Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 19 of 199
Found at i:7769886 original size:13 final size:14
Alignment explanation
Indices: 7769868--7769900 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
7769858 CAATATATCT
7769868 ATTATTT-AACTAA
1 ATTATTTAAACTAA
*
7769881 ATTATTTAAAGTAA
1 ATTATTTAAACTAA
7769895 ATTATT
1 ATTATT
7769901 CTCTTGGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (14 bp):
ATTATTTAAACTAA
Found at i:7772229 original size:31 final size:31
Alignment explanation
Indices: 7772194--7772257 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
7772184 CATTCTTTAC
7772194 AAAATCGAGACTCTGGTAGATTTCTATGACT
1 AAAATCGAGACTCTGGTAGATTTCTATGACT
*
7772225 AAAATCTAGACTCTGGTAGATTTCTATGACT
1 AAAATCGAGACTCTGGTAGATTTCTATGACT
7772256 AA
1 AA
7772258 CTTTCCTAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (31 bp):
AAAATCGAGACTCTGGTAGATTTCTATGACT
Found at i:7786805 original size:21 final size:21
Alignment explanation
Indices: 7786765--7786805 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7786755 AAATTTTAAT
*
7786765 AAATAAAAAATATTAAAAATC
1 AAATAAAAAATAATAAAAATC
* *
7786786 AAATTAAAAATAATATAAAT
1 AAATAAAAAATAATAAAAAT
7786806 ATATTTTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AAATAAAAAATAATAAAAATC
Found at i:7790635 original size:18 final size:19
Alignment explanation
Indices: 7790602--7790638 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7790592 AGTAAATTTT
7790602 AAAATTTAAAATATTTATA
1 AAAATTTAAAATATTTATA
*
7790621 AAAATTTCAAA-ATTTATA
1 AAAATTTAAAATATTTATA
7790639 TTTTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATTTAAAATATTTATA
Found at i:7790661 original size:20 final size:20
Alignment explanation
Indices: 7790636--7790676 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
7790626 TTCAAAATTT
*
7790636 ATATTTTAAAAAAATTATAA
1 ATATTTCAAAAAAATTATAA
*
7790656 ATATTTCAAAAAAATTCTAA
1 ATATTTCAAAAAAATTATAA
7790676 A
1 A
7790677 AATATATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
ATATTTCAAAAAAATTATAA
Found at i:7802371 original size:24 final size:26
Alignment explanation
Indices: 7802339--7802387 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
7802329 ATCATAAATA
7802339 TATAATTTTAT-AATTTT-AATAATC
1 TATAATTTTATAAATTTTAAATAATC
*
7802363 TATATTTTTATAAATTTTAAATAAT
1 TATAATTTTATAAATTTTAAATAAT
7802388 TAAATTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.45
25 6 0.27
26 6 0.27
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (26 bp):
TATAATTTTATAAATTTTAAATAATC
Found at i:7803116 original size:21 final size:21
Alignment explanation
Indices: 7803091--7803137 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
7803081 TATAAAACTA
*
7803091 ATAAAA-CATATTTAAAATTTT
1 ATAAAATCATA-TTAAAATTCT
7803112 ATAAAATCATATTAAAATTCT
1 ATAAAATCATATTAAAATTCT
7803133 ATAAA
1 ATAAA
7803138 CACAATGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAAAATCATATTAAAATTCT
Found at i:7803339 original size:17 final size:18
Alignment explanation
Indices: 7803305--7803344 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
7803295 CGATTGAATA
* *
7803305 ATTTTTTGTTGATTTTTT
1 ATTTTTTGTTAATATTTT
7803323 ATTTTTT-TTAATATTTT
1 ATTTTTTGTTAATATTTT
7803340 ATTTT
1 ATTTT
7803345 ATTGAACTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (18 bp):
ATTTTTTGTTAATATTTT
Found at i:7803644 original size:19 final size:19
Alignment explanation
Indices: 7803620--7803778 Score: 80
Period size: 19 Copynumber: 8.4 Consensus size: 19
7803610 AGCTTTTATG
7803620 ATAAATTTTAATAATTTTT
1 ATAAATTTTAATAATTTTT
7803639 ATAAATTTTAAT--TTTTT
1 ATAAATTTTAATAATTTTT
** * *
7803656 ATGATTTTTTAAAGAATTTTA
1 AT-AAATTTT-AATAATTTTT
* *
7803677 ATACATTCTAATAATATTTTT
1 ATAAATTTTAAT-A-ATTTTT
* *
7803698 AATATATTTTATTAA-TTTT
1 -ATAAATTTTAATAATTTTT
**
7803717 ATAAA--AAAAT-ATTTTT
1 ATAAATTTTAATAATTTTT
* *
7803733 TTATAA-TTTATTAATTTTT
1 ATA-AATTTTAATAATTTTT
* * *
7803752 ATAACTTTTTATAATATTT
1 ATAAATTTTAATAATTTTT
7803771 ATAAATTT
1 ATAAATTT
7803779 ATATCAATTT
Statistics
Matches: 102, Mismatches: 26, Indels: 24
0.67 0.17 0.16
Matches are distributed among these distances:
15 1 0.01
16 8 0.08
17 9 0.09
18 12 0.12
19 45 0.44
20 6 0.06
21 12 0.12
22 9 0.09
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (19 bp):
ATAAATTTTAATAATTTTT
Found at i:7803748 original size:34 final size:36
Alignment explanation
Indices: 7803689--7803755 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 36
7803679 ACATTCTAAT
*
7803689 AATATTTTTAATATATTTTATTAA-TTTTATAAAAA
1 AATATTTTTAATATAATTTATTAATTTTTATAAAAA
*
7803724 AATATTTTT-TTATAATTTATTAATTTTTATAA
1 AATATTTTTAATATAATTTATTAATTTTTATAA
7803756 CTTTTTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 12 0.41
35 17 0.59
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (36 bp):
AATATTTTTAATATAATTTATTAATTTTTATAAAAA
Found at i:7803760 original size:10 final size:9
Alignment explanation
Indices: 7803730--7803825 Score: 74
Period size: 10 Copynumber: 10.6 Consensus size: 9
7803720 AAAAAATATT
7803730 TTTTTATAA
1 TTTTTATAA
*
7803739 TTTAT-TAA
1 TTTTTATAA
7803747 TTTTTATAA
1 TTTTTATAA
7803756 CTTTTTATAA
1 -TTTTTATAA
*
7803766 TATTTATAAA
1 TTTTTAT-AA
*
7803776 TTTATATCAA
1 TTTTTAT-AA
*
7803786 TTTTAATAA
1 TTTTTATAA
*
7803795 TTCTTTTATAT
1 -T-TTTTATAA
7803806 TTTTTAT-A
1 TTTTTATAA
7803814 -TTTTA-AA
1 TTTTTATAA
7803821 TTTTT
1 TTTTT
7803826 TTATGGGTAA
Statistics
Matches: 69, Mismatches: 11, Indels: 15
0.73 0.12 0.16
Matches are distributed among these distances:
7 6 0.09
8 11 0.16
9 21 0.30
10 25 0.36
11 6 0.09
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:7803770 original size:29 final size:29
Alignment explanation
Indices: 7803730--7803795 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
7803720 AAAAAATATT
* *
7803730 TTTTTAT-A-ATTTATTAATTTTTAT-AA
1 TTTTTATAATATTTATAAATTTATATCAA
7803756 CTTTTTATAATATTTATAAATTTATATCAA
1 -TTTTTATAATATTTATAAATTTATATCAA
*
7803786 TTTTAATAAT
1 TTTTTATAAT
7803796 TCTTTTATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 7 0.21
28 1 0.03
29 23 0.70
30 2 0.06
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (29 bp):
TTTTTATAATATTTATAAATTTATATCAA
Found at i:7803796 original size:19 final size:18
Alignment explanation
Indices: 7803730--7803825 Score: 74
Period size: 19 Copynumber: 5.3 Consensus size: 18
7803720 AAAAAATATT
7803730 TTTTTATAATTTAT-TAA
1 TTTTTATAATTTATATAA
*
7803747 TTTTTATAACTTTTTATAA
1 TTTTTATAA-TTTATATAA
*
7803766 TATTTATAAATTTATATCAA
1 TTTTTAT-AATTTATAT-AA
* * *
7803786 TTTTAATAATTCTTTTATAT
1 TTTTTATAA-T-TTATATAA
7803806 TTTTTAT-ATTT-TA-AA
1 TTTTTATAATTTATATAA
7803821 TTTTT
1 TTTTT
7803826 TTATGGGTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
15 6 0.09
16 2 0.03
17 11 0.17
18 5 0.08
19 18 0.28
20 17 0.27
21 5 0.08
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTTATAATTTATATAA
Found at i:7804424 original size:23 final size:22
Alignment explanation
Indices: 7804389--7804431 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
7804379 GACATGAGTG
7804389 AATTAGAGCTGAAACAAAAAAAC
1 AATTAGAGCTG-AACAAAAAAAC
* *
7804412 AATTGGAGTTGAACAAAAAA
1 AATTAGAGCTGAACAAAAAA
7804432 GCCCTACTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.58, C:0.09, G:0.16, T:0.16
Consensus pattern (22 bp):
AATTAGAGCTGAACAAAAAAAC
Found at i:7817433 original size:27 final size:27
Alignment explanation
Indices: 7817403--7817457 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
7817393 ATAGGTGGTG
* *
7817403 CCTATCTGGCAAGAGCCACTGGTGACT
1 CCTATCTGACAAGAGCCACGGGTGACT
* *
7817430 CCTATCTGATAAGTGCCACGGGTGACT
1 CCTATCTGACAAGAGCCACGGGTGACT
7817457 C
1 C
7817458 ATTGTTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (27 bp):
CCTATCTGACAAGAGCCACGGGTGACT
Found at i:7817686 original size:103 final size:103
Alignment explanation
Indices: 7817472--7817714 Score: 359
Period size: 103 Copynumber: 2.4 Consensus size: 103
7817462 TTAAATAAAA
* * *
7817472 TAAAA-TTACATTAATAAAAAATCACAAAAGACTAAACTAAACACTAACAATTTATATAATCTAA
1 TAAAATTTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAATCAAA
*
7817536 TCATAAATTACTAACAAAATAACTATAAAATTATTATT
66 TCATAAATTACTAACAAAATAACTATAAAAATATTATT
* * *
7817574 TTAAATTTACACTACTAAAAAATCACAAAACCCTAAACTAAACACTAACAATTTATA-AA-CAAA
1 TAAAATTTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAATCAAA
7817637 TCATAAATTACTAACAAAATAACTATAAAAATATT-TT
66 TCATAAATTACTAACAAAATAACTATAAAAATATTATT
*
7817674 TAAAACATTTTACATTACTAAAAAATCACAAAACACAAAAC
1 T-AAA-A-TTTACATTACTAAAAAATCACAAAACACTAAAC
7817715 ACTAACATAA
Statistics
Matches: 126, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
100 3 0.02
101 39 0.31
102 7 0.06
103 77 0.61
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (103 bp):
TAAAATTTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAATCAAA
TCATAAATTACTAACAAAATAACTATAAAAATATTATT
Found at i:7817730 original size:38 final size:38
Alignment explanation
Indices: 7817687--7817797 Score: 94
Period size: 34 Copynumber: 3.1 Consensus size: 38
7817677 AACATTTTAC
7817687 ATTACTAAAAAATCACAAAACACAAAACACTAACATAA
1 ATTACTAAAAAATCACAAAACACAAAACACTAACATAA
* ** *
7817725 ATTACTAACAAAA--A-AATTA-AC-AAA-A-TAATTTTAC
1 ATTACTAA-AAAATCACAA-AACACAAAACACTAA-CATAA
*
7817759 ATTAATAAAAAATCACAAAACACAAAACACTAACA-AA
1 ATTACTAAAAAATCACAAAACACAAAACACTAACATAA
7817796 AT
1 AT
7817798 AATTAACAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 21
0.64 0.11 0.25
Matches are distributed among these distances:
33 7 0.13
34 10 0.19
35 5 0.09
36 8 0.15
37 8 0.15
38 9 0.17
39 7 0.13
ACGTcount: A:0.63, C:0.17, G:0.00, T:0.20
Consensus pattern (38 bp):
ATTACTAAAAAATCACAAAACACAAAACACTAACATAA
Found at i:7818765 original size:27 final size:26
Alignment explanation
Indices: 7818734--7818801 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 26
7818724 CGTTCCGGGT
*
7818734 TCGGGTCCTTTAGAAAGAGGGTTCATG
1 TCGGGTCCTTT-GAAAGAGGGTGCATG
* *
7818761 TCGGGTCCGATTGAGAGAGGGTGCATG
1 TCGGGTCC-TTTGAAAGAGGGTGCATG
7818788 TCGGGTCCTCTTGA
1 TCGGGTCCT-TTGA
7818802 TAATACTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
27 33 0.94
28 2 0.06
ACGTcount: A:0.18, C:0.18, G:0.37, T:0.28
Consensus pattern (26 bp):
TCGGGTCCTTTGAAAGAGGGTGCATG
Found at i:7823483 original size:122 final size:124
Alignment explanation
Indices: 7823264--7823514 Score: 398
Period size: 122 Copynumber: 2.0 Consensus size: 124
7823254 GGAAAAATAC
* * *
7823264 AAAAAAAAAACTAACACAAAAATTATTAGTCATTTATTAGATATTCTAGACTACAGTGGTATTTC
1 AAAAAAAAAACTAACACAAAAATTATTAATCATATATTAGATACTCTAGACTACAGTGGTATTTC
*
7823329 AGTTCCTGGAAGTAGTGAAACTTACCTGTACCTAGCAACAGTACTACCTTTTGCATATT
66 AGTTCCTGGAAGTAGTGAAACTTACCTGTACCTAGCAACAGTACTACCTTTTACATATT
* * * *
7823388 AAAAAAAAACCT-A-ACAAATATTATTAATCATATATTAGATACTCTAGATTATAGTGGTATTTC
1 AAAAAAAAAACTAACACAAAAATTATTAATCATATATTAGATACTCTAGACTACAGTGGTATTTC
*
7823451 AGTTCCTGGAAGTAGTGAAACTTACCTGTACCTAGCAACAGTACTGCCTTTTACATATT
66 AGTTCCTGGAAGTAGTGAAACTTACCTGTACCTAGCAACAGTACTACCTTTTACATATT
*
7823510 CAAAA
1 AAAAA
7823515 GCAAAACACC
Statistics
Matches: 117, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
122 105 0.90
123 1 0.01
124 11 0.09
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (124 bp):
AAAAAAAAAACTAACACAAAAATTATTAATCATATATTAGATACTCTAGACTACAGTGGTATTTC
AGTTCCTGGAAGTAGTGAAACTTACCTGTACCTAGCAACAGTACTACCTTTTACATATT
Found at i:7827727 original size:25 final size:25
Alignment explanation
Indices: 7827668--7827727 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 25
7827658 AATATTTTGA
* *
7827668 TAAATATAATAAATGTTTTATTATAT
1 TAAATATAA-ATATATTTTATTATAT
7827694 TAAA-A-AAATATATTTTA-TAGTAT
1 TAAATATAAATATATTTTATTA-TAT
7827717 TAAATATAAAT
1 TAAATATAAAT
7827728 TTTATATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
22 2 0.07
23 15 0.52
24 3 0.10
25 5 0.17
26 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (25 bp):
TAAATATAAATATATTTTATTATAT
Found at i:7841138 original size:20 final size:20
Alignment explanation
Indices: 7841110--7841148 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
7841100 ATAAAATTTA
7841110 TTTAGAATATATAAACTATAT
1 TTTAGAATATATAAA-TATAT
*
7841131 TTTA-AATATTTAAATATA
1 TTTAGAATATATAAATATA
7841149 ACCATTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (20 bp):
TTTAGAATATATAAATATAT
Found at i:7843087 original size:35 final size:35
Alignment explanation
Indices: 7843019--7843087 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
7843009 CTTTCTGAGG
* *
7843019 TTGGTAAATATGGAAAGTGATATTCAAATATATGC
1 TTGGCAAATATGGAAAGTGATATTCAAAGATATGC
* * *
7843054 TTGGCAAATATGGAAGGTGATCTTCAGAGATATG
1 TTGGCAAATATGGAAAGTGATATTCAAAGATATG
7843088 TGATCCTAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.32
Consensus pattern (35 bp):
TTGGCAAATATGGAAAGTGATATTCAAAGATATGC
Found at i:7844968 original size:23 final size:23
Alignment explanation
Indices: 7844942--7845017 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
7844932 ATAAGTGCCA
7844942 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
7844965 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
7844988 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
7845011 CACTGAT
1 CACTGAT
7845018 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:7845117 original size:8 final size:8
Alignment explanation
Indices: 7845104--7845132 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
7845094 ACCCGGGACT
7845104 CACTGTAA
1 CACTGTAA
7845112 CACTGTAA
1 CACTGTAA
7845120 CACTGTAA
1 CACTGTAA
7845128 CACTG
1 CACTG
7845133 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:7845277 original size:18 final size:17
Alignment explanation
Indices: 7845251--7845289 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
7845241 ATTTTCCTTC
7845251 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
7845268 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
7845286 CACA
1 CACA
7845290 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:7852317 original size:23 final size:23
Alignment explanation
Indices: 7852291--7852366 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
7852281 ATAAGTGCCA
7852291 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
7852314 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
7852337 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
7852360 CACTGAT
1 CACTGAT
7852367 CAATAACACT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:7852466 original size:8 final size:8
Alignment explanation
Indices: 7852453--7852481 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
7852443 ACCCGGGACT
7852453 CACTGTAA
1 CACTGTAA
7852461 CACTGTAA
1 CACTGTAA
7852469 CACTGTAA
1 CACTGTAA
7852477 CACTG
1 CACTG
7852482 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:7852626 original size:18 final size:17
Alignment explanation
Indices: 7852600--7852638 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
7852590 ATTTTCCTTC
7852600 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
7852617 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
7852635 CACA
1 CACA
7852639 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:7855867 original size:28 final size:29
Alignment explanation
Indices: 7855836--7855913 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 29
7855826 TATTATTATT
*
7855836 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
7855864 TATATTATTAAATTAATTACATTATAAA-
1 TATATAAATAAATAAATTACATTATAAAG
*
7855892 TATTATATTAAGAAATAAATTA
1 TA-TATA--AATAAATAAATTA
7855914 AATAAAGACA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
28 17 0.45
29 11 0.29
31 10 0.26
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:7855913 original size:31 final size:28
Alignment explanation
Indices: 7855847--7855914 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
7855837 ATATAAATAT
**
7855847 ATAAATTAATTATAAAGTATATTATTAA
1 ATAAATTAATTATAAAGTATATTAAGAA
* *
7855875 ATTAATTACATTATAAATATTATATTAAGAA
1 ATAAATTA-ATTAT-AA-AGTATATTAAGAA
7855906 ATAAATTAA
1 ATAAATTAA
7855915 ATAAAGACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 5 0.16
30 3 0.09
31 17 0.53
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (28 bp):
ATAAATTAATTATAAAGTATATTAAGAA
Found at i:7856813 original size:18 final size:18
Alignment explanation
Indices: 7856790--7856838 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
7856780 ATGTGAGGTA
*
7856790 AGTATTAATATTAGTATT
1 AGTATTATTATTAGTATT
7856808 AGTATTATTATTAGTATT
1 AGTATTATTATTAGTATT
*
7856826 ATTATTATTATTA
1 AGTATTATTATTA
7856839 TGAGTGGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (18 bp):
AGTATTATTATTAGTATT
Found at i:7856818 original size:3 final size:3
Alignment explanation
Indices: 7856792--7856839 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
7856782 GTGAGGTAAG
* * * *
7856792 TAT TAA TAT TAG TAT TAG TAT TAT TAT TAG TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7856840 GAGTGGGAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:7856839 original size:12 final size:12
Alignment explanation
Indices: 7856792--7856839 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
7856782 GTGAGGTAAG
* *
7856792 TATTAATATTAG
1 TATTAGTATTAT
7856804 TATTAGTATTAT
1 TATTAGTATTAT
7856816 TATTAGTATTAT
1 TATTAGTATTAT
*
7856828 TATTATTATTAT
1 TATTAGTATTAT
7856840 GAGTGGGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (12 bp):
TATTAGTATTAT
Found at i:7857034 original size:24 final size:24
Alignment explanation
Indices: 7856980--7857051 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 24
7856970 TGTGTGAAGT
*
7856980 TGTGAAATAATTATTG-ATTG-AAA
1 TGTGAAA-AATGATTGAATTGAAAA
*
7857003 GGTGGAAAAATGATTGAATTGAAAA
1 TGT-GAAAAATGATTGAATTGAAAA
7857028 TGTGAAAAATTGTAATTGAATTGA
1 TGTGAAAAA-TG--ATTGAATTGA
7857052 GAATATATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 9 0.22
24 14 0.35
25 7 0.17
27 10 0.25
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (24 bp):
TGTGAAAAATGATTGAATTGAAAA
Found at i:7857254 original size:37 final size:39
Alignment explanation
Indices: 7857195--7857290 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
7857185 CGGATAGATT
* * * *
7857195 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
7857232 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
7857271 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
7857291 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:7860612 original size:35 final size:35
Alignment explanation
Indices: 7860544--7860612 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
7860534 CTTTCTGAGG
* *
7860544 TTGGTAAATATGGAAAGTGATCTTCAAATATATGC
1 TTGGAAAATATGGAAAGTGATCTTCAAAGATATGC
** *
7860579 TTGGAAAATATGGAGGGTGATCTTCAGAGATATG
1 TTGGAAAATATGGAAAGTGATCTTCAAAGATATG
7860613 TAATCCTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.35, C:0.07, G:0.26, T:0.32
Consensus pattern (35 bp):
TTGGAAAATATGGAAAGTGATCTTCAAAGATATGC
Found at i:7862135 original size:5 final size:5
Alignment explanation
Indices: 7862125--7862172 Score: 78
Period size: 5 Copynumber: 9.2 Consensus size: 5
7862115 AATTATGTTT
7862125 TTATA TTATA TTATA TTATA TTATA TTATA TTATTA TTATA TATATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA TTA-TA TTATA T-TATA T
7862173 GACAAAGAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
5 31 0.76
6 10 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:7862215 original size:17 final size:17
Alignment explanation
Indices: 7862193--7862258 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 17
7862183 GAAAGAAAAG
7862193 AAACAGAGAGCAAAACA
1 AAACAGAGAGCAAAACA
* *
7862210 AAACAGAGAAGGGAGAAAGAAAA
1 AAAC--AG-A--GAGCAA-AACA
7862233 AAACAGAGAGCAAAACA
1 AAACAGAGAGCAAAACA
7862250 AAACAGAGA
1 AAACAGAGA
7862259 AGGAAGGAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
17 16 0.41
18 5 0.13
19 2 0.05
20 2 0.05
21 2 0.05
22 5 0.13
23 7 0.18
ACGTcount: A:0.65, C:0.12, G:0.23, T:0.00
Consensus pattern (17 bp):
AAACAGAGAGCAAAACA
Found at i:7862242 original size:40 final size:41
Alignment explanation
Indices: 7862182--7862276 Score: 156
Period size: 40 Copynumber: 2.3 Consensus size: 41
7862172 TGACAAAGAA
7862182 AGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGGG
1 AGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGGG
*
7862223 AGAAAGAAAA-AAACAGAGAGCAAAACAAAACAGAGAAGGA
1 AGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGGG
* *
7862263 AGGAAGGAAAGAAA
1 AGAAAGAAAAGAAA
7862277 GAAAGAAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 37 0.74
41 13 0.26
ACGTcount: A:0.65, C:0.08, G:0.26, T:0.00
Consensus pattern (41 bp):
AGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGGG
Found at i:7863044 original size:29 final size:30
Alignment explanation
Indices: 7862985--7863042 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
7862975 TCCGAGCCTT
*
7862985 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* * *
7863015 GGGGTAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
7863043 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.02, G:0.24, T:0.33
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:7863458 original size:50 final size:50
Alignment explanation
Indices: 7863367--7863608 Score: 261
Period size: 50 Copynumber: 4.7 Consensus size: 50
7863357 ATTTGGGTAA
* * * *
7863367 AGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATCGGCA-CC----GA-GATG
* * *
7863423 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATCGGCACCGAGATG
* *
7863473 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATCGGCACCGAGATG
* * * * *
7863523 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATCGGCACCGA-GATG
**
7863573 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
7863609 TTTGGCATGT
Statistics
Matches: 164, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.56
51 31 0.19
55 2 0.01
56 38 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATCGGCACCGAGATG
Found at i:7863554 original size:100 final size:103
Alignment explanation
Indices: 7863367--7863616 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
7863357 ATTTGGGTAA
*
7863367 AGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
7863432 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
7863473 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
7863535 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
7863573 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
7863617 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.39
101 39 0.30
105 2 0.02
106 39 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:7868222 original size:34 final size:34
Alignment explanation
Indices: 7868174--7868239 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
7868164 GTAAAGGTTA
7868174 GAAGCTGGTCGGAGTATCATCACACTATCCCTTG
1 GAAGCTGGTCGGAGTATCATCACACTATCCCTTG
*
7868208 GAAGTTGGTCGGAGTATCATCACACTATCCCT
1 GAAGCTGGTCGGAGTATCATCACACTATCCCT
7868240 CAGCTCATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (34 bp):
GAAGCTGGTCGGAGTATCATCACACTATCCCTTG
Found at i:7877595 original size:17 final size:17
Alignment explanation
Indices: 7877575--7877620 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 17
7877565 CTAAAATACT
7877575 TAAAAATTCATAATAA-A
1 TAAAAATTCATAA-AATA
*
7877592 TAAAACTT--TAAAATA
1 TAAAAATTCATAAAATA
7877607 TAAAAATTCATAAA
1 TAAAAATTCATAAA
7877621 TACAACAGCG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
14 2 0.08
15 11 0.46
17 11 0.46
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAAATTCATAAAATA
Found at i:7881786 original size:22 final size:20
Alignment explanation
Indices: 7881746--7881787 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
7881736 CTTCCTTCGT
*
7881746 AAAAACAATAATGAAAGAAG
1 AAAAACAATAAAGAAAGAAG
7881766 AAAAACAATCAAGAGAAAGAAG
1 AAAAACAAT-AA-AGAAAGAAG
7881788 TTACCATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.69, C:0.07, G:0.17, T:0.07
Consensus pattern (20 bp):
AAAAACAATAAAGAAAGAAG
Found at i:7889668 original size:20 final size:20
Alignment explanation
Indices: 7889631--7889670 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7889621 TCCTAAATTG
* *
7889631 CTTATTTATAAGATTATTAT
1 CTTATTTATAAAACTATTAT
7889651 CTTATTTATAAAACTATTAT
1 CTTATTTATAAAACTATTAT
7889671 TTTAATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (20 bp):
CTTATTTATAAAACTATTAT
Found at i:7889791 original size:16 final size:15
Alignment explanation
Indices: 7889778--7889807 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
7889768 GATTTTTATT
7889778 TTTTAAAGTTTTTAAA
1 TTTTAAA-TTTTTAAA
7889794 TTTTAAATTTTTAA
1 TTTTAAATTTTTAA
7889808 GAATTTAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (15 bp):
TTTTAAATTTTTAAA
Found at i:7890009 original size:24 final size:25
Alignment explanation
Indices: 7889977--7890023 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
7889967 GGAAGAGTAA
7889977 TTAAAATATTAA-ATTTTAATAACG
1 TTAAAATATTAATATTTTAATAACG
* *
7890001 TTAACATATTAATATTTTTATAA
1 TTAAAATATTAATATTTTAATAA
7890024 TTTACTCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (25 bp):
TTAAAATATTAATATTTTAATAACG
Found at i:7900006 original size:20 final size:21
Alignment explanation
Indices: 7899983--7900036 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
7899973 CATTTAAGCT
*
7899983 TTAAAATTTTAAATT-AATTA
1 TTAAAAATTTAAATTAAATTA
* **
7900003 TTAAAAACTTATGTTAAATTA
1 TTAAAAATTTAAATTAAATTA
7900024 TTAAAAATTTAAA
1 TTAAAAATTTAAA
7900037 AATGGTAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
TTAAAAATTTAAATTAAATTA
Found at i:7906772 original size:19 final size:21
Alignment explanation
Indices: 7906744--7906782 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
7906734 CGTATCAAAT
*
7906744 AAATACCTTTTTA-TTAATTA
1 AAATACCTTTGTAGTTAATTA
7906764 AAATA-CTTTGTAGTTAATT
1 AAATACCTTTGTAGTTAATT
7906783 TGTTAAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (21 bp):
AAATACCTTTGTAGTTAATTA
Found at i:7907115 original size:19 final size:19
Alignment explanation
Indices: 7907087--7907136 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
7907077 TATATAATTT
*
7907087 ATATTTTAAAAAA-TATTA
1 ATATTATAAAAAATTATTA
7907105 ATTATTATAAAAAATTATTA
1 A-TATTATAAAAAATTATTA
*
7907125 ATATGATAAAAA
1 ATATTATAAAAA
7907137 TAATTTCTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 1 0.04
19 21 0.75
20 6 0.21
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
ATATTATAAAAAATTATTA
Found at i:7908423 original size:21 final size:22
Alignment explanation
Indices: 7908399--7908441 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
7908389 AAAGTAATAA
7908399 ATTAAATATTA-TACTGTTATT
1 ATTAAATATTATTACTGTTATT
* *
7908420 ATTAATTATTATTGCTGTTATT
1 ATTAAATATTATTACTGTTATT
7908442 TGCTCATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.56
Consensus pattern (22 bp):
ATTAAATATTATTACTGTTATT
Found at i:7908500 original size:8 final size:8
Alignment explanation
Indices: 7908489--7908540 Score: 61
Period size: 8 Copynumber: 6.6 Consensus size: 8
7908479 ATGCATATAC
7908489 TTATATCT
1 TTATATCT
*
7908497 TTATATTT
1 TTATATCT
*
7908505 TTATATTT
1 TTATATCT
*
7908513 TTATA-AT
1 TTATATCT
7908520 TTATATCT
1 TTATATCT
*
7908528 ATATATCT
1 TTATATCT
7908536 TTATA
1 TTATA
7908541 CCTTCTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
7 6 0.16
8 32 0.84
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (8 bp):
TTATATCT
Found at i:7908532 original size:23 final size:23
Alignment explanation
Indices: 7908496--7908540 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
7908486 TACTTATATC
* * *
7908496 TTTATATTTTTATATTTTTATAA
1 TTTATATCTATATATCTTTATAA
7908519 TTTATATCTATATATCTTTATA
1 TTTATATCTATATATCTTTATA
7908541 CCTTCTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTATATCTATATATCTTTATAA
Found at i:7912123 original size:28 final size:29
Alignment explanation
Indices: 7912066--7912126 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
7912056 AAATCAGTTC
**
7912066 ATTTCCGTAAATTTTTTAAATTTTGATTT
1 ATTTCCGTAAATTTTTTAAATAATGATTT
* *
7912095 ATTTCCGTAATTTTTTTAAA-AATGCTTT
1 ATTTCCGTAAATTTTTTAAATAATGATTT
7912123 ATTT
1 ATTT
7912127 AGTTGTGTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 9 0.32
29 19 0.68
ACGTcount: A:0.28, C:0.08, G:0.07, T:0.57
Consensus pattern (29 bp):
ATTTCCGTAAATTTTTTAAATAATGATTT
Found at i:7934076 original size:19 final size:18
Alignment explanation
Indices: 7934052--7934091 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
7934042 TTAGACTAAT
7934052 TTTATAAAATTAAATTAAA
1 TTTATAAAATTAAA-TAAA
**
7934071 TTTATATTATTAAATAAA
1 TTTATAAAATTAAATAAA
7934089 TTT
1 TTT
7934092 TTTATTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTATAAAATTAAATAAA
Found at i:7934097 original size:19 final size:19
Alignment explanation
Indices: 7934060--7934100 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 19
7934050 ATTTTATAAA
7934060 ATTAAATTAAATTTATATT
1 ATTAAATTAAATTTATATT
7934079 ATTAAA-TAAATTT-T-TT
1 ATTAAATTAAATTTATATT
7934095 ATTAAA
1 ATTAAA
7934101 AAAAAACCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.36
17 1 0.05
18 7 0.32
19 6 0.27
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTAAATTAAATTTATATT
Found at i:7937193 original size:3 final size:3
Alignment explanation
Indices: 7937185--7937213 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7937175 AAGTAATACC
7937185 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
7937214 TTTTTATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:7942332 original size:41 final size:41
Alignment explanation
Indices: 7942275--7942478 Score: 336
Period size: 41 Copynumber: 5.0 Consensus size: 41
7942265 GCATATTCGG
* *
7942275 ATCACCGGTACTTAGCCTGCTAGGTTTATAACCTGATTAAT
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
* * *
7942316 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
7942357 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
* * *
7942398 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
7942439 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCA
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCA
7942479 ATTCACCAAT
Statistics
Matches: 150, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 150 1.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (41 bp):
ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
Found at i:7942374 original size:82 final size:82
Alignment explanation
Indices: 7942269--7942485 Score: 391
Period size: 82 Copynumber: 2.6 Consensus size: 82
7942259 AATTTAGCAT
* *
7942269 ATTCGGATCACCGGTACTTAGCCTGCTAGGTTTATAACCTGATTAATATCACCGGCACTTAGCCT
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTAATATCACCGGCACTTAGCCT
7942334 GCTAGGCTTATAGCCTG
66 GCTAGGCTTATAGCCTG
*
7942351 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCATATCACCGGCACTTAGCCT
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTAATATCACCGGCACTTAGCCT
7942416 GCTAGGCTTATAGCCTG
66 GCTAGGCTTATAGCCTG
7942433 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAAT-TCACC
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT-AATATCACC
7942486 AATTCCAAAC
Statistics
Matches: 130, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
82 128 0.98
83 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (82 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTAATATCACCGGCACTTAGCCT
GCTAGGCTTATAGCCTG
Found at i:7944726 original size:15 final size:16
Alignment explanation
Indices: 7944706--7944743 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
7944696 TCACCGATCC
7944706 ACCTCCACT-GTCAAG
1 ACCTCCACTCGTCAAG
7944721 ACCTCCA-TCGTCAAG
1 ACCTCCACTCGTCAAG
7944736 ACCTCCAC
1 ACCTCCAC
7944744 CGATCTACCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.05
15 20 0.95
ACGTcount: A:0.26, C:0.45, G:0.11, T:0.18
Consensus pattern (16 bp):
ACCTCCACTCGTCAAG
Found at i:7945637 original size:11 final size:11
Alignment explanation
Indices: 7945621--7945646 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7945611 TAGAAGAGAC
7945621 GAAACAGGGGA
1 GAAACAGGGGA
7945632 GAAACAGGGGA
1 GAAACAGGGGA
7945643 GAAA
1 GAAA
7945647 GAAGAAAAAG
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:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:7946330 original size:18 final size:18
Alignment explanation
Indices: 7946307--7946361 Score: 83
Period size: 18 Copynumber: 3.1 Consensus size: 18
7946297 ATGTGAGGTA
*
7946307 AGTATTAATATTAGTATT
1 AGTATTATTATTAGTATT
7946325 AGTATTATTATTAGTATT
1 AGTATTATTATTAGTATT
* *
7946343 ATTATTATTATTATTATT
1 AGTATTATTATTAGTATT
7946361 A
1 A
7946362 TGAGTGGGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.56
Consensus pattern (18 bp):
AGTATTATTATTAGTATT
Found at i:7946335 original size:3 final size:3
Alignment explanation
Indices: 7946309--7946362 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
7946299 GTGAGGTAAG
* * * *
7946309 TAT TAA TAT TAG TAT TAG TAT TAT TAT TAG TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7946357 TAT TAT
1 TAT TAT
7946363 GAGTGGGAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:7946559 original size:24 final size:24
Alignment explanation
Indices: 7946505--7946576 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 24
7946495 TGTGTGAAGT
*
7946505 TGTGAAATAATTATTG-ATTG-AAA
1 TGTGAAA-AATGATTGAATTGAAAA
*
7946528 GGTGGAAAAATGATTGAATTGAAAA
1 TGT-GAAAAATGATTGAATTGAAAA
7946553 TGTGAAAAATTGTAATTGAATTGA
1 TGTGAAAAA-TG--ATTGAATTGA
7946577 GAATATATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 9 0.22
24 14 0.35
25 7 0.17
27 10 0.25
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (24 bp):
TGTGAAAAATGATTGAATTGAAAA
Found at i:7946779 original size:37 final size:39
Alignment explanation
Indices: 7946720--7946815 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
7946710 CGGATAGATT
* * * *
7946720 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
7946757 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
7946796 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
7946816 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:7948273 original size:24 final size:24
Alignment explanation
Indices: 7948245--7948290 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
7948235 AAGATTAAAA
*
7948245 GTTGTGCATTATTATCCATAAAGT
1 GTTGTGCATTATTAACCATAAAGT
7948269 GTTGTGCATTATTAACCATAAA
1 GTTGTGCATTATTAACCATAAA
7948291 TTTAGATGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (24 bp):
GTTGTGCATTATTAACCATAAAGT
Found at i:7948578 original size:9 final size:9
Alignment explanation
Indices: 7948564--7948599 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
7948554 ATTTTGTTAC
7948564 TACAATTAA
1 TACAATTAA
7948573 TACAATT-A
1 TACAATTAA
7948581 -ACAATTAA
1 TACAATTAA
7948589 TACAATTAA
1 TACAATTAA
7948598 TA
1 TA
7948600 ATTTGATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 6 0.24
8 2 0.08
9 17 0.68
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (9 bp):
TACAATTAA
Found at i:7948586 original size:16 final size:16
Alignment explanation
Indices: 7948565--7948602 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
7948555 TTTTGTTACT
7948565 ACAATTAATACAATTA
1 ACAATTAATACAATTA
7948581 ACAATTAATACAATTA
1 ACAATTAATACAATTA
*
7948597 ATAATT
1 ACAATT
7948603 TGATAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (16 bp):
ACAATTAATACAATTA
Found at i:7948661 original size:75 final size:74
Alignment explanation
Indices: 7948538--7948677 Score: 246
Period size: 75 Copynumber: 1.9 Consensus size: 74
7948528 AAAAATGTAA
*
7948538 ACTAATCAAATGTTAGATTTTGTTACTACAATTAATACAATTAACAATTAATACAA-TTAATAAT
1 ACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAACAATTAA-A-AATTTAATAAT
7948602 TTGATAATTTT
64 TTGATAATTTT
7948613 ACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAACAATTAAAAATTTAATAATTT
1 ACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAACAATTAAAAATTTAATAATTT
7948678 TACTAACAAT
Statistics
Matches: 63, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
73 2 0.03
74 11 0.17
75 50 0.79
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (74 bp):
ACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAACAATTAAAAATTTAATAATTT
GATAATTTT
Found at i:7952353 original size:50 final size:50
Alignment explanation
Indices: 7952229--7952477 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
7952219 GATAATAACA
* * ** * *
7952229 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
7952280 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
7952330 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
7952380 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
7952435 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
7952478 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:7952407 original size:100 final size:104
Alignment explanation
Indices: 7952228--7952477 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
7952218 TGATAATAAC
**
7952228 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
7952293 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
7952330 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
7952393 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
7952435 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
7952478 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:7953604 original size:17 final size:18
Alignment explanation
Indices: 7953582--7953649 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 18
7953572 CTTCCTTCCT
7953582 TCTCTGTTTCT-TTTTGC
1 TCTCTGTTTCTCTTTTGC
*
7953599 TCTCTGTTTCTTTCTTTCTCCC
1 TCTCTGTTTC--TCTTT-T-GC
*
7953621 TTCTCTGTTT-TGTTTTGC
1 -TCTCTGTTTCTCTTTTGC
7953639 TCTCTGTTTCT
1 TCTCTGTTTCT
7953650 TTTCTTTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
17 19 0.46
18 2 0.05
19 2 0.05
20 7 0.17
21 1 0.02
22 1 0.02
23 9 0.22
ACGTcount: A:0.00, C:0.26, G:0.10, T:0.63
Consensus pattern (18 bp):
TCTCTGTTTCTCTTTTGC
Found at i:7953614 original size:21 final size:21
Alignment explanation
Indices: 7953588--7953656 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
7953578 TCCTTCTCTG
7953588 TTTCTTTTTGCTCTCTGTTTC
1 TTTCTTTTTGCTCTCTGTTTC
**
7953609 TTTCTTTCTCCCTTCTCTG--T-
1 TTTCTTT-TTGC-TCTCTGTTTC
*
7953629 TTT-GTTTTGCTCTCTGTTTC
1 TTTCTTTTTGCTCTCTGTTTC
7953649 TTTTCTTT
1 -TTTCTTT
7953657 CTTTCTTTGT
Statistics
Matches: 35, Mismatches: 6, Indels: 13
0.65 0.11 0.24
Matches are distributed among these distances:
17 6 0.17
18 2 0.06
19 3 0.09
20 3 0.09
21 11 0.31
22 4 0.11
23 6 0.17
ACGTcount: A:0.00, C:0.25, G:0.09, T:0.67
Consensus pattern (21 bp):
TTTCTTTTTGCTCTCTGTTTC
Found at i:7953626 original size:40 final size:40
Alignment explanation
Indices: 7953564--7953658 Score: 138
Period size: 40 Copynumber: 2.3 Consensus size: 40
7953554 CTTTTCTTTC
* *
7953564 TTTCTTTCCTTCCTTCCTTCTCTGTTTCT-TTTTGCTCTCTG
1 TTTCTTT-CTTTCTCCCTTCTCTGTTT-TGTTTTGCTCTCTG
7953605 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
7953645 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
7953659 TTCTTTGTCA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
39 1 0.02
40 33 0.66
41 16 0.32
ACGTcount: A:0.00, C:0.28, G:0.07, T:0.64
Consensus pattern (40 bp):
TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
Found at i:7953684 original size:3 final size:3
Alignment explanation
Indices: 7953676--7953750 Score: 65
Period size: 3 Copynumber: 26.7 Consensus size: 3
7953666 TCATATATAT
7953676 ATA ATA ATA AT- ATA AT- ATA AT- ATA AT- ATA AT- ATA ATA TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* *
7953717 TATA ATA TTA ATA ATA AT- ATA AT- ATA AAA ATA AT
1 -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
7953751 TATTACTTAC
Statistics
Matches: 60, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
2 14 0.23
3 39 0.65
4 7 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:7953692 original size:5 final size:5
Alignment explanation
Indices: 7953668--7953743 Score: 107
Period size: 5 Copynumber: 14.2 Consensus size: 5
7953658 TTTCTTTGTC
7953668 ATATA TATATA ATAATA ATATA ATATA ATATA ATATA ATATA ATATA TATATA
1 ATATA -ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA ATATA -ATATA
7953721 ATATTA ATAATA ATATA ATATA A
1 ATA-TA AT-ATA ATATA ATATA A
7953744 AAATAATTAT
Statistics
Matches: 66, Mismatches: 0, Indels: 9
0.88 0.00 0.12
Matches are distributed among these distances:
5 42 0.64
6 23 0.35
7 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:7953710 original size:28 final size:28
Alignment explanation
Indices: 7953670--7953740 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 28
7953660 TCTTTGTCAT
7953670 ATATATATAATAATAATATAATATAATA-TA
1 ATATA-AT-ATAATAATAT-ATATAATATTA
7953700 ATATAATATAAT-ATATATATAATATTA
1 ATATAATATAATAATATATATAATATTA
7953727 ATAATAATATAATA
1 AT-ATAATATAATA
7953741 TAAAAATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
26 8 0.21
27 8 0.21
28 15 0.39
29 2 0.05
30 5 0.13
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
ATATAATATAATAATATATATAATATTA
Found at i:7953777 original size:48 final size:47
Alignment explanation
Indices: 7953667--7953777 Score: 118
Period size: 48 Copynumber: 2.3 Consensus size: 47
7953657 CTTTCTTTGT
* *
7953667 CATATAT-ATATAATAATAATATAATATAATATAATATAATATAATA
1 CATATATAATATAATAATAATATAATATAAAATAATATAATATAACA
* * * *
7953713 TATATATAATATTAATAATAATATAATATAAAAATAAT-TATTACTTACG
1 CATATATAATA-TAATAATAATATAATAT-AAAATAATATAATA-TAACA
*
7953762 CATGTATAATATAATA
1 CATATATAATATAATA
7953778 TATATTTTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
46 6 0.11
47 3 0.06
48 26 0.49
49 18 0.34
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (47 bp):
CATATATAATATAATAATAATATAATATAAAATAATATAATATAACA
Found at i:7954950 original size:9 final size:9
Alignment explanation
Indices: 7954938--7954996 Score: 75
Period size: 9 Copynumber: 6.4 Consensus size: 9
7954928 AAATAAAAAA
7954938 AATTCGGGT
1 AATTCGGGT
7954947 AATTCGGGT
1 AATTCGGGT
*
7954956 ATTTTTC-GGT
1 A--ATTCGGGT
*
7954966 AATTCGGTT
1 AATTCGGGT
7954975 AATTCGGGT
1 AATTCGGGT
7954984 AATTCGGGT
1 AATTCGGGT
7954993 AATT
1 AATT
7954997 TTTAACCAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
8 3 0.07
9 33 0.77
10 4 0.09
11 3 0.07
ACGTcount: A:0.22, C:0.10, G:0.27, T:0.41
Consensus pattern (9 bp):
AATTCGGGT
Found at i:7958756 original size:18 final size:18
Alignment explanation
Indices: 7958720--7958756 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
7958710 AATTTTTTGT
* *
7958720 AAAAAATATTATAATTTA
1 AAAAAATATTAAAAATTA
7958738 AAAAAATATTAAAAATTA
1 AAAAAATATTAAAAATTA
7958756 A
1 A
7958757 TTAATTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAAATATTAAAAATTA
Found at i:7964988 original size:218 final size:218
Alignment explanation
Indices: 7964610--7965048 Score: 842
Period size: 218 Copynumber: 2.0 Consensus size: 218
7964600 TTAGACCAGA
*
7964610 TTAACAAGTCAAGGGTTCAGGATTTAAGATTTGGGTTTAAAAATCAGTGTATGATACACAATGAT
1 TTAACAAGTCAAGAGTTCAGGATTTAAGATTTGGGTTTAAAAATCAGTGTATGATACACAATGAT
*
7964675 AATGCTATGTCGTATGCCTACCACCTGGAGTGGGACGCATTTTGGTCTTAATCTAACTTTATTGT
66 AATGCTATGTCGTATGCCTACCACCTGGAGTGGGACGCATTTTGGTCTTAATCTAACTTTATTGG
7964740 AGGTTTACCATGGTTGTGTGGCATGCTGCTTCCTGGTCTGGGCATATCTTTCAAAATTTTCAATT
131 AGGTTTACCATGGTTGTGTGGCATGCTGCTTCCTGGTCTGGGCATATCTTTCAAAATTTTCAATT
7964805 TGTTTTCTTATGAAATAATGTTC
196 TGTTTTCTTATGAAATAATGTTC
7964828 TTAACAAGTCAAGAGTTCAGGATTTAAGATTTGGGTTTAAAAATCAGTGTATGATACACAATGAT
1 TTAACAAGTCAAGAGTTCAGGATTTAAGATTTGGGTTTAAAAATCAGTGTATGATACACAATGAT
*
7964893 AATGCTATGTCGTATGCCTACCACCTGGAGTGGGTCGCATTTTGGTCTTAATCTAACTTTATTGG
66 AATGCTATGTCGTATGCCTACCACCTGGAGTGGGACGCATTTTGGTCTTAATCTAACTTTATTGG
7964958 AGGTTTACCATGGTTGTGTGGCATGCTGCTTCCTGGTCTGGGCATATCTTTCAAAATTTTCAATT
131 AGGTTTACCATGGTTGTGTGGCATGCTGCTTCCTGGTCTGGGCATATCTTTCAAAATTTTCAATT
*
7965023 TGTTTTCTTATGGAATAATGTTC
196 TGTTTTCTTATGAAATAATGTTC
7965046 TTA
1 TTA
7965049 TTAAGTATTA
Statistics
Matches: 217, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
218 217 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (218 bp):
TTAACAAGTCAAGAGTTCAGGATTTAAGATTTGGGTTTAAAAATCAGTGTATGATACACAATGAT
AATGCTATGTCGTATGCCTACCACCTGGAGTGGGACGCATTTTGGTCTTAATCTAACTTTATTGG
AGGTTTACCATGGTTGTGTGGCATGCTGCTTCCTGGTCTGGGCATATCTTTCAAAATTTTCAATT
TGTTTTCTTATGAAATAATGTTC
Found at i:7972724 original size:33 final size:33
Alignment explanation
Indices: 7972676--7972740 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
7972666 ATAGGATTAC
7972676 CAGCCATTCTGTTAACATGTTCAAAGTAACTAT
1 CAGCCATTCTGTTAACATGTTCAAAGTAACTAT
* * *
7972709 CAGCCATTTCT-TTAACATTTTCCAGGTAACTA
1 CAGCCA-TTCTGTTAACATGTTCAAAGTAACTA
7972741 AAACTAATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 24 0.86
34 4 0.14
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (33 bp):
CAGCCATTCTGTTAACATGTTCAAAGTAACTAT
Found at i:7976172 original size:26 final size:26
Alignment explanation
Indices: 7976105--7976172 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
7976095 ATTTTAAACC
*
7976105 AAAC-TTTTT-AAAAGTACTTCTCAA
1 AAACATTTTTCAAAAGCACTTCTCAA
* * *
7976129 AAGCATTTTTCTACAGCACTTCTCAA
1 AAACATTTTTCAAAAGCACTTCTCAA
*
7976155 AAATATTTTTCAAAAGCA
1 AAACATTTTTCAAAAGCA
7976173 ATTAAAAACT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
24 3 0.09
25 5 0.15
26 26 0.76
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.35
Consensus pattern (26 bp):
AAACATTTTTCAAAAGCACTTCTCAA
Found at i:7979778 original size:3 final size:3
Alignment explanation
Indices: 7979770--7979797 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
7979760 CCATTTCACT
7979770 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
7979798 CTCTATCTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:7981474 original size:22 final size:20
Alignment explanation
Indices: 7981427--7981478 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
7981417 TTCGACATCC
7981427 TTAAATT-ATAAATATTTTT
1 TTAAATTGATAAATATTTTT
*
7981446 TTCAAATTGATATATAATTTATT
1 TT-AAATTGATAAAT-ATTT-TT
7981469 TTAAATTGAT
1 TTAAATTGAT
7981479 TCCTTAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.07
20 5 0.18
21 5 0.18
22 12 0.43
23 4 0.14
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (20 bp):
TTAAATTGATAAATATTTTT
Found at i:7989937 original size:3 final size:3
Alignment explanation
Indices: 7989929--7989970 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
7989919 GTTTTACAGG
7989929 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
7989971 CTAAATAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:7999888 original size:43 final size:43
Alignment explanation
Indices: 7999807--7999889 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
7999797 ATTATTTTTG
**
7999807 AAATTTTTTAGTGCCGTCACTTCACATGGTGTGGCCAAAATTT
1 AAATTTTTTAGTGCCGTCACTTCACATGGTGTCACCAAAATTT
**
7999850 AAATTTTTTAGT-CTCGTCACTTCATGTGGTGTCACCAAAA
1 AAATTTTTTAGTGC-CGTCACTTCACATGGTGTCACCAAAA
7999890 ATAGTAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 1 0.03
43 34 0.97
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (43 bp):
AAATTTTTTAGTGCCGTCACTTCACATGGTGTCACCAAAATTT
Found at i:8001099 original size:2 final size:2
Alignment explanation
Indices: 8001092--8001116 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8001082 TGTGGAACTT
8001092 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8001117 GTAGTTTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8038042 original size:21 final size:21
Alignment explanation
Indices: 8038016--8038056 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8038006 AGACGAGCAA
* *
8038016 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
8038037 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
8038057 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:8043502 original size:49 final size:50
Alignment explanation
Indices: 8043359--8043525 Score: 183
Period size: 50 Copynumber: 3.4 Consensus size: 50
8043349 AAGGGAATTC
** * *
8043359 CTCGTCACATCGTGACATACTGTTTTGGCCTCGTCAAGACGATGGAGTCT
1 CTCGTCATGTCGTGACATACTATTTTGGCCTCGTCAAGACGACGGAGTCT
* * * *
8043409 CTCGTCGTGCCGAGACATACTATTTTGGCCTCGTCGAGACGACGGAGTC-
1 CTCGTCATGTCGTGACATACTATTTTGGCCTCGTCAAGACGACGGAGTCT
* * * * *
8043458 CTCTTCATGTCGTGGCATACTATTTTGGCCTTGTCAAGATGACGGTGTCT
1 CTCGTCATGTCGTGACATACTATTTTGGCCTCGTCAAGACGACGGAGTCT
* * *
8043508 TTCGTCACGCCGTGACAT
1 CTCGTCATGTCGTGACAT
8043526 TATAAGTCAT
Statistics
Matches: 94, Mismatches: 22, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
49 40 0.43
50 54 0.57
ACGTcount: A:0.18, C:0.26, G:0.25, T:0.31
Consensus pattern (50 bp):
CTCGTCATGTCGTGACATACTATTTTGGCCTCGTCAAGACGACGGAGTCT
Found at i:8044138 original size:3 final size:3
Alignment explanation
Indices: 8044132--8044178 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
8044122 TATGGTCTTA
* *
8044132 TAT TAT TAA TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
8044179 AATAAAGTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:8045194 original size:31 final size:26
Alignment explanation
Indices: 8045133--8045198 Score: 123
Period size: 26 Copynumber: 2.5 Consensus size: 26
8045123 TGAAGTTTTC
8045133 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAGTCGAGTGAGATGGAAT
8045159 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAGTCGAGTGAGATGGAAT
*
8045185 TCGAATCGAATCGA
1 TCGAATCGAGTCGA
8045199 ATCAAATCTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.32, C:0.14, G:0.32, T:0.23
Consensus pattern (26 bp):
TCGAATCGAGTCGAGTGAGATGGAAT
Found at i:8052821 original size:20 final size:21
Alignment explanation
Indices: 8052781--8052828 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
8052771 TACAATTTCT
8052781 CTTAAGAATTTTACCCAAAAC
1 CTTAAGAATTTTACCCAAAAC
*
8052802 CTTAAGATTTTTACCC-AAAC
1 CTTAAGAATTTTACCCAAAAC
8052822 CTTAAGA
1 CTTAAGA
8052829 CTCAATCCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.31
Consensus pattern (21 bp):
CTTAAGAATTTTACCCAAAAC
Found at i:8053243 original size:21 final size:20
Alignment explanation
Indices: 8053200--8053255 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 20
8053190 AAACACAATT
**
8053200 TATCGATACTTGGTAAAAGG
1 TATCGATACTTTTTAAAAGG
*
8053220 TATCGATACTTTTTGAAAATG
1 TATCGATACTTTTT-AAAAGG
*
8053241 TATCAATACTTTTTA
1 TATCGATACTTTTTA
8053256 TAATTAATTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 13 0.42
21 18 0.58
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (20 bp):
TATCGATACTTTTTAAAAGG
Found at i:8054180 original size:69 final size:69
Alignment explanation
Indices: 8054094--8054230 Score: 265
Period size: 69 Copynumber: 2.0 Consensus size: 69
8054084 TGTCCGAACA
8054094 ATTAATAGGGTAATAACTATTTAAATTTCCAAATATAGTCAATTCATAAGCTTAACTTGAAGGTT
1 ATTAATAGGGTAATAACTATTTAAATTTCCAAATATAGTCAATTCATAAGCTTAACTTGAAGGTT
8054159 AATC
66 AATC
*
8054163 ATTAATAGGGTGATAACTATTTAAATTTCCAAATATAGTCAATTCATAAGCTTAACTTGAAGGTT
1 ATTAATAGGGTAATAACTATTTAAATTTCCAAATATAGTCAATTCATAAGCTTAACTTGAAGGTT
8054228 AAT
66 AAT
8054231 TATATCCGAC
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.36
Consensus pattern (69 bp):
ATTAATAGGGTAATAACTATTTAAATTTCCAAATATAGTCAATTCATAAGCTTAACTTGAAGGTT
AATC
Found at i:8054942 original size:36 final size:36
Alignment explanation
Indices: 8054885--8054971 Score: 151
Period size: 36 Copynumber: 2.5 Consensus size: 36
8054875 TTATGTGATA
*
8054885 TTTTCTATTAAA-AAT-TCATTAATAATCATTAAGG
1 TTTTATATTAAATAATATCATTAATAATCATTAAGG
8054919 TTTTATATTAAATAATATCATTAATAATCATTAAGG
1 TTTTATATTAAATAATATCATTAATAATCATTAAGG
8054955 TTTTATATTAAATAATA
1 TTTTATATTAAATAATA
8054972 AATTATATTT
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
34 11 0.22
35 3 0.06
36 36 0.72
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.46
Consensus pattern (36 bp):
TTTTATATTAAATAATATCATTAATAATCATTAAGG
Found at i:8055659 original size:22 final size:24
Alignment explanation
Indices: 8055631--8055674 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
8055621 TATGGCAAGA
8055631 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGCTAGAAAAGTAAGTATG
8055653 AATTAAGCTAGAAAAGTAAGTA
1 AATTAAGCTAGAAAAGTAAGTA
8055675 AGCTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.02, G:0.20, T:0.23
Consensus pattern (24 bp):
AATTAAGCTAGAAAAGTAAGTATG
Found at i:8055942 original size:24 final size:23
Alignment explanation
Indices: 8055915--8055961 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
8055905 TAATCATGGG
8055915 ACATTT-AAAGTAAGGTAAGTAATA
1 ACATTTGAAAGTAA-GTAAG-AATA
*
8055939 ACATTTGAAATTAAGTAAGAATA
1 ACATTTGAAAGTAAGTAAGAATA
8055962 TGTGTGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 11 0.52
25 6 0.29
ACGTcount: A:0.51, C:0.04, G:0.15, T:0.30
Consensus pattern (23 bp):
ACATTTGAAAGTAAGTAAGAATA
Found at i:8056267 original size:27 final size:26
Alignment explanation
Indices: 8056209--8056267 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
8056199 ATCTAATGCC
**
8056209 TTATTGGTGTGTTTGGGAGGATATAA
1 TTATTGGTGTGTTAAGGAGGATATAA
* *
8056235 TATATTGGTGTGTTAATGAGGATTTATA
1 T-TATTGGTGTGTTAAGGAGGATATA-A
8056263 TTATT
1 TTATT
8056268 CCGGGTGTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.04
27 24 0.89
28 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.47
Consensus pattern (26 bp):
TTATTGGTGTGTTAAGGAGGATATAA
Found at i:8059586 original size:19 final size:20
Alignment explanation
Indices: 8059553--8059593 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
8059543 TAAAAATCAT
*
8059553 TAAAATTATTTAAAAAAATA
1 TAAAATTATTAAAAAAAATA
8059573 TAAAATTA-TAAAAAAAATA
1 TAAAATTATTAAAAAAAATA
8059592 TA
1 TA
8059594 TATTTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAATTATTAAAAAAAATA
Found at i:8081729 original size:3 final size:3
Alignment explanation
Indices: 8081721--8081776 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
8081711 AAACGATAAA
8081721 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
8081769 AAG AAG AA
1 AAG AAG AA
8081777 AACTAAAAAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:8082892 original size:20 final size:18
Alignment explanation
Indices: 8082863--8082903 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
8082853 TTTTTTCAAC
8082863 TTTAAGGAAAAACCTAGTT
1 TTTAAGG-AAAACCTAGTT
8082882 TTTAGAGGAAAACCTAGTT
1 TTTA-AGGAAAACCTAGTT
8082901 TTT
1 TTT
8082904 TTACAAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (18 bp):
TTTAAGGAAAACCTAGTT
Found at i:8087745 original size:13 final size:13
Alignment explanation
Indices: 8087727--8087754 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8087717 TAGATCCCTT
8087727 TTCGGAATCAATA
1 TTCGGAATCAATA
8087740 TTCGGAATCAATA
1 TTCGGAATCAATA
8087753 TT
1 TT
8087755 GTAACAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (13 bp):
TTCGGAATCAATA
Found at i:8089823 original size:40 final size:40
Alignment explanation
Indices: 8089768--8089847 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
8089758 GAAAAAAATC
*
8089768 TTTTTTTTTCTTTCCAATAATTTACTCAAATAAATGAATG
1 TTTTTTTTTCTTTCCAATAATTTACTCAAACAAATGAATG
8089808 TTTTTTTTTCTTTCCAATAATTTACTCAAACAAATGAATG
1 TTTTTTTTTCTTTCCAATAATTTACTCAAACAAATGAATG
8089848 GTTCAACATA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.49
Consensus pattern (40 bp):
TTTTTTTTTCTTTCCAATAATTTACTCAAACAAATGAATG
Found at i:8093500 original size:3 final size:3
Alignment explanation
Indices: 8093492--8093556 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
8093482 GGTTGTTTCT
8093492 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
8093540 TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TT
8093557 TGCTGTGTTC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:8103652 original size:41 final size:40
Alignment explanation
Indices: 8103602--8103697 Score: 122
Period size: 41 Copynumber: 2.4 Consensus size: 40
8103592 CGGTTTAACT
* *
8103602 GATGAGACATTGGGTGTCAATTTACTT-TTTCGGATTTATTC
1 GATGAGACATTGGGTGTCAATTTA-TTACTTC-GAATTATTC
**
8103643 GATGAGACATTCAGTGTCAATTTATTACTTCGAATTATTC
1 GATGAGACATTGGGTGTCAATTTATTACTTCGAATTATTC
*
8103683 GATGAGGCATTGGGT
1 GATGAGACATTGGGT
8103698 ACCAAACTGG
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
40 22 0.47
41 25 0.53
ACGTcount: A:0.25, C:0.12, G:0.23, T:0.40
Consensus pattern (40 bp):
GATGAGACATTGGGTGTCAATTTATTACTTCGAATTATTC
Found at i:8110447 original size:40 final size:40
Alignment explanation
Indices: 8110401--8110480 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
8110391 CTATTTCAAA
* *
8110401 TTCACTTTTGATTCAAT-CACAATTCA-ATTCAATTTCACTT
1 TTCACTTTTCAATCAATACACAATTCAGA-T-AATTTCACTT
8110441 TTCACTTTTCAATCAATACACAATTCAGATAATTTCACTT
1 TTCACTTTTCAATCAATACACAATTCAGATAATTTCACTT
8110481 CGATTCAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
40 25 0.69
41 10 0.28
42 1 0.03
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.42
Consensus pattern (40 bp):
TTCACTTTTCAATCAATACACAATTCAGATAATTTCACTT
Found at i:8111244 original size:12 final size:12
Alignment explanation
Indices: 8111229--8111259 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
8111219 TTCTCTTTTA
8111229 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
8111241 TTTTTCTTTCGC
1 TTTTTCTTTCCC
8111253 TTTTTCT
1 TTTTTCT
8111260 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:8114782 original size:42 final size:43
Alignment explanation
Indices: 8114701--8114782 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
8114691 AATACATACG
***
8114701 GTGGAGAGTTTCCTACATCAAAGGGTCATATATGTATAACCTT
1 GTGGAGAGTTTCCTACATCAAAGGGTCATATACCAATAACCTT
* *
8114744 GTGGAGAGTTTCCTACATC-AAGGGTCATTTCCCAATAAC
1 GTGGAGAGTTTCCTACATCAAAGGGTCATATACCAATAAC
8114783 ATAAGCAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
42 15 0.44
43 19 0.56
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (43 bp):
GTGGAGAGTTTCCTACATCAAAGGGTCATATACCAATAACCTT
Found at i:8129985 original size:20 final size:20
Alignment explanation
Indices: 8129960--8129999 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
8129950 AGCCTATGTG
8129960 AAAGTTTCTGATACTAATAT
1 AAAGTTTCTGATACTAATAT
8129980 AAAGTTTCTGATACTAATAT
1 AAAGTTTCTGATACTAATAT
8130000 GCCCATTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (20 bp):
AAAGTTTCTGATACTAATAT
Found at i:8133107 original size:21 final size:21
Alignment explanation
Indices: 8133081--8133121 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
8133071 AATATGATTT
8133081 TAATATTTTATG-ATTATAATG
1 TAATATTTTA-GCATTATAATG
8133102 TAATATTTTAGCATTATAAT
1 TAATATTTTAGCATTATAAT
8133122 TTTTTATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (21 bp):
TAATATTTTAGCATTATAATG
Found at i:8133156 original size:12 final size:12
Alignment explanation
Indices: 8133139--8133164 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8133129 AAATTAAAAA
8133139 GAAGAAGAAGAC
1 GAAGAAGAAGAC
8133151 GAAGAAGAAGAC
1 GAAGAAGAAGAC
8133163 GA
1 GA
8133165 GGAGGATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.08, G:0.35, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAGAC
Found at i:8139333 original size:27 final size:27
Alignment explanation
Indices: 8139280--8139333 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
8139270 TTTGGATAAT
**
8139280 AATATATATCTTATCTTTTCTGATTAA
1 AATATATATCTTATCTTTTAGGATTAA
*
8139307 AATATATAT-TATATCTTTTAGGTTTAA
1 AATATATATCT-TATCTTTTAGGATTAA
8139334 CATGAATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.35, C:0.07, G:0.06, T:0.52
Consensus pattern (27 bp):
AATATATATCTTATCTTTTAGGATTAA
Found at i:8143905 original size:24 final size:25
Alignment explanation
Indices: 8143872--8143920 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
8143862 TAATTTATAT
8143872 ATAATATAT-A-ATTTTTTTAGGTC
1 ATAATATATAATATTTTTTTAGGTC
8143895 ATAATCATATAATATTTTTTTAGGTC
1 ATAAT-ATATAATATTTTTTTAGGTC
8143921 GAAATTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.22
24 4 0.17
25 1 0.04
26 13 0.57
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.51
Consensus pattern (25 bp):
ATAATATATAATATTTTTTTAGGTC
Found at i:8144070 original size:18 final size:18
Alignment explanation
Indices: 8144014--8144070 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
8144004 ATTAAGAAAC
8144014 TAAAAATTAGACTATAAA
1 TAAAAATTAGACTATAAA
* * *
8144032 TATATATT-GAC-A-AAT
1 TAAAAATTAGACTATAAA
8144047 TAAAAATTAGACTATAAA
1 TAAAAATTAGACTATAAA
8144065 TAAAAA
1 TAAAAA
8144071 CTTGTAACTA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
15 8 0.27
16 4 0.13
17 4 0.13
18 14 0.47
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (18 bp):
TAAAAATTAGACTATAAA
Found at i:8144577 original size:16 final size:17
Alignment explanation
Indices: 8144551--8144597 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
8144541 TTCATGGTAT
8144551 ATTTT-TAATTTA-AAA
1 ATTTTATAATTTATAAA
*
8144566 TTTTTATAATTTATAAA
1 ATTTTATAATTTATAAA
*
8144583 ATTTTA-AATTAATAA
1 ATTTTATAATTTATAA
8144598 CGATAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 4 0.15
16 15 0.56
17 8 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTTATAATTTATAAA
Found at i:8145372 original size:19 final size:19
Alignment explanation
Indices: 8145340--8145405 Score: 53
Period size: 21 Copynumber: 3.3 Consensus size: 19
8145330 TTAATTTTAA
8145340 TTTTTCAATATTATTTAATAT
1 TTTTTC-AT-TTATTTAATAT
*
8145361 TTTTTCATTTATGTAAT-T
1 TTTTTCATTTATTTAATAT
* *
8145379 TTAATTCATTTTTATTTTATAT
1 TT-TTTCA--TTTATTTAATAT
8145401 TTTTT
1 TTTTT
8145406 TATAACAGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 3 0.08
19 12 0.33
20 2 0.06
21 16 0.44
22 3 0.08
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTTCATTTATTTAATAT
Found at i:8147461 original size:92 final size:92
Alignment explanation
Indices: 8147309--8147496 Score: 331
Period size: 92 Copynumber: 2.0 Consensus size: 92
8147299 ACATTGATTT
* * *
8147309 TTTTAAATATATTTGTACGAAGTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTATTTTTA
1 TTTTAAAAATATTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTATTTTTA
8147374 ATATTTTAATAGTAATTTATTTTTACA
66 ATATTTTAATAGTAATTTATTTTTACA
*
8147401 TTTTAAAAATATTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATAAAATTTATTTTTA
1 TTTTAAAAATATTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTATTTTTA
*
8147466 ATATTTTAATAGTAATTTATTTTTATA
66 ATATTTTAATAGTAATTTATTTTTACA
8147493 TTTT
1 TTTT
8147497 TAATAAAATA
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (92 bp):
TTTTAAAAATATTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTATTTTTA
ATATTTTAATAGTAATTTATTTTTACA
Found at i:8147462 original size:48 final size:47
Alignment explanation
Indices: 8147313--8147462 Score: 116
Period size: 48 Copynumber: 3.2 Consensus size: 47
8147303 TGATTTTTTT
*
8147313 AAATATATTTGTACGAAGTATTTTTATATTGTTTCATTTAATAAAATA
1 AAATATATTTGTAC-AAATATTTTTATATTGTTTCATTTAATAAAATA
* * ** * **
8147361 AAAGT-TATTT-T--TAATATTTTAATAGTAATTT-ATTT-TTACATTTTA
1 AAA-TATATTTGTACAAATATTTTTATA-TTGTTTCATTTAATA-A-AATA
8147406 AAA-ATATTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATA
1 AAATATATTTGTACAAA-TATTTTTATATTGTTTCATTTAATAAAATA
*
8147453 AAATTTATTT
1 AAATATATTT
8147463 TTAATATTTT
Statistics
Matches: 74, Mismatches: 16, Indels: 24
0.65 0.14 0.21
Matches are distributed among these distances:
43 2 0.03
44 20 0.27
45 10 0.14
47 12 0.16
48 27 0.36
49 3 0.04
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.51
Consensus pattern (47 bp):
AAATATATTTGTACAAATATTTTTATATTGTTTCATTTAATAAAATA
Done.