Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, 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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 40 of 117
Found at i:9667220 original size:25 final size:25
Alignment explanation
Indices: 9667191--9667249 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
9667181 CTGGCTTTGT
9667191 TAAAAAAAATGATTTTATTTAAAAG
1 TAAAAAAAATGATTTTATTTAAAAG
*
9667216 TAAAAAAAATGATTTTGTTTAAAAG
1 TAAAAAAAATGATTTTATTTAAAAG
* *
9667241 GAAGAAAAA
1 TAAAAAAAA
9667250 CTAGAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.31
Consensus pattern (25 bp):
TAAAAAAAATGATTTTATTTAAAAG
Found at i:9667429 original size:31 final size:31
Alignment explanation
Indices: 9667389--9667447 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
9667379 CATCTTCACT
* *
9667389 AATATTATTTTCATTAAAAACTATCAAATAAA
1 AATATTATTTTAAATAAAAA-TATCAAATAAA
*
9667421 AATA-TATTTTAAATAACAATATCAAAT
1 AATATTATTTTAAATAAAAATATCAAAT
9667448 GATCTCATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 8 0.33
31 12 0.50
32 4 0.17
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.37
Consensus pattern (31 bp):
AATATTATTTTAAATAAAAATATCAAATAAA
Found at i:9676289 original size:21 final size:20
Alignment explanation
Indices: 9676265--9676318 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
9676255 TAGTAATTTT
**
9676265 TTTAATTTTAATTTTTATATA
1 TTTAATTTTAATAGTTA-ATA
*
9676286 TTT-ATTTTAAAAGTTAATA
1 TTTAATTTTAATAGTTAATA
9676305 TTTAATATTTAATA
1 TTTAAT-TTTAATA
9676319 AAATAATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 6 0.22
20 12 0.44
21 9 0.33
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTAATTTTAATAGTTAATA
Found at i:9676309 original size:7 final size:7
Alignment explanation
Indices: 9676265--9676318 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
9676255 TAGTAATTTT
9676265 TTTAAT-
1 TTTAATA
*
9676271 TTTAATT
1 TTTAATA
9676278 TTTATATA
1 TTTA-ATA
9676286 TTT-AT-
1 TTTAATA
*
9676291 TTTAAAA
1 TTTAATA
*
9676298 GTTAATA
1 TTTAATA
9676305 TTTAATA
1 TTTAATA
9676312 TTTAATA
1 TTTAATA
9676319 AAATAATATT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
5 3 0.08
6 9 0.23
7 22 0.56
8 5 0.13
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (7 bp):
TTTAATA
Found at i:9677695 original size:3 final size:3
Alignment explanation
Indices: 9677681--9677719 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
9677671 CAATACATAC
*
9677681 TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TATT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA
9677720 AAATTATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:9677739 original size:19 final size:16
Alignment explanation
Indices: 9677691--9677747 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
9677681 TATTATTGTT
**
9677691 ATTATTA-TTATTATT
1 ATTATTATTTATTAAA
9677706 ATTATTATTTATTAAA
1 ATTATTATTTATTAAA
9677722 ATTATATATTTGATTTAAA
1 ATTAT-TATTT-A-TTAAA
*
9677741 AATATTA
1 ATTATTA
9677748 CGCATCCTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
15 7 0.20
16 11 0.31
17 5 0.14
18 3 0.09
19 9 0.26
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (16 bp):
ATTATTATTTATTAAA
Found at i:9678054 original size:27 final size:27
Alignment explanation
Indices: 9678024--9678077 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
9678014 AATTTTTTTT
*
9678024 ATTAAGTTACCAATTATTTACTATTAA
1 ATTAAGTTACCAATGATTTACTATTAA
* **
9678051 ATTAAGTTATCGCTGATTTACTATTAA
1 ATTAAGTTACCAATGATTTACTATTAA
9678078 GTTGTCACTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (27 bp):
ATTAAGTTACCAATGATTTACTATTAA
Found at i:9678094 original size:22 final size:22
Alignment explanation
Indices: 9678051--9678095 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9678041 TTACTATTAA
* * *
9678051 ATTAAGTTATCGCTGATTTACT
1 ATTAAGTTATCACTAATGTACT
*
9678073 ATTAAGTTGTCACTAATGTACT
1 ATTAAGTTATCACTAATGTACT
9678095 A
1 A
9678096 CTACATGATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.42
Consensus pattern (22 bp):
ATTAAGTTATCACTAATGTACT
Found at i:9678128 original size:22 final size:22
Alignment explanation
Indices: 9678094--9678170 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
9678084 ACTAATGTAC
* *
9678094 TACTACATGATAGATAATTTAT
1 TACTAAATTATAGATAATTTAT
*
9678116 TATTAAATTATAGATAATTTAT
1 TACTAAATTATAGATAATTTAT
* * *
9678138 TACTAAGTTA-ACACTAATTTAC
1 TACTAAATTATAGA-TAATTTAT
9678160 TACTAAATTAT
1 TACTAAATTAT
9678171 TATTAATTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
21 2 0.04
22 43 0.96
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (22 bp):
TACTAAATTATAGATAATTTAT
Found at i:9678177 original size:22 final size:21
Alignment explanation
Indices: 9678086--9678184 Score: 74
Period size: 22 Copynumber: 4.5 Consensus size: 21
9678076 AAGTTGTCAC
* * *
9678086 TAATGTACTACTACATGATAGA
1 TAATTTACTACTAAATTATA-A
* *
9678108 TAATTTATTATTAAATTATAGA
1 TAATTTACTACTAAATTATA-A
* *
9678130 TAATTTATTACTAAGTTA-ACA
1 TAATTTACTACTAAATTATA-A
*
9678151 CTAATTTACTACTAAATTATTAT
1 -TAATTTACTACTAAATTA-TAA
9678174 TAATTTACTAC
1 TAATTTACTAC
9678185 CATCACTAAT
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
21 2 0.03
22 60 0.95
24 1 0.02
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.43
Consensus pattern (21 bp):
TAATTTACTACTAAATTATAA
Found at i:9679095 original size:21 final size:22
Alignment explanation
Indices: 9679049--9679111 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 22
9679039 TAACTACTTG
*
9679049 CTATCAATGATTTATAACTAAG
1 CTATCAATGATTTATAACTAAA
* *
9679071 CTATCAAT-ATTTTTAATTAAA
1 CTATCAATGATTTATAACTAAA
* * *
9679092 CTATCATTAATTTATTACTA
1 CTATCAATGATTTATAACTA
9679112 TATTATGAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
21 17 0.52
22 16 0.48
ACGTcount: A:0.40, C:0.13, G:0.03, T:0.44
Consensus pattern (22 bp):
CTATCAATGATTTATAACTAAA
Found at i:9679124 original size:22 final size:22
Alignment explanation
Indices: 9679099--9679155 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
9679089 AAACTATCAT
*
9679099 TAATTTATTACTATATTATGAA
1 TAATTTATTACTATATTATAAA
** * *
9679121 TAATTTAGAATTATTTTATAAA
1 TAATTTATTACTATATTATAAA
*
9679143 TGATTTATTACTA
1 TAATTTATTACTA
9679156 ATTTATTGAT
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (22 bp):
TAATTTATTACTATATTATAAA
Found at i:9679298 original size:22 final size:21
Alignment explanation
Indices: 9679242--9679299 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
9679232 TAATGGTTAG
* *
9679242 CTAATTTACTACTAAATTTTA
1 CTAATTTACTACTAAATATCA
* * *
9679263 TTGATTTACAACTAAATAATCA
1 CTAATTTACTACTAAAT-ATCA
9679285 CTAATTTACTACTAA
1 CTAATTTACTACTAA
9679300 GTTACTTACT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (21 bp):
CTAATTTACTACTAAATATCA
Found at i:9679498 original size:44 final size:44
Alignment explanation
Indices: 9679432--9679673 Score: 138
Period size: 44 Copynumber: 5.3 Consensus size: 44
9679422 TTATACTAGC
* *
9679432 TTACTA-TAAATTA-TCTATAATTTATTATTAAGTTATCATTAAT
1 TTACTATTAAGTTATTC-ATAATTTACTATTAAGTTATCATTAAT
*
9679475 TTACTATTAAGTTATTCATAATTTGGCTATTAAGTTATCAGTTATCACTT
1 TTACTATTAAGTTATTCATAATTT-ACTATTAAGTTATCA-TTA--A--T
* * * * * * *
9679525 ATTGATTATTAA-ATATTGATAATTTGCTATTATATTTGT-ATTGATT
1 -TT-ACTATTAAGTTATTCATAATTTACTATTA-AGTTATCATT-AAT
* *
9679571 TTACTTTTAAGTT-TTCAATAATTAACTATTAAGTTATCAATT-AT
1 TTACTATTAAGTTATTC-ATAATTTACTATTAAGTTATC-ATTAAT
* * * * *
9679615 TTACTATTAAGTTA-TCATTGATTTATTAATAAGTTATTAATAAT
1 TTACTATTAAGTTATTCA-TAATTTACTATTAAGTTATCATTAAT
* *
9679659 TAACTATTATGTTAT
1 TTACTATTAAGTTAT
9679674 ACTTACTTTT
Statistics
Matches: 152, Mismatches: 27, Indels: 38
0.70 0.12 0.18
Matches are distributed among these distances:
43 9 0.06
44 69 0.45
45 30 0.20
46 7 0.05
48 1 0.01
49 2 0.01
50 10 0.07
51 17 0.11
52 7 0.05
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.51
Consensus pattern (44 bp):
TTACTATTAAGTTATTCATAATTTACTATTAAGTTATCATTAAT
Found at i:9679504 original size:23 final size:23
Alignment explanation
Indices: 9679449--9679673 Score: 107
Period size: 22 Copynumber: 9.8 Consensus size: 23
9679439 AAATTATCTA
*
9679449 TAATTTATTATTAAGTTA-TCAT
1 TAATTTACTATTAAGTTATTCAT
9679471 TAATTTACTATTAAGTTATTCA-
1 TAATTTACTATTAAGTTATTCAT
*
9679493 TAATTTGGCTATTAAGTTA-TCAGT
1 TAATTT-ACTATTAAGTTATTCA-T
* * *
9679517 TATCACTTATTGATTATTAA-ATATTGA-
1 TA--A--T-TT-ACTATTAAGTTATTCAT
*
9679544 TAATTTGCTATTATA-TT-TGT-AT
1 TAATTTACTATTA-AGTTAT-TCAT
* * *
9679566 TGATTTTACTTTTAAGTT-TTCAA
1 T-AATTTACTATTAAGTTATTCAT
*
9679589 TAATTAACTATTAAGTTA-TCAAT
1 TAATTTACTATTAAGTTATTC-AT
9679612 T-ATTTACTATTAAGTTA-TCAT
1 TAATTTACTATTAAGTTATTCAT
* * * *
9679633 TGATTTATTAATAAGTTATT-AA
1 TAATTTACTATTAAGTTATTCAT
* *
9679655 TAATTAACTATTATGTTAT
1 TAATTTACTATTAAGTTAT
9679674 ACTTACTTTT
Statistics
Matches: 157, Mismatches: 26, Indels: 40
0.70 0.12 0.18
Matches are distributed among these distances:
21 10 0.06
22 95 0.61
23 32 0.20
24 2 0.01
25 1 0.01
26 1 0.01
27 2 0.01
28 3 0.02
29 11 0.07
ACGTcount: A:0.35, C:0.07, G:0.08, T:0.51
Consensus pattern (23 bp):
TAATTTACTATTAAGTTATTCAT
Found at i:9679657 original size:66 final size:67
Alignment explanation
Indices: 9679578--9679722 Score: 179
Period size: 68 Copynumber: 2.2 Consensus size: 67
9679568 ATTTTACTTT
*
9679578 TAAGTTTTCAATAATTAACTATTAAGTTATCAATTA-TTTACT-ATTAAGTTATCATTGATTTAT
1 TAAGTTTTCAATAATTAACTATTAAGTTAT-AATTACTTTACTAACTAAGTTATCATTGATTTAT
9679641 TAA
65 TAA
* * * * *
9679644 TAAGTTATT-AATAATTAACTATTATGTTATACTTACTTTTATTAACTATGTTATCATTGATTTC
1 TAAGTT-TTCAATAATTAACTATTAAGTTATAATTAC-TTTACTAACTAAGTTATCATTGATTTA
*
9679708 TTAC
64 TTAA
9679712 TAAGTTTTCAA
1 TAAGTTTTCAA
9679723 ATTATTTATT
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
65 4 0.06
66 26 0.39
67 9 0.13
68 28 0.42
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (67 bp):
TAAGTTTTCAATAATTAACTATTAAGTTATAATTACTTTACTAACTAAGTTATCATTGATTTATT
AA
Found at i:9679726 original size:66 final size:65
Alignment explanation
Indices: 9679578--9679726 Score: 167
Period size: 66 Copynumber: 2.2 Consensus size: 65
9679568 ATTTTACTTT
*
9679578 TAAGTTTTCAATAATTAACTATTAAGTTATCAATTATTTACTATTAAGTTATCATTGATTTATTA
1 TAAGTTTTC-ATAATTAACTATTAAGTTATCAATTATTTACTACTAAGTTATCATTGATTTATTA
9679643 A
65 A
* * * * * *
9679644 TAAGTTATTAATAATTAACTATTATGTTAT-ACTTACTTTTATTAACTATGTTATCATTGATTTC
1 TAAGTT-TTCATAATTAACTATTAAGTTATCAATTA--TTTACT-ACTAAGTTATCATTGATTTA
*
9679708 TTAC
62 TTAA
9679712 TAAGTTTTCA-AATTA
1 TAAGTTTTCATAATTA
9679727 TTTATTACAA
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
65 4 0.06
66 30 0.43
67 10 0.14
68 26 0.37
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.50
Consensus pattern (65 bp):
TAAGTTTTCATAATTAACTATTAAGTTATCAATTATTTACTACTAAGTTATCATTGATTTATTAA
Found at i:9679772 original size:22 final size:22
Alignment explanation
Indices: 9679747--9679832 Score: 59
Period size: 22 Copynumber: 3.9 Consensus size: 22
9679737 AACTTATAAC
9679747 TGATTTAATACTAAATTATCTA
1 TGATTTAATACTAAATTATCTA
* *
9679769 TGA-TTCATGACTAATTTATC-A
1 TGATTTAAT-ACTAAATTATCTA
* * * * *
9679790 TTAATTTATTATTAAGTTGTCTA
1 -TGATTTAATACTAAATTATCTA
* *
9679813 TGATTTATTATTAAATTATC
1 TGATTTAATACTAAATTATC
9679833 AATTATCATT
Statistics
Matches: 49, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
21 5 0.10
22 40 0.82
23 4 0.08
ACGTcount: A:0.35, C:0.08, G:0.07, T:0.50
Consensus pattern (22 bp):
TGATTTAATACTAAATTATCTA
Found at i:9679987 original size:21 final size:22
Alignment explanation
Indices: 9679935--9679994 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 22
9679925 ATTATTTTAC
9679935 AGTTTATCATTTATTTACTACTA
1 AGTTTATCATTTA-TTACTACTA
*
9679958 AGTAATTTATAATTTA-TACTACTA
1 AG---TTTATCATTTATTACTACTA
9679982 AGTTTATCATTTA
1 AGTTTATCATTTA
9679995 ATTAATATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
21 10 0.31
23 2 0.06
24 10 0.31
26 10 0.31
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (22 bp):
AGTTTATCATTTATTACTACTA
Found at i:9680039 original size:22 final size:21
Alignment explanation
Indices: 9680014--9680075 Score: 79
Period size: 22 Copynumber: 2.9 Consensus size: 21
9680004 AAACTAAAAT
*
9680014 TAATTTACTATTAAGTTATCA
1 TAATTTATTATTAAGTTATCA
* *
9680035 CTAATTTATTACTAAGTTATTA
1 -TAATTTATTATTAAGTTATCA
*
9680057 TTATTTATTATTAAGTTAT
1 TAATTTATTATTAAGTTAT
9680076 TAATCTTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
21 17 0.49
22 18 0.51
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.53
Consensus pattern (21 bp):
TAATTTATTATTAAGTTATCA
Found at i:9680055 original size:11 final size:11
Alignment explanation
Indices: 9680025--9680077 Score: 54
Period size: 11 Copynumber: 4.9 Consensus size: 11
9680015 AATTTACTAT
*
9680025 TAAGTTATCAC
1 TAAGTTATTAC
*
9680036 TAATTTATTAC
1 TAAGTTATTAC
9680047 TAAGTTATTA-
1 TAAGTTATTAC
* * *
9680057 TTATTTATTAT
1 TAAGTTATTAC
9680068 TAAGTTATTA
1 TAAGTTATTA
9680078 ATCTTTAACT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
10 8 0.24
11 26 0.76
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.53
Consensus pattern (11 bp):
TAAGTTATTAC
Found at i:9680064 original size:21 final size:21
Alignment explanation
Indices: 9680038--9680077 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
9680028 GTTATCACTA
9680038 ATTTATTACTAAGTTATTATT
1 ATTTATTACTAAGTTATTATT
*
9680059 ATTTATTATTAAGTTATTA
1 ATTTATTACTAAGTTATTA
9680078 ATCTTTAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (21 bp):
ATTTATTACTAAGTTATTATT
Found at i:9680084 original size:21 final size:21
Alignment explanation
Indices: 9680038--9680084 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
9680028 GTTATCACTA
*
9680038 ATTTATTACTAAGTTATTATT
1 ATTTATTACTAAGTTATTAAT
*
9680059 ATTTATTATTAAGTTATTAAT
1 ATTTATTACTAAGTTATTAAT
*
9680080 CTTTA
1 ATTTA
9680085 ACTATTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.57
Consensus pattern (21 bp):
ATTTATTACTAAGTTATTAAT
Found at i:9681975 original size:2 final size:2
Alignment explanation
Indices: 9681968--9681998 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
9681958 AATTTACAGT
9681968 TA TA TA TA TA TA TA TA TA TA TA TGA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
9681999 AATGTCAGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:9682403 original size:2 final size:2
Alignment explanation
Indices: 9682396--9682449 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
9682386 AGGTTTGGTG
9682396 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9682438 TA TA TA TA TA TA
1 TA TA TA TA TA TA
9682450 CCAGCCTTCT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9683321 original size:31 final size:31
Alignment explanation
Indices: 9683235--9683339 Score: 90
Period size: 31 Copynumber: 3.4 Consensus size: 31
9683225 TTAGCTTAAT
9683235 AAGTGATATCAAAACTATCA-TGATC-CTAAC
1 AAGTGATATCAAAACTAT-AGTGATCTCTAAC
* * * * * *
9683265 AAGT-AGTATCAGAGCTCTGGAGATCTTTAAC
1 AAGTGA-TATCAAAACTATAGTGATCTCTAAC
* *
9683296 AAGTGATATCAAAACTGTAGTGATCTCCAAC
1 AAGTGATATCAAAACTATAGTGATCTCTAAC
*
9683327 AAGTGGTATCAAA
1 AAGTGATATCAAA
9683340 TCTAAAAGTT
Statistics
Matches: 57, Mismatches: 14, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
29 1 0.02
30 17 0.30
31 38 0.67
32 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (31 bp):
AAGTGATATCAAAACTATAGTGATCTCTAAC
Found at i:9683475 original size:61 final size:61
Alignment explanation
Indices: 9683396--9683513 Score: 150
Period size: 61 Copynumber: 1.9 Consensus size: 61
9683386 AAGAGACAAA
* * ** *
9683396 TCCAGATGAGTTCAACTCAA-GAAATAAG-TTAGAGTTCGTGTTTTGAATATCAGTTTGTAAG
1 TCCAGAGGAGCTCAACTCAAGGAAA-AAGTTTA-AGTTCGTGTTTCAAAGATCAGTTTGTAAG
*
9683457 TCCAGAGGAGCTCGACTCAAGGAAAAAGTTTAAGTTCGTGTTTCAAAGATCAGTTTG
1 TCCAGAGGAGCTCAACTCAAGGAAAAAGTTTAAGTTCGTGTTTCAAAGATCAGTTTG
9683514 CATGAAGCAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
61 42 0.86
62 7 0.14
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (61 bp):
TCCAGAGGAGCTCAACTCAAGGAAAAAGTTTAAGTTCGTGTTTCAAAGATCAGTTTGTAAG
Found at i:9683787 original size:51 final size:52
Alignment explanation
Indices: 9683705--9683806 Score: 152
Period size: 51 Copynumber: 2.0 Consensus size: 52
9683695 GATAAGAAGG
9683705 CTTGCAAAAGAAAAATTTCAAGAGAAAAAAGATTCTTAAAAGGCAAGTTTAA
1 CTTGCAAAAGAAAAATTTCAAGAGAAAAAAGATTCTTAAAAGGCAAGTTTAA
* * * * *
9683757 CTTGTAAAA-AAAAATTTTAAGAGGAAAAAGATTCTTAATAGGTAAGTTTA
1 CTTGCAAAAGAAAAATTTCAAGAGAAAAAAGATTCTTAAAAGGCAAGTTTA
9683807 TATAGTTACA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 37 0.82
52 8 0.18
ACGTcount: A:0.50, C:0.07, G:0.16, T:0.27
Consensus pattern (52 bp):
CTTGCAAAAGAAAAATTTCAAGAGAAAAAAGATTCTTAAAAGGCAAGTTTAA
Found at i:9684322 original size:31 final size:30
Alignment explanation
Indices: 9684245--9684344 Score: 96
Period size: 31 Copynumber: 3.3 Consensus size: 30
9684235 GGTTTTTTAG
* *
9684245 CCTAACAAGTGATATCAGAGCTAT-CATGAT
1 CCTAACAAGTAATATCAGAGCTATGGA-GAT
*
9684275 CCTAACAAG-AAGTATCAGAGCTTTGGAGATT
1 CCTAACAAGTAA-TATCAGAGCTATGGAGA-T
* * *
9684306 CCTAACAAGTTATATCAAAGCTATGGTGAT
1 CCTAACAAGTAATATCAGAGCTATGGAGAT
9684336 CCTTAACAA
1 CC-TAACAA
9684345 CACCTCACCC
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
29 1 0.02
30 25 0.43
31 31 0.53
32 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (30 bp):
CCTAACAAGTAATATCAGAGCTATGGAGAT
Found at i:9686210 original size:24 final size:24
Alignment explanation
Indices: 9686178--9686224 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
9686168 CTTTTTTTTG
* *
9686178 AATTATATTTTTAATTATTAATATT
1 AATTATATTTATAATCA-TAATATT
9686203 AATT-TATTTATAATCATAATAT
1 AATTATATTTATAATCATAATAT
9686225 GATATGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 10 0.50
25 4 0.20
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
AATTATATTTATAATCATAATATT
Found at i:9688201 original size:21 final size:21
Alignment explanation
Indices: 9688161--9688203 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9688151 AGGTATTTTT
** *
9688161 TGTCAAAAACGTCTTGAATAA
1 TGTCAAAAACACCTTAAATAA
9688182 TGTCAAAAACACCTTAAATAA
1 TGTCAAAAACACCTTAAATAA
9688203 T
1 T
9688204 CTCTTTCAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (21 bp):
TGTCAAAAACACCTTAAATAA
Found at i:9688264 original size:62 final size:60
Alignment explanation
Indices: 9688198--9688395 Score: 202
Period size: 62 Copynumber: 3.2 Consensus size: 60
9688188 AAACACCTTA
* *
9688198 AATAATCTCTTTCAATTTTTATGAGGGGATTATTTAAGGTGTTTTTAGCTAAAAATAACTTG
1 AATAATC-CTTTCAATTTTTATGAAGGGATTATTCAAGGTGTTTTTAGCTAAAAAT-ACTTG
* * ** *
9688260 AATAA-CCTCATTCAATATTT-TGTAAGTGATTATTCAAGGCATTTTGTGGCTAAAAATACTTG
1 AATAATCCT--TTCAATTTTTATG-AAGGGATTATTCAAGGTGTTTT-TAGCTAAAAATACTTG
* * * *
9688322 AATAATCCTTTTCAATTTTTATAAAGGAATTATTCAAGGTGTTTTTCGCTAGAAAATGCCTTG
1 AATAATCC-TTTCAATTTTTATGAAGGGATTATTCAAGGTGTTTTTAGCTA-AAAAT-ACTTG
9688385 AATAATCCTTT
1 AATAATCCTTT
9688396 ACCAAATGCC
Statistics
Matches: 112, Mismatches: 15, Indels: 18
0.77 0.10 0.12
Matches are distributed among these distances:
60 2 0.02
61 8 0.07
62 76 0.68
63 25 0.22
64 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (60 bp):
AATAATCCTTTCAATTTTTATGAAGGGATTATTCAAGGTGTTTTTAGCTAAAAATACTTG
Found at i:9689671 original size:18 final size:18
Alignment explanation
Indices: 9689602--9689675 Score: 64
Period size: 18 Copynumber: 4.0 Consensus size: 18
9689592 ATTAAAGACC
9689602 AATT-AAAATAAATACAA-T
1 AATTAAAAATAAA-A-AATT
*
9689620 AATTAAAAAT-AATAATT
1 AATTAAAAATAAAAAATT
9689637 CAATTAAACAATCAAAAAATT
1 -AATTAAA-AAT-AAAAAATT
*
9689658 AATTACAAATAAAAAATT
1 AATTAAAAATAAAAAATT
9689676 GAAAGGCTGA
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
16 2 0.04
17 1 0.02
18 21 0.45
19 11 0.23
20 6 0.13
21 6 0.13
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (18 bp):
AATTAAAAATAAAAAATT
Found at i:9691372 original size:22 final size:23
Alignment explanation
Indices: 9691333--9691375 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
9691323 TGCGTATACT
*
9691333 TTTAGAAAATAAGAAAATTAATG
1 TTTAAAAAATAAGAAAATTAATG
*
9691356 TTTAAAAAATAA-TAAATTAA
1 TTTAAAAAATAAGAAAATTAA
9691376 GAAAAATGTG
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:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (23 bp):
TTTAAAAAATAAGAAAATTAATG
Found at i:9691425 original size:10 final size:9
Alignment explanation
Indices: 9691410--9691458 Score: 55
Period size: 9 Copynumber: 5.2 Consensus size: 9
9691400 AAAACAGTTT
9691410 TAAAAAATA
1 TAAAAAATA
9691419 -ATAAAAATA
1 TA-AAAAATA
9691428 TAAAAAATGA
1 TAAAAAAT-A
*
9691438 CAAAAAATA
1 TAAAAAATA
9691447 TAAAAATATA
1 TAAAAA-ATA
9691457 TA
1 TA
9691459 TAATAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.56
10 14 0.41
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (9 bp):
TAAAAAATA
Found at i:9691426 original size:9 final size:9
Alignment explanation
Indices: 9691412--9691473 Score: 51
Period size: 9 Copynumber: 6.9 Consensus size: 9
9691402 AACAGTTTTA
9691412 AAAAATAAT
1 AAAAATAAT
9691421 AAAAAT-AT
1 AAAAATAAT
9691429 AAAAAATGACA-
1 -AAAAAT-A-AT
9691440 AAAAAT-AT
1 AAAAATAAT
9691448 AAAAAT-AT
1 AAAAATAAT
*
9691456 ATATAATAAT
1 A-AAAATAAT
9691466 AAAAATAA
1 AAAAATAA
9691474 AAATCTCTGA
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
7 1 0.02
8 11 0.25
9 22 0.50
10 9 0.20
12 1 0.02
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (9 bp):
AAAAATAAT
Found at i:9691431 original size:18 final size:19
Alignment explanation
Indices: 9691410--9691470 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
9691400 AAAACAGTTT
9691410 TAAAAAATA-ATAAAAATA
1 TAAAAAATACATAAAAATA
9691428 TAAAAAATGACA-AAAAATA
1 TAAAAAAT-ACATAAAAATA
* *
9691447 TAAAAATATATATAATAATA
1 TAAAAA-ATACATAAAAATA
9691467 -AAAA
1 TAAAA
9691471 TAAAAATCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
18 8 0.22
19 20 0.54
20 9 0.24
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (19 bp):
TAAAAAATACATAAAAATA
Found at i:9691469 original size:27 final size:28
Alignment explanation
Indices: 9691392--9691470 Score: 79
Period size: 27 Copynumber: 2.8 Consensus size: 28
9691382 TGTGTATGGA
* **
9691392 AAAAATATAAAACAGTTTTAAAAAATAAT
1 AAAAATATAAAA-AATAATAAAAAATAAT
* *
9691421 AAAAATATAAAAAATGACAAAAAAT-AT
1 AAAAATATAAAAAATAATAAAAAATAAT
* *
9691448 AAAAATATATATAATAATAAAAA
1 AAAAATATAAAAAATAATAAAAA
9691471 TAAAAATCTC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 21 0.50
28 9 0.21
29 12 0.29
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (28 bp):
AAAAATATAAAAAATAATAAAAAATAAT
Found at i:9694421 original size:26 final size:26
Alignment explanation
Indices: 9694391--9694441 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
9694381 GGCTTTGTTA
9694391 AAAAAAAAATGATTTTATTTAAAAGT
1 AAAAAAAAATGATTTTATTTAAAAGT
9694417 AAAAAAAAATGATTTTATTTAAAAG
1 AAAAAAAAATGATTTTATTTAAAAG
9694442 GATATTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (26 bp):
AAAAAAAAATGATTTTATTTAAAAGT
Found at i:9707411 original size:3 final size:3
Alignment explanation
Indices: 9707403--9707482 Score: 126
Period size: 3 Copynumber: 27.0 Consensus size: 3
9707393 ATTAAAATTA
* * *
9707403 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT CAT -TT GAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9707450 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9707483 GAGCTTTCAT
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
2 1 0.01
3 71 0.99
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:9707623 original size:14 final size:14
Alignment explanation
Indices: 9707604--9707662 Score: 55
Period size: 14 Copynumber: 4.2 Consensus size: 14
9707594 CTTCAATTAA
9707604 AAAACCTAAATCCT
1 AAAACCTAAATCCT
* *
9707618 AAAACCTTAATCCC
1 AAAACCTAAATCCT
* * *
9707632 AAAATCGAAAACCT
1 AAAACCTAAATCCT
* *
9707646 AAAACCAAAATCAT
1 AAAACCTAAATCCT
9707660 AAA
1 AAA
9707663 CTCTCCAAAC
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.56, C:0.25, G:0.02, T:0.17
Consensus pattern (14 bp):
AAAACCTAAATCCT
Found at i:9707685 original size:29 final size:29
Alignment explanation
Indices: 9707643--9707737 Score: 111
Period size: 29 Copynumber: 3.2 Consensus size: 29
9707633 AAATCGAAAA
9707643 CCTAAAACCAAAATCATAAACTCTCCAAAC
1 CCTAAAA-CAAAATCATAAACTCTCCAAAC
* *
9707673 CCCAAAACTAAATCATAAA-TCCTCCAAAC
1 CCTAAAACAAAATCATAAACT-CTCCAAAC
* * * *
9707702 CCTAAATCAAAACCCTAAACTTTCCAAAC
1 CCTAAAACAAAATCATAAACTCTCCAAAC
9707731 CCTAAAA
1 CCTAAAA
9707738 TTGAAGCCCT
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
28 1 0.02
29 46 0.85
30 7 0.13
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (29 bp):
CCTAAAACAAAATCATAAACTCTCCAAAC
Found at i:9711153 original size:4 final size:4
Alignment explanation
Indices: 9711144--9711216 Score: 60
Period size: 4 Copynumber: 18.5 Consensus size: 4
9711134 GTTAGTTGTG
* ** * *
9711144 CATT CATT CATT CATT TATT TGTG CATT CACT CATT CATT CATT -ATT
1 CATT CATT CATT CATT CATT CATT CATT CATT CATT CATT CATT CATT
* *
9711191 CATT CATC CATT TATGT -ATT CATT CA
1 CATT CATT CATT CAT-T CATT CATT CA
9711217 ATATAATGCA
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
3 4 0.07
4 50 0.91
5 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.04, T:0.49
Consensus pattern (4 bp):
CATT
Found at i:9712866 original size:7 final size:7
Alignment explanation
Indices: 9712856--9712903 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
9712846 TAAAAAATAA
9712856 AAAAAAG
1 AAAAAAG
9712863 AAAAAAG
1 AAAAAAG
*
9712870 CAAAAAAA
1 -AAAAAAG
9712878 AAAGGAAAG
1 AAA--AAAG
9712887 AAAAAAG
1 AAAAAAG
*
9712894 AAAAAGG
1 AAAAAAG
9712901 AAA
1 AAA
9712904 GTTTTAAGTC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
7 23 0.66
8 6 0.17
9 6 0.17
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:9712880 original size:12 final size:11
Alignment explanation
Indices: 9712847--9712898 Score: 52
Period size: 12 Copynumber: 4.5 Consensus size: 11
9712837 AAAATGTTTT
9712847 AAAAAATAAAA-
1 AAAAAA-AAAAG
9712858 AAAAGAAAAAAG
1 AAAA-AAAAAAG
9712870 CAAAAAAAAAAGG
1 -AAAAAAAAAA-G
*
9712883 AAAGAAAAAAG
1 AAAAAAAAAAG
9712894 AAAAA
1 AAAAA
9712899 GGAAAGTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
11 13 0.37
12 17 0.49
13 5 0.14
ACGTcount: A:0.85, C:0.02, G:0.12, T:0.02
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:9712892 original size:18 final size:18
Alignment explanation
Indices: 9712848--9712904 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 18
9712838 AAATGTTTTA
* *
9712848 AAAAATAAAAAAAAGAAAA
1 AAAAA-AAAAAAAGGAAAG
9712867 AAGCAAAAAAAAAAGGAAAG
1 AA--AAAAAAAAAAGGAAAG
*
9712887 AAAAAAGAAAAAGGAAAG
1 AAAAAAAAAAAAGGAAAG
9712905 TTTTAAGTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 15 0.45
19 2 0.06
20 13 0.39
21 3 0.09
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.02
Consensus pattern (18 bp):
AAAAAAAAAAAAGGAAAG
Found at i:9714093 original size:16 final size:15
Alignment explanation
Indices: 9714072--9714106 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9714062 AAAATGAGAG
9714072 GAAAGAAAGAACAAAA
1 GAAAGAAA-AACAAAA
*
9714088 GAAAGAAAAAGAAAA
1 GAAAGAAAAACAAAA
9714103 GAAA
1 GAAA
9714107 TGAATGGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (15 bp):
GAAAGAAAAACAAAA
Found at i:9715065 original size:33 final size:31
Alignment explanation
Indices: 9714989--9715067 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
9714979 CATCGATACT
* * *
9714989 TTTAAGCCCAATTTAGCTAGCCTCAATGAAA
1 TTTAAGCCTAGTTTACCTAGCCTCAATGAAA
*
9715020 TTTAAGCCTAGTTTACCTAGCCATCAATGAAGT
1 TTTAAGCCTAGTTTACCTAGCC-TCAATGAA-A
*
9715053 TTTAAGCTTAGTTTA
1 TTTAAGCCTAGTTTA
9715068 GTTGGCCCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
31 19 0.46
32 8 0.20
33 14 0.34
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (31 bp):
TTTAAGCCTAGTTTACCTAGCCTCAATGAAA
Found at i:9715299 original size:65 final size:64
Alignment explanation
Indices: 9715132--9715304 Score: 150
Period size: 65 Copynumber: 2.7 Consensus size: 64
9715122 AGCCCATTTA
* * * * * * *
9715132 TTTAAGTCCAGTTTATTTGACTTTCAAAGAAGATTTAAACCTAATTTATCTAACCAATAATGAAT
1 TTTAAGTCTAGTTTATTTGGC-CTAAAAAAATATTTAAACCCAATTTATCTAACCAATAATGAAT
* * ** * * ** *
9715197 CTTAAGCCTAGTTTAGCTAGCCTTTAAAAAAAT-TTTAAACCCAGTTTATCTGGCCACTAATGAA
1 TTTAAGTCTAGTTTATTTGGCC--TAAAAAAATATTTAAACCCAATTTATCTAACCAATAATGAA
9715261 GT
64 -T
*
9715263 TTTAAGTCTAGTTTATTTGGCCTAAAAAAATATTTAAGCCCA
1 TTTAAGTCTAGTTTATTTGGCCTAAAAAAATATTTAAACCCA
9715305 CCATAGTTAG
Statistics
Matches: 82, Mismatches: 22, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
64 9 0.11
65 49 0.60
66 24 0.29
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (64 bp):
TTTAAGTCTAGTTTATTTGGCCTAAAAAAATATTTAAACCCAATTTATCTAACCAATAATGAAT
Found at i:9715471 original size:36 final size:37
Alignment explanation
Indices: 9715431--9715501 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
9715421 AAGTTAACCC
9715431 GATCGATTCCATA-ATTTTGA-TTCATGGTGTTATCCG
1 GATCGATTCCATATATTTTGACTT-ATGGTGTTATCCG
* *
9715467 GATCGATTCCTTATTTTTTGACTTATGGTGTTATC
1 GATCGATTCCATATATTTTGACTTATGGTGTTATC
9715502 ACAGTCGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
36 12 0.39
37 17 0.55
38 2 0.06
ACGTcount: A:0.20, C:0.15, G:0.18, T:0.46
Consensus pattern (37 bp):
GATCGATTCCATATATTTTGACTTATGGTGTTATCCG
Found at i:9715653 original size:22 final size:22
Alignment explanation
Indices: 9715628--9715698 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
9715618 ATTTTGTAAA
9715628 ACCTTCGGACATAATTTCTAAG
1 ACCTTCGGACATAATTTCTAAG
** * *
9715650 ACCTTCGGGTACAATATT-TAAT
1 ACCTTCGGACATAAT-TTCTAAG
*
9715672 ACCGTCGGACATAATTTCTAAG
1 ACCTTCGGACATAATTTCTAAG
9715694 ACCTT
1 ACCTT
9715699 TGGGTATTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
21 2 0.05
22 33 0.89
23 2 0.05
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (22 bp):
ACCTTCGGACATAATTTCTAAG
Found at i:9715747 original size:36 final size:36
Alignment explanation
Indices: 9715707--9715792 Score: 93
Period size: 36 Copynumber: 2.4 Consensus size: 36
9715697 TTTGGGTATT
* *
9715707 ATTTCGACTTGCGACATTGTC-CTGGTCGATTTCATA
1 ATTTCGACTTGCGACATTGTCAC-AGTCGATTCCATA
* ***
9715743 ATTTCGACTCGCGGTGTTGTCACAGTCGATTCCATA
1 ATTTCGACTTGCGACATTGTCACAGTCGATTCCATA
*
9715779 ATTTCAACTTGCGA
1 ATTTCGACTTGCGA
9715793 TGTTATCTTC
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
36 39 0.98
37 1 0.03
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (36 bp):
ATTTCGACTTGCGACATTGTCACAGTCGATTCCATA
Found at i:9715918 original size:36 final size:36
Alignment explanation
Indices: 9715824--9715993 Score: 139
Period size: 36 Copynumber: 4.7 Consensus size: 36
9715814 TTACTATTCG
* *
9715824 ACTTGCGGTGTTGTTCCGATCAATTTC-ATAATTTTA
1 ACTTGCGGTGTTATCCCGATC-ATTTCTATAATTTTA
*** * *
9715860 ACTTATAGTATTATCCCGATCATTTCTATAATGTTA
1 ACTTGCGGTGTTATCCCGATCATTTCTATAATTTTA
**
9715896 ACTTGCGGTGTTATCCCGATCATTTTTCT-TACA-TTCG
1 ACTTGCGGTGTTATCCCGATCA--TTTCTATA-ATTTTA
* * ** * * *
9715933 ACTTACGGTATTATCCTAATCAATTCCATAATTTTG
1 ACTTGCGGTGTTATCCCGATCATTTCTATAATTTTA
9715969 ACTTGCGGTGTTATCCCGATCATTT
1 ACTTGCGGTGTTATCCCGATCATTT
9715994 TTTTAACTAT
Statistics
Matches: 102, Mismatches: 26, Indels: 12
0.73 0.19 0.09
Matches are distributed among these distances:
35 9 0.09
36 66 0.65
37 21 0.21
38 6 0.06
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.43
Consensus pattern (36 bp):
ACTTGCGGTGTTATCCCGATCATTTCTATAATTTTA
Found at i:9716310 original size:16 final size:17
Alignment explanation
Indices: 9716288--9716334 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
9716278 AAGTTTTGTT
9716288 TATTAAT-ATTAAAAT-
1 TATTAATAATTAAAATA
9716303 TAATTAATAATT-AAATA
1 T-ATTAATAATTAAAATA
9716320 TATTAATAATTAAAA
1 TATTAATAATTAAAA
9716335 AATACAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 1 0.04
16 20 0.71
17 7 0.25
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TATTAATAATTAAAATA
Found at i:9717647 original size:19 final size:20
Alignment explanation
Indices: 9717623--9717660 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
9717613 CTTTAAAAAA
*
9717623 ATAATAATAAT-AAATAATG
1 ATAATAAGAATAAAATAATG
9717642 ATAATAAGAATAAAATAAT
1 ATAATAAGAATAAAATAAT
9717661 ATTTTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
ATAATAAGAATAAAATAATG
Found at i:9717763 original size:18 final size:18
Alignment explanation
Indices: 9717740--9717777 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
9717730 AGATGTTTGA
9717740 AAATTATAAA-TAAAAAAT
1 AAATTA-AAATTAAAAAAT
*
9717758 AAATTAAAATTAAAATAT
1 AAATTAAAATTAAAAAAT
9717776 AA
1 AA
9717778 TAATAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATTAAAATTAAAAAAT
Found at i:9717782 original size:3 final size:3
Alignment explanation
Indices: 9717774--9717819 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
9717764 AAATTAAAAT
*
9717774 ATA ATA ATA ATA ATT ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9717820 GTTTTCATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:9718089 original size:16 final size:15
Alignment explanation
Indices: 9718068--9718097 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
9718058 CCTTAAATCA
9718068 AAACCCTAAACATTCC
1 AAACCCTAAA-ATTCC
9718084 AAACCCTAAAATTC
1 AAACCCTAAAATTC
9718098 AAGCACTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (15 bp):
AAACCCTAAAATTCC
Found at i:9719938 original size:30 final size:28
Alignment explanation
Indices: 9719877--9719958 Score: 96
Period size: 30 Copynumber: 2.9 Consensus size: 28
9719867 TATTGGTTAA
* *
9719877 AAAAAAACAAAAA-CAAAAAAA-AATTCT
1 AAAAAAACAAAAATAAAAAAAAGAATT-G
*
9719904 AAAAAAACAAAATATAAAGACAAAGAATTG
1 AAAAAAACAAAA-ATAAA-AAAAAGAATTG
9719934 AAAAAAACAAAAATAAAAAAAAGAA
1 AAAAAAACAAAAATAAAAAAAAGAA
9719959 AAAGAAAGGA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
27 12 0.26
28 8 0.17
29 7 0.15
30 16 0.34
31 4 0.09
ACGTcount: A:0.78, C:0.07, G:0.05, T:0.10
Consensus pattern (28 bp):
AAAAAAACAAAAATAAAAAAAAGAATTG
Found at i:9719960 original size:14 final size:14
Alignment explanation
Indices: 9719877--9719954 Score: 61
Period size: 13 Copynumber: 5.5 Consensus size: 14
9719867 TATTGGTTAA
*
9719877 AAAAAAACAAAAAC
1 AAAAAAACAAAAAT
***
9719891 AAAAAAA-AATTCT
1 AAAAAAACAAAAAT
9719904 AAAAAAAC-AAAAT
1 AAAAAAACAAAAAT
* *
9719917 ATAAAGACAAAGAATT
1 AAAAAAACAAA-AA-T
9719933 GAAAAAAACAAAAAT
1 -AAAAAAACAAAAAT
9719948 AAAAAAA
1 AAAAAAA
9719955 AGAAAAAGAA
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
13 17 0.35
14 16 0.33
15 3 0.06
16 3 0.06
17 9 0.19
ACGTcount: A:0.78, C:0.08, G:0.04, T:0.10
Consensus pattern (14 bp):
AAAAAAACAAAAAT
Found at i:9719965 original size:29 final size:30
Alignment explanation
Indices: 9719904--9719965 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
9719894 AAAAAATTCT
* **
9719904 AAAAAAACAAAATATAAAGACAAAGAATTG
1 AAAAAAACAAAATATAAAGAAAAAGAAAAG
9719934 AAAAAAACAAAA-ATAAA-AAAAAGAAAAAG
1 AAAAAAACAAAATATAAAGAAAAAG-AAAAG
9719963 AAA
1 AAA
9719966 GGAAAAACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 5 0.18
29 11 0.39
30 12 0.43
ACGTcount: A:0.79, C:0.05, G:0.08, T:0.08
Consensus pattern (30 bp):
AAAAAAACAAAATATAAAGAAAAAGAAAAG
Found at i:9720147 original size:21 final size:19
Alignment explanation
Indices: 9720102--9720148 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 19
9720092 TAATTTGAAT
9720102 TAATTTGATTTTTTTATAC
1 TAATTTGATTTTTTTATAC
9720121 TCAATTTGCATGTTTTTTA-AGC
1 T-AATTTG-AT-TTTTTTATA-C
9720143 TAATTT
1 TAATTT
9720149 AAAGGTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 1 0.04
20 6 0.25
21 8 0.33
22 9 0.38
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.57
Consensus pattern (19 bp):
TAATTTGATTTTTTTATAC
Found at i:9720300 original size:24 final size:24
Alignment explanation
Indices: 9720268--9720318 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
9720258 AAGTATATAT
9720268 AAATAATTAATTAAT-TAATTAATC
1 AAATAATT-ATTAATATAATTAATC
* *
9720292 AAATTATTATTACTATAATTAATC
1 AAATAATTATTAATATAATTAATC
9720316 AAA
1 AAA
9720319 AAATATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (24 bp):
AAATAATTATTAATATAATTAATC
Found at i:9727117 original size:82 final size:82
Alignment explanation
Indices: 9726991--9727171 Score: 215
Period size: 82 Copynumber: 2.2 Consensus size: 82
9726981 AACACTGCTA
** * *
9726991 GCACTTACGTAGAACCACACCAGCCTCTCCATTAGCCCTGGCCAAACAC-CTGCA-TGACTAACC
1 GCACTTACCCAGAACCACACCAGCCTCTCCATTAGCCCTAGCCAAACACTC-GCACT-ACCAACC
*
9727054 TTCCCCAAAGCCTTAGCCG
64 TTCCCCAAAACCTTAGCCG
* *
9727073 GCACTTACCCAGAACTACACCAGTCTCTCCATTAG-CCTCAGCCAAACACTCGCACTACCAACCT
1 GCACTTACCCAGAACCACACCAGCCTCTCCATTAGCCCT-AGCCAAACACTCGCACTACCAACCT
* *
9727137 TTCCCAAAACCTTAGCTG
65 TCCCCAAAACCTTAGCCG
* *
9727155 GTATTTACCCAGAACCA
1 GCACTTACCCAGAACCA
9727172 TCCCAATCTC
Statistics
Matches: 84, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
81 3 0.04
82 79 0.94
83 2 0.02
ACGTcount: A:0.29, C:0.39, G:0.12, T:0.20
Consensus pattern (82 bp):
GCACTTACCCAGAACCACACCAGCCTCTCCATTAGCCCTAGCCAAACACTCGCACTACCAACCTT
CCCCAAAACCTTAGCCG
Found at i:9728073 original size:27 final size:27
Alignment explanation
Indices: 9728042--9728095 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
9728032 ATTTAAGTAA
*
9728042 ATTAAATTTACTAATTAGTTATTTGTT
1 ATTAAATTCACTAATTAGTTATTTGTT
9728069 ATTAAATTCACTAATTAGTTATTTGTT
1 ATTAAATTCACTAATTAGTTATTTGTT
9728096 TATTTGTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.06, G:0.07, T:0.54
Consensus pattern (27 bp):
ATTAAATTCACTAATTAGTTATTTGTT
Found at i:9729389 original size:10 final size:10
Alignment explanation
Indices: 9729374--9729403 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
9729364 ATTGAACTTT
9729374 TATATTTTAA
1 TATATTTTAA
9729384 TATATTTTAA
1 TATATTTTAA
9729394 T-TATTTTAA
1 TATATTTTAA
9729403 T
1 T
9729404 TAATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:9729400 original size:9 final size:9
Alignment explanation
Indices: 9729376--9729405 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
9729366 TGAACTTTTA
9729376 TATTTTAAT
1 TATTTTAAT
9729385 ATATTTTAAT
1 -TATTTTAAT
9729395 TATTTTAAT
1 TATTTTAAT
9729404 TA
1 TA
9729406 ATAAAATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:9730084 original size:14 final size:14
Alignment explanation
Indices: 9730058--9730108 Score: 61
Period size: 13 Copynumber: 3.6 Consensus size: 14
9730048 TTATGAAAAA
9730058 ATTAAAAAT-TTTT
1 ATTAAAAATATTTT
9730071 ATTAAAAATATTTT
1 ATTAAAAATATTTT
9730085 -TTAATAAATATTTTT
1 ATTAA-AAATA-TTTT
9730100 ATTTAAAAA
1 A-TTAAAAA
9730109 ATAAAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
13 13 0.39
14 9 0.27
15 4 0.12
16 3 0.09
17 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATTAAAAATATTTT
Found at i:9730087 original size:16 final size:15
Alignment explanation
Indices: 9730061--9730108 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
9730051 TGAAAAAATT
9730061 AAAA-ATTTTTATTA
1 AAAATATTTTTATTA
9730075 AAAATA-TTTT-TTA
1 AAAATATTTTTATTA
9730088 ATAAATATTTTTATTTA
1 A-AAATATTTTTA-TTA
9730105 AAAA
1 AAAA
9730109 ATAAAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 4 0.14
14 13 0.45
15 5 0.17
16 3 0.10
17 4 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AAAATATTTTTATTA
Found at i:9738673 original size:17 final size:18
Alignment explanation
Indices: 9738639--9738679 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
9738629 CCAACTCATT
* *
9738639 TTTTTCTTTATTTTTTTA
1 TTTTTATTTATTTCTTTA
9738657 TTTTTATTTA-TTCTTTA
1 TTTTTATTTATTTCTTTA
9738674 TTTTTA
1 TTTTTA
9738680 GTTTTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTATTTATTTCTTTA
Found at i:9738701 original size:12 final size:12
Alignment explanation
Indices: 9738636--9738714 Score: 60
Period size: 12 Copynumber: 6.9 Consensus size: 12
9738626 TTGCCAACTC
* *
9738636 ATTTTTTTCTTT
1 ATTTTTTTATTG
9738648 ATTTTTTTATT-
1 ATTTTTTTATTG
*
9738659 -TTTATTTATT-
1 ATTTTTTTATTG
* *
9738669 CTTTATTT-TT-
1 ATTTTTTTATTG
9738679 AGTTTTTTTATTG
1 A-TTTTTTTATTG
*
9738692 ATTTTCTTATTG
1 ATTTTTTTATTG
9738704 ATTTTTTTATT
1 ATTTTTTTATT
9738715 TACATAAATA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
10 11 0.19
11 13 0.23
12 32 0.56
13 1 0.02
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.77
Consensus pattern (12 bp):
ATTTTTTTATTG
Found at i:9738996 original size:16 final size:16
Alignment explanation
Indices: 9738977--9739008 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9738967 CAAATGTTGG
*
9738977 TAAAATCAAAATAAAT
1 TAAAATAAAAATAAAT
9738993 TAAAATAAAAATAAAT
1 TAAAATAAAAATAAAT
9739009 AAACCTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (16 bp):
TAAAATAAAAATAAAT
Found at i:9739577 original size:16 final size:16
Alignment explanation
Indices: 9739558--9739605 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
9739548 TTTTTATGTT
9739558 TAATAAA-ATAAAAATA
1 TAATAAACA-AAAAATA
*
9739574 TAATAAATAAAAAAATA
1 TAATAAA-CAAAAAATA
9739591 TAA-AAACAAAAAATA
1 TAATAAACAAAAAATA
9739606 AAAATTAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 8 0.28
16 10 0.34
17 10 0.34
18 1 0.03
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (16 bp):
TAATAAACAAAAAATA
Found at i:9739605 original size:15 final size:16
Alignment explanation
Indices: 9739567--9739603 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
9739557 TTAATAAAAT
9739567 AAAAATATAATAAATAA
1 AAAAATATAA-AAATAA
*
9739584 AAAAATATAAAAACAA
1 AAAAATATAAAAATAA
9739600 AAAA
1 AAAA
9739604 TAAAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAAATATAAAAATAA
Found at i:9741677 original size:18 final size:18
Alignment explanation
Indices: 9741654--9741691 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
9741644 ATGCTGAGTC
9741654 ATGAATAGTACTAACTTA
1 ATGAATAGTACTAACTTA
*
9741672 ATGAATAGTACTAAGTTA
1 ATGAATAGTACTAACTTA
9741690 AT
1 AT
9741692 AGAGTATCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (18 bp):
ATGAATAGTACTAACTTA
Found at i:9744236 original size:6 final size:6
Alignment explanation
Indices: 9744165--9744235 Score: 106
Period size: 6 Copynumber: 11.8 Consensus size: 6
9744155 CATAAAATTT
* * *
9744165 AATAAC AATAAC AATAAC AATAAT AACAAT AATAAC AATAAC AATAAC
1 AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC
*
9744213 AATAAC AATAAC AATAAT AATAA
1 AATAAC AATAAC AATAAC AATAA
9744236 TTCTTATTAT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 60 1.00
ACGTcount: A:0.68, C:0.13, G:0.00, T:0.20
Consensus pattern (6 bp):
AATAAC
Found at i:9745312 original size:143 final size:143
Alignment explanation
Indices: 9745066--9745548 Score: 517
Period size: 143 Copynumber: 3.4 Consensus size: 143
9745056 AATTTTAAAA
* * **
9745066 CACTAAAAATTATGAAATATTGTAAAATTGAGATCTAAAAAGTTTTGTGAAAATTTGAGCTTGAA
1 CACTAAAAATTATGAAATATTATAAAATTGAGATCTAAAAAGTTTCGTGAAAATTCAAGCTTGAA
* *
9745131 AAGGCTAGATTA-CAAATATACCCCT-AAGGGATATTTTGATAATTTCATACTTTTGACGTACTG
66 AAGGCTAGATTATGAAA-ATACCCCTAAAGGG-TATTTTGATAATTTCATACTTTTGAGGTACTG
* * *
9745194 TTGTGAATTCAAATG
129 CTATGATTTCAAATG
* * * * * * * * *
9745209 CACTAGAAATTATGAACTGTTATGAAATTAAGATTTAAAAAGTTTCATCAAAATTCAAGCATGAA
1 CACTAAAAATTATGAAATATTATAAAATTGAGATCTAAAAAGTTTCGTGAAAATTCAAGCTTGAA
* ** * * * *
9745274 AAGGTTAGATTATGAAAATACATCTAAAGGGTATTTTGATAA-TTCATACCTCTCGGGGTACTAC
66 AAGGCTAGATTATGAAAATACCCCTAAAGGGTATTTTGATAATTTCATA-CTTTTGAGGTACTGC
9745338 TATGATTTCAAATG
130 TATGATTTCAAATG
* * * *
9745352 CACAAAAAATTATCAAATATTATAAAATTGAGATCTAAAAAGTTACGTGAAAA-TCTAAGCTTCA
1 CACTAAAAATTATGAAATATTATAAAATTGAGATCTAAAAAGTTTCGTGAAAATTC-AAGCTTGA
* * * * * * *
9745416 GAAGGCCAAATTATGAAAATGCCCCTAATGGGTATTTTGATAATTTCACACTTTTCAGGGTACTG
65 AAAGGCTAGATTATGAAAATACCCCTAAAGGGTATTTTGATAATTTCATACTTTTGA-GGTACTG
9745481 CTATGATTTCAAATG
129 CTATGATTTCAAATG
* * * *
9745496 CAAC-AAAAATCATGAAATATTATAAAATTGTGATCTAGAAAGTTTCATGAAAA
1 C-ACTAAAAATTATGAAATATTATAAAATTGAGATCTAAAAAGTTTCGTGAAAA
9745549 AAAAAAGACC
Statistics
Matches: 275, Mismatches: 58, Indels: 13
0.79 0.17 0.04
Matches are distributed among these distances:
142 8 0.03
143 187 0.68
144 78 0.28
145 2 0.01
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.33
Consensus pattern (143 bp):
CACTAAAAATTATGAAATATTATAAAATTGAGATCTAAAAAGTTTCGTGAAAATTCAAGCTTGAA
AAGGCTAGATTATGAAAATACCCCTAAAGGGTATTTTGATAATTTCATACTTTTGAGGTACTGCT
ATGATTTCAAATG
Found at i:9746511 original size:30 final size:30
Alignment explanation
Indices: 9746462--9746518 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
9746452 GGCCTGGATT
* * *
9746462 GAACCACGAGTTGATGAATAAATATGACAA
1 GAACCACGAGTCGAAGAATAAAAATGACAA
*
9746492 GAACCATGAGTCGAAGAATAAAAATGA
1 GAACCACGAGTCGAAGAATAAAAATGA
9746519 TTGATACTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.49, C:0.12, G:0.21, T:0.18
Consensus pattern (30 bp):
GAACCACGAGTCGAAGAATAAAAATGACAA
Found at i:9746668 original size:35 final size:34
Alignment explanation
Indices: 9746543--9746687 Score: 116
Period size: 35 Copynumber: 4.2 Consensus size: 34
9746533 GAAGTCAAAA
* *
9746543 AATAAAAATGATC-GAGATTGAACCGCGAGTTAGAA-
1 AATAAAAATGATCAG-GATTGAA-CGCAAG-TGGAAG
* * * *
9746578 AATGAAAATGACCAGGACTGAACCCAAGTGGAAG
1 AATAAAAATGATCAGGATTGAACGCAAGTGGAAG
* *
9746612 AATAAAAATGAT-TGTGTTTGAATCGCAAGTGGAAG
1 AATAAAAATGATCAG-GATTGAA-CGCAAGTGGAAG
** *
9746647 AATTCAAATGATCAGGATTGAACTGCAAGTTGAAG
1 AATAAAAATGATCAGGATTGAAC-GCAAGTGGAAG
9746682 AATAAA
1 AATAAA
9746688 TATAACCAAG
Statistics
Matches: 85, Mismatches: 19, Indels: 12
0.73 0.16 0.10
Matches are distributed among these distances:
33 5 0.06
34 20 0.24
35 58 0.68
36 2 0.02
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.21
Consensus pattern (34 bp):
AATAAAAATGATCAGGATTGAACGCAAGTGGAAG
Found at i:9746741 original size:35 final size:35
Alignment explanation
Indices: 9746697--9746795 Score: 90
Period size: 35 Copynumber: 2.8 Consensus size: 35
9746687 ATATAACCAA
* * *
9746697 GACTTAACCACAAGTTAAGAAATAAAAATGACTAG
1 GACTAAACCACAAGTCAAGAAATAAAAATGAATAG
** * ** * * *
9746732 GTTTGAACCATGAGTCAAAAAATAAATATGAATGG
1 GACTAAACCACAAGTCAAGAAATAAAAATGAATAG
*
9746767 GACTAAACCGCAAGTCAAGAAATAAAAAT
1 GACTAAACCACAAGTCAAGAAATAAAAAT
9746796 AATCAGATTT
Statistics
Matches: 46, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.20
Consensus pattern (35 bp):
GACTAAACCACAAGTCAAGAAATAAAAATGAATAG
Found at i:9746756 original size:70 final size:70
Alignment explanation
Indices: 9746682--9746816 Score: 166
Period size: 70 Copynumber: 1.9 Consensus size: 70
9746672 CAAGTTGAAG
* * * *
9746682 AATAAATAT-AACCAAGACTTAACCACAAGTTAAGAAATAAAAATGA-CTAGGTTTGAACCATGA
1 AATAAATATGAA-CAAGACTAAACCACAAGTCAAGAAATAAAAATAATC-AGATTTGAACCATGA
9746745 GTCAAAA
64 GTCAAAA
*** *
9746752 AATAAATATGAATGGGACTAAACCGCAAGTCAAGAAATAAAAATAATCAGATTTGAACCATGAGT
1 AATAAATATGAACAAGACTAAACCACAAGTCAAGAAATAAAAATAATCAGATTTGAACCATGAGT
9746817 TGAAAATATG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
70 52 0.95
71 3 0.05
ACGTcount: A:0.50, C:0.13, G:0.15, T:0.21
Consensus pattern (70 bp):
AATAAATATGAACAAGACTAAACCACAAGTCAAGAAATAAAAATAATCAGATTTGAACCATGAGT
CAAAA
Found at i:9747079 original size:106 final size:106
Alignment explanation
Indices: 9746968--9747177 Score: 273
Period size: 106 Copynumber: 2.0 Consensus size: 106
9746958 AAAATAATCA
* * * * * *
9746968 AGATTGAATTGCAAGTCAAAGAATATATATGATTGAGATTGAA-CTGTAAGTT-AAAAATATGAA
1 AGATTGAACTACAAGTCAAAGAATAAAGATGATTGAGATTAAATCT-TAA-TTCAAAAA-ATAAA
9747031 AACAACTAGGATTGAACCACAAGTCAAAAAAT-AAAAATGACTG
63 AACAACTAGGATTGAACCACAAGTCAAAAAATGAAAAATGACTG
* *
9747074 AGATTGAACTACAAGTCGAAGAATAAAGATGATTGAGATTAAATCTTAATTCAAAAAATAAAAAT
1 AGATTGAACTACAAGTCAAAGAATAAAGATGATTGAGATTAAATCTTAATTCAAAAAATAAAAAC
* * *
9747139 AATTAGGATTGAATCACAAGTCAAATAATGAAAAATGAC
66 AACTAGGATTGAACCACAAGTCAAAAAATGAAAAATGAC
9747178 CAGGACTGAA
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
105 34 0.38
106 54 0.60
107 2 0.02
ACGTcount: A:0.50, C:0.09, G:0.16, T:0.25
Consensus pattern (106 bp):
AGATTGAACTACAAGTCAAAGAATAAAGATGATTGAGATTAAATCTTAATTCAAAAAATAAAAAC
AACTAGGATTGAACCACAAGTCAAAAAATGAAAAATGACTG
Found at i:9747088 original size:35 final size:35
Alignment explanation
Indices: 9746968--9747291 Score: 131
Period size: 35 Copynumber: 9.2 Consensus size: 35
9746958 AAAATAATCA
* * * * * *
9746968 AGATTGAATTGCAAGTCAAAGAATATATATGATTG
1 AGATTGAACTACAAGTCAAAAAATAAAAATGACTG
** * * **
9747003 AGATTGAACTGTAAGTTAAAAATATGAAAACAACT-
1 AGATTGAACTACAAGTCAAAAA-ATAAAAATGACTG
*
9747038 AGGATTGAACCACAAGTCAAAAAATAAAAATGACTG
1 A-GATTGAACTACAAGTCAAAAAATAAAAATGACTG
* * * *
9747074 AGATTGAACTACAAGTCGAAGAATAAAGATGATTG
1 AGATTGAACTACAAGTCAAAAAATAAAAATGACTG
* * * * *
9747109 AGATTAAATCT-TAATTCAAAAAATAAAAAT-AATT
1 AGATTGAA-CTACAAGTCAAAAAATAAAAATGACTG
* *
9747143 AGGATTGAA-TCACAAGTCAAATAATGAAAAATGAC-C
1 A-GATTGAACT-ACAAGTCAAAAAAT-AAAAATGACTG
* * * * * **
9747179 AGGACTGAACCATAAATC-AAAAATGAAAATGACCA
1 A-GATTGAACTACAAGTCAAAAAATAAAAATGACTG
* * * * * * ***
9747214 AGACTAAATTACGAGTCAAGAAATGAAAGCAACTG
1 AGATTGAACTACAAGTCAAAAAATAAAAATGACTG
* * * *
9747249 ATATTGAATTGCAAGTCAAAAAATGAAAATGACT-
1 AGATTGAACTACAAGTCAAAAAATAAAAATGACTG
9747283 AGGATTGAA
1 A-GATTGAA
9747292 TCATAATTCG
Statistics
Matches: 211, Mismatches: 65, Indels: 26
0.70 0.22 0.09
Matches are distributed among these distances:
33 1 0.00
34 22 0.10
35 142 0.67
36 45 0.21
37 1 0.00
ACGTcount: A:0.50, C:0.10, G:0.16, T:0.23
Consensus pattern (35 bp):
AGATTGAACTACAAGTCAAAAAATAAAAATGACTG
Found at i:9747292 original size:35 final size:35
Alignment explanation
Indices: 9747015--9747292 Score: 136
Period size: 35 Copynumber: 7.9 Consensus size: 35
9747005 ATTGAACTGT
* ** **
9747015 AAGTTAAAAATATGAAAACAACTAGGATTGAACCAC
1 AAGTCAAAAA-ATGAAAATGACTAGGATTGAATTAC
* *
9747051 AAGTCAAAAAATAAAAATGACT-GAGATTGAACTAC
1 AAGTCAAAAAATGAAAATGACTAG-GATTGAATTAC
* * * * *
9747086 AAGTCGAAGAAT-AAAGATGA-TTGAGATTAAATCT-T
1 AAGTCAAAAAATGAAA-ATGACTAG-GATTGAAT-TAC
* * * * *
9747121 AATTCAAAAAATAAAAATAATTAGGATTGAATCAC
1 AAGTCAAAAAATGAAAATGACTAGGATTGAATTAC
* * * ** *
9747156 AAGTCAAATAATGAAAAATGACCAGGACTGAACCAT
1 AAGTCAAAAAATG-AAAATGACTAGGATTGAATTAC
* * * * *
9747192 AAATC-AAAAATGAAAATGACCAAGACTAAATTAC
1 AAGTCAAAAAATGAAAATGACTAGGATTGAATTAC
* * *** * *
9747226 GAGTCAAGAAATGAAAGCAACT-GATATTGAATTGC
1 AAGTCAAAAAATGAAAATGACTAG-GATTGAATTAC
9747261 AAGTCAAAAAATGAAAATGACTAGGATTGAAT
1 AAGTCAAAAAATGAAAATGACTAGGATTGAAT
9747293 CATAATTCGA
Statistics
Matches: 179, Mismatches: 52, Indels: 23
0.70 0.20 0.09
Matches are distributed among these distances:
34 25 0.14
35 118 0.66
36 36 0.20
ACGTcount: A:0.52, C:0.11, G:0.15, T:0.22
Consensus pattern (35 bp):
AAGTCAAAAAATGAAAATGACTAGGATTGAATTAC
Found at i:9747345 original size:36 final size:35
Alignment explanation
Indices: 9747292--9747421 Score: 118
Period size: 36 Copynumber: 3.6 Consensus size: 35
9747282 TAGGATTGAA
9747292 TCATAA-TTCGAAGAATAAAAAATGATTGGGACAAC
1 TCATAAGTTCGAA-AATAAAAAATGATTGGGACAAC
* * ** * *
9747327 GTCGTAAGTTCGAAAATAAAGAACAACTAGGACAAC
1 -TCATAAGTTCGAAAATAAAAAATGATTGGGACAAC
* * *
9747363 ATCATAAGTTCAAAAATAAAAAATGATCGGGTCAAC
1 -TCATAAGTTCGAAAATAAAAAATGATTGGGACAAC
* *
9747399 ACTATAAGTCCGAAAATAAAAAA
1 TC-ATAAGTTCGAAAATAAAAAA
9747422 AACAACCAGA
Statistics
Matches: 73, Mismatches: 19, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
35 1 0.01
36 66 0.90
37 6 0.08
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.20
Consensus pattern (35 bp):
TCATAAGTTCGAAAATAAAAAATGATTGGGACAAC
Found at i:9747407 original size:72 final size:74
Alignment explanation
Indices: 9747291--9747463 Score: 176
Period size: 72 Copynumber: 2.4 Consensus size: 74
9747281 CTAGGATTGA
* * * * * * *
9747291 ATCATAA-TTCGAAGAATAAAAAATGATTGGGACAACGTCGTAAGTTCGAAAAT-AAAGAACAAC
1 ATCATAAGTTCAAAAAATAAAAAATGATCGGGACAACCTCATAAGTCCGAAAATAAAAAAACAAC
* *
9747354 TAGGACAAC
66 CAGAACAAC
*
9747363 ATCATAAGTTC-AAAAATAAAAAATGATCGGGTCAACACT-ATAAGTCCGAAAATAAAAAAAACA
1 ATCATAAGTTCAAAAAATAAAAAATGATCGGGACAAC-CTCATAAGTCCGAAAAT-AAAAAAACA
* *
9747426 ACCAGAATAAT
64 ACCAGAACAAC
*
9747437 ACCATAAG-TCAAAAAATAAAAAATGAT
1 ATCATAAGTTCAAAAAATAAAAAATGAT
9747464 TAAGACAACA
Statistics
Matches: 84, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
72 41 0.49
73 6 0.07
74 37 0.44
ACGTcount: A:0.54, C:0.14, G:0.13, T:0.19
Consensus pattern (74 bp):
ATCATAAGTTCAAAAAATAAAAAATGATCGGGACAACCTCATAAGTCCGAAAATAAAAAAACAAC
CAGAACAAC
Found at i:9747800 original size:66 final size:66
Alignment explanation
Indices: 9747730--9747932 Score: 200
Period size: 66 Copynumber: 3.1 Consensus size: 66
9747720 GGGTATTAGG
* * *
9747730 TAAACTGAGCTTAAATTTTTACTGGATGCCAAGTAAACTAGGCTTAACATTTCATTAGGAGCTAG
1 TAAACTGAGCTTAAATTTTCACTGGGTGCCAAGTAAACTAGGCTTAAAATTTCATTAGGAGCTAG
9747795 A
66 A
* * * ** * *
9747796 TAAACT-AGGCTTAAAATTTCATTGGGTGCC-AGCTAATA-TGGGCTTAAGTTTTCACTAGGTGC
1 TAAACTGA-GCTTAAATTTTCACTGGGTGCCAAG-TAA-ACTAGGCTTAAAATTTCATTAGGAGC
9747858 TA-A
63 TAGA
** * * *
9747861 CTAATTTGAGCTTAAATTTTCACTGGGTGCCAAGTAAACTAGACTTAAAATTTCATT-GGGGTTA
1 -TAAACTGAGCTTAAATTTTCACTGGGTGCCAAGTAAACTAGGCTTAAAATTTCATTAGGAGCTA
9747925 GA
65 GA
9747927 TAAACT
1 TAAACT
9747933 AGGTTTAAAA
Statistics
Matches: 107, Mismatches: 22, Indels: 17
0.73 0.15 0.12
Matches are distributed among these distances:
65 14 0.13
66 89 0.83
67 4 0.04
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (66 bp):
TAAACTGAGCTTAAATTTTCACTGGGTGCCAAGTAAACTAGGCTTAAAATTTCATTAGGAGCTAG
A
Found at i:9747908 original size:33 final size:33
Alignment explanation
Indices: 9747729--9747920 Score: 108
Period size: 33 Copynumber: 5.8 Consensus size: 33
9747719 GGGGTATTAG
* *
9747729 GTAAACT-GAGCTTAAATTTTTACTGGATGCCAA
1 GTAAACTAGA-CTTAAATTTTCACTGGGTGCCAA
* * * * *
9747762 GTAAACTAGGCTTAACA-TTTCATTAGGAG-CTA
1 GTAAACTAGACTTAA-ATTTTCACTGGGTGCCAA
* * *
9747794 GATAAACTAGGCTTAAAATTTCATTGGGTGCC-A
1 G-TAAACTAGACTTAAATTTTCACTGGGTGCCAA
* * * * *
9747827 GCTAATA-TGGGCTTAAGTTTTCACTAGGTGCTAA
1 G-TAA-ACTAGACTTAAATTTTCACTGGGTGCCAA
* * *
9747861 CT-AATTTGAGCTTAAATTTTCACTGGGTGCCAA
1 GTAAACTAGA-CTTAAATTTTCACTGGGTGCCAA
* *
9747894 GTAAACTAGACTTAAAATTTCATTGGG
1 GTAAACTAGACTTAAATTTTCACTGGG
9747921 GTTAGATAAA
Statistics
Matches: 122, Mismatches: 27, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
31 1 0.01
32 7 0.06
33 104 0.85
34 10 0.08
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (33 bp):
GTAAACTAGACTTAAATTTTCACTGGGTGCCAA
Found at i:9748493 original size:22 final size:21
Alignment explanation
Indices: 9748466--9748520 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 21
9748456 AACTAATCCG
*
9748466 GGCTTATGTG-TCAGTTAATTT
1 GGCTTATGTGCT-AGTTAAATT
9748487 GGACTTATGTGCTAGTTAAATT
1 GG-CTTATGTGCTAGTTAAATT
9748509 GGCTTTATGTGC
1 GGC-TTATGTGC
9748521 CAACTAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 3 0.10
22 26 0.87
23 1 0.03
ACGTcount: A:0.20, C:0.11, G:0.25, T:0.44
Consensus pattern (21 bp):
GGCTTATGTGCTAGTTAAATT
Found at i:9758258 original size:6 final size:6
Alignment explanation
Indices: 9758241--9758293 Score: 52
Period size: 7 Copynumber: 7.8 Consensus size: 6
9758231 TGCAATATAT
9758241 TAAAATA TAAAAA TAAAAA TAATATTAA TAAAATA TAAAATA TAAAAA
1 TAAAA-A TAAAAA TAAAAA TAA-A--AA TAAAA-A TAAAA-A TAAAAA
9758289 TAAAA
1 TAAAA
9758294 TAAGAAAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
6 17 0.40
7 19 0.45
8 1 0.02
9 5 0.12
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (6 bp):
TAAAAA
Found at i:9758275 original size:20 final size:20
Alignment explanation
Indices: 9758250--9758318 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
9758240 TTAAAATATA
**
9758250 AAAATAAAAATAATATTAAT
1 AAAATAAAAATAATAAAAAT
9758270 AAAATATAAAAT-ATAAAAAT
1 AAAATA-AAAATAATAAAAAT
* **
9758290 AAAATAAGAA-AATAGGAAT
1 AAAATAAAAATAATAAAAAT
*
9758309 CAAATAAAAA
1 AAAATAAAAA
9758319 AATCAAAGCA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
19 17 0.43
20 18 0.45
21 5 0.12
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.22
Consensus pattern (20 bp):
AAAATAAAAATAATAAAAAT
Found at i:9758301 original size:28 final size:28
Alignment explanation
Indices: 9758242--9758303 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
9758232 GCAATATATT
* *
9758242 AAAATATAAAAATAAAAATAATATTAAT
1 AAAATATAAAAATAAAAATAATAATAAG
9758270 AAAATATAAAATATAAAAATAA-AATAAG
1 AAAATATAAAA-ATAAAAATAATAATAAG
9758298 AAAATA
1 AAAATA
9758304 GGAATCAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 21 0.68
29 10 0.32
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (28 bp):
AAAATATAAAAATAAAAATAATAATAAG
Found at i:9758303 original size:13 final size:13
Alignment explanation
Indices: 9758241--9758295 Score: 58
Period size: 13 Copynumber: 4.0 Consensus size: 13
9758231 TGCAATATAT
9758241 TAAAATATAAAA-A
1 TAAAA-ATAAAATA
*
9758254 TAAAAATAATATTAA
1 TAAAAATAA-AAT-A
9758269 TAAAATATAAAATA
1 TAAAA-ATAAAATA
9758283 TAAAAATAAAATA
1 TAAAAATAAAATA
9758296 AGAAAATAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
12 4 0.11
13 14 0.39
14 6 0.17
15 8 0.22
16 4 0.11
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
TAAAAATAAAATA
Found at i:9759942 original size:28 final size:28
Alignment explanation
Indices: 9759873--9759942 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
9759863 CACAAAAAAG
*
9759873 TCAAGATTCGCAAATGTTTGCAAGAATT
1 TCAAGTTTCGCAAATGTTTGCAAGAATT
* * *
9759901 CCATGTTTCACAAATGTTTGCAAGAATT
1 TCAAGTTTCGCAAATGTTTGCAAGAATT
*
9759929 TCAAGTTTTGCAAA
1 TCAAGTTTCGCAAA
9759943 GATTTGAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (28 bp):
TCAAGTTTCGCAAATGTTTGCAAGAATT
Found at i:9760028 original size:34 final size:35
Alignment explanation
Indices: 9759988--9760061 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
9759978 GAGATTCCAG
* *
9759988 ATTCATAAAA-TTTGAAGTTTCGTAAAGGTTCTAA
1 ATTCATAAAACTTTCAAGTTTCGCAAAGGTTCTAA
* *
9760022 ATTCATAAAACTTTCAAGTTTTGCAAAGGTTCTAG
1 ATTCATAAAACTTTCAAGTTTCGCAAAGGTTCTAA
9760057 ATTCA
1 ATTCA
9760062 CAAAGGTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
34 10 0.29
35 25 0.71
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (35 bp):
ATTCATAAAACTTTCAAGTTTCGCAAAGGTTCTAA
Found at i:9760237 original size:51 final size:51
Alignment explanation
Indices: 9760134--9760237 Score: 129
Period size: 51 Copynumber: 2.0 Consensus size: 51
9760124 GATTCAGAGG
** * * *
9760134 AACTTCAGATTTGCAAGAGCTTCAATTTCACAAGAATGAAATACTTCTAAA
1 AACTTCAGATTCACAAGAACTTCAATTTCACAAGAATGAAATAATTCCAAA
**
9760185 AACTTCAGATTCACAAGAACTTCAATTTTGCAAGAATGAAA-AATTCACAAA
1 AACTTCAGATTCACAAGAACTTCAATTTCACAAGAATGAAATAATTC-CAAA
9760236 AA
1 AA
9760238 TTTAAATTTG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
50 4 0.09
51 41 0.91
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.27
Consensus pattern (51 bp):
AACTTCAGATTCACAAGAACTTCAATTTCACAAGAATGAAATAATTCCAAA
Found at i:9760279 original size:34 final size:33
Alignment explanation
Indices: 9760181--9760281 Score: 96
Period size: 34 Copynumber: 3.0 Consensus size: 33
9760171 GAAATACTTC
* *
9760181 TAAAAACTTCAGATTCACAAGAACTTCAATTTTG
1 TAAAAA-TTCAGATTCACAAGAATTTCAAATTTG
* * ** * *
9760215 CAAGAATGAAAAATTCACAAAAATTT-AAATTTG
1 TAAAAAT-TCAGATTCACAAGAATTTCAAATTTG
9760248 TAAAAATTCAGATTCACAAGAATTTTCAAATTTG
1 TAAAAATTCAGATTCACAAGAA-TTTCAAATTTG
9760282 CAAGAATTTC
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
32 11 0.22
33 15 0.30
34 24 0.48
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.32
Consensus pattern (33 bp):
TAAAAATTCAGATTCACAAGAATTTCAAATTTG
Found at i:9760293 original size:17 final size:17
Alignment explanation
Indices: 9760198--9760293 Score: 52
Period size: 17 Copynumber: 5.7 Consensus size: 17
9760188 TTCAGATTCA
* *
9760198 CAAGAACTTCAATTTTG
1 CAAGAATTTCAAATTTG
*** **
9760215 CAAGAATGAAAAATTCA
1 CAAGAATTTCAAATTTG
*
9760232 CAAAAATTT-AAATTTG
1 CAAGAATTTCAAATTTG
* * * **
9760248 TAA-AAATTCAGATTCA
1 CAAGAATTTCAAATTTG
9760264 CAAGAATTTTCAAATTTG
1 CAAGAA-TTTCAAATTTG
9760282 CAAGAATTTCAA
1 CAAGAATTTCAA
9760294 TTTCGTAAAA
Statistics
Matches: 54, Mismatches: 22, Indels: 6
0.66 0.27 0.07
Matches are distributed among these distances:
15 4 0.07
16 13 0.24
17 24 0.44
18 13 0.24
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.31
Consensus pattern (17 bp):
CAAGAATTTCAAATTTG
Found at i:9760345 original size:35 final size:35
Alignment explanation
Indices: 9760306--9760385 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 35
9760296 TCGTAAAAAT
* * *
9760306 TCAAAGATTCTCAAG-CTTTTCAAATTCTCAAGAGC
1 TCAAAGATTCACAAGAC-TTTCAAATTCACAAGAAC
* *
9760341 TCAAAGTTTCACAAGACTTTCAGATTCACAAGAAC
1 TCAAAGATTCACAAGACTTTCAAATTCACAAGAAC
*
9760376 TCAAAAATTC
1 TCAAAGATTC
9760386 GTAAGAGTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
35 36 0.97
36 1 0.03
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (35 bp):
TCAAAGATTCACAAGACTTTCAAATTCACAAGAAC
Found at i:9766952 original size:14 final size:14
Alignment explanation
Indices: 9766935--9766981 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
9766925 ATAAGAAACT
9766935 AAAAATCAAAC-AA
1 AAAAATCAAACAAA
*
9766948 AAAAATTAAAGCAAA
1 AAAAATCAAA-CAAA
9766963 AAAAATCAAA-AAA
1 AAAAATCAAACAAA
9766976 AGAAAA
1 A-AAAA
9766982 GGAAAAACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 13 0.45
14 5 0.17
15 11 0.38
ACGTcount: A:0.79, C:0.09, G:0.04, T:0.09
Consensus pattern (14 bp):
AAAAATCAAACAAA
Found at i:9767478 original size:20 final size:20
Alignment explanation
Indices: 9767453--9767497 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
9767443 AAACCTATAT
9767453 TTCAAATGCAAA-CCCAAAAA
1 TTCAAAT-CAAATCCCAAAAA
*
9767473 TTCAAATTAAATCCCAAAAA
1 TTCAAATCAAATCCCAAAAA
9767493 TTCAA
1 TTCAA
9767498 GCTAAAACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.53, C:0.22, G:0.02, T:0.22
Consensus pattern (20 bp):
TTCAAATCAAATCCCAAAAA
Found at i:9767503 original size:20 final size:20
Alignment explanation
Indices: 9767465--9767503 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9767455 CAAATGCAAA
*
9767465 CCCAAAAATTCAAATTAAAT
1 CCCAAAAATTCAAACTAAAT
*
9767485 CCCAAAAATTCAAGCTAAA
1 CCCAAAAATTCAAACTAAA
9767504 ACTAAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.23, G:0.03, T:0.21
Consensus pattern (20 bp):
CCCAAAAATTCAAACTAAAT
Found at i:9771376 original size:3 final size:3
Alignment explanation
Indices: 9771368--9771423 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
9771358 ATATAAAGGT
9771368 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9771416 TTA -TA TTA
1 TTA TTA TTA
9771424 ATGCCAAAAC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 50 0.96
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:9784224 original size:238 final size:238
Alignment explanation
Indices: 9783792--9784240 Score: 647
Period size: 238 Copynumber: 1.9 Consensus size: 238
9783782 AGTTTTACCA
* * * * *
9783792 AAAATTATAATGAAATTTTTTAAGCAGTTTGAATTTTTGTATAATGTTTTCAATTAATATGCTGA
1 AAAATTATAATGAAATTATTTAAGCAATTTGAATCTTTGTATAATGTTTCCAATTAATATACTGA
9783857 GCTTAAGAGATTTATAAAGTAGACTTACAAACTTTTACATTGAATTTTATACAGCTTCCTTTCAA
66 GCTTAAGAGATTTATAAAGTAGACTTACAAACTTTTACATTGAATTTTATACAGCTTCCTTTCAA
* * * * *
9783922 CAACTTCAAACAAAGCTTTTATTTGCTTCTGTAAGTTGATAAAATCATGTATTAATTTTTGTTGC
131 CAACTTCAAACAAAGCTTCTATTTGATTCTGTAAGTTGATAAAATCATATATTAACTATTGTTGC
*
9783987 AAATTATGATGCTTTTAGTCAATTATCTCTTCAGTGTTTATTG
196 AAATAATGATGCTTTTAGTCAATTATCTCTTCAGTGTTTATTG
*
9784030 AAAATTATAATGAAATTATTTAAGCAATTT-AACTCTTTGTATAATGTTTCCAGTTAAGT-TACT
1 AAAATTATAATGAAATTATTTAAGCAATTTGAA-TCTTTGTATAATGTTTCCAATTAA-TATACT
* * *
9784093 GAGCTTATGAGATTTATAAAGTGGACTTACAAAC-TTTACATTGAATTTTATGCAGCTTCC-TTC
64 GAGCTTAAGAGATTTATAAAGTAGACTTACAAACTTTTACATTGAATTTTATACAGCTTCCTTTC
* * *
9784156 AAGCAACTTCAAACCAAGGCTTCTATTTTATTCTGTAAGTTGATGAAATC-TAATATTAACTATT
129 AA-CAACTTCAAA-CAAAGCTTCTATTTGATTCTGTAAGTTGATAAAATCAT-ATATTAACTATT
*
9784220 GTTGCAAATAATGATTCTTTT
191 GTTGCAAATAATGATGCTTTT
9784241 CCTATGATAA
Statistics
Matches: 187, Mismatches: 19, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
236 5 0.03
237 38 0.20
238 143 0.76
239 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (238 bp):
AAAATTATAATGAAATTATTTAAGCAATTTGAATCTTTGTATAATGTTTCCAATTAATATACTGA
GCTTAAGAGATTTATAAAGTAGACTTACAAACTTTTACATTGAATTTTATACAGCTTCCTTTCAA
CAACTTCAAACAAAGCTTCTATTTGATTCTGTAAGTTGATAAAATCATATATTAACTATTGTTGC
AAATAATGATGCTTTTAGTCAATTATCTCTTCAGTGTTTATTG
Found at i:9784872 original size:91 final size:91
Alignment explanation
Indices: 9784690--9784873 Score: 278
Period size: 91 Copynumber: 2.0 Consensus size: 91
9784680 TTTAAAATAG
* * * *
9784690 AATCTTAGTTTGCTTGATGGAAATTTTTTAAAAATCATTTGTAAGCAACTAACCTATTAGACATC
1 AATCCTAGCTTGCTTGATGAAAATTTTTTAAAAATCATTTGTAAGCAACCAACCTATTAGACATC
* *
9784755 TTTCACCTGTTTGACCAACTACTCAA
66 TTTCACCTATTTAACCAACTACTCAA
* *
9784781 AATCCTAGCTTGCTTGATGAAAATTTTTTAAAATTCATTTGTAGGCAACCAACCTATTAGACATC
1 AATCCTAGCTTGCTTGATGAAAATTTTTTAAAAATCATTTGTAAGCAACCAACCTATTAGACATC
* *
9784846 TTTCACCTATTTAACCAGCTATTCAA
66 TTTCACCTATTTAACCAACTACTCAA
9784872 AA
1 AA
9784874 AACCAACATC
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
91 83 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (91 bp):
AATCCTAGCTTGCTTGATGAAAATTTTTTAAAAATCATTTGTAAGCAACCAACCTATTAGACATC
TTTCACCTATTTAACCAACTACTCAA
Found at i:9785682 original size:90 final size:90
Alignment explanation
Indices: 9785529--9785709 Score: 353
Period size: 90 Copynumber: 2.0 Consensus size: 90
9785519 TACTGAAGTT
9785529 GTTAAAGTTTTCATAATGGCTAAAGATAGATCTATTAAGTCAAAAGTATTTAATATTAGATTGAT
1 GTTAAAGTTTTCATAATGGCTAAAGATAGATCTATTAAGTCAAAAGTATTTAATATTAGATTGAT
9785594 ACTATTAGGGAACAGATTTGATCAA
66 ACTATTAGGGAACAGATTTGATCAA
*
9785619 GTTAAAGTTTTCATAATGGCTAAAGATAGATCTATTAATTCAAAAGTATTTAATATTAGATTGAT
1 GTTAAAGTTTTCATAATGGCTAAAGATAGATCTATTAAGTCAAAAGTATTTAATATTAGATTGAT
9785684 ACTATTAGGGAACAGATTTGATCAA
66 ACTATTAGGGAACAGATTTGATCAA
9785709 G
1 G
9785710 ATAGAACTTA
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 90 1.00
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.36
Consensus pattern (90 bp):
GTTAAAGTTTTCATAATGGCTAAAGATAGATCTATTAAGTCAAAAGTATTTAATATTAGATTGAT
ACTATTAGGGAACAGATTTGATCAA
Found at i:9789562 original size:54 final size:53
Alignment explanation
Indices: 9789498--9789608 Score: 204
Period size: 54 Copynumber: 2.1 Consensus size: 53
9789488 ATTTTTTCTT
*
9789498 TATAGACAATTATTTACTATTTTGTTATATTTCCATTATTTCACAATAATTCCC
1 TATAGACAATTATTTACTATTTTGTTATATTCCCATTATTT-ACAATAATTCCC
9789552 TATAGACAATTATTTACTATTTTGTTATATTCCCATTATTTACAATAATTCCC
1 TATAGACAATTATTTACTATTTTGTTATATTCCCATTATTTACAATAATTCCC
9789605 TATA
1 TATA
9789609 AATATGCATG
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
53 16 0.29
54 40 0.71
ACGTcount: A:0.32, C:0.16, G:0.04, T:0.48
Consensus pattern (53 bp):
TATAGACAATTATTTACTATTTTGTTATATTCCCATTATTTACAATAATTCCC
Found at i:9795631 original size:6 final size:6
Alignment explanation
Indices: 9795603--9795709 Score: 133
Period size: 6 Copynumber: 17.5 Consensus size: 6
9795593 AAAAGCCCAA
* *
9795603 AATTTT CAATTTT GATCTTT AATTTT AATTTT AATTTT GATTTT AATTTT
1 AATTTT -AATTTT AAT-TTT AATTTT AATTTT AATTTT AATTTT AATTTT
* * * * *
9795653 GATTTT AATTTT AATTTT GATTGT GATTTT ACTTTT AATTTT AATTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT
9795701 AATTTT AAT
1 AATTTT AAT
9795710 GTTGTTTTGT
Statistics
Matches: 87, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
6 76 0.87
7 11 0.13
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.64
Consensus pattern (6 bp):
AATTTT
Found at i:9796316 original size:19 final size:18
Alignment explanation
Indices: 9796294--9796341 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
9796284 AAATCTTAGA
9796294 TTGATTTTTG-ATTTCGAGT
1 TTGATTTTTGAATTT-G-GT
9796313 TTGATTTTTGCAATTTGGT
1 TTGATTTTTG-AATTTGGT
9796332 TTGATTTTTG
1 TTGATTTTTG
9796342 GGGCTTTGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 22 0.81
20 1 0.04
21 4 0.15
ACGTcount: A:0.15, C:0.04, G:0.21, T:0.60
Consensus pattern (18 bp):
TTGATTTTTGAATTTGGT
Found at i:9796833 original size:23 final size:24
Alignment explanation
Indices: 9796798--9796843 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
9796788 GCTTTTCTTT
9796798 TTTTGTTTTATTTTCAATTTTTTA
1 TTTTGTTTTATTTTCAATTTTTTA
**
9796822 TTTT-TTTTATTTTTTATTTTTT
1 TTTTGTTTTATTTTCAATTTTTT
9796844 GCTTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.83
Consensus pattern (24 bp):
TTTTGTTTTATTTTCAATTTTTTA
Found at i:9796849 original size:23 final size:22
Alignment explanation
Indices: 9796795--9796875 Score: 58
Period size: 23 Copynumber: 3.6 Consensus size: 22
9796785 TTGGCTTTTC
* **
9796795 TTTTT-TTGTTTTATTTTCAAT
1 TTTTTCTTTTTTTATTTTTTAT
*
9796816 TTTTTATTTTTTTTATTTTTTAT
1 TTTTT-CTTTTTTTATTTTTTAT
*
9796839 TTTTTGCTTTTTATTCATTTCTT-T
1 TTTTT-CTTTTT-TT-ATTTTTTAT
*
9796863 TATTTCTTTTTTT
1 TTTTTCTTTTTTT
9796876 CTTATTTTCT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
21 5 0.10
22 2 0.04
23 29 0.59
24 7 0.14
25 6 0.12
ACGTcount: A:0.11, C:0.06, G:0.02, T:0.80
Consensus pattern (22 bp):
TTTTTCTTTTTTTATTTTTTAT
Found at i:9796867 original size:9 final size:8
Alignment explanation
Indices: 9796815--9796883 Score: 52
Period size: 8 Copynumber: 8.4 Consensus size: 8
9796805 TTATTTTCAA
9796815 TTTTTTAT
1 TTTTTTAT
9796823 TTTTTT-T
1 TTTTTTAT
9796830 ATTTTTTAT
1 -TTTTTTAT
**
9796839 TTTTTGCT
1 TTTTTTAT
9796847 TTTTATTCAT
1 TTTT-TT-AT
9796857 TTCTTTTAT
1 TT-TTTTAT
*
9796866 TTCTTT-T
1 TTTTTTAT
*
9796873 TTTCTTAT
1 TTTTTTAT
9796881 TTT
1 TTT
9796884 CTTGTTTAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
7 6 0.12
8 29 0.60
9 6 0.12
10 5 0.10
11 2 0.04
ACGTcount: A:0.10, C:0.07, G:0.01, T:0.81
Consensus pattern (8 bp):
TTTTTTAT
Found at i:9796881 original size:42 final size:42
Alignment explanation
Indices: 9796796--9796890 Score: 113
Period size: 42 Copynumber: 2.2 Consensus size: 42
9796786 TGGCTTTTCT
* * *
9796796 TTTTTTGTTTTATTTTCAATTTTTTATTTTTTTTATTTTTTA
1 TTTTTTGTTTTATATTCAATTTTTTATTTCTTTTATTTCTTA
*
9796838 TTTTTTGCTTTT-TATTCATTTCTTTTATTTCTTTT-TTTCTTA
1 TTTTTTG-TTTTATATTCAATT-TTTTATTTCTTTTATTTCTTA
9796880 TTTTCTTGTTT
1 TTTT-TTGTTT
9796891 AATTGTAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
42 27 0.59
43 19 0.41
ACGTcount: A:0.11, C:0.07, G:0.03, T:0.79
Consensus pattern (42 bp):
TTTTTTGTTTTATATTCAATTTTTTATTTCTTTTATTTCTTA
Found at i:9796992 original size:20 final size:20
Alignment explanation
Indices: 9796969--9797011 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
9796959 GTTTTTTGTT
* *
9796969 TGACTAATATTACCTTTGCA
1 TGACTAATAATACATTTGCA
*
9796989 TGACTAATAATATATTTGCA
1 TGACTAATAATACATTTGCA
9797009 TGA
1 TGA
9797012 TTATTTATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.40
Consensus pattern (20 bp):
TGACTAATAATACATTTGCA
Found at i:9797033 original size:19 final size:19
Alignment explanation
Indices: 9797001--9797039 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
9796991 ACTAATAATA
*
9797001 TATTTGCATGATTATTTAT
1 TATTTACATGATTATTTAT
*
9797020 TATTTACATTATTATTTAT
1 TATTTACATGATTATTTAT
9797039 T
1 T
9797040 TGCATAACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TATTTACATGATTATTTAT
Found at i:9797148 original size:33 final size:33
Alignment explanation
Indices: 9797105--9797195 Score: 125
Period size: 33 Copynumber: 2.8 Consensus size: 33
9797095 TAGCATGATG
9797105 TTATTACATGATAATTCTTGCATG-TAATTTATA
1 TTATTACATGATAATTCTTGCATGAT-ATTTATA
* *
9797138 TTATTGCATGATAATTTTTGCATGATATTTATA
1 TTATTACATGATAATTCTTGCATGATATTTATA
9797171 TTATTACATGAT-A-TCTTTGCATGAT
1 TTATTACATGATAATTC-TTGCATGAT
9797196 TATTGGTATG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
31 1 0.02
32 10 0.19
33 40 0.77
34 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.49
Consensus pattern (33 bp):
TTATTACATGATAATTCTTGCATGATATTTATA
Found at i:9797182 original size:19 final size:19
Alignment explanation
Indices: 9797122--9797184 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
9797112 ATGATAATTC
9797122 TTGCATG-TAATTTATATTA
1 TTGCATGAT-ATTTATATTA
9797141 TTGCATGATA---AT-TT-
1 TTGCATGATATTTATATTA
9797155 TTGCATGATATTTATATTA
1 TTGCATGATATTTATATTA
*
9797174 TTACATGATAT
1 TTGCATGATAT
9797185 CTTTGCATGA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
14 10 0.27
15 2 0.05
16 2 0.05
17 2 0.05
18 2 0.05
19 18 0.49
20 1 0.03
ACGTcount: A:0.32, C:0.06, G:0.11, T:0.51
Consensus pattern (19 bp):
TTGCATGATATTTATATTA
Found at i:9803461 original size:23 final size:22
Alignment explanation
Indices: 9803435--9803503 Score: 61
Period size: 21 Copynumber: 3.1 Consensus size: 22
9803425 AATTAAAATT
*
9803435 AAAAAGTCTTAAAAAATCAAAAGA
1 AAAAAGTC-TAAAAAAT-AAAAAA
*
9803459 AAATA-TCTAAAAAATAAAAAA
1 AAAAAGTCTAAAAAATAAAAAA
* * *
9803480 AAAAAG-ATAAAAAGTAAAGAA
1 AAAAAGTCTAAAAAATAAAAAA
9803501 AAA
1 AAA
9803504 GGTTTTTAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
21 24 0.63
22 8 0.21
23 2 0.05
24 4 0.11
ACGTcount: A:0.74, C:0.04, G:0.07, T:0.14
Consensus pattern (22 bp):
AAAAAGTCTAAAAAATAAAAAA
Found at i:9803748 original size:22 final size:22
Alignment explanation
Indices: 9803718--9803765 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
9803708 ATTACTTTAA
9803718 TTTTCAAAAAACAAATTTCAAT
1 TTTTCAAAAAACAAATTTCAAT
* * **
9803740 TTTTTAAAAAATAGTTTTCAAT
1 TTTTCAAAAAACAAATTTCAAT
9803762 TTTT
1 TTTT
9803766 ATAATTTATC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTTCAAAAAACAAATTTCAAT
Found at i:9804070 original size:23 final size:23
Alignment explanation
Indices: 9804035--9804080 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
9804025 AAATAACTAA
* * *
9804035 AATATTGAGAAATTTTTAAATTT
1 AATATTGAAAAATATATAAATTT
*
9804058 AATATTTAAAAATATATAAATTT
1 AATATTGAAAAATATATAAATTT
9804081 TCCTAAATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (23 bp):
AATATTGAAAAATATATAAATTT
Done.