Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167826.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 36299135
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Warning! 357000 characters in sequence are not A, C, G, or T
File 31 of 402
Found at i:6671453 original size:63 final size:65
Alignment explanation
Indices: 6671373--6671521 Score: 202
Period size: 63 Copynumber: 2.3 Consensus size: 65
6671363 GTATAGTATG
*
6671373 TTATT-TTATATTATTATTATAGTACA-GCATATTATATTA-TATTAT--TATATTTATTATTTT
1 TTATTATTATATTATTATTATAGTACATG-ATATTATATTATTATTATAGTATA-TTATTATTAT
6671433 TA
64 TA
*
6671435 -TATTAATTATATTATTATTATAGTATATGATATTATATTATTATTATAGTATATTATTATTATT
1 TTATT-ATTATATTATTATTATAGTACATGATATTATATTATTATTATAGTATATTATTATTATT
6671499 A
65 A
6671500 TTATTATTATTATTATTATTAT
1 TTATTATTA-TATTATTATTAT
6671522 TATTATTATT
Statistics
Matches: 77, Mismatches: 2, Indels: 12
0.85 0.02 0.13
Matches are distributed among these distances:
61 4 0.05
63 31 0.40
64 7 0.09
65 15 0.19
66 20 0.26
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (65 bp):
TTATTATTATATTATTATTATAGTACATGATATTATATTATTATTATAGTATATTATTATTATTA
Found at i:6683409 original size:38 final size:38
Alignment explanation
Indices: 6683358--6683436 Score: 133
Period size: 38 Copynumber: 2.1 Consensus size: 38
6683348 GCCATCCATA
*
6683358 TACACCTTTATTTTGTTCT-TGTACCATCATTTATAATT
1 TACACCTTTATTTTGTTCTAT-TACCACCATTTATAATT
6683396 TACACCTTTATTTTGTTCTATTACCACCATTTATAATT
1 TACACCTTTATTTTGTTCTATTACCACCATTTATAATT
6683434 TAC
1 TAC
6683437 TTCTTATCCT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 38 0.97
39 1 0.03
ACGTcount: A:0.25, C:0.20, G:0.04, T:0.51
Consensus pattern (38 bp):
TACACCTTTATTTTGTTCTATTACCACCATTTATAATT
Found at i:6683477 original size:56 final size:56
Alignment explanation
Indices: 6683408--6683521 Score: 212
Period size: 56 Copynumber: 2.0 Consensus size: 56
6683398 CACCTTTATT
6683408 TTGTTCTATTACCACCATTTATAATTTACTTCTTATCCTAATAACTTATATTCATC
1 TTGTTCTATTACCACCATTTATAATTTACTTCTTATCCTAATAACTTATATTCATC
6683464 TTGTTCT-TGTACCACCATTTATAATTTACTTCTTATCCTAATAACTTATATTCATC
1 TTGTTCTAT-TACCACCATTTATAATTTACTTCTTATCCTAATAACTTATATTCATC
6683520 TT
1 TT
6683522 ATTTATGTTC
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
55 1 0.02
56 56 0.98
ACGTcount: A:0.27, C:0.21, G:0.03, T:0.49
Consensus pattern (56 bp):
TTGTTCTATTACCACCATTTATAATTTACTTCTTATCCTAATAACTTATATTCATC
Found at i:6683513 original size:27 final size:27
Alignment explanation
Indices: 6683426--6683513 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 27
6683416 TTACCACCAT
6683426 TTATAATTTACTTCTTATCCTAATAAC
1 TTATAATTTACTTCTTATCCTAATAAC
* * * ** ** *
6683453 TTAT-ATTCATCTTGTTCTTGTACCACCAT
1 TTATAATTTA-CTTCTTATCCTA--ATAAC
6683482 TTATAATTTACTTCTTATCCTAATAAC
1 TTATAATTTACTTCTTATCCTAATAAC
6683509 TTATA
1 TTATA
6683514 TTCATCTTAT
Statistics
Matches: 41, Mismatches: 16, Indels: 8
0.63 0.25 0.12
Matches are distributed among these distances:
26 4 0.10
27 19 0.46
29 14 0.34
30 4 0.10
ACGTcount: A:0.30, C:0.19, G:0.02, T:0.49
Consensus pattern (27 bp):
TTATAATTTACTTCTTATCCTAATAAC
Found at i:6684476 original size:57 final size:57
Alignment explanation
Indices: 6684252--6684528 Score: 195
Period size: 56 Copynumber: 4.9 Consensus size: 57
6684242 TACAATCCCG
** * * * **
6684252 ATCATTTGACCTCGACTCAGCCCAGGTTAGTTTTTTCAAACTTATGGTTCAATC-CTA
1 ATCATTTGACCTCGACTCAATCCAGGTCAGTTTTTCCAGACTTACAGTTCAATCTC-A
* * * *
6684309 ATCATTTGACCTCAACTCGATCCATGTTAG-TTTTCCAGACTTACAGTTCAATCTCA
1 ATCATTTGACCTCGACTCAATCCAGGTCAGTTTTTCCAGACTTACAGTTCAATCTCA
* * ** * * * ** * *
6684365 GTCATTCGATTTTGGCTCAATCCAGATCA-TTTTTTAAGACTTGCAATTCAATCTCA
1 ATCATTTGACCTCGACTCAATCCAGGTCAGTTTTTCCAGACTTACAGTTCAATCTCA
** * * * *
6684421 ATCATTTGACCTCGACTCGGTCTAGGTCAGTTTTTCCAGACTTACGGTTTAATCTCG
1 ATCATTTGACCTCGACTCAATCCAGGTCAGTTTTTCCAGACTTACAGTTCAATCTCA
* * * * * *
6684478 ATCATCTAACCTCGACTTAATTCAGGTTAGTTATTT--AGACTTACGGTTCAA
1 ATCATTTGACCTCGACTCAATCCAGGTCAGTT-TTTCCAGACTTACAGTTCAA
6684529 CCCTGGTTGT
Statistics
Matches: 166, Mismatches: 50, Indels: 9
0.74 0.22 0.04
Matches are distributed among these distances:
56 93 0.56
57 70 0.42
58 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.37
Consensus pattern (57 bp):
ATCATTTGACCTCGACTCAATCCAGGTCAGTTTTTCCAGACTTACAGTTCAATCTCA
Found at i:6684926 original size:3 final size:3
Alignment explanation
Indices: 6684908--6685058 Score: 149
Period size: 3 Copynumber: 52.3 Consensus size: 3
6684898 TAGTATAGCA
* * *
6684908 TAT TAT ATAG TAT TAT TAT TTT TAT TAC TAT TA- TAT TA- TAT TA-
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
6684951 TAT TAT TAT TA- TAG TA- TAT GA- TAT TA- TAT TAT TAT TAT GGTA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT --TAT
*
6684993 TAT TA- TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
6685040 TAT TAT TAT TGT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
6685059 TTTCTTTTCT
Statistics
Matches: 124, Mismatches: 12, Indels: 24
0.77 0.08 0.15
Matches are distributed among these distances:
2 17 0.14
3 103 0.83
4 2 0.02
5 2 0.02
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:6685862 original size:18 final size:18
Alignment explanation
Indices: 6685836--6685874 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
6685826 CTCGTAGGTT
*
6685836 TTTCTTTTTCTATTTTAA
1 TTTCATTTTCTATTTTAA
* *
6685854 TTTCATTTTTTATTTTGA
1 TTTCATTTTCTATTTTAA
6685872 TTT
1 TTT
6685875 TTATTTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTCATTTTCTATTTTAA
Found at i:6685900 original size:24 final size:24
Alignment explanation
Indices: 6685864--6685909 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
6685854 TTTCATTTTT
*
6685864 TATTTTGA-TTTTTATTTATTTTCA
1 TATTTTAAGTTTTTATTT-TTTTCA
6685888 TATTTTAAGTTTTTATTTTTTT
1 TATTTTAAGTTTTTATTTTTTT
6685910 GGTTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (24 bp):
TATTTTAAGTTTTTATTTTTTTCA
Found at i:6690668 original size:10 final size:11
Alignment explanation
Indices: 6690653--6690678 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6690643 ATTTTATTGC
6690653 CTTTTTCCAAA
1 CTTTTTCCAAA
6690664 CTTTTTCCAAA
1 CTTTTTCCAAA
6690675 CTTT
1 CTTT
6690679 ATCCTATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.27, G:0.00, T:0.50
Consensus pattern (11 bp):
CTTTTTCCAAA
Found at i:6697983 original size:15 final size:15
Alignment explanation
Indices: 6697965--6698013 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
6697955 AACCAATGAG
6697965 GCCTAATTTAATTAA
1 GCCTAATTTAATTAA
**
6697980 GCCTAATCCAA-TAA
1 GCCTAATTTAATTAA
*
6697994 GCCTAATTTAATCAA
1 GCCTAATTTAATTAA
6698009 GCCTA
1 GCCTA
6698014 GTTATTTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (15 bp):
GCCTAATTTAATTAA
Found at i:6698067 original size:21 final size:22
Alignment explanation
Indices: 6698042--6698082 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
6698032 ATATTTATCA
6698042 TATTTCATTTA-TTTGTTTGTT
1 TATTTCATTTATTTTGTTTGTT
*
6698063 TATTTGATTTATTTTGTTTG
1 TATTTCATTTATTTTGTTTG
6698083 ATTTTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.15, C:0.02, G:0.12, T:0.71
Consensus pattern (22 bp):
TATTTCATTTATTTTGTTTGTT
Found at i:6699097 original size:8 final size:8
Alignment explanation
Indices: 6699086--6699151 Score: 60
Period size: 8 Copynumber: 7.8 Consensus size: 8
6699076 ATTTTGGTAT
6699086 TTTTTTTA
1 TTTTTTTA
6699094 TTTTTTTA
1 TTTTTTTA
*
6699102 TGGTTTTTA
1 T-TTTTTTA
*
6699111 TTTATTTA
1 TTTTTTTA
6699119 TTTTTGTTTA
1 -TTTT-TTTA
*
6699129 TGTTATTTA
1 T-TTTTTTA
*
6699138 TTTATTTA
1 TTTTTTTA
6699146 TTTTTT
1 TTTTTT
6699152 AAAAGTATTC
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
8 26 0.54
9 16 0.33
10 6 0.12
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (8 bp):
TTTTTTTA
Found at i:6699116 original size:4 final size:4
Alignment explanation
Indices: 6699107--6699152 Score: 53
Period size: 4 Copynumber: 12.0 Consensus size: 4
6699097 TTTTATGGTT
*
6699107 TTTA TTTA TTTA -TT- TTTG TTTA TGTTA TTTA TTTA TTTA TTT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA
6699153 AAAGTATTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
3 7 0.19
4 26 0.70
5 4 0.11
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:6699134 original size:15 final size:14
Alignment explanation
Indices: 6699083--6699150 Score: 61
Period size: 14 Copynumber: 4.8 Consensus size: 14
6699073 TTTATTTTGG
6699083 TATTT-TTTTTATT
1 TATTTATTTTTATT
*
6699096 TTTTTATGGTTTTTATT
1 TATTTA---TTTTTATT
*
6699113 TATTTATTTTTGTT
1 TATTTATTTTTATT
6699127 TATGTTA--TTTATT
1 TAT-TTATTTTTATT
6699140 TATTTATTTTT
1 TATTTATTTTT
6699151 TAAAAGTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
12 3 0.07
13 12 0.27
14 13 0.30
15 3 0.07
17 13 0.30
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (14 bp):
TATTTATTTTTATT
Found at i:6699137 original size:27 final size:26
Alignment explanation
Indices: 6699090--6699151 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 26
6699080 TGGTATTTTT
6699090 TTTA-TTTTTTTATGGTTTTTATTTA
1 TTTATTTTTTTTATGGTTTTTATTTA
6699115 TTTATTTTTGTTTAT-GTTATTTATTTA
1 TTTATTTTT-TTTATGGTT-TTTATTTA
6699142 TTTATTTTTT
1 TTTATTTTTT
6699152 AAAAGTATTC
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
25 4 0.12
26 8 0.24
27 22 0.65
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.77
Consensus pattern (26 bp):
TTTATTTTTTTTATGGTTTTTATTTA
Found at i:6700617 original size:13 final size:12
Alignment explanation
Indices: 6700597--6700630 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 12
6700587 AATTAAACTA
6700597 AAAAAAAAAAAC
1 AAAAAAAAAAAC
6700609 AAAACAAAAAAAC
1 AAAA-AAAAAAAC
6700622 AAAAAAAAA
1 AAAAAAAAA
6700631 CAAAGCCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:6700619 original size:18 final size:18
Alignment explanation
Indices: 6700591--6700634 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
6700581 TTAATTAATT
6700591 AAACTAAAAAAA-AAAAACA
1 AAAC-AAAAAAACAAAAA-A
6700610 AAACAAAAAAACAAAAAA
1 AAACAAAAAAACAAAAAA
6700628 AAACAAA
1 AAACAAA
6700635 GCCAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.86, C:0.11, G:0.00, T:0.02
Consensus pattern (18 bp):
AAACAAAAAAACAAAAAA
Found at i:6701939 original size:10 final size:10
Alignment explanation
Indices: 6701893--6701949 Score: 53
Period size: 10 Copynumber: 5.4 Consensus size: 10
6701883 TTTATAAAGG
*
6701893 AAAAATAACA
1 AAAAATAATA
6701903 AAAAATATATA
1 AAAAATA-ATA
*
6701914 AATAAA-ATTA
1 AA-AAATAATA
6701924 GTAAAAATAATA
1 --AAAAATAATA
6701936 AAAAATAATA
1 AAAAATAATA
6701946 AAAA
1 AAAA
6701950 TGTAAGAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
10 23 0.59
11 8 0.21
12 8 0.21
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (10 bp):
AAAAATAATA
Found at i:6702131 original size:22 final size:22
Alignment explanation
Indices: 6702106--6702149 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
6702096 TTTCCTTTTT
6702106 TTGCTATAAAATAGTAAATAAA
1 TTGCTATAAAATAGTAAATAAA
*
6702128 TTGCTATAAAGTAGTAAATAAA
1 TTGCTATAAAATAGTAAATAAA
6702150 AAATAACTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.32
Consensus pattern (22 bp):
TTGCTATAAAATAGTAAATAAA
Found at i:6702587 original size:3 final size:3
Alignment explanation
Indices: 6702579--6702639 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
6702569 CAAAACAATG
6702579 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6702627 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
6702640 CTAAAATTTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6714398 original size:49 final size:49
Alignment explanation
Indices: 6714327--6714743 Score: 316
Period size: 49 Copynumber: 8.5 Consensus size: 49
6714317 GTTTCGAGAA
** * * * *
6714327 AAAATTTTAAAGTCATTAAGCCTTTGCTCAAAAGAGCTTTTTCAAGATG
1 AAAATTTTAAAGTTGTTGAGCCTCTACTTAAAAGAGCTTTTTCAAGATG
* **
6714376 AAAATTTTAAAGTTGTTGAGCCTCTGCTTAAAAGTATTTTTTTC-AGATG
1 AAAATTTTAAAGTTGTTGAGCCTCTACTTAAAAG-AGCTTTTTCAAGATG
* * * *
6714425 AGAATTTTAAAGCTGTTGAGCCTCTACCTAGAAGAGCTTTTTTCAA-AT-
1 AAAATTTTAAAGTTGTTGAGCCTCTACTTAAAAGAGC-TTTTTCAAGATG
* * * * * *
6714473 AAGAATTCTAAAGTT-TTAAAGCCTCTGCTTATAAGAACTTTTTCTAGATG
1 AA-AATTTTAAAGTTGTT-GAGCCTCTACTTAAAAGAGCTTTTTCAAGATG
* ** * * *
6714523 AGAATTTTTAAAGTCATTGAGCCTCTACTT-AGAGA-CACTTTTCTAGATG
1 A-AAATTTTAAAGTTGTTGAGCCTCTACTTAAAAGAGC-TTTTTCAAGATG
* * * *
6714572 AGAA--TTAATAGTTGTCGAGCCTCTACTTAGAGGAGCTTTTTTCAA-ATG
1 AAAATTTTAA-AGTTGTTGAGCCTCTACTTAAAAGAGC-TTTTTCAAGATG
* * * **
6714620 AGAATTTTAAAGTTGTTAAGCCTCTACTTATAAGAGCTTTTTTTAGATG
1 AAAATTTTAAAGTTGTTGAGCCTCTACTTAAAAGAGCTTTTTCAAGATG
* * * *
6714669 AAAATTTTTAAAATTATTGAGCCTCTACTT-AGAGACGCTTTTTC-ATATG
1 AAAA-TTTTAAAGTTGTTGAGCCTCTACTTAAAAGA-GCTTTTTCAAGATG
*
6714718 AGAATTTTAAAGTTGTTGAGCCTCTA
1 AAAATTTTAAAGTTGTTGAGCCTCTA
6714744 GAAGAGCCAT
Statistics
Matches: 291, Mismatches: 59, Indels: 37
0.75 0.15 0.10
Matches are distributed among these distances:
46 4 0.01
47 16 0.05
48 48 0.16
49 159 0.55
50 61 0.21
51 3 0.01
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (49 bp):
AAAATTTTAAAGTTGTTGAGCCTCTACTTAAAAGAGCTTTTTCAAGATG
Found at i:6714633 original size:146 final size:144
Alignment explanation
Indices: 6714329--6714743 Score: 494
Period size: 146 Copynumber: 2.8 Consensus size: 144
6714319 TTCGAGAAAA
* * * * * * *
6714329 AATTTTAAAGTCATTAAGCCTTTGCTCAAAAGAGCTTTTTCAAGATGAAAATTTTAAAGTTGTTG
1 AATTTTAAAGT-TTTAAGCCTCTGCTTATAAGAGCTTTTTCTAGATGAAATTTTTAAAGTTATTG
* * ** *
6714394 AGCCTCTGCTTAAAAGTA-TTTTTTTCAGATGAGAATTTTAAAGCTGTTGAGCCTCTACCTAGAA
65 AGCCTCTACTT-AGAG-ACACTTTTTCAGATGAGAA-TTTAAAGTTGTTGAGCCTCTACCTAGAA
6714458 GAGCTTTTTTCAAATAAG
127 GAGCTTTTTTCAAATAAG
* * *
6714476 AATTCTAAAGTTTTAAAGCCTCTGCTTATAAGAACTTTTTCTAGATGAGAATTTTTAAAGTCATT
1 AATTTTAAAGTTTT-AAGCCTCTGCTTATAAGAGCTTTTTCTAGATGA-AATTTTTAAAGTTATT
* * *
6714541 GAGCCTCTACTTAGAGACAC-TTTTCTAGATGAGAA-TTAATAGTTGTCGAGCCTCTACTTAGAG
64 GAGCCTCTACTTAGAGACACTTTTTC-AGATGAGAATTTAA-AGTTGTTGAGCCTCTACCTAGAA
*
6714604 GAGCTTTTTTCAAATGAG
127 GAGCTTTTTTCAAATAAG
* * *
6714622 AATTTTAAAGTTGTTAAGCCTCTACTTATAAGAGCTTTTTTTAGATGAAAATTTTTAAAATTATT
1 AATTTTAAAGTT-TTAAGCCTCTGCTTATAAGAGCTTTTTCTAGATG-AAATTTTTAAAGTTATT
* *
6714687 GAGCCTCTACTTAGAGACGCTTTTTCATATGAGAATTTTAAAGTTGTTGAGCCTCTA
64 GAGCCTCTACTTAGAGACACTTTTTCAGATGAGAA-TTTAAAGTTGTTGAGCCTCTA
6714744 GAAGAGCCAT
Statistics
Matches: 230, Mismatches: 28, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
145 4 0.02
146 125 0.54
147 73 0.32
148 28 0.12
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (144 bp):
AATTTTAAAGTTTTAAGCCTCTGCTTATAAGAGCTTTTTCTAGATGAAATTTTTAAAGTTATTGA
GCCTCTACTTAGAGACACTTTTTCAGATGAGAATTTAAAGTTGTTGAGCCTCTACCTAGAAGAGC
TTTTTTCAAATAAG
Found at i:6715209 original size:22 final size:21
Alignment explanation
Indices: 6715184--6715224 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
6715174 AAGAACAAAA
* *
6715184 AATACAAAGAAAAAGAAAAGCT
1 AATAAAAACAAAAA-AAAAGCT
6715206 AATAAAAACAAAAAAAAAG
1 AATAAAAACAAAAAAAAAG
6715225 AAAAAACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.76, C:0.07, G:0.10, T:0.07
Consensus pattern (21 bp):
AATAAAAACAAAAAAAAAGCT
Found at i:6715235 original size:22 final size:21
Alignment explanation
Indices: 6715169--6715235 Score: 53
Period size: 22 Copynumber: 2.9 Consensus size: 21
6715159 TTAATTAAAC
*
6715169 AAAAAAAGAACAAAAAATACAA
1 AAAAAAAGAA-AAAAAAAACAA
*
6715191 AGAAAAAGAAAAGCTAATAAAAACAA
1 AAAAAAAG-AAA---AA-AAAAACAA
6715217 AAAAAAAGAAAAAACAAAA
1 AAAAAAAGAAAAAA-AAAA
6715236 GGACCTGTGC
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
21 1 0.03
22 14 0.39
23 2 0.06
25 5 0.14
26 14 0.39
ACGTcount: A:0.81, C:0.07, G:0.07, T:0.04
Consensus pattern (21 bp):
AAAAAAAGAAAAAAAAAACAA
Found at i:6717193 original size:3 final size:3
Alignment explanation
Indices: 6717185--6717239 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
6717175 TGGAACAATG
6717185 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6717233 ATA ATA A
1 ATA ATA A
6717240 AAACTAAAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6721724 original size:15 final size:15
Alignment explanation
Indices: 6721697--6721725 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6721687 GTGAGACATT
6721697 TAAATGAAGAAAAAA
1 TAAATGAAGAAAAAA
6721712 TAAAT-AAGAAAAAA
1 TAAATGAAGAAAAAA
6721726 GTCATCCCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (15 bp):
TAAATGAAGAAAAAA
Found at i:6723623 original size:23 final size:23
Alignment explanation
Indices: 6723592--6723638 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
6723582 TTAAGATTTG
*
6723592 TAAGACCTTCG-GACTTGATCTTT
1 TAAGACCTTCGAG-CATGATCTTT
*
6723615 TAAGTCCTTCGAGCATGATCTTT
1 TAAGACCTTCGAGCATGATCTTT
6723638 T
1 T
6723639 TAAACCTCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (23 bp):
TAAGACCTTCGAGCATGATCTTT
Found at i:6724038 original size:15 final size:15
Alignment explanation
Indices: 6724020--6724111 Score: 67
Period size: 15 Copynumber: 6.1 Consensus size: 15
6724010 TTTGGTCTAA
* *
6724020 CCCAAACTAGTTAGG
1 CCCAAACCAATTAGG
6724035 CCCAAACCAATTAGG
1 CCCAAACCAATTAGG
*
6724050 CCCAAACCAATGAGG
1 CCCAAACCAATTAGG
** *** * *
6724065 CATAATTTAATCAAG
1 CCCAAACCAATTAGG
* *
6724080 CCCAAACCAGTTGGG
1 CCCAAACCAATTAGG
*
6724095 CCCAGACCAATTAGG
1 CCCAAACCAATTAGG
6724110 CC
1 CC
6724112 TAATTTAATC
Statistics
Matches: 55, Mismatches: 22, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
15 55 1.00
ACGTcount: A:0.36, C:0.30, G:0.17, T:0.16
Consensus pattern (15 bp):
CCCAAACCAATTAGG
Found at i:6724098 original size:45 final size:45
Alignment explanation
Indices: 6724034--6724144 Score: 161
Period size: 45 Copynumber: 2.5 Consensus size: 45
6724024 AACTAGTTAG
6724034 GCCCAAACCAATTAGGCCCAAACCAATGAGGCATAATTTAATCAA
1 GCCCAAACCAATTAGGCCCAAACCAATGAGGCATAATTTAATCAA
* * * * *
6724079 GCCCAAACCAGTTGGGCCCAGACCAATTAGGCCTAATTTAATCAA
1 GCCCAAACCAATTAGGCCCAAACCAATGAGGCATAATTTAATCAA
6724124 GCCCAAAACCAA-TAGGCCCAA
1 GCCC-AAACCAATTAGGCCCAA
6724145 TTTAATCAAG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 51 0.89
46 6 0.11
ACGTcount: A:0.39, C:0.30, G:0.15, T:0.16
Consensus pattern (45 bp):
GCCCAAACCAATTAGGCCCAAACCAATGAGGCATAATTTAATCAA
Found at i:6724140 original size:30 final size:31
Alignment explanation
Indices: 6724100--6724160 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 31
6724090 TTGGGCCCAG
*
6724100 ACCAATTAGGCCTAATTTAATCAAGCCCAAA
1 ACCAATTAGGCCCAATTTAATCAAGCCCAAA
6724131 ACCAA-TAGGCCCAATTTAATCAAGCCCAAA
1 ACCAATTAGGCCCAATTTAATCAAGCCCAAA
6724161 CTAGTTGGGC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 24 0.83
31 5 0.17
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.20
Consensus pattern (31 bp):
ACCAATTAGGCCCAATTTAATCAAGCCCAAA
Found at i:6724206 original size:74 final size:75
Alignment explanation
Indices: 6724049--6724233 Score: 284
Period size: 74 Copynumber: 2.5 Consensus size: 75
6724039 AACCAATTAG
** *
6724049 GCCC-AAACCAATGAGGCATAATTTAATCAAGCCCAAACCAGTTGGGCCCAGACCAATTAGGCCT
1 GCCCAAAACCAAT-AGGCCCAATTTAATCAAGCCCAAACCAGTTGGGCCCAGAACAATTAGGCCT
6724113 AATTTAATCAA
65 AATTTAATCAA
*
6724124 GCCCAAAACCAATAGGCCCAATTTAATCAAGCCCAAACTAGTTGGGCCCA-AACAATTAGGCCTA
1 GCCCAAAACCAATAGGCCCAATTTAATCAAGCCCAAACCAGTTGGGCCCAGAACAATTAGGCCTA
6724188 ATTTAATCAA
66 ATTTAATCAA
* * *
6724198 GCCTAAAACTAATAGGCCCGATTTAATCAAGCCCAA
1 GCCCAAAACCAATAGGCCCAATTTAATCAAGCCCAA
6724234 TTATTTTATC
Statistics
Matches: 102, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
74 56 0.55
75 38 0.37
76 8 0.08
ACGTcount: A:0.38, C:0.27, G:0.15, T:0.20
Consensus pattern (75 bp):
GCCCAAAACCAATAGGCCCAATTTAATCAAGCCCAAACCAGTTGGGCCCAGAACAATTAGGCCTA
ATTTAATCAA
Found at i:6724286 original size:21 final size:22
Alignment explanation
Indices: 6724252--6724293 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
6724242 TCCGTACTCA
6724252 TATTTATTATATTTCATTTATC
1 TATTTATTATATTTCATTTATC
* *
6724274 TATTTGTT-TATTTGATTTAT
1 TATTTATTATATTTCATTTAT
6724294 TTTGTTTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.67
Consensus pattern (22 bp):
TATTTATTATATTTCATTTATC
Found at i:6724303 original size:14 final size:14
Alignment explanation
Indices: 6724284--6724310 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6724274 TATTTGTTTA
6724284 TTTGATTTATTTTG
1 TTTGATTTATTTTG
6724298 TTTGATTTATTTT
1 TTTGATTTATTTT
6724311 TAATTCCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.11, T:0.74
Consensus pattern (14 bp):
TTTGATTTATTTTG
Found at i:6725356 original size:4 final size:4
Alignment explanation
Indices: 6725349--6725395 Score: 55
Period size: 4 Copynumber: 12.0 Consensus size: 4
6725339 TTTTATGGTT
6725349 TTTA TTTA TTTA -TT- TTTA TTTTA TGTTA TTTA TTTA TTTA TTT- TTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA T-TTA TTTA TTTA TTTA TTTA TTTA
6725396 CAAGTATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
3 7 0.18
4 23 0.61
5 8 0.21
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:6725373 original size:28 final size:28
Alignment explanation
Indices: 6725339--6725393 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
6725329 TGGAGTTTGT
6725339 TTTTATGGTT-TTTATTTATTTATTTTTA
1 TTTTAT-GTTATTTATTTATTTATTTTTA
6725367 TTTTATGTTATTTATTTATTTATTTTT
1 TTTTATGTTATTTATTTATTTATTTTT
6725394 TACAAGTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 3 0.12
28 23 0.88
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (28 bp):
TTTTATGTTATTTATTTATTTATTTTTA
Found at i:6725377 original size:24 final size:24
Alignment explanation
Indices: 6725350--6725395 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
6725340 TTTATGGTTT
6725350 TTATTTATTTATTT-TTATTTTATG
1 TTATTTATTTATTTATT-TTTTATG
6725374 TTATTTATTTATTTATTTTTTA
1 TTATTTATTTATTTATTTTTTA
6725396 CAAGTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (24 bp):
TTATTTATTTATTTATTTTTTATG
Found at i:6728031 original size:23 final size:23
Alignment explanation
Indices: 6728005--6728049 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6727995 ATTAATTTTA
6728005 ATAAATCAA-TAAATTATTTAATG
1 ATAAAT-AATTAAATTATTTAATG
* *
6728028 ATAAGTAATTAAATTTTTTAAT
1 ATAAATAATTAAATTATTTAAT
6728050 AATATAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (23 bp):
ATAAATAATTAAATTATTTAATG
Found at i:6729652 original size:3 final size:3
Alignment explanation
Indices: 6729644--6729669 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6729634 CTCTTTGTCA
6729644 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
6729670 ATATTGGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6730999 original size:25 final size:25
Alignment explanation
Indices: 6730957--6731015 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 25
6730947 CCAAAACATT
* *
6730957 TAAAAATATTAAAAATTTATAAAAA
1 TAAAAAAATGAAAAATTTATAAAAA
* * *
6730982 TAAAAAAATGAAATATTTTTAAAAT
1 TAAAAAAATGAAAAATTTATAAAAA
*
6731007 TATAAAAAT
1 TAAAAAAAT
6731016 TATGATAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (25 bp):
TAAAAAAATGAAAAATTTATAAAAA
Found at i:6731054 original size:26 final size:27
Alignment explanation
Indices: 6730999--6731058 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
6730989 ATGAAATATT
* *
6730999 TTTAA-AATTATAAAAATTATGATAAT
1 TTTAATAATTATAAAAAATATGATAAA
6731025 TTTAATAATT-TAAAAAATATGGA-AAA
1 TTTAATAATTATAAAAAATAT-GATAAA
6731051 TTTAATAA
1 TTTAATAA
6731059 AAATCCAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 24 0.80
27 6 0.20
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (27 bp):
TTTAATAATTATAAAAAATATGATAAA
Found at i:6731155 original size:9 final size:9
Alignment explanation
Indices: 6731143--6731272 Score: 63
Period size: 9 Copynumber: 13.9 Consensus size: 9
6731133 CTTAAAAAAC
6731143 TAAAAATTT
1 TAAAAATTT
*
6731152 TAAAATTTT
1 TAAAAATTT
6731161 TAAAAATTT
1 TAAAAATTT
* *
6731170 TTAAATTTT
1 TAAAAATTT
6731179 TAAAAAATTCT
1 T-AAAAATT-T
*
6731190 AAAAAATTTT
1 TAAAAA-TTT
* *
6731200 TGAAATTTT
1 TAAAAATTT
6731209 TGAAAAA--T
1 T-AAAAATTT
6731217 TAAATAA-TT
1 TAAA-AATTT
*
6731226 TCAAAATTT
1 TAAAAATTT
*
6731235 TGAAACATTCT
1 T-AAAAATT-T
6731246 T--AAATTT
1 TAAAAATTT
6731253 TAACACAATTT
1 TAA-A-AATTT
6731264 TGAAAAATT
1 T-AAAAATT
6731273 AAAGATAAAA
Statistics
Matches: 91, Mismatches: 16, Indels: 27
0.68 0.12 0.20
Matches are distributed among these distances:
7 5 0.05
8 10 0.11
9 35 0.38
10 27 0.30
11 12 0.13
12 2 0.02
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (9 bp):
TAAAAATTT
Found at i:6731166 original size:18 final size:18
Alignment explanation
Indices: 6731143--6731184 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
6731133 CTTAAAAAAC
6731143 TAAAAATTTTAAAATTTT
1 TAAAAATTTTAAAATTTT
*
6731161 TAAAAATTTTTAAATTTT
1 TAAAAATTTTAAAATTTT
6731179 TAAAAA
1 TAAAAA
6731185 ATTCTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAAAATTTTAAAATTTT
Found at i:6731168 original size:10 final size:10
Alignment explanation
Indices: 6731143--6731217 Score: 70
Period size: 10 Copynumber: 7.8 Consensus size: 10
6731133 CTTAAAAAAC
6731143 TAAAAA-TTT
1 TAAAAATTTT
6731152 T-AAAATTTT
1 TAAAAATTTT
6731161 TAAAAATTTT
1 TAAAAATTTT
6731171 T--AAATTTT
1 TAAAAATTTT
*
6731179 TAAAAAATTCT
1 T-AAAAATTTT
*
6731190 AAAAAATTTT
1 TAAAAATTTT
*
6731200 T-GAAATTTT
1 TAAAAATTTT
6731209 TGAAAAATT
1 T-AAAAATT
6731218 AAATAATTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
8 12 0.23
9 13 0.25
10 17 0.32
11 11 0.21
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (10 bp):
TAAAAATTTT
Found at i:6731192 original size:18 final size:18
Alignment explanation
Indices: 6731144--6731192 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
6731134 TTAAAAAACT
6731144 AAAAATTTTAAAATTTTTA
1 AAAAATTTT-AAATTTTTA
*
6731163 AAAATTTTTAAATTTTTA
1 AAAAATTTTAAATTTTTA
*
6731181 AAAAATTCTAAA
1 AAAAATTTTAAA
6731193 AAATTTTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 19 0.70
19 8 0.30
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
AAAAATTTTAAATTTTTA
Found at i:6731524 original size:19 final size:18
Alignment explanation
Indices: 6731491--6731554 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
6731481 AAATATTTAG
**
6731491 ATTTTTTGGAATTTTATA
1 ATTTTTTGTTATTTTATA
* *
6731509 ATTTTTTTTTAGTTTTAAAA
1 ATTTTTTGTTA-TTTT-ATA
*
6731529 ATTTTTTGTTATTTTTTAA
1 ATTTTTTGTTATTTTAT-A
6731548 ATTTTTT
1 ATTTTTT
6731555 AAAATTTCTT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
18 8 0.22
19 16 0.44
20 12 0.33
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
ATTTTTTGTTATTTTATA
Found at i:6731545 original size:21 final size:20
Alignment explanation
Indices: 6731508--6731554 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
6731498 GGAATTTTAT
*
6731508 AATTTTTTTTTAGTTTTAAA
1 AATTTTTTGTTAGTTTTAAA
**
6731528 AATTTTTTGTTA-TTTTTTA
1 AATTTTTTGTTAGTTTTAAA
6731547 AATTTTTT
1 AATTTTTT
6731555 AAAATTTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (20 bp):
AATTTTTTGTTAGTTTTAAA
Found at i:6732364 original size:71 final size:70
Alignment explanation
Indices: 6732253--6732531 Score: 240
Period size: 71 Copynumber: 3.9 Consensus size: 70
6732243 ATATTTTCAC
* * * * *
6732253 AAATTTAGAATTTTAACAAAGATAGCATTTTTAA-AGTAAGAAAAGTAGTGGATG-TAAAATTTT
1 AAATTTAAAATTTTAATAAAAAT-GTATTTTTAAGA-TAAGAAAA-TAGTGGATGTTGAAATTTT
6732316 ATTTTTGA
63 ATTTTTGA
* * * *
6732324 AAATTTAAAATTTTAGTAAAAATCATATTTTTAAGATAAGAACCATAGTAGATGTTGAAATTTTA
1 AAATTTAAAATTTTAATAAAAAT-GTATTTTTAAGATAAGAA-AATAGTGGATGTTGAAATTTTA
*
6732389 -TTTTCA
64 TTTTTGA
* * * * * *
6732395 AAATTTTGAAATGTTAATAAAAATGTATTTCTAAGATAAGAAATATTGTGGATGTTGAAGTTTTG
1 AAA-TTTAAAATTTTAATAAAAATGTATTTTTAAGATAAGAAA-ATAGTGGATGTTGAAATTTTA
6732460 TTTTTGA
64 TTTTTGA
* * * * * * *
6732467 AATTTTAAAAATTTAACAAATATTGTGTTTTTAAGATAAGAATGATAGTAGATGTTGAAACTTTT
1 AAATTTAAAATTTTAATAAA-AATGTATTTTTAAGATAAGAA-AATAGTGGATGTTGAAA-TTTT
6732532 CAAAAACTTA
Statistics
Matches: 165, Mismatches: 34, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
71 95 0.58
72 66 0.40
73 4 0.02
ACGTcount: A:0.42, C:0.03, G:0.14, T:0.41
Consensus pattern (70 bp):
AAATTTAAAATTTTAATAAAAATGTATTTTTAAGATAAGAAAATAGTGGATGTTGAAATTTTATT
TTTGA
Found at i:6732678 original size:20 final size:23
Alignment explanation
Indices: 6732635--6732676 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
6732625 TGTTTTACTT
6732635 AATATTATTACATATAAAATTTA
1 AATATTATTACATATAAAATTTA
*
6732658 AATATTTTTAC-T-TAAAATT
1 AATATTATTACATATAAAATT
6732677 AATACTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 1 0.06
23 10 0.56
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (23 bp):
AATATTATTACATATAAAATTTA
Found at i:6733253 original size:30 final size:30
Alignment explanation
Indices: 6733230--6733328 Score: 96
Period size: 30 Copynumber: 3.4 Consensus size: 30
6733220 TATTTAAGTG
*
6733230 TAAATTAAAAGTTAAAAACTTATTTAGATA
1 TAAATTAAAAATTAAAAACTTATTTAGATA
*
6733260 TAAATTAAAAATTAAAAATTTATTT-GAATA
1 TAAATTAAAAATTAAAAACTTATTTAG-ATA
* * * **
6733290 AAAATTAAATATCAAAATTTTATTT--ATA
1 TAAATTAAAAATTAAAAACTTATTTAGATA
*
6733318 TAAATAAAAAA
1 TAAATTAAAAA
6733329 ATATAAATTA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
28 11 0.19
29 1 0.02
30 47 0.80
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (30 bp):
TAAATTAAAAATTAAAAACTTATTTAGATA
Found at i:6733336 original size:29 final size:30
Alignment explanation
Indices: 6733249--6733337 Score: 78
Period size: 30 Copynumber: 3.0 Consensus size: 30
6733239 AGTTAAAAAC
* * *
6733249 TTATTTAGATATAAATTAAAAATTA-AAAAT
1 TTATTT-GATATAAATAAAAAAATATAAATT
**
6733279 TTATTTGA-ATAAA-AATTAAATATCAAAATT
1 TTATTTGATATAAATAAAAAAATAT--AAATT
6733309 TTATTT-ATATAAATAAAAAAATATAAATT
1 TTATTTGATATAAATAAAAAAATATAAATT
6733338 AATTATCTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
27 5 0.11
28 5 0.11
29 8 0.17
30 21 0.45
31 8 0.17
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.40
Consensus pattern (30 bp):
TTATTTGATATAAATAAAAAAATATAAATT
Found at i:6738154 original size:23 final size:24
Alignment explanation
Indices: 6738126--6738170 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
6738116 CTGAAATCAC
*
6738126 TTTATT-TCATTAAAAATCATTAA
1 TTTATTATAATTAAAAATCATTAA
6738149 TTTATTATAATTAAAAATCATT
1 TTTATTATAATTAAAAATCATT
6738171 GTATTTGGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (24 bp):
TTTATTATAATTAAAAATCATTAA
Found at i:6740192 original size:22 final size:22
Alignment explanation
Indices: 6740164--6740206 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
6740154 TTGTGTGTGC
*
6740164 AAAATAAATATATGAAT-TAAAA
1 AAAAT-AATACATGAATATAAAA
6740186 AAAATAATACATGAATATAAA
1 AAAATAATACATGAATATAAA
6740207 GTTAGAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (22 bp):
AAAATAATACATGAATATAAAA
Found at i:6743167 original size:2 final size:2
Alignment explanation
Indices: 6743149--6743188 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
6743139 ACCTAAGTGT
* * *
6743149 TA TA TA AA TA TA AA TA TA TA TA CA 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
6743189 AGAGTGTAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (2 bp):
TA
Found at i:6743478 original size:20 final size:20
Alignment explanation
Indices: 6743442--6743479 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6743432 TTTAAATGAA
*
6743442 TTTTTTTATTATCAGACTTT
1 TTTTTTTATAATCAGACTTT
*
6743462 TTTTTTTATAATTAGACT
1 TTTTTTTATAATCAGACT
6743480 AAAAATTTAC
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:0.24, C:0.08, G:0.05, T:0.63
Consensus pattern (20 bp):
TTTTTTTATAATCAGACTTT
Found at i:6744704 original size:17 final size:17
Alignment explanation
Indices: 6744661--6744704 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
6744651 ATTTTAATAC
6744661 TTTTATATAATAAAATT
1 TTTTATATAATAAAATT
* *
6744678 TTATGTATAATAAAATT
1 TTTTATATAATAAAATT
*
6744695 TTTTAAATAA
1 TTTTATATAA
6744705 AGGAAAAATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
TTTTATATAATAAAATT
Found at i:6746870 original size:22 final size:22
Alignment explanation
Indices: 6746815--6747079 Score: 107
Period size: 22 Copynumber: 12.3 Consensus size: 22
6746805 AGGATAGTAC
* * *
6746815 TAAATCAAAGATAACTTAACAA
1 TAAATCAATGATAACTTAATAG
* * *
6746837 AAAATAAATGATAAATTAATAG
1 TAAATCAATGATAACTTAATAG
* * * * * *
6746859 TTAATTATTGATCACTTAGTAA
1 TAAATCAATGATAACTTAATAG
6746881 TAAATCAATGATAACTTAATAG
1 TAAATCAATGATAACTTAATAG
* * *
6746903 TAAATGAGTGATAATTTAATAG
1 TAAATCAATGATAACTTAATAG
** **
6746925 TAAATCAATTCTAGTTTAATAG
1 TAAATCAATGATAACTTAATAG
* * *
6746947 T-AATTAAT--TGA--TAGTAG
1 TAAATCAATGATAACTTAATAG
* *
6746964 TAAAT-AATAAATAACTTAGTAG
1 TAAATCAAT-GATAACTTAATAG
* * * *
6746986 TAAATTAATTATAAATTAGTAG
1 TAAATCAATGATAACTTAATAG
*
6747008 TAAAT-AATTGATAATTTAGA-AG
1 TAAATCAA-TGATAACTTA-ATAG
* * * * * *
6747030 TTATTTATTGAAAACTTAAAAG
1 TAAATCAATGATAACTTAATAG
* *
6747052 TAAATTAGT-ATAACTTAATAG
1 TAAATCAATGATAACTTAATAG
6747073 TAAATCA
1 TAAATCA
6747080 TCAATAATAG
Statistics
Matches: 183, Mismatches: 49, Indels: 23
0.72 0.19 0.09
Matches are distributed among these distances:
17 9 0.05
18 3 0.02
19 1 0.01
20 2 0.01
21 25 0.14
22 139 0.76
23 4 0.02
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (22 bp):
TAAATCAATGATAACTTAATAG
Found at i:6746929 original size:44 final size:44
Alignment explanation
Indices: 6746824--6746933 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 44
6746814 CTAAATCAAA
* * * * * *
6746824 GATAACTTAACAAAAAATAAATGATAAATTAATAGTTAATTATT
1 GATAACTTAATAATAAATCAATGATAAATTAATAGTAAATGAGT
* * *
6746868 GATCACTTAGTAATAAATCAATGATAACTTAATAGTAAATGAGT
1 GATAACTTAATAATAAATCAATGATAAATTAATAGTAAATGAGT
* *
6746912 GATAATTTAATAGTAAATCAAT
1 GATAACTTAATAATAAATCAAT
6746934 TCTAGTTTAA
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (44 bp):
GATAACTTAATAATAAATCAATGATAAATTAATAGTAAATGAGT
Found at i:6746959 original size:44 final size:43
Alignment explanation
Indices: 6746824--6746959 Score: 119
Period size: 44 Copynumber: 3.1 Consensus size: 43
6746814 CTAAATCAAA
* * * *
6746824 GATAACTTAACAAAAAATAAATGATAAATTAATAGTTAATTATT
1 GATAACTTAATAATAAATCAATGATAACTTAATAG-TAATTATT
* * * *
6746868 GATCACTTAGTAATAAATCAATGATAACTTAATAGTAAATGAGT
1 GATAACTTAATAATAAATCAATGATAACTTAATAGT-AATTATT
* * ** **
6746912 GATAATTTAATAGTAAATCAATTCTAGTTTAATAGTAATTAATT
1 GATAACTTAATAATAAATCAATGATAACTTAATAGTAATT-ATT
6746956 GATA
1 GATA
6746960 GTAGTAAATA
Statistics
Matches: 72, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
43 4 0.06
44 68 0.94
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (43 bp):
GATAACTTAATAATAAATCAATGATAACTTAATAGTAATTATT
Found at i:6747115 original size:22 final size:22
Alignment explanation
Indices: 6747061--6747121 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 22
6747051 GTAAATTAGT
*
6747061 ATAACTTAATAGTAAATCATCA
1 ATAATTTAATAGTAAATCATCA
** * **
6747083 ATAATAGAATAGTTAATCATTG
1 ATAATTTAATAGTAAATCATCA
*
6747105 ATAATTTAATAATAAAT
1 ATAATTTAATAGTAAAT
6747122 TAATTTAACA
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.36
Consensus pattern (22 bp):
ATAATTTAATAGTAAATCATCA
Found at i:6747190 original size:22 final size:22
Alignment explanation
Indices: 6747159--6747233 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
6747149 GGTAGGGAAT
6747159 AATAGATAATTTAGTGGTAAATC
1 AATA-ATAATTTAGTGGTAAATC
* *
6747182 AATAATAATTTTGTGATAAAT-
1 AATAATAATTTAGTGGTAAATC
* * *
6747203 AATTAAAAATTAAGTAGTAAATC
1 AA-TAATAATTTAGTGGTAAATC
*
6747226 AATGATAA
1 AATAATAA
6747234 CATAATAAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
21 2 0.05
22 33 0.80
23 6 0.15
ACGTcount: A:0.51, C:0.03, G:0.12, T:0.35
Consensus pattern (22 bp):
AATAATAATTTAGTGGTAAATC
Found at i:6747251 original size:41 final size:40
Alignment explanation
Indices: 6747197--6747273 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 40
6747187 TAATTTTGTG
*
6747197 ATAAATAATTAAAA-ATTAAGTAGTAAATCAATGATAACATA
1 ATAAATAATTAAAATA-TAA-TAGAAAATCAATGATAACATA
*
6747238 ATAAAT-ATATAAAATATAATAGAAAATCATTGATAA
1 ATAAATAAT-TAAAATATAATAGAAAATCAATGATAA
6747274 TTTAGTAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
40 17 0.53
41 14 0.44
42 1 0.03
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (40 bp):
ATAAATAATTAAAATATAATAGAAAATCAATGATAACATA
Found at i:6747286 original size:22 final size:22
Alignment explanation
Indices: 6747163--6747286 Score: 53
Period size: 22 Copynumber: 5.8 Consensus size: 22
6747153 GGGAATAATA
* *
6747163 GATAATTTAGTGGTAAATCAAT
1 GATAATTTAGTAGTAAATCATT
* * *
6747185 AATAATTTTGT-GATAAATAATT
1 GATAATTTAGTAG-TAAATCATT
* * * *
6747207 AAAAATTAAGTAGTAAATCAAT
1 GATAATTTAGTAGTAAATCATT
* *
6747229 GATAA--CA-TAATAAAT-ATAT
1 GATAATTTAGTAGTAAATCAT-T
* * * *
6747248 -AAAATATAATAGAAAATCATT
1 GATAATTTAGTAGTAAATCATT
6747269 GATAATTTAGTAGTAAAT
1 GATAATTTAGTAGTAAAT
6747287 TAATAAGTTT
Statistics
Matches: 72, Mismatches: 22, Indels: 16
0.65 0.20 0.15
Matches are distributed among these distances:
18 4 0.06
19 8 0.11
20 2 0.03
21 8 0.11
22 49 0.68
23 1 0.01
ACGTcount: A:0.52, C:0.03, G:0.10, T:0.35
Consensus pattern (22 bp):
GATAATTTAGTAGTAAATCATT
Found at i:6747431 original size:44 final size:45
Alignment explanation
Indices: 6747370--6747459 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 45
6747360 AGTCGTAAAT
* * * *
6747370 TAGTTAATCATTAATAACTTCT-TAGTAAATCATCAGTAAATTAA
1 TAGTAAATCATTAATAACTTCTATAATAAACCATCAATAAATTAA
*
6747414 TAGTAAATCAGTT-ATAACTTCTATAATAAACCATCAATAATTTAA
1 TAGTAAATCA-TTAATAACTTCTATAATAAACCATCAATAAATTAA
6747459 T
1 T
6747460 GATAAATTAC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
44 18 0.46
45 21 0.54
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (45 bp):
TAGTAAATCATTAATAACTTCTATAATAAACCATCAATAAATTAA
Found at i:6748713 original size:36 final size:38
Alignment explanation
Indices: 6748672--6748756 Score: 102
Period size: 36 Copynumber: 2.3 Consensus size: 38
6748662 AATATTATAT
* **
6748672 TTGCATGATTAATATATTTGTATGA-AT-TTAATTTGC
1 TTGCATGATTAATATAATTGTATGATATATTAATTTAA
* * *
6748708 TTGCATGATTTATTTAATTGTATGATTTATTAATTTAA
1 TTGCATGATTAATATAATTGTATGATATATTAATTTAA
6748746 TTGCATGATTA
1 TTGCATGATTA
6748757 TTAATATATG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
36 22 0.55
37 1 0.03
38 17 0.43
ACGTcount: A:0.31, C:0.05, G:0.13, T:0.52
Consensus pattern (38 bp):
TTGCATGATTAATATAATTGTATGATATATTAATTTAA
Found at i:6748732 original size:17 final size:17
Alignment explanation
Indices: 6748689--6748742 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
6748679 ATTAATATAT
**
6748689 TTGTATGAATTTAATTTGC
1 TTGTATG-ATTT-ATTTAA
*
6748708 TTGCATGATTTATTTAA
1 TTGTATGATTTATTTAA
6748725 TTGTATGATTTA-TTAA
1 TTGTATGATTTATTTAA
6748741 TT
1 TT
6748743 TAATTGCATG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 6 0.19
17 15 0.48
18 4 0.13
19 6 0.19
ACGTcount: A:0.28, C:0.04, G:0.13, T:0.56
Consensus pattern (17 bp):
TTGTATGATTTATTTAA
Found at i:6748745 original size:21 final size:20
Alignment explanation
Indices: 6748696--6748802 Score: 83
Period size: 21 Copynumber: 5.2 Consensus size: 20
6748686 TATTTGTATG
* *
6748696 AATTTAATTTGCTTGCATGATT
1 AATTTAA-TTGCATG-ATTATT
* *
6748718 TATTTAATTGTATGATTTATT
1 AATTTAATTGCATGA-TTATT
6748739 AATTTAATTGCATGATTATT
1 AATTTAATTGCATGATTATT
*
6748759 AATAT-A-TGCATTTGCATTATT
1 AATTTAATTGCA--TG-ATTATT
* *
6748780 TATTTAATTACATGATTATT
1 AATTTAATTGCATGATTATT
6748800 AAT
1 AAT
6748803 ATATTTATTT
Statistics
Matches: 68, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
18 4 0.06
19 1 0.01
20 20 0.29
21 33 0.49
22 7 0.10
23 3 0.04
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (20 bp):
AATTTAATTGCATGATTATT
Found at i:6748756 original size:17 final size:17
Alignment explanation
Indices: 6748672--6748756 Score: 53
Period size: 17 Copynumber: 4.6 Consensus size: 17
6748662 AATATTATAT
* *
6748672 TTGCATGATTAATATAT
1 TTGCATGATTAATTTAA
* **
6748689 TTGTATGAATTTAATTTGC
1 TTGCATG-A-TTAATTTAA
*
6748708 TTGCATGATTTATTTAA
1 TTGCATGATTAATTTAA
*
6748725 TTGTATGATTTATTAATTTAA
1 TTGCATG----ATTAATTTAA
6748746 TTGCATGATTA
1 TTGCATGATTA
6748757 TTAATATATG
Statistics
Matches: 51, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
17 22 0.43
18 2 0.04
19 12 0.24
21 15 0.29
ACGTcount: A:0.31, C:0.05, G:0.13, T:0.52
Consensus pattern (17 bp):
TTGCATGATTAATTTAA
Found at i:6748808 original size:24 final size:24
Alignment explanation
Indices: 6748780--6749115 Score: 136
Period size: 24 Copynumber: 14.2 Consensus size: 24
6748770 TTGCATTATT
*
6748780 TATTTAATTACATGATTATTAATA
1 TATTTAATTGCATGATTATTAATA
* * * *
6748804 TATTTATTTCCATGATTACCTAATG
1 TATTTAATTGCATGATTA-TTAATA
** *
6748829 TATTT-ATGTGTGTGATTACATGATTATTAA
1 TATTTAAT-TGCATGA-T---T-ATTAAT-A
* *
6748859 TATATTTATTTGCATAATTATTAATA
1 TAT-TTAATT-GCATGATTATTAATA
* *
6748885 TATTTATTTGTATGATAATATT--TA
1 TATTTAATTGCATGAT--TATTAATA
* *
6748909 -ATTTTATTGCATGATTGTTAATA
1 TATTTAATTGCATGATTATTAATA
* ***
6748932 TATTTATTTG--T-ACGGTT-AT-
1 TATTTAATTGCATGATTATTAATA
6748951 -ATTTAATTGCATG-TTATTAATA
1 TATTTAATTGCATGATTATTAATA
* **
6748973 TATTTATTTGTGTGATTTATTAATA
1 TATTTAATTGCATGA-TTATTAATA
* * * *
6748998 TATTTATTTGTATAATTA-T-ATT
1 TATTTAATTGCATGATTATTAATA
* *
6749020 TATTTGATTGTATGATTATTAATA
1 TATTTAATTGCATGATTATTAATA
* *
6749044 TATTTAATTGCTTGATTATTAAAA
1 TATTTAATTGCATGATTATTAATA
*
6749068 TA-TTAATT---TGTATGATT-ATA
1 TATTTAATTGCATG-ATTATTAATA
6749088 T-TTT-ATTGCATGATTATTAATA
1 TATTTAATTGCATGATTATTAATA
6749110 TATTTA
1 TATTTA
6749116 TTTGTGTGAT
Statistics
Matches: 230, Mismatches: 48, Indels: 68
0.66 0.14 0.20
Matches are distributed among these distances:
18 8 0.03
19 3 0.01
20 12 0.05
21 19 0.08
22 24 0.10
23 35 0.15
24 58 0.25
25 39 0.17
26 9 0.04
27 5 0.02
28 1 0.00
29 4 0.02
30 4 0.02
31 4 0.02
32 5 0.02
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.54
Consensus pattern (24 bp):
TATTTAATTGCATGATTATTAATA
Found at i:6748854 original size:57 final size:56
Alignment explanation
Indices: 6748786--6748900 Score: 167
Period size: 57 Copynumber: 2.0 Consensus size: 56
6748776 TATTTATTTA
* * *
6748786 ATTACATGATTATTAATATATTTATTTCCATGATTACCTAATGTATTTATGTGTGTG
1 ATTACATGATTATTAATATATTTATTTCCATAATTA-CTAATATATTTATGTGTATG
* * *
6748843 ATTACATGATTATTAATATATTTATTTGCATAATTATTAATATATTTATTTGTATG
1 ATTACATGATTATTAATATATTTATTTCCATAATTACTAATATATTTATGTGTATG
6748899 AT
1 AT
6748901 AATATTTAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
56 18 0.35
57 34 0.65
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.51
Consensus pattern (56 bp):
ATTACATGATTATTAATATATTTATTTCCATAATTACTAATATATTTATGTGTATG
Found at i:6748974 original size:41 final size:42
Alignment explanation
Indices: 6748858--6749155 Score: 158
Period size: 42 Copynumber: 6.8 Consensus size: 42
6748848 ATGATTATTA
* * *
6748858 ATATATTTATTTGCATAATTATTAATATATTTATTTGTATGAT
1 ATATATTTAATTGCAT-GTTATTAATATATTTATTTGTACGAT
* * *
6748901 AATATTTAATTTTATTGCATGATTGTTAATATATTTATTTGTACGGT
1 -ATA--T-ATTTAATTGCATG-TTATTAATATATTTATTTGTACGAT
**
6748948 -TATATTTAATTGCATGTTATTAATATATTTATTTGTGTGAT
1 ATATATTTAATTGCATGTTATTAATATATTTATTTGTACGAT
* * * *** * *
6748989 TTATTAATATATTTATTTGTATAATTATATTTATTTGA-TTGTATGATTATT
1 ATA-T-ATTTAATTGCATGT-T-ATTA-ATATATTT-ATTTGTACG---A-T
* * * *
6749040 AATATATTTAATTGCTTGATTATTAAAATATTAATTTGTATGAT
1 -ATATATTTAATTGCATG-TTATTAATATATTTATTTGTACGAT
* **
6749084 -TATATTTTATTGCATGATTATTAATATATTTATTTGTGTGAT
1 ATATATTTAATTGCATG-TTATTAATATATTTATTTGTACGAT
*
6749126 -TATATTTGATTGCATG--ATTATATATATTTA
1 ATATATTTAATTGCATGTTATTA-ATATATTTA
6749156 CATAAATGAT
Statistics
Matches: 203, Mismatches: 32, Indels: 42
0.73 0.12 0.15
Matches are distributed among these distances:
39 4 0.02
40 9 0.04
41 21 0.10
42 66 0.33
43 2 0.01
44 13 0.06
45 4 0.02
46 5 0.02
47 46 0.23
48 13 0.06
49 4 0.02
50 11 0.05
51 3 0.01
52 2 0.01
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.55
Consensus pattern (42 bp):
ATATATTTAATTGCATGTTATTAATATATTTATTTGTACGAT
Found at i:6749007 original size:66 final size:67
Alignment explanation
Indices: 6748926--6749131 Score: 265
Period size: 66 Copynumber: 3.0 Consensus size: 67
6748916 TGCATGATTG
* *
6748926 TTAATATATTTATTTGTACGGTTATATTTAATTGCATG-TTATTAATATATTTATTTGTGTGATT
1 TTAATATATTTATTTGTATGATTATATTTAATTGCATGATTATTAATATATTTATTTGTGTGATT
6748990 TA
66 TA
* * *
6748992 TTAATATATTTATTTGTATAATTATATTTATTTGATTGTATGATTATTAATATATTTAATTGCT-
1 TTAATATATTTATTTGTATGATTATATTTA----ATTGCATGATTATTAATATATTTATTTG-TG
6749056 TGA-TTA
61 TGATTTA
* * *
6749062 TTAAAATATTAATTTGTATGATTATATTTTATTGCATGATTATTAATATATTTATTTGTGTGATT
1 TTAATATATTTATTTGTATGATTATATTTAATTGCATGATTATTAATATATTTATTTGTGTGATT
6749127 ATA
66 -TA
6749130 TT
1 TT
6749132 TGATTGCATG
Statistics
Matches: 120, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
65 1 0.01
66 56 0.47
67 1 0.01
68 4 0.03
70 36 0.30
71 21 0.17
72 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.56
Consensus pattern (67 bp):
TTAATATATTTATTTGTATGATTATATTTAATTGCATGATTATTAATATATTTATTTGTGTGATT
TA
Found at i:6749093 original size:71 final size:70
Alignment explanation
Indices: 6748950--6749131 Score: 223
Period size: 70 Copynumber: 2.6 Consensus size: 70
6748940 TGTACGGTTA
* * *
6748950 TATTTAATTGCATGTTATTAATATATTTATTTGTGTGATTTATTAATATATTTATTTGTATAATT
1 TATTTAATTGCATGTTATTAATATATTTAATTGTGTGATTTATTAAAATATTAATTTGTATAATT
6749015 ATATT
66 ATATT
* * *
6749020 TATTTGATTGTATGATTATTAATATATTTAATTGCT-TGA-TTATTAAAATATTAATTTGTATGA
1 TATTTAATTGCATG-TTATTAATATATTTAATTG-TGTGATTTATTAAAATATTAATTTGTATAA
6749083 TTATA--
64 TTATATT
*
6749088 T-TTT-ATTGCATGATTATTAATATATTTATTTGTGTGATTATATT
1 TATTTAATTGCATG-TTATTAATATATTTAATTGTGTGATT-TATT
6749132 TGATTGCATG
Statistics
Matches: 99, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
65 1 0.01
66 29 0.29
67 4 0.04
68 5 0.05
70 38 0.38
71 21 0.21
72 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.57
Consensus pattern (70 bp):
TATTTAATTGCATGTTATTAATATATTTAATTGTGTGATTTATTAAAATATTAATTTGTATAATT
ATATT
Found at i:6749100 original size:18 final size:18
Alignment explanation
Indices: 6749079--6749148 Score: 59
Period size: 18 Copynumber: 3.6 Consensus size: 18
6749069 ATTAATTTGT
6749079 ATGATTATATTTTATTGC
1 ATGATTATATTTTATTGC
*
6749097 ATGATTATTAATATATTTATTTGT
1 ATG---ATT-ATAT-TTTA-TTGC
* *
6749121 GTGATTATATTTGATTGC
1 ATGATTATATTTTATTGC
6749139 ATGATTATAT
1 ATGATTATAT
6749149 ATATTTACAT
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
18 15 0.37
19 3 0.07
20 4 0.10
21 6 0.15
22 4 0.10
23 4 0.10
24 5 0.12
ACGTcount: A:0.30, C:0.03, G:0.13, T:0.54
Consensus pattern (18 bp):
ATGATTATATTTTATTGC
Found at i:6749125 original size:24 final size:24
Alignment explanation
Indices: 6748848--6749128 Score: 188
Period size: 24 Copynumber: 12.3 Consensus size: 24
6748838 GTGTGATTAC
* *
6748848 ATGATTATTAATATATTTATTTGC
1 ATGATTATTAATATATTTAATTGT
* *
6748872 ATAATTATTAATATATTTATTTGT
1 ATGATTATTAATATATTTAATTGT
* *
6748896 ATGATAATATT--TA-ATTTTATTGC
1 ATGAT--TATTAATATATTTAATTGT
* *
6748919 ATGATTGTTAATATATTTATTTGT
1 ATGATTATTAATATATTTAATTGT
* * *
6748943 ACG----GT--TATATTTAATTGC
1 ATGATTATTAATATATTTAATTGT
*
6748961 ATG-TTATTAATATATTTATTTGT
1 ATGATTATTAATATATTTAATTGT
* *
6748984 GTGATTTATTAATATATTTATTTGT
1 ATGA-TTATTAATATATTTAATTGT
* * *
6749009 ATAATTA-T-ATTTATTTGATTGT
1 ATGATTATTAATATATTTAATTGT
6749031 ATGATTATTAATATATTTAATTGCT
1 ATGATTATTAATATATTTAATTG-T
*
6749056 -TGATTATTAAAATA-TTAATTTGT
1 ATGATTATTAATATATTTAA-TTGT
*
6749079 ATG---ATT-ATAT-TTT-ATTGC
1 ATGATTATTAATATATTTAATTGT
*
6749097 ATGATTATTAATATATTTATTTGT
1 ATGATTATTAATATATTTAATTGT
*
6749121 GTGATTAT
1 ATGATTAT
6749129 ATTTGATTGC
Statistics
Matches: 200, Mismatches: 33, Indels: 48
0.71 0.12 0.17
Matches are distributed among these distances:
18 19 0.09
19 1 0.00
20 6 0.03
21 10 0.05
22 21 0.10
23 37 0.19
24 79 0.40
25 23 0.12
26 4 0.02
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.56
Consensus pattern (24 bp):
ATGATTATTAATATATTTAATTGT
Found at i:6749128 original size:112 final size:111
Alignment explanation
Indices: 6748853--6749132 Score: 320
Period size: 112 Copynumber: 2.5 Consensus size: 111
6748843 ATTACATGAT
* * *
6748853 TATTAATATATTTATTTGCATAATTATTAATATATTTATTTGTATGATAATATTTAATTTTATTG
1 TATTAATATATTTATTTGCATGATTATTAATATATTTATTTGTATGATTATATTTAATTTGATTG
* * *
6748918 CATGATTGTTAATATATTTATTTGTACGGTTATATTTAATTGCATG
66 CATGATTATTAATATATTTAATTGTACGATTATATTTAATTGCATG
** *
6748964 TTATTAATATATTTATTTGTGTGATTTATTAATATATTTATTTGTATAATTATATTT-ATTTGAT
1 -TATTAATATATTTATTTGCATGA-TTATTAATATATTTATTTGTATGATTATATTTAATTTGAT
* * *
6749028 TGTATGATTATTAATATATTTAATTGCT-TGATTATTAAAATATTAATTTGTATG
64 TGCATGATTATTAATATATTTAATTG-TACGATTA-T---AT-TTAA-TTGCATG
*
6749082 -ATT-ATAT-TTTA-TTGCATGATTATTAATATATTTATTTGTGTGATTATATTT
1 TATTAATATATTTATTTGCATGATTATTAATATATTTATTTGTATGATTATATTT
6749133 GATTGCATGA
Statistics
Matches: 144, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
112 83 0.58
113 38 0.26
114 4 0.03
115 4 0.03
116 5 0.03
117 4 0.03
118 6 0.04
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.56
Consensus pattern (111 bp):
TATTAATATATTTATTTGCATGATTATTAATATATTTATTTGTATGATTATATTTAATTTGATTG
CATGATTATTAATATATTTAATTGTACGATTATATTTAATTGCATG
Found at i:6755940 original size:46 final size:46
Alignment explanation
Indices: 6755883--6755973 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
6755873 TCATTTTATT
*
6755883 TTTTTAAAGTTTTAAAACCTCAAATGTAAAGGAGCATTTTATTTTA
1 TTTTTAAAGTTTCAAAACCTCAAATGTAAAGGAGCATTTTATTTTA
* * ** **
6755929 TTTTTGAAGTTTCAAAGCCTCAGTTGTGGAGGAGCATTTTATTTT
1 TTTTTAAAGTTTCAAAACCTCAAATGTAAAGGAGCATTTTATTTT
6755974 TCAAAAGCTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (46 bp):
TTTTTAAAGTTTCAAAACCTCAAATGTAAAGGAGCATTTTATTTTA
Found at i:6755986 original size:89 final size:85
Alignment explanation
Indices: 6755874--6756066 Score: 226
Period size: 86 Copynumber: 2.2 Consensus size: 85
6755864 TCAGATATCT
* *
6755874 CATTTTATTTTTTTAAAGTTTTAAAACCTCAA-ATGTAAAGGAGCATTTTATTTTATTTTTGAAG
1 CATTTTATTTTTTAAAAGCTTTAAAACCTCAACATG-AAA-GAGCATTTTATTTTA--TTT-AAG
6755938 TTTCAAAGCCTCAGTTGTGGAGGAG
61 TTTCAAAGCCTCAGTTGTGGAGGAG
* ** ** * *
6755963 CATTTTATTTTTCAAAAGCTTTAAAGTCTCAATCATGGGAGTGTATTTTATTTTATTTAAGTTTC
1 CATTTTATTTTTTAAAAGCTTTAAAACCTCAA-CATGAAAGAGCATTTTATTTTATTTAAGTTTC
* *
6756028 AAAGCCTTAGTTGTGGGGGAG
65 AAAGCCTCAGTTGTGGAGGAG
6756049 CATTTTATTTTTTAAAAG
1 CATTTTATTTTTTAAAAG
6756067 TTTCAAAGTC
Statistics
Matches: 90, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
86 43 0.48
87 3 0.03
89 40 0.44
90 1 0.01
91 3 0.03
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (85 bp):
CATTTTATTTTTTAAAAGCTTTAAAACCTCAACATGAAAGAGCATTTTATTTTATTTAAGTTTCA
AAGCCTCAGTTGTGGAGGAG
Found at i:6756054 original size:43 final size:42
Alignment explanation
Indices: 6755923--6756102 Score: 168
Period size: 43 Copynumber: 4.3 Consensus size: 42
6755913 GGAGCATTTT
* * *
6755923 ATTTTA-TTTTTGAAGTTTCAAAGCCTCAGTTGTGGAGGAGC
1 ATTTTATTTTTTAAAGTTTCAAAGCCTCAGTTATGGGGGAGC
* * * * * * *
6755964 ATTTTATTTTTCAAAAGCTTT-AAAGTCTCAATCATGGGAGTGT
1 ATTTTATTTTT-TAAAG-TTTCAAAGCCTCAGTTATGGGGGAGC
* * *
6756007 ATTTTATTTTATTTAAGTTTCAAAGCCTTAGTTGTGGGGGAGC
1 ATTTTATTTT-TTAAAGTTTCAAAGCCTCAGTTATGGGGGAGC
* *
6756050 ATTTTATTTTTTAAAAGTTTCAAAGTCTTAGTTATGGGGGAGC
1 ATTTTATTTTTT-AAAGTTTCAAAGCCTCAGTTATGGGGGAGC
6756093 A-TTTATTTTT
1 ATTTTATTTTT
6756103 CCAAAGTTGA
Statistics
Matches: 110, Mismatches: 23, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
41 6 0.05
42 18 0.16
43 82 0.75
44 4 0.04
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.44
Consensus pattern (42 bp):
ATTTTATTTTTTAAAGTTTCAAAGCCTCAGTTATGGGGGAGC
Found at i:6756087 original size:86 final size:88
Alignment explanation
Indices: 6755918--6756077 Score: 254
Period size: 86 Copynumber: 1.8 Consensus size: 88
6755908 GTAAAGGAGC
6755918 ATTTTATTTTATTTTTGAAGTTTCAAAGCCTCAGTTGTGGAGGAGCATTTTATTTTTCAAAAGCT
1 ATTTTATTTTA-TTTTGAAGTTTCAAAGCCTCAGTTGTGGAGGAGCATTTTATTTTTCAAAAGCT
6755983 TTAAAGTCTCAATCATGGGAGTGT
65 TTAAAGTCTCAATCATGGGAGTGT
* * *
6756007 ATTTTATTTTA-TTT-AAGTTTCAAAGCCTTAGTTGTGGGGGAGCATTTTATTTTTTAAAAG-TT
1 ATTTTATTTTATTTTGAAGTTTCAAAGCCTCAGTTGTGGAGGAGCATTTTATTTTTCAAAAGCTT
6756069 TCAAAGTCT
66 T-AAAGTCT
6756078 TAGTTATGGG
Statistics
Matches: 67, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
85 3 0.04
86 50 0.75
87 3 0.04
89 11 0.16
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.45
Consensus pattern (88 bp):
ATTTTATTTTATTTTGAAGTTTCAAAGCCTCAGTTGTGGAGGAGCATTTTATTTTTCAAAAGCTT
TAAAGTCTCAATCATGGGAGTGT
Found at i:6756462 original size:17 final size:18
Alignment explanation
Indices: 6756428--6756470 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
6756418 CCCAAAAATC
*
6756428 TTAATTTTAATTTTGATT
1 TTAATTTTAATGTTGATT
6756446 TTAATTTTAA-GTTGATT
1 TTAATTTTAATGTTGATT
6756463 TT-ATTTTA
1 TTAATTTTA
6756471 TTGGTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 6 0.25
17 8 0.33
18 10 0.42
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (18 bp):
TTAATTTTAATGTTGATT
Found at i:6757089 original size:20 final size:18
Alignment explanation
Indices: 6757061--6757150 Score: 63
Period size: 16 Copynumber: 5.3 Consensus size: 18
6757051 TTTTGCATGA
6757061 ATTTGCATGACTAATATTAT
1 ATTTGCATGA-TAAT-TTAT
*
6757081 ATTTTCATGATAA-TT-T
1 ATTTGCATGATAATTTAT
* *
6757097 ATTTGCCTAAT-ATTT-T
1 ATTTGCATGATAATTTAT
6757113 ATTTGCATGATTAA--TAT
1 ATTTGCATGA-TAATTTAT
6757130 ATTTGCATG--AATTTA-
1 ATTTGCATGATAATTTAT
6757145 ATTTGC
1 ATTTGC
6757151 TTGCATGATT
Statistics
Matches: 58, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
14 2 0.03
15 7 0.12
16 23 0.40
17 13 0.22
18 1 0.02
19 3 0.05
20 9 0.16
ACGTcount: A:0.31, C:0.09, G:0.10, T:0.50
Consensus pattern (18 bp):
ATTTGCATGATAATTTAT
Found at i:6757107 original size:32 final size:33
Alignment explanation
Indices: 6757071--6757135 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
6757061 ATTTGCATGA
* *
6757071 CTAATATTATATTTTCATGA-TAATTTATTTGC
1 CTAATATTATATTTGCATGATTAATATATTTGC
*
6757103 CTAATATTTTATTTGCATGATTAATATATTTGC
1 CTAATATTATATTTGCATGATTAATATATTTGC
6757136 ATGAATTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.52
Consensus pattern (33 bp):
CTAATATTATATTTGCATGATTAATATATTTGC
Found at i:6757134 original size:17 final size:17
Alignment explanation
Indices: 6757061--6757178 Score: 87
Period size: 17 Copynumber: 6.8 Consensus size: 17
6757051 TTTTGCATGA
*
6757061 ATTTGCATGACTAATATTAT
1 ATTTGCATGA-TTA-ATT-T
*
6757081 ATTTTCATGA-TAATTT
1 ATTTGCATGATTAATTT
* * *
6757097 ATTTGCCT-AATATTTT
1 ATTTGCATGATTAATTT
*
6757113 ATTTGCATGATTAATAT
1 ATTTGCATGATTAATTT
6757130 ATTTGCATGAATTTAATTT
1 ATTTGCATG-A-TTAATTT
** *
6757149 GCTTGCATGATTTATTT
1 ATTTGCATGATTAATTT
*
6757166 AATTGCATGATTA
1 ATTTGCATGATTA
6757179 GTAATATATT
Statistics
Matches: 78, Mismatches: 16, Indels: 11
0.74 0.15 0.10
Matches are distributed among these distances:
15 1 0.01
16 19 0.24
17 33 0.42
18 3 0.04
19 13 0.17
20 9 0.12
ACGTcount: A:0.31, C:0.08, G:0.11, T:0.50
Consensus pattern (17 bp):
ATTTGCATGATTAATTT
Found at i:6757149 original size:32 final size:32
Alignment explanation
Indices: 6757072--6757150 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 32
6757062 TTTGCATGAC
* * *
6757072 TAATA-TTATATTTTCATGATAATTTATTTGCC
1 TAATATTTA-ATTTGCATGATAATATATTTGCA
*
6757104 TAATATTTTATTTGCATGATTAATATATTTGCA
1 TAATATTTAATTTGCATGA-TAATATATTTGCA
*
6757137 TGA-ATTTAATTTGC
1 TAATATTTAATTTGC
6757151 TTGCATGATT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
32 24 0.62
33 15 0.38
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.52
Consensus pattern (32 bp):
TAATATTTAATTTGCATGATAATATATTTGCA
Found at i:6757199 original size:24 final size:24
Alignment explanation
Indices: 6757161--6757515 Score: 223
Period size: 24 Copynumber: 15.8 Consensus size: 24
6757151 TTGCATGATT
* *
6757161 TATTTAATTGCATGATTAGTAATA
1 TATTTATTTGCATGATTATTAATA
*
6757185 TATTTATTTG--T-ATGATTAATA
1 TATTTATTTGCATGATTATTAATA
* **
6757206 TACTT-TTTGTGTGGATTATT-A-A
1 TATTTATTTGCAT-GATTATTAATA
*
6757228 TA--TATTTGCATGAGTATTAATA
1 TATTTATTTGCATGATTATTAATA
6757250 TA--TATTTGCATGATTATTAATA
1 TATTTATTTGCATGATTATTAATA
* *
6757272 TATTTATTTGCCTGATTA-T-ATT
1 TATTTATTTGCATGATTATTAATA
6757294 TAATTT-TATTGCATGATTATTAATA
1 T-ATTTAT-TTGCATGATTATTAATA
* *
6757319 TATTTATTTACATGATTCTTAATA
1 TATTTATTTGCATGATTATTAATA
**
6757343 TATTTAGTTT---T-ACGA-T--TA
1 TATTTA-TTTGCATGATTATTAATA
6757361 TATTTATTTGCATG---ATTAATA
1 TATTTATTTGCATGATTATTAATA
**
6757382 TATTTATTTGTGTGATTTATTAATA
1 TATTTATTTGCATGA-TTATTAATA
6757407 TATTTA----CATGATTATTAATA
1 TATTTATTTGCATGATTATTAATA
* *
6757427 TATTTATTTGTATGATTA-T-ATT
1 TATTTATTTGCATGATTATTAATA
6757449 TAATTTGA-TTGCATGATTATTAATA
1 T-ATTT-ATTTGCATGATTATTAATA
* * *
6757474 TATTTAATTG-TTGATTATTCATA
1 TATTTATTTGCATGATTATTAATA
* **
6757497 TATTTGTTTGTGTGATTAT
1 TATTTATTTGCATGATTAT
6757516 ATTTGATTGC
Statistics
Matches: 264, Mismatches: 31, Indels: 72
0.72 0.08 0.20
Matches are distributed among these distances:
17 3 0.01
18 9 0.03
19 1 0.00
20 28 0.11
21 36 0.14
22 37 0.14
23 51 0.19
24 76 0.29
25 23 0.09
ACGTcount: A:0.31, C:0.04, G:0.11, T:0.54
Consensus pattern (24 bp):
TATTTATTTGCATGATTATTAATA
Found at i:6757247 original size:20 final size:20
Alignment explanation
Indices: 6757222--6757276 Score: 83
Period size: 22 Copynumber: 2.6 Consensus size: 20
6757212 TTGTGTGGAT
6757222 TATTAATATATTTGCATGAG
1 TATTAATATATTTGCATGAG
*
6757242 TATTAATATATATTTGCATGAT
1 TATT-A-ATATATTTGCATGAG
6757264 TATTAATATATTT
1 TATTAATATATTT
6757277 ATTTGCCTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 12 0.38
21 2 0.06
22 18 0.56
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (20 bp):
TATTAATATATTTGCATGAG
Found at i:6757255 original size:22 final size:22
Alignment explanation
Indices: 6757168--6757476 Score: 144
Period size: 21 Copynumber: 13.9 Consensus size: 22
6757158 ATTTATTTAA
*
6757168 TTGCATGATTAGTAATATATTTAT
1 TTGCATGATTATTAATATA--TAT
* *
6757192 TTG--T-ATGATTAATATACTTT
1 TTGCATGATTATTAATATA-TAT
**
6757212 TTGTGTGGATTATT-A-ATATAT
1 TTGCAT-GATTATTAATATATAT
*
6757233 TTGCATGAGTATTAATATATAT
1 TTGCATGATTATTAATATATAT
6757255 TTGCATGATTATTAATATATTTAT
1 TTGCATGATTATTAATATA--TAT
* *
6757279 TTGCCTGATTATATTTAAT-TTTA-
1 TTGCATGA-T-TA-TTAATATATAT
6757302 TTGCATGATTATTAATATATTTAT
1 TTGCATGATTATTAATATA--TAT
* *
6757326 TTACATGATTCTTAATATAT-T
1 TTGCATGATTATTAATATATAT
* ** * ** *
6757347 TAGTTTTACGATT-ATATTTAT
1 TTGCATGATTATTAATATATAT
* *
6757368 TTGCATGATTAAT-ATATTTAT
1 TTGCATGATTATTAATATATAT
**
6757389 TTGTGTGATTTATT-A-ATATAT
1 TTGCATGA-TTATTAATATATAT
*
6757410 TTACATGATTATTAATATATTTAT
1 TTGCATGATTATTAATATA--TAT
*
6757434 TTGTATGATTATATTTAAT-T-TGA-
1 TTGCATGA-T-TA-TTAATATAT-AT
6757457 TTGCATGATTATTAATATAT
1 TTGCATGATTATTAATATAT
6757477 TTAATTGTTG
Statistics
Matches: 216, Mismatches: 42, Indels: 56
0.69 0.13 0.18
Matches are distributed among these distances:
20 31 0.14
21 61 0.28
22 41 0.19
23 18 0.08
24 47 0.22
25 2 0.01
26 6 0.03
27 10 0.05
ACGTcount: A:0.32, C:0.04, G:0.10, T:0.53
Consensus pattern (22 bp):
TTGCATGATTATTAATATATAT
Found at i:6757348 original size:71 final size:69
Alignment explanation
Indices: 6757233--6757366 Score: 189
Period size: 71 Copynumber: 1.9 Consensus size: 69
6757223 ATTAATATAT
* *
6757233 TTGCATGAGTATTAATATATATTTGCATGATTATTAATATATTTA-TTTGCCTGATTATATTTAA
1 TTGCATGAGTATTAATATATATTTACATGATTATTAATATATTTAGTTTGAC-GATTATATTTAA
6757297 TTTTA
65 TTTTA
* * *
6757302 TTGCATGATTATTAATATATTTATTTACATGATTCTTAATATATTTAGTTTTACGATTATATTTA
1 TTGCATGAGTATTAATATA--TATTTACATGATTATTAATATATTTAGTTTGACGATTATATTTA
6757367 TTTGCATGAT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
69 18 0.32
71 35 0.61
72 4 0.07
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.53
Consensus pattern (69 bp):
TTGCATGAGTATTAATATATATTTACATGATTATTAATATATTTAGTTTGACGATTATATTTAAT
TTTA
Found at i:6757363 original size:42 final size:42
Alignment explanation
Indices: 6757317--6757491 Score: 180
Period size: 42 Copynumber: 4.1 Consensus size: 42
6757307 TGATTATTAA
* *
6757317 TATATTTATTTACATGATTCTTAATATATTTAGTTT-TACGAT
1 TATATTTATTTACATGATTATTAATATATTTA-TTTGTATGAT
* *
6757359 TATATTTATTTGCATG---ATTAATATATTTATTTGTGTGATT
1 TATATTTATTTACATGATTATTAATATATTTATTTGTATGA-T
*
6757399 TATTAATATATTTACATGATTATTAATATATTTATTTGTATGAT
1 TA-T-ATTTATTTACATGATTATTAATATATTTATTTGTATGAT
*
6757443 TATATTTAATTTGATTGCATGATTATTAATATATTTAATTGT-TGAT
1 TATATTT-ATTT-A---CATGATTATTAATATATTTATTTGTATGAT
6757489 TAT
1 TAT
6757492 TCATATATTT
Statistics
Matches: 112, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
38 3 0.03
39 15 0.13
40 3 0.03
41 1 0.01
42 29 0.26
43 5 0.04
44 4 0.04
45 21 0.19
46 7 0.06
47 24 0.21
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.55
Consensus pattern (42 bp):
TATATTTATTTACATGATTATTAATATATTTATTTGTATGAT
Found at i:6757490 original size:20 final size:22
Alignment explanation
Indices: 6757359--6757501 Score: 62
Period size: 23 Copynumber: 6.3 Consensus size: 22
6757349 GTTTTACGAT
* *
6757359 TATATTTATTTG-CATGATTAA
1 TATATTTAATTGATATGATTAA
* * *
6757380 TATATTTATTTGTGTGATTTATTAA
1 TATATTTAATTG-AT-A-TGATTAA
6757405 TATATTTACA-TGAT-T-ATTAA
1 TATATTTA-ATTGATATGATTAA
*
6757425 TATATTTATTTG-TATGATTATA
1 TATATTTAATTGATATGATTA-A
* * *
6757447 TTTAATTTGATTGCATGATTATTAA
1 TAT-ATTTAATTG-AT-ATGATTAA
* * *
6757472 TATATTTAATTGTTGATTATTCA
1 TATATTTAATTGAT-ATGATTAA
6757495 TATATTT
1 TATATTT
6757502 GTTTGTGTGA
Statistics
Matches: 96, Mismatches: 13, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
19 1 0.01
20 16 0.17
21 17 0.18
22 3 0.03
23 23 0.24
24 10 0.10
25 20 0.21
26 6 0.06
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (22 bp):
TATATTTAATTGATATGATTAA
Found at i:6757499 original size:70 final size:64
Alignment explanation
Indices: 6757359--6757519 Score: 173
Period size: 70 Copynumber: 2.4 Consensus size: 64
6757349 GTTTTACGAT
* *
6757359 TATATTTATTTGCATGATTAATATATTTATTTGTGTGATTTATTAATATATTTACATGATTATTA
1 TATATTTATTTGTATGATT-ATAT-TTAATTTGTGTGATTTATTAATATATTTACATGATTATTA
6757424 A
64 A
6757425 TATATTTATTTGTATGATTATATTTAATTTGAT-TGCATGATTATTAATATATTTA-ATTGTTGA
1 TATATTTATTTGTATGATTATATTTAATTTG-TGTG-AT--TTATTAATATATTTACA----TGA
*
6757488 TTATTCA
58 TTATTAA
* *
6757495 TATATTTGTTTGTGTGATTATATTT
1 TATATTTATTTGTATGATTATATTT
6757520 GATTGCATGA
Statistics
Matches: 82, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
64 9 0.11
65 7 0.09
66 19 0.23
67 15 0.18
70 32 0.39
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (64 bp):
TATATTTATTTGTATGATTATATTTAATTTGTGTGATTTATTAATATATTTACATGATTATTAA
Found at i:6757502 original size:47 final size:44
Alignment explanation
Indices: 6757199--6757502 Score: 179
Period size: 47 Copynumber: 6.8 Consensus size: 44
6757189 TATTTGTATG
* * *
6757199 ATTAATATACTT-TTTGTGTGGATTATTAATATATTTG-CATGAGT
1 ATTAATATATTTATTTGTAT-GATTATT-ATATATTTGACATGATT
* ** * *
6757243 ATTAATATA--TATTTGCATGATTATTAATATATTT-ATTTGCCTG
1 ATTAATATATTTATTTGTATGATTATT-ATATATTTGACATG-ATT
* * *
6757286 ATTATATTTAATTT-TATTGCATGATTATTAATATATTTATTTACATGATT
1 ATTA-ATAT-ATTTAT-TTGTATGATTATT-ATATA--T-TTGACATGATT
* * *
6757336 CTTAATATATTTAGTTT-TACGATTA-TATTTATTTG-CATG---
1 ATTAATATATTTA-TTTGTATGATTATTATATATTTGACATGATT
*
6757375 ATTAATATATTTATTTGTGTGATTTATTAATATATTT-ACATGATT
1 ATTAATATATTTATTTGTATGA-TTATT-ATATATTTGACATGATT
*
6757420 ATTAATATATTTATTTGTATGATTA-TATTTAATTTGATTGCATGATT
1 ATTAATATATTTATTTGTATGATTATTATAT-ATTTGA---CATGATT
*
6757467 ATTAATATATTTAATTGT-TGATTATTCATATATTTG
1 ATTAATATATTTATTTGTATGATTATT-ATATATTTG
6757503 TTTGTGTGAT
Statistics
Matches: 205, Mismatches: 26, Indels: 55
0.72 0.09 0.19
Matches are distributed among these distances:
38 3 0.01
39 15 0.07
40 3 0.01
41 1 0.00
42 37 0.18
43 16 0.08
44 17 0.08
45 22 0.11
46 11 0.05
47 51 0.25
48 13 0.06
49 6 0.03
50 7 0.03
51 3 0.01
ACGTcount: A:0.32, C:0.04, G:0.10, T:0.54
Consensus pattern (44 bp):
ATTAATATATTTATTTGTATGATTATTATATATTTGACATGATT
Found at i:6757518 original size:18 final size:18
Alignment explanation
Indices: 6757495--6757535 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
6757485 TGATTATTCA
* **
6757495 TATATTTGTTTGTGTGAT
1 TATATTTGATTGCATGAT
6757513 TATATTTGATTGCATGAT
1 TATATTTGATTGCATGAT
6757531 TATAT
1 TATAT
6757536 ATATTTGCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.17, T:0.56
Consensus pattern (18 bp):
TATATTTGATTGCATGAT
Found at i:6757543 original size:18 final size:18
Alignment explanation
Indices: 6757509--6757547 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6757499 TTTGTTTGTG
*
6757509 TGATTATATTTGATTGCA
1 TGATTATATATGATTGCA
6757527 TGATTATATAT-ATTTGCA
1 TGATTATATATGA-TTGCA
6757545 TGA
1 TGA
6757548 ATGATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (18 bp):
TGATTATATATGATTGCA
Found at i:6757553 original size:155 final size:154
Alignment explanation
Indices: 6757161--6757554 Score: 440
Period size: 155 Copynumber: 2.5 Consensus size: 154
6757151 TTGCATGATT
* * * * * *
6757161 TATTTAATTGCATGATTAGTAATATATTTA-TTTGTATGATTAATATACTTTTTGTGTGGATTAT
1 TATTTAATTACATGATTATTAATATATTTAGTTT-TACGA-T--TATA-TTTAT-T-TGCATGAT
* *
6757225 TAATATATTTGCATGAGT-A-TTAATATATATTTGCATGATTATTAATATATTTATTTGCCTGAT
59 TAATATATTTGCATGAGTGATTTAATATATATTTACATGATTATTAATATATTTATTTGCATGAT
*
6757288 TATATTTAATTTTATTGCATGATTATTAATA
124 TATATTTAATTTGATTGCATGATTATTAATA
* *
6757319 TATTTATTTACATGATTCTTAATATATTTAGTTTTACGATTATATTTATTTGCATGATTAATATA
1 TATTTAATTACATGATTATTAATATATTTAGTTTTACGATTATATTTATTTGCATGATTAATATA
*** * * *
6757384 TTTATTTGTGTGATTTATTAATATATTTACATGATTATTAATATATTTATTTGTATGATTATATT
66 TTTGCATGAGTGATTTAAT-ATATATTTACATGATTATTAATATATTTATTTGCATGATTATATT
6757449 TAATTTGATTGCATGATTATTAATA
130 TAATTTGATTGCATGATTATTAATA
** * **
6757474 TATTTAATT-GTTGATTATTCATATATTT-GTTTGTGTGATTATATTTGA-TTGCATGATTATAT
1 TATTTAATTACATGATTATTAATATATTTAGTTT-TACGATTATATTT-ATTTGCATGATTA-AT
*
6757536 ATATTTGCATGAATGATTT
63 ATATTTGCATGAGTGATTT
6757555 TTATGGTATT
Statistics
Matches: 200, Mismatches: 29, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
152 20 0.10
153 6 0.03
154 45 0.22
155 95 0.47
157 1 0.00
158 30 0.15
159 3 0.01
ACGTcount: A:0.31, C:0.04, G:0.11, T:0.54
Consensus pattern (154 bp):
TATTTAATTACATGATTATTAATATATTTAGTTTTACGATTATATTTATTTGCATGATTAATATA
TTTGCATGAGTGATTTAATATATATTTACATGATTATTAATATATTTATTTGCATGATTATATTT
AATTTGATTGCATGATTATTAATA
Found at i:6757575 original size:31 final size:34
Alignment explanation
Indices: 6757529--6757595 Score: 88
Period size: 31 Copynumber: 2.1 Consensus size: 34
6757519 TGATTGCATG
*
6757529 ATTATATATATTTGCATGAATGA-TTTT-TATGGT
1 ATTATATATATTTGCATG-ATAATTTTTGTATGGT
6757562 ATTATAT-TA-TTGCATGATAATTTTTGTATGGT
1 ATTATATATATTTGCATGATAATTTTTGTATGGT
6757594 AT
1 AT
6757596 GAATTTGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
30 3 0.10
31 11 0.35
32 10 0.32
33 7 0.23
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.52
Consensus pattern (34 bp):
ATTATATATATTTGCATGATAATTTTTGTATGGT
Found at i:6758087 original size:22 final size:22
Alignment explanation
Indices: 6758059--6758500 Score: 140
Period size: 22 Copynumber: 20.1 Consensus size: 22
6758049 TATGACATCG
6758059 ATGATAATTTAATAGTAAATTA
1 ATGATAATTTAATAGTAAATTA
* *
6758081 ATGATAAATTAATAGTAAATCA
1 ATGATAATTTAATAGTAAATTA
* *
6758103 AT-TTCAATTTAATAATAACTAATTA
1 ATGAT-AATTTAATAGT-A--AATTA
* *
6758128 AT-A-AATTCAATAATAAATCATA
1 ATGATAATTTAATAGTAAAT--TA
* * *
6758150 A--ATAAATTAACAGTAAATCA
1 ATGATAATTTAATAGTAAATTA
* *
6758170 ATGATAATTTAATAGTTAATCA
1 ATGATAATTTAATAGTAAATTA
* * * *
6758192 TTTGA-AACTTAAAAGTAAATCA
1 -ATGATAATTTAATAGTAAATTA
* * * *
6758214 AT-ATAATTGAATAATTAATCA
1 ATGATAATTTAATAGTAAATTA
* *
6758235 ATGATAACTTAATAGTAAA-TC
1 ATGATAATTTAATAGTAAATTA
* *
6758256 ATGGATAATTTAATA-AAAATCA
1 AT-GATAATTTAATAGTAAATTA
* * * *
6758278 ATGATAATTTGATAATGAA-TC
1 ATGATAATTTAATAGTAAATTA
* * *
6758299 ATGATTAATTTAGTAATAAATTT
1 ATGA-TAATTTAATAGTAAATTA
* * **
6758322 GTGATGATTTTGTAGTAAA-TA
1 ATGATAATTTAATAGTAAATTA
** * *
6758343 ATCGA-AAACTAAGTTGTAAATCA
1 AT-GATAATTTAA-TAGTAAATTA
* * *
6758366 ATAATAATATAGTAGTAAA-TA
1 ATGATAATTTAATAGTAAATTA
* ** *
6758387 CATAATAACATAATAATAAAATTA
1 -ATGATAATTTAATAGT-AAATTA
*
6758411 TTGATAATTTAGAT-GTAAATTA
1 ATGATAATTTA-ATAGTAAATTA
* * *
6758433 TTGATAATTTAGTAGTAAATCA
1 ATGATAATTTAATAGTAAATTA
* * * *
6758455 CTAATAATTTAATTGT-AAGTA
1 ATGATAATTTAATAGTAAATTA
* * *
6758476 ACTGAGAATTTAGTAGCAAATTA
1 A-TGATAATTTAATAGTAAATTA
6758499 AT
1 AT
6758501 TAATCATTGA
Statistics
Matches: 305, Mismatches: 87, Indels: 56
0.68 0.19 0.12
Matches are distributed among these distances:
20 6 0.02
21 46 0.15
22 202 0.66
23 41 0.13
24 4 0.01
25 6 0.02
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.36
Consensus pattern (22 bp):
ATGATAATTTAATAGTAAATTA
Found at i:6758099 original size:11 final size:11
Alignment explanation
Indices: 6758067--6758100 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
6758057 CGATGATAAT
6758067 TTAATAGTAAA
1 TTAATAGTAAA
6758078 TTAAT-GATAAA
1 TTAATAG-TAAA
6758089 TTAATAGTAAA
1 TTAATAGTAAA
6758100 T
1 T
6758101 CAATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 1 0.05
11 19 0.90
12 1 0.05
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (11 bp):
TTAATAGTAAA
Found at i:6758139 original size:23 final size:23
Alignment explanation
Indices: 6758108--6758157 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
6758098 AATCAATTTC
* * *
6758108 AATTTAATAATAACTAATTAATA
1 AATTCAATAATAAATAATAAATA
*
6758131 AATTCAATAATAAATCATAAATA
1 AATTCAATAATAAATAATAAATA
6758154 AATT
1 AATT
6758158 AACAGTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (23 bp):
AATTCAATAATAAATAATAAATA
Found at i:6758277 original size:21 final size:21
Alignment explanation
Indices: 6758059--6758319 Score: 145
Period size: 22 Copynumber: 12.0 Consensus size: 21
6758049 TATGACATCG
* *
6758059 ATGATAATTTAATAGTAAATTA
1 ATGATAATTTAATAATAAA-TC
* *
6758081 ATGATAAATTAATAGTAAATC
1 ATGATAATTTAATAATAAATC
* * *
6758102 AAT-TTCAATTTAATAATAACTA
1 -ATGAT-AATTTAATAATAAATC
* *
6758124 ATTAATAAATTCAATAATAAATC
1 A-TGAT-AATTTAATAATAAATC
* * * *
6758147 ATAAATAAATTAACAGTAAATC
1 AT-GATAATTTAATAATAAATC
* *
6758169 AATGATAATTTAATAGTTAATC
1 -ATGATAATTTAATAATAAATC
*
6758191 ATTTGA-AACTTAA-AAGTAAATC
1 A--TGATAATTTAATAA-TAAATC
* *
6758213 AAT-ATAATTGAATAATTAATC
1 -ATGATAATTTAATAATAAATC
* *
6758234 AATGATAACTTAATAGTAAATC
1 -ATGATAATTTAATAATAAATC
6758256 ATGGATAATTTAATAA-AAATC
1 AT-GATAATTTAATAATAAATC
* *
6758277 AATGATAATTTGATAATGAATC
1 -ATGATAATTTAATAATAAATC
*
6758299 ATGATTAATTTAGTAATAAAT
1 ATGA-TAATTTAATAATAAAT
6758320 TTGTGATGAT
Statistics
Matches: 185, Mismatches: 37, Indels: 34
0.72 0.14 0.13
Matches are distributed among these distances:
20 1 0.01
21 42 0.23
22 118 0.64
23 24 0.13
ACGTcount: A:0.51, C:0.06, G:0.07, T:0.36
Consensus pattern (21 bp):
ATGATAATTTAATAATAAATC
Found at i:6758285 original size:65 final size:64
Alignment explanation
Indices: 6758165--6758303 Score: 160
Period size: 65 Copynumber: 2.2 Consensus size: 64
6758155 ATTAACAGTA
* * *
6758165 AATCAATGATAATTTAATAGTTAATCATTTGAAACTTAAAAGTAAATCAATATAA-TTGAATAAT
1 AATCAATGATAACTTAATAGTAAATCATTGGAAACTTAAAAG-AAATCAATATAATTTG-ATAAT
*
6758229 T
64 G
*
6758230 AATCAATGATAACTTAATAGTAAATCA-TGGATAATTTAATAA-AAATCAATGATAATTTGATAA
1 AATCAATGATAACTTAATAGTAAATCATTGGA-AACTTAA-AAGAAATCAAT-ATAATTTGATAA
6758293 TG
63 TG
6758295 AATC-ATGAT
1 AATCAATGAT
6758304 TAATTTAGTA
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
64 16 0.25
65 44 0.68
66 5 0.08
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.35
Consensus pattern (64 bp):
AATCAATGATAACTTAATAGTAAATCATTGGAAACTTAAAAGAAATCAATATAATTTGATAATG
Found at i:6758299 original size:43 final size:43
Alignment explanation
Indices: 6758059--6758319 Score: 156
Period size: 43 Copynumber: 6.0 Consensus size: 43
6758049 TATGACATCG
* * * * *
6758059 ATGATAATTTAATAGTAAATTAATGATAAATTAATAGTAAATCA
1 ATGATAACTTAATAATAAA-TCATGATAATTTAATAATAAATCA
* * * * * *
6758103 AT-TTCAATTTAATAATAACTAATTAATAAATTCAATAATAAATC-
1 ATGAT-AACTTAATAATAAATCA-TGAT-AATTTAATAATAAATCA
* * * * * *
6758147 ATAAATAAATTAACAGTAAATCAATGATAATTTAATAGTTAATCA
1 AT-GATAACTTAATAATAAATC-ATGATAATTTAATAATAAATCA
* * *
6758192 TTTGA-AACTTAA-AAGTAAATCAAT-ATAATTGAATAATTAATCA
1 -ATGATAACTTAATAA-TAAATC-ATGATAATTTAATAATAAATCA
*
6758235 ATGATAACTTAATAGTAAATCATGGATAATTTAATAA-AAATCA
1 ATGATAACTTAATAATAAATCAT-GATAATTTAATAATAAATCA
* * * *
6758278 ATGATAATTTGATAATGAATCATGATTAATTTAGTAATAAAT
1 ATGATAACTTAATAATAAATCATGA-TAATTTAATAATAAAT
6758320 TTGTGATGAT
Statistics
Matches: 170, Mismatches: 32, Indels: 30
0.73 0.14 0.13
Matches are distributed among these distances:
42 7 0.04
43 69 0.41
44 63 0.37
45 28 0.16
46 3 0.02
ACGTcount: A:0.51, C:0.06, G:0.07, T:0.36
Consensus pattern (43 bp):
ATGATAACTTAATAATAAATCATGATAATTTAATAATAAATCA
Found at i:6758593 original size:44 final size:44
Alignment explanation
Indices: 6758502--6758593 Score: 98
Period size: 44 Copynumber: 2.1 Consensus size: 44
6758492 CAAATTAATT
** * *
6758502 AATCATTGATAACTTTATAGTAAATTATTAATTAATTAATAGTA
1 AATCATTGATAACTTTATAACAAATTATTAAGTAATTAATAGCA
* *
6758546 AATCAGTT-ATAACTTTATAACAAATTA-TCAGTAACTTAGTAGCA
1 AATCA-TTGATAACTTTATAACAAATTATTAAGTAA-TTAATAGCA
6758590 AATC
1 AATC
6758594 GTCAATAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
43 5 0.12
44 33 0.82
45 2 0.05
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.38
Consensus pattern (44 bp):
AATCATTGATAACTTTATAACAAATTATTAAGTAATTAATAGCA
Found at i:6758606 original size:22 final size:22
Alignment explanation
Indices: 6758581--6758679 Score: 101
Period size: 22 Copynumber: 4.5 Consensus size: 22
6758571 TATCAGTAAC
*
6758581 TTAGTAGCAAATC-GTCAATAAT
1 TTAGTAGTAAATCAGT-AATAAT
* * *
6758603 TTAGGAGTAAATCAGTTATAAC
1 TTAGTAGTAAATCAGTAATAAT
* * *
6758625 TTAGTAGTAAATCATTCATAAA
1 TTAGTAGTAAATCAGTAATAAT
*
6758647 TTAGTAGTAAATCAGTACTAAT
1 TTAGTAGTAAATCAGTAATAAT
*
6758669 TTAGTAATAAA
1 TTAGTAGTAAA
6758680 GATAATTTAG
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
22 61 0.97
23 2 0.03
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.34
Consensus pattern (22 bp):
TTAGTAGTAAATCAGTAATAAT
Found at i:6758651 original size:66 final size:66
Alignment explanation
Indices: 6758542--6758672 Score: 160
Period size: 66 Copynumber: 2.0 Consensus size: 66
6758532 ATTAATTAAT
* *
6758542 AGTAAATCAGTTATAACTTTATAACAAATTATCAGTAACTTAGTAGCAAATC-GTCAATAATTTA
1 AGTAAATCAGTTATAACTTTATAACAAATCATCAGTAAATTAGTAGCAAATCAGT-AATAATTTA
6758606 GG
65 GG
** * *
6758608 AGTAAATCAGTTATAAC-TTAGTAGTAAATCATTCA-TAAATTAGTAGTAAATCAGTACTAATTT
1 AGTAAATCAGTTATAACTTTA-TAACAAATCA-TCAGTAAATTAGTAGCAAATCAGTAATAATTT
6758671 AG
64 AG
6758673 TAATAAAGAT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
65 3 0.05
66 48 0.86
67 5 0.09
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (66 bp):
AGTAAATCAGTTATAACTTTATAACAAATCATCAGTAAATTAGTAGCAAATCAGTAATAATTTAG
G
Found at i:6758673 original size:44 final size:44
Alignment explanation
Indices: 6758577--6758679 Score: 120
Period size: 44 Copynumber: 2.3 Consensus size: 44
6758567 AAATTATCAG
* *
6758577 TAACTTAGTAGCAAATCGTCAATAATTTAGGAGTAAATCAGTTA
1 TAACTTAGTAGTAAATCGTCAATAAATTAGGAGTAAATCAGTTA
* *
6758621 TAACTTAGTAGTAAATCATTC-ATAAATTAGTAGTAAATCAG-TA
1 TAACTTAGTAGTAAATC-GTCAATAAATTAGGAGTAAATCAGTTA
* *
6758664 CTAATTTAGTAATAAA
1 -TAACTTAGTAGTAAA
6758680 GATAATTTAG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
43 2 0.04
44 47 0.92
45 2 0.04
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.34
Consensus pattern (44 bp):
TAACTTAGTAGTAAATCGTCAATAAATTAGGAGTAAATCAGTTA
Found at i:6759143 original size:21 final size:21
Alignment explanation
Indices: 6759056--6759151 Score: 68
Period size: 21 Copynumber: 4.5 Consensus size: 21
6759046 TATCAAAATA
* *
6759056 TTACTAAAATTAAATAAAGAAG
1 TTACTAAAATTATAT-CAGAAG
* * *
6759078 TTACTAAAATTTTATGAGAAA
1 TTACTAAAATTATATCAGAAG
* ** *
6759099 TTACCAAAATTGCATCA-ATGG
1 TTACTAAAATTATATCAGA-AG
*
6759120 TTACTAAAATTATATCATAAG
1 TTACTAAAATTATATCAGAAG
*
6759141 TTACCAAAATT
1 TTACTAAAATT
6759152 TTAACAAAGG
Statistics
Matches: 57, Mismatches: 15, Indels: 5
0.74 0.19 0.06
Matches are distributed among these distances:
20 1 0.02
21 42 0.74
22 14 0.25
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.33
Consensus pattern (21 bp):
TTACTAAAATTATATCAGAAG
Found at i:6759164 original size:21 final size:21
Alignment explanation
Indices: 6759099--6759171 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
6759089 TTATGAGAAA
** *
6759099 TTACCAAAATTGCATCAATGG
1 TTACCAAAATTATATCAAAGG
*
6759120 TTACTAAAATTATATCATAA-G
1 TTACCAAAATTATATCA-AAGG
* *
6759141 TTACCAAAATTTTAACAAAGG
1 TTACCAAAATTATATCAAAGG
*
6759162 TTAACAAAAT
1 TTACCAAAAT
6759172 CAAAATTATA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 2 0.05
21 39 0.93
22 1 0.02
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.32
Consensus pattern (21 bp):
TTACCAAAATTATATCAAAGG
Found at i:6759164 original size:42 final size:42
Alignment explanation
Indices: 6759077--6759164 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
6759067 AAATAAAGAA
* * * *
6759077 GTTACTAAAATTTTATGAGAAATTACCAAAATTGCATCAATG
1 GTTACTAAAATTATATCAGAAATTACCAAAATTGCAACAAAG
* * **
6759119 GTTACTAAAATTATATCATAAGTTACCAAAATTTTAACAAAG
1 GTTACTAAAATTATATCAGAAATTACCAAAATTGCAACAAAG
6759161 GTTA
1 GTTA
6759165 ACAAAATCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.34
Consensus pattern (42 bp):
GTTACTAAAATTATATCAGAAATTACCAAAATTGCAACAAAG
Found at i:6760634 original size:11 final size:11
Alignment explanation
Indices: 6760618--6760654 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
6760608 TTATTTATTT
6760618 TTAAAATTTTA
1 TTAAAATTTTA
6760629 TTAAAATTTTA
1 TTAAAATTTTA
*
6760640 TTATAACTTTTA
1 TTA-AAATTTTA
6760652 TTA
1 TTA
6760655 TTATTTTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (11 bp):
TTAAAATTTTA
Found at i:6760661 original size:11 final size:11
Alignment explanation
Indices: 6760622--6760661 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
6760612 TTATTTTTAA
*
6760622 AATTTTATTAA
1 AATTTTATTAT
6760633 AATTTTATTAT
1 AATTTTATTAT
6760644 AACTTTTATTAT
1 AA-TTTTATTAT
*
6760656 TATTTT
1 AATTTT
6760662 GATAACTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (11 bp):
AATTTTATTAT
Found at i:6760744 original size:24 final size:24
Alignment explanation
Indices: 6760717--6760784 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 24
6760707 AAGGTATATC
*
6760717 ACAAATAAATAATAAAATAAATGA
1 ACAAATAAATAATAAAATAAATAA
*
6760741 ACAAATAGAACTCAT--AATAAATAA
1 ACAAATA-AA-TAATAAAATAAATAA
*
6760765 ATAAAT-AA-AATAAAATAAAT
1 ACAAATAAATAATAAAATAAAT
6760785 TTTACTAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
20 2 0.06
22 9 0.25
24 20 0.56
25 2 0.06
26 3 0.08
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.22
Consensus pattern (24 bp):
ACAAATAAATAATAAAATAAATAA
Found at i:6761997 original size:2 final size:2
Alignment explanation
Indices: 6761985--6762015 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
6761975 TGTTTATAAC
6761985 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6762016 TACAATAGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6770387 original size:15 final size:15
Alignment explanation
Indices: 6770367--6770400 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6770357 AAATATTAAT
6770367 AAAGGAAA-AACAAGG
1 AAAGGAAAGAAC-AGG
6770382 AAAGGAAAGAACAGG
1 AAAGGAAAGAACAGG
6770397 AAAG
1 AAAG
6770401 TTTTTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.83
16 3 0.17
ACGTcount: A:0.65, C:0.06, G:0.29, T:0.00
Consensus pattern (15 bp):
AAAGGAAAGAACAGG
Found at i:6774142 original size:6 final size:6
Alignment explanation
Indices: 6774116--6774292 Score: 83
Period size: 7 Copynumber: 27.7 Consensus size: 6
6774106 AAAAAACCCC
* * ** *
6774116 AAACTT AAACCCT AAATCCT AAACCT AAAACCT -AACTTT ACCCCT AAATCCA
1 AAACCT AAA-CCT AAA-CCT AAACCT -AAACCT AAAC-CT AAACCT AAA-CCT
* *
6774168 AAACCT AAAACCT -AACCT TAACTTT AAACCT AAACCT AAACCT AAACCT
1 AAACCT -AAACCT AAACCT AAAC-CT AAACCT AAACCT AAACCT AAACCT
* * **
6774217 AAAGCCT AAACCCC AAAACT AAACCCT -AACACT -AACCTT AAATTT AAACCCT
1 AAA-CCT AAA-CCT AAACCT AAA-CCT AAAC-CT AAACC-T AAACCT AAA-CCT
*
6774269 AAACTCT AAACCT AGACCCT AAAC
1 AAAC-CT AAACCT A-AACCT AAAC
6774293 TCTCGACTCT
Statistics
Matches: 131, Mismatches: 24, Indels: 32
0.70 0.13 0.17
Matches are distributed among these distances:
5 10 0.08
6 58 0.44
7 63 0.48
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.21
Consensus pattern (6 bp):
AAACCT
Found at i:6774142 original size:13 final size:12
Alignment explanation
Indices: 6774116--6774292 Score: 83
Period size: 13 Copynumber: 13.8 Consensus size: 12
6774106 AAAAAACCCC
*
6774116 AAACTTAAACCCT
1 AAACCTAAA-CCT
6774129 AAATCCTAAACCT
1 AAA-CCTAAACCT
*
6774142 AAAACCT-AACTTT
1 -AAACCTAAAC-CT
** *
6774155 ACCCCTAAATCCA
1 AAACCTAAA-CCT
6774168 AAACCTAAAACCT
1 AAACCT-AAACCT
* *
6774181 -AACCTTAACTTT
1 AAACCTAAAC-CT
6774193 AAACCTAAACCT
1 AAACCTAAACCT
6774205 AAACCTAAACCT
1 AAACCTAAACCT
*
6774217 AAAGCCTAAACCCC
1 AAA-CCTAAA-CCT
*
6774231 AAAACTAAACCCT
1 AAACCTAAA-CCT
6774244 -AACACT-AACCTT
1 AAAC-CTAAACC-T
**
6774256 AAATTTAAACCCT
1 AAACCTAAA-CCT
6774269 AAACTCTAAACCT
1 AAAC-CTAAACCT
*
6774282 AGACCCTAAAC
1 A-AACCTAAAC
6774293 TCTCGACTCT
Statistics
Matches: 125, Mismatches: 22, Indels: 34
0.69 0.12 0.19
Matches are distributed among these distances:
11 5 0.04
12 35 0.28
13 60 0.48
14 25 0.20
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.21
Consensus pattern (12 bp):
AAACCTAAACCT
Found at i:6774161 original size:32 final size:32
Alignment explanation
Indices: 6774123--6774259 Score: 127
Period size: 32 Copynumber: 4.3 Consensus size: 32
6774113 CCCAAACTTA
*
6774123 AACCCTAAATCCTAAACCTAAAACCTAACTTT
1 AACCCTAAATCCTAAACCTAAAACCTAACCTT
* *
6774155 ACCCCTAAATCCAAAACCTAAAACCTAACCTT
1 AACCCTAAATCCTAAACCTAAAACCTAACCTT
** *
6774187 AACTTTAAA-CCTAAACCT-AAACCTAAACCTA
1 AACCCTAAATCCTAAACCTAAAACCT-AACCTT
* * * * *
6774218 AAGCCTAAACCCCAAAACTAAACCCTAACAC-T
1 AACCCTAAATCCTAAACCTAAAACCTAAC-CTT
*
6774250 AACCTTAAAT
1 AACCCTAAAT
6774260 TTAAACCCTA
Statistics
Matches: 83, Mismatches: 18, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
30 6 0.07
31 19 0.23
32 52 0.63
33 6 0.07
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.20
Consensus pattern (32 bp):
AACCCTAAATCCTAAACCTAAAACCTAACCTT
Found at i:6774198 original size:18 final size:17
Alignment explanation
Indices: 6774168--6774228 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 17
6774158 CCTAAATCCA
6774168 AAACCTAAAACCTAACCT
1 AAACCT-AAACCTAACCT
* *
6774186 TAACTTTAAACCTAAACCT
1 AAAC-CTAAACCT-AACCT
6774205 AAACCTAAACCTAAAGCCT
1 AAACCTAAACCT-AA-CCT
6774224 AAACC
1 AAACC
6774229 CCAAAACTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 19 0.53
19 17 0.47
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.20
Consensus pattern (17 bp):
AAACCTAAACCTAACCT
Found at i:6774209 original size:25 final size:23
Alignment explanation
Indices: 6774158--6774228 Score: 70
Period size: 25 Copynumber: 2.9 Consensus size: 23
6774148 TAACTTTACC
*
6774158 CCTAAATCCAAAACCTAAAACCTAA
1 CCTAAA-CCTAAACCT-AAACCTAA
* *
6774183 CCTTAACTTTAAACCTAAACCTAAA
1 CCTAAAC-CTAAACCTAAACCT-AA
6774208 CCTAAACCTAAAGCCTAAACC
1 CCTAAACCTAAA-CCTAAACC
6774229 CCAAAACTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
24 11 0.29
25 27 0.71
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.20
Consensus pattern (23 bp):
CCTAAACCTAAACCTAAACCTAA
Found at i:6774791 original size:17 final size:18
Alignment explanation
Indices: 6774758--6774810 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 18
6774748 TTTTATTTTT
*
6774758 AAAAAAGAAAAAAAAAAG
1 AAAAAAGAAAAAAGAAAG
*
6774776 AAAGCAAAGGAAAAAAAAAAG
1 AAA--AAA-GAAAAAAGAAAG
6774797 AAAAAAGAAAAAAG
1 AAAAAAGAAAAAAG
6774811 GGAATTAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
18 10 0.32
19 3 0.10
20 3 0.10
21 15 0.48
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (18 bp):
AAAAAAGAAAAAAGAAAG
Done.