Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 24 of 322
Found at i:6972661 original size:21 final size:22
Alignment explanation
Indices: 6972635--6972693 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
6972625 GTTTTAAGAA
*
6972635 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
6972656 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
6972678 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
6972694 GACTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:6974001 original size:15 final size:15
Alignment explanation
Indices: 6973981--6974010 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6973971 TAACTAACCA
6973981 ACTGTCACATAAAAT
1 ACTGTCACATAAAAT
6973996 ACTGTCACATAAAAT
1 ACTGTCACATAAAAT
6974011 GCTTGATGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.27
Consensus pattern (15 bp):
ACTGTCACATAAAAT
Found at i:6974464 original size:18 final size:18
Alignment explanation
Indices: 6974421--6974467 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
6974411 CAAATACATT
*
6974421 TAAAAACAT-AAAAATAAA
1 TAAAAA-ATAAAAAACAAA
*
6974439 TATTAAAATAAAAAACAAA
1 TA-AAAAATAAAAAACAAA
6974458 TAAAAAATAA
1 TAAAAAATAA
6974468 GACTAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (18 bp):
TAAAAAATAAAAAACAAA
Found at i:6974901 original size:12 final size:12
Alignment explanation
Indices: 6974877--6974911 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
6974867 TTAGCCTTTA
6974877 ATGC-TCCTTCT
1 ATGCTTCCTTCT
*
6974888 ATGCTTCTTTCT
1 ATGCTTCCTTCT
6974900 ATGCTTCCTTCT
1 ATGCTTCCTTCT
6974912 TGCCTCATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.09, C:0.31, G:0.09, T:0.51
Consensus pattern (12 bp):
ATGCTTCCTTCT
Found at i:6979674 original size:3 final size:3
Alignment explanation
Indices: 6979666--6979775 Score: 50
Period size: 3 Copynumber: 37.0 Consensus size: 3
6979656 TTAACTGCAT
* * * * * *
6979666 TTA TTA TTA TTA TTA TTA TCA TTA TTA ATG TTG TTA TTT TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
6979714 CTA TT- TCT- TTA TTT TTA TTTA ATA TTA -TA TTA -TA CTGT- TTA TTT
1 TTA TTA T-TA TTA TTA TTA -TTA TTA TTA TTA TTA TTA -T-TA TTA TTA
*
6979758 TTA TTA TTA TTA GTA TTA
1 TTA TTA TTA TTA TTA TTA
6979776 GTTTTAGCTT
Statistics
Matches: 81, Mismatches: 18, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
2 7 0.09
3 70 0.86
4 3 0.04
5 1 0.01
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:6983067 original size:22 final size:22
Alignment explanation
Indices: 6983042--6983083 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
6983032 TCTTGAACTC
*
6983042 GAACCCTTAAC-CTCAAACCCTT
1 GAACCCTAAACTCT-AAACCCTT
6983064 GAACCCTAAACTCTAAACCC
1 GAACCCTAAACTCTAAACCC
6983084 AAAATTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.36, C:0.40, G:0.05, T:0.19
Consensus pattern (22 bp):
GAACCCTAAACTCTAAACCCTT
Found at i:6990717 original size:10 final size:10
Alignment explanation
Indices: 6990700--6990842 Score: 70
Period size: 10 Copynumber: 14.0 Consensus size: 10
6990690 CATTTTAACA
6990700 ATATATTATT
1 ATATATTATT
6990710 -TCATATTATT
1 AT-ATATTATT
6990720 AT-TATTTATT
1 ATATA-TTATT
6990730 ATATATTATTTTT
1 ATATATTA---TT
*
6990743 CATAAATTATT
1 -ATATATTATT
6990754 AT-TATTATT
1 ATATATTATT
* *
6990763 TTACATTATT
1 ATATATTATT
*
6990773 ATTTATATATT
1 ATATAT-TATT
6990784 ATTATATT-TT
1 A-TATATTATT
6990794 -TACT-TGTATT
1 ATA-TAT-TATT
6990804 ATATATTTATT
1 ATATA-TTATT
*
6990815 AAATATT-TGT
1 ATATATTAT-T
6990825 ATATATTA-T
1 ATATATTATT
6990834 ATA-ATTATT
1 ATATATTATT
6990843 TTATTATAAA
Statistics
Matches: 103, Mismatches: 10, Indels: 41
0.67 0.06 0.27
Matches are distributed among these distances:
8 7 0.07
9 18 0.17
10 43 0.42
11 21 0.20
12 5 0.05
13 2 0.02
14 7 0.07
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (10 bp):
ATATATTATT
Found at i:6990719 original size:3 final size:3
Alignment explanation
Indices: 6990713--6990788 Score: 57
Period size: 3 Copynumber: 24.0 Consensus size: 3
6990703 TATTATTTCA
* *
6990713 TAT TAT TAT TATT TAT TAT ATAT TAT TTT TCAT AAAT TAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT -TAT TAT TAT T-AT -TAT TAT TAT TAT TAT
*
6990762 T-T TA- CAT TAT TATT TAT ATAT TAT TAT
1 TAT TAT TAT TAT TA-T TAT -TAT TAT TAT
6990789 ATTTTTACTT
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
2 3 0.05
3 41 0.69
4 15 0.25
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:6990736 original size:30 final size:31
Alignment explanation
Indices: 6990700--6990788 Score: 94
Period size: 30 Copynumber: 2.8 Consensus size: 31
6990690 CATTTTAACA
6990700 ATATATTATTTCATATTATTATTATT-TATT
1 ATATATTATTTCATATTATTATTATTATATT
*
6990730 ATATATTATTTTTCATAAATTATTATTATTATTTT
1 ATATATTA--TTTCAT--ATTATTATTATTATATT
*
6990765 ACATTATTATTT-ATA-TATTATTAT
1 ATA-TATTATTTCATATTATTATTAT
6990789 ATTTTTACTT
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
30 17 0.33
31 1 0.02
32 6 0.12
33 2 0.04
34 15 0.29
35 5 0.10
36 5 0.10
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (31 bp):
ATATATTATTTCATATTATTATTATTATATT
Found at i:6994672 original size:11 final size:10
Alignment explanation
Indices: 6994645--6994683 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
6994635 GTGTGTACTG
6994645 TGTAATTGAA
1 TGTAATTGAA
*
6994655 AGTAATTGAA
1 TGTAATTGAA
6994665 CTGTAATTGAAA
1 -TGTAATTG-AA
6994677 TGTAATT
1 TGTAATT
6994684 TCAATGATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 9 0.36
11 14 0.56
12 2 0.08
ACGTcount: A:0.41, C:0.03, G:0.18, T:0.38
Consensus pattern (10 bp):
TGTAATTGAA
Found at i:6999470 original size:213 final size:213
Alignment explanation
Indices: 6999105--7000072 Score: 1438
Period size: 213 Copynumber: 4.6 Consensus size: 213
6999095 ATCTGTGTAG
* * *
6999105 TTTTCCAGAAATCTTAGAGACCATGGAGATGTTGAGGGAGATTGATTTAA-CAGGAACAGCTTTG
1 TTTTCCAGAAATCTTAGAGACCATGGAGATGTTGAGCGAGCTTGATTTAAGC-GGAACGGCTTTG
*
6999169 AAGGAATT---A--C-C-ATTGACAATCTTATTGGTCTTAAGGTTTTGAGATTGAACAACTGTAA
65 AAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTGAGGTTTTGAGATTGAACAACTGTAA
* * *
6999227 AAACCTTGTTTACCTTCCTGACAGCCTTTATAAATTGAAATTTCTTAAGAGATTTTATCTTGAAG
130 AAACCTTGTTTACCTTCCTGACAACCTTTATAAATTGAAATCTCTTAAGAGATTTGATCTTGAAG
6999292 GTTGCTCAAGATTGGAGAT
195 GTTGCTCAAGATTGGAGAT
* * ***
6999311 TTTTCCAGAAATCTTAGAGACCATGGAGAGGTTAAGCTTTCTTGATTTAAGCGGAACGGCTTTGA
1 TTTTCCAGAAATCTTAGAGACCATGGAGATGTTGAGCGAGCTTGATTTAAGCGGAACGGCTTTGA
6999376 AGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTGAGGTTTTGAGATTGAACAACTGTAAA
66 AGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTGAGGTTTTGAGATTGAACAACTGTAAA
*
6999441 AACCTTGTTTACCTTCCTAACAACCTTTATAAATTGAAATCTCTTAAGAGATTTGATCTT-AACG
131 AACCTTGTTTACCTTCCTGACAACCTTTATAAATTGAAATCTCTTAAGAGATTTGATCTTGAA-G
*
6999505 GTTGCTCGAGATTGGAGAT
195 GTTGCTCAAGATTGGAGAT
*
6999524 TTTTCCAGAAATCTTAGAGACCATGGATATGTTGAG-GAGCTTGATTTAAGCGGAACGGCTTTGA
1 TTTTCCAGAAATCTTAGAGACCATGGAGATGTTGAGCGAGCTTGATTTAAGCGGAACGGCTTTGA
* * *
6999588 AGGAATTACCATCCCCAATTGACAATCTTATTGGTCTTAAGGTTTTGAGATT-AATAACTGTAAA
66 AGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTGAGGTTTTGAGATTGAACAACTGTAAA
*
6999652 AACCTTGTTTGCCTTCCTGACAACCTTTATAAATTGAAATCTCTTAAGAGATTTGATCTTGAAGG
131 AACCTTGTTTACCTTCCTGACAACCTTTATAAATTGAAATCTCTTAAGAGATTTGATCTTGAAGG
* *
6999717 TTGCTCGACATTGGAGAT
196 TTGCTCAAGATTGGAGAT
* * ***
6999735 TTTTCCAGAAATCTTAGAGACCATGGAGAGGTTAAGCTTTCTTGATTTAAGCGGAACGGCTTTGA
1 TTTTCCAGAAATCTTAGAGACCATGGAGATGTTGAGCGAGCTTGATTTAAGCGGAACGGCTTTGA
* * * * * *
6999800 AGGAATTACCATCCTCAATTGACAATCTTATTAGTCTTGATGATCTGAGATTGAAAAACTGTGAA
66 AGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTGAGGTTTTGAGATTGAACAACTGTAAA
* * * * * *
6999865 AATCTTGTTTGCCTTCCTGACAGCCTTTATAATTTGAAATCTCTTGAGAGATTTTATCTTGAAGG
131 AACCTTGTTTACCTTCCTGACAACCTTTATAAATTGAAATCTCTTAAGAGATTTGATCTTGAAGG
6999930 TTGCTCAAGATTGGAGAT
196 TTGCTCAAGATTGGAGAT
* *
6999948 TTTTCCAGAAATCTTAGAGACCATGGAGATGTTGAGGGAGCTTGATTTAAGCGGAACAGCTTTGA
1 TTTTCCAGAAATCTTAGAGACCATGGAGATGTTGAGCGAGCTTGATTTAAGCGGAACGGCTTTGA
* * *
7000013 AGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTCGAAG-CTTGACATTGAACAACT
66 AGGAATTACCATCCTCAATTGACAATCTTATTGGTCTT-GAGGTTTTGAGATTGAACAACT
7000073 TTGAGAAATT
Statistics
Matches: 689, Mismatches: 60, Indels: 19
0.90 0.08 0.02
Matches are distributed among these distances:
206 62 0.09
207 1 0.00
209 1 0.00
211 122 0.18
212 151 0.22
213 349 0.51
214 3 0.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (213 bp):
TTTTCCAGAAATCTTAGAGACCATGGAGATGTTGAGCGAGCTTGATTTAAGCGGAACGGCTTTGA
AGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTGAGGTTTTGAGATTGAACAACTGTAAA
AACCTTGTTTACCTTCCTGACAACCTTTATAAATTGAAATCTCTTAAGAGATTTGATCTTGAAGG
TTGCTCAAGATTGGAGAT
Found at i:7004882 original size:12 final size:13
Alignment explanation
Indices: 7004865--7004901 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
7004855 GAACCGGACA
7004865 CGAACCGAA-CTC
1 CGAACCGAAGCTC
7004877 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
7004889 CGAACCGTAGCTC
1 CGAACCGAAGCTC
7004902 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:7010041 original size:15 final size:17
Alignment explanation
Indices: 7010004--7010063 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 17
7009994 CAGTTTTGTG
7010004 AATTATTTTATATTATAT
1 AATT-TTTTATATTATAT
7010022 AATTTTTTATA-TAT-T
1 AATTTTTTATATTATAT
* *
7010037 --TATTTTATATTTTAT
1 AATTTTTTATATTATAT
7010052 AATTTTTT-TATT
1 AATTTTTTATATT
7010064 TGTAAGTCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
13 8 0.23
14 2 0.06
15 2 0.06
16 7 0.20
17 12 0.34
18 4 0.11
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
AATTTTTTATATTATAT
Found at i:7010050 original size:12 final size:13
Alignment explanation
Indices: 7010010--7010051 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
7010000 TGTGAATTAT
*
7010010 TTTATATTATATA
1 TTTATTTTATATA
*
7010023 ATT-TTTTATATA
1 TTTATTTTATATA
7010035 TTTATTTTATAT-
1 TTTATTTTATATA
7010047 TTTAT
1 TTTAT
7010052 AATTTTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTATTTTATATA
Found at i:7010060 original size:18 final size:20
Alignment explanation
Indices: 7010026--7010062 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7010016 TTATATAATT
7010026 TTTTATATATTTATTTTATA
1 TTTTATATATTTATTTTATA
7010046 TTTTATA-ATTT-TTTTAT
1 TTTTATATATTTATTTTAT
7010063 TTGTAAGTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTATATATTTATTTTATA
Found at i:7010584 original size:21 final size:22
Alignment explanation
Indices: 7010536--7010586 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
7010526 TATTAGAATA
7010536 TACCCAT-TCTTTGCCCATACC
1 TACCCATATCTTTGCCCATACC
** *
7010557 TTGCCATATCTTT-CTCATACC
1 TACCCATATCTTTGCCCATACC
7010578 TACCCATAT
1 TACCCATAT
7010587 ATCGGAAAGG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.22, C:0.37, G:0.04, T:0.37
Consensus pattern (22 bp):
TACCCATATCTTTGCCCATACC
Found at i:7019285 original size:21 final size:20
Alignment explanation
Indices: 7019261--7019302 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
7019251 ATAAATAATG
7019261 ATAAAATAATAATAATAGATA
1 ATAAAATAATAATAAT-GATA
*
7019282 ATAAAATGATAATAATGATA
1 ATAAAATAATAATAATGATA
7019302 A
1 A
7019303 AGGTATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (20 bp):
ATAAAATAATAATAATGATA
Found at i:7021176 original size:42 final size:41
Alignment explanation
Indices: 7021114--7021220 Score: 162
Period size: 42 Copynumber: 2.6 Consensus size: 41
7021104 TTTAAACTTT
*
7021114 TAAAGTAATACTCAGCCTACAAGTTTCACGCTTTTGCAGTC
1 TAAAGTAATACTCAGCCTACAAGTTTCACACTTTTGCAGTC
*
7021155 TAAA-TAATAAACTCAGCCTACAAGTTTCACACTTTTGCAGTT
1 TAAAGTAAT--ACTCAGCCTACAAGTTTCACACTTTTGCAGTC
*
7021197 TAAAGTAGTACTCAGCCTACAAGT
1 TAAAGTAATACTCAGCCTACAAGT
7021221 CTCTAAGAGA
Statistics
Matches: 60, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
40 4 0.07
41 19 0.32
42 34 0.57
43 3 0.05
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.31
Consensus pattern (41 bp):
TAAAGTAATACTCAGCCTACAAGTTTCACACTTTTGCAGTC
Found at i:7029460 original size:15 final size:15
Alignment explanation
Indices: 7029437--7029472 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
7029427 CAAACCCTAA
*
7029437 ATATGTTGTTAATAT
1 ATATTTTGTTAATAT
7029452 ATATTTTGTTAATAT
1 ATATTTTGTTAATAT
7029467 ATATTT
1 ATATTT
7029473 ATCATAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (15 bp):
ATATTTTGTTAATAT
Found at i:7030749 original size:40 final size:41
Alignment explanation
Indices: 7030672--7030750 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 41
7030662 CACAACCTCA
* *
7030672 AACCCTTAAACCCTGAATCTTAAACCCAAAATTTAAACTCG
1 AACCCTTAAACCCTAAATCTTAAACCCAAAATCTAAACTCG
* *
7030713 AACCC-TAAACCTTAAATCTTGAACCC-AAATCCTAAACT
1 AACCCTTAAACCCTAAATCTTAAACCCAAAAT-CTAAACT
7030751 TCGGGATTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 4 0.12
40 24 0.73
41 5 0.15
ACGTcount: A:0.42, C:0.30, G:0.04, T:0.24
Consensus pattern (41 bp):
AACCCTTAAACCCTAAATCTTAAACCCAAAATCTAAACTCG
Found at i:7043330 original size:53 final size:53
Alignment explanation
Indices: 7043267--7043470 Score: 138
Period size: 53 Copynumber: 3.5 Consensus size: 53
7043257 TTTTAAATTG
**
7043267 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
1 ACTCATATTGCGAGAAATGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
* *** **
7043320 ACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATGTTTAGTTTATGTTTTAA
1 ACTCATATTGCGAGAAATGAGTTAAGCCT---TTTA-----A--T-T-TTT-G-TT-T-TTCAAA
**
7043385 ATTG
50 ATCA
* **
7043389 ACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
1 ACTCATATTGCGAGAAATGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
*
7043442 ACTCATATTGCGAGAAATGAGTTGAGCCT
1 ACTCATATTGCGAGAAATGAGTTAAGCCT
7043471 CAAGACACGT
Statistics
Matches: 110, Mismatches: 25, Indels: 32
0.66 0.15 0.19
Matches are distributed among these distances:
53 57 0.52
54 1 0.01
55 2 0.02
56 2 0.02
57 3 0.03
58 1 0.01
59 1 0.01
61 2 0.02
63 1 0.01
64 1 0.01
65 3 0.03
66 2 0.02
67 2 0.02
68 1 0.01
69 31 0.28
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (53 bp):
ACTCATATTGCGAGAAATGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
Found at i:7043488 original size:122 final size:122
Alignment explanation
Indices: 7043191--7043471 Score: 544
Period size: 122 Copynumber: 2.3 Consensus size: 122
7043181 TTTTTTAAAA
7043191 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
7043256 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
66 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
*
7043313 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATGTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
*
7043378 GTTTTAAATTGACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
66 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
7043435 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
7043472 AAGACACGTT
Statistics
Matches: 157, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 157 1.00
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (122 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:7043760 original size:54 final size:55
Alignment explanation
Indices: 7043672--7043888 Score: 313
Period size: 54 Copynumber: 4.0 Consensus size: 55
7043662 TCAATTTCTA
*
7043672 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* *
7043727 CTTTT-AATTTCTATTTTTCAAAAACCAATTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
7043781 C--TT---TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
7043832 CTTTTGCAAATTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
1 CTTTT-CAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
7043887 CT
1 CT
7043889 CGGGGCACGC
Statistics
Matches: 147, Mismatches: 8, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
50 12 0.08
51 34 0.23
52 2 0.01
53 2 0.01
54 47 0.32
55 41 0.28
56 5 0.03
57 4 0.03
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (55 bp):
CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:7044012 original size:123 final size:124
Alignment explanation
Indices: 7043805--7044047 Score: 346
Period size: 123 Copynumber: 2.0 Consensus size: 124
7043795 CAAAAAATCA
*
7043805 ACTCATATTGCGAGAGGTGAGTTGAGCCTTTTGCAAATTCTGTTTTCAAAAATCAACTCATATTG
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTT-CAAATTCTGTTTTCAAAAATCAACTCATATTG
* * * * *
7043870 CGAGAAGTGAGTTGAGCCTCGGGGCAC-GCCGAGGTATTTTTAGTTTATGTTTTAAATTG
65 CAAGAAGCGAGTTGAGCCTCGGCGCACAGCCGAGGTATTTTCAATTTATGTTTTAAATTG
* *
7043929 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTT-AATTTTTGTTTTTCAAAAATCAACTCATATTG
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTCAAATTCTG-TTTTCAAAAATCAACTCATATTG
* * *
7043993 CAAGAGGCGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATTTATGTTTT
65 CAAGAAGCGAGTTGAGCCTCGGCGCACA-GCCGAGGTATTTTCAATTTATGTTTT
7044048 TTTCAATCTA
Statistics
Matches: 105, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
122 6 0.06
123 45 0.43
124 31 0.30
125 23 0.22
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (124 bp):
ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGC
AAGAAGCGAGTTGAGCCTCGGCGCACAGCCGAGGTATTTTCAATTTATGTTTTAAATTG
Found at i:7044052 original size:16 final size:17
Alignment explanation
Indices: 7044031--7044064 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
7044021 TGCTGAGGTA
*
7044031 TTTTCAATTTATG-TTT
1 TTTTCAATCTATGCTTT
7044047 TTTTCAATCTATGCTTT
1 TTTTCAATCTATGCTTT
7044064 T
1 T
7044065 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTTCAATCTATGCTTT
Found at i:7044219 original size:87 final size:90
Alignment explanation
Indices: 7043970--7044219 Score: 307
Period size: 91 Copynumber: 2.8 Consensus size: 90
7043960 TAATTTTTGT
* *
7043970 TTTTCAAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CACACGCTGAGGTATTT
* * ** *
7044034 TCAATTTATGTTTTTTTCAATCTATGC
64 TCAATTTCTGCTTTACTCAATCTATAC
* *
7044061 TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG---CACGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGGCCACACGCTGAGGTATTT
7044123 TCAATTTCTGCTTTACT-AAT-TATAC
64 TCAATTTCTGCTTTACTCAATCTATAC
* *
7044148 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
*
7044212 AAATTCTG
66 AATTTCTG
7044220 TTTTTAATTT
Statistics
Matches: 140, Mismatches: 14, Indels: 14
0.83 0.08 0.08
Matches are distributed among these distances:
84 3 0.02
85 33 0.24
87 32 0.23
88 3 0.02
89 27 0.19
91 40 0.29
93 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (90 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
AATTTCTGCTTTACTCAATCTATAC
Found at i:7044228 original size:85 final size:87
Alignment explanation
Indices: 7043970--7044228 Score: 305
Period size: 85 Copynumber: 3.0 Consensus size: 87
7043960 TAATTTTTGT
* *
7043970 TTTTCAAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CACACGCTGAGGTATTT
* *
7044034 TCAATTTATGTTTTTTTCAATCTATGC
64 TCAATTTCTG-TTTTTT-AAT-TATAC
* *
7044061 TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG---CACGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGGCCACACGCTGAGGTATTT
**
7044123 TCAATTTCTGCTTTACTAATTATAC
64 TCAATTTCTG-TTTTTTAATTATAC
* *
7044148 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
*
7044212 AAATTCTG-TTTTTAATT
66 AATTTCTGTTTTTTAATT
7044229 TCTGTTTTTT
Statistics
Matches: 147, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
84 3 0.02
85 40 0.27
87 32 0.22
88 3 0.02
89 27 0.18
91 40 0.27
93 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (87 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
AATTTCTGTTTTTTAATTATAC
Found at i:7044337 original size:16 final size:17
Alignment explanation
Indices: 7044316--7044349 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
7044306 TGCTGAGGTA
*
7044316 TTTTCAATTTATG-TTT
1 TTTTCAATCTATGCTTT
7044332 TTTTCAATCTATGCTTT
1 TTTTCAATCTATGCTTT
7044349 T
1 T
7044350 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTTCAATCTATGCTTT
Found at i:7044454 original size:87 final size:89
Alignment explanation
Indices: 7044260--7044474 Score: 285
Period size: 87 Copynumber: 2.4 Consensus size: 89
7044250 GTTTCAAAAA
* *
7044260 AAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGC-CACA-GCTGAGGTATTTTCAATT
* **
7044325 TATGTTTTTTTCAATCTATGCTTTTC
64 TATCTACTTTTCAATCTATGCTTTTC
*
7044351 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CAC-GCTGAGGTATTTTCAA-T
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--GGCCACAGCTGAGGTATTTTCAATT
* * *
7044413 T-TCTACTTTTCAATTTCTGTTTTTC
64 TATCTACTTTTCAATCTATGCTTTTC
7044438 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
7044475 TTTAATTTCT
Statistics
Matches: 112, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
87 54 0.48
88 2 0.02
89 16 0.14
91 38 0.34
93 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (89 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCCACAGCTGAGGTATTTTCAATTTA
TCTACTTTTCAATCTATGCTTTTC
Found at i:7044506 original size:54 final size:55
Alignment explanation
Indices: 7044418--7044635 Score: 315
Period size: 54 Copynumber: 4.1 Consensus size: 55
7044408 TCAATTTCTA
*
7044418 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* *
7044473 CTTTT-AATTTCTATTTTTCAAAAACCAATTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
7044527 C--TT---TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
7044578 CTTTTGCAAATTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
1 CTTTT-CAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
7044633 CTT
1 CTT
7044636 GGCTCACGTG
Statistics
Matches: 148, Mismatches: 8, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
50 12 0.08
51 34 0.23
52 2 0.01
53 2 0.01
54 47 0.32
55 42 0.28
56 5 0.03
57 4 0.03
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (55 bp):
CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:7044941 original size:30 final size:31
Alignment explanation
Indices: 7044907--7045008 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 31
7044897 TAAAAAATAA
*
7044907 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
7044937 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
7044967 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
7044997 AAATTTCATTTT
1 AAATTTCATTTT
7045009 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:7045407 original size:9 final size:9
Alignment explanation
Indices: 7045393--7045436 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
7045383 AAGGAAGAAG
7045393 AAGAAAAGA
1 AAGAAAAGA
*
7045402 AAGAAAAAA
1 AAGAAAAGA
*
7045411 AAGGGAAAGA
1 AA-GAAAAGA
*
7045421 AAAAAAAGA
1 AAGAAAAGA
7045430 AAGAAAA
1 AAGAAAA
7045437 AAATAAAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
9 21 0.75
10 7 0.25
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAGAAAAGA
Found at i:7045423 original size:13 final size:13
Alignment explanation
Indices: 7045396--7045439 Score: 70
Period size: 13 Copynumber: 3.2 Consensus size: 13
7045386 GAAGAAGAAG
7045396 AAAAGAAAGAAAA
1 AAAAGAAAGAAAA
7045409 AAAAGGGAAAGAAAA
1 AAAA--GAAAGAAAA
7045424 AAAAGAAAGAAAA
1 AAAAGAAAGAAAA
7045437 AAA
1 AAA
7045440 TAAAAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 16 0.55
15 13 0.45
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGAAAA
Found at i:7045430 original size:33 final size:33
Alignment explanation
Indices: 7045379--7045445 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
7045369 GAGCCGAAAT
* * * *
7045379 AGGGAAGGAAGAAGAAGAAAAGAAAGAAA-AAAA
1 AGGGAAAGAAAAAAAAG-AAAGAAAAAAATAAAA
7045412 AGGGAAAGAAAAAAAAGAAAGAAAAAAATAAAA
1 AGGGAAAGAAAAAAAAGAAAGAAAAAAATAAAA
7045445 A
1 A
7045446 ATAATATATC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 10 0.34
33 19 0.66
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (33 bp):
AGGGAAAGAAAAAAAAGAAAGAAAAAAATAAAA
Found at i:7045581 original size:23 final size:22
Alignment explanation
Indices: 7045543--7045593 Score: 84
Period size: 23 Copynumber: 2.3 Consensus size: 22
7045533 AAGCAAAAAA
*
7045543 AAGCAGTAAAAAAAGAAGAAAG
1 AAGCAGAAAAAAAAGAAGAAAG
7045565 AAGCAGAAAAAAGAAGAAGAAAG
1 AAGCAGAAAAAA-AAGAAGAAAG
7045588 AAGCAG
1 AAGCAG
7045594 CCCAAATGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.67, C:0.06, G:0.25, T:0.02
Consensus pattern (22 bp):
AAGCAGAAAAAAAAGAAGAAAG
Found at i:7045582 original size:10 final size:10
Alignment explanation
Indices: 7045551--7045590 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
7045541 AAAAGCAGTA
7045551 AAAAAAGAAG
1 AAAAAAGAAG
* *
7045561 AAAGAAGCAG
1 AAAAAAGAAG
7045571 AAAAAAGAAG
1 AAAAAAGAAG
*
7045581 AAGAAAGAAG
1 AAAAAAGAAG
7045591 CAGCCCAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.72, C:0.03, G:0.25, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAG
Found at i:7045745 original size:17 final size:16
Alignment explanation
Indices: 7045711--7045773 Score: 76
Period size: 17 Copynumber: 3.9 Consensus size: 16
7045701 CCAGCCCAGC
7045711 AAAA-AAAAAAGAGAA
1 AAAAGAAAAAAGAGAA
7045726 AAAA-AGAAAAAGAGAGA
1 AAAAGA-AAAAAGAGA-A
*
7045743 AAAAGAAAAAAGAAAA
1 AAAAGAAAAAAGAGAA
7045759 AACAAGAAAAAAGAG
1 AA-AAGAAAAAAGAG
7045774 GTTCAATTCG
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.12
16 12 0.29
17 24 0.57
18 1 0.02
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAGAGAA
Found at i:7045766 original size:23 final size:23
Alignment explanation
Indices: 7045725--7045769 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
7045715 AAAAAAGAGA
*
7045725 AAAAAAGAAAAAGAGAGAAAAAG
1 AAAAAAGAAAAAGAAAGAAAAAG
7045748 AAAAAAGAAAAA-ACAAGAAAAA
1 AAAAAAGAAAAAGA-AAGAAAAA
7045770 AGAGGTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (23 bp):
AAAAAAGAAAAAGAAAGAAAAAG
Found at i:7045769 original size:16 final size:16
Alignment explanation
Indices: 7045711--7045760 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
7045701 CCAGCCCAGC
7045711 AAAAA-AAAAAGAGAA
1 AAAAAGAAAAAGAGAA
*
7045726 AAAAAGAAAAAGAGAG
1 AAAAAGAAAAAGAGAA
7045742 AAAAAGAAAAA-AGAA
1 AAAAAGAAAAAGAGAA
7045757 AAAA
1 AAAA
7045761 CAAGAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.38
16 20 0.62
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAGAGAA
Found at i:7045938 original size:16 final size:17
Alignment explanation
Indices: 7045912--7045949 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
7045902 TTATATTTAT
7045912 ATTTTTAATTTAATTTG
1 ATTTTTAATTTAATTTG
* *
7045929 ATTTTT-ATTTTATTTT
1 ATTTTTAATTTAATTTG
7045945 ATTTT
1 ATTTT
7045950 AAATAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTTTAATTTAATTTG
Found at i:7046363 original size:16 final size:16
Alignment explanation
Indices: 7046307--7046365 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 16
7046297 ATCCTCGTGT
7046307 TTTCAAAAATTCTCA-TG
1 TTTC-AAAATTCT-AGTG
* *
7046324 TTTCAAAAATCTTCGTG
1 TTTCAAAATTC-TAGTG
7046341 TTTTCAAAATTCTAGTG
1 -TTTCAAAATTCTAGTG
7046358 TTTCAAAA
1 TTTCAAAA
7046366 ATTTTCATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
16 14 0.40
17 11 0.31
18 10 0.29
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.42
Consensus pattern (16 bp):
TTTCAAAATTCTAGTG
Found at i:7046387 original size:18 final size:18
Alignment explanation
Indices: 7046058--7046438 Score: 166
Period size: 17 Copynumber: 21.3 Consensus size: 18
7046048 TACGCCNTCA
7046058 AAAAATTTT-AT-TTTTC
1 AAAAATTTTCATGTTTTC
* *
7046074 AAAATTTTTCGTGTTTTC
1 AAAAATTTTCATGTTTTC
* *
7046092 TAAAAATTTCCAT-ATTTC
1 -AAAAATTTTCATGTTTTC
* * *
7046110 TAAAATTTTCGTG-TTTA
1 AAAAATTTTCATGTTTTC
* * *
7046127 AAAAAATTTCGTATTTTC
1 AAAAATTTTCATGTTTTC
* * *
7046145 AAAATTTTTTTATTTTTTTTTC
1 AAAA-ATTTTCA---TGTTTTC
* *
7046167 AACAATTCTCGA-G-TTTC
1 AAAAATTTTC-ATGTTTTC
* * *
7046184 ACAAATTCTCGTGTTTT-
1 AAAAATTTTCATGTTTTC
* * *
7046201 AAAATTTTTTATGTTTTA
1 AAAAATTTTCATGTTTTC
7046219 AAAAATAAATTTC-TCGTGTTTC
1 AAAAAT---TTTCAT-GT-TTTC
*
7046241 AAAAATTGTCATGTTTT-
1 AAAAATTTTCATGTTTTC
7046258 AAAAATTTTCATG-TTTC
1 AAAAATTTTCATGTTTTC
* *
7046275 TAAAATGTTC--GTATTTC
1 AAAAATTTTCATGT-TTTC
** *
7046292 AAAAAATCCTCGTGTTTTC
1 -AAAAATTTTCATGTTTTC
*
7046311 AAAAATTCTCATG-TTTC
1 AAAAATTTTCATGTTTTC
* *
7046328 AAAAATCTTCGTGTTTTC
1 AAAAATTTTCATGTTTTC
*
7046346 -AAAATTCT-A-GTGTTTC
1 AAAAATTTTCATGT-TTTC
7046362 AAAAATTTTCATGTTTTC
1 AAAAATTTTCATGTTTTC
* *
7046380 AAAAATTTCCCCTGTTTTC
1 AAAAATTT-TCATGTTTTC
* **
7046399 AAAAATTCTCAAATTTT-
1 AAAAATTTTCATGTTTTC
* *
7046416 AAAAATTTTCTTTTTTTC
1 AAAAATTTTCATGTTTTC
7046434 AAAAA
1 AAAAA
7046439 AAAAACTTCC
Statistics
Matches: 271, Mismatches: 62, Indels: 62
0.69 0.16 0.16
Matches are distributed among these distances:
15 3 0.01
16 15 0.06
17 112 0.41
18 72 0.27
19 38 0.14
20 4 0.01
21 8 0.03
22 19 0.07
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.48
Consensus pattern (18 bp):
AAAAATTTTCATGTTTTC
Found at i:7046493 original size:18 final size:18
Alignment explanation
Indices: 7046470--7046517 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
7046460 ATCTCCGTGT
7046470 TTTCAAAAAATTCTCG-AC
1 TTTCAAAAAATT-TCGTAC
**
7046488 TTTCAAAAAATTTCGTGT
1 TTTCAAAAAATTTCGTAC
7046506 TTTCAAAAAATT
1 TTTCAAAAAATT
7046518 GACATTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 3 0.11
18 24 0.89
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.40
Consensus pattern (18 bp):
TTTCAAAAAATTTCGTAC
Found at i:7046641 original size:21 final size:21
Alignment explanation
Indices: 7046585--7046657 Score: 91
Period size: 19 Copynumber: 3.6 Consensus size: 21
7046575 CAAAATTTTT
7046585 GTGTTTTC-AAAATAAAATT-
1 GTGTTTTCAAAAATAAAATTC
7046604 GTGTTTT-AAAAATAAAATTC
1 GTGTTTTCAAAAATAAAATTC
*
7046624 GTGTTTTCAAAAAAAAAATTC
1 GTGTTTTCAAAAATAAAATTC
7046645 -TCGTGTTTCAAAA
1 GT-GT-TTTCAAAA
7046658 TTTTCGTGTT
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
19 18 0.38
20 8 0.17
21 14 0.29
22 8 0.17
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.38
Consensus pattern (21 bp):
GTGTTTTCAAAAATAAAATTC
Found at i:7046653 original size:22 final size:20
Alignment explanation
Indices: 7046589--7046657 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
7046579 ATTTTTGTGT
*
7046589 TTTC-AAAATAAAATT-GTG
1 TTTCAAAAAAAAAATTCGTG
* *
7046607 TTTTAAAAATAAAATTCGTG
1 TTTCAAAAAAAAAATTCGTG
7046627 TTTTCAAAAAAAAAATTCTCGTG
1 -TTTCAAAAAAAAAA-T-TCGTG
7046650 TTTCAAAA
1 TTTCAAAA
7046658 TTTTCGTGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
18 3 0.07
19 11 0.26
20 3 0.07
21 12 0.28
22 9 0.21
23 5 0.12
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.38
Consensus pattern (20 bp):
TTTCAAAAAAAAAATTCGTG
Found at i:7046657 original size:18 final size:17
Alignment explanation
Indices: 7046636--7046760 Score: 53
Period size: 17 Copynumber: 7.1 Consensus size: 17
7046626 GTTTTCAAAA
7046636 AAAAAATTCTCGTGTTTC
1 AAAAAATT-TCGTGTTTC
* *
7046654 -AAAATTTTCGTGTTTTTTTA
1 AAAAAATTTCGTG----TTTC
*
7046674 AAAAAAATTCGTGTTTC
1 AAAAAATTTCGTGTTTC
* * * *
7046691 -TAAAATTCTTGTATTTT
1 AAAAAATT-TCGTGTTTC
*
7046708 AAAATATTTCGTGTTTC
1 AAAAAATTTCGTGTTTC
*
7046725 GAAAAAAGGTT-GTGTTTC
1 -AAAAAA-TTTCGTGTTTC
7046743 --AAAATTCTCGTGTTTC
1 AAAAAATT-TCGTGTTTC
7046759 AA
1 AA
7046761 TTGGATCACG
Statistics
Matches: 76, Mismatches: 18, Indels: 26
0.63 0.15 0.22
Matches are distributed among these distances:
14 1 0.01
15 5 0.07
16 17 0.22
17 21 0.28
18 17 0.22
19 2 0.03
20 3 0.04
21 10 0.13
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (17 bp):
AAAAAATTTCGTGTTTC
Found at i:7046657 original size:20 final size:19
Alignment explanation
Indices: 7046531--7046657 Score: 60
Period size: 20 Copynumber: 5.9 Consensus size: 19
7046521 ATTGTTTCAT
7046531 AAATTTCCGTGTTTCAAAAA
1 AAATTT-CGTGTTTCAAAAA
*
7046551 AAATCCTCGTGTTTCATAATTTATCA
1 AAAT-TTCGTGTTTCA-AA---A--A
*
7046577 AAATTTTTGTGTTTTCAAAATA
1 AAA-TTTCGTG-TTTCAAAA-A
*
7046599 AAA-TT-GTGTTTTAAAAA
1 AAATTTCGTGTTTCAAAAA
*
7046616 TAAAATTCGTGTTTTCAAAAAAA
1 -AAATTTCGTG-TTTC--AAAAA
7046639 AAATTCTCGTGTTTCAAAA
1 AAATT-TCGTGTTTCAAAA
7046658 TTTTCGTGTT
Statistics
Matches: 84, Mismatches: 7, Indels: 32
0.68 0.06 0.26
Matches are distributed among these distances:
17 1 0.01
18 10 0.12
19 5 0.06
20 22 0.26
21 6 0.07
22 12 0.14
23 11 0.13
24 1 0.01
26 10 0.12
27 6 0.07
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.40
Consensus pattern (19 bp):
AAATTTCGTGTTTCAAAAA
Found at i:7046659 original size:16 final size:16
Alignment explanation
Indices: 7046638--7046668 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7046628 TTTCAAAAAA
7046638 AAAATTCTCGTGTTTC
1 AAAATTCTCGTGTTTC
*
7046654 AAAATTTTCGTGTTT
1 AAAATTCTCGTGTTT
7046669 TTTTAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (16 bp):
AAAATTCTCGTGTTTC
Found at i:7046664 original size:39 final size:37
Alignment explanation
Indices: 7046574--7046697 Score: 101
Period size: 39 Copynumber: 3.2 Consensus size: 37
7046564 TCATAATTTA
* *
7046574 TCAAAATTTTTGTGTTTTCAAAATAAAA-TT-GTGTTT
1 TCAAAATTTTCGTGTTTTCAAAAAAAAATTTCGTG-TT
* *
7046610 TAAAAATAAAATTCGTGTTTTCAAAAAAAAAATTCTCGTGTT
1 TCAAAAT---TTTCGTGTTTTC-AAAAAAAAATT-TCGTGTT
**
7046652 TCAAAATTTTCGTGTTTTTTTAAAAAAAA-TTCGTGTT
1 TCAAAATTTTCGTG-TTTTCAAAAAAAAATTTCGTGTT
7046689 TCTAAAATT
1 TC-AAAATT
7046698 CTTGTATTTT
Statistics
Matches: 71, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
36 6 0.08
37 9 0.13
38 7 0.10
39 24 0.34
40 12 0.17
41 1 0.01
42 9 0.13
43 3 0.04
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (37 bp):
TCAAAATTTTCGTGTTTTCAAAAAAAAATTTCGTGTT
Found at i:7046694 original size:19 final size:19
Alignment explanation
Indices: 7046589--7046695 Score: 55
Period size: 19 Copynumber: 5.5 Consensus size: 19
7046579 ATTTTTGTGT
7046589 TTTC-AAAATAAAATT-GTG
1 TTTCTAAAA-AAAATTCGTG
7046607 TTT-TAAAAATAAAATTCGTG
1 TTTCT-AAAA-AAAATTCGTG
*
7046627 TTTTCAAAAAAAAAATTCTCGTG
1 -TTTC-TAAAAAAAA-T-TCGTG
**
7046650 TTTC---AAAATTTTCGTG
1 TTTCTAAAAAAAATTCGTG
*
7046666 TTTTTTTAAAAAAAATTCGTG
1 --TTTCTAAAAAAAATTCGTG
7046687 TTTCTAAAA
1 TTTCTAAAA
7046696 TTCTTGTATT
Statistics
Matches: 69, Mismatches: 7, Indels: 25
0.68 0.07 0.25
Matches are distributed among these distances:
16 5 0.07
17 1 0.01
18 10 0.14
19 19 0.28
20 3 0.04
21 17 0.25
22 9 0.13
23 5 0.07
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.42
Consensus pattern (19 bp):
TTTCTAAAAAAAATTCGTG
Found at i:7051481 original size:118 final size:116
Alignment explanation
Indices: 7051353--7051572 Score: 370
Period size: 118 Copynumber: 1.9 Consensus size: 116
7051343 TCCTTTTAAA
*
7051353 AAAAACACTATTTTTCTTAAAGATTAAAG-TTCTTACTTTGAAATAGTTGAAAAAAAATCAAAAC
1 AAAAACACTATTTTTCTTAAAGATTAAAGCTT-TTAATTTGAAATAGTTG-AAAAAAATCAAAAC
*
7051417 TTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTAAACTTTATTTTTTTTT
64 TTT-ATTTAAAAATTTAAACTTTCCTTTAAAATAACTAAACTTTATTTTTTTTT
*
7051471 AAAAATACTATTTTTCTTAAAGATTAAAGCTTTTAATTTGAAATAGTTGAAAAAAATCAAAACTT
1 AAAAACACTATTTTTCTTAAAGATTAAAGCTTTTAATTTGAAATAGTTGAAAAAAATCAAAACTT
*
7051536 TATTTAAAAATTTAAACTTTCTTTTAAAATAACTAAA
66 TATTTAAAAATTTAAACTTTCCTTTAAAATAACTAAA
7051573 AAATAGATTT
Statistics
Matches: 97, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
116 34 0.35
117 17 0.18
118 44 0.45
119 2 0.02
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (116 bp):
AAAAACACTATTTTTCTTAAAGATTAAAGCTTTTAATTTGAAATAGTTGAAAAAAATCAAAACTT
TATTTAAAAATTTAAACTTTCCTTTAAAATAACTAAACTTTATTTTTTTTT
Found at i:7051546 original size:19 final size:19
Alignment explanation
Indices: 7051522--7051565 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
7051512 AATAGTTGAA
7051522 AAAAATCAAAACTTTATTT
1 AAAAATCAAAACTTTATTT
** *
7051541 AAAAATTTAAACTTTCTTT
1 AAAAATCAAAACTTTATTT
*
7051560 TAAAAT
1 AAAAAT
7051566 AACTAAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAAATCAAAACTTTATTT
Found at i:7065090 original size:18 final size:18
Alignment explanation
Indices: 7065045--7065120 Score: 91
Period size: 18 Copynumber: 4.2 Consensus size: 18
7065035 TACGACCATT
7065045 TACAGCACTATTCACGTA
1 TACAGCACTATTCACGTA
*
7065063 TA-TGACACTATTCACGTA
1 TACAG-CACTATTCACGTA
* *
7065081 TACAGTACTATTTACGTA
1 TACAGCACTATTCACGTA
* *
7065099 TACAGTACTGTTCACGTA
1 TACAGCACTATTCACGTA
7065117 TACA
1 TACA
7065121 ATAGTTGGGA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
17 1 0.02
18 48 0.96
19 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (18 bp):
TACAGCACTATTCACGTA
Found at i:7070028 original size:18 final size:19
Alignment explanation
Indices: 7070005--7070047 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
7069995 CCACAACAGT
7070005 AAAAAA-ACTGAAAAAGAA
1 AAAAAACACTGAAAAAGAA
*
7070023 AAAAAACACTGAAAACGAA
1 AAAAAACACTGAAAAAGAA
7070042 AAAAAA
1 AAAAAA
7070048 TAAAAAATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.77, C:0.09, G:0.09, T:0.05
Consensus pattern (19 bp):
AAAAAACACTGAAAAAGAA
Found at i:7070210 original size:19 final size:20
Alignment explanation
Indices: 7070186--7070232 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
7070176 AATAAAGGGA
*
7070186 AAGAAAGGAGAA-GAGAAGG
1 AAGAAAGAAGAACGAGAAGG
7070205 AAGAAA-AAGAACGAGAAGG
1 AAGAAAGAAGAACGAGAAGG
*
7070224 AAAAAAGAA
1 AAGAAAGAA
7070233 AGAAAAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.17
19 18 0.75
20 2 0.08
ACGTcount: A:0.66, C:0.02, G:0.32, T:0.00
Consensus pattern (20 bp):
AAGAAAGAAGAACGAGAAGG
Found at i:7070336 original size:20 final size:19
Alignment explanation
Indices: 7070300--7070346 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
7070290 GTGTTTTTGC
7070300 TGTTATTATTATTGTTGATT
1 TGTTATTATTATTGTTG-TT
*
7070320 T-TTATTATTTTTTGTTGTT
1 TGTTATTA-TTATTGTTGTT
7070339 TGTTATTA
1 TGTTATTA
7070347 ACATTGTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.17, C:0.00, G:0.13, T:0.70
Consensus pattern (19 bp):
TGTTATTATTATTGTTGTT
Found at i:7075789 original size:72 final size:72
Alignment explanation
Indices: 7075672--7075812 Score: 246
Period size: 72 Copynumber: 2.0 Consensus size: 72
7075662 GCCTCCCGAT
* *
7075672 GAGCCCGGAAAATTGTCATTGCCCGCCAAATCCGGATGATAAGAAGTATCAGCCGAATGTGAATG
1 GAGCCCGAAAAATAGTCATTGCCCGCCAAATCCGGATGATAAGAAGTATCAGCCGAATGTGAATG
7075737 CGATGAC
66 CGATGAC
* *
7075744 GAGCCCGAAAAATAGTCATTGCCTGCCAAATCCGGATGATAAGAAGTATCAGTCGAATGTGAATG
1 GAGCCCGAAAAATAGTCATTGCCCGCCAAATCCGGATGATAAGAAGTATCAGCCGAATGTGAATG
7075809 CGAT
66 CGAT
7075813 CACTCGGACT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.21
Consensus pattern (72 bp):
GAGCCCGAAAAATAGTCATTGCCCGCCAAATCCGGATGATAAGAAGTATCAGCCGAATGTGAATG
CGATGAC
Found at i:7077541 original size:18 final size:17
Alignment explanation
Indices: 7077500--7077541 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
7077490 TAAATTTCAA
*
7077500 TTATTA-ATTTTAATGT
1 TTATTAGATTTTAATAT
*
7077516 TTAATAGATTTTAAATAT
1 TTATTAGATTTT-AATAT
7077534 TTATTAGA
1 TTATTAGA
7077542 ATAACTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 5 0.24
17 5 0.24
18 11 0.52
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (17 bp):
TTATTAGATTTTAATAT
Found at i:7077862 original size:151 final size:153
Alignment explanation
Indices: 7077672--7078194 Score: 785
Period size: 151 Copynumber: 3.5 Consensus size: 153
7077662 ATAAGTAAAA
* * *
7077672 TATTTTCGTATATTATTT-TTTATAATATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTAAGTG
* * * *
7077736 TTTTTTTTATATTAATTTAATACATAACCCTGAGTTTGGCACTTTCTTCGTATTTTTTTGTTTTC
66 TTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGTATTTTTTTATTTTC
7077801 GTATCTTATTTTTTAAAATATAT
131 GTATCTTATTTTTTAAAATATAT
*
7077824 TATTTTCGTATTTTATTT-TTT-TATTATTTTAGCAAAAAATGTTTCAAATGTATTACTTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTAAGTG
*
7077887 -TTTCTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGTAATTTTTTTATTTT
66 TTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGT-ATTTTTTTATTTT
7077951 CGTATCTTATTTTTTAAAATATAT
130 CGTATCTTATTTTTTAAAATATAT
* * *
7077975 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAA--G
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTAAGTG
* * *
7078038 TATTTTTTATATT-TTTTCAATAAATAATCCTGATTTTGACACTTTCTTCGTA--TTTTTATTTT
66 TTTTTTTTATATTAATTT-AATAAATAACCCTGATTTTGACACTTTCTTCGTATTTTTTTATTTT
7078100 CGTATCTTATTTTTTAAAATATAT
130 CGTATCTTATTTTTTAAAATATAT
* * * * *
7078124 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATATTTAAAATGTATTATTTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTAAGTG
7078189 TTTTTT
66 TTTTTT
7078195 ATATTTTTTT
Statistics
Matches: 344, Mismatches: 20, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
149 94 0.27
150 46 0.13
151 104 0.30
152 65 0.19
153 35 0.10
ACGTcount: A:0.28, C:0.08, G:0.07, T:0.56
Consensus pattern (153 bp):
TATTTTCGTATTTTATTTCTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTAAGTG
TTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGTATTTTTTTATTTTC
GTATCTTATTTTTTAAAATATAT
Found at i:7078214 original size:86 final size:86
Alignment explanation
Indices: 7078120--7078294 Score: 307
Period size: 86 Copynumber: 2.0 Consensus size: 86
7078110 TTTTTAAAAT
7078120 ATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATATTTAAAATGTATTATTTA
1 ATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATATTTAAAATGTATTATTTA
*
7078185 AGTG-TTTTTTATATTTTTTTA
66 AATGTTTTTTTATA-TTTTTTA
* *
7078206 ATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTA
1 ATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATATTTAAAATGTATTATTTA
7078271 AATGTTTTTTTATATTTTTTA
66 AATGTTTTTTTATATTTTTTA
7078292 ATA
1 ATA
7078295 AATAACCCTG
Statistics
Matches: 85, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
86 76 0.89
87 9 0.11
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.61
Consensus pattern (86 bp):
ATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATATTTAAAATGTATTATTTA
AATGTTTTTTTATATTTTTTA
Found at i:7078223 original size:149 final size:149
Alignment explanation
Indices: 7077672--7078208 Score: 783
Period size: 149 Copynumber: 3.6 Consensus size: 149
7077662 ATAAGTAAAA
* * *
7077672 TATTTTCGTATATTATTTTTTATAATATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTGT
1 TATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTAAGTG-
* * * *
7077737 TTTTTTTATATTAATTTAATACATAACCCTGAGTTTGGCACTTTCTTCGTATTTTTTTGTTTTCG
65 -TTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGTA-TTTTTTATTTTCG
7077802 TATCTTATTTTTTAAAATATAT
128 TATCTTATTTTTTAAAATATAT
*
7077824 TATTTTCGTATTTTATTTTTT-TATTATTTTAGCAAAAAATGTTTCAAATGTATTACTTAAGTGT
1 TATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTAAGTGT
7077888 TTCTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGTAATTTTTTTATTTTCG
66 TT-TTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGT-A-TTTTTTATTTTCG
7077953 TATCTTATTTTTTAAAATATAT
128 TATCTTATTTTTTAAAATATAT
* * * *
7077975 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
1 TATTTTCGTATTTTATTT-TTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTAAGTG
* *
7078040 TTTTTTATATT-TTTTCAATAAATAATCCTGATTTTGACACTTTCTTCGTA-TTTTTATTTTCGT
65 TTTTTTATATTAATTT-AATAAATAACCCTGATTTTGACACTTTCTTCGTATTTTTTATTTTCGT
7078103 ATCTTATTTTTTAAAATATAT
129 ATCTTATTTTTTAAAATATAT
* * * * *
7078124 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATATTTAAAATGTATTATTTAAGTG
1 TATTTTCGTATTTTATTT-TTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTAAGTG
**
7078189 TTTTTTATATTTTTTTAATA
65 TTTTTTATATTAATTTAATA
7078209 TTATTTTCGT
Statistics
Matches: 361, Mismatches: 18, Indels: 15
0.92 0.05 0.04
Matches are distributed among these distances:
149 114 0.32
150 47 0.13
151 97 0.27
152 63 0.17
153 40 0.11
ACGTcount: A:0.28, C:0.08, G:0.07, T:0.56
Consensus pattern (149 bp):
TATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTAAGTGT
TTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGTATTTTTTATTTTCGTAT
CTTATTTTTTAAAATATAT
Found at i:7078238 original size:13 final size:12
Alignment explanation
Indices: 7078189--7078241 Score: 54
Period size: 13 Copynumber: 4.3 Consensus size: 12
7078179 TATTTAAGTG
7078189 TTTTTTATATT-
1 TTTTTTATATTA
*
7078200 TTTTTAATATTA
1 TTTTTTATATTA
* *
7078212 TTTTCGTATTTTA
1 TTTT-TTATATTA
7078225 TTTCTTTATATTA
1 TTT-TTTATATTA
7078238 TTTT
1 TTTT
7078242 AGTACATAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
11 10 0.30
12 5 0.15
13 17 0.52
14 1 0.03
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.74
Consensus pattern (12 bp):
TTTTTTATATTA
Found at i:7078318 original size:86 final size:86
Alignment explanation
Indices: 7078142--7078319 Score: 225
Period size: 86 Copynumber: 2.1 Consensus size: 86
7078132 TATTTTATTT
*
7078142 CTTTATATTATTTTAGTACATAATATTTAAAATGTATTATTTAAGTGTTTTTTATATTTTTTTAA
1 CTTTATATTATTTTAGTACATAATATTTAAAATGTATTATTTAAATGTTTTTTATATTTTTTTAA
* *** * ***
7078207 TATTATTTTCGTATTTTATTT
66 TATAATAACCCTATTTTAGCA
* *
7078228 CTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAATGTTTTTT-TATATTTTTTA
1 CTTTATATTATTTTAGTACATAATATTTAAAATGTATTATTTAAATGTTTTTTATAT-TTTTTTA
7078292 ATA-AATAACCCTGATTTTAGCA
65 ATATAATAACCCT-ATTTTAGCA
7078314 CTTTAT
1 CTTTAT
7078320 TCGTATTTTT
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
85 7 0.09
86 72 0.91
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.57
Consensus pattern (86 bp):
CTTTATATTATTTTAGTACATAATATTTAAAATGTATTATTTAAATGTTTTTTATATTTTTTTAA
TATAATAACCCTATTTTAGCA
Found at i:7078374 original size:133 final size:135
Alignment explanation
Indices: 7078235--7078512 Score: 373
Period size: 133 Copynumber: 2.1 Consensus size: 135
7078225 TTTCTTTATA
* * * *
7078235 TTATTTTAGTACATAATGTTTCAAATGTATTATTTAAATGTTTTTTTATATT-TTTTAATAAATA
1 TTATTTTAGCACAAAATCTTTCAAATGTATTATTTAAAT-TTTTTTTATATTAATTTAATAAATA
* * **
7078299 ACCCTGATTTTAGCACTTTATTCGTA-TTT-TTTTCGTCTATTATTTTTTAAAATATATTATTTT
65 ACCCTGACTTTAGCACCTTATTCGTATTTTATTTTCGGATATTATTTTTTAAAATATATTATTTT
*
7078362 CGTATT
130 CATATT
* *
7078368 TTATTTTAGCATAAAATCTTTCAAATGTATTATTTAAGTTTTTTTTATATTAATTTAATAAATAA
1 TTATTTTAGCACAAAATCTTTCAAATGTATTATTTAAATTTTTTTTATATTAATTTAATAAATAA
* * *
7078433 CCCTGACTTTGGCACCTTGTTCGTATTTTTTTATTTTCGGATTTTATTTTTTAAAATATATTATT
66 CCCTGACTTTAGCACCTTATTCGTA---TTTTATTTTCGGATATTATTTTTTAAAATATATTATT
7078498 TTCATATT
128 TTCATATT
7078506 TTATTTT
1 TTATTTT
7078513 TTTATATTAT
Statistics
Matches: 125, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
132 12 0.10
133 67 0.54
137 3 0.02
138 43 0.34
ACGTcount: A:0.28, C:0.09, G:0.07, T:0.56
Consensus pattern (135 bp):
TTATTTTAGCACAAAATCTTTCAAATGTATTATTTAAATTTTTTTTATATTAATTTAATAAATAA
CCCTGACTTTAGCACCTTATTCGTATTTTATTTTCGGATATTATTTTTTAAAATATATTATTTTC
ATATT
Found at i:7079109 original size:3 final size:3
Alignment explanation
Indices: 7079092--7079171 Score: 51
Period size: 3 Copynumber: 27.0 Consensus size: 3
7079082 TCCTCCTCCC
* *
7079092 CTT CTT TTT CTTT CTT CTT CTT C-T CTT CTT -TT CTT CTT C-T CCT
1 CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
* * * *
7079135 CTTT CCT CATT CTC CTT -TT CTT TTT CTC CTT CTT CTT
1 C-TT CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT
7079172 TGTTCCCGAA
Statistics
Matches: 59, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
2 8 0.14
3 44 0.75
4 7 0.12
ACGTcount: A:0.01, C:0.34, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:7079138 original size:16 final size:16
Alignment explanation
Indices: 7079106--7079164 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
7079096 TTTTTCTTTC
*
7079106 TTCTTCTTCTCTTCTT
1 TTCTTCTTCTCCTCTT
7079122 TTCTTCTTCTCCTC-T
1 TTCTTCTTCTCCTCTT
*
7079137 TTCCTCATTCT-C-CTT
1 TTCTTC-TTCTCCTCTT
*
7079152 TTCTTTTTCTCCT
1 TTCTTCTTCTCCT
7079165 TCTTCTTTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 5 0.14
15 13 0.37
16 17 0.49
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.63
Consensus pattern (16 bp):
TTCTTCTTCTCCTCTT
Found at i:7084288 original size:48 final size:48
Alignment explanation
Indices: 7084232--7084323 Score: 175
Period size: 48 Copynumber: 1.9 Consensus size: 48
7084222 GTACTGAATT
7084232 AACTTATACCCATGTTATCATATTAACCAACCAAACAAAGTTGAGATA
1 AACTTATACCCATGTTATCATATTAACCAACCAAACAAAGTTGAGATA
*
7084280 AACTTATACCCATGTTATTATATTAACCAACCAAACAAAGTTGA
1 AACTTATACCCATGTTATCATATTAACCAACCAAACAAAGTTGA
7084324 AATATAAATA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (48 bp):
AACTTATACCCATGTTATCATATTAACCAACCAAACAAAGTTGAGATA
Found at i:7091636 original size:20 final size:19
Alignment explanation
Indices: 7091586--7091636 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
7091576 AATTTATAAG
7091586 AAAAA-ATAAAAACTTATT
1 AAAAATATAAAAACTTATT
*
7091604 AAAAATATTAAAA-TTGATAT
1 AAAAATATAAAAACTT-AT-T
*
7091624 AAAATTATAAAAA
1 AAAAATATAAAAA
7091637 ATCATAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 7 0.26
19 8 0.30
20 12 0.44
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAAATATAAAAACTTATT
Found at i:7092043 original size:23 final size:22
Alignment explanation
Indices: 7092004--7092060 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
7091994 ATTAAATAAA
*
7092004 ATATTAAAAAAATAAAATATAT
1 ATATTAAAAAAATAAAAAATAT
*
7092026 ATATTAAAAACTAA-AAAAAATGT
1 ATATTAAAAA--AATAAAAAATAT
*
7092049 ATACTAAAAAAA
1 ATATTAAAAAAA
7092061 AATAGTTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 2 0.07
22 10 0.33
23 16 0.53
24 2 0.07
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (22 bp):
ATATTAAAAAAATAAAAAATAT
Found at i:7095551 original size:17 final size:18
Alignment explanation
Indices: 7095526--7095559 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7095516 TAATATAAAA
*
7095526 TAATTTATTTAA-AATTT
1 TAATATATTTAATAATTT
7095543 TAATATATTTAATAATT
1 TAATATATTTAATAATT
7095560 CATCTTATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TAATATATTTAATAATTT
Found at i:7095978 original size:3 final size:3
Alignment explanation
Indices: 7095970--7095994 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7095960 ATGCATCGAA
7095970 GCC GCC GCC GCC GCC GCC GCC GCC G
1 GCC GCC GCC GCC GCC GCC GCC GCC G
7095995 AAGAGCTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.64, G:0.36, T:0.00
Consensus pattern (3 bp):
GCC
Found at i:7098967 original size:21 final size:22
Alignment explanation
Indices: 7098938--7098984 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
7098928 CAGAAGGAGT
*
7098938 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
7098960 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
7098981 GAGT
1 GAGT
7098985 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:7104206 original size:18 final size:18
Alignment explanation
Indices: 7104183--7104220 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
7104173 AATATATATT
7104183 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
*
7104201 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
7104219 AA
1 AA
7104221 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.47, G:0.03, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:7104213 original size:13 final size:13
Alignment explanation
Indices: 7104197--7104221 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7104187 CAAGTACCCA
7104197 ACCCAACCCAATT
1 ACCCAACCCAATT
7104210 ACCCAACCCAAT
1 ACCCAACCCAAT
7104222 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:7112488 original size:15 final size:16
Alignment explanation
Indices: 7112458--7112491 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
7112448 AACGGGCCTC
7112458 ATTTTTTGTTAAAATTT
1 ATTTTTTGTT-AAATTT
7112475 ATTTTTTGTT-AATTT
1 ATTTTTTGTTAAATTT
7112490 AT
1 AT
7112492 ATTATCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
17 10 0.59
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (16 bp):
ATTTTTTGTTAAATTT
Found at i:7114292 original size:10 final size:9
Alignment explanation
Indices: 7114276--7114301 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
7114266 GTGTTCCTCA
7114276 ATTTTTTTG
1 ATTTTTTTG
7114285 ATTTTTTTG
1 ATTTTTTTG
7114294 ATTTTTTT
1 ATTTTTTT
7114302 CTCTCAGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.08, T:0.81
Consensus pattern (9 bp):
ATTTTTTTG
Found at i:7131533 original size:17 final size:18
Alignment explanation
Indices: 7131488--7131524 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
7131478 CTAAATTAAT
7131488 TAAT-ATAAAATCTAAAA
1 TAATAATAAAATCTAAAA
7131505 TAATAATAAAAT-TAAAA
1 TAATAATAAAATCTAAAA
7131522 TAA
1 TAA
7131525 ACTTAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (18 bp):
TAATAATAAAATCTAAAA
Found at i:7135128 original size:107 final size:107
Alignment explanation
Indices: 7134942--7135159 Score: 436
Period size: 107 Copynumber: 2.0 Consensus size: 107
7134932 CGCTCTTTCC
7134942 CGAAAGCATCCAAAGTCTTCGAAGCATAGTGATAACATGAGGCTCTTTCTCTATTCTTTAGCCAA
1 CGAAAGCATCCAAAGTCTTCGAAGCATAGTGATAACATGAGGCTCTTTCTCTATTCTTTAGCCAA
7135007 GAACAGCTCCGACACTTTGGTCACTCGCATCACACATGATTT
66 GAACAGCTCCGACACTTTGGTCACTCGCATCACACATGATTT
7135049 CGAAAGCATCCAAAGTCTTCGAAGCATAGTGATAACATGAGGCTCTTTCTCTATTCTTTAGCCAA
1 CGAAAGCATCCAAAGTCTTCGAAGCATAGTGATAACATGAGGCTCTTTCTCTATTCTTTAGCCAA
7135114 GAACAGCTCCGACACTTTGGTCACTCGCATCACACATGATTT
66 GAACAGCTCCGACACTTTGGTCACTCGCATCACACATGATTT
7135156 CGAA
1 CGAA
7135160 TGGGAAGTTC
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
107 111 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (107 bp):
CGAAAGCATCCAAAGTCTTCGAAGCATAGTGATAACATGAGGCTCTTTCTCTATTCTTTAGCCAA
GAACAGCTCCGACACTTTGGTCACTCGCATCACACATGATTT
Found at i:7135981 original size:30 final size:30
Alignment explanation
Indices: 7135937--7135996 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
7135927 CCTAACGGAT
* *
7135937 TTTTTACCATTGTCACGCCAGTTTTCTTGG
1 TTTTCACCACTGTCACGCCAGTTTTCTTGG
* *
7135967 TTTTCACCACTGTCACGCTAGTTTTTTTGG
1 TTTTCACCACTGTCACGCCAGTTTTCTTGG
7135997 GTACGACATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.47
Consensus pattern (30 bp):
TTTTCACCACTGTCACGCCAGTTTTCTTGG
Found at i:7140100 original size:18 final size:16
Alignment explanation
Indices: 7140073--7140124 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 16
7140063 CTAAATTAAT
7140073 TAATATAAAATCTAAAA
1 TAATATAAAAT-TAAAA
7140090 TAATAATAAAATTAAAAA
1 TAAT-ATAAAATT-AAAA
*
7140108 TAA-ATAAACTTAAAA
1 TAATATAAAATTAAAA
7140123 TA
1 TA
7140125 TGATTTTCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 6 0.19
16 7 0.22
17 5 0.16
18 14 0.44
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (16 bp):
TAATATAAAATTAAAA
Found at i:7140361 original size:266 final size:266
Alignment explanation
Indices: 7139887--7140419 Score: 1066
Period size: 266 Copynumber: 2.0 Consensus size: 266
7139877 TTTGAAATTG
7139887 GCAGAATGTTGACGCCAACTTGAAAAGAAAAAGAAAAATCCTACTCCAAATTGAAGTAGAGAAAG
1 GCAGAATGTTGACGCCAACTTGAAAAGAAAAAGAAAAATCCTACTCCAAATTGAAGTAGAGAAAG
7139952 ACGAAGAAAACAATTCAACTCCAAATAGAAATAGGAAAAGAAATATTTGATTGATTATTTTCAAA
66 ACGAAGAAAACAATTCAACTCCAAATAGAAATAGGAAAAGAAATATTTGATTGATTATTTTCAAA
7140017 TAATAAAAGGCCCCTATTTATATACACGGGGTTTACTAAAAATAGACTAAATTAATTAATATAAA
131 TAATAAAAGGCCCCTATTTATATACACGGGGTTTACTAAAAATAGACTAAATTAATTAATATAAA
7140082 ATCTAAAATAATAATAAAATTAAAAATAAATAAACTTAAAATATGATTTTCTATTTTTGGCTTTT
196 ATCTAAAATAATAATAAAATTAAAAATAAATAAACTTAAAATATGATTTTCTATTTTTGGCTTTT
7140147 TACAAA
261 TACAAA
7140153 GCAGAATGTTGACGCCAACTTGAAAAGAAAAAGAAAAATCCTACTCCAAATTGAAGTAGAGAAAG
1 GCAGAATGTTGACGCCAACTTGAAAAGAAAAAGAAAAATCCTACTCCAAATTGAAGTAGAGAAAG
7140218 ACGAAGAAAACAATTCAACTCCAAATAGAAATAGGAAAAGAAATATTTGATTGATTATTTTCAAA
66 ACGAAGAAAACAATTCAACTCCAAATAGAAATAGGAAAAGAAATATTTGATTGATTATTTTCAAA
7140283 TAATAAAAGGCCCCTATTTATATACACGGGGTTTACTAAAAATAGACTAAATTAATTAATATAAA
131 TAATAAAAGGCCCCTATTTATATACACGGGGTTTACTAAAAATAGACTAAATTAATTAATATAAA
7140348 ATCTAAAATAATAATAAAATTAAAAATAAATAAACTTAAAATATGATTTTCTATTTTTGGCTTTT
196 ATCTAAAATAATAATAAAATTAAAAATAAATAAACTTAAAATATGATTTTCTATTTTTGGCTTTT
7140413 TACAAA
261 TACAAA
7140419 G
1 G
7140420 TCAAATTATT
Statistics
Matches: 267, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
266 267 1.00
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.29
Consensus pattern (266 bp):
GCAGAATGTTGACGCCAACTTGAAAAGAAAAAGAAAAATCCTACTCCAAATTGAAGTAGAGAAAG
ACGAAGAAAACAATTCAACTCCAAATAGAAATAGGAAAAGAAATATTTGATTGATTATTTTCAAA
TAATAAAAGGCCCCTATTTATATACACGGGGTTTACTAAAAATAGACTAAATTAATTAATATAAA
ATCTAAAATAATAATAAAATTAAAAATAAATAAACTTAAAATATGATTTTCTATTTTTGGCTTTT
TACAAA
Found at i:7140366 original size:18 final size:16
Alignment explanation
Indices: 7140339--7140390 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 16
7140329 CTAAATTAAT
7140339 TAATATAAAATCTAAAA
1 TAATATAAAAT-TAAAA
7140356 TAATAATAAAATTAAAAA
1 TAAT-ATAAAATT-AAAA
*
7140374 TAA-ATAAACTTAAAA
1 TAATATAAAATTAAAA
7140389 TA
1 TA
7140391 TGATTTTCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 6 0.19
16 7 0.22
17 5 0.16
18 14 0.44
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (16 bp):
TAATATAAAATTAAAA
Found at i:7144793 original size:27 final size:27
Alignment explanation
Indices: 7144750--7144811 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
7144740 TCTTAGTTTA
**
7144750 TAATTTTTTATGGTTTTT-ATAAAATT
1 TAATTTTTTATAATTTTTAATAAAATT
7144776 TAATATTTTTATAATTTTTAATAAAATT
1 TAAT-TTTTTATAATTTTTAATAAAATT
7144804 TAATTTTT
1 TAATTTTT
7144812 ATATTAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 4 0.12
27 16 0.50
28 12 0.38
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (27 bp):
TAATTTTTTATAATTTTTAATAAAATT
Found at i:7144795 original size:18 final size:18
Alignment explanation
Indices: 7144746--7144798 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
7144736 ATTATCTTAG
* *
7144746 TTTATAATTTTTTATGGTT
1 TTTATAATTTTTAAT-ATT
**
7144765 TTTATAAAATTTAATATT
1 TTTATAATTTTTAATATT
7144783 TTTATAATTTTTAATA
1 TTTATAATTTTTAATA
7144799 AAATTTAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 16 0.57
19 12 0.43
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTATAATTTTTAATATT
Found at i:7144819 original size:19 final size:17
Alignment explanation
Indices: 7144787--7144826 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 17
7144777 AATATTTTTA
7144787 TAATTTTTAATAAAATT
1 TAATTTTTAATAAAATT
7144804 TAATTTTTATATTAAAATT
1 TAATTTTTA-A-TAAAATT
7144823 TAAT
1 TAAT
7144827 GATTTTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.43
18 1 0.05
19 11 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TAATTTTTAATAAAATT
Found at i:7145878 original size:27 final size:27
Alignment explanation
Indices: 7145841--7145900 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
7145831 AATTATTTCA
7145841 TGAG-TTAGTTTGGATCCGTGTTGTAT
1 TGAGTTTAGTTTGGATCCGTGTTGTAT
7145867 TGAGTTTAGTTTGGATCCGTGTTGTAT
1 TGAGTTTAGTTTGGATCCGTGTTGTAT
7145894 TGAGTTT
1 TGAGTTT
7145901 TATATGTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 4 0.12
27 29 0.88
ACGTcount: A:0.15, C:0.07, G:0.30, T:0.48
Consensus pattern (27 bp):
TGAGTTTAGTTTGGATCCGTGTTGTAT
Found at i:7147276 original size:8 final size:9
Alignment explanation
Indices: 7147258--7147358 Score: 60
Period size: 9 Copynumber: 10.7 Consensus size: 9
7147248 ACTATTTTAG
7147258 AAAATTTTT
1 AAAATTTTT
7147267 AAAA-TTTT
1 AAAATTTTT
*
7147275 AATATTCTTT
1 AAAATT-TTT
*
7147285 ATATATTTTTT
1 A-A-AATTTTT
7147296 AGAAATTTTT
1 A-AAATTTTT
** *
7147306 AAAAAATAT
1 AAAATTTTT
*
7147315 ATAATTTTT
1 AAAATTTTT
**
7147324 GGAATTTTT
1 AAAATTTTT
7147333 ATAAATATTTT
1 A-AAAT-TTTT
*
7147344 AAAATTTTA
1 AAAATTTTT
7147353 AAAATT
1 AAAATT
7147359 ATTTTTTTTA
Statistics
Matches: 69, Mismatches: 17, Indels: 12
0.70 0.17 0.12
Matches are distributed among these distances:
8 7 0.10
9 31 0.45
10 18 0.26
11 11 0.16
12 2 0.03
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (9 bp):
AAAATTTTT
Found at i:7148896 original size:16 final size:16
Alignment explanation
Indices: 7148863--7148896 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7148853 GAGATGTGTT
* *
7148863 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
7148879 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
7148895 AA
1 AA
7148897 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:7151721 original size:21 final size:21
Alignment explanation
Indices: 7151695--7151735 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7151685 AGACGAGCAA
* *
7151695 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
7151716 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
7151736 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:7153674 original size:16 final size:16
Alignment explanation
Indices: 7153641--7153674 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7153631 GGAGATTGTT
* *
7153641 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
7153657 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
7153673 AA
1 AA
7153675 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:7154335 original size:12 final size:12
Alignment explanation
Indices: 7154318--7154344 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7154308 GGATGGGATT
7154318 CATATTGCAAAG
1 CATATTGCAAAG
7154330 CATATTGCAAAG
1 CATATTGCAAAG
7154342 CAT
1 CAT
7154345 GTGGCAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (12 bp):
CATATTGCAAAG
Found at i:7154730 original size:21 final size:20
Alignment explanation
Indices: 7154688--7154732 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
7154678 AATTTCTTTG
7154688 TAAACAAAATAAAATAAAAA
1 TAAACAAAATAAAATAAAAA
*
7154708 TAAACAGAAA-AAATATTAAAA
1 TAAACA-AAATAAA-ATAAAAA
7154729 TAAA
1 TAAA
7154733 TTTGTCAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (20 bp):
TAAACAAAATAAAATAAAAA
Found at i:7163188 original size:13 final size:13
Alignment explanation
Indices: 7163170--7163195 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7163160 TATCCTTTCC
7163170 ATTTCCTTTGCTT
1 ATTTCCTTTGCTT
7163183 ATTTCCTTTGCTT
1 ATTTCCTTTGCTT
7163196 TTCAATTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.23, G:0.08, T:0.62
Consensus pattern (13 bp):
ATTTCCTTTGCTT
Found at i:7165090 original size:72 final size:72
Alignment explanation
Indices: 7164999--7165148 Score: 255
Period size: 72 Copynumber: 2.1 Consensus size: 72
7164989 GCTCTAGCTT
7164999 TATCAAGAGCTTCATATTTTATCCGGATAACTTTGTTCTATTTTTCTTCCTGTATGAAAAACCCA
1 TATC-AGAGCTTCATATTTTATCCGGATAACTTTGTTCTATTTTTCTTCCTGTATGAAAAACCCA
*
7165064 ACAAATGG
65 AAAAATGG
* * *
7165072 TATCAGAGCTTCATATTTTATTCGGATAACTTTGTTCTGTTTTTCTTCCTGTGTGAAAAACCCAA
1 TATCAGAGCTTCATATTTTATCCGGATAACTTTGTTCTATTTTTCTTCCTGTATGAAAAACCCAA
7165137 AAAATGG
66 AAAATGG
7165144 TATCA
1 TATCA
7165149 AGAGTCTAAG
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
72 69 0.95
73 4 0.05
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.39
Consensus pattern (72 bp):
TATCAGAGCTTCATATTTTATCCGGATAACTTTGTTCTATTTTTCTTCCTGTATGAAAAACCCAA
AAAATGG
Found at i:7169551 original size:37 final size:37
Alignment explanation
Indices: 7169509--7169582 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
7169499 CTTCTGTTTG
7169509 TTTGGTTGTTTCTTGCAACTCTCATATCTTTGAATCT
1 TTTGGTTGTTTCTTGCAACTCTCATATCTTTGAATCT
7169546 TTTGGTTGTTTCTTGCAACTCTCATATCTTTGAATCT
1 TTTGGTTGTTTCTTGCAACTCTCATATCTTTGAATCT
7169583 CAAACTTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.16, C:0.19, G:0.14, T:0.51
Consensus pattern (37 bp):
TTTGGTTGTTTCTTGCAACTCTCATATCTTTGAATCT
Found at i:7175731 original size:12 final size:12
Alignment explanation
Indices: 7175714--7175740 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7175704 TCATATTTAA
7175714 TATCCATGTATG
1 TATCCATGTATG
7175726 TATCCATGTATG
1 TATCCATGTATG
7175738 TAT
1 TAT
7175741 GAGATATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (12 bp):
TATCCATGTATG
Found at i:7180933 original size:27 final size:26
Alignment explanation
Indices: 7180896--7180981 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 26
7180886 AGCATGGCTG
* *
7180896 CCAGAATAGATATTATGACAGAGTCA
1 CCAGAATAGATATTATGGCAGAGCCA
*
7180922 CCAGATATAGATATTGTGGCAGAGCCA
1 CCAGA-ATAGATATTATGGCAGAGCCA
* *
7180949 CCAGAACAGATATTTATGGCATAGCCA
1 CCAGAATAGATA-TTATGGCAGAGCCA
7180976 CCAGAA
1 CCAGAA
7180982 CGCTTCCTCC
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 11 0.21
27 41 0.79
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (26 bp):
CCAGAATAGATATTATGGCAGAGCCA
Found at i:7182074 original size:16 final size:16
Alignment explanation
Indices: 7182043--7182074 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
7182033 GGGTTCGGCT
7182043 ATGGAGAAAAGAAAAA
1 ATGGAGAAAAGAAAAA
7182059 ATGGAAGAAAAGAAAA
1 ATGG-AGAAAAGAAAA
7182075 GGTGAGAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.69, C:0.00, G:0.25, T:0.06
Consensus pattern (16 bp):
ATGGAGAAAAGAAAAA
Found at i:7186041 original size:46 final size:46
Alignment explanation
Indices: 7185989--7186124 Score: 175
Period size: 46 Copynumber: 3.0 Consensus size: 46
7185979 GCTCTCTGAA
* * *
7185989 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
**
7186035 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
7186081 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
7186125 TCAAAGATAA
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
45 1 0.01
46 77 0.99
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:7194027 original size:11 final size:11
Alignment explanation
Indices: 7194011--7194061 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
7194001 TTCAAGTATA
7194011 ATTTTTTTAAT
1 ATTTTTTTAAT
7194022 ATTTTTTTAAT
1 ATTTTTTTAAT
***
7194033 -TTGTTGAAAAT
1 ATT-TTTTTAAT
7194044 ATTTATTTTAAT
1 ATTT-TTTTAAT
7194056 ATTTTT
1 ATTTTT
7194062 AATGTATTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
10 2 0.06
11 19 0.61
12 10 0.32
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (11 bp):
ATTTTTTTAAT
Found at i:7199113 original size:47 final size:47
Alignment explanation
Indices: 7198956--7199088 Score: 239
Period size: 47 Copynumber: 2.8 Consensus size: 47
7198946 CCGGGATAAG
* *
7198956 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
7199003 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
*
7199050 CATAAAGTACTTCATCGGAACAAATCCGGAACTTTAACA
1 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACA
7199089 GTAGTCGACA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 83 1.00
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.26
Consensus pattern (47 bp):
CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
Found at i:7199886 original size:4 final size:4
Alignment explanation
Indices: 7199877--7199901 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
7199867 CCCTTTTCTA
7199877 TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC T
7199902 CACATTTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:7210028 original size:26 final size:25
Alignment explanation
Indices: 7209981--7210030 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
7209971 CTCGTTATAT
7209981 GGCTCTTTGGAGCTTCCCGATTAAA
1 GGCTCTTTGGAGCTTCCCGATTAAA
*
7210006 GGCTCTTTGTGAGCTTCCTGATTAA
1 GGCTCTTTG-GAGCTTCCCGATTAA
7210031 TGGTTCTCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (25 bp):
GGCTCTTTGGAGCTTCCCGATTAAA
Found at i:7210204 original size:25 final size:25
Alignment explanation
Indices: 7210176--7210231 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
7210166 CTTCTCGCTT
*
7210176 TACAGCCTGGATAAGCTTCTCATTA
1 TACAGCCTGGATAAGCTTCCCATTA
7210201 TACAGCCTGGATAAGCTTCCCATTA
1 TACAGCCTGGATAAGCTTCCCATTA
*
7210226 TGCAGC
1 TACAGC
7210232 TCAGATGGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (25 bp):
TACAGCCTGGATAAGCTTCCCATTA
Found at i:7233532 original size:30 final size:30
Alignment explanation
Indices: 7233498--7233559 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
7233488 ACTTATTTTA
7233498 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
7233528 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
7233558 TT
1 TT
7233560 ACTTGTTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:7240691 original size:24 final size:24
Alignment explanation
Indices: 7240664--7240718 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
7240654 TTATTTTAGA
* **
7240664 AAAAATTTAAATTTTTTAATTTTT
1 AAAAATATAAATTTTGGAATTTTT
7240688 AAAAATATAAATTTTGGAATTTTT
1 AAAAATATAAATTTTGGAATTTTT
*
7240712 ATAAATA
1 AAAAATA
7240719 ATTTGATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (24 bp):
AAAAATATAAATTTTGGAATTTTT
Found at i:7240693 original size:18 final size:19
Alignment explanation
Indices: 7240672--7240743 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 19
7240662 GAAAAAATTT
7240672 AAATT-TTTTAATTTTTAA
1 AAATTATTTTAATTTTTAA
*
7240690 AAATATAAATTTTGGAATTTTTAT
1 AAAT-T--ATTTT--AATTTTTAA
* *
7240714 AAA-TAATTTGATTTTTAA
1 AAATTATTTTAATTTTTAA
7240732 AAATTATTTTAA
1 AAATTATTTTAA
7240744 AATTTTGGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
18 14 0.34
19 7 0.17
20 4 0.10
22 5 0.12
24 11 0.27
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (19 bp):
AAATTATTTTAATTTTTAA
Found at i:7246190 original size:28 final size:28
Alignment explanation
Indices: 7246157--7246244 Score: 176
Period size: 28 Copynumber: 3.1 Consensus size: 28
7246147 TTATTTTATT
7246157 GTTAATTTTACTACTATTTGTTTGCTAA
1 GTTAATTTTACTACTATTTGTTTGCTAA
7246185 GTTAATTTTACTACTATTTGTTTGCTAA
1 GTTAATTTTACTACTATTTGTTTGCTAA
7246213 GTTAATTTTACTACTATTTGTTTGCTAA
1 GTTAATTTTACTACTATTTGTTTGCTAA
7246241 GTTA
1 GTTA
7246245 CAACTATCTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 60 1.00
ACGTcount: A:0.25, C:0.10, G:0.11, T:0.53
Consensus pattern (28 bp):
GTTAATTTTACTACTATTTGTTTGCTAA
Found at i:7247186 original size:22 final size:21
Alignment explanation
Indices: 7247148--7247201 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
7247138 TGGTAATATT
*
7247148 AAAAA-TA-AAAAAATAACCA
1 AAAAATTATAAAAAATAACAA
* *
7247167 AAAAGTTAGTAAAAATTAACAA
1 AAAAATTA-TAAAAAATAACAA
7247189 AAAAATTATAAAA
1 AAAAATTATAAAA
7247202 GAAAACATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 4 0.14
20 2 0.07
21 5 0.18
22 17 0.61
ACGTcount: A:0.72, C:0.06, G:0.04, T:0.19
Consensus pattern (21 bp):
AAAAATTATAAAAAATAACAA
Found at i:7247390 original size:38 final size:34
Alignment explanation
Indices: 7247313--7247390 Score: 86
Period size: 38 Copynumber: 2.2 Consensus size: 34
7247303 ACCTACAGAT
*
7247313 TTATATATATAAATACAAGTTAATATAATATATG
1 TTATATATATAAATACAAGTTAAAATAATATATG
*
7247347 ATATATATTATTAAATATTCAAGTTAAAAT-ATATTATG
1 TTATATA-TA-TAAATA--CAAGTTAAAATAATA-TATG
7247385 TTATAT
1 TTATAT
7247391 TTACAAGTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
34 6 0.17
35 2 0.06
36 6 0.17
37 3 0.08
38 19 0.53
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (34 bp):
TTATATATATAAATACAAGTTAAAATAATATATG
Found at i:7247666 original size:2 final size:2
Alignment explanation
Indices: 7247659--7247692 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
7247649 TCTCACAAAA
*
7247659 AT AT AT AT AT AT AT AT AT AT -T AT AT TT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7247693 ACATATTGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:7250429 original size:19 final size:19
Alignment explanation
Indices: 7250405--7250447 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
7250395 AAAACATCAT
* *
7250405 ATTAATTTTAATTAATTTG
1 ATTAATTTAAATTAATCTG
*
7250424 ATTAATTTAAATTTATCTG
1 ATTAATTTAAATTAATCTG
7250443 ATTAA
1 ATTAA
7250448 AATTAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (19 bp):
ATTAATTTAAATTAATCTG
Found at i:7252575 original size:3 final size:3
Alignment explanation
Indices: 7252567--7252604 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
7252557 CACTTAAGGG
7252567 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGAA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG-A AGA AGA A
7252605 TCCCTTCCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:7255452 original size:24 final size:24
Alignment explanation
Indices: 7255367--7255452 Score: 59
Period size: 24 Copynumber: 3.5 Consensus size: 24
7255357 CTTATCAAGA
* *
7255367 TAAATATTAGATTAAAT-TTAATAT
1 TAAATATTA-AATAAATATAAATAT
* *
7255391 TAAATTGATTAAATTAATA-GAATATT
1 TAAA-T-ATTAAATAAATATAAATA-T
** *
7255417 TATCTATCAAATAAATATAAATAT
1 TAAATATTAAATAAATATAAATAT
7255441 TAAATATTAAAT
1 TAAATATTAAAT
7255453 CTTATTAAAA
Statistics
Matches: 46, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
24 24 0.52
25 15 0.33
26 7 0.15
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.42
Consensus pattern (24 bp):
TAAATATTAAATAAATATAAATAT
Found at i:7258292 original size:41 final size:41
Alignment explanation
Indices: 7258247--7258326 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
7258237 TACATTGAGA
*
7258247 CAAGTTGAAAGGATAGATATATTGTTACTGGTGTCAGGTGT
1 CAAGTTGAAAGGATAGATATATTGTTACAGGTGTCAGGTGT
** *
7258288 CAAGTTGAGGGGATAGGTATATTGTTACAGGTGTCAGGT
1 CAAGTTGAAAGGATAGATATATTGTTACAGGTGTCAGGT
7258327 TTTGAGAGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.28, C:0.07, G:0.33, T:0.33
Consensus pattern (41 bp):
CAAGTTGAAAGGATAGATATATTGTTACAGGTGTCAGGTGT
Found at i:7269494 original size:27 final size:26
Alignment explanation
Indices: 7269456--7269522 Score: 80
Period size: 28 Copynumber: 2.5 Consensus size: 26
7269446 GTTTTATTAT
* * *
7269456 TTTTTAATTAATTTTAATATTTTTAG
1 TTTTTAAATAATTTTAAAATTTATAG
7269482 TTTGTTAAATAATTTTTAAAATTTATAG
1 TTT-TTAAATAA-TTTTAAAATTTATAG
*
7269510 TTTTTAAAAAATT
1 TTTTTAAATAATT
7269523 AATTAATTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
26 5 0.14
27 14 0.40
28 16 0.46
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.58
Consensus pattern (26 bp):
TTTTTAAATAATTTTAAAATTTATAG
Found at i:7269499 original size:28 final size:27
Alignment explanation
Indices: 7269456--7269522 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
7269446 GTTTTATTAT
* * *
7269456 TTTTTAATTAA-TTTTAATATTTTTAG
1 TTTTTAAATAATTTTTAAAATTTATAG
7269482 TTTGTTAAATAATTTTTAAAATTTATAG
1 TTT-TTAAATAATTTTTAAAATTTATAG
*
7269510 TTTTTAAAAAATT
1 TTTTTAAATAATT
7269523 AATTAATTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.09
27 16 0.46
28 16 0.46
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.58
Consensus pattern (27 bp):
TTTTTAAATAATTTTTAAAATTTATAG
Found at i:7279127 original size:18 final size:19
Alignment explanation
Indices: 7279090--7279130 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
7279080 TGGTTCATGT
7279090 TTTCAATCTCATATTTCAA
1 TTTCAATCTCATATTTCAA
7279109 TTTCAATTCTCA-A-TTCAA
1 TTTCAA-TCTCATATTTCAA
7279127 TTTC
1 TTTC
7279131 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.43
19 7 0.33
20 5 0.24
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTCAATCTCATATTTCAA
Found at i:7279265 original size:23 final size:23
Alignment explanation
Indices: 7279235--7279292 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
7279225 GTGGATTCCT
7279235 CCCAAACACACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
7279258 CCCAAACACACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
7279281 CCCAAACACACC
1 CCCAAACACACC
7279293 CGGAATATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.47, C:0.43, G:0.03, T:0.07
Consensus pattern (23 bp):
CCCAAACACACCAGAATATCCAA
Found at i:7279817 original size:15 final size:16
Alignment explanation
Indices: 7279785--7279841 Score: 73
Period size: 15 Copynumber: 3.7 Consensus size: 16
7279775 TCATATATAT
*
7279785 AATATATATTTCAATC
1 AATATAAATTTCAATC
7279801 AATATAAATTT-AATC
1 AATATAAATTTCAATC
* *
7279816 AAAAT-GATTTCAATC
1 AATATAAATTTCAATC
7279831 AATATAAATTT
1 AATATAAATTT
7279842 GATAAATTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.12
15 16 0.47
16 14 0.41
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (16 bp):
AATATAAATTTCAATC
Done.