Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12616935
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 26 of 51
Found at i:6956399 original size:16 final size:17
Alignment explanation
Indices: 6956356--6956401 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 17
6956346 AGAAGTGTTA
6956356 AATGTGTTAAATGGGAG
1 AATGTGTTAAATGGGAG
6956373 AAGTTGTGTTAAATGGGAG
1 AA--TGTGTTAAATGGGAG
6956392 AA-GTGTTAAA
1 AATGTGTTAAA
6956402 GTAAGGGGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 8 0.30
17 2 0.07
19 17 0.63
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (17 bp):
AATGTGTTAAATGGGAG
Found at i:6964476 original size:18 final size:18
Alignment explanation
Indices: 6964453--6964489 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
6964443 AGAAATAGAC
*
6964453 AATCTCGTATTTGTTCTT
1 AATCTCGTATTTATTCTT
6964471 AATCTCGTATTTATTCTT
1 AATCTCGTATTTATTCTT
6964489 A
1 A
6964490 TCCCCGTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.16, G:0.08, T:0.54
Consensus pattern (18 bp):
AATCTCGTATTTATTCTT
Found at i:6965598 original size:734 final size:733
Alignment explanation
Indices: 6963562--6965789 Score: 3866
Period size: 734 Copynumber: 3.0 Consensus size: 733
6963552 CCAATTATGT
6963562 TATAAAGTCATAAGGTATTTGAAGTGTCATGAAAATATAAGTGTGGATAATATTAAACGTGTATT
1 TATAAAGTCATAAGGTATTTGAAGTGTCATGAAAATATAAGTGTGGATAATATTAAACGTGTATT
* *
6963627 TATAATTCGATAAGGGGCAAAGTTATAAGTATATAATGTAAAATATTCTTAAATCAGCTATATAA
66 TATAATTCGATAAGGGGCAGAGTTATAAGTATATAATGTAAAAGATTCTTAAATCAGCTATATAA
* * * *
6963692 AGGGATTATGGTCCTTATGAAATAGACAATCTCATATTTATTCTTATCCCCATAAGAGAGATTAT
131 AGGGATTATGATCCCTAAGAAATAGACAATCTCGTATTTATTCTTATCCCCATAAGAGAGATTAT
6963757 ACTTAAGGGAACTCTATCTTCTTTGAAGATCACAACCAAAGAAAGATTCAAGGATTTCAACCTTT
196 ACTTAAGGGAACTCTATCTTCTTTGAAGATCACAACCAAAGAAAGATTCAAGGATTTCAACCTTT
* * *
6963822 CAATTATTTCAGCTACACTTCTGTATGTAGTATTTTTATTCTTGATGATTTGACATGATTAAATC
261 CAATTATTTCAGCTACGCTTCCGCATGTAGTATTTTTATTCTTGATGATTTGACATGATTAAATC
*
6963887 TTGGTTAGTTTTTCATATTTATTATAGTTTGGTTTTGACAACTTAGACTTATACCCCAAAATCTC
326 TTGGTTAGTTTTTCATATTTATTATAGTTTGGTTCT-ACAACTTAGACTTATACCCCAAAATCTC
6963952 AAGTGTACAACACTTCCCAAGAAGAAAATACAAATAACAAACTTTTTAAAAATCCTTACAAGGAG
390 AAGTGTACAACACTTCCCAAGAAGAAAATACAAATAACAAACTTTTTAAAAATCCTTACAAGGAG
*
6964017 AGTGTTTGCA-ATATTTAGAACAAATAGAACATGTAAACCCCTAGACTCGGCCTGGACATTACAA
455 AGTGTTTGCACA-ATTTAGAACAAATAGAACATGTAACCCCCTAGACTCGGCCTGGACATTACAA
* *
6964081 CCGATTCTTGGAGACCACAACAATGTTTCGATTGAACTGAAATCAAGAAAATCATATTTTTTAGC
519 CCGATTCTTGGAGACCACAACAATGTTTCGGTTGAACTGAAATCAAGAAAATCACATTTTTTAGC
*
6964146 ATGCATCATCAATGAGTCGTGAAAATCTGTAAGCAGAAGTAAGAGTTCATAATATAACAATATAC
584 ATGCATCATCAATGAGTCGTGAAAATCCGTAAGCAGAAGTAAGAGTTCATAATATAACAATATAC
6964211 TATGAGTTTAAAATCTAAAATAGATAAAATAATTTAACATCCCAAATTCCCATAAATAAACATAA
649 TATGAGTTTAAAATCTAAAATAGATAAAATAATTTAACATCCCAAATTCCCATAAATAAACATAA
*
6964276 TATAAATGAAAAATGAATAA
714 TATCAATGAAAAATGAATAA
6964296 TATAAAGTCATAAGGTATTTGAAGTGTCATGAAAATATAAGTGTGGATAATATTAAACGTGTATT
1 TATAAAGTCATAAGGTATTTGAAGTGTCATGAAAATATAAGTGTGGATAATATTAAACGTGTATT
* * *
6964361 TATAATTAGATAAGGGGTAGAGTTATAAGTATATAATCTAAAAGATTCTTAAATCAGCTATATAA
66 TATAATTCGATAAGGGGCAGAGTTATAAGTATATAATGTAAAAGATTCTTAAATCAGCTATATAA
6964426 AGGGATTAT-AGTCCCTAAGAAATAGACAATCTCGTATTTGTTCTTAATCTCGTATTTATTCTTA
131 AGGGATTATGA-TCCCTAAGAAAT-----A----G-A------C--AATCTCGTATTTATTCTTA
* *
6964490 TCCCCGTAAGAGAGATTATACTTAAGGGAACTCTATCTTCTTTGAAGATCACAACCAATGAAAGA
177 TCCCCATAAGAGAGATTATACTTAAGGGAACTCTATCTTCTTTGAAGATCACAACCAAAGAAAGA
* * *
6964555 TTCATGAATTTCAACCTTTCAATTATTTCAGCTACGTTTCCGCATGTAGTATTTTTATTCTTGAT
242 TTCAAGGATTTCAACCTTTCAATTATTTCAGCTACGCTTCCGCATGTAGTATTTTTATTCTTGAT
*
6964620 GATTTGATATGATTAAATCTTGGTTAGTTTTTCATATTTATTATAGTTTGGTTCTAACAACTTAG
307 GATTTGACATGATTAAATCTTGGTTAGTTTTTCATATTTATTATAGTTTGGTTCT-ACAACTTAG
6964685 ACTTATACCCCAAAATCTCAAGTGTACAACACTTCCCAAGAAGAAAATACAAATAACAAACTTTT
371 ACTTATACCCCAAAATCTCAAGTGTACAACACTTCCCAAGAAGAAAATACAAATAACAAACTTTT
* *
6964750 TAAAAATCCTTACAAGGAGAGTTTTTACACAATTTAGAACAAATAGAACATGTAACCCCCTAGAC
436 TAAAAATCCTTACAAGGAGAGTGTTTGCACAATTTAGAACAAATAGAACATGTAACCCCCTAGAC
** * *
6964815 TCAACCTGGACATTACAACCGATTCTTGGAGAGCACAACAATCTTTCGGTTGAACTGAAATCAAG
501 TCGGCCTGGACATTACAACCGATTCTTGGAGACCACAACAATGTTTCGGTTGAACTGAAATCAAG
6964880 AAAATCACATTTTTTAGCATGCATCATCAATGAGTCGTGAAAATCCGTAAGCAGAAGTAAGAGTT
566 AAAATCACATTTTTTAGCATGCATCATCAATGAGTCGTGAAAATCCGTAAGCAGAAGTAAGAGTT
*
6964945 CATAATATAACAATATACTATGAGTTTAAAATCTAAAATAGATAAAATATTTTAACATCCCAAAT
631 CATAATATAACAATATACTATGAGTTTAAAATCTAAAATAGATAAAATAATTTAACATCCCAAAT
* *
6965010 TCCCATAACTAAACATAATATCAATGAAAAATGAATAT
696 TCCCATAAATAAACATAATATCAATGAAAAATGAATAA
*
6965048 TATAAAGTCATAAGGTATTTGAAGTGTCATGAAAATATAAGTCTGGATAATATTAAACGTGTATT
1 TATAAAGTCATAAGGTATTTGAAGTGTCATGAAAATATAAGTGTGGATAATATTAAACGTGTATT
6965113 TATAATTCGATAAGGGGCAGAGTTATAAGTATATAATGTAAAAGATTCTTAAATCAGCTATATAA
66 TATAATTCGATAAGGGGCAGAGTTATAAGTATATAATGTAAAAGATTCTTAAATCAGCTATATAA
*
6965178 TGGGATTATGATCCCTAAGAAATAGACAATCTCGTATTTATTCTTATCCCCATAAGAGAGATTAT
131 AGGGATTATGATCCCTAAGAAATAGACAATCTCGTATTTATTCTTATCCCCATAAGAGAGATTAT
6965243 ACTTAAGGGAACTCTATCTTCTTTGAAGATCACAACCAAAGAAAGATTCAAGGATTTCAACCTTT
196 ACTTAAGGGAACTCTATCTTCTTTGAAGATCACAACCAAAGAAAGATTCAAGGATTTCAACCTTT
6965308 CAATTATTTCAGCTACGCTTCCGCATGTAGTATTTTTATTCTTGATGATTTGACATGATTAAATC
261 CAATTATTTCAGCTACGCTTCCGCATGTAGTATTTTTATTCTTGATGATTTGACATGATTAAATC
6965373 TTGGTTAGTTTTTCATATTTATTATAGTTTGGTTCTATCAACTTAGACTTATACCCCAAAATCTC
326 TTGGTTAGTTTTTCATATTTATTATAGTTTGGTTCTA-CAACTTAGACTTATACCCCAAAATCTC
*
6965438 AAGTGTACAACACTTCCCAAGAAGAAAATACAAATAACAAACGTTTTAAAAATCCTTACAAGGAG
390 AAGTGTACAACACTTCCCAAGAAGAAAATACAAATAACAAACTTTTTAAAAATCCTTACAAGGAG
*
6965503 AGTGTTTGCACAATTTAGAACAAATAGAACATGTAACCCCCTAGACCCGGCCTGGACATTACAAC
455 AGTGTTTGCACAATTTAGAACAAATAGAACATGTAACCCCCTAGACTCGGCCTGGACATTACAAC
* *
6965568 CGATTCTTGGAGACCACAACAATGTTTCGGTTGAACTGAAATCAAGAAAATCGCATATTTTAGCA
520 CGATTCTTGGAGACCACAACAATGTTTCGGTTGAACTGAAATCAAGAAAATCACATTTTTTAGCA
**
6965633 CACATCATCAATGAGTCGTGAAAATCCGTAAGCAGAAGTAAGAGTTCATAATATAACAATATACT
585 TGCATCATCAATGAGTCGTGAAAATCCGTAAGCAGAAGTAAGAGTTCATAATATAACAATATACT
6965698 ATGAGTTTAAAATCTAAAATAGATAAAATAATTTAACATCCCAAATTCCCATAAATAAACATAAT
650 ATGAGTTTAAAATCTAAAATAGATAAAATAATTTAACATCCCAAATTCCCATAAATAAACATAAT
6965763 ATCAATGAAAAATGAATAA
715 ATCAATGAAAAATGAATAA
6965782 TATAAAGT
1 TATAAAGT
6965790 TTGGAAATGT
Statistics
Matches: 1412, Mismatches: 60, Indels: 44
0.93 0.04 0.03
Matches are distributed among these distances:
733 1 0.00
734 706 0.50
736 1 0.00
739 1 0.00
742 1 0.00
743 2 0.00
744 1 0.00
747 1 0.00
750 1 0.00
752 695 0.49
753 2 0.00
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (733 bp):
TATAAAGTCATAAGGTATTTGAAGTGTCATGAAAATATAAGTGTGGATAATATTAAACGTGTATT
TATAATTCGATAAGGGGCAGAGTTATAAGTATATAATGTAAAAGATTCTTAAATCAGCTATATAA
AGGGATTATGATCCCTAAGAAATAGACAATCTCGTATTTATTCTTATCCCCATAAGAGAGATTAT
ACTTAAGGGAACTCTATCTTCTTTGAAGATCACAACCAAAGAAAGATTCAAGGATTTCAACCTTT
CAATTATTTCAGCTACGCTTCCGCATGTAGTATTTTTATTCTTGATGATTTGACATGATTAAATC
TTGGTTAGTTTTTCATATTTATTATAGTTTGGTTCTACAACTTAGACTTATACCCCAAAATCTCA
AGTGTACAACACTTCCCAAGAAGAAAATACAAATAACAAACTTTTTAAAAATCCTTACAAGGAGA
GTGTTTGCACAATTTAGAACAAATAGAACATGTAACCCCCTAGACTCGGCCTGGACATTACAACC
GATTCTTGGAGACCACAACAATGTTTCGGTTGAACTGAAATCAAGAAAATCACATTTTTTAGCAT
GCATCATCAATGAGTCGTGAAAATCCGTAAGCAGAAGTAAGAGTTCATAATATAACAATATACTA
TGAGTTTAAAATCTAAAATAGATAAAATAATTTAACATCCCAAATTCCCATAAATAAACATAATA
TCAATGAAAAATGAATAA
Found at i:6969414 original size:29 final size:29
Alignment explanation
Indices: 6969373--6969454 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
6969363 CACCCTTTTT
6969373 CGAATTATTTACCAGAATAGCACCAAAAC
1 CGAATTATTTACCAGAATAGCACCAAAAC
*
6969402 TGAATTATTTACCAGAATAGCACCAAAAC
1 CGAATTATTTACCAGAATAGCACCAAAAC
* *
6969431 CAAATTATTTACCAAAATAGCACC
1 CGAATTATTTACCAGAATAGCACC
6969455 GGTCAACGGT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.45, C:0.23, G:0.09, T:0.23
Consensus pattern (29 bp):
CGAATTATTTACCAGAATAGCACCAAAAC
Found at i:6969466 original size:7 final size:7
Alignment explanation
Indices: 6969454--6969479 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6969444 AAAATAGCAC
6969454 CGGTCAA
1 CGGTCAA
6969461 CGGTCAA
1 CGGTCAA
6969468 CGGTCAA
1 CGGTCAA
6969475 CGGTC
1 CGGTC
6969480 GGGTCGGGTC
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:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (7 bp):
CGGTCAA
Found at i:6969548 original size:17 final size:13
Alignment explanation
Indices: 6969479--6969540 Score: 117
Period size: 13 Copynumber: 4.8 Consensus size: 13
6969469 GGTCAACGGT
6969479 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
6969492 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
6969505 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
6969518 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
6969531 C-GGTCGGGTC
1 CGGGTCGGGTC
6969541 GGGTCAACTA
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
12 9 0.18
13 40 0.82
ACGTcount: A:0.13, C:0.24, G:0.47, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:6969554 original size:17 final size:17
Alignment explanation
Indices: 6969469--6969562 Score: 77
Period size: 13 Copynumber: 6.2 Consensus size: 17
6969459 AACGGTCAAC
*
6969469 GGTCAACGGTCGGGTCG
1 GGTCAACGATCGGGTCG
6969486 GGTC-A--A-CGGGTCG
1 GGTCAACGATCGGGTCG
6969499 GGTC-A--A-CGGGTCG
1 GGTCAACGATCGGGTCG
6969512 GGTC-A--A-CGGGTCG
1 GGTCAACGATCGGGTCG
*
6969525 GGTCAACGGTCGGGTCG
1 GGTCAACGATCGGGTCG
*
6969542 GGTCAACTATCGGGTCG
1 GGTCAACGATCGGGTCG
6969559 GGTC
1 GGTC
6969563 GTGACCGGTC
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
13 37 0.54
14 1 0.01
16 1 0.01
17 30 0.43
ACGTcount: A:0.14, C:0.23, G:0.45, T:0.18
Consensus pattern (17 bp):
GGTCAACGATCGGGTCG
Found at i:6976678 original size:28 final size:29
Alignment explanation
Indices: 6976635--6976714 Score: 137
Period size: 28 Copynumber: 2.8 Consensus size: 29
6976625 CACCCTTTTT
6976635 CGAATTATTTACCAGAATAGCACCAAAAC
1 CGAATTATTTACCAGAATAGCACCAAAAC
*
6976664 TGAATT-TTTACCAGAATAGCACCAAAAC
1 CGAATTATTTACCAGAATAGCACCAAAAC
6976692 CGAATTATTTACCA-AATAGCACC
1 CGAATTATTTACCAGAATAGCACC
6976715 GGTCAACGGT
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
28 36 0.75
29 12 0.25
ACGTcount: A:0.42, C:0.24, G:0.10, T:0.24
Consensus pattern (29 bp):
CGAATTATTTACCAGAATAGCACCAAAAC
Found at i:6976726 original size:7 final size:7
Alignment explanation
Indices: 6976714--6976746 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
6976704 CAAATAGCAC
6976714 CGGTCAA
1 CGGTCAA
6976721 CGGTCAA
1 CGGTCAA
6976728 CGGTCAA
1 CGGTCAA
6976735 CGGTCAA
1 CGGTCAA
6976742 CGGTC
1 CGGTC
6976747 GGGTCGGGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.15
Consensus pattern (7 bp):
CGGTCAA
Found at i:6976758 original size:17 final size:17
Alignment explanation
Indices: 6976736--6976803 Score: 108
Period size: 17 Copynumber: 4.2 Consensus size: 17
6976726 AACGGTCAAC
6976736 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
6976753 GGTCAA----CGGGTCG
1 GGTCAACGGTCGGGTCG
6976766 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
6976783 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
6976800 GGTC
1 GGTC
6976804 GTGACTGGTC
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
13 13 0.28
17 34 0.72
ACGTcount: A:0.12, C:0.24, G:0.47, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:6976772 original size:30 final size:29
Alignment explanation
Indices: 6976722--6976798 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 29
6976712 ACCGGTCAAC
*
6976722 GGTCAACGGTCAACGGTCAACGGTCGGGTCG
1 GGTCAACGGTC--GGGTCAACGGTCGGGTCG
6976753 GGTCAACGGGTCGGGTCAACGGTCGGGTCG
1 GGTCAAC-GGTCGGGTCAACGGTCGGGTCG
6976783 GGTCAACGGTCGGGTC
1 GGTCAACGGTCGGGTC
6976799 GGGTCGTGAC
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
29 9 0.20
30 24 0.55
31 7 0.16
32 4 0.09
ACGTcount: A:0.16, C:0.25, G:0.43, T:0.17
Consensus pattern (29 bp):
GGTCAACGGTCGGGTCAACGGTCGGGTCG
Found at i:6976798 original size:12 final size:13
Alignment explanation
Indices: 6976746--6976781 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
6976736 GGTCAACGGT
6976746 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
6976759 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
6976772 C-GGTCGGGTC
1 CGGGTCGGGTC
6976782 GGGTCAACGG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 9 0.39
13 14 0.61
ACGTcount: A:0.11, C:0.25, G:0.47, T:0.17
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:6979324 original size:175 final size:176
Alignment explanation
Indices: 6979033--6979383 Score: 695
Period size: 175 Copynumber: 2.0 Consensus size: 176
6979023 CCCCCTAGGT
6979033 ATAAGGCACACTATTCCTTAGAATTTTTTTCAAATGAGCTGCAATCATAGAGAACCTCTCTACAA
1 ATAAGGCACACTATTCCTTAGAATTTTTTTCAAATGAGCTGCAATCATAGAGAACCTCTCTACAA
6979098 ACCTCCAGTAATAGCCCTATAAGCACAAAAAACTATGAACCTCAACCATATTCTTATGTTGTTTC
66 ACCTCCAGTAATAGCCCTATAAGCACAAAAAACTATGAACCTCAACCATATTCTTATGTTGTTTC
6979163 CAGTTCATAGTAGCCTCAA-TTTTTTTCGAATCAACAGAAATACGC
131 CAGTTCATAGTAGCCTCAATTTTTTTTCGAATCAACAGAAATACGC
6979208 ATAAGGCACACTATTCCTTAGAATTTTTTTCAAATGAGCTGCAATCATAGAGAACCTCTCTACAA
1 ATAAGGCACACTATTCCTTAGAATTTTTTTCAAATGAGCTGCAATCATAGAGAACCTCTCTACAA
6979273 ACCTCCAGTAATAGCCCTATAAGCACAAAAAACTATGAACCTCAACCATATTCTTATGTTGTTTC
66 ACCTCCAGTAATAGCCCTATAAGCACAAAAAACTATGAACCTCAACCATATTCTTATGTTGTTTC
6979338 CAGTTCATAGTAGCCTCAATTTTTTTTCGAATCAACAGAAATACGC
131 CAGTTCATAGTAGCCTCAATTTTTTTTCGAATCAACAGAAATACGC
6979384 TTAGCAGAAA
Statistics
Matches: 175, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
175 149 0.85
176 26 0.15
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.30
Consensus pattern (176 bp):
ATAAGGCACACTATTCCTTAGAATTTTTTTCAAATGAGCTGCAATCATAGAGAACCTCTCTACAA
ACCTCCAGTAATAGCCCTATAAGCACAAAAAACTATGAACCTCAACCATATTCTTATGTTGTTTC
CAGTTCATAGTAGCCTCAATTTTTTTTCGAATCAACAGAAATACGC
Found at i:6993366 original size:48 final size:48
Alignment explanation
Indices: 6993292--6993416 Score: 187
Period size: 48 Copynumber: 2.6 Consensus size: 48
6993282 TATTTATGAA
*
6993292 TACTATTGATGATGATTAGCACGTCTGACGTCTGTGTTACGATGGTGC
1 TACTATTGATGATGATTAGCACGTCTGACGTCTGTGTGACGATGGTGC
* *
6993340 TACTATTGATGATGATTAGCATGTCTGACGTCTGTGTGATGATGGTGC
1 TACTATTGATGATGATTAGCACGTCTGACGTCTGTGTGACGATGGTGC
* * * *
6993388 TACTATTGATTATAACTAGCACATCTGAC
1 TACTATTGATGATGATTAGCACGTCTGAC
6993417 ATTACTTATG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (48 bp):
TACTATTGATGATGATTAGCACGTCTGACGTCTGTGTGACGATGGTGC
Found at i:6994687 original size:22 final size:20
Alignment explanation
Indices: 6994662--6994702 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
6994652 TTGATTGAAG
6994662 ATATTCCAATCAAAGATAAAAT
1 ATATTCCAA--AAAGATAAAAT
*
6994684 ATATTCTAAAAAGATAAAA
1 ATATTCCAAAAAGATAAAA
6994703 AACTAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
22 8 0.44
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.27
Consensus pattern (20 bp):
ATATTCCAAAAAGATAAAAT
Found at i:6995100 original size:29 final size:30
Alignment explanation
Indices: 6995049--6995114 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
6995039 TTTTTAAAAG
* * * *
6995049 TGACCAAAATGTAAATTTTGAAA-GTTTAA
1 TGACCAAAATATAAACTTAGAAACGTTCAA
*
6995078 TGACCAAAGTATAAACTTAGAAACGTTCAA
1 TGACCAAAATATAAACTTAGAAACGTTCAA
*
6995108 GGACCAA
1 TGACCAA
6995115 CGTGATAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (30 bp):
TGACCAAAATATAAACTTAGAAACGTTCAA
Found at i:6998651 original size:22 final size:23
Alignment explanation
Indices: 6998626--6998677 Score: 54
Period size: 25 Copynumber: 2.2 Consensus size: 23
6998616 AATTAATGGT
*
6998626 TTAAAATATAA-A-AACATTAATA
1 TTAAAATATAATACAA-AATAATA
6998648 TTAATTAATATAATACAAAATAATA
1 TTAA--AATATAATACAAAATAATA
6998673 TTAAA
1 TTAAA
6998678 TTACTATACT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
22 4 0.16
23 1 0.04
24 7 0.28
25 11 0.44
26 2 0.08
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (23 bp):
TTAAAATATAATACAAAATAATA
Found at i:7009809 original size:22 final size:22
Alignment explanation
Indices: 7009784--7009830 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
7009774 TTTTCTCTAT
*
7009784 TTTCTCAATTGGTTAGTTGTTG
1 TTTCTCAATTGCTTAGTTGTTG
* * *
7009806 TTTCTCTATTTCTTGGTTGTTG
1 TTTCTCAATTGCTTAGTTGTTG
7009828 TTT
1 TTT
7009831 TCTTTCTCTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.11, G:0.19, T:0.62
Consensus pattern (22 bp):
TTTCTCAATTGCTTAGTTGTTG
Found at i:7010488 original size:14 final size:16
Alignment explanation
Indices: 7010417--7010489 Score: 55
Period size: 14 Copynumber: 4.6 Consensus size: 16
7010407 AAATATCAAG
7010417 AATAATAATAATATA-
1 AATAATAATAATATAT
7010432 AAT-ATAATAATATTTAT
1 AATAATAATAATA--TAT
* * *
7010449 TATATTTATTATATATAT
1 AATA-ATAATA-ATATAT
7010467 AATAATAATAATATA-
1 AATAATAATAATATAT
7010482 AAT-ATAAT
1 AATAATAAT
7010490 GGTAATATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
14 14 0.30
15 6 0.13
16 7 0.15
17 6 0.13
18 6 0.13
19 4 0.09
20 3 0.07
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAATAATAATATAT
Found at i:7012530 original size:16 final size:17
Alignment explanation
Indices: 7012499--7012536 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
7012489 ATTCAGACTG
7012499 ACATACCTAAGATGCTA
1 ACATACCTAAGATGCTA
*
7012516 ACATA-CTAGGATGCTA
1 ACATACCTAAGATGCTA
*
7012532 GCATA
1 ACATA
7012537 ATGACCACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (17 bp):
ACATACCTAAGATGCTA
Found at i:7015200 original size:16 final size:16
Alignment explanation
Indices: 7015179--7015209 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7015169 ATGGTCGACA
*
7015179 TAATCAATAAAATAAT
1 TAATCAACAAAATAAT
7015195 TAATCAACAAAATAA
1 TAATCAACAAAATAA
7015210 AATTTTAAGA
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:0.65, C:0.10, G:0.00, T:0.26
Consensus pattern (16 bp):
TAATCAACAAAATAAT
Found at i:7017948 original size:15 final size:15
Alignment explanation
Indices: 7017930--7017964 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7017920 CACAAATTCA
**
7017930 TGTCTTATCTTGATG
1 TGTCTTATCCAGATG
7017945 TGTCTTATCCAGATG
1 TGTCTTATCCAGATG
7017960 TGTCT
1 TGTCT
7017965 CACAAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.14, C:0.17, G:0.20, T:0.49
Consensus pattern (15 bp):
TGTCTTATCCAGATG
Found at i:7021680 original size:21 final size:21
Alignment explanation
Indices: 7021654--7021696 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
7021644 CAGTACCGTG
7021654 AGAGTATTGTGTAACACATTT
1 AGAGTATTGTGTAACACATTT
7021675 AGAGTATTGTGTAACACATTT
1 AGAGTATTGTGTAACACATTT
7021696 A
1 A
7021697 AAGATTTGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (21 bp):
AGAGTATTGTGTAACACATTT
Found at i:7021705 original size:21 final size:21
Alignment explanation
Indices: 7021656--7021707 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
7021646 GTACCGTGAG
*
7021656 AGTATTGTGTAACACATTTAG
1 AGTATTGTGTAACACATTTAA
7021677 AGTATTGTGTAACACATTTAA
1 AGTATTGTGTAACACATTTAA
7021698 AG-ATTTGTGT
1 AGTA-TTGTGT
7021708 TCCTTGAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (21 bp):
AGTATTGTGTAACACATTTAA
Found at i:7032491 original size:19 final size:21
Alignment explanation
Indices: 7032455--7032496 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
7032445 ATTATTATTA
7032455 TTTATTATATAATTT-AAATT
1 TTTATTATATAATTTAAAATT
*
7032475 TTTATTATA-ATTTTAAAATT
1 TTTATTATATAATTTAAAATT
7032495 TT
1 TT
7032497 CACAATTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTATTATATAATTTAAAATT
Found at i:7037292 original size:20 final size:20
Alignment explanation
Indices: 7037275--7037316 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
7037265 TGGTATCGAG
7037275 ACCATATGAAAAGTATCGGT
1 ACCATATGAAAAGTATCGGT
*
7037295 ACCATATGAATAGTATCGGT
1 ACCATATGAAAAGTATCGGT
7037315 AC
1 AC
7037317 TGTTCATGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (20 bp):
ACCATATGAAAAGTATCGGT
Found at i:7039985 original size:45 final size:45
Alignment explanation
Indices: 7039929--7040347 Score: 552
Period size: 45 Copynumber: 9.3 Consensus size: 45
7039919 AATACCATGA
* * *
7039929 ATGGCATCTTTTATGCCAATAATGCACCGTTATGCAATTTCAT-T
1 ATGGCACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATCT
** **
7039973 ACTGGCACCTTTTATGCTTATAAAACACCGTTATGCATTTTCATCT
1 A-TGGCACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATCT
* *
7040019 ATGGCATCTTTTATGCTGATAATGCACCGTTATGCATTTTCATCT
1 ATGGCACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATCT
* * * *
7040064 ATGGCATCTTTTATGCTGATAATGCACTGTTATGCATTTTCATTT
1 ATGGCACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATCT
* *
7040109 ATGGCACCTTTTATGCCGATAATGCACCATTATGTATTTTCATCT
1 ATGGCACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATCT
* *
7040154 ATGGCACCTTTTATGTCGATAATGCATCGTTATGCATTTTCATCT
1 ATGGCACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATCT
** * *
7040199 ATAACACCTTTTATGCCTATAATGCACCGTTATGTATTTTCATCT
1 ATGGCACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATCT
* *
7040244 ATGGCACCTTTTATGTCGATAATGCACCGTTATGCATTTTCATTT
1 ATGGCACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATCT
* ** * * *
7040289 ATGGCACATTTTATGTTGATAATGCTCCGTTATGCATTTTTATTT
1 ATGGCACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATCT
*
7040334 ATGACACCTTTTAT
1 ATGGCACCTTTTAT
7040348 TCCAATTCAC
Statistics
Matches: 333, Mismatches: 40, Indels: 3
0.89 0.11 0.01
Matches are distributed among these distances:
44 1 0.00
45 330 0.99
46 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (45 bp):
ATGGCACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATCT
Found at i:7040032 original size:26 final size:26
Alignment explanation
Indices: 7040003--7040079 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 26
7039993 TAAAACACCG
7040003 TTATGCATTTTCATCTATGGCATCTT
1 TTATGCATTTTCATCTATGGCATCTT
* * **
7040029 TTATGC----TGAT-AAT-GCA-CCG
1 TTATGCATTTTCATCTATGGCATCTT
7040048 TTATGCATTTTCATCTATGGCATCTT
1 TTATGCATTTTCATCTATGGCATCTT
7040074 TTATGC
1 TTATGC
7040080 TGATAATGCA
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
19 7 0.19
20 3 0.08
21 2 0.06
22 3 0.08
23 3 0.08
24 2 0.06
25 3 0.08
26 13 0.36
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.45
Consensus pattern (26 bp):
TTATGCATTTTCATCTATGGCATCTT
Found at i:7040250 original size:25 final size:24
Alignment explanation
Indices: 7040222--7040295 Score: 59
Period size: 25 Copynumber: 3.2 Consensus size: 24
7040212 TGCCTATAAT
7040222 GCACCGTTATGTATTTTCATCTATG
1 GCACCGTTATGTATTTTCAT-TATG
* *
7040247 GCACC-TT-T-TA-TGTCGATAAT-
1 GCACCGTTATGTATTTTC-ATTATG
*
7040267 GCACCGTTATGCATTTTCATTTATG
1 GCACCGTTATGTATTTTCA-TTATG
7040292 GCAC
1 GCAC
7040296 ATTTTATGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 14
0.66 0.09 0.25
Matches are distributed among these distances:
20 5 0.14
21 7 0.19
22 5 0.14
23 3 0.08
24 8 0.22
25 9 0.24
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.41
Consensus pattern (24 bp):
GCACCGTTATGTATTTTCATTATG
Found at i:7042118 original size:87 final size:87
Alignment explanation
Indices: 7042012--7042186 Score: 332
Period size: 87 Copynumber: 2.0 Consensus size: 87
7042002 ATGGATCTGA
7042012 TCAGTACCTTCTAAGCATCGATACGTGAAAAAATATTATGGATCTTGTCCATATCCGGAGGTAAA
1 TCAGTACCTTCTAAGCATCGATACGTGAAAAAATATTATGGATCTTGTCCATATCCGGAGGTAAA
7042077 ACTAATTGATATGCTATTGGTT
66 ACTAATTGATATGCTATTGGTT
*
7042099 TCAGTACCTTCTAAGCATCGATACTTGAAAAAATATTATGGATCTTGTCCATATCCGGAGGTAAA
1 TCAGTACCTTCTAAGCATCGATACGTGAAAAAATATTATGGATCTTGTCCATATCCGGAGGTAAA
*
7042164 ATTAATTGATATGCTATTGGTT
66 ACTAATTGATATGCTATTGGTT
7042186 T
1 T
7042187 GACCATTTTC
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (87 bp):
TCAGTACCTTCTAAGCATCGATACGTGAAAAAATATTATGGATCTTGTCCATATCCGGAGGTAAA
ACTAATTGATATGCTATTGGTT
Found at i:7046776 original size:154 final size:153
Alignment explanation
Indices: 7046496--7046803 Score: 607
Period size: 154 Copynumber: 2.0 Consensus size: 153
7046486 GTCACAAGTG
7046496 TCACATGACTTTTAAAAACATTTTCTTATTTGTAAACACATTAAATTTTGTTTCGAAATTAAAAA
1 TCACATGACTTTTAAAAACATTTTCTTATTTGTAAACACATTAAATTTTGTTTCGAAATTAAAAA
7046561 CAAAACATTTTTAAATATAAGGTATAACATTCGTTGTAAAATATTACAATGTTATAACTTAAATA
66 CAAAACATTTTTAAATATAAGGTATAACATTCGTTGTAAAATATTACAATGTTATAACTTAAATA
7046626 CATTACAAAAGTATTTTTTTAGAT
131 CATTAC-AAAGTATTTTTTTAGAT
7046650 TCACATGACTTTTAAAAACATTTTCTTATTTGTAAACACATTAAATTTTGTTTCGAAATTAAAAA
1 TCACATGACTTTTAAAAACATTTTCTTATTTGTAAACACATTAAATTTTGTTTCGAAATTAAAAA
7046715 CAAAACATTTTTAAATATAAGGTATAACATTCGTTGTAAAATATTACAATGTTATAACTTAAATA
66 CAAAACATTTTTAAATATAAGGTATAACATTCGTTGTAAAATATTACAATGTTATAACTTAAATA
7046780 CATTACAAAGTATTTTTTTAGAT
131 CATTACAAAGTATTTTTTTAGAT
7046803 T
1 T
7046804 TATATACATG
Statistics
Matches: 154, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
153 18 0.12
154 136 0.88
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (153 bp):
TCACATGACTTTTAAAAACATTTTCTTATTTGTAAACACATTAAATTTTGTTTCGAAATTAAAAA
CAAAACATTTTTAAATATAAGGTATAACATTCGTTGTAAAATATTACAATGTTATAACTTAAATA
CATTACAAAGTATTTTTTTAGAT
Found at i:7047261 original size:45 final size:45
Alignment explanation
Indices: 7047210--7047761 Score: 802
Period size: 45 Copynumber: 12.3 Consensus size: 45
7047200 CATGAGTAGA
* * * *
7047210 ACCTTTTATTCCAATAATACACCATTATGCATTTTCA-CTAGTGGC
1 ACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATCTA-TGGC
* * * *
7047255 ACCTTTTATGTCAATAATGCACCATTATGCATTTTCATATATGGC
1 ACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATCTATGGC
* *
7047300 ACCTTTTATGCCGATAATGCACCGTTATGCATTTTTATATATGGC
1 ACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATCTATGGC
* *
7047345 ACCTTTTATGTCGATAATTCACCGTTATGCATTTTCATCTATGGC
1 ACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATCTATGGC
* * *
7047390 ACCTTTTATTCCGATAATGCACCGTTATGAATTTTCATATATGGC
1 ACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATCTATGGC
*
7047435 ACCTTTTATGCCAATAATGCACCGTTATGCATTTTCATCTATGGC
1 ACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATCTATGGC
*
7047480 ACCTTTTATGCCGATAATGCACCATTATGCATTTTCATCTATGGC
1 ACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATCTATGGC
* * *
7047525 ACCTTTTATGGCGATAATGCATCGTTATGCATTTTCATCTATGAC
1 ACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATCTATGGC
*
7047570 ACCTTTTATGCTGATAATGCACCGTTATGCATTTTCATCTATGGC
1 ACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATCTATGGC
* *
7047615 ACCTTTTATGCTGATAATGCATCGTTATGCATTTTCATCTATGGC
1 ACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATCTATGGC
* *
7047660 ACCTTTTATGCCGATAATAG-ACCGTTATGCATCTTCATTTATGGC
1 ACCTTTTATGCCGATAAT-GCACCGTTATGCATTTTCATCTATGGC
** * * *
7047705 AAATTTTATGCTGATAATGCACTGTTATGCATTTTCATTTATGGC
1 ACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATCTATGGC
7047750 ACCTTTTATGCC
1 ACCTTTTATGCC
7047762 AATTCATATA
Statistics
Matches: 460, Mismatches: 44, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
44 1 0.00
45 456 0.99
46 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (45 bp):
ACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATCTATGGC
Found at i:7047436 original size:25 final size:25
Alignment explanation
Indices: 7047364--7047437 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
7047354 GTCGATAATT
* *
7047364 CACCGTTATGCATTTTCATCTATGG
1 CACCGTTATGAATTTTCATATATGG
* *
7047389 CACC-TT-T-TA-TTCCGATA-AT-G
1 CACCGTTATGAATTTTC-ATATATGG
7047409 CACCGTTATGAATTTTCATATATGG
1 CACCGTTATGAATTTTCATATATGG
7047434 CACC
1 CACC
7047438 TTTTATGCCA
Statistics
Matches: 37, Mismatches: 5, Indels: 14
0.66 0.09 0.25
Matches are distributed among these distances:
20 5 0.14
21 7 0.19
22 4 0.11
23 5 0.14
24 7 0.19
25 9 0.24
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (25 bp):
CACCGTTATGAATTTTCATATATGG
Found at i:7047489 original size:26 final size:26
Alignment explanation
Indices: 7047459--7047534 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 26
7047449 TAATGCACCG
7047459 TTATGCATTTTCATCTATGGCACCTT
1 TTATGCATTTTCATCTATGGCACCTT
* *
7047485 TTATGC-----CGAT-AAT-GCACC-A
1 TTATGCATTTTC-ATCTATGGCACCTT
7047504 TTATGCATTTTCATCTATGGCACCTT
1 TTATGCATTTTCATCTATGGCACCTT
7047530 TTATG
1 TTATG
7047535 GCGATAATGC
Statistics
Matches: 37, Mismatches: 4, Indels: 18
0.63 0.07 0.31
Matches are distributed among these distances:
19 6 0.16
20 5 0.14
21 3 0.08
22 2 0.05
23 2 0.05
24 3 0.08
25 5 0.14
26 11 0.30
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.42
Consensus pattern (26 bp):
TTATGCATTTTCATCTATGGCACCTT
Found at i:7047578 original size:26 final size:25
Alignment explanation
Indices: 7047549--7047625 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 25
7047539 TAATGCATCG
7047549 TTATGCATTTTCATCTATGACACCTT
1 TTATGCATTTTCATCTATG-CACCTT
* * *
7047575 TTATGC----TGAT-AATGCACC-G
1 TTATGCATTTTCATCTATGCACCTT
7047594 TTATGCATTTTCATCTATGGCACCTT
1 TTATGCATTTTCATCTAT-GCACCTT
7047620 TTATGC
1 TTATGC
7047626 TGATAATGCA
Statistics
Matches: 38, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
19 6 0.16
20 4 0.11
21 3 0.08
22 3 0.08
23 3 0.08
24 2 0.05
25 5 0.13
26 12 0.32
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (25 bp):
TTATGCATTTTCATCTATGCACCTT
Found at i:7047616 original size:25 final size:25
Alignment explanation
Indices: 7047588--7047662 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
7047578 TGCTGATAAT
7047588 GCACCGTTATGCATTTTCATCTATG
1 GCACCGTTATGCATTTTCATCTATG
* * *
7047613 GCACCTTTTATGC----TGAT-AAT-
1 GCACC-GTTATGCATTTTCATCTATG
*
7047633 GCATCGTTATGCATTTTCATCTATG
1 GCACCGTTATGCATTTTCATCTATG
7047658 GCACC
1 GCACC
7047663 TTTTATGCCG
Statistics
Matches: 35, Mismatches: 8, Indels: 14
0.61 0.14 0.25
Matches are distributed among these distances:
19 6 0.17
20 4 0.11
21 2 0.06
22 3 0.09
23 3 0.09
24 2 0.06
25 9 0.26
26 6 0.17
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (25 bp):
GCACCGTTATGCATTTTCATCTATG
Found at i:7057832 original size:14 final size:14
Alignment explanation
Indices: 7057813--7057841 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7057803 GCTCTCTTAT
7057813 ATGAACTTAAATTC
1 ATGAACTTAAATTC
7057827 ATGAACTTAAATTC
1 ATGAACTTAAATTC
7057841 A
1 A
7057842 AATAATTTTT
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:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (14 bp):
ATGAACTTAAATTC
Found at i:7058329 original size:11 final size:13
Alignment explanation
Indices: 7058309--7058355 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
7058299 GATTATTCTT
7058309 TTTCTATTTC-CTA
1 TTTCT-TTTCTCTA
7058322 TTT-TTTTCTCTA
1 TTTCTTTTCTCTA
*
7058334 TTTCTTTTTCTCCA
1 TTTC-TTTTCTCTA
7058348 TTTCTTTT
1 TTTCTTTT
7058356 TGTTTTTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 4 0.13
12 7 0.23
13 7 0.23
14 12 0.40
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTCTTTTCTCTA
Found at i:7058341 original size:14 final size:14
Alignment explanation
Indices: 7058324--7058356 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
7058314 ATTTCCTATT
*
7058324 TTTTTCTCTATTTC
1 TTTTTCTCCATTTC
7058338 TTTTTCTCCATTTC
1 TTTTTCTCCATTTC
7058352 TTTTT
1 TTTTT
7058357 GTTTTTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTTCTCCATTTC
Found at i:7058361 original size:6 final size:6
Alignment explanation
Indices: 7058304--7058391 Score: 54
Period size: 6 Copynumber: 14.2 Consensus size: 6
7058294 CTTTGGATTA
* * * *
7058304 TTCTTT TTCTATT TCCTATT TT-TTT CTCTAT TTCTTT TTCTCCAT TTCTTT
1 TTCTTT TTCT-TT TTCT-TT TTCTTT TTCTTT TTCTTT TTCT--TT TTCTTT
* * *
7058355 TTGTTT TTCTTT TACCTTT TT-ATT TTCTTT TTCTTT T
1 TTCTTT TTCTTT T-TCTTT TTCTTT TTCTTT TTCTTT T
7058392 ATTTTGGAGA
Statistics
Matches: 62, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
5 7 0.11
6 36 0.58
7 14 0.23
8 5 0.08
ACGTcount: A:0.07, C:0.18, G:0.01, T:0.74
Consensus pattern (6 bp):
TTCTTT
Found at i:7058923 original size:16 final size:16
Alignment explanation
Indices: 7058904--7058959 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 16
7058894 TTCTTTTTCC
*
7058904 CTTTTTTCTCTTTTAA
1 CTTTTTTCTCTTTTTA
**
7058920 CTTTTAACT-TTTTTA
1 CTTTTTTCTCTTTTTA
7058935 -TTTTTTC-CTTTTTA
1 CTTTTTTCTCTTTTTA
*
7058949 TTTTTTTCTCT
1 CTTTTTTCTCT
7058960 ATCTCTTCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
14 11 0.34
15 12 0.38
16 9 0.28
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (16 bp):
CTTTTTTCTCTTTTTA
Found at i:7075949 original size:54 final size:54
Alignment explanation
Indices: 7075884--7076277 Score: 592
Period size: 54 Copynumber: 7.3 Consensus size: 54
7075874 ACTTTATGGT
* *
7075884 TTGCACACACAGTGCCAATACGGAAACTCATAAACTTATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGG
** * * * *
7075938 TCACACACACAGTG-GAAGTACGGAAATTTATAAACTTATTATGAATTTCTTTGG
1 TTGCACACATAGTGCCAA-TACGGAAATTCATAAACTTATTATGAATTTCTTAGG
* *
7075992 TTGCACACACAGTGCCAATACTGAAATTCATAAACTTATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGG
* *
7076046 TTGCACACATTGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGG
7076100 TTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGG
** * *
7076154 TTGCACACATAGTGCCAATACAAAAAATCATAAACTTTTTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGG
* * *
7076208 TTGCACACATAGTGCCAATACGGAAATTCATAAAGTCATTATGAATTTATTAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGG
*
7076262 TTGCAAACATAGTGCC
1 TTGCACACATAGTGCC
7076278 TATTCGGTAA
Statistics
Matches: 308, Mismatches: 30, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
53 2 0.01
54 304 0.99
55 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.32
Consensus pattern (54 bp):
TTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGG
Found at i:7078494 original size:11 final size:12
Alignment explanation
Indices: 7078477--7078525 Score: 57
Period size: 11 Copynumber: 4.2 Consensus size: 12
7078467 TTTATTTGCA
7078477 ATTCTTTATCTT
1 ATTCTTTATCTT
7078489 -TTCTTTATCTT
1 ATTCTTTATCTT
* *
7078500 GTT-TTAATCTT
1 ATTCTTTATCTT
*
7078511 ATTTTTTATCTT
1 ATTCTTTATCTT
7078523 ATT
1 ATT
7078526 TCTAGCACCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 20 0.62
12 12 0.38
ACGTcount: A:0.16, C:0.12, G:0.02, T:0.69
Consensus pattern (12 bp):
ATTCTTTATCTT
Found at i:7078867 original size:9 final size:9
Alignment explanation
Indices: 7078853--7078887 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
7078843 CTATTTGTTT
7078853 AAAAAAAAC
1 AAAAAAAAC
7078862 AAAAAAAAAAC
1 --AAAAAAAAC
7078873 AAAAAAAAC
1 AAAAAAAAC
7078882 AAAAAA
1 AAAAAA
7078888 GCAAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 15 0.62
11 9 0.38
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:7078887 original size:11 final size:11
Alignment explanation
Indices: 7078853--7078880 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
7078843 CTATTTGTTT
7078853 AAAAAAAACAA
1 AAAAAAAACAA
7078864 AAAAAAAACAA
1 AAAAAAAACAA
7078875 AAAAAA
1 AAAAAA
7078881 CAAAAAAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:7083178 original size:12 final size:12
Alignment explanation
Indices: 7083137--7083182 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 12
7083127 TTTGCAATTC
*
7083137 TTTATCTT-TTC
1 TTTATCTTATTT
*
7083148 TTTATCTTGTTT
1 TTTATCTTATTT
*
7083160 TAT-TCTTATTT
1 TTTATCTTATTT
7083171 TTTATCTTATTT
1 TTTATCTTATTT
7083183 CCAGCACCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 17 0.59
12 12 0.41
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.74
Consensus pattern (12 bp):
TTTATCTTATTT
Found at i:7083939 original size:30 final size:30
Alignment explanation
Indices: 7083903--7083961 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
7083893 TCTTATCCAT
*
7083903 ATCTGGAGGCAAAGCTAATTGATAAGCTAA
1 ATCTGGAGGCAAAACTAATTGATAAGCTAA
7083933 ATCTGGAGGCAAAACTAATTGATAAGCTA
1 ATCTGGAGGCAAAACTAATTGATAAGCTA
7083962 TGGGTCCGAC
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:0.41, C:0.14, G:0.22, T:0.24
Consensus pattern (30 bp):
ATCTGGAGGCAAAACTAATTGATAAGCTAA
Found at i:7088963 original size:54 final size:54
Alignment explanation
Indices: 7088881--7089166 Score: 385
Period size: 54 Copynumber: 5.3 Consensus size: 54
7088871 ACTCTATGGT
* * * * *
7088881 TTGCACACATAGTGCTAATA-TAGAAATTCATAAACTTATCATGAATTTTTTAAG
1 TTGCACACATAGTGCCAATACGA-AAATTCATAAACTTATTATGAATTTATTAGG
* * *
7088935 TTGCACACACAGTGGCAATACGAAAATTCATAAACTTATTATGAAATTATTAGG
1 TTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTATTAGG
* * *
7088989 TTGCACACACAGTTCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTATTAGG
* * * * *
7089043 TTTCACACATAGTGCCAATAAGGAAATTCATAAACTTATTATGAATTTCTTATG
1 TTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTATTAGG
* *
7089097 TTGCACTCATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTATTAGG
1 TTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTATTAGG
*
7089151 TAGCACACATAGTGCC
1 TTGCACACATAGTGCC
7089167 CATTCGGTAA
Statistics
Matches: 206, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
54 205 1.00
55 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (54 bp):
TTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTATTAGG
Found at i:7097971 original size:26 final size:27
Alignment explanation
Indices: 7097925--7097975 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
7097915 ATTTATAAGA
*
7097925 AAAGAAATAAAAATTACAATGAAATTT
1 AAAGAAATAAAAAATACAATGAAATTT
7097952 AAAG-AATAAAAAAATA-AATGAAAT
1 AAAGAAAT-AAAAAATACAATGAAAT
7097976 CAATTCCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.22
Consensus pattern (27 bp):
AAAGAAATAAAAAATACAATGAAATTT
Found at i:7099585 original size:91 final size:90
Alignment explanation
Indices: 7099431--7099611 Score: 292
Period size: 91 Copynumber: 2.0 Consensus size: 90
7099421 GACCTAACAC
*
7099431 ATCCTTTTATATCCGAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCT
1 ATCCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCT
* *
7099496 ATATTTAATTAATTGGAATTTAATA
66 ATATTTAATTAACTGGAATTAAATA
* *
7099521 ATCCTTTTATATCCAAGTTA-CCTAATCATATTAGGTATATTTTATTATTTCTAATTAATTAAAT
1 ATCCTTTTATATCCAAGTTACCCTAATCATATTAGG--GATTTTATTATTTCAAATTAATTAAAT
7099585 CTATATTTAATTAACTGGAATTAAATA
64 CTATATTTAATTAACTGGAATTAAATA
7099612 TTTGGGGATT
Statistics
Matches: 84, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
89 15 0.18
90 19 0.23
91 50 0.60
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (90 bp):
ATCCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCT
ATATTTAATTAACTGGAATTAAATA
Found at i:7109626 original size:31 final size:31
Alignment explanation
Indices: 7109559--7109618 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
7109549 CAATTTAAGG
*
7109559 CAAAATGCTTTTTGGACTTGAATTGAATTTA
1 CAAAATGCTATTTGGACTTGAATTGAATTTA
7109590 CAAAATG-TATTTGGACTT-AATTGAATTTA
1 CAAAATGCTATTTGGACTTGAATTGAATTTA
7109619 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (31 bp):
CAAAATGCTATTTGGACTTGAATTGAATTTA
Found at i:7109821 original size:21 final size:21
Alignment explanation
Indices: 7109795--7109836 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
7109785 ATTTGAATAT
*
7109795 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
7109816 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
7109837 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:7116991 original size:30 final size:29
Alignment explanation
Indices: 7116949--7117014 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 29
7116939 TCACCACGGA
*
7116949 CATGTG-AGCTCATGAATTTGCATCTCATGG
1 CATGTGCAGCTCATGAATCTGCA-CTCAT-G
*
7116979 CATGTGCA-CTCATGCATCTGCACTCATG
1 CATGTGCAGCTCATGAATCTGCACTCATG
*
7117007 CATCTGCA
1 CATGTGCA
7117015 AACTGTTTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 8 0.25
29 5 0.16
30 18 0.56
31 1 0.03
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (29 bp):
CATGTGCAGCTCATGAATCTGCACTCATG
Found at i:7117000 original size:14 final size:14
Alignment explanation
Indices: 7116957--7117014 Score: 71
Period size: 14 Copynumber: 4.0 Consensus size: 14
7116947 GACATGTGAG
* *
7116957 CTCATGAATTTGCA
1 CTCATGCATCTGCA
*
7116971 TCTCATGGCATGTGCA
1 -CTCAT-GCATCTGCA
7116987 CTCATGCATCTGCA
1 CTCATGCATCTGCA
7117001 CTCATGCATCTGCA
1 CTCATGCATCTGCA
7117015 AACTGTTTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
14 22 0.56
15 10 0.26
16 7 0.18
ACGTcount: A:0.22, C:0.29, G:0.17, T:0.31
Consensus pattern (14 bp):
CTCATGCATCTGCA
Found at i:7122432 original size:57 final size:57
Alignment explanation
Indices: 7122344--7122459 Score: 214
Period size: 57 Copynumber: 2.0 Consensus size: 57
7122334 ATTACCTGAA
*
7122344 GGATCTTCTCAAGATCTTGGACTAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGTT
1 GGATCTTCACAAGATCTTGGACTAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGTT
*
7122401 GGATCTTCACAAGATCTTGGACTAGGATCAGATTCTTGGTTTTGTTGCAGAGGTGTT
1 GGATCTTCACAAGATCTTGGACTAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGTT
7122458 GG
1 GG
7122460 TGGTTCCATC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.20, C:0.15, G:0.29, T:0.36
Consensus pattern (57 bp):
GGATCTTCACAAGATCTTGGACTAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGTT
Found at i:7125302 original size:14 final size:15
Alignment explanation
Indices: 7125283--7125312 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7125273 AATCTATCTA
7125283 AAACA-GAAATAAAT
1 AAACAGGAAATAAAT
7125297 AAACAGGAAATAAAT
1 AAACAGGAAATAAAT
7125312 A
1 A
7125313 TATACGGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.70, C:0.07, G:0.10, T:0.13
Consensus pattern (15 bp):
AAACAGGAAATAAAT
Found at i:7130143 original size:19 final size:19
Alignment explanation
Indices: 7130119--7130157 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
7130109 AGGGTATAAC
7130119 TATTAAATATTTTTAGGGT
1 TATTAAATATTTTTAGGGT
*
7130138 TATTAATTATTTTTAGGGT
1 TATTAAATATTTTTAGGGT
7130157 T
1 T
7130158 CAAATCTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.56
Consensus pattern (19 bp):
TATTAAATATTTTTAGGGT
Found at i:7131602 original size:30 final size:30
Alignment explanation
Indices: 7131566--7131625 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
7131556 GGTCGAAGAG
*
7131566 CCATCAAGTTTGAGCATAGACAATAAACAA
1 CCATCAAGATTGAGCATAGACAATAAACAA
* *
7131596 CCATCAAGATTGAGCATAGAGAGTAAACAA
1 CCATCAAGATTGAGCATAGACAATAAACAA
7131626 AAGGTCGTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.47, C:0.18, G:0.17, T:0.18
Consensus pattern (30 bp):
CCATCAAGATTGAGCATAGACAATAAACAA
Found at i:7132095 original size:15 final size:15
Alignment explanation
Indices: 7132075--7132104 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7132065 GATTAGTATA
7132075 TTTCCTAATTTAGAG
1 TTTCCTAATTTAGAG
*
7132090 TTTCCTAGTTTAGAG
1 TTTCCTAATTTAGAG
7132105 GCATTATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.13, G:0.17, T:0.47
Consensus pattern (15 bp):
TTTCCTAATTTAGAG
Found at i:7132189 original size:14 final size:14
Alignment explanation
Indices: 7132170--7132196 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7132160 AACAGACTAT
7132170 TCTGTTTTCTACAG
1 TCTGTTTTCTACAG
7132184 TCTGTTTTCTACA
1 TCTGTTTTCTACA
7132197 TGGTATCAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.22, G:0.11, T:0.52
Consensus pattern (14 bp):
TCTGTTTTCTACAG
Found at i:7136926 original size:14 final size:14
Alignment explanation
Indices: 7136907--7136934 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7136897 AACAGACTAT
7136907 TCTGTTTTCTACAG
1 TCTGTTTTCTACAG
7136921 TCTGTTTTCTACAG
1 TCTGTTTTCTACAG
7136935 AAATCTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.50
Consensus pattern (14 bp):
TCTGTTTTCTACAG
Found at i:7137332 original size:12 final size:12
Alignment explanation
Indices: 7137315--7137340 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7137305 GATTGCCCAT
7137315 GGGAAAAATATG
1 GGGAAAAATATG
7137327 GGGAAAAATATG
1 GGGAAAAATATG
7137339 GG
1 GG
7137341 TTTTCTTGTG
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:0.46, C:0.00, G:0.38, T:0.15
Consensus pattern (12 bp):
GGGAAAAATATG
Found at i:7150701 original size:106 final size:106
Alignment explanation
Indices: 7150516--7150744 Score: 440
Period size: 106 Copynumber: 2.2 Consensus size: 106
7150506 ACAAAACAGG
* *
7150516 TTTTTAGCGACGTTTTTAAGTGCTGCTAAAAACCTTTGTGGCACAAAAACCAAAGCCATAAAAGG
1 TTTTTAGCGGCGTTTTTAAGTGCTGCTAAAAACCTTTGTGGCACAAAAACAAAAGCCATAAAAGG
7150581 TAGCAATATTTTTCGTTCAGAAACGCCGCTAAAGGTTATGC
66 TAGCAATATTTTTCGTTCAGAAACGCCGCTAAAGGTTATGC
7150622 TTTTTAGCGGCGTTTTTAAGTGCTGCTAAAAACCTTTGTGGCACAAAAACAAAAGCCATAAAAGG
1 TTTTTAGCGGCGTTTTTAAGTGCTGCTAAAAACCTTTGTGGCACAAAAACAAAAGCCATAAAAGG
7150687 TAGCAATATTTTTCGTTCAGAAACGCCGCTAAAGGTTATGC
66 TAGCAATATTTTTCGTTCAGAAACGCCGCTAAAGGTTATGC
7150728 TTTTTAGCGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
7150745 TTCAAACGCC
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 121 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (106 bp):
TTTTTAGCGGCGTTTTTAAGTGCTGCTAAAAACCTTTGTGGCACAAAAACAAAAGCCATAAAAGG
TAGCAATATTTTTCGTTCAGAAACGCCGCTAAAGGTTATGC
Found at i:7151114 original size:21 final size:21
Alignment explanation
Indices: 7151088--7151144 Score: 82
Period size: 20 Copynumber: 2.8 Consensus size: 21
7151078 ATTATCCAAT
*
7151088 AAACTTGACATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
*
7151109 AAACTT-AAATCCATAACAAG
1 AAACTTGAAATCCATAACAAC
7151129 AAAC-TGAAATCCATAA
1 AAACTTGAAATCCATAA
7151145 TAATAAATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 1 0.03
20 26 0.79
21 6 0.18
ACGTcount: A:0.53, C:0.23, G:0.05, T:0.19
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAC
Found at i:7151691 original size:2 final size:2
Alignment explanation
Indices: 7151684--7152137 Score: 400
Period size: 2 Copynumber: 234.5 Consensus size: 2
7151674 TGTTAAATTT
*
7151684 AG AG AG AG GG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7151726 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * * * *
7151768 AG AG -G AG GG AG GG AG -G GG GG AG AG AG GG AG AG GG GG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * *
7151808 AG AG AG GG AG -G AG GG AG GG AG AG -G AG AG AG AG AG GG AG GG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * *
7151848 AG AG AG A- AG -G GG AG GG AG GG AG GG AG AG AG AG -G AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * *
7151887 AG AG AG AG AG GG AG AG GG AG -G AG AG AG AG -G AG AG A- AA ATG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A-G
7151927 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * * *
7151968 AG AG AG GG GG AG AG AG AG AT AG GG AG AG AG -G GG AG AG GG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * * *
7152009 -G GG AG AG GG AG AG AG AG GG AG AG GG GG AG AG AG AG AG AT AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * * * * * * * *
7152050 AG AG GG AG -G GG GG GG GG AG -G GG AG GG GG AG GG GG AG GG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7152090 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7152131 AG AG AG A
1 AG AG AG A
7152138 AATAGACAAC
Statistics
Matches: 374, Mismatches: 61, Indels: 34
0.80 0.13 0.07
Matches are distributed among these distances:
1 16 0.04
2 357 0.95
3 1 0.00
ACGTcount: A:0.40, C:0.00, G:0.59, T:0.01
Consensus pattern (2 bp):
AG
Found at i:7152272 original size:23 final size:23
Alignment explanation
Indices: 7152246--7152294 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
7152236 ATCAAATGAT
7152246 TGCCTAAAAAACACAAACAATAA
1 TGCCTAAAAAACACAAACAATAA
7152269 TGCCTAAAAAACACAAACAATAA
1 TGCCTAAAAAACACAAACAATAA
7152292 TGC
1 TGC
7152295 ATCTGGGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.57, C:0.22, G:0.06, T:0.14
Consensus pattern (23 bp):
TGCCTAAAAAACACAAACAATAA
Found at i:7155659 original size:22 final size:22
Alignment explanation
Indices: 7155632--7155676 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
7155622 GTATAATAAT
7155632 AAATAAGATTATAACGTAAATA
1 AAATAAGATTATAACGTAAATA
7155654 AAATAAGATTATAACGTAAATA
1 AAATAAGATTATAACGTAAATA
7155676 A
1 A
7155677 TATACGACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.27
Consensus pattern (22 bp):
AAATAAGATTATAACGTAAATA
Found at i:7158057 original size:96 final size:96
Alignment explanation
Indices: 7157921--7158114 Score: 291
Period size: 96 Copynumber: 2.0 Consensus size: 96
7157911 TTCAAGCAGT
* * *
7157921 AACCAATAGATTTCATGATCCATAAATCAAGAACGGTCATATTTT-TCAGTGAAAATAGGAAACC
1 AACCAATAGATTCCATGATCCATAAATCAAGAACGATCATATTTTAT-AGTGAAAACAGGAAACC
* * *
7157985 AGATAACACATTTCAGGTAACCATAGTTCATA
65 AAAGAACACATTTCAAGTAACCATAGTTCATA
* *
7158017 AACCATTAGATTCCATGATCCATAAATCAAGAACGATCATATTTTATAGTGAAAACAGGTAACCA
1 AACCAATAGATTCCATGATCCATAAATCAAGAACGATCATATTTTATAGTGAAAACAGGAAACCA
*
7158082 AAGAACATATTTCAAGTAACCATAGTTCATA
66 AAGAACACATTTCAAGTAACCATAGTTCATA
7158113 AA
1 AA
7158115 TCAGTAAATC
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
96 87 0.99
97 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (96 bp):
AACCAATAGATTCCATGATCCATAAATCAAGAACGATCATATTTTATAGTGAAAACAGGAAACCA
AAGAACACATTTCAAGTAACCATAGTTCATA
Found at i:7159209 original size:19 final size:21
Alignment explanation
Indices: 7159185--7159223 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
7159175 AAGAGGTATA
7159185 TTCTTTCT-TTT-TTGTTTTC
1 TTCTTTCTGTTTGTTGTTTTC
7159204 TTCTTTCTGTTTGTTGTTTT
1 TTCTTTCTGTTTGTTGTTTT
7159224 TGAAGATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 3 0.17
21 7 0.39
ACGTcount: A:0.00, C:0.13, G:0.10, T:0.77
Consensus pattern (21 bp):
TTCTTTCTGTTTGTTGTTTTC
Found at i:7160065 original size:2 final size:2
Alignment explanation
Indices: 7160058--7160085 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7160048 ATCATGTAAG
7160058 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7160086 TCACGTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7160660 original size:6 final size:6
Alignment explanation
Indices: 7160649--7160690 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
7160639 GACACGTATT
7160649 ACCACG ACCACG ACCACG ACCACG ACC-CG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
7160691 CGAGACGAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 15 0.42
6 21 0.58
ACGTcount: A:0.29, C:0.55, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:7160681 original size:5 final size:5
Alignment explanation
Indices: 7160653--7160693 Score: 55
Period size: 5 Copynumber: 7.6 Consensus size: 5
7160643 CGTATTACCA
7160653 CGACC ACGACC ACGACC ACGACC CGACC CGACC CGACC CGA
1 CGACC -CGACC -CGACC -CGACC CGACC CGACC CGACC CGA
7160694 GACGAGACGG
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 18 0.51
6 17 0.49
ACGTcount: A:0.27, C:0.54, G:0.20, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:7161024 original size:16 final size:16
Alignment explanation
Indices: 7161002--7161054 Score: 70
Period size: 16 Copynumber: 3.1 Consensus size: 16
7160992 GTGTTTATCG
7161002 AAATTTTCATTTAATA
1 AAATTTTCATTTAATA
*
7161018 AATTTTTCTTTATTTAATA
1 AAATTTTC---ATTTAATA
7161037 AAATTTTCATTTAATA
1 AAATTTTCATTTAATA
7161053 AA
1 AA
7161055 GAAAATTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 17 0.53
19 15 0.47
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (16 bp):
AAATTTTCATTTAATA
Found at i:7161034 original size:19 final size:20
Alignment explanation
Indices: 7161010--7161049 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
7161000 CGAAATTTTC
*
7161010 ATTTAATAAATTTTTC-TTT
1 ATTTAATAAAATTTTCATTT
7161029 ATTTAATAAAATTTTCATTT
1 ATTTAATAAAATTTTCATTT
7161049 A
1 A
7161050 ATAAAGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTAATAAAATTTTCATTT
Found at i:7176729 original size:3 final size:3
Alignment explanation
Indices: 7176721--7176765 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
7176711 GTCCGGACCG
*
7176721 TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7176766 ACATTTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:7178571 original size:18 final size:18
Alignment explanation
Indices: 7178545--7178581 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
7178535 GAATGAATTG
*
7178545 ATATTTTTATTATATTTA
1 ATATATTTATTATATTTA
*
7178563 ATATATTTATTTTATTTA
1 ATATATTTATTATATTTA
7178581 A
1 A
7178582 AAATGTGGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
ATATATTTATTATATTTA
Found at i:7183863 original size:11 final size:11
Alignment explanation
Indices: 7183847--7183871 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7183837 GAAAATACAT
7183847 AAAAACAAAAA
1 AAAAACAAAAA
7183858 AAAAACAAAAA
1 AAAAACAAAAA
7183869 AAA
1 AAA
7183872 GAAAAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAACAAAAA
Found at i:7183919 original size:20 final size:21
Alignment explanation
Indices: 7183867--7183919 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
7183857 AAAAAACAAA
7183867 AAAAAG-AAAAGAAAAGATAG
1 AAAAAGAAAAAGAAAAGATAG
*
7183887 AAAAAGAATAAGAATAA-A-AG
1 AAAAAGAAAAAGAA-AAGATAG
7183907 AAAAAGAAAAAGA
1 AAAAAGAAAAAGA
7183920 GGGGAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 20 0.69
21 7 0.24
22 2 0.07
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (21 bp):
AAAAAGAAAAAGAAAAGATAG
Found at i:7185685 original size:17 final size:17
Alignment explanation
Indices: 7185663--7185709 Score: 94
Period size: 17 Copynumber: 2.8 Consensus size: 17
7185653 GTTAAGACCG
7185663 AACTTAGGGTGTCTCAC
1 AACTTAGGGTGTCTCAC
7185680 AACTTAGGGTGTCTCAC
1 AACTTAGGGTGTCTCAC
7185697 AACTTAGGGTGTC
1 AACTTAGGGTGTC
7185710 AGGGGTAGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (17 bp):
AACTTAGGGTGTCTCAC
Found at i:7187365 original size:134 final size:135
Alignment explanation
Indices: 7187125--7187825 Score: 678
Period size: 134 Copynumber: 5.2 Consensus size: 135
7187115 AACTCAAGTT
* * * * *
7187125 AATCTTCCCTGA-AGAACAGTGGAATGAATAAACATTTCC-AGATCT-GATTTTCCCTCAAGAAG
1 AATCTTCCCTGAGA-AACAATGGAATGAATCAACA-TCCCTATATCTAGATTTTCCATCAAGAAG
** * * * * * *
7187187 AAGTGGAACAAATCCCTCTCTTTTAAGATTTGATATTCCCTGAGTAATAGTGCAACAAGTCTGCC
64 AAGCAGAACAGATCCCTCTCTTTTCAGATTTGATATTCCTTGAGTAACAGCGGAACAAGTCTGCC
7187252 TCGATTC
129 TCGATTC
* *
7187259 AATCTTCCCTGAGAAACAATGGAATGAATCAACATCCCTATATCTAG-TTTTCAATTAAGAAGAA
1 AATCTTCCCTGAGAAACAATGGAATGAATCAACATCCCTATATCTAGATTTTCCATCAAGAAGAA
* * *
7187323 GCAGAATAGATCCCTCTCTTTTCAGATTTTG-TATTCCTTGAGTAACAACGGAACAAGTATGCCT
66 GCAGAACAGATCCCTCTCTTTTCAGA-TTTGATATTCCTTGAGTAACAGCGGAACAAGTCTGCCT
7187387 CGATTC
130 CGATTC
* * ** * * *
7187393 AATCTTCCTTGAGTAATGATGGAATGAATCAACATCTCC-AAAT-TTGATTTTCCGTCAAGAAGA
1 AATCTTCCCTGAGAAACAATGGAATGAATCAACATC-CCTATATCTAGATTTTCCATCAAGAAGA
** * * *
7187456 AGTGGAACAAATCCCTCTCTTTTCAGATTTGATATTCCTTGAGTAACAGCGGAATAAGTCTACCT
65 AGCAGAACAGATCCCTCTCTTTTCAGATTTGATATTCCTTGAGTAACAGCGGAACAAGTCTGCCT
7187521 CGATTC
130 CGATTC
* ** * *
7187527 AATCTTCCCTGA-ATAACAATGGAATGAATAAATGTCCCCATATTTA-ATTTT-CATCAAGAAGA
1 AATCTTCCCTGAGA-AACAATGGAATGAATCAACATCCCTATATCTAGATTTTCCATCAAGAAGA
* * * * *
7187589 AGTAGAACATATCCCTCTCTATTCAGATTTGATATTCCCTGAGTAACAGCGGAACAAGTCTACCT
65 AGCAGAACAGATCCCTCTCTTTTCAGATTTGATATTCCTTGAGTAACAGCGGAACAAGTCTGCCT
7187654 CGATTC
130 CGATTC
* * * ** * * **
7187660 AATCTTCCCTCAGTAACAGTGGAATGAATCAATGT-CCTCAGATCT-GATTTTCCCTCGGGAAGA
1 AATCTTCCCTGAGAAACAATGGAATGAATCAACATCCCT-ATATCTAGATTTTCCATCAAGAAGA
* * * * * *
7187723 AGC-GAAATAGATCCCTCTC-TTTCAAGATTTGATATT-TTCTCAGTGACAGTGGAACAAGTCAG
65 AGCAG-AACAGATCCCTCTCTTTTC-AGATTTGATATTCCT-TGAGTAACAGCGGAACAAGTCTG
7187785 CCTCGATTC
127 CCTCGATTC
* * *
7187794 AATCTTCCTTGA-AGAACAGTGGAATAAATCAA
1 AATCTTCCCTGAGA-AACAATGGAATGAATCAA
7187826 TATTTCTCAA
Statistics
Matches: 474, Mismatches: 75, Indels: 36
0.81 0.13 0.06
Matches are distributed among these distances:
132 2 0.00
133 130 0.27
134 333 0.70
135 9 0.02
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (135 bp):
AATCTTCCCTGAGAAACAATGGAATGAATCAACATCCCTATATCTAGATTTTCCATCAAGAAGAA
GCAGAACAGATCCCTCTCTTTTCAGATTTGATATTCCTTGAGTAACAGCGGAACAAGTCTGCCTC
GATTC
Found at i:7187724 original size:267 final size:265
Alignment explanation
Indices: 7187125--7187818 Score: 810
Period size: 267 Copynumber: 2.6 Consensus size: 265
7187115 AACTCAAGTT
*
7187125 AATCTTCCCTGAAG-AACAGTGGAATGAATAAACATT-TCCAGATCTGATTTTCCCTCAAGAAGA
1 AATCTTCCCT-AAGTAACAGTGGAATGAAT-CA-ATTCT-CAGATCTGATTTTCCCTCAAGAAGA
* * * * *
7187188 AGTGGAACAAATCCCTCTCTTTTAAGATTTGATATTCCCTGAGTAATAGTGCAACAAGTCTGCCT
62 AGTGGAACAAATCCCTCTCTTTTCAGATTTGATATTCCTTGAGTAACAGTGGAACAAGTCTACCT
* * * *
7187253 CGATTCAATCTTCCCTGAGAAACAATGGAATGAATCAACATCCCTATATCTAGTTTTCAATTAAG
127 CGATTCAATCTTCCCTGA-AAACAATGGAATGAATAAACATCCCCATATCTAATTTTCAATCAAG
* * *
7187318 AAGAAGCAGAATAGATCCCTCTCTTTTCAGATTTTGTATTCCTTGAGTAACAACGGAACAAGTAT
191 AAGAAGCAGAACAGATCCCTCTCTATTCAGATTTTGTATTCCCTGAGTAACAACGGAACAAGTAT
*
7187383 GCCTCGATTC
256 ACCTCGATTC
* * * * * * *
7187393 AATCTTCCTTGAGTAA-TGATGGAATGAATCAACATCTCCAAATTTGATTTTCCGTCAAGAAGAA
1 AATCTTCCCTAAGTAACAG-TGGAATGAATCAA-TTCT-CAGATCTGATTTTCCCTCAAGAAGAA
* *
7187457 GTGGAACAAATCCCTCTCTTTTCAGATTTGATATTCCTTGAGTAACAGCGGAATAAGTCTACCTC
63 GTGGAACAAATCCCTCTCTTTTCAGATTTGATATTCCTTGAGTAACAGTGGAACAAGTCTACCTC
** *
7187522 GATTCAATCTTCCCTGAATAACAATGGAATGAATAAATGTCCCCATATTTAATTTTC-ATCAAGA
128 GATTCAATCTTCCCTGAA-AACAATGGAATGAATAAACATCCCCATATCTAATTTTCAATCAAGA
* * * *
7187586 AGAAGTAGAACATATCCCTCTCTATTCAGA-TTTGATATTCCCTGAGTAACAGCGGAACAAGTCT
192 AGAAGCAGAACAGATCCCTCTCTATTCAGATTTTG-TATTCCCTGAGTAACAACGGAACAAGTAT
7187650 ACCTCGATTC
256 ACCTCGATTC
* **
7187660 AATCTTCCCTCAGTAACAGTGGAATGAATCAATGTCCTCAGATCTGATTTTCCCTCGGGAAGAAG
1 AATCTTCCCTAAGTAACAGTGGAATGAATCAAT-T-CTCAGATCTGATTTTCCCTCAAGAAGAAG
* * * * * * *
7187725 CGAAATAGATCCCTCTC-TTTCAAGATTTGATATT-TTCTCAGTGACAGTGGAACAAGTC-AGCC
64 TGGAACAAATCCCTCTCTTTTC-AGATTTGATATTCCT-TGAGTAACAGTGGAACAAGTCTA-CC
* *
7187787 TCGATTCAATCTTCCTTGAAGAACAGTGGAAT
126 TCGATTCAATCTTCCCTGAA-AACAATGGAAT
7187819 AAATCAATAT
Statistics
Matches: 363, Mismatches: 51, Indels: 25
0.83 0.12 0.06
Matches are distributed among these distances:
266 11 0.03
267 196 0.54
268 156 0.43
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.30
Consensus pattern (265 bp):
AATCTTCCCTAAGTAACAGTGGAATGAATCAATTCTCAGATCTGATTTTCCCTCAAGAAGAAGTG
GAACAAATCCCTCTCTTTTCAGATTTGATATTCCTTGAGTAACAGTGGAACAAGTCTACCTCGAT
TCAATCTTCCCTGAAAACAATGGAATGAATAAACATCCCCATATCTAATTTTCAATCAAGAAGAA
GCAGAACAGATCCCTCTCTATTCAGATTTTGTATTCCCTGAGTAACAACGGAACAAGTATACCTC
GATTC
Found at i:7188007 original size:3 final size:3
Alignment explanation
Indices: 7187999--7188025 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7187989 AACCTGACCG
7187999 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
7188026 ACATTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7191206 original size:6 final size:6
Alignment explanation
Indices: 7191186--7191232 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
7191176 AGTCTAGTAC
7191186 AAAAAT -AAAAT --AAAT AAAAAT -AAAAT AAAATAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA-AT AAAAAT AAAAAT
7191231 AA
1 AA
7191233 TTCCAAGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
4 4 0.11
5 10 0.27
6 17 0.46
7 6 0.16
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:7191206 original size:15 final size:17
Alignment explanation
Indices: 7191186--7191228 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
7191176 AGTCTAGTAC
7191186 AAAAATAAAAT-AA-AT
1 AAAAATAAAATAAATAT
7191201 AAAAATAAAATAAAATAT
1 AAAAATAAAAT-AAATAT
7191219 AAAAATAAAA
1 AAAAATAAAA
7191229 ATAATTCCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.44
17 2 0.08
18 12 0.48
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAAATAAAATAAATAT
Found at i:7195655 original size:32 final size:32
Alignment explanation
Indices: 7195562--7195697 Score: 141
Period size: 32 Copynumber: 4.2 Consensus size: 32
7195552 GTAGGTGCCA
* * *
7195562 ACCCAAGAGAA-TATCTTAGGGCCTAAGAGACT
1 ACCCAAG-GAAGTACCTTAGGGCCTTAGAGCCT
*
7195594 ACCCAATGAAGTACCTTAGGG-CTTAAGAGCCT
1 ACCCAAGGAAGTACCTTAGGGCCTT-AGAGCCT
*
7195626 ACCCAAGGAAGTACCTTGGGGCCTTAGAGCCT
1 ACCCAAGGAAGTACCTTAGGGCCTTAGAGCCT
* * * * * *
7195658 ATCTAAGGAAATGCCTTGGGGCCTTAAAGCCT
1 ACCCAAGGAAGTACCTTAGGGCCTTAGAGCCT
7195690 ACCCAAGG
1 ACCCAAGG
7195698 TCACCTTAGG
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
31 5 0.06
32 80 0.91
33 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.24, T:0.20
Consensus pattern (32 bp):
ACCCAAGGAAGTACCTTAGGGCCTTAGAGCCT
Found at i:7201039 original size:22 final size:22
Alignment explanation
Indices: 7201014--7201062 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
7201004 GTTAAACATT
7201014 AAAAAGGGATTGATCCTTTTTC
1 AAAAAGGGATTGATCCTTTTTC
* *
7201036 -AAAAGGGGTTGATCTTTTTTC
1 AAAAAGGGATTGATCCTTTTTC
7201057 AGAAAA
1 A-AAAA
7201063 ATACAGAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 19 0.83
23 4 0.17
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (22 bp):
AAAAAGGGATTGATCCTTTTTC
Found at i:7201054 original size:20 final size:21
Alignment explanation
Indices: 7201015--7201057 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
7201005 TTAAACATTA
7201015 AAAAGGGATTGATCCTTTTTC
1 AAAAGGGATTGATCCTTTTTC
* *
7201036 AAAAGGGGTTGATCTTTTTTC
1 AAAAGGGATTGATCCTTTTTC
7201057 A
1 A
7201058 GAAAAATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.40
Consensus pattern (21 bp):
AAAAGGGATTGATCCTTTTTC
Found at i:7207748 original size:23 final size:23
Alignment explanation
Indices: 7207722--7207767 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
7207712 TAATAGATAT
7207722 TCATAATAATAAAAAGATGTAAA
1 TCATAATAATAAAAAGATGTAAA
7207745 TCATAATAATAAAAAGATGTAAA
1 TCATAATAATAAAAAGATGTAAA
7207768 CTATTTTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.61, C:0.04, G:0.09, T:0.26
Consensus pattern (23 bp):
TCATAATAATAAAAAGATGTAAA
Found at i:7208695 original size:28 final size:30
Alignment explanation
Indices: 7208641--7208696 Score: 73
Period size: 28 Copynumber: 1.9 Consensus size: 30
7208631 TTGTGATCGT
*
7208641 TTATTTATTTTTGAAGGTATTTATGTTCAC
1 TTATTTATTTTTGAAGGTAGTTATGTTCAC
7208671 TTATTT-TTTTT-AAGGT-GTTAGTGTTC
1 TTATTTATTTTTGAAGGTAGTTA-TGTTC
7208697 GTTCGTATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 3 0.12
28 10 0.42
29 5 0.21
30 6 0.25
ACGTcount: A:0.20, C:0.05, G:0.16, T:0.59
Consensus pattern (30 bp):
TTATTTATTTTTGAAGGTAGTTATGTTCAC
Found at i:7214331 original size:22 final size:21
Alignment explanation
Indices: 7214288--7214332 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
7214278 TAGCTAAACA
* *
7214288 TTCAAAAGGGATTGATCATTT
1 TTCAAAAAGGATCGATCATTT
7214309 TTCAAAAAGGATCGATCATTT
1 TTCAAAAAGGATCGATCATTT
7214330 TTC
1 TTC
7214333 TATAAAATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (21 bp):
TTCAAAAAGGATCGATCATTT
Found at i:7217470 original size:40 final size:40
Alignment explanation
Indices: 7217426--7217595 Score: 121
Period size: 40 Copynumber: 4.2 Consensus size: 40
7217416 AACTCCAATT
*
7217426 TCGCAACTCAGTTTCCAAATTCGCAACGCGAATATGTAAA
1 TCGCAACTCAATTTCCAAATTCGCAACGCGAATATGTAAA
* * *
7217466 TCGC-ATTGCAATTTCCGAATTCGTCGCAACGCGAATTTGTAAA
1 TCGCAACT-CAATTTCC-AAAT--TCGCAACGCGAATATGTAAA
* * ** *
7217509 TCGCAACGCGAATCTGTAAA-TCGCAACGCGAATCTGTAAA
1 TCGCAACTC-AATTTCCAAATTCGCAACGCGAATATGTAAA
* * ** * * *
7217549 TCGCAACGCGAATCTGTAAA-TCGCAACGCGAATTTATAAT
1 TCGCAACTC-AATTTCCAAATTCGCAACGCGAATATGTAAA
7217589 TCGCAAC
1 TCGCAAC
7217596 ACAGAAGTCA
Statistics
Matches: 110, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
39 2 0.02
40 74 0.67
41 3 0.03
43 26 0.24
44 5 0.05
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (40 bp):
TCGCAACTCAATTTCCAAATTCGCAACGCGAATATGTAAA
Found at i:7217514 original size:20 final size:20
Alignment explanation
Indices: 7217489--7217595 Score: 178
Period size: 20 Copynumber: 5.3 Consensus size: 20
7217479 TCCGAATTCG
*
7217489 TCGCAACGCGAATTTGTAAA
1 TCGCAACGCGAATCTGTAAA
7217509 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATCTGTAAA
7217529 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATCTGTAAA
7217549 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATCTGTAAA
* * *
7217569 TCGCAACGCGAATTTATAAT
1 TCGCAACGCGAATCTGTAAA
7217589 TCGCAAC
1 TCGCAAC
7217596 ACAGAAGTCA
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 83 1.00
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (20 bp):
TCGCAACGCGAATCTGTAAA
Found at i:7217609 original size:20 final size:20
Alignment explanation
Indices: 7217586--7217630 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
7217576 GCGAATTTAT
7217586 AATTCGCAACACAGAAGTCA
1 AATTCGCAACACAGAAGTCA
*
7217606 AATTCGCAACACAGAATTCA
1 AATTCGCAACACAGAAGTCA
7217626 AATTC
1 AATTC
7217631 ACAAAGCGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.44, C:0.24, G:0.11, T:0.20
Consensus pattern (20 bp):
AATTCGCAACACAGAAGTCA
Found at i:7217613 original size:60 final size:58
Alignment explanation
Indices: 7217489--7217615 Score: 157
Period size: 60 Copynumber: 2.1 Consensus size: 58
7217479 TCCGAATTCG
* * *
7217489 TCGCAACGCGAATTTGTAAATCGCAACGCGAATCTGTAAATCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATCTGTAAATCGCAACGCGAATCTATAAATCGCAACACGAATC--TAAA
* *
7217549 TCGCAACGCGAATCTGTAAATCGCAACGCGAATTTATAATTCGCAACACAGAAGTC-AAA
1 TCGCAACGCGAATCTGTAAATCGCAACGCGAATCTATAAATCGCAACAC-GAA-TCTAAA
7217608 TTCGCAAC
1 -TCGCAAC
7217616 ACAGAATTCA
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
59 3 0.05
60 51 0.86
61 3 0.05
62 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.21
Consensus pattern (58 bp):
TCGCAACGCGAATCTGTAAATCGCAACGCGAATCTATAAATCGCAACACGAATCTAAA
Found at i:7217814 original size:22 final size:22
Alignment explanation
Indices: 7217789--7217835 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
7217779 CTATTGCGAC
7217789 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
* *
7217811 ATCCGTCCCCATCTCTGGCGAA
1 ATCCGTCCCCATCTCCGACGAA
7217833 ATC
1 ATC
7217836 TATCTATCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.21, C:0.43, G:0.15, T:0.21
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:7218163 original size:20 final size:20
Alignment explanation
Indices: 7218042--7218154 Score: 192
Period size: 20 Copynumber: 5.7 Consensus size: 20
7218032 ACATTCATGA
7218042 TTTCATTTTCGCGTAG-GAT
1 TTTCATTTTCGCGTAGCGAT
7218061 TTTCATTTTCGCGTAGCGAT
1 TTTCATTTTCGCGTAGCGAT
*
7218081 TTTCATTTTCGCGTACCGAT
1 TTTCATTTTCGCGTAGCGAT
*
7218101 TTTCATTTTCGCGTACCGAT
1 TTTCATTTTCGCGTAGCGAT
7218121 TTTCATTTTCGCGTAGCGAT
1 TTTCATTTTCGCGTAGCGAT
*
7218141 TTTCATTTTTGCGT
1 TTTCATTTTCGCGT
7218155 TGTGATTTTA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
19 16 0.18
20 74 0.82
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.48
Consensus pattern (20 bp):
TTTCATTTTCGCGTAGCGAT
Found at i:7219839 original size:153 final size:154
Alignment explanation
Indices: 7219561--7219869 Score: 611
Period size: 153 Copynumber: 2.0 Consensus size: 154
7219551 TACAGAGGTT
7219561 GACACCCACAGAGGCTGAGCTTGCCACTGATTGGTGGCAAGCTAGTAAGCGTTTTTTTGATGGCA
1 GACACCCACAGAGGCTGAGCTTGCCACTGATTGGTGGCAAGCTAGTAAGCGTTTTTTTGATGGCA
7219626 CTGATTATAAGCACCCCCCACTTCGAGAGCCATCACCTGATCAAGCTGATTCTACAGCTCGACAC
66 CTGATTATAAGCACCCCCCACTTCGAGAGCCATCACCTGATCAAGCTGATTCTACAGCTCGACAC
7219691 CCAGAGCCATCA-CTCCACAACGA
131 CCAGAGCCATCACCTCCACAACGA
7219714 GACACCCACAGAGGCTGAGCTTGCCACTGATTGGTGGCAAGCTAGTAAGCGTTTTTTTGATGGCA
1 GACACCCACAGAGGCTGAGCTTGCCACTGATTGGTGGCAAGCTAGTAAGCGTTTTTTTGATGGCA
7219779 CTGATTATAAGCACCCCCCACTTCGAGAGCCATCACCTGATCAAGCTGATTCTACAGCTCGACAC
66 CTGATTATAAGCACCCCCCACTTCGAGAGCCATCACCTGATCAAGCTGATTCTACAGCTCGACAC
7219844 CCAGAGCCATCACCTCCACAACGA
131 CCAGAGCCATCACCTCCACAACGA
7219868 GA
1 GA
7219870 GCCATCACCT
Statistics
Matches: 155, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
153 142 0.92
154 13 0.08
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.21
Consensus pattern (154 bp):
GACACCCACAGAGGCTGAGCTTGCCACTGATTGGTGGCAAGCTAGTAAGCGTTTTTTTGATGGCA
CTGATTATAAGCACCCCCCACTTCGAGAGCCATCACCTGATCAAGCTGATTCTACAGCTCGACAC
CCAGAGCCATCACCTCCACAACGA
Found at i:7220507 original size:21 final size:21
Alignment explanation
Indices: 7220457--7220551 Score: 86
Period size: 21 Copynumber: 4.5 Consensus size: 21
7220447 CCTGTCATCG
* * *
7220457 TTCAAGAGACCTCTCTTATCG
1 TTCAAGAGGCCTCTCCTATCA
7220478 TTCAAGAGGCCTCTCCTATCA
1 TTCAAGAGGCCTCTCCTATCA
* *
7220499 TTCAAGAGGCC-CAT-ATCATCC
1 TTCAAGAGGCCTC-TCCT-ATCA
* * *
7220520 TTCAAGAGGCCCCTCCCACCA
1 TTCAAGAGGCCTCTCCTATCA
7220541 TTCAAGAGGCC
1 TTCAAGAGGCC
7220552 CCTATCATCG
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
20 2 0.03
21 58 0.95
22 1 0.02
ACGTcount: A:0.25, C:0.35, G:0.16, T:0.24
Consensus pattern (21 bp):
TTCAAGAGGCCTCTCCTATCA
Found at i:7220524 original size:42 final size:42
Alignment explanation
Indices: 7220478--7220590 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 42
7220468 TCTCTTATCG
* * *
7220478 TTCAAGAGGCCTCTCCTATCATTCAAGAGGCCCATATCATCC
1 TTCAAGAGGCCCCTCCCACCATTCAAGAGGCCCATATCATCC
* *
7220520 TTCAAGAGGCCCCTCCCACCATTCAAGAGGCCCCTATCATCG
1 TTCAAGAGGCCCCTCCCACCATTCAAGAGGCCCATATCATCC
* *
7220562 TTCAAGAGGTCCCACCCACCGA-TCAAGAG
1 TTCAAGAGGCCCCTCCCACC-ATTCAAGAG
7220591 CCCGATTCAC
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
42 62 0.98
43 1 0.02
ACGTcount: A:0.27, C:0.36, G:0.17, T:0.20
Consensus pattern (42 bp):
TTCAAGAGGCCCCTCCCACCATTCAAGAGGCCCATATCATCC
Found at i:7220552 original size:21 final size:21
Alignment explanation
Indices: 7220478--7220590 Score: 86
Period size: 21 Copynumber: 5.4 Consensus size: 21
7220468 TCTCTTATCG
* * *
7220478 TTCAAGAGGCCTCTCCTATCA
1 TTCAAGAGGCCCCTCCCACCA
* **
7220499 TTCAAGAGGCCCATATCATCC-
1 TTCAAGAGGCCCCTCCCA-CCA
7220520 TTCAAGAGGCCCCTCCCACCA
1 TTCAAGAGGCCCCTCCCACCA
** * *
7220541 TTCAAGAGGCCCCTATCATCG
1 TTCAAGAGGCCCCTCCCACCA
* *
7220562 TTCAAGAGGTCCCACCCACCGA
1 TTCAAGAGGCCCCTCCCACC-A
7220584 -TCAAGAG
1 TTCAAGAG
7220591 CCCGATTCAC
Statistics
Matches: 70, Mismatches: 19, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
20 2 0.03
21 67 0.96
22 1 0.01
ACGTcount: A:0.27, C:0.36, G:0.17, T:0.20
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCCCACCA
Found at i:7220962 original size:14 final size:15
Alignment explanation
Indices: 7220945--7220973 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7220935 CATTTTGATT
7220945 AATTTATTT-TTAAA
1 AATTTATTTATTAAA
7220959 AATTTATTTATTAAA
1 AATTTATTTATTAAA
7220974 TTCACTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTATTTATTAAA
Found at i:7222454 original size:6 final size:6
Alignment explanation
Indices: 7222445--7222479 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
7222435 TTGTGATTGG
*
7222445 GATTTT GATTTT GATTGT GATTTT GATTTT GATTT
1 GATTTT GATTTT GATTTT GATTTT GATTTT GATTT
7222480 CCTTTTGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.17, C:0.00, G:0.20, T:0.63
Consensus pattern (6 bp):
GATTTT
Found at i:7222461 original size:18 final size:18
Alignment explanation
Indices: 7222438--7222478 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
7222428 AAGCCGGTTG
7222438 TGATTGGGATTTTGATTT
1 TGATTGGGATTTTGATTT
*
7222456 TGATTGTGATTTTGATTT
1 TGATTGGGATTTTGATTT
7222474 TGATT
1 TGATT
7222479 TCCTTTTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.17, C:0.00, G:0.24, T:0.59
Consensus pattern (18 bp):
TGATTGGGATTTTGATTT
Found at i:7224745 original size:24 final size:24
Alignment explanation
Indices: 7224678--7224737 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
7224668 CTGTTTCATC
7224678 ATCAAAATTTGAGTATTGACCAAG
1 ATCAAAATTTGAGTATTGACCAAG
* * *
7224702 ATCAAAGTCTGGGTATTGACCAAG
1 ATCAAAATTTGAGTATTGACCAAG
*
7224726 ATCAAATTTTGA
1 ATCAAAATTTGA
7224738 ATACTGACTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (24 bp):
ATCAAAATTTGAGTATTGACCAAG
Found at i:7225565 original size:17 final size:19
Alignment explanation
Indices: 7225545--7225590 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
7225535 AAAATATTTG
7225545 TGTTGCGAAAAT-AAATT-
1 TGTTGCGAAAATAAAATTC
* *
7225562 TGTTACGAAATTAAAATTC
1 TGTTGCGAAAATAAAATTC
7225581 GTGTTGCGAA
1 -TGTTGCGAA
7225591 TTCGAAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 10 0.43
18 5 0.22
20 8 0.35
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.35
Consensus pattern (19 bp):
TGTTGCGAAAATAAAATTC
Found at i:7225590 original size:20 final size:21
Alignment explanation
Indices: 7225562--7225672 Score: 65
Period size: 20 Copynumber: 5.4 Consensus size: 21
7225552 AAAATAAATT
*
7225562 TGTTACGAAATT-AAAATTCG
1 TGTTGCGAAATTCAAAATTCG
7225582 TGTTGCG-AATTCGAAAA-TCG
1 TGTTGCGAAATTC-AAAATTCG
* ** *
7225602 AGTTGCGATTTTCCAAATTCG
1 TGTTGCGAAATTCAAAATTCG
7225623 CT-TTGC-AAATTCAGAAA-TCG
1 -TGTTGCGAAATTCA-AAATTCG
* **
7225643 AGTTGCG-AATTTGAAATTCAG
1 TGTTGCGAAATTCAAAATTC-G
7225664 TGTTGCGAA
1 TGTTGCGAA
7225673 TTTGGAAATC
Statistics
Matches: 67, Mismatches: 13, Indels: 20
0.67 0.13 0.20
Matches are distributed among these distances:
19 7 0.10
20 35 0.52
21 24 0.36
22 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (21 bp):
TGTTGCGAAATTCAAAATTCG
Found at i:7225681 original size:41 final size:40
Alignment explanation
Indices: 7225575--7225714 Score: 140
Period size: 41 Copynumber: 3.5 Consensus size: 40
7225565 TACGAAATTA
* * * *
7225575 AAATTCGTGTTGCGAATTCGAAAATCGAGTTGCGATTTTCC
1 AAATTCGTGTTGCAAATTCGGAAATCGAGTTGCGAATTT-G
*
7225616 AAATTCGCT-TTGCAAATTCAGAAATCGAGTTGCGAATTTG
1 AAATTCG-TGTTGCAAATTCGGAAATCGAGTTGCGAATTTG
* * **
7225656 AAATTCAGTGTTGCGAATTTGGAAATCGCTTTGCGAATTTG
1 AAATTC-GTGTTGCAAATTCGGAAATCGAGTTGCGAATTTG
*
7225697 -ACTTCTGTGTTGCAAATT
1 AAATTC-GTGTTGCAAATT
7225715 ACAGATTCAA
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
40 22 0.27
41 60 0.72
42 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (40 bp):
AAATTCGTGTTGCAAATTCGGAAATCGAGTTGCGAATTTG
Found at i:7225691 original size:20 final size:20
Alignment explanation
Indices: 7225620--7225696 Score: 68
Period size: 20 Copynumber: 3.8 Consensus size: 20
7225610 TTTTCCAAAT
* **
7225620 TCGCTTTGCAAATTCAGAAA
1 TCGCTTTGCGAATTTGGAAA
**
7225640 TCGAGTTGCGAATTT-GAAA
1 TCGCTTTGCGAATTTGGAAA
7225659 TTCAG-TGTTGCGAATTTGGAAA
1 -TC-GCT-TTGCGAATTTGGAAA
7225681 TCGCTTTGCGAATTTG
1 TCGCTTTGCGAATTTG
7225697 ACTTCTGTGT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
19 4 0.09
20 25 0.53
21 14 0.30
22 4 0.09
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.35
Consensus pattern (20 bp):
TCGCTTTGCGAATTTGGAAA
Found at i:7225709 original size:20 final size:19
Alignment explanation
Indices: 7225576--7225714 Score: 66
Period size: 20 Copynumber: 6.9 Consensus size: 19
7225566 ACGAAATTAA
*
7225576 AATTCGTGTTGCGAATTCG
1 AATTCGTGTTGCGAATTTG
* * * *
7225595 AAAATCGAGTTGCGATTTTCCA
1 -AATTCGTGTTGCGAATTT--G
* *
7225617 AATTCGCT-TTGCAAATTCAG
1 AATTCG-TGTTGCGAATT-TG
* *
7225637 AAATCGAGTTGCGAATTTG
1 AATTCGTGTTGCGAATTTG
7225656 AAATTCAGTGTTGCGAATTTGG
1 -AATTC-GTGTTGCGAATTT-G
*
7225678 AAATCGCT-TTGCGAATTTG
1 AATTCG-TGTTGCGAATTTG
* *
7225697 ACTTCTGTGTTGCAAATT
1 AATTC-GTGTTGCGAATT
7225715 ACAGATTCAA
Statistics
Matches: 87, Mismatches: 21, Indels: 22
0.67 0.16 0.17
Matches are distributed among these distances:
19 6 0.07
20 51 0.59
21 29 0.33
22 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (19 bp):
AATTCGTGTTGCGAATTTG
Found at i:7225772 original size:21 final size:21
Alignment explanation
Indices: 7225748--7225793 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
7225738 AATTCGCGTT
* *
7225748 GCGAATTTGGAAAATCACAAC
1 GCGAATTCGAAAAATCACAAC
* *
7225769 GCGAATTCGAAAAATCGCAAT
1 GCGAATTCGAAAAATCACAAC
7225790 GCGA
1 GCGA
7225794 TTTATATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.17
Consensus pattern (21 bp):
GCGAATTCGAAAAATCACAAC
Found at i:7225773 original size:81 final size:81
Alignment explanation
Indices: 7225625--7225775 Score: 182
Period size: 81 Copynumber: 1.9 Consensus size: 81
7225615 CAAATTCGCT
* * * * ***
7225625 TTGCAAATTCAGAAATCGAGTTGCGAATTTGAAATTCAGTGTTGCGAATTTGGAAATCGCTTTGC
1 TTGCAAATTCAGAAATCAAGTTGCGAATTTCAAATTCAGCGTTGCGAATTTGGAAATCACAACGC
7225690 GAATTTGACTTCTGTG
66 GAATTTGACTTCTGTG
*
7225706 TTGCAAATTACAG-ATTCAAGTTGCG-ATTTACAAATTC-GCGTTGCGAATTTGGAAAATCACAA
1 TTGCAAATT-CAGAAATCAAGTTGCGAATTT-CAAATTCAGCGTTGCGAATTTGG-AAATCACAA
7225768 CGCGAATT
63 CGCGAATT
7225776 CGAAAAATCG
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
80 18 0.31
81 38 0.64
82 3 0.05
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.33
Consensus pattern (81 bp):
TTGCAAATTCAGAAATCAAGTTGCGAATTTCAAATTCAGCGTTGCGAATTTGGAAATCACAACGC
GAATTTGACTTCTGTG
Found at i:7229683 original size:28 final size:29
Alignment explanation
Indices: 7229647--7229718 Score: 67
Period size: 28 Copynumber: 2.5 Consensus size: 29
7229637 TCCTTTAATG
* *
7229647 TTCTGTTTTGCTCTTTTAG-CCCTGAAGT
1 TTCTATTTTGCTCTTTTAGCCCCTAAAGT
* *
7229675 TTCTATTTT-ATATTTTAGCCCCTAAAGT
1 TTCTATTTTGCTCTTTTAGCCCCTAAAGT
* *
7229703 TTTTTTTTTGACTCTT
1 TTCTATTTTG-CTCTT
7229719 AAATTTCTGT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
27 7 0.21
28 23 0.70
30 3 0.09
ACGTcount: A:0.15, C:0.18, G:0.11, T:0.56
Consensus pattern (29 bp):
TTCTATTTTGCTCTTTTAGCCCCTAAAGT
Found at i:7234945 original size:4 final size:4
Alignment explanation
Indices: 7234936--7235865 Score: 1809
Period size: 4 Copynumber: 234.0 Consensus size: 4
7234926 ATCGAGAAAA
7234936 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
7234984 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
7235032 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
7235080 ACAT ACAT ACAT ACAT ACAT ACAT ACAT --AT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
7235126 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
7235174 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
7235222 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
7235270 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
7235318 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
7235366 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
7235414 ACAT ACAT ACAT --AT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
7235460 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
7235508 ACAT AC-- ACAT GCAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
7235554 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
7235602 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
7235650 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
7235698 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
7235746 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
7235794 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
7235842 ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT
7235866 GCATGCATGC
Statistics
Matches: 918, Mismatches: 2, Indels: 12
0.98 0.00 0.01
Matches are distributed among these distances:
2 6 0.01
4 912 0.99
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:7235870 original size:4 final size:4
Alignment explanation
Indices: 7235863--7235917 Score: 110
Period size: 4 Copynumber: 13.8 Consensus size: 4
7235853 TACATACATA
7235863 CATG CATG CATG CATG CATG CATG CATG CATG CATG CATG CATG CATG
1 CATG CATG CATG CATG CATG CATG CATG CATG CATG CATG CATG CATG
7235911 CATG CAT
1 CATG CAT
7235918 ACATATATTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (4 bp):
CATG
Found at i:7236301 original size:35 final size:35
Alignment explanation
Indices: 7236214--7236355 Score: 135
Period size: 35 Copynumber: 3.9 Consensus size: 35
7236204 GTTTCTCTCG
* *
7236214 AAACAAAATGTTGTCTCGCTAGAGACAGCTTCTTTTGAA
1 AAAC-AAAT-TTGTCTCGCTTGAGACAG-TT-TTCTGAA
*
7236253 AAACAAATCTTGTCTCGCTTGAGATAGTTTTCT-AA
1 AAACAAAT-TTGTCTCGCTTGAGACAGTTTTCTGAA
* * *
7236288 AATCAAATATTGTCTCGTTTGAGACA-ATTTCTTGAA
1 AAACAAAT-TTGTCTCGCTTGAGACAGTTTTC-TGAA
*
7236324 AAACAAATTTCGTCTCGCTTGAGACATTTTTC
1 AAACAAATTT-GTCTCGCTTGAGACAGTTTTC
7236356 CTTTGAAATA
Statistics
Matches: 87, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
34 4 0.05
35 27 0.31
36 26 0.30
37 6 0.07
38 20 0.23
39 4 0.05
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.36
Consensus pattern (35 bp):
AAACAAATTTGTCTCGCTTGAGACAGTTTTCTGAA
Found at i:7236373 original size:39 final size:36
Alignment explanation
Indices: 7236248--7236560 Score: 152
Period size: 36 Copynumber: 9.0 Consensus size: 36
7236238 ACAGCTTCTT
* *
7236248 TTGAAAAACAAATCTT-GTCTCGCTTGAGATAGTTT-
1 TTGAAAAACAAAT-TTCGTCTCGCTTGAGACAATTTC
* *
7236283 TCT-AAAATCAAATATT-GTCTCGTTTGAGACAATTTC
1 T-TGAAAAACAAAT-TTCGTCTCGCTTGAGACAATTTC
*
7236319 TTGAAAAACAAATTTCGTCTCGCTTGAGACATTTTTCC
1 TTGAAAAACAAATTTCGTCTCGCTTGAGACA-ATTT-C
* **
7236357 TTTGAAATAA-AAATTTCGAAT-TTG-TT-TCAC-A----
1 -TTGAAA-AACAAATTTCG--TCTCGCTTGAGACAATTTC
* * **
7236388 TT---AAACAAAGTT-GATCTCACTTGAGATCGTTTTC
1 TTGAAAAACAAATTTCG-TCTCGCTTGAGA-CAATTTC
* * *
7236422 -TCATAAACAAATTTTGTCTCGCTTGAGACAATTTC
1 TTGAAAAACAAATTTCGTCTCGCTTGAGACAATTTC
* *
7236457 TCT-AAAAACAAATTTTGTCTCACTTGAGACAATTTCC
1 T-TGAAAAACAAATTTCGTCTCGCTTGAGACAATTT-C
* *
7236494 TT-AAAAACAAATTTTGTCTCGTTTGAGACAATTTC
1 TTGAAAAACAAATTTCGTCTCGCTTGAGACAATTTC
* *
7236529 ----AAAACAAATTTCGTCTCACTTGAGACATTTTC
1 TTGAAAAACAAATTTCGTCTCGCTTGAGACAATTTC
7236561 CCTCATAATA
Statistics
Matches: 221, Mismatches: 30, Indels: 57
0.72 0.10 0.19
Matches are distributed among these distances:
25 2 0.01
26 4 0.02
27 8 0.04
28 1 0.00
29 1 0.00
30 2 0.01
32 28 0.13
33 1 0.00
35 37 0.17
36 106 0.48
37 7 0.03
38 3 0.01
39 16 0.07
40 4 0.02
41 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.38
Consensus pattern (36 bp):
TTGAAAAACAAATTTCGTCTCGCTTGAGACAATTTC
Found at i:7236447 original size:36 final size:35
Alignment explanation
Indices: 7236389--7236577 Score: 179
Period size: 36 Copynumber: 5.3 Consensus size: 35
7236379 TGTTTCACAT
* *
7236389 TAAACAAA-GTTGATCTCACTTGAGATCGTTTTCTCA
1 TAAACAAATTTTG-TCTCACTTGAGA-CATTTTCTCA
* *
7236425 TAAACAAATTTTGTCTCGCTTGAGACAATTTCTCTA
1 TAAACAAATTTTGTCTCACTTGAGACATTTTCTC-A
* * *
7236461 AAAACAAATTTTGTCTCACTTGAGACAATTTCCTTA
1 TAAACAAATTTTGTCTCACTTGAGAC-ATTTTCTCA
* ** *
7236497 AAAACAAATTTTGTCTCGTTTGAGACA-ATT-TCA
1 TAAACAAATTTTGTCTCACTTGAGACATTTTCTCA
*
7236530 -AAACAAATTTCGTCTCACTTGAGACATTTTCCCTCA
1 TAAACAAATTTTGTCTCACTTGAGACATTTT--CTCA
7236566 TAATACAAATTT
1 TAA-ACAAATTT
7236578 CAAAGTTGTT
Statistics
Matches: 126, Mismatches: 18, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
32 23 0.18
33 4 0.03
34 1 0.01
35 8 0.06
36 72 0.57
37 10 0.08
38 8 0.06
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.37
Consensus pattern (35 bp):
TAAACAAATTTTGTCTCACTTGAGACATTTTCTCA
Found at i:7236507 original size:72 final size:68
Alignment explanation
Indices: 7236426--7236561 Score: 209
Period size: 68 Copynumber: 1.9 Consensus size: 68
7236416 GTTTTCTCAT
*
7236426 AAACAAATTTTGTCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTGTCTCACTTGAGACAATT
1 AAACAAATTTTGTCTCGCTTGAGACAA-TT-TC--AAAACAAATTTCGTCTCACTTGAGACAATT
7236491 TCCTTAA
62 TCCTTAA
* *
7236498 AAACAAATTTTGTCTCGTTTGAGACAATTTCAAAACAAATTTCGTCTCACTTGAGACATTTTCC
1 AAACAAATTTTGTCTCGCTTGAGACAATTTCAAAACAAATTTCGTCTCACTTGAGACAATTTCC
7236562 CTCATAATAC
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
68 31 0.51
70 2 0.03
71 2 0.03
72 26 0.43
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (68 bp):
AAACAAATTTTGTCTCGCTTGAGACAATTTCAAAACAAATTTCGTCTCACTTGAGACAATTTCCT
TAA
Found at i:7236858 original size:29 final size:29
Alignment explanation
Indices: 7236800--7236858 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
7236790 CTCTTGAAAC
*
7236800 AAATCTTTGAGTCTGTTCCTTTTGAGTAA
1 AAATCTTTGAGTCTGTTCCTTTTGAATAA
*
7236829 AAATCTTTGAGT-TGTTTCTTTTGAAATAA
1 AAATCTTTGAGTCTGTTCCTTTTG-AATAA
7236858 A
1 A
7236859 GTTTTGTCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (29 bp):
AAATCTTTGAGTCTGTTCCTTTTGAATAA
Found at i:7236921 original size:61 final size:60
Alignment explanation
Indices: 7236827--7236974 Score: 230
Period size: 59 Copynumber: 2.5 Consensus size: 60
7236817 CCTTTTGAGT
*
7236827 AAAAATCTTTGAGT-TGTTTCTTTTGAAATAAAGTTTTGTCTCTCTTAAGACAATTTAGTG-
1 AAAAATCTTTGAGTCTGTTTCTTTTGAAACAAAGTTTTG--TCTCTTAAGACAATTTAGTGA
* *
7236887 AAAAATCTTTGAGTCTGTTTCTTTTGAAACAAAGTTTTGTCTCTTGAGACAATTTCGTGA
1 AAAAATCTTTGAGTCTGTTTCTTTTGAAACAAAGTTTTGTCTCTTAAGACAATTTAGTGA
7236947 AAAAATCTTTGAGTC-GTTTCTTTTGAAA
1 AAAAATCTTTGAGTCTGTTTCTTTTGAAA
7236975 AAATCTTTGA
Statistics
Matches: 83, Mismatches: 3, Indels: 5
0.91 0.03 0.05
Matches are distributed among these distances:
59 31 0.37
60 29 0.35
61 23 0.28
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (60 bp):
AAAAATCTTTGAGTCTGTTTCTTTTGAAACAAAGTTTTGTCTCTTAAGACAATTTAGTGA
Done.