Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 66 of 106
Found at i:11957064 original size:21 final size:21
Alignment explanation
Indices: 11957038--11957147 Score: 123
Period size: 21 Copynumber: 5.2 Consensus size: 21
11957028 TATAATTTTG
11957038 ATTTTGATAACTTTTGATAAA
1 ATTTTGATAACTTTTGATAAA
* * *
11957059 ATTTTGATAATTTTTTATACA
1 ATTTTGATAACTTTTGATAAA
* *
11957080 ATTTTGATAACTTATGATATA
1 ATTTTGATAACTTTTGATAAA
* *
11957101 ATTTT-AGTAACTATTGATACA
1 ATTTTGA-TAACTTTTGATAAA
* *
11957122 ATTTTAATAATTTTTGATAAA
1 ATTTTGATAACTTTTGATAAA
11957143 ATTTT
1 ATTTT
11957148 AGTAATCTAT
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
20 1 0.01
21 72 0.97
22 1 0.01
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (21 bp):
ATTTTGATAACTTTTGATAAA
Found at i:11957086 original size:42 final size:42
Alignment explanation
Indices: 11957038--11957158 Score: 154
Period size: 42 Copynumber: 2.9 Consensus size: 42
11957028 TATAATTTTG
* * *
11957038 ATTTTGATAACTTTTGATAAAATTTT-GATAATTTTTTATACA
1 ATTTTGATAACTTTTGATAAAATTTTAG-TAACTATTGATACA
* *
11957080 ATTTTGATAACTTATGATATAATTTTAGTAACTATTGATACA
1 ATTTTGATAACTTTTGATAAAATTTTAGTAACTATTGATACA
* *
11957122 ATTTTAATAATTTTTGATAAAATTTTAGTAATCTATT
1 ATTTTGATAACTTTTGATAAAATTTTAGTAA-CTATT
11957159 AATGTAATTT
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 62 0.91
43 6 0.09
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.50
Consensus pattern (42 bp):
ATTTTGATAACTTTTGATAAAATTTTAGTAACTATTGATACA
Found at i:11957169 original size:22 final size:22
Alignment explanation
Indices: 11957096--11957184 Score: 83
Period size: 21 Copynumber: 4.1 Consensus size: 22
11957086 ATAACTTATG
*
11957096 ATATAATTTTAGTAA-CTATTG
1 ATATAATTTTAGTAATCTATTA
* * * *
11957117 ATACAATTTTAATAAT-TTTTG
1 ATATAATTTTAGTAATCTATTA
*
11957138 ATAAAATTTTAGTAATCTATTA
1 ATATAATTTTAGTAATCTATTA
* * *
11957160 ATGTAATTTTAGTACTCTTTTA
1 ATATAATTTTAGTAATCTATTA
11957182 ATA
1 ATA
11957185 ACTTATGATA
Statistics
Matches: 54, Mismatches: 12, Indels: 3
0.78 0.17 0.04
Matches are distributed among these distances:
21 31 0.57
22 23 0.43
ACGTcount: A:0.38, C:0.06, G:0.07, T:0.49
Consensus pattern (22 bp):
ATATAATTTTAGTAATCTATTA
Found at i:11957542 original size:22 final size:22
Alignment explanation
Indices: 11957517--11957746 Score: 160
Period size: 22 Copynumber: 10.5 Consensus size: 22
11957507 ATATTATCAG
*
11957517 TGATTTACTACTAAATTGTTAA
1 TGATTTACTACTAAATTATTAA
* * *
11957539 TGATATACTATTAAATTATAAA
1 TGATTTACTACTAAATTATTAA
* ** *
11957561 TGATTTATTACTAAATTAGCAT
1 TGATTTACTACTAAATTATTAA
* * * *
11957583 TAATTTACTATTAATTTATAAA
1 TGATTTACTACTAAATTATTAA
* * *
11957605 TGATTTACTACTAAGTTATGAC
1 TGATTTACTACTAAATTATTAA
* * * *
11957627 TAATTTGCTATTAAATTATTGA
1 TGATTTACTACTAAATTATTAA
* * *
11957649 TAATTTACTTCTAAGTTATTAA
1 TGATTTACTACTAAATTATTAA
*
11957671 TGATTTATTA-TAAAGTTA-TAA
1 TGATTTACTACTAAA-TTATTAA
* * *
11957692 CTGATTTACTATTAATTTATTGA
1 -TGATTTACTACTAAATTATTAA
11957715 TGATTTACTAC-AAAGTTATTAA
1 TGATTTACTACTAAA-TTATTAA
* *
11957737 TAATTAACTA
1 TGATTTACTA
11957747 ATTTGCTATT
Statistics
Matches: 157, Mismatches: 46, Indels: 10
0.74 0.22 0.05
Matches are distributed among these distances:
21 8 0.05
22 144 0.92
23 5 0.03
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (22 bp):
TGATTTACTACTAAATTATTAA
Found at i:11957638 original size:88 final size:88
Alignment explanation
Indices: 11957463--11957645 Score: 206
Period size: 88 Copynumber: 2.1 Consensus size: 88
11957453 AGTTTAAAAA
* * * * * *
11957463 AAATTATTAATGATTAATAATTAAGTTATCATTAATTTAATATTATATTATCAGTGATTTACTAC
1 AAATTATAAATGATTAATAACTAAATTAGCATTAATTTAATATTATATTATAAATGATTTACTAC
* * *
11957528 TAAATTGTTAATGATATACTATT
66 TAAATTATGAATAATATACTATT
* * *
11957551 AAATTATAAATGATTTATTACTAAATTAGCATTAATTTACTATTA-ATTTATAAATGATTTACTA
1 AAATTATAAATGATTAATAACTAAATTAGCATTAATTTAATATTATA-TTATAAATGATTTACTA
* * * *
11957615 CTAAGTTATGACTAATTTGCTATT
65 CTAAATTATGAATAATATACTATT
11957639 AAATTAT
1 AAATTAT
11957646 TGATAATTTA
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
87 1 0.01
88 77 0.99
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.46
Consensus pattern (88 bp):
AAATTATAAATGATTAATAACTAAATTAGCATTAATTTAATATTATATTATAAATGATTTACTAC
TAAATTATGAATAATATACTATT
Found at i:11957655 original size:44 final size:45
Alignment explanation
Indices: 11957484--11957711 Score: 162
Period size: 44 Copynumber: 5.2 Consensus size: 45
11957474 GATTAATAAT
* * * * *
11957484 TAAGTTAT-CATTAATTTAATATTATATTATCAGTGATTTACTAC
1 TAAGTTATGCACTAATTTACTATTAAATTATAAATGATTTACTAC
* * * * * * *
11957528 TAAATTGT-TAATGATATACTATTAAATTATAAATGATTTATTAC
1 TAAGTTATGCACTAATTTACTATTAAATTATAAATGATTTACTAC
* * *
11957572 TAAATTA-GCATTAATTTACTATTAATTTATAAATGATTTACTAC
1 TAAGTTATGCACTAATTTACTATTAAATTATAAATGATTTACTAC
* ** * *
11957616 TAAGTTATG-ACTAATTTGCTATTAAATTATTGATAATTTACTTC
1 TAAGTTATGCACTAATTTACTATTAAATTATAAATGATTTACTAC
* * * * * *
11957660 TAAGTTAT-TAATGATTTATTA-TAAAGTTATAACTGATTTACTAT
1 TAAGTTATGCACTAATTTACTATTAAA-TTATAAATGATTTACTAC
*
11957704 TAATTTAT
1 TAAGTTAT
11957712 TGATGATTTA
Statistics
Matches: 143, Mismatches: 37, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
43 4 0.03
44 138 0.97
45 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (45 bp):
TAAGTTATGCACTAATTTACTATTAAATTATAAATGATTTACTAC
Found at i:11957734 original size:66 final size:66
Alignment explanation
Indices: 11957466--11957746 Score: 196
Period size: 66 Copynumber: 4.3 Consensus size: 66
11957456 TTAAAAAAAA
* * * * * * * *
11957466 TTATTAATGA-TTAATAATTAAGTTATCATTAATTTAATATTATATTA-TCAGTGATTTACTACT
1 TTATTAATGATTTACT-ACTAAGTTATAACTAATTTACTATTAAATTATTGA-TAATTTACTAC-
11957529 AAA-
63 AAAG
* * * * * * * * **
11957532 TTGTTAATGATATACTATTAAATTATAAATGATTTATTACTAAATTA--GCATTAATTTACTATT
1 TTATTAATGATTTACTACTAAGTTATAACTAATTTACTATTAAATTATTG-A-TAATTTACTACA
*
11957595 AAT
64 AAG
* * * * *
11957598 TTATAAATGATTTACTACTAAGTTATGACTAATTTGCTATTAAATTATTGATAATTTACTTCTAA
1 TTATTAATGATTTACTACTAAGTTATAACTAATTTACTATTAAATTATTGATAATTTACTACAAA
11957663 G
66 G
* * * *
11957664 TTATTAATGATTTATTA-TAAAGTTATAACTGATTTACTATTAATTTATTGATGATTTACTACAA
1 TTATTAATGATTTACTACT-AAGTTATAACTAATTTACTATTAAATTATTGATAATTTACTACAA
11957728 AG
65 AG
* *
11957730 TTATTAATAATTAACTA
1 TTATTAATGATTTACTA
11957747 ATTTGCTATT
Statistics
Matches: 168, Mismatches: 41, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
65 3 0.02
66 160 0.95
67 4 0.02
68 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (66 bp):
TTATTAATGATTTACTACTAAGTTATAACTAATTTACTATTAAATTATTGATAATTTACTACAAA
G
Found at i:11957807 original size:22 final size:22
Alignment explanation
Indices: 11957782--11957839 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
11957772 TACAACTAAG
* *
11957782 TTATTAGTGATTTAC-TATTAAA
1 TTATCAGTAATTTACAT-TTAAA
*
11957804 TTATCATTAATTTACATTTAAA
1 TTATCAGTAATTTACATTTAAA
*
11957826 TTATCAATAATTTA
1 TTATCAGTAATTTA
11957840 TTATTATGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 30 0.97
23 1 0.03
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (22 bp):
TTATCAGTAATTTACATTTAAA
Found at i:11957839 original size:44 final size:44
Alignment explanation
Indices: 11957745--11957845 Score: 105
Period size: 44 Copynumber: 2.3 Consensus size: 44
11957735 AATAATTAAC
* * * * *
11957745 TAATTTGCTATTAAATTATCCCTTATTTACAACTAAGTTATTAG
1 TAATTTACTATTAAATTATCCATTATTTACAACTAAATTATCAA
* **
11957789 TGATTTACTATTAAATTAT-CATTAATTTACATTTAAATTATCAA
1 TAATTTACTATTAAATTATCCATT-ATTTACAACTAAATTATCAA
*
11957833 TAATTTATTATTA
1 TAATTTACTATTA
11957846 TGTTGTTATA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
43 3 0.07
44 43 0.93
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.49
Consensus pattern (44 bp):
TAATTTACTATTAAATTATCCATTATTTACAACTAAATTATCAA
Found at i:11957839 original size:118 final size:118
Alignment explanation
Indices: 11957625--11957839 Score: 263
Period size: 118 Copynumber: 1.8 Consensus size: 118
11957615 CTAAGTTATG
** ** *
11957625 ACTAATTTGCTATTAAATTATTGATAATTTACTTCTAAGTTATTAATGATTTATTATAAAGTTAT
1 ACTAATTTGCTATTAAATTATCCATAATTTACAACTAAGTTATTAATGATTTACTATAAAGTTAT
* * ** *
11957690 AACTGATTTACTATTAATTTATTGATGATTTACTACAAAGTTATTAATAATTA
66 AACTAATTTACTATTAAATTATCAATAATTTACTACAAAGTTATTAATAATTA
* * *
11957743 ACTAATTTGCTATTAAATTATCCCTTATTTACAACTAAGTTATTAGTGATTTACTATTAAA-TTA
1 ACTAATTTGCTATTAAATTATCCATAATTTACAACTAAGTTATTAATGATTTACTA-TAAAGTTA
* *
11957807 TCATTAATTTAC-ATTTAAATTATCAATAATTTA
65 TAACTAATTTACTA-TTAAATTATCAATAATTTA
11957840 TTATTATGTT
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
117 1 0.01
118 75 0.94
119 4 0.05
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (118 bp):
ACTAATTTGCTATTAAATTATCCATAATTTACAACTAAGTTATTAATGATTTACTATAAAGTTAT
AACTAATTTACTATTAAATTATCAATAATTTACTACAAAGTTATTAATAATTA
Found at i:11957873 original size:44 final size:44
Alignment explanation
Indices: 11957825--11957909 Score: 102
Period size: 44 Copynumber: 1.9 Consensus size: 44
11957815 TTACATTTAA
* *
11957825 ATTATCAATAATTTA-TTATTATGTTGTT-ATATATTTACTACTAT
1 ATTATCAATAATTTACTAATTA-GTTCTTAAT-TATTTACTACTAT
* *
11957869 ATTATCATTGATTTACTAATTAGTTCTTAATTATTTACTAC
1 ATTATCAATAATTTACTAATTAGTTCTTAATTATTTACTAC
11957910 AAAATCATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
44 28 0.80
45 7 0.20
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (44 bp):
ATTATCAATAATTTACTAATTAGTTCTTAATTATTTACTACTAT
Found at i:11957999 original size:22 final size:21
Alignment explanation
Indices: 11957955--11958259 Score: 90
Period size: 22 Copynumber: 13.8 Consensus size: 21
11957945 ATTCATTATC
11957955 AAATTATCATTAATTTATATT
1 AAATTATCATTAATTTATATT
*
11957976 AAATTATCAATT-ATTTACTGTT
1 AAATTATC-ATTAATTTA-TATT
* * * *
11957998 AAGTTATTATTGATTAACTATT
1 AAATTATCATTAATTTA-TATT
* *
11958020 AAGTTATTAATGATTAA-CTACTATT
1 AA---ATT-ATCATTAATTTA-TATT
*
11958045 AAGTTAT-ATTAATTTACT-TT
1 AAATTATCATTAATTTA-TATT
* * * *
11958065 AAAGTTTTCAATAATTAATTATG
1 AAA-TTATCATTAATTTA-TATT
11958088 AAATTATCATTAATTTATTATT
1 AAATTATCATTAATTTA-TATT
* *
11958110 AAGTTAT--TTATGATTTATTACT
1 AAATTATCATTA--ATTTA-TATT
*
11958132 AAATTTATTAATTAA-TTACTATT
1 AAA-TTA-TCATTAATTTA-TATT
* *
11958155 AAATTGA-AACTAATTTACTATT
1 AAATT-ATCATTAATTTA-TATT
* *
11958177 AAATTATCATCAATTTATTACT
1 AAATTATCATTAATTTA-TATT
* *
11958199 AAGTTATCAATT-ATTAACTATT
1 AAATTATC-ATTAATTTA-TATT
* * *
11958221 AAATTATTACTTATTTTTTATT
1 AAATTATCA-TTAATTTATATT
*
11958243 AACA-TGTCATTAATTTA
1 AA-ATTATCATTAATTTA
11958260 CTAATATATT
Statistics
Matches: 213, Mismatches: 47, Indels: 48
0.69 0.15 0.16
Matches are distributed among these distances:
20 12 0.06
21 38 0.18
22 120 0.56
23 22 0.10
24 2 0.01
25 10 0.05
26 9 0.04
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (21 bp):
AAATTATCATTAATTTATATT
Found at i:11958082 original size:46 final size:47
Alignment explanation
Indices: 11957991--11958156 Score: 116
Period size: 46 Copynumber: 3.7 Consensus size: 47
11957981 ATCAATTATT
* * *
11957991 TACTGTTAAGTTATTATTGATTAACTATTAAGTTATTAATGATTAAC
1 TACTATTAAGTTATTATTAATTAACTATTAAGTTATTAATAATTAAC
*
11958038 TACTATTAAGTTA-TATTAATTTACT-TTAAAGTT-TTCAATAATTAA-
1 TACTATTAAGTTATTATTAATTAACTATT-AAGTTATT-AATAATTAAC
* * * * * * * * *
11958083 T--TATGAAATTATCATTAATTTATTATTAAGTTATTTATGATTTAT
1 TACTATTAAGTTATTATTAATTAACTATTAAGTTATTAATAATTAAC
*
11958128 TACTA--AATTTATTAATTAATT-ACTATTAA
1 TACTATTAAGTTATT-ATTAATTAACTATTAA
11958157 ATTGAAACTA
Statistics
Matches: 96, Mismatches: 14, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
43 8 0.08
44 21 0.22
45 23 0.24
46 30 0.31
47 14 0.15
ACGTcount: A:0.39, C:0.05, G:0.06, T:0.50
Consensus pattern (47 bp):
TACTATTAAGTTATTATTAATTAACTATTAAGTTATTAATAATTAAC
Found at i:11958114 original size:44 final size:44
Alignment explanation
Indices: 11957949--11958244 Score: 140
Period size: 44 Copynumber: 6.7 Consensus size: 44
11957939 ACCATTATTC
* * * * *
11957949 ATTATCAAATTATCATTAATTTA-TATTAAATTATCAATTATTT
1 ATTATTAAATTATCATTAATTTATTATTAAGTTTTCAATAATTA
* * * * * * * *
11957992 ACTGTTAAGTTATTATTGATTAACTATTAAGTTATT-AATGATTA
1 ATTATTAAATTATCATTAATTTATTATTAAGTT-TTCAATAATTA
* *
11958036 ACTACTATTAAGTTAT-ATTAATTTACTT-TAAAGTTTTCAATAATTA
1 A-T--TATTAAATTATCATTAATTTA-TTATTAAGTTTTCAATAATTA
* * * *
11958082 ATTATGAAATTATCATTAATTTATTATTAAGTTATT-TATGATTT
1 ATTATTAAATTATCATTAATTTATTATTAAGTT-TTCAATAATTA
* * * * ** *
11958126 ATTACTAAATTTATTAATTAA-TTACTATTAA-ATTGAAACTAATTT
1 ATTATTAAA-TTA-TCATTAATTTATTATTAAGTTTTCAA-TAATTA
* * * * *
11958171 ACTATTAAATTATCATCAATTTATTACTAAGTTATCAATTATTA
1 ATTATTAAATTATCATTAATTTATTATTAAGTTTTCAATAATTA
* * *
11958215 ACTATTAAATTATTACTT-ATTTTTTATTAA
1 ATTATTAAATTATCA-TTAATTTATTATTAA
11958245 CATGTCATTA
Statistics
Matches: 188, Mismatches: 48, Indels: 33
0.70 0.18 0.12
Matches are distributed among these distances:
43 33 0.18
44 83 0.44
45 34 0.18
46 27 0.14
47 11 0.06
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.50
Consensus pattern (44 bp):
ATTATTAAATTATCATTAATTTATTATTAAGTTTTCAATAATTA
Found at i:11958538 original size:22 final size:22
Alignment explanation
Indices: 11958495--11958585 Score: 76
Period size: 22 Copynumber: 4.2 Consensus size: 22
11958485 AATATAATAA
* * *
11958495 AAGTTATAAATGA-TTACAATT
1 AAGTTATCAATAATTTACTATT
*
11958516 AAGTTATCAATTATTTACTATT
1 AAGTTATCAATAATTTACTATT
* * * *
11958538 ATGTTATCAATAATGTATTACT
1 AAGTTATCAATAATTTACTATT
* * *
11958560 AATTTATGAATAATTTGCTATT
1 AAGTTATCAATAATTTACTATT
11958582 AAGT
1 AAGT
11958586 CATGAATGAT
Statistics
Matches: 53, Mismatches: 16, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
21 11 0.21
22 42 0.79
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.45
Consensus pattern (22 bp):
AAGTTATCAATAATTTACTATT
Found at i:11958737 original size:66 final size:65
Alignment explanation
Indices: 11958667--11958796 Score: 163
Period size: 66 Copynumber: 2.0 Consensus size: 65
11958657 TAATTTACGA
* * * *
11958667 CTAAATTATCACTGATTTATAATTA-AGTTATTAGTAATTTACTATTATGTTGTTAGTGATTTAT
1 CTAAATTATCAATGATTTATAATTATA-TTATTAAT-ATTTACTATTATGTTATCAGTGATTTAT
11958731 TT
64 TT
* * * *
11958733 CTAAATTATCAATGATTTATTATTATATTTTTAATATTTATTATTATGTTATCATTGATTTATT
1 CTAAATTATCAATGATTTATAATTATATTATTAATATTTACTATTATGTTATCAGTGATTTATT
11958797 ACTTAATTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
65 25 0.45
66 29 0.53
67 1 0.02
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.55
Consensus pattern (65 bp):
CTAAATTATCAATGATTTATAATTATATTATTAATATTTACTATTATGTTATCAGTGATTTATTT
Found at i:11958796 original size:22 final size:22
Alignment explanation
Indices: 11958672--11958797 Score: 85
Period size: 22 Copynumber: 5.8 Consensus size: 22
11958662 TACGACTAAA
* * *
11958672 TTATCACTGATTTATAATTAAG
1 TTATCAATGATTTATTATTATG
* * * *
11958694 TTATTAGTAATTTACTATTATG
1 TTATCAATGATTTATTATTATG
* * * **
11958716 TTGTTAGTGATTTATT-TCTAAA
1 TTATCAATGATTTATTAT-TATG
*
11958738 TTATCAATGATTTATTATTATA
1 TTATCAATGATTTATTATTATG
* *
11958760 TTTTTAAT-ATTTATTATTATG
1 TTATCAATGATTTATTATTATG
*
11958781 TTATCATTGATTTATTA
1 TTATCAATGATTTATTA
11958798 CTTAATTTTT
Statistics
Matches: 80, Mismatches: 21, Indels: 6
0.75 0.20 0.06
Matches are distributed among these distances:
21 18 0.22
22 61 0.76
23 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.56
Consensus pattern (22 bp):
TTATCAATGATTTATTATTATG
Found at i:11958830 original size:44 final size:43
Alignment explanation
Indices: 11958735--11958833 Score: 119
Period size: 43 Copynumber: 2.3 Consensus size: 43
11958725 ATTTATTTCT
* * **
11958735 AAATTATCAATGATTTATTATTATATTTTTAATATTTATTATT
1 AAATTATCATTGATTTATTATTATATTTTTAATATTTATCACA
**
11958778 ATGTTATCATTGATTTATTACTTA-ATTTTTAATTATTTATCACA
1 AAATTATCATTGATTTATTA-TTATATTTTTAA-TATTTATCACA
11958822 AAATTATCATTG
1 AAATTATCATTG
11958834 TTCCACCACT
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
43 25 0.54
44 21 0.46
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (43 bp):
AAATTATCATTGATTTATTATTATATTTTTAATATTTATCACA
Found at i:11958921 original size:22 final size:22
Alignment explanation
Indices: 11958896--11958937 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
11958886 TACAGTATAT
* *
11958896 ATGATTTATTATTAAGTTATCA
1 ATGATTAACTATTAAGTTATCA
*
11958918 ATGATTAACTATTATGTTAT
1 ATGATTAACTATTAAGTTAT
11958938 TGATTATATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.50
Consensus pattern (22 bp):
ATGATTAACTATTAAGTTATCA
Found at i:11959018 original size:22 final size:21
Alignment explanation
Indices: 11958993--11959063 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 21
11958983 AATAAATAAT
11958993 TACTAAATTATCAATTATTTAC
1 TACTAAATTAT-AATTATTTAC
*
11959015 TACTAATTTATAATTGATTTAC
1 TACTAAATTATAATT-ATTTAC
* * * *
11959037 TATTAAGTTATTTATTATTTAA
1 TACTAAATTA-TAATTATTTAC
11959059 TACTA
1 TACTA
11959064 TCAATTAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 4 0.10
22 33 0.80
23 4 0.10
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (21 bp):
TACTAAATTATAATTATTTAC
Found at i:11959171 original size:57 final size:57
Alignment explanation
Indices: 11959029--11959155 Score: 245
Period size: 57 Copynumber: 2.2 Consensus size: 57
11959019 AATTTATAAT
*
11959029 TGATTTACTATTAAGTTATTTATTATTTAATACTATCAATTAATATTAAACTGAAAC
1 TGATTTACTATTAAGTTATTTATTATTTAATACTAGCAATTAATATTAAACTGAAAC
11959086 TGATTTACTATTAAGTTATTTATTATTTAATACTAGCAATTAATATTAAACTGAAAC
1 TGATTTACTATTAAGTTATTTATTATTTAATACTAGCAATTAATATTAAACTGAAAC
11959143 TGATTTACTATTA
1 TGATTTACTATTA
11959156 TATTATCATT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
57 69 1.00
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (57 bp):
TGATTTACTATTAAGTTATTTATTATTTAATACTAGCAATTAATATTAAACTGAAAC
Found at i:11959185 original size:22 final size:22
Alignment explanation
Indices: 11959145--11959207 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
11959135 ACTGAAACTG
11959145 ATTTACTATTATA-TTATCATTC
1 ATTTACTATTA-AGTTATCATTC
* *
11959167 ATTTACTATTAAGTGATCATTG
1 ATTTACTATTAAGTTATCATTC
* *
11959189 ATGTATTATTAAGTTATCA
1 ATTTACTATTAAGTTATCA
11959208 ATAAGTAACT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 1 0.03
22 34 0.97
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCATTC
Found at i:11959441 original size:21 final size:19
Alignment explanation
Indices: 11959415--11959488 Score: 51
Period size: 21 Copynumber: 3.6 Consensus size: 19
11959405 ACTAATTTGT
11959415 TACTAAGTTATCCATGATTA
1 TACTAAGTTAT-CATGATTA
*
11959435 CTACTAAATTAT-ATTGATTA
1 -TACTAAGTTATCA-TGATTA
* *
11959455 TATTTAAGTTTTCAATGATTAA
1 TA-CTAAGTTATC-ATGATT-A
11959477 TTACTAAGTTAT
1 -TACTAAGTTAT
11959489 TAAGTATCCA
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
19 3 0.07
20 12 0.29
21 15 0.37
22 9 0.22
23 2 0.05
ACGTcount: A:0.36, C:0.09, G:0.08, T:0.46
Consensus pattern (19 bp):
TACTAAGTTATCATGATTA
Found at i:11963289 original size:3 final size:3
Alignment explanation
Indices: 11963281--11963320 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
11963271 TCGAAGACTT
*
11963281 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11963321 ATTTTTTGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11966164 original size:29 final size:29
Alignment explanation
Indices: 11966132--11966196 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
11966122 AGAGTTTCCA
11966132 CTTTCTTTTCTATTGATTCTCTCATTTAC
1 CTTTCTTTTCTATTGATTCTCTCATTTAC
*
11966161 CTTTCTTTTCTATTGATTTTCTCATTTAC
1 CTTTCTTTTCTATTGATTCTCTCATTTAC
11966190 CTTTCTT
1 CTTTCTT
11966197 AGACCTTGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.12, C:0.23, G:0.03, T:0.62
Consensus pattern (29 bp):
CTTTCTTTTCTATTGATTCTCTCATTTAC
Found at i:11967655 original size:50 final size:50
Alignment explanation
Indices: 11967542--11967941 Score: 254
Period size: 50 Copynumber: 8.0 Consensus size: 50
11967532 TACTACAAAA
* *
11967542 GCTCCT-ATAAATATAGGTTTTGAAACTTTT-AAAATCTTTTTTGAAAATG
1 GCTCCTCATAAATAGAGGCTTTGAAA-TTTTAAAAATCTTTTTTGAAAATG
* * * *
11967591 GCTCCTTATGAATAGAGGCTTTGGAATTTTAAAAAT-TTTGTTTGAAAGTG
1 GCTCCTCATAAATAGAGGCTTTGAAATTTTAAAAATCTTT-TTTGAAAATG
* * * * * *
11967641 GTTCCTCCTAAATAGAGACTTTGAAATTTTAAAAATATTTTTTAAAAATA
1 GCTCCTCATAAATAGAGGCTTTGAAATTTTAAAAATCTTTTTTGAAAATG
* * * ** **
11967691 GCTCATTC-TAAACAGAGGAC-TTGAAACTTTAAAAATCTCATCAGAAAATG
1 GCTC-CTCATAAATAGAGG-CTTTGAAATTTTAAAAATCTTTTTTGAAAATG
* ** * * * * *
11967741 GCTCC-CTATAAATAGAGACTTCAAAACTTTAAAAATATTATCTAAAAATG
1 GCTCCTC-ATAAATAGAGGCTTTGAAATTTTAAAAATCTTTTTTGAAAATG
* * * ** * * * * *
11967791 GCTCCCCATAAACAAAAACTTTAAAACTTTAAAAATCTTGTCTAAAAATG
1 GCTCCTCATAAATAGAGGCTTTGAAATTTTAAAAATCTTTTTTGAAAATG
* ** * *
11967841 GCTCCCCATAAATAGAGGCTTTGAAACTTAAAAAAAATCTTCTATGAAAATG
1 GCTCCTCATAAATAGAGGCTTTGAAA-TT-TTAAAAATCTTTTTTGAAAATG
* * * * * **
11967893 GCTCATTATAAATACAGGCTTTAAAAGTTTAAAAATCTCATTTGAAAAT
1 GCTCCTCATAAATAGAGGCTTTGAAATTTTAAAAATCTTTTTTGAAAAT
11967942 ATTCCGTGAC
Statistics
Matches: 276, Mismatches: 63, Indels: 23
0.76 0.17 0.06
Matches are distributed among these distances:
48 1 0.00
49 14 0.05
50 214 0.78
51 9 0.03
52 38 0.14
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.34
Consensus pattern (50 bp):
GCTCCTCATAAATAGAGGCTTTGAAATTTTAAAAATCTTTTTTGAAAATG
Found at i:11967753 original size:100 final size:100
Alignment explanation
Indices: 11967649--11967933 Score: 290
Period size: 100 Copynumber: 2.8 Consensus size: 100
11967639 TGGTTCCTCC
* * *
11967649 TAAATAGAGACTTTGAAATTTTAAAAATATTTTTTAAAAATAGCTCATTCTAAACAGAGGAC-TT
1 TAAATAGAGACTTTGAAACTTTAAAAATATTTTATAAAAATGGCTCATTCTAAACA-AGGACTTT
* *
11967713 GAAACTTTAAAAATCTCATC-AGAAAATGGCTCCCTA
65 AAAACTTTAAAAATCTCATCTA-AAAATGGCTCCCCA
** * * ** **
11967749 TAAATAGAGACTTCAAAACTTTAAAAATATTATCTAAAAATGGCTC-CCCATAAACAAAAACTTT
1 TAAATAGAGACTTTGAAACTTTAAAAATATTTTATAAAAATGGCTCATTC-TAAACAAGGACTTT
**
11967813 AAAACTTTAAAAATCTTGTCTAAAAATGGCTCCCCA
65 AAAACTTTAAAAATCTCATCTAAAAATGGCTCCCCA
* * * * * *
11967849 TAAATAGAGGCTTTGAAACTTAAAAAAAATCTTCTATGAAAATGGCTCATTATAAATACAGG-CT
1 TAAATAGAGACTTTGAAACTTTAAAAATAT-TT-TATAAAAATGGCTCATTCTAAACA-AGGACT
*
11967913 TTAAAAGTTTAAAAATCTCAT
63 TTAAAACTTTAAAAATCTCAT
11967934 TTGAAAATAT
Statistics
Matches: 147, Mismatches: 31, Indels: 12
0.77 0.16 0.06
Matches are distributed among these distances:
99 4 0.03
100 103 0.70
101 2 0.01
102 37 0.25
103 1 0.01
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.31
Consensus pattern (100 bp):
TAAATAGAGACTTTGAAACTTTAAAAATATTTTATAAAAATGGCTCATTCTAAACAAGGACTTTA
AAACTTTAAAAATCTCATCTAAAAATGGCTCCCCA
Found at i:11969879 original size:15 final size:15
Alignment explanation
Indices: 11969856--11969895 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
11969846 GATCAAAAGA
*
11969856 GCATGAATCTTATCT
1 GCATAAATCTTATCT
11969871 GCATAAATCTTATCT
1 GCATAAATCTTATCT
11969886 GCATAAATCT
1 GCATAAATCT
11969896 GACATTTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.38
Consensus pattern (15 bp):
GCATAAATCTTATCT
Found at i:11972477 original size:10 final size:10
Alignment explanation
Indices: 11972458--11972487 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
11972448 ATTTATGCAT
11972458 GAAAAAGAAA
1 GAAAAAGAAA
*
11972468 GAAAAGGAAA
1 GAAAAAGAAA
11972478 GAAAAAGAAA
1 GAAAAAGAAA
11972488 TTGTAACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (10 bp):
GAAAAAGAAA
Found at i:11979605 original size:3 final size:3
Alignment explanation
Indices: 11979599--11979666 Score: 100
Period size: 3 Copynumber: 22.7 Consensus size: 3
11979589 CCTTTTATTA
* *
11979599 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG CTG TTG TTG TTG CTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
* *
11979647 TTG CTG TTG TTA TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TT
11979667 ATTATTATTA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.01, C:0.04, G:0.31, T:0.63
Consensus pattern (3 bp):
TTG
Found at i:11979671 original size:3 final size:3
Alignment explanation
Indices: 11979665--11979691 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
11979655 GTTATTGTTG
11979665 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
11979692 AAAAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11980465 original size:13 final size:13
Alignment explanation
Indices: 11980423--11980471 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
11980413 ACATAGATTT
11980423 TTTTATTTTATTA
1 TTTTATTTTATTA
*
11980436 TATTT-TTATTACATA
1 T-TTTATT-TTA-TTA
11980451 TTTTATTTTATTA
1 TTTTATTTTATTA
11980464 TTTTATTT
1 TTTTATTT
11980472 ATATATGTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 13 0.43
14 12 0.40
15 5 0.17
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTATTTTATTA
Found at i:11980465 original size:31 final size:33
Alignment explanation
Indices: 11980412--11980493 Score: 80
Period size: 33 Copynumber: 2.5 Consensus size: 33
11980402 TTTATTATTA
*
11980412 TACATAGATTTTTTTATTTTATTATATTT-T-TAT-
1 TACATATA-TTTTTTA--TTATTATATTTATATATG
* *
11980445 TACATATTTTATTTTATTATTTTATTTATATATG
1 TACATATATT-TTTTATTATTATATTTATATATG
11980479 TACATATATTTTTTA
1 TACATATATTTTTTA
11980494 AAAAAAATAC
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
31 10 0.24
32 3 0.07
33 19 0.46
34 9 0.22
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (33 bp):
TACATATATTTTTTATTATTATATTTATATATG
Found at i:11981928 original size:52 final size:50
Alignment explanation
Indices: 11981859--11981959 Score: 141
Period size: 51 Copynumber: 2.0 Consensus size: 50
11981849 AAATTTCTTT
* **
11981859 TATTTTTTTATTTAATTTCTAAATTTTTCACCATTTGGGTTAATTTAGAAA
1 TATTTTTTTATTTAATTT-TAAAATTTTCACCATTTGGGCCAATTTAGAAA
11981910 TATTTTTTT-TTTCAAATTTTAAAATTTTCACCATTTGGGCCAATTTAGAA
1 TATTTTTTTATTT--AATTTTAAAATTTTCACCATTTGGGCCAATTTAGAA
11981960 TTTGTTTTCT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
50 3 0.07
51 37 0.82
52 5 0.11
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (50 bp):
TATTTTTTTATTTAATTTTAAAATTTTCACCATTTGGGCCAATTTAGAAA
Found at i:11982342 original size:26 final size:25
Alignment explanation
Indices: 11982288--11982342 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
11982278 CTCACTTATG
*
11982288 AATTTTATAAAAATTTACCATTTGA
1 AATTTTATAAAAATTTACCATTGGA
* *
11982313 AATTTT-TATAAATTCTATCATTGGA
1 AATTTTATAAAAATT-TACCATTGGA
11982338 TAATT
1 -AATT
11982343 AATACTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 7 0.28
25 14 0.56
26 4 0.16
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (25 bp):
AATTTTATAAAAATTTACCATTGGA
Found at i:11982376 original size:7 final size:7
Alignment explanation
Indices: 11982364--11982388 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11982354 TCAAAAAATA
11982364 TTTTAAT
1 TTTTAAT
11982371 TTTTAAT
1 TTTTAAT
11982378 TTTTAAT
1 TTTTAAT
11982385 TTTT
1 TTTT
11982389 TTTAAATTTA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTAAT
Found at i:11982442 original size:12 final size:11
Alignment explanation
Indices: 11982406--11982457 Score: 52
Period size: 10 Copynumber: 4.5 Consensus size: 11
11982396 TTAATAATGC
11982406 AAAAATACTAA
1 AAAAATACTAA
*
11982417 AATAAACACATAA
1 AA-AAATAC-TAA
11982430 ATAAAATACTAA
1 A-AAAATACTAA
*
11982442 AAAAA-ACCAA
1 AAAAATACTAA
11982452 AAAAAT
1 AAAAAT
11982458 GAAAATGGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
10 9 0.26
11 6 0.18
12 9 0.26
13 9 0.26
14 1 0.03
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAATACTAA
Found at i:11982869 original size:19 final size:20
Alignment explanation
Indices: 11982837--11982875 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
11982827 GTCGGAAGTT
11982837 CATCAAAAAATTCAA-CAAA
1 CATCAAAAAATTCAATCAAA
**
11982856 CATCAAAATTTTCAATCAAA
1 CATCAAAAAATTCAATCAAA
11982876 TTCTAGAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.56, C:0.21, G:0.00, T:0.23
Consensus pattern (20 bp):
CATCAAAAAATTCAATCAAA
Found at i:11983463 original size:43 final size:43
Alignment explanation
Indices: 11983411--11983589 Score: 119
Period size: 43 Copynumber: 3.9 Consensus size: 43
11983401 AACATAAAAA
*
11983411 CTCCTCTAAATAGAGGCTCAACAACTTTCG-AAAATAAATAAAG
1 CTCCTCTAAACAGAGGCTCAACAACTTT-GAAAAATAAATAAAG
* ** *
11983454 CTCCTCTAAACAGAGGTTCAATGACTTTGAAAAAATAAATAATG
1 CTCCTCTAAACAGAGGCTCAACAACTTTG-AAAAATAAATAAAG
**
11983498 CTCATCTAATCCTCATCTAATCAGAGGCTCAATGACTTTGAAAAATAAAT-AAG
1 CTC--C---T-CT-A---AA-CAGAGGCTCAACAACTTTGAAAAATAAATAAAG
* * * *
11983551 ACTCTTTTAATCAGAGGCTCAACAACTTTAAAAAATAAA
1 -CTCCTCTAAACAGAGGCTCAACAACTTTGAAAAATAAA
11983590 AGGCTCTTCG
Statistics
Matches: 109, Mismatches: 13, Indels: 28
0.73 0.09 0.19
Matches are distributed among these distances:
42 1 0.01
43 49 0.45
44 16 0.15
46 1 0.01
47 1 0.01
48 1 0.01
49 2 0.02
50 2 0.02
51 1 0.01
53 2 0.02
54 15 0.14
55 18 0.17
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.27
Consensus pattern (43 bp):
CTCCTCTAAACAGAGGCTCAACAACTTTGAAAAATAAATAAAG
Found at i:11984072 original size:21 final size:21
Alignment explanation
Indices: 11984048--11984316 Score: 198
Period size: 21 Copynumber: 11.9 Consensus size: 21
11984038 TCAAAGAGTT
*
11984048 TCAAAGATTCTCATTTAAAAA
1 TCAAAGATTCTCATTTAAAAC
* *
11984069 TCAAAGATTTTCATTTAAGAC
1 TCAAAGATTCTCATTTAAAAC
*
11984090 TCAAAGATTCTCATTTGAAAATGTTT
1 TCAAAGATTCTCATTT-AAAA----C
* *
11984116 TTAAAGATTCTCATTTAAAAA
1 TCAAAGATTCTCATTTAAAAC
*
11984137 TCAAAGATTCTTATTTGAAAAC
1 TCAAAGATTCTCATTT-AAAAC
* *
11984159 TCTTAATGATTCTCATTTAAGAC
1 TC--AAAGATTCTCATTTAAAAC
* * *
11984182 TCAAAGGTTTTTATTTGAAAAC
1 TCAAAGATTCTCATTT-AAAAC
* *
11984204 ATCTTAAAGATGCTCATTTAAGAC
1 -TC--AAAGATTCTCATTTAAAAC
*
11984228 TCAAAGATTCTCATTTGAGAAC
1 TCAAAGATTCTCATTT-AAAAC
*
11984250 GTCTTAAAGATTCTCATTTAAGAC
1 -TC--AAAGATTCTCATTTAAAAC
11984274 TCAAATG-TTCTCATTTGAAAAC
1 TCAAA-GATTCTCATTT-AAAAC
11984296 ATCTTAAAGATTCTCATTTAA
1 -TC--AAAGATTCTCATTTAA
11984317 GGATTTAGAA
Statistics
Matches: 196, Mismatches: 30, Indels: 41
0.73 0.11 0.15
Matches are distributed among these distances:
21 82 0.42
22 21 0.11
23 16 0.08
24 22 0.11
25 40 0.20
26 15 0.08
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
TCAAAGATTCTCATTTAAAAC
Found at i:11984081 original size:31 final size:32
Alignment explanation
Indices: 11984016--11984081 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
11984006 TACGTTCTTC
11984016 TCAAAGATTCTCATTGAAAAACTCAAAGAGTT
1 TCAAAGATTCTCATTGAAAAACTCAAAGAGTT
* *
11984048 TCAAAGATTCTCATTTAAAAA-TCAAAGATTT
1 TCAAAGATTCTCATTGAAAAACTCAAAGAGTT
11984079 TCA
1 TCA
11984082 TTTAAGACTC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 12 0.38
32 20 0.62
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (32 bp):
TCAAAGATTCTCATTGAAAAACTCAAAGAGTT
Found at i:11984226 original size:46 final size:46
Alignment explanation
Indices: 11984048--11984317 Score: 354
Period size: 46 Copynumber: 6.0 Consensus size: 46
11984038 TCAAAGAGTT
*
11984048 TCAAAGATTCTCATTT-AAAA-ATC--AAAGATTTTCATTTAAGAC
1 TCAAAGATTCTCATTTGAAAACATCTTAAAGATTCTCATTTAAGAC
** * * *
11984090 TCAAAGATTCTCATTTGAAAATGTTTTTAAAGATTCTCATTTAAAAA
1 TCAAAGATTCTCATTTGAAAA-CATCTTAAAGATTCTCATTTAAGAC
* *
11984137 TCAAAGATTCTTATTTGAAAAC-TCTTAATGATTCTCATTTAAGAC
1 TCAAAGATTCTCATTTGAAAACATCTTAAAGATTCTCATTTAAGAC
* * * *
11984182 TCAAAGGTTTTTATTTGAAAACATCTTAAAGATGCTCATTTAAGAC
1 TCAAAGATTCTCATTTGAAAACATCTTAAAGATTCTCATTTAAGAC
* *
11984228 TCAAAGATTCTCATTTGAGAACGTCTTAAAGATTCTCATTTAAGAC
1 TCAAAGATTCTCATTTGAAAACATCTTAAAGATTCTCATTTAAGAC
11984274 TCAAATG-TTCTCATTTGAAAACATCTTAAAGATTCTCATTTAAG
1 TCAAA-GATTCTCATTTGAAAACATCTTAAAGATTCTCATTTAAG
11984318 GATTTAGAAC
Statistics
Matches: 198, Mismatches: 23, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
42 16 0.08
43 4 0.02
45 40 0.20
46 101 0.51
47 37 0.19
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (46 bp):
TCAAAGATTCTCATTTGAAAACATCTTAAAGATTCTCATTTAAGAC
Found at i:11985501 original size:9 final size:9
Alignment explanation
Indices: 11985487--11985555 Score: 59
Period size: 9 Copynumber: 7.4 Consensus size: 9
11985477 CTCATTTTCA
*
11985487 TTTTTCCCT
1 TTTTTCTCT
*
11985496 TTTTTCTTT
1 TTTTTCTCT
11985505 TTTTTCTTTCT
1 TTTTTC--TCT
11985516 TTTTTCTCTT
1 TTTTTCTC-T
*
11985526 TTTTTTTCT
1 TTTTTCTCT
*
11985535 TTTTT-TTT
1 TTTTTCTCT
*
11985543 TTTTTTTCT
1 TTTTTCTCT
11985552 TTTT
1 TTTT
11985556 CTTTTCTCAT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
8 7 0.14
9 27 0.54
10 8 0.16
11 8 0.16
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTCTCT
Found at i:11985516 original size:13 final size:12
Alignment explanation
Indices: 11985502--11985560 Score: 77
Period size: 12 Copynumber: 5.1 Consensus size: 12
11985492 CCCTTTTTTC
11985502 TTTTTTTTC-TT
1 TTTTTTTTCTTT
* *
11985513 TCTTTTTTCTCT
1 TTTTTTTTCTTT
11985525 TTTTTTTTCTTT
1 TTTTTTTTCTTT
11985537 TTTTTTTT-TTT
1 TTTTTTTTCTTT
*
11985548 TTCTTTTTCTTT
1 TTTTTTTTCTTT
11985560 T
1 T
11985561 CTCATTTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
11 18 0.44
12 23 0.56
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:11985518 original size:11 final size:11
Alignment explanation
Indices: 11985494--11985562 Score: 71
Period size: 10 Copynumber: 6.8 Consensus size: 11
11985484 TCATTTTTCC
11985494 CTTTTTTC-TT
1 CTTTTTTCTTT
11985504 -TTTTTTCTTT
1 CTTTTTTCTTT
11985514 CTTTTTTC--T
1 CTTTTTTCTTT
11985523 CTTTTTT-TTT
1 CTTTTTTCTTT
11985533 CTTTTTT-TTT
1 CTTTTTTCTTT
*
11985543 TTTTTTTCTTT
1 CTTTTTTCTTT
11985554 -TTCTTTTCT
1 CTT-TTTTCT
11985563 CATTTTTTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 11
0.81 0.02 0.17
Matches are distributed among these distances:
9 15 0.29
10 21 0.40
11 16 0.31
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
CTTTTTTCTTT
Found at i:11985519 original size:29 final size:29
Alignment explanation
Indices: 11985482--11985562 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
11985472 TTTCTCTCAT
*
11985482 TTTCATTTTTCCCTTTTTTCTTT-TTTTTC
1 TTTCTTTTTTCCCTTTTTT-TTTCTTTTTC
*
11985511 TTTCTTTTTTCTCTTTTTTTTTCTTTTT-
1 TTTCTTTTTTCCCTTTTTTTTTCTTTTTC
**
11985539 TTT-TTTTTTTTCTTTTTCTTTTCT
1 TTTCTTTTTTCCCTTTTT-TTTTCT
11985563 CATTTTTTCA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
27 13 0.28
28 12 0.26
29 22 0.47
ACGTcount: A:0.01, C:0.16, G:0.00, T:0.83
Consensus pattern (29 bp):
TTTCTTTTTTCCCTTTTTTTTTCTTTTTC
Found at i:11985528 original size:23 final size:21
Alignment explanation
Indices: 11985495--11985591 Score: 83
Period size: 20 Copynumber: 4.7 Consensus size: 21
11985485 CATTTTTCCC
*
11985495 TTTTTTC-TTTTTTTTCTTTC
1 TTTTTTCTTTTTTTTTCTTTT
* *
11985515 TTTTTTCTCTTTTTTT-TTCT
1 TTTTTTCTTTTTTTTTCTTTT
11985535 TTTTTT-TTTTTTTTTCTTTT
1 TTTTTTCTTTTTTTTTCTTTT
* **
11985555 TCTTTTCTCATTTTTTCATTTT
1 TTTTTTCTTTTTTTTTC-TTTT
* *
11985577 TCATTTTCATTTTTT
1 T-TTTTTCTTTTTTT
11985592 CACTCACTAG
Statistics
Matches: 60, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
19 8 0.13
20 23 0.38
21 15 0.25
22 5 0.08
23 9 0.15
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTTCTTTTTTTTTCTTTT
Found at i:11985546 original size:40 final size:40
Alignment explanation
Indices: 11985495--11985570 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
11985485 CATTTTTCCC
*
11985495 TTTTTTCTTTTTTTTCTTTCTT-TTTTCTCTTTTTTTTTCT
1 TTTTTTCTTTTTTTTCTTT-TTCTTTTCTCATTTTTTTTCT
*
11985535 TTTTTTTTTTTTTTTCTTTTTCTTTTCTCATTTTTT
1 TTTTTTCTTTTTTTTCTTTTTCTTTTCTCATTTTTT
11985571 CATTTTTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 2 0.06
40 31 0.94
ACGTcount: A:0.01, C:0.13, G:0.00, T:0.86
Consensus pattern (40 bp):
TTTTTTCTTTTTTTTCTTTTTCTTTTCTCATTTTTTTTCT
Found at i:11985561 original size:28 final size:28
Alignment explanation
Indices: 11985496--11985589 Score: 93
Period size: 28 Copynumber: 3.4 Consensus size: 28
11985486 ATTTTTCCCT
* *
11985496 TTTTTCTTTT-TTTTCTTTCTTTTTTCTC
1 TTTTTCTTTTCTTTT-TTTTTTTTTTTTC
11985524 TTTTT-TTTTCTTTTTTTTTTTTTTTTC
1 TTTTTCTTTTCTTTTTTTTTTTTTTTTC
** **
11985551 TTTTTCTTTTCTCATTTTTTCATTTTTC
1 TTTTTCTTTTCTTTTTTTTTTTTTTTTC
*
11985579 ATTTTCATTTT
1 TTTTTC-TTTT
11985590 TTCACTCACT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
27 20 0.36
28 32 0.57
29 4 0.07
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (28 bp):
TTTTTCTTTTCTTTTTTTTTTTTTTTTC
Found at i:11985569 original size:15 final size:15
Alignment explanation
Indices: 11985544--11985593 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 15
11985534 TTTTTTTTTT
11985544 TTTTTTC-TTTTTC-
1 TTTTTTCATTTTTCA
*
11985557 TTTTCTCATTTTTTCA
1 TTTTTTCA-TTTTTCA
11985573 -TTTTTCA-TTTTCA
1 TTTTTTCATTTTTCA
11985586 TTTTTTCA
1 TTTTTTCA
11985594 CTCACTAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
13 12 0.39
14 7 0.23
15 12 0.39
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTTCATTTTTCA
Found at i:11985576 original size:29 final size:27
Alignment explanation
Indices: 11985481--11985577 Score: 81
Period size: 29 Copynumber: 3.4 Consensus size: 27
11985471 TTTTCTCTCA
*
11985481 TTTTCATTTTTCCCTTTTTTCTTTT-TTT
1 TTTTCATTTTT-TC-TTTTTCTTTTCTTT
*
11985509 TCTTTC-TTTTTTCTCTTTTTTTTTCTTTT
1 T-TTTCATTTTTTCT-TTTTCTTTTC-TTT
**
11985538 TTTTTTTTTTTTCTTTTTCTTTTCTCATT
1 TTTTCATTTTTTCTTTTTCTTTTCT--TT
11985567 TTTTCATTTTT
1 TTTTCATTTTT
11985578 CATTTTCATT
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
26 1 0.02
27 10 0.18
28 18 0.32
29 27 0.48
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.81
Consensus pattern (27 bp):
TTTTCATTTTTTCTTTTTCTTTTCTTT
Found at i:11985577 original size:1 final size:1
Alignment explanation
Indices: 11985495--11985560 Score: 60
Period size: 1 Copynumber: 66.0 Consensus size: 1
11985485 CATTTTTCCC
* * * * * * * *
11985495 TTTTTTCTTTTTTTTCTTTCTTTTTTCTCTTTTTTTTTCTTTTTTTTTTTTTTTTCTTTTTCTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
11985560 T
1 T
11985561 CTCATTTTTT
Statistics
Matches: 49, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:11985583 original size:29 final size:26
Alignment explanation
Indices: 11985505--11985589 Score: 76
Period size: 23 Copynumber: 3.4 Consensus size: 26
11985495 TTTTTTCTTT
11985505 TTTTTC-TTTC-TTTTTTC-TCTTTT-
1 TTTTTCTTTTCTTTTTTTCAT-TTTTC
11985528 TTTTTCTTTT-TTTTTTT--TTTTTC
1 TTTTTCTTTTCTTTTTTTCATTTTTC
11985551 TTTTTCTTTTCTCATTTTTTCATTTTTC
1 TTTTTCTTTTCT--TTTTTTCATTTTTC
*
11985579 ATTTTCATTTT
1 TTTTTC-TTTT
11985590 TTCACTCACT
Statistics
Matches: 52, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
22 4 0.08
23 17 0.33
24 10 0.19
26 6 0.12
28 11 0.21
29 4 0.08
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (26 bp):
TTTTTCTTTTCTTTTTTTCATTTTTC
Found at i:11985591 original size:21 final size:22
Alignment explanation
Indices: 11985544--11985593 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 22
11985534 TTTTTTTTTT
*
11985544 TTTTTTC-TTTTTCTTTTCTCA
1 TTTTTTCATTTTTCATTTCTCA
11985565 TTTTTTCATTTTTCATTT-TCA
1 TTTTTTCATTTTTCATTTCTCA
11985586 TTTTTTCA
1 TTTTTTCA
11985594 CTCACTAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTTTCATTTTTCATTTCTCA
Found at i:11988866 original size:23 final size:24
Alignment explanation
Indices: 11988826--11988871 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
11988816 GCCCCAAAAA
11988826 TAAAAAAATAAAAAAAAT-ATTAG
1 TAAAAAAATAAAAAAAATCATTAG
* * *
11988849 TAAACAAATAACATAAATCATTA
1 TAAAAAAATAAAAAAAATCATTA
11988872 CAATTTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (24 bp):
TAAAAAAATAAAAAAAATCATTAG
Found at i:11989573 original size:50 final size:50
Alignment explanation
Indices: 11989498--11989606 Score: 157
Period size: 50 Copynumber: 2.2 Consensus size: 50
11989488 CTTTTATTTC
*
11989498 TTTTATTTTATTTGATTTCTAAATTTTTCACCATTTGGGTCAATTTAGAAA
1 TTTT-TTTTATTTGATTTCTAAATTTTTCACCATTTGGGCCAATTTAGAAA
* *
11989549 TTTTTTTT-TTTGAATTTCTAAATTTTTCACCATTTTGGCCTATTTAGAAA
1 TTTTTTTTATTTG-ATTTCTAAATTTTTCACCATTTGGGCCAATTTAGAAA
*
11989599 TTATTTTT
1 TTTTTTTT
11989607 CTCTTTTTTC
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
49 4 0.08
50 45 0.85
51 4 0.08
ACGTcount: A:0.25, C:0.10, G:0.08, T:0.57
Consensus pattern (50 bp):
TTTTTTTTATTTGATTTCTAAATTTTTCACCATTTGGGCCAATTTAGAAA
Found at i:11989813 original size:7 final size:7
Alignment explanation
Indices: 11989801--11989825 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11989791 ACCAAATTTT
11989801 TTTTATA
1 TTTTATA
11989808 TTTTATA
1 TTTTATA
11989815 TTTTATA
1 TTTTATA
11989822 TTTT
1 TTTT
11989826 TTTTTGTTTG
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTATA
Found at i:11990078 original size:12 final size:11
Alignment explanation
Indices: 11990042--11990092 Score: 57
Period size: 11 Copynumber: 4.4 Consensus size: 11
11990032 TTAATAATGT
11990042 AAAAATACTAA
1 AAAAATACTAA
*
11990053 AATAAACACATAA
1 AA-AAATAC-TAA
11990066 ATAAAATACTAA
1 A-AAAATACTAA
*
11990078 AAAAATACCAA
1 AAAAATACTAA
11990089 AAAA
1 AAAA
11990093 TAAAAAATGG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
11 15 0.44
12 9 0.26
13 9 0.26
14 1 0.03
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAATACTAA
Found at i:11990639 original size:18 final size:19
Alignment explanation
Indices: 11990608--11990644 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11990598 AAAAAAGTCA
*
11990608 TCGAAAACTGAAAATTTTT
1 TCGAAAACTAAAAATTTTT
*
11990627 TCGAAATCTAAAAATTTT
1 TCGAAAACTAAAAATTTT
11990645 CCAAATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (19 bp):
TCGAAAACTAAAAATTTTT
Found at i:11992441 original size:21 final size:21
Alignment explanation
Indices: 11992402--11992442 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
11992392 TCTTTTCTTT
*
11992402 TGTTTTCATGTTTTCTTTTAC
1 TGTTTTCAAGTTTTCTTTTAC
*
11992423 TGTTTTCACAGTTTTTTTTT
1 TGTTTTCA-AGTTTTCTTTT
11992443 TCATTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.10, C:0.12, G:0.10, T:0.68
Consensus pattern (21 bp):
TGTTTTCAAGTTTTCTTTTAC
Found at i:11993424 original size:10 final size:11
Alignment explanation
Indices: 11993389--11993426 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
11993379 AACCAATTTA
*
11993389 TGGGCTTGAAT
1 TGGGCTTGATT
*
11993400 TGGGCTTGGTT
1 TGGGCTTGATT
11993411 TGGG-TTGATT
1 TGGGCTTGATT
11993421 TGGGCT
1 TGGGCT
11993427 CCATTTTAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.08, C:0.08, G:0.42, T:0.42
Consensus pattern (11 bp):
TGGGCTTGATT
Found at i:11994941 original size:21 final size:21
Alignment explanation
Indices: 11994901--11994968 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
11994891 GTAATTTTAT
* *
11994901 TTTTATTTAATGAGAAAAATCA
1 TTTTATTT-ATAAAAAAAATCA
11994923 TTTTATTTATAAAAAAAAT-A
1 TTTTATTTATAAAAAAAATCA
* * *
11994943 ATTTAATAATAAAAATAAAATCA
1 TTTTATTTAT-AAAA-AAAATCA
11994966 TTT
1 TTT
11994969 AAATTAAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
20 8 0.22
21 13 0.35
22 13 0.35
23 3 0.08
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (21 bp):
TTTTATTTATAAAAAAAATCA
Found at i:11994951 original size:17 final size:16
Alignment explanation
Indices: 11994927--11994960 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
11994917 AAATCATTTT
11994927 ATTTATAAAAAAAATA
1 ATTTATAAAAAAAATA
*
11994943 ATTTAATAATAAAAATA
1 ATTT-ATAAAAAAAATA
11994960 A
1 A
11994961 AATCATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTTATAAAAAAAATA
Found at i:11994976 original size:21 final size:20
Alignment explanation
Indices: 11994915--11994977 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
11994905 ATTTAATGAG
* *
11994915 AAAAATCATTTTATTTATAAA
1 AAAAATCATTTAAATTA-AAA
* *
11994936 AAAAATAATTTAATAATAAAA
1 AAAAATCATTTAA-ATTAAAA
11994957 ATAAAATCATTTAAATTAAAA
1 A-AAAATCATTTAAATTAAAA
11994978 TTTATAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 21 0.62
22 13 0.38
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATCATTTAAATTAAAA
Found at i:11995306 original size:20 final size:21
Alignment explanation
Indices: 11995270--11995308 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
11995260 AAATTAATTA
11995270 ATAAATATTATATATTTAAGG
1 ATAAATATTATATATTTAAGG
11995291 ATAAAT-TTAT-TCATTTAA
1 ATAAATATTATAT-ATTTAA
11995309 AAATTTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.06
20 10 0.59
21 6 0.35
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (21 bp):
ATAAATATTATATATTTAAGG
Found at i:11996365 original size:20 final size:21
Alignment explanation
Indices: 11996337--11996395 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
11996327 TATTTTTATA
*
11996337 TATTTAATAAAT-AAAATTTT
1 TATTAAATAAATCAAAATTTT
*
11996357 TATTAAATAATTCAAAATTTT
1 TATTAAATAAATCAAAATTTT
* * *
11996378 ATTTTAGATTAATCAAAA
1 -TATTAAATAAATCAAAA
11996396 CTAACATATT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 10 0.32
21 8 0.26
22 13 0.42
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (21 bp):
TATTAAATAAATCAAAATTTT
Found at i:11997378 original size:18 final size:17
Alignment explanation
Indices: 11997345--11997408 Score: 58
Period size: 18 Copynumber: 3.7 Consensus size: 17
11997335 CATTATACAT
* *
11997345 TTTTTATTTTTTATTTA
1 TTTTTAATTTTAATTTA
*
11997362 TTTTTAATTTTGCATTTA
1 TTTTTAATTTT-AATTTA
* *
11997380 TGTTTAA-ATTAATTTA
1 TTTTTAATTTTAATTTA
11997396 TTTTTATATTTTA
1 TTTTTA-ATTTTA
11997409 TATTCCATAT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
16 10 0.27
17 13 0.35
18 14 0.38
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTTTAATTTTAATTTA
Found at i:11998417 original size:16 final size:18
Alignment explanation
Indices: 11998386--11998418 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
11998376 TATTTTAAAT
11998386 AAATTATAATCAAATTTG
1 AAATTATAATCAAATTTG
11998404 AAATTA-AA-CAAATTT
1 AAATTATAATCAAATTT
11998419 ATTTGTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (18 bp):
AAATTATAATCAAATTTG
Found at i:11998533 original size:14 final size:13
Alignment explanation
Indices: 11998509--11998539 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
11998499 AATTATTTGT
11998509 TAAATTAAATAAA
1 TAAATTAAATAAA
11998522 TAAATATAAATAAA
1 TAAAT-TAAATAAA
11998536 TAAA
1 TAAA
11998540 AAACCGCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
TAAATTAAATAAA
Found at i:12000755 original size:2 final size:2
Alignment explanation
Indices: 12000750--12000775 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12000740 CTATACGTTT
12000750 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
12000776 CAAGGGAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:12016034 original size:2 final size:2
Alignment explanation
Indices: 12016027--12016076 Score: 61
Period size: 2 Copynumber: 26.5 Consensus size: 2
12016017 GAGATCAATC
* *
12016027 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AC AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12016068 -T AT A- AT AT A
1 AT AT AT AT AT A
12016077 CATAATTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
1 3 0.07
2 38 0.93
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12016092 original size:20 final size:21
Alignment explanation
Indices: 12016036--12016095 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
12016026 CATATATATG
12016036 TATATATATAT-ATATATATACA
1 TATAT-TATATGATA-ATATACA
*
12016058 TATATTATATTATAATATACA
1 TATATTATATGATAATATACA
12016079 TA-ATTAT-TAGATAATAT
1 TATATTATAT-GATAATAT
12016096 TTGCTGAGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
19 1 0.03
20 12 0.34
21 14 0.40
22 8 0.23
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (21 bp):
TATATTATATGATAATATACA
Found at i:12018353 original size:2 final size:2
Alignment explanation
Indices: 12018346--12018395 Score: 57
Period size: 2 Copynumber: 25.5 Consensus size: 2
12018336 CACCAATCTA
* * * *
12018346 AT AT AT AT AT AT AT AT AT AT AT AC AC AC AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12018388 AT AT -T AT A
1 AT AT AT AT A
12018396 ACATACAAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:12019657 original size:21 final size:22
Alignment explanation
Indices: 12019626--12019668 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
12019616 TTTTATTATG
12019626 ATTTGATATTTTA-ATTATATTT
1 ATTTGATATTTTATA-TATATTT
12019648 ATTT-ATATTTTATATATATTT
1 ATTTGATATTTTATATATATTT
12019669 TCAACATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
ATTTGATATTTTATATATATTT
Found at i:12022778 original size:13 final size:15
Alignment explanation
Indices: 12022745--12022782 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
12022735 CTATGAGATT
12022745 TTTATTTTTTTAATTG
1 TTTATTTTTTT-ATTG
12022761 TTTATTTTTTT-TTG
1 TTTATTTTTTTATTG
12022775 -TTATTTTT
1 TTTATTTTT
12022783 AGTATAAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.36
14 3 0.14
16 11 0.50
ACGTcount: A:0.13, C:0.00, G:0.05, T:0.82
Consensus pattern (15 bp):
TTTATTTTTTTATTG
Found at i:12026097 original size:17 final size:17
Alignment explanation
Indices: 12026077--12026114 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
12026067 TTTATTCCTC
12026077 GTTAAGTTTACCCACCA
1 GTTAAGTTTACCCACCA
*
12026094 GTTAAGTTTACCTACCA
1 GTTAAGTTTACCCACCA
12026111 GTTA
1 GTTA
12026115 CATCCATCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (17 bp):
GTTAAGTTTACCCACCA
Found at i:12026694 original size:11 final size:11
Alignment explanation
Indices: 12026678--12026732 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
12026668 ACATTAAAAG
12026678 AAAATTTCAAA
1 AAAATTTCAAA
***
12026689 AAAATTTTTGA
1 AAAATTTCAAA
*
12026700 AAAATTT-TAA
1 AAAATTTCAAA
12026710 AAAA-TTCAAA
1 AAAATTTCAAA
*
12026720 AAAATTTTAAA
1 AAAATTTCAAA
12026731 AA
1 AA
12026733 TATGAAAACT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
9 2 0.06
10 12 0.33
11 22 0.61
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (11 bp):
AAAATTTCAAA
Found at i:12026702 original size:10 final size:9
Alignment explanation
Indices: 12026688--12026803 Score: 56
Period size: 9 Copynumber: 12.6 Consensus size: 9
12026678 AAAATTTCAA
12026688 AAAAATTTTT
1 AAAAA-TTTT
12026698 GAAAAATTTT
1 -AAAAATTTT
**
12026708 AAAAAATTCAA
1 -AAAAATT-TT
12026719 AAAAATTTT
1 AAAAATTTT
*
12026728 AAAAA-TAT
1 AAAAATTTT
* *
12026736 GAAAACTTT
1 AAAAATTTT
*
12026745 AAAATTTTT
1 AAAAATTTT
* * *
12026754 AAAAGTCTA
1 AAAAATTTT
12026763 AAAAATTTT
1 AAAAATTTT
* **
12026772 AAAAAATCC
1 AAAAATTTT
12026781 AAAAATTTCT
1 AAAAATTT-T
*
12026791 TAAAA-TTT
1 AAAAATTTT
12026799 AAAAA
1 AAAAA
12026804 AAAGAAAAGT
Statistics
Matches: 77, Mismatches: 25, Indels: 9
0.69 0.23 0.08
Matches are distributed among these distances:
8 11 0.14
9 39 0.51
10 22 0.29
11 5 0.06
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (9 bp):
AAAAATTTT
Found at i:12026816 original size:17 final size:16
Alignment explanation
Indices: 12026792--12026831 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
12026782 AAAATTTCTT
12026792 AAAATTTAAAAAAAAG
1 AAAATTTAAAAAAAAG
* *
12026808 AAAAGTTTAATAAAAAT
1 AAAA-TTTAAAAAAAAG
12026825 AAAATTT
1 AAAATTT
12026832 TCTTAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (16 bp):
AAAATTTAAAAAAAAG
Found at i:12026919 original size:24 final size:24
Alignment explanation
Indices: 12026873--12026921 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
12026863 TAAAAAATTG
* *
12026873 AAAATAAAAATTTAATTTTTATAA
1 AAAATAAAAATTTAATATATATAA
12026897 AAAATAAAAATTTTAAATATATATA
1 AAAATAAAAA-TTT-AATATATATA
12026922 CAATTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
25 3 0.14
26 8 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
AAAATAAAAATTTAATATATATAA
Found at i:12027069 original size:55 final size:56
Alignment explanation
Indices: 12026966--12027070 Score: 135
Period size: 55 Copynumber: 1.9 Consensus size: 56
12026956 TTAATCTTAT
*
12026966 AATTTTAATTTTTATATATTTGTTGAAATTTTCAAAATGTTTAAATTTTTTATTAA
1 AATTCTAATTTTTATATATTTGTTGAAATTTTCAAAATGTTTAAATTTTTTATTAA
* * *
12027022 AATTCTAATTTTT-TTTATTT-TTTAGAATTTT-AGAATGTTTAAGATTTTT
1 AATTCTAATTTTTATATATTTGTTGA-AATTTTCAAAATGTTTAA-ATTTTT
12027071 GAAAATTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
54 13 0.30
55 18 0.42
56 12 0.28
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (56 bp):
AATTCTAATTTTTATATATTTGTTGAAATTTTCAAAATGTTTAAATTTTTTATTAA
Found at i:12027094 original size:17 final size:18
Alignment explanation
Indices: 12027049--12027095 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
12027039 TTTTTTAGAA
12027049 TTTTAGAATGTTTAAGATT
1 TTTTAGAAT-TTTAAGATT
* * *
12027068 TTTGAAAATTTTTA-ATT
1 TTTTAGAATTTTAAGATT
12027085 TTTTAGAATTT
1 TTTTAGAATTT
12027096 AAAAAAATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 12 0.52
18 4 0.17
19 7 0.30
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (18 bp):
TTTTAGAATTTTAAGATT
Found at i:12027117 original size:19 final size:19
Alignment explanation
Indices: 12027085--12027133 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
12027075 ATTTTTAATT
12027085 TTTTAGAA-TTTAAAAAAA
1 TTTTAGAATTTTAAAAAAA
*
12027103 TTTATA-AATTTTAAACAAA
1 TTT-TAGAATTTTAAAAAAA
12027122 TTTTAGAATTTT
1 TTTTAGAATTTT
12027134 TTTATAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 7 0.26
19 20 0.74
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (19 bp):
TTTTAGAATTTTAAAAAAA
Found at i:12027357 original size:9 final size:8
Alignment explanation
Indices: 12027321--12027372 Score: 50
Period size: 8 Copynumber: 6.1 Consensus size: 8
12027311 ATTTGAGATT
*
12027321 ATTTTGAA
1 ATTTTTAA
*
12027329 ATTTTAAA
1 ATTTTTAA
*
12027337 ATTTTCATA
1 ATTTTTA-A
12027346 ATTCTTTAA
1 ATT-TTTAA
12027355 ATTTTTATA
1 ATTTTTA-A
12027364 ATTTTTAA
1 ATTTTTAA
12027372 A
1 A
12027373 AATACTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
8 19 0.50
9 16 0.42
10 3 0.08
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (8 bp):
ATTTTTAA
Found at i:12027358 original size:18 final size:17
Alignment explanation
Indices: 12027328--12027372 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
12027318 ATTATTTTGA
*
12027328 AATTTTAAAATTTTCAT
1 AATTTTTAAATTTTCAT
*
12027345 AATTCTTTAAATTTTTAT
1 AATT-TTTAAATTTTCAT
12027363 AATTTTTAAA
1 AATTTTTAAA
12027373 AATACTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTTTTAAATTTTCAT
Found at i:12027392 original size:9 final size:10
Alignment explanation
Indices: 12027338--12027401 Score: 51
Period size: 10 Copynumber: 6.4 Consensus size: 10
12027328 AATTTTAAAA
*
12027338 TTTTCATAAT
1 TTTTTATAAT
*
12027348 TCTTTA-AA-
1 TTTTTATAAT
12027356 TTTTTATAAT
1 TTTTTATAAT
* *
12027366 TTTTAAAAAT
1 TTTTTATAAT
*
12027376 ACTTTTTTTAAT
1 --TTTTTATAAT
12027388 TTTTTATAAT
1 TTTTTATAAT
12027398 TTTT
1 TTTT
12027402 AAAGATATTT
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
8 5 0.12
9 4 0.10
10 25 0.61
12 7 0.17
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:12027419 original size:30 final size:31
Alignment explanation
Indices: 12027351--12027437 Score: 113
Period size: 30 Copynumber: 2.8 Consensus size: 31
12027341 TCATAATTCT
* *
12027351 TTAAATTTTTATAATTTTTAAAAATACTTTTT
1 TTAATTTTTTATAATTTTTAAAAATAC-TTTC
*
12027383 TTAATTTTTTATAATTTTTAAAGATA-TTTC
1 TTAATTTTTTATAATTTTTAAAAATACTTTC
* *
12027413 TTAATTTATTAAAATTTTTAAAAAT
1 TTAATTTTTTATAATTTTTAAAAAT
12027438 TTTAATTTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
30 25 0.51
32 24 0.49
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.57
Consensus pattern (31 bp):
TTAATTTTTTATAATTTTTAAAAATACTTTC
Found at i:12027435 original size:9 final size:9
Alignment explanation
Indices: 12027330--12027442 Score: 50
Period size: 9 Copynumber: 11.7 Consensus size: 9
12027320 TATTTTGAAA
12027330 TTTTAAAAT
1 TTTTAAAAT
* *
12027339 TTTCATAAT
1 TTTTAAAAT
12027348 TCTTT-AAAT
1 T-TTTAAAAT
*
12027357 TTTTATAAT
1 TTTTAAAAT
12027366 TTTTAAAAATACTT
1 TTTT--AAA-A--T
* *
12027380 TTTTTAATT
1 TTTTAAAAT
*
12027389 TTTTATAAT
1 TTTTAAAAT
12027398 TTTTAAAGAT
1 TTTTAAA-AT
*
12027408 ATTTCT-TAAT
1 -TTT-TAAAAT
12027418 TTATTAAAAT
1 TT-TTAAAAT
*
12027428 TTTTAAAAA
1 TTTTAAAAT
12027437 TTTTAA
1 TTTTAA
12027443 TTTTATTTTA
Statistics
Matches: 77, Mismatches: 15, Indels: 24
0.66 0.13 0.21
Matches are distributed among these distances:
8 3 0.04
9 47 0.61
10 12 0.16
11 6 0.08
12 4 0.05
14 5 0.06
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.58
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:12032684 original size:13 final size:13
Alignment explanation
Indices: 12032666--12032706 Score: 82
Period size: 13 Copynumber: 3.2 Consensus size: 13
12032656 TTGAGCAGCT
12032666 TTATTTTGGACCC
1 TTATTTTGGACCC
12032679 TTATTTTGGACCC
1 TTATTTTGGACCC
12032692 TTATTTTGGACCC
1 TTATTTTGGACCC
12032705 TT
1 TT
12032707 TTGGCAGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.15, C:0.22, G:0.15, T:0.49
Consensus pattern (13 bp):
TTATTTTGGACCC
Found at i:12034834 original size:2 final size:2
Alignment explanation
Indices: 12034827--12034863 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
12034817 ATTAGAAACT
12034827 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12034864 TGTGAGGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12038740 original size:21 final size:21
Alignment explanation
Indices: 12038698--12038740 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
12038688 CGTCAAATTC
**
12038698 TAATAATTATAAATAATTAAT
1 TAATAATTATAAATAAAAAAT
12038719 TAATGAATT-TAAATAAAAAAT
1 TAAT-AATTATAAATAAAAAAT
12038740 T
1 T
12038741 TATTATTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
TAATAATTATAAATAAAAAAT
Found at i:12039926 original size:24 final size:24
Alignment explanation
Indices: 12039894--12039955 Score: 115
Period size: 24 Copynumber: 2.6 Consensus size: 24
12039884 AATTGGCAAC
12039894 CCAAGCTCAAGGATGTTCCCTTCT
1 CCAAGCTCAAGGATGTTCCCTTCT
12039918 CCAAGCTCAAGGATGTTCCCTTCT
1 CCAAGCTCAAGGATGTTCCCTTCT
*
12039942 CCAGGCTCAAGGAT
1 CCAAGCTCAAGGAT
12039956 TAATTGAACC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (24 bp):
CCAAGCTCAAGGATGTTCCCTTCT
Found at i:12044779 original size:18 final size:18
Alignment explanation
Indices: 12044756--12044791 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
12044746 CTTACATGAC
*
12044756 ATAAAGTAAAGATGACTT
1 ATAAAGTAAACATGACTT
*
12044774 ATAAAGTAGACATGACTT
1 ATAAAGTAAACATGACTT
12044792 GACTAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.08, G:0.17, T:0.28
Consensus pattern (18 bp):
ATAAAGTAAACATGACTT
Found at i:12044821 original size:16 final size:16
Alignment explanation
Indices: 12044795--12044840 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
12044785 ATGACTTGAC
12044795 TAAAATAGACTAAACA
1 TAAAATAGACTAAACA
**
12044811 TAAAAGT-GACTTGACA
1 TAAAA-TAGACTAAACA
12044827 TAAAATAGACTAAA
1 TAAAATAGACTAAA
12044841 GGTGATGGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
15 1 0.04
16 22 0.92
17 1 0.04
ACGTcount: A:0.57, C:0.11, G:0.11, T:0.22
Consensus pattern (16 bp):
TAAAATAGACTAAACA
Found at i:12069626 original size:24 final size:24
Alignment explanation
Indices: 12069568--12069629 Score: 115
Period size: 24 Copynumber: 2.6 Consensus size: 24
12069558 GGTTCAATTA
*
12069568 ATCCTTGAGCCTGGAGAAGGGAAC
1 ATCCTTGAGCTTGGAGAAGGGAAC
12069592 ATCCTTGAGCTTGGAGAAGGGAAC
1 ATCCTTGAGCTTGGAGAAGGGAAC
12069616 ATCCTTGAGCTTGG
1 ATCCTTGAGCTTGG
12069630 GTTGCCAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (24 bp):
ATCCTTGAGCTTGGAGAAGGGAAC
Found at i:12073081 original size:17 final size:17
Alignment explanation
Indices: 12073059--12073094 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
12073049 TACTATTTTT
*
12073059 AATTTTACTAATTAATA
1 AATTTTAATAATTAATA
*
12073076 AATTTTAATCATTAATA
1 AATTTTAATAATTAATA
12073093 AA
1 AA
12073095 ATGTCACGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTTTAATAATTAATA
Found at i:12073754 original size:12 final size:13
Alignment explanation
Indices: 12073731--12073759 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
12073721 TAGTCTATCA
12073731 ATTTTAATTTTTT
1 ATTTTAATTTTTT
12073744 ATTTT-ATTTTTT
1 ATTTTAATTTTTT
12073756 ATTT
1 ATTT
12073760 ATTCATTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
ATTTTAATTTTTT
Found at i:12074359 original size:12 final size:12
Alignment explanation
Indices: 12074333--12074369 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
12074323 AATTTAATAT
*
12074333 AAAAATCTATATA
1 AAAAAT-TATTTA
12074346 AAAAATTATTTA
1 AAAAATTATTTA
12074358 AAAAATTATTTA
1 AAAAATTATTTA
12074370 TAATTTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 17 0.74
13 6 0.26
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (12 bp):
AAAAATTATTTA
Found at i:12074539 original size:388 final size:394
Alignment explanation
Indices: 12073495--12074549 Score: 1118
Period size: 400 Copynumber: 2.7 Consensus size: 394
12073485 TTTTTAATTA
* * * * * *
12073495 TTTAATAAAAAATCCAAACTTGATAGACTAATA-AAGTTCAATATGAAAATCAATAATATATAAC
1 TTTAATAAAAAATCTAAAC-CGATAGATTAACAGAA-TTTAATATG--AATAAATAATATATAA-
* * * ** * *
12073559 ATATTAATACAAATCTTATTTATAATTTAAATTTGA-TCGATATTTATTCAATGATAAAAATTTT
61 AAAATATTACAAAAATTATTTATAATTTAAATTTGATTC-ATATTTATTC-ATGGTAAAAATTCT
* * *
12073623 ATCAATATTTTTACTAAAAATATCTATTTAATAAATACATCAAAATTCTTTAAAATTTTTTCAAA
124 GTCAATATTTTTACTAAAAATATCTATTTAATAAATATATCAAAAAT-TTTAAAATTTTTTCAAA
* * * * * * *
12073688 TTTTACATGC-TTGATTTATGTGATGAGATATTTTAGTCTATCAATTTTA-ATTTTTTATTTTAT
188 -TTTACATGCTTTGATTTATGTGATGAAATATTTTAATTTAT-TACTTTAGATTTTTAATTTTAA
* *
12073751 TTTTTATTTATTCATTTCTAATAAAAAATTTCACAAACTTCACCTATGAAATTTCATATAAAATT
251 TTTTTATTTACTCATTTCTAATAAAAAATTCCACAAACTTCACCTATGAAATTTCATAT--AA-T
* *
12073816 TTCTCCCGAATGACAAAACTTACATAAAGTTATTTAGATAAAATTTATAAAGTTCCTTTTTAAAA
313 TTCTCCCGAATGACAAAACTTACATAAAATTATTTAGATAAAATTTATAAAATTCCTTTTTAAAA
12073881 AATAATTTAATAAAAAC
378 AATAATTTAATAAAAAC
* * * *
12073898 TTTAATAAAAAATCTAAACCGATATATTGACAGAGTTTAATATGAATTTAATAATATATAAAAAA
1 TTTAATAAAAAATCTAAACCGATAGATTAACAGAATTTAATATGAA-TAAATAATATATAAAAAA
* * * * *
12073963 TATTACAAATATTATTTATAATTTAAATTTGATTGATACTTATTTAATAGTAAAAATTCTGTCAA
65 TATTACAAAAATTATTTATAATTTAAATTTGATTCATATTTA-TTCATGGTAAAAATTCTGTCAA
* ** *
12074028 TATTTTTACTAAAAATATCTATTTAATAAATATATCAAAATTTATTAATTTTTTTTTTAAATTTA
129 TATTTTTACTAAAAATATCTATTTAATAAATATATCAAAAATT-TTAA-AATTTTTTCAAATTTA
* * * * * *
12074093 CATG-TTTGATCTATGTGATGAAATCTTTTAATTTAGTAGTTTTGATTTTCAATTTTAATTTTTA
192 CATGCTTTGATTTATGTGATGAAATATTTTAATTTATTACTTTAGATTTTTAATTTTAATTTTTA
** * * *
12074157 TTTACTCA-TTCTAATAAAAAATTCCATGAATTTCACCTATGAAACTTT-ATGT-A-TT-TCCCT
257 TTTACTCATTTCTAATAAAAAATTCCACAAACTTCACCTATGAAA-TTTCATATAATTTCTCCCG
* * * ** *
12074217 AA-GAACAAAACTTACATAAAATTATTTAGGTAAATTTTGTAAAATT-CTTTTTGTAAAATGATT
321 AATG-ACAAAACTTACATAAAATTATTTAGATAAAATTTATAAAATTCCTTTTTAAAAAATAATT
* *
12074280 TAATAAACAT
385 TAATAAAAAC
* *
12074290 TTTAATAAAAAATCTAAACCGATAGATTAATAGAATTTAATAT-AA-AAAT-CTATATAAAAAAT
1 TTTAATAAAAAATCTAAACCGATAGATTAACAGAATTTAATATGAATAAATAATATATAAAAAA-
* *
12074352 TATTTA-AAAAATTATTTATAATTTAAATTTGATTCATATTTATTCGTGGTAAAAATTCTGTTAA
65 TA-TTACAAAAATTATTTATAATTTAAATTTGATTCATATTTATTCATGGTAAAAATTCTGTCAA
* * * * * *
12074416 TGTTTTTA-TTATAATGTCTATTTAATAAACATATCAAAAAATTTTCAAATTTTTTCAAATATTA
129 TATTTTTACTAAAAATATCTATTTAATAAATATATC-AAAAATTTTAAAATTTTTTCAAAT-TTA
* * * * *
12074480 CACGCTTTGATTTATATGATAAAATGTCTTAATTTATTACTTTAGATTTTTAATTTTAATTTTTA
192 CATGCTTTGATTTATGTGATGAAATATTTTAATTTATTACTTTAGATTTTTAATTTTAATTTTTA
12074545 TTTAC
257 TTTAC
12074550 CCAAATGATG
Statistics
Matches: 551, Mismatches: 86, Indels: 45
0.81 0.13 0.07
Matches are distributed among these distances:
386 10 0.02
387 32 0.06
388 98 0.18
389 38 0.07
390 3 0.01
391 2 0.00
392 62 0.11
393 43 0.08
394 2 0.00
396 1 0.00
399 40 0.07
400 160 0.29
401 25 0.05
402 16 0.03
403 19 0.03
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (394 bp):
TTTAATAAAAAATCTAAACCGATAGATTAACAGAATTTAATATGAATAAATAATATATAAAAAAT
ATTACAAAAATTATTTATAATTTAAATTTGATTCATATTTATTCATGGTAAAAATTCTGTCAATA
TTTTTACTAAAAATATCTATTTAATAAATATATCAAAAATTTTAAAATTTTTTCAAATTTACATG
CTTTGATTTATGTGATGAAATATTTTAATTTATTACTTTAGATTTTTAATTTTAATTTTTATTTA
CTCATTTCTAATAAAAAATTCCACAAACTTCACCTATGAAATTTCATATAATTTCTCCCGAATGA
CAAAACTTACATAAAATTATTTAGATAAAATTTATAAAATTCCTTTTTAAAAAATAATTTAATAA
AAAC
Found at i:12081764 original size:27 final size:27
Alignment explanation
Indices: 12081697--12081789 Score: 68
Period size: 28 Copynumber: 3.4 Consensus size: 27
12081687 TTATTATATA
*
12081697 TCATAATTTGAA-ATTAATTAATTTAAA-
1 TCATAATTTAAATATTAATTAA--TAAAT
*
12081724 T-ATAA-ATAATATATTAATTAATAAAT
1 TCATAATTTAA-ATATTAATTAATAAAT
* *
12081750 TCATAATTTAAATATCATATTAAAAAAT
1 TCATAATTTAAATATTA-ATTAATAAAT
* *
12081778 TTAAAATTTAAA
1 TCATAATTTAAA
12081790 AATAATATTA
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
25 6 0.11
26 6 0.11
27 19 0.36
28 22 0.42
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (27 bp):
TCATAATTTAAATATTAATTAATAAAT
Found at i:12081808 original size:28 final size:28
Alignment explanation
Indices: 12081740--12081801 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
12081730 TAATATATTA
* * * * *
12081740 ATTAATAAATTCATAATTTAAATATCAT
1 ATTAAAAAATTTAAAATTTAAAAATAAT
12081768 ATTAAAAAATTTAAAATTTAAAAATAAT
1 ATTAAAAAATTTAAAATTTAAAAATAAT
12081796 ATTAAA
1 ATTAAA
12081802 TATTTTATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (28 bp):
ATTAAAAAATTTAAAATTTAAAAATAAT
Found at i:12082293 original size:20 final size:21
Alignment explanation
Indices: 12082242--12082294 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
12082232 TCATTAATTT
* *
12082242 TTTATATATTATTTTAGTATAA
1 TTTATATA-TATTTAAATATAA
*
12082264 TTTTTAATATATTTAAATA-AA
1 TTTAT-ATATATTTAAATATAA
12082285 TTTATATATA
1 TTTATATATA
12082295 AAATAATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 5 0.19
21 6 0.23
22 12 0.46
23 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTATATATATTTAAATATAA
Found at i:12082335 original size:9 final size:10
Alignment explanation
Indices: 12082312--12082344 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
12082302 TATTTTATTT
12082312 TATAAAAATA
1 TATAAAAATA
*
12082322 TATAAAATTA
1 TATAAAAATA
12082332 -ATAAAAATA
1 TATAAAAATA
12082341 TATA
1 TATA
12082345 TTTGAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
TATAAAAATA
Found at i:12088743 original size:2 final size:2
Alignment explanation
Indices: 12088726--12088762 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
12088716 CACCTAGAAC
* *
12088726 AT AT AT AC AT AC 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 AT AT A
12088763 AAGCCAACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:12089793 original size:33 final size:33
Alignment explanation
Indices: 12089753--12089819 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
12089743 AAAATGTTAA
12089753 TTTATTTAAAGATAGAAAAGGAATTTACATTTG
1 TTTATTTAAAGATAGAAAAGGAATTTACATTTG
*
12089786 TTTATTTAAAGATAGAAACGGAATTTACATTTG
1 TTTATTTAAAGATAGAAAAGGAATTTACATTTG
12089819 T
1 T
12089820 AACAGAACAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.40
Consensus pattern (33 bp):
TTTATTTAAAGATAGAAAAGGAATTTACATTTG
Found at i:12092895 original size:2 final size:2
Alignment explanation
Indices: 12092870--12092908 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
12092860 ATCAGTAAAG
* * *
12092870 AT AT AT AA AT AT AA AT AT AA 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 AT AT AT A
12092909 CCTCTAATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Found at i:12092897 original size:10 final size:10
Alignment explanation
Indices: 12092865--12092908 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
12092855 ATTCAATCAG
*
12092865 TAAAGATATA
1 TAAATATATA
12092875 TAAATATAAATA
1 TAAATAT--ATA
12092887 TAAATATATA
1 TAAATATATA
*
12092897 TATATATATA
1 TAAATATATA
12092907 TA
1 TA
12092909 CCTCTAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 20 0.67
12 10 0.33
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (10 bp):
TAAATATATA
Found at i:12092907 original size:12 final size:12
Alignment explanation
Indices: 12092870--12092908 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
12092860 ATCAGTAAAG
12092870 ATATATAAATAT
1 ATATATAAATAT
*
12092882 AAATATAAATAT
1 ATATATAAATAT
*
12092894 ATATATATATAT
1 ATATATAAATAT
12092906 ATA
1 ATA
12092909 CCTCTAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATAAATAT
Found at i:12094499 original size:13 final size:13
Alignment explanation
Indices: 12094457--12094501 Score: 58
Period size: 12 Copynumber: 3.5 Consensus size: 13
12094447 AAAAAAATTA
12094457 CAAA-TTTTATCT
1 CAAATTTTTATCT
12094469 CAAGATTTTTATCT
1 CAA-ATTTTTATCT
*
12094483 -AAATTTTTCTCT
1 CAAATTTTTATCT
12094495 CAAATTT
1 CAAATTT
12094502 GTGGCTATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 12 0.41
13 9 0.31
14 8 0.28
ACGTcount: A:0.31, C:0.16, G:0.02, T:0.51
Consensus pattern (13 bp):
CAAATTTTTATCT
Found at i:12103639 original size:23 final size:22
Alignment explanation
Indices: 12103597--12103639 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
12103587 ATTTAATCTA
*
12103597 ATTTTATTTATAATATTATTTT
1 ATTTTATTTATAATAATATTTT
*
12103619 ATTTTATCTTATTATAATATT
1 ATTTTAT-TTATAATAATATT
12103640 ATGTACTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (22 bp):
ATTTTATTTATAATAATATTTT
Found at i:12103813 original size:21 final size:21
Alignment explanation
Indices: 12103780--12103830 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
12103770 CATTTACATG
* *
12103780 TAATTTTTAATATGATCTTGA
1 TAATTGTTAATATAATCTTGA
* *
12103801 TAATTGTTGATATAATTTTGA
1 TAATTGTTAATATAATCTTGA
12103822 TTAA-TGTTA
1 -TAATTGTTA
12103831 TAAAAATTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (21 bp):
TAATTGTTAATATAATCTTGA
Found at i:12104203 original size:14 final size:15
Alignment explanation
Indices: 12104184--12104212 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12104174 AGAGTAAACA
12104184 TTTATT-TTGGAAAT
1 TTTATTGTTGGAAAT
12104198 TTTATTGTTGGAAAT
1 TTTATTGTTGGAAAT
12104213 ATAAAACACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (15 bp):
TTTATTGTTGGAAAT
Found at i:12105983 original size:26 final size:26
Alignment explanation
Indices: 12105954--12106006 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
12105944 ATCAAATTTA
*
12105954 AATATTAATTTTAATAAAATTA-AATT
1 AATATAAATTTT-ATAAAATTATAATT
*
12105980 AATATAAATTTTTTAAAATTATAATT
1 AATATAAATTTTATAAAATTATAATT
12106006 A
1 A
12106007 TAATTATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
AATATAAATTTTATAAAATTATAATT
Found at i:12106036 original size:6 final size:6
Alignment explanation
Indices: 12105996--12106025 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
12105986 AATTTTTTAA
12105996 AATTAT AATTAT AATTAT AATTAT AATTAT
1 AATTAT AATTAT AATTAT AATTAT AATTAT
12106026 TTTTAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AATTAT
Found at i:12112662 original size:4 final size:4
Alignment explanation
Indices: 12112655--12112688 Score: 59
Period size: 4 Copynumber: 8.2 Consensus size: 4
12112645 GAACAAGAAT
12112655 AAAG AAAG AAAG AAAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG -AAAG AAAG AAAG AAAG AAAG A
12112689 GGGAAAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:12112694 original size:12 final size:12
Alignment explanation
Indices: 12112655--12112688 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 12
12112645 GAACAAGAAT
12112655 AAAGAAAGAAAG
1 AAAGAAAGAAAG
12112667 AAAAGAAAGAAAG
1 -AAAGAAAGAAAG
12112680 AAAGAAAGA
1 AAAGAAAGA
12112689 GGGAAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAGAAAGAAAG
Found at i:12114942 original size:27 final size:27
Alignment explanation
Indices: 12114910--12114973 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
12114900 ATGTACCATT
12114910 AAATTC-AGCTTCGAATTCTCAATTATA
1 AAATTCTAG-TTCGAATTCTCAATTATA
12114937 AAATTCTAGTTCGAATTCTCAATTATA
1 AAATTCTAGTTCGAATTCTCAATTATA
*
12114964 AAATTTTAGT
1 AAATTCTAGT
12114974 AGACCTAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 33 0.94
28 2 0.06
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.41
Consensus pattern (27 bp):
AAATTCTAGTTCGAATTCTCAATTATA
Found at i:12123198 original size:15 final size:16
Alignment explanation
Indices: 12123178--12123216 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
12123168 AATGTTTAAA
12123178 ATCATCATAAAT-ATC
1 ATCATCATAAATCATC
12123193 ATCATCATAAATCATC
1 ATCATCATAAATCATC
*
12123209 ATTATCAT
1 ATCATCAT
12123217 TCGTTTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.36
Consensus pattern (16 bp):
ATCATCATAAATCATC
Found at i:12128468 original size:10 final size:10
Alignment explanation
Indices: 12128453--12128479 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
12128443 CTTAATAAAA
12128453 TTTTGACTAC
1 TTTTGACTAC
12128463 TTTTGACTAC
1 TTTTGACTAC
12128473 TTTTGAC
1 TTTTGAC
12128480 AACTACATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.19, G:0.11, T:0.52
Consensus pattern (10 bp):
TTTTGACTAC
Found at i:12142464 original size:26 final size:26
Alignment explanation
Indices: 12142435--12142487 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
12142425 ATAGTTAGAG
*
12142435 AAAGCTAAACAAGATGTAAGAAATTA
1 AAAGCTAAACAAGATGCAAGAAATTA
12142461 AAAGCTAAACAAGATGCAAGAAATTA
1 AAAGCTAAACAAGATGCAAGAAATTA
12142487 A
1 A
12142488 TCTATGTAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.58, C:0.09, G:0.15, T:0.17
Consensus pattern (26 bp):
AAAGCTAAACAAGATGCAAGAAATTA
Done.