Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 205 of 290
Found at i:70542762 original size:18 final size:17
Alignment explanation
Indices: 70542726--70542790 Score: 69
Period size: 17 Copynumber: 3.8 Consensus size: 17
70542716 ATTAATAATA
*
70542726 AAATAAATAATTAAAAT
1 AAATAAATAAATAAAAT
*
70542743 AAATAAATAAATAAGGAT
1 AAATAAATAAATAA-AAT
*
70542761 AAATAAAAAAATTAAAA-
1 AAATAAATAAA-TAAAAT
*
70542778 AAGTAAATAAATA
1 AAATAAATAAATA
70542791 TAAACTTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
16 2 0.05
17 22 0.55
18 13 0.32
19 3 0.08
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (17 bp):
AAATAAATAAATAAAAT
Found at i:70542766 original size:31 final size:31
Alignment explanation
Indices: 70542728--70542787 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
70542718 TAATAATAAA
*
70542728 ATAAATAATTAAAA-TAAATAAA-TAAATAAGG
1 ATAAATAA-AAAAATTAAA-AAAGTAAATAAGG
70542759 ATAAATAAAAAAATTAAAAAAGTAAATAA
1 ATAAATAAAAAAATTAAAAAAGTAAATAA
70542788 ATATAAACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (31 bp):
ATAAATAAAAAAATTAAAAAAGTAAATAAGG
Found at i:70542794 original size:31 final size:29
Alignment explanation
Indices: 70542722--70542817 Score: 77
Period size: 31 Copynumber: 3.0 Consensus size: 29
70542712 TAAAATTAAT
*
70542722 AATAAAATAAATAATTAAAATAAATAAA-TA
1 AATAAAATAAATAA-AAAAATAAA-AAAGTA
*
70542752 AATAAGGATAAATAAAAAAATTAAAAAAGTA
1 AATAA-AATAAATAAAAAAA-TAAAAAAGTA
*
70542783 AATAAATATAAACTTAAAAAGAAAGAAAAAAGTA
1 AATAAA-ATAAA--T-AAAA-AAATAAAAAAGTA
70542817 A
1 A
70542818 TAAGACAATT
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
30 12 0.22
31 24 0.44
33 1 0.02
34 14 0.26
35 3 0.06
ACGTcount: A:0.72, C:0.01, G:0.06, T:0.21
Consensus pattern (29 bp):
AATAAAATAAATAAAAAAATAAAAAAGTA
Found at i:70552898 original size:23 final size:23
Alignment explanation
Indices: 70552865--70552911 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
70552855 GCTAGATTTT
*
70552865 TCCTAAGTATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
70552888 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
70552911 T
1 T
70552912 TCAAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAA
Found at i:70552908 original size:13 final size:13
Alignment explanation
Indices: 70552867--70552909 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
70552857 TAGATTTTTC
*
70552867 CTAAGTATTATCA
1 CTAAATATTATCA
70552880 CTAAATA--ATC-
1 CTAAATATTATCA
70552890 CTAAATATTATCA
1 CTAAATATTATCA
70552903 CTAAATA
1 CTAAATA
70552910 ATTCAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.27
11 3 0.12
12 3 0.12
13 13 0.50
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:70552918 original size:23 final size:23
Alignment explanation
Indices: 70552872--70552918 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
70552862 TTTTCCTAAG
*
70552872 TATTATCACTAAATAATCCTAAA
1 TATTATCACTAAATAATCCAAAA
*
70552895 TATTATCACTAAATAATTCAAAA
1 TATTATCACTAAATAATCCAAAA
70552918 T
1 T
70552919 TTAAAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (23 bp):
TATTATCACTAAATAATCCAAAA
Found at i:70553556 original size:10 final size:11
Alignment explanation
Indices: 70553479--70553563 Score: 59
Period size: 11 Copynumber: 7.5 Consensus size: 11
70553469 GAATTTAGTG
*
70553479 TATTAAAATTT
1 TATTAGAATTT
*
70553490 TATTAGAATTA
1 TATTAGAATTT
70553501 TATTAAGATAATTAT
1 TATT-AG--AATT-T
*
70553516 AATT-G-ATTT
1 TATTAGAATTT
*
70553525 TATTAGGATTT
1 TATTAGAATTT
70553536 TATTAAGAATTT
1 TATT-AGAATTT
70553548 T-TTAGAATTTT
1 TATTAGAA-TTT
70553559 TATTA
1 TATTA
70553564 TGATAATTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
9 4 0.07
10 8 0.14
11 27 0.46
12 12 0.20
13 1 0.02
14 4 0.07
15 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (11 bp):
TATTAGAATTT
Found at i:70557600 original size:40 final size:40
Alignment explanation
Indices: 70557545--70557769 Score: 414
Period size: 40 Copynumber: 5.6 Consensus size: 40
70557535 NNNNNNNNNN
*
70557545 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGTTCGCA
1 CAAATGTCTTCGGGACTTAGCCCGGATATAGTAGTTCGCA
70557585 CAAATGTCTTCGGGACTTAGCCCGGATATAGTAGTTCGCA
1 CAAATGTCTTCGGGACTTAGCCCGGATATAGTAGTTCGCA
70557625 CAAATGTCTTCGGGACTTAGCCCGGATATAGTAGTTCGCA
1 CAAATGTCTTCGGGACTTAGCCCGGATATAGTAGTTCGCA
70557665 CAAATGTCTTCGGGACTTAGCCCGGATATAGTAGTTCGCA
1 CAAATGTCTTCGGGACTTAGCCCGGATATAGTAGTTCGCA
**
70557705 CAAATGTCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGTCTTCGGGACTTAGCCCGGATATAGTAGTTCGCA
*
70557745 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGTCTTCGGGACTTAGCCCGG
70557770 TTATCATCTG
Statistics
Matches: 181, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 181 1.00
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (40 bp):
CAAATGTCTTCGGGACTTAGCCCGGATATAGTAGTTCGCA
Found at i:70563275 original size:22 final size:20
Alignment explanation
Indices: 70563245--70563287 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
70563235 TTTTCACAAA
70563245 TTATTATTATTAACATTATTT
1 TTATTATTATTAACA-TATTT
*
70563266 TTATATATTATTAATATATTT
1 TTAT-TATTATTAACATATTT
70563287 T
1 T
70563288 ACTTGTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TTATTATTATTAACATATTT
Found at i:70563275 original size:28 final size:31
Alignment explanation
Indices: 70563212--70563278 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 31
70563202 TATCATACAT
* *
70563212 TATTATTATTTATTGTATATTATTTTTCACA
1 TATTATTATTTATTGAACATTATTTTTCACA
* *
70563243 AATTATTA-TTATT-AACATTATTTTT-ATA
1 TATTATTATTTATTGAACATTATTTTTCACA
70563271 TATTATTA
1 TATTATTA
70563279 ATATATTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 9 0.29
29 10 0.32
30 5 0.16
31 7 0.23
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (31 bp):
TATTATTATTTATTGAACATTATTTTTCACA
Found at i:70563439 original size:23 final size:24
Alignment explanation
Indices: 70563391--70563454 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 24
70563381 ATATATTCAA
70563391 ATTATGTTTTATTCTATA--ACGTTT
1 ATTAT-TTTTATTCTATATTACG-TT
70563415 ATTATTTTTATTCTATATTAC-TT
1 ATTATTTTTATTCTATATTACGTT
70563438 ATTA-TTTTATT-TATATT
1 ATTATTTTTATTCTATATT
70563455 TTTTATATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
21 6 0.16
22 7 0.18
23 18 0.47
24 5 0.13
25 2 0.05
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (24 bp):
ATTATTTTTATTCTATATTACGTT
Found at i:70563460 original size:13 final size:14
Alignment explanation
Indices: 70563437--70563496 Score: 56
Period size: 13 Copynumber: 4.6 Consensus size: 14
70563427 CTATATTACT
*
70563437 TATTATTTTATTTA
1 TATTATTTTATATA
70563451 TATT-TTTTATATA
1 TATTATTTTATATA
* * *
70563464 TA-TGTTATGTATA
1 TATTATTTTATATA
70563477 TATTA-TTTAT-TA
1 TATTATTTTATATA
70563489 TATTATTT
1 TATTATTT
70563497 GCTATTCCTT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
12 8 0.22
13 24 0.65
14 5 0.14
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (14 bp):
TATTATTTTATATA
Found at i:70567119 original size:14 final size:14
Alignment explanation
Indices: 70567100--70567129 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
70567090 AAGATATTCT
70567100 TTTTCTAAATAAAA
1 TTTTCTAAATAAAA
*
70567114 TTTTCTAAATGAAA
1 TTTTCTAAATAAAA
70567128 TT
1 TT
70567130 AAACCAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (14 bp):
TTTTCTAAATAAAA
Found at i:70575002 original size:28 final size:28
Alignment explanation
Indices: 70574970--70575025 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
70574960 GGAGACAGTG
70574970 TGCTTTAAAACCCAAAACAGTAGGGTAA
1 TGCTTTAAAACCCAAAACAGTAGGGTAA
70574998 TGCTTTAAAACCCAAAACAGTAGGGTAA
1 TGCTTTAAAACCCAAAACAGTAGGGTAA
70575026 CAGGCTGCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.21
Consensus pattern (28 bp):
TGCTTTAAAACCCAAAACAGTAGGGTAA
Found at i:70575423 original size:210 final size:210
Alignment explanation
Indices: 70575061--70575847 Score: 1277
Period size: 210 Copynumber: 3.7 Consensus size: 210
70575051 CATTATCAGG
* * * *
70575061 GCAGATCCAAGGTGACAAATCTTATCTTTCTGTATTCGGCGGGGAGCAGATCGAATATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
70575126 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
* * *
70575191 GAACATATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGAAAATCTCACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
*
70575256 GATGTTTATGCTGAA
196 GATGTTTACGCTGAA
70575271 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
70575336 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
*
70575401 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
70575466 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
* * * *
70575481 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGAAGCAGATCGAAGATATGGCTA
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
* * *
70575546 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGCCTTTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
* * *
70575611 GAACAAATCTATGTCTGGCATTTCCACTTTGATGGAAGGCAGACCCATAGCAGATCTCACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
*
70575676 GATGTTTACACTGAA
196 GATGTTTACGCTGAA
* * * *
70575691 GCAGATCCAATATGACAGATCTTATCTTTCTGTATTCGACGGGGAGCAGATTGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
* * * * * *
70575756 ATTTGGCCTTCACGTGTTTACGATGAAGCAAATCTAAAATGATTTTTCTTTTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
* * *
70575821 GAACAAATTGAAGTCTAGCATCTCCAC
131 GAACAAATCGAAGTCTGGCATTTCCAC
70575848 ATTCAATGGG
Statistics
Matches: 536, Mismatches: 41, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
210 536 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (210 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
GATGTTTACGCTGAA
Found at i:70577563 original size:3 final size:3
Alignment explanation
Indices: 70577555--70577591 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
70577545 ATATATTCAT
70577555 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
70577592 ATATATTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:70577598 original size:12 final size:12
Alignment explanation
Indices: 70577544--70577605 Score: 60
Period size: 12 Copynumber: 5.2 Consensus size: 12
70577534 AATTTAGCCC
70577544 TATATATTCATT-
1 TATATATT-ATTA
70577556 TAT-TATTATTA
1 TATATATTATTA
70577567 T-TATTATTATTA
1 TATA-TATTATTA
70577579 T-TATTATTATTA
1 TATA-TATTATTA
*
70577591 TATATATTCTTA
1 TATATATTATTA
70577603 TAT
1 TAT
70577606 GTAGATATTG
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
10 4 0.09
11 5 0.11
12 34 0.76
13 2 0.04
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (12 bp):
TATATATTATTA
Found at i:70577686 original size:20 final size:19
Alignment explanation
Indices: 70577655--70577696 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
70577645 ATACTATAAG
70577655 ATTATTTTTATCATACATT
1 ATTATTTTTATCATACATT
* *
70577674 ATTATTATTTATCGTATATT
1 ATTATT-TTTATCATACATT
70577694 ATT
1 ATT
70577697 TTTCACAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTATTTTTATCATACATT
Found at i:70577736 original size:22 final size:20
Alignment explanation
Indices: 70577706--70577748 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
70577696 TTTTCACAAA
70577706 TTATTATTATTAACATTATTT
1 TTATTATTATTAACA-TATTT
*
70577727 TTATATATTATTAATATATTT
1 TTAT-TATTATTAACATATTT
70577748 T
1 T
70577749 ACTTGTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TTATTATTATTAACATATTT
Found at i:70577900 original size:23 final size:23
Alignment explanation
Indices: 70577852--70577922 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
70577842 ATATATTCAA
70577852 ATTATGTTTTATTCTATA-ACGTTT
1 ATTAT-TTTTATTCTATATACG-TT
70577876 ATTATTTTTATTCTATATTAC-TT
1 ATTATTTTTATTCTATA-TACGTT
* * *
70577899 ATT-TTTTTTTTATATATATGTT
1 ATTATTTTTATTCTATATACGTT
70577921 AT
1 AT
70577923 GTATATATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
21 2 0.05
22 15 0.37
23 17 0.41
24 5 0.12
25 2 0.05
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (23 bp):
ATTATTTTTATTCTATATACGTT
Found at i:70580408 original size:23 final size:23
Alignment explanation
Indices: 70580375--70580421 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
70580365 GCTAGATTTT
*
70580375 TCCTAAGTATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
70580398 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
70580421 T
1 T
70580422 TCAAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAA
Found at i:70580418 original size:13 final size:13
Alignment explanation
Indices: 70580377--70580419 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
70580367 TAGATTTTTC
*
70580377 CTAAGTATTATCA
1 CTAAATATTATCA
70580390 CTAAATA--ATC-
1 CTAAATATTATCA
70580400 CTAAATATTATCA
1 CTAAATATTATCA
70580413 CTAAATA
1 CTAAATA
70580420 ATTCAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.27
11 3 0.12
12 3 0.12
13 13 0.50
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:70580428 original size:23 final size:23
Alignment explanation
Indices: 70580382--70580428 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
70580372 TTTTCCTAAG
*
70580382 TATTATCACTAAATAATCCTAAA
1 TATTATCACTAAATAATCCAAAA
*
70580405 TATTATCACTAAATAATTCAAAA
1 TATTATCACTAAATAATCCAAAA
70580428 T
1 T
70580429 TTAAAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (23 bp):
TATTATCACTAAATAATCCAAAA
Found at i:70580776 original size:16 final size:17
Alignment explanation
Indices: 70580740--70580775 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
70580730 AATATATATT
70580740 AAATGCATTAAGAAAAA
1 AAATGCATTAAGAAAAA
70580757 AAATGCATTAAGAAAAA
1 AAATGCATTAAGAAAAA
70580774 AA
1 AA
70580776 TATTAGATAA
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:0.67, C:0.06, G:0.11, T:0.17
Consensus pattern (17 bp):
AAATGCATTAAGAAAAA
Found at i:70583207 original size:46 final size:48
Alignment explanation
Indices: 70583135--70583256 Score: 140
Period size: 50 Copynumber: 2.5 Consensus size: 48
70583125 GACAGGATAG
* * * *
70583135 GACAGAAATGAGCCATGTACGTCCATATCAG-T-TATATGGCTTTGGA
1 GACAGGAATGAGTCATGTAAGTCCATATCAGATATATATGGCATTGGA
* *
70583181 GACAGGAATGAGTCATGTAAGCCCATATTAGATATATATATGGCATTGGA
1 GACAGGAATGAGTCATGTAAGTCCATATCAG--ATATATATGGCATTGGA
* *
70583231 GACAGGAATAATTCATGTAAGTCCAT
1 GACAGGAATGAGTCATGTAAGTCCAT
70583257 GTCGAAGACA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 26 0.41
49 1 0.02
50 36 0.57
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (48 bp):
GACAGGAATGAGTCATGTAAGTCCATATCAGATATATATGGCATTGGA
Found at i:70591633 original size:18 final size:18
Alignment explanation
Indices: 70591618--70591664 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
70591608 ATAATAATAT
*
70591618 AATATAATAAAGTAATTA
1 AATAAAATAAAGTAATTA
* *
70591636 AATAAAATAAA-AAAATA
1 AATAAAATAAAGTAATTA
*
70591653 AATAAAAGAAAG
1 AATAAAATAAAG
70591665 AATGAAAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.21
Consensus pattern (18 bp):
AATAAAATAAAGTAATTA
Found at i:70591639 original size:13 final size:14
Alignment explanation
Indices: 70591597--70591641 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
70591587 TAATAATGAT
70591597 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
70591612 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
70591625 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
70591638 TAAA
1 TAAA
70591642 ATAAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:70591726 original size:16 final size:19
Alignment explanation
Indices: 70591685--70591727 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
70591675 AAAACAGAGC
70591685 AAGGAAAGAAAGAAAGAAA
1 AAGGAAAGAAAGAAAGAAA
70591704 AATGGAAAG-AA-AAAG-AA
1 AA-GGAAAGAAAGAAAGAAA
70591721 AAGGAAA
1 AAGGAAA
70591728 ATTTAGGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 5 0.22
17 4 0.17
18 4 0.17
19 4 0.17
20 6 0.26
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (19 bp):
AAGGAAAGAAAGAAAGAAA
Found at i:70595305 original size:18 final size:18
Alignment explanation
Indices: 70595290--70595336 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
70595280 ATAATAATAT
*
70595290 AATATAATAAAGTAATTA
1 AATAAAATAAAGTAATTA
* *
70595308 AATAAAATAAA-AAAATA
1 AATAAAATAAAGTAATTA
*
70595325 AATAAAAGAAAG
1 AATAAAATAAAG
70595337 AATGAAAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.21
Consensus pattern (18 bp):
AATAAAATAAAGTAATTA
Found at i:70595311 original size:13 final size:14
Alignment explanation
Indices: 70595269--70595313 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
70595259 TAATAATGAT
70595269 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
70595284 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
70595297 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
70595310 TAAA
1 TAAA
70595314 ATAAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:70595398 original size:16 final size:19
Alignment explanation
Indices: 70595357--70595399 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
70595347 AAAACAGAGC
70595357 AAGGAAAGAAAGAAAGAAA
1 AAGGAAAGAAAGAAAGAAA
70595376 AATGGAAAG-AA-AAAG-AA
1 AA-GGAAAGAAAGAAAGAAA
70595393 AAGGAAA
1 AAGGAAA
70595400 ATTTAGGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 5 0.22
17 4 0.17
18 4 0.17
19 4 0.17
20 6 0.26
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (19 bp):
AAGGAAAGAAAGAAAGAAA
Found at i:70600545 original size:48 final size:48
Alignment explanation
Indices: 70600471--70600613 Score: 225
Period size: 48 Copynumber: 3.0 Consensus size: 48
70600461 ACTCGGGAGT
* *
70600471 CTCACACCCTAAGTGCCAATATCATGGCCCGAAGCCAAATCAATGTAA
1 CTCACACCCGAAGTGCCAATATCATGGCCCGAAGCCAACTCAATGTAA
*
70600519 C-CAACACCCGAAGTGCCAATATCATGGCCCAAAGCCAACTCAATGTAA
1 CTC-ACACCCGAAGTGCCAATATCATGGCCCGAAGCCAACTCAATGTAA
* *
70600567 CTCACACCCGAAGTGCCAATAACATGGCCCGAAGCCTACTCAATGTA
1 CTCACACCCGAAGTGCCAATATCATGGCCCGAAGCCAACTCAATGTA
70600614 TCCTCTAATG
Statistics
Matches: 87, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
47 1 0.01
48 85 0.98
49 1 0.01
ACGTcount: A:0.35, C:0.33, G:0.15, T:0.17
Consensus pattern (48 bp):
CTCACACCCGAAGTGCCAATATCATGGCCCGAAGCCAACTCAATGTAA
Found at i:70621572 original size:26 final size:26
Alignment explanation
Indices: 70621543--70621629 Score: 138
Period size: 26 Copynumber: 3.3 Consensus size: 26
70621533 CTCAAATTTN
*
70621543 CCATTATCATGGAACATTTGCCTAAC
1 CCATTATCATGGAACATTTACCTAAC
* *
70621569 CCATTATCATGGAATATTTACCTAAT
1 CCATTATCATGGAACATTTACCTAAC
*
70621595 CCATTATCATGGAACATTTATCTAAC
1 CCATTATCATGGAACATTTACCTAAC
70621621 CCATTATCA
1 CCATTATCA
70621630 ATTTGTACCA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.34
Consensus pattern (26 bp):
CCATTATCATGGAACATTTACCTAAC
Found at i:70622203 original size:20 final size:18
Alignment explanation
Indices: 70622166--70622204 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
70622156 ATATATTCAC
*
70622166 ACATTTTCACAATTCAAT
1 ACATTTTCACAATCCAAT
70622184 ACATTTTCATTCAATCCAAT
1 ACATTTTCA--CAATCCAAT
70622204 A
1 A
70622205 TCAATACTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
20 9 0.50
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (18 bp):
ACATTTTCACAATCCAAT
Found at i:70623134 original size:5 final size:5
Alignment explanation
Indices: 70623126--70623172 Score: 76
Period size: 5 Copynumber: 9.2 Consensus size: 5
70623116 ATTTTATTTA
*
70623126 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AATAAT CTAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT A
70623173 ATATATTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
5 34 0.87
6 5 0.13
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:70627962 original size:36 final size:37
Alignment explanation
Indices: 70627922--70627998 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
70627912 GAATTTTTTC
** * *
70627922 TTTTACCA-AAGTGAAAACGCGTCCTATAGAACGCAT
1 TTTTACCAGAAGTGAAAACGCACCCCATAAAACGCAT
**
70627958 TTTTATTAGAAGTGAAAACGCACCCCATAAAACGCAT
1 TTTTACCAGAAGTGAAAACGCACCCCATAAAACGCAT
70627995 TTTT
1 TTTT
70627999 CTTTTTATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 6 0.18
37 28 0.82
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (37 bp):
TTTTACCAGAAGTGAAAACGCACCCCATAAAACGCAT
Found at i:70641799 original size:14 final size:14
Alignment explanation
Indices: 70641780--70641812 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
70641770 TAAGTTTTCC
70641780 TAACTCTAATGGAA
1 TAACTCTAATGGAA
70641794 TAACTCTAATGGAA
1 TAACTCTAATGGAA
70641808 TAACT
1 TAACT
70641813 AACATGACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (14 bp):
TAACTCTAATGGAA
Found at i:70645602 original size:48 final size:50
Alignment explanation
Indices: 70645519--70645643 Score: 137
Period size: 48 Copynumber: 2.5 Consensus size: 50
70645509 ATTCCAAAAA
*
70645519 TAATAATATTTTAATAGATTTAATATTAAACTTAATCTAATACTTAT-TT-
1 TAATAATATTTTATTA-ATTTAATATTAAACTTAATCTAATACTTATCTTG
* * * * **
70645568 TAATAGTATTTTATTAATTTAATATTTAATTTAATTTAATGTTTATCTTG
1 TAATAATATTTTATTAATTTAATATTAAACTTAATCTAATACTTATCTTG
*
70645618 TAGATAAATTTTTTATTAATTTAATA
1 TA-AT-AATATTTTATTAATTTAATA
70645644 AGATTTAGTA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
48 25 0.40
49 16 0.25
50 2 0.03
51 2 0.03
52 18 0.29
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (50 bp):
TAATAATATTTTATTAATTTAATATTAAACTTAATCTAATACTTATCTTG
Found at i:70645661 original size:62 final size:59
Alignment explanation
Indices: 70645584--70645702 Score: 150
Period size: 62 Copynumber: 2.0 Consensus size: 59
70645574 TATTTTATTA
* * * *
70645584 ATTTAATATTTAATTTAATTTAATGTTTATCTTG-TAGATAAATTTTTTATTAATTTAATAAG
1 ATTTAATATTAAATTTAATCTAATATTTATCTTGATA-A-AAA--TTATATTAATTTAATAAG
*
70645646 ATTTAGTATTAAATTTAATCTAATATTTATCTTGATAAAAATTATATTAATTTAATA
1 ATTTAATATTAAATTTAATCTAATATTTATCTTGATAAAAATTATATTAATTTAATA
70645703 TTAAAGTTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
59 15 0.29
61 3 0.06
62 31 0.61
63 2 0.04
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (59 bp):
ATTTAATATTAAATTTAATCTAATATTTATCTTGATAAAAATTATATTAATTTAATAAG
Found at i:70657439 original size:66 final size:66
Alignment explanation
Indices: 70657266--70657449 Score: 242
Period size: 66 Copynumber: 2.8 Consensus size: 66
70657256 AGCCTTACAA
* * * * *
70657266 GGCCTAGCACACGGGCATGTGGCTTGGTCGTGTGGCACAAGTCAGTATACCCTCCAGTTTTCACA
1 GGCCTAGCACACGGGCATGTGGCTTGGCCGTGTGACACAAGTCAGTATGCTCACCAGTTTTCACA
70657331 C
66 C
* ** * *
70657332 GGCCTAGCACACGGGCATATGGCTTGGCTATGTGTCACAAGTCAGTATGCTCACCATTTTTCACA
1 GGCCTAGCACACGGGCATGTGGCTTGGCCGTGTGACACAAGTCAGTATGCTCACCAGTTTTCACA
70657397 C
66 C
* * * *
70657398 GGCCTAGCACACGGGCTTGTGGCTTGGCCGTGTAACCCAAGTCAGTAAGCTC
1 GGCCTAGCACACGGGCATGTGGCTTGGCCGTGTGACACAAGTCAGTATGCTC
70657450 GCTAGATTGT
Statistics
Matches: 101, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
66 101 1.00
ACGTcount: A:0.21, C:0.28, G:0.27, T:0.24
Consensus pattern (66 bp):
GGCCTAGCACACGGGCATGTGGCTTGGCCGTGTGACACAAGTCAGTATGCTCACCAGTTTTCACA
C
Found at i:70657465 original size:31 final size:31
Alignment explanation
Indices: 70657427--70657488 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
70657417 TGGCTTGGCC
70657427 GTGTAACCCAAGTCAGTAAGCTCGCTAGATT
1 GTGTAACCCAAGTCAGTAAGCTCGCTAGATT
70657458 GTGTAACCCAAGTCAGTAAGCTCGCTAGATT
1 GTGTAACCCAAGTCAGTAAGCTCGCTAGATT
70657489 AGACATGGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (31 bp):
GTGTAACCCAAGTCAGTAAGCTCGCTAGATT
Found at i:70658474 original size:16 final size:17
Alignment explanation
Indices: 70658455--70658489 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
70658445 TAAAATCAGT
70658455 TTATTTTAAA-TTTGAC
1 TTATTTTAAATTTTGAC
70658471 TTATTTTAAATTTTGAC
1 TTATTTTAAATTTTGAC
70658488 TT
1 TT
70658490 GAGAGTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (17 bp):
TTATTTTAAATTTTGAC
Found at i:70664774 original size:495 final size:495
Alignment explanation
Indices: 70663844--70664827 Score: 1968
Period size: 495 Copynumber: 2.0 Consensus size: 495
70663834 TCTGTGTCTG
70663844 AGGTTTTGGGTTCAAGTTGCATTTCTTTGGAAATTCAATTATTTTTTTCCTAGCTTTATCCTTAA
1 AGGTTTTGGGTTCAAGTTGCATTTCTTTGGAAATTCAATTATTTTTTTCCTAGCTTTATCCTTAA
70663909 GTGTTTGGCTTATATTATATTTTTGATCAACTCATGTCAGATTGAGCCTATTGGTTCAAGTGGTA
66 GTGTTTGGCTTATATTATATTTTTGATCAACTCATGTCAGATTGAGCCTATTGGTTCAAGTGGTA
70663974 AGGTGTTAACTTGTCCTGAGATCTTGAGTTTGAATCCCCATGTAGACGAATGACAGTAATTTTTC
131 AGGTGTTAACTTGTCCTGAGATCTTGAGTTTGAATCCCCATGTAGACGAATGACAGTAATTTTTC
70664039 CTTTTATGTGTGTATAGTAGAGGTTTGGTGGAATTGAAATTCTGTGGTGGTTGGATAATGATTAG
196 CTTTTATGTGTGTATAGTAGAGGTTTGGTGGAATTGAAATTCTGTGGTGGTTGGATAATGATTAG
70664104 TGGGTCGAATTTTGTGAGATTTGGTTGGTTGTGAAGGTAGTGGGGAGTTGAGAGTATTATCTTGA
261 TGGGTCGAATTTTGTGAGATTTGGTTGGTTGTGAAGGTAGTGGGGAGTTGAGAGTATTATCTTGA
70664169 AATTTATTTTATTTTTATTTTTTAATTAAATTGTTTTCCAAAATTCCATCTTTTTCCCACATTTT
326 AATTTATTTTATTTTTATTTTTTAATTAAATTGTTTTCCAAAATTCCATCTTTTTCCCACATTTT
70664234 GTTTCTCTGCAAATTTCCCTCTGACGTTTTTTTTAGTTCCTTCCTTTTTTGCCTTCTTCAATTCT
391 GTTTCTCTGCAAATTTCCCTCTGACGTTTTTTTTAGTTCCTTCCTTTTTTGCCTTCTTCAATTCT
70664299 AACATCTTTTTACTAGATTGGATTGCTATGGCTTTGGGTT
456 AACATCTTTTTACTAGATTGGATTGCTATGGCTTTGGGTT
70664339 AGGTTTTGGGTTCAAGTTGCATTTCTTTGGAAATTCAATTATTTTTTTCCTAGCTTTATCCTTAA
1 AGGTTTTGGGTTCAAGTTGCATTTCTTTGGAAATTCAATTATTTTTTTCCTAGCTTTATCCTTAA
70664404 GTGTTTGGCTTATATTATATTTTTGATCAACTCATGTCAGATTGAGCCTATTGGTTCAAGTGGTA
66 GTGTTTGGCTTATATTATATTTTTGATCAACTCATGTCAGATTGAGCCTATTGGTTCAAGTGGTA
70664469 AGGTGTTAACTTGTCCTGAGATCTTGAGTTTGAATCCCCATGTAGACGAATGACAGTAATTTTTC
131 AGGTGTTAACTTGTCCTGAGATCTTGAGTTTGAATCCCCATGTAGACGAATGACAGTAATTTTTC
70664534 CTTTTATGTGTGTATAGTAGAGGTTTGGTGGAATTGAAATTCTGTGGTGGTTGGATAATGATTAG
196 CTTTTATGTGTGTATAGTAGAGGTTTGGTGGAATTGAAATTCTGTGGTGGTTGGATAATGATTAG
70664599 TGGGTCGAATTTTGTGAGATTTGGTTGGTTGTGAAGGTAGTGGGGAGTTGAGAGTATTATCTTGA
261 TGGGTCGAATTTTGTGAGATTTGGTTGGTTGTGAAGGTAGTGGGGAGTTGAGAGTATTATCTTGA
70664664 AATTTATTTTATTTTTATTTTTTAATTAAATTGTTTTCCAAAATTCCATCTTTTTCCCACATTTT
326 AATTTATTTTATTTTTATTTTTTAATTAAATTGTTTTCCAAAATTCCATCTTTTTCCCACATTTT
70664729 GTTTCTCTGCAAATTTCCCTCTGACGTTTTTTTTAGTTCCTTCCTTTTTTGCCTTCTTCAATTCT
391 GTTTCTCTGCAAATTTCCCTCTGACGTTTTTTTTAGTTCCTTCCTTTTTTGCCTTCTTCAATTCT
70664794 AACATCTTTTTACTAGATTGGATTGCTATGGCTT
456 AACATCTTTTTACTAGATTGGATTGCTATGGCTT
70664828 GGACTTATTT
Statistics
Matches: 489, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
495 489 1.00
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.46
Consensus pattern (495 bp):
AGGTTTTGGGTTCAAGTTGCATTTCTTTGGAAATTCAATTATTTTTTTCCTAGCTTTATCCTTAA
GTGTTTGGCTTATATTATATTTTTGATCAACTCATGTCAGATTGAGCCTATTGGTTCAAGTGGTA
AGGTGTTAACTTGTCCTGAGATCTTGAGTTTGAATCCCCATGTAGACGAATGACAGTAATTTTTC
CTTTTATGTGTGTATAGTAGAGGTTTGGTGGAATTGAAATTCTGTGGTGGTTGGATAATGATTAG
TGGGTCGAATTTTGTGAGATTTGGTTGGTTGTGAAGGTAGTGGGGAGTTGAGAGTATTATCTTGA
AATTTATTTTATTTTTATTTTTTAATTAAATTGTTTTCCAAAATTCCATCTTTTTCCCACATTTT
GTTTCTCTGCAAATTTCCCTCTGACGTTTTTTTTAGTTCCTTCCTTTTTTGCCTTCTTCAATTCT
AACATCTTTTTACTAGATTGGATTGCTATGGCTTTGGGTT
Found at i:70665306 original size:17 final size:17
Alignment explanation
Indices: 70665271--70665309 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
70665261 CTGTCAACAC
*
70665271 CACACGGCCGTGTGCGA
1 CACACGGCCGTGTACGA
* *
70665288 CACACGGTCGTGTATGA
1 CACACGGCCGTGTACGA
70665305 CACAC
1 CACAC
70665310 AGTCTAGGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.23, C:0.33, G:0.28, T:0.15
Consensus pattern (17 bp):
CACACGGCCGTGTACGA
Found at i:70665639 original size:18 final size:18
Alignment explanation
Indices: 70665616--70665671 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
70665606 GTATGATTTG
70665616 TTATGTATAAAGCATGTT
1 TTATGTATAAAGCATGTT
*
70665634 TTATGT-T--TG-AT-TT
1 TTATGTATAAAGCATGTT
70665647 GTTATGTATAAAGCATGTT
1 -TTATGTATAAAGCATGTT
*
70665666 CTATGT
1 TTATGT
70665672 TTGTTTTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 12
0.66 0.07 0.27
Matches are distributed among these distances:
13 2 0.07
14 8 0.28
15 2 0.07
17 2 0.07
18 13 0.45
19 2 0.07
ACGTcount: A:0.27, C:0.05, G:0.18, T:0.50
Consensus pattern (18 bp):
TTATGTATAAAGCATGTT
Found at i:70665672 original size:32 final size:32
Alignment explanation
Indices: 70665603--70665674 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 32
70665593 AGTGATACAA
* *
70665603 TATGTATGATTTGTTATGTATAAAGCATGTTT
1 TATGTTTGATTTGTTATGTATAAAGCATGTTC
70665635 TATGTTTGATTTGTTATGTATAAAGCATGTTC
1 TATGTTTGATTTGTTATGTATAAAGCATGTTC
70665667 TATGTTTG
1 TATGTTTG
70665675 TTTTATGAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.25, C:0.04, G:0.19, T:0.51
Consensus pattern (32 bp):
TATGTTTGATTTGTTATGTATAAAGCATGTTC
Found at i:70669379 original size:49 final size:49
Alignment explanation
Indices: 70669177--70669687 Score: 844
Period size: 49 Copynumber: 10.6 Consensus size: 49
70669167 GAAATGATAG
70669177 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
70669224 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
70669271 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
70669318 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
70669367 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
70669416 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
70669463 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
70669510 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
70669559 TAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
70669608 TAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
70669657 TAAGGCCTAATGGCCGACGTGATGAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGA
70669688 TAGCCATGCG
Statistics
Matches: 443, Mismatches: 15, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
47 210 0.47
48 2 0.00
49 231 0.52
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:70669510 original size:192 final size:192
Alignment explanation
Indices: 70669177--70669687 Score: 882
Period size: 192 Copynumber: 2.7 Consensus size: 192
70669167 GAAATGATAG
70669177 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
70669240 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAG
*
70669305 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
131 TGTATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
70669367 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* * * * * *
70669432 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAG
70669497 TGTATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
131 TGTATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
70669559 TAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
70669624 ACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGA
66 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGA
70669688 TAGCCATGCG
Statistics
Matches: 297, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
190 35 0.12
192 226 0.76
194 36 0.12
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.29
Consensus pattern (192 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAG
TGTATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:70683697 original size:5 final size:5
Alignment explanation
Indices: 70683687--70683714 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
70683677 GTTCTCTATA
70683687 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
70683715 TACAGTTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:70686705 original size:26 final size:26
Alignment explanation
Indices: 70686669--70686728 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
70686659 GATGTTACAC
* *
70686669 AAACACAAGGGTCCTGTGACCCACTT
1 AAACTCAAGGGTCCTGTAACCCACTT
*
70686695 AAACTCAAGGGTCCTTTAACCCACTT
1 AAACTCAAGGGTCCTGTAACCCACTT
70686721 AAACTCAA
1 AAACTCAA
70686729 ACTCGCTAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.35, C:0.30, G:0.13, T:0.22
Consensus pattern (26 bp):
AAACTCAAGGGTCCTGTAACCCACTT
Found at i:70690376 original size:96 final size:94
Alignment explanation
Indices: 70690169--70690446 Score: 319
Period size: 96 Copynumber: 2.9 Consensus size: 94
70690159 TGATATGTGT
* *
70690169 GCTAGTGTAAGACCATGTTTGGGACATGGCATCTGCCA-CGATACG-AGAACTAGTGTAAGACCA
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATCAG-CATCGATATGTAG--CTAGTGTAAGACCA
* *
70690232 TGTTTGAACATGGCATCGACAATGTAATGAGA
63 TGTTGGAACATGGCATCGGCAATGTAATGAGA
* * * *
70690264 GCCAGTGTAAGACCATGTATGAGACATGGCATCAGCATTGATATGTATGCTAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCATCGATATGTA-GCTAGTGTAAGACCATG
* *
70690329 TCTGGGACATGGCATCGGCATTG-AGATGAGA
65 T-TGGAACATGGCATCGGCAATGTA-ATGAGA
* * * * * *
70690360 GCTAGTGTAAGACCATGTTTGGGACATGGCGTCGGCCTCGACATGTGAGCCAGTGTAAGACAATG
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCATCGATATGT-AGCTAGTGTAAGACCATG
70690425 TTTGGAACATGGCATCGGCAAT
65 -TTGGAACATGGCATCGGCAAT
70690447 TCACCCTTTT
Statistics
Matches: 154, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
94 2 0.01
95 54 0.35
96 95 0.62
97 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCATCGATATGTAGCTAGTGTAAGACCATGT
TGGAACATGGCATCGGCAATGTAATGAGA
Found at i:70690443 original size:48 final size:48
Alignment explanation
Indices: 70690160--70690444 Score: 276
Period size: 48 Copynumber: 6.0 Consensus size: 48
70690150 ACATTTGGGT
* * * *
70690160 GATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCTGCCA-C
1 GATATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATC-GGCATC
* * *
70690208 GATACGAGAACTAGTGTAAGACCATGTTT-GAACATGGCATCGACAAT-
1 GATATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGC-ATC
* * * *
70690255 G-TAATGAGAGCCAGTGTAAGACCATGTAT-GAGACATGGCATCAGCATT
1 GAT-ATGAGAGCTAGTGTAAGACCATGTTTGGA-ACATGGCATCGGCATC
* * * *
70690303 GATATGTA-TGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
1 GATATG-AGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATC
* * * *
70690351 GAGATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCGTCGGCCTC
1 GATATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATC
* * * *
70690399 GACATGTGAGCCAGTGTAAGACAATGTTTGGAACATGGCATCGGCA
1 GATATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCA
70690445 ATTCACCCTT
Statistics
Matches: 198, Mismatches: 30, Indels: 18
0.80 0.12 0.07
Matches are distributed among these distances:
46 3 0.02
47 40 0.20
48 152 0.77
49 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
GATATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATC
Found at i:70693120 original size:47 final size:47
Alignment explanation
Indices: 70693051--70693149 Score: 180
Period size: 47 Copynumber: 2.1 Consensus size: 47
70693041 ATAATCAAGA
*
70693051 ATTTTAAATGCTTTATGTTATTGTTACATAAGTGATAGTTATTTTAT
1 ATTTTAAATGCTTTATGTTATTGTTACATAAGTGATAATTATTTTAT
70693098 ATTTTAAATGCTTTATGTTATTGTTACATAAGTGATAATTATTTTAT
1 ATTTTAAATGCTTTATGTTATTGTTACATAAGTGATAATTATTTTAT
*
70693145 TTTTT
1 ATTTT
70693150 TAATTTAGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.29, C:0.04, G:0.11, T:0.56
Consensus pattern (47 bp):
ATTTTAAATGCTTTATGTTATTGTTACATAAGTGATAATTATTTTAT
Found at i:70693139 original size:26 final size:25
Alignment explanation
Indices: 70693063--70693145 Score: 68
Period size: 26 Copynumber: 3.4 Consensus size: 25
70693053 TTTAAATGCT
70693063 TTATGTTATTGTTACATAAGTGATA
1 TTATGTTATTGTTACATAAGTGATA
* * *
70693088 GTTATTTTATAT-TT---TAAATGCT-
1 -TTATGTTAT-TGTTACATAAGTGATA
70693110 TTATGTTATTGTTACATAAGTGATAA
1 TTATGTTATTGTTACATAAGTGAT-A
*
70693136 TTATTTTATT
1 TTATGTTATT
70693146 TTTTTAATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 14
0.67 0.11 0.22
Matches are distributed among these distances:
20 1 0.02
21 10 0.23
23 6 0.14
24 6 0.14
26 19 0.44
27 1 0.02
ACGTcount: A:0.30, C:0.04, G:0.12, T:0.54
Consensus pattern (25 bp):
TTATGTTATTGTTACATAAGTGATA
Found at i:70693927 original size:17 final size:18
Alignment explanation
Indices: 70693893--70693931 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
70693883 ATTTTATATT
* *
70693893 TTATTTTTATGAATTTAA
1 TTATTTTAATGAAATTAA
70693911 TTATTTTAAT-AAATTAA
1 TTATTTTAATGAAATTAA
70693928 TTAT
1 TTAT
70693932 AGGAATCACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TTATTTTAATGAAATTAA
Found at i:70696854 original size:14 final size:14
Alignment explanation
Indices: 70696837--70696870 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
70696827 TATTGAAAAT
70696837 TTATTTTATTATTA
1 TTATTTTATTATTA
*
70696851 TTATTTTTTTATTA
1 TTATTTTATTATTA
*
70696865 TAATTT
1 TTATTT
70696871 ACTAACTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTTTATTATTA
Found at i:70699789 original size:22 final size:20
Alignment explanation
Indices: 70699731--70699782 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 20
70699721 ATCACCCTAG
*
70699731 TTTTATTTTATTTTATTTAT
1 TTTTATTTTATATTATTTAT
70699751 TTTTAATTGTTATATTATTTAT
1 TTTT-ATT-TTATATTATTTAT
70699773 TTTTATTTTA
1 TTTTATTTTA
70699783 CTAATTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 7 0.24
21 6 0.21
22 16 0.55
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTTATTTTATATTATTTAT
Found at i:70699848 original size:15 final size:16
Alignment explanation
Indices: 70699815--70699895 Score: 71
Period size: 16 Copynumber: 5.1 Consensus size: 16
70699805 ATTCTTATAC
70699815 TTATATTTTTAATTTTT
1 TTATA-TTTTAATTTTT
70699832 TTATATTTTAATTTTT
1 TTATATTTTAATTTTT
* *
70699848 TATATACTTTTTA-TATT
1 T-TATA-TTTTAATTTTT
* *
70699865 TTATATTTTTATTTTG
1 TTATATTTTAATTTTT
70699881 TT-T-TTTT-ATTTTT
1 TTATATTTTAATTTTT
70699894 TT
1 TT
70699896 TTTCTTTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
13 7 0.12
14 4 0.07
15 7 0.12
16 20 0.36
17 13 0.23
18 5 0.09
ACGTcount: A:0.21, C:0.01, G:0.01, T:0.77
Consensus pattern (16 bp):
TTATATTTTAATTTTT
Found at i:70699884 original size:26 final size:25
Alignment explanation
Indices: 70699815--70699892 Score: 88
Period size: 26 Copynumber: 3.1 Consensus size: 25
70699805 ATTCTTATAC
70699815 TTATATTTTTA-ATTTTTTTATATT
1 TTATATTTTTATATTTTTTTATATT
*
70699839 TTA-ATTTTTTATATACTTTTTATATT
1 TTATA-TTTTTATAT-TTTTTTATATT
* *
70699865 TTATATTTTTATTTTGTTTTTTTATT
1 TTATATTTTTATATT-TTTTTATATT
70699891 TT
1 TT
70699893 TTTTTTCTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
23 1 0.02
24 9 0.20
25 2 0.04
26 32 0.71
27 1 0.02
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.76
Consensus pattern (25 bp):
TTATATTTTTATATTTTTTTATATT
Found at i:70699887 original size:8 final size:8
Alignment explanation
Indices: 70699815--70699906 Score: 55
Period size: 8 Copynumber: 11.2 Consensus size: 8
70699805 ATTCTTATAC
70699815 TTATATTTT
1 TTAT-TTTT
*
70699824 TAATTTTT
1 TTATTTTT
*
70699832 TTATATTT
1 TTATTTTT
*
70699840 TAATTTTT
1 TTATTTTT
*
70699848 TATATACTTT
1 T-TAT-TTTT
*
70699858 TTA-TATT
1 TTATTTTT
*
70699865 TTATATTT
1 TTATTTTT
70699873 TTATTTTGT
1 TTATTTT-T
70699882 TT-TTTTAT
1 TTATTTT-T
70699890 TT-TTTTT
1 TTATTTTT
*
70699897 TTCTTTTT
1 TTATTTTT
70699905 TT
1 TT
70699907 CTTTCGTCTT
Statistics
Matches: 65, Mismatches: 13, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
7 8 0.12
8 43 0.66
9 10 0.15
10 4 0.06
ACGTcount: A:0.18, C:0.02, G:0.01, T:0.78
Consensus pattern (8 bp):
TTATTTTT
Found at i:70699897 original size:13 final size:13
Alignment explanation
Indices: 70699828--70699898 Score: 65
Period size: 13 Copynumber: 5.5 Consensus size: 13
70699818 TATTTTTAAT
70699828 TTTTTTATATTTTA
1 TTTTTT-TATTTTA
* *
70699842 ATTTTTTA-TATA
1 TTTTTTTATTTTA
*
70699854 CTTTTTATATTTTA
1 -TTTTTTTATTTTA
* *
70699868 TATTTTTATTTTG
1 TTTTTTTATTTTA
70699881 TTTTTTTATTTT-
1 TTTTTTTATTTTA
70699893 TTTTTT
1 TTTTTT
70699899 CTTTTTTTCT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
12 9 0.20
13 29 0.63
14 8 0.17
ACGTcount: A:0.18, C:0.01, G:0.01, T:0.79
Consensus pattern (13 bp):
TTTTTTTATTTTA
Found at i:70699905 original size:19 final size:19
Alignment explanation
Indices: 70699863--70699906 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
70699853 ACTTTTTATA
* *
70699863 TTTTATATTTTTATTTTGT
1 TTTTTTATTTTTATTTTCT
*
70699882 TTTTTTATTTTTTTTTTCT
1 TTTTTTATTTTTATTTTCT
70699901 TTTTTT
1 TTTTTT
70699907 CTTTCGTCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.09, C:0.02, G:0.02, T:0.86
Consensus pattern (19 bp):
TTTTTTATTTTTATTTTCT
Found at i:70699978 original size:18 final size:18
Alignment explanation
Indices: 70699955--70700007 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
70699945 TTACCTTTTA
70699955 AGTTTATTGA-TATTATTG
1 AGTTTATT-ATTATTATTG
70699973 AGTTTATTATTATTATT-
1 AGTTTATTATTATTATTG
* *
70699990 ATTATTATTATCATTATT
1 AGT-TTATTATTATTATT
70700008 ATTATTGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 3 0.10
18 28 0.90
ACGTcount: A:0.30, C:0.02, G:0.08, T:0.60
Consensus pattern (18 bp):
AGTTTATTATTATTATTG
Found at i:70699982 original size:3 final size:3
Alignment explanation
Indices: 70699976--70700031 Score: 85
Period size: 3 Copynumber: 18.7 Consensus size: 3
70699966 ATTATTGAGT
* * *
70699976 TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTG TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
70700024 TTA TTA TT
1 TTA TTA TT
70700032 TATCTTTATT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:70704441 original size:42 final size:43
Alignment explanation
Indices: 70704394--70704474 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
70704384 AAACTAAGAG
*
70704394 ATACAATTATCATTC-ACCACTCAATAATTATTTTCCAATAAT
1 ATACAATTATCATTCTACAACTCAATAATTATTTTCCAATAAT
**
70704436 ATACAATTATCATTCTTTAACTCAATAATTATTTTCCAA
1 ATACAATTATCATTCTACAACTCAATAATTATTTTCCAA
70704475 CATGACCATC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 15 0.43
43 20 0.57
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.41
Consensus pattern (43 bp):
ATACAATTATCATTCTACAACTCAATAATTATTTTCCAATAAT
Found at i:70705706 original size:31 final size:31
Alignment explanation
Indices: 70705671--70705739 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
70705661 ACAACCTAGT
70705671 GACTTAAATAAAAAATTTCAAATAATTCAAC
1 GACTTAAATAAAAAATTTCAAATAATTCAAC
* * ** *
70705702 GACTTCAATAAAAACTTTTGAATAGTTCAAC
1 GACTTAAATAAAAAATTTCAAATAATTCAAC
*
70705733 AACTTAA
1 GACTTAA
70705740 TTGAAATTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.30
Consensus pattern (31 bp):
GACTTAAATAAAAAATTTCAAATAATTCAAC
Found at i:70713615 original size:91 final size:92
Alignment explanation
Indices: 70713485--70713668 Score: 223
Period size: 92 Copynumber: 2.0 Consensus size: 92
70713475 ACTCAATAAC
* * * * *
70713485 AAGTAATTGAATAAAAGTACTAATCAATCAAACTTGAAGATC-AAACTAA-AAGTTAAGCTATCA
1 AAGTAATTGAATAAAAGTACTAATCAAGCAAACTCGAAGATCAAAACGAATAA-TTAAACAATCA
*
70713548 AAA-TCATGTAGTAAATCCAGTAGCAAGT
65 AAAGT-ATATAGTAAATCCAGTAGCAAGT
* * *
70713576 AAGTAATTGAAT-AAAGTATTAATCAAGCTACACTCGAAGATCAAAAGGAATAATTAAACAATCA
1 AAGTAATTGAATAAAAGTACTAATCAAGC-AAACTCGAAGATCAAAACGAATAATTAAACAATCA
*
70713640 AAAGTATATAGTAAATTCAGTAGCAAGT
65 AAAGTATATAGTAAATCCAGTAGCAAGT
70713668 A
1 A
70713669 GATGAAAAAT
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
90 14 0.18
91 23 0.29
92 39 0.49
93 3 0.04
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.25
Consensus pattern (92 bp):
AAGTAATTGAATAAAAGTACTAATCAAGCAAACTCGAAGATCAAAACGAATAATTAAACAATCAA
AAGTATATAGTAAATCCAGTAGCAAGT
Found at i:70721217 original size:152 final size:152
Alignment explanation
Indices: 70720964--70721267 Score: 608
Period size: 152 Copynumber: 2.0 Consensus size: 152
70720954 TTAAACCAAA
70720964 ATAATAATGCTTAATCATGGTATAACAGGGAGAAATGATAGAGAATTGCCATAATTCTTTTCTTT
1 ATAATAATGCTTAATCATGGTATAACAGGGAGAAATGATAGAGAATTGCCATAATTCTTTTCTTT
70721029 TCCACCATTCATTCTTAAGAAACAAAAGAAGATAGGGTTTTATATTTCAGAACAATCTATCTTCA
66 TCCACCATTCATTCTTAAGAAACAAAAGAAGATAGGGTTTTATATTTCAGAACAATCTATCTTCA
70721094 AATTGCTAAGGTAATTCAAGTC
131 AATTGCTAAGGTAATTCAAGTC
70721116 ATAATAATGCTTAATCATGGTATAACAGGGAGAAATGATAGAGAATTGCCATAATTCTTTTCTTT
1 ATAATAATGCTTAATCATGGTATAACAGGGAGAAATGATAGAGAATTGCCATAATTCTTTTCTTT
70721181 TCCACCATTCATTCTTAAGAAACAAAAGAAGATAGGGTTTTATATTTCAGAACAATCTATCTTCA
66 TCCACCATTCATTCTTAAGAAACAAAAGAAGATAGGGTTTTATATTTCAGAACAATCTATCTTCA
70721246 AATTGCTAAGGTAATTCAAGTC
131 AATTGCTAAGGTAATTCAAGTC
70721268 TTTTTTCTTG
Statistics
Matches: 152, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
152 152 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (152 bp):
ATAATAATGCTTAATCATGGTATAACAGGGAGAAATGATAGAGAATTGCCATAATTCTTTTCTTT
TCCACCATTCATTCTTAAGAAACAAAAGAAGATAGGGTTTTATATTTCAGAACAATCTATCTTCA
AATTGCTAAGGTAATTCAAGTC
Found at i:70727917 original size:46 final size:46
Alignment explanation
Indices: 70727861--70728004 Score: 141
Period size: 46 Copynumber: 3.1 Consensus size: 46
70727851 TGGTTGAGCA
*
70727861 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAATG
* ** * * *
70727907 TCCGAACTCGTTGAATTGAGTCCGAGTTCGTGAAATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACATATG-GA-T-GCGAATG
* *
70727954 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAATG
*
70728000 CCCGA
1 TCCGA
70728005 GCNNNNNNNN
Statistics
Matches: 75, Mismatches: 16, Indels: 14
0.71 0.15 0.13
Matches are distributed among these distances:
43 1 0.01
44 2 0.03
45 1 0.01
46 35 0.47
47 31 0.41
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAATG
Found at i:70733081 original size:79 final size:81
Alignment explanation
Indices: 70732963--70733145 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
70732953 TACTCGTTCA
* *
70732963 AATGCCTTCGGGACATAGCCC-GATTATAGCAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGCAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
70733026 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
70733043 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGCAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
70733106 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
70733122 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
70733146 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.63
80 30 0.33
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGCAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:70733145 original size:40 final size:40
Alignment explanation
Indices: 70732942--70733145 Score: 231
Period size: 40 Copynumber: 5.1 Consensus size: 40
70732932 TGGAATTTAA
** *
70732942 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
70732982 CC-GATTATAGCAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGA-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
70733022 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
70733061 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
70733101 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
70733141 CCGGA
1 CCGGA
70733146 CATCATTCGA
Statistics
Matches: 140, Mismatches: 15, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
38 2 0.01
39 34 0.24
40 90 0.64
41 14 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:70748045 original size:46 final size:46
Alignment explanation
Indices: 70747995--70748170 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
70747985 TGGTTGAACA
*
70747995 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
70748041 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
70748088 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
70748134 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
70748171 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 62 0.57
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:70748152 original size:93 final size:93
Alignment explanation
Indices: 70747993--70748163 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
70747983 GATGGTTGAA
*
70747993 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGTT
70748058 GAGTCCGAGTTCGTGAGATGTAACTAGG
66 GAGTCCGAGTTCGTGAGATGTAACTAGG
* * *
70748086 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGAGT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC-CGAACTCGTTGAGT
70748150 TGAGTCCGAGTTCG
65 TGAGTCCGAGTTCG
70748164 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAGG
Found at i:70754768 original size:46 final size:46
Alignment explanation
Indices: 70754718--70755030 Score: 563
Period size: 46 Copynumber: 6.8 Consensus size: 46
70754708 TGGTTGAGCA
70754718 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
70754764 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
70754810 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
70754856 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
70754902 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
70754948 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
70754994 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
70755031 GCGGGTTACA
Statistics
Matches: 259, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 259 1.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:70760768 original size:42 final size:42
Alignment explanation
Indices: 70760709--70760792 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
70760699 AGAAGTTGAA
70760709 AGAGCGGTTGACCAAAGCACCAGTGTTAATGCAACCCGAGTC
1 AGAGCGGTTGACCAAAGCACCAGTGTTAATGCAACCCGAGTC
* *
70760751 AGAGCGGTTGACCAAAGCACCAGTGTTAGTGCAACCTGAGTC
1 AGAGCGGTTGACCAAAGCACCAGTGTTAATGCAACCCGAGTC
70760793 GAGGAAAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.30, C:0.25, G:0.27, T:0.18
Consensus pattern (42 bp):
AGAGCGGTTGACCAAAGCACCAGTGTTAATGCAACCCGAGTC
Found at i:70763977 original size:50 final size:50
Alignment explanation
Indices: 70763902--70764127 Score: 199
Period size: 50 Copynumber: 4.5 Consensus size: 50
70763892 TGAGTACACG
* * *
70763902 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACATATACCAGACTGTTAAGTCACA
* * ** *
70763952 TGTGTAGTACTAAGTGCAGGCTACTATGCATATTCAATGACT-TCGA-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTA--CATATACCA-GACTGTTAAGTCACA
* * * * * *
70764003 TGTGTATTACTAAGTGCAGGCTACTACGTATATCAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACATATACCAGACT-GTTAAGTCACA
* * * * * *
70764053 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACATATACCAGACTGTTAAGTCACA
*
70764102 TGTGTAGTACGAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
70764128 TGCGTATCAG
Statistics
Matches: 145, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 36 0.25
50 66 0.46
51 29 0.20
52 8 0.06
53 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATATACCAGACTGTTAAGTCACA
Found at i:70765825 original size:12 final size:12
Alignment explanation
Indices: 70765804--70765843 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
70765794 AGCTTTAAAA
*
70765804 CTTTTGTTTTTC
1 CTTTTCTTTTTC
70765816 CTTTTCTTTTT-
1 CTTTTCTTTTTC
70765827 CTTTTCTTCTTTC
1 CTTTTCTT-TTTC
70765840 CTTT
1 CTTT
70765844 CTCCCTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 8 0.32
12 13 0.52
13 4 0.16
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.75
Consensus pattern (12 bp):
CTTTTCTTTTTC
Found at i:70765955 original size:13 final size:12
Alignment explanation
Indices: 70765925--70765969 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
70765915 ATATATATGT
70765925 TAATAAT-ATTA
1 TAATAATAATTA
70765936 GTAATAATACATTA
1 -TAATAATA-ATTA
70765950 TAATAATAA-TA
1 TAATAATAATTA
70765961 TAAT-ATAAT
1 TAATAATAAT
70765970 AATATTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 4 0.13
11 6 0.20
12 8 0.27
13 8 0.27
14 4 0.13
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (12 bp):
TAATAATAATTA
Found at i:70765958 original size:16 final size:16
Alignment explanation
Indices: 70765937--70765973 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
70765927 ATAATATTAG
*
70765937 TAATAATACATTATAA
1 TAATAATACAATATAA
*
70765953 TAATAATATAATATAA
1 TAATAATACAATATAA
70765969 TAATA
1 TAATA
70765974 TTTAATTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
TAATAATACAATATAA
Found at i:70766142 original size:24 final size:23
Alignment explanation
Indices: 70766092--70766144 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 23
70766082 TTGTCTTCAT
70766092 TTTAATAATTTAATATAAAACTA
1 TTTAATAATTTAATATAAAACTA
*
70766115 --TAATAATTATAATA-AATATCTA
1 TTTAATAATT-TAATATAA-AACTA
70766137 TTTAATAA
1 TTTAATAA
70766145 CAAATACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 10 0.40
22 9 0.36
24 6 0.24
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
TTTAATAATTTAATATAAAACTA
Found at i:70772377 original size:10 final size:11
Alignment explanation
Indices: 70772361--70772402 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
70772351 ATTCTTATAC
70772361 CTAATTAACCT
1 CTAATTAACCT
*
70772372 -TAATTAAACT
1 CTAATTAACCT
*
70772382 CTAATTAACCA
1 CTAATTAACCT
70772393 CTAAATTAAC
1 CT-AATTAAC
70772403 TTCGTAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 9 0.35
11 10 0.38
12 7 0.27
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (11 bp):
CTAATTAACCT
Found at i:70776016 original size:16 final size:16
Alignment explanation
Indices: 70775995--70776030 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
70775985 GGCAAATCCT
70775995 GAAATGCCGAAAAGCC
1 GAAATGCCGAAAAGCC
*
70776011 GAAATGCCGAAAAGCT
1 GAAATGCCGAAAAGCC
70776027 GAAA
1 GAAA
70776031 GTTTGGCTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.47, C:0.19, G:0.25, T:0.08
Consensus pattern (16 bp):
GAAATGCCGAAAAGCC
Found at i:70776351 original size:28 final size:29
Alignment explanation
Indices: 70776240--70776364 Score: 180
Period size: 29 Copynumber: 4.3 Consensus size: 29
70776230 GAAAGCATGT
*
70776240 ATATGAATGTGATTTGGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
70776269 ATAGGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
70776298 ATACGAATGTGATTTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
70776327 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
70776355 ATATGGATGT
1 ATATGAATGT
70776365 ATGTAGACTT
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 24 0.27
29 64 0.73
ACGTcount: A:0.24, C:0.14, G:0.34, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:70777781 original size:27 final size:27
Alignment explanation
Indices: 70777735--70777808 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
70777725 GAACAAATCT
* *
70777735 GTCATTTTACCTTACCGGGGTATTACA
1 GTCATTTTACCCTACAGGGGTATTACA
* *
70777762 GTCATTTTACCCTACAGGGGTATTTCG
1 GTCATTTTACCCTACAGGGGTATTACA
70777789 GTCATTTTACCCTATCAGGG
1 GTCATTTTACCCTA-CAGGG
70777809 TAAAATCCTC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 37 0.88
28 5 0.12
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACA
Found at i:70777820 original size:27 final size:27
Alignment explanation
Indices: 70777805--70777970 Score: 233
Period size: 27 Copynumber: 6.1 Consensus size: 27
70777795 TTACCCTATC
* * *
70777805 AGGGTAAAATCCTCATTTTATCACATA
1 AGGGCAAAATCATCATTTTATCACATG
** *
70777832 AGGGCAAAATTTTCATTTTACCACATG
1 AGGGCAAAATCATCATTTTATCACATG
70777859 AGGGCAAAATCATCATTTTATCACATG
1 AGGGCAAAATCATCATTTTATCACATG
70777886 AGGGCAAAATCATCATTTTATCACATG
1 AGGGCAAAATCATCATTTTATCACATG
* * *
70777913 AGGGCAAAATCGTAATTTTATCATATG
1 AGGGCAAAATCATCATTTTATCACATG
* *
70777940 AGGGAAAAATCGTCATTTTATCACATG
1 AGGGCAAAATCATCATTTTATCACATG
70777967 AGGG
1 AGGG
70777971 TTCAGGTACG
Statistics
Matches: 125, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 125 1.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (27 bp):
AGGGCAAAATCATCATTTTATCACATG
Found at i:70781271 original size:43 final size:42
Alignment explanation
Indices: 70781207--70781336 Score: 118
Period size: 43 Copynumber: 3.0 Consensus size: 42
70781197 ACATTAGGTT
* * * *
70781207 ATCGAGATGTGATTACATGTAAGACCATGTCTGGGACATTGGC
1 ATCGATATATGATAACATGTAAGACCATATCTGGGACA-TGGC
** * * * *
70781250 ATCG-TATTATGATTTCGTGTAAGACCTTTTCTGGGGCAGTGGC
1 ATCGATA-TATGATAACATGTAAGACCATATCTGGGACA-TGGC
* *
70781293 ATCGATATGTGATAACATGTAAGACCATATCTGGGATATGGC
1 ATCGATATATGATAACATGTAAGACCATATCTGGGACATGGC
70781335 AT
1 AT
70781337 TGTGCGAGCT
Statistics
Matches: 69, Mismatches: 16, Indels: 5
0.77 0.18 0.06
Matches are distributed among these distances:
42 7 0.10
43 60 0.87
44 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (42 bp):
ATCGATATATGATAACATGTAAGACCATATCTGGGACATGGC
Found at i:70791422 original size:28 final size:28
Alignment explanation
Indices: 70791382--70791443 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
70791372 TAACTTATCT
* *
70791382 CCAAAGTACTGATAT-CGTGGCCCAAAG
1 CCAAATTACTGATATGCATGGCCCAAAG
**
70791409 CCAAATTAGCTGATATGCATGGCCTGAAG
1 CCAAATTA-CTGATATGCATGGCCCAAAG
70791438 CCAAAT
1 CCAAAT
70791444 CGATATGACT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 7 0.24
28 7 0.24
29 15 0.52
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (28 bp):
CCAAATTACTGATATGCATGGCCCAAAG
Found at i:70793782 original size:20 final size:20
Alignment explanation
Indices: 70793745--70793782 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
70793735 TTTGATATAT
**
70793745 CAAAATTTCTAATGAAATAA
1 CAAAATTTCTAAACAAATAA
70793765 CAAAATTTCTAAACAAAT
1 CAAAATTTCTAAACAAAT
70793783 TTATTAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.13, G:0.03, T:0.29
Consensus pattern (20 bp):
CAAAATTTCTAAACAAATAA
Found at i:70793844 original size:21 final size:20
Alignment explanation
Indices: 70793820--70793863 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
70793810 TTTGATTTAA
70793820 AATGGCAACAATAAAATTTCT
1 AATGG-AACAATAAAATTTCT
* * *
70793841 AATGGAATACTAAATTTTCT
1 AATGGAACAATAAAATTTCT
70793861 AAT
1 AAT
70793864 ATCATAGCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (20 bp):
AATGGAACAATAAAATTTCT
Found at i:70799302 original size:30 final size:30
Alignment explanation
Indices: 70799266--70799328 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
70799256 ATTTATTTTA
70799266 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
70799296 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
70799326 TTG
1 TTG
70799329 ATTGTTAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:70799480 original size:12 final size:12
Alignment explanation
Indices: 70799451--70799482 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
70799441 ATATATTATT
70799451 AAATT-ATATAA
1 AAATTAATATAA
70799462 AAA-TAATATAA
1 AAATTAATATAA
70799473 AAATTAATAT
1 AAATTAATAT
70799483 GGGCGGGTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.05
11 12 0.63
12 6 0.32
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AAATTAATATAA
Found at i:70802015 original size:49 final size:50
Alignment explanation
Indices: 70801922--70802019 Score: 153
Period size: 49 Copynumber: 2.0 Consensus size: 50
70801912 ATGCCGGAAT
* *
70801922 TATTTAAGCAACTAAAGAAAATTCAAAACAATTTAATTAATTAAACTAAG
1 TATTTAAGCAACTAAAGAAAATTCAAAACAACTGAATTAATTAAACTAAG
* *
70801972 TATTTAAGCAATTAAGGAAAATT-AAAACAACTGAATTAATTAAACTAA
1 TATTTAAGCAACTAAAGAAAATTCAAAACAACTGAATTAATTAAACTAA
70802020 ACATATTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 23 0.52
50 21 0.48
ACGTcount: A:0.54, C:0.09, G:0.07, T:0.30
Consensus pattern (50 bp):
TATTTAAGCAACTAAAGAAAATTCAAAACAACTGAATTAATTAAACTAAG
Found at i:70808285 original size:46 final size:47
Alignment explanation
Indices: 70808235--70808351 Score: 182
Period size: 47 Copynumber: 2.5 Consensus size: 47
70808225 AATGTCTGAA
* *
70808235 CTCGTTGAGTTGAGTCTGAGTTCGTGAGAT-TAACTAGGCATCCGCG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
*
70808281 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
* *
70808328 ATTGTTGAGTTGAGTCCGAGTTCG
1 CTCGTTGAGTTGAGTCCGAGTTCG
70808352 CTTATGGGTG
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
46 29 0.45
47 36 0.55
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.32
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
Found at i:70814373 original size:46 final size:46
Alignment explanation
Indices: 70814188--70814412 Score: 215
Period size: 46 Copynumber: 4.8 Consensus size: 46
70814178 AGGGTATAAT
* * *
70814188 GCCGATGCCATGTCCCAGACATGATCTTACACTGACTATCAAAATCAAG
1 GCCGATGCCATGTCCCAGACATG-TCTTACACTGGCTA-C-ATATCGAG
* * * *
70814237 GCCGACGCCATGTCCCTGACATGGTCTTACACTAGCTCTCACATATCCG-T
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACT-G-GCT-ACATAT-CGAG
* * *
70814287 GCCGATGCCATGTCTCAGACATGGTCTTACACTGAC-ACATCTCGAG
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTACATATCGAG
* *
70814333 GCCGATG-CATGTCCCAAACATGTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGC-TACATATCGAG
*
70814379 GCCGATG-CATATCCCAGACATGTCTTACACTGGC
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGC
70814413 CACACAAATA
Statistics
Matches: 151, Mismatches: 17, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
44 12 0.08
45 14 0.09
46 54 0.36
48 1 0.01
49 30 0.20
50 35 0.23
51 4 0.03
52 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTACATATCGAG
Found at i:70817837 original size:27 final size:28
Alignment explanation
Indices: 70817807--70817867 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
70817797 AATAGCCTTC
70817807 GTGGTGAG-TTATGAAAGAACAACCATT
1 GTGGTGAGATTATGAAAGAACAACCATT
* * * *
70817834 GTGG-CAGATTATGAAAGAATAATCTTT
1 GTGGTGAGATTATGAAAGAACAACCATT
70817861 GTGGTGA
1 GTGGTGA
70817868 TTTCTAAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
26 2 0.07
27 24 0.89
28 1 0.04
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (28 bp):
GTGGTGAGATTATGAAAGAACAACCATT
Found at i:70823155 original size:21 final size:21
Alignment explanation
Indices: 70823131--70823173 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
70823121 GTTTTTGGCA
*
70823131 TGTTTCGAGCTGGTTTAATTT
1 TGTTTCGAGCAGGTTTAATTT
*
70823152 TGTTTTGAGCAGGTTTAATTT
1 TGTTTCGAGCAGGTTTAATTT
70823173 T
1 T
70823174 TGGTAAATGG
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:0.16, C:0.07, G:0.23, T:0.53
Consensus pattern (21 bp):
TGTTTCGAGCAGGTTTAATTT
Found at i:70826459 original size:46 final size:46
Alignment explanation
Indices: 70826409--70826584 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
70826399 TGTTTGGGCA
70826409 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
70826455 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GTAT-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* * * *
70826503 T-CGAGCTCATTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
70826548 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
70826585 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 64 0.61
47 29 0.28
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:70827448 original size:61 final size:61
Alignment explanation
Indices: 70827373--70827493 Score: 215
Period size: 61 Copynumber: 2.0 Consensus size: 61
70827363 GAATTATATT
*
70827373 TTATGAGATATTTGAGTTTTTGTGAAACAGGGCCAGAGTGATTTCTGGATCCCCTATTCTG
1 TTATGAGATATTTGAATTTTTGTGAAACAGGGCCAGAGTGATTTCTGGATCCCCTATTCTG
* *
70827434 TTATGAGATATTTGAATTTTTGTGAAACAGGGCCAGAGTGATTTCTGGATTCCCTTTTCT
1 TTATGAGATATTTGAATTTTTGTGAAACAGGGCCAGAGTGATTTCTGGATCCCCTATTCT
70827494 AACTTTCAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.40
Consensus pattern (61 bp):
TTATGAGATATTTGAATTTTTGTGAAACAGGGCCAGAGTGATTTCTGGATCCCCTATTCTG
Found at i:70829638 original size:15 final size:15
Alignment explanation
Indices: 70829615--70829679 Score: 71
Period size: 15 Copynumber: 4.4 Consensus size: 15
70829605 ATATCTTGGG
70829615 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
70829630 TTACTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
70829645 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
70829660 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
70829674 TTTCTT
1 TTTCTT
70829680 GTTATCTTTG
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
14 10 0.24
15 29 0.71
16 2 0.05
ACGTcount: A:0.11, C:0.15, G:0.14, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:70829645 original size:30 final size:30
Alignment explanation
Indices: 70829611--70829679 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
70829601 TATCATATCT
70829611 TGGGTTTCTTTAT-TCTGGATTACTTTATTC
1 TGGGTTTCTTTATCT-TGGATTACTTTATTC
* *
70829641 TGGGTTTCTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTTATCTTGGATTACTTTATTC
*
70829671 -GGTTTTCTT
1 TGGGTTTCTT
70829680 GTTATCTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.21
30 26 0.76
31 1 0.03
ACGTcount: A:0.10, C:0.14, G:0.17, T:0.58
Consensus pattern (30 bp):
TGGGTTTCTTTATCTTGGATTACTTTATTC
Found at i:70832027 original size:46 final size:46
Alignment explanation
Indices: 70831977--70832152 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
70831967 TGGTTGAGCA
70831977 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
70832023 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
70832068 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
70832116 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
70832153 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:70832133 original size:93 final size:93
Alignment explanation
Indices: 70831974--70832144 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
70831964 GGATGGTTGA
* *
70831974 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
70832039 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
70832067 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
70832132 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
70832145 ACTTATGGGC
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:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:70838112 original size:94 final size:94
Alignment explanation
Indices: 70837951--70838138 Score: 331
Period size: 94 Copynumber: 2.0 Consensus size: 94
70837941 TTGTTTGACA
*
70837951 TAATTTATTGTCAATGTTTGATTGCTACAACAAGAGTACCGCTTACTATTAATATTACTGTCCAA
1 TAATTTATTATCAATGTTTGATTGCTACAACAAGAGTACCGCTTACTATTAATATTACTGTCCAA
* *
70838016 AGACTTGATGTTAATTTTGCGTTTGCTAT
66 AGACTTGATATTAATGTTGCGTTTGCTAT
*
70838045 TAATTTATTATCAATGTTTGATTGCTACAATAAGAGTACCGCTTACTATTAATATTACTGTCCAA
1 TAATTTATTATCAATGTTTGATTGCTACAACAAGAGTACCGCTTACTATTAATATTACTGTCCAA
*
70838110 AGACTTGATATTAATGTTGTGTTTGCTAT
66 AGACTTGATATTAATGTTGCGTTTGCTAT
70838139 CTTGAGATGG
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 89 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (94 bp):
TAATTTATTATCAATGTTTGATTGCTACAACAAGAGTACCGCTTACTATTAATATTACTGTCCAA
AGACTTGATATTAATGTTGCGTTTGCTAT
Found at i:70857609 original size:39 final size:40
Alignment explanation
Indices: 70857508--70857731 Score: 257
Period size: 40 Copynumber: 5.7 Consensus size: 40
70857498 TTGAGTGATG
* *
70857508 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
70857547 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
70857588 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
70857627 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
70857666 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
70857705 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
70857732 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 14, Indels: 16
0.84 0.07 0.08
Matches are distributed among these distances:
39 73 0.45
40 76 0.47
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:70857657 original size:78 final size:80
Alignment explanation
Indices: 70857508--70857731 Score: 262
Period size: 79 Copynumber: 2.8 Consensus size: 80
70857498 TTGAGTGATG
* * * * * *
70857508 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
70857571 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
70857588 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCAT
*
70857649 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAA
* * *
70857666 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
70857731 G
66 G
70857732 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
78 37 0.30
79 54 0.43
80 33 0.26
81 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:70857753 original size:79 final size:79
Alignment explanation
Indices: 70857561--70857763 Score: 202
Period size: 79 Copynumber: 2.6 Consensus size: 79
70857551 GGACTAAGAT
** * *
70857561 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTACGAGATACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTACGAGATACT
*
70857624 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
** * *
70857639 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTACGAGA-TACT
*
70857703 -ATAACCGGGCTATGTC
65 AAT-ACCGGGCTAAG-C
* * *
70857719 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAG
70857764 ATACGTGATT
Statistics
Matches: 108, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
77 1 0.01
78 37 0.34
79 45 0.42
80 25 0.23
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTACGAGATACTA
ATACCGGGCTAAGC
Found at i:70863063 original size:79 final size:81
Alignment explanation
Indices: 70862961--70863144 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
70862951 GCTCCTCGTT
* *
70862961 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
70863023 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
70863041 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
70863105 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
70863121 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
70863145 CATCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:70863078 original size:39 final size:41
Alignment explanation
Indices: 70862961--70863144 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
70862951 GCTCCTCGTT
* *
70862961 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
70863001 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
70863041 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
70863080 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
70863121 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
70863145 CATCATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:70869045 original size:43 final size:43
Alignment explanation
Indices: 70868973--70869100 Score: 163
Period size: 43 Copynumber: 3.0 Consensus size: 43
70868963 TAGGATTTTT
70868973 GATATGTGTTCTCATGTAAGACCAC-GTCTGGGATGTTGGCATC
1 GATATGTGTTCTCATGTAAGACC-CTGTCTGGGATGTTGGCATC
* *
70869016 GATATGTGTTCTCATGTAGGACCCTGTCTGGGAAAG-TGGCATC
1 GATATGTGTTCTCATGTAAGACCCTGTCTGGG-ATGTTGGCATC
* * *
70869059 GATGTGTGATT-ACATGTAAGACCATGTCTGGGATGTTGGCAT
1 GATATGTG-TTCTCATGTAAGACCCTGTCTGGGATGTTGGCAT
70869101 TGTACGATAT
Statistics
Matches: 74, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
42 3 0.04
43 67 0.91
44 4 0.05
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (43 bp):
GATATGTGTTCTCATGTAAGACCCTGTCTGGGATGTTGGCATC
Found at i:70870997 original size:48 final size:48
Alignment explanation
Indices: 70870867--70870998 Score: 167
Period size: 48 Copynumber: 2.8 Consensus size: 48
70870857 TAAAGTACCA
* * * * ***
70870867 ATGCCATGTCCCCGACATGGTCTTACATGAA-CTCACATATCATCGTTG
1 ATGCCATGTCCCAGACATGGTCTTACA-CAAGCACATATATCATCACCG
* *
70870915 ATGCCATGTCCCAAACATGGTCTTACACAGGCACATATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCACCG
70870963 ATGCCATGTCCCAGACATGGTCTTACACAAGCACAT
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACAT
70870999 TTTGTAACGC
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
47 1 0.01
48 71 0.99
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCACCG
Found at i:70872367 original size:46 final size:47
Alignment explanation
Indices: 70872261--70872381 Score: 145
Period size: 46 Copynumber: 2.5 Consensus size: 47
70872251 TGTCTTCGAC
** * *
70872261 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
70872311 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
70872357 ATGGACTTACATGGCTCATTTCTGT
1 ATGGACTTACATGGCTCATTCCTGT
70872382 TCTGTCCTGT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 33 0.52
50 30 0.48
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:70877951 original size:46 final size:47
Alignment explanation
Indices: 70877846--70877966 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 47
70877836 TGTCTTCGAC
** * * *
70877846 ATGGACTTACATGAATTATTCCTGTCTCCAATGCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGC--ACATATATCTAAT
*
70877895 ATAGG-CTTACATGGCTCATTCCTGTCTCCAAAGC-CATATATCTGAT
1 AT-GGACTTACATGGCTCATTCCTGTCTCCAAAGCACATATATCTAAT
*
70877941 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
70877967 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
45 2 0.03
46 32 0.51
49 27 0.43
50 2 0.03
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCACATATATCTAAT
Found at i:70892670 original size:30 final size:30
Alignment explanation
Indices: 70892636--70892695 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
70892626 CCCTAATATG
70892636 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
70892666 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
70892696 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:70902248 original size:43 final size:43
Alignment explanation
Indices: 70902201--70902282 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
70902191 TCGATTAACG
*
70902201 ATGCCAATATCCTAGACATGGTCTTACACATAATCACAATACA
1 ATGCCAATATCCCAGACATGGTCTTACACATAATCACAATACA
* **
70902244 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
1 ATGCCAATATCCCAGACATGGTCTTACACATAATCACAA
70902283 CTCGATAACC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.26
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACACATAATCACAATACA
Found at i:70905984 original size:46 final size:46
Alignment explanation
Indices: 70905912--70906040 Score: 197
Period size: 46 Copynumber: 2.8 Consensus size: 46
70905902 TGTAACCCGC
*
70905912 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCAT
* * *
70905958 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
70906004 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
70906041 TGCTCAACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
45 2 0.03
46 75 0.97
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:70906059 original size:46 final size:45
Alignment explanation
Indices: 70905917--70906059 Score: 139
Period size: 46 Copynumber: 3.1 Consensus size: 45
70905907 CCCGCCCATA
* * *
70905917 AGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GGATGTTCACCATCC-T
** **
70905962 GAGTGAACTCGGACTCAACTCAACGAGTTCGGACATT-TGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
*
70906008 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTC-ACCATCCT
70906055 AGTGA
1 AGTGA
70906060 CATGCCACTT
Statistics
Matches: 85, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
45 2 0.02
46 77 0.91
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCCT
Found at i:70906191 original size:35 final size:35
Alignment explanation
Indices: 70906142--70906211 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
70906132 TTCTACGGAA
*
70906142 TGCCGTTACCGATACTCGGTAGTATTTCACATTTT
1 TGCCGATACCGATACTCGGTAGTATTTCACATTTT
*
70906177 TGCCGATACTGATACTCGGTAGTATTTCACATTTT
1 TGCCGATACCGATACTCGGTAGTATTTCACATTTT
70906212 CCAAGTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (35 bp):
TGCCGATACCGATACTCGGTAGTATTTCACATTTT
Found at i:70906606 original size:72 final size:72
Alignment explanation
Indices: 70906489--70906636 Score: 296
Period size: 72 Copynumber: 2.1 Consensus size: 72
70906479 AATTGACCCA
70906489 AAATCATATTTGGAAAAATTACAATTTTGCCCCTAAACTTTTGTATATTTACACTTTTGCCCCAA
1 AAATCATATTTGGAAAAATTACAATTTTGCCCCTAAACTTTTGTATATTTACACTTTTGCCCCAA
70906554 AGCTCGT
66 AGCTCGT
70906561 AAATCATATTTGGAAAAATTACAATTTTGCCCCTAAACTTTTGTATATTTACACTTTTGCCCCAA
1 AAATCATATTTGGAAAAATTACAATTTTGCCCCTAAACTTTTGTATATTTACACTTTTGCCCCAA
70906626 AGCTCGT
66 AGCTCGT
70906633 AAAT
1 AAAT
70906637 TAAACTTCAT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 76 1.00
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.37
Consensus pattern (72 bp):
AAATCATATTTGGAAAAATTACAATTTTGCCCCTAAACTTTTGTATATTTACACTTTTGCCCCAA
AGCTCGT
Found at i:70911539 original size:43 final size:43
Alignment explanation
Indices: 70911474--70911584 Score: 161
Period size: 43 Copynumber: 2.6 Consensus size: 43
70911464 CCACTATCCT
* * * *
70911474 AGACAGGGTCTTACATGAAATCA-ATTAACAATGCTAATGTCCC
1 AGACATGGTCTTACATGTAATCACAAT-ACAATACTAATGTCCC
*
70911517 AGACATGGTCTTACACGTAATCACAATACAATACTAATGTCCC
1 AGACATGGTCTTACATGTAATCACAATACAATACTAATGTCCC
70911560 AGACATGGTCTTACATGTAATCACA
1 AGACATGGTCTTACATGTAATCACA
70911585 TCTTGATAAC
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 59 0.97
44 2 0.03
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (43 bp):
AGACATGGTCTTACATGTAATCACAATACAATACTAATGTCCC
Found at i:70918970 original size:43 final size:42
Alignment explanation
Indices: 70918835--70918983 Score: 135
Period size: 43 Copynumber: 3.5 Consensus size: 42
70918825 TGTGTTATCC
*
70918835 TGTAAGACCAC-GTTTGGGAC-GTTGGCATCG-ACTTATGATTTACA
1 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGTA-TT-TGA-TTACA
* * ***
70918879 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTTG
1 TGTAAGACCCTGTCTGGGACAGTGGCATCGTATTTGATTACA
* *
70918921 TCTAAGACCCTGTCTGGGACAGTGGCATTGATATTTGATTACA
1 TGTAAGACCCTGTCTGGGACAGTGGCATCG-TATTTGATTACA
70918964 TGTAAGACCAC-GTCTGGGAC
1 TGTAAGACC-CTGTCTGGGAC
70918984 GTTGGCCTTG
Statistics
Matches: 86, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
42 28 0.33
43 29 0.34
44 28 0.33
45 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (42 bp):
TGTAAGACCCTGTCTGGGACAGTGGCATCGTATTTGATTACA
Done.