Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 119 of 133
Found at i:22830849 original size:18 final size:18
Alignment explanation
Indices: 22830823--22830873 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
22830813 GGTAATCAAC
22830823 ACCAGAAAAAAAAAACAA
1 ACCAGAAAAAAAAAACAA
* *
22830841 ACCATAAAAAAAAACCAA
1 ACCAGAAAAAAAAAACAA
*
22830859 A-AAGAAAAAAGAAAA
1 ACCAGAAAAAA-AAAA
22830874 AGAGTTTTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 7 0.26
18 20 0.74
ACGTcount: A:0.78, C:0.14, G:0.06, T:0.02
Consensus pattern (18 bp):
ACCAGAAAAAAAAAACAA
Found at i:22832123 original size:13 final size:13
Alignment explanation
Indices: 22832107--22832133 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22832097 CCTATTTTGA
22832107 TTTGATTTGATTT
1 TTTGATTTGATTT
22832120 TTTGATTTGATTT
1 TTTGATTTGATTT
22832133 T
1 T
22832134 AATTTTTTTT
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:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (13 bp):
TTTGATTTGATTT
Found at i:22832138 original size:29 final size:29
Alignment explanation
Indices: 22832100--22832156 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
22832090 TCTATTTCCT
*
22832100 ATTTTGATTTGATTT-GATTTTTTGATTTG
1 ATTTTAATTTGATTTAGATTTTTT-ATTTG
**
22832129 ATTTTAATTTTTTTTAGATTTTTTATTT
1 ATTTTAATTTGATTTAGATTTTTTATTT
22832157 TTACTTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.19, C:0.00, G:0.11, T:0.70
Consensus pattern (29 bp):
ATTTTAATTTGATTTAGATTTTTTATTTG
Found at i:22832139 original size:18 final size:18
Alignment explanation
Indices: 22832101--22832140 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
22832091 CTATTTCCTA
*
22832101 TTTTGATTTGATTTGATT
1 TTTTGATTTGATTTGAAT
*
22832119 TTTTGATTTGATTTTAAT
1 TTTTGATTTGATTTGAAT
22832137 TTTT
1 TTTT
22832141 TTTAGATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.17, C:0.00, G:0.12, T:0.70
Consensus pattern (18 bp):
TTTTGATTTGATTTGAAT
Found at i:22836171 original size:17 final size:17
Alignment explanation
Indices: 22836149--22836197 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
22836139 TCTATAGTAT
22836149 TTTAATTAAATAAATAA
1 TTTAATTAAATAAATAA
* *
22836166 TTTAATTAACTAATTAA
1 TTTAATTAAATAAATAA
**
22836183 TGAAAATTAAATAAA
1 T-TTAATTAAATAAA
22836198 AAAAGGAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (17 bp):
TTTAATTAAATAAATAA
Found at i:22836245 original size:18 final size:18
Alignment explanation
Indices: 22836216--22836258 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
22836206 TAAAAATTCT
22836216 AATAAAA-T-AAAAATAA
1 AATAAAATTGAAAAATAA
22836232 GAA-AAAATTGAAAAATAA
1 -AATAAAATTGAAAAATAA
22836250 AATAAAATT
1 AATAAAATT
22836259 AAACGCGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.17
17 5 0.22
18 14 0.61
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (18 bp):
AATAAAATTGAAAAATAA
Found at i:22840285 original size:48 final size:48
Alignment explanation
Indices: 22840229--22840320 Score: 166
Period size: 48 Copynumber: 1.9 Consensus size: 48
22840219 CCCAGACCAG
*
22840229 CTACATCAATGGTATTTTCAGAGCTTGGCGGACACTCCAAAGGATACA
1 CTACATCAATGGTATTTTCAGAGCTTGGCGGACACTCAAAAGGATACA
*
22840277 CTACATCAATGGTATTTTCATAGCTTGGCGGACACTCAAAAGGA
1 CTACATCAATGGTATTTTCAGAGCTTGGCGGACACTCAAAAGGA
22840321 CACATAGGGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (48 bp):
CTACATCAATGGTATTTTCAGAGCTTGGCGGACACTCAAAAGGATACA
Found at i:22842508 original size:18 final size:20
Alignment explanation
Indices: 22842468--22842522 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
22842458 ATACATATGT
* *
22842468 TATTTTTTATTTCA-TTATC
1 TATTTTTAATTTTATTTATC
*
22842487 TATTTTT-ATTTTTTTTAT-
1 TATTTTTAATTTTATTTATC
22842505 TATTTTTAATTTTATTTA
1 TATTTTTAATTTTATTTA
22842523 ATTTCTTTGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 11 0.35
19 20 0.65
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (20 bp):
TATTTTTAATTTTATTTATC
Found at i:22843010 original size:21 final size:19
Alignment explanation
Indices: 22842972--22843011 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
22842962 GTTTTGAAGC
*
22842972 AAATTTTTTTAAATTTCTA
1 AAATTTTTTTAAAATTCTA
22842991 AAATTTTTTCTAAAAATTCTA
1 AAATTTTTT-T-AAAATTCTA
22843012 GAATCCAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 1 0.06
21 8 0.44
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (19 bp):
AAATTTTTTTAAAATTCTA
Found at i:22843465 original size:4 final size:4
Alignment explanation
Indices: 22843456--22843574 Score: 80
Period size: 4 Copynumber: 29.2 Consensus size: 4
22843446 TTTCATTTTC
* * * * *
22843456 ATTT ATTT ATTT ATTT -TTC ATTT ATTT GTAT ATTTT CTTT A-TT AATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A-TTT ATTT ATTT ATTT
** * * * * *
22843503 GCTT ATTT GTTT ATTT ATTT AGTG GTTT ATTT ATTT GTTT ATTTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A-TTT ATTT
22843552 ATTT ATTT ATTTT ATTT GATTT A
1 ATTT ATTT A-TTT ATTT -ATTT A
22843575 CATATTGAAG
Statistics
Matches: 87, Mismatches: 22, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
3 5 0.06
4 68 0.78
5 14 0.16
ACGTcount: A:0.21, C:0.03, G:0.07, T:0.70
Consensus pattern (4 bp):
ATTT
Found at i:22843714 original size:59 final size:60
Alignment explanation
Indices: 22843574--22843714 Score: 196
Period size: 60 Copynumber: 2.4 Consensus size: 60
22843564 TATTTGATTT
*
22843574 ACATATTGAAGGGTTCAAACTTCTAAAAATAAATTTTTGAATAAAAAATGAATCTTACCA
1 ACATATTGAAGGGTTCAAATTTCTAAAAATAAATTTTTGAATAAAAAATGAATCTTACCA
* * * * *
22843634 ACATGTTGGATGGTTTAAATTTCTAAAAA-AGAATTTTTGAAT-AAAAATGAATCTTGCCA
1 ACATATTGAAGGGTTCAAATTTCTAAAAATA-AATTTTTGAATAAAAAATGAATCTTACCA
*
22843693 ATATATTGAAGGGTTCAAATTT
1 ACATATTGAAGGGTTCAAATTT
22843715 AAAAAAAAAT
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
59 34 0.49
60 35 0.51
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (60 bp):
ACATATTGAAGGGTTCAAATTTCTAAAAATAAATTTTTGAATAAAAAATGAATCTTACCA
Found at i:22843722 original size:60 final size:59
Alignment explanation
Indices: 22843574--22843723 Score: 178
Period size: 59 Copynumber: 2.5 Consensus size: 59
22843564 TATTTGATTT
*
22843574 ACATATTGAAGGGTTCAAACTTCT-AAAAATAAATTTTTGAATAAAAAATGAATCTTACCA
1 ACATATTGAAGGGTTCAAA-TT-TAAAAAAAAAATTTTTGAATAAAAAATGAATCTTACCA
* * * * * * *
22843634 ACATGTTGGATGGTTTAAATTTCTAAAAAAGAATTTTTGAAT-AAAAATGAATCTTGCCA
1 ACATATTGAAGGGTTCAAATTT-AAAAAAAAAATTTTTGAATAAAAAATGAATCTTACCA
*
22843693 ATATATTGAAGGGTTCAAATTTAAAAAAAAA
1 ACATATTGAAGGGTTCAAATTTAAAAAAAAA
22843724 TAAAATTTTG
Statistics
Matches: 74, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
58 8 0.11
59 35 0.47
60 31 0.42
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.33
Consensus pattern (59 bp):
ACATATTGAAGGGTTCAAATTTAAAAAAAAAATTTTTGAATAAAAAATGAATCTTACCA
Found at i:22845789 original size:18 final size:16
Alignment explanation
Indices: 22845753--22845793 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 16
22845743 TTGGGTTCTG
22845753 TGAATTTATTTCATTT
1 TGAATTTATTTCATTT
*
22845769 TGAATTTGATTTGATTTT
1 TGAATTT-ATTTCA-TTT
22845787 TGAATTT
1 TGAATTT
22845794 CCTAAATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.32
17 5 0.23
18 10 0.45
ACGTcount: A:0.24, C:0.02, G:0.12, T:0.61
Consensus pattern (16 bp):
TGAATTTATTTCATTT
Found at i:22846101 original size:15 final size:13
Alignment explanation
Indices: 22846070--22846118 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
22846060 GATTTGATTA
22846070 TTTTA-TTTTAA-
1 TTTTATTTTTAAT
22846081 TTTTATTTTTAGAAT
1 TTTTATTTTT--AAT
22846096 TTTTATTTTTAAT
1 TTTTATTTTTAAT
*
22846109 TATTATTTTT
1 TTTTATTTTT
22846119 TTTCATCTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
11 5 0.15
12 4 0.12
13 12 0.36
14 2 0.06
15 10 0.30
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (13 bp):
TTTTATTTTTAAT
Found at i:22846119 original size:14 final size:14
Alignment explanation
Indices: 22846066--22846119 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
22846056 TTTTGATTTG
22846066 ATTATT-TTATTTTA
1 ATTATTATT-TTTTA
*
22846080 ATT-TTATTTTTAGA
1 ATTATTATTTTT-TA
*
22846094 ATTTTTA-TTTTTA
1 ATTATTATTTTTTA
22846107 ATTATTATTTTTT
1 ATTATTATTTTTT
22846120 TTCATCTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
13 12 0.36
14 18 0.55
15 3 0.09
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (14 bp):
ATTATTATTTTTTA
Found at i:22846129 original size:23 final size:22
Alignment explanation
Indices: 22846095--22846140 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
22846085 ATTTTTAGAA
* *
22846095 TTTTTATTTTTAATTATTATTT
1 TTTTTATCTTTAATTACTATTT
22846117 TTTTTCATCTTTAATTACTATTT
1 TTTTT-ATCTTTAATTACTATTT
22846140 T
1 T
22846141 ACTCATTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTTATCTTTAATTACTATTT
Found at i:22846146 original size:22 final size:23
Alignment explanation
Indices: 22846103--22846146 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
22846093 AATTTTTATT
* **
22846103 TTTAATTATTATTTTTTTTCATC
1 TTTAATTACTATTTTTACTCATC
22846126 TTTAATTACTA-TTTTACTCAT
1 TTTAATTACTATTTTTACTCAT
22846147 TACTTTAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTAATTACTATTTTTACTCATC
Found at i:22848187 original size:3 final size:3
Alignment explanation
Indices: 22848179--22848225 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
22848169 ATTAATCTTA
22848179 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22848226 AGAAAAAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:22849435 original size:15 final size:16
Alignment explanation
Indices: 22849412--22849447 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
22849402 ACTAATTTGA
22849412 TTTTGTTTCCTTT-TT
1 TTTTGTTTCCTTTCTT
*
22849427 TTTTTTTTCCTTTCTT
1 TTTTGTTTCCTTTCTT
22849443 TTTTG
1 TTTTG
22849448 CATAAACCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.81
Consensus pattern (16 bp):
TTTTGTTTCCTTTCTT
Found at i:22860198 original size:45 final size:46
Alignment explanation
Indices: 22860113--22860226 Score: 117
Period size: 45 Copynumber: 2.5 Consensus size: 46
22860103 TGATGGGAGG
* *
22860113 AGCCCTTCA-ATTCAATTTTTAAAGTTATCGAGCCCCTGATAAGAT-A
1 AGCCCTTCAGCTT-AATTTTTAAAGTTATCAAGCCCCTGATAAG-TGA
* * * * **
22860159 AG-CTTTTAGTTTAATTTTTAAAGTTATCAAGTCTTTGATAAGTGA
1 AGCCCTTCAGCTTAATTTTTAAAGTTATCAAGCCCCTGATAAGTGA
22860204 AGCCCTTCAGCTTAATTTTTAAA
1 AGCCCTTCAGCTTAATTTTTAAA
22860227 ATTGTTTAGC
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
44 1 0.02
45 33 0.60
46 21 0.38
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (46 bp):
AGCCCTTCAGCTTAATTTTTAAAGTTATCAAGCCCCTGATAAGTGA
Found at i:22860283 original size:6 final size:5
Alignment explanation
Indices: 22860267--22860313 Score: 55
Period size: 5 Copynumber: 10.0 Consensus size: 5
22860257 GGATTTGCTT
* *
22860267 CAAAA CAAAA -AACA -AAAA CAAAA CAAAA CAAAA CAAAA -AAAA TAAAA
1 CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA
22860314 ATTTTCTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
4 10 0.26
5 28 0.74
ACGTcount: A:0.83, C:0.15, G:0.00, T:0.02
Consensus pattern (5 bp):
CAAAA
Found at i:22862803 original size:21 final size:20
Alignment explanation
Indices: 22862770--22862809 Score: 55
Period size: 19 Copynumber: 1.9 Consensus size: 20
22862760 AACTGACTCT
22862770 CAAACTCAAATTAT-TTTTG
1 CAAACTCAAATTATATTTTG
22862789 CAAACTCAAAAATTATATTTT
1 CAAACTC--AAATTATATTTT
22862810 TAATAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (20 bp):
CAAACTCAAATTATATTTTG
Found at i:22864980 original size:45 final size:46
Alignment explanation
Indices: 22864895--22865008 Score: 126
Period size: 45 Copynumber: 2.5 Consensus size: 46
22864885 TAATGGGAGG
*
22864895 AGCCCTTCA-ATTCAATTTTTAAAGTTATCGAGCCCCTGATAAGAT-A
1 AGCCCTTCAGCTT-AATTTTTAAAGTTATCGAGCCCCTGATAAG-TGA
* * * * **
22864941 AG-CTTTTAGTTTAATTTTTAAAGTTATCGAGTCTTTGATAAGTGA
1 AGCCCTTCAGCTTAATTTTTAAAGTTATCGAGCCCCTGATAAGTGA
22864986 AGCCCTTCAGCTTAATTTTTAAA
1 AGCCCTTCAGCTTAATTTTTAAA
22865009 ATTGTTTAGC
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
44 1 0.02
45 34 0.61
46 21 0.38
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (46 bp):
AGCCCTTCAGCTTAATTTTTAAAGTTATCGAGCCCCTGATAAGTGA
Found at i:22865096 original size:6 final size:5
Alignment explanation
Indices: 22865049--22865095 Score: 64
Period size: 5 Copynumber: 10.0 Consensus size: 5
22865039 GGATTTGCTT
*
22865049 CAAAA CAAAA -AACA -AAAA CAAAA CAAAA CAAAA CAAAA -AAAA CAAAA
1 CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA
22865096 ATTTTCTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
4 10 0.26
5 28 0.74
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:22865814 original size:19 final size:18
Alignment explanation
Indices: 22865786--22865825 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
22865776 GTAGGGAACC
22865786 AACCCAAAAAA-AAAAACA
1 AACCCAAAAAAGAAAAA-A
22865804 AACCACAAAAAAGAAAAAA
1 AACC-CAAAAAAGAAAAAA
22865823 AAC
1 AAC
22865826 AAAAGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 11 0.55
20 5 0.25
ACGTcount: A:0.78, C:0.20, G:0.03, T:0.00
Consensus pattern (18 bp):
AACCCAAAAAAGAAAAAA
Found at i:22867927 original size:2 final size:2
Alignment explanation
Indices: 22867879--22867910 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
22867869 TATTTCTCAA
22867879 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22867911 CACACACACA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22870804 original size:17 final size:17
Alignment explanation
Indices: 22870782--22870830 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
22870772 TCTATAGTAT
22870782 TTTAATTAAATAAATAA
1 TTTAATTAAATAAATAA
* *
22870799 TTTAATTAACTAATTAA
1 TTTAATTAAATAAATAA
**
22870816 TGAAAATTAAATAAA
1 T-TTAATTAAATAAA
22870831 AAAATGAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (17 bp):
TTTAATTAAATAAATAA
Found at i:22870878 original size:18 final size:18
Alignment explanation
Indices: 22870849--22870891 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
22870839 TAAAAATTCT
22870849 AATAAAA-T-AAAAATAA
1 AATAAAATTGAAAAATAA
22870865 GAA-AAAATTGAAAAATAA
1 -AATAAAATTGAAAAATAA
22870883 AATAAAATT
1 AATAAAATT
22870892 AAACGCGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.17
17 5 0.22
18 14 0.61
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (18 bp):
AATAAAATTGAAAAATAA
Found at i:22874940 original size:48 final size:48
Alignment explanation
Indices: 22874867--22874958 Score: 166
Period size: 48 Copynumber: 1.9 Consensus size: 48
22874857 CCCAGACCAG
*
22874867 CTACATCAATGGTATTTTCAGAGCTTGGCGGACACTCCAAAGGATACA
1 CTACATCAATGGTATTTTCAGAGCTTGGCGGACACTCAAAAGGATACA
*
22874915 CTACATCAATGGTATTTTCATAGCTTGGCGGACACTCAAAAGGA
1 CTACATCAATGGTATTTTCAGAGCTTGGCGGACACTCAAAAGGA
22874959 CACATAGGGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (48 bp):
CTACATCAATGGTATTTTCAGAGCTTGGCGGACACTCAAAAGGATACA
Found at i:22877061 original size:14 final size:14
Alignment explanation
Indices: 22877042--22877082 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
22877032 CAAACTTGGA
22877042 TTTTTAATTTATTT
1 TTTTTAATTTATTT
*
22877056 TTTTTATTTTATTT
1 TTTTTAATTTATTT
*
22877070 TTATTAAATTTAT
1 TT-TTTAATTTAT
22877083 GTATACATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTAATTTATTT
Found at i:22877147 original size:28 final size:28
Alignment explanation
Indices: 22877092--22877149 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
22877082 TGTATACATA
* * *
22877092 TGTTATTTTTTATTTCTTTATTTATTTT
1 TGTTATTTTTAATTTATTTAATTATTTT
22877120 TGTTATTTTTAATTTTATTTAATT-TTTT
1 TGTTATTTTTAA-TTTATTTAATTATTTT
22877148 TG
1 TG
22877150 ATATCCTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (28 bp):
TGTTATTTTTAATTTATTTAATTATTTT
Found at i:22878269 original size:321 final size:320
Alignment explanation
Indices: 22877688--22878327 Score: 1118
Period size: 321 Copynumber: 2.0 Consensus size: 320
22877678 AACAATTTTT
*
22877688 TTCAATTTTCAACAATATTCTTCAAAAACTAACAAAGCATTCAACTGACGTTCATAAGCTTTAGA
1 TTCAATTTTCAACAATATTCTTCAAAAACTAACAAAGCATTCAACCGACGTTCATAAGCTTTAGA
* * ** *
22877753 GAGAGAAGCAGAGAAAAGGAAAGAAATGAGAGAAAGAAAAAAGAAATCTAATGAGAGAAAAACAA
66 GAGAGAAGCAAAGAAAAGGAAAGAAATGAGAGAAAGAAAAAACAAATCTAAACAAAGAAAAACAA
*
22877818 ATTTGCAAGCTTTATAATGTCCTAGAACAATGTCGTTTTGAGTAAGGTTAAACCCTAAAATCCAT
131 ATTTGCAAGCTTTATAATGTCCTAGAACAATGTCATTTTGAGTAAGGTTAAACCCTAAAATCCAT
22877883 GTGTTTTGCATTGACCCAACTCGAACCATACCGCACTACCCAACGACTCACAATCCTCCTAAGCT
196 GTGTTTTGCATTGACCCAACTCGAACCATACCGCACTACCCAACGACTCACAATCCTCCTAAGCT
*
22877948 AATTGAGCTTCTAAGCCGAGCCAACTAGTCTTGAGTCGTGCCATATCCTGTTATCTTCTA
261 AATTGAGCTTCTAAGCCGAGCCAACTAGTCTTGAGCCGTGCCATATCCTGTTATCTTCTA
*
22878008 TTCAATTTTCAACAATATTCTTCAAAAACTGACAAAGCATTCAACCGACGTTCATAAGCTTTAGA
1 TTCAATTTTCAACAATATTCTTCAAAAACTAACAAAGCATTCAACCGACGTTCATAAGCTTTAGA
22878073 GAGAGAAGCAAAGAAAAGGAAAGAAATGAGAGAAAGAAAAAACAAATCTAAACAAAGGAAAAACA
66 GAGAGAAGCAAAGAAAAGGAAAGAAATGAGAGAAAGAAAAAACAAATCTAAACAAA-GAAAAACA
* *
22878138 AATTTGCAAGTTTTATAATGTCCTAGAACAATGTCATTTTGAGTAAGGTTAAACCCTAAAATCCG
130 AATTTGCAAGCTTTATAATGTCCTAGAACAATGTCATTTTGAGTAAGGTTAAACCCTAAAATCCA
* **
22878203 TGTGTTTTGCATTGACCCAACTCGAACCATATCGCACTATGCAACGACTCACAATCCTCCTAAGC
195 TGTGTTTTGCATTGACCCAACTCGAACCATACCGCACTACCCAACGACTCACAATCCTCCTAAGC
* * *
22878268 TAATTGAGCTTCTAAGTCGAGCCAACTAGTCTTGAGCCGTGCCATATGCTTTTATCTTCT
260 TAATTGAGCTTCTAAGCCGAGCCAACTAGTCTTGAGCCGTGCCATATCCTGTTATCTTCT
22878328 GTGCTTATAG
Statistics
Matches: 302, Mismatches: 17, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
320 114 0.38
321 188 0.62
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (320 bp):
TTCAATTTTCAACAATATTCTTCAAAAACTAACAAAGCATTCAACCGACGTTCATAAGCTTTAGA
GAGAGAAGCAAAGAAAAGGAAAGAAATGAGAGAAAGAAAAAACAAATCTAAACAAAGAAAAACAA
ATTTGCAAGCTTTATAATGTCCTAGAACAATGTCATTTTGAGTAAGGTTAAACCCTAAAATCCAT
GTGTTTTGCATTGACCCAACTCGAACCATACCGCACTACCCAACGACTCACAATCCTCCTAAGCT
AATTGAGCTTCTAAGCCGAGCCAACTAGTCTTGAGCCGTGCCATATCCTGTTATCTTCTA
Found at i:22878402 original size:4 final size:4
Alignment explanation
Indices: 22878393--22878560 Score: 148
Period size: 4 Copynumber: 42.0 Consensus size: 4
22878383 TTTCATTTTC
* * * * * *
22878393 ATTT ATTT ATTT ATTT -TTG ACTT ATTT GTAT ATTTT CTTT A-TT AATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A-TTT ATTT ATTT ATTT
* * * * *
22878440 GTTT ATTT GTTT ATTT A-TT -TTT ATTT ATTT AGTG GTTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
22878486 ATTT ATTT ATTT ATTT ATTTT ATTTT ATTT ATTT ATTT ATTT ATTTT ATTT
1 ATTT ATTT ATTT ATTT A-TTT A-TTT ATTT ATTT ATTT ATTT A-TTT ATTT
*
22878537 GA-TT ATTT ATGT ATTT ATTT ATTT
1 -ATTT ATTT ATTT ATTT ATTT ATTT
22878561 GTAAATAATT
Statistics
Matches: 132, Mismatches: 23, Indels: 18
0.76 0.13 0.10
Matches are distributed among these distances:
3 10 0.08
4 106 0.80
5 16 0.12
ACGTcount: A:0.22, C:0.01, G:0.05, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:22878446 original size:20 final size:20
Alignment explanation
Indices: 22878418--22878465 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
22878408 TTTGACTTAT
*
22878418 TTGTATATTTTCTTTATTAA
1 TTGTTTATTTTCTTTATTAA
* *
22878438 TTGTTTA-TTTGTTTATTTA
1 TTGTTTATTTTCTTTATTAA
22878457 TT-TTTATTT
1 TTGTTTATTT
22878466 ATTTAGTGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 4 0.17
19 14 0.58
20 6 0.25
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.73
Consensus pattern (20 bp):
TTGTTTATTTTCTTTATTAA
Found at i:22878479 original size:34 final size:32
Alignment explanation
Indices: 22878394--22878560 Score: 142
Period size: 33 Copynumber: 5.0 Consensus size: 32
22878384 TTCATTTTCA
* * * *
22878394 TTTATTTATTTATTTTTGACTTATTTGTATA-T
1 TTTATTTATTTATGTTT-ATTTATTTATTTATT
* * *
22878426 TTTCTTTATTAATTGTTTATTTGTTTATTTATT
1 TTTATTTATTTA-TGTTTATTTATTTATTTATT
22878459 TTTATTTATTTAGTGGTTTATTTATTTATTTATTT
1 TTTATTTATTTA-T-GTTTATTTATTTATTTA-TT
22878494 ATTTATTTATTTTAT-TTTATTTATTTATTTATT
1 -TTTATTTA-TTTATGTTTATTTATTTATTTATT
* * *
22878527 TAT-TTTATTTGATTATTTATGTATTTATTTATT
1 TTTATTTATTT-A-TGTTTATTTATTTATTTATT
22878560 T
1 T
22878561 GTAAATAATT
Statistics
Matches: 113, Mismatches: 13, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
30 3 0.03
31 5 0.04
32 22 0.19
33 36 0.32
34 32 0.28
35 2 0.02
36 9 0.08
37 4 0.04
ACGTcount: A:0.22, C:0.01, G:0.05, T:0.72
Consensus pattern (32 bp):
TTTATTTATTTATGTTTATTTATTTATTTATT
Found at i:22878574 original size:29 final size:29
Alignment explanation
Indices: 22878484--22878575 Score: 93
Period size: 29 Copynumber: 3.3 Consensus size: 29
22878474 GTTTATTTAT
* *
22878484 TTATTTATTTATTTATTTATTTT--AT-T
1 TTATTTATGTATTTATTTATTTTAAATAA
* ** *
22878510 TTATTTATTTATTTATTTATTTTATTTGA
1 TTATTTATGTATTTATTTATTTTAAATAA
22878539 TTATTTATGTATTTATTTATTTGTAAATAA
1 TTATTTATGTATTTATTTATTT-TAAATAA
22878569 TT-TTTAT
1 TTATTTAT
22878576 AAAAAAATAA
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
26 23 0.41
28 1 0.02
29 26 0.46
30 6 0.11
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (29 bp):
TTATTTATGTATTTATTTATTTTAAATAA
Found at i:22878738 original size:61 final size:59
Alignment explanation
Indices: 22878618--22878759 Score: 178
Period size: 61 Copynumber: 2.4 Consensus size: 59
22878608 AAATTTTATC
** *
22878618 ACATATTGGAGGGTTCAAATTTCTAAAAATAAATTTTTGAATAAAAAATGAATCTTACCA
1 ACATATTGGAGGGTTCAAATTTAAAAAAATAAATTTTTGAAT-AAAAATGAACCTTACCA
* *
22878678 ACATGTTGGAGGGTTCAAATTTAAAAAAAAAATGAATTTTTGAAT-AAAATGAACCTTACCA
1 ACATATTGGAGGGTTCAAATTT---AAAAAAATAAATTTTTGAATAAAAATGAACCTTACCA
* *
22878739 ACATATTTGAGGGTTTAAATT
1 ACATATTGGAGGGTTCAAATT
22878760 CTCAAGAAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
60 21 0.30
61 33 0.46
63 17 0.24
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (59 bp):
ACATATTGGAGGGTTCAAATTTAAAAAAATAAATTTTTGAATAAAAATGAACCTTACCA
Found at i:22887194 original size:37 final size:37
Alignment explanation
Indices: 22887112--22887195 Score: 89
Period size: 37 Copynumber: 2.3 Consensus size: 37
22887102 TAGGTTTTTT
* *
22887112 TTTAAGGTTTAGGGTTTTGATATTAAAGGTTTGGAAG
1 TTTAGGGTTTAGGATTTTGATATTAAAGGTTTGGAAG
* * * * *
22887149 TTTGGGGTTTAGGATTTTGGT-TTTAGGGTTTGGAGGG
1 TTTAGGGTTTAGGATTTTGATATTAAAGGTTTGGA-AG
22887186 TTTAGGGTTT
1 TTTAGGGTTT
22887196 CAATTTGCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
36 11 0.29
37 27 0.71
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.46
Consensus pattern (37 bp):
TTTAGGGTTTAGGATTTTGATATTAAAGGTTTGGAAG
Found at i:22887208 original size:58 final size:57
Alignment explanation
Indices: 22887141--22887309 Score: 171
Period size: 58 Copynumber: 2.9 Consensus size: 57
22887131 ATATTAAAGG
* *
22887141 TTTGGAAGTTTGGGGTTTAGGATTTTGGTTTTAGGGTTTGGAGGGTTTAGGGTTTCAA
1 TTTGCAAGTTTGGGGTTTAGGATTTTGATTTTAGGGTTT-GAGGGTTTAGGGTTTCAA
* * *** * * *
22887199 TTTGCAAGTTTGAGGTTTGGGGCATTCATTTTAGGGTTTAAAGGGTTTAGGGTTTTAA
1 TTTGCAAGTTTGGGGTTTAGGATTTTGATTTTAGGGTTT-GAGGGTTTAGGGTTTCAA
* * * *
22887257 TTT-TAAGATTTGGAGTTTTGGATTTTGATTTTAAGGTTTG-GGGTTTAGGGTTT
1 TTTGCAAG-TTTGGGGTTTAGGATTTTGATTTTAGGGTTTGAGGGTTTAGGGTTT
22887310 AGTTTTAGGA
Statistics
Matches: 89, Mismatches: 21, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
56 13 0.15
57 3 0.03
58 73 0.82
ACGTcount: A:0.18, C:0.02, G:0.33, T:0.47
Consensus pattern (57 bp):
TTTGCAAGTTTGGGGTTTAGGATTTTGATTTTAGGGTTTGAGGGTTTAGGGTTTCAA
Found at i:22887260 original size:30 final size:29
Alignment explanation
Indices: 22887023--22887318 Score: 100
Period size: 30 Copynumber: 10.3 Consensus size: 29
22887013 AGATTTTAAG
*
22887023 ATTTTAGGGTTCTAA-GG-TTATGGTTTTGA
1 ATTTTAGGGTT-TAAGGGTTTAGGGTTTT-A
*
22887052 CA-TTTAGGGTTTAAAGGGTTTAGAGTTTTA
1 -ATTTTAGGGTTT-AAGGGTTTAGGGTTTTA
*
22887082 ATTTTAGGGTTTGAGGGGTTTA-GGTTTT-
1 ATTTTAGGGTTT-AAGGGTTTAGGGTTTTA
* * * * *
22887110 TTTTTAAGGTTT-AGGGTTT-TGATATTAA
1 ATTTTAGGGTTTAAGGGTTTAGGGT-TTTA
* * * *
22887138 AGGTTT-GGAAGTTT-GGGGTTTAGGATTTTG
1 A-TTTTAGG--GTTTAAGGGTTTAGGGTTTTA
* * *
22887168 GTTTTAGGGTTTGGAGGGTTTAGGGTTTCA
1 ATTTTAGGGTTT-AAGGGTTTAGGGTTTTA
* * * * ** *
22887198 ATTTGCA-AGTTTGA-GGTTTGGGGCATTC
1 ATTT-TAGGGTTTAAGGGTTTAGGGTTTTA
22887226 ATTTTAGGGTTTAAAGGGTTTAGGGTTTTA
1 ATTTTAGGGTTT-AAGGGTTTAGGGTTTTA
* * * * *
22887256 ATTTTAAGATTT--GGAGTTTTGGATTTTG
1 ATTTTAGGGTTTAAGG-GTTTAGGGTTTTA
* *
22887284 ATTTTAAGGTTT-GGGGTTTAGGG-TTTA
1 ATTTTAGGGTTTAAGGGTTTAGGGTTTTA
*
22887311 GTTTTAGG
1 ATTTTAGG
22887319 ATTTGGAGGG
Statistics
Matches: 197, Mismatches: 49, Indels: 43
0.68 0.17 0.15
Matches are distributed among these distances:
26 8 0.04
27 14 0.07
28 60 0.30
29 28 0.14
30 75 0.38
31 12 0.06
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.47
Consensus pattern (29 bp):
ATTTTAGGGTTTAAGGGTTTAGGGTTTTA
Found at i:22887282 original size:28 final size:27
Alignment explanation
Indices: 22887243--22887326 Score: 87
Period size: 28 Copynumber: 3.0 Consensus size: 27
22887233 GGTTTAAAGG
22887243 GTTTAGGGTTTTAATTTTAAGATTTGGA
1 GTTTA-GGTTTTAATTTTAAGATTTGGA
* * * *
22887271 GTTTTGGATTTTGATTTTAAGGTTTGGG
1 GTTTAGG-TTTTAATTTTAAGATTTGGA
* * *
22887299 GTTTAGGGTTTAGTTTTAGGATTTGGA
1 GTTTAGGTTTTAATTTTAAGATTTGGA
22887326 G
1 G
22887327 GGCTTAAACT
Statistics
Matches: 44, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
27 17 0.39
28 27 0.61
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (27 bp):
GTTTAGGTTTTAATTTTAAGATTTGGA
Found at i:22887699 original size:19 final size:18
Alignment explanation
Indices: 22887676--22887719 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
22887666 TACTAGTTTG
22887676 TTTTATAATTAATTTTAT
1 TTTTATAATTAATTTTAT
* *
22887694 TATTTATTATTTATTTTTAT
1 T-TTTA-TAATTAATTTTAT
22887714 TTTTAT
1 TTTTAT
22887720 TTAACACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 2 0.09
19 8 0.36
20 12 0.55
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTATAATTAATTTTAT
Found at i:22887714 original size:6 final size:6
Alignment explanation
Indices: 22887688--22887721 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
22887678 TTATAATTAA
22887688 TTTTAT TATTTAT TATTTAT TTTTAT TTTTAT TT
1 TTTTAT T-TTTAT T-TTTAT TTTTAT TTTTAT TT
22887722 AACACTTAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 14 0.52
7 13 0.48
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:22888554 original size:16 final size:16
Alignment explanation
Indices: 22888535--22888568 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
22888525 TTATTTCGAG
22888535 TTTTTTTTTT-GTTTT
1 TTTTTTTTTTGGTTTT
22888550 TTTTTTTTTTGGTTTT
1 TTTTTTTTTTGGTTTT
22888566 TTT
1 TTT
22888569 GGTGGGTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (16 bp):
TTTTTTTTTTGGTTTT
Found at i:22888564 original size:27 final size:29
Alignment explanation
Indices: 22888514--22888568 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
22888504 ATGGGAAAGA
22888514 TTGTGTTTTTTTTATTTCGAGTTTTTTTT
1 TTGTGTTTTTTTTATTTCGAGTTTTTTTT
* *
22888543 TTGT-TTTTTTTTTTTTTG-GTTTTTTT
1 TTGTGTTTTTTTTATTTCGAGTTTTTTT
22888569 GGTGGGTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 8 0.33
28 12 0.50
29 4 0.17
ACGTcount: A:0.04, C:0.02, G:0.13, T:0.82
Consensus pattern (29 bp):
TTGTGTTTTTTTTATTTCGAGTTTTTTTT
Found at i:22889982 original size:165 final size:162
Alignment explanation
Indices: 22889688--22889992 Score: 461
Period size: 165 Copynumber: 1.9 Consensus size: 162
22889678 AAACACAATA
* * *
22889688 GACTTTGGTTATCTAATTTTTTATGGATTTTTGTACTTTTGATTTTCTTCTATTTATGTTCTTTG
1 GACTTTGGTTATCTAATTTTTTATGGATTTTTG-ACCTTTGATTTTCTTCTATTTATATTCTTTA
*
22889753 AAATCACTTTTTGTTAAAATTTATTAAAATTTTTAGTTTTCTAATATTAATGTCTTTGACTATTG
65 AAATCACTTTTTGTTAAAATTTATTAAAACTTTTAGTTTTCTAATATTAATGTCTTTGACTATTG
22889818 ATTTTCTTGTGATTTATGATTTTCATCAAAATG
130 ATTTTCTTGTGATTTATGATTTTCATCAAAATG
* *
22889851 GACTTTGGATTGTCTAACTTTTTTATGGATTTATTG-CCTTTGATTTTTTTTCTATTTATATTCT
1 GACTTTGG-TTATCTAA-TTTTTTATGGATTT-TTGACCTTTGA-TTTTCTTCTATTTATATTCT
* * *
22889915 TTAAAATCA-TTATTTGTTAAAATTTATTGAAACTTTTAGTTTTCTAATATTAATGTTTTTTACT
62 TTAAAATCACTT-TTTGTTAAAATTTATTAAAACTTTTAGTTTTCTAATATTAATGTCTTTGACT
22889979 ATTGATTTTCTTGT
126 ATTGATTTTCTTGT
22889993 AACTTATAAT
Statistics
Matches: 128, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
163 8 0.06
164 15 0.12
165 102 0.80
166 3 0.02
ACGTcount: A:0.24, C:0.09, G:0.10, T:0.57
Consensus pattern (162 bp):
GACTTTGGTTATCTAATTTTTTATGGATTTTTGACCTTTGATTTTCTTCTATTTATATTCTTTAA
AATCACTTTTTGTTAAAATTTATTAAAACTTTTAGTTTTCTAATATTAATGTCTTTGACTATTGA
TTTTCTTGTGATTTATGATTTTCATCAAAATG
Found at i:22926017 original size:44 final size:44
Alignment explanation
Indices: 22925954--22926041 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
22925944 TGAGTGGGAG
22925954 AGTGTTGCTTGTTTTGTAGCACATATGTATCAAAGCAACAGTAA
1 AGTGTTGCTTGTTTTGTAGCACATATGTATCAAAGCAACAGTAA
*
22925998 AGTGTTGCTTGTTTTGTAGCACATATGTATCAAAGCAATAGTAA
1 AGTGTTGCTTGTTTTGTAGCACATATGTATCAAAGCAACAGTAA
22926042 TTGGTTGATC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.35
Consensus pattern (44 bp):
AGTGTTGCTTGTTTTGTAGCACATATGTATCAAAGCAACAGTAA
Found at i:22926332 original size:3 final size:3
Alignment explanation
Indices: 22926324--22926348 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
22926314 TGAATCAGAG
22926324 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
22926349 TATTGGTGAA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:22928616 original size:37 final size:37
Alignment explanation
Indices: 22928566--22928642 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
22928556 AAGTAAAAAA
22928566 GGAAAGATTCATAAACTTGTTTTTTTGATACTACAAG
1 GGAAAGATTCATAAACTTGTTTTTTTGATACTACAAG
22928603 GGAAAGATTCATAAACTTGTTTTTTTGATACTACAAG
1 GGAAAGATTCATAAACTTGTTTTTTTGATACTACAAG
22928640 GGA
1 GGA
22928643 TAAAAAAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.36
Consensus pattern (37 bp):
GGAAAGATTCATAAACTTGTTTTTTTGATACTACAAG
Found at i:22929223 original size:339 final size:344
Alignment explanation
Indices: 22928598--22929416 Score: 1267
Period size: 339 Copynumber: 2.3 Consensus size: 344
22928588 TTTTGATACT
*
22928598 ACAAGGGAAAGATTCATAAACTTGTTTTTTTGATACTACAAGGGATAAAAAAGATCACATTAGCC
1 ACAA-GGAAAGATTCATAAACTTGTTTTTTTGATACTACAAGGGATAAAAAAGATCACATTAGCT
*
22928663 GACCAATGAGTCCATTGGCAGAACCTTCAGTCTTTCCACACTATTCTATCACATTAGTTGAAGAA
65 GACCAAT--GTCCATTGGCAGAATCTTCAGTCTTTCCACACTATTCTATCACATTAGTTGAAGAA
*
22928728 ACTCTCGAAGTTTGATCTTTTGATCTTTTTGCAGAGCACACAAGGAGTCTTTTGTGGGGTTAGGG
128 ACTCTCGAAGTTTGATCTTTTGATCTTTTGGCAGAGCACACAAGGAGTCTTTTGTGGGGTTAGGG
*
22928793 GCCCATTTGTCCAAAATCTGCTGGACCAGTTTGTCCCTTAATGGTTGAAATAGGCCTCAAAAAGT
193 GCCCATTTGTCCAAAATCTGCTGGACCAGTTTGTCCCTTAATGGTTAAAATAGGCCTCAAAAAGT
22928858 AGTAGCAAATTGAGGAAACAAC-AAAAAAAAAAGGCTCCGTCAAAGCAAGCCAAG-T-TTGT-TG
258 AGTAGCAAATTGAGGAAACAACAAAAAAAAAAAGGCTCCGTCAAAGCAAGCCAAGTTGTTGTCTG
*
22928919 -T-CAA-CAAGAATGCAAGTCA
323 ATCCAATCAAGAATGCAAGTAA
22928938 ACAAGGAAAGATTCATATATACTTGTTTTTTTGATACTACAAGGGATAAAAAAGATCACATTAGC
1 ACAAGGAAAGATTCATA-A-ACTTGTTTTTTTGATACTACAAGGGATAAAAAAGATCACATTAGC
22929003 TGACCAAT-TCCATTGGCAGAATCTTCAGTCTTTCCACACTATTCTATCACATTAGTTGAAGAAA
64 TGACCAATGTCCATTGGCAGAATCTTCAGTCTTTCCACACTATTCTATCACATTAGTTGAAGAAA
22929067 CTCTCGAAGTTTGATCTTTTTGATCTTTTGGCAGAGCACACAAGGAGTCTTTTGTGGGGTTAGGG
129 CTCTCGAAGTTTGATC-TTTTGATCTTTTGGCAGAGCACACAAGGAGTCTTTTGTGGGGTTAGGG
22929132 GCCCATTTGTCCAAAATCTGCTGGACCAGTTTGTCCCTTAATGGTTAAAATAGGCCTCAAAAAGT
193 GCCCATTTGTCCAAAATCTGCTGGACCAGTTTGTCCCTTAATGGTTAAAATAGGCCTCAAAAAGT
22929197 AGTAGCAAATTGAGGAAACAACAAAAAAAAAAAGGCTCCGTCAAAGCAAGCCAAGTCTTTTGTTG
258 AGTAGCAAATTGAGGAAACAACAAAAAAAAAAAGGCTCCGTCAAAGCAAGCCAAG----TTGTTG
22929262 TCAACGCTGATATTCCAATTGCTTCAAGAATGCAAGTAA
319 T-----CTG--A-TCCAA-----TCAAGAATGCAAGTAA
* * *
22929301 AAAAGGAAAGATTCATAAACTTGTTTCTTTGATACTACAAGGGATAAAAATGATCACATTAGCTG
1 ACAAGGAAAGATTCATAAACTTGTTTTTTTGATACTACAAGGGATAAAAAAGATCACATTAGCTG
22929366 ACCAATGAGTCCATTGGCAGAACTTCTTCAGTCTTTCCACACTATTCTATC
66 ACCAAT--GTCCATTGGCAGAA--TCTTCAGTCTTTCCACACTATTCTATC
22929417 CTAGTACTCA
Statistics
Matches: 439, Mismatches: 8, Indels: 38
0.91 0.02 0.08
Matches are distributed among these distances:
338 71 0.16
339 146 0.33
340 37 0.08
341 52 0.12
345 1 0.00
346 4 0.01
352 2 0.00
356 1 0.00
357 3 0.01
361 51 0.12
362 1 0.00
363 30 0.07
364 13 0.03
366 27 0.06
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (344 bp):
ACAAGGAAAGATTCATAAACTTGTTTTTTTGATACTACAAGGGATAAAAAAGATCACATTAGCTG
ACCAATGTCCATTGGCAGAATCTTCAGTCTTTCCACACTATTCTATCACATTAGTTGAAGAAACT
CTCGAAGTTTGATCTTTTGATCTTTTGGCAGAGCACACAAGGAGTCTTTTGTGGGGTTAGGGGCC
CATTTGTCCAAAATCTGCTGGACCAGTTTGTCCCTTAATGGTTAAAATAGGCCTCAAAAAGTAGT
AGCAAATTGAGGAAACAACAAAAAAAAAAAGGCTCCGTCAAAGCAAGCCAAGTTGTTGTCTGATC
CAATCAAGAATGCAAGTAA
Found at i:22932532 original size:24 final size:24
Alignment explanation
Indices: 22932500--22932550 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
22932490 CGTGAATTTT
*
22932500 TTTTTTTTGGTTTATATTGTATAA
1 TTTTTTTTGGTTTATATAGTATAA
22932524 TTTTTTTTGGTTTATATAGTATAA
1 TTTTTTTTGGTTTATATAGTATAA
22932548 TTT
1 TTT
22932551 CATAATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.67
Consensus pattern (24 bp):
TTTTTTTTGGTTTATATAGTATAA
Found at i:22938045 original size:21 final size:22
Alignment explanation
Indices: 22938005--22938045 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
22937995 TTGATTGATA
22938005 TATTAAAAACAATAAATTAATT
1 TATTAAAAACAATAAATTAATT
* *
22938027 TATTGAAAA-AATAATTTAA
1 TATTAAAAACAATAAATTAA
22938046 AATTTAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (22 bp):
TATTAAAAACAATAAATTAATT
Found at i:22944158 original size:28 final size:28
Alignment explanation
Indices: 22944123--22944192 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
22944113 GGTCATTTAA
22944123 AATATTGATTTTGATT-CCTCAAGAAAAC
1 AATATTGATTTTGATTCCCT-AAGAAAAC
*
22944151 AATATTGATTTTGATTCCCTAAGAAAGC
1 AATATTGATTTTGATTCCCTAAGAAAAC
* *
22944179 AATGTTAATTTTGA
1 AATATTGATTTTGA
22944193 CTTGGTTCCC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 35 0.92
29 3 0.08
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (28 bp):
AATATTGATTTTGATTCCCTAAGAAAAC
Found at i:22945982 original size:26 final size:27
Alignment explanation
Indices: 22945944--22946002 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
22945934 ATTTTTTTAA
* * *
22945944 TTTTTATAAAATATAAAATA-TATAAT
1 TTTTTATAAAATAAAAAAAATTAAAAT
**
22945970 TTTTTATTTAATAAAAAAAATTAAAAT
1 TTTTTATAAAATAAAAAAAATTAAAAT
22945997 TTTTTA
1 TTTTTA
22946003 GTATTTTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 16 0.59
27 11 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
TTTTTATAAAATAAAAAAAATTAAAAT
Found at i:22947336 original size:20 final size:19
Alignment explanation
Indices: 22947308--22947356 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 19
22947298 TCAACACCAG
22947308 AAAAA-AAAA-CAAATAATAA
1 AAAAAGAAAACCAAA-AA-AA
22947327 AAAAAGAAAAACCAAAAAAA
1 AAAAAG-AAAACCAAAAAAA
22947347 AAAAAGAAAA
1 AAAAAGAAAA
22947357 AGAGTTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 9 0.33
20 8 0.30
21 6 0.22
22 4 0.15
ACGTcount: A:0.86, C:0.06, G:0.04, T:0.04
Consensus pattern (19 bp):
AAAAAGAAAACCAAAAAAA
Found at i:22947357 original size:20 final size:21
Alignment explanation
Indices: 22947308--22947357 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
22947298 TCAACACCAG
22947308 AAAA-AAAAACAAATAATAAA
1 AAAAGAAAAACAAATAATAAA
22947328 AAAAGAAAAACCAAA-AA-AAA
1 AAAAGAAAAA-CAAATAATAAA
22947348 AAAAGAAAAA
1 AAAAGAAAAA
22947358 GAGTTTTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 17 0.61
21 7 0.25
22 4 0.14
ACGTcount: A:0.86, C:0.06, G:0.04, T:0.04
Consensus pattern (21 bp):
AAAAGAAAAACAAATAATAAA
Found at i:22948319 original size:22 final size:20
Alignment explanation
Indices: 22948294--22948343 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
22948284 TTTGAATTTG
22948294 ATTTGATTTTTAAGTTTCCTAA
1 ATTTGATTTTTAA-TTT-CTAA
** *
22948316 ATTTGGGTTTTAATTTTTAA
1 ATTTGATTTTTAATTTCTAA
22948336 ATTTGATT
1 ATTTGATT
22948344 CCATATTCTG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
20 9 0.39
21 3 0.13
22 11 0.48
ACGTcount: A:0.26, C:0.04, G:0.12, T:0.58
Consensus pattern (20 bp):
ATTTGATTTTTAATTTCTAA
Found at i:22952614 original size:17 final size:17
Alignment explanation
Indices: 22952592--22952640 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
22952582 TCTATAGTAT
22952592 TTTAATTAAATAAATAA
1 TTTAATTAAATAAATAA
* *
22952609 TTTAATTAACTAATTAA
1 TTTAATTAAATAAATAA
**
22952626 TGAAAATTAAATAAA
1 T-TTAATTAAATAAA
22952641 AAAAGGAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (17 bp):
TTTAATTAAATAAATAA
Found at i:22952688 original size:18 final size:18
Alignment explanation
Indices: 22952659--22952701 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
22952649 TAAAAATTCT
22952659 AATAAAA-T-AAAAATAA
1 AATAAAATTGAAAAATAA
22952675 GAA-AAAATTGAAAAATAA
1 -AATAAAATTGAAAAATAA
22952693 AATAAAATT
1 AATAAAATT
22952702 AAACGCGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.17
17 5 0.22
18 14 0.61
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (18 bp):
AATAAAATTGAAAAATAA
Found at i:22958986 original size:15 final size:15
Alignment explanation
Indices: 22958942--22958989 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
22958932 GTTTTCTATA
22958942 AAGAATAAATAAAAAT
1 AAGAAT-AATAAAAAT
*
22958958 AAAAATAACT-AAAAT
1 AAGAATAA-TAAAAAT
22958973 AAGAATAATAAAAAT
1 AAGAATAATAAAAAT
22958988 AA
1 AA
22958990 TAAAAAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 1 0.04
15 21 0.75
16 6 0.21
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (15 bp):
AAGAATAATAAAAAT
Found at i:22959176 original size:15 final size:16
Alignment explanation
Indices: 22959156--22959186 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
22959146 TCTCTTTTCT
22959156 TTAAAAAAA-TAATAA
1 TTAAAAAAACTAATAA
22959171 TTAAAAAAACTAATAA
1 TTAAAAAAACTAATAA
22959187 AATTTTTTTA
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:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
TTAAAAAAACTAATAA
Found at i:22965120 original size:21 final size:23
Alignment explanation
Indices: 22965096--22965142 Score: 80
Period size: 21 Copynumber: 2.1 Consensus size: 23
22965086 AGGTGGAGTC
22965096 AAATGTTTA-AAAAAA-AACAAA
1 AAATGTTTACAAAAAAGAACAAA
22965117 AAATGTTTACAAAAAAGAACAAA
1 AAATGTTTACAAAAAAGAACAAA
22965140 AAA
1 AAA
22965143 AAAAGCAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 9 0.38
22 6 0.25
23 9 0.38
ACGTcount: A:0.70, C:0.06, G:0.06, T:0.17
Consensus pattern (23 bp):
AAATGTTTACAAAAAAGAACAAA
Found at i:22967113 original size:86 final size:87
Alignment explanation
Indices: 22967001--22967161 Score: 218
Period size: 86 Copynumber: 1.9 Consensus size: 87
22966991 ATTACCTGGC
* * * *
22967001 ATTTTAAGCCCAGTTTAGCTTACACCTAAGCCTAGATCAACTAGCACATAGATGATATTTAAATC
1 ATTTTAAGCCCAGTTTAGCTGACACCTAAACCTAGATCAACTAGCACATAGATGATATGT-AAGC
22967066 CCA-TTTAGCTAGCACAGTTAAA
65 CCAGTTTAGCTAGCACAGTTAAA
* * * * *
22967088 ATTTTAAG-CCAGTTTAGCTGGCACCTAAACCTATATCAGCTGGCACTTAGATGATATGTAAGCC
1 ATTTTAAGCCCAGTTTAGCTGACACCTAAACCTAGATCAACTAGCACATAGATGATATGTAAGCC
22967152 CAGTTTAGCT
66 CAGTTTAGCT
22967162 TGCATTTTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
85 6 0.09
86 50 0.78
87 8 0.12
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (87 bp):
ATTTTAAGCCCAGTTTAGCTGACACCTAAACCTAGATCAACTAGCACATAGATGATATGTAAGCC
CAGTTTAGCTAGCACAGTTAAA
Found at i:22967195 original size:23 final size:23
Alignment explanation
Indices: 22967146--22967199 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
22967136 AGATGATATG
***
22967146 TAAGCCCAGTTTAGCTTGCATTT
1 TAAGCCCAGTTTAGCTTGCACAC
22967169 TAAGCCCAGTTTAG-TTGGCACAC
1 TAAGCCCAGTTTAGCTT-GCACAC
22967192 TAAGCCCA
1 TAAGCCCA
22967200 ATCTAGCTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 2 0.07
23 25 0.93
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (23 bp):
TAAGCCCAGTTTAGCTTGCACAC
Found at i:22969074 original size:34 final size:34
Alignment explanation
Indices: 22969036--22969101 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
22969026 TATTGGCCTA
* * *
22969036 GAATTACTTTAATAATTCTACATATTGTTTGATC
1 GAATTACTTGAATAACTCTACATATAGTTTGATC
*
22969070 GAATTACTTGAATAACTCTATATATAGTTTGA
1 GAATTACTTGAATAACTCTACATATAGTTTGA
22969102 CCACTACAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.44
Consensus pattern (34 bp):
GAATTACTTGAATAACTCTACATATAGTTTGATC
Found at i:22970175 original size:58 final size:58
Alignment explanation
Indices: 22969874--22970264 Score: 459
Period size: 58 Copynumber: 6.7 Consensus size: 58
22969864 TTTGTACAAC
* *
22969874 GAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTGAAAACTTTAATTTCGA-
1 GAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTGGAAACTTTAATTTCAAG
* * * * * * *
22969931 GAAAATTGATACTTTCAACTTCTCCTAAAAAAAACCTTTTTT-GAAAATTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTTCTCAAAAATA--TTTTTTGGAAACTTTAATTTCAAG
* **
22969990 GAAAATTGATACTTTCAAC-TTTTCTCCAAAAAATATTTTTTTGAAAACTTTAATTTTGAG
1 GAAAATTGATACTTTCAACTTTTTCT-C-AAAAATA-TTTTTTGGAAACTTTAATTTCAAG
* * * * * *
22970050 AAAAATTGATACTTTCAACTTTTCCTCAAAAAAAACTTTTTT-GAAAATTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTTCTC-AAAAATA-TTTTTTGGAAACTTTAATTTCAAG
*
22970109 GAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTGGAAACTTTAAATTCAAG
1 GAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTGGAAACTTTAATTTCAAG
* * * * *
22970167 AAAAATTGATACTTTGAACTTTTTCTCAAAAACATTTTTTAGAAAGC-TTATTTTCAAG
1 GAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTGGAAA-CTTTAATTTCAAG
22970225 GAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTT
1 GAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTT
22970265 TTGAATTTTA
Statistics
Matches: 283, Mismatches: 42, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
57 36 0.13
58 121 0.43
59 70 0.25
60 51 0.18
61 5 0.02
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (58 bp):
GAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTGGAAACTTTAATTTCAAG
Found at i:22970198 original size:27 final size:27
Alignment explanation
Indices: 22970110--22970198 Score: 65
Period size: 27 Copynumber: 3.1 Consensus size: 27
22970100 ATTTTTAAGG
*
22970110 AAAATTGATACTTTCAACTTTTTCTCA
1 AAAATTGATACTTTGAACTTTTTCTCA
** **
22970137 AAAA-T-ATTTTTTGGAAACTTTAAATTCAAGA
1 AAAATTGATACTTT-G-AACTTT---TTC-TCA
22970168 AAAATTGATACTTTGAACTTTTTCTCA
1 AAAATTGATACTTTGAACTTTTTCTCA
22970195 AAAA
1 AAAA
22970199 CATTTTTTAG
Statistics
Matches: 45, Mismatches: 9, Indels: 16
0.64 0.13 0.23
Matches are distributed among these distances:
25 5 0.11
26 1 0.02
27 15 0.33
28 3 0.07
30 3 0.07
31 11 0.24
32 2 0.04
33 5 0.11
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (27 bp):
AAAATTGATACTTTGAACTTTTTCTCA
Found at i:22970297 original size:6 final size:6
Alignment explanation
Indices: 22970284--22970344 Score: 59
Period size: 6 Copynumber: 9.7 Consensus size: 6
22970274 ATTTAAAGAG
* * * *
22970284 AAAATA ATAATA ATAATA AAAATG AAAATA AAAATA AAAGAAA ATAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA-ATA A-AAATA
22970334 AAAATA GAAAA
1 AAAATA -AAAA
22970345 AAATATTAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
6 34 0.74
7 10 0.22
8 2 0.04
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:22970313 original size:12 final size:11
Alignment explanation
Indices: 22970284--22970349 Score: 66
Period size: 10 Copynumber: 6.1 Consensus size: 11
22970274 ATTTAAAGAG
*
22970284 AAAATAATAAT
1 AAAATAAAAAT
22970295 AATAATAAAAAT
1 AA-AATAAAAAT
22970307 GAAAATAAAAAT
1 -AAAATAAAAAT
*
22970319 AAAA-GAAAAT
1 AAAATAAAAAT
22970329 -AAATAAAAAT
1 AAAATAAAAAT
*
22970339 AGAA-AAAAAT
1 AAAATAAAAAT
22970349 A
1 A
22970350 TTAAACAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
9 3 0.06
10 17 0.36
11 8 0.17
12 17 0.36
13 2 0.04
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:22971382 original size:14 final size:14
Alignment explanation
Indices: 22971344--22971407 Score: 55
Period size: 14 Copynumber: 4.8 Consensus size: 14
22971334 TAACAGATAA
*
22971344 AAATAATACTAGAT
1 AAATAATAATAGAT
* *
22971358 AAATTACAATAGAT
1 AAATAATAATAGAT
22971372 AAATAATAATA-A-
1 AAATAATAATAGAT
*
22971384 ATAT-ATAACTAGAT
1 AAATAATAA-TAGAT
22971398 AAATAA-AATA
1 AAATAATAATA
22971408 TATATTAACA
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
11 4 0.10
12 5 0.13
13 4 0.10
14 25 0.64
15 1 0.03
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (14 bp):
AAATAATAATAGAT
Found at i:22971386 original size:4 final size:4
Alignment explanation
Indices: 22971365--22971518 Score: 76
Period size: 4 Copynumber: 39.5 Consensus size: 4
22971355 GATAAATTAC
* * * * *
22971365 AATA GATA AAT- AAT- AATA AATA TATA ACTA GATA AATA AA-A TATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
* *
22971410 TATTA ACATA AAAA AATA AA-A AATA AATA GTAAT- AATA AATA AAT-
1 -AATA A-ATA AATA AATA AATA AATA AATA --AATA AATA AATA AATA
* * * * *
22971455 AACA AATA CATA AGATAA AAGA AAAA AATA TA-A AATA AA-A AATA AATA
1 AATA AATA AATA A-AT-A AATA AATA AATA AATA AATA AATA AATA AATA
22971503 AAT- AATA AA-A AATA AA
1 AATA AATA AATA AATA AA
22971519 AATAATAAAA
Statistics
Matches: 112, Mismatches: 23, Indels: 30
0.68 0.14 0.18
Matches are distributed among these distances:
3 27 0.24
4 72 0.64
5 8 0.07
6 5 0.04
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:22971386 original size:7 final size:7
Alignment explanation
Indices: 22971376--22971523 Score: 58
Period size: 7 Copynumber: 20.1 Consensus size: 7
22971366 ATAGATAAAT
22971376 AATAATA
1 AATAATA
22971383 AATATATA
1 AATA-ATA
*
22971391 ACTAGATA
1 AATA-ATA
22971399 AATAA-A
1 AATAATA
22971405 ATATATATTA
1 A-ATA-A-TA
22971415 ACATAA-A
1 A-ATAATA
22971422 AA-AATA
1 AATAATA
*
22971428 AAAAATA
1 AATAATA
*
22971435 AATAGTAA
1 AATAAT-A
22971443 TAATAAATA
1 -AAT-AATA
*
22971452 AATAACA
1 AATAATA
22971459 AATACATA
1 AATA-ATA
22971467 AGATAA-A
1 A-ATAATA
*
22971474 AGA-AAAA
1 A-ATAATA
22971481 AAT-ATAA
1 AATAAT-A
*
22971488 AATAAAA
1 AATAATA
22971495 AATAAATA
1 AAT-AATA
22971503 AATAATA
1 AATAATA
*
22971510 AAAAATA
1 AATAATA
22971517 AA-AATA
1 AATAATA
22971523 A
1 A
22971524 TAAAATATAA
Statistics
Matches: 111, Mismatches: 13, Indels: 35
0.70 0.08 0.22
Matches are distributed among these distances:
5 2 0.02
6 15 0.14
7 51 0.46
8 28 0.25
9 8 0.07
10 7 0.06
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (7 bp):
AATAATA
Found at i:22971426 original size:25 final size:25
Alignment explanation
Indices: 22971372--22971456 Score: 66
Period size: 25 Copynumber: 3.2 Consensus size: 25
22971362 TACAATAGAT
* *
22971372 AAATAATAATAAATATATAACTAGAT
1 AAATAA-AATAAATATATAACTAAAA
*
22971398 AAATAAAATATATAT-TAACATAAAA
1 AAATAAAATAAATATATAAC-TAAAA
*
22971423 AAATAAAAAATAAATAGTAATAA-TAAAT
1 AAAT--AAAATAAATA-T-ATAACTAAAA
22971451 AAATAA
1 AAATAA
22971457 CAAATACATA
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
24 4 0.08
25 15 0.31
26 8 0.17
27 9 0.19
28 9 0.19
30 3 0.06
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (25 bp):
AAATAAAATAAATATATAACTAAAA
Found at i:22971449 original size:75 final size:69
Alignment explanation
Indices: 22971365--22971534 Score: 161
Period size: 76 Copynumber: 2.4 Consensus size: 69
22971355 GATAAATTAC
* * *
22971365 AATAGATAAATAATAATAAATATATAACTAGATAAATA-AAATATATATTAACATAAAAAAATAA
1 AATA-ATAAATAATAATAAATATATAA--AGATAAA-AGAAAAAAATA-TAAAAT-AAAAAATAA
22971429 A-AAATAAATA
60 ATAAAT-AATA
* *
22971439 GTAATAATAAATAAATAACAAATACAT-AAGATAAAAGAAAAAAATATAAAATAAAAAATAAATA
1 --AATAATAAAT-AATAATAAATATATAAAGATAAAAGAAAAAAATATAAAATAAAAAATAAATA
22971503 AATAATA
63 AATAATA
*
22971510 AAAAATAAA-AATAATAAA-ATATAAA
1 AATAATAAATAATAATAAATATATAAA
22971535 ATACAAAATA
Statistics
Matches: 82, Mismatches: 8, Indels: 17
0.77 0.07 0.16
Matches are distributed among these distances:
66 3 0.04
67 10 0.12
69 8 0.10
71 14 0.17
72 10 0.12
73 14 0.17
75 7 0.09
76 16 0.20
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.24
Consensus pattern (69 bp):
AATAATAAATAATAATAAATATATAAAGATAAAAGAAAAAAATATAAAATAAAAAATAAATAAAT
AATA
Found at i:22971502 original size:40 final size:39
Alignment explanation
Indices: 22971424--22971551 Score: 127
Period size: 38 Copynumber: 3.2 Consensus size: 39
22971414 AACATAAAAA
* * * *
22971424 AATAAAAAATAAATAGTAATAATAAATAAATAACAAATACAT
1 AATAAAAAATAAA-AATAAT-A-AAATAAAAAATAAATAAAT
22971466 AAGATAAAAGAA-AAAAAT-ATAAAATAAAAAATAAATAAAT
1 -A-ATAAAA-AATAAAAATAATAAAATAAAAAATAAATAAAT
* *
22971506 AATAAAAAATAAAAATAATAAAATATAAAATACA-AAAT
1 AATAAAAAATAAAAATAATAAAATAAAAAATAAATAAAT
22971544 AATAAAAA
1 AATAAAAA
22971552 CAAGGTGGAC
Statistics
Matches: 75, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
37 2 0.03
38 24 0.32
39 16 0.21
40 16 0.21
41 1 0.01
42 2 0.03
43 3 0.04
44 9 0.12
45 2 0.03
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (39 bp):
AATAAAAAATAAAAATAATAAAATAAAAAATAAATAAAT
Found at i:22971533 original size:7 final size:7
Alignment explanation
Indices: 22971479--22971550 Score: 64
Period size: 7 Copynumber: 10.6 Consensus size: 7
22971469 ATAAAAGAAA
22971479 AAAATAT
1 AAAATAT
22971486 AAAATA-
1 AAAATAT
22971492 AAAA-AT
1 AAAATAT
22971498 -AAATA-
1 AAAATAT
*
22971503 AATAATAA
1 AA-AATAT
22971511 AAAATA-
1 AAAATAT
22971517 AAAATAAT
1 AAAAT-AT
22971525 AAAATAT
1 AAAATAT
*
22971532 AAAATAC
1 AAAATAT
22971539 AAAATAAT
1 AAAAT-AT
22971547 AAAA
1 AAAA
22971551 ACAAGGTGGA
Statistics
Matches: 55, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
5 4 0.07
6 11 0.20
7 28 0.51
8 12 0.22
ACGTcount: A:0.78, C:0.01, G:0.00, T:0.21
Consensus pattern (7 bp):
AAAATAT
Found at i:22971536 original size:15 final size:15
Alignment explanation
Indices: 22971469--22971550 Score: 78
Period size: 15 Copynumber: 5.4 Consensus size: 15
22971459 AATACATAAG
* *
22971469 ATAAAAGAAAAAAAT
1 ATAAAATAATAAAAT
22971484 ATAAAATAA-AAAAT
1 ATAAAATAATAAAAT
* *
22971498 AAATAAATAATAAAAA
1 ATA-AAATAATAAAAT
22971514 ATAAAAATAATAAAAT
1 AT-AAAATAATAAAAT
*
22971530 ATAAAAT-ACAAAAT
1 ATAAAATAATAAAAT
22971544 AATAAAA
1 -ATAAAA
22971551 ACAAGGTGGA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
14 13 0.23
15 25 0.44
16 18 0.32
17 1 0.02
ACGTcount: A:0.78, C:0.01, G:0.01, T:0.20
Consensus pattern (15 bp):
ATAAAATAATAAAAT
Found at i:22971831 original size:43 final size:43
Alignment explanation
Indices: 22971737--22972158 Score: 556
Period size: 43 Copynumber: 10.0 Consensus size: 43
22971727 TTGATCAGAA
* * * *
22971737 CTCCTCTAAGCAGAGGCTTAACGACTTTG-AAGATGAATAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAG
*
22971779 CTCCTCTAATCAGAGGCTCAATGACTTTGAAAAATAAATAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAG
* * *
22971822 CTCCTCTAATCAGAGGCTCAACAACTTTG-AAGATGAATAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAG
* *
22971864 CTCCTATAATCAGAGGCTCAATGACTTTGAAAAATAAATAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAG
* * *
22971907 CTCTTCTAATCAGAGGCTCAATGACTTTGAAAAATAAAT--GG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAG
*
22971948 CTCCTCTAATCAGAGGCTTAACGACTTTGAAAAATAAATAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAG
*
22971991 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAAT--GG
1 CTCCTCTAATCAGAGGCTCAACGACTTTG-AAAAATAAATAAAG
* * *
22972033 CTCCTCTAATCAGAGGCTCAACAACTTTTGAAAAGTAAAT--GG
1 CTCCTCTAATCAGAGGCTCAACGAC-TTTGAAAAATAAATAAAG
* * *
22972075 CTCCTCTAATAAGAGGTTCAACGATTTTGAAAAATAAATAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAG
* *
22972118 CTCCTCTAATAAGAGGCTCAACGACTTTG-AAAATGAATAAA
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAA
22972159 ATGCTCCTTG
Statistics
Matches: 338, Mismatches: 34, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
41 50 0.15
42 131 0.39
43 147 0.43
44 10 0.03
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.26
Consensus pattern (43 bp):
CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAG
Found at i:22971880 original size:85 final size:84
Alignment explanation
Indices: 22971737--22972158 Score: 550
Period size: 85 Copynumber: 5.0 Consensus size: 84
22971727 TTGATCAGAA
* * * *
22971737 CTCCTCTAAGCAGAGGCTTAACGACTTTGAAGATGAATAAAGCTCCTCTAATCAGAGGCTCAATG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAA-ATAAATAAAGCTCCTCTAATCAGAGGCTCAACG
22971802 ACTTTGAAAAATAAATAAAG
65 ACTTTGAAAAATAAATAAAG
* * * *
22971822 CTCCTCTAATCAGAGGCTCAACAACTTTGAAGATGAATAAAGCTCCTATAATCAGAGGCTCAATG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAA-ATAAATAAAGCTCCTCTAATCAGAGGCTCAACG
22971887 ACTTTGAAAAATAAATAAAG
65 ACTTTGAAAAATAAATAAAG
* * *
22971907 CTCTTCTAATCAGAGGCTCAATGACTTTG-AA-AAATAAATGGCTCCTCTAATCAGAGGCTTAAC
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAATAAATAAA--GCTCCTCTAATCAGAGGCTCAAC
22971970 GACTTTGAAAAATAAATAAAG
64 GACTTTGAAAAATAAATAAAG
22971991 CTCCTCTAATCAGAGGCTCAACGACTTTGAAA-AAATAAATGGCTCCTCTAATCAGAGGCTCAAC
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAATAAATAAA--GCTCCTCTAATCAGAGGCTCAAC
* * *
22972055 AACTTTTGAAAAGTAAAT--GG
64 GAC-TTTGAAAAATAAATAAAG
* * * *
22972075 CTCCTCTAATAAGAGGTTCAACGATTTTGAAAAATAAATAAAGCTCCTCTAATAAGAGGCTCAAC
1 CTCCTCTAATCAGAGGCTCAACGACTTTG--AAATAAATAAAGCTCCTCTAATCAGAGGCTCAAC
*
22972140 GACTTTG-AAAATGAATAAA
64 GACTTTGAAAAATAAATAAA
22972159 ATGCTCCTTG
Statistics
Matches: 303, Mismatches: 25, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
82 6 0.02
83 8 0.03
84 100 0.33
85 166 0.55
86 16 0.05
87 7 0.02
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.26
Consensus pattern (84 bp):
CTCCTCTAATCAGAGGCTCAACGACTTTGAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGA
CTTTGAAAAATAAATAAAG
Found at i:22972072 original size:127 final size:125
Alignment explanation
Indices: 22971737--22972166 Score: 562
Period size: 127 Copynumber: 3.4 Consensus size: 125
22971727 TTGATCAGAA
* * *
22971737 CTCCTCTAAGCAGAGGCTTAACGACTTTGAAGATGAATAAA-GCTCCTCTAATCAGAGGCTCAAT
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAA-A-AAATAAATGCTCCTCTAATCAGAGGCTCAAT
* * * * *
22971801 GACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACAACTTTG-AAGATGAATAAAG
64 GACTTTGAAAAATAAAT--GGCTCCTCTAATCAGAGGCTTAACGACTTTGAAAAATAAATAAAG
* * *
22971864 CTCCTATAATCAGAGGCTCAATGACTTTG-AAAAATAAATAAAGCTCTTCTAATCAGAGGCTCAA
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAAT---GCTCCTCTAATCAGAGGCTCAA
22971928 TGACTTTGAAAAATAAATGGCTCCTCTAATCAGAGGCTTAACGACTTTGAAAAATAAATAAAG
63 TGACTTTGAAAAATAAATGGCTCCTCTAATCAGAGGCTTAACGACTTTGAAAAATAAATAAAG
**
22971991 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACA
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAAT-GCTCCTCTAATCAGAGGCTCAATG
* * *
22972056 ACTTTTGAAAAGTAAATGGCTCCTCTAATAAGAGG-TTCAACGATTTTGAAAAATAAATAAAG
65 AC-TTTGAAAAATAAATGGCTCCTCTAATCAGAGGCTT-AACGACTTTGAAAAATAAATAAAG
*
22972118 CTCCTCTAATAAGAGGCTCAACGACTTTGAAAATGAATAAAATGCTCCT
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAA--AAT-AAATGCTCCT
22972167 TGACAACCAT
Statistics
Matches: 271, Mismatches: 21, Indels: 20
0.87 0.07 0.06
Matches are distributed among these distances:
124 6 0.02
125 1 0.00
126 54 0.20
127 148 0.55
128 49 0.18
129 9 0.03
130 4 0.01
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (125 bp):
CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATGCTCCTCTAATCAGAGGCTCAATGA
CTTTGAAAAATAAATGGCTCCTCTAATCAGAGGCTTAACGACTTTGAAAAATAAATAAAG
Found at i:22973157 original size:7 final size:7
Alignment explanation
Indices: 22973141--22973225 Score: 59
Period size: 7 Copynumber: 11.7 Consensus size: 7
22973131 TTTCATTCAC
22973141 TTTTTC-
1 TTTTTCT
22973147 TTTTTCT
1 TTTTTCT
22973154 TTTTCCTCTTT
1 TTTT--TC--T
22973165 TTTTTCT
1 TTTTTCT
22973172 TTTTTCT
1 TTTTTCT
22973179 TTTTTCAT
1 TTTTTC-T
*
22973187 TTTTTCA
1 TTTTTCT
22973194 TTTTTC-
1 TTTTTCT
* *
22973200 ATTTACAT
1 TTTTTC-T
*
22973208 TTCTT-T
1 TTTTTCT
22973214 TTTTTCT
1 TTTTTCT
22973221 TTTTT
1 TTTTT
22973226 TTATTATTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
6 15 0.24
7 30 0.48
8 9 0.14
9 4 0.06
11 5 0.08
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTTCT
Found at i:22973161 original size:34 final size:34
Alignment explanation
Indices: 22973123--22973224 Score: 88
Period size: 32 Copynumber: 3.0 Consensus size: 34
22973113 TCACCTTGAG
22973123 TCCTCCTTTTTCATTCACTTTTTCTTTTTCTTTT
1 TCCTCCTTTTTCATTCACTTTTTCTTTTTCTTTT
* *
22973157 TCCT-CTTTTT-TTTC-TTTTTTCTTTTTTCATTTT
1 TCCTCCTTTTTCATTCACTTTTTC-TTTTTC-TTTT
* * *
22973190 T--TCATTTTTCATTTACATTTCTTTTTTTTCTTTT
1 TCCTCCTTTTTCATTCAC-TTT-TTCTTTTTCTTTT
22973224 T
1 T
22973225 TTTATTATTT
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
31 7 0.13
32 14 0.26
33 13 0.24
34 9 0.17
35 9 0.17
36 2 0.04
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.74
Consensus pattern (34 bp):
TCCTCCTTTTTCATTCACTTTTTCTTTTTCTTTT
Found at i:22973168 original size:18 final size:16
Alignment explanation
Indices: 22973147--22973225 Score: 58
Period size: 18 Copynumber: 4.8 Consensus size: 16
22973137 TCACTTTTTC
22973147 TTTTTCTTTTTCCTCTTT
1 TTTTTCTTTTT--TCTTT
22973165 TTTTTCTTTTTTC--T
1 TTTTTCTTTTTTCTTT
22973179 TTTTTCATTTTTTCATTT
1 TTTTTC-TTTTTTC-TTT
*
22973197 TTCATTTAC--ATTTCTTT
1 TT--TTT-CTTTTTTCTTT
22973214 TTTTTCTTTTTT
1 TTTTTCTTTTTT
22973226 TTATTATTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 20
0.69 0.03 0.28
Matches are distributed among these distances:
14 8 0.16
15 10 0.20
16 5 0.10
17 5 0.10
18 18 0.36
20 3 0.06
21 1 0.02
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTCTTTTTTCTTT
Found at i:22973181 original size:15 final size:15
Alignment explanation
Indices: 22973141--22973199 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
22973131 TTTCATTCAC
22973141 TTTTTC-TTTTTCTT
1 TTTTTCTTTTTTCTT
* *
22973155 TTTCCTCTTTTTTTTCT
1 TTT-TTCTTTTTTCT-T
*
22973172 TTTTTCTTTTTTCAT
1 TTTTTCTTTTTTCTT
*
22973187 TTTTTCATTTTTC
1 TTTTTCTTTTTTC
22973200 ATTTACATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
14 3 0.08
15 15 0.42
16 14 0.39
17 4 0.11
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTCTTTTTTCTT
Found at i:22973190 original size:25 final size:24
Alignment explanation
Indices: 22973141--22973224 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 24
22973131 TTTCATTCAC
*
22973141 TTTTTCTTTTTCTTTTTCCTCTTT
1 TTTTTCTTTTTCTTTTTCATCTTT
*
22973165 TTTTTCTTTTTTCTTTTT--TC-AT
1 TTTTTC-TTTTTCTTTTTCATCTTT
* *
22973187 TTTTTCATTTTTCATTTACATTTCTTT
1 TTTTTC-TTTTTCTTTTTCA--TCTTT
22973214 TTTTTCTTTTT
1 TTTTTCTTTTT
22973225 TTTATTATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
22 16 0.33
23 2 0.04
24 6 0.12
25 11 0.22
26 7 0.14
27 7 0.14
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (24 bp):
TTTTTCTTTTTCTTTTTCATCTTT
Found at i:22973200 original size:15 final size:15
Alignment explanation
Indices: 22973165--22973203 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
22973155 TTTCCTCTTT
*
22973165 TTTTTC-TTTTTTCT
1 TTTTTCATTTTTTCA
22973179 TTTTTCATTTTTTCA
1 TTTTTCATTTTTTCA
22973194 TTTTTCATTT
1 TTTTTCATTT
22973204 ACATTTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTCATTTTTTCA
Found at i:22973226 original size:10 final size:9
Alignment explanation
Indices: 22973147--22973237 Score: 51
Period size: 9 Copynumber: 9.6 Consensus size: 9
22973137 TCACTTTTTC
22973147 TTTTTCTTT
1 TTTTTCTTT
**
22973156 TTCCTCTTT
1 TTTTTCTTT
22973165 TTTTTCTTT
1 TTTTTCTTT
22973174 TTTCTT-TTT
1 TTT-TTCTTT
*
22973183 TCATTTT-TTCA
1 T--TTTTCTT-T
22973194 TTTTTCATTT
1 TTTTTC-TTT
**
22973204 ACATTTCTTT
1 -TTTTTCTTT
22973214 TTTTTCTTT
1 TTTTTCTTT
*
22973223 TTTTTATTAT
1 TTTTTCTT-T
22973233 TTTTT
1 TTTTT
22973238 ATTTCAAGCA
Statistics
Matches: 63, Mismatches: 11, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
9 39 0.62
10 15 0.24
11 9 0.14
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:22980451 original size:31 final size:31
Alignment explanation
Indices: 22980416--22980511 Score: 80
Period size: 31 Copynumber: 3.2 Consensus size: 31
22980406 ATTTTTTAGA
22980416 AACTTTAATTTCGAGGAAAATTGATACTTTC
1 AACTTTAATTTCGAGGAAAATTGATACTTTC
* * *
22980447 AACTTT--TTCCCA--AAAA-T-AT-TTGTTC
1 AACTTTAATTTCGAGGAAAATTGATACT-TTC
22980472 GAAAACTTTAATTTCGAGGAAAATTGATACTTTC
1 ---AACTTTAATTTCGAGGAAAATTGATACTTTC
22980506 AACTTT
1 AACTTT
22980512 TCCTCAAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 22
0.63 0.08 0.29
Matches are distributed among these distances:
24 1 0.02
25 5 0.10
26 1 0.02
27 4 0.08
28 6 0.12
29 4 0.08
30 4 0.08
31 12 0.25
32 4 0.08
33 1 0.02
34 5 0.10
35 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (31 bp):
AACTTTAATTTCGAGGAAAATTGATACTTTC
Found at i:22980579 original size:118 final size:117
Alignment explanation
Indices: 22980371--22980585 Score: 335
Period size: 118 Copynumber: 1.8 Consensus size: 117
22980361 GCTTTGTACA
* * * *
22980371 AGGAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTAGAAACTTTAATTTCGAGGAAAA
1 AGGAAAATTGATACTTTCAACTTTTCTCAAAAAAAATTTTTTAGAAAATTTAATTTCAAGGAAAA
22980436 TTGATACTTTCAACTTTTTCCCAAAAATATTTGTTCGAAAACTTTAATTTCG
66 TTGATACTTTCAACTTTTTCCCAAAAATATTTGTTCGAAAACTTTAATTTCG
* *
22980488 AGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAAACTTTTTT-GAAAATTTATTTTTAAGGAA
1 AGGAAAATTGATACTTTCAACTTTT-CTCAAAAAAAA-TTTTTTAGAAAATTTAATTTCAAGGAA
22980552 AATTGATACTTTCAAC-TTTTCCTCAAAAATATTT
64 AATTGATACTTTCAACTTTTTCC-CAAAAATATTT
22980586 TTTTTGAATT
Statistics
Matches: 89, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
117 31 0.35
118 52 0.58
119 6 0.07
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.40
Consensus pattern (117 bp):
AGGAAAATTGATACTTTCAACTTTTCTCAAAAAAAATTTTTTAGAAAATTTAATTTCAAGGAAAA
TTGATACTTTCAACTTTTTCCCAAAAATATTTGTTCGAAAACTTTAATTTCG
Found at i:22980611 original size:58 final size:58
Alignment explanation
Indices: 22980369--22980589 Score: 302
Period size: 59 Copynumber: 3.8 Consensus size: 58
22980359 TTGCTTTGTA
*
22980369 CAAGGAAAATTGATACTTTCAACTTTT-CTCCAAAAATATTTTTTAGAAACTTTAATTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTTGAAACTTTAATTT
* * *
22980427 CGAGGAAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTGTTCGAAAACTTTAATTT
1 CAAGGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTG-AAACTTTAATTT
* * * * *
22980486 CGAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAAACTTTTTTGAAAATTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTGAAACTTTAATTT
*
22980545 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
22980590 TGAATTATAT
Statistics
Matches: 145, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
58 54 0.37
59 79 0.54
60 12 0.08
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (58 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTAATTT
Found at i:22980697 original size:20 final size:22
Alignment explanation
Indices: 22980669--22980721 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
22980659 AAATCTAATC
*
22980669 TAATCAATAAAT-AATA-ATAA
1 TAATAAATAAATAAATATATAA
22980689 TAATAAATAAATAAATATATAA
1 TAATAAATAAATAAATATATAA
* *
22980711 AAAAAAATAAA
1 TAATAAATAAA
22980722 AAAAATGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 11 0.39
21 4 0.14
22 13 0.46
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (22 bp):
TAATAAATAAATAAATATATAA
Found at i:22981648 original size:27 final size:26
Alignment explanation
Indices: 22981618--22981714 Score: 78
Period size: 27 Copynumber: 3.8 Consensus size: 26
22981608 TAACAGATAA
* * *
22981618 AAATAATACTAGATAAATTACATAGAT
1 AAATAATAATAAATAAATAAC-TAGAT
*
22981645 AAATAATAATAAATATATAACTAGAT
1 AAATAATAATAAATAAATAACTAGAT
* *
22981671 AAATTAA-AATATATATATTAAC---AT
1 AAA-TAATAATAAATA-AATAACTAGAT
22981695 AAA-AATAATAAATAAATAAC
1 AAATAATAATAAATAAATAAC
22981715 AAATACATAA
Statistics
Matches: 58, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
22 7 0.12
23 7 0.12
24 5 0.09
26 15 0.26
27 24 0.41
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (26 bp):
AAATAATAATAAATAAATAACTAGAT
Found at i:22981748 original size:17 final size:18
Alignment explanation
Indices: 22981726--22981759 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22981716 AATACATAAG
22981726 ATAT-AAAGAAAAAATAT
1 ATATAAAAGAAAAAATAT
*
22981743 ATATAAAATAAAAAATA
1 ATATAAAAGAAAAAATA
22981760 ATAAAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (18 bp):
ATATAAAAGAAAAAATAT
Found at i:22981763 original size:15 final size:15
Alignment explanation
Indices: 22981735--22981833 Score: 112
Period size: 15 Copynumber: 6.4 Consensus size: 15
22981725 GATATAAAGA
22981735 AAAAATATATATAAAAT
1 AAAAA-ATA-ATAAAAT
22981752 AAAAAATAATAAAAT
1 AAAAAATAATAAAAT
*
22981767 AAAGAATAATAAAA-
1 AAAAAATAATAAAAT
22981781 ATAAAAATAATAAAAT
1 A-AAAAATAATAAAAT
22981797 AATAAAATAATAAAAT
1 AA-AAAATAATAAAAT
* *
22981813 ATAAAAT-ACAAAAT
1 AAAAAATAATAAAAT
22981827 AATAAAA
1 AA-AAAA
22981834 ACAAGGTGGA
Statistics
Matches: 73, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
14 8 0.11
15 42 0.58
16 18 0.25
17 5 0.07
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.22
Consensus pattern (15 bp):
AAAAAATAATAAAAT
Found at i:22981805 original size:38 final size:38
Alignment explanation
Indices: 22981693--22981833 Score: 98
Period size: 38 Copynumber: 3.6 Consensus size: 38
22981683 ATATATTAAC
*
22981693 ATAAA-AATAATAAATAAATAACAAATACATAAGATATAAAGAA
1 ATAAAGAATAA-AAAT-AAT-A-AAATA-ATAAAATATAAA-AA
*
22981736 A-AAATATATATAAAATAA-AAAATAATAAAATA-AAGAATA
1 ATAAAGA-ATA-AAAATAATAAAATAATAAAATATAA-AA-A
*
22981775 ATAAA-AATAAAAATAATAAAATAATAAAATA-ATAAA
1 ATAAAGAATAAAAATAATAAAATAATAAAATATAAAAA
22981811 ATATAA-AATACAAAATAATAAAA
1 ATA-AAGAATA-AAAATAATAAAA
22981834 ACAAGGTGGA
Statistics
Matches: 87, Mismatches: 2, Indels: 23
0.78 0.02 0.21
Matches are distributed among these distances:
36 4 0.05
37 15 0.17
38 33 0.38
39 11 0.13
40 8 0.09
41 1 0.01
42 3 0.03
43 4 0.05
44 7 0.08
45 1 0.01
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (38 bp):
ATAAAGAATAAAAATAATAAAATAATAAAATATAAAAA
Found at i:22988749 original size:236 final size:236
Alignment explanation
Indices: 22987886--22988748 Score: 1262
Period size: 236 Copynumber: 3.7 Consensus size: 236
22987876 AATATATGGA
* * * *
22987886 GGGAAAATTTT-AAAGGTGTTTTCAGTTATAACAAATGCCTTCGGTAATGGATTATTAAATTTAA
1 GGGAAAATTTTGAAA-GCGTTTTCAATTATAACAAACGCCTTCGGTAATAGATTATTAAATTTAA
*
22987950 AGGTATACTAAAGGCGTCTTTTCTATTAAATGCCTTCCATTACCATCGTGGTATATTGAAGGCAT
65 AGGTATACTAAAGGCGCCTTTTCTATTAAATGCCTTCCATTACCATCGTGGTATATTGAAGGCAT
* *
22988015 TTTATAATCAAAGCCGCCTTCAATAACAGTGATGCAATATGTCTACCTCTATATAGAAGGCATGT
130 TTTATAATCAAAGCCACCTTCAATAACAGTGATGCAATTTGTCTACCTCTATATAGAAGGCATGT
* *
22988080 TTCAGTACAAGTC-GCTTATATTAATTCCTAAAAGATTTTTGT
195 TTCAGTACAAGTCACCTT-TATTAATTCCCAAAAGATTTTTGT
*
22988122 GGGAAAATTTTGAAAGCGTTTTCAATTATAACAAATGCCTTCGGTAATAGATTATTAAATTTAAA
1 GGGAAAATTTTGAAAGCGTTTTCAATTATAACAAACGCCTTCGGTAATAGATTATTAAATTTAAA
* * * * * * **
22988187 GGTATACTGAAGGTGCCTTTTCTATTAAACGCATTCCATTACCATCATGGTTTATTGAAGGTGTT
66 GGTATACTAAAGGCGCCTTTTCTATTAAATGCCTTCCATTACCATCGTGGTATATTGAAGGCATT
* * *
22988252 TTATAATTAAAGCCACCTTCAATAACAGTGATGCAATTTGTCTGCCTCTGTATAGAAGGCATGTT
131 TTATAATCAAAGCCACCTTCAATAACAGTGATGCAATTTGTCTACCTCTATATAGAAGGCATGTT
*
22988317 TCAATACAAGTCACCTTTATTAATTCCCAAAAGATTTTTGT
196 TCAGTACAAGTCACCTTTATTAATTCCCAAAAGATTTTTGT
* * * *
22988358 GGGAAAATTTTGAAGGTGTTTTCAGTTATAACAAACGTCTTCGGTAATAGATTATTAAATTTAAA
1 GGGAAAATTTTGAAAGCGTTTTCAATTATAACAAACGCCTTCGGTAATAGATTATTAAATTTAAA
* ** * * * * * *
22988423 GGTATACTGAAGGCATCTTTTCTATTAAATGCTTTTCATTTCCATCGTGGTATATTAAACGTATT
66 GGTATACTAAAGGCGCCTTTTCTATTAAATGCCTTCCATTACCATCGTGGTATATTGAAGGCATT
* * *
22988488 TTATAATCAAAGCCACCTTCAATAATATTGATGCAATTTGTCTACCTCCATATAGAAGGCATGTT
131 TTATAATCAAAGCCACCTTCAATAACAGTGATGCAATTTGTCTACCTCTATATAGAAGGCATGTT
* *
22988553 TCAGTACAAGTCATCTTTATTAATTCCCAAAATATTTTTGT
196 TCAGTACAAGTCACCTTTATTAATTCCCAAAAGATTTTTGT
* * * * *
22988594 AGGAAAATTTTGAAAGCATTTTCAATTATAACAAACACCTTCAGTAATGGATTATTAAATTTAAA
1 GGGAAAATTTTGAAAGCGTTTTCAATTATAACAAACGCCTTCGGTAATAGATTATTAAATTTAAA
*
22988659 GGTATACTAAAGGTGCCTTTTCTATTAAATGCCTTCCATTACCATCGTGGTATATTGAAGGCATT
66 GGTATACTAAAGGCGCCTTTTCTATTAAATGCCTTCCATTACCATCGTGGTATATTGAAGGCATT
* *
22988724 TTATAATCAAAGTCGCCTTCAATAA
131 TTATAATCAAAGCCACCTTCAATAA
22988749 TTAGGGGATA
Statistics
Matches: 558, Mismatches: 67, Indels: 4
0.89 0.11 0.01
Matches are distributed among these distances:
236 552 0.99
237 6 0.01
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (236 bp):
GGGAAAATTTTGAAAGCGTTTTCAATTATAACAAACGCCTTCGGTAATAGATTATTAAATTTAAA
GGTATACTAAAGGCGCCTTTTCTATTAAATGCCTTCCATTACCATCGTGGTATATTGAAGGCATT
TTATAATCAAAGCCACCTTCAATAACAGTGATGCAATTTGTCTACCTCTATATAGAAGGCATGTT
TCAGTACAAGTCACCTTTATTAATTCCCAAAAGATTTTTGT
Found at i:22996666 original size:18 final size:17
Alignment explanation
Indices: 22996616--22996667 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
22996606 TATATACATA
*
22996616 TGTTATTTTTTATTTCTT
1 TGTTA-TTTTTATTTTTT
*
22996634 TATCTATTTTTATTTTTT
1 TGT-TATTTTTATTTTTT
22996652 TGTTATTTTTAATTTT
1 TGTTATTTTT-ATTTT
22996668 ATTTAATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 7 0.24
18 20 0.69
19 2 0.07
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.77
Consensus pattern (17 bp):
TGTTATTTTTATTTTTT
Found at i:22997258 original size:144 final size:143
Alignment explanation
Indices: 22997064--22997347 Score: 532
Period size: 144 Copynumber: 2.0 Consensus size: 143
22997054 TTGAGAGAAT
*
22997064 TTAATTTGGTATTTTTTTAAGGATTTCAGGAGCTAAAAGTTTAATTTGGTGTTTTGGAGCAAATT
1 TTAATTTGGTATTTTTTTAAGGATTTCAGGAGCTAAAAGTCTAATTTGGTGTTTTGGAGCAAATT
22997129 TTTCTAAATTTCTAAAATTTATTCTAGAAATTCTAGAATCCAACCAAAATTTCGACAAACTTCAA
66 TTTCTAAATTTCTAAAATTTATTCTAGAAATTCTAGAATCCAACCAAAATTTCGACAAACTTCAA
22997194 ATTTTTCGATAAC
131 ATTTTTCGATAAC
22997207 TTAATTTGGTATTTTTTTTAAGGATTTCAGGAGCTAAAAGTCTAATTTGGTGTTTTGGAGCAAAT
1 TTAATTTGGTA-TTTTTTTAAGGATTTCAGGAGCTAAAAGTCTAATTTGGTGTTTTGGAGCAAAT
* *
22997272 TTTTCTAAATTTCTAAGATTTATTCTAGAAATTCTAGAATTCAACCAAAATTTCGACAAACTTCA
65 TTTTCTAAATTTCTAAAATTTATTCTAGAAATTCTAGAATCCAACCAAAATTTCGACAAACTTCA
22997337 AATTTTTCGAT
130 AATTTTTCGAT
22997348 GACTCTCTAA
Statistics
Matches: 137, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
143 11 0.08
144 126 0.92
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (143 bp):
TTAATTTGGTATTTTTTTAAGGATTTCAGGAGCTAAAAGTCTAATTTGGTGTTTTGGAGCAAATT
TTTCTAAATTTCTAAAATTTATTCTAGAAATTCTAGAATCCAACCAAAATTTCGACAAACTTCAA
ATTTTTCGATAAC
Found at i:22997760 original size:4 final size:4
Alignment explanation
Indices: 22997751--22997896 Score: 109
Period size: 4 Copynumber: 36.0 Consensus size: 4
22997741 TTTCATTTTC
* * * * *
22997751 ATTT ATTT ATTT ATTT -TTC ATTT ATTT GTAT ATTTT CTTT A-TT AATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A-TTT ATTT ATTT ATTT
* * * * * * *
22997798 GTTT ATTT GTTT ATTAT TTTT ATTT ATTT AGTG GTTT ATTT ATTT GTTT
1 ATTT ATTT ATTT ATT-T ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
*
22997847 ATTTT ATTT ATTT ATTT ATTTT ATTT GA-TT ATTT ATGT ATTT ATTT ATTT
1 A-TTT ATTT ATTT ATTT A-TTT ATTT -ATTT ATTT ATTT ATTT ATTT ATTT
22997897 GTAAATAATT
Statistics
Matches: 109, Mismatches: 25, Indels: 16
0.73 0.17 0.11
Matches are distributed among these distances:
3 6 0.06
4 89 0.82
5 14 0.13
ACGTcount: A:0.21, C:0.01, G:0.06, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:22997772 original size:25 final size:24
Alignment explanation
Indices: 22997741--22997888 Score: 85
Period size: 25 Copynumber: 6.0 Consensus size: 24
22997731 GTTGGTATAA
22997741 TTTCATTTTCATTTATTTATTTATT
1 TTTCATTTT-ATTTATTTATTTATT
* * *
22997766 TTTCA-TTTATTTGTATATTTTCTT
1 TTTCATTTTATTTATTTA-TTTATT
* *
22997790 TATTAATTGTTTATTTGTTTA-TTATT
1 T-TTCA-T-TTTATTTATTTATTTATT
22997816 TTT-A-TTTATTTAGTGGTTTATTTATT
1 TTTCATTTTATTTA----TTTATTTATT
*
22997842 TGTTTATTTTATTTATTTATTTA-T
1 T-TTCATTTTATTTATTTATTTATT
* *
22997866 TTT-ATTTGA-TTATTTATGTATT
1 TTTCATTTTATTTATTTATTTATT
22997888 T
1 T
22997889 ATTTATTTGT
Statistics
Matches: 100, Mismatches: 9, Indels: 31
0.71 0.06 0.22
Matches are distributed among these distances:
21 17 0.17
22 7 0.07
23 9 0.09
24 12 0.12
25 22 0.22
26 11 0.11
27 2 0.02
28 12 0.12
29 8 0.08
ACGTcount: A:0.20, C:0.03, G:0.06, T:0.71
Consensus pattern (24 bp):
TTTCATTTTATTTATTTATTTATT
Found at i:22997910 original size:29 final size:28
Alignment explanation
Indices: 22997848--22997911 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
22997838 TATTTGTTTA
* ** *
22997848 TTTTATTTATTTATTTATTTTATTTGAT
1 TTTTATGTATTTATTTATTTTAAATAAT
22997876 TATTTATGTATTTATTTATTTGTAAATAAT
1 T-TTTATGTATTTATTTATTT-TAAATAAT
22997906 TTTTAT
1 TTTTAT
22997912 AAAAAAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 1 0.03
29 23 0.77
30 6 0.20
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.69
Consensus pattern (28 bp):
TTTTATGTATTTATTTATTTTAAATAAT
Found at i:22997999 original size:59 final size:59
Alignment explanation
Indices: 22997932--22998199 Score: 199
Period size: 59 Copynumber: 4.5 Consensus size: 59
22997922 AAAAAATTCA
**
22997932 AATAAAAATGAATCTTA-TTACATATTGAAG-GGTTCAAATTTCTAAAAATA-AATTTTTG
1 AATAAAAATGAATCTTACCAACATATTG-AGTGGTTCAAATTTCTAAAAA-AGAATTTTTG
* * *
22997990 AATAAAAAATGAATCTTACCAACATGTTGGGTGGTTTAAATTTCTAAAAAAGAATTTTTG
1 AAT-AAAAATGAATCTTACCAACATATTGAGTGGTTCAAATTTCTAAAAAAGAATTTTTG
* * * * * **
22998050 AATAAAAATGAACCTTGCCAATATATGGGAG-GCTTCAAATTTAAAAAAAAAAATGAATTTTTG
1 AATAAAAATGAATCTTACCAACATAT-TGAGTGGTTCAAATTT---CTAAAAAA-GAATTTTTG
* * * * * * *
22998113 AATGAAAATGAACCTTACCAACATATTGGAG-GGTT-AAAATTCCAAGAAATGAATTCTTC
1 AATAAAAATGAATCTTACCAACATATT-GAGTGGTTCAAATTTCTAA-AAAAGAATTTTTG
* *
22998172 AAT-AGAATAAAGTCTTACCAACATATTG
1 AATAAAAATGAA-TCTTACCAACATATTG
22998200 GGGGGCTTGT
Statistics
Matches: 169, Mismatches: 29, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
58 10 0.06
59 70 0.41
60 40 0.24
62 11 0.07
63 38 0.22
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.32
Consensus pattern (59 bp):
AATAAAAATGAATCTTACCAACATATTGAGTGGTTCAAATTTCTAAAAAAGAATTTTTG
Found at i:22998046 original size:60 final size:58
Alignment explanation
Indices: 22997962--22998141 Score: 191
Period size: 63 Copynumber: 3.0 Consensus size: 58
22997952 CATATTGAAG
* *
22997962 GGTTCAAATTTCTAAAAATA-AATTTTTGAATAAAAAATGAATCTTACCAACATGTTGGGT
1 GGTTCAAATTTCTAAAAA-AGAATTTTTGAAT-AAAAATGAACCTTACCAACAT-TTGGGA
* * * *
22998022 GGTTTAAATTTCTAAAAAAGAATTTTTGAATAAAAATGAACCTTGCCAATATATGGGA
1 GGTTCAAATTTCTAAAAAAGAATTTTTGAATAAAAATGAACCTTACCAACATTTGGGA
** *
22998080 GGCTTCAAATTTAAAAAAAAAAATGAATTTTTGAATGAAAATGAACCTTACCAACATATTGG
1 GG-TTCAAATTT---CTAAAAAA-GAATTTTTGAATAAAAATGAACCTTACCAACAT-TTGG
22998142 AGGGTTAAAA
Statistics
Matches: 100, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
58 6 0.06
59 27 0.27
60 28 0.28
62 6 0.06
63 30 0.30
64 3 0.03
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (58 bp):
GGTTCAAATTTCTAAAAAAGAATTTTTGAATAAAAATGAACCTTACCAACATTTGGGA
Found at i:23000176 original size:16 final size:18
Alignment explanation
Indices: 23000153--23000195 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
23000143 TTTTGGGTTC
23000153 TGTGAATTT-ATTTCATT
1 TGTGAATTTGATTTCATT
*
23000170 T-TGAATTTGATTTGATT
1 TGTGAATTTGATTTCATT
23000187 TGTGAATTT
1 TGTGAATTT
23000196 CCTAAATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 7 0.30
17 9 0.39
18 7 0.30
ACGTcount: A:0.23, C:0.02, G:0.16, T:0.58
Consensus pattern (18 bp):
TGTGAATTTGATTTCATT
Found at i:23000548 original size:23 final size:22
Alignment explanation
Indices: 23000514--23000559 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
23000504 ATTTTTAGAA
* * *
23000514 TTTTTATTTTTACTTATTATTT
1 TTTTTATCTTTAATTACTATTT
23000536 TTTTTCATCTTTAATTACTATTT
1 TTTTT-ATCTTTAATTACTATTT
23000559 T
1 T
23000560 CTCATTACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTTATCTTTAATTACTATTT
Found at i:23002607 original size:3 final size:3
Alignment explanation
Indices: 23002599--23002627 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
23002589 ATTAATCTTA
23002599 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
23002628 AGAAAAAATT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:23013423 original size:33 final size:35
Alignment explanation
Indices: 23013338--23013434 Score: 117
Period size: 33 Copynumber: 2.8 Consensus size: 35
23013328 TATCCACTAT
* *
23013338 AAATGTATCCTCCACGTCAAGTGTATCATCTACCTC
1 AAATGTATCCTCCACCTCAAATGTATCA-CTACCTC
* *
23013374 AAATGTATCATTCACCTCAAATGTATCA-T-CCTC
1 AAATGTATCCTCCACCTCAAATGTATCACTACCTC
* *
23013407 AAATATATCCTCCACCTCAAATGCATCA
1 AAATGTATCCTCCACCTCAAATGTATCA
23013435 AGAACAAGGG
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
33 28 0.53
34 1 0.02
36 24 0.45
ACGTcount: A:0.33, C:0.30, G:0.07, T:0.30
Consensus pattern (35 bp):
AAATGTATCCTCCACCTCAAATGTATCACTACCTC
Found at i:23013426 original size:18 final size:18
Alignment explanation
Indices: 23013338--23013434 Score: 101
Period size: 18 Copynumber: 5.6 Consensus size: 18
23013328 TATCCACTAT
* *
23013338 AAATGTATCCTCCACGTC
1 AAATGTATCATCCACCTC
* *
23013356 AAGTGTATCATCTACCTC
1 AAATGTATCATCCACCTC
*
23013374 AAATGTATCATTCACCTC
1 AAATGTATCATCCACCTC
23013392 AAATGTATCAT---CCTC
1 AAATGTATCATCCACCTC
* *
23013407 AAATATATCCTCCACCTC
1 AAATGTATCATCCACCTC
*
23013425 AAATGCATCA
1 AAATGTATCA
23013435 AGAACAAGGG
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
15 13 0.20
18 51 0.80
ACGTcount: A:0.33, C:0.30, G:0.07, T:0.30
Consensus pattern (18 bp):
AAATGTATCATCCACCTC
Found at i:23015485 original size:21 final size:21
Alignment explanation
Indices: 23015443--23015485 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
23015433 CTGAACAAAT
* *
23015443 AAAATATAAAAGAAAGACATA
1 AAAATAGAAAAGAAAAACATA
* *
23015464 AAAATAGAAAATAAAAATATA
1 AAAATAGAAAAGAAAAACATA
23015485 A
1 A
23015486 CTAAATATGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.16
Consensus pattern (21 bp):
AAAATAGAAAAGAAAAACATA
Found at i:23020095 original size:24 final size:24
Alignment explanation
Indices: 23020044--23020105 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
23020034 AGAATATAGT
* * *
23020044 TGAAGAAGTAAAGACTGCAGCCCT
1 TGAAGCAGTAAAGACTGCAACCCG
* *
23020068 TGAAGCAGTAAAGATTGCAATCCG
1 TGAAGCAGTAAAGACTGCAACCCG
23020092 TGAAGCTA-TAAAGA
1 TGAAGC-AGTAAAGA
23020106 GTGTAGTACT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 31 0.97
25 1 0.03
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.19
Consensus pattern (24 bp):
TGAAGCAGTAAAGACTGCAACCCG
Found at i:23021551 original size:27 final size:27
Alignment explanation
Indices: 23021520--23021571 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
23021510 AGAGGTGGTA
*
23021520 GCAGAAAAGTGGAAAACGAACAATACG
1 GCAGAAAAGTGGAAAACCAACAATACG
*
23021547 GCAGAAAAGTGGAAAGCCAACAATA
1 GCAGAAAAGTGGAAAACCAACAATA
23021572 GGCGAACGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.52, C:0.15, G:0.25, T:0.08
Consensus pattern (27 bp):
GCAGAAAAGTGGAAAACCAACAATACG
Found at i:23026903 original size:21 final size:21
Alignment explanation
Indices: 23026841--23026904 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
23026831 ATTAGTTTGA
* * *
23026841 TTTTAGAGAGAGAGAATGAAA
1 TTTTAGAGAGAAAGGATGAAT
23026862 TTTTAGAGAGAAAGGATGAAT
1 TTTTAGAGAGAAAGGATGAAT
23026883 TTTTAGAGAGAAAGGATGAAT
1 TTTTAGAGAGAAAGGATGAAT
23026904 T
1 T
23026905 GAGATGAAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (21 bp):
TTTTAGAGAGAAAGGATGAAT
Found at i:23028971 original size:16 final size:18
Alignment explanation
Indices: 23028941--23028973 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
23028931 TCCATTTTTT
23028941 ATATATAAATCAATTATA
1 ATATATAAATCAATTATA
23028959 ATATA-AAAT-AATTAT
1 ATATATAAATCAATTAT
23028974 TATTCTATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
ATATATAAATCAATTATA
Found at i:23035090 original size:19 final size:19
Alignment explanation
Indices: 23035067--23035104 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
23035057 CCGTCCCTTA
23035067 CACACACT--AGCCCACAC
1 CACACACTAGAGCCCACAC
23035084 CACACACTAGAGCCCACAC
1 CACACACTAGAGCCCACAC
23035103 CA
1 CA
23035105 ATTTCCTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.42
19 11 0.58
ACGTcount: A:0.37, C:0.50, G:0.08, T:0.05
Consensus pattern (19 bp):
CACACACTAGAGCCCACAC
Found at i:23035744 original size:18 final size:19
Alignment explanation
Indices: 23035721--23035766 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 19
23035711 GGTTCTTGGG
*
23035721 AAAAAAAAG-GAAAGAGAA
1 AAAAAAAAGAGAAAGACAA
23035739 AAAAAAAAGAGAAAGACAA
1 AAAAAAAAGAGAAAGACAA
23035758 ATAAAAAAA
1 A-AAAAAAA
23035767 AGGGGAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 9 0.36
19 9 0.36
20 7 0.28
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.02
Consensus pattern (19 bp):
AAAAAAAAGAGAAAGACAA
Found at i:23040085 original size:18 final size:19
Alignment explanation
Indices: 23040062--23040098 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
23040052 TATTATAATT
*
23040062 AAATAAAAA-ATATTTAAA
1 AAATAAAAACAAATTTAAA
23040080 AAATAAAAACAAATTTAAA
1 AAATAAAAACAAATTTAAA
23040099 TTCATAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (19 bp):
AAATAAAAACAAATTTAAA
Found at i:23042950 original size:3 final size:3
Alignment explanation
Indices: 23042931--23042974 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
23042921 TAAGTATATC
* *
23042931 AAT ACT AAT ATT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
23042975 ATATTTAAAA
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:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:23043001 original size:17 final size:16
Alignment explanation
Indices: 23042952--23043002 Score: 50
Period size: 17 Copynumber: 3.2 Consensus size: 16
23042942 TAATAATAAT
* *
23042952 AATAATAATAA-TAAT
1 AATAATAAAAATTAAA
* *
23042967 AATAATAAATATTTAA
1 AATAATAAAAATTAAA
23042983 AATATATAAAAATTAAA
1 AATA-ATAAAAATTAAA
23043000 AAT
1 AAT
23043003 TAAAAAAAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
15 9 0.32
16 6 0.21
17 13 0.46
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAATAAAAATTAAA
Found at i:23043110 original size:24 final size:23
Alignment explanation
Indices: 23043060--23043122 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 23
23043050 CCGTTGCTGC
*
23043060 CCCCCTGTCAGCCTCCCGACCAA
1 CCCCCTGCCAGCCTCCCGACCAA
*
23043083 CCCCCTGCCAGCCTCCTGACCAA
1 CCCCCTGCCAGCCTCCCGACCAA
23043106 CCCCCTGACCAG-CTCCC
1 CCCCCTG-CCAGCCTCCC
23043123 TTTCAGCCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 32 0.89
24 4 0.11
ACGTcount: A:0.16, C:0.59, G:0.13, T:0.13
Consensus pattern (23 bp):
CCCCCTGCCAGCCTCCCGACCAA
Found at i:23043123 original size:12 final size:12
Alignment explanation
Indices: 23043077--23043116 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
23043067 TCAGCCTCCC
23043077 GACCAACCCCCT
1 GACCAACCCCCT
* *
23043089 G-CCAGCCTCCT
1 GACCAACCCCCT
23043100 GACCAACCCCCT
1 GACCAACCCCCT
23043112 GACCA
1 GACCA
23043117 GCTCCCTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.23, C:0.55, G:0.12, T:0.10
Consensus pattern (12 bp):
GACCAACCCCCT
Done.