Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, 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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 81 of 120
Found at i:10420494 original size:17 final size:17
Alignment explanation
Indices: 10420462--10420495 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10420452 CATAATTGTC
**
10420462 TATTTATTTGTTTATTT
1 TATTTATTTGACTATTT
10420479 TATTTATTTGACTATTT
1 TATTTATTTGACTATTT
10420496 ATGTCTAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.71
Consensus pattern (17 bp):
TATTTATTTGACTATTT
Found at i:10426062 original size:1 final size:1
Alignment explanation
Indices: 10426056--10426082 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
10426046 ACCCTCTGCG
10426056 CCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCC
10426083 AAAAAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:10426487 original size:2 final size:2
Alignment explanation
Indices: 10426480--10426507 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10426470 TCAACAAATT
10426480 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
10426508 AGTGGACACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10428407 original size:2 final size:2
Alignment explanation
Indices: 10428402--10428438 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10428392 GATGGTGGGC
10428402 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
10428439 TAACAAAAGT
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:10430296 original size:84 final size:83
Alignment explanation
Indices: 10430162--10430341 Score: 227
Period size: 84 Copynumber: 2.1 Consensus size: 83
10430152 ATTTTAATAA
* * * * *
10430162 ATAATTTTTATACTATAATAATAATAAATATTAATAATTTAATTTTTATTTTGGTATACCATAAG
1 ATAATTTTAATA--ATAACAATAATAAATACTAACAATTTAATTTGTATTTT-GTATACCATAAG
*
10430227 TAAAATTTAATAA-TTTCTTAT
63 TAAAATTTAATAACTTT-TTAC
* * *
10430248 ATACTTTTAATAATAACAATAATAAATACTAACAATTTAATTTGTATTTTTTATACTATAAGTAA
1 ATAATTTTAATAATAACAATAATAAATACTAACAATTTAATTTGTATTTTGTATACCATAAGTAA
*
10430313 AATTTGATAACTTTTTAC
66 AATTTAATAACTTTTTAC
10430331 ATAATTTTAAT
1 ATAATTTTAAT
10430342 TTTTATAACT
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
83 35 0.43
84 37 0.45
86 10 0.12
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.47
Consensus pattern (83 bp):
ATAATTTTAATAATAACAATAATAAATACTAACAATTTAATTTGTATTTTGTATACCATAAGTAA
AATTTAATAACTTTTTAC
Found at i:10430384 original size:21 final size:22
Alignment explanation
Indices: 10430360--10430401 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
10430350 CTCTTAATAA
10430360 AATTTTGATAA-CCTTTGATAC
1 AATTTTGATAATCCTTTGATAC
10430381 AATTTTGATAATCCTTTGATA
1 AATTTTGATAATCCTTTGATA
10430402 ATTTACGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (22 bp):
AATTTTGATAATCCTTTGATAC
Found at i:10430411 original size:21 final size:20
Alignment explanation
Indices: 10430359--10430411 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
10430349 ACTCTTAATA
*
10430359 AAATTTTGATAACCTTTGAT
1 AAATTTCGATAACCTTTGAT
*
10430379 ACAATTTTGATAATCCTTTGAT
1 A-AATTTCGATAA-CCTTTGAT
10430401 -AATTTACGATA
1 AAATTT-CGATA
10430412 TTATTTTGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 6 0.21
21 15 0.52
22 8 0.28
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.43
Consensus pattern (20 bp):
AAATTTCGATAACCTTTGAT
Found at i:10430419 original size:21 final size:22
Alignment explanation
Indices: 10430395--10430447 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
10430385 TTGATAATCC
* *
10430395 TTTGATAATTTAC-GATATTAT
1 TTTGATAATTTACTAATATAAT
* *
10430416 TTTGGTAA-GTACTAATATAAT
1 TTTGATAATTTACTAATATAAT
10430437 TTTGATAATTT
1 TTTGATAATTT
10430448 TTTTATAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
20 3 0.12
21 20 0.83
22 1 0.04
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.51
Consensus pattern (22 bp):
TTTGATAATTTACTAATATAAT
Found at i:10430843 original size:22 final size:22
Alignment explanation
Indices: 10430779--10431054 Score: 137
Period size: 22 Copynumber: 12.5 Consensus size: 22
10430769 AAAATTTGTT
* * *
10430779 AATGATTGACAATTAAATTATT
1 AATGATTTACTATTAAATTATC
* * * **
10430801 ATTGATTTAATACTATTTTATC
1 AATGATTTACTATTAAATTATC
*
10430823 AATGATTTACTATTAAGTTATC
1 AATGATTTACTATTAAATTATC
* ** *
10430845 AATAAAATACTACTAAATTATC
1 AATGATTTACTATTAAATTATC
* * * *
10430867 AATTATTTACTATCAAACTAAC
1 AATGATTTACTATTAAATTATC
* ** * *
10430889 ATTGAAGTACTACT-AATTCATG
1 AATGATTTACTATTAAATT-ATC
* * *
10430911 AATGATTTACTACTAAGTTATG
1 AATGATTTACTATTAAATTATC
* * *
10430933 AACGATTTACTAATAAATTATT
1 AATGATTTACTATTAAATTATC
* *
10430955 AATGATTTACTATTAAATTTTT
1 AATGATTTACTATTAAATTATC
* *
10430977 GATGATTTATTA-TAAAGTTAT-
1 AATGATTTACTATTAAA-TTATC
* *
10430998 AACTGATTTGCTATTAATTTATC
1 AA-TGATTTACTATTAAATTATC
* * *
10431021 GATAATTTACTA-CAAAGTTATC
1 AATGATTTACTATTAAA-TTATC
* *
10431043 AATTATTAACTA
1 AATGATTTACTA
10431055 ATTTATTACA
Statistics
Matches: 187, Mismatches: 60, Indels: 14
0.72 0.23 0.05
Matches are distributed among these distances:
21 10 0.05
22 170 0.91
23 7 0.04
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (22 bp):
AATGATTTACTATTAAATTATC
Found at i:10431078 original size:22 final size:22
Alignment explanation
Indices: 10431051--10431107 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
10431041 TCAATTATTA
**
10431051 ACTAATTTATTACAAAATTATC
1 ACTAATTTACAACAAAATTATC
*
10431073 ACTAATTTACAACTAAATTATC
1 ACTAATTTACAACAAAATTATC
*
10431095 ATTAATTTACAAC
1 ACTAATTTACAAC
10431108 TAAGTTATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.46, C:0.16, G:0.00, T:0.39
Consensus pattern (22 bp):
ACTAATTTACAACAAAATTATC
Found at i:10431108 original size:22 final size:22
Alignment explanation
Indices: 10431065--10431136 Score: 90
Period size: 22 Copynumber: 3.3 Consensus size: 22
10431055 ATTTATTACA
*
10431065 AAATTATCACTAATTTACAACT
1 AAATTATCATTAATTTACAACT
10431087 AAATTATCATTAATTTACAACT
1 AAATTATCATTAATTTACAACT
* * ** *
10431109 AAGTTATTATTGGTTTACTACT
1 AAATTATCATTAATTTACAACT
10431131 AAATTA
1 AAATTA
10431137 CTAATAATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (22 bp):
AAATTATCATTAATTTACAACT
Found at i:10431595 original size:22 final size:22
Alignment explanation
Indices: 10431514--10431806 Score: 100
Period size: 22 Copynumber: 13.2 Consensus size: 22
10431504 TATTACCAAG
* *
10431514 TTATCACTAATTTA-TATTAAA
1 TTATCAATGATTTACTATTAAA
*
10431535 TTAT-ACATGATTTATTATTAAA
1 TTATCA-ATGATTTACTATTAAA
* * *
10431557 TTATCATTGATTAACTATTGAA
1 TTATCAATGATTTACTATTAAA
10431579 TTATCAATGATTTACTAATACTAAA
1 TTATCAATGATTTACT-AT--TAAA
* * * *
10431604 TTAT-ATTAATTTACTTTTAAG
1 TTATCAATGATTTACTATTAAA
* * *
10431625 TTTTCAATGATTTACTACTAAG
1 TTATCAATGATTTACTATTAAA
* * *
10431647 TTATTC-GTGATTTA-TGACTAAG
1 TTA-TCAATGATTTACT-ATTAAA
* *
10431669 TTAGTC-ATGATTTA-TGACTAAG
1 TTA-TCAATGATTTACT-ATTAAA
* * * *
10431691 TTCATTATTTAATTACTATTAAA
1 TT-ATCAATGATTTACTATTAAA
* * * *
10431714 TTA-AAATTAATTTACTATGAAG
1 TTATCAA-TGATTTACTATTAAA
* *
10431736 TTACCAGT-ATTTTACTATTAAA
1 TTATCAATGA-TTTACTATTAAA
* * * * **
10431758 TTGTCATTAATTTATTATTAGG
1 TTATCAATGATTTACTATTAAA
* *
10431780 TTATCAATGATTAACTATTAAG
1 TTATCAATGATTTACTATTAAA
10431802 TTATC
1 TTATC
10431807 TCTTAATCAT
Statistics
Matches: 206, Mismatches: 50, Indels: 31
0.72 0.17 0.11
Matches are distributed among these distances:
20 1 0.00
21 19 0.09
22 149 0.72
23 20 0.10
24 10 0.05
25 7 0.03
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.47
Consensus pattern (22 bp):
TTATCAATGATTTACTATTAAA
Found at i:10432348 original size:13 final size:13
Alignment explanation
Indices: 10432330--10432354 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10432320 TGCAAATATT
10432330 AAGAGAAAAAAAA
1 AAGAGAAAAAAAA
10432343 AAGAGAAAAAAA
1 AAGAGAAAAAAA
10432355 TTAACCTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAGAGAAAAAAAA
Found at i:10432873 original size:22 final size:22
Alignment explanation
Indices: 10432848--10433042 Score: 117
Period size: 22 Copynumber: 8.9 Consensus size: 22
10432838 ATGGTTAACA
* *
10432848 ATTAAGTTATCAATAATTTATT
1 ATTAAATTATCAATGATTTATT
* * *
10432870 ATTAAACTATCAGTGATTTATA
1 ATTAAATTATCAATGATTTATT
*
10432892 ACTAAATTATCAATGATTTATT
1 ATTAAATTATCAATGATTTATT
* * * **
10432914 ACTAATTTATGAATGATTTGCT
1 ATTAAATTATCAATGATTTATT
* * *
10432936 ATTAAGTTATGAACGATTT-TT
1 ATTAAATTATCAATGATTTATT
* ** *
10432957 ATTAAATTGTTGATGATTTATC
1 ATTAAATTATCAATGATTTATT
* ** *
10432979 ACTAAATTATTGATGATTAATT
1 ATTAAATTATCAATGATTTATT
* *
10433001 A-TAAATTTAT-AACTAATTTAGT
1 ATTAAA-TTATCAA-TGATTTATT
* *
10433023 ACTAATTTATCAATGATTTA
1 ATTAAATTATCAATGATTTA
10433043 CTAAACAGTT
Statistics
Matches: 135, Mismatches: 33, Indels: 10
0.76 0.19 0.06
Matches are distributed among these distances:
21 20 0.15
22 110 0.81
23 5 0.04
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.46
Consensus pattern (22 bp):
ATTAAATTATCAATGATTTATT
Found at i:10432931 original size:44 final size:44
Alignment explanation
Indices: 10432854--10433042 Score: 140
Period size: 44 Copynumber: 4.3 Consensus size: 44
10432844 AACAATTAAG
* * * *
10432854 TTATCAATAATTTATTATTAAA-CTATCAGTGATTTATAACTAAA
1 TTATCAATGATTTATTATTAAATTTATGAATGATTTAT-ACTAAA
* * * *
10432898 TTATCAATGATTTATTACT-AATTTATGAATGATTTGCTATTAAG
1 TTATCAATGATTTATTATTAAATTTATGAATGATTT-ATACTAAA
* *
10432942 TTATGAACGATTT-TTATTAAATTGT-TG-ATGATTTATCACTAAA
1 TTATCAATGATTTATTATTAAATT-TATGAATGATTTAT-ACTAAA
** * * *
10432985 TTATTGATGATTAATTA-TAAATTTAT-AACTAATTTAGTACTAAT
1 TTATCAATGATTTATTATTAAATTTATGAA-TGATTTA-TACTAAA
10433029 TTATCAATGATTTA
1 TTATCAATGATTTA
10433043 CTAAACAGTT
Statistics
Matches: 112, Mismatches: 23, Indels: 20
0.72 0.15 0.13
Matches are distributed among these distances:
42 2 0.02
43 34 0.30
44 73 0.65
45 3 0.03
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.47
Consensus pattern (44 bp):
TTATCAATGATTTATTATTAAATTTATGAATGATTTATACTAAA
Found at i:10433041 original size:87 final size:87
Alignment explanation
Indices: 10432883--10433041 Score: 189
Period size: 87 Copynumber: 1.8 Consensus size: 87
10432873 AAACTATCAG
* * * *
10432883 TGATTTATAACTAAATTATCAATGATTTATTACTAATTTATGAATGATTTGCTATTAAGTTATGA
1 TGATTTATAACTAAATTATCAATGATTAATTACTAATTTATGAATAATTTGCTACTAAGTTATCA
10432948 ACGATTTTTATTAAATTGTTGA
66 ACGATTTTTATTAAATTGTTGA
* ** *
10432970 TGATTTATCACTAAATTATTGATGATTAATTA-TAAATTTAT-AACTAATTTAG-TACTAATTTA
1 TGATTTATAACTAAATTATCAATGATTAATTACT-AATTTATGAA-TAATTT-GCTACTAAGTTA
*
10433032 TCAATGATTT
63 TCAACGATTT
10433042 ACTAAACAGT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
86 3 0.05
87 56 0.93
88 1 0.02
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.47
Consensus pattern (87 bp):
TGATTTATAACTAAATTATCAATGATTAATTACTAATTTATGAATAATTTGCTACTAAGTTATCA
ACGATTTTTATTAAATTGTTGA
Found at i:10433179 original size:22 final size:22
Alignment explanation
Indices: 10433148--10433440 Score: 154
Period size: 22 Copynumber: 13.5 Consensus size: 22
10433138 TCAATTATCA
* *
10433148 ATTTAGTATTAAATTATCAATG
1 ATTTACTATTAAATTATTAATG
* *
10433170 ATTTACTATTATATTTTTATAT-
1 ATTTACTATTAAATTATTA-ATG
* **
10433192 ATTTACTACTATGTTA-TAATTG
1 ATTTACTATTAAATTATTAA-TG
* * *
10433214 ATTTACTACTT-AATTTTTGATT
1 ATTTACTA-TTAAATTATTAATG
* ** * *
10433236 ATTTACCACAAAATTATTATTT
1 ATTTACTATTAAATTATTAATG
* * *
10433258 ATTT-GTCACTAAATTACT-ATG
1 ATTTACT-ATTAAATTATTAATG
* ** *
10433279 ATTCACTACAAAATTATTACTG
1 ATTTACTATTAAATTATTAATG
10433301 ATTTA-TATTAAATTA-TACATG
1 ATTTACTATTAAATTATTA-ATG
* **
10433322 ATTTACTATTAAGTTATCGATG
1 ATTTACTATTAAATTATTAATG
* *
10433344 ATTTACTACTAAATTA-TACTG
1 ATTTACTATTAAATTATTAATG
* *
10433365 ATTTACTTTTAAATT-TTCATG
1 ATTTACTATTAAATTATTAATG
* * * * *
10433386 ATTAATTACTAAGTTATTTATG
1 ATTTACTATTAAATTATTAATG
* *
10433408 ATTTACTATTAAGTTATTTATG
1 ATTTACTATTAAATTATTAATG
10433430 ATTTACTATTA
1 ATTTACTATTA
10433441 TTAATTAATT
Statistics
Matches: 202, Mismatches: 55, Indels: 28
0.71 0.19 0.10
Matches are distributed among these distances:
20 3 0.01
21 59 0.29
22 135 0.67
23 5 0.02
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.49
Consensus pattern (22 bp):
ATTTACTATTAAATTATTAATG
Found at i:10433356 original size:86 final size:86
Alignment explanation
Indices: 10433265--10433437 Score: 199
Period size: 86 Copynumber: 2.0 Consensus size: 86
10433255 TTTATTTGTC
* *
10433265 ACTAAATTACTA-TGATTCACTACAAAATTATT-ACTGATTTA-TATTAAATTATACATGATTTA
1 ACTAAATTA-TACTGATTCACTACAAAATT-TTCA-TGATTAATTACTAAATTATACATGATTTA
10433327 CTATTAAGTTATCGATGATTTACT
63 CTATTAAGTTATCGATGATTTACT
* *** * **
10433351 ACTAAATTATACTGATTTACTTTTAAATTTTCATGATTAATTACTAAGTTATTTATGATTTACTA
1 ACTAAATTATACTGATTCACTACAAAATTTTCATGATTAATTACTAAATTATACATGATTTACTA
**
10433416 TTAAGTTATTTATGATTTACT
66 TTAAGTTATCGATGATTTACT
10433437 A
1 A
10433438 TTATTAATTA
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
85 10 0.14
86 63 0.86
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (86 bp):
ACTAAATTATACTGATTCACTACAAAATTTTCATGATTAATTACTAAATTATACATGATTTACTA
TTAAGTTATCGATGATTTACT
Found at i:10433399 original size:64 final size:64
Alignment explanation
Indices: 10433276--10433424 Score: 174
Period size: 64 Copynumber: 2.3 Consensus size: 64
10433266 CTAAATTACT
* * * *
10433276 ATGATTCACTACAAAATTATTACTGATTTATATTAAATTATACATGATTTACTATTAAGTTATCG
1 ATGATTTACTACTAAATTA-TACTGATTTATATTAAATTATACATGATTAACTACTAAGTTATCG
* * * **
10433341 ATGATTTACTACTAAATTATACTGATTTACTTTTAAATT-TTCATGATTAATTACTAAGTTATTT
1 ATGATTTACTACTAAATTATACTGATTTA-TATTAAATTATACATGATTAACTACTAAGTTATCG
* *
10433405 ATGATTTACTATTAAGTTAT
1 ATGATTTACTACTAAATTAT
10433425 TTATGATTTA
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
64 47 0.65
65 25 0.35
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.47
Consensus pattern (64 bp):
ATGATTTACTACTAAATTATACTGATTTATATTAAATTATACATGATTAACTACTAAGTTATCG
Found at i:10433522 original size:19 final size:18
Alignment explanation
Indices: 10433498--10433539 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
10433488 CATTAATTTA
10433498 TTATTA-AGATATCATTGAT
1 TTATTATAGA-ATCATTG-T
*
10433517 TTATTATAGAATTATTGT
1 TTATTATAGAATCATTGT
10433535 TTATT
1 TTATT
10433540 CTTGTTAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 12 0.57
20 3 0.14
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (18 bp):
TTATTATAGAATCATTGT
Found at i:10433727 original size:22 final size:22
Alignment explanation
Indices: 10433624--10433822 Score: 76
Period size: 22 Copynumber: 9.2 Consensus size: 22
10433614 GGTATTATGC
* * *
10433624 ATTTATTATTATA-TTATTATTG
1 ATTTATTACTA-AGTTATCATTA
**
10433646 ATTTATTAAAAAGTTATCAATT-
1 ATTTATTACTAAGTTATC-ATTA
* * * *
10433668 ATTAACTATTAAATTATCA-TA
1 ATTTATTACTAAGTTATCATTA
** *
10433689 TATTTATTTTTAGGTTATCATTA
1 -ATTTATTACTAAGTTATCATTA
*
10433712 ATTTATTACTAAGTTATCAATA
1 ATTTATTACTAAGTTATCATTA
* *
10433734 A-TTACTACTAAGTTAT-ATTG
1 ATTTATTACTAAGTTATCATTA
* *
10433754 A-TTA-CACTTAAGTTTTCAATT-
1 ATTTATTAC-TAAGTTATC-ATTA
* *
10433775 ATTAATTACTAAGTTAT--TAA
1 ATTTATTACTAAGTTATCATTA
* *
10433795 ATATCTATTACTATGTTATCATTG
1 AT-T-TATTACTAAGTTATCATTA
10433819 ATTT
1 ATTT
10433823 GTGTATATCC
Statistics
Matches: 132, Mismatches: 30, Indels: 30
0.69 0.16 0.16
Matches are distributed among these distances:
19 3 0.02
20 16 0.12
21 18 0.14
22 84 0.64
23 8 0.06
24 3 0.02
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.50
Consensus pattern (22 bp):
ATTTATTACTAAGTTATCATTA
Found at i:10434244 original size:26 final size:27
Alignment explanation
Indices: 10434215--10434266 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
10434205 ATATTTCTAT
*
10434215 TTTTAAGTATATA-ATAT-TGGTAAAAA
1 TTTTAA-TATATATATATATGATAAAAA
*
10434241 TTTTGATATATATATATATGATAAAA
1 TTTTAATATATATATATATGATAAAA
10434267 GTAATGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 6 0.27
26 9 0.41
27 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (27 bp):
TTTTAATATATATATATATGATAAAAA
Found at i:10435987 original size:17 final size:16
Alignment explanation
Indices: 10435965--10436008 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 16
10435955 AACTTTTCTT
10435965 TTATATGAAAATTTTTA
1 TTATAT-AAAATTTTTA
10435982 TTATATATAAATTTTTA
1 TTATATA-AAATTTTTA
10435999 TTATATAAAA
1 TTATATAAAA
10436009 ACATTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.15
17 22 0.85
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
TTATATAAAATTTTTA
Found at i:10437263 original size:16 final size:16
Alignment explanation
Indices: 10437242--10437273 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10437232 GCACTTTTTT
*
10437242 AATCTAATTATAAAAA
1 AATCTAATAATAAAAA
10437258 AATCTAATAATAAAAA
1 AATCTAATAATAAAAA
10437274 TGAAAATTCA
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:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (16 bp):
AATCTAATAATAAAAA
Found at i:10439216 original size:19 final size:19
Alignment explanation
Indices: 10439179--10439214 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
10439169 AAAACATTAC
10439179 AATAAAATGATAAATTATA
1 AATAAAATGATAAATTATA
10439198 AATAAAAT-AT-AATTATA
1 AATAAAATGATAAATTATA
10439215 TATGATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 2 0.12
19 8 0.47
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
AATAAAATGATAAATTATA
Found at i:10439225 original size:21 final size:21
Alignment explanation
Indices: 10439200--10439280 Score: 65
Period size: 21 Copynumber: 3.8 Consensus size: 21
10439190 AAATTATAAA
*
10439200 TAAAATATAATTA-TATATGAT
1 TAAAATATAAATATTAT-TGAT
*
10439221 TAAAAAATAAATATTATTGAT
1 TAAAATATAAATATTATTGAT
* * *
10439242 AAAAATATTAACTATTATTGAA
1 TAAAATA-TAAATATTATTGAT
* * *
10439264 GAAATTTTAAATATTAT
1 TAAAATATAAATATTAT
10439281 CGATAATTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
21 29 0.60
22 19 0.40
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.41
Consensus pattern (21 bp):
TAAAATATAAATATTATTGAT
Found at i:10439245 original size:19 final size:21
Alignment explanation
Indices: 10439201--10439262 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
10439191 AATTATAAAT
*
10439201 AAAATATAATTA-TATATGATTA
1 AAAATATAACTATTAT-TGA-TA
*
10439223 AAAA-ATAAATATTATTGATA
1 AAAATATAACTATTATTGATA
10439243 AAAATATTAACTATTATTGA
1 AAAATA-TAACTATTATTGA
10439263 AGAAATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 6 0.17
21 10 0.29
22 19 0.54
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (21 bp):
AAAATATAACTATTATTGATA
Found at i:10439260 original size:22 final size:22
Alignment explanation
Indices: 10439221--10439286 Score: 75
Period size: 21 Copynumber: 3.1 Consensus size: 22
10439211 TATATATGAT
10439221 TAAAAA-A-TAAATATTATTGA
1 TAAAAATATTAAATATTATTGA
*
10439241 TAAAAATATTAACTATTATTGA
1 TAAAAATATTAAATATTATTGA
* * *
10439263 -AGAAATTTTAAATATTATCGA
1 TAAAAATATTAAATATTATTGA
10439284 TAA
1 TAA
10439287 TTTTTTTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
20 6 0.16
21 18 0.49
22 13 0.35
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (22 bp):
TAAAAATATTAAATATTATTGA
Found at i:10440015 original size:27 final size:26
Alignment explanation
Indices: 10439980--10440041 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 26
10439970 TTAAATTTAT
10439980 TAATAATAAAA-TATAAATATACATATA
1 TAATAATAAAACTATAAATATA-A-ATA
*
10440007 TAATAATAAAACTTATAATTATAAATA
1 TAATAATAAAAC-TATAAATATAAATA
10440034 TAATAATA
1 TAATAATA
10440042 TTTAAATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 22 0.69
28 1 0.03
29 9 0.28
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (26 bp):
TAATAATAAAACTATAAATATAAATA
Found at i:10440057 original size:10 final size:9
Alignment explanation
Indices: 10440028--10440068 Score: 50
Period size: 8 Copynumber: 4.7 Consensus size: 9
10440018 CTTATAATTA
*
10440028 TAAATATAA
1 TAAATATAT
10440037 T-AATAT-T
1 TAAATATAT
10440044 TAAATATAT
1 TAAATATAT
10440053 GTAAATATAT
1 -TAAATATAT
10440063 TAAATA
1 TAAATA
10440069 ATTGATTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
7 1 0.04
8 10 0.36
9 8 0.29
10 9 0.32
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (9 bp):
TAAATATAT
Found at i:10440220 original size:21 final size:21
Alignment explanation
Indices: 10440194--10440242 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
10440184 TAAAAATCAC
* * *
10440194 AAAAATATAATTTTTTAAATA
1 AAAAATATAAATTTTAAAACA
10440215 AAAAAT-TAAATTTTAAAACA
1 AAAAATATAAATTTTAAAACA
10440235 ATAAAATA
1 A-AAAATA
10440243 AAGATATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAAATATAAATTTTAAAACA
Found at i:10440462 original size:2 final size:2
Alignment explanation
Indices: 10440455--10440490 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10440445 ATAATACTTG
10440455 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
10440491 CTTAAATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10441780 original size:15 final size:15
Alignment explanation
Indices: 10441744--10441796 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 15
10441734 GGGCAATCAA
* *
10441744 AATTAATTAATAATT
1 AATTAATTATTAAAT
*
10441759 GAATTAATTATTTAAT
1 -AATTAATTATTAAAT
10441775 AATTAA-TATTAAAT
1 AATTAATTATTAAAT
10441789 AATATAAT
1 AAT-TAAT
10441797 AATATTTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
14 10 0.32
15 9 0.29
16 12 0.39
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (15 bp):
AATTAATTATTAAAT
Found at i:10441975 original size:21 final size:22
Alignment explanation
Indices: 10441947--10442014 Score: 61
Period size: 21 Copynumber: 3.1 Consensus size: 22
10441937 TAATAGATAC
10441947 TTTCAATATA-AAATATAAATA
1 TTTCAATATATAAATATAAATA
* * *
10441968 TTTTAATA-ATAAATATTACTA
1 TTTCAATATATAAATATAAATA
*
10441989 TTTCAATATTAATAAAAAT-AATA
1 TTTCAATA-T-ATAAATATAAATA
10442012 TTT
1 TTT
10442015 TAAAAATAGT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 1 0.03
21 23 0.62
23 6 0.16
24 7 0.19
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
TTTCAATATATAAATATAAATA
Found at i:10442041 original size:44 final size:46
Alignment explanation
Indices: 10441954--10442042 Score: 112
Period size: 44 Copynumber: 2.0 Consensus size: 46
10441944 TACTTTCAAT
* * *
10441954 ATAAAATATAAATATTTTAATAATAAATATTACTATTTCAATATTA
1 ATAAAATATAAATATTTTAAAAATAAATAATACTATTTAAATATTA
*
10442000 ATAAAA-AT-AATATTTTAAAAAT-AGTAATACTATTTTAAATATT
1 ATAAAATATAAATATTTTAAAAATAAATAATACTA-TTTAAATATT
10442043 TTAAGATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
43 8 0.21
44 22 0.58
45 2 0.05
46 6 0.16
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (46 bp):
ATAAAATATAAATATTTTAAAAATAAATAATACTATTTAAATATTA
Found at i:10442135 original size:20 final size:19
Alignment explanation
Indices: 10442093--10442130 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
10442083 AGTATTGTTT
10442093 ATATTAATATAATATTTTA
1 ATATTAATATAATATTTTA
*
10442112 ATATTAA-ATATTATTTTA
1 ATATTAATATAATATTTTA
10442130 A
1 A
10442131 AATATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATTAATATAATATTTTA
Found at i:10442914 original size:60 final size:61
Alignment explanation
Indices: 10442805--10442920 Score: 153
Period size: 60 Copynumber: 1.9 Consensus size: 61
10442795 TGGAATACAA
* * * * *
10442805 GTTTAAGGATTTAATTGTTAATTTTTATTCTTTTGGCATTGAATAGATAAAAAAAACATAG
1 GTTTAAGGATTTAAATGTTAACTTTTATTCTTTCGGCACTAAATAGATAAAAAAAACATAG
* * *
10442866 GTTTAAGTA-TTAAATGTTAACTTTTATTCTTTCGGTACTAAATTGATAAAAAAAA
1 GTTTAAGGATTTAAATGTTAACTTTTATTCTTTCGGCACTAAATAGATAAAAAAAA
10442921 AAAATAGTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
60 39 0.83
61 8 0.17
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (61 bp):
GTTTAAGGATTTAAATGTTAACTTTTATTCTTTCGGCACTAAATAGATAAAAAAAACATAG
Found at i:10444804 original size:21 final size:21
Alignment explanation
Indices: 10444774--10444816 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
10444764 GAGACACGTC
* *
10444774 AGCGAGTGCCTGACCCAAGGG
1 AGCGAATGCCTGAACCAAGGG
10444795 AGCGAATGCCTGAACCAAGGG
1 AGCGAATGCCTGAACCAAGGG
10444816 A
1 A
10444817 AACCAGTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.26, G:0.35, T:0.09
Consensus pattern (21 bp):
AGCGAATGCCTGAACCAAGGG
Found at i:10447467 original size:2 final size:2
Alignment explanation
Indices: 10447460--10447487 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10447450 TCAACAAATT
10447460 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
10447488 AGTGGACACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10451248 original size:84 final size:83
Alignment explanation
Indices: 10451125--10451304 Score: 236
Period size: 84 Copynumber: 2.1 Consensus size: 83
10451115 ATTTTAATAA
* * * *
10451125 ATAATTTTTATACTATAATAATAATAAATATTAATAATTTAATTTTTATTTTGGTATACCATAAG
1 ATAATTTTAATA--ATAATAATAATAAATACTAACAATTTAATTTGTATTTT-GTATACCATAAG
*
10451190 TAAAATTTAATAA-TTTCTTAT
63 TAAAATTTAATAACTTT-TTAC
* * *
10451211 ATACTTTTAATAATAATAATAATAAATACTAACAATTTAATTTGTATTTTTTATACTATAAGTAA
1 ATAATTTTAATAATAATAATAATAAATACTAACAATTTAATTTGTATTTTGTATACCATAAGTAA
*
10451276 AATTTGATAACTTTTTAC
66 AATTTAATAACTTTTTAC
10451294 ATAATTTTAAT
1 ATAATTTTAAT
10451305 TTTTATAACT
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
83 35 0.42
84 38 0.46
86 10 0.12
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (83 bp):
ATAATTTTAATAATAATAATAATAAATACTAACAATTTAATTTGTATTTTGTATACCATAAGTAA
AATTTAATAACTTTTTAC
Found at i:10451347 original size:21 final size:22
Alignment explanation
Indices: 10451323--10451364 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
10451313 CTCTTAATAA
10451323 AATTTTGATAA-CCTTTGATAC
1 AATTTTGATAATCCTTTGATAC
10451344 AATTTTGATAATCCTTTGATA
1 AATTTTGATAATCCTTTGATA
10451365 ATTTACGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (22 bp):
AATTTTGATAATCCTTTGATAC
Found at i:10451374 original size:21 final size:20
Alignment explanation
Indices: 10451322--10451374 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
10451312 ACTCTTAATA
*
10451322 AAATTTTGATAACCTTTGAT
1 AAATTTCGATAACCTTTGAT
*
10451342 ACAATTTTGATAATCCTTTGAT
1 A-AATTTCGATAA-CCTTTGAT
10451364 -AATTTACGATA
1 AAATTT-CGATA
10451375 TTATTTTGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 6 0.21
21 15 0.52
22 8 0.28
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.43
Consensus pattern (20 bp):
AAATTTCGATAACCTTTGAT
Found at i:10451382 original size:21 final size:22
Alignment explanation
Indices: 10451358--10451410 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
10451348 TTGATAATCC
* *
10451358 TTTGATAATTTAC-GATATTAT
1 TTTGATAATTTACTAATATAAT
* *
10451379 TTTGGTAA-GTACTAATATAAT
1 TTTGATAATTTACTAATATAAT
10451400 TTTGATAATTT
1 TTTGATAATTT
10451411 TTTTATAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
20 3 0.12
21 20 0.83
22 1 0.04
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.51
Consensus pattern (22 bp):
TTTGATAATTTACTAATATAAT
Found at i:10451806 original size:22 final size:22
Alignment explanation
Indices: 10451742--10452017 Score: 146
Period size: 22 Copynumber: 12.5 Consensus size: 22
10451732 AAAATTTGTT
* * *
10451742 AATGATTGACAATTAAATTATT
1 AATGATTTACTATTAAATTATC
* * * **
10451764 ATTGATTTAATACTATTTTATC
1 AATGATTTACTATTAAATTATC
*
10451786 AATGATTTACTATTAAGTTATC
1 AATGATTTACTATTAAATTATC
* ** *
10451808 AATAAAATACTACTAAATTATC
1 AATGATTTACTATTAAATTATC
* * *
10451830 AATTATTTACTATCAAATTAAC
1 AATGATTTACTATTAAATTATC
* ** * *
10451852 ATTGAAGTACTACT-AATTCATG
1 AATGATTTACTATTAAATT-ATC
* * *
10451874 AATGATTTACTACTAAGTTATG
1 AATGATTTACTATTAAATTATC
* * *
10451896 AACGATTTACTAATAAATTATT
1 AATGATTTACTATTAAATTATC
* *
10451918 AATGATTTACTATTAAATTTTT
1 AATGATTTACTATTAAATTATC
* *
10451940 GATGATTTATTA-TAAAGTTAT-
1 AATGATTTACTATTAAA-TTATC
* *
10451961 AACTGATTTGCTATTAATTTATC
1 AA-TGATTTACTATTAAATTATC
* * *
10451984 GATAATTTACTA-CAAAGTTATC
1 AATGATTTACTATTAAA-TTATC
* *
10452006 AATTATTAACTA
1 AATGATTTACTA
10452018 ATTTATTACA
Statistics
Matches: 189, Mismatches: 58, Indels: 14
0.72 0.22 0.05
Matches are distributed among these distances:
21 11 0.06
22 171 0.90
23 7 0.04
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.43
Consensus pattern (22 bp):
AATGATTTACTATTAAATTATC
Found at i:10452041 original size:22 final size:22
Alignment explanation
Indices: 10452014--10452070 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
10452004 TCAATTATTA
**
10452014 ACTAATTTATTACAAAATTATC
1 ACTAATTTACAACAAAATTATC
*
10452036 ACTAATTTACAACTAAATTATC
1 ACTAATTTACAACAAAATTATC
*
10452058 ATTAATTTACAAC
1 ACTAATTTACAAC
10452071 TAAGTTATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.46, C:0.16, G:0.00, T:0.39
Consensus pattern (22 bp):
ACTAATTTACAACAAAATTATC
Found at i:10452071 original size:22 final size:22
Alignment explanation
Indices: 10452028--10452099 Score: 90
Period size: 22 Copynumber: 3.3 Consensus size: 22
10452018 ATTTATTACA
*
10452028 AAATTATCACTAATTTACAACT
1 AAATTATCATTAATTTACAACT
10452050 AAATTATCATTAATTTACAACT
1 AAATTATCATTAATTTACAACT
* * ** *
10452072 AAGTTATTATTTGTTTACTACT
1 AAATTATCATTAATTTACAACT
10452094 AAATTA
1 AAATTA
10452100 CTAATAATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.43
Consensus pattern (22 bp):
AAATTATCATTAATTTACAACT
Found at i:10452501 original size:21 final size:23
Alignment explanation
Indices: 10452477--10452525 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
10452467 TATTACCAAG
10452477 TTATCAC-TAATTTA-TATTAAA
1 TTATCACATAATTTATTATTAAA
*
10452498 TTAT-ACATGATTTATTATTAAA
1 TTATCACATAATTTATTATTAAA
10452520 TTATCA
1 TTATCA
10452526 TTGATTAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 2 0.08
21 10 0.42
22 11 0.46
23 1 0.04
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (23 bp):
TTATCACATAATTTATTATTAAA
Found at i:10452519 original size:22 final size:20
Alignment explanation
Indices: 10452486--10452646 Score: 81
Period size: 22 Copynumber: 7.3 Consensus size: 20
10452476 GTTATCACTA
10452486 ATTTATATTAAATTATACATG
1 ATTTATATTAAATTAT-CATG
10452507 ATTTATTATTAAATTATCATTG
1 ATTTA-TATTAAATTATCA-TG
* *
10452529 ATTAACTATTGAATTATCAATG
1 ATTTA-TATTAAATTATC-ATG
*
10452551 ATTTACTAATACTAAATTAT-ATTA
1 ATTTA-T-AT--TAAATTATCA-TG
* * *
10452575 ATTTACTTTTAAGTTTTCAATG
1 ATTTA-TATTAAATTATC-ATG
* *
10452597 ATTTACTACTAAGTTATTCATG
1 ATTTA-TATTAAATTA-TCATG
* *
10452619 ATTTATGACTAAGTTAGTCATG
1 ATTTAT-ATTAAATTA-TCATG
10452641 ATTTAT
1 ATTTAT
10452647 GACTAAGTTC
Statistics
Matches: 115, Mismatches: 14, Indels: 21
0.77 0.09 0.14
Matches are distributed among these distances:
21 14 0.12
22 78 0.68
23 8 0.07
24 8 0.07
25 7 0.06
ACGTcount: A:0.37, C:0.08, G:0.07, T:0.48
Consensus pattern (20 bp):
ATTTATATTAAATTATCATG
Found at i:10452647 original size:22 final size:22
Alignment explanation
Indices: 10452594--10452655 Score: 99
Period size: 22 Copynumber: 2.8 Consensus size: 22
10452584 TAAGTTTTCA
*
10452594 ATGATTTACT-ACTAAGTTATTC
1 ATGATTTA-TGACTAAGTTAGTC
10452616 ATGATTTATGACTAAGTTAGTC
1 ATGATTTATGACTAAGTTAGTC
10452638 ATGATTTATGACTAAGTT
1 ATGATTTATGACTAAGTT
10452656 CATTATTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
21 1 0.03
22 37 0.97
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.44
Consensus pattern (22 bp):
ATGATTTATGACTAAGTTAGTC
Found at i:10452663 original size:19 final size:20
Alignment explanation
Indices: 10452584--10452664 Score: 76
Period size: 22 Copynumber: 3.8 Consensus size: 20
10452574 AATTTACTTT
10452584 TAAGTTTTCAATGATTTACT-AC
1 TAAG-TTTC-ATGATTTA-TGAC
10452606 TAAGTTATTCATGATTTATGAC
1 TAAG-T-TTCATGATTTATGAC
10452628 TAAGTTAGTCATGATTTATGAC
1 TAAGTT--TCATGATTTATGAC
*
10452650 TAAG-TTCATTATTTA
1 TAAGTTTCATGATTTA
10452665 ATTACTATTA
Statistics
Matches: 54, Mismatches: 1, Indels: 11
0.82 0.02 0.17
Matches are distributed among these distances:
19 9 0.17
20 1 0.02
21 3 0.06
22 38 0.70
23 3 0.06
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (20 bp):
TAAGTTTCATGATTTATGAC
Found at i:10452693 original size:22 final size:22
Alignment explanation
Indices: 10452662--10452740 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 22
10452652 AGTTCATTAT
*
10452662 TTAA-TTACTATTAAATTAAAA
1 TTAATTTACTATTAAATTAACA
* * *
10452683 TTAATTTACTATGAAGTTACCA
1 TTAATTTACTATTAAATTAACA
* * *
10452705 GTATTTTACTATTAAATTATCA
1 TTAATTTACTATTAAATTAACA
*
10452727 TTAATTTATTATTA
1 TTAATTTACTATTA
10452741 GGTTATCAAT
Statistics
Matches: 45, Mismatches: 12, Indels: 1
0.78 0.21 0.02
Matches are distributed among these distances:
21 4 0.09
22 41 0.91
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.48
Consensus pattern (22 bp):
TTAATTTACTATTAAATTAACA
Found at i:10452760 original size:44 final size:44
Alignment explanation
Indices: 10452668--10452769 Score: 107
Period size: 44 Copynumber: 2.3 Consensus size: 44
10452658 TTATTTAATT
** * *
10452668 ACTATTAAATTAAAATTAATTTACTATGAAGTTACCAGTATTTT
1 ACTATTAAATTATCATTAATTTACTATGAAGTTACCAATATTTA
* * * *
10452712 ACTATTAAATTATCATTAATTTATTATTAGGTTATCAATGA-TTA
1 ACTATTAAATTATCATTAATTTACTATGAAGTTACCAAT-ATTTA
*
10452756 ACTATTAAGTTATC
1 ACTATTAAATTATC
10452770 TCTTAATCAT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
44 47 0.98
45 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (44 bp):
ACTATTAAATTATCATTAATTTACTATGAAGTTACCAATATTTA
Found at i:10453829 original size:22 final size:22
Alignment explanation
Indices: 10453804--10453901 Score: 81
Period size: 22 Copynumber: 4.5 Consensus size: 22
10453794 AAGGTTAACA
* *
10453804 ATTAAGTTATCAATAATTTACT
1 ATTAAATTATCAATGATTTACT
* *
10453826 ATTAAACTATCAGTGATTTA-T
1 ATTAAATTATCAATGATTTACT
* *
10453847 AACTAAATTATCAATGATTTATT
1 -ATTAAATTATCAATGATTTACT
* * * *
10453870 ACTAATTTATGAATGATTTGCT
1 ATTAAATTATCAATGATTTACT
*
10453892 ATTAAGTTAT
1 ATTAAATTAT
10453902 GAACCGTTTT
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
21 1 0.02
22 59 0.97
23 1 0.02
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (22 bp):
ATTAAATTATCAATGATTTACT
Found at i:10454144 original size:23 final size:22
Alignment explanation
Indices: 10454113--10454164 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
10454103 CAATTATCAA
*
10454113 TTTAGTATTA-AATTATCAATGAT
1 TTTACTATTATAATTAT-AAT-AT
*
10454136 TTTACTATTATATTTATAATAT
1 TTTACTATTATAATTATAATAT
10454158 TTTACTA
1 TTTACTA
10454165 CTAGTTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 9 0.35
23 12 0.46
24 5 0.19
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.54
Consensus pattern (22 bp):
TTTACTATTATAATTATAATAT
Found at i:10454174 original size:21 final size:23
Alignment explanation
Indices: 10454125--10454181 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
10454115 TAGTATTAAA
*
10454125 TTATCAATGATTTTACTATTATAT
1 TTAT-AATGATTTTACTACTATAT
*
10454149 TTATAAT-ATTTTACTACTA-GT
1 TTATAATGATTTTACTACTATAT
10454170 TTATAATTGATT
1 TTATAA-TGATT
10454182 ACTACTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 7 0.24
22 12 0.41
23 6 0.21
24 4 0.14
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.54
Consensus pattern (23 bp):
TTATAATGATTTTACTACTATAT
Found at i:10454306 original size:21 final size:21
Alignment explanation
Indices: 10454276--10454328 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
10454266 CTGATTTATC
10454276 ATTAAATTATAC-ATGATTACT
1 ATTAAATTAT-CGATGATTACT
*
10454297 ATTAAGTTATCGATGATTACT
1 ATTAAATTATCGATGATTACT
*
10454318 ACCTAAATTAT
1 A-TTAAATTAT
10454329 ATTAGATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 19 0.70
22 7 0.26
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.42
Consensus pattern (21 bp):
ATTAAATTATCGATGATTACT
Found at i:10454710 original size:21 final size:21
Alignment explanation
Indices: 10454665--10454755 Score: 78
Period size: 22 Copynumber: 4.3 Consensus size: 21
10454655 TCATATATTT
* *
10454665 TAAGTTATCATTAATTTATTAC
1 TAAGTTATCAATAA-TTACTAC
10454687 TAAGTTATCAATAATTACTAC
1 TAAGTTATCAATAATTACTAC
* *
10454708 TAAGTTAT-ATTGATTAC-AC
1 TAAGTTATCAATAATTACTAC
* * *
10454727 TTAAGTTTTCAATTATTAATTAC
1 -TAAGTTATCAATAATT-ACTAC
10454750 TAAGTT
1 TAAGTT
10454756 GTTAAATATC
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
19 2 0.04
20 14 0.25
21 19 0.33
22 20 0.35
23 2 0.04
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (21 bp):
TAAGTTATCAATAATTACTAC
Found at i:10455229 original size:24 final size:27
Alignment explanation
Indices: 10455180--10455230 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
10455170 CTATATTTCT
*
10455180 ATTTTATAGTATATAATATTGGTAAAA
1 ATTTTATAGTATATAATATTGATAAAA
10455207 ATTTTATA-TATAT-ATA-TGATAAAA
1 ATTTTATAGTATATAATATTGATAAAA
10455231 GTAATGGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 5 0.22
27 8 0.35
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (27 bp):
ATTTTATAGTATATAATATTGATAAAA
Found at i:10456952 original size:17 final size:16
Alignment explanation
Indices: 10456930--10456973 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 16
10456920 AACTTTTCTT
10456930 TTATATGAAAACTTTTA
1 TTATAT-AAAACTTTTA
*
10456947 TTATATATAAATTTTTA
1 TTATATA-AAACTTTTA
10456964 TTATATAAAA
1 TTATATAAAA
10456974 AATTAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (16 bp):
TTATATAAAACTTTTA
Found at i:10458106 original size:24 final size:24
Alignment explanation
Indices: 10458051--10458112 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
10458041 TTTTCTTTTG
10458051 TATTTTATGTAT-TCTATTATTAT
1 TATTTTATGTATATCTATTATTAT
10458074 TATTATTATGTATATCT-TTATTCAT
1 TATT-TTATGTATATCTATTATT-AT
*
10458099 T-TATTTATTTATAT
1 TAT-TTTATGTATAT
10458113 TCAGATTAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
23 4 0.12
24 23 0.68
25 7 0.21
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (24 bp):
TATTTTATGTATATCTATTATTAT
Found at i:10458163 original size:3 final size:3
Alignment explanation
Indices: 10458155--10458180 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10458145 AGTTATATAT
10458155 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
10458181 TTTGTAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10458771 original size:20 final size:20
Alignment explanation
Indices: 10458748--10458791 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
10458738 TGCCCAGTTT
*
10458748 CCGGCGAAGAATCCCAGAAA
1 CCGGCAAAGAATCCCAGAAA
10458768 CCGGCAAAGAATCCCAGAAA
1 CCGGCAAAGAATCCCAGAAA
10458788 CCGG
1 CCGG
10458792 TGAATTTCCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.39, C:0.32, G:0.25, T:0.05
Consensus pattern (20 bp):
CCGGCAAAGAATCCCAGAAA
Found at i:10458815 original size:62 final size:63
Alignment explanation
Indices: 10458746--10458863 Score: 150
Period size: 62 Copynumber: 1.9 Consensus size: 63
10458736 ACTGCCCAGT
* *
10458746 TTCCGGCGAAGAATCCCAGAAACCGGC-AAAGAATCCCAGAAACCGGTGAAT-TTCCGGCCAAC
1 TTCCGGCGAAAAAACCCAGAAACCGGCGAAA-AATCCCAGAAACCGGTGAATCTTCCGGCCAAC
** * * *
10458808 TTCCGGCGAAAAAACCCAGATTCCGGCGAAAATTTCCAGAATCCGGTGAATCTTCC
1 TTCCGGCGAAAAAACCCAGAAACCGGCGAAAAATCCCAGAAACCGGTGAATCTTCC
10458864 ACCGGAGTTC
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
62 40 0.85
63 7 0.15
ACGTcount: A:0.32, C:0.30, G:0.21, T:0.17
Consensus pattern (63 bp):
TTCCGGCGAAAAAACCCAGAAACCGGCGAAAAATCCCAGAAACCGGTGAATCTTCCGGCCAAC
Found at i:10458852 original size:20 final size:20
Alignment explanation
Indices: 10458809--10458853 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
10458799 CCGGCCAACT
*
10458809 TCCGGCGAAAAAACCCAGAT
1 TCCGGCGAAAAAACCCAGAA
***
10458829 TCCGGCGAAAATTTCCAGAA
1 TCCGGCGAAAAAACCCAGAA
10458849 TCCGG
1 TCCGG
10458854 TGAATCTTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (20 bp):
TCCGGCGAAAAAACCCAGAA
Found at i:10459116 original size:14 final size:15
Alignment explanation
Indices: 10459097--10459138 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
10459087 CGAGCCGAGG
10459097 CCGAGCCGTTCTTC-
1 CCGAGCCGTTCTTCT
10459111 CCGAGCCG--CTTCT
1 CCGAGCCGTTCTTCT
10459124 CCGAGCCGTT-TTCT
1 CCGAGCCGTTCTTCT
10459138 C
1 C
10459139 TTCCTTGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.16
13 8 0.32
14 13 0.52
ACGTcount: A:0.07, C:0.43, G:0.21, T:0.29
Consensus pattern (15 bp):
CCGAGCCGTTCTTCT
Found at i:10459129 original size:13 final size:14
Alignment explanation
Indices: 10459097--10459133 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
10459087 CGAGCCGAGG
10459097 CCGAGCCGTTCTTC
1 CCGAGCCGTTCTTC
10459111 CCGAGCCG--CTTC
1 CCGAGCCGTTCTTC
10459123 TCCGAGCCGTT
1 -CCGAGCCGTT
10459134 TTCTCTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 4 0.20
13 8 0.40
14 8 0.40
ACGTcount: A:0.08, C:0.43, G:0.24, T:0.24
Consensus pattern (14 bp):
CCGAGCCGTTCTTC
Found at i:10459561 original size:158 final size:158
Alignment explanation
Indices: 10459244--10459686 Score: 727
Period size: 157 Copynumber: 2.8 Consensus size: 158
10459234 ATTTTTTTTC
* *
10459244 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATAC
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAGTTTTTCTTGCATAC
10459309 TCCTGAGGTGA-GGAATTTTCTCAATTTTCTGCT-AAAGTATTAGAGTCAATTGAGAATAATTTT
65 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTT
* *
10459372 CGATAATTAATTACTTGGCTGATTTTGAT
130 CGATAATTAATTAATTGGCTGATCTTGAT
10459401 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCCAAGTGAAACAGTAGTTTTTCTTGCATAC
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTG-CAAGTGAAACAGTAGTTTTTCTTGCATAC
10459466 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAA-TGAGAATAATTTT
65 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTT
* *
10459530 TGATAATTAATTAATTGGTTGATCTTGAT
130 CGATAATTAATTAATTGGCTGATCTTGAT
* *
10459559 TTTTCT-TTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
* *
10459623 CTTGAGGTGAGAGAA-TTTCTCAA-TTTCTGCTAAAAGTATTAGAGTCAATTGAGGAATAATTTT
66 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGA-GAATAATTTT
10459686 C
130 C
10459687 AACAACTAAC
Statistics
Matches: 270, Mismatches: 11, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
154 25 0.09
155 11 0.04
156 53 0.20
157 95 0.35
158 70 0.26
159 16 0.06
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (158 bp):
TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
GATAATTAATTAATTGGCTGATCTTGAT
Found at i:10460085 original size:1 final size:1
Alignment explanation
Indices: 10460079--10460103 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
10460069 ATATGTGTAA
10460079 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
10460104 AGTCATGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:10461494 original size:42 final size:42
Alignment explanation
Indices: 10461435--10461576 Score: 195
Period size: 38 Copynumber: 3.5 Consensus size: 42
10461425 NNNNNNNNNN
10461435 GGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGT
1 GGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGT
10461477 GGTGCCTCTGTTGAGAGGAGCAATTTACTTTT-CAAAGTC--
1 GGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGT
* *
10461516 -GTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCAAAAGTCGT
1 GGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGT
* * * *
10461556 TGAGTCTCTGTTTAGAGGAGC
1 GGTGCCTCTGTTGAGAGGAGC
10461577 TTCGGCAAAA
Statistics
Matches: 92, Mismatches: 4, Indels: 9
0.88 0.04 0.09
Matches are distributed among these distances:
37 3 0.03
38 32 0.35
41 25 0.27
42 32 0.35
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (42 bp):
GGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGT
Found at i:10461589 original size:1 final size:1
Alignment explanation
Indices: 10461583--10461703 Score: 98
Period size: 1 Copynumber: 121.0 Consensus size: 1
10461573 GAGCTTCGGC
* * * * **
10461583 AAAAAAAAAAAAAAAAAAAAACAAAAAAAAACAAAAAAAACAAAAAAAAAACAAAAAAATCAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** ** * * * ** *
10461648 AAATCAAAAAAATCAAAAAAATAAAAACAAAAATAAAAAAAATCAAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10461704 TGTTGAGTTG
Statistics
Matches: 92, Mismatches: 28, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 92 1.00
ACGTcount: A:0.87, C:0.07, G:0.00, T:0.06
Consensus pattern (1 bp):
A
Found at i:10461610 original size:18 final size:18
Alignment explanation
Indices: 10461583--10461689 Score: 126
Period size: 19 Copynumber: 5.7 Consensus size: 18
10461573 GAGCTTCGGC
10461583 AAAA-AAAAAAAAAAAAA
1 AAAACAAAAAAAAAAAAA
10461600 AAAACAAAAAAAAACAAAA
1 AAAACAAAAAAAAA-AAAA
10461619 AAAACAAAAAAAAAACAAA
1 AAAACAAAAAAAAAA-AAA
**
10461638 AAAATCAAAAAAATCAAAA
1 AAAA-CAAAAAAAAAAAAA
*
10461657 AAATCAAAAAAATAAAAACA
1 AAAACAAAAAAA-AAAAA-A
*
10461677 AAAATAAAAAAAA
1 AAAACAAAAAAAA
10461690 TCAAAAAATA
Statistics
Matches: 77, Mismatches: 7, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
17 4 0.05
18 18 0.23
19 35 0.45
20 20 0.26
ACGTcount: A:0.88, C:0.07, G:0.00, T:0.05
Consensus pattern (18 bp):
AAAACAAAAAAAAAAAAA
Found at i:10461621 original size:30 final size:30
Alignment explanation
Indices: 10461585--10461703 Score: 125
Period size: 32 Copynumber: 3.8 Consensus size: 30
10461575 GCTTCGGCAA
10461585 AAAAAAAAAAAAAAAAAAACAAAAAAAAAC
1 AAAAAAAAAAAAAAAAAAACAAAAAAAAAC
* *
10461615 AAAAAAAACAAAAAAAAAAC-AAAAAAATC
1 AAAAAAAAAAAAAAAAAAACAAAAAAAAAC
* *
10461644 AAAAAAATCAAAAAAATCAAAA-AAATAAAAAC
1 AAAAAAA--AAAAAAA-AAAAACAAAAAAAAAC
*
10461676 AAAAATAAAAAAAATCAAAAAATAAAAA
1 AAAAA-AAAAAAAA--AAAAAACAAAAA
10461704 TGTTGAGTTG
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
29 15 0.21
30 19 0.26
31 12 0.16
32 20 0.27
33 7 0.10
ACGTcount: A:0.87, C:0.08, G:0.00, T:0.06
Consensus pattern (30 bp):
AAAAAAAAAAAAAAAAAAACAAAAAAAAAC
Found at i:10461639 original size:39 final size:38
Alignment explanation
Indices: 10461586--10461697 Score: 154
Period size: 38 Copynumber: 2.9 Consensus size: 38
10461576 CTTCGGCAAA
*
10461586 AAAAAAAAAAAAAAAAAACAAAAAAAAACAAAAAAAAC
1 AAAAAAAAAAAAAAAAAACAAAAAAAATCAAAAAAAAC
* *
10461624 AAAAAAAAAACAAAAAAATC-AAAAAAATCAAAAAAATC
1 AAAAAAAAAA-AAAAAAAACAAAAAAAATCAAAAAAAAC
* *
10461662 AAAAAAATAAAAACAAAAATAAAAAAAATCAAAAAA
1 AAAAAAA-AAAAAAAAAAACAAAAAAAATCAAAAAA
10461698 TAAAAATGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
38 39 0.60
39 26 0.40
ACGTcount: A:0.87, C:0.08, G:0.00, T:0.05
Consensus pattern (38 bp):
AAAAAAAAAAAAAAAAAACAAAAAAAATCAAAAAAAAC
Found at i:10461885 original size:9 final size:8
Alignment explanation
Indices: 10461873--10462000 Score: 57
Period size: 9 Copynumber: 14.8 Consensus size: 8
10461863 TTTTCTTTTG
10461873 TATTTTAT
1 TATTTTAT
*
10461881 GTATTCTAT
1 -TATTTTAT
10461890 TATTATTAT
1 TATT-TTAT
10461899 TATTATGTA-
1 TATT-T-TAT
10461908 TATTTTAT
1 TATTTTAT
10461916 TA-TTTATT
1 TATTTTA-T
10461924 TATTTTAT
1 TATTTTAT
**
10461932 TAGATTA-
1 TATTTTAT
*
10461939 GATTTATAT
1 TATTT-TAT
*
10461948 GTATATTATT
1 -TATTTTA-T
10461958 TATATAGTTA-
1 TAT-T--TTAT
10461968 TATATTTAT
1 TAT-TTTAT
10461977 TATTATTAT
1 TATT-TTAT
10461986 TATTATTAT
1 TATT-TTAT
10461995 TATTTT
1 TATTTT
10462001 TGTAAGATAT
Statistics
Matches: 95, Mismatches: 10, Indels: 29
0.71 0.07 0.22
Matches are distributed among these distances:
7 8 0.08
8 24 0.25
9 49 0.52
10 11 0.12
12 3 0.03
ACGTcount: A:0.30, C:0.01, G:0.05, T:0.64
Consensus pattern (8 bp):
TATTTTAT
Found at i:10461895 original size:3 final size:3
Alignment explanation
Indices: 10461887--10461998 Score: 67
Period size: 3 Copynumber: 36.3 Consensus size: 3
10461877 TTATGTATTC
10461887 TAT TAT TAT TAT TAT TAT GTA- TAT T-T TAT TATT TATT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TA-T TA-T TAT TAT TAT
* *
10461932 TA- GAT TA- GAT T-T ATAT GTA- TAT TATT TAT ATAGT TAT ATATT TAT
1 TAT TAT TAT TAT TAT -TAT -TAT TAT TA-T TAT -TA-T TAT -TA-T TAT
10461977 TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
10461999 TTTGTAAGAT
Statistics
Matches: 89, Mismatches: 5, Indels: 30
0.72 0.04 0.24
Matches are distributed among these distances:
2 11 0.12
3 53 0.60
4 23 0.26
5 2 0.02
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:10461985 original size:25 final size:27
Alignment explanation
Indices: 10461888--10461990 Score: 85
Period size: 25 Copynumber: 4.0 Consensus size: 27
10461878 TATGTATTCT
**
10461888 ATTAT-TA-TTATTATTATGTATATTTT
1 ATTATATATTTATTATTAT-TATATTAG
* *
10461914 ATTATTTATTTATT-TTATTAGATTAG
1 ATTATATATTTATTATTATTATATTAG
*
10461940 ATT-TATATGTA-TATTATT-TATATAG
1 ATTATATATTTATTATTATTATAT-TAG
10461965 -TTATATATTTATTATTATTATTATTA
1 ATTATATATTTATTATTATTA-TATTA
10461991 TTATTATTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
24 5 0.08
25 21 0.34
26 20 0.32
27 8 0.13
28 8 0.13
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (27 bp):
ATTATATATTTATTATTATTATATTAG
Found at i:10462593 original size:20 final size:20
Alignment explanation
Indices: 10462570--10462613 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
10462560 TGCCCAGTTT
*
10462570 CCGGCGAAGAATCCCAGAAA
1 CCGGCAAAGAATCCCAGAAA
10462590 CCGGCAAAGAATCCCAGAAA
1 CCGGCAAAGAATCCCAGAAA
10462610 CCGG
1 CCGG
10462614 TGAATTTCCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.39, C:0.32, G:0.25, T:0.05
Consensus pattern (20 bp):
CCGGCAAAGAATCCCAGAAA
Found at i:10462648 original size:62 final size:63
Alignment explanation
Indices: 10462568--10462685 Score: 150
Period size: 62 Copynumber: 1.9 Consensus size: 63
10462558 ACTGCCCAGT
* *
10462568 TTCCGGCGAAGAATCCCAGAAACCGGC-AAAGAATCCCAGAAACCGGTGAAT-TTCCGGCCAAC
1 TTCCGGCGAAAAAACCCAGAAACCGGCGAAA-AATCCCAGAAACCGGTGAATCTTCCGGCCAAC
** * * *
10462630 TTCCGGCGAAAAAACCCAGATTCCGGCGAAAATTTCCAGAATCCGGTGAATCTTCC
1 TTCCGGCGAAAAAACCCAGAAACCGGCGAAAAATCCCAGAAACCGGTGAATCTTCC
10462686 ACCGGAGTTC
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
62 40 0.85
63 7 0.15
ACGTcount: A:0.32, C:0.30, G:0.21, T:0.17
Consensus pattern (63 bp):
TTCCGGCGAAAAAACCCAGAAACCGGCGAAAAATCCCAGAAACCGGTGAATCTTCCGGCCAAC
Found at i:10462674 original size:20 final size:20
Alignment explanation
Indices: 10462631--10462675 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
10462621 CCGGCCAACT
*
10462631 TCCGGCGAAAAAACCCAGAT
1 TCCGGCGAAAAAACCCAGAA
***
10462651 TCCGGCGAAAATTTCCAGAA
1 TCCGGCGAAAAAACCCAGAA
10462671 TCCGG
1 TCCGG
10462676 TGAATCTTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (20 bp):
TCCGGCGAAAAAACCCAGAA
Found at i:10462941 original size:14 final size:15
Alignment explanation
Indices: 10462922--10462963 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
10462912 CCGAGCCGAG
10462922 CCGAGCCGTTCTTC-
1 CCGAGCCGTTCTTCT
10462936 CCGAGCCG--CTTCT
1 CCGAGCCGTTCTTCT
10462949 CCGAGCCGTT-TTCT
1 CCGAGCCGTTCTTCT
10462963 C
1 C
10462964 TTCCTTGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.16
13 8 0.32
14 13 0.52
ACGTcount: A:0.07, C:0.43, G:0.21, T:0.29
Consensus pattern (15 bp):
CCGAGCCGTTCTTCT
Found at i:10462954 original size:13 final size:14
Alignment explanation
Indices: 10462922--10462958 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
10462912 CCGAGCCGAG
10462922 CCGAGCCGTTCTTC
1 CCGAGCCGTTCTTC
10462936 CCGAGCCG--CTTC
1 CCGAGCCGTTCTTC
10462948 TCCGAGCCGTT
1 -CCGAGCCGTT
10462959 TTCTCTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 4 0.20
13 8 0.40
14 8 0.40
ACGTcount: A:0.08, C:0.43, G:0.24, T:0.24
Consensus pattern (14 bp):
CCGAGCCGTTCTTC
Found at i:10463502 original size:156 final size:157
Alignment explanation
Indices: 10463075--10463518 Score: 784
Period size: 158 Copynumber: 2.8 Consensus size: 157
10463065 ATTTTTTTTC
* *
10463075 TTTTTTCTTTAATTAAT-CGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATAC
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAGTTTTTCTTGCATAC
10463139 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTT
65 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTT
* *
10463204 CGATAATTAATTACTTGGCTGATTTTGA
130 CGATAATTAATTAATTGGCTGATCTTGA
10463232 TTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATAC
1 -TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATAC
10463297 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTT
65 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTT
*
10463362 CGATAATTAATTAATTGGTTGATCTTGA
130 CGATAATTAATTAATTGGCTGATCTTGA
*
10463390 -TTTTTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
* *
10463454 CTTGAGGTGAGAGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
66 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
10463519 AACAACTAAC
Statistics
Matches: 277, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
156 126 0.45
158 130 0.47
159 21 0.08
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (157 bp):
TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
GATAATTAATTAATTGGCTGATCTTGA
Found at i:10463536 original size:156 final size:157
Alignment explanation
Indices: 10463075--10463536 Score: 784
Period size: 156 Copynumber: 2.9 Consensus size: 157
10463065 ATTTTTTTTC
* *
10463075 TTTTTTCTTTAATTAAT-CGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATAC
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAGTTTTTCTTGCATAC
10463139 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTT
65 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTT
* *
10463204 CGATAATTAATTACTTGGCTGATTTTGA
130 CGATAATTAATTACTTGGTTGATCTTGA
10463232 TTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATAC
1 -TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATAC
10463297 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTT
65 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTT
*
10463362 CGATAATTAATTAATTGGTTGATCTTGA
130 CGATAATTAATTACTTGGTTGATCTTGA
*
10463390 -TTTTTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
* *
10463454 CTTGAGGTGAGAGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
66 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
* * * *
10463519 AACAACTAACTACTTGGT
131 GATAATTAATTACTTGGT
10463537 AAAATTTTAA
Statistics
Matches: 290, Mismatches: 13, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
156 139 0.48
158 130 0.45
159 21 0.07
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.38
Consensus pattern (157 bp):
TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
GATAATTAATTACTTGGTTGATCTTGA
Found at i:10464098 original size:14 final size:15
Alignment explanation
Indices: 10464067--10464097 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10464057 GCACTTTTTT
*
10464067 AATCTAATTATAAAA
1 AATCTAATAATAAAA
10464082 AATCTAATAATAAAA
1 AATCTAATAATAAAA
10464097 A
1 A
10464098 TGAAAATTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
AATCTAATAATAAAA
Found at i:10469131 original size:7 final size:7
Alignment explanation
Indices: 10469119--10469143 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
10469109 AGGCTTGTCA
10469119 TTTCTTG
1 TTTCTTG
10469126 TTTCTTG
1 TTTCTTG
10469133 TTTCTTG
1 TTTCTTG
10469140 TTTC
1 TTTC
10469144 AACAAACATA
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:0.00, C:0.16, G:0.12, T:0.72
Consensus pattern (7 bp):
TTTCTTG
Found at i:10469232 original size:2 final size:2
Alignment explanation
Indices: 10469171--10469215 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
10469161 TTGCCATTTC
*
10469171 AT AT AT AT AT AT AT AT AT AT AA AT AT -T AT 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
10469212 AT AT
1 AT AT
10469216 TCTTGTTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10471433 original size:21 final size:21
Alignment explanation
Indices: 10471409--10471448 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
10471399 ATATAAATAA
*
10471409 CAAATTTAAATACATATATAG
1 CAAATATAAATACATATATAG
**
10471430 CAAATATATCTACATATAT
1 CAAATATAAATACATATAT
10471449 TGAATTTAGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (21 bp):
CAAATATAAATACATATATAG
Found at i:10472303 original size:16 final size:16
Alignment explanation
Indices: 10472293--10472325 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
10472283 AAAAATAGGT
10472293 TAAAAATAAAATAAAA
1 TAAAAATAAAATAAAA
10472309 TAAAAATAAAATGAAAA
1 TAAAAATAAAAT-AAAA
10472326 AAGAAAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (16 bp):
TAAAAATAAAATAAAA
Found at i:10472730 original size:30 final size:30
Alignment explanation
Indices: 10472677--10472751 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
10472667 CGAAAAATTT
10472677 AAAATTCTTCAAAA-AACCCAGAAAAACCCAA
1 AAAATT-TT-AAAATAACCCAGAAAAACCCAA
* *
10472708 AAAATTTTAAAATAATCCAGAAAAATCCAA
1 AAAATTTTAAAATAACCCAGAAAAACCCAA
* *
10472738 AAAAATTTCAAATA
1 AAAATTTTAAAATA
10472752 GCTCCAAACC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
29 4 0.10
30 29 0.74
31 6 0.15
ACGTcount: A:0.60, C:0.17, G:0.03, T:0.20
Consensus pattern (30 bp):
AAAATTTTAAAATAACCCAGAAAAACCCAA
Found at i:10473266 original size:3 final size:3
Alignment explanation
Indices: 10473251--10473352 Score: 143
Period size: 3 Copynumber: 34.3 Consensus size: 3
10473241 AAAAGGAAAG
* * *
10473251 TAA TAA TAC TAA TAA TAA TAA TAC TAA TAA TAC TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
10473299 TGA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA CAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10473346 TAA TAA T
1 TAA TAA T
10473353 TTATAAAAAA
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
2 2 0.02
3 84 0.98
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:10473446 original size:26 final size:26
Alignment explanation
Indices: 10473417--10473476 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
10473407 CAAAAACGGG
*
10473417 CCTAATTGGGTCT-AGATGTCAATCGA
1 CCTAATTGGGCCTGA-ATGTCAATCGA
* * *
10473443 CCTAATCGGGCCTGAATGTCAATGGG
1 CCTAATTGGGCCTGAATGTCAATCGA
10473469 CCTAATTG
1 CCTAATTG
10473477 AGCCCAGACG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 27 0.96
27 1 0.04
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (26 bp):
CCTAATTGGGCCTGAATGTCAATCGA
Found at i:10473489 original size:26 final size:26
Alignment explanation
Indices: 10473460--10473525 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 26
10473450 GGGCCTGAAT
*
10473460 GTCAATGGGCCTAATTGAGCCCAGAC
1 GTCAATGGGCCTAATCGAGCCCAGAC
** *
10473486 GTCAACAGGCC-AATCGAGTCCAGAC
1 GTCAATGGGCCTAATCGAGCCCAGAC
* * *
10473511 ATCGATGAGCCTAAT
1 GTCAATGGGCCTAAT
10473526 AGGACCCGTA
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
25 18 0.60
26 12 0.40
ACGTcount: A:0.30, C:0.27, G:0.24, T:0.18
Consensus pattern (26 bp):
GTCAATGGGCCTAATCGAGCCCAGAC
Found at i:10473900 original size:114 final size:114
Alignment explanation
Indices: 10473740--10474098 Score: 271
Period size: 114 Copynumber: 3.2 Consensus size: 114
10473730 ATCTAACGAA
* ** * * * * *
10473740 AGTCGAGATCAAATGACTAGGACAATGTCGTAAGTCTAAAGGTGACCCAGACCAAG-TCAAGGTT
1 AGTCAAGATCAAATGACTAGGACAATGTCACAAGCCAAAAGATGACCAAGACCAAGTTCAA-GTC
* * * * *
10473804 ATAAATAAATGACTGGACTAATGTTACGAGTTTGAAGATGATTTGACCTT
65 ATAAATAAATGACTAGACTAATGTCACGAGTTTGAAGATGATCTGACATG
* * * * *
10473854 AGTCAAGATCAAATGACTAGGACGATGTCACAAGCCAAAAGATGACCAAGATCGAGTTGAAGTCG
1 AGTCAAGATCAAATGACTAGGACAATGTCACAAGCCAAAAGATGACCAAGACCAAGTTCAAGTCA
* **
10473919 TAAATAAATGACTAGACTGATGTCGTGAGTTTGAAGATGATCTGACATG
66 TAAATAAATGACTAGACTAATGTCACGAGTTTGAAGATGATCTGACATG
** * * * ***
10473968 AGTTTAGATCAAATGACT--G-CAATGATGCCATAAGTCAAAAG-TGACCAAAATTGAG-TCAAG
1 AGTCAAGATCAAATGACTAGGACAATG-T--CACAAGCCAAAAGATGACCAAGACCAAGTTCAA-
* * * ** * * * *
10474028 GTCGTGAATAAATGACTGGGTTGATGTCACAAGTCTGAAGATGATCTGACTTG
62 GTCATAAATAAATGACTAGACTAATGTCACGAGTTTGAAGATGATCTGACATG
* *
10474081 AGTCGAGATCATATGACT
1 AGTCAAGATCAAATGACT
10474099 GAGATGATAT
Statistics
Matches: 199, Mismatches: 41, Indels: 11
0.79 0.16 0.04
Matches are distributed among these distances:
111 4 0.02
112 5 0.03
113 71 0.36
114 116 0.58
115 3 0.02
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (114 bp):
AGTCAAGATCAAATGACTAGGACAATGTCACAAGCCAAAAGATGACCAAGACCAAGTTCAAGTCA
TAAATAAATGACTAGACTAATGTCACGAGTTTGAAGATGATCTGACATG
Found at i:10474106 original size:113 final size:114
Alignment explanation
Indices: 10473805--10474106 Score: 326
Period size: 113 Copynumber: 2.7 Consensus size: 114
10473795 GTCAAGGTTA
* * *
10473805 TAAATAAATGACTGGACTAATGTTACGAGTTTGAAGATGATTTGACCTT-AGTCAAGATCAAATG
1 TAAATAAATGACTGGACTGATGTCACGAGTTTGAAGATGATCTGA-CTTGAGTCAAGATCAAATG
* * * *
10473869 ACT-AGGACGATGTCACAAGCCAAAAGATGACCAAGATCGAGTTGAAGTCG
65 ACTGA-GATGATGCCACAAGCCAAAAGATGACCAAAATCGAGTTCAAGTCG
* ** * **
10473919 TAAATAAATGACTAGACTGATGTCGTGAGTTTGAAGATGATCTGACATGAGTTTAGATCAAATGA
1 TAAATAAATGACTGGACTGATGTCACGAGTTTGAAGATGATCTGACTTGAGTCAAGATCAAATGA
* * *
10473984 CTGCA-ATGATGCCATAAGTCAAAAG-TGACCAAAATTGAG-TCAAGGTCG
66 CTG-AGATGATGCCACAAGCCAAAAGATGACCAAAATCGAGTTCAA-GTCG
* ** * * * *
10474032 TGAATAAATGACTGGGTTGATGTCACAAGTCTGAAGATGATCTGACTTGAGTCGAGATCATATGA
1 TAAATAAATGACTGGACTGATGTCACGAGTTTGAAGATGATCTGACTTGAGTCAAGATCAAATGA
10474097 CTGAGATGAT
66 CTGAGATGAT
10474107 ATCGTGAGTC
Statistics
Matches: 155, Mismatches: 28, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
112 4 0.03
113 79 0.51
114 71 0.46
116 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (114 bp):
TAAATAAATGACTGGACTGATGTCACGAGTTTGAAGATGATCTGACTTGAGTCAAGATCAAATGA
CTGAGATGATGCCACAAGCCAAAAGATGACCAAAATCGAGTTCAAGTCG
Found at i:10475880 original size:11 final size:11
Alignment explanation
Indices: 10475864--10475889 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10475854 TAGGATAAGG
10475864 AAAAAAGAAAA
1 AAAAAAGAAAA
10475875 AAAAAAGAAAA
1 AAAAAAGAAAA
10475886 AAAA
1 AAAA
10475890 TAATAATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:10476160 original size:44 final size:43
Alignment explanation
Indices: 10476032--10476244 Score: 137
Period size: 44 Copynumber: 4.8 Consensus size: 43
10476022 TTTTTTTTTT
* * *
10476032 AAAAG-TCCTCTAAATAGAGGTTCAACAACATTTTTGAAAATTTA
1 AAAAGATCCTCTAAGTAGAAGCTCAAC-A-ATTTTTGAAAATTTA
* * * * * *
10476076 AAAAGCTCCTCTGAGCA-AAGGCTTAACAACTTTTAAAAATTTA
1 AAAAGATCCTCTAAGTAGAA-GCTCAACAATTTTTGAAAATTTA
**
10476119 AAAATGATCCTCTAAGTAGAAGCTCAATGATTTTTGAAAATTTA
1 AAAA-GATCCTCTAAGTAGAAGCTCAACAATTTTTGAAAATTTA
* * * * *
10476163 AAAAGGTTCTTCTAAATAGAGGCTCAACAA-TTTTAAAACTTCATCTTAA
1 AAAA-GATCCTCTAAGTAGAAGCTCAACAATTTTTGAAA----AT-TT-A
*
10476212 AAAAGCTCCTCTAAGTA-AAGGCTCAACAATTTT
1 AAAAGATCCTCTAAGTAGAA-GCTCAACAATTTT
10476245 AAAATTCATC
Statistics
Matches: 129, Mismatches: 28, Indels: 19
0.73 0.16 0.11
Matches are distributed among these distances:
43 24 0.19
44 58 0.45
45 15 0.12
47 3 0.02
48 21 0.16
49 8 0.06
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (43 bp):
AAAAGATCCTCTAAGTAGAAGCTCAACAATTTTTGAAAATTTA
Found at i:10476225 original size:48 final size:49
Alignment explanation
Indices: 10476173--10476298 Score: 182
Period size: 50 Copynumber: 2.6 Consensus size: 49
10476163 AAAAGGTTCT
* *
10476173 TCTAAATAGAGGCTCAACAATTTTAAAA-CTTCATCTTAAAAAAGCTCC
1 TCTAAATAAAGGCTCAACAATTTTAAAATCATCATCTTAAAAAAGCTCC
* *
10476221 TCTAAGTAAAGGCTCAACAATTTTAAAATTCATCATCTTAGAAAAGCTCC
1 TCTAAATAAAGGCTCAACAATTTTAAAA-TCATCATCTTAAAAAAGCTCC
* *
10476271 TCTAAACAAAGGCTCAACAACTTTAAAA
1 TCTAAATAAAGGCTCAACAATTTTAAAA
10476299 ATCTTATCTG
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
48 26 0.38
50 43 0.62
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.28
Consensus pattern (49 bp):
TCTAAATAAAGGCTCAACAATTTTAAAATCATCATCTTAAAAAAGCTCC
Found at i:10484805 original size:23 final size:22
Alignment explanation
Indices: 10484774--10484825 Score: 77
Period size: 24 Copynumber: 2.3 Consensus size: 22
10484764 GTGTGTGAAA
*
10484774 TTTTCTTTTGTGTTTTGTTTTCTT
1 TTTTTTTTTGT-TTTTGTTTT-TT
10484798 TTTTTTTTTGTTTTTGTTTTTT
1 TTTTTTTTTGTTTTTGTTTTTT
10484820 TTTTTT
1 TTTTTT
10484826 GGTTGCTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 8 0.30
23 9 0.33
24 10 0.37
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.87
Consensus pattern (22 bp):
TTTTTTTTTGTTTTTGTTTTTT
Found at i:10484817 original size:17 final size:17
Alignment explanation
Indices: 10484774--10484823 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
10484764 GTGTGTGAAA
* *
10484774 TTTTCTTTTGTGTTTTG
1 TTTTCTTTTTTTTTTTG
10484791 TTTTCTTTTTTTTTTTG
1 TTTTCTTTTTTTTTTTG
10484808 TTTT-TGTTTTTTTTTT
1 TTTTCT-TTTTTTTTTT
10484824 TTGGTTGCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 1 0.03
17 29 0.97
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.86
Consensus pattern (17 bp):
TTTTCTTTTTTTTTTTG
Found at i:10487085 original size:7 final size:7
Alignment explanation
Indices: 10487070--10487129 Score: 57
Period size: 7 Copynumber: 8.0 Consensus size: 7
10487060 ATCGGATAAG
*
10487070 GAAAGAA
1 GAAAAAA
10487077 GAAAAAA
1 GAAAAAA
10487084 GAAAAAA
1 GAAAAAA
*
10487091 AAAAGAAA
1 GAAA-AAA
10487099 GAAAATAGA
1 GAAAA-A-A
*
10487108 AAAAGAAA
1 GAAA-AAA
10487116 GAAAAAA
1 GAAAAAA
10487123 GAAAAAA
1 GAAAAAA
10487130 ATAATACATA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
7 27 0.61
8 11 0.25
9 5 0.11
10 1 0.02
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.02
Consensus pattern (7 bp):
GAAAAAA
Found at i:10487094 original size:11 final size:11
Alignment explanation
Indices: 10487075--10487130 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
10487065 ATAAGGAAAG
10487075 AAGAAAAAAGAA
1 AAGAAAAAA-AA
*
10487087 AA-AAAAAAGA
1 AAGAAAAAAAA
10487097 AAGAAAATAGAAA
1 AAGAAAA-A-AAA
*
10487110 AAGAAAGAAAA
1 AAGAAAAAAAA
10487121 AAGAAAAAAA
1 AAGAAAAAAA
10487131 TAATACATAC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
10 3 0.08
11 22 0.59
12 4 0.11
13 8 0.22
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:10487112 original size:17 final size:16
Alignment explanation
Indices: 10487071--10487128 Score: 75
Period size: 17 Copynumber: 3.6 Consensus size: 16
10487061 TCGGATAAGG
10487071 AAAGAAGAAA-AAAGAA
1 AAAGAA-AAAGAAAGAA
10487087 AAA-AAAAAGAAAGAA
1 AAAGAAAAAGAAAGAA
10487102 AATAGAAAAAGAAAGAAA
1 AA-AGAAAAAGAAAG-AA
10487120 AAAGAAAAA
1 AAAGAAAAA
10487129 AATAATACAT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 3 0.08
15 10 0.26
16 4 0.11
17 17 0.45
18 4 0.11
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.02
Consensus pattern (16 bp):
AAAGAAAAAGAAAGAA
Found at i:10487120 original size:28 final size:27
Alignment explanation
Indices: 10487079--10487132 Score: 90
Period size: 28 Copynumber: 2.0 Consensus size: 27
10487069 GGAAAGAAGA
10487079 AAAAAGAAAAAAAAAAGAAAGAAAATAG
1 AAAAAGAAAAAAAAAAGAAA-AAAATAG
*
10487107 AAAAAGAAAGAAAAAAGAAAAAAATA
1 AAAAAGAAAAAAAAAAGAAAAAAATA
10487133 ATACATACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (27 bp):
AAAAAGAAAAAAAAAAGAAAAAAATAG
Found at i:10492144 original size:22 final size:22
Alignment explanation
Indices: 10492119--10492166 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
10492109 AAGTGTGATT
*
10492119 TCATAAAAAAATTTTATTCATC
1 TCATAAAAAAATTTTAATCATC
10492141 TCAT-AAAAAATTTTAATCATC
1 TCATAAAAAAATTTTAATCATC
10492162 TCATA
1 TCATA
10492167 CAATTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.40
Consensus pattern (22 bp):
TCATAAAAAAATTTTAATCATC
Found at i:10492173 original size:19 final size:20
Alignment explanation
Indices: 10492125--10492175 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
10492115 GATTTCATAA
*
10492125 AAAAATTTTATTCATCTCAT
1 AAAAATTTTAATCATCTCAT
10492145 AAAAAATTTTAATCATCTCAT
1 -AAAAATTTTAATCATCTCAT
*
10492166 -ACAATTTTAA
1 AAAAATTTTAA
10492176 ATTATGATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 9 0.32
21 19 0.68
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAAATTTTAATCATCTCAT
Found at i:10494575 original size:29 final size:29
Alignment explanation
Indices: 10494528--10494590 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
10494518 ATATTGAAAC
* * *
10494528 ATTTAATGTGGTCTGTAAATT-TAAAATTT
1 ATTTAATGTAGTATCTAAATTAT-AAATTT
*
10494557 TTTTAATGTAGTATCTAAATTATAAATTT
1 ATTTAATGTAGTATCTAAATTATAAATTT
10494586 ATTTA
1 ATTTA
10494591 CTAATATAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 27 0.96
30 1 0.04
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.51
Consensus pattern (29 bp):
ATTTAATGTAGTATCTAAATTATAAATTT
Found at i:10505157 original size:9 final size:9
Alignment explanation
Indices: 10505143--10505172 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
10505133 ATTTGATTTT
10505143 AAATTAAAA
1 AAATTAAAA
10505152 AAATT-AAA
1 AAATTAAAA
10505160 AAATTAAAA
1 AAATTAAAA
10505169 AAAT
1 AAAT
10505173 AATATTATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AAATTAAAA
Found at i:10507406 original size:43 final size:43
Alignment explanation
Indices: 10507320--10507406 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
10507310 TCATGTATTA
* * * *
10507320 TGGGTGTGTATATTTGAATATTTATGAGTAAATTAGAGGAGAT
1 TGGGTGGGTATATTTGAATATTTATGAGTAAACTAAAGAAGAT
* **
10507363 TGGGTGGGTATATTTGAATATTTGTGAGTGGACTAAAGAAGAT
1 TGGGTGGGTATATTTGAATATTTATGAGTAAACTAAAGAAGAT
10507406 T
1 T
10507407 AAGAGGGTTC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.31, C:0.01, G:0.30, T:0.38
Consensus pattern (43 bp):
TGGGTGGGTATATTTGAATATTTATGAGTAAACTAAAGAAGAT
Found at i:10508707 original size:21 final size:21
Alignment explanation
Indices: 10508674--10508713 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 21
10508664 CAATGACCAA
10508674 TTTATTTTTTTAAT-TTTGTC
1 TTTATTTTTTTAATATTTGTC
10508694 TTTATTTATTTTAATATTTG
1 TTTATTT-TTTTAATATTTG
10508714 CTAATTAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (21 bp):
TTTATTTTTTTAATATTTGTC
Found at i:10510235 original size:18 final size:19
Alignment explanation
Indices: 10510212--10510251 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
10510202 GAGGCGTAAA
* *
10510212 AATTATTTTTTTAA-ATAT
1 AATTATGTTTTCAAGATAT
10510230 AATTATGTTTTCAAGATAT
1 AATTATGTTTTCAAGATAT
10510249 AAT
1 AAT
10510252 AAAACTTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (19 bp):
AATTATGTTTTCAAGATAT
Found at i:10513339 original size:18 final size:18
Alignment explanation
Indices: 10513318--10513366 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
10513308 TTAAATAGTT
*
10513318 ATAACATTTTATATAATC
1 ATAACATTTTATATAATA
10513336 ATAAC-TTTTATA-AATA
1 ATAACATTTTATATAATA
*
10513352 ATAATATATTTATAT
1 ATAACAT-TTTATAT
10513367 TCAAATTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 7 0.27
17 8 0.31
18 11 0.42
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (18 bp):
ATAACATTTTATATAATA
Found at i:10514020 original size:27 final size:27
Alignment explanation
Indices: 10513979--10514041 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
10513969 AAATAATAAT
10513979 AAAAATTAT-TGTAGTAACAATTGAAA
1 AAAAATTATATGTAGTAACAATTGAAA
* * **
10514005 AAAAATTATATTTAGTTACGGTTGAAA
1 AAAAATTATATGTAGTAACAATTGAAA
*
10514032 AAAATTTATA
1 AAAAATTATA
10514042 AACAAATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 9 0.29
27 22 0.71
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.35
Consensus pattern (27 bp):
AAAAATTATATGTAGTAACAATTGAAA
Found at i:10514388 original size:19 final size:19
Alignment explanation
Indices: 10514364--10514406 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
10514354 AATTAATCTA
*
10514364 AAAT-AAAATTTATATTATT
1 AAATAAAAATTAAT-TTATT
10514383 AAATAAAAATTAATTTATT
1 AAATAAAAATTAATTTATT
10514402 AAATA
1 AAATA
10514407 TATATAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAATAAAAATTAATTTATT
Found at i:10515289 original size:22 final size:20
Alignment explanation
Indices: 10515258--10515342 Score: 88
Period size: 19 Copynumber: 4.2 Consensus size: 20
10515248 TTACTAAACC
10515258 AAAAATAAATAAAAAATATAT
1 AAAAATAAATAAAAAA-ATAT
10515279 AAAAATCAAAT--AAAAATAT
1 AAAAAT-AAATAAAAAAATAT
10515298 AAAAATAATAATAAAAAAATAT
1 AAAAAT-A-AATAAAAAAATAT
*
10515320 AAAAA-ATATAAATAAAA-AT
1 AAAAATAAATAAA-AAAATAT
10515339 AAAA
1 AAAA
10515343 TAACAAAAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
19 22 0.39
20 12 0.21
21 6 0.11
22 17 0.30
ACGTcount: A:0.78, C:0.01, G:0.00, T:0.21
Consensus pattern (20 bp):
AAAAATAAATAAAAAAATAT
Found at i:10515343 original size:11 final size:11
Alignment explanation
Indices: 10515258--10515345 Score: 71
Period size: 11 Copynumber: 8.2 Consensus size: 11
10515248 TTACTAAACC
10515258 AAAAAT-AAAT
1 AAAAATAAAAT
*
10515268 AAAAA-ATATAT
1 AAAAATA-AAAT
*
10515279 AAAAATCAAAT
1 AAAAATAAAAT
10515290 AAAAAT---AT
1 AAAAATAAAAT
10515298 AAAAATAATAAT
1 AAAAATAA-AAT
*
10515310 AAAAA-AATAT
1 AAAAATAAAAT
10515320 AAAAAATATAAAT
1 -AAAAATA-AAAT
10515333 AAAAATAAAAT
1 AAAAATAAAAT
10515344 AA
1 AA
10515346 CAAAAAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
8 8 0.13
10 7 0.11
11 30 0.48
12 15 0.24
13 3 0.05
ACGTcount: A:0.77, C:0.01, G:0.00, T:0.22
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:10521933 original size:15 final size:15
Alignment explanation
Indices: 10521913--10521942 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10521903 AAGGTTTCAA
10521913 AACCTCACTTATTTC
1 AACCTCACTTATTTC
10521928 AACCTCACTTATTTC
1 AACCTCACTTATTTC
10521943 CTTTTCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.40
Consensus pattern (15 bp):
AACCTCACTTATTTC
Found at i:10522186 original size:25 final size:25
Alignment explanation
Indices: 10522157--10522206 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
10522147 TGAATTTTTA
10522157 TGTTTATTTTCATTTTCATGTACTT
1 TGTTTATTTTCATTTTCATGTACTT
10522182 TGTTTATTTTCATTTTCATGTACTT
1 TGTTTATTTTCATTTTCATGTACTT
10522207 CAATTTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.12, G:0.08, T:0.64
Consensus pattern (25 bp):
TGTTTATTTTCATTTTCATGTACTT
Found at i:10522351 original size:3 final size:3
Alignment explanation
Indices: 10522345--10522382 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
10522335 TAATAATAAT
10522345 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
10522383 TAATAATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:10522699 original size:26 final size:26
Alignment explanation
Indices: 10522670--10522719 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
10522660 CATAAATTGC
*
10522670 TAAAACCCTAAGTGAAACCCTAAAAT
1 TAAAACCCTAAATGAAACCCTAAAAT
* *
10522696 TAAAACCTTAAATGAAACCTTAAA
1 TAAAACCCTAAATGAAACCCTAAA
10522720 TCCTCAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.52, C:0.20, G:0.06, T:0.22
Consensus pattern (26 bp):
TAAAACCCTAAATGAAACCCTAAAAT
Found at i:10522732 original size:38 final size:38
Alignment explanation
Indices: 10522690--10522796 Score: 117
Period size: 38 Copynumber: 2.8 Consensus size: 38
10522680 AGTGAAACCC
* * *
10522690 TAAAATTAAAACCTTAAATGAAACCTTAAATCCTCAAT
1 TAAAATTAAAACCTTAAATGAAACCCTAAAACCCCAAT
*
10522728 TAAAATT-AAACGTTTAAATGAAACCCTAAAACCCCAAT
1 TAAAATTAAAAC-CTTAAATGAAACCCTAAAACCCCAAT
* * *
10522766 TGAAATCCTAAGACCTTAAATGAAACTCTAA
1 TAAAAT--TAAAACCTTAAATGAAACCCTAA
10522797 GTAAAACCCT
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
37 4 0.07
38 34 0.60
40 16 0.28
41 3 0.05
ACGTcount: A:0.49, C:0.20, G:0.06, T:0.26
Consensus pattern (38 bp):
TAAAATTAAAACCTTAAATGAAACCCTAAAACCCCAAT
Done.