Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 52 of 438
Found at i:13283196 original size:14 final size:16
Alignment explanation
Indices: 13283177--13283215 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
13283167 AAGAAAATGA
*
13283177 TGATATATGACA-A-G
1 TGATATATGAAATAGG
13283191 TGATATATGAAATAGG
1 TGATATATGAAATAGG
13283207 TGATATATG
1 TGATATATG
13283216 TTATGTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 1 0.05
16 10 0.45
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.33
Consensus pattern (16 bp):
TGATATATGAAATAGG
Found at i:13287939 original size:697 final size:697
Alignment explanation
Indices: 13286604--13287995 Score: 2595
Period size: 697 Copynumber: 2.0 Consensus size: 697
13286594 GATGATGAAA
*
13286604 TAGTGTCATATGTATATGTGTATGAGAGTCGAGTTAGGGACCTTACGACCCCCCTTACCAGAGTG
1 TAGTGTCATATGTATATGTGTATGAGAGACGAGTTAGGGACCTTACGACCCCCCTTACCAGAGTG
13286669 GTGTTTTGTAAAGGATTTTATGAGATCAGTGTTGAATAAGCTCACAAGTATGAGGCTAAAGAGTT
66 GTGTTTTGTAAAGGATTTTATGAGATCAGTGTTGAATAAGCTCACAAGTATGAGGCTAAAGAGTT
13286734 CGACTATAGAGTGATTATAAATATGATTAGAGATTAAATTGGATTGATAAGTAAAGATAGAACTA
131 CGACTATAGAGTGATTATAAATATGATTAGAGATTAAATTGGATTGATAAGTAAAGATAGAACTA
13286799 GTAAGGTGCGATATCGAGAAATGTATTAACTAAAATTTCTTCAGAACCGATCTTTTTTTCAATGA
196 GTAAGGTGCGATATCGAGAAATGTATTAACTAAAATTTCTTCAGAACCGATCTTTTTTTCAATGA
13286864 GAATCATAATATGGGATTTGTGATGACAGAAATAGTTGAGGGAATAATATTTGAAAGGTAAGATA
261 GAATCATAATATGGGATTTGTGATGACAGAAATAGTTGAGGGAATAATATTTGAAAGGTAAGATA
* *
13286929 TCTGAGTATGACAGTTATGATTGAACAGATTTCGACAACTTCTTCTGAGATATTCTATATGTTTA
326 TCTAAGTATGACAGTTATGATTGAACAGATTTCAACAACTTCTTCTGAGATATTCTATATGTTTA
* * * *
13286994 ATTATTCTGGGGATTATTCCCATGGCTATTATTCTTCTGATAAAATCATTGTTCTATGGGAATGT
391 ATTATTCTGGAGATTATTCCCACGGCTATTATACTTATGATAAAATCATTGTTCTATGGGAATGT
13287059 TTTCTAATGATGATGTATAAACGAAAGTATTGATATCCTGTCTGGTATATAATTTGTATTACCCT
456 TTTCTAATGATGATGTATAAACGAAAGTATTGATATCCTGTCTGGTATATAATTTGTATTACCCT
13287124 ATTTCCCTCTAGCATTCTATTACATTTCATCTATTGGGACTTTATGAGGTAATACACATGATGTT
521 ATTTCCCTCTAGCATTCTATTACATTTCATCTATTGGGACTTTATGAGGTAATACACATGATGTT
*
13287189 ATGATTCTGTTTCTTCTAATTGATGATCTATTTGATACATATATGGGAAGGTATATTATCCTTGT
586 ATGATTCTGTTTCTTCTAATTAATGATCTATTTGATACATATATGGGAAGGTATATTATCCTTGT
*
13287254 TGCATTTAATTCCAGTGGGTTGGATTGATGTATTCTTCTGGATTTCT
651 TGCATTTAATTCCAGTGGGTTGGATTGATATATTCTTCTGGATTTCT
*
13287301 TAGTGTCATATGTATATGTGTATGAGAGACGAGTTAGGGACCTTACGACCTCCCTTACCAGAGTG
1 TAGTGTCATATGTATATGTGTATGAGAGACGAGTTAGGGACCTTACGACCCCCCTTACCAGAGTG
13287366 GTGTTTTGTAAAGGATTTTATGAGATCAGTGTTGAATAAGCTCACAAGTATGAGGCTAAAGAGTT
66 GTGTTTTGTAAAGGATTTTATGAGATCAGTGTTGAATAAGCTCACAAGTATGAGGCTAAAGAGTT
13287431 CGACTATAGAGTGATTATAAATATGATTAGAGATTAAATTGGATTGATAAGTAAAGATAGAACTA
131 CGACTATAGAGTGATTATAAATATGATTAGAGATTAAATTGGATTGATAAGTAAAGATAGAACTA
* *
13287496 GTAAGGTGCGATGTCGAGAAATGTATTAACTGAAATTTCTTCAGAACCGATCTTTTTTTCAATGA
196 GTAAGGTGCGATATCGAGAAATGTATTAACTAAAATTTCTTCAGAACCGATCTTTTTTTCAATGA
13287561 GAATCATAATATGGGATTTGTGATGACAGAAATAGTTGAGGGAATAATATTTGAAAGGTAAGATA
261 GAATCATAATATGGGATTTGTGATGACAGAAATAGTTGAGGGAATAATATTTGAAAGGTAAGATA
** * *
13287626 TCTAAGTATGACAGTTATGATTGAACAGATTTCAACGGCTTCTTCTGAGGTATTTTATATGTTTA
326 TCTAAGTATGACAGTTATGATTGAACAGATTTCAACAACTTCTTCTGAGATATTCTATATGTTTA
* *
13287691 ATTATTCTGGAGATTATTCCCACGGCTATTATACTTATTATAAAATCCTTGTTCTATGGGAATGT
391 ATTATTCTGGAGATTATTCCCACGGCTATTATACTTATGATAAAATCATTGTTCTATGGGAATGT
*
13287756 TTTCTAATGATGATGTATAAATGAAAGTATTGATATCCTGTCTGGTATATAATTTGTATTACCCT
456 TTTCTAATGATGATGTATAAACGAAAGTATTGATATCCTGTCTGGTATATAATTTGTATTACCCT
13287821 ATTTCCCTCTAGCATTCTATTACATTTCATCTATTGGGACTTTATGAGGTAATACACATGATGTT
521 ATTTCCCTCTAGCATTCTATTACATTTCATCTATTGGGACTTTATGAGGTAATACACATGATGTT
*
13287886 ATGATTCTGTTTCTTCTAATTAATGATCTGTTTGATACATATATGGGAAGGTATATTATCCTTGT
586 ATGATTCTGTTTCTTCTAATTAATGATCTATTTGATACATATATGGGAAGGTATATTATCCTTGT
*
13287951 TGCATTTAATTCTAGTGGGTTGGATTGATATATTCTTCTGGATTT
651 TGCATTTAATTCCAGTGGGTTGGATTGATATATTCTTCTGGATTT
13287996 GTTTTCTCTG
Statistics
Matches: 674, Mismatches: 21, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
697 674 1.00
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.38
Consensus pattern (697 bp):
TAGTGTCATATGTATATGTGTATGAGAGACGAGTTAGGGACCTTACGACCCCCCTTACCAGAGTG
GTGTTTTGTAAAGGATTTTATGAGATCAGTGTTGAATAAGCTCACAAGTATGAGGCTAAAGAGTT
CGACTATAGAGTGATTATAAATATGATTAGAGATTAAATTGGATTGATAAGTAAAGATAGAACTA
GTAAGGTGCGATATCGAGAAATGTATTAACTAAAATTTCTTCAGAACCGATCTTTTTTTCAATGA
GAATCATAATATGGGATTTGTGATGACAGAAATAGTTGAGGGAATAATATTTGAAAGGTAAGATA
TCTAAGTATGACAGTTATGATTGAACAGATTTCAACAACTTCTTCTGAGATATTCTATATGTTTA
ATTATTCTGGAGATTATTCCCACGGCTATTATACTTATGATAAAATCATTGTTCTATGGGAATGT
TTTCTAATGATGATGTATAAACGAAAGTATTGATATCCTGTCTGGTATATAATTTGTATTACCCT
ATTTCCCTCTAGCATTCTATTACATTTCATCTATTGGGACTTTATGAGGTAATACACATGATGTT
ATGATTCTGTTTCTTCTAATTAATGATCTATTTGATACATATATGGGAAGGTATATTATCCTTGT
TGCATTTAATTCCAGTGGGTTGGATTGATATATTCTTCTGGATTTCT
Found at i:13288089 original size:15 final size:15
Alignment explanation
Indices: 13288069--13288143 Score: 59
Period size: 15 Copynumber: 5.1 Consensus size: 15
13288059 CATTATGATA
*
13288069 TTGTATTTTGGATTT
1 TTGTATCTTGGATTT
13288084 TTGTATCTTGGATTT
1 TTGTATCTTGGATTT
*
13288099 CTT-TATCTAGGATTT
1 -TTGTATCTTGGATTT
* *
13288114 CTT-TGTCTTGGACTTC
1 -TTGTATCTTGGA-TTT
13288130 TT-TATCTTGG-TTT
1 TTGTATCTTGGATTT
13288143 T
1 T
13288144 CATGTCATCT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
13 3 0.06
15 44 0.86
16 4 0.08
ACGTcount: A:0.12, C:0.11, G:0.17, T:0.60
Consensus pattern (15 bp):
TTGTATCTTGGATTT
Found at i:13291045 original size:45 final size:44
Alignment explanation
Indices: 13290941--13291103 Score: 193
Period size: 45 Copynumber: 3.7 Consensus size: 44
13290931 GAATTAAGAA
* * *
13290941 ATCCTAGCTCGTTGAGTTGGCCCGAGTTCGTTATATATGTGAGAA
1 ATCCGAGCTCGTTGAGTTGGTCCGAGTTCGTTATATATGTGAG-C
* * * **
13290986 ATCAGCA-CTTGTTGAGTTGGTCCAAGTTCGTGGTATATGTGAAGC
1 ATCCG-AGCTCGTTGAGTTGGTCCGAGTTCGTTATATATGTG-AGC
* * *
13291031 ATCCGAGCTCGTTGAGTTGGTCCGAGTTCATTATAGATGCGAGC
1 ATCCGAGCTCGTTGAGTTGGTCCGAGTTCGTTATATATGTGAGC
13291075 ATCCGAGCTCGTTGAGTTGGTCCGAGTTC
1 ATCCGAGCTCGTTGAGTTGGTCCGAGTTC
13291104 ATAATGGATG
Statistics
Matches: 99, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
44 33 0.33
45 63 0.64
46 3 0.03
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.32
Consensus pattern (44 bp):
ATCCGAGCTCGTTGAGTTGGTCCGAGTTCGTTATATATGTGAGC
Found at i:13291600 original size:4 final size:4
Alignment explanation
Indices: 13291591--13291671 Score: 72
Period size: 4 Copynumber: 19.8 Consensus size: 4
13291581 AGTAAGTTAA
* *** * *
13291591 AAAG AAAG AAAG AAAG AAAG AAAG ATAG AAAG AGTT ACAG AGAG CAAACG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG -AAA-G
**
13291641 TGAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
13291672 TAGAAAAGGG
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
4 57 0.93
5 3 0.05
6 1 0.02
ACGTcount: A:0.65, C:0.04, G:0.26, T:0.05
Consensus pattern (4 bp):
AAAG
Found at i:13298860 original size:4 final size:4
Alignment explanation
Indices: 13298851--13298879 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
13298841 AGCAAACGTG
13298851 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
13298880 TAGAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:13303364 original size:29 final size:29
Alignment explanation
Indices: 13303322--13303395 Score: 121
Period size: 29 Copynumber: 2.6 Consensus size: 29
13303312 ATACTGCCAA
* *
13303322 CACACACGCTTGTGTGCCCTAAAAATGCC
1 CACACATGCCTGTGTGCCCTAAAAATGCC
13303351 CACACATGCCTGTGTGCCCTAAAAATGCC
1 CACACATGCCTGTGTGCCCTAAAAATGCC
*
13303380 CACACATGCCTATGTG
1 CACACATGCCTGTGTG
13303396 TCAGGCCGTG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.27, C:0.34, G:0.18, T:0.22
Consensus pattern (29 bp):
CACACATGCCTGTGTGCCCTAAAAATGCC
Found at i:13304512 original size:15 final size:15
Alignment explanation
Indices: 13304479--13304512 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13304469 AGTTATGTCT
*
13304479 ATGTATGGAATTATA
1 ATGTATGGAATTAGA
*
13304494 ATGTATGGAATTAGC
1 ATGTATGGAATTAGA
13304509 ATGT
1 ATGT
13304513 CAAAAAGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (15 bp):
ATGTATGGAATTAGA
Found at i:13309188 original size:31 final size:31
Alignment explanation
Indices: 13309106--13309188 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
13309096 GTGGGGATGG
* * * *
13309106 GTAAGTTTACAATTTGGTCA-TCAATTATTA
1 GTAAATTTACAAATTAGTCACTCAACTATTA
* *
13309136 GTAAATTTA-TAATGTAATCACTCAACTATTA
1 GTAAATTTACAAAT-TAGTCACTCAACTATTA
13309167 GTAAATTTACAAATTAGTCACT
1 GTAAATTTACAAATTAGTCACT
13309189 TTTTGCATAA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
29 2 0.05
30 12 0.29
31 25 0.60
32 3 0.07
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.40
Consensus pattern (31 bp):
GTAAATTTACAAATTAGTCACTCAACTATTA
Found at i:13310587 original size:30 final size:31
Alignment explanation
Indices: 13310530--13310589 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
13310520 AAAAAAAAAA
*
13310530 TATTTGGTTCAAAATAAAAATAAATAAAATT
1 TATTTGATTCAAAATAAAAATAAATAAAATT
13310561 TATTTGATTCAAAATAAAAA-AAATAAAAT
1 TATTTGATTCAAAATAAAAATAAATAAAAT
13310590 AATTCAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 9 0.32
31 19 0.68
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.33
Consensus pattern (31 bp):
TATTTGATTCAAAATAAAAATAAATAAAATT
Found at i:13315073 original size:14 final size:14
Alignment explanation
Indices: 13315054--13315083 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
13315044 AATGATTTTT
13315054 TTCTATTTAGTTTA
1 TTCTATTTAGTTTA
13315068 TTCTATTTAGTTTA
1 TTCTATTTAGTTTA
13315082 TT
1 TT
13315084 TTCATCTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (14 bp):
TTCTATTTAGTTTA
Found at i:13315857 original size:40 final size:40
Alignment explanation
Indices: 13315802--13315883 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
13315792 CCAAGTACAA
13315802 ATCAATTTTTTTCTTCTTTGCCCTTTTGTTTCTTCGCCCG
1 ATCAATTTTTTTCTTCTTTGCCCTTTTGTTTCTTCGCCCG
* *
13315842 ATCAATTTTTTTCTTCTTTGTCCTTTTGTTTCTTCGCTCG
1 ATCAATTTTTTTCTTCTTTGCCCTTTTGTTTCTTCGCCCG
13315882 AT
1 AT
13315884 GATGAATGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.09, C:0.24, G:0.10, T:0.57
Consensus pattern (40 bp):
ATCAATTTTTTTCTTCTTTGCCCTTTTGTTTCTTCGCCCG
Found at i:13317146 original size:17 final size:17
Alignment explanation
Indices: 13317124--13317159 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
13317114 ATTGAAGTGA
13317124 TTGTTTTTAATCTAAAT
1 TTGTTTTTAATCTAAAT
13317141 TTGTTTTTAATCTAAAT
1 TTGTTTTTAATCTAAAT
13317158 TT
1 TT
13317160 ACTAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.61
Consensus pattern (17 bp):
TTGTTTTTAATCTAAAT
Found at i:13319931 original size:6 final size:6
Alignment explanation
Indices: 13319922--13319948 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
13319912 ACATAAACAT
13319922 AAAAGA AAAAGA AAAAGA AAAAGA AAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAA
13319949 CAAATAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:13321461 original size:19 final size:19
Alignment explanation
Indices: 13321439--13321478 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13321429 GAAACTAAAG
* *
13321439 AATAAGAATGAAAATTAAT
1 AATAAGAAAGAAAAATAAT
*
13321458 AATAATAAAGAAAAATAAT
1 AATAAGAAAGAAAAATAAT
13321477 AA
1 AA
13321479 AACCACAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (19 bp):
AATAAGAAAGAAAAATAAT
Found at i:13331690 original size:21 final size:21
Alignment explanation
Indices: 13331659--13331700 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
13331649 TTTTTATATA
13331659 TTTTATAATTTTAATGATTTTT
1 TTTTATAATTTTAATG-TTTTT
*
13331681 TTTTAT-ATTTTTATGTTTTT
1 TTTTATAATTTTAATGTTTTT
13331701 ATAATTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 8 0.42
22 6 0.32
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (21 bp):
TTTTATAATTTTAATGTTTTT
Found at i:13331699 original size:29 final size:31
Alignment explanation
Indices: 13331649--13331708 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
13331639 CTTCTAGTAA
*
13331649 TTTTTATATATTTTATAATTTTAATGATTTT
1 TTTTTATATATTTTATAATTTTAATAATTTT
* *
13331680 TTTTTATAT-TTTTAT-GTTTTTATAATTTT
1 TTTTTATATATTTTATAATTTTAATAATTTT
13331709 AAAATGTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 11 0.42
30 6 0.23
31 9 0.35
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (31 bp):
TTTTTATATATTTTATAATTTTAATAATTTT
Found at i:13335463 original size:24 final size:25
Alignment explanation
Indices: 13335432--13335484 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
13335422 ATTGAGTTTA
*
13335432 CAAA-GAAGGGAA-AAACTGATTTT
1 CAAAGGAAGGAAAGAAACTGATTTT
* *
13335455 CAAAGGAAGGAAAGAAATTTATTTT
1 CAAAGGAAGGAAAGAAACTGATTTT
13335480 CAAAG
1 CAAAG
13335485 AAAGCAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 4 0.16
24 7 0.28
25 14 0.56
ACGTcount: A:0.49, C:0.08, G:0.21, T:0.23
Consensus pattern (25 bp):
CAAAGGAAGGAAAGAAACTGATTTT
Found at i:13336752 original size:7 final size:7
Alignment explanation
Indices: 13336740--13336770 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
13336730 TATATTAATA
13336740 ATTTTAT
1 ATTTTAT
13336747 ATTTTAT
1 ATTTTAT
13336754 ATTTTAT
1 ATTTTAT
*
13336761 GTTTTAT
1 ATTTTAT
13336768 ATT
1 ATT
13336771 AAATTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (7 bp):
ATTTTAT
Found at i:13346557 original size:6 final size:5
Alignment explanation
Indices: 13346544--13346602 Score: 55
Period size: 6 Copynumber: 10.6 Consensus size: 5
13346534 TTAATTTTAA
13346544 ATTTT ATTTCT ATTATT ATTATT ATTATT ATTATT ATATTT ATTTT ATTTT
1 ATTTT ATTT-T ATT-TT ATT-TT ATT-TT ATT-TT AT-TTT ATTTT ATTTT
*
13346595 ATTAT ATT
1 ATTTT ATT
13346603 AATAAAATTC
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
5 19 0.38
6 29 0.58
7 2 0.04
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (5 bp):
ATTTT
Found at i:13346562 original size:3 final size:3
Alignment explanation
Indices: 13346554--13346603 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
13346544 ATTTTATTTC
13346554 TAT TAT TAT TAT TAT TAT TAT TAT TA- TATT TAT T-T TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
13346597 TA- TAT TA
1 TAT TAT TA
13346604 ATAAAATTCT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
2 8 0.19
3 32 0.76
4 2 0.05
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:13354486 original size:20 final size:20
Alignment explanation
Indices: 13354458--13354496 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13354448 AAACAGGACC
13354458 ACACACCCGTGTGGATAGGG
1 ACACACCCGTGTGGATAGGG
* *
13354478 ACACGCCCGTGTGGGTAGG
1 ACACACCCGTGTGGATAGG
13354497 CCGTGTGGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (20 bp):
ACACACCCGTGTGGATAGGG
Found at i:13355513 original size:46 final size:49
Alignment explanation
Indices: 13355447--13355587 Score: 154
Period size: 46 Copynumber: 3.0 Consensus size: 49
13355437 TCACATGTCA
* * * *
13355447 CACACTGAAGTCATAGCCCAGCCATGGTCTTACACAG-AGCACA-A-AT
1 CACACTGATGCCATATCCCAGACATGGTCTTACACAGAAGCACATATAT
*
13355493 CACACTGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATAT
1 CACACTGATGCCATATCCCAGACATGGTCTTACACAGAAGCACATATAT
* * *
13355542 CAC-C-GATGCCATATCCCAAATATGGTCTT--ACGGAAGCACATA-AT
1 CACACTGATGCCATATCCCAGACATGGTCTTACACAGAAGCACATATAT
13355586 CA
1 CA
13355588 AATCCCACTA
Statistics
Matches: 85, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
44 4 0.05
45 12 0.14
46 32 0.38
47 30 0.35
48 2 0.02
49 5 0.06
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (49 bp):
CACACTGATGCCATATCCCAGACATGGTCTTACACAGAAGCACATATAT
Found at i:13355553 original size:47 final size:48
Alignment explanation
Indices: 13355470--13355587 Score: 167
Period size: 47 Copynumber: 2.6 Consensus size: 48
13355460 TAGCCCAGCC
*
13355470 ATGGTCTTACACAG-AGCACA-AATCACACTGATGCCATATCCCAGAT
1 ATGGTCTTACACAGAAGCACATAATCACACTGATGCCATATCCCAAAT
13355516 ATGGTCTTACACAGAAGCACATATATCAC-C-GATGCCATATCCCAAAT
1 ATGGTCTTACACAGAAGCACATA-ATCACACTGATGCCATATCCCAAAT
*
13355563 ATGGTCTT--ACGGAAGCACATAATCA
1 ATGGTCTTACACAGAAGCACATAATCA
13355588 AATCCCACTA
Statistics
Matches: 67, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
44 4 0.06
45 12 0.18
46 14 0.21
47 30 0.45
48 2 0.03
49 5 0.07
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (48 bp):
ATGGTCTTACACAGAAGCACATAATCACACTGATGCCATATCCCAAAT
Found at i:13357145 original size:47 final size:47
Alignment explanation
Indices: 13357076--13357199 Score: 178
Period size: 47 Copynumber: 2.6 Consensus size: 47
13357066 GATAAGTACT
**
13357076 TATACCATGGCCCGTAGCCAAATCAAGGTAACT-TATCTCGGAATACC
1 TATACCATGGCCCGTAGCCAAATCAAGGTAACTCT-TCTCAAAATACC
*
13357123 TATACCATGGCCTGTAGCCAAATCAAGGTAACTCTTCTCAAAATACC
1 TATACCATGGCCCGTAGCCAAATCAAGGTAACTCTTCTCAAAATACC
* * *
13357170 TATATCATGGCCCATAGCTAAATCAAGGTA
1 TATACCATGGCCCGTAGCCAAATCAAGGTA
13357200 TTATTCGCAC
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
47 68 0.99
48 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (47 bp):
TATACCATGGCCCGTAGCCAAATCAAGGTAACTCTTCTCAAAATACC
Found at i:13360167 original size:36 final size:36
Alignment explanation
Indices: 13360120--13360191 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
13360110 TCTTTCTGTG
*
13360120 TCATCAAATACTTCAAACTCTTGTGATATGAATAAA
1 TCATCAAATACTTCAAACTCTTATGATATGAATAAA
*
13360156 TCATCAAATACTTCAAACTCTTATGATCTGAATAAA
1 TCATCAAATACTTCAAACTCTTATGATATGAATAAA
13360192 CATGGCATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (36 bp):
TCATCAAATACTTCAAACTCTTATGATATGAATAAA
Found at i:13365275 original size:28 final size:29
Alignment explanation
Indices: 13365218--13365275 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
13365208 TATTTCACAC
*
13365218 ATTTAACCCCTCAATTTACAATTTTCTCA
1 ATTTAACCCCTCAATTGACAATTTTCTCA
* * *
13365247 ATTTAATCCCT-AATTGACATTTTTGTCA
1 ATTTAACCCCTCAATTGACAATTTTCTCA
13365275 A
1 A
13365276 AAATCACTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.43
Consensus pattern (29 bp):
ATTTAACCCCTCAATTGACAATTTTCTCA
Found at i:13381096 original size:49 final size:47
Alignment explanation
Indices: 13380976--13381245 Score: 164
Period size: 46 Copynumber: 5.7 Consensus size: 47
13380966 AGGGTATAAT
* *
13380976 GCCGATGCCATGTCCCAGACATGGTCTTATACTGGCTCATCCATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTATACTGACTCATCAATCAA
* * *
13381023 GTCGATGCCATGTCCTAGACATGGTCTTATACTGACT-ATCGAAATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTATACTGACTCATC--AATC-AA
* * * * *
13381072 GCCGACGCCATGTCCCAGACATGGTCATACACTAGCTCTCA-CATATC-T
1 GCCGATGCCATGTCCCAGACATGGTCTTATACT-G-ACTCATCA-ATCAA
* * * * * * *
13381120 GTGCAAGTGTCATGTCCTAGACATGGTCTTATACTAACACATC--TCGCA
1 G-CCGA-TGCCATGTCCCAGACATGGTCTTATACTGACTCATCAATC-AA
* * * **
13381168 GCCGAT-ACATGTCCCAGACAT-GTCTTACACTGGCTC-TCGTCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTATACTGACTCATC-AATCAA
*
13381213 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTATACTG
13381246 TCATTTCATA
Statistics
Matches: 174, Mismatches: 32, Indels: 35
0.72 0.13 0.15
Matches are distributed among these distances:
43 2 0.01
44 11 0.06
45 14 0.08
46 39 0.22
47 36 0.21
48 8 0.05
49 33 0.19
50 27 0.16
51 3 0.02
52 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTATACTGACTCATCAATCAA
Found at i:13381226 original size:46 final size:46
Alignment explanation
Indices: 13381168--13381291 Score: 148
Period size: 46 Copynumber: 2.7 Consensus size: 46
13381158 ACATCTCGCA
*
13381168 GCCGATACATGTCCCAGACATGTCTTACACTGGCTC-TCGTC-TCAA-T-
1 GCCGATGCATGTCCCAGACATGTCTTACACT-G-TCAT-GTCAT-AAGTG
*
13381214 GCCGATGCATGTCCCAGACATGTCTTACACTGTCATTTCATAATGTG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGTCATGTCATAA-GTG
*
13381261 GTCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
13381292 AGCACACACA
Statistics
Matches: 70, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
44 6 0.09
45 3 0.04
46 31 0.44
47 30 0.43
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGTCATGTCATAAGTG
Found at i:13385714 original size:65 final size:64
Alignment explanation
Indices: 13385634--13385768 Score: 243
Period size: 65 Copynumber: 2.1 Consensus size: 64
13385624 ATAAGTAAGG
*
13385634 ATTATATTTTATTATTTATTATAATTAAATTTAATTAAATTTACAGCTTGACTTTTTAGTTATAT
1 ATTA-ATTTTATTATTTATTATAATTAAATTTAATTAAATTTACAGATTGACTTTTTAGTTATAT
13385699 ATTAATTTTAATTATTTATTATAATTAAATTTAATTAAATTTACAGATTGACTTTTTAGTTATAT
1 ATTAATTTT-ATTATTTATTATAATTAAATTTAATTAAATTTACAGATTGACTTTTTAGTTATAT
13385764 ATTAA
1 ATTAA
13385769 ATGCGATATT
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
64 5 0.07
65 63 0.93
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (64 bp):
ATTAATTTTATTATTTATTATAATTAAATTTAATTAAATTTACAGATTGACTTTTTAGTTATAT
Found at i:13385726 original size:23 final size:25
Alignment explanation
Indices: 13385688--13385735 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
13385678 AGCTTGACTT
*
13385688 TTTAGTTATATATTAATTTTAATTA
1 TTTAGTTATATATTAAATTTAATTA
13385713 TTTA-TTATA-ATTAAATTTAATTA
1 TTTAGTTATATATTAAATTTAATTA
13385736 AATTTACAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 13 0.59
24 5 0.23
25 4 0.18
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
TTTAGTTATATATTAAATTTAATTA
Found at i:13390117 original size:28 final size:28
Alignment explanation
Indices: 13390060--13390131 Score: 69
Period size: 28 Copynumber: 2.6 Consensus size: 28
13390050 CAAATTTATG
*
13390060 AAAAATTTT-CAAA-TTAGAAAACCAAA
1 AAAAATTTTAAAAATTTAGAAAACCAAA
* * * *
13390086 AAAATTTTTGATAATTTAGAAAA-TAAA
1 AAAAATTTTAAAAATTTAGAAAACCAAA
13390113 TAAAAATTTTAAAAATTTA
1 -AAAAATTTTAAAAATTTA
13390132 TTTTTTCAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 8 0.22
27 5 0.14
28 23 0.64
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (28 bp):
AAAAATTTTAAAAATTTAGAAAACCAAA
Found at i:13404778 original size:13 final size:13
Alignment explanation
Indices: 13404739--13404780 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
13404729 TAAATGTATA
13404739 ATACGAAATGGTT
1 ATACGAAATGGTT
*
13404752 ATA-TAAGATGGTT
1 ATACGAA-ATGGTT
*
13404765 ATACGAAATTGTT
1 ATACGAAATGGTT
13404778 ATA
1 ATA
13404781 TAAAGTAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 2 0.08
13 20 0.83
14 2 0.08
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.36
Consensus pattern (13 bp):
ATACGAAATGGTT
Found at i:13411648 original size:31 final size:31
Alignment explanation
Indices: 13411613--13411689 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
13411603 ATTTTAAAAG
13411613 TATACATAAACTTTAGTCTAATATACAATTT
1 TATACATAAACTTTAGTCTAATATACAATTT
*
13411644 TATACATAAACTTTAGTCTAATATGCAATTT
1 TATACATAAACTTTAGTCTAATATACAATTT
* *
13411675 TATGCATGAACTTTA
1 TATACATAAACTTTA
13411690 ATTTTGTGCA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (31 bp):
TATACATAAACTTTAGTCTAATATACAATTT
Found at i:13411959 original size:31 final size:29
Alignment explanation
Indices: 13411903--13411969 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 29
13411893 TAATCAAAAT
*
13411903 TTCATGTGTATAATTACATAAAATTATAG
1 TTCATGTGTATAATTACATAAAATTAAAG
* **
13411932 TTCATGTGTCTAATTGTACATTGAATTAAAG
1 TTCATGTGTATAA-T-TACATAAAATTAAAG
*
13411963 TTTATGT
1 TTCATGT
13411970 ATAATTTTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 12 0.39
30 1 0.03
31 18 0.58
ACGTcount: A:0.34, C:0.07, G:0.13, T:0.45
Consensus pattern (29 bp):
TTCATGTGTATAATTACATAAAATTAAAG
Found at i:13413437 original size:20 final size:20
Alignment explanation
Indices: 13413400--13413437 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13413390 GAGAATATGA
*
13413400 GAAGAGAGAAAAATAAATGG
1 GAAGAGAGAAAAAAAAATGG
13413420 GAAGA-AGAAAAAGAAAAT
1 GAAGAGAGAAAAA-AAAAT
13413438 AAAGAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.08
Consensus pattern (20 bp):
GAAGAGAGAAAAAAAAATGG
Found at i:13413574 original size:25 final size:24
Alignment explanation
Indices: 13413546--13413594 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
13413536 AAAAGAAAAT
13413546 AGAAAATAAAGAAAAAAAAATTAAA
1 AGAAAATAAA-AAAAAAAAATTAAA
* *
13413571 AGAATATAAAAGAAAAAAATTAAA
1 AGAAAATAAAAAAAAAAAATTAAA
13413595 TGGCTCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (24 bp):
AGAAAATAAAAAAAAAAAATTAAA
Found at i:13415825 original size:30 final size:30
Alignment explanation
Indices: 13415784--13415843 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
13415774 TTTATTGTTA
*
13415784 AATTTTTTTATTATTTTAAAGACATTTGCT
1 AATTTTGTTATTATTTTAAAGACATTTGCT
* *
13415814 AATTTTGTTATTATTTTAGAGGCATTTGCT
1 AATTTTGTTATTATTTTAAAGACATTTGCT
13415844 TGTTAAATTG
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:0.27, C:0.07, G:0.12, T:0.55
Consensus pattern (30 bp):
AATTTTGTTATTATTTTAAAGACATTTGCT
Found at i:13415985 original size:12 final size:12
Alignment explanation
Indices: 13415964--13415997 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
13415954 TATATATTTT
*
13415964 AAAATTATATAA
1 AAAATAATATAA
13415976 AAAATAATATAA
1 AAAATAATATAA
*
13415988 AAATTAATAT
1 AAAATAATAT
13415998 GGGCGGGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:13417698 original size:39 final size:39
Alignment explanation
Indices: 13417644--13417722 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
13417634 ATTCGTTTCG
13417644 TACGTGAAGTTTATTTTCCTTCTTTGCTTCAAATTTTTT
1 TACGTGAAGTTTATTTTCCTTCTTTGCTTCAAATTTTTT
13417683 TACGTGAAGTTTATTTTCCTTCTTTGCTTCAAATTTTTT
1 TACGTGAAGTTTATTTTCCTTCTTTGCTTCAAATTTTTT
13417722 T
1 T
13417723 TTCATTTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.18, C:0.15, G:0.10, T:0.57
Consensus pattern (39 bp):
TACGTGAAGTTTATTTTCCTTCTTTGCTTCAAATTTTTT
Found at i:13438047 original size:18 final size:17
Alignment explanation
Indices: 13438020--13438056 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
13438010 CACATTTATG
13438020 AAAAAATAAAATACCAA
1 AAAAAATAAAATACCAA
13438037 AAAATAATAAAATACCAA
1 AAAA-AATAAAATACCAA
13438055 AA
1 AA
13438057 TAGTATCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.76, C:0.11, G:0.00, T:0.14
Consensus pattern (17 bp):
AAAAAATAAAATACCAA
Found at i:13438070 original size:50 final size:50
Alignment explanation
Indices: 13437985--13438095 Score: 179
Period size: 50 Copynumber: 2.2 Consensus size: 50
13437975 AATATATTAT
*
13437985 AAAAAATAATAAAATACCAAAATAGCACATTTATGAAAAAATAAAATACC
1 AAAAAATAATAAAATACCAAAATAGCACATCTATGAAAAAATAAAATACC
*
13438035 AAAAAATAATAAAATACCAAAATAGTATC-TCTATGAAAAAATAAAATACC
1 AAAAAATAATAAAATACCAAAATAGCA-CATCTATGAAAAAATAAAATACC
13438085 AAAATAATAAT
1 AAAA-AATAAT
13438096 TCATTTTAGG
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
50 50 0.88
51 7 0.12
ACGTcount: A:0.64, C:0.11, G:0.04, T:0.22
Consensus pattern (50 bp):
AAAAAATAATAAAATACCAAAATAGCACATCTATGAAAAAATAAAATACC
Found at i:13440019 original size:33 final size:33
Alignment explanation
Indices: 13439917--13440007 Score: 128
Period size: 33 Copynumber: 2.8 Consensus size: 33
13439907 CATTGGGCTG
* **
13439917 TATCGACCGCAGTACAACACTCCTCTAGGCTCA
1 TATCCACCGCAGTACTTCACTCCTCTAGGCTCA
* * *
13439950 TATCCATCGCAGTACTTCATTCCTCTAGGCCCA
1 TATCCACCGCAGTACTTCACTCCTCTAGGCTCA
13439983 TATCCACCGCAGTACTTCACTCCTC
1 TATCCACCGCAGTACTTCACTCCTC
13440008 CTGGGTCATA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.23, C:0.38, G:0.12, T:0.26
Consensus pattern (33 bp):
TATCCACCGCAGTACTTCACTCCTCTAGGCTCA
Found at i:13443429 original size:16 final size:16
Alignment explanation
Indices: 13443408--13443440 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
13443398 ATAGTTTTTT
13443408 ACTAACAATAATAATA
1 ACTAACAATAATAATA
13443424 ACTAACAATAATAATA
1 ACTAACAATAATAATA
13443440 A
1 A
13443441 GGATTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (16 bp):
ACTAACAATAATAATA
Found at i:13443429 original size:76 final size:75
Alignment explanation
Indices: 13443335--13443509 Score: 255
Period size: 76 Copynumber: 2.3 Consensus size: 75
13443325 AATATAAATC
* *
13443335 AACAATAATAATACCTAACAATAAT-T-AGGATTTTTTTACTAATAATAATAACCAACAATAATA
1 AACAATAATAATAACTAACAATAATATAAGGA-TTTTTTACTAACAATAATAACCAACAATAAT-
*
13443398 ATAGTTTTTTACT
64 A-AGGTTTTTACT
**
13443411 AACAATAATAATAACTAACAATAATAATAAGGATTTTTTACTAACAATAATAATTAACAATAATA
1 AACAATAATAATAACTAACAATAAT-ATAAGGATTTTTTACTAACAATAATAACCAACAATAATA
13443476 AGGTTTTTACT
65 AGGTTTTTACT
13443487 AACAATAATAATAACTAACAATA
1 AACAATAATAATAACTAACAATA
13443510 TTAACTAGCA
Statistics
Matches: 91, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
76 57 0.63
77 1 0.01
78 29 0.32
79 4 0.04
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.34
Consensus pattern (75 bp):
AACAATAATAATAACTAACAATAATATAAGGATTTTTTACTAACAATAATAACCAACAATAATAA
GGTTTTTACT
Found at i:13443431 original size:39 final size:39
Alignment explanation
Indices: 13443335--13443509 Score: 204
Period size: 39 Copynumber: 4.6 Consensus size: 39
13443325 AATATAAATC
* ** *
13443335 AACAATAATAATACCTAACAATAATTAGGATTTTTTTACT
1 AACAATAATAATAACTAACAATAA-TAATAGTTTTTTACT
*
13443375 ---AATAATAATAACCAACAATAATAATAGTTTTTTACT
1 AACAATAATAATAACTAACAATAATAATAGTTTTTTACT
13443411 AACAATAATAATAACTAACAATAATAATAAGGATTTTTTACT
1 AACAATAATAATAACTAACAATAATAAT-A-G-TTTTTTACT
*
13443453 AACAATAATAAT---TAACAATAAT-A-AGGTTTTTACT
1 AACAATAATAATAACTAACAATAATAATAGTTTTTTACT
13443487 AACAATAATAATAACTAACAATA
1 AACAATAATAATAACTAACAATA
13443510 TTAACTAGCA
Statistics
Matches: 119, Mismatches: 7, Indels: 21
0.81 0.05 0.14
Matches are distributed among these distances:
34 20 0.17
35 1 0.01
36 13 0.11
37 27 0.23
38 1 0.01
39 34 0.29
40 1 0.01
41 1 0.01
42 21 0.18
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.34
Consensus pattern (39 bp):
AACAATAATAATAACTAACAATAATAATAGTTTTTTACT
Found at i:13443435 original size:13 final size:13
Alignment explanation
Indices: 13443417--13443476 Score: 50
Period size: 13 Copynumber: 4.6 Consensus size: 13
13443407 TACTAACAAT
13443417 AATAATAACTAAC
1 AATAATAACTAAC
*
13443430 AATAATAA-TAAGG
1 AATAATAACTAA-C
* ** *
13443443 ATTTTTTACTAAC
1 AATAATAACTAAC
*
13443456 AATAATAATTAAC
1 AATAATAACTAAC
13443469 AATAATAA
1 AATAATAA
13443477 GGTTTTTACT
Statistics
Matches: 34, Mismatches: 11, Indels: 4
0.69 0.22 0.08
Matches are distributed among these distances:
12 3 0.09
13 28 0.82
14 3 0.09
ACGTcount: A:0.57, C:0.08, G:0.03, T:0.32
Consensus pattern (13 bp):
AATAATAACTAAC
Found at i:13443738 original size:24 final size:26
Alignment explanation
Indices: 13443689--13443741 Score: 83
Period size: 24 Copynumber: 2.1 Consensus size: 26
13443679 TGCCGCGCCC
13443689 TCTCCTTCTCTTTCTTCTTTTTCTCT
1 TCTCCTTCTCTTTCTTCTTTTTCTCT
*
13443715 TCTCCTTTTCTTT-TT-TTTTTCTCT
1 TCTCCTTCTCTTTCTTCTTTTTCTCT
13443739 TCT
1 TCT
13443742 TCTCCTTACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 12 0.46
25 2 0.08
26 12 0.46
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (26 bp):
TCTCCTTCTCTTTCTTCTTTTTCTCT
Found at i:13451221 original size:2 final size:2
Alignment explanation
Indices: 13451210--13451251 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
13451200 CCATAATCGT
13451210 TA TA TA -A TA TA TA TA TA T- TA -A TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13451249 TA T
1 TA T
13451252 GTACCGTCTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 3 0.08
2 34 0.92
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13459086 original size:15 final size:16
Alignment explanation
Indices: 13459066--13459100 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
13459056 CGGAATAGTG
13459066 ATTTTG-GGACAAAAA
1 ATTTTGAGGACAAAAA
*
13459081 ATTTTGAGGTCAAAAA
1 ATTTTGAGGACAAAAA
13459097 ATTT
1 ATTT
13459101 ATTTTAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (16 bp):
ATTTTGAGGACAAAAA
Found at i:13460476 original size:26 final size:26
Alignment explanation
Indices: 13460429--13460480 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
13460419 CACAGGTATT
*
13460429 TACATGAGATATATAAAAATGATTTG
1 TACATGAGATATAGAAAAATGATTTG
* * *
13460455 TACATGATATATAGATATATGATTTG
1 TACATGAGATATAGAAAAATGATTTG
13460481 GGAAATTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.42, C:0.04, G:0.15, T:0.38
Consensus pattern (26 bp):
TACATGAGATATAGAAAAATGATTTG
Found at i:13462250 original size:25 final size:25
Alignment explanation
Indices: 13462222--13462274 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
13462212 TAATATACAA
* *
13462222 CTCACATAAGCTTTCCGTTATTTAG
1 CTCACATAAGCTTCCCGTTATATAG
*
13462247 CTCACATGAGCTTCCCGTTATATAG
1 CTCACATAAGCTTCCCGTTATATAG
13462272 CTC
1 CTC
13462275 GAAAAAGCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (25 bp):
CTCACATAAGCTTCCCGTTATATAG
Found at i:13462283 original size:25 final size:25
Alignment explanation
Indices: 13462222--13462286 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
13462212 TAATATACAA
* * *
13462222 CTCACATAAGCTTTCCGTTATTTAG
1 CTCACAAAAGCTTCCCGTTATATAG
**
13462247 CTCACATGAGCTTCCCGTTATATAG
1 CTCACAAAAGCTTCCCGTTATATAG
13462272 CTCGA-AAAAGCTTCC
1 CTC-ACAAAAGCTTCC
13462287 TATTTACACG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 33 0.97
26 1 0.03
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (25 bp):
CTCACAAAAGCTTCCCGTTATATAG
Found at i:13465099 original size:17 final size:17
Alignment explanation
Indices: 13465077--13465109 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13465067 CAATCTTAAA
13465077 TGTTAT-TAAAACAAATT
1 TGTTATATAAAA-AAATT
13465094 TGTTATATAAAAAAAT
1 TGTTATATAAAAAAAT
13465110 CACTAGCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (17 bp):
TGTTATATAAAAAAATT
Found at i:13465577 original size:11 final size:11
Alignment explanation
Indices: 13465563--13465603 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
13465553 TGTTTTCTCC
13465563 CTATTTTGCTA
1 CTATTTTGCTA
*
13465574 CTATTTTACTA
1 CTATTTTGCTA
* *
13465585 TTATGTTGCTA
1 CTATTTTGCTA
13465596 CTATTTTG
1 CTATTTTG
13465604 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:13465674 original size:30 final size:30
Alignment explanation
Indices: 13465640--13465701 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
13465630 ACTTATTTTC
13465640 TTGTT-AATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAAATTTT-TTATTATTTTAAAGGCAT
*
13465670 TTGTTAAATTTTTTATTATTTTAGAGGCAT
1 TTGTTAAATTTTTTATTATTTTAAAGGCAT
13465700 TT
1 TT
13465702 ACTTGTTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 24 0.80
31 6 0.20
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.58
Consensus pattern (30 bp):
TTGTTAAATTTTTTATTATTTTAAAGGCAT
Found at i:13465821 original size:18 final size:18
Alignment explanation
Indices: 13465786--13465825 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
13465776 AAAATATTTA
*
13465786 TTTTGATGTTTTTAATAT
1 TTTTGATGTTTATAATAT
13465804 TTTTGATGTATTATATATAT
1 TTTTGATGT-TTATA-ATAT
13465824 TT
1 TT
13465826 AAAAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (18 bp):
TTTTGATGTTTATAATAT
Found at i:13473670 original size:24 final size:24
Alignment explanation
Indices: 13473588--13473677 Score: 90
Period size: 24 Copynumber: 3.7 Consensus size: 24
13473578 AAGAAATTTC
* **
13473588 AGCACTATGTGTGCGAGGTTATGC
1 AGCACTATGTGTGCGAGATTATAT
* * * * *
13473612 GGCACTATGTGTGCAAAAACTACAT
1 AGCACTATGTGTGC-GAGATTATAT
*
13473637 GGCACTATGTGTGCGAGATTATAT
1 AGCACTATGTGTGCGAGATTATAT
13473661 AGCACTATGTGTGCGAG
1 AGCACTATGTGTGCGAG
13473678 GAAACACGAC
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
24 35 0.67
25 17 0.33
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.28
Consensus pattern (24 bp):
AGCACTATGTGTGCGAGATTATAT
Found at i:13477563 original size:56 final size:56
Alignment explanation
Indices: 13477472--13477586 Score: 221
Period size: 56 Copynumber: 2.1 Consensus size: 56
13477462 CAGCCAGAGT
13477472 CTGGTAAAGAGTTCGTAGTCTACAGTGATGCTTCTTTGAACGGTTTGGGTTGTGTG
1 CTGGTAAAGAGTTCGTAGTCTACAGTGATGCTTCTTTGAACGGTTTGGGTTGTGTG
*
13477528 CTGGTAAAGAGTTCGTAGTCTACAGTGATGTTTCTTTGAACGGTTTGGGTTGTGTG
1 CTGGTAAAGAGTTCGTAGTCTACAGTGATGCTTCTTTGAACGGTTTGGGTTGTGTG
13477584 CTG
1 CTG
13477587 ATGCAGGAAG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.17, C:0.12, G:0.32, T:0.38
Consensus pattern (56 bp):
CTGGTAAAGAGTTCGTAGTCTACAGTGATGCTTCTTTGAACGGTTTGGGTTGTGTG
Found at i:13481587 original size:24 final size:24
Alignment explanation
Indices: 13481555--13481659 Score: 95
Period size: 24 Copynumber: 4.3 Consensus size: 24
13481545 ATTTCAGCAA
* *
13481555 TATGTGTGCGAGGTTATACGGCAC
1 TATGTGTGCGAGATTACACGGCAC
* * * *
13481579 TATGTGTGCAAAAACTACATGGCAC
1 TATGTGTGC-GAGATTACACGGCAC
* *
13481604 TATGTGTGCGAGATTATACAGCAC
1 TATGTGTGCGAGATTACACGGCAC
* *
13481628 TATGTGTGCGAGGA-AACACGACAC
1 TATGTGTGCGA-GATTACACGGCAC
13481652 TATGTGTG
1 TATGTGTG
13481660 TGAATGAGTA
Statistics
Matches: 63, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
24 43 0.68
25 20 0.32
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.27
Consensus pattern (24 bp):
TATGTGTGCGAGATTACACGGCAC
Found at i:13484014 original size:3 final size:3
Alignment explanation
Indices: 13484006--13484053 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
13483996 AACTGTCAAC
13484006 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13484054 TTGTTAGATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:13485333 original size:5 final size:5
Alignment explanation
Indices: 13485323--13485347 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
13485313 ATATATTTGA
13485323 AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT
13485348 TTATATAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:13485908 original size:18 final size:18
Alignment explanation
Indices: 13485854--13485908 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 18
13485844 CCTAAATATT
*
13485854 AACCCTAAATTCTTACAAA
1 AACCCTAAA-TCTAACAAA
* *
13485873 AACTCT-AATTTAACAAA
1 AACCCTAAATCTAACAAA
*
13485890 AACCCTAAATCTAATAAA
1 AACCCTAAATCTAACAAA
13485908 A
1 A
13485909 TTTAAAAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
17 12 0.41
18 12 0.41
19 5 0.17
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.25
Consensus pattern (18 bp):
AACCCTAAATCTAACAAA
Found at i:13489610 original size:23 final size:23
Alignment explanation
Indices: 13489580--13489625 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
13489570 AACAACTATG
13489580 AATTGGCATAAAGATTTGATTTT
1 AATTGGCATAAAGATTTGATTTT
*
13489603 AATTGGCATAAGGATTTGATTTT
1 AATTGGCATAAAGATTTGATTTT
13489626 TAACATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.20, T:0.43
Consensus pattern (23 bp):
AATTGGCATAAAGATTTGATTTT
Found at i:13490278 original size:3 final size:3
Alignment explanation
Indices: 13490270--13490294 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13490260 TATAGCTTTG
13490270 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
13490295 ACATTCTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:13490928 original size:22 final size:21
Alignment explanation
Indices: 13490875--13490928 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
13490865 CGCATGGGGA
*
13490875 TTGATAATATTTGATTTTAACT
1 TTGATAA-ATTTGATTTTAAAT
* *
13490897 TT-CTACATTTGATATTTAAAT
1 TTGATAAATTTGAT-TTTAAAT
13490918 TTGATAAATTT
1 TTGATAAATTT
13490929 TTTGAATTGT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
20 7 0.28
21 10 0.40
22 8 0.32
ACGTcount: A:0.33, C:0.06, G:0.07, T:0.54
Consensus pattern (21 bp):
TTGATAAATTTGATTTTAAAT
Found at i:13493174 original size:2 final size:2
Alignment explanation
Indices: 13493167--13493197 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13493157 AATTCTTTTA
13493167 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13493198 GTGATGTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13495073 original size:136 final size:137
Alignment explanation
Indices: 13494829--13495114 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
13494819 CATTGGGCCT
** * *
13494829 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
13494894 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
13494958 CATATGC
131 CATATGC
13494965 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
13495030 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
13495095 CATATGC
131 CATATGC
13495102 AAGCCCATTTGGG
1 AAGCCCATTTGGG
13495115 GAGACTACTC
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 122 0.85
137 22 0.15
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:13495334 original size:21 final size:21
Alignment explanation
Indices: 13495310--13495349 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
13495300 CCAGTCCCAT
13495310 GCAT-CAGATAATAACAACATG
1 GCATGCAG-TAATAACAACATG
13495331 GCATGCAGTAATAACAACA
1 GCATGCAGTAATAACAACA
13495350 GTCAAACATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.47, C:0.20, G:0.15, T:0.17
Consensus pattern (21 bp):
GCATGCAGTAATAACAACATG
Found at i:13495407 original size:26 final size:26
Alignment explanation
Indices: 13495361--13495413 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
13495351 TCAAACATGC
*
13495361 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAAGGGT
* *
13495387 ATTTCGGT-AATTTATCTCCTAAGGGT
1 ATTTAGGTCAATTTAAC-CCTAAGGGT
13495413 A
1 A
13495414 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAAGGGT
Found at i:13496923 original size:26 final size:26
Alignment explanation
Indices: 13496887--13496996 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
13496877 ATATGAATTC
13496887 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
13496913 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
13496939 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
13496965 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
13496991 TTATCA
1 TTATCA
13496997 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:13498851 original size:14 final size:15
Alignment explanation
Indices: 13498832--13498860 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13498822 TTGAATCAAA
13498832 ATTTTTA-GATTTTT
1 ATTTTTATGATTTTT
13498846 ATTTTTATGATTTTT
1 ATTTTTATGATTTTT
13498861 CAATAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (15 bp):
ATTTTTATGATTTTT
Found at i:13509044 original size:21 final size:21
Alignment explanation
Indices: 13509020--13509059 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13509010 GAAAGTGAAT
* *
13509020 AATAATATATTAAATATAATA
1 AATAAAATAATAAATATAATA
13509041 AATAAAATAATAAATATAA
1 AATAAAATAATAAATATAA
13509060 CAATGTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AATAAAATAATAAATATAATA
Found at i:13509145 original size:3 final size:3
Alignment explanation
Indices: 13509137--13509234 Score: 60
Period size: 3 Copynumber: 32.3 Consensus size: 3
13509127 AATATTTGTA
* * * *
13509137 AAT AAT AAT AGT AA- ATAT AAT AAT AAC AAT AAT ATT AAGT -AT AGT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
* * *
13509182 -AT AAT ATAT ACAT AAC AAA AAT AAT AAT AAAT AAC AAT AAT -AT AAT
1 AAT AAT A-AT A-AT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
13509228 AAT AAT A
1 AAT AAT A
13509235 TGGCAAAATT
Statistics
Matches: 73, Mismatches: 14, Indels: 16
0.71 0.14 0.16
Matches are distributed among these distances:
2 5 0.07
3 57 0.78
4 11 0.15
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13509228 original size:21 final size:20
Alignment explanation
Indices: 13509181--13509232 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 20
13509171 TTAAGTATAG
*
13509181 TATAATATATACATAACAAAA
1 TATAATA-ATAAATAACAAAA
13509202 -ATAATAATAAATAACAATAA
1 TATAATAATAAATAACAA-AA
13509222 TATAATAATAA
1 TATAATAATAA
13509233 TATGGCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 10 0.36
20 8 0.29
21 10 0.36
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (20 bp):
TATAATAATAAATAACAAAA
Found at i:13512516 original size:93 final size:93
Alignment explanation
Indices: 13512402--13512572 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
13512392 GCCCATAAGT
* * *
13512402 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCGTAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13512467 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
13512495 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13512560 CGAGTTCGGATGC
66 CGAGTTCGGATGC
13512573 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:13512588 original size:46 final size:46
Alignment explanation
Indices: 13512394--13512574 Score: 224
Period size: 46 Copynumber: 3.9 Consensus size: 46
13512384 TGTAACCCGC
* * *
13512394 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* * *
13512440 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
13512490 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
13512533 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
13512575 AACCATCCTA
Statistics
Matches: 115, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 71 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:13514990 original size:29 final size:29
Alignment explanation
Indices: 13514951--13515038 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
13514941 CAAAGATAAC
*
13514951 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
13514980 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
13515009 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
13515039 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:13515009 original size:15 final size:15
Alignment explanation
Indices: 13514951--13515029 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
13514941 CAAAGATAAC
*
13514951 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
13514965 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
13514980 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
13514994 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
13515009 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
13515024 AAGAAA
1 AAGAAA
13515030 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:13515038 original size:15 final size:15
Alignment explanation
Indices: 13514962--13515038 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
13514952 AGAAAACCGA
13514962 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
13514977 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
13514991 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
13515005 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
13515021 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
13515036 ATA
1 ATA
13515039 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:13518099 original size:93 final size:93
Alignment explanation
Indices: 13517987--13518157 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
13517977 GCCCATAAGT
* *
13517987 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13518052 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
13518080 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13518145 CGAGTTCGGATGC
66 CGAGTTCGGATGC
13518158 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:13518173 original size:46 final size:46
Alignment explanation
Indices: 13517979--13518159 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
13517969 TGTAACCCGC
* * *
13517979 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
13518025 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
13518075 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
13518118 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
13518160 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:13520000 original size:22 final size:22
Alignment explanation
Indices: 13519975--13520047 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
13519965 TATAATACAT
13519975 TCACAGCCATATTCTAATAAAG
1 TCACAGCCATATTCTAATAAAG
** * * * *
13519997 TCACAATAACATGTTATAATACAT
1 TCAC-A-GCCATATTCTAATAAAG
* *
13520021 TCACAGCCATATTCTGACAAAG
1 TCACAGCCATATTCTAATAAAG
13520043 TCACA
1 TCACA
13520048 ATAACATATT
Statistics
Matches: 35, Mismatches: 14, Indels: 4
0.66 0.26 0.08
Matches are distributed among these distances:
22 18 0.51
23 2 0.06
24 15 0.43
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.27
Consensus pattern (22 bp):
TCACAGCCATATTCTAATAAAG
Found at i:13520024 original size:24 final size:23
Alignment explanation
Indices: 13519960--13520025 Score: 62
Period size: 24 Copynumber: 2.9 Consensus size: 23
13519950 TAAACAAGAG
**
13519960 CATGTTATAATACATTCAC-AGC
1 CATGTTATAATACATTCACAAAA
* * * *
13519982 CATATTCTAATAAAGTCACAATAA
1 CATGTTATAATACATTCACAA-AA
13520006 CATGTTATAATACATTCACA
1 CATGTTATAATACATTCACA
13520026 GCCATATTCT
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
22 15 0.47
23 1 0.03
24 16 0.50
ACGTcount: A:0.42, C:0.20, G:0.06, T:0.32
Consensus pattern (23 bp):
CATGTTATAATACATTCACAAAA
Found at i:13520027 original size:46 final size:46
Alignment explanation
Indices: 13519960--13520054 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
13519950 TAAACAAGAG
*
13519960 CATGTTATAATACATTCACAGCCATATTCTAATAAAGTCACAATAA
1 CATGTTATAATACATTCACAGCCATATTCTAACAAAGTCACAATAA
*
13520006 CATGTTATAATACATTCACAGCCATATTCTGACAAAGTCACAATAA
1 CATGTTATAATACATTCACAGCCATATTCTAACAAAGTCACAATAA
13520052 CAT
1 CAT
13520055 ATTCACGCTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.29
Consensus pattern (46 bp):
CATGTTATAATACATTCACAGCCATATTCTAACAAAGTCACAATAA
Found at i:13523498 original size:15 final size:15
Alignment explanation
Indices: 13523478--13523507 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13523468 AAACCAAAAT
*
13523478 AATATTAATGGTCCA
1 AATATTAAGGGTCCA
13523493 AATATTAAGGGTCCA
1 AATATTAAGGGTCCA
13523508 TTTACAACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (15 bp):
AATATTAAGGGTCCA
Found at i:13528313 original size:24 final size:22
Alignment explanation
Indices: 13528286--13528329 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
13528276 TTATTTTTAT
*
13528286 TTATTTATTTATATGATTAAAAGA
1 TTATTTAATTATA--ATTAAAAGA
13528310 TTATTTAATTATAATTAAAA
1 TTATTTAATTATAATTAAAA
13528330 AAGTAATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
24 12 0.63
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (22 bp):
TTATTTAATTATAATTAAAAGA
Found at i:13529150 original size:44 final size:45
Alignment explanation
Indices: 13529100--13529204 Score: 167
Period size: 45 Copynumber: 2.3 Consensus size: 45
13529090 TGTAAATTAT
13529100 AAATTTAAAAAA-TATGAAAAGTAAAACTCTTTAAAATTAAAAAA
1 AAATTTAAAAAATTATGAAAAGTAAAACTCTTTAAAATTAAAAAA
13529144 AAATTTAAAAAATTATGAAAAGTAAAACTCTTTAAAATTTAAAAAA
1 AAATTTAAAAAATTATGAAAAGTAAAACTCTTTAAAA-TTAAAAAA
* *
13529190 ATTATTTTAAAAATT
1 A-AATTTAAAAAATT
13529205 TAAAATTATG
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
44 12 0.21
45 24 0.43
46 9 0.16
47 11 0.20
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (45 bp):
AAATTTAAAAAATTATGAAAAGTAAAACTCTTTAAAATTAAAAAA
Found at i:13533227 original size:21 final size:22
Alignment explanation
Indices: 13533202--13533244 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13533192 CTAACCGATC
*
13533202 CCCTCAAACT-TTTTTACTTTT
1 CCCTCAAAATCTTTTTACTTTT
*
13533223 CCCTCAAAATCTTTTTCCTTTT
1 CCCTCAAAATCTTTTTACTTTT
13533245 TACTTTCACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.19, C:0.30, G:0.00, T:0.51
Consensus pattern (22 bp):
CCCTCAAAATCTTTTTACTTTT
Found at i:13538132 original size:14 final size:14
Alignment explanation
Indices: 13538113--13538139 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13538103 ATTTTTTTAT
13538113 TTTTTATTTCTTTC
1 TTTTTATTTCTTTC
13538127 TTTTTATTTCTTT
1 TTTTTATTTCTTT
13538140 TCGTGTGTTT
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:0.07, C:0.11, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTATTTCTTTC
Found at i:13540252 original size:18 final size:18
Alignment explanation
Indices: 13540231--13540316 Score: 59
Period size: 17 Copynumber: 4.6 Consensus size: 18
13540221 ATAAATAAAA
13540231 AAAATATATATATATAAT
1 AAAATATATATATATAAT
*
13540249 AAAATGTATAAATATAATATAT
1 AAAA--TATATATAT-ATA-AT
* ** *
13540271 AAAAAATATCATATGGAGT
1 AAAATATAT-ATATATAAT
*
13540290 AAAATATA-ATATGTAAT
1 AAAATATATATATATAAT
13540307 AAAATA-ATAT
1 AAAATATATAT
13540317 GAAAACAAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
16 1 0.02
17 15 0.28
18 4 0.08
19 8 0.15
20 12 0.23
21 7 0.13
22 6 0.11
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.34
Consensus pattern (18 bp):
AAAATATATATATATAAT
Found at i:13540315 original size:15 final size:15
Alignment explanation
Indices: 13540246--13540331 Score: 52
Period size: 15 Copynumber: 5.5 Consensus size: 15
13540236 ATATATATAT
*
13540246 AATAAAATGT-ATAA
1 AATAATATGTAATAA
*
13540260 ATATAATATATAA-AA
1 A-ATAATATGTAATAA
* *
13540275 AATATCATATGGAGTAAA
1 AATA--ATATGTAAT-AA
13540293 ATATAATATGTAATAA
1 A-ATAATATGTAATAA
*
13540309 AATAATATG-AAAACA
1 AATAATATGTAATA-A
13540324 AATAATAT
1 AATAATAT
13540332 ATAAATATAG
Statistics
Matches: 56, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
14 7 0.12
15 27 0.48
16 9 0.16
17 7 0.12
18 3 0.05
19 3 0.05
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.30
Consensus pattern (15 bp):
AATAATATGTAATAA
Found at i:13542118 original size:5 final size:5
Alignment explanation
Indices: 13542108--13542136 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
13542098 CAAAATGCAT
13542108 AATAA AATAA AATAA AATAA AATAA AATA
1 AATAA AATAA AATAA AATAA AATAA AATA
13542137 TATAAATCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:13542555 original size:60 final size:60
Alignment explanation
Indices: 13542479--13542614 Score: 166
Period size: 60 Copynumber: 2.3 Consensus size: 60
13542469 TCATACGATA
* * ** * *
13542479 TGGGTTCGGCTATATGATAATTTGAACCTACATCGTACAATCTCATAGAATTATGCAATG
1 TGGGTTTGCCTATATGATAATGCGAACCTACATCATACAATCTCATAGAATTATACAATG
** * *
13542539 TGGGTTTGCCTATATGATGGTGCGAACTTACATCATACAGTCTCATAGAATTATACAATG
1 TGGGTTTGCCTATATGATAATGCGAACCTACATCATACAATCTCATAGAATTATACAATG
*
13542599 TGAGTTT-CCTATATGA
1 TGGGTTTGCCTATATGA
13542615 CGGTGCGAAC
Statistics
Matches: 65, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
59 9 0.14
60 56 0.86
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (60 bp):
TGGGTTTGCCTATATGATAATGCGAACCTACATCATACAATCTCATAGAATTATACAATG
Found at i:13542643 original size:59 final size:60
Alignment explanation
Indices: 13542502--13542647 Score: 177
Period size: 60 Copynumber: 2.5 Consensus size: 60
13542492 ATGATAATTT
* ** * * *
13542502 GAACCTACATCGTACAATCTCATAGAATTATGCAATGTGGGTTTGCCTATATGATGGTGC
1 GAACCTACATCATACAGCCTCATAGAATTATACAATGTGAGTTTGCCTATATGACGGTGC
* *
13542562 GAACTTACATCATACAGTCTCATAGAATTATACAATGTGAGTTT-CCTATATGACGGTGC
1 GAACCTACATCATACAGCCTCATAGAATTATACAATGTGAGTTTGCCTATATGACGGTGC
* ** *
13542621 GAACCTATATTGTGCAGCCTCATAGAA
1 GAACCTACATCATACAGCCTCATAGAA
13542648 GGGTAAGCGA
Statistics
Matches: 74, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
59 35 0.47
60 39 0.53
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (60 bp):
GAACCTACATCATACAGCCTCATAGAATTATACAATGTGAGTTTGCCTATATGACGGTGC
Found at i:13546042 original size:21 final size:21
Alignment explanation
Indices: 13546017--13546103 Score: 84
Period size: 21 Copynumber: 3.9 Consensus size: 21
13546007 AGATTACCAC
13546017 AATATAATGAGATTTAAATTT
1 AATATAATGAGATTTAAATTT
* * * *
13546038 AATATCATAAAATTGATAGATACTT
1 AATATAATGAGATT--TA-A-ATTT
13546063 ACATATAATGAGATTTAAATTT
1 A-ATATAATGAGATTTAAATTT
*
13546085 AATATAATGATATTTAAAT
1 AATATAATGAGATTTAAAT
13546104 ATTTGATTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
21 28 0.54
22 4 0.08
23 3 0.06
24 3 0.06
25 4 0.08
26 10 0.19
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.40
Consensus pattern (21 bp):
AATATAATGAGATTTAAATTT
Found at i:13548072 original size:10 final size:9
Alignment explanation
Indices: 13548053--13548104 Score: 56
Period size: 10 Copynumber: 5.8 Consensus size: 9
13548043 TTTTCTCATG
13548053 AAAATGATTA
1 AAAAT-ATTA
13548063 AAAATAATTA
1 AAAAT-ATTA
13548073 AAAATA-TA
1 AAAATATTA
13548081 AAAATTATT-
1 AAAA-TATTA
13548090 -AAATATTA
1 AAAATATTA
13548098 AAAATAT
1 AAAATAT
13548105 ATATTAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
7 4 0.11
8 9 0.24
9 9 0.24
10 15 0.41
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (9 bp):
AAAATATTA
Found at i:13548084 original size:18 final size:17
Alignment explanation
Indices: 13548059--13548103 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
13548049 CATGAAAATG
13548059 ATTAAAAATAATTAAAA
1 ATTAAAAATAATTAAAA
* *
13548076 ATATAAAAATTATTAAAT
1 AT-TAAAAATAATTAAAA
13548094 ATTAAAAATA
1 ATTAAAAATA
13548104 TATATTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATTAAAAATAATTAAAA
Found at i:13548139 original size:9 final size:9
Alignment explanation
Indices: 13548061--13548142 Score: 51
Period size: 10 Copynumber: 8.7 Consensus size: 9
13548051 TGAAAATGAT
*
13548061 TAAAAATAA
1 TAAAAATTA
13548070 TTAAAAA-TA
1 -TAAAAATTA
13548079 TAAAAATTA
1 TAAAAATTA
*
13548088 TTAAATATTA
1 -TAAAAATTA
13548098 -AAAATATATA
1 TAAAA-AT-TA
*
13548108 TTAAAATTGA
1 TAAAAATT-A
* *
13548118 TTTAAATTTA
1 -TAAAAATTA
13548128 TAAAAATTA
1 TAAAAATTA
13548137 TAAAAA
1 TAAAAA
13548143 AATAATAACA
Statistics
Matches: 58, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
8 9 0.16
9 19 0.33
10 20 0.34
11 10 0.17
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (9 bp):
TAAAAATTA
Found at i:13548145 original size:31 final size:29
Alignment explanation
Indices: 13548080--13548145 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 29
13548070 TTAAAAATAT
*
13548080 AAAAATTATTAAATATTAAAAATATATAT
1 AAAAATTATTAAATATTAAAAATATATAA
* *
13548109 TAAAATTGATTTAAATTTATAAAAAT-TATAA
1 AAAAATT-A-TTAAATAT-TAAAAATATATAA
13548140 AAAAAT
1 AAAAAT
13548146 AATAACATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
29 6 0.20
30 1 0.03
31 16 0.53
32 7 0.23
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (29 bp):
AAAAATTATTAAATATTAAAAATATATAA
Found at i:13548226 original size:29 final size:27
Alignment explanation
Indices: 13548194--13548261 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 27
13548184 AAATTTTATT
* *
13548194 TTTTATAAAATTAATAAACATATTTAAAA
1 TTTTATAAAATT-ATAAAAATA-GTAAAA
13548223 TTTTATAAAACTTATAAAAATAGTAAAA
1 TTTTATAAAA-TTATAAAAATAGTAAAA
*
13548251 TATTATAAAAT
1 TTTTATAAAAT
13548262 ATTAAAAGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 1 0.03
28 14 0.40
29 18 0.51
30 2 0.06
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (27 bp):
TTTTATAAAATTATAAAAATAGTAAAA
Found at i:13548259 original size:10 final size:10
Alignment explanation
Indices: 13548196--13548265 Score: 60
Period size: 9 Copynumber: 7.3 Consensus size: 10
13548186 ATTTTATTTT
13548196 TTATAAAAT-
1 TTATAAAATA
*
13548205 TAATAAACATA
1 TTATAAA-ATA
*
13548216 TT-TAAAATT
1 TTATAAAATA
*
13548225 TTATAAAA-C
1 TTATAAAATA
13548234 TTATAAAA-A
1 TTATAAAATA
13548243 -TAGTAAAATA
1 TTA-TAAAATA
13548253 TTATAAAATA
1 TTATAAAATA
13548263 TTA
1 TTA
13548266 AAAGTGATAT
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
8 2 0.04
9 23 0.46
10 22 0.44
11 3 0.06
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (10 bp):
TTATAAAATA
Found at i:13548949 original size:18 final size:17
Alignment explanation
Indices: 13548893--13548966 Score: 69
Period size: 19 Copynumber: 4.1 Consensus size: 17
13548883 AAATTTTAAA
*
13548893 TATATTTTTTATTAGTTT
1 TATATTTTTTATGA-TTT
13548911 TATATTTTTT-TAGAATTTT
1 TATATTTTTTAT-G-A-TTT
13548930 TATATTTTTTATGATATT
1 TATATTTTTTATGAT-TT
*
13548948 TATTAGTTTTTATGATTT
1 TA-TATTTTTTATGATTT
13548966 T
1 T
13548967 TTATAATTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
17 2 0.04
18 18 0.38
19 27 0.56
20 1 0.02
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (17 bp):
TATATTTTTTATGATTT
Found at i:13548950 original size:37 final size:38
Alignment explanation
Indices: 13548893--13548976 Score: 93
Period size: 37 Copynumber: 2.2 Consensus size: 38
13548883 AAATTTTAAA
* *
13548893 TATATTTTTTATTAGTTTTA-TA-TTTTTTTAGAATTTT
1 TATATTTTTTATGAGTTTTATTAGTTTTTAT-GAATTTT
*
13548930 TATATTTTTTATGA-TATTTATTAGTTTTTATGATTTTT
1 TATATTTTTTATGAGT-TTTATTAGTTTTTATGAATTTT
*
13548968 TATAATTTT
1 TATATTTTT
13548977 AAAAGTTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
36 1 0.03
37 17 0.43
38 16 0.40
39 6 0.15
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (38 bp):
TATATTTTTTATGAGTTTTATTAGTTTTTATGAATTTT
Found at i:13548967 original size:10 final size:10
Alignment explanation
Indices: 13548908--13548976 Score: 56
Period size: 10 Copynumber: 7.2 Consensus size: 10
13548898 TTTTTATTAG
13548908 TTTTAT-ATT
1 TTTTATGATT
*
13548917 TTTT-TAGAAT
1 TTTTAT-GATT
13548927 TTTTAT-ATT
1 TTTTATGATT
13548936 TTTTATGA-T
1 TTTTATGATT
* * *
13548945 ATTTATTAGT
1 TTTTATGATT
13548955 TTTTATGATT
1 TTTTATGATT
*
13548965 TTTTATAATT
1 TTTTATGATT
13548975 TT
1 TT
13548977 AAAAGTTTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
8 1 0.02
9 19 0.40
10 26 0.55
11 1 0.02
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.70
Consensus pattern (10 bp):
TTTTATGATT
Found at i:13548976 original size:19 final size:18
Alignment explanation
Indices: 13548893--13548976 Score: 62
Period size: 19 Copynumber: 4.5 Consensus size: 18
13548883 AAATTTTAAA
* * *
13548893 TATATTTTTTATTAGTTT
1 TATAATTTTTATGATTTT
*
13548911 TAT-ATTTTTTTAGAATTTT
1 TATAATTTTTAT-G-ATTTT
* *
13548930 TATATTTTTTATGATATT
1 TATAATTTTTATGATTTT
*
13548948 TATTAGTTTTTATGATTTTT
1 TA-TAATTTTTATGA-TTTT
13548968 TATAATTTT
1 TATAATTTT
13548977 AAAAGTTTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
17 6 0.12
18 9 0.18
19 25 0.49
20 11 0.22
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
TATAATTTTTATGATTTT
Found at i:13549021 original size:26 final size:26
Alignment explanation
Indices: 13548992--13549047 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
13548982 TTTATGTCAA
* *
13548992 TTTTAC-TTTTTTTAATATTTATATTT
1 TTTTACGTTTTTATAAT-TTTAAATTT
*
13549018 TTTTACGTTTTTATAGTTTTAAATTT
1 TTTTACGTTTTTATAATTTTAAATTT
13549044 TTTT
1 TTTT
13549048 TATGATTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (26 bp):
TTTTACGTTTTTATAATTTTAAATTT
Found at i:13549130 original size:30 final size:29
Alignment explanation
Indices: 13549094--13549176 Score: 89
Period size: 30 Copynumber: 2.9 Consensus size: 29
13549084 AAATTTAAAT
*
13549094 ATTTTTATTTATTTTATAATTTATTATAAC
1 ATTTTTATATATTTTATAATTT-TTATAAC
*
13549124 ATTTTTATATATTTTTTAATTTTTATAA-
1 ATTTTTATATATTTTATAATTTTTATAAC
* * *
13549152 GTTTATATAAATTTTA-ATATTTTTA
1 ATTTTTATATATTTTATA-ATTTTTA
13549177 AATCTTTAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 1 0.02
28 19 0.41
29 6 0.13
30 20 0.43
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (29 bp):
ATTTTTATATATTTTATAATTTTTATAAC
Found at i:13549224 original size:9 final size:9
Alignment explanation
Indices: 13548835--13549226 Score: 92
Period size: 9 Copynumber: 41.6 Consensus size: 9
13548825 TTAAATAATT
13548835 TTTTTAATAA
1 TTTTT-ATAA
*
13548845 TTTTTACAA
1 TTTTTATAA
13548854 TTTATTAT-A
1 TTT-TTATAA
*
13548863 TTATTCATAA
1 TT-TTTATAA
13548873 GTTTTTATACAAA
1 -TTTTTAT---AA
*
13548886 TTTTAAATATAT
1 TTTT---TATAA
*
13548898 TTTTTATTA
1 TTTTTATAA
* *
13548907 GTTTTATATT
1 TTTTTATA-A
*
13548917 TTTTTAGAA
1 TTTTTATAA
*
13548926 TTTTTATAT
1 TTTTTATAA
*
13548935 TTTTTATGA
1 TTTTTATAA
* *
13548944 TATTTATTAG
1 TTTTTA-TAA
*
13548954 TTTTTATGAT
1 TTTTTAT-AA
13548964 TTTTTATAA
1 TTTTTATAA
*
13548973 -TTTTAAAA
1 TTTTTATAA
* *
13548981 GTTTATGTCAA
1 -TTTTTAT-AA
13548992 -TTTTACT--
1 TTTTTA-TAA
13548999 TTTTT-TAA
1 TTTTTATAA
*
13549007 TATTTAT-A
1 TTTTTATAA
* *
13549015 TTTTTTTACG
1 TTTTTATA-A
*
13549025 TTTTTATAG
1 TTTTTATAA
* **
13549034 TTTTAAATTT
1 TTTT-TATAA
*
13549044 TTTTTATGA
1 TTTTTATAA
*
13549053 TTTATTACAA
1 TTT-TTATAA
13549063 TTTTTATACA
1 TTTTTATA-A
13549073 TTTTTATATAAA
1 -TTTT-TAT-AA
** *
13549085 AATTTAAATA
1 TTTTTATA-A
*
13549095 TTTTTAT-T
1 TTTTTATAA
13549103 TATTTTATAA
1 T-TTTTATAA
13549113 TTTATTATAACA
1 TTT-TTAT-A-A
13549125 TTTTTATATA
1 TTTTTATA-A
13549135 TTTTT-TAA
1 TTTTTATAA
13549143 TTTTTATAA
1 TTTTTATAA
*
13549152 GTTTATATAA
1 -TTTTTATAA
*
13549162 ATTTTA-ATA
1 TTTTTATA-A
13549171 TTTTTA-AA
1 TTTTTATAA
*
13549179 TCTTTAATAA
1 T-TTTTATAA
13549189 --TTTATAA
1 TTTTTATAA
*
13549196 TTTATAT-A
1 TTTTTATAA
* *
13549204 TTTTTCTGA
1 TTTTTATAA
13549213 TTTTTATAA
1 TTTTTATAA
13549222 TTTTT
1 TTTTT
13549227 TTTTTATGAT
Statistics
Matches: 276, Mismatches: 63, Indels: 87
0.65 0.15 0.20
Matches are distributed among these distances:
6 1 0.00
7 6 0.02
8 37 0.13
9 106 0.38
10 88 0.32
11 15 0.05
12 17 0.06
13 3 0.01
15 3 0.01
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:13549236 original size:23 final size:26
Alignment explanation
Indices: 13549189--13549242 Score: 78
Period size: 23 Copynumber: 2.2 Consensus size: 26
13549179 TCTTTAATAA
*
13549189 TTTATAATTTATATATTTTTCTGATT
1 TTTATAATTTATATATTTTTATGATT
13549215 TTTATAATTT-T-T-TTTTTATGATT
1 TTTATAATTTATATATTTTTATGATT
13549238 TTTAT
1 TTTAT
13549243 GAGAAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 15 0.56
24 1 0.04
25 1 0.04
26 10 0.37
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.70
Consensus pattern (26 bp):
TTTATAATTTATATATTTTTATGATT
Found at i:13551642 original size:19 final size:20
Alignment explanation
Indices: 13551600--13551649 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
13551590 ATTATAAAAT
*
13551600 AATTCAAAATAATTTTTTAA
1 AATTCAAAATAATTTTATAA
13551620 AATTCAAAAT-A-TTTATAA
1 AATTCAAAATAATTTTATAA
13551638 CAATTTCAAAAT
1 -AA-TTCAAAAT
13551650 TTATATTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 6 0.22
19 3 0.11
20 18 0.67
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (20 bp):
AATTCAAAATAATTTTATAA
Found at i:13555297 original size:2 final size:2
Alignment explanation
Indices: 13555281--13555322 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
13555271 TAATTAAGAG
* *
13555281 TA TA TA TG TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13555323 AATAACGATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:13555846 original size:2 final size:2
Alignment explanation
Indices: 13555839--13555877 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
13555829 ATCATACTAC
13555839 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13555878 AAAAGAACGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13562322 original size:24 final size:24
Alignment explanation
Indices: 13562295--13562342 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
13562285 GTACTAATTC
13562295 GGTTAATAAAATTATAAAAAATAT
1 GGTTAATAAAATTATAAAAAATAT
13562319 GGTTAATAAAATTATAAAAAATAT
1 GGTTAATAAAATTATAAAAAATAT
13562343 TCTTTCGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (24 bp):
GGTTAATAAAATTATAAAAAATAT
Found at i:13562953 original size:14 final size:14
Alignment explanation
Indices: 13562920--13562953 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
13562910 TGATTTGATT
13562920 AAAAAT-ATTTTTA
1 AAAAATAATTTTTA
*
13562933 AATAATAATTTTTA
1 AAAAATAATTTTTA
13562947 AAAAATA
1 AAAAATA
13562954 GTAAAAGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAAATAATTTTTA
Found at i:13563178 original size:2 final size:2
Alignment explanation
Indices: 13563171--13563202 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
13563161 ATTCAACTTT
13563171 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13563203 ATGTTTATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13563839 original size:16 final size:16
Alignment explanation
Indices: 13563818--13563848 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
13563808 TTTAAAATTT
13563818 AATCCTTATACTTTTA
1 AATCCTTATACTTTTA
13563834 AATCCTTATACTTTT
1 AATCCTTATACTTTT
13563849 TGTATATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.19, G:0.00, T:0.52
Consensus pattern (16 bp):
AATCCTTATACTTTTA
Found at i:13564520 original size:14 final size:14
Alignment explanation
Indices: 13564475--13564520 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
13564465 CTATTCTTTA
*
13564475 TTAATTTTATAT-T
1 TTAATGTTATATAT
13564488 TTAATGTCTATA-AT
1 TTAATGT-TATATAT
*
13564502 CTAATGTTATATAT
1 TTAATGTTATATAT
13564516 TTAAT
1 TTAAT
13564521 TTTTAATGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 10 0.37
14 17 0.63
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (14 bp):
TTAATGTTATATAT
Found at i:13569948 original size:30 final size:28
Alignment explanation
Indices: 13569899--13569958 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 28
13569889 ACATATTTTA
13569899 TTGTTAATTTTTTTTATTTTA-AAGACAT
1 TTGTTAATTTTTTTTATTTTAGAA-ACAT
13569927 TTGTTAATTTTGTTATTATTTTAGAAACAT
1 TTGTTAATTTT-TT-TTATTTTAGAAACAT
13569957 TT
1 TT
13569959 ACTTGTTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 11 0.38
29 2 0.07
30 14 0.48
31 2 0.07
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.60
Consensus pattern (28 bp):
TTGTTAATTTTTTTTATTTTAGAAACAT
Found at i:13570109 original size:12 final size:12
Alignment explanation
Indices: 13570082--13570115 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
13570072 TATATATTTT
*
13570082 AAAATT-ATAGA
1 AAAATTAATATA
13570093 AAAATTAATATA
1 AAAATTAATATA
13570105 AAAATTAATAT
1 AAAATTAATAT
13570116 GGGCAGGCCG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (12 bp):
AAAATTAATATA
Done.