Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, 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: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 38 of 93
Found at i:4426590 original size:30 final size:30
Alignment explanation
Indices: 4426554--4426612 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
4426544 ATTATGGCTC
*
4426554 AAGATTTTGGAGTATGGAATGTGATGGAAA
1 AAGATTTTGGAGTATGGAATGTAATGGAAA
4426584 AAGATTTTGGAGTATGGAATGTAATGGAA
1 AAGATTTTGGAGTATGGAATGTAATGGAA
4426613 TGAAGCAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.32, T:0.31
Consensus pattern (30 bp):
AAGATTTTGGAGTATGGAATGTAATGGAAA
Found at i:4428013 original size:16 final size:17
Alignment explanation
Indices: 4427987--4428020 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
4427977 ACTTATATGA
*
4427987 TCATGTTGTTTAATTGC
1 TCATGTTGTTTAAATGC
4428004 TCAT-TTGTTTAAATGC
1 TCATGTTGTTTAAATGC
4428020 T
1 T
4428021 TGGATCTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.53
Consensus pattern (17 bp):
TCATGTTGTTTAAATGC
Found at i:4429872 original size:11 final size:10
Alignment explanation
Indices: 4429848--4429879 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
4429838 TTGCTATGCA
4429848 TTGAAATAAT
1 TTGAAATAAT
4429858 TTGAAATATAT
1 TTGAAATA-AT
4429869 TTGAAATAAT
1 TTGAAATAAT
4429879 T
1 T
4429880 ATACTTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (10 bp):
TTGAAATAAT
Found at i:4435157 original size:135 final size:135
Alignment explanation
Indices: 4434914--4435185 Score: 526
Period size: 135 Copynumber: 2.0 Consensus size: 135
4434904 ATTATTTGGA
*
4434914 ATTAAATTAAAAGAATAAGGAGATTACACATGTAAATTAGGTTATTTCTTGTTCATTCATGCATT
1 ATTAAATTAAAAGAATAAGGAGATTACACATGCAAATTAGGTTATTTCTTGTTCATTCATGCATT
4434979 ACACTAATGAATAGGATGTTTATAAATTTATTTTTGCTAGTATATAAATGGATAATTACCTTCTG
66 ACACTAATGAATAGGATGTTTATAAATTTATTTTTGCTAGTATATAAATGGATAATTACCTTCTG
4435044 TATAT
131 TATAT
4435049 ATTAAATTAAAAGAATAAGGAGATTACACATGCAAATTAGGTTATTTCTTGTTCATTCATGCATT
1 ATTAAATTAAAAGAATAAGGAGATTACACATGCAAATTAGGTTATTTCTTGTTCATTCATGCATT
*
4435114 ACACTAATGAATAGGATGTTTATAAATTTATTTTTGCTGGTATATAAATGGATAATTACCTTCTG
66 ACACTAATGAATAGGATGTTTATAAATTTATTTTTGCTAGTATATAAATGGATAATTACCTTCTG
4435179 TATAT
131 TATAT
4435184 AT
1 AT
4435186 GAATGAATAA
Statistics
Matches: 135, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
135 135 1.00
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (135 bp):
ATTAAATTAAAAGAATAAGGAGATTACACATGCAAATTAGGTTATTTCTTGTTCATTCATGCATT
ACACTAATGAATAGGATGTTTATAAATTTATTTTTGCTAGTATATAAATGGATAATTACCTTCTG
TATAT
Found at i:4435898 original size:21 final size:19
Alignment explanation
Indices: 4435869--4435911 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
4435859 TATAAATAAT
*
4435869 TTAATTATAGTTTTAATGTTA
1 TTAAATATA-TTTTAAT-TTA
*
4435890 TTAAATATATTTTACTTTA
1 TTAAATATATTTTAATTTA
4435909 TTA
1 TTA
4435912 TTATTTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 6 0.30
21 8 0.40
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (19 bp):
TTAAATATATTTTAATTTA
Found at i:4436214 original size:55 final size:54
Alignment explanation
Indices: 4436072--4436215 Score: 148
Period size: 55 Copynumber: 2.6 Consensus size: 54
4436062 AATCATCAAA
* * * *
4436072 ATATAA-TAAAAAAATTAAAACATATAAGTTTATATTGACAATCTCTTATCGTC
1 ATATAAGTAAAAAAATTAAAACATATAAGTCTATACTAACAATCTCTAATCGTC
* * * * *
4436125 AGTAAAAGTAAAAAAATTAAAGCATACAATTCTATACTAACAGTCTCTAA-CTGTC
1 A-TATAAGTAAAAAAATTAAAACATATAAGTCTATACTAACAATCTCTAATC-GTC
* *
4436180 GATATAAGTAAGAAAATTAAAAAATATAAGTCTATA
1 -ATATAAGTAAAAAAATTAAAACATATAAGTCTATA
4436216 TTGACGAATG
Statistics
Matches: 72, Mismatches: 15, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
53 1 0.01
54 5 0.07
55 65 0.90
56 1 0.01
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.31
Consensus pattern (54 bp):
ATATAAGTAAAAAAATTAAAACATATAAGTCTATACTAACAATCTCTAATCGTC
Found at i:4437259 original size:20 final size:20
Alignment explanation
Indices: 4437234--4437300 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
4437224 ACCATTGGAT
4437234 GAATTTACTCCAAGATCTAA
1 GAATTTACTCCAAGATCTAA
* * *
4437254 GAATTTACTCTAAGGTCTAC
1 GAATTTACTCCAAGATCTAA
4437274 GAATTTACTCCAAGATCTAA
1 GAATTTACTCCAAGATCTAA
*
4437294 GGATTTA
1 GAATTTA
4437301 TATCATTTAC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (20 bp):
GAATTTACTCCAAGATCTAA
Found at i:4438516 original size:2 final size:2
Alignment explanation
Indices: 4438509--4438538 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4438499 TGGACAAAAC
4438509 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
4438539 TACTTAACTT
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:4442127 original size:20 final size:20
Alignment explanation
Indices: 4442102--4442148 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
4442092 AAATTAATGA
4442102 AAATATTATTTTTTAAATAT
1 AAATATTATTTTTTAAATAT
4442122 AAATATTATTTTTTAAATAT
1 AAATATTATTTTTTAAATAT
4442142 AAATATT
1 AAATATT
4442149 TAAAAATATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AAATATTATTTTTTAAATAT
Found at i:4450811 original size:23 final size:23
Alignment explanation
Indices: 4450785--4450832 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
4450775 AGAAAACGAA
4450785 AAAAAGAAAAAAAAGAAACAACT
1 AAAAAGAAAAAAAAGAAACAACT
** * *
4450808 AAAAATTAAAAAAATAATCAACT
1 AAAAAGAAAAAAAAGAAACAACT
4450831 AA
1 AA
4450833 GTTAGAAACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.75, C:0.08, G:0.04, T:0.12
Consensus pattern (23 bp):
AAAAAGAAAAAAAAGAAACAACT
Found at i:4452460 original size:19 final size:19
Alignment explanation
Indices: 4452421--4452464 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
4452411 TTTGGGTTTT
*
4452421 GGTTGAAATTTTTAATAAA
1 GGTTGAAATTTTCAATAAA
*
4452440 GGCTTGAAATTTTCAGT-AA
1 GG-TTGAAATTTTCAATAAA
4452459 GGTTGA
1 GGTTGA
4452465 CTGTGGTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 6 0.27
20 12 0.55
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.39
Consensus pattern (19 bp):
GGTTGAAATTTTCAATAAA
Found at i:4452861 original size:24 final size:25
Alignment explanation
Indices: 4452828--4452880 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
4452818 TTATTTTTCC
4452828 TTTTATTATGATATTATTG-TATGAT
1 TTTTATTATGATATTATTGCT-TGAT
*
4452853 TTTTA-TATGATGTTATTGCTTGAT
1 TTTTATTATGATATTATTGCTTGAT
4452877 TTTT
1 TTTT
4452881 TTAATATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.23, C:0.02, G:0.13, T:0.62
Consensus pattern (25 bp):
TTTTATTATGATATTATTGCTTGAT
Found at i:4472141 original size:22 final size:23
Alignment explanation
Indices: 4472098--4472177 Score: 90
Period size: 23 Copynumber: 3.5 Consensus size: 23
4472088 GAAAATATCT
* * * *
4472098 AAAAACTCAAAATTTTAATTTTA
1 AAAAACTAAAAATATGATTTTTA
* *
4472121 AAAAAATAAAAATATGCTTTTTA
1 AAAAACTAAAAATATGATTTTTA
4472144 AAAAATCTAAAAATATGATTTTT-
1 AAAAA-CTAAAAATATGATTTTTA
4472167 AAAAACTAAAA
1 AAAAACTAAAA
4472178 TATTTAAAAC
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
22 6 0.12
23 27 0.56
24 15 0.31
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (23 bp):
AAAAACTAAAAATATGATTTTTA
Found at i:4472142 original size:23 final size:24
Alignment explanation
Indices: 4472116--4472171 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
4472106 AAAATTTTAA
*
4472116 TTTTAAAAAA-ATAAAAATATGCT
1 TTTTAAAAAATATAAAAATATGAT
*
4472139 TTTTAAAAAATCTAAAAATATGAT
1 TTTTAAAAAATATAAAAATATGAT
4472163 TTTTAAAAA
1 TTTTAAAAA
4472172 CTAAAATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 10 0.33
24 20 0.67
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (24 bp):
TTTTAAAAAATATAAAAATATGAT
Found at i:4472279 original size:21 final size:22
Alignment explanation
Indices: 4472234--4472279 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
4472224 TAAAAATTCA
**
4472234 AAATTTTGATTTTTTAAAATTT
1 AAATTTTGATTTTTTAAAAAGT
4472256 AAATTTTGA-TTTTTAAAAAGT
1 AAATTTTGATTTTTTAAAAAGT
4472277 AAA
1 AAA
4472280 AGAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (22 bp):
AAATTTTGATTTTTTAAAAAGT
Found at i:4472936 original size:22 final size:21
Alignment explanation
Indices: 4472911--4472951 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
4472901 AATAGACAAT
4472911 TAAAAATAAAAAATAAAAAAAC
1 TAAAAATAAAAAA-AAAAAAAC
*
4472933 TAAAACTAAAAAAAAAAAA
1 TAAAAATAAAAAAAAAAAA
4472952 GCCATGTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.83, C:0.05, G:0.00, T:0.12
Consensus pattern (21 bp):
TAAAAATAAAAAAAAAAAAAC
Found at i:4473140 original size:16 final size:15
Alignment explanation
Indices: 4473110--4473149 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
4473100 TAACTTTATT
*
4473110 AATATAATATAAATA
1 AATATAAAATAAATA
4473125 AATATAAAATTAAATA
1 AATATAAAA-TAAATA
4473141 AATAATAAA
1 AAT-ATAAA
4473150 GTATTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 9 0.41
17 5 0.23
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AATATAAAATAAATA
Found at i:4473403 original size:22 final size:20
Alignment explanation
Indices: 4473353--4473408 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
4473343 TAATCTAATT
*
4473353 AAAAATAAAAAATAAATTCA
1 AAAAAAAAAAAATAAATTCA
*
4473373 AAACCAAAAAAAAATATATTACCA
1 AAA--AAAAAAAAATAAATT--CA
4473397 AAAAAAAAAAAA
1 AAAAAAAAAAAA
4473409 CTCCAAACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
20 3 0.10
22 22 0.73
24 5 0.17
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (20 bp):
AAAAAAAAAAAATAAATTCA
Found at i:4474059 original size:22 final size:21
Alignment explanation
Indices: 4474015--4474054 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
4474005 AAGTTCCAAT
*
4474015 TTTTAAAAATATATTAAAATA
1 TTTTAAAAATATATAAAAATA
4474036 TTTTAAAAA-ATATAAAAAT
1 TTTTAAAAATATATAAAAAT
4474055 TTATTATGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTTAAAAATATATAAAAATA
Found at i:4474902 original size:15 final size:16
Alignment explanation
Indices: 4474870--4474903 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
4474860 AGTAATTAGG
*
4474870 ATTCAAATTATGATAA
1 ATTCAAATTATAATAA
4474886 ATTCAAA-TATAATAA
1 ATTCAAATTATAATAA
4474901 ATT
1 ATT
4474904 AGCGAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (16 bp):
ATTCAAATTATAATAA
Found at i:4478788 original size:27 final size:26
Alignment explanation
Indices: 4478743--4478797 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
4478733 AGATAAGATG
4478743 ATATTATTTAATCTAATTATATTCATA
1 ATATTATTTAATCTAATTATA-TCATA
*
4478770 ATATTATTTTATCCT-ATTATATCATA
1 ATATTATTTAAT-CTAATTATATCATA
4478796 AT
1 AT
4478798 TTTGTGTACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 7 0.27
27 17 0.65
28 2 0.08
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (26 bp):
ATATTATTTAATCTAATTATATCATA
Found at i:4479464 original size:23 final size:23
Alignment explanation
Indices: 4479405--4479464 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
4479395 ATAAAATTCA
4479405 TATT-TTTTGAATTTCTAAAAAAT
1 TATTATTTTGAA-TTCTAAAAAAT
* **
4479428 CA-TATTTCAAAATTCTAAAAAAT
1 TATTATTT-TGAATTCTAAAAAAT
4479451 TATTATTTTGAATT
1 TATTATTTTGAATT
4479465 TTTTAGAACT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
22 1 0.04
23 20 0.71
24 7 0.25
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.48
Consensus pattern (23 bp):
TATTATTTTGAATTCTAAAAAAT
Found at i:4479664 original size:18 final size:19
Alignment explanation
Indices: 4479643--4479684 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
4479633 AATATTTTAA
4479643 TTTTTCT-AAAATTTCTTT
1 TTTTTCTGAAAATTTCTTT
* * *
4479661 TTTTTTTGAAAGTTTGTTT
1 TTTTTCTGAAAATTTCTTT
4479680 TTTTT
1 TTTTT
4479685 TTCAAATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.17, C:0.05, G:0.07, T:0.71
Consensus pattern (19 bp):
TTTTTCTGAAAATTTCTTT
Found at i:4481067 original size:14 final size:15
Alignment explanation
Indices: 4481038--4481070 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4481028 TTTAAAAATT
*
4481038 AAAATAGACAATTAA
1 AAAATAAACAATTAA
4481053 AAAATAAACAA-TAA
1 AAAATAAACAATTAA
4481067 AAAA
1 AAAA
4481071 GCTAAAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (15 bp):
AAAATAAACAATTAA
Found at i:4481226 original size:2 final size:2
Alignment explanation
Indices: 4481219--4481244 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4481209 TAACCCGATG
4481219 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
4481245 ACCCGTATTT
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:4482161 original size:12 final size:12
Alignment explanation
Indices: 4482146--4482179 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4482136 ATAACTTTAT
*
4482146 TAATAAAATATA
1 TAATAAAATAAA
*
4482158 TAATTAAATAAA
1 TAATAAAATAAA
4482170 TAATAAAATA
1 TAATAAAATA
4482180 CGTTTTTATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
TAATAAAATAAA
Found at i:4482508 original size:16 final size:15
Alignment explanation
Indices: 4482478--4482517 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
4482468 TAACTTTATT
*
4482478 AATATAATATAAATA
1 AATATAAAATAAATA
4482493 AATATAAAATTAAATA
1 AATATAAAA-TAAATA
4482509 AATAATAAA
1 AAT-ATAAA
4482518 GTATTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 9 0.41
17 5 0.23
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AATATAAAATAAATA
Found at i:4485141 original size:52 final size:52
Alignment explanation
Indices: 4485054--4485158 Score: 151
Period size: 52 Copynumber: 2.0 Consensus size: 52
4485044 TAGACAAGAA
4485054 GACTTACAAAATAAAAATCTTAAGAGAAAGAAGATT-TTTAATAGGTAAATTT
1 GACTTACAAAATAAAAATCTTAAGAGAAAGAAGATTCTTT-ATAGGTAAATTT
* * *
4485106 GACTTACAGAATAAGAATTTTAAGATGAAAG-AGATTCTTTATAGGTAAATTT
1 GACTTACAAAATAAAAATCTTAAGA-GAAAGAAGATTCTTTATAGGTAAATTT
4485158 G
1 G
4485159 TGTGCTTATA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
52 40 0.83
53 8 0.17
ACGTcount: A:0.46, C:0.06, G:0.16, T:0.32
Consensus pattern (52 bp):
GACTTACAAAATAAAAATCTTAAGAGAAAGAAGATTCTTTATAGGTAAATTT
Found at i:4487804 original size:39 final size:39
Alignment explanation
Indices: 4487746--4487824 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
4487736 TGATGCCAAA
* * *
4487746 TCATAAGAATTATAGCTTGCTTCCAACTTTATGTAAAGT
1 TCATAAGAATTATACCTTGCTGCCAACTATATGTAAAGT
* * *
4487785 TCATAGGAATTATACCTTGCTGCCAGCTATGTGTAAAGT
1 TCATAAGAATTATACCTTGCTGCCAACTATATGTAAAGT
4487824 T
1 T
4487825 TAATAGGTCC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (39 bp):
TCATAAGAATTATACCTTGCTGCCAACTATATGTAAAGT
Found at i:4488470 original size:20 final size:22
Alignment explanation
Indices: 4488442--4488501 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
4488432 ATACAAGGTA
*
4488442 TGCTAAT-A-ATATGTATATAG
1 TGCTAATAAGATATGTACATAG
*
4488462 TGCTTATAAGATATGTACATAG
1 TGCTAATAAGATATGTACATAG
* *
4488484 TACTAATAGGATATGTAC
1 TGCTAATAAGATATGTAC
4488502 TTTTATATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 6 0.18
21 1 0.03
22 26 0.79
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (22 bp):
TGCTAATAAGATATGTACATAG
Found at i:4491513 original size:63 final size:62
Alignment explanation
Indices: 4491364--4491514 Score: 216
Period size: 62 Copynumber: 2.4 Consensus size: 62
4491354 TTAAATAACT
* * *
4491364 CTTGAAGATAAAAAGATTTT-AAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTC
1 CTTGAAAATCAAAA-ATTTTCAAAAAAAAGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTC
* *
4491426 CTTGAAAATC-AAAATTTTCAAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
1 CTTGAAAATCAAAAATTTTC-AAAAAAAAGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTC
4491488 CTTGAAAATTCAAAAATTTTCAAAAAA
1 CTTGAAAA-TCAAAAATTTTCAAAAAA
4491515 TATTTTGGGA
Statistics
Matches: 80, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
60 5 0.06
61 3 0.04
62 55 0.69
63 8 0.10
64 9 0.11
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.32
Consensus pattern (62 bp):
CTTGAAAATCAAAAATTTTCAAAAAAAAGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTC
Found at i:4493576 original size:23 final size:24
Alignment explanation
Indices: 4493549--4493605 Score: 82
Period size: 22 Copynumber: 2.5 Consensus size: 24
4493539 AAAAATTTTA
4493549 ATTTTTAAAAAA-ATAAAAATATG
1 ATTTTTAAAAAATATAAAAATATG
* *
4493572 -CTTTTAAAAAATCTAAAAATATG
1 ATTTTTAAAAAATATAAAAATATG
4493595 ATTTTTAAAAA
1 ATTTTTAAAAA
4493606 CTAAAATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.34
23 10 0.34
24 9 0.31
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (24 bp):
ATTTTTAAAAAATATAAAAATATG
Found at i:4493579 original size:22 final size:22
Alignment explanation
Indices: 4493551--4493611 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 22
4493541 AAATTTTAAT
* *
4493551 TTTTAAAAAAATAAAAATATGC
1 TTTTAAAAAACTAAAAATATGA
4493573 TTTTAAAAAATCTAAAAATATGA
1 TTTTAAAAAA-CTAAAAATATGA
*
4493596 TTTTTAAAAACTAAAA
1 TTTTAAAAAACTAAAA
4493612 TATTTAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
22 16 0.46
23 19 0.54
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.34
Consensus pattern (22 bp):
TTTTAAAAAACTAAAAATATGA
Found at i:4493710 original size:22 final size:23
Alignment explanation
Indices: 4493661--4493710 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
4493651 AAAATTTTCT
*
4493661 AAAAATTCAAAATTTTGATTTTT
1 AAAAATTCAAAATTTTGATTTTA
* *
4493684 TAAAATT-TAAATTTTGATTTTA
1 AAAAATTCAAAATTTTGATTTTA
4493706 AAAAA
1 AAAAA
4493711 GTAAAAAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (23 bp):
AAAAATTCAAAATTTTGATTTTA
Found at i:4494384 original size:20 final size:20
Alignment explanation
Indices: 4494346--4494384 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4494336 AATAGACAAT
*
4494346 TAAAAATAAAATAAAAAAAC
1 TAAAAATAAAAAAAAAAAAC
*
4494366 TAAAACTAAAAAAAAAAAA
1 TAAAAATAAAAAAAAAAAA
4494385 GCATGTGATA
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:0.82, C:0.05, G:0.00, T:0.13
Consensus pattern (20 bp):
TAAAAATAAAAAAAAAAAAC
Found at i:4494572 original size:16 final size:15
Alignment explanation
Indices: 4494542--4494581 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
4494532 TAACTTTATT
*
4494542 AATATAATATAAATA
1 AATATAAAATAAATA
4494557 AATATAAAATTAAATA
1 AATATAAAA-TAAATA
4494573 AATAATAAA
1 AAT-ATAAA
4494582 GTATTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 9 0.41
17 5 0.23
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AATATAAAATAAATA
Found at i:4496326 original size:15 final size:16
Alignment explanation
Indices: 4496294--4496327 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
4496284 AGTAATTAGG
*
4496294 ATTCAAATTATGATAA
1 ATTCAAATTATAATAA
4496310 ATTCAAA-TATAATAA
1 ATTCAAATTATAATAA
4496325 ATT
1 ATT
4496328 AGCGAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (16 bp):
ATTCAAATTATAATAA
Found at i:4500215 original size:27 final size:26
Alignment explanation
Indices: 4500170--4500224 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
4500160 AGATAAGATG
4500170 ATATTATTTAATCTAATTATATTCATA
1 ATATTATTTAATCTAATTATA-TCATA
*
4500197 ATATTATTTTATCCT-ATTATATCATA
1 ATATTATTTAAT-CTAATTATATCATA
4500223 AT
1 AT
4500225 TTTGTGTACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 7 0.27
27 17 0.65
28 2 0.08
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (26 bp):
ATATTATTTAATCTAATTATATCATA
Found at i:4500892 original size:23 final size:23
Alignment explanation
Indices: 4500833--4500892 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
4500823 ATAAAATTCA
4500833 TATT-TTTTGAATTTCTAAAAAAT
1 TATTATTTTGAA-TTCTAAAAAAT
* **
4500856 CA-TATTTCAAAATTCTAAAAAAT
1 TATTATTT-TGAATTCTAAAAAAT
4500879 TATTATTTTGAATT
1 TATTATTTTGAATT
4500893 TTTTAGAACT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
22 1 0.04
23 20 0.71
24 7 0.25
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.48
Consensus pattern (23 bp):
TATTATTTTGAATTCTAAAAAAT
Found at i:4501094 original size:18 final size:19
Alignment explanation
Indices: 4501073--4501114 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
4501063 AATATTTTAA
4501073 TTTTTCT-AAAATTTCTTT
1 TTTTTCTGAAAATTTCTTT
* * *
4501091 TTTTTTTGAAAGTTTGTTT
1 TTTTTCTGAAAATTTCTTT
4501110 TTTTT
1 TTTTT
4501115 TTCAAATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.17, C:0.05, G:0.07, T:0.71
Consensus pattern (19 bp):
TTTTTCTGAAAATTTCTTT
Found at i:4502497 original size:14 final size:15
Alignment explanation
Indices: 4502468--4502500 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4502458 TTAAAAAATT
*
4502468 AAAATAGACAATTAA
1 AAAATAAACAATTAA
4502483 AAAATAAACAA-TAA
1 AAAATAAACAATTAA
4502497 AAAA
1 AAAA
4502501 GCTAAAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (15 bp):
AAAATAAACAATTAA
Found at i:4502656 original size:2 final size:2
Alignment explanation
Indices: 4502649--4502682 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4502639 TAACCCGATG
4502649 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
4502683 ACCCGTATTT
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:4503947 original size:16 final size:15
Alignment explanation
Indices: 4503917--4503956 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
4503907 TAACTTTATT
*
4503917 AATATAATATAAATA
1 AATATAAAATAAATA
4503932 AATATAAAATTAAATA
1 AATATAAAA-TAAATA
4503948 AATAATAAA
1 AAT-ATAAA
4503957 GTATTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 9 0.41
17 5 0.23
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AATATAAAATAAATA
Found at i:4506573 original size:52 final size:52
Alignment explanation
Indices: 4506508--4506612 Score: 158
Period size: 52 Copynumber: 2.0 Consensus size: 52
4506498 TGGACAAGAA
* *
4506508 GACTTACAAAATAAGAATTTTAAGA-GAAAAAAGATTTTTAATAGGTAAGTTT
1 GACTTACAAAATAAGAATTTTAAGATG-AAAAAGATTCTTAATAGGTAAATTT
* *
4506560 GACTTACAGAATAAGAATTTTAAGATGAAAGAGATTCTTAATAGGTAAATTT
1 GACTTACAAAATAAGAATTTTAAGATGAAAAAGATTCTTAATAGGTAAATTT
4506612 G
1 G
4506613 TATGCTTATA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
52 47 0.98
53 1 0.02
ACGTcount: A:0.46, C:0.05, G:0.17, T:0.32
Consensus pattern (52 bp):
GACTTACAAAATAAGAATTTTAAGATGAAAAAGATTCTTAATAGGTAAATTT
Found at i:4510182 original size:25 final size:27
Alignment explanation
Indices: 4510154--4510204 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 27
4510144 CTTCTTATAG
4510154 GATATGTACATAATAC-T-TAAAATAA
1 GATATGTACATAATACATATAAAATAA
*
4510179 GATATGTACATATTACATATAAAATA
1 GATATGTACATAATACATATAAAATA
4510205 TGTACATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.65
26 1 0.04
27 7 0.30
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (27 bp):
GATATGTACATAATACATATAAAATAA
Found at i:4510221 original size:22 final size:22
Alignment explanation
Indices: 4510175--4510256 Score: 76
Period size: 22 Copynumber: 3.7 Consensus size: 22
4510165 AATACTTAAA
* *
4510175 ATAAGATATGTACATATTACAT
1 ATAAGATATGTACATACTATAT
* * *
4510197 ATAAAATATGTACATAGTATTT
1 ATAAGATATGTACATACTATAT
* *
4510219 ATATGATATGTACAT-CTATGT
1 ATAAGATATGTACATACTATAT
*
4510240 ATAACTATATGTACATA
1 ATAA-GATATGTACATA
4510257 TTGTTAGAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
21 7 0.15
22 41 0.85
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.39
Consensus pattern (22 bp):
ATAAGATATGTACATACTATAT
Found at i:4513323 original size:22 final size:25
Alignment explanation
Indices: 4513289--4513337 Score: 68
Period size: 22 Copynumber: 2.1 Consensus size: 25
4513279 GTTTAAAAGC
4513289 AATACTTGATTTTCAT-TA-TTATA
1 AATACTTGATTTTCATGTAGTTATA
*
4513312 AATA-TTGGTTTTCATGTAGTTATA
1 AATACTTGATTTTCATGTAGTTATA
4513336 AA
1 AA
4513338 CTAAGGCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 10 0.43
23 6 0.26
24 7 0.30
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (25 bp):
AATACTTGATTTTCATGTAGTTATA
Found at i:4519177 original size:9 final size:9
Alignment explanation
Indices: 4519151--4519193 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
4519141 AAATTAGAAT
4519151 TTTTTTAGAA
1 TTTTTTA-AA
*
4519161 TATTTTAAA
1 TTTTTTAAA
4519170 TTTTTTAAA
1 TTTTTTAAA
*
4519179 TTTTTTAGA
1 TTTTTTAAA
4519188 TTTTTT
1 TTTTTT
4519194 TCTAAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
9 24 0.80
10 6 0.20
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:4521424 original size:8 final size:8
Alignment explanation
Indices: 4521411--4521438 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
4521401 ATCGTATTTA
4521411 AAATTTTT
1 AAATTTTT
4521419 AAATTTTT
1 AAATTTTT
4521427 AAATTTTT
1 AAATTTTT
4521435 AAAT
1 AAAT
4521439 ATGGATAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
AAATTTTT
Found at i:4524149 original size:11 final size:11
Alignment explanation
Indices: 4524133--4524175 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
4524123 AAATCCCATA
4524133 AGAGATTTGTT
1 AGAGATTTGTT
*
4524144 AGAGATTTATT
1 AGAGATTTGTT
4524155 AGAGATTTGTT
1 AGAGATTTGTT
*
4524166 TGAGATTTGT
1 AGAGATTTGT
4524176 CAGATATTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.47
Consensus pattern (11 bp):
AGAGATTTGTT
Found at i:4524287 original size:52 final size:53
Alignment explanation
Indices: 4524200--4524308 Score: 141
Period size: 52 Copynumber: 2.1 Consensus size: 53
4524190 TGGACAAGAA
* **
4524200 GACTTGCAAAAGAAGAATTCCAAGAGAAAGAAGATTCTTA-ATAGGTAAGTTT
1 GACTTGCAAAAGAAGAATTCCAAAAGAAAGAAGATTCTTACATAGCCAAGTTT
* * *
4524252 GACTTGCAAGAGAATAATTCTAAAAGGAAAG-AGATTCTTACATAGCCAAGTTT
1 GACTTGCAAAAGAAGAATTCCAAAA-GAAAGAAGATTCTTACATAGCCAAGTTT
4524305 GACT
1 GACT
4524309 ACAGGAGATG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
52 30 0.61
53 19 0.39
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.26
Consensus pattern (53 bp):
GACTTGCAAAAGAAGAATTCCAAAAGAAAGAAGATTCTTACATAGCCAAGTTT
Found at i:4524326 original size:53 final size:51
Alignment explanation
Indices: 4524225--4524357 Score: 135
Period size: 53 Copynumber: 2.5 Consensus size: 51
4524215 AATTCCAAGA
* *
4524225 GAAAGAAGATTCTTAATAGGTAAGTTTGACTTGCAAGAGAATAATTCTAAAAG
1 GAAAG-AGATTCTTAATA-GCAAGTTTGACTTACAAGAGAATAATTCTAAAAG
* *
4524278 GAAAGAGATTCTTACATAGCCAAGTTTGAC-TACAGGAG-ATGAATTTCTAAGAG
1 GAAAGAGATTCTTA-ATAG-CAAGTTTGACTTACAAGAGAAT-AA-TTCTAAAAG
* *
4524331 GAGAGGGATTCTTAATGAGCAAGTTTG
1 GAAAGAGATTCTTAAT-AGCAAGTTTG
4524358 TATGGTTATA
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
51 2 0.03
52 28 0.41
53 39 0.57
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (51 bp):
GAAAGAGATTCTTAATAGCAAGTTTGACTTACAAGAGAATAATTCTAAAAG
Found at i:4527583 original size:24 final size:23
Alignment explanation
Indices: 4527539--4527583 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
4527529 TAGAGAAACT
*
4527539 AAAAATAAATAGAGATATTGATG
1 AAAAATAAATAAAGATATTGATG
4527562 AAAAATAAAATAAAAGAT-TTGA
1 AAAAAT-AAAT-AAAGATATTGA
4527584 AATGGCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 6 0.32
24 8 0.42
25 5 0.26
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.24
Consensus pattern (23 bp):
AAAAATAAATAAAGATATTGATG
Found at i:4527842 original size:15 final size:17
Alignment explanation
Indices: 4527822--4527858 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
4527812 TTGAAAACAT
4527822 AAAAATTA-A-AACTAA
1 AAAAATTAGATAACTAA
4527837 AAAAATTAGATTAACTAA
1 AAAAATTAGA-TAACTAA
4527855 AAAA
1 AAAA
4527859 TAAATAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.42
16 1 0.05
18 10 0.53
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.22
Consensus pattern (17 bp):
AAAAATTAGATAACTAA
Found at i:4528803 original size:21 final size:21
Alignment explanation
Indices: 4528777--4528830 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
4528767 TGGGTCAGCT
*
4528777 AGAGGATCGATCCTATAACCC
1 AGAGGATCAATCCTATAACCC
4528798 AGAGGATCAATCCTATAACCC
1 AGAGGATCAATCCTATAACCC
4528819 AGAGGATCAATC
1 AGAGGATCAATC
4528831 AAGTCAAGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.19
Consensus pattern (21 bp):
AGAGGATCAATCCTATAACCC
Found at i:4529640 original size:12 final size:12
Alignment explanation
Indices: 4529623--4529658 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
4529613 GACATGTAAG
4529623 ATTTTGAAAAAC
1 ATTTTGAAAAAC
*
4529635 ATTTTGAAAAAT
1 ATTTTGAAAAAC
4529647 ATTTTGAAAAAC
1 ATTTTGAAAAAC
4529659 TCCCCCTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (12 bp):
ATTTTGAAAAAC
Found at i:4535812 original size:20 final size:21
Alignment explanation
Indices: 4535787--4535835 Score: 82
Period size: 20 Copynumber: 2.4 Consensus size: 21
4535777 TGGGTCAGCT
*
4535787 AGAGGATCGATCTTG-AATCC
1 AGAGGATCGATCTTGAAACCC
4535807 AGAGGATCGATCTTGAAACCC
1 AGAGGATCGATCTTGAAACCC
4535828 AGAGGATC
1 AGAGGATC
4535836 AATCCGATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (21 bp):
AGAGGATCGATCTTGAAACCC
Found at i:4543440 original size:34 final size:33
Alignment explanation
Indices: 4543396--4543482 Score: 104
Period size: 34 Copynumber: 2.6 Consensus size: 33
4543386 GTCATTTTTA
4543396 ATTTTTGACTTGTGGTTCAA-TCTTGGTCATTTC
1 ATTTTTGACTTGTGGTTCAATTC-TGGTCATTTC
* * *
4543429 CTTTTTCGACTTATGGTTTAATTCTGGTCATTTC
1 ATTTTT-GACTTGTGGTTCAATTCTGGTCATTTC
*
4543463 ATTTTTTAACTTGTGGTTCA
1 A-TTTTTGACTTGTGGTTCA
4543483 GTGGCAATCA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
33 5 0.11
34 32 0.73
35 7 0.16
ACGTcount: A:0.16, C:0.15, G:0.16, T:0.53
Consensus pattern (33 bp):
ATTTTTGACTTGTGGTTCAATTCTGGTCATTTC
Found at i:4543690 original size:34 final size:34
Alignment explanation
Indices: 4543608--4544001 Score: 130
Period size: 34 Copynumber: 11.5 Consensus size: 34
4543598 GTGATTTTTT
* * *
4543608 ATTTTTTGACTTGTGGTTCAAT-CTCAATCATATC
1 ATTTTTAGACTTGTGGTTCAGTCCT-AATCATTTC
**
4543642 A-TTCAAGACTTGTGGTT-AGGTCCTAATCATTTC
1 ATTTTTAGACTTGTGGTTCA-GTCCTAATCATTTC
* **
4543675 ATTTTTAGACTTGTGGTTCAGTCTTGGTCATTTC
1 ATTTTTAGACTTGTGGTTCAGTCCTAATCATTTC
* * * * * * *
4543709 ATTTTTATACTTATGGTTTAGTCTTGATAATTTT
1 ATTTTTAGACTTGTGGTTCAGTCCTAATCATTTC
* * * *
4543743 ATTTTTTCA-ACTTGTAGTTTAGT-CTCAGT-ATTTTT
1 A-TTTTT-AGACTTGTGGTTCAGTCCT-AATCA-TTTC
* * ** * *
4543778 AATTTTAGACTCGTATTTCAATCCTAGTCATTTTC
1 ATTTTTAGACTTGTGGTTCAGTCCTAATCA-TTTC
* * * * *
4543813 ATTTTTA-ATCTTGTGATTAAAT-TTCAATCATATC
1 ATTTTTAGA-CTTGTGGTTCAGTCCT-AATCATTTC
* * * * * * *
4543847 ATTTTTATACTTGTGATTCAATCTTAGTTATTTA
1 ATTTTTAGACTTGTGGTTCAGTCCTAATCATTTC
*
4543881 ATTTTTAGACTTGTGGTTCAATTCC-AATCATATT-
1 ATTTTTAGACTTGTGGTTC-AGTCCTAATCAT-TTC
* * * *
4543915 ATTTTTTAGACTT-TAGTGCAGT-TTAAATGATCTTC
1 A-TTTTTAGACTTGTGGTTCAGTCCT-AATCAT-TTC
* * ** *
4543950 ATTTTTCGACTTGGGGTTTTGTCCCAATCATTTC
1 ATTTTTAGACTTGTGGTTCAGTCCTAATCATTTC
*
4543984 ACTTTTT-GACTTGAGGTT
1 A-TTTTTAGACTTGTGGTT
4544002 TAATCTTGTC
Statistics
Matches: 274, Mismatches: 62, Indels: 48
0.71 0.16 0.12
Matches are distributed among these distances:
32 1 0.00
33 26 0.09
34 162 0.59
35 84 0.31
36 1 0.00
ACGTcount: A:0.23, C:0.14, G:0.13, T:0.50
Consensus pattern (34 bp):
ATTTTTAGACTTGTGGTTCAGTCCTAATCATTTC
Found at i:4543853 original size:69 final size:69
Alignment explanation
Indices: 4543780--4543926 Score: 165
Period size: 68 Copynumber: 2.1 Consensus size: 69
4543770 GTATTTTTAA
* *
4543780 TTTTAGACTCGT-ATTTCAATCCTAGTCATTTTCATTTTTA-ATCTTGTGATTAAATTTCAATCA
1 TTTTAGACTCGTGA-TTCAATCCTAGTCA-TTTAATTTTTAGA-CTTGTGATTAAATTCCAATCA
4543843 TATCA-T
63 TATCATT
* * * * * *
4543849 TTTTATACTTGTGATTCAATCTTAGTTATTTAATTTTTAGACTTGTGGTTCAATTCCAATCATAT
1 TTTTAGACTCGTGATTCAATCCTAGTCATTTAATTTTTAGACTTGTGATTAAATTCCAATCATAT
*
4543914 TATT
66 CATT
4543918 TTTTAGACT
1 TTTTAGACT
4543927 TTAGTGCAGT
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
68 32 0.49
69 32 0.49
70 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.09, T:0.51
Consensus pattern (69 bp):
TTTTAGACTCGTGATTCAATCCTAGTCATTTAATTTTTAGACTTGTGATTAAATTCCAATCATAT
CATT
Found at i:4544939 original size:186 final size:186
Alignment explanation
Indices: 4544635--4544993 Score: 497
Period size: 186 Copynumber: 1.9 Consensus size: 186
4544625 CTACAAAAAT
4544635 AAATAATTAAAATGAAAAACTTTTGGAAGATTGAAAATCAGATCCATTTCTTTTTGAAAAATCTG
1 AAATAATTAAAATGAAAAACTTTTGGAAGATTGAAAATCAGATCCATTTCTTTTTGAAAAATCTG
* *
4544700 AAAAATTTCAAAGAAATTGAAAACAAATCATGGCAATTTCAGAAAAATTGAAAATCATAGCCAAA
66 AAAAATTTCAAAGAAATTGAAAACAAATCATGGAAATTTCAGAAAAATTGAAAATCATAGCAAAA
** * *
4544765 AATAAAATCGTCAGAAATTTATGTTGAAAACAAAGGAAAGTTAAAGTAAATAATTA
131 AATAAAATCAACAAAAATTTATATTGAAAACAAAGGAAAGTTAAAGTAAATAATTA
** * ** * *
4544821 AAATAATTAAAAT-AAAATTTTTTGGAAGATTGAAAATCATATCTTTTTTTTTTGTGAAAAATGT
1 AAATAATTAAAATGAAAAACTTTTGGAAGATTGAAAATCAGATCCATTTCTTTT-TGAAAAATCT
* * * ** * *
4544885 GGAAAATTTTAGAGAAATTGAAAACAAATCATGGAAATTTCA-AAGAGCTTGAAAATCATGGTAA
65 GAAAAATTTCAAAGAAATTGAAAACAAATCATGGAAATTTCAGAA-AAATTGAAAATCATAGCAA
*
4544949 AAAATCAAATCAACAAAAATTTATATTGAAAACAAAGGAAAGTTA
129 AAAATAAAATCAACAAAAATTTATATTGAAAACAAAGGAAAGTTA
4544994 GTACAAAATT
Statistics
Matches: 150, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
185 36 0.24
186 114 0.76
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (186 bp):
AAATAATTAAAATGAAAAACTTTTGGAAGATTGAAAATCAGATCCATTTCTTTTTGAAAAATCTG
AAAAATTTCAAAGAAATTGAAAACAAATCATGGAAATTTCAGAAAAATTGAAAATCATAGCAAAA
AATAAAATCAACAAAAATTTATATTGAAAACAAAGGAAAGTTAAAGTAAATAATTA
Found at i:4545217 original size:9 final size:9
Alignment explanation
Indices: 4545203--4545229 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
4545193 ACAGATATAG
4545203 GGGTTTTAA
1 GGGTTTTAA
4545212 GGGTTTTAA
1 GGGTTTTAA
4545221 GGGTTTTAA
1 GGGTTTTAA
4545230 TTCTTTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (9 bp):
GGGTTTTAA
Found at i:4547217 original size:85 final size:85
Alignment explanation
Indices: 4547047--4547218 Score: 238
Period size: 85 Copynumber: 2.0 Consensus size: 85
4547037 TGACAACAGC
* *
4547047 TTAAGCATTTATGGATCAAGTTTATAAGCACCATGGCATGCCAATTAGTATTGTCTCCAACAGAG
1 TTAAACATTTATGGATCAAGTTTATAAGCACCATGGAATGCCAATTAGTATTGTCTCCAACAGAG
* *
4547112 ATAAAGCATTCCGTAGTAAT
66 ATAAAACATTCCGTAATAAT
* * *
4547132 TTAAACATTTATGGATCAAGTTTATAAGCTCCGTGGAATGCCAATTAGTATTGTCTCTAACCAG-
1 TTAAACATTTATGGATCAAGTTTATAAGCACCATGGAATGCCAATTAGTATTGTCTCCAA-CAGA
* * *
4547196 GATAAAATATTTCTTAATAAT
65 GATAAAACATTCCGTAATAAT
4547217 TT
1 TT
4547219 CTGGTAAGAA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
85 73 0.96
86 3 0.04
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (85 bp):
TTAAACATTTATGGATCAAGTTTATAAGCACCATGGAATGCCAATTAGTATTGTCTCCAACAGAG
ATAAAACATTCCGTAATAAT
Found at i:4548852 original size:18 final size:18
Alignment explanation
Indices: 4548825--4548859 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4548815 TTATATCTGA
*
4548825 TTATTATATTTGATTATT
1 TTATTATATTGGATTATT
*
4548843 TTATTTTATTGGATTAT
1 TTATTATATTGGATTAT
4548860 GTGTTTTACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.66
Consensus pattern (18 bp):
TTATTATATTGGATTATT
Found at i:4554879 original size:21 final size:21
Alignment explanation
Indices: 4554836--4554890 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
4554826 ACACAAAATT
4554836 ATTTTTTAAAAATATGTAATT-A
1 ATTTTTT--AAATATGTAATTAA
*
4554858 ATTTTTTAAATATCGTATTTAA
1 ATTTTTTAAATAT-GTAATTAA
*
4554880 AATTTTTAAAT
1 ATTTTTTAAAT
4554891 TTATAAATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 6 0.21
21 5 0.17
22 18 0.62
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (21 bp):
ATTTTTTAAATATGTAATTAA
Found at i:4562390 original size:12 final size:12
Alignment explanation
Indices: 4562373--4562408 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
4562363 GACATGTAAG
4562373 ATTTTGAAAAAC
1 ATTTTGAAAAAC
*
4562385 ATTTTGAAAAAT
1 ATTTTGAAAAAC
4562397 ATTTTGAAAAAC
1 ATTTTGAAAAAC
4562409 TCCCCCTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (12 bp):
ATTTTGAAAAAC
Found at i:4565378 original size:21 final size:21
Alignment explanation
Indices: 4565353--4565420 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
4565343 CACAAGATCC
4565353 AAAATATTTCACAAAATTAAT
1 AAAATATTTCACAAAATTAAT
*
4565374 AAAATATTTAAGCACAAA--AAT
1 AAAATATTTCA-CA-AAATTAAT
*
4565395 AAGCATATTTCAC-AAATTAA-
1 AA-AATATTTCACAAAATTAAT
4565415 AAAATA
1 AAAATA
4565421 GACAATTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
19 6 0.16
20 2 0.05
21 18 0.47
22 9 0.24
23 3 0.08
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (21 bp):
AAAATATTTCACAAAATTAAT
Found at i:4573217 original size:12 final size:12
Alignment explanation
Indices: 4573200--4573237 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
4573190 CATTTCATTA
4573200 AGCATCGCATGG
1 AGCATCGCATGG
4573212 AGCATCGCATGG
1 AGCATCGCATGG
*
4573224 AGTATCGCATGG
1 AGCATCGCATGG
4573236 AG
1 AG
4573238 TTTCACAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.26, C:0.21, G:0.34, T:0.18
Consensus pattern (12 bp):
AGCATCGCATGG
Found at i:4575907 original size:54 final size:54
Alignment explanation
Indices: 4575788--4575927 Score: 151
Period size: 55 Copynumber: 2.6 Consensus size: 54
4575778 CTTTATAGGG
* * * * *
4575788 GCATTTGCAT-AATTAAAATGGAAGTTTGAATTTACATCTTGAATGGTGACATTTT
1 GCATTTGCATCATTTAATA-GGAA-TTTGCATTTACACCTTGAATAGTGACATTTT
**
4575843 GCATTTGCATCATTATAATAGGTCTTTGCATTTACACCTTGAA-AGTGACCA-TTT
1 GCATTTGCATCATT-TAATAGGAATTTGCATTTACACCTTGAATAGTGA-CATTTT
*
4575897 GCATTTGCATCATTTAGTAGGAATTTGCATT
1 GCATTTGCATCATTTAATAGGAATTTGCATT
4575928 GGACATTTAT
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
53 14 0.19
54 21 0.29
55 29 0.40
56 4 0.06
57 4 0.06
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (54 bp):
GCATTTGCATCATTTAATAGGAATTTGCATTTACACCTTGAATAGTGACATTTT
Found at i:4576324 original size:35 final size:35
Alignment explanation
Indices: 4576275--4576677 Score: 199
Period size: 34 Copynumber: 11.7 Consensus size: 35
4576265 ATTTGAAAAA
4576275 TTCATTTTTAGACTTGTGGTTCAATCTCAGTCATT
1 TTCATTTTTAGACTTGTGGTTCAATCTCAGTCATT
* * * * * *
4576310 TTTATTTTTAGACTT-TGCTTTAGTCTAAGTCACT
1 TTCATTTTTAGACTTGTGGTTCAATCTCAGTCATT
* * **
4576344 TTCATCTTTTAAACTTGTGGTTCAGT-TCCAACCATT
1 TTCAT-TTTTAGACTTGTGGTTCAATCT-CAGTCATT
* * *
4576380 TTCATTTTTTTGACTTGTGGTTCACAATCTC-GACCTT
1 TTCA-TTTTTAGACTTGTGGTT--CAATCTCAGTCATT
* * * * * * ** *
4576417 ATCATTTTCA-ACTTATAGTTTAGTCTTGGT-AAT
1 TTCATTTTTAGACTTGTGGTTCAATCTCAGTCATT
* * *
4576450 TTCATTTTTAGACTTTTTGTTCAATATC-GATCA-T
1 TTCATTTTTAGACTTGTGGTTCAATCTCAG-TCATT
* * * *
4576484 ATCATTTTTAGACTTGTGGTTTAGTC-CTAATCA-T
1 TTCATTTTTAGACTTGTGGTTCAATCTC-AGTCATT
* *
4576518 TTC-TTTCTTATACTTGTGGTTCAATCTCAGTTATT
1 TTCATTT-TTAGACTTGTGGTTCAATCTCAGTCATT
* *
4576553 TTCATTTTTAAACTT-TGGTCCAATC-CAAGTCATT
1 TTCATTTTTAGACTTGTGGTTCAATCTC-AGTCATT
* * * **
4576587 TTTAATTTTCGACTTGTGGTTCAATCTTGGTCA-T
1 TTCATTTTTAGACTTGTGGTTCAATCTCAGTCATT
* * * * *
4576621 TTCCTTTTTCGACTTATGGTTTAAT-TCTGGTCA-T
1 TTCATTTTTAGACTTGTGGTTCAATCTC-AGTCATT
*
4576655 TTCATTTTTTA-ACTAGTGGTTCA
1 TTCA-TTTTTAGACTTGTGGTTCA
4576678 GTGGCAATCA
Statistics
Matches: 273, Mismatches: 73, Indels: 45
0.70 0.19 0.12
Matches are distributed among these distances:
33 20 0.07
34 142 0.52
35 63 0.23
36 36 0.13
37 7 0.03
38 4 0.01
39 1 0.00
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.50
Consensus pattern (35 bp):
TTCATTTTTAGACTTGTGGTTCAATCTCAGTCATT
Found at i:4576885 original size:34 final size:34
Alignment explanation
Indices: 4576803--4577196 Score: 160
Period size: 34 Copynumber: 11.5 Consensus size: 34
4576793 GTGATTTTTT
* * *
4576803 ATTTTTTGACTTGTGGTTCAAT-CTCAATCATATC
1 ATTTTTAGACTTGTGGTTCAGTCCT-AATCATTTC
**
4576837 A-TTCAAGACTTGTGGTT-AGGTCCTAATCATTTC
1 ATTTTTAGACTTGTGGTTCA-GTCCTAATCATTTC
* **
4576870 ATTTTTAGACTTGTGGTTCAGTCTTGGTCATTTC
1 ATTTTTAGACTTGTGGTTCAGTCCTAATCATTTC
* * * * * * *
4576904 ATTTTTATACTTATGGTTTAGTCTTGATAATTTT
1 ATTTTTAGACTTGTGGTTCAGTCCTAATCATTTC
* * * * *
4576938 ATTTTTCA-ACTTGTAGTTTAGT-CTCAGTTATTTTA
1 ATTTTT-AGACTTGTGGTTCAGTCCT-AATCA-TTTC
* ** * * *
4576973 ATTTTTAGACTCGTATTTCAATCTTAGTCATTTTC
1 ATTTTTAGACTTGTGGTTCAGTCCTAATCA-TTTC
* * * * *
4577008 ATTTTTA-ATCTTGTGATTAAAT-TTCAATCATATC
1 ATTTTTAGA-CTTGTGGTTCAGTCCT-AATCATTTC
* * ** * * *
4577042 ATTTTTATACTTGTGATTCAGTTTTAGTTATTTA
1 ATTTTTAGACTTGTGGTTCAGTCCTAATCATTTC
* *
4577076 ATTTTTAGACTTGTGGTTCAATTCTAATCATATTC
1 ATTTTTAGACTTGTGGTTCAGTCCTAATCAT-TTC
* * * * *
4577111 TTTTTTAGACTT-TAGTGCAGT-TTAAATGATCTTC
1 ATTTTTAGACTTGTGGTTCAGTCCT-AATCAT-TTC
* * * *
4577145 ATTTTTCGACTTGAGGTTTAGTCCCAATCATTTC
1 ATTTTTAGACTTGTGGTTCAGTCCTAATCATTTC
*
4577179 ACTTTTT-GACTTGAGGTT
1 A-TTTTTAGACTTGTGGTT
4577197 TAATCTTGTC
Statistics
Matches: 277, Mismatches: 65, Indels: 36
0.73 0.17 0.10
Matches are distributed among these distances:
32 1 0.00
33 25 0.09
34 170 0.61
35 80 0.29
36 1 0.00
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.50
Consensus pattern (34 bp):
ATTTTTAGACTTGTGGTTCAGTCCTAATCATTTC
Found at i:4578164 original size:186 final size:185
Alignment explanation
Indices: 4577829--4578182 Score: 480
Period size: 186 Copynumber: 1.9 Consensus size: 185
4577819 CTATAAAAAT
* *
4577829 AAATAATTAAAATGACAACTTTTGGAAGATTGAAAATCAGATCCATTTCTTTTTGAAAAATCTGA
1 AAATAATTAAAATGAAAACTTTTGGAAGATTGAAAATCAGATCCATTTCTTTTTGAAAAATATGA
* *
4577894 AAATTTTCAAAGAAATTGAAAACAAATCATGGCAATTTCAGAAAAATTGAAAATCATGGCCAAAA
66 AAATTTTCAAAGAAATTGAAAACAAATCATGGAAATTTCAGAAAAATTGAAAATCATGGCAAAAA
** * *
4577959 ATAAAATCGTCAGAAATTTATGTTGAAAACAAAGGAAAGTTAAAGTAAATAATTA
131 ATAAAATCAACAAAAATTTATATTGAAAACAAAGGAAAGTTAAAGTAAATAATTA
* * ** *
4578014 AAATAATTAAAAT-AAAATTTTTTGGAAGATTGAAAATCATATCTTTTTTTTTTGTGAAAAATAT
1 AAATAATTAAAATGAAAA-CTTTTGGAAGATTGAAAATCAGATCCATTTCTTTT-TGAAAAATAT
* ** * *
4578078 GGAAAATTTT-AGAGAAATTGAAAACAAATCATGGAAATTTCA-AAGAGCTTTAAAATCATGGTA
64 -GAAAATTTTCAAAGAAATTGAAAACAAATCATGGAAATTTCAGAA-AAATTGAAAATCATGGCA
*
4578141 AAAAATCAAATCAACAAAAATTTATATTGAAAACAAAGGAAA
127 AAAAATAAAATCAACAAAAATTTATATTGAAAACAAAGGAAA
4578183 TTTAGTACAA
Statistics
Matches: 146, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
184 3 0.02
185 45 0.31
186 89 0.61
187 9 0.06
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (185 bp):
AAATAATTAAAATGAAAACTTTTGGAAGATTGAAAATCAGATCCATTTCTTTTTGAAAAATATGA
AAATTTTCAAAGAAATTGAAAACAAATCATGGAAATTTCAGAAAAATTGAAAATCATGGCAAAAA
ATAAAATCAACAAAAATTTATATTGAAAACAAAGGAAAGTTAAAGTAAATAATTA
Found at i:4580392 original size:83 final size:85
Alignment explanation
Indices: 4580224--4580393 Score: 220
Period size: 83 Copynumber: 2.0 Consensus size: 85
4580214 TGACAACAGC
* *
4580224 TTAAGCATTTATGGATCAAGTTTATAAGCACCATGGCATGCCAATTAGTATTGTCTCCAACAGAG
1 TTAAACATTTATGGATCAAGTTTATAAGCACCATGGAATGCCAATTAGTATTGTCTCCAACAGAG
* *
4580289 ATAAAGCATTCCGTAGTAAT
66 ATAAAACATTCCGTAATAAT
* * *
4580309 TTAAACATTTATGGATC-AGTTTATAAGCTCCGTGGAATGCCAA-TAGTATTGTCTCTAACCAG-
1 TTAAACATTTATGGATCAAGTTTATAAGCACCATGGAATGCCAATTAGTATTGTCTCCAA-CAGA
* * *
4580371 GATAAAATATTTCTTAATAAT
65 GATAAAACATTCCGTAATAAT
4580392 TT
1 TT
4580394 CTGGTAAGAA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
83 32 0.43
84 26 0.35
85 16 0.22
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (85 bp):
TTAAACATTTATGGATCAAGTTTATAAGCACCATGGAATGCCAATTAGTATTGTCTCCAACAGAG
ATAAAACATTCCGTAATAAT
Found at i:4582019 original size:18 final size:18
Alignment explanation
Indices: 4581992--4582026 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4581982 TTATATCTGA
*
4581992 TTATTATATTTGATTATT
1 TTATTATATTGGATTATT
*
4582010 TTATTTTATTGGATTAT
1 TTATTATATTGGATTAT
4582027 GTGTTTTACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.66
Consensus pattern (18 bp):
TTATTATATTGGATTATT
Found at i:4585568 original size:15 final size:16
Alignment explanation
Indices: 4585550--4585580 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
4585540 TTAGATTTGA
4585550 TAAAATTAAA-AATAT
1 TAAAATTAAATAATAT
4585565 TAAAATTAAATAATAT
1 TAAAATTAAATAATAT
4585581 ATTTTTATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAAATTAAATAATAT
Found at i:4586828 original size:145 final size:146
Alignment explanation
Indices: 4586497--4586842 Score: 373
Period size: 144 Copynumber: 2.4 Consensus size: 146
4586487 GATTTTCATA
* *
4586497 AAACTTTTTAGATCTTAATTTTATAATATTTTCATGATTTTTT-GTGCATCTGAAATCATAGCAG
1 AAACTTTTTAGATCTTAATTTTATAATA-TTTCATGATTTTTTGGTGCATTTAAAATCATAGCAG
* * ** * *
4586561 TACCCTGAGAAGTGTAAAAAAACTAAAATACCTTTATAAGGGTATTTTCATAATTTAGCCTTTTC
65 TACCCCGAGAAATGTAAAAAAACTAAAATACCCCTATAAGGGTATTTTCATAATTGAGCCTTCTC
* * * *
4586626 GAGCTCGGATTTTCATG
130 AAGCTCAGAATTTCACG
* * * * *
4586643 AAACTTTTTAGATTTTAATTTCATATTATTTTAT-AATTTTTGGTGCATTTAAAATCATAGCAGT
1 AAACTTTTTAGATCTTAATTTTATAATATTTCATGATTTTTTGGTGCATTTAAAATCATAGCAGT
* ** * **
4586707 ACCCCGAGAAATGTGAAATTA-TCAAAATACCCCT-TAGGGGTATTTTTGTAATATGA-CCTTCT
66 ACCCCGAGAAATGTAAAAAAACT-AAAATACCCCTATAAGGGTATTTTCATAAT-TGAGCCTTCT
*
4586769 CAAGGTCAGAATTTCACG
129 CAAGCTCAGAATTTCACG
* *
4586787 AAA-TTTTTCATATCTCAATTTTATAATATTTCATGATTTTTTGGTGC-TTTAAAATC
1 AAACTTTTT-AGATCTTAATTTTATAATATTTCATGATTTTTTGGTGCATTTAAAATC
4586843 TTGAAAATGA
Statistics
Matches: 164, Mismatches: 31, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
143 5 0.03
144 71 0.43
145 63 0.38
146 25 0.15
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.42
Consensus pattern (146 bp):
AAACTTTTTAGATCTTAATTTTATAATATTTCATGATTTTTTGGTGCATTTAAAATCATAGCAGT
ACCCCGAGAAATGTAAAAAAACTAAAATACCCCTATAAGGGTATTTTCATAATTGAGCCTTCTCA
AGCTCAGAATTTCACG
Found at i:4594137 original size:7 final size:7
Alignment explanation
Indices: 4594125--4594152 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
4594115 TTTTTTTAAA
4594125 AACCTTT
1 AACCTTT
4594132 AACCTTT
1 AACCTTT
4594139 AACCTTT
1 AACCTTT
4594146 AACCTTT
1 AACCTTT
4594153 TTTGTATAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (7 bp):
AACCTTT
Found at i:4595931 original size:14 final size:14
Alignment explanation
Indices: 4595914--4595973 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 14
4595904 GAAAAAAGGC
4595914 AAAAAAAAAAAAAG
1 AAAAAAAAAAAAAG
* *
4595928 AAAACAAAAAAATG
1 AAAAAAAAAAAAAG
* **
4595942 AAAGAAAAGGAAAG
1 AAAAAAAAAAAAAG
*
4595956 AAAGAATAAAAAAAG
1 AAA-AAAAAAAAAAG
4595971 AAA
1 AAA
4595974 TGAAATGAAA
Statistics
Matches: 34, Mismatches: 11, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
14 24 0.71
15 10 0.29
ACGTcount: A:0.82, C:0.02, G:0.13, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAAAAAG
Found at i:4595936 original size:18 final size:18
Alignment explanation
Indices: 4595915--4595949 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4595905 AAAAAAGGCA
4595915 AAAAAAAAAAAAGAAAAC
1 AAAAAAAAAAAAGAAAAC
**
4595933 AAAAAAATGAAAGAAAA
1 AAAAAAAAAAAAGAAAA
4595950 GGAAAGAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.86, C:0.03, G:0.09, T:0.03
Consensus pattern (18 bp):
AAAAAAAAAAAAGAAAAC
Found at i:4597213 original size:16 final size:14
Alignment explanation
Indices: 4597192--4597225 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
4597182 AGATTTTTTG
*
4597192 AAAAAAAAAATGAA
1 AAAAAAAAAAAGAA
4597206 ACAAAAAAAAAAGAA
1 A-AAAAAAAAAAGAA
4597221 AAAAA
1 AAAAA
4597226 GAGGTCTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.88, C:0.03, G:0.06, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAAAGAA
Found at i:4597440 original size:129 final size:130
Alignment explanation
Indices: 4597264--4597575 Score: 416
Period size: 129 Copynumber: 2.4 Consensus size: 130
4597254 AAGACATTTA
*
4597264 ACTTGCATCTACATCACAAAAAAAAAAAGACATTTACATTTGCATCACTTGCATTCGTACTTACA
1 ACTTGCATCTACAT--C-AAAAAAAAAAGACATTCACATTTGCATCACTTGCATTCGTACTTACA
*
4597329 TGTACATCATAAGAAAGACATTTACACTCACATCTGCATCA-ACAAAAAG-A-CATTCACATTTG
63 TGTACATCATAAGAAAGACATTTACACTCACATCTACATCACA-AAAAAGAATCATTCACATTTG
4597391 CATC
127 CATC
* * *
4597395 ACTTGCATCTACATCATAAAAAAAAAGACATTCGCATTTACATCACTTGCATTCGTAGTTACATG
1 ACTTGCATCTACATCA-AAAAAAAAAGACATTCACATTTGCATCACTTGCATTCGTACTTACATG
* * * *
4597460 TACATTATGAGAAAGACATTTGCATTCACATCTACATCACAAAAAAGACATTTGCATTCACATTT
65 TACATCATAAGAAAGACATTTACACTCACATCTACATCACAAAAAAGA-A--T-CATTCACATTT
4597525 GCATC
126 GCATC
* *
4597530 ACTTGCATCTACATCACAAAAAAGA-ACATTCACATTTGCATCACTT
1 ACTTGCATCTACATCAAAAAAAAAAGACATTCACATTTGCATCACTT
4597576 ACATCTACAT
Statistics
Matches: 160, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
128 1 0.01
129 85 0.53
130 1 0.01
131 15 0.09
133 19 0.12
134 7 0.04
135 32 0.20
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (130 bp):
ACTTGCATCTACATCAAAAAAAAAAGACATTCACATTTGCATCACTTGCATTCGTACTTACATGT
ACATCATAAGAAAGACATTTACACTCACATCTACATCACAAAAAAGAATCATTCACATTTGCATC
Found at i:4597507 original size:32 final size:32
Alignment explanation
Indices: 4597471--4597531 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
4597461 ACATTATGAG
4597471 AAAGACATTTGCATTCACATCTACATCACAAA
1 AAAGACATTTGCATTCACATCTACATCACAAA
* *
4597503 AAAGACATTTGCATTCACATTTGCATCAC
1 AAAGACATTTGCATTCACATCTACATCAC
4597532 TTGCATCTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.39, C:0.25, G:0.08, T:0.28
Consensus pattern (32 bp):
AAAGACATTTGCATTCACATCTACATCACAAA
Found at i:4597564 original size:42 final size:42
Alignment explanation
Indices: 4597487--4597622 Score: 182
Period size: 42 Copynumber: 3.1 Consensus size: 42
4597477 ATTTGCATTC
4597487 ACATCTACATCACAAAAAAGACATTTGCATTCACATTTGCATCACTT
1 ACATCTACATCACAAAAAAGA-A----CATTCACATTTGCATCACTT
*
4597534 GCATCTACATCACAAAAAAGAACATTCACATTTGCATCACTT
1 ACATCTACATCACAAAAAAGAACATTCACATTTGCATCACTT
* * *
4597576 ACATCTACATCATAAAAAAAGGACATTTACATTTGCATCACTT
1 ACATCTACATCA-CAAAAAAGAACATTCACATTTGCATCACTT
4597619 ACAT
1 ACAT
4597623 TCACACTTGC
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
42 31 0.37
43 31 0.37
46 1 0.01
47 20 0.24
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.29
Consensus pattern (42 bp):
ACATCTACATCACAAAAAAGAACATTCACATTTGCATCACTT
Found at i:4597649 original size:176 final size:176
Alignment explanation
Indices: 4597359--4597681 Score: 470
Period size: 176 Copynumber: 1.8 Consensus size: 176
4597349 TTTACACTCA
* *
4597359 CATCTGCATCAACAAAAAGACATTCACATTTGCATCACTTGCATCTACATCATAAAAAAAAAGAC
1 CATCTACATCAACAAAAAGACATTCACATTTGCATCACTTACATCTACATCATAAAAAAAAAGAC
* * ** * * *
4597424 ATTCGCATTTACATCACTTGCATTCGTAGTTACATGTACATTATGAGAAAGACATTTGCATTCAC
66 ATTCACATTTACATCACTTACATTCACACTTACAGGTACATCATGAGAAAGACATTTGCATTCAC
4597489 ATCTACATCACAAAAAAGACATTTGCATTCACATTTGCATCACTTG
131 ATCTACATCACAAAAAAGACATTTGCATTCACATTTGCATCACTTG
*
4597535 CATCTACATC-ACAAAAAAGAACATTCACATTTGCATCACTTACATCTACATCAT-AAAAAAAGG
1 CATCTACATCAAC-AAAAAG-ACATTCACATTTGCATCACTTACATCTACATCATAAAAAAAAAG
* * * ** *
4597598 ACATTTACATTTGCATCACTTACATTCACACTTGCAGGTGTATCATGAGAAAGGCATTTGCATTC
64 ACATTCACATTTACATCACTTACATTCACACTTACAGGTACATCATGAGAAAGACATTTGCATTC
4597663 ACATCTACATCACAAAAAA
129 ACATCTACATCACAAAAAA
4597682 AAATATTTGT
Statistics
Matches: 129, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
175 2 0.02
176 94 0.73
177 33 0.26
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.28
Consensus pattern (176 bp):
CATCTACATCAACAAAAAGACATTCACATTTGCATCACTTACATCTACATCATAAAAAAAAAGAC
ATTCACATTTACATCACTTACATTCACACTTACAGGTACATCATGAGAAAGACATTTGCATTCAC
ATCTACATCACAAAAAAGACATTTGCATTCACATTTGCATCACTTG
Found at i:4597739 original size:41 final size:42
Alignment explanation
Indices: 4597671--4597749 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 42
4597661 TCACATCTAC
* * * *
4597671 ATCACAAAAAAAAATATTTGTATTTGCATCGCTTGCATCTGT
1 ATCACAAAAAAAAACATTCGTACTTGCATCACTTGCATCTGT
*
4597713 ATCAC-AAGAAAAACATTCGTACTTGCATCACTTGCAT
1 ATCACAAAAAAAAACATTCGTACTTGCATCACTTGCAT
4597750 TTGCACTTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 27 0.84
42 5 0.16
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (42 bp):
ATCACAAAAAAAAACATTCGTACTTGCATCACTTGCATCTGT
Found at i:4598514 original size:105 final size:104
Alignment explanation
Indices: 4598088--4598589 Score: 324
Period size: 105 Copynumber: 4.7 Consensus size: 104
4598078 CAAATTTAAC
** * *
4598088 TTTTAAAGTTTCAATGCCAT-TGATTAGGAGGAGCATTCAAAGATTTTGATATTTGTAAGACC-C
1 TTTTAAAGTTTCAATGCC-TCT-ATTATAAGGAGCATTCAAAGATTTTGAGATTTTTAAGACCTC
* * * * *
4598151 TCAGGTATAATTTTGAAGACCTCTAGGCAAAACATTTTAAAT
64 T-GGGCATAATCTTCAAGACCTCTAAGCAAAACATTTTAAAT
* * * *
4598193 TTTCAAAGTTTCAATGCCTC-----TGAGGAGCATTCAAAGATTTTTCAAAAATGTCGAAACTTG
1 TTTTAAAGTTTCAATGCCTCTATTATAAGGAGCATTCAAAGA-TTTT--GAGAT-T------TT-
* * ** * ** **
4598253 TAAGACCT-TCGAGCATAATTTTCAAGATTTTTCGGCAAAGTATTTTAAAT
55 TAAGACCTCT-GGGCATAATCTTCAAGACCTCTAAGCAAAACATTTTAAAT
* * * * *
4598303 TTTTAAAGTTTCAATGCCTCTATTATATGAGGAGCATTCAAATATTTTGAAATTCTTAA-AACTT
1 TTTTAAAGTTTCAATGCCTCTATTATA--AGGAGCATTCAAAGATTTTGAGATTTTTAAGACCTC
* * *
4598367 TCGAGCATAATCTTTAAGACCTCTGAGCAAAACATTTTAAAT
64 T-GGGCATAATCTTCAAGACCTCTAAGCAAAACATTTTAAAT
* * * *
4598409 TTTTAAAGTTTCAACGCCTCTATCACAAGGAGTATTCAAAGATTTTTGAGATTTTTAAGACCTCT
1 TTTTAAAGTTTCAATGCCTCTATTATAAGGAGCATTCAAAGA-TTTTGAGATTTTTAAGACCTCT
* * *
4598474 GGGCATAAT-TTCCAAGACCT-TCAAGTATACCATTTTAAAT
65 GGGCATAATCTT-CAAGACCTCT-AAGCAAAACATTTTAAAT
* * * *
4598514 TTTTAAAGTTTTAATGCCTCTATTATAAGGAGCATTTAAAGACCTTTGGGCATAATTTCTAAGAC
1 TTTTAAAGTTTCAATGCCTCTATTATAAGGAGCATTCAAAGA-TTTTGAG-AT--TTT-TAAGAC
4598579 CTCTGGGCATA
61 CTCTGGGCATA
4598590 CTCTCTAAGT
Statistics
Matches: 314, Mismatches: 54, Indels: 54
0.74 0.13 0.13
Matches are distributed among these distances:
99 16 0.05
100 4 0.01
102 3 0.01
103 1 0.00
104 17 0.05
105 103 0.33
106 66 0.21
107 1 0.00
108 3 0.01
109 18 0.06
110 58 0.18
113 1 0.00
114 4 0.01
115 1 0.00
116 4 0.01
117 14 0.04
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (104 bp):
TTTTAAAGTTTCAATGCCTCTATTATAAGGAGCATTCAAAGATTTTGAGATTTTTAAGACCTCTG
GGCATAATCTTCAAGACCTCTAAGCAAAACATTTTAAAT
Found at i:4598571 original size:21 final size:22
Alignment explanation
Indices: 4598547--4598589 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4598537 TATAAGGAGC
*
4598547 ATTT-AAAGACCTTTGGGCATA
1 ATTTCAAAGACCTCTGGGCATA
*
4598568 ATTTCTAAGACCTCTGGGCATA
1 ATTTCAAAGACCTCTGGGCATA
4598590 CTCTCTAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (22 bp):
ATTTCAAAGACCTCTGGGCATA
Found at i:4598577 original size:22 final size:22
Alignment explanation
Indices: 4598552--4598598 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
4598542 GGAGCATTTA
* *
4598552 AAGACCTTTGGGCATAATTTCT
1 AAGACCTCTGGGCATAATCTCT
*
4598574 AAGACCTCTGGGCATACTCTCT
1 AAGACCTCTGGGCATAATCTCT
4598596 AAG
1 AAG
4598599 TCTTTCAAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (22 bp):
AAGACCTCTGGGCATAATCTCT
Found at i:4598823 original size:27 final size:27
Alignment explanation
Indices: 4598753--4598824 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
4598743 AATTTACCAA
*
4598753 AAAAAACTAACAAAAAAAATCGAATCAAG
1 AAAAAA-TAA-AAAAAAAATCAAATCAAG
** *
4598782 AAAAAATTGACAAAAAATCAAATCAAG
1 AAAAAATAAAAAAAAAATCAAATCAAG
*
4598809 AAACAATAAAAAAAAA
1 AAAAAATAAAAAAAAA
4598825 GAGACAAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
27 28 0.80
28 1 0.03
29 6 0.17
ACGTcount: A:0.72, C:0.11, G:0.06, T:0.11
Consensus pattern (27 bp):
AAAAAATAAAAAAAAAATCAAATCAAG
Found at i:4600392 original size:19 final size:19
Alignment explanation
Indices: 4600368--4600414 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
4600358 CCTTCATATG
4600368 ATGGAAATTGTGATGTTCA
1 ATGGAAATTGTGATGTTCA
4600387 ATGGAAATTGTGATGTTCA
1 ATGGAAATTGTGATGTTCA
4600406 ATGGAAATT
1 ATGGAAATT
4600415 TGAGTGAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (19 bp):
ATGGAAATTGTGATGTTCA
Found at i:4607474 original size:463 final size:461
Alignment explanation
Indices: 4606585--4607951 Score: 1610
Period size: 463 Copynumber: 2.9 Consensus size: 461
4606575 CTGTAATTTA
* **
4606585 ATCTTATATAAATATATAAAAATCAAAATTTTTGGTT-AAAA-AAATTTGTCCAATGTGGATATC
1 ATCTTATATAAATATATAAAAATCAAAATTTTTGGTTAAAAAGAAAATTGTCCAACATGGATATC
* * * * * *
4606648 TTATATATTTAACATGTGAATACTTTTGAAAAATAGC--TGTATACTATATTTAATTTTTTTTAT
66 TTATATAATTGACATGTGGAT-CTTTTGAAAAATAGCTATGTGTACTATATTTAA-ATTTTTCAT
*
4606711 TTAATTTGATTTAAATTAAAAATATTTTAAATAATTAATTATATTTTTTTCTTTTAAATTTTCAA
129 TTAATTTGATTTAAATTAAAAATATTTCAAATAATTAATTATATTTTTTT-TTTTAAATTTTCAA
* * ** *
4606776 TTTAGTTACTTCCCTTTTTACATTTATGTGAAATTTTATGGT-TTTTACGATTAAAATTTTAACA
193 TTTAATTACTT-CCTTTTTACATTTATGTGACATTTTATAATCTTTTACAATTAAAATTTTAACA
* **
4606840 TAAATTATATTAGATAATAATATTTTATTTTCATATTTGATAAAT-GTTTTAATATAAAATTTTA
257 TAAATTATATTAAATAATAA-ATTTT-TTTTCATATTTGCCAAATGGTTTTAATAT-AAA-TTTA
* * * * * * *
4606904 AACTATCCATAGTCATGCTTGATTTTAAGTCAAAATAAGTTATGTGATGAGATTATTCTTTGTAA
318 AACTGTTCACAATCATACTTGATTTTATGTCAAAATAAGTTATGTGATGAGATTATTCTTTGCAA
*
4606969 TATATTATTATTGCCTTCCATAAGAAATTTTCAGTT-TAATTTATGGTCAACTTTTCATACTTAA
383 TA-ATTATTATTGCCTTCCATAAGTAATTTTCA-TTCTAATTTATGGTCAACTTTTCATACTTAA
* *
4607033 ACTTC-GAAATCTTAT
446 ACTTCAAAAATATTAT
* * *
4607048 ATCTTATATAAATATATAAAAA-CAAAAAATTTTGGTTAAAAAGAAAATCGTCCAACATAGATAT
1 ATCTTATATAAATATATAAAAATC-AAAATTTTTGGTTAAAAAGAAAATTGTCCAACATGGATAT
* * *
4607112 CTTATATAATTGACATATGGATGTTTTGAAAAATAGCTATGTGTTCTATATTTAAATTTTTCATT
65 CTTATATAATTGACATGTGGATCTTTTGAAAAATAGCTATGTGTACTATATTTAAATTTTTCATT
* * *
4607177 TAATTTGATTTAAATTAAAAAATATTTCAAATAATTAATTTTATTTTATTTTTTTTAATTTTAAA
130 TAATTTGATTTAAATT-AAAAATATTTCAAATAATTAATTATATTTT-TTTTTTTAAATTTTCAA
* *
4607242 TTTAATTACTTCCTTTTTTACATTTATGTGACATTTTATAATCTTCTACAATTAAAATTTTAACT
193 TTTAATTACTTCC-TTTTTACATTTATGTGACATTTTATAATCTTTTACAATTAAAATTTTAACA
4607307 TAAATTATATTAAATAAT-AATTTTTTTTCATATTTGCCAAATGGTTTTAATATAAATTTAAACT
257 TAAATTATATTAAATAATAAATTTTTTTTCATATTTGCCAAATGGTTTTAATATAAATTTAAACT
*
4607371 GTTCACAATCATACTTGATTTTATGTCAAAATAAGTTATGTGATGAGATTATT-TTTCACAATCA
322 GTTCACAATCATACTTGATTTTATGTCAAAATAAGTTATGTGATGAGATTATTCTTT-GCAAT-A
* * * *
4607435 ATTATTATTGCCTTTCATAAGTAATTCTCATTCTAATTTATGGTCAACTTTTCATATTTAAATTT
385 ATTATTATTGCCTTCCATAAGTAATTTTCATTCTAATTTATGGTCAACTTTTCATACTTAAACTT
4607500 CAAAAATATTAT
450 CAAAAATATTAT
* * * * * * *
4607512 ATCTTATATAAATATATAAAAATCAGAATTTTTAGCTAAAAAGAAAATTTTTCAACTTGGATAAC
1 ATCTTATATAAATATATAAAAATCAAAATTTTTGGTTAAAAAGAAAATTGTCCAACATGGATATC
* * * * * * * **
4607577 CTATATAATTGATATGTGAATGATTTTTTTTTTTAAAAAAAAAAAAGCTATGCGTCCTGCATTTA
66 TTATATAATTGACATGTG---GA-----TCTTTT----GAAAAATAGCTATGTGTACTATATTTA
* * * *
4607642 AAATTTTCATTTAATTTGATTTAAATTTAAAATATTTCAAATAACTAATTATATTTCTTTCCTTT
119 AATTTTTCATTTAATTTGATTTAAATTAAAAATATTTCAAATAATTAATTATATTT-TTT-TTTT
* * * *
4607707 TAAATTTTCAATATAACTACTTACCTTTTTGCATTTATGTGACTTTTTATAATCTTTTACAATTA
182 TAAATTTTCAATTTAATTACTT-CCTTTTTACATTTATGTGACATTTTATAATCTTTTACAATTA
** * *
4607772 AGGTTTTAACATAAATTATATTAAAT-ATCAATATTTTCTTTCCATATTTGCCAAAAGGTTTTAA
246 AAATTTTAACATAAATTATATTAAATAAT-AA-ATTTT-TTTTCATATTTGCCAAATGGTTTTAA
* * *
4607836 TATAAATTTAAACTG-TCTACAATCATACTTGATTTTATGTTAAAATAAGTTCTATGATGAGATT
308 TATAAATTTAAACTGTTC-ACAATCATACTTGATTTTATGTCAAAATAAGTTATGTGATGAGATT
* *
4607900 ATTCTTTGCAATTTATTGA-TATTGCCTTCCATAAGTAATTTTCCTTCTAATT
372 ATTCTTTGCAA-TAATT-ATTATTGCCTTCCATAAGTAATTTTCATTCTAATT
4607952 CATGACTTCA
Statistics
Matches: 777, Mismatches: 89, Indels: 60
0.84 0.10 0.06
Matches are distributed among these distances:
462 6 0.01
463 150 0.19
464 114 0.15
465 76 0.10
466 90 0.12
467 41 0.05
472 5 0.01
475 30 0.04
476 129 0.17
477 3 0.00
478 7 0.01
479 121 0.16
480 5 0.01
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (461 bp):
ATCTTATATAAATATATAAAAATCAAAATTTTTGGTTAAAAAGAAAATTGTCCAACATGGATATC
TTATATAATTGACATGTGGATCTTTTGAAAAATAGCTATGTGTACTATATTTAAATTTTTCATTT
AATTTGATTTAAATTAAAAATATTTCAAATAATTAATTATATTTTTTTTTTTAAATTTTCAATTT
AATTACTTCCTTTTTACATTTATGTGACATTTTATAATCTTTTACAATTAAAATTTTAACATAAA
TTATATTAAATAATAAATTTTTTTTCATATTTGCCAAATGGTTTTAATATAAATTTAAACTGTTC
ACAATCATACTTGATTTTATGTCAAAATAAGTTATGTGATGAGATTATTCTTTGCAATAATTATT
ATTGCCTTCCATAAGTAATTTTCATTCTAATTTATGGTCAACTTTTCATACTTAAACTTCAAAAA
TATTAT
Found at i:4607935 original size:479 final size:461
Alignment explanation
Indices: 4606704--4607951 Score: 1519
Period size: 476 Copynumber: 2.7 Consensus size: 461
4606694 TATTTAATTT
* *
4606704 TTTTTATTTAATTTGATTTAAATTAAAAATATTTTAAATAATTAATTATATTTTTTTCTTTTAAA
1 TTTTCATTTAATTTGATTTAAATTAAAAATATTTCAAATAATTAATTATA-TTTTTTCTTTTAAA
* * ** *
4606769 TTTTCAATTTAGTTACTTCCCTTTTTACATTTATGTGAAATTTTATGGT-TTTTACGATTAAAAT
65 TTTTCAATTTAATTACTT-CCTTTTTACATTTATGTGACATTTTATAATCTTTTACAATTAAAAT
* *
4606833 TTTAACATAAATTATATTAGATAATAATATTTTATTTTCATATTTG--ATAAATGTTTTAATATA
129 TTTAACATAAATTATATTAAATAATAATA-TTT-TTTTCATATTTGCCA-AAAGGTTTTAATAT-
* * * * * *
4606896 AAATTTTAAACTATCCATAGTCATGCTTGATTTTAAGTCAAAATAAGTTATGTGATGAGATTATT
190 AAA-TTTAAACTGTCTACAATCATACTTGATTTTATGTCAAAATAAGTTATGTGATGAGATTATT
* *
4606961 CTTTGTAATATATTATTATTGCCTTCCATAAGAAATTTTCAGTT-TAATTTATGGTCAACTTTTC
254 CTTTGCAATATATTATTATTGCCTTCCATAAGTAATTTTCA-TTCTAATTTATGGTCAACTTTTC
* * * *
4607025 ATACTTAAACTTCGAAATCTTATATCTTATATAAATATATAAAAACAAAAAATTTTGGTTAAAAA
318 ATACTTAAACTTCAAAATATTATATCTTATATAAATATATAAAAACAAAAAATTTTAGCTAAAAA
* * * * *
4607090 GAAAATCGTCCAACATAGATATCTTATATAATTGACATATGGATGTTTTGAAAAATAGCTATGTG
383 GAAAATCGTCCAACATAGATAACCTATATAATTGACATATGGATGTTTTAAAAAAAAGCTATGCG
* * *
4607155 TTCTATATTTAAAT
448 TCCTACATTTAAAA
* * *
4607169 TTTTCATTTAATTTGATTTAAATTAAAAAATATTTCAAATAATTAATTTTATTTTATTTTTTTTA
1 TTTTCATTTAATTTGATTTAAATT-AAAAATATTTCAAATAATTAATTATATTTT-TTCTTTTAA
* *
4607234 ATTTTAAATTTAATTACTTCCTTTTTTACATTTATGTGACATTTTATAATCTTCTACAATTAAAA
64 ATTTTCAATTTAATTACTTCC-TTTTTACATTTATGTGACATTTTATAATCTTTTACAATTAAAA
* *
4607299 TTTTAACTTAAATTATATTAAATAATAAT-TTTTTTTCATATTTGCCAAATGGTTTTAATATAAA
128 TTTTAACATAAATTATATTAAATAATAATATTTTTTTCATATTTGCCAAAAGGTTTTAATATAAA
4607363 TTTAAACTGT-TCACAATCATACTTGATTTTATGTCAAAATAAGTTATGTGATGAGATTATT-TT
193 TTTAAACTGTCT-ACAATCATACTTGATTTTATGTCAAAATAAGTTATGTGATGAGATTATTCTT
* * *
4607426 TCACAATCA-ATTATTATTGCCTTTCATAAGTAATTCTCATTCTAATTTATGGTCAACTTTTCAT
257 T-GCAAT-ATATTATTATTGCCTTCCATAAGTAATTTTCATTCTAATTTATGGTCAACTTTTCAT
* * * *
4607490 ATTTAAATTTCAAAAATATTATATCTTATATAAATATATAAAAATC-AGAATTTTTAGCTAAAAA
320 ACTTAAACTTC-AAAATATTATATCTTATATAAATATATAAAAA-CAAAAAATTTTAGCTAAAAA
** * * * * * *
4607554 GAAAATTTTTCAACTTGGATAACCTATATAATTGATATGTGAATGATTTTTTTTTTTAAAAAAAA
383 GAAAATCGTCCAACATAGATAACCTATATAATTGACATATG---GA-----TGTTTT----AAAA
*
4607619 AAAAGCTATGCGTCCTGCATTTAAAA
436 AAAAGCTATGCGTCCTACATTTAAAA
* *
4607645 TTTTCATTTAATTTGATTTAAATTTAAAATATTTCAAATAACTAATTATATTTCTTTCCTTTTAA
1 TTTTCATTTAATTTGATTTAAATTAAAAATATTTCAAATAATTAATTATATTT-TTT-CTTTTAA
* * * * **
4607710 ATTTTCAATATAACTACTTACCTTTTTGCATTTATGTGACTTTTTATAATCTTTTACAATTAAGG
64 ATTTTCAATTTAATTACTT-CCTTTTTACATTTATGTGACATTTTATAATCTTTTACAATTAAAA
4607775 TTTTAACATAAATTATATTAAAT-ATCAATATTTTCTTTCCATATTTGCCAAAAGGTTTTAATAT
128 TTTTAACATAAATTATATTAAATAAT-AATATTTT-TTT-CATATTTGCCAAAAGGTTTTAATAT
* * *
4607839 AAATTTAAACTGTCTACAATCATACTTGATTTTATGTTAAAATAAGTTCTATGATGAGATTATTC
190 AAATTTAAACTGTCTACAATCATACTTGATTTTATGTCAAAATAAGTTATGTGATGAGATTATTC
* *
4607904 TTTGCAATTTATTGA-TATTGCCTTCCATAAGTAATTTTCCTTCTAATT
255 TTTGCAATATATT-ATTATTGCCTTCCATAAGTAATTTTCATTCTAATT
4607952 CATGACTTCA
Statistics
Matches: 673, Mismatches: 75, Indels: 56
0.84 0.09 0.07
Matches are distributed among these distances:
462 5 0.01
463 115 0.17
464 92 0.14
465 45 0.07
466 74 0.11
467 41 0.06
472 5 0.01
475 30 0.04
476 132 0.20
477 6 0.01
478 3 0.00
479 120 0.18
480 5 0.01
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (461 bp):
TTTTCATTTAATTTGATTTAAATTAAAAATATTTCAAATAATTAATTATATTTTTTCTTTTAAAT
TTTCAATTTAATTACTTCCTTTTTACATTTATGTGACATTTTATAATCTTTTACAATTAAAATTT
TAACATAAATTATATTAAATAATAATATTTTTTTCATATTTGCCAAAAGGTTTTAATATAAATTT
AAACTGTCTACAATCATACTTGATTTTATGTCAAAATAAGTTATGTGATGAGATTATTCTTTGCA
ATATATTATTATTGCCTTCCATAAGTAATTTTCATTCTAATTTATGGTCAACTTTTCATACTTAA
ACTTCAAAATATTATATCTTATATAAATATATAAAAACAAAAAATTTTAGCTAAAAAGAAAATCG
TCCAACATAGATAACCTATATAATTGACATATGGATGTTTTAAAAAAAAGCTATGCGTCCTACAT
TTAAAA
Found at i:4615155 original size:13 final size:13
Alignment explanation
Indices: 4615137--4615161 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4615127 AAAATAAGCA
4615137 TATTTCACAAAAG
1 TATTTCACAAAAG
4615150 TATTTCACAAAA
1 TATTTCACAAAA
4615162 TTAATGAATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.04, T:0.32
Consensus pattern (13 bp):
TATTTCACAAAAG
Found at i:4615196 original size:56 final size:55
Alignment explanation
Indices: 4615089--4615207 Score: 134
Period size: 56 Copynumber: 2.2 Consensus size: 55
4615079 ACACAAGATC
* * *
4615089 CAAAATATTTCACAAAATTAATAAAACATTTAAGCATAAAAATAAGCATATTTCA
1 CAAAATATTTCACAAAATTAATAAAACAATTAAGCACAAAAACAAGCATATTTCA
* * * * * *
4615144 CAAAAGTATTTCACAAAATTAATGAATCAATTGAGCACAAGAGCAAGTATATTT-A
1 CAAAA-TATTTCACAAAATTAATAAAACAATTAAGCACAAAAACAAGCATATTTCA
4615199 -AAAATATTT
1 CAAAATATTT
4615208 TAAAAATCAA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
53 5 0.09
54 4 0.07
55 6 0.11
56 39 0.72
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.29
Consensus pattern (55 bp):
CAAAATATTTCACAAAATTAATAAAACAATTAAGCACAAAAACAAGCATATTTCA
Found at i:4621545 original size:461 final size:459
Alignment explanation
Indices: 4620952--4622323 Score: 1693
Period size: 461 Copynumber: 3.0 Consensus size: 459
4620942 TTGTAATTTA
* * * * * *
4620952 ATCTTATATAACTATATAAAAGCCAAAATTTTTAG-T-CAAA-AAAATTATCCAACATGGATATC
1 ATCTTATATAAATATACAAAAACCAAAACTTTTAGCTAAAAAGAAAATTGTCCAACATGGATATC
* * * *
4621014 ATATAT-TTTTGACATGTGAATGGTTTTGAAAAATAGCTATGTGTCCTATATTTAAATTTTTTAT
66 CTATATAATTT-ACATGTGGAT-GTTTTGAAAAATAGCTATGTGTCCTGTATTTAAATTTTTTAT
* *
4621078 TTAATTTGACTTAAATTAAAAAATATTTCAAATAATTAATTATATATTTTTTTAAA-TTTCAATT
129 TTAATTTGATTTAAATTAAAAAATATTTCAAATAATTAATTATATTTTTTTTTAAATTTTCAATT
4621142 TAATTACTTCCCTTTTTACATTTATGTGACATTTTATAGTCTTCTACGATTAAAATTTTAACATA
194 TAATTACTTCCCTTTTTACATTTATGTGACATTTTATAGTCTTCTACGATTAAAATTTTAAC-TA
4621207 TATTATATTAAATAATAATATTTTCTTTTCATATTTGCCAAAATGTTTTAATATAAATTTTAAAC
258 TATTATATTAAATAATAATATTTTCTTTTCATATTTGCCAAAATGTTTTAATATAAA-TTTAAAC
* * * * *
4621272 TATCCATAGTCATGCCTGATTTTAAGTCAAAATAAGTTATGTGATGAGATTATTCTTCGCGATCT
322 TATCCACAGTCATGCTTGATTTTATGTCAAAATAAGTTATGTGATGAGATTATTCTTTGCAATCT
4621337 ATTATTATTGCCTTTCCATAAGTAATTCTCATTTTAATTTATGGTCAACTTTTCATATTTATCTT
387 ATTATTATTGCC-TTCCATAAGTAATTCTCATTTTAATTTATGGTCAACTTTTCATATTTAT-TT
* *
4621402 -ATATCTTAT
450 AAAATATTAT
* * * *
4621411 ATCTTATATAAATATCCAAAAACCAAAACTTTTGGTTGAAAAGAAAATTGTCCAACATGGATATC
1 ATCTTATATAAATATACAAAAACCAAAACTTTTAGCTAAAAAGAAAATTGTCCAACATGGATATC
4621476 CTATATAATTTACATGTGGATGTTTTGAAAAATAGCTATGTGTCCTGTATTTAAATTTTTTATTT
66 CTATATAATTTACATGTGGATGTTTTGAAAAATAGCTATGTGTCCTGTATTTAAATTTTTTATTT
* *
4621541 AATTTGATTTAAATTAAAAAAATATCTCAAATAATTAATTTTATTTCTTTCCTTTAAAATTTTCA
131 AATTTGATTTAAATT-AAAAAATATTTCAAATAATTAATTATATTT-TTT--TTT-AAATTTTCA
*
4621606 ATTTAATTACTTCCCTTTTTACATTTATGTGATATTTTATAG---T-T--GATTAAAATTTTAAC
191 ATTTAATTACTTCCCTTTTTACATTTATGTGACATTTTATAGTCTTCTACGATTAAAATTTTAAC
* *
4621665 TTAAATTATATTAAATAAAAATATTTTCTTTTCATATTTGCC-AAATGATTTTAATATAAATTTA
256 -TATATTATATTAAATAATAATATTTTCTTTTCATATTTGCCAAAATG-TTTTAATATAAATTTA
** * * *
4621729 AACTGCCCAGAGTCATGTTTGA-TTTATGTCAAAATAAGTTATGCGATGAGATTATTCTTTGCAA
319 AACTATCCACAGTCATGCTTGATTTTATGTCAAAATAAGTTATGTGATGAGATTATTCTTTGCAA
* * *
4621793 TCTATTATTATTGTCTTCCATTAAG-AATTCTTATTTTATTTTATGGTCAACTTTTCATATTTAA
384 TCTATTATTATTGCCTTCCA-TAAGTAATTCTCATTTTAATTTATGGTCAACTTTTCATATTT--
4621857 ATTTAAAAAATATTAT
446 ATTT--AAAATATTAT
* ** * * * *
4621873 ATCTTATATAAATATATAAAAGTCAAAACTTTTAGCTAAAAAGGAAATTGTACAACTTGGATAGC
1 ATCTTATATAAATATACAAAAACCAAAACTTTTAGCTAAAAAGAAAATTGTCCAACATGGATATC
* * * * * * ** * * *
4621938 CTATATAATTGATATGTGGACGGTCTTAAAAAATAGTTACATATCTTGCATTTAAATTTTTTATT
66 CTATATAATTTACATGTGGA-TGTTTTGAAAAATAGCTATGTGTCCTGTATTTAAATTTTTTATT
4622003 TAATTTGATTTAAATTAAAAAA-ATTTCAAATAATTAATTATATTTCTTTTCTTTTAAATTTTCA
130 TAATTTGATTTAAATTAAAAAATATTTCAAATAATTAATTATA--T-TTTT-TTTTAAATTTTCA
* * * * * * * **
4622067 ATATAACTACTTACCTTTTTACATTTATGTGACTTTTTATAATCTCCTACAATTAAGGTTTTAAC
191 ATTTAATTACTTCCCTTTTTACATTTATGTGACATTTTATAGTCTTCTACGATTAAAATTTTAAC
* * *
4622132 TTTAATTATATTAAAT-ATCAATATTTTC-TTTCGATATTTGCCAAAAGGCTTTAATATAAATTT
256 TAT-ATTATATTAAATAAT-AATATTTTCTTTTC-ATATTTGCCAAAATGTTTTAATATAAATTT
* * * * * *
4622195 AAACTATCTACAATTAAGCTTGATTTTATGTCAAAATAAGTTGTGTGATGAGATCATTCTTTGCA
318 AAACTATCCACAGTCATGCTTGATTTTATGTCAAAATAAGTTATGTGATGAGATTATTCTTTGCA
* * *
4622260 ATTTATTGA-TATTGCCTTCCATAAGTAATTCTCCTTTTAATTCATGGTCAACTTTTCATATTTA
383 ATCTATT-ATTATTGCCTTCCATAAGTAATTCTCATTTTAATTTATGGTCAACTTTTCATATTTA
4622324 AACTTCAAAA
Statistics
Matches: 788, Mismatches: 90, Indels: 63
0.84 0.10 0.07
Matches are distributed among these distances:
458 40 0.05
459 87 0.11
460 29 0.04
461 189 0.24
462 150 0.19
463 61 0.08
464 4 0.01
465 4 0.01
466 10 0.01
467 121 0.15
468 92 0.12
469 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (459 bp):
ATCTTATATAAATATACAAAAACCAAAACTTTTAGCTAAAAAGAAAATTGTCCAACATGGATATC
CTATATAATTTACATGTGGATGTTTTGAAAAATAGCTATGTGTCCTGTATTTAAATTTTTTATTT
AATTTGATTTAAATTAAAAAATATTTCAAATAATTAATTATATTTTTTTTTAAATTTTCAATTTA
ATTACTTCCCTTTTTACATTTATGTGACATTTTATAGTCTTCTACGATTAAAATTTTAACTATAT
TATATTAAATAATAATATTTTCTTTTCATATTTGCCAAAATGTTTTAATATAAATTTAAACTATC
CACAGTCATGCTTGATTTTATGTCAAAATAAGTTATGTGATGAGATTATTCTTTGCAATCTATTA
TTATTGCCTTCCATAAGTAATTCTCATTTTAATTTATGGTCAACTTTTCATATTTATTTAAAATA
TTAT
Found at i:4624074 original size:21 final size:20
Alignment explanation
Indices: 4624049--4624121 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 20
4624039 TATCAATTTA
*
4624049 TATTTATATTTTAAAATTTTT
1 TATTTATA-TATAAAATTTTT
*
4624070 TATTTTTATATAAAATTTATT
1 TATTTATATATAAAATTT-TT
* *
4624091 AATTGTATTATAATTAAATTTTT
1 TATT-TA-TAT-ATAAAATTTTT
*
4624114 TATATATA
1 TATTTATA
4624122 ATTATTAACT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
20 9 0.22
21 14 0.34
22 3 0.07
23 7 0.17
24 8 0.20
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (20 bp):
TATTTATATATAAAATTTTT
Found at i:4624083 original size:20 final size:23
Alignment explanation
Indices: 4624060--4624116 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 23
4624050 ATTTATATTT
4624060 TAAAATTTTTTATT-T-TTAT-A
1 TAAAATTTTTTATTGTATTATAA
*
4624080 TAAAATTTATTAATTGTATTATAA
1 TAAAATTT-TTTATTGTATTATAA
*
4624104 TTAAATTTTTTAT
1 TAAAATTTTTTAT
4624117 ATATAATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 8 0.27
21 5 0.17
22 1 0.03
23 8 0.27
24 8 0.27
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TAAAATTTTTTATTGTATTATAA
Found at i:4624823 original size:20 final size:20
Alignment explanation
Indices: 4624794--4624833 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
4624784 CAAATTATTA
4624794 AAAAAATAATATTAAAAATT
1 AAAAAATAATATTAAAAATT
* * *
4624814 AAAAATTAATTTTTAAAATT
1 AAAAAATAATATTAAAAATT
4624834 CAATTTATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAAATAATATTAAAAATT
Found at i:4626093 original size:2 final size:2
Alignment explanation
Indices: 4626086--4626121 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
4626076 ATTAATGTAA
*
4626086 AT AT AT AT AT AT AT AT AT AC 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 AT
4626122 CTTATATTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4629376 original size:17 final size:19
Alignment explanation
Indices: 4629350--4629391 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
4629340 TAATAATCTT
*
4629350 TAATTTTTAA-AAAT-AAA
1 TAATTATTAACAAATAAAA
4629367 TAATTATTAATCAAATAAAA
1 TAATTATTAA-CAAATAAAA
4629387 TAATT
1 TAATT
4629392 TTGAATCGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 9 0.43
19 4 0.19
20 8 0.38
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
TAATTATTAACAAATAAAA
Found at i:4638427 original size:15 final size:15
Alignment explanation
Indices: 4638400--4638433 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4638390 GTTTTCATTT
4638400 TAAT-TTAACAATAA
1 TAATATTAACAATAA
*
4638414 TAATATTAATAATAA
1 TAATATTAACAATAA
4638429 TAATA
1 TAATA
4638434 ATTTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
TAATATTAACAATAA
Found at i:4639550 original size:32 final size:32
Alignment explanation
Indices: 4639507--4639568 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
4639497 AAAATTTTTT
**
4639507 TTTTTAATTTTTCTATTTTTTTATATATTATTA
1 TTTTTAATTTTTCTAAGTTTTTATAT-TTATTA
*
4639540 TTTTT-ATTTTTTTAAGTTTTTATATTTAT
1 TTTTTAATTTTTCTAAGTTTTTATATTTAT
4639569 GCATGATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 4 0.15
32 17 0.65
33 5 0.19
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (32 bp):
TTTTTAATTTTTCTAAGTTTTTATATTTATTA
Found at i:4639885 original size:14 final size:14
Alignment explanation
Indices: 4639852--4639885 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4639842 AAAAAGGATT
4639852 TTTTTTAAAAAAAA
1 TTTTTTAAAAAAAA
* *
4639866 ATTTTTAAATAAAA
1 TTTTTTAAAAAAAA
4639880 TTTTTT
1 TTTTTT
4639886 TTATGTTTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTTTTAAAAAAAA
Found at i:4640013 original size:15 final size:16
Alignment explanation
Indices: 4639987--4640019 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
4639977 TGTTTTAATT
*
4639987 AAACCTCAAACCTTCA
1 AAACCTCAAACCTGCA
4640003 AAACC-CAAACCTGCA
1 AAACCTCAAACCTGCA
4640018 AA
1 AA
4640020 CCCTAAACTT
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:0.48, C:0.36, G:0.03, T:0.12
Consensus pattern (16 bp):
AAACCTCAAACCTGCA
Found at i:4643443 original size:13 final size:13
Alignment explanation
Indices: 4643377--4643473 Score: 63
Period size: 13 Copynumber: 7.3 Consensus size: 13
4643367 TAAGTGTTTT
4643377 TATTAAT-ATAATA
1 TATTAATAATAA-A
* *
4643390 TTTTAATATTAAA
1 TATTAATAATAAA
*
4643403 TATTATTATATAAA
1 TATTAATA-ATAAA
* **
4643417 TAATTATTTTTAAA
1 T-ATTAATAATAAA
4643431 TATTAATAATAAA
1 TATTAATAATAAA
* *
4643444 TAATT-TTAATATA
1 T-ATTAATAATAAA
*
4643457 TTTTAATAATAAA
1 TATTAATAATAAA
4643470 TATT
1 TATT
4643474 TTTCAATATT
Statistics
Matches: 63, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
12 2 0.03
13 39 0.62
14 16 0.25
15 6 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TATTAATAATAAA
Found at i:4643450 original size:23 final size:23
Alignment explanation
Indices: 4643406--4643502 Score: 88
Period size: 23 Copynumber: 4.0 Consensus size: 23
4643396 TATTAAATAT
*
4643406 TATTATATAAATAATTATTTTTAAA
1 TATTA-AT-AATAAATATTTTTAAA
*
4643431 TATTAATAATAAATAATTTTAATA
1 TATTAATAATAAATATTTTTAA-A
*
4643455 TATTTTAATAATAAATATTTTTCAA
1 TA--TTAATAATAAATATTTTTAAA
* *
4643480 TATT-TTAATAGATATTATTTAAA
1 TATTAATAATAAATATT-TTTAAA
4643503 ATACAAACTA
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
22 10 0.16
23 20 0.33
24 5 0.08
25 8 0.13
26 18 0.30
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (23 bp):
TATTAATAATAAATATTTTTAAA
Found at i:4643469 original size:26 final size:25
Alignment explanation
Indices: 4643393--4643489 Score: 99
Period size: 26 Copynumber: 3.8 Consensus size: 25
4643383 TATAATATTT
* *
4643393 TAATATTAAATATTATTATATAAATAAT
1 TAATTTTAAATATT-TTA-AT-AATAAA
*
4643421 TATTTTTAAATA--TTAATAATAAA
1 TAATTTTAAATATTTTAATAATAAA
4643444 TAATTTTAATATATTTTAATAATAAA
1 TAATTTTAA-ATATTTTAATAATAAA
* *
4643470 TATTTTTCAATATTTTAATA
1 TAATTTTAAATATTTTAATA
4643490 GATATTATTT
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
23 13 0.22
24 5 0.08
25 14 0.23
26 18 0.30
28 10 0.17
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (25 bp):
TAATTTTAAATATTTTAATAATAAA
Found at i:4645071 original size:26 final size:25
Alignment explanation
Indices: 4645008--4645074 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 25
4644998 AAATATAGTA
**
4645008 ATATTTTATTTATTTTATAATAAAT
1 ATATTTTATTTATTAAATAATAAAT
* * * *
4645033 ATAATTAACTTATTAAATTATTAAAT
1 ATATTTTATTTATTAAA-TAATAAAT
4645059 ATATTTTATTTATTAA
1 ATATTTTATTTATTAA
4645075 GTAAACTAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
25 12 0.38
26 20 0.62
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (25 bp):
ATATTTTATTTATTAAATAATAAAT
Found at i:4647357 original size:24 final size:22
Alignment explanation
Indices: 4647313--4647364 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 22
4647303 TTATACTCAT
*
4647313 AATTAACTAAATAATTTATTATTAA
1 AATT-ACTAAATAATTAATTA--AA
*
4647338 AATTACTGAATAATTAATTAAA
1 AATTACTAAATAATTAATTAAA
4647360 AATTA
1 AATTA
4647365 TAATTTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 7 0.28
24 14 0.56
25 4 0.16
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (22 bp):
AATTACTAAATAATTAATTAAA
Found at i:4649446 original size:21 final size:19
Alignment explanation
Indices: 4649420--4649459 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
4649410 GACAAAAATG
4649420 ATATTTCTATTTCATTCTTAA
1 ATATTT-TATTT-ATTCTTAA
*
4649441 ATATTTTATTTATTTTTAA
1 ATATTTTATTTATTCTTAA
4649460 TAAATATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (19 bp):
ATATTTTATTTATTCTTAA
Found at i:4653143 original size:6 final size:6
Alignment explanation
Indices: 4653109--4653196 Score: 61
Period size: 6 Copynumber: 13.3 Consensus size: 6
4653099 ATATGTATGT
*
4653109 AAATAAA AAATAA GCAAATCAA TAAATAA AAATAA AAATAA AAATAA AGAAGGCAA
1 AAAT-AA AAATAA --AAAT-AA -AAATAA AAATAA AAATAA AAATAA A-AA--TAA
* *
4653165 AAATAA AACTAA AAAGAA AAA-ACA AAATAA AA
1 AAATAA AAATAA AAATAA AAATA-A AAATAA AA
4653197 CTACCAAACT
Statistics
Matches: 67, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
5 1 0.01
6 42 0.63
7 9 0.13
8 10 0.15
9 5 0.07
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.12
Consensus pattern (6 bp):
AAATAA
Found at i:4655126 original size:2 final size:2
Alignment explanation
Indices: 4655119--4655149 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4655109 ACTTGATTTC
4655119 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4655150 TTGAAAGTTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4660232 original size:21 final size:21
Alignment explanation
Indices: 4660195--4660247 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
4660185 CTAAAAATTA
4660195 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATT-TTTTTTAAAAT
*
4660217 ATAAAATATTTTTTTTTAAAT
1 ATAAAATATTTTTTTTAAAAT
4660238 AT-AAATATTT
1 ATAAAATATTT
4660248 AAAAATATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 8 0.27
21 12 0.40
22 10 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATAAAATATTTTTTTTAAAAT
Found at i:4661694 original size:26 final size:25
Alignment explanation
Indices: 4661659--4661715 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 25
4661649 TTTTTAAATA
4661659 TTAATAATAAATAATTTAAATATATT
1 TTAATAATAAATAATTTAAA-ATATT
* **
4661685 TTAATAATAAATATTTTTCAATATT
1 TTAATAATAAATAATTTAAAATATT
4661710 TTAATA
1 TTAATA
4661716 GATATGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 11 0.39
26 17 0.61
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
TTAATAATAAATAATTTAAAATATT
Found at i:4661697 original size:17 final size:17
Alignment explanation
Indices: 4661675--4661707 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4661665 ATAAATAATT
4661675 TAAATATATTTT-AATAA
1 TAAATAT-TTTTCAATAA
4661692 TAAATATTTTTCAATA
1 TAAATATTTTTCAATA
4661708 TTTTAATAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (17 bp):
TAAATATTTTTCAATAA
Found at i:4662826 original size:26 final size:25
Alignment explanation
Indices: 4662760--4662826 Score: 62
Period size: 26 Copynumber: 2.6 Consensus size: 25
4662750 AAATATAGTA
**
4662760 ATATTTTATTTATTTTATAATAAAT
1 ATATTTTATTTATTAAATAATAAAT
* * * * *
4662785 ATAATTAACTTGTTAAATTATTAAAT
1 ATATTTTATTTATTAAA-TAATAAAT
4662811 ATATTTTATTTATTAA
1 ATATTTTATTTATTAA
4662827 GTAAACTAAT
Statistics
Matches: 30, Mismatches: 11, Indels: 1
0.71 0.26 0.02
Matches are distributed among these distances:
25 11 0.37
26 19 0.63
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (25 bp):
ATATTTTATTTATTAAATAATAAAT
Found at i:4663019 original size:15 final size:16
Alignment explanation
Indices: 4662999--4663028 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4662989 TTAATTTAAA
4662999 AATATAAAA-AATTAT
1 AATATAAAATAATTAT
4663014 AATATAAAATAATTA
1 AATATAAAATAATTA
4663029 AAATTTTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATATAAAATAATTAT
Found at i:4665102 original size:23 final size:23
Alignment explanation
Indices: 4665066--4665117 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
4665056 TTATACTCAT
* *
4665066 AATTAACTAAATAATTTATTATTA
1 AATT-ACTAAATAATTAATTAATA
*
4665090 AATTACTGAATAATTAATTAATA
1 AATTACTAAATAATTAATTAATA
4665113 AATTA
1 AATTA
4665118 TAATTTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (23 bp):
AATTACTAAATAATTAATTAATA
Found at i:4666154 original size:17 final size:17
Alignment explanation
Indices: 4666131--4666173 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
4666121 AATTATCTCA
4666131 ATTTATTTTATTTCT-TT
1 ATTTATTTTATTT-TATT
*
4666148 CTTTATTTTATTTTATT
1 ATTTATTTTATTTTATT
4666165 ATTTATTTT
1 ATTTATTTT
4666174 CCCAATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 1 0.04
17 22 0.96
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.77
Consensus pattern (17 bp):
ATTTATTTTATTTTATT
Found at i:4667275 original size:21 final size:19
Alignment explanation
Indices: 4667249--4667288 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
4667239 GACAAAAATG
4667249 ATATTTCTATTTCATTCTTAA
1 ATATTT-TATTT-ATTCTTAA
*
4667270 ATATTTTATTTATTTTTAA
1 ATATTTTATTTATTCTTAA
4667289 TAAATATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (19 bp):
ATATTTTATTTATTCTTAA
Done.