Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 220 of 311
Found at i:75188653 original size:12 final size:12
Alignment explanation
Indices: 75188635--75188666 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
75188625 TTAAAACTTA
75188635 ATTTATTTAAAT
1 ATTTATTTAAAT
*
75188647 TTTTATTTAAAT
1 ATTTATTTAAAT
75188659 ATTTATTT
1 ATTTATTT
75188667 GTTGAAAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
ATTTATTTAAAT
Found at i:75189167 original size:31 final size:31
Alignment explanation
Indices: 75189132--75189191 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
75189122 ACTTAAGAAC
* *
75189132 CCAATGACTTGAATAAAGACTTTCAAATAAT
1 CCAATGACTTAAATAAAAACTTTCAAATAAT
75189163 CCAATGACTTAAATAAAAACTTTCAAATA
1 CCAATGACTTAAATAAAAACTTTCAAATA
75189192 GTTTAACGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.48, C:0.17, G:0.07, T:0.28
Consensus pattern (31 bp):
CCAATGACTTAAATAAAAACTTTCAAATAAT
Found at i:75190899 original size:23 final size:26
Alignment explanation
Indices: 75190872--75190918 Score: 55
Period size: 25 Copynumber: 1.9 Consensus size: 26
75190862 ATTAAAATTT
*
75190872 ATTT-ATTT-TTAATGATAA-TAACA
1 ATTTAATTTATTAATGATATATAACA
*
75190895 ATTTAATTTATTAATTATATATAA
1 ATTTAATTTATTAATGATATATAA
75190919 ATTTATATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
23 4 0.21
24 4 0.21
25 8 0.42
26 3 0.16
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (26 bp):
ATTTAATTTATTAATGATATATAACA
Found at i:75191355 original size:15 final size:15
Alignment explanation
Indices: 75191335--75191381 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
75191325 TTGTCTCATA
75191335 TTATATTTTAGTCAC
1 TTATATTTTAGTCAC
* * *
75191350 TTATATTTAAATTA-
1 TTATATTTTAGTCAC
75191364 TTATATTTTAGTCAC
1 TTATATTTTAGTCAC
75191379 TTA
1 TTA
75191382 AATTATTATT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.32, C:0.09, G:0.04, T:0.55
Consensus pattern (15 bp):
TTATATTTTAGTCAC
Found at i:75194127 original size:3 final size:3
Alignment explanation
Indices: 75194121--75194145 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
75194111 ATATCAACAA
75194121 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
75194146 ATCAACAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:75196551 original size:11 final size:11
Alignment explanation
Indices: 75196537--75196564 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
75196527 TAACCCTGAG
75196537 ATAATATATAT
1 ATAATATATAT
75196548 ATAATATATAT
1 ATAATATATAT
75196559 ATAATA
1 ATAATA
75196565 AGGATAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
ATAATATATAT
Found at i:75196807 original size:27 final size:29
Alignment explanation
Indices: 75196777--75196831 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
75196767 TTTATATTAG
75196777 ATAAATAT-AATT-ATGTGTATA-CAATAT
1 ATAAATATAAATTGATGT-TATATCAATAT
75196804 ATAAATATAAATTGATGTTATATCAATA
1 ATAAATATAAATTGATGTTATATCAATA
75196832 ATTGTATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 8 0.32
28 8 0.32
29 9 0.36
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (29 bp):
ATAAATATAAATTGATGTTATATCAATAT
Found at i:75199721 original size:16 final size:16
Alignment explanation
Indices: 75199688--75199721 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
75199678 ACCCAATGTT
* *
75199688 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
75199704 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
75199720 AA
1 AA
75199722 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:75202548 original size:21 final size:21
Alignment explanation
Indices: 75202522--75202562 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
75202512 AGACGAGCAA
* *
75202522 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
75202543 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
75202563 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:75204500 original size:16 final size:16
Alignment explanation
Indices: 75204467--75204500 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
75204457 GGAGATTGTT
* *
75204467 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
75204483 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
75204499 AA
1 AA
75204501 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:75213219 original size:47 final size:47
Alignment explanation
Indices: 75213145--75213259 Score: 160
Period size: 47 Copynumber: 2.4 Consensus size: 47
75213135 ACCATGGTTT
*
75213145 TACACGAATCACATATCACACTCATGCCATATCCCAGATATGATCTTA
1 TACA-GAAGCACATATCACACTCATGCCATATCCCAGATATGATCTTA
* *
75213193 TACAGTAGCACATATCACAC-CGATGCCATATCCCAGATATGGTCTTA
1 TACAGAAGCACATATCACACTC-ATGCCATATCCCAGATATGATCTTA
*
75213240 TACGGAAGCACATAATCACA
1 TACAGAAGCACAT-ATCACA
75213260 TCTCTCCGAT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
46 1 0.02
47 49 0.82
48 10 0.17
ACGTcount: A:0.36, C:0.28, G:0.12, T:0.24
Consensus pattern (47 bp):
TACAGAAGCACATATCACACTCATGCCATATCCCAGATATGATCTTA
Found at i:75213289 original size:53 final size:53
Alignment explanation
Indices: 75213168--75213313 Score: 153
Period size: 53 Copynumber: 2.9 Consensus size: 53
75213158 TATCACACTC
* * * *
75213168 ATGCCATATCCCAGATATGATCTTATACAG-TAGCACATATCACA-----CCG
1 ATGCCATAGCCCAGATATGGTCTTATACGGAAAGCACATATCACATCTCTCCG
*
75213215 ATGCCATATCCCAGATATGGTCTTATACGG-AAGCACATAATCACATCTCTCCG
1 ATGCCATAGCCCAGATATGGTCTTATACGGAAAGCACAT-ATCACATCTCTCCG
* * * *
75213268 ATGCCATAGCCTAGTTGTGGTCTTATACGGAAATCACATATCACAT
1 ATGCCATAGCCCAGATATGGTCTTATACGGAAAGCACATATCACAT
75213314 GTTGCCATGA
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
47 35 0.42
48 6 0.07
53 36 0.43
54 7 0.08
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (53 bp):
ATGCCATAGCCCAGATATGGTCTTATACGGAAAGCACATATCACATCTCTCCG
Found at i:75219509 original size:21 final size:20
Alignment explanation
Indices: 75219473--75219511 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
75219463 TTACTAATTT
*
75219473 AAAATTTAAAAAAAAATTAA
1 AAAACTTAAAAAAAAATTAA
75219493 AAAACTTAAATAAAAAATT
1 AAAACTTAAA-AAAAAATT
75219512 TTCCATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAACTTAAAAAAAAATTAA
Found at i:75220405 original size:20 final size:18
Alignment explanation
Indices: 75220369--75220405 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
75220359 ACAAAAGATT
75220369 ATTTAATTATTATTTGAC
1 ATTTAATTATTATTTGAC
75220387 ATTTAATATATTAATTTGA
1 ATTTAAT-TATT-ATTTGA
75220406 TAAATTAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 4 0.24
20 6 0.35
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (18 bp):
ATTTAATTATTATTTGAC
Found at i:75227651 original size:6 final size:6
Alignment explanation
Indices: 75227637--75227674 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
75227627 CCAAATAGAC
75227637 AAAAA- AAAAAG -AAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
75227675 CACCTCACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:75236171 original size:17 final size:19
Alignment explanation
Indices: 75236146--75236182 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
75236136 AAACAATTAA
75236146 TTAACATTA-GAAATAAAT
1 TTAACATTAGGAAATAAAT
75236164 TTAA-ATTAGGAAATAAAT
1 TTAACATTAGGAAATAAAT
75236182 T
1 T
75236183 CAATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.35
Consensus pattern (19 bp):
TTAACATTAGGAAATAAAT
Found at i:75237516 original size:20 final size:20
Alignment explanation
Indices: 75237478--75237525 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
75237468 TAAATTTTAA
* **
75237478 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
75237498 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
75237518 AAA-ATAAA
1 AAAGATAAA
75237526 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:75237550 original size:27 final size:26
Alignment explanation
Indices: 75237520--75237582 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
75237510 AGATAATTAA
75237520 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
75237547 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
75237574 AATATAAAT
1 AATA-AAAT
75237583 AAAATGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:75237569 original size:15 final size:15
Alignment explanation
Indices: 75237549--75237578 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
75237539 ATAATCCTAA
*
75237549 TAATTATCTTAATAT
1 TAATTATCCTAATAT
75237564 TAATTATCCTAATAT
1 TAATTATCCTAATAT
75237579 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:75237994 original size:21 final size:21
Alignment explanation
Indices: 75237970--75238010 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
75237960 TTAAAACGCA
75237970 TATGAAAAATAAAGAGAACCC
1 TATGAAAAATAAAGAGAACCC
75237991 TATGAAAAATAAAGAGAACC
1 TATGAAAAATAAAGAGAACC
75238011 TTAAGTTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.59, C:0.12, G:0.15, T:0.15
Consensus pattern (21 bp):
TATGAAAAATAAAGAGAACCC
Found at i:75239133 original size:12 final size:13
Alignment explanation
Indices: 75239118--75239184 Score: 56
Period size: 12 Copynumber: 5.5 Consensus size: 13
75239108 TATCTAAAAC
75239118 AATAAATAAG-AA
1 AATAAATAAGAAA
75239130 AAT-AATAAGAAA
1 AATAAATAAGAAA
75239142 AATAAATAA-AAA
1 AATAAATAAGAAA
*
75239154 TA-AAATAA-ACTAA
1 AATAAATAAGA--AA
*
75239167 AATAAA-AATAAA
1 AATAAATAAGAAA
75239179 AATAAA
1 AATAAA
75239185 AATTGGGTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
11 13 0.28
12 20 0.43
13 10 0.21
14 4 0.09
ACGTcount: A:0.78, C:0.01, G:0.03, T:0.18
Consensus pattern (13 bp):
AATAAATAAGAAA
Found at i:75239150 original size:16 final size:14
Alignment explanation
Indices: 75239129--75239178 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 14
75239119 ATAAATAAGA
75239129 AAATAATAAGAAAAAT
1 AAATAA-AA-AAAAAT
75239145 AAATAAAAATAAAAT
1 AAATAAAAA-AAAAT
75239160 AAACTAAAATAAAAAT
1 AAA-TAAAA-AAAAAT
75239176 AAA
1 AAA
75239179 AATAAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
14 1 0.03
15 10 0.32
16 19 0.61
17 1 0.03
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (14 bp):
AAATAAAAAAAAAT
Found at i:75239156 original size:6 final size:6
Alignment explanation
Indices: 75239128--75239187 Score: 58
Period size: 6 Copynumber: 10.8 Consensus size: 6
75239118 AATAAATAAG
* * *
75239128 AAAATA ATAAGA AAAAT- -AAATA AAAAT- AAAAT- AAACT- AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
75239171 AAAATA AAAATA AAAAT
1 AAAATA AAAATA AAAAT
75239188 TGGGTTGCCT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
4 4 0.09
5 13 0.29
6 28 0.62
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:75243737 original size:12 final size:13
Alignment explanation
Indices: 75243715--75243744 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
75243705 TAACCACTTT
75243715 AATATAAAATAAA
1 AATATAAAATAAA
75243728 AATA-AAAATAAA
1 AATATAAAATAAA
75243740 AATAT
1 AATAT
75243745 TTTTATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AATATAAAATAAA
Found at i:75250091 original size:14 final size:14
Alignment explanation
Indices: 75250072--75250118 Score: 60
Period size: 13 Copynumber: 3.3 Consensus size: 14
75250062 CGATGTGGAT
75250072 AAAAAAATTATGT-
1 AAAAAAATTATGTA
*
75250085 AAAAAAATATATTTA
1 AAAAAAAT-TATGTA
75250100 TAAAAAAATTATGTA
1 -AAAAAAATTATGTA
75250115 AAAA
1 AAAA
75250119 TACCCTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 8 0.28
14 8 0.28
15 5 0.17
16 8 0.28
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (14 bp):
AAAAAAATTATGTA
Found at i:75250127 original size:27 final size:28
Alignment explanation
Indices: 75250070--75250129 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
75250060 TACGATGTGG
* *
75250070 ATAAAAAAATTATGTAAAAAAATATATTT
1 ATAAAAAAATTATGT-AAAAAATACACTT
*
75250099 ATAAAAAAATTATGT-AAAAATACCCTT
1 ATAAAAAAATTATGTAAAAAATACACTT
75250126 ATAA
1 ATAA
75250130 TAATTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 13 0.46
29 15 0.54
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (28 bp):
ATAAAAAAATTATGTAAAAAATACACTT
Found at i:75255039 original size:33 final size:32
Alignment explanation
Indices: 75254969--75255039 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 32
75254959 ACTGTTATTT
* * *
75254969 TACTGTGATGGGCTAAGGCCCTAATGCTTACTG
1 TACTGGGATGGGCTAAGGCCCAAATGC-GACTG
75255002 TACTGGGATGGGCTAAGGCCCAAATTG-GACTG
1 TACTGGGATGGGCTAAGGCCCAAA-TGCGACTG
75255034 ATACTG
1 -TACTG
75255040 ATACTGAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 4 0.12
33 27 0.82
34 2 0.06
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.27
Consensus pattern (32 bp):
TACTGGGATGGGCTAAGGCCCAAATGCGACTG
Found at i:75261686 original size:7 final size:7
Alignment explanation
Indices: 75261676--75261701 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
75261666 AATAAGCAAT
75261676 AATTTAA
1 AATTTAA
75261683 AATTTAA
1 AATTTAA
75261690 AATTTAA
1 AATTTAA
75261697 AATTT
1 AATTT
75261702 TTTCAACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
AATTTAA
Found at i:75267897 original size:42 final size:42
Alignment explanation
Indices: 75267825--75267909 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
75267815 AAGTGATTTG
75267825 TCTTTATTACTTTCAACCCAACCCTCTATGAAATTGATAACA
1 TCTTTATTACTTTCAACCCAACCCTCTATGAAATTGATAACA
* * *
75267867 TCTTTATTACTTTCAACTCAACGCTTTATGAAATTGATAACA
1 TCTTTATTACTTTCAACCCAACCCTCTATGAAATTGATAACA
75267909 T
1 T
75267910 TTCTACCTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (42 bp):
TCTTTATTACTTTCAACCCAACCCTCTATGAAATTGATAACA
Found at i:75274504 original size:13 final size:13
Alignment explanation
Indices: 75274480--75274527 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
75274470 ACACTTAAAT
*
75274480 TTTTCCAAAGCAC
1 TTTTCAAAAGCAC
*
75274493 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
75274506 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
75274519 TTTTCAAAA
1 TTTTCAAAA
75274528 ATATTGCCAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.31
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:75274628 original size:17 final size:17
Alignment explanation
Indices: 75274606--75274644 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
75274596 CGGAAATATT
* *
75274606 TATTTTAATGTTTTTTA
1 TATTTTAATGTATTATA
*
75274623 TATTTTTATGTATTATA
1 TATTTTAATGTATTATA
75274640 TATTT
1 TATTT
75274645 AAAATTTATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (17 bp):
TATTTTAATGTATTATA
Found at i:75278024 original size:27 final size:28
Alignment explanation
Indices: 75277974--75278056 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
75277964 CACTTTGTGC
75277974 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
75278003 TATTCTGGTGTG-TTTGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
75278030 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
75278057 CTGGTGTGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
27 19 0.37
28 20 0.39
29 12 0.24
ACGTcount: A:0.19, C:0.04, G:0.30, T:0.47
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:75278305 original size:21 final size:21
Alignment explanation
Indices: 75278256--75278342 Score: 95
Period size: 21 Copynumber: 4.1 Consensus size: 21
75278246 GGCTTTACTG
*
75278256 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTTATGTGTCGT
*
75278277 ATTTCAGGCACCTTGTGTGTCGT
1 A--TCAGGCACCTTATGTGTCGT
* **
75278300 AGCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTTATGTGTCGT
*
75278321 TTCAGGCA-CTTATGTGTCGT
1 ATCAGGCACCTTATGTGTCGT
75278341 AT
1 AT
75278343 TCTGATCAGG
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
20 11 0.20
21 25 0.45
23 19 0.35
ACGTcount: A:0.16, C:0.22, G:0.26, T:0.36
Consensus pattern (21 bp):
ATCAGGCACCTTATGTGTCGT
Found at i:75280762 original size:46 final size:44
Alignment explanation
Indices: 75280703--75280817 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
75280693 ACAGGACAGA
* *
75280703 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
75280749 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
75280793 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
75280818 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:75280798 original size:44 final size:45
Alignment explanation
Indices: 75280703--75280836 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
75280693 ACAGGACAGA
* *
75280703 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
75280749 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
75280793 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
75280837 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:75283697 original size:30 final size:30
Alignment explanation
Indices: 75283663--75283723 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
75283653 TCCTTAACTC
75283663 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
75283693 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
75283723 A
1 A
75283724 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:75292899 original size:46 final size:44
Alignment explanation
Indices: 75292840--75292954 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
75292830 ACAGGACAGA
* *
75292840 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* * *
75292886 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAT
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
75292930 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
75292955 GTCAAAGACA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
44 34 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:75292935 original size:44 final size:45
Alignment explanation
Indices: 75292840--75292973 Score: 144
Period size: 46 Copynumber: 3.0 Consensus size: 45
75292830 ACAGGACAGA
* *
75292840 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * *
75292886 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAT
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
75292930 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
75292974 CAGGATATTG
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
44 35 0.48
45 1 0.01
46 37 0.51
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:75298757 original size:33 final size:33
Alignment explanation
Indices: 75298720--75298834 Score: 135
Period size: 33 Copynumber: 3.5 Consensus size: 33
75298710 TGGACTTTTT
* * * *
75298720 CTTTTCTAGTTGTACACTCGAGGTGCACATTCC
1 CTTTTCAAGTTGTACACTCAAAGTGCACATACC
* *
75298753 CTTTTCAAGTGGTACA-TACAAAGTGTACATACC
1 CTTTTCAAGTTGTACACT-CAAAGTGCACATACC
* *
75298786 CTTTTCAATTTGTACACTCAAAGTGCACATAAC
1 CTTTTCAAGTTGTACACTCAAAGTGCACATACC
75298819 CTTTTCAAG-TGTACAC
1 CTTTTCAAGTTGTACAC
75298835 ATATAGTGTA
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
32 8 0.12
33 60 0.87
34 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (33 bp):
CTTTTCAAGTTGTACACTCAAAGTGCACATACC
Found at i:75298854 original size:32 final size:32
Alignment explanation
Indices: 75298752--75298963 Score: 147
Period size: 33 Copynumber: 6.5 Consensus size: 32
75298742 GTGCACATTC
* * * **
75298752 CCTTTTCAAGTGGTACATACAAAGTGTACATAC
1 CCTTTTCAAGT-GTACACACAAAGTATACCTTT
* * ** * **
75298785 CCTTTTCAATTTGTACACTCAAAGTGCACATAA
1 CCTTTTCAA-GTGTACACACAAAGTATACCTTT
* * *
75298818 CCTTTTCAAGTGTACACATATAGTGTACCTTT
1 CCTTTTCAAGTGTACACACAAAGTATACCTTT
* *
75298850 CCTTTTCAAGTGGTATACACAAAATATACCTTT
1 CCTTTTCAAGT-GTACACACAAAGTATACCTTT
*
75298883 CCTTTTCATA-TGGTATACACAAAGTATACCTTT
1 CCTTTTCA-AGT-GTACACACAAAGTATACCTTT
* * * * **
75298916 CCTTTCCAAGTATACACACAAAGTGTACATAA
1 CCTTTTCAAGTGTACACACAAAGTATACCTTT
75298948 CCTTTTCAAGTTGTAC
1 CCTTTTCAAG-TGTAC
75298964 CATTTGGGTA
Statistics
Matches: 146, Mismatches: 28, Indels: 10
0.79 0.15 0.05
Matches are distributed among these distances:
32 51 0.35
33 93 0.64
34 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.35
Consensus pattern (32 bp):
CCTTTTCAAGTGTACACACAAAGTATACCTTT
Found at i:75299599 original size:30 final size:30
Alignment explanation
Indices: 75299563--75299661 Score: 162
Period size: 30 Copynumber: 3.3 Consensus size: 30
75299553 CTAGCCTTTG
75299563 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
75299593 CCACCACCTACTCCACTAGCCACACTTACT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
75299623 CCACCACCTACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
75299653 CCACCACCA
1 CCACCACCA
75299662 CTTGTACCTA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.26, C:0.51, G:0.05, T:0.18
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:75299624 original size:18 final size:18
Alignment explanation
Indices: 75299572--75299626 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
75299562 GCCACCACCA
75299572 ACTCCACTAGCCACACTT
1 ACTCCACTAGCCACACTT
*
75299590 GCT-C-C-A-CCAC-C-T
1 ACTCCACTAGCCACACTT
75299602 ACTCCACTAGCCACACTT
1 ACTCCACTAGCCACACTT
75299620 ACTCCAC
1 ACTCCAC
75299627 CACCTACTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 12
0.67 0.05 0.28
Matches are distributed among these distances:
12 3 0.10
13 2 0.07
14 5 0.17
15 2 0.07
16 5 0.17
17 2 0.07
18 10 0.34
ACGTcount: A:0.25, C:0.49, G:0.05, T:0.20
Consensus pattern (18 bp):
ACTCCACTAGCCACACTT
Found at i:75300186 original size:24 final size:23
Alignment explanation
Indices: 75300138--75300189 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
75300128 TTTTTTTTGT
*
75300138 TATTATTATATTTCTTAATATTA
1 TATTATTATATTTCTTAATAATA
*
75300161 TATTATATATATATTCTT-TTAATA
1 TATTAT-TATAT-TTCTTAATAATA
75300185 TATTA
1 TATTA
75300190 GGTATATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTATTATATTTCTTAATAATA
Found at i:75300270 original size:29 final size:27
Alignment explanation
Indices: 75300232--75300327 Score: 90
Period size: 27 Copynumber: 3.6 Consensus size: 27
75300222 ATTATACTAT
75300232 TTTATGTATATTTCTTTAATACTATGTTA
1 TTTATGTATATTT-TTTAATAC-ATGTTA
* *
75300261 TTTATATATATTTTTT-CTACATGTTA
1 TTTATGTATATTTTTTAATACATGTTA
* * *
75300287 TCTTATGTATATATTTTAAT-TATATTA
1 T-TTATGTATATTTTTTAATACATGTTA
*
75300314 TGTATGTAT-TTTTT
1 TTTATGTATATTTTT
75300328 ACACTATATT
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
25 4 0.07
26 14 0.25
27 22 0.39
28 4 0.07
29 12 0.21
ACGTcount: A:0.27, C:0.05, G:0.06, T:0.61
Consensus pattern (27 bp):
TTTATGTATATTTTTTAATACATGTTA
Found at i:75300314 original size:22 final size:23
Alignment explanation
Indices: 75300284--75300350 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 23
75300274 TTTCTACATG
*
75300284 TTATCTTATGTATATATTTTA-A
1 TTATATTATGTATATATTTTACA
*
75300306 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTACA
* *
75300331 CTATATTATGTACATATTTT
1 TTATATTATGTATATATTTT
75300351 TTTATATCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
22 11 0.30
23 6 0.16
24 8 0.22
25 12 0.32
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (23 bp):
TTATATTATGTATATATTTTACA
Found at i:75300361 original size:27 final size:25
Alignment explanation
Indices: 75300295--75300366 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
75300285 TATCTTATGT
* *
75300295 ATATATTTTAAT-TATATTATGTAT
1 ATATTTTTTAATCTATATTATGTAC
*
75300319 GTATTTTTTACA-CTATATTATGTAC
1 ATATTTTTTA-ATCTATATTATGTAC
*
75300344 ATATTTTTTTATATCTATTTTAT
1 ATA-TTTTTTA-ATCTATATTAT
75300367 ACATATGTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 8 0.21
25 14 0.37
26 8 0.21
27 8 0.21
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (25 bp):
ATATTTTTTAATCTATATTATGTAC
Found at i:75300389 original size:78 final size:77
Alignment explanation
Indices: 75300217--75300389 Score: 174
Period size: 78 Copynumber: 2.2 Consensus size: 77
75300207 ATATTACGTA
* * * * * *
75300217 TATATATTATACTATTTTATGTATATTTCTTTAATACTATGTTATTTATATATATTTTTTCTACA
1 TATATATTATACTATATTATGTATATTTCTTTAACACTATATTATGTACATATATTTTTTATACA
*
75300282 TGTTATCTTATG
66 TGTTATCATATG
* *
75300294 TATATATTTTAATTATATTATGTATGTATTT-TTT-ACACTATATTATGTACATAT-TTTTTTAT
1 TATATATTAT-ACTATATTATGTA--TATTTCTTTAACACTATATTATGTACATATATTTTTTAT
*
75300356 ATCTATTTTATACATATG
63 A-C-ATGTTAT-CATATG
75300374 TATATATTATA-TATAT
1 TATATATTATACTATAT
75300390 CTTAACATTA
Statistics
Matches: 79, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
77 17 0.22
78 33 0.42
79 10 0.13
80 19 0.24
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.58
Consensus pattern (77 bp):
TATATATTATACTATATTATGTATATTTCTTTAACACTATATTATGTACATATATTTTTTATACA
TGTTATCATATG
Found at i:75300441 original size:25 final size:24
Alignment explanation
Indices: 75300413--75300468 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
75300403 GTTATATTTT
*
75300413 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
75300438 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
75300461 CACTATTA
1 CACTATTA
75300469 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:75312535 original size:88 final size:87
Alignment explanation
Indices: 75312440--75312605 Score: 244
Period size: 88 Copynumber: 1.9 Consensus size: 87
75312430 TATCTTTCAA
* * * *
75312440 AAAAATCAACTCATATTGCGAGAGGTGAGTTGGGCCTCAGTCACACGCTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTC-GGCACACGCCGAGGTATTTTCAATTT
75312505 C-GTTTTTTCAATTTATGCTTTTC
65 CTG-TTTTTCAATTTATGCTTTTC
** *
75312528 AAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGGCACGCCGAGGTATTTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGCACACGCCGAGGTATTTTCAATTTC
75312593 TGTTTTTCAATTT
66 TGTTTTTCAATTT
75312606 CTACTTTTAA
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
87 33 0.47
88 37 0.53
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGCACACGCCGAGGTATTTTCAATTTC
TGTTTTTCAATTTATGCTTTTC
Found at i:75312626 original size:13 final size:13
Alignment explanation
Indices: 75312582--75312626 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
75312572 CGCCGAGGTA
75312582 TTTTTAATTTCTG
1 TTTTTAATTTCTG
*
75312595 TTTTTCAATTTCTA
1 TTTTT-AATTTCTG
*
75312609 CTTTTAATTTCTG
1 TTTTTAATTTCTG
75312622 TTTTT
1 TTTTT
75312627 CAAAAATCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.16, C:0.11, G:0.04, T:0.69
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:75312691 original size:100 final size:99
Alignment explanation
Indices: 75312495--75312890 Score: 458
Period size: 100 Copynumber: 4.1 Consensus size: 99
75312485 CGCTGAGGTA
* *
75312495 TTTTCAATTTCGTTTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTG
1 TTTTCAATTTC-TCTTTT-AATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* * * *
75312560 AGCCTCGGGGCACGCCGAGGTATTTTTAATTTCTGT
64 AGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGT
* *
75312596 TTTTCAATTTCTACTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTCAATTTCT-CTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
75312661 GCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGT
65 GCCTCAGGACACGCTGAGGTATTTTCAATTTCTGT
* ** * *
75312696 TTTTCAATTTTTCCTTACAAATTCTGCTTTTC--AAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTCAATTTCT-CTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
75312759 GCCTCAGGACACGCTAAGGTATTTTCAA-------
65 GCCTCAGGACACGCTGAGGTATTTTCAATTTCTGT
* * *
75312787 TTTTC-GTTT-T-TTTTAATTTATG-TTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTG
1 TTTTCAATTTCTCTTTTAATTTATGCTTT-T-CAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* *
75312848 AGCCTCAGGACACGCTGAGGTAATTTCAATTTTTGT
64 AGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGT
*
75312884 TTGTCAA
1 TTTTCAA
75312891 AACTCAACTC
Statistics
Matches: 256, Mismatches: 26, Indels: 29
0.82 0.08 0.09
Matches are distributed among these distances:
86 3 0.01
87 9 0.04
89 1 0.00
90 59 0.23
91 5 0.02
97 4 0.02
98 57 0.22
100 103 0.40
101 15 0.06
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.40
Consensus pattern (99 bp):
TTTTCAATTTCTCTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
CCTCAGGACACGCTGAGGTATTTTCAATTTCTGT
Found at i:75312917 original size:73 final size:72
Alignment explanation
Indices: 75312816--75313393 Score: 649
Period size: 73 Copynumber: 7.9 Consensus size: 72
75312806 ATGTTTCTAA
* * *
75312816 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACACGCTGAGGTATTTTCAATTTC
75312881 TGTTTGTC
65 TGTTTGTC
* *
75312889 AAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCT----CA-----AGGTATTTTCAATTTCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGGTATTTTCAATTTCT
*
75312945 GTTTTTC
66 GTTTGTC
* * *
75312952 AAAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACACGCTAAGGTAATTTCAA
1 ----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACACGCTGAGGTATTTTCAA
*
75313017 TTTTTGTTTGTC
61 TTTCTGTTTGTC
*
75313029 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACGCTGAGGTATTTTCAATTTC
* *
75313094 TGTTTTTAAA
65 TGTTTGT--C
* * *
75313104 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACGCTGAGGTATTTTCAATTTC
*
75313169 TGTTTTTC
65 TGTTTGTC
* * * *
75313177 AAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCA-AGACGCTGAGGTAATTTCAATT
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGGTATTTTCAATT
*
75313241 TTTGTTTGTC
63 TCTGTTTGTC
*
75313251 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACGCTGAGGTATTTTCAATTTC
75313316 TGTCTT-TC
65 TGT-TTGTC
* * * * * *
75313324 AAAAAAAATTAGCTCATATTGCGAGAGGTGAGTTGAACCTCA-AGACGCTGAGGTGTTTTCCATT
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGGTATTTTCAATT
75313388 TCTGTT
63 TCTGTT
75313394 CTTCAATTTC
Statistics
Matches: 437, Mismatches: 42, Indels: 52
0.82 0.08 0.10
Matches are distributed among these distances:
63 21 0.05
67 34 0.08
68 2 0.00
71 36 0.08
72 3 0.01
73 124 0.28
74 53 0.12
75 72 0.16
76 71 0.16
77 21 0.05
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGGTATTTTCAATTTCT
GTTTGTC
Found at i:75313293 original size:147 final size:143
Alignment explanation
Indices: 75312816--75313399 Score: 698
Period size: 147 Copynumber: 4.0 Consensus size: 143
75312806 ATGTTTCTAA
* * *
75312816 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
* * *
75312881 TGTTTGTCAAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAG--G-T-A--T-TTTCA
66 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTATTTCA
75312939 ATTTCTGTTTTTC
131 ATTTCTGTTTTTC
* * *
75312952 AAAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACACGCTAAGGTAATTTCAA
1 ----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
* * *
75313017 TTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT
62 TTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAG--ACGCTGAGGT
*
75313082 ATTTTCAATTTCTGTTTTTAAA
125 A-TTTCAATTTCTGTTTTT--C
* * * *
75313104 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
* *
75313169 TGTTTTTCAAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGACGCTGAGGTAAT
66 TGTTTGTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGT-AT
* *
75313234 TTCAATTTTTGTTTGTC
127 TTCAATTTCTGTTTTTC
* *
75313251 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
* * *
75313316 TGTCTT-TCAAAAAAAATTAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTGT
66 TGT-TTGTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGT-A
* *
75313380 TTTCCATTTCTGTTCTTC
126 TTTCAATTTCTGTTTTTC
75313398 AA
1 AA
75313400 TTTCTGTGTT
Statistics
Matches: 395, Mismatches: 32, Indels: 27
0.87 0.07 0.06
Matches are distributed among these distances:
140 109 0.28
144 1 0.00
145 1 0.00
146 1 0.00
147 135 0.34
148 67 0.17
149 24 0.06
150 18 0.05
151 39 0.10
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (143 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTATTTCA
ATTTCTGTTTTTC
Found at i:75313506 original size:15 final size:14
Alignment explanation
Indices: 75313470--75313502 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
75313460 CGCTGAGGTA
75313470 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
75313484 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
75313498 TTTTC
1 TTTTC
75313503 CAAAAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:75313508 original size:91 final size:90
Alignment explanation
Indices: 75313368--75313848 Score: 467
Period size: 91 Copynumber: 5.3 Consensus size: 90
75313358 GAACCTCAAG
* * * * * * *
75313368 ACGCTGAGGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGC
1 ACGCTGAGGTATTTTCAAATTCTGTTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGC
*
75313433 GAGTGGTGAGTTGAGCCTTGACTCAC
66 GAGAGGTGAGTTGAGCCTTGA-TCAC
*
75313459 ACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTT-TGTTTTTCCAAAAAATCAACTCATATTG
1 ACGCTGAGGTATTTTCAAATTCTGTTTTTC-AATTTATGTTTTTCAAAAAAATCAACTCATATTG
* * **
75313523 CGAGAGGTGAGTTCAGCC-TCAGGAC
65 CGAGAGGTGAGTTGAGCCTTGATCAC
* * * *
75313548 ACGCTGAGATATTTTCAATTTCTTTTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATT
1 ACGCTGAGGTATTTTCAAATTC--TGTTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATT
*
75313613 GCGAGAGGTGAGTTGAGCCTCAGATCAC
64 GCGAGAGGTGAGTTGAGCCT-TGATCAC
* * * * *
75313641 ACGCCGAGGTATTTTCAATTGATTTTTTTTTTCAATTTATGCTTTGC--AAAAATCAACTCATAT
1 ACGCTGAGGTATTTTCAA---ATTCTGTTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATAT
* * *
75313704 TACGAGAGGTGAGTTGAGCCTCGGGTCAC
63 TGCGAGAGGTGAGTTGAGCCT-TGATCAC
** * * *
75313733 ATACCGAGGTATTTTCAAAATCTGTTTTACAAATTT-TG-TTTT---AAAAATCAACTCATATTG
1 ACGCTGAGGTATTTTCAAATTCTGTTTTTC-AATTTATGTTTTTCAAAAAAATCAACTCATATTG
* *
75313793 CGAGAAGTGAGTTGAGCCTTGGCTCAC
65 CGAGAGGTGAGTTGAGCCTT-GATCAC
** * *
75313820 GTGCTGAGCTATTTTCAATTTCTGTTTTT
1 ACGCTGAGGTATTTTCAAATTCTGTTTTT
75313849 AATGTCTAGT
Statistics
Matches: 329, Mismatches: 50, Indels: 26
0.81 0.12 0.06
Matches are distributed among these distances:
87 62 0.19
88 3 0.01
89 32 0.10
90 12 0.04
91 117 0.36
92 63 0.19
93 19 0.06
94 19 0.06
96 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.38
Consensus pattern (90 bp):
ACGCTGAGGTATTTTCAAATTCTGTTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGC
GAGAGGTGAGTTGAGCCTTGATCAC
Found at i:75313833 original size:87 final size:86
Alignment explanation
Indices: 75313327--75313885 Score: 459
Period size: 91 Copynumber: 6.3 Consensus size: 86
75313317 GTCTTTCAAA
* * * * * * * *
75313327 AAAAATTAGCTCATATTGCGAGAGGTGAGTTGAACCT---C-AAGACGCTGAGGTGTTTTCCATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAAAT
*
75313388 TCTGTTCTTCAATTTCTGTGTTT
66 TCTGTTTTTCAATTT-TGT-TTT
* * * *
75313411 CAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCA
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCA
75313476 AATTCTGTTTTTCAAATTTTGTTTTT
63 AATTCTGTTTTTC-AATTTTG-TTTT
* *
75313502 CCAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGG---ACACGCTGAGATATTTTC
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACACGCTGAGGTATTTTC
* *
75313564 AATTTCTTTTTTTTTCAATTTATGTTTGT
62 AAATTC--TGTTTTTCAATTT-TGTTT-T
* * *
75313593 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCA
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCA
* * *
75313658 ATTGATTTTTTTTTTCAATTTATGCTTTGC
63 A---ATTCTGTTTTTCAATTT-TG-TTT-T
* * ** * *
75313688 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAAAT
*
75313753 TCTGTTTTACAAATTTTGTTTT
66 TCTGTTTTTC-AATTTTGTTTT
* * ** * *
75313775 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAAAT
*
75313840 TCTGTTTTT-AATGTCTAGTTTT
66 TCTGTTTTTCAAT-T-TTGTTTT
* *
75313862 AAAGAGTCAATTCATATTGCGAGA
1 AAA-AATCAACTCATATTGCGAGA
75313886 AATGAGTTAA
Statistics
Matches: 400, Mismatches: 50, Indels: 43
0.81 0.10 0.09
Matches are distributed among these distances:
85 3 0.01
86 1 0.00
87 106 0.26
88 21 0.05
89 32 0.08
90 15 0.04
91 117 0.29
92 65 0.16
93 18 0.05
94 16 0.04
95 4 0.01
96 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (86 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAAAT
TCTGTTTTTCAATTTTGTTTT
Found at i:75314564 original size:30 final size:30
Alignment explanation
Indices: 75314527--75314595 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
75314517 CTAGCCTTTG
75314527 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* * *
75314557 TCACCACCTACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
75314587 CCACCACCA
1 CCACCACCA
75314596 CTTTTACCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.26, C:0.49, G:0.06, T:0.19
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:75315160 original size:23 final size:25
Alignment explanation
Indices: 75315112--75315189 Score: 74
Period size: 23 Copynumber: 3.3 Consensus size: 25
75315102 ATTCTTTTAA
* * *
75315112 TATATTAGGTATAT-TC-TAAATTC
1 TATATTACGTATATATCATTAATAC
75315135 TATATTACGTATATAT-ATT-ATAC
1 TATATTACGTATATATCATTAATAC
* * *
75315158 TATTTTATGTATATATCTTTAATAC
1 TATATTACGTATATATCATTAATAC
75315183 TATATTA
1 TATATTA
75315190 TTTATATTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
23 30 0.68
24 4 0.09
25 10 0.23
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.51
Consensus pattern (25 bp):
TATATTACGTATATATCATTAATAC
Found at i:75315172 original size:25 final size:25
Alignment explanation
Indices: 75315076--75315292 Score: 85
Period size: 25 Copynumber: 8.9 Consensus size: 25
75315066 TTGTTATTAT
* * *
75315076 TATATTTTTAATATTATATTATATA
1 TATATATTTAATACTATATTATGTA
* * *
75315101 TAT-TCTTT--TAATATATTAGGTA
1 TATATATTTAATACTATATTATGTA
* * * *
75315123 TAT-T-CTAAATTCTATATTACGTA
1 TATATATTTAATACTATATTATGTA
*
75315146 TATATA-TT-ATACTATTTTATGTA
1 TATATATTTAATACTATATTATGTA
* *
75315169 TATATCTTTAATACTATATTATTTA
1 TATATATTTAATACTATATTATGTA
* * ** *
75315194 TATTTTTTTTCTACATGTTATCTTATGTA
1 TA--TATATT-TA-ATACTATATTATGTA
75315223 TATAT-TTTAAT--TATATTATGTA
1 TATATATTTAATACTATATTATGTA
* * * *
75315245 TGTATTTTTTACACTATATTATGTA
1 TATATATTTAATACTATATTATGTA
* * * *
75315270 CATATTTTTTATATCTATTTTAT
1 TATATATTTAATA-CTATATTAT
75315293 ACATATGTAT
Statistics
Matches: 147, Mismatches: 31, Indels: 27
0.72 0.15 0.13
Matches are distributed among these distances:
21 1 0.01
22 29 0.20
23 35 0.24
24 10 0.07
25 41 0.28
26 10 0.07
27 6 0.04
28 2 0.01
29 13 0.09
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (25 bp):
TATATATTTAATACTATATTATGTA
Found at i:75315261 original size:76 final size:80
Alignment explanation
Indices: 75315143--75315312 Score: 186
Period size: 76 Copynumber: 2.2 Consensus size: 80
75315133 TCTATATTAC
* * * * * * *
75315143 GTATATATATTATACTATTTTATGTATATATCTTTAATACTATATTATTTATATTTTTTTTCTA-
1 GTATATATTTTATACTATATTATGTATATATCTTTAACACTATATTATGTACATATTTTTTATAT
*
75315207 C-ATGTTAT-CTTAT
66 CTATGTTATACATAT
* * * *
75315220 GTATATATTTTA-ATTATATTATGTATGTATTTTTTACACTATATTATGTACATATTTTTTATAT
1 GTATATATTTTATACTATATTATGTATATATCTTTAACACTATATTATGTACATATTTTTTATAT
*
75315284 CTATTTTATACATAT
66 CTATGTTATACATAT
*
75315299 GTATATATTATATA
1 GTATATATTTTATA
75315313 TATCTTAACA
Statistics
Matches: 75, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
76 41 0.55
77 12 0.16
78 6 0.08
79 15 0.20
80 1 0.01
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.57
Consensus pattern (80 bp):
GTATATATTTTATACTATATTATGTATATATCTTTAACACTATATTATGTACATATTTTTTATAT
CTATGTTATACATAT
Found at i:75315367 original size:25 final size:25
Alignment explanation
Indices: 75315339--75315393 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
75315329 GTTATATTTT
75315339 CACTATTTTATATA-TATACTTCAAA
1 CACTA-TTTATATAGTATACTTCAAA
* *
75315364 CACTA--TATATAGTATATTTCTAA
1 CACTATTTATATAGTATACTTCAAA
75315387 CACTATT
1 CACTATT
75315394 ACTATTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
22 6 0.24
23 14 0.56
25 5 0.20
ACGTcount: A:0.38, C:0.16, G:0.02, T:0.44
Consensus pattern (25 bp):
CACTATTTATATAGTATACTTCAAA
Found at i:75315388 original size:23 final size:22
Alignment explanation
Indices: 75315347--75315392 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
75315337 TTCACTATTT
75315347 TATATATATACTTCAAACACTA
1 TATATATATACTTCAAACACTA
* *
75315369 TATATAGTATATTTCTAACACTA
1 TATATA-TATACTTCAAACACTA
75315392 T
1 T
75315393 TACTATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.41
Consensus pattern (22 bp):
TATATATATACTTCAAACACTA
Found at i:75317325 original size:56 final size:56
Alignment explanation
Indices: 75317255--75317366 Score: 170
Period size: 56 Copynumber: 2.0 Consensus size: 56
75317245 ATTGAATATC
* * * *
75317255 AGTGTCACACCAACACAAGCTAACAATGTTAGTGGAGAGGTACCACCAACCAATGT
1 AGTGTCACACCAACACAAACTAACAATGTTAGTAGAAAAGTACCACCAACCAATGT
* *
75317311 AGTGTCACACCAACACAAACTAACAATGTTAGTAGAAAAGTACCACCGACTAATGT
1 AGTGTCACACCAACACAAACTAACAATGTTAGTAGAAAAGTACCACCAACCAATGT
75317367 GACAGAATAC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.19
Consensus pattern (56 bp):
AGTGTCACACCAACACAAACTAACAATGTTAGTAGAAAAGTACCACCAACCAATGT
Found at i:75317531 original size:20 final size:19
Alignment explanation
Indices: 75317494--75317540 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
75317484 AGGAATAAAC
*
75317494 TAAAAA-TAAAAACCAAAA
1 TAAAAATTATAAACCAAAA
*
75317512 TATAAATTATAAACCAAAAA
1 TAAAAATTATAAACC-AAAA
75317532 TAAAAATTA
1 TAAAAATTA
75317541 AAATTGTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 5 0.21
19 7 0.29
20 12 0.50
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.21
Consensus pattern (19 bp):
TAAAAATTATAAACCAAAA
Found at i:75319207 original size:24 final size:23
Alignment explanation
Indices: 75319156--75319209 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
75319146 TTTCTTTTAA
* *
75319156 ATCTATTTATATTTATATATGTTT
1 ATCT-TTTAAATTTATATATATTT
75319180 -TCTTTTAAATTTATATATAATTT
1 ATCTTTTAAATTTATATAT-ATTT
75319203 ATCTTTT
1 ATCTTTT
75319210 TAAAGTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 14 0.54
23 6 0.23
24 6 0.23
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.63
Consensus pattern (23 bp):
ATCTTTTAAATTTATATATATTT
Found at i:75319429 original size:19 final size:19
Alignment explanation
Indices: 75319407--75319443 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
75319397 AATATATTAT
75319407 TTATTTTTATT-TCTATTTC
1 TTATTTTT-TTATCTATTTC
75319426 TTATTTTTTTATCTATTT
1 TTATTTTTTTATCTATTT
75319444 TAAAATTTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (19 bp):
TTATTTTTTTATCTATTTC
Found at i:75321676 original size:34 final size:34
Alignment explanation
Indices: 75321633--75321699 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
75321623 ATGCAAGTAT
75321633 CTCAAACAATAGAAAATAGATCGAAAACGACATA
1 CTCAAACAATAGAAAATAGATCGAAAACGACATA
*
75321667 CTCAAACAATAGAAAATAGATCGAAAATGACAT
1 CTCAAACAATAGAAAATAGATCGAAAACGACAT
75321700 TCTAAGACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.55, C:0.16, G:0.12, T:0.16
Consensus pattern (34 bp):
CTCAAACAATAGAAAATAGATCGAAAACGACATA
Found at i:75325373 original size:16 final size:17
Alignment explanation
Indices: 75325352--75325393 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
75325342 CGTTTGGCCC
*
75325352 TTTAAATTTTATA-AAA
1 TTTAAATTTAATAGAAA
75325368 TTTAAATTTAATAGAAA
1 TTTAAATTTAATAGAAA
*
75325385 ATTAAATTT
1 TTTAAATTT
75325394 CATTTGAGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
TTTAAATTTAATAGAAA
Found at i:75326439 original size:22 final size:23
Alignment explanation
Indices: 75326397--75326445 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
75326387 GAAGGTAACG
*
75326397 TAAAAGAAAAAAAAAGGAAAG-T
1 TAAAAGAAAAAAAAAGAAAAGAT
*
75326419 TAAAA-AAAATAAAAGAAAAAGAT
1 TAAAAGAAAAAAAAAG-AAAAGAT
75326442 TAAA
1 TAAA
75326446 TTGCTCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 9 0.39
22 9 0.39
23 5 0.22
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (23 bp):
TAAAAGAAAAAAAAAGAAAAGAT
Found at i:75327196 original size:16 final size:16
Alignment explanation
Indices: 75327177--75327207 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
75327167 TTATCAAGAC
75327177 AAAATTAACTTCATTT
1 AAAATTAACTTCATTT
75327193 AAAATTAACTTCATT
1 AAAATTAACTTCATT
75327208 CCTATTCTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (16 bp):
AAAATTAACTTCATTT
Found at i:75334880 original size:25 final size:24
Alignment explanation
Indices: 75334826--75334882 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
75334816 ATATTATTAA
*
75334826 TTTTTTAATAAAAATTTTATAACT
1 TTTTTTAATAAAAATTTTACAACT
* *
75334850 TATTTTTAATAAATTATGTTTACAATT
1 T-TTTTTAATAAA-AAT-TTTACAACT
75334877 TTTTTT
1 TTTTTT
75334883 GATTTTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 1 0.04
25 11 0.41
26 7 0.26
27 8 0.30
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (24 bp):
TTTTTTAATAAAAATTTTACAACT
Found at i:75337917 original size:4 final size:4
Alignment explanation
Indices: 75337908--75337932 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
75337898 TTTATACATG
75337908 TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA T
75337933 ATGCATATAT
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:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:75338474 original size:15 final size:16
Alignment explanation
Indices: 75338454--75338484 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
75338444 CTATTTGGAG
75338454 TTAATTTTT-TTAATT
1 TTAATTTTTATTAATT
75338469 TTAATTTTTATTAATT
1 TTAATTTTTATTAATT
75338485 AATTAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTAATTTTTATTAATT
Found at i:75342842 original size:30 final size:30
Alignment explanation
Indices: 75342801--75342861 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
75342791 AAGATCAAAG
75342801 ATTGCTTACTTAGTTTAGATTAATAATCTT
1 ATTGCTTACTTAGTTTAGATTAATAATCTT
*
75342831 ATTGTTTACTTAGTTTAGATTAATAATCTT
1 ATTGCTTACTTAGTTTAGATTAATAATCTT
75342861 A
1 A
75342862 CCTTTGGGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.51
Consensus pattern (30 bp):
ATTGCTTACTTAGTTTAGATTAATAATCTT
Found at i:75353893 original size:31 final size:31
Alignment explanation
Indices: 75353850--75353911 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
75353840 AGTTTTTTAC
*
75353850 TATTCTTGTATTTAGA-ATTTATATGATTATT
1 TATTCTTGTATTTACACATTT-TATGATTATT
*
75353881 TATTCCTT-TATTTACACATTTTATTATTATT
1 TATT-CTTGTATTTACACATTTTATGATTATT
75353912 ACTATTAGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 20 0.74
32 7 0.26
ACGTcount: A:0.27, C:0.08, G:0.05, T:0.60
Consensus pattern (31 bp):
TATTCTTGTATTTACACATTTTATGATTATT
Found at i:75363555 original size:89 final size:89
Alignment explanation
Indices: 75363445--75363800 Score: 299
Period size: 89 Copynumber: 3.9 Consensus size: 89
75363435 AGTCATCTTG
*
75363445 GCGAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATCAAAGACACAAATCTTATCTCCATAAAG
1 GCGAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATCAAAGACACAAATCTTATCTCCCTAAAG
*
75363510 TTGTAGTGGAGCAGATTGAAGATA
66 TTGCAGTGGAGCAGATTGAAGATA
* * * *
75363534 GCGAATCTTATTTTCCTGAAGTTGCAGTGGAA-CAGATTAAAGCTACAAATTACATATCTTATCT
1 GCGAATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATCAAAG--AC-----ACAAATCTTATCT
* * * *
75363598 CCCTGAAGTTGCAGTGGAGTAGATTTAAAATA
58 CCCTAAAGTTGCAGTGGAGCAGATTGAAGATA
** * * * ** ** * **
75363630 GAAAATCTTGTCTCTCTGAAGTTGCAGT-AGAGCAGATTAAAGTTATGAACCTTATCTCCCTAGT
1 GCGAATCTTATCTCCCTGAAGTTGCAGTGA-AGCAGATCAAAGACACAAATCTTATCTCCCTAAA
* * *
75363694 GTTGTAGTGGAGCAGGTTGAAGTTA
65 GTTGCAGTGGAGCAGATTGAAGATA
* * * *
75363719 -C-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTGAAGATAGCAAATCTTATCTCTCTA
1 GCGAA-TCTTATCTCCCTGAAGTTGCAGTGAAGCAGATC-AAAGACA-CAAATCTTATCTCCCTA
*
75363781 AAGTTGCAGTGGAACAGATT
63 AAGTTGCAGTGGAGCAGATT
75363801 AAAGCTACAA
Statistics
Matches: 206, Mismatches: 47, Indels: 28
0.73 0.17 0.10
Matches are distributed among these distances:
87 2 0.01
88 32 0.16
89 95 0.46
90 3 0.01
91 2 0.01
94 1 0.00
95 1 0.00
96 70 0.34
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30
Consensus pattern (89 bp):
GCGAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATCAAAGACACAAATCTTATCTCCCTAAAG
TTGCAGTGGAGCAGATTGAAGATA
Found at i:75363637 original size:96 final size:96
Alignment explanation
Indices: 75363493--75363671 Score: 234
Period size: 96 Copynumber: 1.9 Consensus size: 96
75363483 AAAGACACAA
* * ** * *
75363493 ATCTTATCTCCATAAAGTTGTAGTGGAGCAGATTGAAGATAGCGAATCTTAT-TTTCCTGAAGTT
1 ATCTTATCTCCATAAAGTTGCAGTGGAGCAGATTGAAAATAGAAAATCTTGTCTCT-CTGAAGTT
*
75363557 GCAGTGGAACAGATTAAAGCTACAAATTACAT
65 GCAGTAGAACAGATTAAAGCTACAAATTACAT
* * * *
75363589 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTTAAAATAGAAAATCTTGTCTCTCTGAAGTTG
1 ATCTTATCTCCATAAAGTTGCAGTGGAGCAGATTGAAAATAGAAAATCTTGTCTCTCTGAAGTTG
*
75363654 CAGTAGAGCAGATTAAAG
66 CAGTAGAACAGATTAAAG
75363672 TTATGAACCT
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
96 68 0.97
97 2 0.03
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.31
Consensus pattern (96 bp):
ATCTTATCTCCATAAAGTTGCAGTGGAGCAGATTGAAAATAGAAAATCTTGTCTCTCTGAAGTTG
CAGTAGAACAGATTAAAGCTACAAATTACAT
Found at i:75363707 original size:44 final size:44
Alignment explanation
Indices: 75363591--75363810 Score: 167
Period size: 44 Copynumber: 5.0 Consensus size: 44
75363581 AATTACATAT
* * * **
75363591 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTTAAA-ATAGAAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGTTA-CAAGC
* * * *
75363636 CTTGTCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGTTATGAA-C
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA-CAAGC
* * * * *
75363680 CTTATCTCCCT-AGTGTTGTAGTGGAGCAGGTTGAAGTTACAAGT
1 CTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTAAAGTTACAAGC
* * * **
75363724 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA-CAAGC
* * * *
75363769 CTTATCTCTCTAAAGTTGCAGTGGAACAGATTAAAGCTACAA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAA
75363811 ATTACATATC
Statistics
Matches: 141, Mismatches: 29, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
43 3 0.02
44 70 0.50
45 68 0.48
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGC
Found at i:75365741 original size:18 final size:18
Alignment explanation
Indices: 75365718--75365752 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
75365708 TACTGAAGAA
75365718 TTGACTGCTACCGAATAC
1 TTGACTGCTACCGAATAC
* *
75365736 TTGACTGTTACTGAATA
1 TTGACTGCTACCGAATA
75365753 AATGATTGAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (18 bp):
TTGACTGCTACCGAATAC
Found at i:75365790 original size:24 final size:22
Alignment explanation
Indices: 75365744--75365790 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
75365734 ACTTGACTGT
* *
75365744 TACTGAATAAATGATTGACTGA
1 TACTGAATAAATGATTAAATGA
75365766 TACTGAATAAAAATGATTAAATGA
1 TACTGAAT--AAATGATTAAATGA
75365790 T
1 T
75365791 TGTTATTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
24 13 0.62
ACGTcount: A:0.47, C:0.06, G:0.15, T:0.32
Consensus pattern (22 bp):
TACTGAATAAATGATTAAATGA
Found at i:75365812 original size:20 final size:20
Alignment explanation
Indices: 75365787--75365824 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
75365777 AATGATTAAA
*
75365787 TGATTGTTATTGAAAAATAC
1 TGATTGTTATCGAAAAATAC
75365807 TGATTGTTATCGAAAAAT
1 TGATTGTTATCGAAAAAT
75365825 GGATTGCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.39
Consensus pattern (20 bp):
TGATTGTTATCGAAAAATAC
Found at i:75367029 original size:44 final size:45
Alignment explanation
Indices: 75366979--75367597 Score: 292
Period size: 44 Copynumber: 13.7 Consensus size: 45
75366969 AGCTATGAAC
*
75366979 CTTATCTCCCTAG-AGTTGCAGTGGAGCAGGTTGAAGTTACAAGT
1 CTTATCTCCCTAGAAGTTGCAGTGGAGCAGATTGAAGTTACAAGT
* * *
75367023 CTTATCTCCCT-GAAGTTGCAGTGGAGCAGACTGAAGATGGA-AAAT
1 CTTATCTCCCTAGAAGTTGCAGTGGAGCAGATTGAAG-T-TACAAGT
** * * ** * **
75367068 CTTATCTATCTA-AAGTTGCAGTAGAGCAGATTAAACCTATAAAC
1 CTTATCTCCCTAGAAGTTGCAGTGGAGCAGATTGAAGTTACAAGT
* * * * * *
75367112 CTTATCTCCCT-GAATTTGCAGCGGAGCA-AGTTAAAAATAAACAAAT
1 CTTATCTCCCTAGAAGTTGCAGTGGAGCAGA-TT-GAAGT-TACAAGT
* * * * *
75367158 CTTGTCTTCC-AGAAGTTGCAGTGAAGCAGGTTGAAATTACAAGT
1 CTTATCTCCCTAGAAGTTGCAGTGGAGCAGATTGAAGTTACAAGT
* ** * * * *
75367202 TTTATCTTTCTA-AAGTTACAGTGGAGCAAACTGAAGATAGCGAA-T
1 CTTATCTCCCTAGAAGTTGCAGTGGAGCAGATTGAAGTTA-C-AAGT
* * * * *
75367247 CTTATTTCCCTA-AAGTTGCAGTGGAACTGATTAAAGCTACAAATTATGGCGAAT
1 CTTATCTCCCTAGAAGTTGCAGTGGAGCAGATTGAAGTTAC--A--A----G--T
* * **
75367301 ATTATCTCCCT-GAAATTGCAGTGGAGCAGATTGAAGCCACTAA--
1 CTTATCTCCCTAGAAGTTGCAGTGGAGCAGATTGAAGTTAC-AAGT
* *
75367344 CATTATCTCCCT-GAAGTTGCAGTGGAGTAGGTT-ACAGTTACAAGT
1 C-TTATCTCCCTAGAAGTTGCAGTGGAGCAGATTGA-AGTTACAAGT
* * * *
75367389 CTTATCTCCCTA-AAGTTGCAGTGGAGGAGATCGAAGATAGCAAAT
1 CTTATCTCCCTAGAAGTTGCAGTGGAGCAGATTGAAGTTA-CAAGT
* * * *
75367434 CTTATCTCCCT-GAAGTTGCAGTGGAGTAGATTAAAGCTAGAAGT
1 CTTATCTCCCTAGAAGTTGCAGTGGAGCAGATTGAAGTTACAAGT
* * * * *
75367478 CTAATCTCCCTA-AAGTTACAGTGGAACAGATTGAAGATAGTGAA-T
1 CTTATCTCCCTAGAAGTTGCAGTGGAGCAGATTGAAGTTA--CAAGT
* * * * *
75367523 TTTATCTCCC-CGAAGTTGTAGTAGAGCAGATTGAAGCTACTAA-T
1 CTTATCTCCCTAGAAGTTGCAGTGGAGCAGATTGAAGTTAC-AAGT
** * *
75367567 CTTATCTTTCT-GAAGTTGTAGTGGAGTAGAT
1 CTTATCTCCCTAGAAGTTGCAGTGGAGCAGAT
75367598 GGAAACAACA
Statistics
Matches: 437, Mismatches: 99, Indels: 78
0.71 0.16 0.13
Matches are distributed among these distances:
43 6 0.01
44 218 0.50
45 143 0.33
46 34 0.08
47 1 0.00
51 1 0.00
53 1 0.00
54 33 0.08
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (45 bp):
CTTATCTCCCTAGAAGTTGCAGTGGAGCAGATTGAAGTTACAAGT
Found at i:75367455 original size:89 final size:89
Alignment explanation
Indices: 75367302--75367597 Score: 312
Period size: 89 Copynumber: 3.3 Consensus size: 89
75367292 ATGGCGAATA
** *
75367302 TTATCTCCCTGAAA-TTGCAGTGGAGCAGATTGAAGCCA-CTAA-CATTATCTCCCTGAAGTTGC
1 TTATCTCCCT-AAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATC-TTATCTCCCTGAAGTTGC
* * *
75367364 AGTGGAGTAGGTTACAGTTACAAGTC
64 AGTGGAGTAGATTAAAGCTACAAGTC
* *
75367390 TTATCTCCCTAAAGTTGCAGTGGAGGAGATCGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAG
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAG
*
75367455 TGGAGTAGATTAAAGCTAGAAGTC
66 TGGAGTAGATTAAAGCTACAAGTC
* * * ** * * *
75367479 TAATCTCCCTAAAGTTACAGTGGAACAGATTGAAGATAGTGAATTTTATCTCCCCGAAGTTGTAG
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAG
* * *
75367544 TAGAGCAGATTGAAGCTACTAA-TC
66 TGGAGTAGATTAAAGCTAC-AAGTC
** * * *
75367568 TTATCTTTCTGAAGTTGTAGTGGAGTAGAT
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGAT
75367598 GGAAACAACA
Statistics
Matches: 173, Mismatches: 31, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
87 3 0.02
88 30 0.17
89 137 0.79
90 3 0.02
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (89 bp):
TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAG
TGGAGTAGATTAAAGCTACAAGTC
Found at i:75369228 original size:9 final size:9
Alignment explanation
Indices: 75369216--75369241 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
75369206 CACATTTTAT
75369216 TATTATTAC
1 TATTATTAC
75369225 TATTATTAC
1 TATTATTAC
75369234 TATTATTA
1 TATTATTA
75369242 TTGTATTTAT
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:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (9 bp):
TATTATTAC
Found at i:75372836 original size:13 final size:13
Alignment explanation
Indices: 75372818--75372844 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
75372808 AGTTTACTAA
75372818 TTTTATTGATTAT
1 TTTTATTGATTAT
75372831 TTTTATTGATTAT
1 TTTTATTGATTAT
75372844 T
1 T
75372845 AATATTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.70
Consensus pattern (13 bp):
TTTTATTGATTAT
Found at i:75373383 original size:10 final size:12
Alignment explanation
Indices: 75373353--75373381 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
75373343 TGTAATTTAT
75373353 ATATATAAATAA
1 ATATATAAATAA
75373365 ATATATAAATAA
1 ATATATAAATAA
75373377 ATATA
1 ATATA
75373382 AAAACTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
ATATATAAATAA
Found at i:75379957 original size:43 final size:43
Alignment explanation
Indices: 75379909--75380069 Score: 170
Period size: 43 Copynumber: 3.7 Consensus size: 43
75379899 AGGATTTCCA
*
75379909 ATATGTG-TTCTCATGTAAGACAACGTCTGGGACATTGGCATCG
1 ATATGTGATT-TCATGTAAGACCACGTCTGGGACATTGGCATCG
* * *
75379952 ATATGTGATTTCGA-GTAAGACCATGCCTGGGACATCGGCATCG
1 ATATGTGATTTC-ATGTAAGACCACGTCTGGGACATTGGCATCG
* * *
75379995 -TAATTGTGA-TTCGTGTAAGACC-CTGTCTGGGACAGTGGCATTG
1 AT-A-TGTGATTTCATGTAAGACCAC-GTCTGGGACATTGGCATCG
*
75380038 ACATGTGATTTCATGTAAGACCACGTCTGGGA
1 ATATGTGATTTCATGTAAGACCACGTCTGGGA
75380070 TGTTCGCATT
Statistics
Matches: 97, Mismatches: 12, Indels: 18
0.76 0.09 0.14
Matches are distributed among these distances:
42 6 0.06
43 82 0.85
44 9 0.09
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
ATATGTGATTTCATGTAAGACCACGTCTGGGACATTGGCATCG
Found at i:75380923 original size:8 final size:8
Alignment explanation
Indices: 75380892--75380939 Score: 55
Period size: 8 Copynumber: 5.9 Consensus size: 8
75380882 GTAAATAGTA
75380892 ATAATAATT
1 ATAATAA-T
75380901 ACTAA-AAT
1 A-TAATAAT
75380909 ATAATAAT
1 ATAATAAT
75380917 A-ATATAAT
1 ATA-ATAAT
75380925 ATAATAAT
1 ATAATAAT
75380933 ATAATAA
1 ATAATAA
75380940 AAGAATAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
7 4 0.11
8 24 0.69
9 4 0.11
10 3 0.09
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (8 bp):
ATAATAAT
Found at i:75380930 original size:13 final size:13
Alignment explanation
Indices: 75380912--75380938 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
75380902 CTAAAATATA
75380912 ATAATAATATAAT
1 ATAATAATATAAT
75380925 ATAATAATATAAT
1 ATAATAATATAAT
75380938 A
1 A
75380939 AAAGAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATAATATAAT
Found at i:75381867 original size:7 final size:7
Alignment explanation
Indices: 75381855--75381880 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
75381845 TTCTGAAAAG
75381855 GTACTCT
1 GTACTCT
75381862 GTACTCT
1 GTACTCT
75381869 GTACTCT
1 GTACTCT
75381876 GTACT
1 GTACT
75381881 TGACTATGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.27, G:0.15, T:0.42
Consensus pattern (7 bp):
GTACTCT
Found at i:75382793 original size:13 final size:13
Alignment explanation
Indices: 75382774--75382806 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
75382764 ATGGGAGACC
75382774 CACGGGCAGGCCA
1 CACGGGCAGGCCA
*
75382787 TACGGGCAGGCCA
1 CACGGGCAGGCCA
75382800 CACGGGC
1 CACGGGC
75382807 GTGTGCCCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.21, C:0.36, G:0.39, T:0.03
Consensus pattern (13 bp):
CACGGGCAGGCCA
Found at i:75387942 original size:19 final size:20
Alignment explanation
Indices: 75387918--75387955 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
75387908 TAATTAGATT
75387918 TTAATTAA-GTAAATTTAGC
1 TTAATTAAGGTAAATTTAGC
*
75387937 TTAATTAAGGTTAATTTAG
1 TTAATTAAGGTAAATTTAG
75387956 TGTAAGGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
TTAATTAAGGTAAATTTAGC
Found at i:75392768 original size:4 final size:4
Alignment explanation
Indices: 75392759--75392785 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
75392749 ATAGAACTAA
75392759 TAAT TAAT TAAT TAAT TAAT TAAT TAA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAA
75392786 GTAAAGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
TAAT
Found at i:75396010 original size:22 final size:22
Alignment explanation
Indices: 75395966--75396010 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
75395956 TTAATCATTA
* **
75395966 TTATTCAGTATCAGTCATTTAT
1 TTATTCAGTAACAGTCAAATAT
75395988 TTATTCAGTAACAGTCAAATAT
1 TTATTCAGTAACAGTCAAATAT
75396010 T
1 T
75396011 CGGTACAGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.44
Consensus pattern (22 bp):
TTATTCAGTAACAGTCAAATAT
Found at i:75396375 original size:23 final size:25
Alignment explanation
Indices: 75396339--75396384 Score: 62
Period size: 23 Copynumber: 1.9 Consensus size: 25
75396329 ACTTTCAAAT
75396339 TTTCAATTTCATTT-GTA-ATTTAA
1 TTTCAATTTCATTTAGTACATTTAA
75396362 TTTCAA-TTCAATTTAGTACATTT
1 TTTCAATTTC-ATTTAGTACATTT
75396385 TTCCATATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 3 0.15
23 10 0.50
24 3 0.15
25 4 0.20
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.54
Consensus pattern (25 bp):
TTTCAATTTCATTTAGTACATTTAA
Found at i:75397134 original size:13 final size:13
Alignment explanation
Indices: 75397116--75397146 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
75397106 CCCAATTTTC
75397116 TCTTTTCTTCCTT
1 TCTTTTCTTCCTT
*
75397129 TCTTTTCTTTCTT
1 TCTTTTCTTCCTT
75397142 TCTTT
1 TCTTT
75397147 CTTTTTCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
TCTTTTCTTCCTT
Found at i:75397141 original size:17 final size:17
Alignment explanation
Indices: 75397119--75397151 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
75397109 AATTTTCTCT
75397119 TTTCTTCCTTTCTTTTC
1 TTTCTTCCTTTCTTTTC
*
75397136 TTTCTTTCTTTCTTTT
1 TTTCTTCCTTTCTTTT
75397152 TCTCCCTTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTCTTCCTTTCTTTTC
Found at i:75397392 original size:22 final size:23
Alignment explanation
Indices: 75397354--75397401 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
75397344 TAAAAATCTT
*
75397354 ATAATATAATATAATAA-CAATA
1 ATAATATAATATAATAATAAATA
*
75397376 ATAATATACT-TATATAATAAATA
1 ATAATATAATATA-ATAATAAATA
75397399 ATA
1 ATA
75397402 CTTTTATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 13 0.59
23 7 0.32
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (23 bp):
ATAATATAATATAATAATAAATA
Found at i:75399289 original size:44 final size:44
Alignment explanation
Indices: 75399216--75399307 Score: 112
Period size: 44 Copynumber: 2.1 Consensus size: 44
75399206 TCGAAGTAAC
* * * *
75399216 AGTAACAGTATGACACACATGGTGTCTCATCGACTCAAAGTCGA
1 AGTAACAGTACGACACACATAGTGCCTCATCAACTCAAAGTCGA
** * *
75399260 AGTAACAGTACGACACTTATAGTGCCTCATTAACTCAAGGTCGA
1 AGTAACAGTACGACACACATAGTGCCTCATCAACTCAAAGTCGA
75399304 AGTA
1 AGTA
75399308 TCCCTGAACA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (44 bp):
AGTAACAGTACGACACACATAGTGCCTCATCAACTCAAAGTCGA
Found at i:75400344 original size:12 final size:12
Alignment explanation
Indices: 75400327--75400360 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
75400317 AAAACCTGAG
75400327 TTTTTCCTTTTC
1 TTTTTCCTTTTC
75400339 TTTTT-CTTTTC
1 TTTTTCCTTTTC
75400350 TTCTTTCCTTT
1 TT-TTTCCTTT
75400361 CTCCCTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 8 0.40
12 8 0.40
13 4 0.20
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCCTTTTC
Found at i:75400457 original size:3 final size:3
Alignment explanation
Indices: 75400442--75400490 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
75400432 ATATATTAGT
* *
75400442 TAA TAA TAT TAA TAA TAA TACA TTA TAA TAA TAA T-A TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
75400486 TAA TA
1 TAA TA
75400491 TTTAATTCAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 4 0.10
3 33 0.85
4 2 0.05
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:75400472 original size:16 final size:16
Alignment explanation
Indices: 75400446--75400490 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
75400436 ATTAGTTAAT
75400446 AATATTAATAATAATAC
1 AATA-TAATAATAATAC
* *
75400463 ATTATAATAATAATAT
1 AATATAATAATAATAC
75400479 AATATAATAATA
1 AATATAATAATA
75400491 TTTAATTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 22 0.88
17 3 0.12
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (16 bp):
AATATAATAATAATAC
Found at i:75400488 original size:13 final size:14
Alignment explanation
Indices: 75400442--75400491 Score: 61
Period size: 13 Copynumber: 3.6 Consensus size: 14
75400432 ATATATTAGT
75400442 TAATAATATTAATAA
1 TAATAATA-TAATAA
75400457 TAATACAT-T-ATAA
1 TAATA-ATATAATAA
75400470 TAATAATATAAT-A
1 TAATAATATAATAA
75400483 TAATAATAT
1 TAATAATAT
75400492 TTAATTCATA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
12 2 0.06
13 20 0.62
14 3 0.09
15 5 0.16
16 2 0.06
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATAATATAATAA
Found at i:75401125 original size:10 final size:11
Alignment explanation
Indices: 75401109--75401150 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
75401099 ATTCTTATAC
75401109 CTAATTAACCT
1 CTAATTAACCT
*
75401120 -TAATTAAACT
1 CTAATTAACCT
*
75401130 CTAATTAACCA
1 CTAATTAACCT
75401141 CTCAATTAAC
1 CT-AATTAAC
75401151 TTTGTAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 9 0.35
11 10 0.38
12 7 0.27
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (11 bp):
CTAATTAACCT
Found at i:75402655 original size:48 final size:48
Alignment explanation
Indices: 75402553--75402656 Score: 124
Period size: 48 Copynumber: 2.1 Consensus size: 48
75402543 GGGACACGCC
* *
75402553 CGTGTGAGGTGGTTTAGGCCGTGTTTAGAGTCTGCTAAATAGACACGG
1 CGTGTGAGGTGGCTTAGGCCGTGTTTAGAATCTGCTAAATAGACACGG
*
75402601 CTGTGTG-GTGTGGCTTAGGCCGTG-TT-GCAATCTGTTAAATAGACACGGG
1 C-GTGTGAG-GTGGCTTAGGCCGTGTTTAG-AATCTGCTAAATAGACAC-GG
75402650 CGTGTGA
1 CGTGTGA
75402657 ACTACCCGTG
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
47 1 0.02
48 25 0.52
49 22 0.46
ACGTcount: A:0.19, C:0.15, G:0.36, T:0.30
Consensus pattern (48 bp):
CGTGTGAGGTGGCTTAGGCCGTGTTTAGAATCTGCTAAATAGACACGG
Found at i:75409242 original size:27 final size:25
Alignment explanation
Indices: 75409210--75409267 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 25
75409200 TACTAACAAA
*
75409210 TTAATAACATTAAGTACAGA-TTAACCT
1 TTAATAACA-TAA-T-CAGACTCAACCT
75409237 TTAAT-ACATAATCAGACTCAACCT
1 TTAATAACATAATCAGACTCAACCT
75409261 TTAATAA
1 TTAATAA
75409268 TTGAAGAGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
23 4 0.14
24 12 0.43
25 4 0.14
26 3 0.11
27 5 0.18
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (25 bp):
TTAATAACATAATCAGACTCAACCT
Found at i:75417671 original size:21 final size:22
Alignment explanation
Indices: 75417634--75417678 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
75417624 ATGATATAAA
*
75417634 ATAAAATAAATTAAAATATTAT
1 ATAAAATAAATTAAAATAATAT
75417656 ATAAATATAAA-T-AAATAATAT
1 ATAAA-ATAAATTAAAATAATAT
75417677 AT
1 AT
75417679 TATTAGCTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 10 0.48
22 6 0.29
23 5 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
ATAAAATAAATTAAAATAATAT
Found at i:75419092 original size:14 final size:14
Alignment explanation
Indices: 75419052--75419097 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
75419042 AACAATTTTC
*
75419052 TAATATAAATTTAA
1 TAATAAAAATTTAA
*
75419066 TATTTATAAAATTTAA
1 TA-ATA-AAAATTTAA
75419082 TAATAAAAATTTAA
1 TAATAAAAATTTAA
75419096 TA
1 TA
75419098 CTTAATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 13 0.48
15 4 0.15
16 10 0.37
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TAATAAAAATTTAA
Found at i:75421195 original size:3 final size:3
Alignment explanation
Indices: 75421189--75421225 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
75421179 AGTCACTTCT
*
75421189 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA CCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
75421226 GTTGGGTGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (3 bp):
TCA
Found at i:75429981 original size:12 final size:12
Alignment explanation
Indices: 75429964--75429998 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
75429954 CCGGTCCGTC
75429964 TATATTAATTTT
1 TATATTAATTTT
*
75429976 TATATTATTTTT
1 TATATTAATTTT
75429988 TATA-TAATTTT
1 TATATTAATTTT
75429999 AAAATATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TATATTAATTTT
Found at i:75430153 original size:30 final size:29
Alignment explanation
Indices: 75430119--75430182 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 29
75430109 TAACTTAATA
75430119 AACAAATGTT-TCTAAAATAATAACAAAATT
1 AACAAAT-TTCTCTAAAATAATAA-AAAATT
*
75430149 AACAAATTTCTTTAAAATAATAAAAAATT
1 AACAAATTTCTCTAAAATAATAAAAAATT
75430178 AACAA
1 AACAA
75430183 TAAAATAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 13 0.41
30 19 0.59
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.30
Consensus pattern (29 bp):
AACAAATTTCTCTAAAATAATAAAAAATT
Found at i:75430226 original size:14 final size:14
Alignment explanation
Indices: 75430207--75430280 Score: 55
Period size: 14 Copynumber: 5.1 Consensus size: 14
75430197 TACAATATCT
*
75430207 AAATAATAACAATA
1 AAATAATAAAAATA
75430221 AAATAATAAAAATA
1 AAATAATAAAAATA
*
75430235 TAATAGCA-AAATAATA
1 AAATA--ATAAA-AATA
75430251 ACAA-AATAAATAAT-
1 A-AATAATAAA-AATA
75430265 AAATAATATAAAATA
1 AAATAATA-AAAATA
75430280 A
1 A
75430281 TATTAAAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 15
0.73 0.04 0.22
Matches are distributed among these distances:
13 2 0.04
14 26 0.53
15 13 0.27
16 6 0.12
17 2 0.04
ACGTcount: A:0.72, C:0.04, G:0.01, T:0.23
Consensus pattern (14 bp):
AAATAATAAAAATA
Found at i:75430237 original size:22 final size:22
Alignment explanation
Indices: 75430207--75430288 Score: 71
Period size: 22 Copynumber: 3.7 Consensus size: 22
75430197 TACAATATCT
*
75430207 AAATAATAACAATAAAATAATAA
1 AAAT-ATAATAATAAAATAATAA
**
75430230 AAATATAATAGCAAAATAATAA
1 AAATATAATAATAAAATAATAA
*
75430252 CAAA-ATAAATAAT-AAATAATAT
1 -AAATAT-AATAATAAAATAATAA
*
75430274 AAA-ATAATATTAAAA
1 AAATATAATAATAAAA
75430289 AAATTATCAT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
20 5 0.10
21 8 0.16
22 25 0.51
23 11 0.22
ACGTcount: A:0.71, C:0.04, G:0.01, T:0.24
Consensus pattern (22 bp):
AAATATAATAATAAAATAATAA
Found at i:75430257 original size:33 final size:32
Alignment explanation
Indices: 75430207--75430282 Score: 89
Period size: 36 Copynumber: 2.2 Consensus size: 32
75430197 TACAATATCT
*
75430207 AAATAATAACAATAAAATAATAAAAATATAATAGCA
1 AAATAATAACAA-AATA-AATAAAAA-ATAATA-CA
* *
75430243 AAATAATAACAAAATAAATAATAAATAATATA
1 AAATAATAACAAAATAAATAAAAAATAATACA
75430275 AAATAATA
1 AAATAATA
75430283 TTAAAAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 9 0.24
33 6 0.16
34 7 0.19
35 3 0.08
36 12 0.32
ACGTcount: A:0.71, C:0.04, G:0.01, T:0.24
Consensus pattern (32 bp):
AAATAATAACAAAATAAATAAAAAATAATACA
Found at i:75434161 original size:13 final size:14
Alignment explanation
Indices: 75434139--75434176 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
75434129 CTAAATTCTA
*
75434139 AATCCTAAATCTTG
1 AATCCTAAATCTCG
75434153 AAT-CTAAATCTCG
1 AATCCTAAATCTCG
75434166 AATCCTAAATC
1 AATCCTAAATC
75434177 CAAAACATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.32
Consensus pattern (14 bp):
AATCCTAAATCTCG
Found at i:75442142 original size:3 final size:3
Alignment explanation
Indices: 75442134--75442177 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
75442124 TAAAAGCTAA
* *
75442134 AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT GAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
75442178 AGGAAACAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:75442948 original size:20 final size:21
Alignment explanation
Indices: 75442919--75442958 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
75442909 TTTCCGTGTA
75442919 TTTTTAATTTTATAAATTTAG
1 TTTTTAATTTTATAAATTTAG
75442940 TTTTT-ATTTTATAAATTTA
1 TTTTTAATTTTATAAATTTA
75442959 AAAATTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (21 bp):
TTTTTAATTTTATAAATTTAG
Found at i:75443765 original size:6 final size:7
Alignment explanation
Indices: 75443744--75443768 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
75443734 TATAAAAATA
75443744 TTTATTT
1 TTTATTT
75443751 TTTATTT
1 TTTATTT
75443758 TTTATTT
1 TTTATTT
75443765 TTTA
1 TTTA
75443769 AGATTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTATTT
Found at i:75446493 original size:32 final size:31
Alignment explanation
Indices: 75446430--75446493 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 31
75446420 TTGACCCAAC
* **
75446430 TTAGTTCTTGTATTTTTCAAATTGGTTAATT
1 TTAGTCCTTGTATTTTTCAAATTGGAAAATT
* *
75446461 TTAGTCCTTGTACTTTTTGAAATTTGAAAATT
1 TTAGTCCTTGTA-TTTTTCAAATTGGAAAATT
75446493 T
1 T
75446494 AGTTCCGACC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 11 0.41
32 16 0.59
ACGTcount: A:0.25, C:0.08, G:0.12, T:0.55
Consensus pattern (31 bp):
TTAGTCCTTGTATTTTTCAAATTGGAAAATT
Found at i:75447060 original size:20 final size:17
Alignment explanation
Indices: 75447035--75447077 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
75447025 CAAACTACAA
75447035 ATTAATATAAAGATAATAAT
1 ATTAATA-AAAG-T-ATAAT
*
75447055 ATTAATAAAAGTTTAAT
1 ATTAATAAAAGTATAAT
75447072 ATTAAT
1 ATTAAT
75447078 GAAACCATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 10 0.45
18 1 0.05
19 4 0.18
20 7 0.32
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (17 bp):
ATTAATAAAAGTATAAT
Done.