Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 57 of 113
Found at i:14218289 original size:22 final size:22
Alignment explanation
Indices: 14218264--14218388 Score: 110
Period size: 22 Copynumber: 5.7 Consensus size: 22
14218254 ACTACAATGC
* *
14218264 TATCAATGGTTTACTCTTAAAT
1 TATCAATGATTTACTATTAAAT
* * *
14218286 TATCATTGATTTACTATTGATT
1 TATCAATGATTTACTATTAAAT
*
14218308 TATAAATGATTTACTATTAAAT
1 TATCAATGATTTACTATTAAAT
** *
14218330 TATTGATGATTTATTA-TAAAT
1 TATCAATGATTTACTATTAAAT
* *
14218351 TAT-AATTGATTTATTATTAATT
1 TATCAA-TGATTTACTATTAAAT
* *
14218373 TATCGATAATTTACTA
1 TATCAATGATTTACTA
14218389 CAAAGTTATT
Statistics
Matches: 83, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
20 1 0.01
21 18 0.22
22 63 0.76
23 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.07, T:0.50
Consensus pattern (22 bp):
TATCAATGATTTACTATTAAAT
Found at i:14218351 original size:21 final size:20
Alignment explanation
Indices: 14218307--14218372 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 20
14218297 TACTATTGAT
*
14218307 TTATAAATGATTTACTATTAAA
1 TTAT-AATGATTTATTA-TAAA
*
14218329 TTATTGATGATTTATTATAAA
1 TTA-TAATGATTTATTATAAA
*
14218350 TTATAATTGATTTATTATTAA
1 TTATAA-TGATTTATTATAAA
14218371 TT
1 TT
14218373 TATCGATAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
20 2 0.05
21 22 0.58
22 13 0.34
23 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (20 bp):
TTATAATGATTTATTATAAA
Found at i:14218437 original size:22 final size:22
Alignment explanation
Indices: 14218411--14218628 Score: 129
Period size: 22 Copynumber: 9.9 Consensus size: 22
14218401 TAATTAACTA
14218411 ATTTACTACTAAATTATCATTG
1 ATTTACTACTAAATTATCATTG
**
14218433 ATTTAAAACTAAATTATCACTT-
1 ATTTACTACTAAATTATCA-TTG
* *
14218455 ATTTACAACTAAATTATTATTG
1 ATTTACTACTAAATTATCATTG
* * *
14218477 ATTTACTACTATATTTTTAGTT-
1 ATTTACTACTAAATTATCA-TTG
* * * *
14218499 ATTTACTACTAAGTTATTAATA
1 ATTTACTACTAAATTATCATTG
* * * *
14218521 ATTTATTTCTAAATAATCAATG
1 ATTTACTACTAAATTATCATTG
* ** *
14218543 ATTTACTATTATGTTATTA-TG
1 ATTTACTACTAAATTATCATTG
* * **
14218564 TTTTTACTATTATGTTATCATTG
1 -ATTTACTACTAAATTATCATTG
* *
14218587 ATTTACTACTTAAATTTTTAATT-
1 ATTTACTAC-TAAA-TTATCATTG
*
14218610 ATTTACTACGAAATTATCA
1 ATTTACTACTAAATTATCA
14218629 AAAATGTATT
Statistics
Matches: 153, Mismatches: 35, Indels: 17
0.75 0.17 0.08
Matches are distributed among these distances:
21 9 0.06
22 121 0.79
23 17 0.11
24 6 0.04
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.50
Consensus pattern (22 bp):
ATTTACTACTAAATTATCATTG
Found at i:14218525 original size:66 final size:66
Alignment explanation
Indices: 14218440--14218618 Score: 155
Period size: 66 Copynumber: 2.7 Consensus size: 66
14218430 TTGATTTAAA
* * * * *
14218440 ACTAAATTATCACTTATTTACAACTAAATTATTATTGATTTACTACTATATTTTTA-GTTATTTA
1 ACTAAGTTATCAATAATTTACTACTAAATTATTATTGATTTACTACTATATTATTATGTT-TTTA
14218504 CT
65 CT
* * * * * * * *
14218506 ACTAAGTTATTAATAATTTATTTCTAAATAATCAATGATTTACTATTATGTTATTATGTTTTTAC
1 ACTAAGTTATCAATAATTTACTACTAAATTATTATTGATTTACTACTATATTATTATGTTTTTAC
14218571 T
66 T
* * * * *
14218572 ATTATGTTATCATTGATTTACTACTTAAATTTTTAATT-ATTTACTAC
1 ACTAAGTTATCAATAATTTACTAC-TAAATTATT-ATTGATTTACTAC
14218619 GAAATTATCA
Statistics
Matches: 85, Mismatches: 25, Indels: 5
0.74 0.22 0.04
Matches are distributed among these distances:
66 66 0.78
67 17 0.20
68 2 0.02
ACGTcount: A:0.34, C:0.10, G:0.04, T:0.51
Consensus pattern (66 bp):
ACTAAGTTATCAATAATTTACTACTAAATTATTATTGATTTACTACTATATTATTATGTTTTTAC
T
Found at i:14218685 original size:22 final size:22
Alignment explanation
Indices: 14218660--14218744 Score: 84
Period size: 22 Copynumber: 3.9 Consensus size: 22
14218650 ACTAATTTTG
*
14218660 ATTTACTATTAAGTTATTACTA
1 ATTTACTATTAAGTTATCACTA
*
14218682 ATTTACTATTAAGTTATCATTA
1 ATTTACTATTAAGTTATCACTA
* *
14218704 ATTTA-TCATTATA-TTATCAATT
1 ATTTACT-ATTA-AGTTATCACTA
* *
14218726 ATTAACTACTAAGTTATCA
1 ATTTACTATTAAGTTATCA
14218745 TTTAATTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
21 2 0.04
22 49 0.92
23 2 0.04
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.48
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCACTA
Found at i:14219082 original size:22 final size:23
Alignment explanation
Indices: 14219057--14219118 Score: 78
Period size: 22 Copynumber: 2.8 Consensus size: 23
14219047 TAGTATGTTG
*
14219057 TCAATTG-TTTACTACTAACTTA
1 TCAATTGATTTACTACTAAATTA
14219079 TCAA-TGATTTACTACTAAATTA
1 TCAATTGATTTACTACTAAATTA
14219101 T--ATATGATTTACTACTAA
1 TCAAT-TGATTTACTACTAA
14219119 TTTTTGAATG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
20 1 0.03
21 2 0.06
22 33 0.92
ACGTcount: A:0.37, C:0.15, G:0.05, T:0.44
Consensus pattern (23 bp):
TCAATTGATTTACTACTAAATTA
Found at i:14219129 original size:22 final size:21
Alignment explanation
Indices: 14219064--14219133 Score: 86
Period size: 22 Copynumber: 3.2 Consensus size: 21
14219054 TTGTCAATTG
*
14219064 TTTACTACTAACTTATCAATGA
1 TTTACTACTAAATTAT-AATGA
14219086 TTTACTACTAAATTATATATGA
1 TTTACTACTAAATTATA-ATGA
* *
14219108 TTTACTACTAATTTTTGAATGA
1 TTTACTACTAAATTAT-AATGA
14219130 TTTA
1 TTTA
14219134 ACATTAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
21 1 0.02
22 41 0.95
23 1 0.02
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.47
Consensus pattern (21 bp):
TTTACTACTAAATTATAATGA
Found at i:14219172 original size:22 final size:22
Alignment explanation
Indices: 14219147--14219205 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
14219137 TTAAAATTAG
*
14219147 TTACCATTAAGTTATGGAT-AA
1 TTACAATTAAGTTATGGATGAA
* * *
14219168 TTTACAATTAAATTGTTGATGAA
1 -TTACAATTAAGTTATGGATGAA
*
14219191 TTACTATTAAGTTAT
1 TTACAATTAAGTTAT
14219206 TAATGATTTA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
22 27 0.93
23 2 0.07
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (22 bp):
TTACAATTAAGTTATGGATGAA
Found at i:14219211 original size:22 final size:22
Alignment explanation
Indices: 14219186--14219227 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
14219176 TAAATTGTTG
*
14219186 ATGAATTACTATTAAGTTATTA
1 ATGAATTACTATAAAGTTATTA
* *
14219208 ATGATTTATTATAAAGTTAT
1 ATGAATTACTATAAAGTTAT
14219228 AACTAATTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (22 bp):
ATGAATTACTATAAAGTTATTA
Found at i:14219331 original size:22 final size:21
Alignment explanation
Indices: 14219306--14219369 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 21
14219296 AATTATCATC
14219306 AATTTATAACTAAATTATTAGT
1 AATTTAT-ACTAAATTATTAGT
*
14219328 AATTTATGACTACATTATTAGT
1 AATTTAT-ACTAAATTATTAGT
*
14219350 AATTTACTACTAAGTTATTA
1 AATTTA-TACTAAATTATTA
14219370 CTTCTAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
22 36 0.97
23 1 0.03
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (21 bp):
AATTTATACTAAATTATTAGT
Found at i:14219334 original size:11 final size:11
Alignment explanation
Indices: 14219306--14219371 Score: 53
Period size: 11 Copynumber: 6.0 Consensus size: 11
14219296 AATTATCATC
*
14219306 AATTTATAACT
1 AATTTATTACT
* *
14219317 AAATTATTAGT
1 AATTTATTACT
*
14219328 AATTTATGACT
1 AATTTATTACT
*
14219339 ACA-TTATTAGT
1 A-ATTTATTACT
*
14219350 AATTTACTACT
1 AATTTATTACT
*
14219361 AAGTTATTACT
1 AATTTATTACT
14219372 TCTAAATTAT
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
10 1 0.02
11 39 0.95
12 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.45
Consensus pattern (11 bp):
AATTTATTACT
Found at i:14219519 original size:22 final size:22
Alignment explanation
Indices: 14219426--14219632 Score: 118
Period size: 22 Copynumber: 9.5 Consensus size: 22
14219416 CTATATTACC
* *
14219426 ATTAATTTACTATTTAATTTTTT
1 ATTAATTTACTA-TTAAGTTATT
* *
14219449 ATT-ATTTACTATAAAATTATT
1 ATTAATTTACTATTAAGTTATT
** * * *
14219470 AACAATTTACTACTAAATTATCC
1 ATTAATTTACTATTAAGTTAT-T
14219493 A-TAATTTACTATTAAGTTATT
1 ATTAATTTACTATTAAGTTATT
* * *
14219514 ATTAATTAACTATTGAGTTATC
1 ATTAATTTACTATTAAGTTATT
* * *
14219536 AATGATATACTATTAAGTTA-T
1 ATTAATTTACTATTAAGTTATT
* *
14219557 ATTGATTTACTTTTAAGTT-TCT
1 ATTAATTTACTATTAAGTTAT-T
* ** * *
14219579 AATAATGAACTATTAAATTATCA
1 ATTAATTTACTATTAAGTTAT-T
* *
14219602 ATT-ATTTATTACTAAGTTATT
1 ATTAATTTACTATTAAGTTATT
*
14219623 ATTGATTTAC
1 ATTAATTTAC
14219633 CACTAAATTA
Statistics
Matches: 138, Mismatches: 39, Indels: 15
0.72 0.20 0.08
Matches are distributed among these distances:
21 28 0.20
22 102 0.74
23 8 0.06
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (22 bp):
ATTAATTTACTATTAAGTTATT
Found at i:14219573 original size:65 final size:66
Alignment explanation
Indices: 14219496--14219632 Score: 170
Period size: 65 Copynumber: 2.1 Consensus size: 66
14219486 ATTATCCATA
* * * * *
14219496 ATTTACTATTAAGTTAT-TATTAATTAACTATTGAGTTATCAATGATATACTATTAAGTTA-TAT
1 ATTTACTATTAAGTT-TCTAATAATGAACTATTAAATTATCAATGATATACTACTAAGTTATTAT
14219559 TG
65 TG
* * * *
14219561 ATTTACTTTTAAGTTTCTAATAATGAACTATTAAATTATCAATTATTTATTACTAAGTTATTATT
1 ATTTACTATTAAGTTTCTAATAATGAACTATTAAATTATCAATGATATACTACTAAGTTATTATT
14219626 G
66 G
14219627 ATTTAC
1 ATTTAC
14219633 CACTAAATTA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
64 1 0.02
65 49 0.80
66 11 0.18
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.49
Consensus pattern (66 bp):
ATTTACTATTAAGTTTCTAATAATGAACTATTAAATTATCAATGATATACTACTAAGTTATTATT
G
Found at i:14219796 original size:22 final size:22
Alignment explanation
Indices: 14219771--14219825 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
14219761 GATATCTTTG
*
14219771 ATTTACTACTATATTAGT-ATGC
1 ATTTACTACTATATTA-TAATGA
* * *
14219793 ATTTACAATTATATTATAATTA
1 ATTTACTACTATATTATAATGA
14219815 ATTTACTACTA
1 ATTTACTACTA
14219826 AGTTGTTACG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.47
Consensus pattern (22 bp):
ATTTACTACTATATTATAATGA
Found at i:14219978 original size:21 final size:21
Alignment explanation
Indices: 14219953--14220021 Score: 86
Period size: 21 Copynumber: 3.2 Consensus size: 21
14219943 CATGATTTAC
*
14219953 TATTAAGTTATCAATAATTAT
1 TATTAAGTTATCAATTATTAT
*
14219974 TATTAAGTT-TTAATTATTAAT
1 TATTAAGTTATCAATTATT-AT
*
14219995 TACTAAGTTATCAATTATCTAT
1 TATTAAGTTATCAATTAT-TAT
14220017 TATTA
1 TATTA
14220022 TTTTATTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
20 7 0.17
21 19 0.47
22 13 0.32
23 1 0.03
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.51
Consensus pattern (21 bp):
TATTAAGTTATCAATTATTAT
Found at i:14220018 original size:22 final size:22
Alignment explanation
Indices: 14219859--14220012 Score: 118
Period size: 22 Copynumber: 7.1 Consensus size: 22
14219849 GTTATTACTA
*
14219859 ATTTACTATTAAGTTATCAATT
1 ATTTACTACTAAGTTATCAATT
*** *
14219881 ACGGACTACTAAATTATC-ATT
1 ATTTACTACTAAGTTATCAATT
*
14219902 CATTTACTACTAAATTATC-ATT
1 -ATTTACTACTAAGTTATCAATT
* * *
14219924 CATTTACTACTAAGTGATCCATG
1 -ATTTACTACTAAGTTATCAATT
*
14219947 ATTTACTATTAAGTTATCAA-T
1 ATTTACTACTAAGTTATCAATT
* * * *
14219968 AATTATTATTAAGTT-TTAATT
1 ATTTACTACTAAGTTATCAATT
* *
14219989 ATTAATTACTAAGTTATCAATT
1 ATTTACTACTAAGTTATCAATT
14220011 AT
1 AT
14220013 CTATTATTAT
Statistics
Matches: 106, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
20 3 0.03
21 29 0.27
22 72 0.68
23 2 0.02
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (22 bp):
ATTTACTACTAAGTTATCAATT
Found at i:14221826 original size:109 final size:118
Alignment explanation
Indices: 14221543--14221778 Score: 456
Period size: 118 Copynumber: 2.0 Consensus size: 118
14221533 TCATAAACAT
14221543 ACAAACAATAAAATCATTAACATACATATATCATTAACAAATCAATTAAAACAAAAAATTAAAAG
1 ACAAACAATAAAATCATTAACATACATATATCATTAACAAATCAATTAAAACAAAAAATTAAAAG
*
14221608 GCAAAAATAGAAAAAATAAATATGCTTTGATAAATTAATTATTATTATCTTTA
66 GAAAAAATAGAAAAAATAAATATGCTTTGATAAATTAATTATTATTATCTTTA
14221661 ACAAACAATAAAATCATTAACATACATATATCATTAACAAATCAATTAAAACAAAAAATTAAAAG
1 ACAAACAATAAAATCATTAACATACATATATCATTAACAAATCAATTAAAACAAAAAATTAAAAG
14221726 GAAAAAATA-AAAAAATAAATATGCTTTGATAAATTAATTATTATTATCTTTA
66 GAAAAAATAGAAAAAATAAATATGCTTTGATAAATTAATTATTATTATCTTTA
14221778 A
1 A
14221779 TAAATTATTT
Statistics
Matches: 117, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
117 44 0.38
118 73 0.62
ACGTcount: A:0.57, C:0.10, G:0.04, T:0.30
Consensus pattern (118 bp):
ACAAACAATAAAATCATTAACATACATATATCATTAACAAATCAATTAAAACAAAAAATTAAAAG
GAAAAAATAGAAAAAATAAATATGCTTTGATAAATTAATTATTATTATCTTTA
Found at i:14222356 original size:2 final size:2
Alignment explanation
Indices: 14222349--14222378 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14222339 GTTCACACTC
14222349 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14222379 GTTTCCTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14223975 original size:39 final size:39
Alignment explanation
Indices: 14223920--14224011 Score: 132
Period size: 39 Copynumber: 2.4 Consensus size: 39
14223910 GATTGGATGG
* *
14223920 GGTGAGGA-GGATTGGGTGTGGTGGGGCGTTGGGGGGAA
1 GGTGGGGAGGGATTGGGTGTGGTGGGACGTTGGGGGGAA
*
14223958 GGTGGGGAGGGATTGGGTGTGGTGGGATGTTGGGGGGAA
1 GGTGGGGAGGGATTGGGTGTGGTGGGACGTTGGGGGGAA
* *
14223997 GATGGAGAGGGATTG
1 GGTGGGGAGGGATTG
14224012 ATGGGGTTGG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 7 0.15
39 41 0.85
ACGTcount: A:0.15, C:0.01, G:0.62, T:0.22
Consensus pattern (39 bp):
GGTGGGGAGGGATTGGGTGTGGTGGGACGTTGGGGGGAA
Found at i:14224296 original size:20 final size:20
Alignment explanation
Indices: 14224258--14224295 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14224248 GATTGTATTA
*
14224258 TATATTAATTTATAATTTTG
1 TATATGAATTTATAATTTTG
14224278 TATATGAATTT-TAATTTT
1 TATATGAATTTATAATTTT
14224296 TTTTTGTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TATATGAATTTATAATTTTG
Found at i:14224550 original size:26 final size:26
Alignment explanation
Indices: 14224522--14224570 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
14224512 TAAAAAATAA
*
14224522 AAAATATAGGTTTGAAAA-TTTTATT
1 AAAATATAAGTTTGAAAACTTTTATT
14224547 AAAATATAAGTTTGAAAACTTTTA
1 AAAATATAAGTTTGAAAACTTTTA
14224571 ATTTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (26 bp):
AAAATATAAGTTTGAAAACTTTTATT
Found at i:14227310 original size:15 final size:16
Alignment explanation
Indices: 14227292--14227324 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14227282 AAAAATTAAA
*
14227292 TTATTTTTTATT-TAT
1 TTATTTATTATTATAT
14227307 TTATTTATTATTATAT
1 TTATTTATTATTATAT
14227323 TT
1 TT
14227325 TCAATCGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTATTATTATAT
Found at i:14227994 original size:6 final size:6
Alignment explanation
Indices: 14227983--14228014 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
14227973 GTCCAAATGA
*
14227983 TGATGG TGATGG AGATGG TGATGG TGATGG TG
1 TGATGG TGATGG TGATGG TGATGG TGATGG TG
14228015 TGAATTTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.00, G:0.50, T:0.31
Consensus pattern (6 bp):
TGATGG
Found at i:14228374 original size:18 final size:18
Alignment explanation
Indices: 14228353--14228482 Score: 79
Period size: 18 Copynumber: 7.2 Consensus size: 18
14228343 TCCATATGGT
14228353 TATCATTCACCTCAAATG
1 TATCATTCACCTCAAATG
* * *
14228371 TATCCTCCACCTCTTCAAATA
1 TATCATTCA-C-C-TCAAATG
* *
14228392 TATCCTCCACCTCAAATG
1 TATCATTCACCTCAAATG
* * *
14228410 TATCAGTAACCACAAATG
1 TATCATTCACCTCAAATG
* * * *
14228428 TACCCTCCACCACAAATG
1 TATCATTCACCTCAAATG
*
14228446 TATCA-T--CCTCAAATA
1 TATCATTCACCTCAAATG
14228461 TATCA-TCTACCTCAAATG
1 TATCATTC-ACCTCAAATG
14228479 TATC
1 TATC
14228483 GAGAACAAAG
Statistics
Matches: 86, Mismatches: 20, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
15 13 0.15
18 54 0.63
19 2 0.02
20 2 0.02
21 15 0.17
ACGTcount: A:0.34, C:0.32, G:0.05, T:0.29
Consensus pattern (18 bp):
TATCATTCACCTCAAATG
Found at i:14228390 original size:21 final size:21
Alignment explanation
Indices: 14228364--14228404 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
14228354 ATCATTCACC
*
14228364 TCAAATGTATCCTCCACCTCT
1 TCAAATATATCCTCCACCTCT
14228385 TCAAATATATCCTCCACCTC
1 TCAAATATATCCTCCACCTC
14228405 AAATGTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.39, G:0.02, T:0.32
Consensus pattern (21 bp):
TCAAATATATCCTCCACCTCT
Found at i:14232705 original size:14 final size:14
Alignment explanation
Indices: 14232688--14232720 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
14232678 TTTGACGATT
*
14232688 AAGATTGGATTTTC
1 AAGATTCGATTTTC
14232702 AAGATTCGATTTTC
1 AAGATTCGATTTTC
14232716 AAGAT
1 AAGAT
14232721 ATCCACCGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.39
Consensus pattern (14 bp):
AAGATTCGATTTTC
Found at i:14238428 original size:19 final size:19
Alignment explanation
Indices: 14238391--14238443 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
14238381 TTTATAGTCA
14238391 AATATTAATATTTTAAAATAAT
1 AATATTAATA--TT-AAATAAT
* *
14238413 AATTTTAATATTAAATTAT
1 AATATTAATATTAAATAAT
*
14238432 TATATTAATATT
1 AATATTAATATT
14238444 CTATACTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 16 0.59
20 2 0.07
22 9 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AATATTAATATTAAATAAT
Found at i:14238448 original size:13 final size:13
Alignment explanation
Indices: 14238392--14238453 Score: 54
Period size: 13 Copynumber: 4.5 Consensus size: 13
14238382 TTATAGTCAA
14238392 ATATTAATATTTT
1 ATATTAATATTTT
* *
14238405 AAAATAATAATTTT
1 ATATTAAT-ATTTT
14238419 AATATTAA-ATTATT
1 -ATATTAATATT-TT
*
14238433 ATATTAATATTCT
1 ATATTAATATTTT
14238446 ATACTTAA
1 ATA-TTAA
14238454 AAATACTATT
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
13 20 0.51
14 14 0.36
15 5 0.13
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
ATATTAATATTTT
Found at i:14238608 original size:22 final size:25
Alignment explanation
Indices: 14238572--14238620 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
14238562 CATTAAAATA
14238572 TTTATAATATTAAAATA-GTATTAT
1 TTTATAATATTAAAATATGTATTAT
*
14238596 TTTAT-AT-TTAAAATATTTATTAT
1 TTTATAATATTAAAATATGTATTAT
14238619 TT
1 TT
14238621 AATCATAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 8 0.35
23 10 0.43
24 5 0.22
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
TTTATAATATTAAAATATGTATTAT
Found at i:14239836 original size:2 final size:2
Alignment explanation
Indices: 14239829--14239862 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
14239819 GGATCCAATT
*
14239829 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14239863 CATGCTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14249443 original size:3 final size:3
Alignment explanation
Indices: 14249437--14249472 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
14249427 TCCTCCTCCT
14249437 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCAA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CC-A CCA CC
14249473 TTCTCCTTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.67, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:14250626 original size:29 final size:29
Alignment explanation
Indices: 14250594--14250653 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
14250584 AAGTAATAAT
*
14250594 AAAATATTAAATAT-ATTATTTAAATTTTA
1 AAAATATTAAATATGA-TATTTAAATTATA
* *
14250623 AAAATTTTTAATATGATATTTAAATTATA
1 AAAATATTAAATATGATATTTAAATTATA
14250652 AA
1 AA
14250654 TTTATTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 26 0.96
30 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (29 bp):
AAAATATTAAATATGATATTTAAATTATA
Found at i:14251455 original size:6 final size:6
Alignment explanation
Indices: 14251444--14251474 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
14251434 ATATGTAGCA
14251444 TTGTGC TTGTGC TTGTGC TTGTGC TTGTGC T
1 TTGTGC TTGTGC TTGTGC TTGTGC TTGTGC T
14251475 GTGAATGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.32, T:0.52
Consensus pattern (6 bp):
TTGTGC
Found at i:14255997 original size:20 final size:20
Alignment explanation
Indices: 14255974--14256012 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14255964 TTTAGGTAAA
14255974 ATTTTGAGAAGGAATTTGAC
1 ATTTTGAGAAGGAATTTGAC
*
14255994 ATTTTGAGAGGGAATTTGA
1 ATTTTGAGAAGGAATTTGA
14256013 GGTTAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.36
Consensus pattern (20 bp):
ATTTTGAGAAGGAATTTGAC
Found at i:14260380 original size:21 final size:21
Alignment explanation
Indices: 14260354--14260409 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
14260344 TAAAAACAAG
14260354 TGTAAAAATATATTATT-ATAA
1 TGTAAAAAT-TATTATTGATAA
* *
14260375 TGTAAATAATTA-AATTGGTAA
1 TGTAAA-AATTATTATTGATAA
14260396 TGTAAAAATTATTA
1 TGTAAAAATTATTA
14260410 CTATTAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 8 0.28
21 18 0.62
22 3 0.10
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (21 bp):
TGTAAAAATTATTATTGATAA
Found at i:14270210 original size:30 final size:30
Alignment explanation
Indices: 14270176--14270234 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
14270166 TGATAATTTC
14270176 GGCAGTTAGATATGAAATAGATAAGGTCCT
1 GGCAGTTAGATATGAAATAGATAAGGTCCT
14270206 GGCAGTTAGATATGAAATAGATAAGGTCC
1 GGCAGTTAGATATGAAATAGATAAGGTCC
14270235 GGTTTGGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.25
Consensus pattern (30 bp):
GGCAGTTAGATATGAAATAGATAAGGTCCT
Found at i:14274505 original size:2 final size:2
Alignment explanation
Indices: 14274498--14274528 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14274488 ACTTTATGGC
14274498 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14274529 AAGGGTATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14282485 original size:3 final size:3
Alignment explanation
Indices: 14282479--14282520 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
14282469 TATTATTTTG
14282479 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14282521 AATTATATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:14282625 original size:14 final size:15
Alignment explanation
Indices: 14282586--14282626 Score: 59
Period size: 14 Copynumber: 2.8 Consensus size: 15
14282576 TTGATTAGGG
14282586 TTTATTTATT-TAAA
1 TTTATTTATTATAAA
14282600 TTTATTTGATTAT-AA
1 TTTATTT-ATTATAAA
14282615 TTTATTTATTAT
1 TTTATTTATTAT
14282627 TTATGAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 12 0.48
15 12 0.48
16 1 0.04
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (15 bp):
TTTATTTATTATAAA
Found at i:14282653 original size:26 final size:27
Alignment explanation
Indices: 14282614--14282671 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 27
14282604 TTTGATTATA
* *
14282614 ATTTATTTATTATTTATGAATATATTT
1 ATTTATGTATTATTTATGAATATATTC
*
14282641 ATTTATGTA-TATTTTTGAATATATTC
1 ATTTATGTATTATTTATGAATATATTC
14282667 ATTTA
1 ATTTA
14282672 ATATTTATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 20 0.71
27 8 0.29
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (27 bp):
ATTTATGTATTATTTATGAATATATTC
Found at i:14285812 original size:4 final size:4
Alignment explanation
Indices: 14285803--14285833 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
14285793 TGGTATTATC
14285803 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
14285834 GGATACCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:14289347 original size:23 final size:23
Alignment explanation
Indices: 14289285--14289347 Score: 54
Period size: 28 Copynumber: 2.5 Consensus size: 23
14289275 ACCACCTAAA
* *
14289285 ATACATAACTTCATTTGGTTTGCT
1 ATACA-AAATTCATTTGGATTGCT
14289309 ATACAAAATCGTATTCATTTGGATTGCT
1 ATAC-AAA----ATTCATTTGGATTGCT
14289337 ATACAAAATTC
1 ATACAAAATTC
14289348 TATTCCTACA
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
23 4 0.12
24 6 0.19
25 1 0.03
27 3 0.09
28 18 0.56
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (23 bp):
ATACAAAATTCATTTGGATTGCT
Found at i:14290454 original size:2 final size:2
Alignment explanation
Indices: 14290447--14290490 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
14290437 TGGTTGAGCA
*
14290447 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC 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
14290489 AT
1 AT
14290491 TAAGTCTTGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14293455 original size:20 final size:20
Alignment explanation
Indices: 14293432--14293470 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
14293422 AAAGAGATGT
14293432 TGACTTTTATAATGTTGCAG
1 TGACTTTTATAATGTTGCAG
14293452 TGACTTTTATAATGTTGCA
1 TGACTTTTATAATGTTGCA
14293471 TATGTTGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.46
Consensus pattern (20 bp):
TGACTTTTATAATGTTGCAG
Found at i:14294746 original size:33 final size:33
Alignment explanation
Indices: 14294709--14294775 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
14294699 TAGCATGTCA
14294709 GGGATATATCTGGTGTAATTAGATAAGGTGTAT
1 GGGATATATCTGGTGTAATTAGATAAGGTGTAT
14294742 GGGATATATCTGGTGTAATTAGATAAGGTGTAT
1 GGGATATATCTGGTGTAATTAGATAAGGTGTAT
14294775 G
1 G
14294776 TTAACTGCTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.03, G:0.31, T:0.36
Consensus pattern (33 bp):
GGGATATATCTGGTGTAATTAGATAAGGTGTAT
Found at i:14295485 original size:18 final size:18
Alignment explanation
Indices: 14295459--14295512 Score: 90
Period size: 18 Copynumber: 2.9 Consensus size: 18
14295449 AAAAATAAAA
14295459 AGAAGAAAAATTGGAAAAGG
1 AGAA-AAAAA-TGGAAAAGG
14295479 AGAAAAAAATGGAAAAGG
1 AGAAAAAAATGGAAAAGG
14295497 AGAAAAAAATGGAAAA
1 AGAAAAAAATGGAAAA
14295513 TATTTTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 25 0.74
19 5 0.15
20 4 0.12
ACGTcount: A:0.67, C:0.00, G:0.26, T:0.07
Consensus pattern (18 bp):
AGAAAAAAATGGAAAAGG
Found at i:14297716 original size:2 final size:2
Alignment explanation
Indices: 14297711--14297740 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14297701 ACATACACAC
14297711 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14297741 GAAAAGGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14300196 original size:11 final size:11
Alignment explanation
Indices: 14300180--14300204 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14300170 AAATTTGTTA
14300180 AAAAAAAAAAG
1 AAAAAAAAAAG
14300191 AAAAAAAAAAG
1 AAAAAAAAAAG
14300202 AAA
1 AAA
14300205 GAGACAGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:14302911 original size:3 final size:3
Alignment explanation
Indices: 14302903--14302953 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
14302893 TTTGTATTGA
14302903 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14302951 TAT
1 TAT
14302954 ATTTTTTTCT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:14303155 original size:23 final size:23
Alignment explanation
Indices: 14303128--14303176 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
14303118 AATTCAATTG
14303128 AAAATTTGAG-ATTTGAATCTAAA
1 AAAATTT-AGTATTTGAATCTAAA
*
14303151 AAAATTTAGTATTTGAATCTTAA
1 AAAATTTAGTATTTGAATCTAAA
14303174 AAA
1 AAA
14303177 GTTCTATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 2 0.08
23 22 0.92
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.37
Consensus pattern (23 bp):
AAAATTTAGTATTTGAATCTAAA
Found at i:14304482 original size:3 final size:3
Alignment explanation
Indices: 14304474--14304511 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
14304464 GATAAACATT
*
14304474 TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
14304512 TTTATAAGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:14306654 original size:9 final size:9
Alignment explanation
Indices: 14306636--14306665 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
14306626 TTGATATAAC
14306636 TATT-AAAA
1 TATTAAAAA
14306644 TATTAAAAA
1 TATTAAAAA
14306653 TATTAAAAA
1 TATTAAAAA
14306662 TATT
1 TATT
14306666 TATTTTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.19
9 17 0.81
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
TATTAAAAA
Found at i:14306749 original size:19 final size:20
Alignment explanation
Indices: 14306722--14306765 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
14306712 TAGTAATAGT
* *
14306722 TTAATAATAATAT-TTCATA
1 TTAAAAATAATATATTAATA
*
14306741 TTAAAAATATTATATTAATA
1 TTAAAAATAATATATTAATA
14306761 TTAAA
1 TTAAA
14306766 TACTTGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
TTAAAAATAATATATTAATA
Found at i:14307331 original size:72 final size:73
Alignment explanation
Indices: 14307228--14307981 Score: 472
Period size: 72 Copynumber: 10.5 Consensus size: 73
14307218 TATGTTTCTT
* * * * * **
14307228 GTTTCAATATCCATTATATTTATTATTTTAAAAACCTGATCTTCATTAAAATTTCAAAATTTTGA
1 GTTTCAACATCCATTATTTTTTTTATCTTAAAAACATGATCTTTGTTAAAATTTCAAAATTTTGA
14307293 AAATATAA
66 AAATATAA
* * * *
14307301 -TTTCAACATTCATTATTTTTTTTATCTTAAAAACATGATCTTTGTTAAATTTTTAGAATTTTGA
1 GTTTCAACATCCATTATTTTTTTTATCTTAAAAACATGATCTTTGTTAAAATTTCAAAATTTTGA
14307365 AAATATATA
66 AAATATA-A
* ** * ** *
14307374 GTTTCAACATTCATTATGTTTCCTTATATTAAAAATGTGATTTTTTGTTAAAATTT-AATAATTT
1 GTTTCAACATCCATTAT-TTTTTTTATCTTAAAAACATGA-TCTTTGTTAAAATTTCAA-AATTT
* *
14307438 TGAAAACAAAA
63 TGAAAATATAA
* ** * * *
14307449 GTTTCAATATCCATTACCTTTTTTATCTTAAAAGCATGGTCTTTATTAAAA-TTCTAAAA-TTTG
1 GTTTCAACATCCATTATTTTTTTTATCTTAAAAACATGATCTTTGTTAAAATTTC-AAAATTTTG
14307512 AAAA-ATAAA
65 AAAATAT-AA
** * * * *
14307521 GTTTCAACATTTACTATATTTTTTAT-TTAAAAAACAT-ATCTTTGTTAAAATTTTAGAATTTTG
1 GTTTCAACATCCATTATTTTTTTTATCTT-AAAAACATGATCTTTGTTAAAATTTCAAAATTTTG
14307584 AAAATA-AA
65 AAAATATAA
* * * *
14307592 ATTTCAACATCCACTATATATATATATATTTATTTTAAAAACATAATCTATGTTAAAATTTC-AA
1 GTTTCAACATCCA-T-TAT-T-T-T-T-TTTATCTTAAAAACATGATCTTTGTTAAAATTTCAAA
*
14307656 ATTTTCAAAA-ATATA
59 ATTTTGAAAATATA-A
* ** * * *
14307671 GTTTTAACATCCGA-TACATTTTTT-TCTTTAAAA-ATGTTGTACTTGTTAAAATTT-AACAATT
1 GTTTCAACATCC-ATTATTTTTTTTATCTTAAAAACATGATCT--TTGTTAAAATTTCAA-AATT
**
14307732 TAAAAAATA-AA
62 TTGAAAATATAA
* * * * * * *
14307743 GTTTCTATATCCACTATATTTCTTATCTT------A--ATCTTTGTTAAAATTTCATAATTTTAA
1 GTTTCAACATCCATTATTTTTTTTATCTTAAAAACATGATCTTTGTTAAAATTTCAAAATTTTGA
14307800 AAATA-AA
66 AAATATAA
* * * * * * *
14307807 ATTTTAGCATCCACTA-TATTTTTATCTTAAAAAACA--ATATTTGTTAAAATTTTAAAATTTTG
1 GTTTCAACATCCATTATTTTTTTTATCTT-AAAAACATGATCTTTGTTAAAATTTCAAAATTTTG
14307869 AAAATA-AA
65 AAAATATAA
** ** * * *
14307877 GTTTCAACATTTATTATATTTTTTTATCTTAAAAATGTGGTTTTTGTTAAAATTTTAAAATTTT-
1 GTTTCAACATCCATTAT-TTTTTTTATCTTAAAAACATGATCTTTGTTAAAATTTCAAAATTTTG
*
14307941 AAAAAATAA
65 AAAATATAA
* * *
14307950 -TTTCAATATCCACTA-TATTTTTATCTTAAAAA
1 GTTTCAACATCCATTATTTTTTTTATCTTAAAAA
14307982 TACAGTATTT
Statistics
Matches: 532, Mismatches: 105, Indels: 91
0.73 0.14 0.12
Matches are distributed among these distances:
63 9 0.02
64 37 0.07
65 1 0.00
66 2 0.00
68 1 0.00
70 61 0.11
71 42 0.08
72 169 0.32
73 57 0.11
74 34 0.06
75 35 0.07
76 27 0.05
77 4 0.01
78 24 0.05
79 28 0.05
80 1 0.00
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (73 bp):
GTTTCAACATCCATTATTTTTTTTATCTTAAAAACATGATCTTTGTTAAAATTTCAAAATTTTGA
AAATATAA
Found at i:14307785 original size:64 final size:63
Alignment explanation
Indices: 14307713--14307836 Score: 178
Period size: 64 Copynumber: 2.0 Consensus size: 63
14307703 AATGTTGTAC
* *
14307713 TTGTTAAAATTTAACAATTTAAAAAATAAAGTTTCTA-TATCCACTATATTTCTTATCTTAATCT
1 TTGTTAAAATTTAACAATTTAAAAAATAAAATTT-TAGCATCCACTATATTT-TTATCTTAATCT
* * *
14307777 TTGTTAAAATTTCATAATTTTAAAAATAAAATTTTAGCATCCACTATATTTTTATCTTAA
1 TTGTTAAAATTTAACAATTTAAAAAATAAAATTTTAGCATCCACTATATTTTTATCTTAA
14307837 AAAACAATAT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
63 11 0.20
64 43 0.80
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.46
Consensus pattern (63 bp):
TTGTTAAAATTTAACAATTTAAAAAATAAAATTTTAGCATCCACTATATTTTTATCTTAATCT
Found at i:14307873 original size:70 final size:70
Alignment explanation
Indices: 14307776--14308000 Score: 256
Period size: 70 Copynumber: 3.2 Consensus size: 70
14307766 TATCTTAATC
* * * *
14307776 TTTGTTAAAATTTCATAATTTTAAAAATAAAATTTTAGCATCCACTATATTTTTATCTTAAAAA-
1 TTTGTTAAAATTTTAAAATTTT-AAAATAAAATTTCAACATCCACTATATTTTTATCTTAAAAAT
*
14307840 ACAATA
65 ACAGTA
* ** *
14307846 TTTGTTAAAATTTTAAAATTTTGAAAATAAAGTTTCAACATTTATTATATTTTTTTATCTTAAAA
1 TTTGTTAAAATTTTAAAATTTT-AAAATAAAATTTCAACATCCACTATA--TTTTTATCTTAAAA
*** *
14307911 ATGTGGTT
63 ATACAGTA
*
14307919 TTTGTTAAAATTTTAAAATTTTAAAA-AATAATTTCAATATCCACTATATTTTTATCTTAAAAAT
1 TTTGTTAAAATTTTAAAATTTTAAAATAA-AATTTCAACATCCACTATATTTTTATCTTAAAAAT
14307983 ACAGTA
65 ACAGTA
*
14307989 TTTGTTGAAATT
1 TTTGTTAAAATT
14308001 ATGAATACTA
Statistics
Matches: 127, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
70 69 0.54
71 2 0.02
72 33 0.26
73 23 0.18
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (70 bp):
TTTGTTAAAATTTTAAAATTTTAAAATAAAATTTCAACATCCACTATATTTTTATCTTAAAAATA
CAGTA
Found at i:14315906 original size:2 final size:2
Alignment explanation
Indices: 14315899--14315924 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14315889 TAGAAAAGTT
14315899 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
14315925 CACATTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14317705 original size:23 final size:22
Alignment explanation
Indices: 14317673--14317746 Score: 67
Period size: 26 Copynumber: 3.0 Consensus size: 22
14317663 AAATAATATT
14317673 AATATAATTATTAAAATATTAAA
1 AATAT-ATTATTAAAATATTAAA
14317696 AATGATATTATTAAAGTATATTGAAA
1 AAT-ATATTATTAAA--ATATT-AAA
* *
14317722 TTATTTATTATTAAAATTATTAAA
1 -AATATATTATTAAAA-TATTAAA
14317746 A
1 A
14317747 TTAAAAATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
23 12 0.29
24 6 0.14
25 9 0.21
26 13 0.31
27 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (22 bp):
AATATATTATTAAAATATTAAA
Found at i:14317845 original size:20 final size:19
Alignment explanation
Indices: 14317820--14317857 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
14317810 TATTACTCTT
14317820 TATATTATTTATTAATAAAA
1 TATATTA-TTATTAATAAAA
*
14317840 TATATTATTATTTATAAA
1 TATATTATTATTAATAAA
14317858 TAAAATTATA
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TATATTATTATTAATAAAA
Found at i:14318769 original size:21 final size:22
Alignment explanation
Indices: 14318741--14318803 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 22
14318731 TTCTTCTTTG
14318741 TATT-TTATGTATTCTATTA-T
1 TATTATTATGTATTCTATTATT
14318761 TATTATTATGTATATCT-TTATT
1 TATTATTATGTAT-TCTATTATT
*
14318783 TATTTATTATTGTATTTTATT
1 TA-TTATTA-TGTATTCTATT
14318804 TATACAGTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
20 4 0.11
21 11 0.31
22 6 0.17
23 8 0.22
24 7 0.19
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.67
Consensus pattern (22 bp):
TATTATTATGTATTCTATTATT
Found at i:14318984 original size:47 final size:46
Alignment explanation
Indices: 14318906--14318995 Score: 112
Period size: 47 Copynumber: 1.9 Consensus size: 46
14318896 TAATTCTATC
14318906 TTTCTTTTCTCGAATTATCTGATATTATTTTTAATTTTTAATTTTTGAT
1 TTTCTTTTCTC-AATTATCTGATATTATTTTT-A-TTTTAATTTTTGAT
* *
14318955 TTTCTTTTCT-AATTATCT-AGTTTTTTTTTTATTTTAATTTT
1 TTTCTTTTCTCAATTATCTGA-TATTATTTTTATTTTAATTTT
14318996 GGAGGGCTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
45 10 0.26
46 2 0.05
47 16 0.42
49 10 0.26
ACGTcount: A:0.20, C:0.08, G:0.04, T:0.68
Consensus pattern (46 bp):
TTTCTTTTCTCAATTATCTGATATTATTTTTATTTTAATTTTTGAT
Found at i:14319337 original size:19 final size:19
Alignment explanation
Indices: 14319313--14319349 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
14319303 CAGTTTTCGG
14319313 TTGAATTTTCCGGCGAAAC
1 TTGAATTTTCCGGCGAAAC
14319332 TTGAATTTTCCGGCGAAA
1 TTGAATTTTCCGGCGAAA
14319350 TCTCCGGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (19 bp):
TTGAATTTTCCGGCGAAAC
Found at i:14319414 original size:20 final size:20
Alignment explanation
Indices: 14319391--14319434 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
14319381 TGCCCAGTTT
14319391 CCGGCGAAGAATCCCAGAAA
1 CCGGCGAAGAATCCCAGAAA
**
14319411 CCGGCGACTAATCCCAGAAA
1 CCGGCGAAGAATCCCAGAAA
14319431 CCGG
1 CCGG
14319435 TGAACTTCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.34, G:0.25, T:0.07
Consensus pattern (20 bp):
CCGGCGAAGAATCCCAGAAA
Found at i:14319474 original size:19 final size:20
Alignment explanation
Indices: 14319450--14319496 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
14319440 TTCCGGCGAA
*
14319450 ATTCCGGCTAA-ATTTCCAG
1 ATTCCGGCGAATATTTCCAG
*
14319469 ATTCCGGCGAATTTTTCCAG
1 ATTCCGGCGAATATTTCCAG
*
14319489 AATCCGGC
1 ATTCCGGC
14319497 ACCGGTGTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (20 bp):
ATTCCGGCGAATATTTCCAG
Found at i:14319859 original size:8 final size:8
Alignment explanation
Indices: 14319839--14319870 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
14319829 TTTTTTGAAT
14319839 TTTATTTG
1 TTTATTTG
14319847 TTTTATTTG
1 -TTTATTTG
14319856 TTTATTTG
1 TTTATTTG
14319864 TTTATTT
1 TTTATTT
14319871 TTATTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.78
Consensus pattern (8 bp):
TTTATTTG
Found at i:14319859 original size:17 final size:16
Alignment explanation
Indices: 14319839--14319870 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
14319829 TTTTTTGAAT
14319839 TTTATTTGTTTTATTTG
1 TTTATTTG-TTTATTTG
14319856 TTTATTTGTTTATTT
1 TTTATTTGTTTATTT
14319871 TTATTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.78
Consensus pattern (16 bp):
TTTATTTGTTTATTTG
Found at i:14319957 original size:17 final size:17
Alignment explanation
Indices: 14319937--14319976 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
14319927 TTTGTTTTAC
* *
14319937 TTTTCTTTTTTTATTTT
1 TTTTATTTTTCTATTTT
14319954 TTTTATTTTTCTATTTT
1 TTTTATTTTTCTATTTT
14319971 TCTTTA
1 T-TTTA
14319977 AATAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTATTTTTCTATTTT
Found at i:14319957 original size:23 final size:25
Alignment explanation
Indices: 14319917--14319971 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 25
14319907 ATCTTTATTT
14319917 TATTTTTAGTTTTGTTTTACTTTTC
1 TATTTTTAGTTTTGTTTTACTTTTC
* *
14319942 TTTTTTTA-TTTT-TTTTATTTTTC
1 TATTTTTAGTTTTGTTTTACTTTTC
14319965 TATTTTT
1 TATTTTT
14319972 CTTTAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 16 0.59
24 4 0.15
25 7 0.26
ACGTcount: A:0.11, C:0.05, G:0.04, T:0.80
Consensus pattern (25 bp):
TATTTTTAGTTTTGTTTTACTTTTC
Found at i:14320086 original size:57 final size:57
Alignment explanation
Indices: 14320002--14320273 Score: 406
Period size: 57 Copynumber: 4.7 Consensus size: 57
14319992 AAGTTCCAAA
*
14320002 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* * *
14320059 AAAAAATACTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* *
14320116 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
*
14320173 AAAAAA-AGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTCC
1 AAAAAATA---TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTCC
14320234 AAAAAATA-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
14320274 CTGCAAAAAA
Statistics
Matches: 195, Mismatches: 13, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
56 1 0.01
57 111 0.57
58 32 0.16
59 37 0.19
61 13 0.07
62 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (57 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
Found at i:14330551 original size:15 final size:14
Alignment explanation
Indices: 14330521--14330569 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 14
14330511 AAATTTGAAT
14330521 ATATTTTA-TC-AA
1 ATATTTTATTCAAA
*
14330533 ATATTTTAATTTAAA
1 ATATTTT-ATTCAAA
14330548 ATATTTTATTCAAA
1 ATATTTTATTCAAA
14330562 TATATTTT
1 -ATATTTT
14330570 TTATTTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 7 0.23
13 1 0.03
14 7 0.23
15 16 0.52
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (14 bp):
ATATTTTATTCAAA
Found at i:14330572 original size:27 final size:26
Alignment explanation
Indices: 14330521--14330572 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 26
14330511 AAATTTGAAT
14330521 ATATTTTATCAAATATTTTAATTTAAA
1 ATATTTTATCAAATATTTT-ATTTAAA
14330548 ATATTTTATTCAAATATATTT-TTTA
1 ATATTTTA-TCAAATAT-TTTATTTA
14330573 TTTTTAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
27 12 0.52
28 8 0.35
29 3 0.13
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (26 bp):
ATATTTTATCAAATATTTTATTTAAA
Found at i:14330662 original size:18 final size:17
Alignment explanation
Indices: 14330639--14330672 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
14330629 TAAGTTTTTA
*
14330639 AATTTTCTATTCTTTAAG
1 AATTTTATATT-TTTAAG
14330657 AATTTTATATTTTTAA
1 AATTTTATATTTTTAA
14330673 TTTTAGATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (17 bp):
AATTTTATATTTTTAAG
Found at i:14330856 original size:15 final size:15
Alignment explanation
Indices: 14330832--14330867 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
14330822 TAAATAAAAC
14330832 TTAAAATTTTT-ATT
1 TTAAAATTTTTCATT
14330846 TTAATAATTTTTCATT
1 TTAA-AATTTTTCATT
14330862 TTAAAA
1 TTAAAA
14330868 AAATATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 9 0.45
16 7 0.35
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TTAAAATTTTTCATT
Found at i:14334600 original size:43 final size:42
Alignment explanation
Indices: 14334553--14335048 Score: 213
Period size: 43 Copynumber: 11.6 Consensus size: 42
14334543 TTCTCTATTC
* *
14334553 AGAGGCTAAACAACTTTAAAATAGGGAACGGATTCCTCTAAGT
1 AGAGGCTAAACAACTTTAAAATAGGAAATGG-TTCCTCTAAGT
* * * * *
14334596 AGAGGCTAAACAA-TTT-TAATATGAGAAT-GTGCTCTTTTAGAT
1 AGAGGCTAAACAACTTTAAAATAGGA-AATGGTTC-CTCTAAG-T
* * * * *
14334638 TGAGGCTAAACAAGTTTAAAATAGGAAATGGGCTCCT-TTATT
1 AGAGGCTAAACAACTTTAAAATAGGAAAT-GGTTCCTCTAAGT
* * *
14334680 CAGAGACTAAACAACTTTAAAACAAGAAATGTGTTCCTCTATA-T
1 -AGAGGCTAAACAACTTTAAAATAGGAAATG-GTTCCTCTA-AGT
* * * * * * *
14334724 AGAGGCTAAACAACTTTAAAATATGAAAATAAGCTCTTTTGAGC
1 AGAGGCTAAACAACTTTAAAATA-GGAAAT-GGTTCCTCTAAGT
* * * *
14334768 AAAGACTAAACAACTTTAAAATAGCG-AATGGGCTCCTCTGAGT
1 AGAGGCTAAACAACTTTAAAATAG-GAAAT-GGTTCCTCTAAGT
** ** * *
14334811 -GAGGCTAAATGACTTTAAAATAAAAAATAGGCTCCTCT-ATT
1 AGAGGCTAAACAACTTTAAAATAGGAAAT-GGTTCCTCTAAGT
* * *
14334852 CAAAGGCTAAACAACTTTAAAATAGGAAATGGGCTT-CTTTAAGC
1 -AGAGGCTAAACAACTTTAAAATAGGAAAT-GG-TTCCTCTAAGT
* * * * * * **
14334896 AAAAGCAAAACAACTTTAAAATAAGAAATGAGCTT-ATTTATTT
1 AGAGGCTAAACAACTTTAAAATAGGAAATG-G-TTCCTCTAAGT
* * * * * * **
14334939 AGAAGCTAAACATA-TTTAAACTACGAAATGGGCTCATTTATTT
1 AGAGGCTAAACA-ACTTTAAAATAGGAAAT-GGTTCCTCTAAGT
* * **
14334982 AGAGGCTAAACAACTTTAAAATAGGAAATGAGCTCCTTTATTT
1 AGAGGCTAAACAACTTTAAAATAGGAAATG-GTTCCTCTAAGT
* *
14335025 AAAGGCTAAATAACTTTAAAATAG
1 AGAGGCTAAACAACTTTAAAATAG
14335049 CCTTTTAACC
Statistics
Matches: 353, Mismatches: 74, Indels: 52
0.74 0.15 0.11
Matches are distributed among these distances:
40 2 0.01
41 13 0.04
42 54 0.15
43 237 0.67
44 44 0.12
45 3 0.01
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (42 bp):
AGAGGCTAAACAACTTTAAAATAGGAAATGGTTCCTCTAAGT
Found at i:14334623 original size:85 final size:84
Alignment explanation
Indices: 14334526--14334832 Score: 230
Period size: 85 Copynumber: 3.6 Consensus size: 84
14334516 CCAAATAAAA
* *
14334526 TTAAAATGAGAATGTGCTTCTCTATTCAGAGGCTAAACAACTTTAAAATAGGGAACGGATTCCTC
1 TTAAAATGAGAATGTGCTTCTCTATT-AGAGGCTAAACAACTTTAAAATAGGAAACGGACTCCT-
* *
14334591 TAAGT-AGAGGCTAAACAATT
64 TAAGTCAGAGACTAAACAACT
* * * * *
14334611 TTAATATGAGAATGTGC-TCTTTTAGATT-GAGGCTAAACAAGTTTAAAATAGGAAATGGGCTCC
1 TTAAAATGAGAATGTGCTTC-TCT--ATTAGAGGCTAAACAACTTTAAAATAGGAAACGGACTCC
* *
14334674 TTTATTCAGAGACTAAACAACT
63 TTAAGTCAGAGACTAAACAACT
** * ***
14334696 TTAAAACAAGAAATGTG-TTCCTCTATATAGAGGCTAAACAACTTTAAAATATGAAAATAAGCTC
1 TTAAAATGAG-AATGTGCTT-CTCTAT-TAGAGGCTAAACAACTTTAAAATAGGAAACGGA-CTC
* * *
14334760 TTTTGAG-CAAAGACTAAACAACT
62 -CTTAAGTCAGAGACTAAACAACT
* * * * **
14334783 TTAAAATAGCGAATGGGCTCCTCTGAGT-GAGGCTAAATGACTTTAAAATA
1 TTAAAAT-GAGAATGTGCTTCTCT-ATTAGAGGCTAAACAACTTTAAAATA
14334833 AAAAATAGGC
Statistics
Matches: 175, Mismatches: 33, Indels: 27
0.74 0.14 0.11
Matches are distributed among these distances:
84 7 0.04
85 70 0.40
86 54 0.31
87 38 0.22
88 6 0.03
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (84 bp):
TTAAAATGAGAATGTGCTTCTCTATTAGAGGCTAAACAACTTTAAAATAGGAAACGGACTCCTTA
AGTCAGAGACTAAACAACT
Found at i:14334717 original size:128 final size:130
Alignment explanation
Indices: 14334526--14335049 Score: 316
Period size: 129 Copynumber: 4.1 Consensus size: 130
14334516 CCAAATAAAA
* * * * * * * *
14334526 TTAAAAT-GAGAATGTGCTTCTCTATTCAGAGGCTAAACAACTTTAAAATAGGGAACGGATTCCT
1 TTAAAATAGCGAATGGGCTCCTTTATTCAGAGACTAAACAACTTTAAAACAAGAAACGGATTCCT
* * ** * *
14334590 CTA-AGTAGAGGCTAAACAA-TTT-TAATATGAGAATGTGCTCTTTT-AG-ATTGAGGCTAAACA
66 CTATA-TAGAGGCTAAACAACTTTAAAATATGAAAATAAGCTCTTTTGAGCA--AAGACTAAACA
*
14334650 AGT
128 ACT
*
14334653 TTAAAATAG-GAAATGGGCTCCTTTATTCAGAGACTAAACAACTTTAAAACAAGAAATGTG-TTC
1 TTAAAATAGCG-AATGGGCTCCTTTATTCAGAGACTAAACAACTTTAAAACAAGAAACG-GATTC
14334716 CTCTATATAGAGGCTAAACAACTTTAAAATATGAAAATAAGCTCTTTTGAGCAAAGACTAAACAA
64 CTCTATATAGAGGCTAAACAACTTTAAAATATGAAAATAAGCTCTTTTGAGCAAAGACTAAACAA
14334781 CT
129 CT
* * * ** * * * *
14334783 TTAAAATAGCGAATGGGCTCCTCTGAGT--GAGGCTAAATGACTTTAAAATAAAAAATAGG-CTC
1 TTAAAATAGCGAATGGGCTCCT-TTATTCAGAGACTAAACAACTTTAAAACAAGAAA-CGGATTC
* * ** * *
14334845 CTCTAT-TCAAAGGCTAAACAACTTTAAAATA-GGAAATGGGCT-TCTTTAAGCAAA-AGCAAAA
64 CTCTATAT-AGAGGCTAAACAACTTTAAAATATGAAAATAAGCTCT-TTTGAGCAAAGA-CTAAA
14334906 CAACT
126 CAACT
* * ** * * * **
14334911 TTAAAATAAG-AAATGAGCTTATTTATTTAGA-AGCTAAACATA-TTT-AAACTACGAAATGGGC
1 TTAAAAT-AGCGAATGGGCTCCTTTATTCAGAGA-CTAAACA-ACTTTAAAAC-AAGAAACGGAT
* * * * * * ** *
14334972 TCATTTATTTAGAGGCTAAACAACTTTAAAATA-GGAAATGAGCTCCTTT-ATTTAAAGGCTAAA
62 TCCTCTATATAGAGGCTAAACAACTTTAAAATATGAAAATAAGCTCTTTTGA-GCAAAGACTAAA
*
14335035 TAACT
126 CAACT
14335040 TTAAAATAGC
1 TTAAAATAGC
14335050 CTTTTAACCA
Statistics
Matches: 318, Mismatches: 53, Indels: 50
0.76 0.13 0.12
Matches are distributed among these distances:
127 13 0.04
128 112 0.35
129 134 0.42
130 52 0.16
131 6 0.02
132 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (130 bp):
TTAAAATAGCGAATGGGCTCCTTTATTCAGAGACTAAACAACTTTAAAACAAGAAACGGATTCCT
CTATATAGAGGCTAAACAACTTTAAAATATGAAAATAAGCTCTTTTGAGCAAAGACTAAACAACT
Found at i:14334743 original size:86 final size:86
Alignment explanation
Indices: 14334639--14335045 Score: 337
Period size: 86 Copynumber: 4.7 Consensus size: 86
14334629 CTTTTAGATT
* * *
14334639 GAGGCTAAACAAGTTTAAAATAGGAAATGGGCTCCTTTATTCAGAGACTAAACAACTTTAAAACA
1 GAGGCTAAACAACTTTAAAATAGGAAATGAGCTCCTTTATTCAAAGACTAAACAACTTTAAAACA
* *
14334704 AGAAATGTGTTCCTCTATATA
66 AGAAATGGGCTCCTCTATATA
* * * *
14334725 GAGGCTAAACAACTTTAAAATATGAAAATAAGCTCTTTTGA-GCAAAGACTAAACAACTTTAAAA
1 GAGGCTAAACAACTTTAAAATA-GGAAATGAGCTCCTTT-ATTCAAAGACTAAACAACTTTAAAA
* * *
14334789 -TAGCGAATGGGCTCCTCTGA-GT-
64 CAAG-AAATGGGCTCCTCT-ATATA
** ** * * *
14334811 GAGGCTAAATGACTTTAAAATAAAAAAT-AGGCTCCTCTATTCAAAGGCTAAACAACTTTAAAAT
1 GAGGCTAAACAACTTTAAAATAGGAAATGA-GCTCCTTTATTCAAAGACTAAACAACTTTAAAAC
* * * *
14334875 AGGAAATGGGCTTCTTTA-AGCA
65 AAGAAATGGGCTCCTCTATA-TA
* * * * ** *
14334897 AAAGCAAAACAACTTTAAAATAAGAAATGAGCTTATTTATTTAGAAG-CTAAACATA-TTT-AAA
1 GAGGCTAAACAACTTTAAAATAGGAAATGAGCTCCTTTATTCA-AAGACTAAACA-ACTTTAAAA
* * * *
14334959 CTACGAAATGGGCTCATTTATTTA
64 C-AAGAAATGGGCTCCTCTATATA
* * *
14334983 GAGGCTAAACAACTTTAAAATAGGAAATGAGCTCCTTTATTTAAAGGCTAAATAACTTTAAAA
1 GAGGCTAAACAACTTTAAAATAGGAAATGAGCTCCTTTATTCAAAGACTAAACAACTTTAAAA
14335046 TAGCCTTTTA
Statistics
Matches: 255, Mismatches: 49, Indels: 33
0.76 0.15 0.10
Matches are distributed among these distances:
84 3 0.01
85 50 0.20
86 147 0.58
87 53 0.21
88 2 0.01
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (86 bp):
GAGGCTAAACAACTTTAAAATAGGAAATGAGCTCCTTTATTCAAAGACTAAACAACTTTAAAACA
AGAAATGGGCTCCTCTATATA
Found at i:14339228 original size:58 final size:58
Alignment explanation
Indices: 14339044--14339419 Score: 544
Period size: 58 Copynumber: 6.4 Consensus size: 58
14339034 TTTTGTGTAG
* * * * *
14339044 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTGGAAACTTTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAA-ATTTATTTTTAA
*
14339103 -GAAAATTTGATACTTTCAATTTTTCCTCAAAAATTGATTTTTTTGAAAATTTATTTTTAA
1 GGAAAA-TTGATACTTTCAACTTTTCCTCAAAAA-T-ATTTTTTTGAAAATTTATTTTTAA
14339163 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAA
* * *
14339221 GGAAAATTGATACTTTCAACTTTT-CTAAAAAAATATTTTTTTGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTTGAAAATTT-ATTTTTAA
***
14339280 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAA
*
14339338 GAAAAATTGATACTTTCAACTTTTCC-CAAAAA-ATCTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTGAAAATTTATTTTTAA
14339395 GGAAAATTGATACTTTCAACTTTTC
1 GGAAAATTGATACTTTCAACTTTTC
14339420 TCTAAATTTT
Statistics
Matches: 289, Mismatches: 20, Indels: 18
0.88 0.06 0.06
Matches are distributed among these distances:
57 54 0.19
58 106 0.37
59 75 0.26
60 39 0.13
61 15 0.05
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.44
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAA
Found at i:14339296 original size:117 final size:116
Alignment explanation
Indices: 14339044--14339419 Score: 549
Period size: 117 Copynumber: 3.2 Consensus size: 116
14339034 TTTTGTGTAG
* * * * *
14339044 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTGGAAACTTTTATTTTCAA-GAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAA-ATTTATTTTTAAGGAAAA
* *
14339108 TTTGATACTTTCAATTTTTCCTCAAAAATTGATTTTTTTGAAAATTTATTTTTAA
65 -TTGATACTTTCAACTTTT-CTCAAAAAAT-ATTTTTTTGAAAATTTATTTTTAA
14339163 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGGAAAAT
* * *
14339228 TGATACTTTCAACTTTTCTAAAAAAATATTTTTTTGAAACTTTGATTTTCAA
66 TGATACTTTCAACTTTTCTCAAAAAATATTTTTTTGAAAATTT-ATTTTTAA
*** *
14339280 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAAGAAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGGAAAAT
* *
14339345 TGATACTTTCAACTTTTCCCAAAAAAT-CTTTTTTGAAAATTTATTTTTAA
66 TGATACTTTCAACTTTTCTCAAAAAATATTTTTTTGAAAATTTATTTTTAA
14339395 GGAAAATTGATACTTTCAACTTTTC
1 GGAAAATTGATACTTTCAACTTTTC
14339420 TCTAAATTTT
Statistics
Matches: 236, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
115 32 0.14
116 28 0.12
117 101 0.43
118 27 0.11
119 48 0.20
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.44
Consensus pattern (116 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGGAAAAT
TGATACTTTCAACTTTTCTCAAAAAATATTTTTTTGAAAATTTATTTTTAA
Found at i:14339484 original size:6 final size:6
Alignment explanation
Indices: 14339467--14339519 Score: 54
Period size: 6 Copynumber: 8.7 Consensus size: 6
14339457 ATAATAAAAC
* * *
14339467 AAAATA AAAAAA GTAAAACA AAAATA AAAATA AAAAT- AAAATA AAGATA
1 AAAATA AAAATA --AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
14339516 AAAA
1 AAAA
14339520 GAATATTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
5 5 0.13
6 29 0.74
8 5 0.13
ACGTcount: A:0.81, C:0.02, G:0.04, T:0.13
Consensus pattern (6 bp):
AAAATA
Found at i:14339500 original size:17 final size:17
Alignment explanation
Indices: 14339449--14339518 Score: 70
Period size: 17 Copynumber: 3.9 Consensus size: 17
14339439 TTATTTAAAG
14339449 AAAATAGAATAATAAAACA
1 AAAATA-AA-AATAAAACA
*
14339468 AAATAAAAAAAGTAAAACA
1 AAA-ATAAAAA-TAAAACA
14339487 AAAATAAAAATAAAA-A
1 AAAATAAAAATAAAACA
*
14339503 TAAAATAAAGATAAAA
1 -AAAATAAAAATAAAA
14339519 AGAATATTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
16 1 0.02
17 19 0.42
18 8 0.18
19 15 0.33
20 2 0.04
ACGTcount: A:0.79, C:0.03, G:0.04, T:0.14
Consensus pattern (17 bp):
AAAATAAAAATAAAACA
Found at i:14339501 original size:11 final size:11
Alignment explanation
Indices: 14339467--14339518 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
14339457 ATAATAAAAC
14339467 AAAAT-AAA-A
1 AAAATAAAATA
* *
14339476 AAAGTAAAACA
1 AAAATAAAATA
14339487 AAAATAAAAATA
1 AAAAT-AAAATA
14339499 AAAATAAAATA
1 AAAATAAAATA
*
14339510 AAGATAAAA
1 AAAATAAAA
14339519 AGAATATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
9 4 0.11
10 3 0.08
11 19 0.53
12 10 0.28
ACGTcount: A:0.81, C:0.02, G:0.04, T:0.13
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:14339529 original size:23 final size:23
Alignment explanation
Indices: 14339444--14339533 Score: 68
Period size: 22 Copynumber: 4.2 Consensus size: 23
14339434 TATTTTTATT
*
14339444 TAAAGA-AAATAGAATAATAAAA
1 TAAAGATAAAAAGAATAATAAAA
* *
14339466 CAAA-ATAAAAA-AAGTAA-AACA
1 TAAAGATAAAAAGAA-TAATAAAA
* *
14339487 -AAA-ATAAAAATAAAAATAAAA
1 TAAAGATAAAAAGAATAATAAAA
*
14339508 TAAAGATAAAAAGAAT-ATTAAA
1 TAAAGATAAAAAGAATAATAAAA
14339530 TAAA
1 TAAA
14339534 CCTAATCTAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
20 12 0.22
21 11 0.20
22 22 0.41
23 9 0.17
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.17
Consensus pattern (23 bp):
TAAAGATAAAAAGAATAATAAAA
Found at i:14339559 original size:12 final size:12
Alignment explanation
Indices: 14339542--14339580 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
14339532 AACCTAATCT
14339542 AATAAATAAAAA
1 AATAAATAAAAA
* *
14339554 AATAAACAAATA
1 AATAAATAAAAA
14339566 AATAAATTAAAAA
1 AATAAA-TAAAAA
14339579 AA
1 AA
14339581 AAACCTGGAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (12 bp):
AATAAATAAAAA
Found at i:14340657 original size:6 final size:6
Alignment explanation
Indices: 14340627--14340696 Score: 79
Period size: 6 Copynumber: 11.2 Consensus size: 6
14340617 TATATAAAAT
* *
14340627 AATAAT AATAAA AATAAA AAT-AA AATAAA AATGTAAA ATACAAAA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AA--TAAA A-A-TAAA AATAAA
14340678 AATAAA AATAAA AATAAA A
1 AATAAA AATAAA AATAAA A
14340697 TGAAGAAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
5 5 0.09
6 40 0.71
7 1 0.02
8 9 0.16
9 1 0.02
ACGTcount: A:0.79, C:0.01, G:0.01, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:14340664 original size:39 final size:39
Alignment explanation
Indices: 14340580--14340696 Score: 128
Period size: 39 Copynumber: 2.9 Consensus size: 39
14340570 CCTAAGATAA
* * * *
14340580 AAAATAATAATAAAAGAAAAGAAAAATAATATATACATATAT
1 AAAATAATAATAATA-AAAATAAAAATAA-A-ATAAAAATAT
*
14340622 AAAATAATAATAATAAAAATAAAAATAAAATAAAAATGT
1 AAAATAATAATAATAAAAATAAAAATAAAATAAAAATAT
*
14340661 AAAATACA-AAAAATAAAAATAAAAATAAAAATAAAA
1 AAAATA-ATAATAATAAAAATAAAAAT-AAAATAAAA
14340697 TGAAGAAAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
39 30 0.45
40 11 0.16
41 12 0.18
42 14 0.21
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.21
Consensus pattern (39 bp):
AAAATAATAATAATAAAAATAAAAATAAAATAAAAATAT
Found at i:14340676 original size:45 final size:45
Alignment explanation
Indices: 14340578--14340697 Score: 138
Period size: 45 Copynumber: 2.7 Consensus size: 45
14340568 TACCTAAGAT
* * * *
14340578 AAAAAATAATAATAAAAGA-AAAGA-AAAATAATATATACATATAT
1 AAAAAATAATAATAAAA-ATAAAAATAAAATAAAATATACAAATAC
*
14340622 AAAATAATAATAATAAAAATAAAAATAAAATAAAAATGTA-AAATAC
1 AAAA-AATAATAATAAAAATAAAAATAAAAT-AAAATATACAAATAC
*
14340668 AAAAAATAAAAATAAAAATAAAAATAAAAT
1 AAAAAATAATAATAAAAATAAAAATAAAAT
14340698 GAAGAAAAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
44 5 0.08
45 42 0.64
46 13 0.20
47 6 0.09
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.21
Consensus pattern (45 bp):
AAAAAATAATAATAAAAATAAAAATAAAATAAAATATACAAATAC
Found at i:14340708 original size:12 final size:10
Alignment explanation
Indices: 14340622--14340708 Score: 50
Period size: 11 Copynumber: 7.7 Consensus size: 10
14340612 ATACATATAT
*
14340622 AAAATAATAA
1 AAAAAAATAA
14340632 TAATAAAAATAA
1 -AA-AAAAATAA
14340644 AAATAAAATAA
1 AAA-AAAATAA
14340655 AAATGTAAAATACA
1 AAA---AAAATA-A
14340669 AAAAATAA-AA
1 AAAAA-AATAA
*
14340679 ATAAAAATAA
1 AAAAAAATAA
14340689 AAATAAAATGAA
1 AAA-AAAAT-AA
14340701 GAAAAAAA
1 -AAAAAAA
14340709 AATATAGACT
Statistics
Matches: 63, Mismatches: 3, Indels: 19
0.74 0.04 0.22
Matches are distributed among these distances:
9 2 0.03
10 10 0.16
11 22 0.35
12 15 0.24
13 10 0.16
14 4 0.06
ACGTcount: A:0.78, C:0.01, G:0.03, T:0.17
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:14340709 original size:18 final size:17
Alignment explanation
Indices: 14340633--14340696 Score: 67
Period size: 17 Copynumber: 3.8 Consensus size: 17
14340623 AAATAATAAT
*
14340633 AATAAAAATAAAAATAA
1 AATAAAAATAAAAAAAA
** *
14340650 AATAAAAATGTAAAATA
1 AATAAAAATAAAAAAAA
*
14340667 CA-AAAAATAAAAATAAA
1 AATAAAAATAAAAA-AAA
14340684 AATAAAAATAAAA
1 AATAAAAATAAAA
14340697 TGAAGAAAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
16 9 0.25
17 17 0.47
18 10 0.28
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.17
Consensus pattern (17 bp):
AATAAAAATAAAAAAAA
Found at i:14340881 original size:14 final size:14
Alignment explanation
Indices: 14340864--14340894 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
14340854 TCACTTTTTA
14340864 TTTTT-TTTTTATT
1 TTTTTGTTTTTATT
14340877 TTTTTGTTTTTATT
1 TTTTTGTTTTTATT
14340891 TTTT
1 TTTT
14340895 ATCAAAGCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.06, C:0.00, G:0.03, T:0.90
Consensus pattern (14 bp):
TTTTTGTTTTTATT
Found at i:14341039 original size:42 final size:42
Alignment explanation
Indices: 14340924--14341158 Score: 250
Period size: 42 Copynumber: 5.6 Consensus size: 42
14340914 GAGGCTCAAT
* *
14340924 GACTTTGAGAAACA-TAAATGGCTCCTCTAATCAGAGGCTCAACA-
1 GACTTTG-GAAA-AGTAAATTGCTCCTCTAAACAGAGG--CAACAC
** * *
14340968 -ACTTTTAAAAAAATAAATTGCTCCTCTAAACAGAGGTAACAC
1 GAC-TTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACAC
*
14341010 GACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACAC
*
14341052 GACTTT-GAAATGTAAATTGCTCCTCTAAACAGAGGC-ACTAC
1 GACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAAC-AC
* *
14341093 GACTTTGAAAAAGTAAATTGCTCCTCTAAACAG-GGCACCAC
1 GACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACAC
* *
14341134 AAC-TTCGAGAAAGTAAATTGCTCCT
1 GACTTTGGA-AAAGTAAATTGCTCCT
14341159 TGGCAATCAT
Statistics
Matches: 165, Mismatches: 18, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
40 4 0.02
41 64 0.39
42 66 0.40
43 28 0.17
44 3 0.02
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.24
Consensus pattern (42 bp):
GACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACAC
Found at i:14341079 original size:41 final size:41
Alignment explanation
Indices: 14340901--14341158 Score: 275
Period size: 41 Copynumber: 6.1 Consensus size: 41
14340891 TTTTATCAAA
** * * * * *
14340901 GCTCCTCTAGGCAGAGGCTCAATGACTTTGAGAAACATAAATG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-GTAAATT
* * * * * *
14340944 GCTCCTCTAATCAGAGGCTCAACAACTTTTAAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTT-GAAAAGTAAATT
* *
14340987 GCTCCTCTAAACAGAGGTAACACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
*
14341029 GCTCCTCTAAACAGAGGCACCACGACTTTGAAATGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
14341070 GCTCCTCTAAACAGAGGCACTACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
* *
14341112 GCTCCTCTAAACAG-GGCACCACAACTTCGAGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAAGTAAATT
14341153 GCTCCT
1 GCTCCT
14341159 TGGCAATCAT
Statistics
Matches: 188, Mismatches: 23, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
40 1 0.01
41 68 0.36
42 64 0.34
43 48 0.26
44 6 0.03
45 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:14341095 original size:83 final size:82
Alignment explanation
Indices: 14340901--14341158 Score: 295
Period size: 83 Copynumber: 3.1 Consensus size: 82
14340891 TTTTATCAAA
** * * * * * *
14340901 GCTCCTCTAGGCAGAGGCTCAATGACTTTGAGAAACA-TAAATGGCTCCTCTAATCAGAGGCTCA
1 GCTCCTCTAAACAGAGGCAC-ACGACTTTG-GAAA-AGTAAATTGCTCCTCTAAACAGAGGCACC
* *
14340965 ACAACTTTTAAAAAAATAAATT
63 ACAAC-TTT-GAAAAGTAAATT
*
14340987 GCTCCTCTAAACAGAGGTAACACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGG-CACACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* *
14341052 GACTTTGAAATGTAAATT
65 AACTTTGAAAAGTAAATT
*
14341070 GCTCCTCTAAACAGAGGCACTACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAG-GGCACCAC
1 GCTCCTCTAAACAGAGGCAC-ACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
14341134 AACTTCGAGAAAGTAAATT
65 AACTTTGA-AAAGTAAATT
14341153 GCTCCT
1 GCTCCT
14341159 TGGCAATCAT
Statistics
Matches: 150, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
82 16 0.11
83 75 0.50
84 4 0.03
85 31 0.21
86 23 0.15
87 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (82 bp):
GCTCCTCTAAACAGAGGCACACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACA
ACTTTGAAAAGTAAATT
Found at i:14342436 original size:20 final size:16
Alignment explanation
Indices: 14342387--14342420 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
14342377 CCCTTTCAGG
14342387 TTTTCTCTTTTTTTCA
1 TTTTCTCTTTTTTTCA
*
14342403 TTTTCTCATTTTTTCA
1 TTTTCTCTTTTTTTCA
14342419 TT
1 TT
14342421 CATTCATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTCTCTTTTTTTCA
Found at i:14342442 original size:26 final size:23
Alignment explanation
Indices: 14342411--14342469 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
14342401 CATTTTCTCA
14342411 TTTTTTCATTCATTCATTCTTTTTT
1 TTTTTTCATTCA-TCA-TCTTTTTT
**
14342436 TTCTTTTTTTTCATCATCTTTTTT
1 TT-TTTTCATTCATCATCTTTTTT
*
14342460 TTTTCTCATT
1 TTTTTTCATT
14342470 TTTCATCTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
23 5 0.18
24 10 0.36
25 5 0.18
26 8 0.29
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTTTCATTCATCATCTTTTTT
Found at i:14342468 original size:16 final size:16
Alignment explanation
Indices: 14342439--14342472 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
14342429 CTTTTTTTTC
14342439 TTTTTTTTCATCATCTT
1 TTTTTTTTCATCAT-TT
14342456 TTTTTTTTC-TCATTT
1 TTTTTTTTCATCATTT
14342471 TT
1 TT
14342473 CATCTATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 4 0.24
17 9 0.53
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTTTCATCATTT
Found at i:14342471 original size:26 final size:29
Alignment explanation
Indices: 14342403--14342476 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 29
14342393 CTTTTTTTCA
14342403 TTTTCTCATTTTTTCATTCATTCATTCTTTT
1 TTTTCTCA-TTTTTCA-TCATTCATTCTTTT
**
14342434 TTTTCTTTTTTTTCATCA-TC-TT-TTTT
1 TTTTCTCATTTTTCATCATTCATTCTTTT
14342460 TTTTCTCATTTTTCATC
1 TTTTCTCATTTTTCATC
14342477 TATTGTTGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
26 19 0.49
27 2 0.05
28 2 0.05
29 3 0.08
30 7 0.18
31 6 0.15
ACGTcount: A:0.11, C:0.19, G:0.00, T:0.70
Consensus pattern (29 bp):
TTTTCTCATTTTTCATCATTCATTCTTTT
Found at i:14345248 original size:21 final size:21
Alignment explanation
Indices: 14345224--14345274 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
14345214 TTTGATGTAC
14345224 GAATGAAATGTACATTTTTCT
1 GAATGAAATGTACATTTTTCT
14345245 GAATGAAATGTACATTTTTCT
1 GAATGAAATGTACATTTTTCT
14345266 GAATGAAAT
1 GAATGAAAT
14345275 CTAATATGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (21 bp):
GAATGAAATGTACATTTTTCT
Found at i:14346360 original size:6 final size:6
Alignment explanation
Indices: 14346349--14346377 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
14346339 TTTAAAGAAA
14346349 AAAATC AAAATC AAAATC AAAATC AAAAT
1 AAAATC AAAATC AAAATC AAAATC AAAAT
14346378 GAAGAAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATC
Found at i:14346471 original size:59 final size:58
Alignment explanation
Indices: 14346406--14346863 Score: 562
Period size: 59 Copynumber: 7.7 Consensus size: 58
14346396 TTTTGTGTAG
* * *
14346406 GGAAAATTGATACTTTCAACTTTTCCCTAAAAAATATTCTTTTGAAATTTTAATTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAAATATTTTTTTGAAATTTTATTTTCAA
* ** * * *
14346465 GAAAAATTGATACTTTCAACTTTTCCCCAAAAGTTTATTTTTTTTAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAA-AATATTTTTTTGAAATTTTATTTTCAA
* *
14346525 GAAAAATTGATACTTTCAACTTTTTCCC-AAAAATATTTTTTGGAAACTTTTATTTTCAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCAAAAAATATTTTTTTGAAA-TTTTATTTTCAA
* * * * *
14346584 GAAAAATTAATACTTTCAACTTTTCCTCAAAAATTGATTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAAAT-ATTTTTTTGAAATTTTATTTTCAA
*
14346644 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTGAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAAATATTTTTTTGAAATTTTATTTTCAA
* * * *
14346702 GGAAAATTGATACTTTTAACTTTTTCCAAAAAATGTTTTTTTGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTGAAA-TTTTATTTTCAA
* * *
14346761 GGAAAATTGATACTTTCAACTTTTCTCC-AAAAATATTCTTTGGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTC-CCAAAAAATATTTTTTTGAAA-TTTTATTTTCAA
14346820 GGAAAATTGATACTTTCAACTTTTCTCCAAAAATATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTC-CCAAAAA-ATATTTTTTT
14346864 TATTTTTATT
Statistics
Matches: 351, Mismatches: 36, Indels: 22
0.86 0.09 0.05
Matches are distributed among these distances:
57 1 0.00
58 81 0.23
59 154 0.44
60 92 0.26
61 23 0.07
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.45
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTGAAATTTTATTTTCAA
Found at i:14346557 original size:119 final size:118
Alignment explanation
Indices: 14346406--14346863 Score: 622
Period size: 119 Copynumber: 3.9 Consensus size: 118
14346396 TTTTGTGTAG
* *
14346406 GGAAAATTGATACTTTCAACTTTTCCCTAAAAAATATTCTTTTGAAA-TTTTAATTTCGAGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCC--AAAAATATTCTTTTGAAACTTTTATTTTCAAGAAAA
* * *
14346470 ATTGATACTTTCAACTTTTCCCCAAAAGTTTATTTTTTTTAAAATTTATTTTTAA
64 ATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTGAAAATTTATTTTTAA
*
14346525 GAAAAATTGATACTTTCAACTTTTTCCCAAAAATATT-TTTTGGAAACTTTTATTTTCAAGAAAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTCTTTT-GAAACTTTTATTTTCAAGAAAA
* *
14346589 ATTAATACTTTCAACTTTTCCTCAAAAAT-TGATTTTTTTGAAAATTTATTTTTAA
64 ATTGATACTTTCAACTTTTCCCCAAAAATAT-ATTTTTTTGAAAATTTATTTTTAA
* * *
14346644 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAA-TTTTATTTTTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAATATTCTTTTGAAACTTTTATTTTCAAGAAAAA
* * * * *
14346708 TTGATACTTTTAACTTTT-TCCAAAAA-ATGTTTTTTTGAAACTTTGATTTTCAA
65 TTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTGAAAATTT-ATTTTTAA
* * *
14346761 GGAAAATTGATACTTTCAACTTTTCTCCAAAAATATTCTTTGGAAACTTTGATTTTCAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTC-CCAAAAATATTCTTTTGAAACTTTTATTTTCAAGAAAAA
*
14346826 TTGATACTTTCAACTTTTCTCCAAAAATATATTTTTTT
65 TTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTT
14346864 TATTTTTATT
Statistics
Matches: 304, Mismatches: 23, Indels: 23
0.87 0.07 0.07
Matches are distributed among these distances:
116 14 0.05
117 60 0.20
118 86 0.28
119 124 0.41
120 20 0.07
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.45
Consensus pattern (118 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTCTTTTGAAACTTTTATTTTCAAGAAAAAT
TGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTGAAAATTTATTTTTAA
Found at i:14346782 original size:32 final size:32
Alignment explanation
Indices: 14346746--14346842 Score: 91
Period size: 32 Copynumber: 3.2 Consensus size: 32
14346736 GTTTTTTTGA
14346746 AACTTTGATTTTCAAGGAAAATTGATACTTTC
1 AACTTTGATTTTCAAGGAAAATTGATACTTTC
* * * *
14346778 AAC-TT--TTCTCCA--AAAA-T-ATTCTTTGGA
1 AACTTTGATTTTCAAGGAAAATTGATACTTT--C
14346805 AACTTTGATTTTCAAGGAAAATTGATACTTTC
1 AACTTTGATTTTCAAGGAAAATTGATACTTTC
14346837 AACTTT
1 AACTTT
14346843 TCTCCAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 18
0.65 0.11 0.24
Matches are distributed among these distances:
25 6 0.12
26 1 0.02
27 7 0.15
28 2 0.04
29 5 0.10
30 5 0.10
31 2 0.04
32 13 0.27
33 1 0.02
34 6 0.12
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.41
Consensus pattern (32 bp):
AACTTTGATTTTCAAGGAAAATTGATACTTTC
Found at i:14346793 original size:27 final size:27
Alignment explanation
Indices: 14346763--14346853 Score: 69
Period size: 27 Copynumber: 3.2 Consensus size: 27
14346753 ATTTTCAAGG
14346763 AAAATTGATACTTTCAACTTTTCTCCA
1 AAAATTGATACTTTCAACTTTTCTCCA
* * * *
14346790 AAAA-T-ATTCTTTGGAAACTTTGATTTTCAA
1 AAAATTGATACTTT--CAAC-TT--TTCTCCA
14346820 GGAAAATTGATACTTTCAACTTTTCTCCA
1 --AAAATTGATACTTTCAACTTTTCTCCA
14346849 AAAAT
1 AAAAT
14346854 ATATTTTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 18
0.64 0.11 0.25
Matches are distributed among these distances:
25 6 0.13
26 1 0.02
27 12 0.26
28 2 0.04
29 5 0.11
30 5 0.11
31 2 0.04
32 7 0.15
33 1 0.02
34 6 0.13
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (27 bp):
AAAATTGATACTTTCAACTTTTCTCCA
Found at i:14346897 original size:5 final size:5
Alignment explanation
Indices: 14346889--14346943 Score: 65
Period size: 5 Copynumber: 10.4 Consensus size: 5
14346879 AAAATAGAAT
* *
14346889 AATAA AATAA AATAA AATAA AGTAA AACAGA AATAAA AATAA AATAA AGATAA
1 AATAA AATAA AATAA AATAA AATAA AATA-A AAT-AA AATAA AATAA A-ATAA
14346942 AA
1 AA
14346944 AGAATATTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
5 30 0.70
6 12 0.28
7 1 0.02
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.16
Consensus pattern (5 bp):
AATAA
Found at i:14346927 original size:27 final size:26
Alignment explanation
Indices: 14346893--14346958 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 26
14346883 TAGAATAATA
14346893 AAATAAAATAAAATAAAG-TAAAACAG
1 AAATAAAATAAAATAAAGATAAAA-AG
14346919 AAATAAAAATAAAATAAAGATAAAAAG
1 AAAT-AAAATAAAATAAAGATAAAAAG
*
14346946 AATATTAAATAAA
1 AA-ATAAAATAAA
14346959 CTTAATCTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
26 4 0.11
27 25 0.69
28 7 0.19
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.18
Consensus pattern (26 bp):
AAATAAAATAAAATAAAGATAAAAAG
Found at i:14346933 original size:11 final size:11
Alignment explanation
Indices: 14346892--14346943 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
14346882 ATAGAATAAT
14346892 AAAATAAAAT-
1 AAAATAAAATA
*
14346902 AAAATAAAGTA
1 AAAATAAAATA
*
14346913 AAACA-GAAATA
1 AAA-ATAAAATA
14346924 AAAATAAAATA
1 AAAATAAAATA
*
14346935 AAGATAAAA
1 AAAATAAAA
14346944 AGAATATTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
10 10 0.29
11 23 0.68
12 1 0.03
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:14346993 original size:21 final size:21
Alignment explanation
Indices: 14346967--14347006 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14346957 AACTTAATCT
14346967 AATAAATAAAAAAAATAAACA
1 AATAAATAAAAAAAATAAACA
* *
14346988 AATAAATAAATAAATTAAA
1 AATAAATAAAAAAAATAAA
14347007 AAAAAAACCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (21 bp):
AATAAATAAAAAAAATAAACA
Found at i:14347513 original size:10 final size:10
Alignment explanation
Indices: 14347500--14347524 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14347490 AATTCCCAGA
14347500 AAAAATCTCC
1 AAAAATCTCC
14347510 AAAAATCTCC
1 AAAAATCTCC
14347520 AAAAA
1 AAAAA
14347525 ATTTTTGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.24, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAATCTCC
Found at i:14347979 original size:20 final size:20
Alignment explanation
Indices: 14347956--14348060 Score: 70
Period size: 20 Copynumber: 5.1 Consensus size: 20
14347946 ATAAATACCT
14347956 AAGATAAAAAATAATAATAA
1 AAGATAAAAAATAATAATAA
* *
14347976 AAGAAAAGAAAAAAATATATACA
1 AAGATAA-AAAATAATA-ATA-A
* *
14347999 TATATAAAATAATAATAATAA
1 AAGATAAAA-AATAATAATAA
* *
14348020 AA-ATAAAATAAAAAT-GTAA
1 AAGATAAAA-AATAATAATAA
* * *
14348039 AATACAAAAAATAAAAATAA
1 AAGATAAAAAATAATAATAA
14348059 AA
1 AA
14348061 ATGAAATGAA
Statistics
Matches: 66, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
19 9 0.14
20 28 0.42
21 10 0.15
22 8 0.12
23 11 0.17
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (20 bp):
AAGATAAAAAATAATAATAA
Found at i:14363116 original size:18 final size:17
Alignment explanation
Indices: 14363093--14363128 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14363083 TTTATATTAA
14363093 AATAATTTAATAAATTTT
1 AATAATTT-ATAAATTTT
*
14363111 AATAATTTATTAATTTT
1 AATAATTTATAAATTTT
14363128 A
1 A
14363129 TAAATGTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATAATTTATAAATTTT
Found at i:14363131 original size:26 final size:27
Alignment explanation
Indices: 14363095--14363146 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
14363085 TATATTAAAA
*
14363095 TAATTTAATAAAT-TTTAATAATTTAT
1 TAATTTAATAAATGTTAAATAATTTAT
*
14363121 TAATTTTATAAATGTTAAATAATTTA
1 TAATTTAATAAATGTTAAATAATTTA
14363147 AAATTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (27 bp):
TAATTTAATAAATGTTAAATAATTTAT
Found at i:14363156 original size:27 final size:26
Alignment explanation
Indices: 14363096--14363153 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
14363086 ATATTAAAAT
* * *
14363096 AATTTAATAAATTTTAATAATTTATT
1 AATTTTATAAATTTAAATAATTTATA
14363122 AATTTTATAAATGTTAAATAATTTA-A
1 AATTTTATAAAT-TTAAATAATTTATA
14363148 AATTTT
1 AATTTT
14363154 TATTAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 17 0.61
27 11 0.39
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
AATTTTATAAATTTAAATAATTTATA
Found at i:14365078 original size:245 final size:244
Alignment explanation
Indices: 14364737--14365200 Score: 555
Period size: 245 Copynumber: 1.9 Consensus size: 244
14364727 TTCACATTCT
*
14364737 ATAATCCAATCAATAAATTTTTAGTTAGGATTATTAAAGACGACTTTTGTTAAAAACGCCTTTAA
1 ATAATCCAATCAATAAATTTTTAGTTAGGATTATTAAAGACGACTTTTGTTAAAAACGCCTTCAA
* * ** *
14364802 TAATCTATAGACGAAAGTTGAAATGGATTCTTAAAGG-CATTTTTGGCTC-AAAACGCCTTTAAT
66 TAATCCATACAAAAAAGTTGAAATAGATTCTTAAAGGTCATTTTTGG-TCAAAAACGCCTTTAAT
* * ** *
14364865 ATTCTAAACAAT-AAATTTAAATGGTCGA-ATTATTGAAGGTGATTTTTTTTTCCAAAAATGCCT
130 ATTCCAAACAATAAAATTT-AA-GGT-GAGATTATTGAAGGTG--GTTTTGGT-AAAAAATGCCT
* *
14364928 TCAATAATATTTTGTTAGGGATTATTCAAGGCATTACCTGTAGGAAAACGCCCTTA
189 TCAATAACATTTTGCTAGGGATTATTCAAGGCATTACCTGTAGGAAAACGCCCTTA
* * * ** * *
14364984 ATAATCCATTCAATTAATTTTTTGTT-GGTATTATT-AAGGTGA-TTTTTTTAAAAATGCCTTCA
1 ATAATCCAATCAATAAATTTTTAGTTAGG-ATTATTAAAGACGACTTTTGTTAAAAACGCCTTCA
* * ** *
14365046 ATAATCCATACAAAAAAGTTGGAATAGATTCTTGAAGGTGTTTTTTTGTCAAAAACGCCTTTAAT
65 ATAATCCATACAAAAAAGTTGAAATAGATTCTTAAAGGTCATTTTTGGTCAAAAACGCCTTTAAT
* * *
14365111 ATTCCACACAATAAAATTTTAGGTGAGATTATTGAAGGTGGTTTTGGTAAAAAATGCCTTCAATG
130 ATTCCAAACAATAAAATTTAAGGTGAGATTATTGAAGGTGGTTTTGGTAAAAAATGCCTTCAATA
14365176 ACATTTTGCTAGGGATTATTCAAGG
195 ACATTTTGCTAGGGATTATTCAAGG
14365201 TATTTTCTTG
Statistics
Matches: 184, Mismatches: 28, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
242 38 0.21
243 5 0.03
244 2 0.01
245 66 0.36
246 38 0.21
247 35 0.19
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (244 bp):
ATAATCCAATCAATAAATTTTTAGTTAGGATTATTAAAGACGACTTTTGTTAAAAACGCCTTCAA
TAATCCATACAAAAAAGTTGAAATAGATTCTTAAAGGTCATTTTTGGTCAAAAACGCCTTTAATA
TTCCAAACAATAAAATTTAAGGTGAGATTATTGAAGGTGGTTTTGGTAAAAAATGCCTTCAATAA
CATTTTGCTAGGGATTATTCAAGGCATTACCTGTAGGAAAACGCCCTTA
Found at i:14365345 original size:179 final size:177
Alignment explanation
Indices: 14365013--14365349 Score: 387
Period size: 179 Copynumber: 1.9 Consensus size: 177
14365003 TTTTGTTGGT
14365013 ATTATTAAGGTGATTTTTTTAAAAATGCCTTCAATAATCCATACAAAAAAGTTGGAATAGATTCT
1 ATTATTAAGGTGATTTTTTTAAAAATGCCTTCAATAATCCATACAAAAAAGTTGGAATAGATTCT
* ** ** * * * * *
14365078 TGAAGGTGTTTTTTTGTCAAAAACGCCTTTAATATTCCACACAATAAAATTTTAGGTGAGATTAT
66 TGAAAGCATTTTTAGGTCAAAAACGCCTTCAATAATCCACAAAATAAAATTTTAGATGAAATTAT
*
14365143 TGAAGGTGGTTTTGGTAAAAAATGCCTTCAATGACATTTTGCTAGGG
131 TGAAGGTGATTTTGGTAAAAAATGCCTTCAATGACATTTTGCTAGGG
* * ** *
14365190 ATTATTCAAGGT-ATTTTCTTGCTAAATATGCCTTTAATAATCCATA-GGAAAAGTATGGAATGG
1 ATTATT-AAGGTGATTTT-TT--TAAAAATGCCTTCAATAATCCATACAAAAAAGT-TGGAATAG
* *
14365253 ATTCTTGAAAGCATTTTTAGGT-GAAAATGCCTTCAATAATCCA-ATAAATAAAATTTTA-ATAG
61 ATTCTTGAAAGCATTTTTAGGTCAAAAACGCCTTCAATAATCCACA-AAATAAAATTTTAGAT-G
** *
14365315 AAATTATTGAAGGTGATTTTTTTCAAAAATGCCTT
124 AAATTATTGAAGGTGATTTTGGTAAAAAATGCCTT
14365350 TAATAATCTA
Statistics
Matches: 132, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
177 11 0.08
178 9 0.07
179 66 0.50
180 46 0.35
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (177 bp):
ATTATTAAGGTGATTTTTTTAAAAATGCCTTCAATAATCCATACAAAAAAGTTGGAATAGATTCT
TGAAAGCATTTTTAGGTCAAAAACGCCTTCAATAATCCACAAAATAAAATTTTAGATGAAATTAT
TGAAGGTGATTTTGGTAAAAAATGCCTTCAATGACATTTTGCTAGGG
Found at i:14365633 original size:35 final size:35
Alignment explanation
Indices: 14365585--14365675 Score: 110
Period size: 35 Copynumber: 2.6 Consensus size: 35
14365575 TAGTTGTAGG
* * *
14365585 TTTATGCCCAGAAAACGTTTGAAGTCAGTTATATA
1 TTTATGCCTAGAAAACGTTTAAAGTCAATTATATA
* * * *
14365620 TTTTTGTCTAGAAAATGTTTAAAGTCAATTGTATA
1 TTTATGCCTAGAAAACGTTTAAAGTCAATTATATA
*
14365655 TTTATGCCTAGAAAACATTTA
1 TTTATGCCTAGAAAACGTTTA
14365676 GTTTATATAT
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (35 bp):
TTTATGCCTAGAAAACGTTTAAAGTCAATTATATA
Found at i:14368977 original size:13 final size:12
Alignment explanation
Indices: 14368957--14368991 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
14368947 ACCATTAACC
14368957 AAACCATTTAGA
1 AAACCATTTAGA
*
14368969 AACACCATTCAGA
1 AA-ACCATTTAGA
14368982 AAACCATTTA
1 AAACCATTTA
14368992 ACATACGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.49, C:0.23, G:0.06, T:0.23
Consensus pattern (12 bp):
AAACCATTTAGA
Found at i:14369759 original size:124 final size:124
Alignment explanation
Indices: 14369612--14369882 Score: 398
Period size: 124 Copynumber: 2.2 Consensus size: 124
14369602 AATTAGAAGG
* * *
14369612 AATTAGTGAAAGCGTTTTACTAGAATAAACGCCTTCACTAACAATCTTAAAATTTGAGTTATGAA
1 AATTAGTGAAGGCGTTTTTCTAGAATAAACGCCTTCACTAACAATCTTAAAATTTGAGTTATAAA
* * * ** *
14369677 AAATTGAAGGCGTTTTTTATTGGAAGATGCCTTTAATAATCCCAAAAATTTTAAGAGAA
66 AAATTGAAGACATTTTTCATTAAAAGATGCCTTTAATAATCCCAAAAATTTTAAGAAAA
* * *
14369736 AATTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTTGTAAA
1 AATTAGTGAAGGCGTTTTTCTAGAATAAACGCCTTCACTAACAATCTTAAAATTTGAGTTATAAA
*
14369801 AAATTGAAGACATTTTTCATTAAAAGATGCCTTTAATAATCTCAAAAATTTTAAGAAAA
66 AAATTGAAGACATTTTTCATTAAAAGATGCCTTTAATAATCCCAAAAATTTTAAGAAAA
* *
14369860 AATTATTAAAGGCGTTTATTCTA
1 AATTAGTGAAGGCGTTT-TTCTA
14369883 AAAAAATGCC
Statistics
Matches: 130, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
124 125 0.96
125 5 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.34
Consensus pattern (124 bp):
AATTAGTGAAGGCGTTTTTCTAGAATAAACGCCTTCACTAACAATCTTAAAATTTGAGTTATAAA
AAATTGAAGACATTTTTCATTAAAAGATGCCTTTAATAATCCCAAAAATTTTAAGAAAA
Found at i:14369809 original size:63 final size:63
Alignment explanation
Indices: 14369626--14369818 Score: 148
Period size: 63 Copynumber: 3.1 Consensus size: 63
14369616 AGTGAAAGCG
* * * * *
14369626 TTTTACTAGAATAAACGCCTTCACTAACAATCTTAAAATTTGAGTTATGAAAAATTGAAGGCG
1 TTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTTGTAAAAAATTGAAGGCA
* * * * * * * * * *
14369689 TTTTT-TATTGGA-AGATGCCTTTAATAATCC--C-AAAAATTTTAAG-AG-AAAATTAGTGAAG
1 TTTTTCTA--GAATAAACGCCTTCACTAA-CCATCTTAAAA-TTTGAGTTGTAAAA-AATTGAAG
14369747 GCA
61 GCA
*
14369750 TTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTTGTAAAAAATTGAAGACA
1 TTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTTGTAAAAAATTGAAGGCA
14369813 TTTTTC
1 TTTTTC
14369819 ATTAAAAGAT
Statistics
Matches: 92, Mismatches: 26, Indels: 24
0.65 0.18 0.17
Matches are distributed among these distances:
60 7 0.08
61 28 0.30
62 16 0.17
63 34 0.37
64 7 0.08
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (63 bp):
TTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTTGTAAAAAATTGAAGGCA
Found at i:14370055 original size:310 final size:308
Alignment explanation
Indices: 14369559--14370389 Score: 1089
Period size: 310 Copynumber: 2.7 Consensus size: 308
14369549 AGAATTAGTG
* * * * *
14369559 AAGGTGTTTATTCTCAAAAACA-CCTTCAAAAATTATGTAAGTAAATTAGAAGGAATTAGTGAAA
1 AAGGCGTTTATTCT-AAAAAAATCCTTTAATAATTATGTAAGTAAATTAGAAGGAAATAGTGAAA
** * * *
14369623 GCGTTTTACTAGAATAAACGCCTTCACTAACAATCTTAAAATTTGAGTTATGAAAAATTGAAGGC
65 GTATTTTTCTAGAATAAACGCCTTCACTAACAGTCTTAAAATTTGAGTTGTGAAAAATTGAA-GC
* * * * * * *
14369688 GTTTTTTATTGGAAGATGCCTTTAATAATCCCAAAAATTTTAAGAGAAAATTAGTGAAGGCATTT
129 ATTTTTCACTGAAAGACGTCTTTAATAATCCCAAAAATTTTAAGAAAAAATTAGTGAAGGCATTT
*
14369753 TTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTTGTAAAAAATTGAAGACATTTTT
194 TTCTAGAATAAACACCTTCACTAACCATCTTAAAATTTGAGTTGTAAAAAATTGAAGACATTTTT
* * *
14369818 CATTAAAAGATGCCTTTAATAATCTCAAAAATTTTAAGAAAAAATTATTA
259 CACTAAAAGACGCCTTTAATAATCCCAAAAATTTTAAGAAAAAATTATTA
* *
14369868 AAGGCGTTTATTCTAAAAAAATGCCTTTAATAATTATGTACGTAAATTAGAAGGAAATAGTGAAG
1 AAGGCGTTTATTCTAAAAAAAT-CCTTTAATAATTATGTAAGTAAATTAGAAGGAAATAGTGAAA
** *
14369933 GTATTTTTCTAGAATAAACGTTTTCACTAACTGTCTTAAAATTTGAGTTGTGAAAAATTGAAGCC
65 GTATTTTTCTAGAATAAACGCCTTCACTAACAGTCTTAAAATTTGAGTTGTGAAAAATTGAAG-C
* *
14369998 ATTTTTCACTGAAAGACGTCTTTAATAATCCCGAAAATTTTAAGAAAAAATTAGTGAAGGTATTT
129 ATTTTTCACTGAAAGACGTCTTTAATAATCCCAAAAATTTTAAGAAAAAATTAGTGAAGGCATTT
* * * ***
14370063 TTCTAGAATAAACACTTTCACTAACTATCTTAAAATTTGAGTTGTGAAAAATTGAAGGTGTTTTT
194 TTCTAGAATAAACACCTTCACTAACCATCTTAAAATTTGAGTTGTAAAAAATTGAAGACATTTTT
* * * *
14370128 CACTAGAATACGCCTTTAATAATCCCAAAAATTTTAAGAGAAAATTATTG
259 CACTAAAAGACGCCTTTAATAATCCCAAAAATTTTAAGAAAAAATTATTA
* * *
14370178 AAGGCGTTTGTTCTAAAAAAATATCTTTAATAATTATGTATGTAAATTAGAA-GAAATTAGTG-A
1 AAGGCGTTTATTCTAAAAAAAT-CCTTTAATAATTATGTAAGTAAATTAGAAGGAAA-TAGTGAA
* * *
14370241 TGTATTTTTCTAGAATAAACGCCTTCACTAACCGTCTTAAAATTTGAGTTGTGAAAAATTAAAAG
64 AGTATTTTTCTAGAATAAACGCCTTCACTAACAGTCTTAAAATTTGAGTTGTGAAAAATT-GAAG
** * * *
14370306 CATTTTTCACTGAAAGACGTCTTTAATAATCTTAAAAATTTT-A-AAAAAATTATTGGAGGCGTT
128 CATTTTTCACTGAAAGACGTCTTTAATAATCCCAAAAATTTTAAGAAAAAATTAGTGAAGGCATT
* *
14370369 TGTTCTA-AAAAAATACCTTCA
193 T-TTCTAGAATAAACACCTTCA
14370390 ATTATTATGT
Statistics
Matches: 459, Mismatches: 57, Indels: 14
0.87 0.11 0.03
Matches are distributed among these distances:
307 28 0.06
308 12 0.03
309 114 0.25
310 305 0.66
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (308 bp):
AAGGCGTTTATTCTAAAAAAATCCTTTAATAATTATGTAAGTAAATTAGAAGGAAATAGTGAAAG
TATTTTTCTAGAATAAACGCCTTCACTAACAGTCTTAAAATTTGAGTTGTGAAAAATTGAAGCAT
TTTTCACTGAAAGACGTCTTTAATAATCCCAAAAATTTTAAGAAAAAATTAGTGAAGGCATTTTT
CTAGAATAAACACCTTCACTAACCATCTTAAAATTTGAGTTGTAAAAAATTGAAGACATTTTTCA
CTAAAAGACGCCTTTAATAATCCCAAAAATTTTAAGAAAAAATTATTA
Found at i:14370066 original size:124 final size:124
Alignment explanation
Indices: 14369925--14370181 Score: 399
Period size: 124 Copynumber: 2.1 Consensus size: 124
14369915 TAGAAGGAAA
** *
14369925 TAGTGAAGGTATTTTTCTAGAATAAACGTTTTCACTAACTGTCTTAAAATTTGAGTTGTGAAAAA
1 TAGTGAAGGTATTTTTCTAGAATAAACACTTTCACTAACTATCTTAAAATTTGAGTTGTGAAAAA
* *
14369990 TTGAAGCCATTTTTCACT-GAAAGACGTCTTTAATAATCCCGAAAATTTTAAGAAAAAAT
66 TTGAAGCCATTTTTCACTAG-AAGACGCCTTTAATAATCCCAAAAATTTTAAGAAAAAAT
14370049 TAGTGAAGGTATTTTTCTAGAATAAACACTTTCACTAACTATCTTAAAATTTGAGTTGTGAAAAA
1 TAGTGAAGGTATTTTTCTAGAATAAACACTTTCACTAACTATCTTAAAATTTGAGTTGTGAAAAA
*** * *
14370114 TTGAAGGTGTTTTTCACTAGAATACGCCTTTAATAATCCCAAAAATTTTAAGAGAAAAT
66 TTGAAGCCATTTTTCACTAGAAGACGCCTTTAATAATCCCAAAAATTTTAAGAAAAAAT
*
14370173 TATTGAAGG
1 TAGTGAAGG
14370182 CGTTTGTTCT
Statistics
Matches: 121, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
124 120 0.99
125 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (124 bp):
TAGTGAAGGTATTTTTCTAGAATAAACACTTTCACTAACTATCTTAAAATTTGAGTTGTGAAAAA
TTGAAGCCATTTTTCACTAGAAGACGCCTTTAATAATCCCAAAAATTTTAAGAAAAAAT
Done.