAATTAAAATAATTAAAAAATTAATGATATAAATAATATATCATCTAAAGTTTAATGGTA
794361 GTTGATAAAATTTACCCTTATTATTGCGAAGAATT
261 GTTGATAAAATTTACCCTTATTATTGCGAAGAATT
794396 T
1 T
794397 GTATTTAATG
Statistics
Matches: 290, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
294 272 0.94
295 18 0.06
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (295 bp):
TTCATCCCTGATGACGGTTGAAAAAGTAAAATGTTATAACTGAAAAATCGATATACTCTTAAAAT
TCATTGTCTAAAAATTTTATCATTTTCGACATCAATAGTCGCATCAAAACGATTTTATTTTTCTC
TATATCATCATGTCTTTTGAATTTTAACAACCCAATGGTATATTGAAGCTAAAACCAAAGTTCAA
TACTCTAATTAAAATAATTAAAAAATTAATGATATAAATAATATATCATCTAAAGTTTAATGGTA
GTTGATAAAATTTACCCTTATTATTGCGAAGAATT
Found at i:796872 original size:3 final size:3
Alignment explanation
Indices: 796864--796902 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
796854 TATTTTAAAT
796864 ATA ATA ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
796903 GGGAAGCAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:797428 original size:2 final size:2
Alignment explanation
Indices: 797421--797454 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
797411 CAAGTCATTT
797421 TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
797455 GTTGGTTATG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:798181 original size:53 final size:53
Alignment explanation
Indices: 798115--798226 Score: 215
Period size: 53 Copynumber: 2.1 Consensus size: 53
798105 ACGTGACTCG
*
798115 CTTTATCCCACACGGTCCCATCCAATTACCAAAATTTCAAAACAAGTCCACAA
1 CTTTCTCCCACACGGTCCCATCCAATTACCAAAATTTCAAAACAAGTCCACAA
798168 CTTTCTCCCACACGGTCCCATCCAATTACCAAAATTTCAAAACAAGTCCACAA
1 CTTTCTCCCACACGGTCCCATCCAATTACCAAAATTTCAAAACAAGTCCACAA
798221 CTTTCT
1 CTTTCT
798227 AAAGTTTAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 58 1.00
ACGTcount: A:0.35, C:0.35, G:0.05, T:0.25
Consensus pattern (53 bp):
CTTTCTCCCACACGGTCCCATCCAATTACCAAAATTTCAAAACAAGTCCACAA
Found at i:803640 original size:60 final size:60
Alignment explanation
Indices: 803560--803684 Score: 166
Period size: 60 Copynumber: 2.1 Consensus size: 60
803550 GAAAATATGA
* *
803560 ATAGTCATGTGACTATTTTGTAACTTTT-AGTAGT-TGAGGGACTCAACAAAGTAATACCCT
1 ATAGTCAGGTGACTATTTTGTAACTTTTGA-TAGTCAG-GGGACTCAACAAAGTAATACCCT
* *
803620 ATAGTCAGGTGA-TCATTTTGTAACTTTTGATAGTCAGGGGACTCAACAAAGTAATATCTT
1 ATAGTCAGGTGACT-ATTTTGTAACTTTTGATAGTCAGGGGACTCAACAAAGTAATACCCT
803680 ATAGT
1 ATAGT
803685 TGGGGGACCA
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
59 1 0.02
60 55 0.95
61 2 0.03
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (60 bp):
ATAGTCAGGTGACTATTTTGTAACTTTTGATAGTCAGGGGACTCAACAAAGTAATACCCT
Found at i:803697 original size:60 final size:60
Alignment explanation
Indices: 803560--803702 Score: 155
Period size: 60 Copynumber: 2.4 Consensus size: 60
803550 GAAAATATGA
* * * *
803560 ATAGTCATGTGACTATTTTGTAACTTTTAGTAGTTGAGGGACTCAACAAAGTAATACCCT
1 ATAGTCAGGGGACCATTTTGTAACTTTTAGTAGTAGAGGGACTCAACAAAGTAATACCCT
* * * *
803620 ATAGTCAGGTGATCATTTTGTAACTTTT-GATAGTCAG-GGGACTCAACAAAGTAATATCTT
1 ATAGTCAGGGGACCATTTTGTAACTTTTAG-TAGT-AGAGGGACTCAACAAAGTAATACCCT
**
803680 ATAGTTGGGGGACCATTTGTGTA
1 ATAGTCAGGGGACCATTT-TGTA
803703 CTGTACCCTA
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
59 1 0.01
60 64 0.91
61 5 0.07
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (60 bp):
ATAGTCAGGGGACCATTTTGTAACTTTTAGTAGTAGAGGGACTCAACAAAGTAATACCCT
Found at i:806570 original size:29 final size:29
Alignment explanation
Indices: 806537--806616 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
806527 AGAGGATTAT
*
806537 AGTTTAGGGATGAAATTAGAATG-TTCAAA
1 AGTTTAGGGATGAAATTAGAATGAATC-AA
* * *
806566 AGTTTAAGGACT-AATTTAGAATGAATCAT
1 AGTTTAGGGA-TGAAATTAGAATGAATCAA
*
806595 AGTTTGGGGATGAAATTAGAAT
1 AGTTTAGGGATGAAATTAGAAT
806617 ATTCCAATGT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
28 1 0.02
29 37 0.90
30 3 0.07
ACGTcount: A:0.40, C:0.04, G:0.24, T:0.33
Consensus pattern (29 bp):
AGTTTAGGGATGAAATTAGAATGAATCAA
Found at i:806570 original size:60 final size:58
Alignment explanation
Indices: 806477--806630 Score: 173
Period size: 60 Copynumber: 2.6 Consensus size: 58
806467 TATTTGGACG
* ** ** * *
806477 AGTTTGGGGATAAAATCGGAATATTCAAAAGTTTGGGGACTAATATATAAAGAGGATTAT
1 AGTTTGGGGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATATAGAAAGA--ATCAT
* * * *
806537 AGTTTAGGGATGAAATTAGAATGTTCAAAAGTTTAAGGACTAATTTAGAATGAATCAT
1 AGTTTGGGGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATATAGAAAGAATCAT
* *
806595 AGTTTGGGGATGAAATTAGAATATTCCAATGTTTAA
1 AGTTTGGGGATGAAATTAGAATATTCAAAAGTTTAA
806631 TGACCAATTT
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
58 36 0.46
60 43 0.54
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.32
Consensus pattern (58 bp):
AGTTTGGGGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATATAGAAAGAATCAT
Found at i:806612 original size:58 final size:58
Alignment explanation
Indices: 806477--806648 Score: 184
Period size: 58 Copynumber: 2.9 Consensus size: 58
806467 TATTTGGACG
* ** ** * *
806477 AGTTTGGGGATAAAATCGGAATATTCAAAAGTTTGGGGACTAATATATAAAGA-GGATTAT
1 AGTTTGGGGATGAAATTAGAATATTCAAAAGTTTAAGGACTAAT-T-TAAA-ATGAATCAT
* * *
806537 AGTTTAGGGATGAAATTAGAATGTTCAAAAGTTTAAGGACTAATTTAGAATGAATCAT
1 AGTTTGGGGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAAAATGAATCAT
* * * *
806595 AGTTTGGGGATGAAATTAGAATATTCCAATGTTTAATGACCAATTTAAAATGAA
1 AGTTTGGGGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAAAATGAA
806649 GATTATAATT
Statistics
Matches: 94, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
57 1 0.01
58 55 0.59
59 1 0.01
60 37 0.39
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.32
Consensus pattern (58 bp):
AGTTTGGGGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAAAATGAATCAT
Found at i:806840 original size:17 final size:17
Alignment explanation
Indices: 806818--806868 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
806808 TTTTATGAAA
806818 TATAAAATAATTTTTTT
1 TATAAAATAATTTTTTT
* *
806835 TAT-AAATAAAATTATTT
1 TATAAAAT-AATTTTTTT
*
806852 GATATAAATAATTTTTT
1 TATA-AAATAATTTTTT
806869 ATAGAATATA
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
16 4 0.15
17 12 0.46
18 6 0.23
19 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
TATAAAATAATTTTTTT
Found at i:806879 original size:17 final size:16
Alignment explanation
Indices: 806830--806880 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
806820 TAAAATAATT
*
806830 TTTTTTATAAATAAAA
1 TTTTTTATAAATATAA
*
806846 TTATTTGATATAA-ATAA
1 TT-TTTTATA-AATATAA
806863 TTTTTTATAGAATATAA
1 TTTTTTATA-AATATAA
806880 T
1 T
806881 ATTATTTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 10 0.36
17 16 0.57
18 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (16 bp):
TTTTTTATAAATATAA
Found at i:806885 original size:36 final size:36
Alignment explanation
Indices: 806817--806889 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
806807 ATTTTATGAA
* *
806817 ATATAAAATAATTTTTTTTATAAATAAAATTATTTG
1 ATATAAAATAATTTTTTATAGAAATAAAATTATTTG
*
806853 ATAT-AAATAATTTTTTATAGAATATAATATTATTTG
1 ATATAAAATAATTTTTTATAGAA-ATAAAATTATTTG
806889 A
1 A
806890 AAATTATACT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 16 0.48
36 17 0.52
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (36 bp):
ATATAAAATAATTTTTTATAGAAATAAAATTATTTG
Found at i:814650 original size:6 final size:6
Alignment explanation
Indices: 814641--814674 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
814631 TTTTTATTTG
814641 TTCGTC TTCGTC TTCGTC TTCGTC TTCGTC TTCG
1 TTCGTC TTCGTC TTCGTC TTCGTC TTCGTC TTCG
814675 ATTTTGATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.18, T:0.50
Consensus pattern (6 bp):
TTCGTC
Found at i:817964 original size:21 final size:21
Alignment explanation
Indices: 817849--817966 Score: 80
Period size: 21 Copynumber: 5.7 Consensus size: 21
817839 GCGAAATAAA
*
817849 AATCGCAACGCGA-TCTCCAG
1 AATCGCAACGCGATTTTCCAG
** * *
817869 AATCGCAAATC-AGTTCCCAG
1 AATCGCAACGCGATTTTCCAG
* **
817889 AATCGCAACGCGATTATGAAG
1 AATCGCAACGCGATTTTCCAG
* ** *
817910 AATCGCAATGCGATAGTACA-
1 AATCGCAACGCGATTTTCCAG
**
817930 AATTCGCATTGCGATTTTCCAG
1 AA-TCGCAACGCGATTTTCCAG
817952 AATCGCAACGCGATT
1 AATCGCAACGCGATT
817967 CTGACTATCG
Statistics
Matches: 72, Mismatches: 22, Indels: 7
0.71 0.22 0.07
Matches are distributed among these distances:
19 1 0.01
20 25 0.35
21 44 0.61
22 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.22
Consensus pattern (21 bp):
AATCGCAACGCGATTTTCCAG
Found at i:817997 original size:41 final size:41
Alignment explanation
Indices: 817973--818162 Score: 285
Period size: 41 Copynumber: 4.7 Consensus size: 41
817963 GATTCTGACT
** *
817973 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
818014 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
* *
818055 ATCACAACGGCAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
* *
818096 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCTGTAA
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
* *
818136 ATCGCAATGAGAATACGT-AAATCGCAA
1 ATCGCAACGACAATACGTAAAATCGCAA
818163 TGCGATTTTG
Statistics
Matches: 139, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
40 47 0.34
41 92 0.66
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.18
Consensus pattern (41 bp):
ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:818017 original size:20 final size:20
Alignment explanation
Indices: 817973--818162 Score: 195
Period size: 20 Copynumber: 9.3 Consensus size: 20
817963 GATTCTGACT
*
817973 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGCGTATCCGT-AA
817994 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* *
818014 ATCGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
818035 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
818055 ATCACAACG-GCAATACGTAAA
1 ATCGCAACGCG-TATCCGT-AA
818076 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
818096 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
*
818116 ATCGCAACGCGTATCTGTAA
1 ATCGCAACGCGTATCCGTAA
* * * *
818136 ATCGCAATGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
818156 ATCGCAA
1 ATCGCAA
818163 TGCGATTTTG
Statistics
Matches: 140, Mismatches: 23, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
19 1 0.01
20 89 0.64
21 49 0.35
22 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGTATCCGTAA
Found at i:819786 original size:33 final size:34
Alignment explanation
Indices: 819744--819822 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 34
819734 TTAACTGTAT
819744 AAAATCGCAACGAGAGAATCGCAATGCG-AAATG
1 AAAATCGCAACGAGAGAATCGCAATGCGAAAATG
*
819777 AAAATCGCAACGAGTGAATCGCAATGCGAAAATG
1 AAAATCGCAACGAGAGAATCGCAATGCGAAAATG
*
819811 AAAATCGTAACG
1 AAAATCGCAACG
819823 CGAAAATTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
33 27 0.63
34 16 0.37
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.14
Consensus pattern (34 bp):
AAAATCGCAACGAGAGAATCGCAATGCGAAAATG
Found at i:819896 original size:33 final size:34
Alignment explanation
Indices: 819840--819929 Score: 110
Period size: 33 Copynumber: 2.7 Consensus size: 34
819830 TTCGCGTTAC
819840 GATTTTCATTTTCGCATTGCGATTCACTCGTTGT
1 GATTTTCATTTTCGCATTGCGATTCACTCGTTGT
* * *
819874 GATTTTCA-TTTCGCATTTCGATTCTCTCGTTGC
1 GATTTTCATTTTCGCATTGCGATTCACTCGTTGT
** * *
819907 GATAGTCATTTCCGCGTTGCGAT
1 GATTTTCATTTTCGCATTGCGAT
819930 AGTCTGTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
33 28 0.60
34 19 0.40
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.44
Consensus pattern (34 bp):
GATTTTCATTTTCGCATTGCGATTCACTCGTTGT
Found at i:820050 original size:14 final size:14
Alignment explanation
Indices: 820031--820064 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
820021 CATCAATTAA
820031 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
820045 ACAAATCATCTTTT
1 ACAAATCAACATTT
820059 ACAAAT
1 ACAAAT
820065 TAATTAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:820383 original size:21 final size:21
Alignment explanation
Indices: 820343--820383 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
820333 GTTGCAATTC
** *
820343 TCTCGTTGCGATTTTTATTTA
1 TCTCGTTGCGATAGTCATTTA
820364 TCTCGTTGCGATAGTCATTT
1 TCTCGTTGCGATAGTCATTT
820384 TCATGTTGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.17, G:0.17, T:0.51
Consensus pattern (21 bp):
TCTCGTTGCGATAGTCATTTA
Found at i:820401 original size:20 final size:20
Alignment explanation
Indices: 820378--820418 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
820368 GTTGCGATAG
820378 TCATTTTCATGTTGCAATTT
1 TCATTTTCATGTTGCAATTT
*
820398 TCATTTTCATGTTGCGATTT
1 TCATTTTCATGTTGCAATTT
820418 T
1 T
820419 AAGTTTAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.15, G:0.12, T:0.56
Consensus pattern (20 bp):
TCATTTTCATGTTGCAATTT
Found at i:821004 original size:20 final size:20
Alignment explanation
Indices: 820979--821148 Score: 173
Period size: 20 Copynumber: 8.3 Consensus size: 20
820969 AAAAATCGCT
820979 TTGCGATTTACGGATACGCG
1 TTGCGATTTACGGATACGCG
* *
820999 TTGCGATTTTACGTAT-TGTCG
1 TTGCGA-TTTACGGATACG-CG
*
821020 TTGCGATTTACGGATACGCA
1 TTGCGATTTACGGATACGCG
* * * *
821040 TTACGATTTACGTATTCTCG
1 TTGCGATTTACGGATACGCG
821060 TTGCGATTTACGGATACGCG
1 TTGCGATTTACGGATACGCG
* *
821080 TTGCGATTTTACGTAT-TGTCG
1 TTGCGA-TTTACGGATACG-CG
*
821101 TTGTGATTTACGGATACGCG
1 TTGCGATTTACGGATACGCG
* *
821121 ATGCGATTTTACGGATACTCG
1 TTGCGA-TTTACGGATACGCG
821142 TTGCGAT
1 TTGCGAT
821149 AGTCAGAATC
Statistics
Matches: 120, Mismatches: 23, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
20 69 0.57
21 51 0.43
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
TTGCGATTTACGGATACGCG
Found at i:821036 original size:41 final size:41
Alignment explanation
Indices: 820979--821148 Score: 261
Period size: 41 Copynumber: 4.2 Consensus size: 41
820969 AAAAATCGCT
*
820979 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCG
1 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCG
* *
821020 TTGCGATTTACGGATACGCATTACGA-TTTACGTATTCTCG
1 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCG
*
821060 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCG
1 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCG
* * * *
821101 TTGTGATTTACGGATACGCGATGCGATTTTACGGATACTCG
1 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCG
821142 TTGCGAT
1 TTGCGAT
821149 AGTCAGAATC
Statistics
Matches: 116, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 37 0.32
41 79 0.68
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (41 bp):
TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCG
Found at i:821114 original size:81 final size:82
Alignment explanation
Indices: 820979--821148 Score: 281
Period size: 81 Copynumber: 2.1 Consensus size: 82
820969 AAAAATCGCT
820979 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGC-ATTA
1 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCGA-TA
* *
821043 CGA-TTTACGTATTCTCG
65 CGATTTTACGGATACTCG
* *
821060 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGTGATTTACGGATACGCGATGC
1 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCGATAC
821125 GATTTTACGGATACTCG
66 GATTTTACGGATACTCG
821142 TTGCGAT
1 TTGCGAT
821149 AGTCAGAATC
Statistics
Matches: 83, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
81 63 0.76
82 20 0.24
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (82 bp):
TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCGATAC
GATTTTACGGATACTCG
Found at i:821180 original size:20 final size:20
Alignment explanation
Indices: 821157--821209 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
821147 ATAGTCAGAA
*
821157 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
821177 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
821197 TCGCGTTGCGATT
1 TCGCGTTGCGATT
821210 CTGGAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.13, C:0.19, G:0.25, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:821190 original size:81 final size:81
Alignment explanation
Indices: 820979--821170 Score: 255
Period size: 81 Copynumber: 2.4 Consensus size: 81
820969 AAAAATCGCT
* *
820979 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCATTAC
1 TTGCGATTCACGAATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCATTAC
* *
821044 GATTTACGTATTCTCG
66 GATTTACGGATACTCG
* * * *
821060 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGTGATTTACGGATACGCGA-TG
1 TTGCGATTCACGAATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGC-ATTA
821124 CGATTTTACGGATACTCG
65 CGA-TTTACGGATACTCG
821142 TTGCGATAGTCA-GAAT-CGCGTTGCGATTT
1 TTGCGAT--TCACGAATACGCGTTGCGATTT
821171 ATATGTTCGC
Statistics
Matches: 101, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
81 63 0.62
82 33 0.33
83 3 0.03
84 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.37
Consensus pattern (81 bp):
TTGCGATTCACGAATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCATTAC
GATTTACGGATACTCG
Found at i:821270 original size:42 final size:42
Alignment explanation
Indices: 821177--821270 Score: 95
Period size: 42 Copynumber: 2.3 Consensus size: 42
821167 ATTTATATGT
* *
821177 TCGCGTTGCG-ATTTTCATATTCGCGTTGCGATTCTGGAAAA
1 TCGCGTTGCGAATTTTCATATTCGCATTGCGATTCTGCAAAA
** * *
821218 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTCTTCATAA
1 TCGCGTTGCGAATTT-TCA-TATTCGCATTGCGATTCTGCAAAA
821260 TCGCGTTGCGA
1 TCGCGTTGCGA
821271 TTCTGGGAGC
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
41 8 0.19
42 31 0.74
43 3 0.07
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.35
Consensus pattern (42 bp):
TCGCGTTGCGAATTTTCATATTCGCATTGCGATTCTGCAAAA
Found at i:821308 original size:20 final size:19
Alignment explanation
Indices: 821259--821312 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
821249 ATTCTTCATA
821259 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
821278 AGCTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
821299 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
821313 TTTATTTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.15, C:0.19, G:0.33, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:821362 original size:18 final size:19
Alignment explanation
Indices: 821300--821353 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
821290 ATTCTGGAGA
*
821300 TCGCGTTGCGATTTTTATT
1 TCGCATTGCGATTTTTATT
821319 TCGCATTGCGATTTTTATT
1 TCGCATTGCGATTTTTATT
821338 TCGCATTGCGATTTTT
1 TCGCATTGCGATTTTT
821354 TTGGTCATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.13, C:0.17, G:0.19, T:0.52
Consensus pattern (19 bp):
TCGCATTGCGATTTTTATT
Found at i:822661 original size:3 final size:3
Alignment explanation
Indices: 822645--822692 Score: 64
Period size: 3 Copynumber: 16.0 Consensus size: 3
822635 TTGTAACCGG
822645 TAA TAA TTAA -AA TAA TAA TAA TTAA -AA TAA TAA TAA TAA TAA TAA
1 TAA TAA -TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
822690 TAA
1 TAA
822693 ATAAAACACA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.10
3 31 0.76
4 6 0.15
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:822665 original size:15 final size:15
Alignment explanation
Indices: 822645--822692 Score: 80
Period size: 15 Copynumber: 3.2 Consensus size: 15
822635 TTGTAACCGG
822645 TAATAATTAAAATAA
1 TAATAATTAAAATAA
822660 TAATAATTAAAATAA
1 TAATAATTAAAATAA
822675 TAATAA-TAATAATAA
1 TAATAATTAA-AATAA
822690 TAA
1 TAA
822693 ATAAAACACA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
14 3 0.09
15 29 0.91
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TAATAATTAAAATAA
Found at i:824097 original size:35 final size:35
Alignment explanation
Indices: 824024--824109 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 35
824014 CAAAACATCA
* * * *
824024 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTAATTCTAAACCACAAATTCCAAAATAAT
* * * *
824059 TCAATTTTATTCTAAACCATAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCACAAATTCCAAAATAAT
*
824094 TCAATTAAATTCTAAA
1 TCAATTTAATTCTAAA
824110 GTACTTCAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.42, C:0.20, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCACAAATTCCAAAATAAT
Found at i:824103 original size:21 final size:21
Alignment explanation
Indices: 824078--824120 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
824068 TTCTAAACCA
824078 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
*
824099 TAAATTCTAAAGTACTTCAAT
1 TAAATTCTAAAATACTTCAAT
824120 T
1 T
824121 TAAGGTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.40
Consensus pattern (21 bp):
TAAATTCTAAAATACTTCAAT
Found at i:824275 original size:16 final size:18
Alignment explanation
Indices: 824243--824276 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
824233 TATTAATGTA
824243 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
824261 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
824277 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:825300 original size:37 final size:37
Alignment explanation
Indices: 825259--825332 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
825249 CTTCTATATC
825259 CTAACTACTTTTTTTAATTAAAAAATTTCTTCAACAG
1 CTAACTACTTTTTTTAATTAAAAAATTTCTTCAACAG
825296 CTAACTACTTTTTTTAATTAAAAAATTTCTTCAACAG
1 CTAACTACTTTTTTTAATTAAAAAATTTCTTCAACAG
825333 ATAAGAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.38, C:0.16, G:0.03, T:0.43
Consensus pattern (37 bp):
CTAACTACTTTTTTTAATTAAAAAATTTCTTCAACAG
Found at i:825862 original size:64 final size:65
Alignment explanation
Indices: 825794--825917 Score: 205
Period size: 67 Copynumber: 1.9 Consensus size: 65
825784 AAAGGAGTCC
* *
825794 GAGAAGCCACTGAAAAGAAC-GGAGGAGCCGATTAAAGCAGCGAACCAGAAAAATCTGGGAGTAG
1 GAGAAGCCACTGAAAAGAACGGGAGGAGACGATGAAAGCAGCGAACCAGAAAAATCTGGGAGTAG
825858 GAGAAGCCACTGAAAAGAACGGAGGAGGAGACGATGAAAGCAGCGAACCAGAAAAATCTG
1 GAGAAGCCACTGAAAAGAAC-G-GGAGGAGACGATGAAAGCAGCGAACCAGAAAAATCTG
825918 CGTGGGGAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
64 20 0.36
67 35 0.64
ACGTcount: A:0.44, C:0.17, G:0.31, T:0.08
Consensus pattern (65 bp):
GAGAAGCCACTGAAAAGAACGGGAGGAGACGATGAAAGCAGCGAACCAGAAAAATCTGGGAGTAG
Found at i:827562 original size:21 final size:21
Alignment explanation
Indices: 827538--827604 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
827528 GCGTTGCATT
827538 TCGCATTGCGATAGTTGAAAA
1 TCGCATTGCGATAGTTGAAAA
* * ** **
827559 TCGCGTTGCGAT-TTTCCATT
1 TCGCATTGCGATAGTTGAAAA
*
827579 TCGCGTTGCGATAGTTGAAAA
1 TCGCATTGCGATAGTTGAAAA
827600 TCGCA
1 TCGCA
827605 ACACGATTTT
Statistics
Matches: 33, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
20 15 0.45
21 18 0.55
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (21 bp):
TCGCATTGCGATAGTTGAAAA
Found at i:827723 original size:41 final size:41
Alignment explanation
Indices: 827534--827716 Score: 244
Period size: 41 Copynumber: 4.5 Consensus size: 41
827524 ATTCGCGTTG
* ***
827534 CATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCAACGCGATTTTC
*
827575 CATTTCGCGTTGCGATAGTTGAAAATCGCAACACGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCAACGCGATTTTC
827616 CATTTCGCGTTGCGATAGTTGAAAATCGCAACGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCAACGCGATTTTC
* * ***
827657 CATTTCGCGTTGCGATAGTCT-ACAGT-GTCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGT-TGAAAATCG-CAACGCGATTTTC
827698 CATTTCGCGTTGCGATAGT
1 CATTTCGCGTTGCGATAGT
827717 CTACAGTAAA
Statistics
Matches: 129, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
40 1 0.01
41 127 0.98
42 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.35
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCAACGCGATTTTC
Found at i:827814 original size:6 final size:6
Alignment explanation
Indices: 827803--827834 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
827793 GACACGTATT
827803 ACCACG ACCACG ACCACG ACCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
827835 CGAGATGGCG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.31, C:0.53, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:828332 original size:6 final size:6
Alignment explanation
Indices: 828321--828374 Score: 99
Period size: 6 Copynumber: 9.0 Consensus size: 6
828311 TCCGTCTCGC
*
828321 CGTGGT CGTGGT CGTCGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT
1 CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT
828369 CGTGGT
1 CGTGGT
828375 AATACGTGTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.00, C:0.19, G:0.48, T:0.33
Consensus pattern (6 bp):
CGTGGT
Found at i:828500 original size:41 final size:41
Alignment explanation
Indices: 828454--828639 Score: 336
Period size: 41 Copynumber: 4.5 Consensus size: 41
828444 TTTTTAATTT
828454 ACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGAC
1 ACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGAC
*
828495 ACTGTAGACTATCGCAACGCGAGATGGAAAATCGCAACGAC
1 ACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGAC
* *
828536 ACTGTACACTACCGCAACGCGAAATGGAAAATCGCAACGAC
1 ACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGAC
*
828577 ACTGTAGACTATCGCAACGCGAAATGGAAAATAGCAACGAC
1 ACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGAC
828618 ACTGTAGACTATCGCAACGCGA
1 ACTGTAGACTATCGCAACGCGA
828640 TTTTCAACTA
Statistics
Matches: 138, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 138 1.00
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (41 bp):
ACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGAC
Found at i:831082 original size:13 final size:13
Alignment explanation
Indices: 831046--831083 Score: 60
Period size: 12 Copynumber: 3.0 Consensus size: 13
831036 GAGGTCTCCC
831046 TTTTTTTGTTCGA
1 TTTTTTTGTTCGA
*
831059 TTTTCTT-TTCGA
1 TTTTTTTGTTCGA
831071 TTTTTTTGTTCGA
1 TTTTTTTGTTCGA
831084 AAAGCTCCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.08, C:0.11, G:0.13, T:0.68
Consensus pattern (13 bp):
TTTTTTTGTTCGA
Found at i:831396 original size:31 final size:31
Alignment explanation
Indices: 831330--831388 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 31
831320 AATTTAAGGA
*
831330 AAAATGGTTTTTGGACTTGAATTGAATTTAC
1 AAAATGGTATTTGGACTTGAATTGAATTTAC
831361 AAAAT-GTATTTGGACTT-AATTGAATTTA
1 AAAATGGTATTTGGACTTGAATTGAATTTA
831389 TTCAAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 11 0.41
30 11 0.41
31 5 0.19
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.42
Consensus pattern (31 bp):
AAAATGGTATTTGGACTTGAATTGAATTTAC
Found at i:831479 original size:19 final size:19
Alignment explanation
Indices: 831455--831501 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
831445 TGTTTTTATG
*
831455 AATAGTAATTTACTATTTA
1 AATAGTAAATTACTATTTA
*
831474 AATAGTAAATTACTATTTG
1 AATAGTAAATTACTATTTA
*
831493 AACAGTAAA
1 AATAGTAAA
831502 CCACTGTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (19 bp):
AATAGTAAATTACTATTTA
Found at i:831650 original size:21 final size:21
Alignment explanation
Indices: 831624--831665 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
831614 ATTTGAATAT
*
831624 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
831645 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
831666 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:831727 original size:21 final size:21
Alignment explanation
Indices: 831694--831733 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
831684 TTTTTGCAGA
*
831694 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
831716 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
831734 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:831987 original size:34 final size:31
Alignment explanation
Indices: 831948--832016 Score: 93
Period size: 34 Copynumber: 2.1 Consensus size: 31
831938 TTTTGTAAAG
*
831948 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTA-CCCG-G-AAAAACTA
*
831982 GGGAAAGGTTCTAGTTTACCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTACCCGGAAAAACTA
832013 GGGA
1 GGGA
832017 GTTTGTAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
31 11 0.33
32 1 0.03
33 4 0.12
34 17 0.52
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (31 bp):
GGGAAAGGTTCTAGCTTACCCGGAAAAACTA
Found at i:832594 original size:6 final size:6
Alignment explanation
Indices: 832529--832592 Score: 76
Period size: 6 Copynumber: 10.2 Consensus size: 6
832519 TTGGACCTGT
832529 AAAAT- AAAATA AAACATA AAAATA AAAATA AAAATA AAAATAA TAAAATA
1 AAAATA AAAATA AAA-ATA AAAATA AAAATA AAAATA AAAAT-A -AAAATA
*
832579 AATATA AATAATA A
1 AAAATA AA-AATA A
832593 TATCAATATG
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
5 5 0.10
6 30 0.58
7 12 0.23
8 5 0.10
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:832594 original size:12 final size:11
Alignment explanation
Indices: 832530--832600 Score: 51
Period size: 10 Copynumber: 6.5 Consensus size: 11
832520 TGGACCTGTA
*
832530 AAATAAAATAA
1 AAATAAAATAT
*
832541 AACATAAAAATAA
1 AA-AT-AAAATAT
832554 AAATAAAA-AT
1 AAATAAAATAT
832564 AAA-AATAATA-
1 AAATAA-AATAT
832574 AAAT-AAATAT
1 AAATAAAATAT
832584 AAATAATAATAT
1 AAATAA-AATAT
*
832596 CAATA
1 AAATA
832601 TGGGGATAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
9 6 0.12
10 14 0.28
11 8 0.16
12 13 0.26
13 9 0.18
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (11 bp):
AAATAAAATAT
Found at i:833024 original size:135 final size:135
Alignment explanation
Indices: 832786--833258 Score: 628
Period size: 135 Copynumber: 3.5 Consensus size: 135
832776 ATTCCACTGT
* * * * * *
832786 TCTTCAGGGAAAATTGAATC-AAGGTTAATTTGCTTCACTGCTATACAAGAATACCAAATCTGAA
1 TCTTCAGGGAAAATTGAATCGAA-CTTGATTTGCTTCGCTGCTATTCAGGAAGACCAAATCTGAA
* * * *
832850 AGAAGAAGAACATGCTCTGTTACTCTTTAGGGGAGATCAGACTCGAGAAAAAATTTGATCAACTT
65 AGAAGAAGAATATGCTCCGATACTCTTTAGGGGAGATCAGACTCGAGAAAAATTTTGATCAACTT
*
832915 CTCTGT
130 CTCTGC
*
832921 TCTTCAGGGAAAATTGAATCGAACTTGATTTGCTTCGCTGCTATTCAGGAAGACCAAATTTGAAA
1 TCTTCAGGGAAAATTGAATCGAACTTGATTTGCTTCGCTGCTATTCAGGAAGACCAAATCTGAAA
* *
832986 GAAGAAGAATATGCTCCGATACTCTTTAGGGGAGATCAGACTTGAGAAAAATTTTGATCCACTTC
66 GAAGAAGAATATGCTCCGATACTCTTTAGGGGAGATCAGACTCGAGAAAAATTTTGATCAACTTC
*
833051 GCTGC
131 TCTGC
* * * * *
833056 TCTTTA-GGAAAGATTGAATCGAACTTGATTTTCTTCGCTGTTCTTCAGGAATACCAAATCTGAA
1 TCTTCAGGGAAA-ATTGAATCGAACTTGATTTGCTTCGCTGCTATTCAGGAAGACCAAATCTGAA
* ** *
833120 AGAAGAAGAATCTGCTCCTCTACTCTTTAGGGGAGATCAGACTCGAGAAAAGTTTTGATCAACTT
65 AGAAGAAGAATATGCTCCGATACTCTTTAGGGGAGATCAGACTCGAGAAAAATTTTGATCAACTT
833185 -TGCTGC
130 CT-CTGC
* * * * * *
833191 TCTTCAGGGAAGATTAAATCAAACTTGATTTGCTTCGTTGCTCTTCAGGAAGATCAAATCTGAAA
1 TCTTCAGGGAAAATTGAATCGAACTTGATTTGCTTCGCTGCTATTCAGGAAGACCAAATCTGAAA
833256 GAA
66 GAA
833259 AAAAGAATCT
Statistics
Matches: 297, Mismatches: 37, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
134 5 0.02
135 286 0.96
136 6 0.02
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (135 bp):
TCTTCAGGGAAAATTGAATCGAACTTGATTTGCTTCGCTGCTATTCAGGAAGACCAAATCTGAAA
GAAGAAGAATATGCTCCGATACTCTTTAGGGGAGATCAGACTCGAGAAAAATTTTGATCAACTTC
TCTGC
Found at i:837686 original size:2 final size:2
Alignment explanation
Indices: 837681--837706 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
837671 ATTTAACCTA
837681 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
837707 TTGTGGACTA
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:838866 original size:11 final size:10
Alignment explanation
Indices: 838824--838870 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 10
838814 GGCTTTATAA
838824 ATAATAATAAT
1 ATAATAAT-AT
838835 ATAATAATAGT
1 ATAATAATA-T
838846 AT-ATATATAT
1 ATAATA-ATAT
838856 ATAATAAATAT
1 ATAAT-AATAT
838867 ATAA
1 ATAA
838871 AAACATCACT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
10 7 0.22
11 24 0.75
12 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (10 bp):
ATAATAATAT
Found at i:839317 original size:174 final size:171
Alignment explanation
Indices: 839001--839457 Score: 601
Period size: 174 Copynumber: 2.6 Consensus size: 171
838991 GAGAAATTCG
* * * * * *
839001 TTCCAATACTCTTCCGTGGAGAGCGAATTTTGCTCTAGCTCTTGCTCCTACTTCACTACTTTTTT
1 TTCCACTACTCTTCCGTGGAGAGCAAATTTTG----A--TATTGGTCCTGCTTCACTAC-TTTTC
* * * ** *
839066 GTGAATGCTGAATATGACTTGTAAATGATTTCTTCACTACT-TTTTTGTGAAGGTTGAATTTGCA
59 GTGAAGGCTGAAGATGACTTG-AAATGATTTTTTCACTACTCTTTTTGTGAAGACTAAATTTGCA
*
839130 TTACTTTATTACTCTTTCATGAAGGCTTCATACTTTGCTGAAAAATCCA
123 TTACTTCATTACTCTTTCATGAAGGCTTCATACTTTGCTGAAAAATCCA
*
839179 TTCCACTACTCTTCCGTGGAGAGCAAATTTTGATATTGGTCCTGTTTCACTACTCTTTCGTGAAG
1 TTCCACTACTCTTCCGTGGAGAGCAAATTTTGATATTGGTCCTGCTTCACTACT-TTTCGTGAAG
839244 GCTGAAGATGACTTGCAAATGATTTGTTTCACTACTCTTTTTGTGAAGACTAAATTTGCATTACT
65 GCTGAAGATGACTTG-AAATGATTT-TTTCACTACTCTTTTTGTGAAGACTAAATTTGCATTACT
*
839309 TCATTACTCTTTCATTAAGGCTTCATACTTTGCTGAAAAATCCA
128 TCATTACTCTTTCATGAAGGCTTCATACTTTGCTGAAAAATCCA
* * *
839353 TTCTACTACTCTTCCGTGGAGAGCGAATTTTGATCTTGGTCCTGCTTCACTACTTTTCCGTGAAG
1 TTCCACTACTCTTCCGTGGAGAGCAAATTTTGATATTGGTCCTGCTTCACTACTTTT-CGTGAAG
* *
839418 GCTGAAGATGACTTGAAAAGAATCTATTTCACTACTCTTT
65 GCTGAAGATGACTTGAAATG-AT-TTTTTCACTACTCTTT
839458 CATGAAGATC
Statistics
Matches: 251, Mismatches: 22, Indels: 16
0.87 0.08 0.06
Matches are distributed among these distances:
171 1 0.00
172 47 0.19
173 16 0.06
174 156 0.62
175 1 0.00
178 30 0.12
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (171 bp):
TTCCACTACTCTTCCGTGGAGAGCAAATTTTGATATTGGTCCTGCTTCACTACTTTTCGTGAAGG
CTGAAGATGACTTGAAATGATTTTTTCACTACTCTTTTTGTGAAGACTAAATTTGCATTACTTCA
TTACTCTTTCATGAAGGCTTCATACTTTGCTGAAAAATCCA
Found at i:839584 original size:20 final size:20
Alignment explanation
Indices: 839561--839719 Score: 169
Period size: 20 Copynumber: 8.0 Consensus size: 20
839551 CTGACAGATG
839561 ACCCGAAGGATTTACAAATT
1 ACCCGAAGGATTTACAAATT
*
839581 ACCCAAAGGATTTACAAATT
1 ACCCGAAGGATTTACAAATT
* * *
839601 ACCCTAAAGATTTACAATTT
1 ACCCGAAGGATTTACAAATT
*
839621 ACCCGAA-CACTTTACAAATT
1 ACCCGAAGGA-TTTACAAATT
*
839641 ACCCGAAGGCTTTACAAATT
1 ACCCGAAGGATTTACAAATT
* * * *
839661 ACTCGAAGGCTTTATAAATG
1 ACCCGAAGGATTTACAAATT
* *
839681 A-CCGAAGGTTTTACAAATG
1 ACCCGAAGGATTTACAAATT
* *
839700 ACCCAAAGGCTTTACAAATT
1 ACCCGAAGGATTTACAAATT
839720 CATGGGAAAT
Statistics
Matches: 118, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
19 17 0.14
20 101 0.86
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (20 bp):
ACCCGAAGGATTTACAAATT
Found at i:844436 original size:11 final size:11
Alignment explanation
Indices: 844408--844441 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
844398 ACATGTTTAA
*
844408 ATTATTACTTTA
1 ATTATTA-TTTT
844420 ATTATTATTTT
1 ATTATTATTTT
844431 ATTATTATTTT
1 ATTATTATTTT
844442 CATCTTAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (11 bp):
ATTATTATTTT
Found at i:846211 original size:36 final size:36
Alignment explanation
Indices: 846164--846234 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
846154 GAGCTATGCA
846164 CACAAAGATCCTGTTAGA-TTGATACCAAAAGTATTC
1 CACAAAGATCCTGTTAGATTTG-TACCAAAAGTATTC
846200 CACAAAGATCCTGTTAGATTTGTACCAAAAGTATT
1 CACAAAGATCCTGTTAGATTTGTACCAAAAGTATT
846235 TTATGGTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
36 31 0.91
37 3 0.09
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (36 bp):
CACAAAGATCCTGTTAGATTTGTACCAAAAGTATTC
Found at i:846841 original size:21 final size:21
Alignment explanation
Indices: 846817--846856 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
846807 TTTTCATACA
*
846817 TGCATTTTCATTTTGCATCTT
1 TGCATTTTCATTTTACATCTT
846838 TGCATTTTCATTTTACATC
1 TGCATTTTCATTTTACATC
846857 CACATTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.20, G:0.07, T:0.55
Consensus pattern (21 bp):
TGCATTTTCATTTTACATCTT
Found at i:852203 original size:22 final size:22
Alignment explanation
Indices: 852175--852234 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 22
852165 TCTACATCTA
852175 CATTCTTCAAAGATGATAGATT
1 CATTCTTCAAAGATGATAGATT
*
852197 CATTCTTCAAATATGATAGATT
1 CATTCTTCAAAGATGATAGATT
*
852219 C-TCTTTTCAAAGATGA
1 CAT-TCTTCAAAGATGA
852235 AAGCTTTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 1 0.03
22 33 0.97
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (22 bp):
CATTCTTCAAAGATGATAGATT
Found at i:852881 original size:123 final size:123
Alignment explanation
Indices: 852676--852986 Score: 498
Period size: 123 Copynumber: 2.5 Consensus size: 123
852666 TTTCCAGAAG
* * *
852676 GAGTTCATAATGAGAAGAACTGATCTGAAGAGGAAGATGAAGTTCATAATGAGAAGAACTTATTC
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * *
852741 AACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATCAACATCAACA-TTGCGAGGTA
66 AACCTTTTGCTCGACTCTATCAAAGAAGGAGATAGATCAACACCAACATTTAC-AGGTA
* * *
852799 GAGTTCATAATGAGAAGAACTCATCTTAAGAGGAAGAAGAAGTTTATATTGAGAAGAACTTGTTC
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*
852864 AACCTTTTGCTCGACTCTATCAAAGAAGGAGATAGATCAGCACCAACATTTACAGGTA
66 AACCTTTTGCTCGACTCTATCAAAGAAGGAGATAGATCAACACCAACATTTACAGGTA
* *
852922 GAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGTAGAAGTTCATAAAGAGAAGAACTTGTTC
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
852987 GATAGCTTGA
Statistics
Matches: 172, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
123 169 0.98
124 3 0.02
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (123 bp):
GAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACCTTTTGCTCGACTCTATCAAAGAAGGAGATAGATCAACACCAACATTTACAGGTA
Found at i:853067 original size:136 final size:134
Alignment explanation
Indices: 852921--853259 Score: 405
Period size: 136 Copynumber: 2.5 Consensus size: 134
852911 ATTTACAGGT
*
852921 AGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGTAGAAGTTCATAAAGAGAAGAACTTGTT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAG-AGAAGTTCATAATGAGAAGAACTTGTT
* * * *
852986 CGA-TAG-CTTGATTCATCACTTACGAAGTTGAATGAAAGAAGAACCTCACTTGAGGATCAACAT
65 C-ACTAGTCTTAATTCATCACATACGAAGTTGAATCAAAG-A-AACCTCACTTGAGGATCAACAG
* *
853049 TTTC-GGA
127 TTCCAGAA
* *
853056 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAGTTCATAATGAGAAGAACTTATT
1 AG-AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAGAAGTTCATAATGAGAAGAACTTGTT
* * * * * ** *
853121 CATCCTTGTCTTAATTCATCACATATGATGTTGAATCAACGACACCTCTTTTGAGGATCAATAGT
65 CA--CTAGTCTTAATTCATCACATACGAAGTTGAATCAAAGAAACCTCACTTGAGGATCAACAGT
853186 TCCAGAA
128 TCCAGAA
* * *
853193 AGAGTTCATAATGAGAAGAACTCATCTAAAGAAGAAAAAGAAGTTCATAATGAGAAGAACTTGTT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAGAAGTTCATAATGAGAAGAACTTGTT
853258 CA
65 CA
853260 ACCTTTTGAT
Statistics
Matches: 175, Mismatches: 22, Indels: 12
0.84 0.11 0.06
Matches are distributed among these distances:
134 1 0.01
135 27 0.15
136 83 0.47
137 38 0.22
138 26 0.15
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (134 bp):
AGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAGAAGTTCATAATGAGAAGAACTTGTTC
ACTAGTCTTAATTCATCACATACGAAGTTGAATCAAAGAAACCTCACTTGAGGATCAACAGTTCC
AGAA
Found at i:853558 original size:14 final size:14
Alignment explanation
Indices: 853539--853570 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
853529 ATAATAATTA
*
853539 ATTATTTTATTATT
1 ATTATTGTATTATT
853553 ATTATTGTATTATT
1 ATTATTGTATTATT
853567 ATTA
1 ATTA
853571 ATAAATACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (14 bp):
ATTATTGTATTATT
Found at i:857393 original size:21 final size:21
Alignment explanation
Indices: 857360--857399 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
857350 TTTTCATACA
*
857360 TGCATTTGCATTTTGCATCTT
1 TGCATTTGCATTTTACATCTT
**
857381 TGCATTTTTATTTTACATC
1 TGCATTTGCATTTTACATC
857400 CACATTTTTG
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:0.17, C:0.17, G:0.10, T:0.55
Consensus pattern (21 bp):
TGCATTTGCATTTTACATCTT
Found at i:862385 original size:54 final size:53
Alignment explanation
Indices: 862301--862407 Score: 187
Period size: 54 Copynumber: 2.0 Consensus size: 53
862291 CTGACGAGAA
* *
862301 ATCTGGGCAGAAGCCATAGGAAAGGGTGAATGTGTTGTCAAATGTTTTACGAAT
1 ATCTGGGCAGAAGCCACAGGAAAGGATGAATGTGTT-TCAAATGTTTTACGAAT
862355 ATCTGGGCAGAAGCCACAGGAAAGGATGAATGTGTTTCAAATGTTTTACGAAT
1 ATCTGGGCAGAAGCCACAGGAAAGGATGAATGTGTTTCAAATGTTTTACGAAT
862408 TAGTGATTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
53 17 0.33
54 34 0.67
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (53 bp):
ATCTGGGCAGAAGCCACAGGAAAGGATGAATGTGTTTCAAATGTTTTACGAAT
Found at i:863672 original size:123 final size:121
Alignment explanation
Indices: 863226--863672 Score: 611
Period size: 123 Copynumber: 3.7 Consensus size: 121
863216 TGATGGATGA
* *
863226 AACATTTCC-AGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAGGAAGTTCATAAT
1 AACATTTCCAAGTA-GAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
*
863290 GAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATCAGTATC
65 GAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATATATCAG-A-C
* * * *
863349 AACATTGCGAGGTAGAGTTCATAATGAGTAGAACTCATCTGAAGAGGAAGAAG-AGTTCATAATG
1 AACATTTCCAAGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATG
863413 AGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATATAT----C
66 AGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATATATCAGAC
* ** * * * *
863465 ATCATTTATAGAG-AGAATTCATAATGAGAAGAATTCATCTGAATAGGAAGATGAAGTTCATAAT
1 AACATTTCCA-AGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
* *
863529 GAGAAGAACTTGTTCAACCTTTGGCTTGACTCTATCACAGAAGGAGATATATCAGCACC
65 GAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATATATCAG-A-C
* *
863588 AACATTTCCAAGTAGAGTTCATAATGAGAAGAACTAATTTGAAGAGGAAGAAGAAGTTCATAATG
1 AACATTTCCAAGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATG
* *
863653 AGAAGAATTTGTTCGACCTT
66 AGAAGAACTTGTTCAACCTT
863673 AGCTTGATTC
Statistics
Matches: 284, Mismatches: 30, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
116 42 0.15
117 61 0.21
122 63 0.22
123 116 0.41
124 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (121 bp):
AACATTTCCAAGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATG
AGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATATATCAGAC
Found at i:863836 original size:138 final size:136
Alignment explanation
Indices: 863587--863947 Score: 431
Period size: 138 Copynumber: 2.6 Consensus size: 136
863577 ATATCAGCAC
* * * *
863587 CAACATTTCC-AAGTAGAGTTCATAATGAGAAGAACTAATTTGAAGAGGAAGAAGAAGTTCATAA
1 CAACATTTCCAAAAT-GAATTCATAATGAGAAGAACTCATCTGAAGAGG-AGAAGAAGTTCATAA
* * * *
863651 TGAGAAGAATTTGTTCGACCTTAGCTTGATTCATCACATATGAAGTTGAATGAAAGAAAAAACTC
64 TGAGAAGAACTTGTTCAACCTTAGCATAATTCATCACATATGAAGTTGAAT-AAA-AAAAAACTC
863716 ACTTGAGGAT
127 ACTTGAGGAT
* * * **
863726 CAACATTTTCAGAA-GAAATTCATAATGAGATGAACTCATCCAAAGAGGAGAAGAAGTTCATAAT
1 CAACATTTCCAAAATG-AATTCATAATGAGAAGAACTCATCTGAAGAGGAGAAGAAGTTCATAAT
* * * * * **
863790 GAGAAGAACTTATTCAACCTT-GTCATAATTCATCACATATGAAGTTGAATCAACAACATCTCTT
65 GAGAAGAACTTGTTCAACCTTAG-CATAATTCATCACATATGAAGTTGAATAAAAAAAAACTCAC
863854 TTGAGGAT
129 TTGAGGAT
* * *
863862 CAACATTTCCAAAATGAGTTCATAATGAGAAAAACTCATCTGAAGAAGAAGAAGAAGTTCATAAT
1 CAACATTTCCAAAATGAATTCATAATGAGAAGAACTCATCTGAAG-AGGAGAAGAAGTTCATAAT
863927 GAGAAGAACTTGTTCAACCTT
65 GAGAAGAACTTGTTCAACCTT
863948 TTGCTAGATT
Statistics
Matches: 188, Mismatches: 29, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
136 50 0.27
137 42 0.22
138 60 0.32
139 35 0.19
140 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (136 bp):
CAACATTTCCAAAATGAATTCATAATGAGAAGAACTCATCTGAAGAGGAGAAGAAGTTCATAATG
AGAAGAACTTGTTCAACCTTAGCATAATTCATCACATATGAAGTTGAATAAAAAAAAACTCACTT
GAGGAT
Found at i:864223 original size:3 final size:3
Alignment explanation
Indices: 864190--864254 Score: 66
Period size: 3 Copynumber: 23.0 Consensus size: 3
864180 TGTCCCTGTT
* * * *
864190 TTA TT- TTA TT- TTA TTA TAA TAA TAA TAA TTA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
864235 TTA TTA TT- TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
864255 ATAAATAATT
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
2 8 0.14
3 48 0.86
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:864234 original size:11 final size:12
Alignment explanation
Indices: 864190--864254 Score: 66
Period size: 11 Copynumber: 5.8 Consensus size: 12
864180 TGTCCCTGTT
864190 TTATT-TTATT-
1 TTATTATTATTA
* *
864200 TTATTATAATAA
1 TTATTATTATTA
* *
864212 TAATAATTATTA
1 TTATTATTATTA
864224 TTATT-TTATTA
1 TTATTATTATTA
864235 TTATTATT-TTA
1 TTATTATTATTA
864246 TTATTATTA
1 TTATTATTA
864255 ATAAATAATT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
10 5 0.12
11 25 0.58
12 13 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTATTATTATTA
Found at i:864236 original size:14 final size:14
Alignment explanation
Indices: 864190--864254 Score: 78
Period size: 14 Copynumber: 4.6 Consensus size: 14
864180 TGTCCCTGTT
864190 TTATT-TTATTTTA
1 TTATTATTATTTTA
* * * *
864203 TTATAATAATAATAA
1 TTATTATTAT-TTTA
864218 TTATTATTATTTTA
1 TTATTATTATTTTA
864232 TTATTATTATTTTA
1 TTATTATTATTTTA
864246 TTATTATTA
1 TTATTATTA
864255 ATAAATAATT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
13 4 0.10
14 28 0.67
15 10 0.24
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATTATTATTTTA
Found at i:865566 original size:21 final size:20
Alignment explanation
Indices: 865541--865591 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
865531 AATTAGGGCC
865541 TTTAATTTATATATTTTATAT
1 TTTAATTTATAT-TTTTATAT
* *
865562 TTTAATCCTATATTTTTATTT
1 TTTAAT-TTATATTTTTATAT
*
865583 TTTTATTTA
1 TTTAATTTA
865592 ATTACAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 2 0.08
21 18 0.72
22 5 0.20
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTAATTTATATTTTTATAT
Done.