Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 54 of 153
Found at i:17683929 original size:17 final size:16
Alignment explanation
Indices: 17683907--17683965 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
17683897 ATTGTTTTAA
17683907 ATTATTTATTATATTAT
1 ATTATTT-TTATATTAT
*
17683924 ATTATTTTTAT-TTTT
1 ATTATTTTTATATTAT
17683939 AATTACTTTTTATAATTA-
1 -ATTA-TTTTTAT-ATTAT
17683957 ATTATTTTT
1 ATTATTTTT
17683966 GTTATATCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
15 3 0.08
16 13 0.36
17 18 0.50
19 2 0.06
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTATTTTTATATTAT
Found at i:17683952 original size:33 final size:33
Alignment explanation
Indices: 17683901--17683965 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
17683891 TTTATAATTG
17683901 TTTTAAATTATTTATTAT-ATTATATTATTTTTA
1 TTTTAAATTATTTATTATAATTA-ATTATTTTTA
*
17683934 TTTTTAATTACTTT-TTATAATTAATTATTTTT
1 TTTTAAATTA-TTTATTATAATTAATTATTTTT
17683966 GTTATATCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 22 0.76
34 7 0.24
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (33 bp):
TTTTAAATTATTTATTATAATTAATTATTTTTA
Found at i:17692617 original size:16 final size:17
Alignment explanation
Indices: 17692593--17692627 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
17692583 TTATTTTGTT
17692593 TTACTTTTTTTTCTTTA
1 TTACTTTTTTTTCTTTA
17692610 TTAC-TTTTTTTCTTTA
1 TTACTTTTTTTTCTTTA
17692626 TT
1 TT
17692628 TTCCATTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (17 bp):
TTACTTTTTTTTCTTTA
Found at i:17700394 original size:16 final size:16
Alignment explanation
Indices: 17700373--17700408 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
17700363 TTTCGTTCGC
17700373 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
17700389 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
17700405 TGTA
1 TGTA
17700409 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:17700662 original size:16 final size:16
Alignment explanation
Indices: 17700622--17700679 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 16
17700612 ATTTTAATCA
17700622 TAATTAAACATA-ATTAT
1 TAATTAAA-ATATATT-T
17700639 T-ATT-AAATATATTT
1 TAATTAAAATATATTT
17700653 TAATTAAAATATATAATT
1 TAATTAAAATATAT--TT
17700671 TAA-TAAAAT
1 TAATTAAAAT
17700680 TCTTAATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 5 0.14
15 8 0.22
16 11 0.31
17 7 0.19
18 5 0.14
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATTAAAATATATTT
Found at i:17700666 original size:18 final size:17
Alignment explanation
Indices: 17700645--17700679 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17700635 TTATTATTAA
*
17700645 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
17700663 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
17700680 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:17700818 original size:157 final size:157
Alignment explanation
Indices: 17700532--17700848 Score: 571
Period size: 157 Copynumber: 2.0 Consensus size: 157
17700522 TAGAATACCC
*
17700532 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
17700597 CTATCAATAATAAATATTTTAATCATAATTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATAATTAAACATAATTATTATTAAATATATTATAATTAAAA
17700662 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
17700689 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* *
17700754 ATATCAATAATAAATAATTTAATCATATTTAAACATGATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATAATTAAACATAATTATTATTAAATATATTATAATTAAAA
17700819 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
17700846 TTA
1 TTA
17700849 ATATTCTTAT
Statistics
Matches: 153, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 153 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATAATTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:17700830 original size:14 final size:15
Alignment explanation
Indices: 17700791--17700832 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
17700781 TTTAAACATG
*
17700791 ATTATTATTAAATAT
1 ATTATAATTAAATAT
17700806 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
17700820 A-TATAATTTAATA
1 ATTATAATTAAATA
17700833 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:17700943 original size:18 final size:17
Alignment explanation
Indices: 17700922--17700956 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17700912 TTATTATTAA
*
17700922 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
17700940 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
17700957 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:17703632 original size:920 final size:920
Alignment explanation
Indices: 17701852--17704612 Score: 5414
Period size: 920 Copynumber: 3.0 Consensus size: 920
17701842 TGAGACGGTG
17701852 GAGTCGGGTGGAGGTGACTTCGCTCGCAGCTTCTGTTTGATGTTGGGAGGGAGAGGTTGGAGGTG
1 GAGTCGGGTGGAGGTGACTTCGCTCGCAGCTTCTGTTTGATGTTGGGAGGGAGAGGTTGGAGGTG
17701917 GATTTCGAGTTGGGAGGGCAAATCAGGGCGTGAGATGTAAAACGGATGTAATCTGAGGAAAAGGC
66 GATTTCGAGTTGGGAGGGCAAATCAGGGCGTGAGATGTAAAACGGATGTAATCTGAGGAAAAGGC
17701982 AGGGATTACAAAACAGAGAATTTCGGGGATTAGGGGCGTAACGTAATAGGCCTGTATTAGGCAAT
131 AGGGATTACAAAACAGAGAATTTCGGGGATTAGGGGCGTAACGTAATAGGCCTGTATTAGGCAAT
17702047 ACATCGAACCAAACACCGACTTAAGTGGGGCCCACGGATTAGGGGTGTATTGGATTACCAATACA
196 ACATCGAACCAAACACCGACTTAAGTGGGGCCCACGGATTAGGGGTGTATTGGATTACCAATACA
17702112 CCCAACCAAACATGTCCTTAATGTTCTTACCTTGTCCTACTGATTTCAATCTTGAACTTGATTTT
261 CCCAACCAAACATGTCCTTAATGTTCTTACCTTGTCCTACTGATTTCAATCTTGAACTTGATTTT
17702177 CTCTCTCCTCCAGCTTCTATTTCCTGAATATAACTTGATATTCTAGCTCCCCATTGTCTCCTTGT
326 CTCTCTCCTCCAGCTTCTATTTCCTGAATATAACTTGATATTCTAGCTCCCCATTGTCTCCTTGT
17702242 TATCTTTCCCTCTTGATGGATATGAAAATTCTTTTGATTTCTAAGTGAAAATGGTGAATTTTTTG
391 TATCTTTCCCTCTTGATGGATATGAAAATTCTTTTGATTTCTAAGTGAAAATGGTGAATTTTTTG
17702307 TGAAAGTACCAAATTGTAAAGATAAGAAATTTTCTTTCTTTCTTTTCTCTTCATACGTTGGATGC
456 TGAAAGTACCAAATTGTAAAGATAAGAAATTTTCTTTCTTTCTTTTCTCTTCATACGTTGGATGC
17702372 ATGGGAAGAAGATGAAGATTCTTCATCTTTCCTTCCATATATATACTAAATAGAATAATAATAAA
521 ATGGGAAGAAGATGAAGATTCTTCATCTTTCCTTCCATATATATACTAAATAGAATAATAATAAA
17702437 ATAATAAAATATCATTTAAAAATCAAATTAAAATATTAATAAACTAATATTTATTTAATTAATTA
586 ATAATAAAATATCATTTAAAAATCAAATTAAAATATTAATAAACTAATATTTATTTAATTAATTA
17702502 ATCTAAAATATCACCAACATCATCAATACATTCTAGATTTCTCTCTCTTCTAATTGACCATTTTG
651 ATCTAAAATATCACCAACATCATCAATACATTCTAGATTTCTCTCTCTTCTAATTGACCATTTTG
17702567 CCCTTTAGAATCTTTAGAAATTTCATCCTTGAGTCATCACTTAATTTGGTAAAATTGTGATTTAG
716 CCCTTTAGAATCTTTAGAAATTTCATCCTTGAGTCATCACTTAATTTGGTAAAATTGTGATTTAG
17702632 TCCCTAGAAATTCTTCACATTTTTAATTTGATCCTAATTCATCCATTTTCCTTAGTTTCTAAATT
781 TCCCTAGAAATTCTTCACATTTTTAATTTGATCCTAATTCATCCATTTTCCTTAGTTTCTAAATT
17702697 ATTCCACCCTTAAAATATTTACACTATTGCTCCTTCAACTTTTTTGTATTTACACTTTAACCCCT
846 ATTCCACCCTTAAAATATTTACACTATTGCTCCTTCAACTTTTTTGTATTTACACTTTAACCCCT
17702762 CAAATTTTGA
911 CAAATTTTGA
17702772 GAGTCGGGTGGAGGTGACTTCGCTCGCAGCTTCTGTTTGATGTTGGGAGGGAGAGGTTGGAGGTG
1 GAGTCGGGTGGAGGTGACTTCGCTCGCAGCTTCTGTTTGATGTTGGGAGGGAGAGGTTGGAGGTG
*
17702837 GATTTCGAGTTGGGAGGGCAAATCAGGGCGTGAGATGTAAAACGGATGTAATCTGAGGAGAAGGC
66 GATTTCGAGTTGGGAGGGCAAATCAGGGCGTGAGATGTAAAACGGATGTAATCTGAGGAAAAGGC
*
17702902 AGGGATTACAAAACAGAGAATTTCGGGGATTAGGGGCGTAACGTAATAGGCCTGTATTAAGCAAT
131 AGGGATTACAAAACAGAGAATTTCGGGGATTAGGGGCGTAACGTAATAGGCCTGTATTAGGCAAT
* *
17702967 ACATCGAACCAAACACTGGCTTAAGTGGGGCCCACGGATTAGGGGTGTATTGGATTACCAATACA
196 ACATCGAACCAAACACCGACTTAAGTGGGGCCCACGGATTAGGGGTGTATTGGATTACCAATACA
* *
17703032 CCCAACCAAACATGTCCTTACTGTTCTTACCTTGTCCTATTGATTTCAATCTTGAACTTGATTTT
261 CCCAACCAAACATGTCCTTAATGTTCTTACCTTGTCCTACTGATTTCAATCTTGAACTTGATTTT
*
17703097 CTCTCTCCTCCAGCTTCTATTTCCTGAATATAACTTGATATTCTAGCTCCCCATTGTCTCATTGT
326 CTCTCTCCTCCAGCTTCTATTTCCTGAATATAACTTGATATTCTAGCTCCCCATTGTCTCCTTGT
17703162 TATCTTTCCCTCTTGATGGATATGAAAATTCTTTTGATTTCTAAGTGAAAATGGTGAATTTTTTG
391 TATCTTTCCCTCTTGATGGATATGAAAATTCTTTTGATTTCTAAGTGAAAATGGTGAATTTTTTG
17703227 TGAAAGTACCAAATTGTAAAGATAAGAAATTTTCTTTCTTTCTTTTCTCTTCATACGTTGGATGC
456 TGAAAGTACCAAATTGTAAAGATAAGAAATTTTCTTTCTTTCTTTTCTCTTCATACGTTGGATGC
17703292 ATGGGAAGAAGATGAAGATTCTTCATCTTTCCTTCCATATATATACTAAATAGAATAATAATAAA
521 ATGGGAAGAAGATGAAGATTCTTCATCTTTCCTTCCATATATATACTAAATAGAATAATAATAAA
17703357 ATAATAAAATATCATTTAAAAATCAAATTAAAATATTAATAAACTAATATTTATTTAATTAATTA
586 ATAATAAAATATCATTTAAAAATCAAATTAAAATATTAATAAACTAATATTTATTTAATTAATTA
* *
17703422 ATCTAAAATATCACCAATATCATCAATACCTTCTAGATTTCTCTCTCTTCTAATTGACCATTTTG
651 ATCTAAAATATCACCAACATCATCAATACATTCTAGATTTCTCTCTCTTCTAATTGACCATTTTG
17703487 CCCTTTAGAATCTTTAGAAATTTCATCCTTGAGTCATCACTTAATTTGGTAAAATTGTGATTTAG
716 CCCTTTAGAATCTTTAGAAATTTCATCCTTGAGTCATCACTTAATTTGGTAAAATTGTGATTTAG
17703552 TCCCTAGAAATTCTTCACATTTTTAATTTGATCCTAATTCATCCATTTTCCTTAGTTTCTAAATT
781 TCCCTAGAAATTCTTCACATTTTTAATTTGATCCTAATTCATCCATTTTCCTTAGTTTCTAAATT
17703617 ATTCCACCCTTAAAATATTTACACTATTGCTCCTTCAACTTTTTTGTATTTACACTTTAACCCCT
846 ATTCCACCCTTAAAATATTTACACTATTGCTCCTTCAACTTTTTTGTATTTACACTTTAACCCCT
17703682 CAAATTTTGA
911 CAAATTTTGA
17703692 GAGTCGGGTGGAGGTGACTTCGCTCGCAGCTTCTGTTTGATGTTGGGAGGGAGAGGTTGGAGGTG
1 GAGTCGGGTGGAGGTGACTTCGCTCGCAGCTTCTGTTTGATGTTGGGAGGGAGAGGTTGGAGGTG
17703757 GATTTCGAGTTGGGAGGGCAAATCAGGGCGTGAGATGTAAAACGGATGTAATCTGAGGAAAAGGC
66 GATTTCGAGTTGGGAGGGCAAATCAGGGCGTGAGATGTAAAACGGATGTAATCTGAGGAAAAGGC
17703822 AGGGATTACAAAACAGAGAATTTCGGGGATTAGGGGCGTAACGTAATAGGCCTGTATTAGGCAAT
131 AGGGATTACAAAACAGAGAATTTCGGGGATTAGGGGCGTAACGTAATAGGCCTGTATTAGGCAAT
17703887 ACATCGAACCAAACACCGACTTAAGTGGGGCCCACGGATTAGGGGTGTATTGGATTACCAATACA
196 ACATCGAACCAAACACCGACTTAAGTGGGGCCCACGGATTAGGGGTGTATTGGATTACCAATACA
17703952 CCCAACCAAACATGTCCTTAATGTTCTTACCTTGTCCTACTGATTTCAATCTTGAACTTGATTTT
261 CCCAACCAAACATGTCCTTAATGTTCTTACCTTGTCCTACTGATTTCAATCTTGAACTTGATTTT
17704017 CTCTCTCCTCCAGCTTCTATTTCCTGAATATAACTTGATATTCTAGCTCCCCATTGTCTCCTTGT
326 CTCTCTCCTCCAGCTTCTATTTCCTGAATATAACTTGATATTCTAGCTCCCCATTGTCTCCTTGT
17704082 TATCTTTCCCTCTTGATGGATATGAAAATTCTTTTGATTTCTAAGTGAAAATGGTGAATTTTTTG
391 TATCTTTCCCTCTTGATGGATATGAAAATTCTTTTGATTTCTAAGTGAAAATGGTGAATTTTTTG
17704147 TGAAAGTACCAAATTGTAAAGATAAGAAATTTTCTTTCTTTCTTTTCTCTTCATACGTTGGATGC
456 TGAAAGTACCAAATTGTAAAGATAAGAAATTTTCTTTCTTTCTTTTCTCTTCATACGTTGGATGC
17704212 ATGGGAAGAAGATGAAGATTCTTCATCTTTCCTTCCATATATATACTAAATAGAATAATAATAAA
521 ATGGGAAGAAGATGAAGATTCTTCATCTTTCCTTCCATATATATACTAAATAGAATAATAATAAA
17704277 ATAATAAAATATCATTTAAAAATCAAATTAAAATATTAATAAACTAATATTTATTTAATTAATTA
586 ATAATAAAATATCATTTAAAAATCAAATTAAAATATTAATAAACTAATATTTATTTAATTAATTA
17704342 ATCTAAAATATCACCAACATCATCAATACATTCTAGATTTCTCTCTCTTCTAATTGACCATTTTG
651 ATCTAAAATATCACCAACATCATCAATACATTCTAGATTTCTCTCTCTTCTAATTGACCATTTTG
*
17704407 CCCTTTAGAATCTTTTGAAATTTCATCCTTGAGTCATCACTTAATTTGGTAAAATTGTGATTTAG
716 CCCTTTAGAATCTTTAGAAATTTCATCCTTGAGTCATCACTTAATTTGGTAAAATTGTGATTTAG
*
17704472 TCCCTAGAAATTCTTCACATTTTCAATTTGATCCTAATTCATCCATTTTCCTTAGTTTCTAAATT
781 TCCCTAGAAATTCTTCACATTTTTAATTTGATCCTAATTCATCCATTTTCCTTAGTTTCTAAATT
*
17704537 ATTCCACCCTTAAAATATTTACACTATTGGTCCTTCAACTTTTTTGTATTTACACTTTAACCCCT
846 ATTCCACCCTTAAAATATTTACACTATTGCTCCTTCAACTTTTTTGTATTTACACTTTAACCCCT
17704602 CAAATTTTGA
911 CAAATTTTGA
17704612 G
1 G
17704613 TATTTACTCT
Statistics
Matches: 1820, Mismatches: 21, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
920 1820 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (920 bp):
GAGTCGGGTGGAGGTGACTTCGCTCGCAGCTTCTGTTTGATGTTGGGAGGGAGAGGTTGGAGGTG
GATTTCGAGTTGGGAGGGCAAATCAGGGCGTGAGATGTAAAACGGATGTAATCTGAGGAAAAGGC
AGGGATTACAAAACAGAGAATTTCGGGGATTAGGGGCGTAACGTAATAGGCCTGTATTAGGCAAT
ACATCGAACCAAACACCGACTTAAGTGGGGCCCACGGATTAGGGGTGTATTGGATTACCAATACA
CCCAACCAAACATGTCCTTAATGTTCTTACCTTGTCCTACTGATTTCAATCTTGAACTTGATTTT
CTCTCTCCTCCAGCTTCTATTTCCTGAATATAACTTGATATTCTAGCTCCCCATTGTCTCCTTGT
TATCTTTCCCTCTTGATGGATATGAAAATTCTTTTGATTTCTAAGTGAAAATGGTGAATTTTTTG
TGAAAGTACCAAATTGTAAAGATAAGAAATTTTCTTTCTTTCTTTTCTCTTCATACGTTGGATGC
ATGGGAAGAAGATGAAGATTCTTCATCTTTCCTTCCATATATATACTAAATAGAATAATAATAAA
ATAATAAAATATCATTTAAAAATCAAATTAAAATATTAATAAACTAATATTTATTTAATTAATTA
ATCTAAAATATCACCAACATCATCAATACATTCTAGATTTCTCTCTCTTCTAATTGACCATTTTG
CCCTTTAGAATCTTTAGAAATTTCATCCTTGAGTCATCACTTAATTTGGTAAAATTGTGATTTAG
TCCCTAGAAATTCTTCACATTTTTAATTTGATCCTAATTCATCCATTTTCCTTAGTTTCTAAATT
ATTCCACCCTTAAAATATTTACACTATTGCTCCTTCAACTTTTTTGTATTTACACTTTAACCCCT
CAAATTTTGA
Found at i:17704799 original size:23 final size:23
Alignment explanation
Indices: 17704768--17704818 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
17704758 ACCTACTTTC
* * *
17704768 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGAGATA
17704791 TTACAGTAGTAATTTTCGAGATA
1 TTACAGTAGTAATTTTCGAGATA
17704814 TTACA
1 TTACA
17704819 CCATCTCCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGAGATA
Found at i:17714619 original size:17 final size:17
Alignment explanation
Indices: 17714597--17714629 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
17714587 TTAACTTTAA
17714597 TTAAATTATT-TAATAAT
1 TTAAATT-TTCTAATAAT
17714614 TTAAATTTTCTAATAA
1 TTAAATTTTCTAATAA
17714630 ATAAACATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAAATTTTCTAATAAT
Found at i:17714830 original size:20 final size:21
Alignment explanation
Indices: 17714789--17714826 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
17714779 TTGATTTTAA
*
17714789 TTTTAATTTTCTATATCTATT
1 TTTTAATTTTCTATATCAATT
17714810 TTTTAATTTT-TA-ATCAA
1 TTTTAATTTTCTATATCAA
17714827 ATTTCAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 2 0.12
21 10 0.62
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTAATTTTCTATATCAATT
Found at i:17720741 original size:12 final size:12
Alignment explanation
Indices: 17720724--17720748 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17720714 TGAGACGCAA
17720724 ACGAAGCCGATG
1 ACGAAGCCGATG
17720736 ACGAAGCCGATG
1 ACGAAGCCGATG
17720748 A
1 A
17720749 TGGAGATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.24, G:0.32, T:0.08
Consensus pattern (12 bp):
ACGAAGCCGATG
Found at i:17729519 original size:6 final size:7
Alignment explanation
Indices: 17729502--17729527 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
17729492 AGGCTCTCCT
17729502 TTTTTTG
1 TTTTTTG
17729509 TTTTTTG
1 TTTTTTG
17729516 TTTTTTG
1 TTTTTTG
17729523 TTTTT
1 TTTTT
17729528 CCATGTACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTTTTG
Found at i:17740608 original size:25 final size:27
Alignment explanation
Indices: 17740561--17740614 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
17740551 AAGGAATGTT
17740561 TTTTTTAATATGATTTTAAATAT-CTA
1 TTTTTTAATATGATTTTAAATATCCTA
*
17740587 TTTTTTAA-AT-ATTTTATTATATCCTA
1 TTTTTTAATATGATTTTA-AATATCCTA
17740613 TT
1 TT
17740615 AAGACATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 6 0.24
25 6 0.24
26 13 0.52
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (27 bp):
TTTTTTAATATGATTTTAAATATCCTA
Found at i:17741842 original size:12 final size:12
Alignment explanation
Indices: 17741825--17741850 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17741815 CGTTTGTGTA
17741825 TTCGATATAATG
1 TTCGATATAATG
17741837 TTCGATATAATG
1 TTCGATATAATG
17741849 TT
1 TT
17741851 TTCTGGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (12 bp):
TTCGATATAATG
Found at i:17743248 original size:13 final size:13
Alignment explanation
Indices: 17743230--17743257 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
17743220 CTTGTACAAG
17743230 TAAACTTCATAAA
1 TAAACTTCATAAA
17743243 TAAACTTCATAAA
1 TAAACTTCATAAA
17743256 TA
1 TA
17743258 GAGAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAACTTCATAAA
Found at i:17743959 original size:5 final size:5
Alignment explanation
Indices: 17743951--17743976 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
17743941 AGCATGAATT
17743951 GAACA GAACA GAACA GAACA GAACA G
1 GAACA GAACA GAACA GAACA GAACA G
17743977 CCTTCATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.19, G:0.23, T:0.00
Consensus pattern (5 bp):
GAACA
Found at i:17745987 original size:20 final size:19
Alignment explanation
Indices: 17745959--17746028 Score: 88
Period size: 19 Copynumber: 3.6 Consensus size: 19
17745949 AAAAATACAA
17745959 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
*
17745978 CAAAAGTTCAAAATAATTTT
1 -AAAAATTCAAAATAATTTT
* *
17745998 TAAAATTTAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
17746017 AAAAATTCAAAA
1 AAAAATTCAAAA
17746029 ATTTATATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 4 0.09
19 21 0.49
20 18 0.42
ACGTcount: A:0.57, C:0.06, G:0.01, T:0.36
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:17746029 original size:27 final size:27
Alignment explanation
Indices: 17745999--17746064 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
17745989 AATAATTTTT
17745999 AAAATTTAAAATATTTATAAAAATT-CA
1 AAAATTTAAAATATTTA-AAAAATTACA
* * * *
17746026 AAAATTTATATTTTTTAAAAAATTATA
1 AAAATTTAAAATATTTAAAAAATTACA
17746053 AAAATTTCAAAA
1 AAAATTT-AAAA
17746065 AAATTCTAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
26 7 0.23
27 22 0.71
28 2 0.06
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (27 bp):
AAAATTTAAAATATTTAAAAAATTACA
Found at i:17746064 original size:18 final size:18
Alignment explanation
Indices: 17745999--17746065 Score: 50
Period size: 18 Copynumber: 3.7 Consensus size: 18
17745989 AATAATTTTT
17745999 AAAATTT-AAAATATTTATA
1 AAAATTTCAAAA-A-TTATA
17746018 AAAA-TTCAAAAATT-TA
1 AAAATTTCAAAAATTATA
*** *
17746034 TATTTTTTAAAAAATTATA
1 -AAAATTTCAAAAATTATA
17746053 AAAATTTCAAAAA
1 AAAATTTCAAAAA
17746066 AATTCTAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 9
0.68 0.15 0.17
Matches are distributed among these distances:
16 2 0.06
17 3 0.08
18 21 0.58
19 10 0.28
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAATTTCAAAAATTATA
Found at i:17746064 original size:19 final size:20
Alignment explanation
Indices: 17745958--17746076 Score: 79
Period size: 20 Copynumber: 6.2 Consensus size: 20
17745948 CAAAAATACA
* *
17745958 AAAAAATTCAAAATAATTTT
1 AAAAATTTCAAAATAATTAT
* * *
17745978 CAAAAGTTCAAAATAATTTT
1 AAAAATTTCAAAATAATTAT
* *
17745998 TAAAATTT-AAAATATTTAT
1 AAAAATTTCAAAATAATTAT
17746017 AAAAA-TTC-AAA-AATT-T
1 AAAAATTTCAAAATAATTAT
* ** *
17746033 ATATTTTTTAAAA-AATTAT
1 AAAAATTTCAAAATAATTAT
* *
17746052 AAAAATTTCAAAAAAATTCT
1 AAAAATTTCAAAATAATTAT
17746072 AAAAA
1 AAAAA
17746077 AATATAAAGA
Statistics
Matches: 77, Mismatches: 17, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
16 3 0.04
17 5 0.06
18 12 0.16
19 23 0.30
20 34 0.44
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (20 bp):
AAAAATTTCAAAATAATTAT
Found at i:17766613 original size:48 final size:48
Alignment explanation
Indices: 17766534--17766626 Score: 152
Period size: 48 Copynumber: 1.9 Consensus size: 48
17766524 TGCTGTCCTT
17766534 TGTTATTATCACTCCATCTTCAGAACAGCATTCTGATTTCTCAGCGTC
1 TGTTATTATCACTCCATCTTCAGAACAGCATTCTGATTTCTCAGCGTC
* *
17766582 TGTTATTATCACTCCAT-TATCGGAACGGCATTCTGATTTCTCAGC
1 TGTTATTATCACTCCATCT-TCAGAACAGCATTCTGATTTCTCAGC
17766627 AAAATCCAGC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
47 1 0.02
48 41 0.98
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.38
Consensus pattern (48 bp):
TGTTATTATCACTCCATCTTCAGAACAGCATTCTGATTTCTCAGCGTC
Found at i:17772923 original size:24 final size:24
Alignment explanation
Indices: 17772872--17772924 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
17772862 TAGCACCTTG
* *
17772872 ACCCCCATATTCATCTTCATTTCG
1 ACCCCCATATTCATCTTCATCTCC
* *
17772896 ACCCTCATATTCATCTTTATCTCC
1 ACCCCCATATTCATCTTCATCTCC
17772920 ACCCC
1 ACCCC
17772925 TGTCTTCGTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.42, G:0.02, T:0.36
Consensus pattern (24 bp):
ACCCCCATATTCATCTTCATCTCC
Found at i:17774320 original size:17 final size:18
Alignment explanation
Indices: 17774296--17774336 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
17774286 TACAAGTAAG
17774296 TTAA-TTTT-AAAGTATT
1 TTAATTTTTAAAAGTATT
*
17774312 TTAATTTTTAAAATTATT
1 TTAATTTTTAAAAGTATT
17774330 TT-ATTTT
1 TTAATTTT
17774337 ATTGATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 4 0.18
17 9 0.41
18 9 0.41
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
TTAATTTTTAAAAGTATT
Found at i:17776571 original size:42 final size:42
Alignment explanation
Indices: 17776503--17776627 Score: 130
Period size: 42 Copynumber: 3.0 Consensus size: 42
17776493 AAGGCTGCAC
* * * *
17776503 AGAAGCACATAAGTGCTAGAAAAAAACCCATAAGGGTTGAA-T
1 AGAAGCTCATAAGAGCT-GAAGAAAACCCATAAGGGTTAAACT
*
17776545 AGAAGCTCATAAGAGCTGAACGAAAACCTATAAGGGTTAAACT
1 AGAAGCTCATAAGAGCTGAA-GAAAACCCATAAGGGTTAAACT
* *
17776588 A-AAGCTCAAAAGAGCTGAATGGAAACCCA-ATAGGGTTAAA
1 AGAAGCTCATAAGAGCTGAA-GAAAACCCATA-AGGGTTAAA
17776628 ATGAAACTCA
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
41 4 0.06
42 65 0.92
43 2 0.03
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (42 bp):
AGAAGCTCATAAGAGCTGAAGAAAACCCATAAGGGTTAAACT
Found at i:17786678 original size:204 final size:204
Alignment explanation
Indices: 17786316--17786728 Score: 718
Period size: 204 Copynumber: 2.0 Consensus size: 204
17786306 ACTTAATCTT
* *
17786316 GCTCATCCTCCTCCTCCAGAGGAAAGCGCAGGTGCTTTCTTTTGGGTGTTGGCAACCCCTTCAAC
1 GCTCAGCCTCCTCCTCCAGAGGAAAGCGCAGGTGCTTTCCTTTGGGTGTTGGCAACCCCTTCAAC
17786381 CTCATTATATCACTGGAATACTCCCCATGCTCCCCCCATTCTTCTTCTTCTTCAATCTCATCATC
66 CTCATTATATCACTGGAATACTCCCCATGCTCCCCCCATTCTTCTTCTTCTTCAATCTCATCATC
* * * *
17786446 GCTGTTGTAAACAAATCTCGTGTGCTTTCCCATGAACATCTCTGTCATGCTTATTTTTCTTTTGC
131 GCTGTTGTAAACAAATCTCGTCTGCTTTCCCATGAACATCTCTGTCATGCTTATCTTGCTTATGC
17786511 CTTTACACA
196 CTTTACACA
17786520 GCTCAGCCTCCTCCTCCAGAGGAAAGCGCAGGTGCTTTCCTTTGGGTGTTGGCAACCCCTTCAAC
1 GCTCAGCCTCCTCCTCCAGAGGAAAGCGCAGGTGCTTTCCTTTGGGTGTTGGCAACCCCTTCAAC
* * *
17786585 CTCATTATATCACTTGAATACTCCCCATTCTCTCCCCATTCTTCTTCTTCTTCAATCTCATCATC
66 CTCATTATATCACTGGAATACTCCCCATGCTCCCCCCATTCTTCTTCTTCTTCAATCTCATCATC
* * *
17786650 GCTGTTGTCAACAAATCTCGTCTGCTTTCCCGTGGACATCTCTGTCATGCTTATCTTGCTTATGC
131 GCTGTTGTAAACAAATCTCGTCTGCTTTCCCATGAACATCTCTGTCATGCTTATCTTGCTTATGC
17786715 CTTTACACA
196 CTTTACACA
17786724 GCTCA
1 GCTCA
17786729 TCCACCAATC
Statistics
Matches: 197, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
204 197 1.00
ACGTcount: A:0.19, C:0.32, G:0.14, T:0.35
Consensus pattern (204 bp):
GCTCAGCCTCCTCCTCCAGAGGAAAGCGCAGGTGCTTTCCTTTGGGTGTTGGCAACCCCTTCAAC
CTCATTATATCACTGGAATACTCCCCATGCTCCCCCCATTCTTCTTCTTCTTCAATCTCATCATC
GCTGTTGTAAACAAATCTCGTCTGCTTTCCCATGAACATCTCTGTCATGCTTATCTTGCTTATGC
CTTTACACA
Found at i:17788045 original size:18 final size:19
Alignment explanation
Indices: 17788017--17788055 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
17788007 TAGGGAAGTT
17788017 TTATAAATTTTGA-TTAAAA
1 TTATAAATTTT-ATTTAAAA
17788036 TTAT-AATTTTATTTAAAA
1 TTATAAATTTTATTTAAAA
17788054 TT
1 TT
17788056 TTATATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.05
18 14 0.74
19 4 0.21
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TTATAAATTTTATTTAAAA
Found at i:17788777 original size:15 final size:15
Alignment explanation
Indices: 17788757--17788785 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17788747 TTAATTGTTT
17788757 TTTAAATTATAAATA
1 TTTAAATTATAAATA
17788772 TTTAAATTATAAAT
1 TTTAAATTATAAAT
17788786 TTAAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTAAATTATAAATA
Found at i:17788798 original size:15 final size:15
Alignment explanation
Indices: 17788757--17788801 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
17788747 TTAATTGTTT
*
17788757 TTTAAATTATAA-ATA
1 TTTAAATT-TAATAAA
17788772 TTTAAA-TT-ATAAA
1 TTTAAATTTAATAAA
17788785 TTTAAATTTAATAAA
1 TTTAAATTTAATAAA
17788800 TT
1 TT
17788802 CATATATCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 1 0.04
13 9 0.35
14 3 0.12
15 13 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTAAATTTAATAAA
Found at i:17789473 original size:30 final size:30
Alignment explanation
Indices: 17789437--17789495 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
17789427 TTAACAAGCA
17789437 AATGTCTCTAAAATAATAACAAAATTAACC
1 AATGTCTCTAAAATAATAACAAAATTAACC
*
17789467 AATGTCTTTAAAATAATAACAAAATTAAC
1 AATGTCTCTAAAATAATAACAAAATTAAC
17789496 AATAAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.54, C:0.14, G:0.03, T:0.29
Consensus pattern (30 bp):
AATGTCTCTAAAATAATAACAAAATTAACC
Found at i:17789574 original size:11 final size:11
Alignment explanation
Indices: 17789534--17789573 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
17789524 ACAATAACAA
17789534 CAAAATAATAG
1 CAAAATAATAG
*
17789545 CAACATAATAG
1 CAAAATAATAG
* *
17789556 TAAAATAGTAG
1 CAAAATAATAG
17789567 CAAAATA
1 CAAAATA
17789574 GAGAGAAAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:17789582 original size:22 final size:22
Alignment explanation
Indices: 17789535--17789582 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
17789525 CAATAACAAC
* *
17789535 AAAATAATAGCAACATAATAGT
1 AAAATAATAGCAAAATAAGAGT
*
17789557 AAAATAGTAGCAAAATAGAGAG-
1 AAAATAATAGCAAAATA-AGAGT
17789579 AAAA
1 AAAA
17789583 CAAGAAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.62, C:0.06, G:0.15, T:0.17
Consensus pattern (22 bp):
AAAATAATAGCAAAATAAGAGT
Found at i:17790364 original size:18 final size:20
Alignment explanation
Indices: 17790329--17790371 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
17790319 ATAGAATCCT
*
17790329 TAAAATTTTTCATAAAAATC
1 TAAAATTTTTCATAAAAACC
17790349 TAAAA-TTTTC-TAAAAACC
1 TAAAATTTTTCATAAAAACC
17790367 TAAAA
1 TAAAA
17790372 GTTCAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.55
19 5 0.23
20 5 0.23
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAAATTTTTCATAAAAACC
Found at i:17791345 original size:21 final size:21
Alignment explanation
Indices: 17791319--17791404 Score: 60
Period size: 21 Copynumber: 4.3 Consensus size: 21
17791309 TCTTATGATA
17791319 AATATATTGTACTTATCAATT
1 AATATATTGTACTTATCAATT
* *
17791340 AATATATTTTA-TTA-CATTTT
1 AATATATTGTACTTATCA-ATT
* *
17791360 AATATA--AT-CTTAT--GTT
1 AATATATTGTACTTATCAATT
*
17791376 AAATATATTGTACTTTTCAATT
1 -AATATATTGTACTTATCAATT
17791398 AATATAT
1 AATATAT
17791405 AAATATAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 18
0.66 0.09 0.24
Matches are distributed among these distances:
16 2 0.04
17 6 0.12
18 4 0.08
19 3 0.06
20 15 0.31
21 17 0.35
22 2 0.04
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.51
Consensus pattern (21 bp):
AATATATTGTACTTATCAATT
Found at i:17791351 original size:58 final size:58
Alignment explanation
Indices: 17791279--17791404 Score: 218
Period size: 58 Copynumber: 2.2 Consensus size: 58
17791269 TATTAAATTA
*
17791279 AATT-ATAAATTTTATTACATTTTAATATAATCTTATGATAAATATATTGTACTTATC
1 AATTAATATATTTTATTACATTTTAATATAATCTTATGATAAATATATTGTACTTATC
* *
17791336 AATTAATATATTTTATTACATTTTAATATAATCTTATGTTAAATATATTGTACTTTTC
1 AATTAATATATTTTATTACATTTTAATATAATCTTATGATAAATATATTGTACTTATC
17791394 AATTAATATAT
1 AATTAATATAT
17791405 AAATATAATT
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
57 4 0.06
58 61 0.94
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (58 bp):
AATTAATATATTTTATTACATTTTAATATAATCTTATGATAAATATATTGTACTTATC
Found at i:17792141 original size:127 final size:124
Alignment explanation
Indices: 17791915--17792197 Score: 496
Period size: 127 Copynumber: 2.3 Consensus size: 124
17791905 TTATTTCGAG
17791915 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
* *
17791979 GAAATCGTGCCCTTGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAAATTTTCTTT
65 GAAATCATGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAAT--ATTTT-TTT
*
17792042 TTGACGTTTCTGAGCAAATAGTATAAAATTGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
17792107 AAATCATGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATATTTTTTT
66 AAATCATGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATATTTTTTT
17792166 TTGACGTTTCTGAGCAAATAGTATAAAATCGC
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGC
17792198 GCCCTCGTGG
Statistics
Matches: 151, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
124 34 0.23
125 5 0.03
127 111 0.74
128 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCATGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATATTTTTTT
Found at i:17795509 original size:24 final size:26
Alignment explanation
Indices: 17795336--17795592 Score: 121
Period size: 30 Copynumber: 9.0 Consensus size: 26
17795326 AGGGTTTTTA
*
17795336 ATTAAATTAAGTTAGGGTTTAAGGTTTTT
1 ATTAAATTAGGTTAGGG-TTAAGG--TTT
*
17795365 AATTAAATTAGGTT---GTTAGGGTTTTT
1 -ATTAAATTAGGTTAGGGTTAAGG--TTT
*
17795391 AATTAAATTAAGTTAGGGTTTAAGGTTTTT
1 -ATTAAATTAGGTTAGGG-TTAAGG--TTT
*
17795421 AATTAAATTAGGTT---GTTAGGGTTTTT
1 -ATTAAATTAGGTTAGGGTTAAGG--TTT
* *
17795447 AATTAAATTAAGTTAGGGTTTATAGTTTTT
1 -ATTAAATTAGGTTAGGG-TTA-AG-GTTT
17795477 AATTAAATTAGGTTAGGGTTAAGGTTTTT
1 -ATTAAATTAGGTTAGGGTTAAGG--TTT
*
17795506 AATTAAATTAGGTTAGGGTTAGGGTTTTT
1 -ATTAAATTAGGTTAGGGTTAAGG--TTT
* *
17795535 AATTAAATTAGGTTAAGGTTTAGGGTTTTT
1 -ATTAAATTAGGTT-AGGGTTAAGG--TTT
* *
17795565 AATTAAATTAGGTCAGGGTTAGGGTTT
1 -ATTAAATTAGGTTAGGGTTAAGGTTT
17795592 A
1 A
17795593 GGGTTTTTAA
Statistics
Matches: 199, Mismatches: 15, Indels: 30
0.82 0.06 0.12
Matches are distributed among these distances:
26 47 0.24
27 5 0.03
28 2 0.01
29 59 0.30
30 85 0.43
31 1 0.01
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.46
Consensus pattern (26 bp):
ATTAAATTAGGTTAGGGTTAAGGTTT
Found at i:17795513 original size:29 final size:29
Alignment explanation
Indices: 17795322--17797109 Score: 2342
Period size: 29 Copynumber: 59.8 Consensus size: 29
17795312 TTTTGTTAAT
17795322 GGTTAGGGTTTTTAATTAAATTAAGTTAG
1 GGTTAGGGTTTTTAATTAAATTAAGTTAG
* *
17795351 GGTTTAAGGTTTTTAATTAAATTAGGTT--
1 GG-TTAGGGTTTTTAATTAAATTAAGTTAG
17795379 -GTTAGGGTTTTTAATTAAATTAAGTTAG
1 GGTTAGGGTTTTTAATTAAATTAAGTTAG
* *
17795407 GGTTTAAGGTTTTTAATTAAATTAGGTT--
1 GG-TTAGGGTTTTTAATTAAATTAAGTTAG
17795435 -GTTAGGGTTTTTAATTAAATTAAGTTAG
1 GGTTAGGGTTTTTAATTAAATTAAGTTAG
** *
17795463 GGTTTATAGTTTTTAATTAAATTAGGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAAGTTAG
* *
17795493 GGTTAAGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAAGTTAG
*
17795522 GGTTAGGGTTTTTAATTAAATTAGGTTAAG
1 GGTTAGGGTTTTTAATTAAATTAAGTT-AG
*
17795552 GTTTAGGGTTTTTAATTAAATTAGGTCAGGGTTAG
1 GGTTAGGGTTTTTAATTAAATTA----A--GTTAG
17795587 GGTTTAGGGTTTTTAATT-AATTAAGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAAGTTAG
17795616 GGTTAGGGTTTTTAATTAAATTAAGTTAG
1 GGTTAGGGTTTTTAATTAAATTAAGTTAG
17795645 GGTTTAGGGTTTTTAATT-AATTAAGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAAGTTAG
17795674 GGTTAGGGTTTTTAATTAAATTAAGTTAG
1 GGTTAGGGTTTTTAATTAAATTAAGTTAG
17795703 GGTTTAGGGTTTTTAATT-AATTAAGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAAGTTAG
17795732 GGTTAGGGTTTTTAATTAAATTAAGTTAG
1 GGTTAGGGTTTTTAATTAAATTAAGTTAG
17795761 GGTTTAGGGTTTTTAATT-AATTAAGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAAGTTAG
17795790 GGTTAGGGTTTTTAATTAAATTAAGTTAG
1 GGTTAGGGTTTTTAATTAAATTAAGTTAG
17795819 GGTTTAGGGTTTTTAATT-AATTAAGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAAGTTAG
17795848 GGTTAGGGTTTTTAATTAAATTAAGTTAG
1 GGTTAGGGTTTTTAATTAAATTAAGTTAG
17795877 GGTTTAGGGTTTTTAATT-AATTAAGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAAGTTAG
17795906 GGTTAGGGTTTTTAATTAAATTAAGTTAG
1 GGTTAGGGTTTTTAATTAAATTAAGTTAG
17795935 GGTTTAGGGTTTTTAATT-AATTAAGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAAGTTAG
17795964 GGTTAGGGTTTTTAATTAAATTAAGTTAG
1 GGTTAGGGTTTTTAATTAAATTAAGTTAG
17795993 GGTTTAGGGTTTTTAATT-AATTAAGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAAGTTAG
17796022 GGTTAGGGTTTTTAATTAAATTAAGTTAG
1 GGTTAGGGTTTTTAATTAAATTAAGTTAG
17796051 GGTTTAGGGTTTTTAATT-AATTAAGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAAGTTAG
17796080 GGTTAGGGTTTTTAATTAAATTAAGTTAG
1 GGTTAGGGTTTTTAATTAAATTAAGTTAG
17796109 GGTTTAGGGTTTTTAATTAAATTAAGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAAGTTAG
17796139 GGTTAGGGTTTTTAATTAAATTAAGTTAAG
1 GGTTAGGGTTTTTAATTAAATTAAGTT-AG
* *
17796169 GTTTAGGGTTTTTAATTAAATT-AGGTAG
1 GGTTAGGGTTTTTAATTAAATTAAGTTAG
*
17796197 GGTTTAGGGTTTTTAATTAAATTAGGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAAGTTAG
17796227 GGTTAGGGTTTAGCGTTTTAATTAAATTAAGTTAG
1 GGTTAGGG--T----TTTTAATTAAATTAAGTTAG
17796262 GGTTAGGGTTTTTAATTAAATTAAGTTAAG
1 GGTTAGGGTTTTTAATTAAATTAAGTT-AG
* *
17796292 GTTTAGGGTTTTTAATTAAATT-AGGTAG
1 GGTTAGGGTTTTTAATTAAATTAAGTTAG
*
17796320 GGTTTAGGGTTTTTAATTAAATTAGGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAAGTTAG
17796350 GGTTAGGGTTTAGCGTTTTAATTAAATTAAGTTAG
1 GGTTAGGG--T----TTTTAATTAAATTAAGTTAG
17796385 GGTTAGGGTTTTTAATTAAATTAAGTTAAG
1 GGTTAGGGTTTTTAATTAAATTAAGTT-AG
* *
17796415 GTTTAGGGTTTTTAATTAAATT-AGGTAG
1 GGTTAGGGTTTTTAATTAAATTAAGTTAG
*
17796443 GGTTTAGGGTTTTTAATTAAATTAGGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAAGTTAG
17796473 GGTTAGGGTTTAGCGTTTTAATTAAATTAAGTTAG
1 GGTTAGGG--T----TTTTAATTAAATTAAGTTAG
17796508 GGTTAGGGTTTTTAATTAAATTAAGTTAAG
1 GGTTAGGGTTTTTAATTAAATTAAGTT-AG
* *
17796538 GTTTAGGGTTTTTAATTAAATT-AGGTAG
1 GGTTAGGGTTTTTAATTAAATTAAGTTAG
*
17796566 GGTTTAGGGTTTTTAATTAAATTAGGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAAGTTAG
17796596 GGTTAGGGTTTAGCGTTTTAATTAAATTAAGTTAG
1 GGTTAGGG--T----TTTTAATTAAATTAAGTTAG
17796631 GGTTAGGGTTTTTAATTAAATTAAG-TAG
1 GGTTAGGGTTTTTAATTAAATTAAGTTAG
* *
17796659 GGTTTAGGATTTTTAATTAAATTAGGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAAGTTAG
*
17796689 GGTTAGGGTTTTTAATTAAATT-AGATCAG
1 GGTTAGGGTTTTTAATTAAATTAAG-TTAG
* *
17796718 GGTTTAAGGTTTTTAATTAAATTAGGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAAGTTAG
*
17796748 GTTTAGGGTTTTTAATTAAATT-AGATTAG
1 GGTTAGGGTTTTTAATTAAATTAAG-TTAG
*
17796777 GGTTTAGGGTTTTTAATTAAATTAGGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAAGTTAG
* *
17796807 GGTTATGGTTTTTAATTAAAGTAGGTTAGGGTTTAG
1 GGTTAGGGTTTTTAATT-AA--A--TTA-AG-TTAG
17796843 GGTTTAGGGTTTTTAATTAAATTAAGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAAGTTAG
*
17796873 GGTTAGGGTTTTTAATTAAATTAGGTTAAG
1 GGTTAGGGTTTTTAATTAAATTAAGTT-AG
*
17796903 GTTTAGGGTTTTTAATTAAATTAGGTCAGGGTTAG
1 GGTTAGGGTTTTTAATTAAATTA----A--GTTAG
* *
17796938 GGTTTAGGGTTTTTAATTAAATTAGGTTAA
1 GG-TTAGGGTTTTTAATTAAATTAAGTTAG
* *
17796968 GGTTAGGGCTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAAGTTAG
* *
17796997 TGTTTAGGGTTTTTAATTAAATTAGGTTAG
1 -GGTTAGGGTTTTTAATTAAATTAAGTTAG
*
17797027 GGTTTAGGGTTTTTAATTAAATTAGGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAAGTTAG
*
17797057 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAAGTTAG
* *
17797086 TGTTTGGGATTTTTAATTAAATTA
1 GGTTAGGG-TTTTTAATTAAATTA
17797110 GGATTTTTAT
Statistics
Matches: 1591, Mismatches: 70, Indels: 195
0.86 0.04 0.11
Matches are distributed among these distances:
26 46 0.03
27 2 0.00
28 154 0.10
29 660 0.41
30 524 0.33
31 8 0.01
32 4 0.00
33 4 0.00
34 4 0.00
35 121 0.08
36 50 0.03
37 14 0.01
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTAAATTAAGTTAG
Found at i:17795647 original size:23 final size:24
Alignment explanation
Indices: 17795603--17796230 Score: 241
Period size: 30 Copynumber: 22.0 Consensus size: 24
17795593 GGGTTTTTAA
* *
17795603 TTAATTAAGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGAGTTAGGGTTT
17795627 TTAATTAAATTAAGTTAGGGTTTAGGGTTT
1 TTAATTAAATT-AG--A--G-TTAGGGTTT
*
17795657 TTAATTAATTAAGTTAGGGTTAGGGTTT
1 TTAATT-A--AA-TTAGAGTTAGGGTTT
17795685 TTAATTAAATTAAGTTAGGGTTTAGGGTTT
1 TTAATTAAATT-AG--A--G-TTAGGGTTT
*
17795715 TTAATTAATTAAGTTAGGGTTAGGGTTT
1 TTAATT-A--AA-TTAGAGTTAGGGTTT
17795743 TTAATTAAATTAAGTTAGGGTTTAGGGTTT
1 TTAATTAAATT-AG--A--G-TTAGGGTTT
*
17795773 TTAATTAATTAAGTTAGGGTTAGGGTTT
1 TTAATT-A--AA-TTAGAGTTAGGGTTT
17795801 TTAATTAAATTAAGTTAGGGTTTAGGGTTT
1 TTAATTAAATT-AG--A--G-TTAGGGTTT
*
17795831 TTAATTAATTAAGTTAGGGTTAGGGTTT
1 TTAATT-A--AA-TTAGAGTTAGGGTTT
17795859 TTAATTAAATTAAGTTAGGGTTTAGGGTTT
1 TTAATTAAATT-AG--A--G-TTAGGGTTT
*
17795889 TTAATTAATTAAGTTAGGGTTAGGGTTT
1 TTAATT-A--AA-TTAGAGTTAGGGTTT
17795917 TTAATTAAATTAAGTTAGGGTTTAGGGTTT
1 TTAATTAAATT-AG--A--G-TTAGGGTTT
*
17795947 TTAATTAATTAAGTTAGGGTTAGGGTTT
1 TTAATT-A--AA-TTAGAGTTAGGGTTT
17795975 TTAATTAAATTAAGTTAGGGTTTAGGGTTT
1 TTAATTAAATT-AG--A--G-TTAGGGTTT
*
17796005 TTAATTAATTAAGTTAGGGTTAGGGTTT
1 TTAATT-A--AA-TTAGAGTTAGGGTTT
17796033 TTAATTAAATTAAGTTAGGGTTTAGGGTTT
1 TTAATTAAATT-AG--A--G-TTAGGGTTT
*
17796063 TTAATTAATTAAGTTAGGGTTAGGGTTT
1 TTAATT-A--AA-TTAGAGTTAGGGTTT
17796091 TTAATTAAATTAAGTTAGGGTTTAGGGTTT
1 TTAATTAAATT-AG--A--G-TTAGGGTTT
17796121 TTAATTAAATTAAGTTAGGGTTAGGGTTT
1 TTAATTAAATT-AG--A--GTTAGGGTTT
17796150 TTAATTAAATTAAGTTAAGGTTTAGGGTTT
1 TTAATTAAATT-AG---A-G-TTAGGGTTT
17796180 TTAATTAAATTAGGTAGGGTTTAGGGTTT
1 TTAATTAAATTA-G-A--G-TTAGGGTTT
17796209 TTAATTAAATTAG-GTTAGGGTT
1 TTAATTAAATTAGAGTTAGGGTT
17796231 AGGGTTTAGC
Statistics
Matches: 494, Mismatches: 20, Indels: 181
0.71 0.03 0.26
Matches are distributed among these distances:
23 8 0.02
24 27 0.05
25 34 0.07
27 8 0.02
28 122 0.25
29 67 0.14
30 172 0.35
31 8 0.02
33 32 0.06
34 16 0.03
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.46
Consensus pattern (24 bp):
TTAATTAAATTAGAGTTAGGGTTT
Found at i:17799472 original size:28 final size:28
Alignment explanation
Indices: 17799412--17799473 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
17799402 GCGATTTCCC
17799412 GAAAAATGGACCATTCCGGTAAATAATT
1 GAAAAATGGACCATTCCGGTAAATAATT
* * * *
17799440 AAAAAATCGGCCCATTTCGGTAAAT-TTT
1 GAAAAAT-GGACCATTCCGGTAAATAATT
17799468 GAAAAA
1 GAAAAA
17799474 AAAAGGTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.26
Consensus pattern (28 bp):
GAAAAATGGACCATTCCGGTAAATAATT
Found at i:17801212 original size:3 final size:3
Alignment explanation
Indices: 17801204--17801234 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
17801194 AAATTAGTTA
*
17801204 AAT AAT AAT AAT AAA AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
17801235 GGATAGATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:17801223 original size:15 final size:15
Alignment explanation
Indices: 17801203--17801232 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
17801193 AAAATTAGTT
17801203 AAATAATAATAATAA
1 AAATAATAATAATAA
17801218 AAATAATAATAATAA
1 AAATAATAATAATAA
17801233 TAGGATAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATAATAATAATAA
Found at i:17801568 original size:31 final size:31
Alignment explanation
Indices: 17801530--17801591 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
17801520 AGGCAAATTA
17801530 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
17801561 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
17801592 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:17807929 original size:60 final size:60
Alignment explanation
Indices: 17807831--17807947 Score: 207
Period size: 60 Copynumber: 1.9 Consensus size: 60
17807821 ATTCCAAGAT
*
17807831 TGGTCCAGTGAATTGCATTCCCGTATTTGTAAATGTCACGAACATGATGACTTAAATTTG
1 TGGTCCAGTGAATTGCATTCCCGTATTTGTAAACGTCACGAACATGATGACTTAAATTTG
* *
17807891 TGGTCCAGTGAATTGCATTCCCGTATTTGTCAACGTCACGAACATGATTACTTAAAT
1 TGGTCCAGTGAATTGCATTCCCGTATTTGTAAACGTCACGAACATGATGACTTAAAT
17807948 GTGTAGCAAC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (60 bp):
TGGTCCAGTGAATTGCATTCCCGTATTTGTAAACGTCACGAACATGATGACTTAAATTTG
Found at i:17809899 original size:29 final size:29
Alignment explanation
Indices: 17809857--17809921 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
17809847 ATTCTTTGAA
*
17809857 AAAAAAAGCAAAAAGCACAAAAAAACCGC
1 AAAAAAAGCAAAAAGCACAAAAAAACAGC
* **
17809886 AAAAAAAGTAAAAAGCGTAAAAAAACAGC
1 AAAAAAAGCAAAAAGCACAAAAAAACAGC
17809915 AAAAAAA
1 AAAAAAA
17809922 AAGTTGTCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.72, C:0.14, G:0.11, T:0.03
Consensus pattern (29 bp):
AAAAAAAGCAAAAAGCACAAAAAAACAGC
Found at i:17814570 original size:54 final size:54
Alignment explanation
Indices: 17814488--17814594 Score: 205
Period size: 54 Copynumber: 2.0 Consensus size: 54
17814478 ACTACATGCC
*
17814488 ACCCTCAAACTGATGGTCAAACCGAGGTGGTAAATCGAGTTTTGGGATCTTTGT
1 ACCCTCAAACTGATGGTCAAAACGAGGTGGTAAATCGAGTTTTGGGATCTTTGT
17814542 ACCCTCAAACTGATGGTCAAAACGAGGTGGTAAATCGAGTTTTGGGATCTTTG
1 ACCCTCAAACTGATGGTCAAAACGAGGTGGTAAATCGAGTTTTGGGATCTTTG
17814595 CTTAGAGCCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (54 bp):
ACCCTCAAACTGATGGTCAAAACGAGGTGGTAAATCGAGTTTTGGGATCTTTGT
Found at i:17815659 original size:80 final size:80
Alignment explanation
Indices: 17815567--17815727 Score: 313
Period size: 80 Copynumber: 2.0 Consensus size: 80
17815557 AAAGAGAGTA
17815567 TTTGTTTTTTTCCAAATTTGTGTGAGGCAAATTTTTGAGAGTAGAGTGATTCTTCTCTTGCTATT
1 TTTGTTTTTTTCCAAATTTGTGTGAGGCAAATTTTTGAGAGTAGAGTGATTCTTCTCTTGCTATT
17815632 GAGTTTGGAGTTTGT
66 GAGTTTGGAGTTTGT
17815647 TTTGTTTTTTTCCAAATTTGTGTGAGGCAAATTTTTGAGAGTAGAGTGATTCTTCTCTTGCTATT
1 TTTGTTTTTTTCCAAATTTGTGTGAGGCAAATTTTTGAGAGTAGAGTGATTCTTCTCTTGCTATT
*
17815712 TAGTTTGGAGTTTGT
66 GAGTTTGGAGTTTGT
17815727 T
1 T
17815728 ACTTTCGAGG
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.19, C:0.09, G:0.23, T:0.50
Consensus pattern (80 bp):
TTTGTTTTTTTCCAAATTTGTGTGAGGCAAATTTTTGAGAGTAGAGTGATTCTTCTCTTGCTATT
GAGTTTGGAGTTTGT
Found at i:17815982 original size:85 final size:85
Alignment explanation
Indices: 17815887--17816043 Score: 287
Period size: 85 Copynumber: 1.8 Consensus size: 85
17815877 ATCTATCCTT
*
17815887 TTATTATTATTTAACTAATTTTATTTATTCTCGTTTTATTTCAAATTTGTGTTTCTCTTGTGTCA
1 TTATTATTATTTAACTAAATTTATTTATTCTCGTTTTATTTCAAATTTGTGTTTCTCTTGTGTCA
17815952 AGATCCGTTTATTATTATTA
66 AGATCCGTTTATTATTATTA
* *
17815972 TTATTATTATTTAACTAAATTTATTTATTCTCGTTTTATTTCTAATTTGTGTTTCTCTTGTGTCT
1 TTATTATTATTTAACTAAATTTATTTATTCTCGTTTTATTTCAAATTTGTGTTTCTCTTGTGTCA
17816037 AGATCCG
66 AGATCCG
17816044 GAATTTCGGC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 69 1.00
ACGTcount: A:0.22, C:0.11, G:0.09, T:0.57
Consensus pattern (85 bp):
TTATTATTATTTAACTAAATTTATTTATTCTCGTTTTATTTCAAATTTGTGTTTCTCTTGTGTCA
AGATCCGTTTATTATTATTA
Found at i:17816394 original size:15 final size:15
Alignment explanation
Indices: 17816374--17816402 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17816364 CCTCGTGATC
17816374 CATTTTAATGTAACT
1 CATTTTAATGTAACT
17816389 CATTTTAATGTAAC
1 CATTTTAATGTAAC
17816403 CCGTGCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (15 bp):
CATTTTAATGTAACT
Found at i:17818176 original size:3 final size:3
Alignment explanation
Indices: 17818168--17818203 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
17818158 ATCAAGAACA
17818168 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17818204 GAAAAGATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:17820273 original size:22 final size:20
Alignment explanation
Indices: 17820232--17820272 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
17820222 GATAGCAATC
17820232 TATAATACTAAAAATAATAA
1 TATAATACTAAAAATAATAA
* *
17820252 TATAATAC-AATAACAATAA
1 TATAATACTAAAAATAATAA
17820271 TA
1 TA
17820273 ACAAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.29
Consensus pattern (20 bp):
TATAATACTAAAAATAATAA
Found at i:17823145 original size:14 final size:14
Alignment explanation
Indices: 17823126--17823154 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
17823116 ATTTAATTTA
17823126 ACTTAAATAAAAAT
1 ACTTAAATAAAAAT
17823140 ACTTAAATAAAAAT
1 ACTTAAATAAAAAT
17823154 A
1 A
17823155 TTTTTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (14 bp):
ACTTAAATAAAAAT
Found at i:17830215 original size:42 final size:41
Alignment explanation
Indices: 17830168--17830298 Score: 122
Period size: 41 Copynumber: 3.1 Consensus size: 41
17830158 ACTTTCAAGG
17830168 TATGATTTCATGTAAGACCATGTCTGGGACATTGGCATCGTA
1 TATGATTTCATGTAAGACCATGTCTGGGACA-TGGCATCGTA
* *
17830210 TATGA-TTCGTGTAAGACCCTGTCTGGGACA-GAGACATCGATA
1 TATGATTTCATGTAAGACCATGTCTGGGACATG-G-CATCG-TA
* ** * * * *
17830252 TGTGATAACATGTAAGATCATATCTGGGATATGGCATTGTA
1 TATGATTTCATGTAAGACCATGTCTGGGACATGGCATCGTA
*
17830293 TGTGAT
1 TATGAT
17830299 ATATGTGTTT
Statistics
Matches: 73, Mismatches: 11, Indels: 11
0.77 0.12 0.12
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 36 0.49
42 15 0.21
43 19 0.26
44 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (41 bp):
TATGATTTCATGTAAGACCATGTCTGGGACATGGCATCGTA
Found at i:17830757 original size:2 final size:2
Alignment explanation
Indices: 17830750--17831545 Score: 1592
Period size: 2 Copynumber: 398.0 Consensus size: 2
17830740 TTTTGATCTG
17830750 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17830792 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17830834 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17830876 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17830918 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17830960 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17831002 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17831044 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17831086 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17831128 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17831170 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17831212 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17831254 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17831296 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17831338 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17831380 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17831422 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17831464 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17831506 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17831546 GCCATGCGAA
Statistics
Matches: 794, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 794 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17832624 original size:25 final size:24
Alignment explanation
Indices: 17832596--17832680 Score: 66
Period size: 25 Copynumber: 3.5 Consensus size: 24
17832586 AACAAATAAG
17832596 AAAAAAAAGTGACACAAATCAAATT
1 AAAAAAAA-TGACACAAATCAAATT
* **
17832621 AAAAGAAATGAC-CAATAAT-AAACA
1 AAAAAAAATGACAC-A-AATCAAATT
**
17832645 AAAAAAAATTGGTACAAATCAAATT
1 AAAAAAAA-TGACACAAATCAAATT
*
17832670 AAAAGAAATGA
1 AAAAAAAATGA
17832681 TCATGACATT
Statistics
Matches: 45, Mismatches: 10, Indels: 11
0.68 0.15 0.17
Matches are distributed among these distances:
23 1 0.02
24 20 0.44
25 23 0.51
26 1 0.02
ACGTcount: A:0.65, C:0.09, G:0.09, T:0.16
Consensus pattern (24 bp):
AAAAAAAATGACACAAATCAAATT
Found at i:17839196 original size:34 final size:33
Alignment explanation
Indices: 17839117--17839196 Score: 81
Period size: 34 Copynumber: 2.4 Consensus size: 33
17839107 AGCGTATTCG
*
17839117 TATTTTTTATTTTATATTGTTTCAAGCTTTTTTT
1 TATTTTTTA-ATTATATTGTTTCAAGCTTTTTTT
* ** *
17839151 TAATTAATAATTATATTATTTTCAAG-TTTTTTT
1 TATTTTTTAATTATATT-GTTTCAAGCTTTTTTT
17839184 TATTTTTTTAATT
1 TA-TTTTTTAATT
17839197 CATCTTTTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
33 16 0.44
34 20 0.56
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (33 bp):
TATTTTTTAATTATATTGTTTCAAGCTTTTTTT
Found at i:17839278 original size:17 final size:18
Alignment explanation
Indices: 17839256--17839289 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17839246 CAATTATATA
17839256 ATAAAAAT-ATATTTTTG
1 ATAAAAATGATATTTTTG
*
17839273 ATAAAATTGATATTTTT
1 ATAAAAATGATATTTTT
17839290 CATTATGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (18 bp):
ATAAAAATGATATTTTTG
Found at i:17841375 original size:125 final size:126
Alignment explanation
Indices: 17841070--17841540 Score: 813
Period size: 125 Copynumber: 3.8 Consensus size: 126
17841060 ATTTTGAGTT
** * *
17841070 GACGTTTCTGATAAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAA
1 GACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAAAATTTGTGAA
17841135 ATCGCGCCCTCGTGGACGCGCTTTTGCTACAATAGATCACGGAAGAAATAATTATTTTTTC
66 ATCGCGCCCTCGTGGACGCGCTTTTGCTACAATAGATCACGGAAGAAATAATTATTTTTTC
17841196 GACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAAAATTTGTGAA
1 GACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAAAATTTGTGAA
*
17841261 ATCGCGGCCTCGTGGACGCGCTTTTGCTACAATAGATCACGGAAGAAAT-ATTATTTTTTC
66 ATCGCGCCCTCGTGGACGCGCTTTTGCTACAATAGATCACGGAAGAAATAATTATTTTTTC
17841321 GACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAAAATTTGTGAA
1 GACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAAAATTTGTGAA
* * * *
17841386 ATCGCGGCCTCGTGGACGCGCTTTTGCTACAATAGGTCATGTAAGAAATAATT-TTTTTT-
66 ATCGCGCCCTCGTGGACGCGCTTTTGCTACAATAGATCACGGAAGAAATAATTATTTTTTC
* * *
17841445 TACGTTTCTGAGCAAATAGTATAAAATTGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAA
1 GACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAAAATTTGTGAA
17841510 ATCGCGCCCTCGTGGACGCGCTTTTGCTACA
66 ATCGCGCCCTCGTGGACGCGCTTTTGCTACA
17841541 GTAGCATGTT
Statistics
Matches: 332, Mismatches: 12, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
124 92 0.28
125 128 0.39
126 112 0.34
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (126 bp):
GACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAAAATTTGTGAA
ATCGCGCCCTCGTGGACGCGCTTTTGCTACAATAGATCACGGAAGAAATAATTATTTTTTC
Found at i:17844777 original size:116 final size:116
Alignment explanation
Indices: 17844573--17845042 Score: 850
Period size: 116 Copynumber: 4.1 Consensus size: 116
17844563 TGATAAGTTG
* *
17844573 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGATTAGTAAAATTATCAAATTATGTAAAATTATTAATTGT
* ** *
17844638 TAGTACCAGTTGAAACATTTTTCCAAATCTAGCATTATGTGAATGTAAAAT
66 TAGTACCAATCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
17844689 TATTAAGTCAAAAAATTGTATTAATGATTAGTAAAATTATCAAATTATGTAAAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGATTAGTAAAATTATCAAATTATGTAAAATTATTAATTGT
17844754 TAGTACCAATCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAATCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
17844805 TATTAAGTCAAAAAATTGTATTAATGATTAGTAAAATTATCAAATTATGTAAAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGATTAGTAAAATTATCAAATTATGTAAAATTATTAATTGT
17844870 TAGTACCAATCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAATCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
17844921 TATTAAGTCAAAAAATTGTATTAATGATTAGTAAAATTATCAAATTATGTAAAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGATTAGTAAAATTATCAAATTATGTAAAATTATTAATTGT
* * *
17844986 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAACAT
66 TAGTACCAATCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
*
17845037 TGTTAA
1 TATTAA
17845043 CTTAGTTTAG
Statistics
Matches: 344, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 344 1.00
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.38
Consensus pattern (116 bp):
TATTAAGTCAAAAAATTGTATTAATGATTAGTAAAATTATCAAATTATGTAAAATTATTAATTGT
TAGTACCAATCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
Found at i:17845089 original size:29 final size:29
Alignment explanation
Indices: 17845049--17845122 Score: 114
Period size: 29 Copynumber: 2.6 Consensus size: 29
17845039 TTAACTTAGT
17845049 TTAGGGTTTTTAATTAAATTAGGTTAG-G
1 TTAGGGTTTTTAATTAAATTAGGTTAGAG
*
17845077 ATTAGGGTCTTTAATTAAATTAGGTTAGAG
1 -TTAGGGTTTTTAATTAAATTAGGTTAGAG
*
17845107 TTAAGGTTTTTAATTA
1 TTAGGGTTTTTAATTA
17845123 GGGTTTAGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 40 0.98
30 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (29 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGAG
Found at i:17845121 original size:24 final size:25
Alignment explanation
Indices: 17845094--17845141 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
17845084 TCTTTAATTA
17845094 AATTA-GG-TTAGAGTTAAGGTTTTT
1 AATTAGGGTTTAG-GTTAAGGTTTTT
*
17845118 AATTAGGGTTTAGGTTAGGGTTTT
1 AATTAGGGTTTAGGTTAAGGTTTT
17845142 GTATCAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 12 0.57
26 4 0.19
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (25 bp):
AATTAGGGTTTAGGTTAAGGTTTTT
Found at i:17845230 original size:23 final size:23
Alignment explanation
Indices: 17845101--17845357 Score: 92
Period size: 23 Copynumber: 10.7 Consensus size: 23
17845091 TTAAATTAGG
**
17845101 TTAGAGTTAAGGTTTTTAATTAGGGT
1 TTAG-GTTAAGGTTTTTAATTA--AA
* *
17845127 TTAGGTTAGGGTTTTGT-ATCAAA
1 TTAGGTTAAGGTTTT-TAATTAAA
* *
17845150 TTAGGTTAGGGTTTTT-A--AAG
1 TTAGGTTAAGGTTTTTAATTAAA
*
17845170 TTAAGGTTTAAGGTTTCTAAGTT--A
1 TT-AGG-TTAAGGTTTTTAA-TTAAA
*
17845194 --AGGTTTAGAGTTTTTAATTAAA
1 TTAGGTTAAG-GTTTTTAATTAAA
17845216 TTAGGTTAAGGTTTTGT-ATTAAA
1 TTAGGTTAAGGTTTT-TAATTAAA
17845239 TTAGGTT-AGGTTAGGGTTT--TTAAA
1 TTAGGTTAAGGTT----TTTAATTAAA
*
17845263 GTTAAGGTTTAGGGTTTTTAATTAAA
1 -TT-AGG-TTAAGGTTTTTAATTAAA
*
17845289 TTAGGTTAGGGTTAGGGTTTTTAATTAAT
1 TTAGGTTA-----A-GGTTTTTAATTAAA
*
17845318 TTAGGTT-AGG-GTTTAAGGTTAAA
1 TTAGGTTAAGGTTTTTAA--TTAAA
*
17845341 TTAGGTTAGGGTTTTTA
1 TTAGGTTAAGGTTTTTA
17845358 TTATATCAAA
Statistics
Matches: 180, Mismatches: 18, Indels: 67
0.68 0.07 0.25
Matches are distributed among these distances:
20 10 0.06
21 18 0.10
22 19 0.11
23 49 0.27
24 21 0.12
25 22 0.12
26 15 0.08
27 2 0.01
28 4 0.02
29 20 0.11
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.46
Consensus pattern (23 bp):
TTAGGTTAAGGTTTTTAATTAAA
Found at i:17845304 original size:29 final size:29
Alignment explanation
Indices: 17845271--17845330 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
17845261 AAGTTAAGGT
17845271 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
*
17845300 TTAGGGTTTTTAATTAATTTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
17845329 TT
1 TT
17845331 TAAGGTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (29 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGG
Found at i:17845381 original size:25 final size:25
Alignment explanation
Indices: 17845353--17845585 Score: 224
Period size: 25 Copynumber: 9.7 Consensus size: 25
17845343 AGGTTAGGGT
*
17845353 TTTTATTATATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
17845378 TTTTATTACATCAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * *
17845401 --AAATAAC-TCGAAA-AAATTTCTA
1 TTTTATTACATC-AAATAAACTTCTA
17845423 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
17845448 TTTTATTACATCAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * *
17845471 --AAATAAC-TCGAAA-AAATTTCTA
1 TTTTATTACATC-AAATAAACTTCTA
17845493 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
*
17845518 TTTTATTACATCAAATAAACTTCAA
1 TTTTATTACATCAAATAAACTTCTA
* *
17845543 TTTTATTAAATCAAATAAATTTCTA
1 TTTTATTACATCAAATAAACTTCTA
17845568 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
17845586 TATCAAAATA
Statistics
Matches: 170, Mismatches: 20, Indels: 36
0.75 0.09 0.16
Matches are distributed among these distances:
20 4 0.02
21 22 0.13
22 4 0.02
23 4 0.02
24 22 0.13
25 114 0.67
ACGTcount: A:0.45, C:0.13, G:0.01, T:0.41
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:17845437 original size:70 final size:70
Alignment explanation
Indices: 17845353--17845585 Score: 362
Period size: 70 Copynumber: 3.3 Consensus size: 70
17845343 AGGTTAGGGT
*
17845353 TTTTATTATATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAAT
1 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAAT
17845418 TTCTA
66 TTCTA
17845423 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAAT
1 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAAT
17845488 TTCTA
66 TTCTA
* *
17845493 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAA-ACTTCAATTTTATTAAATC-A
1 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATA--TCAA----AATAACTCGA
17845556 AATAAATTTCTA
60 AA-AAATTTCTA
17845568 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
17845586 TATCAAAATA
Statistics
Matches: 153, Mismatches: 3, Indels: 9
0.93 0.02 0.05
Matches are distributed among these distances:
69 1 0.01
70 112 0.73
71 4 0.03
74 3 0.02
75 33 0.22
ACGTcount: A:0.45, C:0.13, G:0.01, T:0.41
Consensus pattern (70 bp):
TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAAT
TTCTA
Found at i:17845627 original size:43 final size:45
Alignment explanation
Indices: 17845553--17845638 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 45
17845543 TTTTATTAAA
* *
17845553 TCAAATAAATTTCTATTTTATTACATCAAATAATATCAAAATAAC
1 TCAAATAAATTTCTATCTTATTACATAAAATAATATCAAAATAAC
17845598 TCAAA-AAATTTCTATCTT-TTACATAAAATAATATCAAAATA
1 TCAAATAAATTTCTATCTTATTACATAAAATAATATCAAAATA
17845639 TTCAAAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 22 0.56
44 12 0.31
45 5 0.13
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (45 bp):
TCAAATAAATTTCTATCTTATTACATAAAATAATATCAAAATAAC
Found at i:17846084 original size:18 final size:18
Alignment explanation
Indices: 17846061--17846095 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17846051 CGGAAAATGA
*
17846061 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
17846079 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
17846096 AAACTCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:17847970 original size:22 final size:22
Alignment explanation
Indices: 17847945--17848000 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
17847935 AAATATGGAT
17847945 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
17847967 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
17847989 TTGAGAGGAATT
1 TTGAGA-GAATT
17848001 GAGAGGAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 28 0.85
23 5 0.15
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:17864535 original size:20 final size:20
Alignment explanation
Indices: 17864510--17864547 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17864500 TATATTTGAA
17864510 ATGTTA-CATTTTAGTTACTT
1 ATGTTATCATTTT-GTTACTT
17864530 ATGTTATCATTTTGTTAC
1 ATGTTATCATTTTGTTAC
17864548 AAAAGACGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.55
Consensus pattern (20 bp):
ATGTTATCATTTTGTTACTT
Found at i:17873322 original size:32 final size:32
Alignment explanation
Indices: 17873276--17873349 Score: 112
Period size: 32 Copynumber: 2.3 Consensus size: 32
17873266 TTTTCCGATC
*
17873276 ACCAAACCACTCTTCCGATGAGAAAAAAACCGA
1 ACCAAAAC-CTCTTCCGATGAGAAAAAAACCGA
*
17873309 ACCAAAACCTCTTCCGATGAGAACAAAACCGA
1 ACCAAAACCTCTTCCGATGAGAAAAAAACCGA
*
17873341 GCCAAAACC
1 ACCAAAACC
17873350 ATCTGTCGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
32 31 0.82
33 7 0.18
ACGTcount: A:0.45, C:0.32, G:0.12, T:0.11
Consensus pattern (32 bp):
ACCAAAACCTCTTCCGATGAGAAAAAAACCGA
Found at i:17876812 original size:24 final size:23
Alignment explanation
Indices: 17876785--17876830 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
17876775 AAAAATTGTG
*
17876785 ACAATCACGTATTTAAAAATAATT
1 ACAATCA-GTAATTAAAAATAATT
* *
17876809 ACAATTATTAATTAAAAATAAT
1 ACAATCAGTAATTAAAAATAAT
17876831 AATTTATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.54, C:0.09, G:0.02, T:0.35
Consensus pattern (23 bp):
ACAATCAGTAATTAAAAATAATT
Found at i:17876944 original size:119 final size:120
Alignment explanation
Indices: 17876818--17877065 Score: 471
Period size: 119 Copynumber: 2.1 Consensus size: 120
17876808 TACAATTATT
17876818 AATTAAAAATAATAATTTATTTATATTATTTTTAATTCCTTTAACTATTTTCAAAAATTAATCTA
1 AATTAAAAATAATAATTTATTTATATTATTTTTAATTCCTTTAACTATTTTCAAAAATTAATCTA
*
17876883 AAGTAATTTAATATATTTTAATATTTCAAACTGATTTTTTAAATATATAAAAA-A
66 AAGTAATTTAATATATTTTAATATTTCAAACTAATTTTTTAAATATATAAAAAGA
17876937 AATTAAAAATAATAATTTATTTATATTATTTTTAATTCCTTTAACTATTTTCAAAAATTAATCTA
1 AATTAAAAATAATAATTTATTTATATTATTTTTAATTCCTTTAACTATTTTCAAAAATTAATCTA
17877002 AAGTAATTTAATATATTTTAATATTTCAAACTAATTTTTTAAATATATAAAAAGA
66 AAGTAATTTAATATATTTTAATATTTCAAACTAATTTTTTAAATATATAAAAAGA
*
17877057 AGTTAAAAA
1 AATTAAAAA
17877066 AGACTTTGAC
Statistics
Matches: 126, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
119 117 0.93
120 9 0.07
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (120 bp):
AATTAAAAATAATAATTTATTTATATTATTTTTAATTCCTTTAACTATTTTCAAAAATTAATCTA
AAGTAATTTAATATATTTTAATATTTCAAACTAATTTTTTAAATATATAAAAAGA
Found at i:17877552 original size:14 final size:15
Alignment explanation
Indices: 17877529--17877561 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
17877519 TTTACCATAC
17877529 TTTTCAAAAACAA-T
1 TTTTCAAAAACAACT
*
17877543 TTTTCTAAAACAACT
1 TTTTCAAAAACAACT
17877558 TTTT
1 TTTT
17877562 AACTGCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTTCAAAAACAACT
Found at i:17882678 original size:32 final size:32
Alignment explanation
Indices: 17882633--17882694 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
17882623 GTAATCCTTA
* * *
17882633 AACTCGGATGATTTGAATTCAAAAT-AACTTG
1 AACTCGAATGATTTAAACTCAAAATGAACTTG
17882664 AACTCGAAGTGATTTAAACTCAAAATGAACT
1 AACTCGAA-TGATTTAAACTCAAAATGAACT
17882695 AAATTCTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 7 0.27
32 15 0.58
33 4 0.15
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (32 bp):
AACTCGAATGATTTAAACTCAAAATGAACTTG
Found at i:17888236 original size:16 final size:16
Alignment explanation
Indices: 17888215--17888245 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17888205 TTCACTATTA
*
17888215 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
17888231 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
17888246 GCATACATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:17891321 original size:41 final size:41
Alignment explanation
Indices: 17891211--17891323 Score: 163
Period size: 41 Copynumber: 2.8 Consensus size: 41
17891201 CAATGGCACC
*** ** *
17891211 AAGCCTGCTAGGCATAAAGCCTGATAGGGTACACCGGTATG
1 AAGCCTGCTAGGCATAAAGCCTGATACATTACACCGACATA
*
17891252 AAGCCTGCTAGGCATAAAGCCTGATACATTTCACCGACATA
1 AAGCCTGCTAGGCATAAAGCCTGATACATTACACCGACATA
17891293 AAGCCTGCTAGGCATAAAGCCTGATACATTA
1 AAGCCTGCTAGGCATAAAGCCTGATACATTA
17891324 ATATAAAGTT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (41 bp):
AAGCCTGCTAGGCATAAAGCCTGATACATTACACCGACATA
Found at i:17902532 original size:25 final size:25
Alignment explanation
Indices: 17902468--17902557 Score: 74
Period size: 25 Copynumber: 3.6 Consensus size: 25
17902458 CATATAACAA
* * * * *
17902468 GAAGCTCATGTGAGCTATATATTGA
1 GAAGCTCATGAGAGCCAAATATCGG
* *
17902493 GAAGCTC-TTAGGAGCCAAATATGGG
1 GAAGCTCATGA-GAGCCAAATATCGG
* *
17902518 GAAGCTCATGAGAGCCAAGTATCAG
1 GAAGCTCATGAGAGCCAAATATCGG
*
17902543 GAAGCTCAAGAGAGC
1 GAAGCTCATGAGAGC
17902558 TGTGGTGTGT
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
24 1 0.02
25 49 0.94
26 2 0.04
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.20
Consensus pattern (25 bp):
GAAGCTCATGAGAGCCAAATATCGG
Found at i:17904232 original size:51 final size:51
Alignment explanation
Indices: 17904156--17904346 Score: 210
Period size: 51 Copynumber: 3.8 Consensus size: 51
17904146 CGGATTCACA
* * *
17904156 TAGTAGCATGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACACG
* * * *
17904207 TAGTAGCCTGCACATAGTACTACACACGTGA--TTGAAGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT-CA-CTATCCGGTACACG
* * *
17904258 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGGTACACG
* * *
17904308 TAGTAGCCTACACATAATACTACAAACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
17904347 TTCACTTTCA
Statistics
Matches: 115, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
49 5 0.04
50 38 0.33
51 70 0.61
53 1 0.01
54 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACACG
Found at i:17904337 original size:101 final size:102
Alignment explanation
Indices: 17904154--17904338 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
17904144 TGCGGATTCA
* *
17904154 CATAGTAGCATGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCATGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTACA
* *
17904219 CATAGTACTACACACGTGATTGAAGCTATCCGGTACG
66 CATAATACTACAAACGTGATTGAAGCTATCCGGTACG
* * *
17904256 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTAC
1 CATAGTAGCATGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGCCTAC
17904319 ACATAATACTACAAACGTGA
65 ACATAATACTACAAACGTGA
17904339 CCATCACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
101 37 0.49
102 34 0.45
103 4 0.05
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (102 bp):
CATAGTAGCATGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTACA
CATAATACTACAAACGTGATTGAAGCTATCCGGTACG
Found at i:17908781 original size:66 final size:66
Alignment explanation
Indices: 17908675--17908817 Score: 268
Period size: 66 Copynumber: 2.2 Consensus size: 66
17908665 CGGGACATGT
*
17908675 TTGGTGTGTTGAAGAGTGTTAGCTTTATGTTTAACTTTTTGAGATATGTTCGACTCTATGAGTCA
1 TTGGTGTGTTGAAGAGTGTTAGCTTTATGCTTAACTTTTTGAGATATGTTCGACTCTATGAGTCA
17908740 A
66 A
*
17908741 TTGGTGTGTTGAAGAGTGTTAGCTTTATGCTTAACTTTTTGAGATATGTTTGACTCTATGAGTCA
1 TTGGTGTGTTGAAGAGTGTTAGCTTTATGCTTAACTTTTTGAGATATGTTCGACTCTATGAGTCA
17908806 A
66 A
17908807 TTGGTGTGTTG
1 TTGGTGTGTTG
17908818 GAGATCCGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 75 1.00
ACGTcount: A:0.21, C:0.08, G:0.26, T:0.45
Consensus pattern (66 bp):
TTGGTGTGTTGAAGAGTGTTAGCTTTATGCTTAACTTTTTGAGATATGTTCGACTCTATGAGTCA
A
Found at i:17916526 original size:42 final size:42
Alignment explanation
Indices: 17916458--17916570 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 42
17916448 ACATCGTTTT
* * *
17916458 CAAAAGCCCA-AAGGCTT-AATAGAAGCTCATGAGAGATAAA
1 CAAAAACCCATAAGGGTTAAATAGAAGCTCATAAGAGATAAA
* * * *
17916498 CAAAAACCCATAAGGGTTAAATGGAAGCTCGTAAGAGCTGAA
1 CAAAAACCCATAAGGGTTAAATAGAAGCTCATAAGAGATAAA
* *
17916540 CAGAAACCCATAAGGGTTAAACAGAAGCTCA
1 CAAAAACCCATAAGGGTTAAATAGAAGCTCA
17916571 AAATAGTTGA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 9 0.15
41 6 0.10
42 45 0.75
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (42 bp):
CAAAAACCCATAAGGGTTAAATAGAAGCTCATAAGAGATAAA
Found at i:17916562 original size:21 final size:21
Alignment explanation
Indices: 17916494--17916565 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
17916484 TCATGAGAGA
*
17916494 TAAACAAAAACCCATAAGGGT
1 TAAACAGAAACCCATAAGGGT
** * * * * *
17916515 TAAATGGAAGCTCGTAAGAGC
1 TAAACAGAAACCCATAAGGGT
*
17916536 TGAACAGAAACCCATAAGGGT
1 TAAACAGAAACCCATAAGGGT
17916557 TAAACAGAA
1 TAAACAGAA
17916566 GCTCAAAATA
Statistics
Matches: 34, Mismatches: 17, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (21 bp):
TAAACAGAAACCCATAAGGGT
Found at i:17916588 original size:42 final size:42
Alignment explanation
Indices: 17916478--17916611 Score: 124
Period size: 42 Copynumber: 3.2 Consensus size: 42
17916468 AAGGCTTAAT
** * * * *
17916478 AGAAGCTCATGAGAGATAAACAAAAACCCATAAGGGTTAAAT
1 AGAAGCTCAAAAGAGCTGAACAGAAACCCATAAGGGTTAAAC
* **
17916520 GGAAGCTCGTAAGAGCTGAACAGAAACCCATAAGGGTTAAAC
1 AGAAGCTCAAAAGAGCTGAACAGAAACCCATAAGGGTTAAAC
* * ** * * *
17916562 AGAAGCTCAAAATAGTTGAATGGAAACTCATATGAGTTAAAC
1 AGAAGCTCAAAAGAGCTGAACAGAAACCCATAAGGGTTAAAC
17916604 AGAAGCTC
1 AGAAGCTC
17916612 GTGAGAGTTA
Statistics
Matches: 75, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.45, C:0.16, G:0.22, T:0.18
Consensus pattern (42 bp):
AGAAGCTCAAAAGAGCTGAACAGAAACCCATAAGGGTTAAAC
Found at i:17924513 original size:46 final size:46
Alignment explanation
Indices: 17924441--17924809 Score: 605
Period size: 46 Copynumber: 8.0 Consensus size: 46
17924431 ACAATGCTAT
* *
17924441 AACTCAGTATGGTTTCCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
17924487 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
17924533 AACTTAGTATGGTTTTCTTCACAGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
17924579 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
17924625 AACTTAGTATGGTTTTCTTCACAGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
17924671 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
17924717 AACTTAGTATGGTTTTCTTCACAGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
17924763 AACTCAGTATGGTTTTCTTCATTGAAATACCATACCTA-TGTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACT-TTTCAC
17924809 A
1 A
17924810 CTTTTCCATG
Statistics
Matches: 300, Mismatches: 22, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 299 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:17924603 original size:92 final size:92
Alignment explanation
Indices: 17924441--17924809 Score: 677
Period size: 92 Copynumber: 4.0 Consensus size: 92
17924431 ACAATGCTAT
* * * *
17924441 AACTCAGTATGGTTTCCTTCACTGAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
1 AACTTAGTATGGTTTTCTTCACAGAAACACCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
17924506 CATTGAAACACCATACCTACTTTTCAC
66 CATTGAAACACCATACCTACTTTTCAC
17924533 AACTTAGTATGGTTTTCTTCACAGAAACACCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
1 AACTTAGTATGGTTTTCTTCACAGAAACACCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
17924598 CATTGAAACACCATACCTACTTTTCAC
66 CATTGAAACACCATACCTACTTTTCAC
17924625 AACTTAGTATGGTTTTCTTCACAGAAACACCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
1 AACTTAGTATGGTTTTCTTCACAGAAACACCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
17924690 CATTGAAACACCATACCTACTTTTCAC
66 CATTGAAACACCATACCTACTTTTCAC
17924717 AACTTAGTATGGTTTTCTTCACAGAAACACCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
1 AACTTAGTATGGTTTTCTTCACAGAAACACCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
*
17924782 CATTGAAATACCATACCTA-TGTTTCAC
66 CATTGAAACACCATACCTACT-TTTCAC
17924809 A
1 A
17924810 CTTTTCCATG
Statistics
Matches: 271, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
91 1 0.00
92 270 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.36
Consensus pattern (92 bp):
AACTTAGTATGGTTTTCTTCACAGAAACACCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
CATTGAAACACCATACCTACTTTTCAC
Found at i:17926056 original size:16 final size:17
Alignment explanation
Indices: 17926010--17926057 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
17926000 AAATTCTTTT
17926010 TAAATCACAAAATTCAA
1 TAAATCACAAAATTCAA
*
17926027 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAA
*
17926044 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
17926058 TTCTAAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:17941088 original size:25 final size:26
Alignment explanation
Indices: 17941031--17941088 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
17941021 ATATATGAAA
* *
17941031 ACATATAAAAGAATTTTAAAATATAT
1 ACATACAAAAGAATTTTAAAAGATAT
** *
17941057 ATGTACAAAA-AATTTTGAAAGATAT
1 ACATACAAAAGAATTTTAAAAGATAT
17941082 ACATACA
1 ACATACA
17941089 TAAGTTTACA
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (26 bp):
ACATACAAAAGAATTTTAAAAGATAT
Found at i:17941876 original size:42 final size:42
Alignment explanation
Indices: 17941829--17941908 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
17941819 GAAGGTCGAG
*
17941829 CCTTCTGGGCCCAAAGGCTGAAAGAATAAGACCCTCACGCCT
1 CCTTCTGGGCCCAAAGGCTGAAAGAAGAAGACCCTCACGCCT
*
17941871 CCTTCTGGGCCCAAAGGCTGAATGAAGAAGACCCTCAC
1 CCTTCTGGGCCCAAAGGCTGAAAGAAGAAGACCCTCAC
17941909 CCGATCTCAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.29, C:0.33, G:0.23, T:0.16
Consensus pattern (42 bp):
CCTTCTGGGCCCAAAGGCTGAAAGAAGAAGACCCTCACGCCT
Found at i:17953624 original size:71 final size:71
Alignment explanation
Indices: 17953546--17953688 Score: 268
Period size: 71 Copynumber: 2.0 Consensus size: 71
17953536 TACGATCCTT
* *
17953546 TTTTATTAATGTAAATTTTAAAATCCTTTGAGTAAATTAAAAAGTGAGTTAAAGACCCACTCATC
1 TTTTATTAATGTAAATTTTAAAATCATTTGAGTAAACTAAAAAGTGAGTTAAAGACCCACTCATC
17953611 TCAAAG
66 TCAAAG
17953617 TTTTATTAATGTAAATTTTAAAATCATTTGAGTAAACTAAAAAGTGAGTTAAAGACCCACTCATC
1 TTTTATTAATGTAAATTTTAAAATCATTTGAGTAAACTAAAAAGTGAGTTAAAGACCCACTCATC
17953682 TCAAAG
66 TCAAAG
17953688 T
1 T
17953689 AACGAAATAT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (71 bp):
TTTTATTAATGTAAATTTTAAAATCATTTGAGTAAACTAAAAAGTGAGTTAAAGACCCACTCATC
TCAAAG
Found at i:17953800 original size:118 final size:118
Alignment explanation
Indices: 17953634--17953871 Score: 440
Period size: 118 Copynumber: 2.0 Consensus size: 118
17953624 AATGTAAATT
*
17953634 TTAAAATCATTTGAGTAAACTAAAAAGTGAGTTAAAGACCCACTCATCTCAAAGTAACGAAATAT
1 TTAAAATCATTTGAGTAAACTAAAAAGTGAGTTAAAGACCCACTCATCTCAAAGTAACAAAATAT
17953699 TACATCCCGTAAGTTAGGACGCGATATTTGAAACTTTAGAGAATAAGCTTGTC
66 TACATCCCGTAAGTTAGGACGCGATATTTGAAACTTTAGAGAATAAGCTTGTC
* *
17953752 TTAAAATCCTTTGAGTAAATTAAAAAGTGAGTTAAAGACCCACTCATCTCAAAGTAACAAAATAT
1 TTAAAATCATTTGAGTAAACTAAAAAGTGAGTTAAAGACCCACTCATCTCAAAGTAACAAAATAT
*
17953817 TACATCTCGTAAGTTAGGACGCGATATTTGAAACTTTAGAGAATAAGCTTGTC
66 TACATCCCGTAAGTTAGGACGCGATATTTGAAACTTTAGAGAATAAGCTTGTC
17953870 TT
1 TT
17953872 TAATTTTTAT
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 116 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (118 bp):
TTAAAATCATTTGAGTAAACTAAAAAGTGAGTTAAAGACCCACTCATCTCAAAGTAACAAAATAT
TACATCCCGTAAGTTAGGACGCGATATTTGAAACTTTAGAGAATAAGCTTGTC
Found at i:17953999 original size:95 final size:96
Alignment explanation
Indices: 17953871--17954063 Score: 352
Period size: 95 Copynumber: 2.0 Consensus size: 96
17953861 AAGCTTGTCT
*
17953871 TTAATTTTTATTGAAATTTCATATTTTGAAATTTAGAAGGACATTTCGCCATTTAGGTTTAATGA
1 TTAATTTTTATTGAAATGTCATATTTTGAAATTTAGAAGGACATTTCGCCATTTAGGTTTAATGA
*
17953936 GAAAATCGAAACCCCGTAAGTTAGGGTACGA
66 GAAAATCAAAACCCCGTAAGTTAGGGTACGA
*
17953967 TTAATTTTTATTGAAA-GTCATATTTTGAAATTTAGAAGGACATTTTGCCATTTAGGTTTAATGA
1 TTAATTTTTATTGAAATGTCATATTTTGAAATTTAGAAGGACATTTCGCCATTTAGGTTTAATGA
17954031 GAAAATCAAAACCCCGTAAGTTAGGGTACGA
66 GAAAATCAAAACCCCGTAAGTTAGGGTACGA
17954062 TT
1 TT
17954064 TCTCGGATCA
Statistics
Matches: 94, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
95 78 0.83
96 16 0.17
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.37
Consensus pattern (96 bp):
TTAATTTTTATTGAAATGTCATATTTTGAAATTTAGAAGGACATTTCGCCATTTAGGTTTAATGA
GAAAATCAAAACCCCGTAAGTTAGGGTACGA
Found at i:17954283 original size:104 final size:104
Alignment explanation
Indices: 17954166--17954375 Score: 375
Period size: 104 Copynumber: 2.0 Consensus size: 104
17954156 AAAAAAATCA
* *
17954166 AAACCCTGTAAGTTAGGGTACGGTTTTCTCGAATTGCCAAAACGCAAAGCATGGCCTTATATTGA
1 AAACCCCGTAAGTTAGGGTACGGTTTTCTCGAATTGCCAAAACACAAAGCATGGCCTTATATTGA
*
17954231 AATTTTCATTTTTTGCGTATTTGGATAAAAAATTAATGT
66 AATTTTCATTTTTTACGTATTTGGATAAAAAATTAATGT
* *
17954270 AAACCCCGTAAGTTAGGGTATGGTTTTCTCGAATTGCCAAAACACAAAGCATTGCCTTATATTGA
1 AAACCCCGTAAGTTAGGGTACGGTTTTCTCGAATTGCCAAAACACAAAGCATGGCCTTATATTGA
17954335 AATTTTCATTTTTTACGTATTTGGATAAAAAATTAATGT
66 AATTTTCATTTTTTACGTATTTGGATAAAAAATTAATGT
17954374 AA
1 AA
17954376 CGTTTAAAAC
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
104 101 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (104 bp):
AAACCCCGTAAGTTAGGGTACGGTTTTCTCGAATTGCCAAAACACAAAGCATGGCCTTATATTGA
AATTTTCATTTTTTACGTATTTGGATAAAAAATTAATGT
Found at i:17960395 original size:21 final size:22
Alignment explanation
Indices: 17960347--17960406 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
17960337 AATTAACAAT
*
17960347 AAATTAATGTAAATTAAT-CAAAA
1 AAATTAATATAAA--AATCCAAAA
* *
17960370 TAATTAA-ATTAAAATCCAAAA
1 AAATTAATATAAAAATCCAAAA
17960391 AAATTAATATAAAAAT
1 AAATTAATATAAAAAT
17960407 GTACATTATA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
20 3 0.10
21 11 0.37
22 10 0.33
23 6 0.20
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (22 bp):
AAATTAATATAAAAATCCAAAA
Found at i:17966956 original size:23 final size:24
Alignment explanation
Indices: 17966911--17966957 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
17966901 AATTACATTA
*
17966911 AAAAGTTGAATATTAATTTTTTTT
1 AAAAGTTGAATATTAATTATTTTT
17966935 AAAAGATTGAA-A-TAATTATTTTT
1 AAAAG-TTGAATATTAATTATTTTT
17966958 GTGTAGGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 10 0.48
24 6 0.29
25 5 0.24
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (24 bp):
AAAAGTTGAATATTAATTATTTTT
Found at i:17973723 original size:20 final size:21
Alignment explanation
Indices: 17973698--17973737 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
17973688 TACCTTCACT
17973698 GGTATCACGATATCC-CCTTG
1 GGTATCACGATATCCACCTTG
*
17973718 GGTATCGCGATATCCACCTT
1 GGTATCACGATATCCACCTT
17973738 CTAAGGAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (21 bp):
GGTATCACGATATCCACCTTG
Found at i:17975502 original size:45 final size:45
Alignment explanation
Indices: 17975446--17975599 Score: 254
Period size: 45 Copynumber: 3.4 Consensus size: 45
17975436 AATGATCTAA
* * * *
17975446 ATGAATGAGGATCCTAATAAACACCTTAAGCAATTTCGAGGGTCT
1 ATGAATAAGGATCCAAATCAACACCTTAAGCGATTTCGAGGGTCT
*
17975491 ATGAATAAGGATTCAAATCAACACCTTAAGCGATTTCGAGGGTCT
1 ATGAATAAGGATCCAAATCAACACCTTAAGCGATTTCGAGGGTCT
17975536 ATGAATAAGGATCCAAATCAACACCTTAAGCGATTTCGAGGGTCT
1 ATGAATAAGGATCCAAATCAACACCTTAAGCGATTTCGAGGGTCT
*
17975581 ATGAATGAGGATCCAAATC
1 ATGAATAAGGATCCAAATC
17975600 GAGGGTTTAT
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 102 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (45 bp):
ATGAATAAGGATCCAAATCAACACCTTAAGCGATTTCGAGGGTCT
Found at i:17976497 original size:5 final size:5
Alignment explanation
Indices: 17976487--17976608 Score: 244
Period size: 5 Copynumber: 24.4 Consensus size: 5
17976477 TATTGTTAAG
17976487 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
17976537 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
17976587 TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TA
17976609 ATGTATAATA
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 117 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:17976669 original size:17 final size:15
Alignment explanation
Indices: 17976634--17976688 Score: 67
Period size: 16 Copynumber: 3.6 Consensus size: 15
17976624 AAAGAATTAA
17976634 AAAAAGAAATAAAGC
1 AAAAAGAAATAAAGC
*
17976649 AAAAACGAAATAGAAGG
1 AAAAA-GAAATA-AAGC
*
17976666 AAAAAGAAAGAAAG-
1 AAAAAGAAATAAAGC
17976680 AAAAAGAAA
1 AAAAAGAAA
17976689 AGGGAGAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
14 9 0.25
15 8 0.22
16 11 0.31
17 8 0.22
ACGTcount: A:0.75, C:0.04, G:0.18, T:0.04
Consensus pattern (15 bp):
AAAAAGAAATAAAGC
Found at i:17976697 original size:15 final size:14
Alignment explanation
Indices: 17976634--17976688 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
17976624 AAAGAATTAA
*
17976634 AAAAAGAAATAAAG
1 AAAAAGAAAGAAAG
*
17976648 CAAAAACGAAATAGAAGG
1 -AAAAA-G-AA-AGAAAG
17976666 AAAAAGAAAGAAAG
1 AAAAAGAAAGAAAG
17976680 AAAAAGAAA
1 AAAAAGAAA
17976689 AGGGAGAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 14 0.41
15 7 0.21
16 2 0.06
17 7 0.21
18 4 0.12
ACGTcount: A:0.75, C:0.04, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAAAGAAAGAAAG
Found at i:17977690 original size:26 final size:27
Alignment explanation
Indices: 17977633--17977692 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
17977623 GTCCCACTAT
* *
17977633 ATGGCTCTTCGTTAGCTTCCCGATTGA
1 ATGGCTCTTCGTGAGCTTCCCGAGTGA
* *
17977660 A-GGCTCTTTGTGAGCTTCCTGAGT-A
1 ATGGCTCTTCGTGAGCTTCCCGAGTGA
17977685 ATGGCTCT
1 ATGGCTCT
17977693 CCAAAGCTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 2 0.07
26 25 0.89
27 1 0.04
ACGTcount: A:0.15, C:0.23, G:0.25, T:0.37
Consensus pattern (27 bp):
ATGGCTCTTCGTGAGCTTCCCGAGTGA
Found at i:17977771 original size:24 final size:25
Alignment explanation
Indices: 17977744--17977909 Score: 94
Period size: 24 Copynumber: 6.8 Consensus size: 25
17977734 TGGCTATCTG
*
17977744 GAGCTTCCTGTTAATGGCTCTTCA-
1 GAGCTTCCCGTTAATGGCTCTTCAT
* * * * *
17977768 GAGCTACCTGTTATTGACTC-ACAT
1 GAGCTTCCCGTTAATGGCTCTTCAT
17977792 GAGCTTCCCGATT-ATGGCTCTT-AT
1 GAGCTTCCCG-TTAATGGCTCTTCAT
** * **
17977816 GAGCTTCCCGTTATACAGC-ATGGAT
1 GAGCTTCCCGTTA-ATGGCTCTTCAT
* * *
17977841 AAGCTTCCCGTTAATGGATCTCCA-
1 GAGCTTCCCGTTAATGGCTCTTCAT
* *
17977865 GAGCTTCCCATTACATGGCTC-ACAT
1 GAGCTTCCCGTTA-ATGGCTCTTCAT
*
17977890 GAGCTTCCTGTTAAATGGCT
1 GAGCTTCCCGTT-AATGGCT
17977910 TGAGAGAGAG
Statistics
Matches: 106, Mismatches: 26, Indels: 19
0.70 0.17 0.13
Matches are distributed among these distances:
23 4 0.04
24 58 0.55
25 43 0.41
26 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.33
Consensus pattern (25 bp):
GAGCTTCCCGTTAATGGCTCTTCAT
Found at i:17977808 original size:72 final size:73
Alignment explanation
Indices: 17977646--17977823 Score: 164
Period size: 72 Copynumber: 2.4 Consensus size: 73
17977636 GCTCTTCGTT
* * * *
17977646 AGCTTCCCGATTGAAGGCTCTTTGTGAGCTTCCTGAGTAATGGCTCTCCAAAGCTTCCTGATATG
1 AGCTTCCCGATT-ATGGCTATCTGTGAGCTTCCTGAGTAATGGCTCTCCAAAGCTACCTGATATG
* ** *
17977711 GCTTGCTTG
65 ACTCACATG
* * * * * *
17977720 AACTTTCCGATTTATGGCTATCTG-GAGCTTCCTG-TTAATGGCTCTTCAGAGCTACCTGTTATT
1 AGCTTCCCGA-TTATGGCTATCTGTGAGCTTCCTGAGTAATGGCTCTCCAAAGCTACCTGATA-T
17977783 GACTCACATG
64 GACTCACATG
* *
17977793 AGCTTCCCGATTATGGCTCT-TATGAGCTTCC
1 AGCTTCCCGATTATGGCTATCTGTGAGCTTCC
17977824 CGTTATACAG
Statistics
Matches: 83, Mismatches: 18, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
71 1 0.01
72 39 0.47
73 25 0.30
74 16 0.19
75 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (73 bp):
AGCTTCCCGATTATGGCTATCTGTGAGCTTCCTGAGTAATGGCTCTCCAAAGCTACCTGATATGA
CTCACATG
Found at i:17983567 original size:22 final size:22
Alignment explanation
Indices: 17983501--17983610 Score: 96
Period size: 22 Copynumber: 5.0 Consensus size: 22
17983491 GCACTAAAAG
*
17983501 AACAGTAGGCACCAAAGTGCAA
1 AACAGTAAGCACCAAAGTGCAA
* * * *
17983523 ATCACTAAGCATCGAAGTGCAA
1 AACAGTAAGCACCAAAGTGCAA
* *
17983545 AACAGTAAGCACCAAACTACAA
1 AACAGTAAGCACCAAAGTGCAA
**
17983567 AAC-GATAAGCACCAAAGTGTGA
1 AACAG-TAAGCACCAAAGTGCAA
* * *
17983589 AACAGTGAGCACTAAAGCGCAA
1 AACAGTAAGCACCAAAGTGCAA
17983611 GACGATAAGC
Statistics
Matches: 66, Mismatches: 20, Indels: 4
0.73 0.22 0.04
Matches are distributed among these distances:
21 1 0.02
22 64 0.97
23 1 0.02
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.12
Consensus pattern (22 bp):
AACAGTAAGCACCAAAGTGCAA
Found at i:17993494 original size:4 final size:4
Alignment explanation
Indices: 17993485--17993516 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
17993475 TTTCTCTTCG
*
17993485 ATTT ATTT ATTT ATTT ATTT ATTC ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
17993517 TTGATCTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:18005315 original size:82 final size:82
Alignment explanation
Indices: 18005178--18005482 Score: 380
Period size: 82 Copynumber: 3.7 Consensus size: 82
18005168 GATTTTTAAA
* * * * * *
18005178 CCTTTAGCGGCGTTTTTATTTTAGCGCTGCTAATGGTCCG-ATCTTTAGCGGCGTTTTTATTTGA
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCT-CGTATCTTTAGTGGCGTTTTTATCTGA
18005242 GCGCCACTAATGCTCTGG
65 GCGCCACTAATGCTCTGG
* * *
18005260 CCTTTAGCAGCGTTTTTCTCTAAGCGCCACTAATGCTCGTATCTTTAGTGGCGTTTTTATCTGAG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGTATCTTTAGTGGCGTTTTTATCTGAG
*
18005325 CGCCACTAATTCTCTGG
66 CGCCACTAATGCTCTGG
* * *
18005342 CCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAATGTTAGTATCTTTAGTGGCGTTTTTATCTGAG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGTATCTTTAGTGGCGTTTTTATCTGAG
18005407 CGCCACTAATGCTCTGG
66 CGCCACTAATGCTCTGG
* * ** * * * *
18005424 CTTTTAGCGGCATTTTATAGGTAAGCGCCGCGAATGCAT-TTACCTTTAGCGGCGTTTTT
1 CCTTTAGCGGCGTTTT-TATCTAAGCGCCGCTAATGC-TCGTATCTTTAGTGGCGTTTTT
18005483 GCCGAAGCGC
Statistics
Matches: 194, Mismatches: 26, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
81 2 0.01
82 159 0.82
83 32 0.16
84 1 0.01
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (82 bp):
CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGTATCTTTAGTGGCGTTTTTATCTGAG
CGCCACTAATGCTCTGG
Found at i:18005327 original size:123 final size:123
Alignment explanation
Indices: 18005179--18005420 Score: 274
Period size: 123 Copynumber: 2.0 Consensus size: 123
18005169 ATTTTTAAAC
* * ** * * *
18005179 CTTTAGCGGCGTTTTTATTTTAGCGCTGCTAATGGTCCGATCTTTAGCGGCGTTTTTATT-TGAG
1 CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATGCTCCGACCTTTAGCGGCGTTTTT-TTCTAAG
* *
18005243 CGCCACTAATGCTCT-G-GCCTTTAGCAGCGTTTTTCTCTAAGCGCCACTAATGCTCGTAT
65 CGCCACTAATG-T-TAGTACCTTTAGCAGCGTTTTTATCTAAGCGCCACTAATGCTCGTAT
* * * *
18005302 CTTTAGTGGCGTTTTTATCTGAGCGCCACTAATTCTCTGGCCTTTAGCGGCGTTTTTTTCTAAGC
1 CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATGCTCCGACCTTTAGCGGCGTTTTTTTCTAAGC
* * ** *
18005367 GCCGCTAATGTTAGTATCTTTAGTGGCGTTTTTATCTGAGCGCCACTAATGCTC
66 GCCACTAATGTTAGTACCTTTAGCAGCGTTTTTATCTAAGCGCCACTAATGCTC
18005421 TGGCTTTTAG
Statistics
Matches: 98, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
121 1 0.01
122 4 0.04
123 93 0.95
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.39
Consensus pattern (123 bp):
CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATGCTCCGACCTTTAGCGGCGTTTTTTTCTAAGC
GCCACTAATGTTAGTACCTTTAGCAGCGTTTTTATCTAAGCGCCACTAATGCTCGTAT
Found at i:18005430 original size:41 final size:41
Alignment explanation
Indices: 18005180--18005439 Score: 240
Period size: 41 Copynumber: 6.3 Consensus size: 41
18005170 TTTTTAAACC
* * ** * * *
18005180 TTTAGCGGCGTTTTTATTTTAGCGCTGCTAATGGTC-CGAT
1 TTTAGCGGCGTTTTTATCTGAGCGCCACTAATGCTCTGGCT
* *
18005220 CTTTAGCGGCGTTTTTATTTGAGCGCCACTAATGCTCTGGCC
1 -TTTAGCGGCGTTTTTATCTGAGCGCCACTAATGCTCTGGCT
* * * **
18005262 TTTAGCAGCGTTTTTCTCTAAGCGCCACTAATGCTC-GTAT
1 TTTAGCGGCGTTTTTATCTGAGCGCCACTAATGCTCTGGCT
* * *
18005302 CTTTAGTGGCGTTTTTATCTGAGCGCCACTAATTCTCTGGCC
1 -TTTAGCGGCGTTTTTATCTGAGCGCCACTAATGCTCTGGCT
* * * **
18005344 TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAATG-T-TAGTAT
1 TTTAGCGGCGTTTTTATCTGAGCGCCACTAATGCTCT-GGCT
*
18005384 CTTTAGTGGCGTTTTTATCTGAGCGCCACTAATGCTCTGGCT
1 -TTTAGCGGCGTTTTTATCTGAGCGCCACTAATGCTCTGGCT
*
18005426 TTTAGCGGCATTTT
1 TTTAGCGGCGTTTT
18005440 ATAGGTAAGC
Statistics
Matches: 174, Mismatches: 38, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
39 1 0.01
40 3 0.02
41 164 0.94
42 5 0.03
43 1 0.01
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.40
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTATCTGAGCGCCACTAATGCTCTGGCT
Found at i:18007095 original size:40 final size:40
Alignment explanation
Indices: 18007040--18007119 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
18007030 CAAAACGCCG
*
18007040 CAAATGTGACTTAAAATTAATTTAAACGGCGCCATTTCTT
1 CAAATGTGACTTAAAATTAATTTAAACAGCGCCATTTCTT
18007080 CAAATGTGACTTAAAATTAATTTAAACAGCGCCATTTCTT
1 CAAATGTGACTTAAAATTAATTTAAACAGCGCCATTTCTT
18007120 TAAAGGTCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.35
Consensus pattern (40 bp):
CAAATGTGACTTAAAATTAATTTAAACAGCGCCATTTCTT
Found at i:18007952 original size:8 final size:10
Alignment explanation
Indices: 18007930--18007966 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
18007920 TATTTTTACT
18007930 TATATATGGA
1 TATATATGGA
*
18007940 TATATATGAA
1 TATATATGGA
18007950 TATATATGGA
1 TATATATGGA
18007960 TATATAT
1 TATATAT
18007967 ATAGTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (10 bp):
TATATATGGA
Found at i:18008075 original size:27 final size:27
Alignment explanation
Indices: 18008034--18008085 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
18008024 AATAAACAAA
* *
18008034 TAAATAAGTTAGTAATTATTTATTTGT
1 TAAATAAATTAGTAATTAATTATTTGT
*
18008061 TAAATAAATTGGTAATTAATTATTT
1 TAAATAAATTAGTAATTAATTATTT
18008086 AAAAGTAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (27 bp):
TAAATAAATTAGTAATTAATTATTTGT
Found at i:18009286 original size:11 final size:11
Alignment explanation
Indices: 18009270--18009306 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
18009260 TTGACTTTTC
18009270 TAATTTGATTA
1 TAATTTGATTA
18009281 TAATTTGATTA
1 TAATTTGATTA
*
18009292 TAATTTCATTA
1 TAATTTGATTA
18009303 TAAT
1 TAAT
18009307 GTAGTATCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (11 bp):
TAATTTGATTA
Found at i:18009548 original size:14 final size:15
Alignment explanation
Indices: 18009529--18009561 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
18009519 CATATATACC
18009529 TCTTTTTTCTAGC-G
1 TCTTTTTTCTAGCTG
18009543 TCTTTTTTCTAGCTG
1 TCTTTTTTCTAGCTG
18009558 TCTT
1 TCTT
18009562 GCAATTGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.06, C:0.21, G:0.12, T:0.61
Consensus pattern (15 bp):
TCTTTTTTCTAGCTG
Found at i:18012461 original size:22 final size:22
Alignment explanation
Indices: 18012433--18012478 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
18012423 AACTTAAATA
*
18012433 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAAATTAC
18012455 ATTAATATTATACATAAATTAC
1 ATTAATATTATACATAAATTAC
18012477 AT
1 AT
18012479 AAGTTAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTAATATTATACATAAATTAC
Found at i:18012473 original size:56 final size:56
Alignment explanation
Indices: 18012399--18012624 Score: 382
Period size: 56 Copynumber: 4.0 Consensus size: 56
18012389 TTATACATAA
*
18012399 ATTAATATTATACGTAAATTACATAACTTAAATAATTAATATTATACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAAATAATTAATATTATACATAACTTAC
* *
18012455 ATTAATATTATACATAAATTACATAAGTTAATTAATTAATATTATACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAAATAATTAATATTATACATAACTTAC
*
18012511 ATTAATATTATACATAAATTACATAGCTT-AATGAATTAATATTATACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAAAT-AATTAATATTATACATAACTTAC
**
18012567 ATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTATACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAAATAATTAATATTATACATAACTTAC
18012623 AT
1 AT
18012625 AACTCATAAC
Statistics
Matches: 159, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
55 2 0.01
56 156 0.98
57 1 0.01
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.40
Consensus pattern (56 bp):
ATTAATATTATACATAAATTACATAACTTAAATAATTAATATTATACATAACTTAC
Found at i:18012495 original size:34 final size:34
Alignment explanation
Indices: 18012455--18012730 Score: 138
Period size: 34 Copynumber: 7.9 Consensus size: 34
18012445 CATAACTTAC
*
18012455 ATTAATATTATACATAAATTACATAAGTTAATTA
1 ATTAATATTATACATAAATTACATAACTTAATTA
* * *
18012489 ATTAATATTATACATAACTTACATTAATATTATACATAA
1 ATTAATATTATACATAAATTACA-T-A-ACT-TA-ATTA
* * * *
18012528 ATTACATAGCT-TA-ATGAATTAATATTATACATAACTTA
1 ATTA-ATA-TTATACATAAATT-ACA-TA-ACTTAA-TTA
*
18012566 CATTAATATTATACATAAATTACATAACTTAGTTA
1 -ATTAATATTATACATAAATTACATAACTTAATTA
* *
18012601 ATTAATATTATACATAACTTACATAAC-TCA-TA
1 ATTAATATTATACATAAATTACATAACTTAATTA
* * *
18012633 ACTTACATAACT-TAC--AACTTACATAACTTACATTT
1 A-TTA-AT-ATTATACATAAATTACATAACTTA-ATTA
* * * *
18012668 TTTTA-ATTATTCATAAATTACATAACTTACTTA
1 ATTAATATTATACATAAATTACATAACTTAATTA
* * * *
18012701 ATT-TTCATAATAAATAACTTACATAACTTA
1 ATTAAT-ATTATACATAAATTACATAACTTA
18012731 CATAATACAT
Statistics
Matches: 185, Mismatches: 34, Indels: 46
0.70 0.13 0.17
Matches are distributed among these distances:
31 2 0.01
32 17 0.09
33 10 0.05
34 90 0.49
35 7 0.04
36 5 0.03
37 6 0.03
38 13 0.07
39 25 0.14
40 9 0.05
41 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.01, T:0.41
Consensus pattern (34 bp):
ATTAATATTATACATAAATTACATAACTTAATTA
Found at i:18012517 original size:22 final size:22
Alignment explanation
Indices: 18012484--18012534 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
18012474 TACATAAGTT
18012484 AATTA-ATTAATATTATACATA
1 AATTACATTAATATTATACATA
*
18012505 ACTTACATTAATATTATACATA
1 AATTACATTAATATTATACATA
18012527 AATTACAT
1 AATTACAT
18012535 AGCTTAATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTACATTAATATTATACATA
Found at i:18012573 original size:22 final size:22
Alignment explanation
Indices: 18012545--18012590 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
18012535 AGCTTAATGA
*
18012545 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAAATTAC
18012567 ATTAATATTATACATAAATTAC
1 ATTAATATTATACATAAATTAC
18012589 AT
1 AT
18012591 AACTTAGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTAATATTATACATAAATTAC
Found at i:18012639 original size:25 final size:24
Alignment explanation
Indices: 18012614--18012844 Score: 77
Period size: 25 Copynumber: 9.3 Consensus size: 24
18012604 AATATTATAC
18012614 ATAACTTACATAACTCATAACTTAC
1 ATAACTTACATAACTCATAA-TTAC
18012639 ATAACTTAC--AACTTACATAACTTAC
1 ATAACTTACATAAC-T-CATAA-TTAC
*** * *
18012664 ATTTTTTTA-ATTATTCATAAATTAC
1 A-TAACTTACATAACTCAT-AATTAC
* * *
18012689 ATAACTTACTTAATTTTCATAA-TAA
1 ATAACTTACATAA--CTCATAATTAC
18012714 ATAACTTACATAACTTACATAA-TAC
1 ATAACTTACATAAC-T-CATAATTAC
* *
18012739 ATAACTTATATGACTTACATAACTTAC
1 ATAACTTACATAAC-T-CATAA-TTAC
* * **
18012766 ATAGCATA-AT-TTTCATAA-TAC
1 ATAACTTACATAACTCATAATTAC
* * *
18012787 ACAACTTACATAATTTTCATAA-TAA
1 ATAACTTACATAA--CTCATAATTAC
18012812 ATAACTTACATAA-TACATAACTTAC
1 ATAACTTACATAACT-CATAA-TTAC
*
18012837 ATAGCTTA
1 ATAACTTA
18012845 ATTATACTTA
Statistics
Matches: 158, Mismatches: 28, Indels: 40
0.70 0.12 0.18
Matches are distributed among these distances:
21 8 0.05
22 3 0.02
23 13 0.08
24 7 0.04
25 101 0.64
26 11 0.07
27 15 0.09
ACGTcount: A:0.44, C:0.17, G:0.01, T:0.38
Consensus pattern (24 bp):
ATAACTTACATAACTCATAATTAC
Done.