Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold11
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: 5230303
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 140504 characters in sequence are not A, C, G, or T
File 27 of 29
Found at i:4608700 original size:3 final size:3
Alignment explanation
Indices: 4608692--4608725 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
4608682 AGAACCTAAA
4608692 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4608726 TCCGATAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4609000 original size:14 final size:15
Alignment explanation
Indices: 4608975--4609004 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4608965 AAGTTATGCT
4608975 ATATATTATATATAA
1 ATATATTATATATAA
4608990 ATATA-TATATATAA
1 ATATATTATATATAA
4609004 A
1 A
4609005 ATAAATGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATATATTATATATAA
Found at i:4610031 original size:48 final size:47
Alignment explanation
Indices: 4609950--4610045 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 47
4609940 AACAATAATA
4609950 ATAATAATAATAATATATAGATATAACTAGGATTAATTATTGTTTGC
1 ATAATAATAATAATATATAGATATAACTAGGATTAATTATTGTTTGC
4609997 ATAATAATAATAATAATATAGATATAACTAGGATTAATTATTGTTTGC
1 ATAATAATAATAAT-ATATAGATATAACTAGGATTAATTATTGTTTGC
4610045 A
1 A
4610046 GGTGGCTCCT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 14 0.29
48 34 0.71
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (47 bp):
ATAATAATAATAATATATAGATATAACTAGGATTAATTATTGTTTGC
Found at i:4620438 original size:2 final size:2
Alignment explanation
Indices: 4620431--4620465 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4620421 AGAAGACATG
4620431 AT AT 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 AT AT A
4620466 GAGAGAGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4620470 original size:2 final size:2
Alignment explanation
Indices: 4620465--4620489 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4620455 ATATATATAT
4620465 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
4620490 AATAATTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4622820 original size:14 final size:14
Alignment explanation
Indices: 4622794--4622828 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
4622784 AAGTAATTAA
4622794 AATC-ATTTAATTT
1 AATCAATTTAATTT
4622807 AATCAATTTAATTT
1 AATCAATTTAATTT
*
4622821 TATCAATT
1 AATCAATT
4622829 ATGTTAGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (14 bp):
AATCAATTTAATTT
Found at i:4623040 original size:23 final size:23
Alignment explanation
Indices: 4623020--4623102 Score: 80
Period size: 23 Copynumber: 3.5 Consensus size: 23
4623010 AAATAAATTT
*
4623020 ATTTATATTAATTTATAAAATTAA
1 ATTT-TATTAATTAATAAAATTAA
*
4623044 ATTTTATTAATTAATTAAATTAA
1 ATTTTATTAATTAATAAAATTAA
* *
4623067 A-TTAAATAATTTAAATAAAA-TAA
1 ATTTTATTAA-TT-AATAAAATTAA
4623090 ATTTTAATTAATT
1 ATTTT-ATTAATT
4623103 TAATCTATTC
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
22 6 0.12
23 24 0.50
24 14 0.29
25 4 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTTTATTAATTAATAAAATTAA
Found at i:4623070 original size:18 final size:18
Alignment explanation
Indices: 4623038--4623092 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
4623028 TAATTTATAA
**
4623038 AATTAAATTTTATTAATT
1 AATTAAATTAAATTAATT
*
4623056 AATTAAATTAAATTAAAT
1 AATTAAATTAAATTAATT
* *
4623074 AATTTAAATAAAATAAATT
1 AA-TTAAATTAAATTAATT
4623093 TTAATTAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 17 0.57
19 13 0.43
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTAAATTAAATTAATT
Found at i:4623339 original size:24 final size:25
Alignment explanation
Indices: 4623312--4623361 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
4623302 TGATTAAAAG
* *
4623312 TTTT-AAATTATAATAAATTTTTAT
1 TTTTAAAATTATAAAAAAATTTTAT
4623336 TTTTAAAATTATAAAAAAATTTTAT
1 TTTTAAAATTATAAAAAAATTTTAT
4623361 T
1 T
4623362 AAAAAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
TTTTAAAATTATAAAAAAATTTTAT
Found at i:4624766 original size:18 final size:18
Alignment explanation
Indices: 4624728--4624766 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4624718 GATTGATTAA
* **
4624728 ATATTACTCTTATTACTT
1 ATATTACTCATATTAAAT
4624746 ATATTACTCATATTAAAT
1 ATATTACTCATATTAAAT
4624764 ATA
1 ATA
4624767 ATAACTAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATTACTCATATTAAAT
Found at i:4625177 original size:13 final size:13
Alignment explanation
Indices: 4625159--4625184 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4625149 CTTTTGGTCA
4625159 CTCGCTCGCGTAG
1 CTCGCTCGCGTAG
4625172 CTCGCTCGCGTAG
1 CTCGCTCGCGTAG
4625185 TCTTAAGGCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.38, G:0.31, T:0.23
Consensus pattern (13 bp):
CTCGCTCGCGTAG
Found at i:4627166 original size:31 final size:31
Alignment explanation
Indices: 4627131--4627222 Score: 92
Period size: 31 Copynumber: 3.2 Consensus size: 31
4627121 TATTTTTTTG
4627131 AAATATATATTTTAAATATCAAAATTTATAT
1 AAATATATATTTTAAATATCAAAATTTATAT
** *
4627162 AAATATA-A---T-ACGAT--GAA-TTATAT
1 AAATATATATTTTAAATATCAAAATTTATAT
*
4627185 AAATATATGTTTTAAATATCAAAATTTATAT
1 AAATATATATTTTAAATATCAAAATTTATAT
4627216 AAATATA
1 AAATATA
4627223 ACACAATAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 16
0.67 0.10 0.23
Matches are distributed among these distances:
23 13 0.28
24 2 0.04
26 3 0.07
27 2 0.04
28 3 0.07
30 3 0.07
31 20 0.43
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.41
Consensus pattern (31 bp):
AAATATATATTTTAAATATCAAAATTTATAT
Found at i:4627189 original size:54 final size:54
Alignment explanation
Indices: 4627131--4627244 Score: 183
Period size: 54 Copynumber: 2.1 Consensus size: 54
4627121 TATTTTTTTG
* * *
4627131 AAATATATATTTTAAATATCAAAATTTATATAAATATAATACGATGAATTATAT
1 AAATATATATTTTAAATATCAAAATTTATATAAATATAACACAATAAATTATAT
*
4627185 AAATATATGTTTTAAATATCAAAATTTATATAAATATAACACAATAAATTATAT
1 AAATATATATTTTAAATATCAAAATTTATATAAATATAACACAATAAATTATAT
*
4627239 TAATAT
1 AAATAT
4627245 GAATGGAATA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (54 bp):
AAATATATATTTTAAATATCAAAATTTATATAAATATAACACAATAAATTATAT
Found at i:4630404 original size:28 final size:27
Alignment explanation
Indices: 4630344--4630398 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
4630334 GTATTAGATA
4630344 ATTATAATTATTTAAATATAAATATTG
1 ATTATAATTATTTAAATATAAATATTG
* *
4630371 AATATAATTTTTTTAAATATTAAATATT
1 ATTATAA-TTATTTAAATA-TAAATATT
4630399 TTTATATTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 6 0.25
28 10 0.42
29 8 0.33
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (27 bp):
ATTATAATTATTTAAATATAAATATTG
Found at i:4631127 original size:3 final size:3
Alignment explanation
Indices: 4631119--4631153 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
4631109 ACATGAAAGG
4631119 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4631154 TATTATTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:4640156 original size:5 final size:5
Alignment explanation
Indices: 4640148--4640180 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
4640138 TTTTCTGCTT
4640148 AATTC AATTC AATTC AATTC AATTC AATTC AAT
1 AATTC AATTC AATTC AATTC AATTC AATTC AAT
4640181 AATAGTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (5 bp):
AATTC
Found at i:4650340 original size:45 final size:45
Alignment explanation
Indices: 4650276--4650365 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
4650266 ACATGCCAAT
*
4650276 GCTTCTCTTTCACAAAGAACATTAAGAACAACTGGTTAGTGACTA
1 GCTTCTCTTTAACAAAGAACATTAAGAACAACTGGTTAGTGACTA
*
4650321 GCTTCTCTTTAACAGAGAACATTAAGAACAACTGGTTAGTGACTA
1 GCTTCTCTTTAACAAAGAACATTAAGAACAACTGGTTAGTGACTA
4650366 AGTACCAAGC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (45 bp):
GCTTCTCTTTAACAAAGAACATTAAGAACAACTGGTTAGTGACTA
Found at i:4651866 original size:2 final size:2
Alignment explanation
Indices: 4651859--4651892 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4651849 TAATTTATTT
4651859 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
4651893 GCCTACTGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4653589 original size:2 final size:2
Alignment explanation
Indices: 4653582--4653615 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4653572 TGCGTATTTC
4653582 AT AT 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 AT AT
4653616 TAATTTTACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4659084 original size:14 final size:14
Alignment explanation
Indices: 4659065--4659099 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
4659055 GAGGTAAGAA
4659065 AAATAGAAAATCAG
1 AAATAGAAAATCAG
*
4659079 AAATAGAGAATCAG
1 AAATAGAAAATCAG
*
4659093 AATTAGA
1 AAATAGA
4659100 TAGAATAGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (14 bp):
AAATAGAAAATCAG
Found at i:4659132 original size:12 final size:12
Alignment explanation
Indices: 4659110--4659143 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4659100 TAGAATAGAG
4659110 AAAGAAAGAAAA
1 AAAGAAAGAAAA
* *
4659122 TAAGAACGAAAA
1 AAAGAAAGAAAA
4659134 AAAGAAAGAA
1 AAAGAAAGAA
4659144 TATTCCGAGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (12 bp):
AAAGAAAGAAAA
Found at i:4661989 original size:18 final size:18
Alignment explanation
Indices: 4661966--4662003 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
4661956 GATAAGTACA
4661966 AGAGAGTAAGAGAAAGAG
1 AGAGAGTAAGAGAAAGAG
4661984 AGAGAGTAAGAGAAAGAG
1 AGAGAGTAAGAGAAAGAG
4662002 AG
1 AG
4662004 GACATGTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.05
Consensus pattern (18 bp):
AGAGAGTAAGAGAAAGAG
Found at i:4662079 original size:2 final size:2
Alignment explanation
Indices: 4662067--4662098 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4662057 TTTCTTCTTC
*
4662067 AT AT AT GT 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 AT
4662099 TAATTTGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4662674 original size:22 final size:21
Alignment explanation
Indices: 4662624--4662696 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 21
4662614 ATTTTTAATA
4662624 ATTTATTAAAGTAATAATTTT
1 ATTTATTAAAGTAATAATTTT
* *
4662645 ATCT-TTAATAGTTATTAATTTT
1 ATTTATTAA-AG-TAATAATTTT
*
4662667 -TTTATTAAATTAATTAAATATTT
1 ATTTATTAAAGTAA-T-AAT-TTT
4662690 ATTTATT
1 ATTTATT
4662697 TCTTTTAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
20 6 0.15
21 9 0.22
22 16 0.40
23 3 0.08
24 6 0.15
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (21 bp):
ATTTATTAAAGTAATAATTTT
Found at i:4663427 original size:3 final size:3
Alignment explanation
Indices: 4663419--4663452 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
4663409 TAGCTTATCC
4663419 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4663453 ATTTAAACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4666275 original size:2 final size:2
Alignment explanation
Indices: 4666268--4666294 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4666258 CGCACGCCCA
4666268 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
4666295 CTTTTTGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4675252 original size:2 final size:2
Alignment explanation
Indices: 4675245--4675272 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4675235 GTCTAAAAAC
4675245 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
4675273 GCACAGAGAG
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):
AT
Found at i:4676626 original size:28 final size:29
Alignment explanation
Indices: 4676572--4676640 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
4676562 TTATTTTACA
*
4676572 ATTTTAAAATTTTTTTCTAAAATTATATAT
1 ATTTT-AAATTTTTTTCTAAAATTATAAAT
*
4676602 ATTTTAAATTTTTTATGT-AAA-TATAAAT
1 ATTTTAAATTTTTT-TCTAAAATTATAAAT
*
4676630 A-TATAAATTTT
1 ATTTTAAATTTT
4676641 CAAGACATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 9 0.26
28 7 0.20
29 12 0.34
30 7 0.20
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (29 bp):
ATTTTAAATTTTTTTCTAAAATTATAAAT
Found at i:4676632 original size:30 final size:30
Alignment explanation
Indices: 4676572--4676633 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
4676562 TTATTTTACA
*
4676572 ATTTTAAAATTTTTTTCTAAAATTATATAT
1 ATTTTAAAATTTTTTTCTAAAATTAAATAT
*
4676602 ATTTT-AAATTTTTTATGT-AAATATAAATAT
1 ATTTTAAAATTTTTT-TCTAAAAT-TAAATAT
4676632 AT
1 AT
4676634 AAATTTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 13 0.46
30 15 0.54
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (30 bp):
ATTTTAAAATTTTTTTCTAAAATTAAATAT
Found at i:4680271 original size:2 final size:2
Alignment explanation
Indices: 4680264--4680288 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4680254 AAAGAAGATC
4680264 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 A
4680289 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4680293 original size:2 final size:2
Alignment explanation
Indices: 4680288--4680316 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4680278 ATATATATAT
4680288 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4680317 TAATTATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4685573 original size:20 final size:21
Alignment explanation
Indices: 4685548--4685587 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
4685538 AAAATTTCCA
*
4685548 GTTATTTAACGTTTA-ATTAC
1 GTTATTAAACGTTTATATTAC
*
4685568 GTTATTAAACTTTTATATTA
1 GTTATTAAACGTTTATATTA
4685588 AAAAAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (21 bp):
GTTATTAAACGTTTATATTAC
Found at i:4686992 original size:12 final size:12
Alignment explanation
Indices: 4686975--4687001 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4686965 AGTAGAAGCT
4686975 GATAGTGGTGCA
1 GATAGTGGTGCA
4686987 GATAGTGGTGCA
1 GATAGTGGTGCA
4686999 GAT
1 GAT
4687002 GGAAGTGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.07, G:0.41, T:0.26
Consensus pattern (12 bp):
GATAGTGGTGCA
Found at i:4688976 original size:18 final size:18
Alignment explanation
Indices: 4688944--4688984 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
4688934 ATATGAGTAT
4688944 ATTTAATTTATTTTTAAA
1 ATTTAATTTATTTTTAAA
*
4688962 ATTTATATTTATTTTAAAA
1 ATTTA-ATTTATTTTTAAA
4688981 ATTT
1 ATTT
4688985 TTAAAAAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTAATTTATTTTTAAA
Found at i:4689817 original size:22 final size:22
Alignment explanation
Indices: 4689791--4689834 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4689781 CATACTTACA
4689791 AAGAAACAAAATTTCATAAATG
1 AAGAAACAAAATTTCATAAATG
* *
4689813 AAGAAACAAATTTTGATAAATG
1 AAGAAACAAAATTTCATAAATG
4689835 GCAGTACTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.07, G:0.11, T:0.25
Consensus pattern (22 bp):
AAGAAACAAAATTTCATAAATG
Found at i:4690301 original size:20 final size:20
Alignment explanation
Indices: 4690276--4690331 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
4690266 TTTTGATAAC
*
4690276 TTTTTTACGTAATTTTAATA
1 TTTTTTATGTAATTTTAATA
* *
4690296 TTTTTTATGTGATTTTTATA
1 TTTTTTATGTAATTTTAATA
* *
4690316 ATATTTATGTAATTTT
1 TTTTTTATGTAATTTT
4690332 GATAACGTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (20 bp):
TTTTTTATGTAATTTTAATA
Found at i:4690336 original size:20 final size:20
Alignment explanation
Indices: 4690279--4690371 Score: 64
Period size: 20 Copynumber: 4.7 Consensus size: 20
4690269 TGATAACTTT
* * * *
4690279 TTTACGTAATTTTAATATTT
1 TTTATGTAATTTTGATAATA
* *
4690299 TTTATGTGATTTTTATAATA
1 TTTATGTAATTTTGATAATA
**
4690319 TTTATGTAATTTTGATAACG
1 TTTATGTAATTTTGATAATA
* *
4690339 TTTA-ATATATTTAG-TAATA
1 TTTATGTA-ATTTTGATAATA
4690358 TTTTATGTAATTTT
1 -TTTATGTAATTTT
4690372 ATTTAACTTT
Statistics
Matches: 55, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
19 5 0.09
20 48 0.87
21 2 0.04
ACGTcount: A:0.31, C:0.02, G:0.09, T:0.58
Consensus pattern (20 bp):
TTTATGTAATTTTGATAATA
Found at i:4690413 original size:21 final size:22
Alignment explanation
Indices: 4690375--4690415 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
4690365 TAATTTTATT
* *
4690375 TAACTTTTTATATTATTTTTAG
1 TAACTTTTTAAATAATTTTTAG
4690397 TAAC-TTTTAAATAATTTTT
1 TAACTTTTTAAATAATTTTT
4690416 GATAAAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (22 bp):
TAACTTTTTAAATAATTTTTAG
Found at i:4690452 original size:11 final size:11
Alignment explanation
Indices: 4690435--4690488 Score: 53
Period size: 11 Copynumber: 5.2 Consensus size: 11
4690425 GTAACAAAAA
4690435 TTAATATAATT
1 TTAATATAATT
*
4690446 TTGATAT--TT
1 TTAATATAATT
4690455 TTAATATAATT
1 TTAATATAATT
*
4690466 TT-ATA-ACTTT
1 TTAATATA-ATT
4690476 TTAATATAATT
1 TTAATATAATT
4690487 TT
1 TT
4690489 GTAATAATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
9 9 0.26
10 7 0.21
11 17 0.50
12 1 0.03
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (11 bp):
TTAATATAATT
Found at i:4690460 original size:20 final size:22
Alignment explanation
Indices: 4690435--4690489 Score: 89
Period size: 21 Copynumber: 2.6 Consensus size: 22
4690425 GTAACAAAAA
4690435 TTAATATAATTTTGAT-A-TTT
1 TTAATATAATTTTGATAACTTT
4690455 TTAATATAATTTT-ATAACTTT
1 TTAATATAATTTTGATAACTTT
4690476 TTAATATAATTTTG
1 TTAATATAATTTTG
4690490 TAATAATGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.06
20 14 0.44
21 16 0.50
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (22 bp):
TTAATATAATTTTGATAACTTT
Found at i:4690530 original size:21 final size:21
Alignment explanation
Indices: 4690481--4690542 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
4690471 ACTTTTTAAT
*
4690481 ATAAT-TTTGTAATAATGTTA
1 ATAATATTTGTAATAATTTTA
* *
4690501 ATCACATTTGTAATAATTTTA
1 ATAATATTTGTAATAATTTTA
*
4690522 GTAATATTTG-ATATAATTTTA
1 ATAATATTTGTA-ATAATTTTA
4690543 TAAAAAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 4 0.12
21 30 0.88
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (21 bp):
ATAATATTTGTAATAATTTTA
Found at i:4692972 original size:21 final size:20
Alignment explanation
Indices: 4692946--4693082 Score: 100
Period size: 21 Copynumber: 6.5 Consensus size: 20
4692936 TAAATTAATA
4692946 ATATATATTTATATTATATTT
1 ATATAT-TTTATATTATATTT
*
4692967 ATATATTTTAATATATAATAATT
1 ATATATTTT-ATAT-T-ATATTT
**
4692990 ATAT-TTAAAATATTATGATTT
1 ATATATT-TTATATTAT-ATTT
4693011 ATATAAATTTTA-A-TATATTT
1 ATAT--ATTTTATATTATATTT
*
4693031 ATATATTTTAATAATATATTT
1 ATATATTTT-ATATTATATTT
* *
4693052 ATTATTTTTTATATTTTATTT
1 A-TATATTTTATATTATATTT
*
4693073 ATTTATTTTA
1 ATATATTTTA
4693083 CTGTTTCATT
Statistics
Matches: 93, Mismatches: 11, Indels: 25
0.72 0.09 0.19
Matches are distributed among these distances:
18 5 0.05
19 1 0.01
20 21 0.23
21 39 0.42
22 15 0.16
23 10 0.11
24 2 0.02
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (20 bp):
ATATATTTTATATTATATTT
Found at i:4693016 original size:29 final size:29
Alignment explanation
Indices: 4692943--4693005 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
4692933 AAATAAATTA
* *
4692943 ATAATATATATTTATATTATATTTATATATT
1 ATAATATATA-ATA-ATTATATTTAAATATT
*
4692974 TTAATATATAATAATTATATTTAAAATATT
1 ATAATATATAATAATTATATTT-AAATATT
4693004 AT
1 AT
4693006 GATTTATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
29 9 0.33
30 9 0.33
31 9 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (29 bp):
ATAATATATAATAATTATATTTAAATATT
Found at i:4693040 original size:9 final size:9
Alignment explanation
Indices: 4693007--4693076 Score: 54
Period size: 9 Copynumber: 7.4 Consensus size: 9
4692997 AAATATTATG
*
4693007 ATTTATATAA
1 ATTT-TATAT
4693017 ATTTTA-AT
1 ATTTTATAT
4693025 ATATTTATAT
1 AT-TTTATAT
4693035 ATTTTAATAAT
1 ATTTT-AT-AT
4693046 ATATTTAT-T
1 AT-TTTATAT
*
4693055 ATTTTTTAT
1 ATTTTATAT
*
4693064 ATTTTATTT
1 ATTTTATAT
4693073 ATTT
1 ATTT
4693077 ATTTTACTGT
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
8 7 0.14
9 24 0.48
10 10 0.20
11 6 0.12
12 3 0.06
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTTATAT
Found at i:4699856 original size:23 final size:23
Alignment explanation
Indices: 4699830--4699875 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
4699820 TTTATTTCTC
4699830 TATTTATAAAAAT-ATTTAAATAA
1 TATTT-TAAAAATAATTTAAATAA
* *
4699853 TATTTTATAATTAATTTAAATAA
1 TATTTTAAAAATAATTTAAATAA
4699876 AAATATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TATTTTAAAAATAATTTAAATAA
Found at i:4702376 original size:2 final size:2
Alignment explanation
Indices: 4702369--4702398 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4702359 ATAGTTCAAT
*
4702369 TA TA TA TA TA TA TA TA TA TA CA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4702399 GTATTTCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:4706219 original size:20 final size:19
Alignment explanation
Indices: 4706189--4706240 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
4706179 GCTATTCAAA
4706189 TTAATTTTAAATAAAATTT-T
1 TTAA-TTTAAAT-AAATTTAT
4706209 TATAATTTAAATAAATTTAAT
1 T-TAATTTAAATAAATTT-AT
4706230 TTAATTTAAAT
1 TTAATTTAAAT
4706241 TATTATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 6 0.21
20 18 0.62
21 5 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAATTTAAATAAATTTAT
Found at i:4706254 original size:20 final size:18
Alignment explanation
Indices: 4706194--4706254 Score: 50
Period size: 20 Copynumber: 3.1 Consensus size: 18
4706184 TCAAATTAAT
*
4706194 TTTAAATAAAATTTTTATAA
1 TTTAAAT-AAA-TTTAATAA
4706214 TTTAAATAAATTTAATTTAA
1 TTTAAATAAATTTAA--TAA
*
4706234 TTTAAATTATTATTTAATAA
1 TTTAAA-TA-AATTTAATAA
4706254 T
1 T
4706255 AAAATAATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
18 4 0.11
19 3 0.09
20 20 0.57
21 2 0.06
22 6 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTTAAATAAATTTAATAA
Found at i:4706446 original size:2 final size:2
Alignment explanation
Indices: 4706441--4706489 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
4706431 ATATATATAT
4706441 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4706483 AG AG AG A
1 AG AG AG A
4706490 TGGTAGCCAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4707014 original size:12 final size:14
Alignment explanation
Indices: 4706986--4707016 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
4706976 TTTTATTTAA
4706986 TTTATATAATTATT
1 TTTATATAATTATT
4707000 TTTA-ATAATTATT
1 TTTATATAATTATT
4707013 TTTA
1 TTTA
4707017 AACAATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTATATAATTATT
Found at i:4707206 original size:17 final size:17
Alignment explanation
Indices: 4707184--4707231 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
4707174 AAAAATTATT
4707184 TATTTATTAAATTTTTA
1 TATTTATTAAATTTTTA
* * *
4707201 TATTTAATATATTATTA
1 TATTTATTAAATTTTTA
4707218 T-TATTATTAAATTT
1 TAT-TTATTAAATTT
4707232 AAAAAATAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
16 1 0.04
17 23 0.96
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTTATTAAATTTTTA
Found at i:4723856 original size:26 final size:25
Alignment explanation
Indices: 4723801--4723857 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
4723791 TAAAAATTAA
*
4723801 ATTAA-TATGATATTTTATAAAATT
1 ATTAATTATGAAATTTTATAAAATT
*
4723825 A-T-ATTATGAAATTTGTTTAAAATT
1 ATTAATTATGAAATTT-TATAAAATT
4723849 ATTAATTAT
1 ATTAATTAT
4723858 TTTTTATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 1 0.04
23 10 0.37
24 10 0.37
25 1 0.04
26 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (25 bp):
ATTAATTATGAAATTTTATAAAATT
Found at i:4729869 original size:1 final size:1
Alignment explanation
Indices: 4729863--4729891 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
4729853 TTATTTTCCC
4729863 GGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGG
4729892 AAGCATTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:4736182 original size:14 final size:14
Alignment explanation
Indices: 4736133--4736183 Score: 59
Period size: 14 Copynumber: 3.4 Consensus size: 14
4736123 ATTATAAATT
4736133 TATATAAATTTTAA
1 TATATAAATTTTAA
4736147 TATATTAATAATTTATAA
1 TATA-T-A-AATTT-TAA
4736165 -ATATAAATTTTAA
1 TATATAAATTTTAA
4736178 TATATA
1 TATATA
4736184 TTTATATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
13 3 0.09
14 14 0.44
15 2 0.06
16 2 0.06
17 8 0.25
18 3 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TATATAAATTTTAA
Found at i:4736202 original size:21 final size:19
Alignment explanation
Indices: 4736172--4736230 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
4736162 TAAATATAAA
4736172 TTTTAATATATATTTATATAT
1 TTTTAATATAT-TTTAT-TAT
*
4736193 TTTTATTATATTTTATTAT
1 TTTTAATATATTTTATTAT
* *
4736212 TTTTTATATCATATTATTA
1 TTTTAATAT-ATTTTATTA
4736231 AAAATCTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 10 0.30
20 13 0.39
21 10 0.30
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTAATATATTTTATTAT
Found at i:4736218 original size:20 final size:21
Alignment explanation
Indices: 4736172--4736215 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
4736162 TAAATATAAA
*
4736172 TTTTAATATATATTTATATAT
1 TTTTATTATATATTTATATAT
4736193 TTTTATTATAT-TTTAT-TAT
1 TTTTATTATATATTTATATAT
4736212 TTTT
1 TTTT
4736216 TATATCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.32
20 5 0.23
21 10 0.45
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTATTATATATTTATATAT
Found at i:4736228 original size:20 final size:20
Alignment explanation
Indices: 4736172--4736230 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
4736162 TAAATATAAA
*
4736172 TTTTAATATATATT-TATATAT
1 TTTTATTATATATTAT-TAT-T
*
4736193 TTTTATTATATTTTATTATT
1 TTTTATTATATATTATTATT
4736213 TTTTA-TATCATATTATTA
1 TTTTATTAT-ATATTATTA
4736231 AAAATCTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 3 0.09
20 14 0.42
21 15 0.45
22 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTATTATATATTATTATT
Found at i:4739785 original size:2 final size:2
Alignment explanation
Indices: 4739778--4739805 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4739768 TTTCATAAAA
4739778 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
4739806 GATCAAGCAC
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):
AT
Found at i:4745216 original size:27 final size:26
Alignment explanation
Indices: 4745186--4745241 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 26
4745176 TTTTACTTAA
4745186 ATTTGATATATGAATATCTGTTGAATG
1 ATTTGATATATGAATATCT-TTGAATG
4745213 ATTTGATATATGAATATCTTTGAATG
1 ATTTGATATATGAATATCTTTGAATG
4745239 ATT
1 ATT
4745242 ATATTTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 10 0.34
27 19 0.66
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.46
Consensus pattern (26 bp):
ATTTGATATATGAATATCTTTGAATG
Found at i:4748555 original size:21 final size:21
Alignment explanation
Indices: 4748531--4748571 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4748521 GATTGTGTAA
* *
4748531 AAAAATTAATAATAAATAAAT
1 AAAAATAAAAAATAAATAAAT
4748552 AAAAATAAAAAATAAATAAA
1 AAAAATAAAAAATAAATAAA
4748572 GTGATTTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAAATAAAAAATAAATAAAT
Found at i:4748564 original size:17 final size:17
Alignment explanation
Indices: 4748538--4748571 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4748528 TAAAAAAATT
*
4748538 AATAATAAATAAATAAA
1 AATAAAAAATAAATAAA
4748555 AATAAAAAATAAATAAA
1 AATAAAAAATAAATAAA
4748572 GTGATTTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
AATAAAAAATAAATAAA
Found at i:4749396 original size:15 final size:17
Alignment explanation
Indices: 4749367--4749403 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
4749357 TTTTTATCAC
4749367 AAATTTAAGAAATA-TT
1 AAATTTAAGAAATATTT
4749383 AAATTTAA-AAATATTT
1 AAATTTAAGAAATATTT
4749399 AAATT
1 AAATT
4749404 AGTTGTTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
AAATTTAAGAAATATTT
Found at i:4751547 original size:43 final size:43
Alignment explanation
Indices: 4751494--4751577 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
4751484 CCTATCCTAA
*
4751494 CCCTACAGTTGAATCCAAGTATATTACAACAATAATCATCAAG
1 CCCTACAGTTGAATCCAAGTATATAACAACAATAATCATCAAG
* *
4751537 CCCTTCAGTTGAATCCAAGTATATAACAGCAATAATCATCA
1 CCCTACAGTTGAATCCAAGTATATAACAACAATAATCATCA
4751578 CCTGTGCTCC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.26
Consensus pattern (43 bp):
CCCTACAGTTGAATCCAAGTATATAACAACAATAATCATCAAG
Found at i:4758839 original size:19 final size:20
Alignment explanation
Indices: 4758799--4758838 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
4758789 TTTATATGGC
4758799 TTGAATAATAAAATTTTATT
1 TTGAATAATAAAATTTTATT
*
4758819 TTGAATTAT-AAATTTT-TT
1 TTGAATAATAAAATTTTATT
4758837 TT
1 TT
4758839 TATAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
20 8 0.42
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
TTGAATAATAAAATTTTATT
Found at i:4766162 original size:2 final size:2
Alignment explanation
Indices: 4766155--4766188 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4766145 CTTCTTTTGC
4766155 AT AT 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 AT AT
4766189 GATTTGTAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4767726 original size:19 final size:20
Alignment explanation
Indices: 4767695--4767742 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
4767685 ATCACATCAA
4767695 AATTTTATTAATATT-TAAAT
1 AATTTT-TTAATATTATAAAT
* *
4767715 TATTTTTTAATATTATTAAT
1 AATTTTTTAATATTATAAAT
4767735 AATTTTTT
1 AATTTTTT
4767743 CTTGTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
AATTTTTTAATATTATAAAT
Found at i:4770085 original size:2 final size:2
Alignment explanation
Indices: 4770080--4770109 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4770070 ATTACTATTA
4770080 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
4770110 GAAAACTATT
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:4770186 original size:3 final size:3
Alignment explanation
Indices: 4770173--4770215 Score: 68
Period size: 3 Copynumber: 14.0 Consensus size: 3
4770163 ATTACATTGC
*
4770173 AAT ACAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4770216 TAATGCTCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:4772356 original size:15 final size:16
Alignment explanation
Indices: 4772325--4772364 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 16
4772315 ATTATTTTAT
4772325 AAATTTAAATTGATAA
1 AAATTTAAATTGATAA
*
4772341 AAATTT-AATT-AT-T
1 AAATTTAAATTGATAA
4772354 AAATTTAAATT
1 AAATTTAAATT
4772365 ATATAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 6 0.27
14 6 0.27
15 4 0.18
16 6 0.27
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
AAATTTAAATTGATAA
Found at i:4772366 original size:14 final size:15
Alignment explanation
Indices: 4772322--4772370 Score: 66
Period size: 14 Copynumber: 3.3 Consensus size: 15
4772312 TCAATTATTT
4772322 TATAAATTTAAATTGA
1 TATAAATTTAAATT-A
*
4772338 TAAAAATTT-AATTA
1 TATAAATTTAAATTA
4772352 T-TAAATTTAAATTA
1 TATAAATTTAAATTA
4772366 TATAA
1 TATAA
4772371 TTTTTTGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 6 0.21
14 8 0.28
15 7 0.24
16 8 0.28
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (15 bp):
TATAAATTTAAATTA
Found at i:4775357 original size:4 final size:4
Alignment explanation
Indices: 4775348--4775385 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
4775338 AATTCAATGC
4775348 TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
4775386 TATATATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:4776639 original size:2 final size:2
Alignment explanation
Indices: 4776634--4776660 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4776624 TTTTTGTAAA
4776634 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 A
4776661 AAATCAATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4777293 original size:5 final size:5
Alignment explanation
Indices: 4777285--4777337 Score: 52
Period size: 5 Copynumber: 10.4 Consensus size: 5
4777275 TAATATTATA
* ** * *
4777285 TAAAT TAAAT TAAATT TAAAT AAAAT TTTAT TAATT TAATT TAAAT TAAAT
1 TAAAT TAAAT TAAA-T TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
4777336 TA
1 TA
4777338 TTAATTATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
5 34 0.87
6 5 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (5 bp):
TAAAT
Found at i:4777305 original size:11 final size:11
Alignment explanation
Indices: 4777285--4777336 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
4777275 TAATATTATA
4777285 TAAA-TTAAAT
1 TAAATTTAAAT
4777295 TAAATTTAAAT
1 TAAATTTAAAT
*
4777306 AAAATTTTATTAAT
1 TAAA-TTTA--AAT
*
4777320 TTAATTTAAAT
1 TAAATTTAAAT
4777331 TAAATT
1 TAAATT
4777337 ATTAATTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
10 4 0.12
11 17 0.50
12 4 0.12
13 4 0.12
14 5 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TAAATTTAAAT
Found at i:4781297 original size:107 final size:107
Alignment explanation
Indices: 4781111--4781331 Score: 379
Period size: 107 Copynumber: 2.1 Consensus size: 107
4781101 GAAATTTATC
* *
4781111 AATCTTTTTATAAATAAATAAAAATTCCAAGAACTCTTATCTTAAGACACTCTTTGTTAGGAAGT
1 AATCTTTTTATAAATAAATAAAAATTCCAAGAACTCTTATCTTAAGAAACTCTTTGTTAGAAAGT
* *
4781176 TTATAGATATTTTGAAATGCATCTGGTCTTCTTGTTGCATAG
66 TTATAGATATTTTGAAATGCACCTGGTCTTCTTGCTGCATAG
*
4781218 AATCTTTTTATAAATAAATAAAAATTTCAAGAACTCTTATCTTAAGAAACTCTTTGTTAGAAAGT
1 AATCTTTTTATAAATAAATAAAAATTCCAAGAACTCTTATCTTAAGAAACTCTTTGTTAGAAAGT
* *
4781283 TTGTAGATATTTTGAAATGCACCTGGTCTTCTTGCTGCATGG
66 TTATAGATATTTTGAAATGCACCTGGTCTTCTTGCTGCATAG
4781325 AATCTTT
1 AATCTTT
4781332 AATTAAAAAC
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
107 107 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (107 bp):
AATCTTTTTATAAATAAATAAAAATTCCAAGAACTCTTATCTTAAGAAACTCTTTGTTAGAAAGT
TTATAGATATTTTGAAATGCACCTGGTCTTCTTGCTGCATAG
Found at i:4781986 original size:26 final size:26
Alignment explanation
Indices: 4781950--4782000 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
4781940 TTTCCCTGGA
*
4781950 AAATTAAACTAATTCCTTACAAATAC
1 AAATTAAACTAATTCATTACAAATAC
4781976 AAATTAAACTAATTCATTACAAATA
1 AAATTAAACTAATTCATTACAAATA
4782001 GCAATAATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (26 bp):
AAATTAAACTAATTCATTACAAATAC
Found at i:4782041 original size:2 final size:2
Alignment explanation
Indices: 4782034--4782070 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4782024 TGATTTTAAC
4782034 AT AT AT 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 AT AT AT A
4782071 CACACCTGTA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4784188 original size:14 final size:15
Alignment explanation
Indices: 4784165--4784200 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
4784155 ATATAAAATA
*
4784165 ATATAATTAATAT-T
1 ATATATTTAATATAT
4784179 ATATATTTAATATAT
1 ATATATTTAATATAT
4784194 ATATATT
1 ATATATT
4784201 ACATTCGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATATTTAATATAT
Found at i:4784443 original size:18 final size:18
Alignment explanation
Indices: 4784411--4784464 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
4784401 GTATCATAAT
4784411 TATGTTTAA-AAATTTTTA
1 TATG-TTAATAAATTTTTA
*
4784429 TAT-TTATATAAATTTTGA
1 TATGTTA-ATAAATTTTTA
4784447 TATGTTAAT-AATTTTTA
1 TATGTTAATAAATTTTTA
4784464 T
1 T
4784465 TAAATAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
16 3 0.10
17 9 0.29
18 16 0.52
19 3 0.10
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (18 bp):
TATGTTAATAAATTTTTA
Found at i:4787685 original size:2 final size:2
Alignment explanation
Indices: 4787678--4787702 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4787668 ACAAGGTAAC
4787678 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
4787703 ATTGATTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4787765 original size:2 final size:2
Alignment explanation
Indices: 4787754--4787792 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
4787744 AAGAGGGGAT
*
4787754 TA TA TA -A TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4787793 GAGAGAGAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4787825 original size:14 final size:15
Alignment explanation
Indices: 4787799--4787827 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4787789 TATAGAGAGA
4787799 GAGAGAGAGGCAAAG
1 GAGAGAGAGGCAAAG
4787814 GAGAGA-AGGCAAAG
1 GAGAGAGAGGCAAAG
4787828 AAGTAGGACG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.07, G:0.45, T:0.00
Consensus pattern (15 bp):
GAGAGAGAGGCAAAG
Found at i:4791966 original size:8 final size:8
Alignment explanation
Indices: 4791952--4792017 Score: 50
Period size: 8 Copynumber: 8.5 Consensus size: 8
4791942 TATGACAATC
4791952 ATATAATA
1 ATATAATA
*
4791960 TTATAATAA
1 ATATAAT-A
4791969 ATATAAATA
1 ATAT-AATA
* *
4791978 TTAAAATA
1 ATATAATA
4791986 ATATAATA
1 ATATAATA
4791994 A-AT-AT-
1 ATATAATA
*
4791999 -TATAAAA
1 ATATAATA
4792006 ATATAATA
1 ATATAATA
4792014 ATAT
1 ATAT
4792018 GCTAAATATT
Statistics
Matches: 44, Mismatches: 8, Indels: 12
0.69 0.12 0.19
Matches are distributed among these distances:
5 2 0.05
6 3 0.07
7 2 0.05
8 27 0.61
9 7 0.16
10 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:4791974 original size:17 final size:18
Alignment explanation
Indices: 4791952--4792011 Score: 79
Period size: 18 Copynumber: 3.3 Consensus size: 18
4791942 TATGACAATC
4791952 ATAT-AATATTATAATAA
1 ATATAAATATTATAATAA
*
4791969 ATATAAATATTAAAATAA
1 ATATAAATATTATAATAA
4791987 TATAATAAATATTATAA-AA
1 -AT-ATAAATATTATAATAA
4792006 ATATAA
1 ATATAA
4792012 TAATATGCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
17 8 0.21
18 14 0.37
19 4 0.11
20 12 0.32
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATATAAATATTATAATAA
Found at i:4791996 original size:20 final size:20
Alignment explanation
Indices: 4791956--4792014 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
4791946 ACAATCATAT
*
4791956 AATATTATAATAA-AT-ATA
1 AATATTAAAATAATATAATA
4791974 AATATTAAAATAATATAATA
1 AATATTAAAATAATATAATA
4791994 AATATTATAAA-AATATAATA
1 AATATTA-AAATAATATAATA
4792014 A
1 A
4792015 TATGCTAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
18 12 0.32
19 2 0.05
20 20 0.54
21 3 0.08
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AATATTAAAATAATATAATA
Found at i:4798907 original size:20 final size:20
Alignment explanation
Indices: 4798879--4798917 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4798869 ATAATATTAA
* *
4798879 TATACAAATAAATTATAATT
1 TATAAAAATAAAATATAATT
4798899 TATAAAAATAAAATATAAT
1 TATAAAAATAAAATATAAT
4798918 ATGATTATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
TATAAAAATAAAATATAATT
Found at i:4799498 original size:2 final size:2
Alignment explanation
Indices: 4799491--4799517 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4799481 GACGAATTCC
4799491 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
4799518 CCTTGAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:4799620 original size:23 final size:22
Alignment explanation
Indices: 4799594--4799648 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
4799584 ATTTATAAAT
4799594 AAAATTATTTAAAGTAAAAATAA
1 AAAATTATTT-AAGTAAAAATAA
* **
4799617 AAAATTATTT-ATTTTAAATAA
1 AAAATTATTTAAGTAAAAATAA
4799638 AAAATTATTTA
1 AAAATTATTTA
4799649 TTTTTTTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 18 0.64
23 10 0.36
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AAAATTATTTAAGTAAAAATAA
Found at i:4799635 original size:21 final size:21
Alignment explanation
Indices: 4799611--4799652 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
4799601 TTTAAAGTAA
4799611 AAATAAAAAATTATTTATTTT
1 AAATAAAAAATTATTTATTTT
4799632 AAATAAAAAATTATTTATTTT
1 AAATAAAAAATTATTTATTTT
4799653 TTTCATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AAATAAAAAATTATTTATTTT
Found at i:4799831 original size:18 final size:20
Alignment explanation
Indices: 4799781--4799831 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
4799771 TTAATTTCTC
* *
4799781 TTAAAAAATTACTTATACTT
1 TTAAAATATTACTTATACTA
4799801 TTAAATATCATTA-TT-TACTA
1 TTAAA-AT-ATTACTTATACTA
4799821 TTAAAATATTA
1 TTAAAATATTA
4799832 ATTTTAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
18 4 0.15
19 2 0.07
20 14 0.52
21 3 0.11
22 4 0.15
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (20 bp):
TTAAAATATTACTTATACTA
Found at i:4802900 original size:37 final size:39
Alignment explanation
Indices: 4802795--4802916 Score: 108
Period size: 45 Copynumber: 3.0 Consensus size: 39
4802785 ATATTTTATA
** *
4802795 ATTAAATAATAATAATTTTATATATTTCATAATTAATATTTTATT
1 ATTAAATAATAAT-A-TTTATA-ATTAAATAA--AAAATTTT-TT
4802840 ATTAAATAATAATATTTATAATTAAATATAAATAATTTTTT
1 ATTAAATAATAATATTTATAATTAAATA-AAA-AATTTTTT
*
4802881 A-TAAATAAT-A-ATTTA-AATTAAATAAAAAATTATTT
1 ATTAAATAATAATATTTATAATTAAATAAAAAATTTTTT
4802916 A
1 A
4802917 AATTTAACTC
Statistics
Matches: 71, Mismatches: 4, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
35 8 0.11
36 3 0.04
37 9 0.13
38 5 0.07
39 1 0.01
40 8 0.11
41 5 0.07
42 11 0.15
43 7 0.10
44 1 0.01
45 13 0.18
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.48
Consensus pattern (39 bp):
ATTAAATAATAATATTTATAATTAAATAAAAAATTTTTT
Found at i:4802905 original size:21 final size:22
Alignment explanation
Indices: 4802789--4802920 Score: 97
Period size: 21 Copynumber: 6.4 Consensus size: 22
4802779 ATTTATATAT
4802789 TTTATAATTAAAT-AATAATAA
1 TTTATAATTAAATAAATAATAA
** * *
4802810 TTTTATATATTTCATAATTAATAT
1 -TTTATA-ATTAAATAAATAATAA
*
4802834 TTTATTATTAAAT-AATAAT-A
1 TTTATAATTAAATAAATAATAA
*
4802854 TTTATAATTAAATATA-AATAA
1 TTTATAATTAAATAAATAATAA
4802875 TTT-T--TT--ATAAATAATAA
1 TTTATAATTAAATAAATAATAA
* *
4802892 TTTA-AATTAAATAAAAAATTA
1 TTTATAATTAAATAAATAATAA
4802913 TTTA-AATT
1 TTTATAATT
4802921 TAACTCTATG
Statistics
Matches: 86, Mismatches: 14, Indels: 21
0.71 0.12 0.17
Matches are distributed among these distances:
16 4 0.05
17 8 0.09
18 2 0.02
19 2 0.02
20 16 0.19
21 27 0.31
22 11 0.13
23 10 0.12
24 6 0.07
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTATAATTAAATAAATAATAA
Found at i:4803190 original size:18 final size:18
Alignment explanation
Indices: 4803163--4803207 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
4803153 ATATAATATA
4803163 AAATTATTTTA-AAATATTT
1 AAATT-TTTTATAAA-ATTT
4803182 AAATTTTTTATTAAAATTT
1 AAATTTTTTA-TAAAATTT
4803201 AAATTTT
1 AAATTTT
4803208 ATAACATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.21
19 16 0.67
20 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AAATTTTTTATAAAATTT
Found at i:4808197 original size:2 final size:2
Alignment explanation
Indices: 4808192--4808225 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4808182 TTTCTTTTAC
4808192 AT AT 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 AT AT
4808226 CCATGCGTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4811162 original size:18 final size:18
Alignment explanation
Indices: 4811139--4811175 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4811129 TCTGAAAAGG
*
4811139 AAAAAAGTGAAAGGAAAA
1 AAAAAAGTGAAAAGAAAA
*
4811157 AAAAAATTGAAAAGAAAA
1 AAAAAAGTGAAAAGAAAA
4811175 A
1 A
4811176 GAGAGAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (18 bp):
AAAAAAGTGAAAAGAAAA
Found at i:4823489 original size:16 final size:16
Alignment explanation
Indices: 4823468--4823523 Score: 55
Period size: 17 Copynumber: 3.6 Consensus size: 16
4823458 AAAAGAGTAG
4823468 TAATATATTTATATAT
1 TAATATATTTATATAT
*
4823484 TAATATTATTTTTATAT
1 TAATA-TATTTATATAT
*
4823501 T-ATAT-TATATAT-T
1 TAATATATTTATATAT
*
4823514 TATTATATTT
1 TAATATATTT
4823524 TAATTTTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
13 2 0.06
14 8 0.25
15 3 0.09
16 8 0.25
17 11 0.34
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TAATATATTTATATAT
Found at i:4823513 original size:29 final size:29
Alignment explanation
Indices: 4823471--4823558 Score: 83
Period size: 31 Copynumber: 2.9 Consensus size: 29
4823461 AGAGTAGTAA
4823471 TATATTTATATATTAATATTATTTTTATAT
1 TATA-TTATATATTAATATTATTTTTATAT
*
4823501 TATATTATATATT--TATTATATTTTAATTTTT
1 TATATTATATATTAATATTAT-TTTT-A--TAT
*
4823532 TATATTATTTATATAATA-TATTTTTAT
1 TATATTATATAT-TAATATTATTTTTAT
4823559 TATATCCTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
27 6 0.12
28 4 0.08
29 11 0.22
30 4 0.08
31 14 0.29
32 5 0.10
33 3 0.06
34 2 0.04
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (29 bp):
TATATTATATATTAATATTATTTTTATAT
Found at i:4823527 original size:40 final size:39
Alignment explanation
Indices: 4823470--4823563 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 39
4823460 AAGAGTAGTA
* * *
4823470 ATATATTTATATATTAATATTATT-T-TTATATTATATTAT
1 ATATTTTTATATATTAAT-TTTTTATATTAT-TTATATAAT
*
4823509 ATATTTATTATATTTTAATTTTTTATATTATTTATATAAT
1 ATATTT-TTATATATTAATTTTTTATATTATTTATATAAT
4823549 ATATTTTTATTATAT
1 ATATTTTTA-TATAT
4823564 CCTATATATG
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
39 12 0.26
40 30 0.65
41 4 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (39 bp):
ATATTTTTATATATTAATTTTTTATATTATTTATATAAT
Found at i:4823555 original size:24 final size:24
Alignment explanation
Indices: 4823470--4823558 Score: 76
Period size: 24 Copynumber: 3.7 Consensus size: 24
4823460 AAGAGTAGTA
* *
4823470 ATATATTTATATATTAATATTATTT
1 ATATA-TTATATTTTTATATTATTT
* *
4823495 TTATATTATA-TTATATATT-TATT
1 ATATATTATATTTTTATATTAT-TT
*
4823518 ATATTTTA-ATTTTTTATATTATTT
1 ATATATTATA-TTTTTATATTATTT
*
4823542 ATATAATATATTTTTAT
1 ATATATTATATTTTTAT
4823559 TATATCCTAT
Statistics
Matches: 50, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
22 2 0.04
23 14 0.28
24 28 0.56
25 6 0.12
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (24 bp):
ATATATTATATTTTTATATTATTT
Found at i:4823562 original size:16 final size:15
Alignment explanation
Indices: 4823468--4823558 Score: 60
Period size: 16 Copynumber: 5.9 Consensus size: 15
4823458 AAAAGAGTAG
*
4823468 TAATATATTTATATA
1 TAATATATTTTTATA
4823483 TTAATATTATTTTTATA
1 -TAATA-TATTTTTATA
* *
4823500 T--TATATTATATATT
1 TAATATATT-TTTATA
* * *
4823514 TATTATATTTTAATT
1 TAATATATTTTTATA
**
4823529 TTTTATATTATTTATA
1 TAATATATT-TTTATA
4823545 TAATATATTTTTAT
1 TAATATATTTTTAT
4823559 TATATCCTAT
Statistics
Matches: 60, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
13 4 0.07
14 7 0.12
15 17 0.28
16 23 0.38
17 9 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TAATATATTTTTATA
Found at i:4823688 original size:6 final size:6
Alignment explanation
Indices: 4823677--4823721 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
4823667 TCTTGTCTGC
*
4823677 CTTTTT CTTTTT CCTTTTC CTTTTT -TTTTT -TTTTT CTTTTT CTTT
1 CTTTTT CTTTTT -CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTT
4823722 CCGGCCTTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 10 0.29
6 20 0.57
7 5 0.14
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
CTTTTT
Found at i:4823709 original size:22 final size:22
Alignment explanation
Indices: 4823678--4823721 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4823668 CTTGTCTGCC
4823678 TTTTTCTTTTTCCTTTTCCTTT
1 TTTTTCTTTTTCCTTTTCCTTT
* * *
4823700 TTTTTTTTTTTTCTTTTTCTTT
1 TTTTTCTTTTTCCTTTTCCTTT
4823722 CCGGCCTTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (22 bp):
TTTTTCTTTTTCCTTTTCCTTT
Found at i:4824805 original size:23 final size:22
Alignment explanation
Indices: 4824779--4824834 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
4824769 AACATAAGAA
4824779 AATAAATAATTAAAATATAATAT
1 AATAAATAATTAAAAT-TAATAT
* *
4824802 AATAAAAAAATTAACATTAATAT
1 AAT-AAATAATTAAAATTAATAT
4824825 -A-AAATAATTA
1 AATAAATAATTA
4824835 TATAAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 8 0.28
22 1 0.03
23 9 0.31
24 11 0.38
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (22 bp):
AATAAATAATTAAAATTAATAT
Found at i:4824840 original size:33 final size:34
Alignment explanation
Indices: 4824785--4824848 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
4824775 AGAAAATAAA
4824785 TAATTAAAATATAATATAATAAAAAAATTAACAT
1 TAATTAAAATATAATATAATAAAAAAATTAACAT
* *
4824819 TAATATAAAATA-ATTAT-ATAAAAATATTAA
1 TAAT-TAAAATATAATATAATAAAAAAATTAA
4824849 AATGTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 12 0.44
34 8 0.30
35 7 0.26
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (34 bp):
TAATTAAAATATAATATAATAAAAAAATTAACAT
Found at i:4827487 original size:21 final size:20
Alignment explanation
Indices: 4827463--4827507 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
4827453 ATTAATGATC
4827463 AAATTAAATATT-ATAATAATA
1 AAATTAAA-ATTAATAATAA-A
4827484 AAATTAAAATTAATAATAAA
1 AAATTAAAATTAATAATAAA
4827504 AAAT
1 AAAT
4827508 ATATTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATTAAAATTAATAATAAA
Found at i:4827499 original size:18 final size:18
Alignment explanation
Indices: 4827447--4827504 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
4827437 GGTTAGTAAG
* *
4827447 ATTAAAATTAATGATCAA
1 ATTAAAATTAATAATAAA
4827465 ATTAAATATTATAATAATAAA
1 ATTAAA-A-T-TAATAATAAA
4827486 ATTAAAATTAATAATAAA
1 ATTAAAATTAATAATAAA
4827504 A
1 A
4827505 AATATATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 17 0.49
19 2 0.06
20 2 0.06
21 14 0.40
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (18 bp):
ATTAAAATTAATAATAAA
Found at i:4827617 original size:21 final size:21
Alignment explanation
Indices: 4827593--4827657 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
4827583 TTATAGAATA
4827593 TAAATAAAATTATATTTATAT
1 TAAATAAAATTATATTTATAT
* *
4827614 TAAATAATAA--A-ATATATCT
1 TAAATAA-AATTATATTTATAT
4827633 T--A-AAAATTATATTTATAT
1 TAAATAAAATTATATTTATAT
4827651 TAAATAA
1 TAAATAA
4827658 TTTTAAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
15 2 0.06
16 2 0.06
17 2 0.06
18 7 0.21
19 7 0.21
20 2 0.06
21 9 0.27
22 2 0.06
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAATAAAATTATATTTATAT
Found at i:4827660 original size:14 final size:16
Alignment explanation
Indices: 4827599--4827685 Score: 51
Period size: 16 Copynumber: 5.5 Consensus size: 16
4827589 AATATAAATA
*
4827599 AAATTATATTTATATT
1 AAATAATATTTATATT
* *
4827615 AAATAATAAAATATATCTT
1 AAATAAT---ATTTATATT
*
4827634 AAAAATTATATTTATATT
1 --AAATAATATTTATATT
4827652 AAAT-A-ATTT-TA--
1 AAATAATATTTATATT
4827663 AAATAATATTTATATT
1 AAATAATATTTATATT
4827679 AAA-AATA
1 AAATAATA
4827686 AATAAAATAA
Statistics
Matches: 55, Mismatches: 6, Indels: 21
0.67 0.07 0.26
Matches are distributed among these distances:
11 4 0.07
12 1 0.02
13 6 0.11
14 6 0.11
15 5 0.09
16 13 0.24
18 7 0.13
19 7 0.13
21 6 0.11
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATAATATTTATATT
Found at i:4827691 original size:27 final size:27
Alignment explanation
Indices: 4827635--4827695 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
4827625 ATATATCTTA
* **
4827635 AAAATTATATTTATATTAAATAATTTT
1 AAAATAATATTTATATTAAATAATAAT
4827662 AAAATAATATTTATATTAAA-AATAAAT
1 AAAATAATATTTATATTAAATAAT-AAT
4827689 AAAATAA
1 AAAATAA
4827696 AATAAAGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 3 0.10
27 27 0.90
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (27 bp):
AAAATAATATTTATATTAAATAATAAT
Found at i:4830912 original size:24 final size:26
Alignment explanation
Indices: 4830864--4830912 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
4830854 ATAATTATTA
4830864 TTTAATTTTTATTTATAAAATAATTT
1 TTTAATTTTTATTTATAAAATAATTT
*
4830890 TTTATTTTTTATTTA-AAAA-AATT
1 TTTAATTTTTATTTATAAAATAATT
4830913 AATAATACGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.18
25 4 0.18
26 14 0.64
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (26 bp):
TTTAATTTTTATTTATAAAATAATTT
Found at i:4837182 original size:11 final size:11
Alignment explanation
Indices: 4837168--4837327 Score: 72
Period size: 11 Copynumber: 15.0 Consensus size: 11
4837158 TATTTTTAGC
*
4837168 AATATTTTGAT
1 AATATTTTAAT
*
4837179 AATAATTTAAT
1 AATATTTTAAT
4837190 AATATTTGTAAT
1 AATATTT-TAAT
*
4837202 AAT-TTTTTAT
1 AATATTTTAAT
*
4837212 -ATATTTTTTAT
1 AATA-TTTTAAT
4837223 AAT-TTTTAATT
1 AATATTTTAA-T
* *
4837234 TATATTTAAAT
1 AATATTTTAAT
4837245 AAT-TTTTAA-
1 AATATTTTAAT
* *
4837254 CATGATTTTGAT
1 AAT-ATTTTAAT
*
4837266 AAT-TATTAATTT
1 AATATTTTAA--T
*
4837278 AA-A-TTTAGT
1 AATATTTTAAT
*
4837287 AACATTTT-AT
1 AATATTTTAAT
*
4837297 ATTATTTTAAT
1 AATATTTTAAT
4837308 AAT-TTTTAAT
1 AATATTTTAAT
*
4837318 -ATAATTTAAT
1 AATATTTTAAT
4837328 TTAAATATTG
Statistics
Matches: 112, Mismatches: 21, Indels: 33
0.67 0.13 0.20
Matches are distributed among these distances:
9 9 0.08
10 38 0.34
11 46 0.41
12 19 0.17
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.56
Consensus pattern (11 bp):
AATATTTTAAT
Found at i:4837231 original size:43 final size:43
Alignment explanation
Indices: 4837169--4837322 Score: 120
Period size: 43 Copynumber: 3.6 Consensus size: 43
4837159 ATTTTTAGCA
* *
4837169 ATATTTTGATAATAATTTAA-TAATATTTGTAATAATTTTTTAT
1 ATATTTTAATAAT-TTTTAATTAATATTTGTAATAATTTTTTAT
* * * * *
4837212 ATATTTTTTATAATTTTTAATTTATATTT-AAATAATTTTTAAC
1 ATA-TTTTAATAATTTTTAATTAATATTTGTAATAATTTTTTAT
* * * *
4837255 ATGATTTTGATAATTATTAATTTAA-ATTTAGTAA-CATTTTATAT
1 AT-ATTTTAATAATTTTTAA-TTAATATTT-GTAATAATTTTTTAT
4837299 -TATTTTAATAATTTTTAATATAAT
1 ATATTTTAATAATTTTTAAT-TAAT
4837323 TTAATTTAAA
Statistics
Matches: 87, Mismatches: 16, Indels: 16
0.73 0.13 0.13
Matches are distributed among these distances:
41 1 0.01
42 18 0.21
43 40 0.46
44 26 0.30
45 2 0.02
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.56
Consensus pattern (43 bp):
ATATTTTAATAATTTTTAATTAATATTTGTAATAATTTTTTAT
Found at i:4837246 original size:22 final size:21
Alignment explanation
Indices: 4837150--4837326 Score: 84
Period size: 21 Copynumber: 8.3 Consensus size: 21
4837140 TTTTGCAGTA
4837150 ATTTTAAAT-ATTTTTAGCA-AT
1 ATTTTAAATAATTTTTA--ATAT
4837171 ATTTTGATAATAA--TTTAATAAT
1 ATTTT-A-AATAATTTTTAAT-AT
*
4837193 ATTTGT-AATAATTTTTTATAT
1 ATTT-TAAATAATTTTTAATAT
** *
4837214 ATTTTTTATAATTTTTAATTT
1 ATTTTAAATAATTTTTAATAT
*
4837235 ATATTTAAATAATTTTTAACAT
1 AT-TTTAAATAATTTTTAATAT
* * *
4837257 GATTTT-GATAATTATTAATTT
1 -ATTTTAAATAATTTTTAATAT
* * *
4837278 AAATTT-AGTAACATTTT-ATATT
1 -ATTTTAAATAA-TTTTTAATA-T
4837300 ATTTT-AATAATTTTTAATAT
1 ATTTTAAATAATTTTTAATAT
*
4837320 AATTTAA
1 ATTTTAA
4837327 TTTAAATATT
Statistics
Matches: 118, Mismatches: 23, Indels: 30
0.69 0.13 0.18
Matches are distributed among these distances:
20 16 0.14
21 57 0.48
22 38 0.32
23 6 0.05
24 1 0.01
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (21 bp):
ATTTTAAATAATTTTTAATAT
Found at i:4837319 original size:21 final size:21
Alignment explanation
Indices: 4837170--4837324 Score: 104
Period size: 21 Copynumber: 7.2 Consensus size: 21
4837160 TTTTTAGCAA
* * *
4837170 TATTTTGATAATAATTTAATAA
1 TATTTTAATAAT-TTTTAATAT
4837192 TATTTGTAATAATTTTTTATATAT
1 TATTT-TAATAA-TTTTTA-ATAT
4837216 T-TTTT-ATAATTTTTAAT-T
1 TATTTTAATAATTTTTAATAT
*
4837234 TATATTTAAATAATTTTTAACAT
1 TAT-TTT-AATAATTTTTAATAT
* * *
4837257 GATTTTGATAATTATTAAT-T
1 TATTTTAATAATTTTTAATAT
* * *
4837277 TAAATTTAGTAACATTTT-ATAT
1 T-ATTTTAATAA-TTTTTAATAT
4837299 TATTTTAATAATTTTTAATAT
1 TATTTTAATAATTTTTAATAT
*
4837320 AATTT
1 TATTT
4837325 AATTTAAATA
Statistics
Matches: 103, Mismatches: 18, Indels: 25
0.71 0.12 0.17
Matches are distributed among these distances:
18 2 0.02
19 3 0.03
20 14 0.14
21 39 0.38
22 25 0.24
23 15 0.15
24 5 0.05
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.57
Consensus pattern (21 bp):
TATTTTAATAATTTTTAATAT
Found at i:4837625 original size:28 final size:28
Alignment explanation
Indices: 4837571--4837627 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
4837561 GTATAATTTT
* * *
4837571 ATTATATTTTATATATTTTTTTATTATA
1 ATTATATTTAAAATATTTTTATATTATA
4837599 ATTATATTTAAAATA-TTTTATATTTATA
1 ATTATATTTAAAATATTTTTATA-TTATA
4837627 A
1 A
4837628 AAAATTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (28 bp):
ATTATATTTAAAATATTTTTATATTATA
Found at i:4837659 original size:32 final size:33
Alignment explanation
Indices: 4837610--4837691 Score: 114
Period size: 32 Copynumber: 2.5 Consensus size: 33
4837600 TTATATTTAA
4837610 AATAT-TTTATATTTATAAAAAATTTAATATATT
1 AATATATTTATA-TTATAAAAAATTTAATATATT
* *
4837643 AATA-ATTTATGTTATAAAAATTTTAATATATT
1 AATATATTTATATTATAAAAAATTTAATATATT
*
4837675 TATATATTTATATTATA
1 AATATATTTATATTATA
4837692 TTTTAATTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
32 23 0.53
33 20 0.47
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (33 bp):
AATATATTTATATTATAAAAAATTTAATATATT
Found at i:4837928 original size:19 final size:18
Alignment explanation
Indices: 4837904--4837941 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4837894 ATGATTATAT
*
4837904 ATTTTTATATATATTTAAA
1 ATTTTTAT-CATATTTAAA
4837923 ATTTTTATCATATTTAAA
1 ATTTTTATCATATTTAAA
4837941 A
1 A
4837942 CATCACAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTTATCATATTTAAA
Found at i:4838388 original size:14 final size:14
Alignment explanation
Indices: 4838344--4838494 Score: 67
Period size: 16 Copynumber: 11.1 Consensus size: 14
4838334 AAATATGATT
*
4838344 ATAAATATAAAATA
1 ATAAATATAATATA
4838358 ATTATAATATAATAT-
1 A-TA-AATATAATATA
4838373 A-AAAT-TAATATA
1 ATAAATATAATATA
4838385 ATAAATAT-A-AT-
1 ATAAATATAATATA
4838396 ATAAATAT-AT-TA
1 ATAAATATAATATA
4838408 A-AATATATAATAT-
1 ATAA-ATATAATATA
*
4838421 A-AATTATTAATATA
1 ATAAATA-TAATATA
* *
4838435 TTAAATATATAGTATT
1 ATAAATATA-A-TATA
* *
4838451 TTAAGTATAAT-T-
1 ATAAATATAATATA
*
4838463 ATAAATTATAAAATTA
1 ATAAA-TATAATA-TA
4838479 TATAAATATAATATA
1 -ATAAATATAATATA
4838494 A
1 A
4838495 ATATAAAAAT
Statistics
Matches: 107, Mismatches: 10, Indels: 40
0.68 0.06 0.25
Matches are distributed among these distances:
11 18 0.17
12 16 0.15
13 23 0.21
14 7 0.07
15 12 0.11
16 26 0.24
17 5 0.05
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (14 bp):
ATAAATATAATATA
Found at i:4838433 original size:41 final size:41
Alignment explanation
Indices: 4838341--4838444 Score: 115
Period size: 41 Copynumber: 2.6 Consensus size: 41
4838331 TTTAAATATG
* * * *
4838341 ATTATAAATATAAAATAATTATAATATAATATAAAATTAAT
1 ATTATAAATATAATATAAATATATTAAAATATAAAATTAAT
* *
4838382 ATAATAAATATAATATAAATATATTAAAATATATAATATAA-
1 ATTATAAATATAATATAAATATATTAAAATATAAAAT-TAAT
*
4838423 ATTATTAATAT-AT-TAAATATAT
1 ATTATAAATATAATATAAATATAT
4838445 AGTATTTTAA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
39 9 0.17
40 2 0.04
41 40 0.74
42 3 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (41 bp):
ATTATAAATATAATATAAATATATTAAAATATAAAATTAAT
Found at i:4838494 original size:11 final size:11
Alignment explanation
Indices: 4838333--4838500 Score: 99
Period size: 11 Copynumber: 15.8 Consensus size: 11
4838323 TATTTAATTT
*
4838333 TAAATATGATTA
1 TAAATAT-AATA
*
4838345 TAAATATAAAA
1 TAAATATAATA
*
4838356 TAATTATAATA
1 TAAATATAATA
*
4838367 T-AATATAAAA
1 TAAATATAATA
*
4838377 TTAATAT-A-A
1 TAAATATAATA
4838386 TAAATATAATA
1 TAAATATAATA
*
4838397 TAAATATATTA
1 TAAATATAATA
*
4838408 AAATATATAATA
1 TAA-ATATAATA
4838420 TAAAT-T-AT-
1 TAAATATAATA
4838428 T-AATAT-AT-
1 TAAATATAATA
4838436 TAAATAT-ATA
1 TAAATATAATA
* *
4838446 GT-ATTTTAAGTA
1 -TAAATATAA-TA
*
4838458 TAATTATAAATTA
1 TAAATAT-AA-TA
*
4838471 TAAA-ATTATA
1 TAAATATAATA
4838481 TAAATATAATA
1 TAAATATAATA
4838492 TAAATATAA
1 TAAATATAA
4838501 AAATTATTAA
Statistics
Matches: 125, Mismatches: 18, Indels: 27
0.74 0.11 0.16
Matches are distributed among these distances:
7 3 0.02
8 5 0.04
9 16 0.13
10 20 0.16
11 50 0.40
12 24 0.19
13 7 0.06
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
TAAATATAATA
Done.