Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, 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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 27 of 74
Found at i:6179278 original size:26 final size:24
Alignment explanation
Indices: 6179256--6179331 Score: 73
Period size: 25 Copynumber: 3.1 Consensus size: 24
6179246 TAGTAAATAG
6179256 ATTTTTTTATTAAATAATATAAATT
1 ATTTTTTTATTAAATAATATAAA-T
* * * *
6179281 ATTTTTTAGATTAATTAAAATTAAT
1 ATTTTTT-TATTAAATAATATAAAT
* *
6179306 ATATTTTTATTAAA-AATATATAT
1 ATTTTTTTATTAAATAATATAAAT
6179329 ATT
1 ATT
6179332 AATATTTATT
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
23 8 0.21
24 5 0.13
25 14 0.36
26 12 0.31
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (24 bp):
ATTTTTTTATTAAATAATATAAAT
Found at i:6179337 original size:21 final size:20
Alignment explanation
Indices: 6179294--6179337 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
6179284 TTTTAGATTA
* **
6179294 ATTAAAATTAATATATTTTT
1 ATTAAAAATAATATATTAAT
6179314 ATTAAAAATATATATATTAAT
1 ATTAAAAATA-ATATATTAAT
6179335 ATT
1 ATT
6179338 TATTTATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTAAAAATAATATATTAAT
Found at i:6179792 original size:29 final size:28
Alignment explanation
Indices: 6179678--6179792 Score: 64
Period size: 28 Copynumber: 4.2 Consensus size: 28
6179668 CCTTAGGATA
* * * *
6179678 TATAAAAATATATTTTTA-ATTATTTAT
1 TATAAATATATATTTATATATAATTAAT
*
6179705 T-T-AATTTATATTTATATATCATATTAA-
1 TATAAATATATATTTATATAT-A-ATTAAT
* **
6179732 TAAAAATAT-TATTTA-ATA-CCTTAATT
1 TATAAATATATATTTATATATAATTAA-T
6179758 TAATAAATATATATTTATATATAATTAAGT
1 T-ATAAATATATATTTATATATAATTAA-T
6179788 TATAA
1 TATAA
6179793 TTTATGTTAA
Statistics
Matches: 64, Mismatches: 13, Indels: 20
0.66 0.13 0.21
Matches are distributed among these distances:
24 4 0.06
25 11 0.17
26 4 0.06
27 12 0.19
28 16 0.25
29 11 0.17
30 6 0.09
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (28 bp):
TATAAATATATATTTATATATAATTAAT
Found at i:6180747 original size:2 final size:2
Alignment explanation
Indices: 6180740--6180764 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6180730 ATGTTTAATC
6180740 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 T
6180765 TTTTTTTTTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6181143 original size:23 final size:23
Alignment explanation
Indices: 6181117--6181170 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
6181107 TGGTTATGAC
*
6181117 TTATTTATTGA-TCATAAATATAT
1 TTATTTATT-ATTCATAAACATAT
*
6181140 TTATTTATTATTTATAAACATAT
1 TTATTTATTATTCATAAACATAT
6181163 TTATTTAT
1 TTATTTAT
6181171 ATATATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 1 0.04
23 27 0.96
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (23 bp):
TTATTTATTATTCATAAACATAT
Found at i:6181203 original size:23 final size:23
Alignment explanation
Indices: 6181177--6181223 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
6181167 TTATATATAT
6181177 ATATTTATAAA-AATATTCGTTTA
1 ATATTTATAAATAA-ATTCGTTTA
6181200 ATATTTATAAATAAATTCGTTTA
1 ATATTTATAAATAAATTCGTTTA
6181223 A
1 A
6181224 ATTAAACGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (23 bp):
ATATTTATAAATAAATTCGTTTA
Found at i:6183274 original size:61 final size:61
Alignment explanation
Indices: 6183170--6183288 Score: 159
Period size: 61 Copynumber: 2.0 Consensus size: 61
6183160 AACATGATAC
* ** *
6183170 AAATTGTTAGGTTCAAGTCTAACAGTCAGAAAATAAGTTCCACAACATCAGCACAATCTGA
1 AAATTGTTAGATTCAAGTCTAACAAACAGAAAATAAGTACCACAACATCAGCACAATCTGA
* * *
6183231 AAATTGTTAGATTCAAGTCTAACAAACAGAAAATTTA-TACCACAATATTAGCACAATC
1 AAATTGTTAGATTCAAGTCTAACAAACAGAAAA-TAAGTACCACAACATCAGCACAATC
6183289 AGCTATACAA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
61 48 0.96
62 2 0.04
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (61 bp):
AAATTGTTAGATTCAAGTCTAACAAACAGAAAATAAGTACCACAACATCAGCACAATCTGA
Found at i:6186595 original size:3 final size:3
Alignment explanation
Indices: 6186587--6186624 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
6186577 CCATTAAGGA
6186587 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6186625 AAAAAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6189268 original size:11 final size:11
Alignment explanation
Indices: 6189254--6189294 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
6189244 AAATTTTGAA
*
6189254 TTATATTGTTT
1 TTATATTATTT
6189265 TTATATATATTT
1 TTATAT-TATTT
6189277 TATATATTATTT
1 T-TATATTATTT
6189289 TTATAT
1 TTATAT
6189295 CATATTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 11 0.41
12 11 0.41
13 5 0.19
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (11 bp):
TTATATTATTT
Found at i:6189289 original size:24 final size:25
Alignment explanation
Indices: 6189255--6189301 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
6189245 AATTTTGAAT
*
6189255 TATATTGTTTTTATAT-ATATTTTA
1 TATATTATTTTTATATCATATTTTA
6189279 TATATTATTTTTATATCATATTT
1 TATATTATTTTTATATCATATTT
6189302 AAAACTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (25 bp):
TATATTATTTTTATATCATATTTTA
Found at i:6189300 original size:13 final size:12
Alignment explanation
Indices: 6189262--6189301 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
6189252 AATTATATTG
6189262 TTTTTATATATA
1 TTTTTATATATA
6189274 -TTTTATATATTA
1 TTTTTATATA-TA
6189286 TTTTTATATCATA
1 TTTTTATAT-ATA
6189299 TTT
1 TTT
6189302 AAAACTATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 9 0.36
12 2 0.08
13 13 0.52
14 1 0.04
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTTATATATA
Found at i:6205647 original size:2 final size:2
Alignment explanation
Indices: 6205642--6205676 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6205632 TGTGTGTGTA
6205642 AG AG AG 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 AG AG AG A
6205677 AACTTACAAT
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:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6207437 original size:14 final size:13
Alignment explanation
Indices: 6207412--6207438 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6207402 TAATTTCATG
6207412 AAAAATAATTTTT
1 AAAAATAATTTTT
6207425 AAAAATAATTTTT
1 AAAAATAATTTTT
6207438 A
1 A
6207439 TATTTTCAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAAAATAATTTTT
Found at i:6207768 original size:25 final size:23
Alignment explanation
Indices: 6207724--6207790 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 23
6207714 TTAATTTTAC
* *
6207724 TTAAAA-A-TTTAAAATATTAAT
1 TTAAAATATTTTAATATTTTAAT
6207745 ATTAAAAATATTTTAATATTTTAAT
1 -TT-AAAATATTTTAATATTTTAAT
*
6207770 TTTAAATATTTT-ATAATTTTA
1 TTAAAATATTTTAAT-ATTTTA
6207791 CTCAAGTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
22 4 0.11
23 19 0.50
24 3 0.08
25 12 0.32
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TTAAAATATTTTAATATTTTAAT
Found at i:6207773 original size:14 final size:15
Alignment explanation
Indices: 6207754--6207782 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6207744 TATTAAAAAT
6207754 ATTTT-AATATTTTA
1 ATTTTAAATATTTTA
6207768 ATTTTAAATATTTTA
1 ATTTTAAATATTTTA
6207783 TAATTTTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTTTAAATATTTTA
Found at i:6208332 original size:20 final size:20
Alignment explanation
Indices: 6208303--6208341 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6208293 TTTTAATATT
6208303 AATAAAAATAATATTTTAAG
1 AATAAAAATAATATTTTAAG
* *
6208323 AATAACAATACTATTTTAA
1 AATAAAAATAATATTTTAA
6208342 ATATTTTAAA
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:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (20 bp):
AATAAAAATAATATTTTAAG
Found at i:6208369 original size:42 final size:42
Alignment explanation
Indices: 6208288--6208372 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 42
6208278 CAATAAATAT
* * *
6208288 TACTATTTTAATATTAATAAAAATAATATTTTAAGAATAACAA
1 TACTATTTTAATATT-ATAAAAATAATAATATAAAAATAACAA
* *
6208331 TACTATTTTAAATATT-TTAAAATATTAATATAAAAATAACAA
1 TACTATTTT-AATATTATAAAAATAATAATATAAAAATAACAA
6208373 ATAGTTTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
42 21 0.58
43 9 0.25
44 6 0.17
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (42 bp):
TACTATTTTAATATTATAAAAATAATAATATAAAAATAACAA
Found at i:6208491 original size:25 final size:27
Alignment explanation
Indices: 6208448--6208510 Score: 78
Period size: 25 Copynumber: 2.4 Consensus size: 27
6208438 TAATTATTTT
* * *
6208448 TAAATATTAATA-GTTTTAATGAT-AA
1 TAAATTTTAATATATTTTAATAATAAA
6208473 T-AATTTTAATATATTTTAATAATAAA
1 TAAATTTTAATATATTTTAATAATAAA
6208499 TAAATTTTAATA
1 TAAATTTTAATA
6208511 GTTTAATAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 9 0.28
25 10 0.31
26 3 0.09
27 10 0.31
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (27 bp):
TAAATTTTAATATATTTTAATAATAAA
Found at i:6208515 original size:25 final size:24
Alignment explanation
Indices: 6208448--6208518 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 24
6208438 TAATTATTTT
* *
6208448 TAAATATTAATAGTTTTAATGATAA
1 TAAATTTTAATAG-TTTAATAATAA
*
6208473 T-AATTTTAATATATTTTAATAATAAA
1 TAAATTTT-A-ATAGTTTAATAAT-AA
6208499 TAAATTTTAATAGTTTAATA
1 TAAATTTTAATAGTTTAATA
6208519 GTTATATTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
24 5 0.13
25 20 0.53
26 7 0.18
27 6 0.16
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
TAAATTTTAATAGTTTAATAATAA
Found at i:6209807 original size:27 final size:27
Alignment explanation
Indices: 6209755--6209807 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
6209745 CCAAAATTCA
* * *
6209755 AAAAAATAAAAAATGAAAATTGTTTTT
1 AAAAAATAAAAAATAAAAAATATTTTT
6209782 AAAAAAT-AAAAATAAAAAAATATTTT
1 AAAAAATAAAAAAT-AAAAAATATTTT
6209808 GTATTACCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (27 bp):
AAAAAATAAAAAATAAAAAATATTTTT
Found at i:6210889 original size:18 final size:18
Alignment explanation
Indices: 6210860--6210895 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
6210850 AAATATTACA
6210860 TTAAATATTTTACTATAAT
1 TTAAATATTTTAC-ATAAT
6210879 TTAAA-ATTTTACATAAT
1 TTAAATATTTTACATAAT
6210896 ATGTTCCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 7 0.41
19 5 0.29
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAAATATTTTACATAAT
Found at i:6213824 original size:2 final size:2
Alignment explanation
Indices: 6213817--6213857 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
6213807 TCTGCCTTTC
6213817 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6213858 CTGATTCATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6222508 original size:20 final size:20
Alignment explanation
Indices: 6222485--6222539 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
6222475 AAATTTATCT
*
6222485 TAATAAATAATTTTTTATAA
1 TAATAAATAATTTTTAATAA
**
6222505 TAATATAATAA-TAATAATAA
1 TAATA-AATAATTTTTAATAA
6222525 TAATAATATAATTTT
1 TAATAA-ATAATTTT
6222540 AATTTTGATA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
19 1 0.04
20 20 0.74
21 6 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAATAAATAATTTTTAATAA
Found at i:6222509 original size:3 final size:3
Alignment explanation
Indices: 6222501--6222536 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
6222491 ATAATTTTTT
6222501 ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA AT- ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
6222537 TTTAATTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:6222542 original size:17 final size:17
Alignment explanation
Indices: 6222501--6222536 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
6222491 ATAATTTTTT
6222501 ATAATAAT-ATAATAATA
1 ATAATAATAATAAT-ATA
6222518 ATAATAATAATAATATA
1 ATAATAATAATAATATA
6222535 AT
1 AT
6222537 TTTAATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATAATAATAATAATATA
Found at i:6222678 original size:21 final size:21
Alignment explanation
Indices: 6222654--6222708 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
6222644 TTGATAACTT
* *
6222654 ATTTTAGTAATTATTGATAAA
1 ATTTTAATAATTATTAATAAA
* *
6222675 ATTTTAATAATTTTTAATATA
1 ATTTTAATAATTATTAATAAA
6222696 ATTTTAATAATTA
1 ATTTTAATAATTA
6222709 ACTTTTTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (21 bp):
ATTTTAATAATTATTAATAAA
Found at i:6222832 original size:130 final size:130
Alignment explanation
Indices: 6222677--6222939 Score: 445
Period size: 130 Copynumber: 2.0 Consensus size: 130
6222667 TTGATAAAAT
* * * *
6222677 TTTAATAATTTTTAATATAATTTTAATAATTAACTTTTTAAAAATTTATAATTTTTTTTTAATAA
1 TTTAATAATTTTTAATAAAATTTTAATAATTAACCTTTAAAAAATTTATAATGTTTTTTTAATAA
* *
6222742 TCATTGATAAAATTTATGTCATTATATATTTAATAAAAGATTTTTGTAAAAATATACAGATTTAA
66 TCATTGATAAAATTTATGTCATTATATATTTAATAAAAGATTCTCGTAAAAATATACAGATTTAA
* *
6222807 TTTAATAATTTTTTATAAAATTTTAATAATTAACCTTTAAAAAATTTATGATGTTTTTTTAATAA
1 TTTAATAATTTTTAATAAAATTTTAATAATTAACCTTTAAAAAATTTATAATGTTTTTTTAATAA
*
6222872 TCATTGATAAAATTTATGTCATTATATATTTAATAAAAGATTCTCGTAAAAATGTACAGATTTAA
66 TCATTGATAAAATTTATGTCATTATATATTTAATAAAAGATTCTCGTAAAAATATACAGATTTAA
6222937 TTT
1 TTT
6222940 TTGTATAAAA
Statistics
Matches: 124, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 124 1.00
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (130 bp):
TTTAATAATTTTTAATAAAATTTTAATAATTAACCTTTAAAAAATTTATAATGTTTTTTTAATAA
TCATTGATAAAATTTATGTCATTATATATTTAATAAAAGATTCTCGTAAAAATATACAGATTTAA
Found at i:6222969 original size:18 final size:16
Alignment explanation
Indices: 6222934--6222968 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6222924 TGTACAGATT
*
6222934 TAATTTTTGTATAAAA
1 TAATTTTTTTATAAAA
6222950 TAATTTTTTTAT-AAA
1 TAATTTTTTTATAAAA
6222965 TAAT
1 TAAT
6222969 ATTATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
TAATTTTTTTATAAAA
Found at i:6223180 original size:22 final size:22
Alignment explanation
Indices: 6223141--6223194 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
6223131 ATTATTGATA
**
6223141 ATTAAGTTATTATTGATTTACT
1 ATTAAGTTATTAACGATTTACT
* *
6223163 ATTATGTTATTAACGATTTATT
1 ATTAAGTTATTAACGATTTACT
*
6223185 ACTAAGTTAT
1 ATTAAGTTAT
6223195 CAATGATATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (22 bp):
ATTAAGTTATTAACGATTTACT
Found at i:6223226 original size:44 final size:44
Alignment explanation
Indices: 6223191--6223521 Score: 175
Period size: 44 Copynumber: 7.4 Consensus size: 44
6223181 TATTACTAAG
*
6223191 TTATCAATGATATATTACTAAATTATCAATAATTTACTATTAAA
1 TTATCAATGATTTATTACTAAATTATCAATAATTTACTATTAAA
* * * * * * *
6223235 TTAACATTGATTTACTACTAATTTATAAATGATTTACTACTAAA
1 TTATCAATGATTTATTACTAAATTATCAATAATTTACTATTAAA
* * * * ** *
6223279 TTATAAATAATTTATTTCTAAATTGTTGATAA-TTACTATTAAG
1 TTATCAATGATTTATTACTAAATTATCAATAATTTACTATTAAA
** * * * * *
6223322 TTATTGATTATTTGTTA-TAAAATTAT-AATTGATTTACCATTAAT
1 TTATCAATGATTTATTACT-AAATTATCAA-TAATTTACTATTAAA
* *
6223366 TTATCAATGATTTATTACAAAATTATCAATAATTAACTAATTTACTACAAA
1 TTATCAATGATTTATTACTAAATTATCAATAATTTACT-A--T--T--AAA
* * * * * * * * * *
6223417 TTATCACTAAATTGTAATTAAATTATTAGTGATTTACTACTAAA
1 TTATCAATGATTTATTACTAAATTATCAATAATTTACTATTAAA
* * * * * *
6223461 TTATTAATAATTTA-CATCTAAATTATTAATAATTTATTATTACA
1 TTATCAATGATTTATTA-CTAAATTATCAATAATTTACTATTAAA
*
6223505 TTATCATTGATTTATTA
1 TTATCAATGATTTATTA
6223522 TTTACTTTTC
Statistics
Matches: 206, Mismatches: 67, Indels: 27
0.69 0.22 0.09
Matches are distributed among these distances:
42 2 0.01
43 30 0.15
44 137 0.67
45 4 0.02
46 1 0.00
47 1 0.00
49 1 0.00
50 1 0.00
51 29 0.14
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.46
Consensus pattern (44 bp):
TTATCAATGATTTATTACTAAATTATCAATAATTTACTATTAAA
Found at i:6223227 original size:66 final size:66
Alignment explanation
Indices: 6223156--6223292 Score: 166
Period size: 66 Copynumber: 2.1 Consensus size: 66
6223146 GTTATTATTG
** ** * * * *
6223156 ATTTACTATTATGTTATTAACGATTTATTACTAAGTTATCAATGATATATTACTAAATTATCAAT
1 ATTTACTATTAAATTAACAACGATTTACTACTAAGTTATAAATGATATACTACTAAATTATAAAT
6223221 A
66 A
** * *
6223222 ATTTACTATTAAATTAACATTGATTTACTACTAATTTATAAATGATTTACTACTAAATTATAAAT
1 ATTTACTATTAAATTAACAACGATTTACTACTAAGTTATAAATGATATACTACTAAATTATAAAT
6223287 A
66 A
6223288 ATTTA
1 ATTTA
6223293 TTTCTAAATT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (66 bp):
ATTTACTATTAAATTAACAACGATTTACTACTAAGTTATAAATGATATACTACTAAATTATAAAT
A
Found at i:6223234 original size:22 final size:22
Alignment explanation
Indices: 6223191--6223802 Score: 136
Period size: 22 Copynumber: 27.4 Consensus size: 22
6223181 TATTACTAAG
* * * *
6223191 TTATCAATGATATATTACTAAA
1 TTATCAATAATTTACTATTAAA
6223213 TTATCAATAATTTACTATTAAA
1 TTATCAATAATTTACTATTAAA
* * * * *
6223235 TTAACATTGATTTACTACTAAT
1 TTATCAATAATTTACTATTAAA
* * *
6223257 TTATAAATGATTTACTACTAAA
1 TTATCAATAATTTACTATTAAA
* *
6223279 TTATAAATAATTTA-TTTCTAAA
1 TTATCAATAATTTACTAT-TAAA
* ** *
6223301 TTGTTGATAA-TTACTATTAAG
1 TTATCAATAATTTACTATTAAA
** * ** *
6223322 TTATTGATTATTTGTTATAAAA
1 TTATCAATAATTTACTATTAAA
* * *
6223344 TTAT-AATTGATTTACCATTAAT
1 TTATCAA-TAATTTACTATTAAA
* * **
6223366 TTATCAATGATTTATTACAAAA
1 TTATCAATAATTTACTATTAAA
*
6223388 TTATCAATAATTAACTAATTTACTACAAA
1 TTATCAATAATTTACT-A--T--T--AAA
* * *
6223417 TTATCACTAAATT-GTAATTAAA
1 TTATCAATAATTTACT-ATTAAA
* * * *
6223439 TTATTAGTGATTTACTACTAAA
1 TTATCAATAATTTACTATTAAA
*
6223461 TTATTAATAATTTAC-ATCTAAA
1 TTATCAATAATTTACTAT-TAAA
* * *
6223483 TTATTAATAATTTATTATTACA
1 TTATCAATAATTTACTATTAAA
* **
6223505 TTATCATTGATTTATTATTTACTTTTCCA
1 TTATCA---A--TA--ATTTACTATTAAA
** * *
6223534 TTATCACAAATTTATTACTAAA
1 TTATCAATAATTTACTATTAAA
* * * * *
6223556 GTAATC-ATGATTTATTATCAAG
1 -TTATCAATAATTTACTATTAAA
*
6223578 TTATCATTAATTTA-TATTAAA
1 TTATCAATAATTTACTATTAAA
* * *
6223599 TTATCCATAATTTACTGTTAAG
1 TTATCAATAATTTACTATTAAA
* * * *
6223621 TTAT--TTAA-CTATTATTAAG
1 TTATCAATAATTTACTATTAAA
** * *
6223640 TTAT-GTTGATTTACTTTTAAA
1 TTATCAATAATTTACTATTAAA
* * *
6223661 TT-TCTAATGATTAACTACTAAA
1 TTATC-AATAATTTACTATTAAA
* * *
6223683 TTATCATTCATTTTACTACTAAA
1 TTATCAAT-AATTTACTATTAAA
** *
6223706 TTATTTATAATTTACTACTAAA
1 TTATCAATAATTTACTATTAAA
* * **
6223728 TTTATTAATTAA-TTATTGCTAAA
1 -TTATCAA-TAATTTACTATTAAA
* * * * *
6223751 CTA-AAACTGATTTATTATTAAG
1 TTATCAA-TAATTTACTATTAAA
*
6223773 TTATCACTAATTTACTATTAAA
1 TTATCAATAATTTACTATTAAA
6223795 TTATCAAT
1 TTATCAAT
6223803 TATTGATTAT
Statistics
Matches: 430, Mismatches: 125, Indels: 70
0.69 0.20 0.11
Matches are distributed among these distances:
19 12 0.03
20 7 0.02
21 51 0.12
22 275 0.64
23 44 0.10
24 5 0.01
25 1 0.00
26 1 0.00
27 2 0.00
28 3 0.01
29 29 0.07
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (22 bp):
TTATCAATAATTTACTATTAAA
Found at i:6223820 original size:22 final size:22
Alignment explanation
Indices: 6223764--6223821 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
6223754 AAACTGATTT
* * *
6223764 ATTATTAAGTTATCACTAATTT
1 ATTATAAAGTTATCAATAATTG
* *
6223786 ACTATTAAA-TTATCAATTATTG
1 ATTA-TAAAGTTATCAATAATTG
6223808 ATTATAAAGTTATC
1 ATTATAAAGTTATC
6223822 TCTTGTTATT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
21 4 0.14
22 21 0.75
23 3 0.11
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.47
Consensus pattern (22 bp):
ATTATAAAGTTATCAATAATTG
Found at i:6224184 original size:22 final size:22
Alignment explanation
Indices: 6224165--6224294 Score: 77
Period size: 22 Copynumber: 6.0 Consensus size: 22
6224155 GACAATTACA
* *
6224165 CTATAAGTTATTTATTATTAAG
1 CTATAAATGATTTATTATTAAG
* *
6224187 TTATAAATGATTTATTATTAAA
1 CTATAAATGATTTATTATTAAG
* * * *
6224209 TTATCAATAATTTATT-TCTAAT
1 CTATAAATGATTTATTAT-TAAG
* * * *
6224231 TTATTAATGATTTACTATTAAA
1 CTATAAATGATTTATTATTAAG
* * *
6224253 TTATGAATGATTTATCATTAAG
1 CTATAAATGATTTATTATTAAG
*
6224275 TTAGT-AATGATTT-TTATTAA
1 CTA-TAAATGATTTATTATTAA
6224295 ATTGTTGATA
Statistics
Matches: 89, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
21 7 0.08
22 80 0.90
23 2 0.02
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (22 bp):
CTATAAATGATTTATTATTAAG
Found at i:6224222 original size:44 final size:43
Alignment explanation
Indices: 6224174--6224320 Score: 154
Period size: 44 Copynumber: 3.4 Consensus size: 43
6224164 ACTATAAGTT
*
6224174 ATTTATTATTAAGTTATAAATGATTTATTATTAAATTATCAATA
1 ATTTATCATTAAGTTAT-AATGATTTATTATTAAATTATCAATA
* * * * *
6224218 ATTTAT-TTCTAATTTATTAATGATTTACTATTAAATTATGAATG
1 ATTTATCAT-TAAGTTA-TAATGATTTATTATTAAATTATCAATA
* **
6224262 ATTTATCATTAAGTTAGTAATGATTT-TTATTAAATTGTTGATA
1 ATTTATCATTAAGTTA-TAATGATTTATTATTAAATTATCAATA
*
6224305 ATTTATCACTAAGTTA
1 ATTTATCATTAAGTTA
6224321 CTGTTGATTT
Statistics
Matches: 86, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
43 28 0.33
44 56 0.65
45 2 0.02
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.50
Consensus pattern (43 bp):
ATTTATCATTAAGTTATAATGATTTATTATTAAATTATCAATA
Found at i:6224243 original size:11 final size:11
Alignment explanation
Indices: 6224174--6224267 Score: 53
Period size: 11 Copynumber: 8.5 Consensus size: 11
6224164 ACTATAAGTT
*
6224174 ATTTATTATTA
1 ATTTATTAATA
* * *
6224185 AGTTATAAATG
1 ATTTATTAATA
*
6224196 ATTTATTATTA
1 ATTTATTAATA
* *
6224207 AATTATCAATA
1 ATTTATTAATA
**
6224218 ATTTATTTCTA
1 ATTTATTAATA
*
6224229 ATTTATTAATG
1 ATTTATTAATA
* *
6224240 ATTTACTATTA
1 ATTTATTAATA
* * *
6224251 AATTATGAATG
1 ATTTATTAATA
6224262 ATTTAT
1 ATTTAT
6224268 CATTAAGTTA
Statistics
Matches: 56, Mismatches: 27, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
11 56 1.00
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.52
Consensus pattern (11 bp):
ATTTATTAATA
Found at i:6226723 original size:2 final size:2
Alignment explanation
Indices: 6226716--6226754 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
6226706 GAACAAAGCA
*
6226716 AT AT AT AT AG 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 AT A
6226755 ATAAGCATAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:6228133 original size:3 final size:3
Alignment explanation
Indices: 6228125--6228178 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
6228115 TTATACTAGC
6228125 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6228173 AAT AAT
1 AAT AAT
6228179 TTCAAAGAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6229474 original size:26 final size:26
Alignment explanation
Indices: 6229445--6229494 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
6229435 TATTAATGAT
* *
6229445 TATTGGATTTAATTGGTTTTATTTAA
1 TATTGAATTTAATTCGTTTTATTTAA
* *
6229471 TATTTAATTTAATTCTTTTTATTT
1 TATTGAATTTAATTCGTTTTATTT
6229495 TAAATTTTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.26, C:0.02, G:0.08, T:0.64
Consensus pattern (26 bp):
TATTGAATTTAATTCGTTTTATTTAA
Found at i:6236119 original size:43 final size:42
Alignment explanation
Indices: 6236066--6236153 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
6236056 CTTGCATTCA
* *
6236066 CATCTGCATCACAAAAAAAAGACATTCGCATTTGCATTAATTG
1 CATCTACATCA-AAAAAAAAGACATTCGCATTTGCATCAATTG
* * * *
6236109 CATCTACATCATAAAAAAATACATTCGTATTTGCATCACTTG
1 CATCTACATCAAAAAAAAAGACATTCGCATTTGCATCAATTG
6236151 CAT
1 CAT
6236154 TCGTACTTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 29 0.74
43 10 0.26
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.31
Consensus pattern (42 bp):
CATCTACATCAAAAAAAAAGACATTCGCATTTGCATCAATTG
Found at i:6236219 original size:85 final size:86
Alignment explanation
Indices: 6236109--6236338 Score: 268
Period size: 86 Copynumber: 2.7 Consensus size: 86
6236099 GCATTAATTG
* * * * *
6236109 CATCTACATCATAAAAAAATACATTCGTATTTGCATCACTTGCATTCGTACTTTCATGTATG-TA
1 CATCTGCATCACAAAAAAAGACATTCATATTTGCATCACTTGCATTCGTACTTGCATGT-TGATA
6236173 ATAAAAAAAACATTTACATTCA
65 ATAAAAAAAACATTTACATTCA
* * * * ** *
6236195 TATCTGTATCAC-AAAAAGGACATTCATATTTGCATCACTTGTATTCACACTTGCATG-TGATCA
1 CATCTGCATCACAAAAAAAGACATTCATATTTGCATCACTTGCATTCGTACTTGCATGTTGATAA
* * *
6236258 TGAGAAAAATATTTACATTCA
66 TAAAAAAAACATTTACATTCA
**
6236279 CATCTGCATCACAAAAAAAAGACATTCATATTTGCATCACTCACATTCGTACTTGCATGT
1 CATCTGCATCAC-AAAAAAAGACATTCATATTTGCATCACTTGCATTCGTACTTGCATGT
6236339 GTATCATGAG
Statistics
Matches: 117, Mismatches: 23, Indels: 7
0.80 0.16 0.05
Matches are distributed among these distances:
83 2 0.02
84 30 0.26
85 38 0.32
86 47 0.40
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (86 bp):
CATCTGCATCACAAAAAAAGACATTCATATTTGCATCACTTGCATTCGTACTTGCATGTTGATAA
TAAAAAAAACATTTACATTCA
Found at i:6236319 original size:86 final size:85
Alignment explanation
Indices: 6236121--6236405 Score: 292
Period size: 84 Copynumber: 3.4 Consensus size: 85
6236111 TCTACATCAT
* * * * * * *
6236121 AAAAAAATACATTCGTATTTGCATCACTTGCATTCGTACTTTCATGT-ATGTAATAAAAAAAACA
1 AAAAAAAGACATTCATATTTGCATCACTTACATTCGTACTTGCATGTGA--TCATGAGAAAAACA
*
6236185 TTTACATTCATATCTGTATCAC-
64 TTTACATTCACATCTG-ATCACA
* ** ** *
6236207 -AAAAAGGACATTCATATTTGCATCACTTGTATTCACACTTGCATGTGATCATGAGAAAAATATT
1 AAAAAAAGACATTCATATTTGCATCACTTACATTCGTACTTGCATGTGATCATGAGAAAAACATT
6236271 TACATTCACATCTGCATCACA
66 TACATTCACATCTG-ATCACA
* *
6236292 AAAAAAAGACATTCATATTTGCATCACTCACATTCGTACTTGCATGTGTATCATGAGAAAGACAT
1 AAAAAAAGACATTCATATTTGCATCACTTACATTCGTACTTGCATGTG-ATCATGAGAAAAACAT
* *
6236357 TTGCATTCACAT-T-ATCATA
65 TTACATTCACATCTGATCACA
* ** *
6236376 AAAAAAAGATATTTGTATTTGCATCGCTTA
1 AAAAAAAGACATTCATATTTGCATCACTTA
6236406 TATTTGCATT
Statistics
Matches: 167, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
84 60 0.36
85 39 0.23
86 43 0.26
87 25 0.15
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.34
Consensus pattern (85 bp):
AAAAAAAGACATTCATATTTGCATCACTTACATTCGTACTTGCATGTGATCATGAGAAAAACATT
TACATTCACATCTGATCACA
Found at i:6237354 original size:106 final size:106
Alignment explanation
Indices: 6236893--6237353 Score: 538
Period size: 107 Copynumber: 4.4 Consensus size: 106
6236883 GATGATTTTG
* * *
6236893 AAGACTTCCAAGCACAATCTTTAAGACCTCTGGGTAAAACATTTTAAATTTTTAAAGTTTTAACG
1 AAGACTTCCAAGCACAATCTTTAAGACCTCTGAGTAAAACATTTTAAATTTTTAAAGTTTCAATG
* *
6236958 CCTCTAATGTATGA-GA-AATTCAAAGATGTTGAAATCCTT
66 CCTCTAATGTATGAGGAGCATTCAAAGATTTTGAAATCCTT
* * * * *
6236997 AAGACTTCCAAGCATAATTTTTAAGACCTCTGAGTGAGACATTTTAAA-TTTTCAAGTTTCAATG
1 AAGACTTCCAAGCACAATCTTTAAGACCTCTGAGTAAAACATTTTAAATTTTTAAAGTTTCAATG
* *
6237061 CTTCTAATGTTTGAGGAGCATTCAAAGATTTTGAAATCCTT
66 CCTCTAATGTATGAGGAGCATTCAAAGATTTTGAAATCCTT
* * * ** * * *
6237102 AAAATTTACGGGCACAATCTTTAAGACCTTTGGGTAAAAAATTTTAAATTTTTAAAAGTTTCAAT
1 AAGACTTCCAAGCACAATCTTTAAGACCTCTGAGTAAAACATTTTAAATTTTT-AAAGTTTCAAT
6237167 GCCTCTAATGTATGAGGAGCATTCAAAGATTTTGAAATCCTT
65 GCCTCTAATGTATGAGGAGCATTCAAAGATTTTGAAATCCTT
* * * * * * * *
6237209 AAGACCT-CTAGACACAATTTTTAAGACTTATGAGCAAAATATTTTAAATTTTTAAAGTTTTAAT
1 AAGACTTCCAAG-CACAATCTTTAAGACCTCTGAGTAAAACATTTTAAATTTTTAAAGTTTCAAT
* * *
6237273 ACCTCTAATGTATGAGGAGCATTCAAAGATTTTGAGAT-TTGT
65 GCCTCTAATGTATGAGGAGCATTCAAAGATTTTGAAATCCT-T
* * *
6237315 AAGATCTT-CAAGCATAATCTCTAAGACCTCTGAGCAAAA
1 AAGA-CTTCCAAGCACAATCTTTAAGACCTCTGAGTAAAA
6237354 TCCTTAAGAC
Statistics
Matches: 301, Mismatches: 49, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
103 25 0.08
104 45 0.15
105 58 0.19
106 79 0.26
107 94 0.31
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (106 bp):
AAGACTTCCAAGCACAATCTTTAAGACCTCTGAGTAAAACATTTTAAATTTTTAAAGTTTCAATG
CCTCTAATGTATGAGGAGCATTCAAAGATTTTGAAATCCTT
Found at i:6240328 original size:52 final size:52
Alignment explanation
Indices: 6240271--6240415 Score: 161
Period size: 52 Copynumber: 2.8 Consensus size: 52
6240261 ACCGTAATTA
**
6240271 AGAGATTTTTAGGATTTAATTTCAGAATCAATTGGCATTAAAAATAAT-GTAG
1 AGAGATTTTTAGGATTTAATTTCAGAATCAATTCACATTAAAAATAATAG-AG
* * * * * *
6240323 AGAGATTGTTAGGATTTAATTCCATAATCAATTCACATT-AAATTGATAGGG
1 AGAGATTTTTAGGATTTAATTTCAGAATCAATTCACATTAAAAATAATAGAG
* * *
6240374 AGAGA-TTTTGGGATTTAATTTTAGAATCAATTCTCATTAAAA
1 AGAGATTTTTAGGATTTAATTTCAGAATCAATTCACATTAAAA
6240416 TGAAAATCAA
Statistics
Matches: 77, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
50 27 0.35
51 15 0.19
52 35 0.45
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.37
Consensus pattern (52 bp):
AGAGATTTTTAGGATTTAATTTCAGAATCAATTCACATTAAAAATAATAGAG
Found at i:6240922 original size:19 final size:18
Alignment explanation
Indices: 6240900--6240940 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
6240890 TTCCACTTCA
6240900 TTTTC-TATTTTGATTCTAT
1 TTTTCTTATTTTG-TT-TAT
6240919 TTTTCTTATTTTGTTTAT
1 TTTTCTTATTTTGTTTAT
6240937 TTTT
1 TTTT
6240941 ATTTACTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.33
19 7 0.33
20 7 0.33
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTTCTTATTTTGTTTAT
Found at i:6246212 original size:65 final size:65
Alignment explanation
Indices: 6246095--6246246 Score: 187
Period size: 65 Copynumber: 2.3 Consensus size: 65
6246085 CTCAATCAAA
* ** ** ** *
6246095 TCATTATTATGACTTGTGATTTCATTTTGGTCATTTATTTTTTACCTCGACTCGATCTTGGTCAC
1 TCATT-TTTTGACTTGTGATTTCATCCTGACCATTTATTTTCAACCTCGACTCGATCCTGGTCAC
6246160 C
65 C
* * *
6246161 TCATTTTTTGACTTGTGATTTCATCCTGACCATTTATTTTCAACCTTGACTCGGTCCTGGTCACT
1 TCATTTTTTGACTTGTGATTTCATCCTGACCATTTATTTTCAACCTCGACTCGATCCTGGTCACC
*
6246226 TCATTTTTTGACTCGTGATTT
1 TCATTTTTTGACTTGTGATTT
6246247 TATCTTGGTC
Statistics
Matches: 74, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
65 69 0.93
66 5 0.07
ACGTcount: A:0.17, C:0.21, G:0.14, T:0.48
Consensus pattern (65 bp):
TCATTTTTTGACTTGTGATTTCATCCTGACCATTTATTTTCAACCTCGACTCGATCCTGGTCACC
Found at i:6246545 original size:86 final size:86
Alignment explanation
Indices: 6246404--6246614 Score: 269
Period size: 86 Copynumber: 2.5 Consensus size: 86
6246394 TGTCTTTCTG
* * * *
6246404 AATCTAGAACCTTTACAAAACTTGAAATCTTACGAATTTGTCTTTATTGCGAATCTAAAAGTCTC
1 AATCTAGAACCTTTACAAAACTTGAAATCTTGCGAATCTATCTTTATTGCAAATCTAAAAGTCTC
* *
6246469 TATGAATTTGAAATCTTTGCA
66 TATGAACTTGAAATCTTTACA
* * * * * * *
6246490 AATTTATAACCTTCACATAACTTGAAATCTTGCGAATCTATTTTTCTTGCAAATCTCAAAGTCTC
1 AATCTAGAACCTTTACAAAACTTGAAATCTTGCGAATCTATCTTTATTGCAAATCTAAAAGTCTC
* *
6246555 TATGAACTTGGAATCTTTACG
66 TATGAACTTGAAATCTTTACA
* *
6246576 AATCTAGAACCTTTGCAAAACTTAAAATCTTGCGAATCT
1 AATCTAGAACCTTTACAAAACTTGAAATCTTGCGAATCT
6246615 TTTCTTACGA
Statistics
Matches: 104, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
86 104 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (86 bp):
AATCTAGAACCTTTACAAAACTTGAAATCTTGCGAATCTATCTTTATTGCAAATCTAAAAGTCTC
TATGAACTTGAAATCTTTACA
Found at i:6246658 original size:83 final size:84
Alignment explanation
Indices: 6246403--6246670 Score: 243
Period size: 86 Copynumber: 3.2 Consensus size: 84
6246393 TTGTCTTTCT
* * * * * * * *
6246403 GAATCTAGAACCTTTACAAAACTTGAAATCTTACGAATTTGTCTTTATTGCGAATCTAAAAGTCT
1 GAATCTAGAACCTTTGCAAAACTTAAAATCTTGCGAATCT-T-TTTCTTACAAATCTCAAAGTCT
* * *
6246468 CTATGAA-TTTGAAATCTTTGC
64 CTATGAACCTAG-AATCTTTAC
* * * ** * * *
6246489 AAATTTATAACCTTCACATAACTTGAAATCTTGCGAATCTATTTTTCTTGCAAATCTCAAAGTCT
1 GAATCTAGAACCTTTGCAAAACTTAAAATCTTGCGAATC--TTTTTCTTACAAATCTCAAAGTCT
* *
6246554 CTATGAACTTGGAATCTTTAC
64 CTATGAACCTAGAATCTTTAC
* * * *
6246575 GAATCTAGAACCTTTGCAAAACTTAAAATCTTGCGAATC-TTTTCTTACGAATTTGAAAGTCTTT
1 GAATCTAGAACCTTTGCAAAACTTAAAATCTTGCGAATCTTTTTCTTACAAATCTCAAAGTCTCT
*
6246639 GTGAACCTAGAATCTTTAC
66 ATGAACCTAGAATCTTTAC
6246658 GAATCTAGAACCT
1 GAATCTAGAACCT
6246671 CTATGAATCT
Statistics
Matches: 152, Mismatches: 27, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
83 49 0.32
86 98 0.64
87 4 0.03
88 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (84 bp):
GAATCTAGAACCTTTGCAAAACTTAAAATCTTGCGAATCTTTTTCTTACAAATCTCAAAGTCTCT
ATGAACCTAGAATCTTTAC
Found at i:6247242 original size:52 final size:50
Alignment explanation
Indices: 6247185--6247316 Score: 149
Period size: 50 Copynumber: 2.6 Consensus size: 50
6247175 TATTTTTGGA
** *
6247185 ATTTAATTCCAGAATCAATTGGCATTAGAAATGAT-GTGGAGAGATTGTCAGG
1 ATTTAATTCCAGAATCAATTCACATTA-AAATGATAG-GGACAGATT-TCAGG
* * *
6247237 ATTTAATTCCATAATCAATTCACATTAAATTGATAGGGACAGATTTTAGG
1 ATTTAATTCCAGAATCAATTCACATTAAAATGATAGGGACAGATTTCAGG
* * *
6247287 ATTTGATTTCAGAATCAATTCCCATTAAAA
1 ATTTAATTCCAGAATCAATTCACATTAAAA
6247317 CAGAAATCAA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
50 29 0.43
51 14 0.21
52 25 0.37
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (50 bp):
ATTTAATTCCAGAATCAATTCACATTAAAATGATAGGGACAGATTTCAGG
Found at i:6251061 original size:22 final size:22
Alignment explanation
Indices: 6251009--6251091 Score: 94
Period size: 22 Copynumber: 3.7 Consensus size: 22
6250999 TGATTAACTA
*
6251009 ATTTACTATTAAATTATCAATG
1 ATTTACTATTATATTATCAATG
* * *
6251031 TAATTTACTATTGTATTATTAGTG
1 --ATTTACTATTATATTATCAATG
* *
6251055 ATTTACTACTAAATTATCAATG
1 ATTTACTATTATATTATCAATG
6251077 ATTTACTATTATATT
1 ATTTACTATTATATT
6251092 TTTATATATG
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
22 30 0.62
24 18 0.38
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.49
Consensus pattern (22 bp):
ATTTACTATTATATTATCAATG
Found at i:6251106 original size:44 final size:44
Alignment explanation
Indices: 6251009--6251203 Score: 141
Period size: 44 Copynumber: 4.4 Consensus size: 44
6250999 TGATTAACTA
* * * *
6251009 ATTTACTATTAAATTATCAATGTAATTTACTATTGTATTATTAGT-G
1 ATTTACTACTAAATTATCAATG--ATTTACTATTATATTTTTA-TAT
6251055 ATTTACTACTAAATTATCAATGATTTACTATTATATTTTTATAT
1 ATTTACTACTAAATTATCAATGATTTACTATTATATTTTTATAT
* * ** * * *
6251099 ATGTACTATTATGTTGTCATTGATTTATTACTTA-ATTTTTGAT-T
1 ATTTACTACTAAATTATCAATGATTTACTA-TTATATTTTT-ATAT
* * * *
6251143 ATTTACTA-TAAAATTATC-ATCGATTTACCACTAAATTATCTATA-
1 ATTTACTACT-AAATTATCAAT-GATTTACTATTATATT-TTTATAT
6251187 ATTTACTACTAAATTAT
1 ATTTACTACTAAATTAT
6251204 TACTTATTTA
Statistics
Matches: 120, Mismatches: 20, Indels: 20
0.75 0.12 0.12
Matches are distributed among these distances:
43 5 0.04
44 86 0.72
45 8 0.07
46 21 0.17
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.50
Consensus pattern (44 bp):
ATTTACTACTAAATTATCAATGATTTACTATTATATTTTTATAT
Found at i:6251213 original size:22 final size:22
Alignment explanation
Indices: 6251007--6251203 Score: 73
Period size: 22 Copynumber: 8.9 Consensus size: 22
6250997 AATGATTAAC
* *
6251007 TAATTTACTATTAAATTATCAATG
1 TAATTTACTACTAAATTATC--TA
* **
6251031 TAATTTACTATTGTATTAT-TA
1 TAATTTACTACTAAATTATCTA
* *
6251052 GTGATTTACTACTAAATTATCAA
1 -TAATTTACTACTAAATTATCTA
* * * *
6251075 TGATTTACTATTATATT-TTTA
1 TAATTTACTACTAAATTATCTA
* * ** *
6251096 TATATGTACTATTATGTTGTC-A
1 TA-ATTTACTACTAAATTATCTA
* * * *
6251118 TTGATTTATTACTTAATT-TTTGA
1 -TAATTTACTACTAAATTATCT-A
*
6251141 TTATTTACTA-TAAAATTATC-A
1 TAATTTACTACT-AAATTATCTA
* *
6251162 TCGATTTACCACTAAATTATCTA
1 T-AATTTACTACTAAATTATCTA
6251185 TAATTTACTACTAAATTAT
1 TAATTTACTACTAAATTAT
6251204 TACTTATTTA
Statistics
Matches: 129, Mismatches: 32, Indels: 26
0.69 0.17 0.14
Matches are distributed among these distances:
21 8 0.06
22 96 0.74
23 8 0.06
24 17 0.13
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.50
Consensus pattern (22 bp):
TAATTTACTACTAAATTATCTA
Found at i:6251254 original size:22 final size:22
Alignment explanation
Indices: 6251229--6251285 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 22
6251219 AATCATGCAC
*
6251229 GATTTATTATTAAGTTAT-TACT
1 GATTTATTATTAAGTTATCGA-T
* * *
6251251 GATTAACTATTATGTTATCGAT
1 GATTTATTATTAAGTTATCGAT
*
6251273 AATTTATTATTAA
1 GATTTATTATTAA
6251286 AATTTTAACG
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.51
Consensus pattern (22 bp):
GATTTATTATTAAGTTATCGAT
Found at i:6251313 original size:44 final size:44
Alignment explanation
Indices: 6251172--6251313 Score: 112
Period size: 44 Copynumber: 3.2 Consensus size: 44
6251162 TCGATTTACC
* * * * *
6251172 ACTAAATTATCTATAATTTACTACTAAATTATTACTTATTTA-T
1 ACTAAATTATCGATAATTTATTATTAAATTATTACTGATTAACT
* * ** *
6251215 ATTAAATCAT-GCACGATTTATTATTAAGTTATTACTGATTAACT
1 ACTAAATTATCG-ATAATTTATTATTAAATTATTACTGATTAACT
* **
6251259 ATTATGTTATCGATAATTTATTATTAAAATT-TTAAC-GATTAACT
1 ACTAAATTATCGATAATTTATTATT-AAATTATT-ACTGATTAACT
6251303 ACTAAATTATC
1 ACTAAATTATC
6251314 AATTATTTTC
Statistics
Matches: 75, Mismatches: 19, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
43 31 0.41
44 37 0.49
45 7 0.09
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.46
Consensus pattern (44 bp):
ACTAAATTATCGATAATTTATTATTAAATTATTACTGATTAACT
Found at i:6251416 original size:11 final size:11
Alignment explanation
Indices: 6251400--6251450 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
6251390 ATTGAAATTG
6251400 ATTTATTATTA
1 ATTTATTATTA
*
6251411 ATTTATTA-CA
1 ATTTATTATTA
*
6251421 ATTTACTATTA
1 ATTTATTATTA
* * *
6251432 AGTTATCATTG
1 ATTTATTATTA
6251443 ATTTATTA
1 ATTTATTA
6251451 CTAAGTTATC
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
10 8 0.27
11 22 0.73
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (11 bp):
ATTTATTATTA
Found at i:6251455 original size:22 final size:22
Alignment explanation
Indices: 6251421--6251519 Score: 83
Period size: 22 Copynumber: 4.5 Consensus size: 22
6251411 ATTTATTACA
*
6251421 ATTTACTATTAAGTTATCATTG
1 ATTTACTACTAAGTTATCATTG
* * *
6251443 ATTTATTACTAAGTTATCAATA
1 ATTTACTACTAAGTTATCATTG
* *
6251465 ATTAACTACTAAATTATCACTT-
1 ATTTACTACTAAGTTATCA-TTG
** **
6251487 ATTTTTTGTTAAGTTATCATTG
1 ATTTACTACTAAGTTATCATTG
*
6251509 ATTTAGTACTA
1 ATTTACTACTA
6251520 TGCTATTATG
Statistics
Matches: 57, Mismatches: 18, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
21 2 0.04
22 54 0.95
23 1 0.02
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.48
Consensus pattern (22 bp):
ATTTACTACTAAGTTATCATTG
Found at i:6251674 original size:22 final size:22
Alignment explanation
Indices: 6251609--6251706 Score: 85
Period size: 22 Copynumber: 4.5 Consensus size: 22
6251599 TATTAAAAGA
* * *
6251609 TTATCAATTATTTACTATTAAA
1 TTATCACTAATTTACTATTAAG
* * *
6251631 TTATTATTTATTTACTATTAAG
1 TTATCACTAATTTACTATTAAG
*
6251653 TTATCACTAATTTAATATTAAG
1 TTATCACTAATTTACTATTAAG
**
6251675 CCATCGA-TAA-TTACTATTAAG
1 TTATC-ACTAATTTACTATTAAG
6251696 TTAT-ACTAATT
1 TTATCACTAATT
6251707 ACATTTAAGT
Statistics
Matches: 61, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
19 1 0.02
20 3 0.05
21 13 0.21
22 43 0.70
23 1 0.02
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.48
Consensus pattern (22 bp):
TTATCACTAATTTACTATTAAG
Found at i:6251744 original size:22 final size:21
Alignment explanation
Indices: 6251681--6251745 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 21
6251671 TAAGCCATCG
6251681 ATAATTAC-TATTAAGTTA-TA
1 ATAATTACAT-TTAAGTTATTA
* *
6251701 CTAATTACATTTAAGTTTTTA
1 ATAATTACATTTAAGTTATTA
6251722 ATAATTA-ATTACTAAGTTATTA
1 ATAATTACATT--TAAGTTATTA
6251744 AT
1 AT
6251746 TATCTATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
20 17 0.46
21 9 0.24
22 11 0.30
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.48
Consensus pattern (21 bp):
ATAATTACATTTAAGTTATTA
Found at i:6251754 original size:22 final size:22
Alignment explanation
Indices: 6251692--6251765 Score: 57
Period size: 22 Copynumber: 3.5 Consensus size: 22
6251682 TAATTACTAT
*
6251692 TAAGTTA-TACTAATTACATT--
1 TAAGTTATTAATAATTA-ATTAA
* *
6251712 TAAGTTTTTAATAATTAATTAC
1 TAAGTTATTAATAATTAATTAA
*
6251734 TAAGTTATTAATTATCT-ATTAA
1 TAAGTTATTAATAAT-TAATTAA
*
6251756 TATGTTATTA
1 TAAGTTATTA
6251766 TTGATTTGTG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
20 9 0.20
21 8 0.18
22 26 0.59
23 1 0.02
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.50
Consensus pattern (22 bp):
TAAGTTATTAATAATTAATTAA
Found at i:6253261 original size:6 final size:6
Alignment explanation
Indices: 6253250--6253365 Score: 59
Period size: 6 Copynumber: 19.3 Consensus size: 6
6253240 TAAATTACTT
* * * *
6253250 AATAAA AATAAA AA-AATC AGT-AA AAT-AA AAT-AA AATAATT AATAAT
1 AATAAA AATAAA AATAA-A AATAAA AATAAA AATAAA AATAA-A AATAAA
*
6253296 AATAATA AATTAA AATATAA AAT--A AATAAA AAT-AA AATCAAAA AATAAA
1 AATAA-A AATAAA AATA-AA AATAAA AATAAA AATAAA AAT--AAA AATAAA
6253345 AAT-AA AATCAAAA AATAAA AA
1 AATAAA AAT--AAA AATAAA AA
6253366 CCTACAATCG
Statistics
Matches: 88, Mismatches: 8, Indels: 28
0.71 0.06 0.23
Matches are distributed among these distances:
4 4 0.05
5 24 0.27
6 36 0.41
7 14 0.16
8 10 0.11
ACGTcount: A:0.75, C:0.03, G:0.01, T:0.22
Consensus pattern (6 bp):
AATAAA
Found at i:6253316 original size:33 final size:30
Alignment explanation
Indices: 6253270--6253364 Score: 86
Period size: 32 Copynumber: 3.0 Consensus size: 30
6253260 AAAAAATCAG
* *
6253270 TAAAATAAA-ATAAAATAATTAATAATAATAA
1 TAAAA-AAATATAAAATAAATAAAAATAA-AA
6253301 TAAATTAAAATATAAAATAAATAAAAATAAAA
1 TAAA--AAAATATAAAATAAATAAAAATAAAA
*
6253333 TCAAAAAATA-AAAATAAAATCAAAAAATAAAA
1 TAAAAAAATATAAAAT-AAAT--AAAAATAAAA
6253365 ACCTACAATC
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
29 5 0.09
30 10 0.18
31 4 0.07
32 18 0.33
33 18 0.33
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (30 bp):
TAAAAAAATATAAAATAAATAAAAATAAAA
Found at i:6253318 original size:13 final size:12
Alignment explanation
Indices: 6253274--6253364 Score: 73
Period size: 13 Copynumber: 7.5 Consensus size: 12
6253264 AATCAGTAAA
6253274 ATAAAATAAAAT
1 ATAAAATAAAAT
*
6253286 A-ATTAATAATAAT
1 ATA-AAATAA-AAT
*
6253299 AATAAATTAAAAT
1 -ATAAAATAAAAT
6253312 ATAAAAT-AAAT
1 ATAAAATAAAAT
6253323 A-AAAATAAAAT
1 ATAAAATAAAAT
*
6253334 CAAAAAATAAAA-
1 -ATAAAATAAAAT
*
6253346 ATAAAATCAAAAA
1 ATAAAAT-AAAAT
6253359 ATAAAA
1 ATAAAA
6253365 ACCTACAATC
Statistics
Matches: 65, Mismatches: 5, Indels: 17
0.75 0.06 0.20
Matches are distributed among these distances:
10 5 0.08
11 16 0.25
12 17 0.26
13 21 0.32
14 5 0.08
15 1 0.02
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (12 bp):
ATAAAATAAAAT
Found at i:6253328 original size:43 final size:43
Alignment explanation
Indices: 6253249--6253346 Score: 109
Period size: 43 Copynumber: 2.3 Consensus size: 43
6253239 ATAAATTACT
6253249 TAATAAAAATAAAAAAATCAGTAAAATAAAATAAAATAATTAA
1 TAATAAAAATAAAAAAATCAGTAAAATAAAATAAAATAATTAA
*
6253292 TAATAATAATAAATTAAAAT-A-TAAAAT-AAATAAAAATAA--AA
1 TAATAAAAATAAA--AAAATCAGTAAAATAAAAT-AAAATAATTAA
*
6253333 TCA-AAAAATAAAAA
1 TAATAAAAATAAAAA
6253347 TAAAATCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
38 2 0.04
40 8 0.16
41 4 0.08
42 4 0.08
43 25 0.51
44 1 0.02
45 5 0.10
ACGTcount: A:0.73, C:0.02, G:0.01, T:0.23
Consensus pattern (43 bp):
TAATAAAAATAAAAAAATCAGTAAAATAAAATAAAATAATTAA
Found at i:6253343 original size:19 final size:19
Alignment explanation
Indices: 6253319--6253365 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
6253309 AATATAAAAT
6253319 AAATAAAAATAAAATCAAA
1 AAATAAAAATAAAATCAAA
6253338 AAATAAAAATAAAATCAAA
1 AAATAAAAATAAAATCAAA
6253357 AAATAAAAA
1 AAATAAAAA
6253366 CCTACAATCG
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:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (19 bp):
AAATAAAAATAAAATCAAA
Found at i:6253364 original size:5 final size:5
Alignment explanation
Indices: 6253270--6253357 Score: 58
Period size: 5 Copynumber: 17.0 Consensus size: 5
6253260 AAAAAATCAG
* *
6253270 TAAAA TAAAA TAAAA T-AAT TAATAA TAATAA TAAAT TAAAA TATAAA
1 TAAAA TAAAA TAAAA TAAAA TAA-AA TAA-AA TAAAA TAAAA TA-AAA
*
6253317 -ATAAA TAAAAA TAAAA T-CAA -AAAA TAAAAA TAAAA TCAAAA
1 TA-AAA T-AAAA TAAAA TAAAA TAAAA T-AAAA TAAAA T-AAAA
6253358 AATAAAAACC
Statistics
Matches: 68, Mismatches: 6, Indels: 17
0.75 0.07 0.19
Matches are distributed among these distances:
4 7 0.10
5 34 0.50
6 26 0.38
7 1 0.01
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (5 bp):
TAAAA
Found at i:6257680 original size:150 final size:150
Alignment explanation
Indices: 6257404--6257703 Score: 555
Period size: 150 Copynumber: 2.0 Consensus size: 150
6257394 CTTATATAGA
* *
6257404 CTATGTCATATTTCGAAAGCATCACTTGCCATTTTATAGTTTGGGTCTAGTTTGGTTATAAGCCA
1 CTATGTCATATTTCGAAAGCATCACTTGCCATCTTATAGTTTGGGTCTAGTTTGGCTATAAGCCA
* * *
6257469 AGTTGTATGGTAGAGCATATATTGCCTAAGCCTTTTAGCTATTCAAGCCAGAGCATGGCACATCT
66 AGTTGTATGATAGAGCATATATTGCCTAAGCCTTTTAGCTATTCAAGCCAAAGCATAGCACATCT
6257534 TTTATAATGATGAATACTTG
131 TTTATAATGATGAATACTTG
6257554 CTATGTCATATTTCGAAAGCATCACTTGCCATCTTATAGTTTGGGTCTAGTTTGGCTATAAGCCA
1 CTATGTCATATTTCGAAAGCATCACTTGCCATCTTATAGTTTGGGTCTAGTTTGGCTATAAGCCA
6257619 AGTTGTATGATAGAGCATATATTGCCTAAGCCTTTTAGCTATTCAAGCCAAAGCATAGCACATCT
66 AGTTGTATGATAGAGCATATATTGCCTAAGCCTTTTAGCTATTCAAGCCAAAGCATAGCACATCT
6257684 TTTATAATGATGAATACTTG
131 TTTATAATGATGAATACTTG
6257704 GACTCATAAT
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
150 145 1.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.36
Consensus pattern (150 bp):
CTATGTCATATTTCGAAAGCATCACTTGCCATCTTATAGTTTGGGTCTAGTTTGGCTATAAGCCA
AGTTGTATGATAGAGCATATATTGCCTAAGCCTTTTAGCTATTCAAGCCAAAGCATAGCACATCT
TTTATAATGATGAATACTTG
Found at i:6263185 original size:152 final size:152
Alignment explanation
Indices: 6262909--6263358 Score: 812
Period size: 152 Copynumber: 3.0 Consensus size: 152
6262899 TTTACCAAGT
* *
6262909 AATTAGTTGTTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
1 AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
* *
6262974 CTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGGGGCTCCGTCGTCGGATTTAT
66 CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTTAT
6263039 TAAAGAAAAAACAAAATCATCC
131 TAAAGAAAAAACAAAATCATCC
*
6263061 AATTAATTATTGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
1 AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
6263126 CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTTAT
66 CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTTAT
6263191 TAAA-AAAAATACAAAATCATCC
131 TAAAGAAAAA-ACAAAATCATCC
6263213 AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
1 AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
* *
6263278 CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGTAGAGGCTCCGTCGTCGGATTAAT
66 CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTTAT
*
6263343 TAAAGAAAAAAGAAAA
131 TAAAGAAAAAACAAAA
6263359 AAAAAAAAAA
Statistics
Matches: 287, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
151 5 0.02
152 277 0.97
153 5 0.02
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.30
Consensus pattern (152 bp):
AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTTAT
TAAAGAAAAAACAAAATCATCC
Found at i:6263846 original size:20 final size:20
Alignment explanation
Indices: 6263821--6263864 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
6263811 CGGAAATTCA
*
6263821 CCGGTTTCTGGGATTCTTTG
1 CCGGTTTCTGGGATTCTTCG
6263841 CCGGTTTCTGGGATTCTTCG
1 CCGGTTTCTGGGATTCTTCG
6263861 CCGG
1 CCGG
6263865 AAACTGGGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.05, C:0.25, G:0.32, T:0.39
Consensus pattern (20 bp):
CCGGTTTCTGGGATTCTTCG
Found at i:6263871 original size:20 final size:20
Alignment explanation
Indices: 6263828--6263872 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
6263818 TCACCGGTTT
* ***
6263828 CTGGGATTCTTTGCCGGTTT
1 CTGGGATTCTTCGCCGGAAA
6263848 CTGGGATTCTTCGCCGGAAA
1 CTGGGATTCTTCGCCGGAAA
6263868 CTGGG
1 CTGGG
6263873 CAGTTCACCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (20 bp):
CTGGGATTCTTCGCCGGAAA
Found at i:6264446 original size:3 final size:3
Alignment explanation
Indices: 6264438--6264463 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6264428 ATCTTACAAA
6264438 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
6264464 ATATATAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6267950 original size:8 final size:8
Alignment explanation
Indices: 6267937--6267983 Score: 53
Period size: 8 Copynumber: 5.9 Consensus size: 8
6267927 ATCACTGAAA
6267937 AAAATAAT
1 AAAATAAT
*
6267945 AAAATAGT
1 AAAATAAT
6267953 AAAATAA-
1 AAAATAAT
6267960 AATAA-AAT
1 AA-AATAAT
6267968 AAAATAAT
1 AAAATAAT
6267976 AATAATAA
1 AA-AATAA
6267984 AAACTTCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
7 6 0.18
8 22 0.67
9 5 0.15
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (8 bp):
AAAATAAT
Found at i:6267961 original size:23 final size:23
Alignment explanation
Indices: 6267935--6267986 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 23
6267925 AAATCACTGA
*
6267935 AAAAAATAATAAAATAGTAA-AAT
1 AAAAAA-AATAAAATAATAATAAT
6267958 AAAATAAAATAAAATAATAATAAT
1 AAAA-AAAATAAAATAATAATAAT
6267982 AAAAA
1 AAAAA
6267987 CTTCAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 17 0.65
24 9 0.35
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (23 bp):
AAAAAAAATAAAATAATAATAAT
Found at i:6267976 original size:18 final size:19
Alignment explanation
Indices: 6267933--6267985 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
6267923 ATAAATCACT
6267933 GAAAAA-AATAATAAAATA
1 GAAAAATAATAATAAAATA
*
6267951 GTAAAATAA-AATAAAATA
1 GAAAAATAATAATAAAATA
6267969 -AAATAATAATAATAAAA
1 GAAA-AATAATAATAAAA
6267986 ACTTCAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 2 0.07
18 19 0.63
19 9 0.30
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (19 bp):
GAAAAATAATAATAAAATA
Found at i:6268040 original size:16 final size:14
Alignment explanation
Indices: 6267936--6268044 Score: 53
Period size: 14 Copynumber: 7.8 Consensus size: 14
6267926 AATCACTGAA
*
6267936 AAAAATAATAAAAT
1 AAAAATAAAAAAAT
** *
6267950 AGTAA-AATAAAAT
1 AAAAATAAAAAAAT
*
6267963 -AAAATAAAATAAT
1 AAAAATAAAAAAAT
* **
6267976 AATAATAAAAACTT
1 AAAAATAAAAAAAT
* *
6267990 CAATATAAAATAAAT
1 AAAAATAAAA-AAAT
* * *
6268005 -CATATCAAAAAAT
1 AAAAATAAAAAAAT
6268018 AAAAATAAAAATAAT
1 AAAAATAAAAA-AAT
6268033 AGAAAATAAAAA
1 A-AAAATAAAAA
6268045 CCTACAATCA
Statistics
Matches: 69, Mismatches: 20, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
12 2 0.03
13 18 0.26
14 33 0.48
15 6 0.09
16 10 0.14
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (14 bp):
AAAAATAAAAAAAT
Found at i:6270820 original size:2 final size:2
Alignment explanation
Indices: 6270813--6270842 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
6270803 TAAATTAATC
*
6270813 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6270843 TAAGATAAAA
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):
AT
Found at i:6272207 original size:16 final size:15
Alignment explanation
Indices: 6272175--6272213 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
6272165 TTAATATATT
6272175 AAAACAAAAAATTAA
1 AAAACAAAAAATTAA
*
6272190 AAGACAAAAAATTAAA
1 AAAACAAAAAATT-AA
6272206 AAAACAAA
1 AAAACAAA
6272214 TATGCTACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.79, C:0.08, G:0.03, T:0.10
Consensus pattern (15 bp):
AAAACAAAAAATTAA
Found at i:6273086 original size:13 final size:14
Alignment explanation
Indices: 6273053--6273092 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
6273043 TATTTAATAT
6273053 ATTAAA-ACAAAAA
1 ATTAAAGACAAAAA
6273066 ATTGAAAGACAAAAA
1 ATT-AAAGACAAAAA
6273081 A-TAAAGA-AAAAA
1 ATTAAAGACAAAAA
6273093 CCAATATGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 5 0.20
13 8 0.32
14 4 0.16
15 8 0.32
ACGTcount: A:0.75, C:0.05, G:0.07, T:0.12
Consensus pattern (14 bp):
ATTAAAGACAAAAA
Found at i:6273306 original size:899 final size:890
Alignment explanation
Indices: 6271044--6273334 Score: 2730
Period size: 902 Copynumber: 2.6 Consensus size: 890
6271034 GATGTAATTG
* * * * *
6271044 ACTTGCATTTG-ATTTGATATTAGTTTTTGTTAATAAAAATAGCAATTATAAAATTTTAGAGAAA
1 ACTTG-ATTTGTATTTGATATTAGTTTTTGTTAATGAGAATAACAATTATAAAATTTTAAAGGAA
* *
6271108 AAAATATTAAA-AAAATTAATTATAAAGGTTAGACTAAATTGTAAGAATGATATAGTAAAAAATT
65 AAAATATAAAAGAAAATTAATTAT-AAGGTTAGACTAAATTGTAAGAATGATATATTAAAAAATT
* *
6271172 A-TTCAAGGAACTAAAAGATTAATT-TGTTATCAATAATCAAATAATCAACTTATAAAATATATA
129 ATTTTAA-GAACTAAAAGATTAATTATGTTATCAATAGTCAAATAATCAACTTATAAAATATATA
6271235 AATAAT-AAATCATTAACATATATATATATTTAATATATTAAAACAAAAAAATTGAAAGAC----
193 AATAATAAAATCATT-A-A-ATATATATATTTAATATATTAAAAC-AAAAAATTGAAAGACAAAA
* *
6271295 ---CAAAAAA-AA-A-GCTTCAATAACTTAATTATAGTTATCTTTAATAAATTTATTTATCGACA
254 AATAAAAAAACAATATGCTTCAATGACTTAATTAT-GTTATCTTTAATAAATTTATTTATCGACA
* * * *
6271354 TAAACTATATAAATAATTATTTTTGCAACAACTAAATAAACAAATTTCATATAATTGTTTTATTT
318 TAAACTACATATATAATTATTTTTGCAACAACTAAATAAACAAACTCCATATAATTGTTTTATTT
* * * *
6271419 TTATGCATATTATGCTTTGCTCTCATTCTATTTGTATTTTCATTTGCTGTGAAAAATCATTTTAC
383 TTATGCACATTAAGCTTTGATCTCATTCTATTTGTATTTTCATTTGATGTGAAAAATCATTTTAC
* * ** *
6271484 TTATAAAAAAGGGGTCTAATAATAAAAAA-AATTCATTTAAATTAAAATTTATAAAAAATTACTA
448 TTATAAAAAA---AT-TAATAATAAAAAATAATTAATAAAAATTAAAATTTATAAAAAATCACTA
* *
6271548 ATGGTATTTTAGTCAAATCACTTTTAACATTTTGGAAATTAAAATTTTATTAAGGGAATTTTAGT
509 ATGGTATTTTAATCAAATCACTTTTAACATTTTGAAAATTAAAATTTTATTAAGGGAATTTTAGT
* * * * * *
6271613 TACTCATTTTTAGCATTTTTTTCGTCTAATTATTCAAACAAGTCTAATAATAAAAAATTTCATTT
574 TAATCATTTTTAGCACTTTTTTAGTCTAATTATTAAAAAAAGTCTAACAATAAAAAATTTCATTT
* * *
6271678 AAATTAAAATTTATAAAACATTTACTAAGTATATTTTAGTCAATCACTTTTAATACTTTTAGAAT
639 AAATTAAAATTTATAAAACATTTACCAACTATATTTTAGCCAATCACTTTTAATACTTTTAGAAT
* * * *
6271743 TAAATTTTTTTAAAATTTTAAATAGTTTAATTTCACATAAATTCTATTTTTAGTTTATTTAAATT
704 TAAA--TATTTAAAAATTTAAATAGTTTAATTTCACATAAACTCTATTTTTAGTTGATTTAAATT
* * *
6271808 AAACTTAAATAAATTAATAAAAGTTATATATTTAAGGATAAATTAGTTAATTTAAAATTTTATAA
767 AAACTTAAATAAATTAATAAAAGTTATATATTTAAGGATAAATTAGCTAATTAAAAAATTTATAA
* * *
6271873 AAGTATTTATGTTGATCACTATTAACACCTAAATGAATCATATAGTGGTAATTGTTGGTGGAGGG
832 AAATAGTTAGGTTGATCACTATTAACACCTAAATGAAT-ATATA---GTAA----T-GT-GAGGG
6271938 AATGC
887 AAT-C
* * * *
6271943 AATTGATTTGCATTTGATTTAATATTAGTTTTTGTTTATGAGAATAACAATTATAAAATTTTTGA
1 ACTTGATTTG----T-ATTTGATATTAGTTTTTGTTAATGAGAATAACAATTATAAAA-TTTTAA
* * * *
6272008 A-G-AAACATATAAAAG--AGTTAATTATTAAGGTTAGATTAAACTGTAAGAATGATATATTAAA
60 AGGAAAAAATATAAAAGAAAATTAATTA-TAAGGTTAGACTAAATTGTAAGAATGATATATTAAA
* * *
6272069 TAATTATTTTAAGAAACTAAAAGGATTAATTATGTTATCAA-CGATCAAATAATCAACTTGTAAA
124 AAATTATTTTAAG-AACTAAAA-GATTAATTATGTTATCAATAG-TCAAATAATCAACTTATAAA
* * * *
6272133 GTATATAAATAATAAAATC--GACATATATATATTTAATATATTAAAACAAAAAATTAAAAGACA
186 ATATATAAATAATAAAATCATTAAATATATATATTTAATATATTAAAACAAAAAATTGAAAGACA
*
6272196 AAAAATTAAAAAAACAAATATGCTACAATGACTTAATTATGGTTATCTTTAATAAATTTATTTAT
251 AAAAA-TAAAAAAAC-AATATGCTTCAATGACTTAATTAT-GTTATCTTTAATAAATTTATTTAT
* * * * *
6272261 CGACGTAAACTACATATGTGATTATTTTTGCAACAACTAAACAAA-AAACTCTATATAATTGTTT
313 CGACATAAACTACATATATAATTATTTTTGCAACAACTAAATAAACAAACTCCATATAATTGTTT
* * * * * * * *
6272325 TATTTTTATGCGCATTAAGTTTTGATTTCATTTTACTTGTTTTTTTATTTGATGTAAAAAATCAT
378 TATTTTTATGCACATTAAGCTTTGATCTCATTCTATTTGTATTTTCATTTGATGTGAAAAATCAT
* * * * ** *
6272390 TTTACATATAAAAAAAATGAGT-AT-AATAATAA--AA-AATCATTTAAA-TTATAAAAAATCAC
443 TTTACTTAT-AAAAAAATTAATAATAAAAAATAATTAATAAAAATTAAAATTTATAAAAAATCAC
* * *
6272449 TAATGGTATTTTAAT-AATTCACTTTTAACATTTTTAAAATTAAAATTTTATTAA-TGATATTTT
507 TAATGGTATTTTAATCAAATCACTTTTAACATTTTGAAAATTAAAATTTTATTAAGGGA-ATTTT
* *
6272512 AGTTAATTATTTTT-GACACTTTTTTAGTCTAATTA-TAAAAAAGAGTCTAGCAATAAAAAA-TT
571 AGTTAATCATTTTTAG-CACTTTTTTAGTCTAATTATTAAAAAA-AGTCTAACAATAAAAAATTT
* * *
6272574 CATTTAAATTTAAATTTATAAAATCATTTGCCAACTATATTTTAGCCAATCACTTTTACTA-TGT
634 CATTTAAATTAAAATTTATAAAA-CATTTACCAACTATATTTTAGCCAATCACTTTTAATACT-T
6272638 TTAGAATTAAA-ATTTAAAAATTTAAATAGTTTAATTTCACATAAACTCTATTTTTAGTTGATTT
697 TTAGAATTAAATATTTAAAAATTTAAATAGTTTAATTTCACATAAACTCTATTTTTAGTTGATTT
*
6272702 AAATTAAACTTAAATAAATTAATAAAAGTTATATATTTAAGGATAAATTTGCTAATTAAAAAATT
762 AAATTAAACTTAAATAAATTAATAAAAGTTATATATTTAAGGATAAATTAGCTAATTAAAAAATT
* * * *
6272767 TATAAAAATAGTTAGGGTTGATCACTATTAACACTTCATTGAAT-TATA-T-A-GT-A-GTAAT-
827 TATAAAAATAGTTA-GGTTGATCACTATTAACACCTAAATGAATATATAGTAATGTGAGGGAATC
*
6272825 ACTTGATTTGTATTTGATATTAGTTTTTGTTCATGAGAATAACAATTATAAAATTTTAAAGGAAA
1 ACTTGATTTGTATTTGATATTAGTTTTTGTTAATGAGAATAACAATTATAAAATTTTAAAGGAAA
* * *
6272890 AAATACAAAAGAAAATTAATTATAGAGGTTAAACTAAATTGTAAGAATGATATATTAAAGAATTA
66 AAATATAAAAGAAAATTAATTATA-AGGTTAGACTAAATTGTAAGAATGATATATTAAAAAATTA
* * * *
6272955 TTTTAATGAACTAAAAAATTAATTATGTTACCAATAGTCAAATGATTAACTTATAAAATATATAA
130 TTTTAA-GAACTAAAAGATTAATTATGTTATCAATAGTCAAATAATCAACTTATAAAATATATAA
*
6273020 ATAATAAAATCATTAAATATGTATATTTAATATATTAAAACAAAAAATTGAAAGACAAAAAATAA
194 ATAATAAAATCATTAAATATATATATTTAATATATTAAAACAAAAAATTGAAAGACAAAAAAT--
* **
6273085 AGAAAAAACCAATATGCTTCAATGACTTTATTATGTTTATCTTTAATAAATTTATTTATTAACAT
257 A-AAAAAA-CAATATGCTTCAATGACTTAATTATG-TTATCTTTAATAAATTTATTTATCGACAT
* * * *
6273150 AAACTACATATACAATTATTTTTGCAACAAATAAATAAACAAACTCCGTATAATTGTTTTATTGT
319 AAACTACATATATAATTATTTTTGCAACAACTAAATAAACAAACTCCATATAATTGTTTTATTTT
* * *
6273215 TATACACATTAAGCTTTGATCTCGTTCTATTTGTATTTTCATTTGATGTGAAAAATTATTTTACT
384 TATGCACATTAAGCTTTGATCTCATTCTATTTGTATTTTCATTTGATGTGAAAAATCATTTTACT
* **
6273280 TATAAAAAAATTTTAATAATAAAAAAT-A-TCATTTAAATTAAAATTTATAAAAAAT
449 TATAAAAAAA--TTAATAATAAAAAATAATTAATAAAAATTAAAATTTATAAAAAAT
6273335 TTCTAATAGT
Statistics
Matches: 1184, Mismatches: 151, Indels: 124
0.81 0.10 0.08
Matches are distributed among these distances:
876 6 0.01
877 41 0.03
878 12 0.01
879 53 0.04
880 60 0.05
881 46 0.04
882 11 0.01
883 95 0.08
884 83 0.07
885 4 0.00
886 3 0.00
887 8 0.01
888 6 0.01
889 11 0.01
893 1 0.00
894 1 0.00
898 9 0.01
899 126 0.11
900 39 0.03
901 58 0.05
902 175 0.15
903 51 0.04
904 51 0.04
905 46 0.04
906 9 0.01
907 4 0.00
908 8 0.01
909 1 0.00
910 2 0.00
911 78 0.07
912 86 0.07
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (890 bp):
ACTTGATTTGTATTTGATATTAGTTTTTGTTAATGAGAATAACAATTATAAAATTTTAAAGGAAA
AAATATAAAAGAAAATTAATTATAAGGTTAGACTAAATTGTAAGAATGATATATTAAAAAATTAT
TTTAAGAACTAAAAGATTAATTATGTTATCAATAGTCAAATAATCAACTTATAAAATATATAAAT
AATAAAATCATTAAATATATATATTTAATATATTAAAACAAAAAATTGAAAGACAAAAAATAAAA
AAACAATATGCTTCAATGACTTAATTATGTTATCTTTAATAAATTTATTTATCGACATAAACTAC
ATATATAATTATTTTTGCAACAACTAAATAAACAAACTCCATATAATTGTTTTATTTTTATGCAC
ATTAAGCTTTGATCTCATTCTATTTGTATTTTCATTTGATGTGAAAAATCATTTTACTTATAAAA
AAATTAATAATAAAAAATAATTAATAAAAATTAAAATTTATAAAAAATCACTAATGGTATTTTAA
TCAAATCACTTTTAACATTTTGAAAATTAAAATTTTATTAAGGGAATTTTAGTTAATCATTTTTA
GCACTTTTTTAGTCTAATTATTAAAAAAAGTCTAACAATAAAAAATTTCATTTAAATTAAAATTT
ATAAAACATTTACCAACTATATTTTAGCCAATCACTTTTAATACTTTTAGAATTAAATATTTAAA
AATTTAAATAGTTTAATTTCACATAAACTCTATTTTTAGTTGATTTAAATTAAACTTAAATAAAT
TAATAAAAGTTATATATTTAAGGATAAATTAGCTAATTAAAAAATTTATAAAAATAGTTAGGTTG
ATCACTATTAACACCTAAATGAATATATAGTAATGTGAGGGAATC
Found at i:6273634 original size:19 final size:18
Alignment explanation
Indices: 6273583--6273635 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
6273573 TTATTTGATG
* *
6273583 TAAAAAATCATGTTACTTA
1 TAAAAAATCAT-TTAATAA
6273602 TAAAAAAT-AGTTTAATAA
1 TAAAAAATCA-TTTAATAA
6273620 TTAAAAAATCATTTAA
1 -TAAAAAATCATTTAA
6273636 ATTAAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 6 0.21
19 22 0.76
20 1 0.03
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.36
Consensus pattern (18 bp):
TAAAAAATCATTTAATAA
Found at i:6273643 original size:320 final size:320
Alignment explanation
Indices: 6273061--6273653 Score: 890
Period size: 320 Copynumber: 1.9 Consensus size: 320
6273051 ATATTAAAAC
* * *
6273061 AAAAAATTGAAAGACAAAAAATAAAGAAAAAACCAATATGCTTCAATGACTTTATTATGTTTATC
1 AAAAAATTGAAAGACAAAAAATAAAGAAAAAACAAATATGCTTCAATGAATTTACTATGTTTATC
6273126 TTTAATAAATTTATTTATTAACATAAACTACATATACAATTATTTTTGCAACAAATAAATAAACA
66 TTTAATAAATTTATTTATTAACATAAACTACATATACAATTATTTTTGCAACAAATAAATAAACA
* ** *
6273191 AACTCCGTATAATTGTTTTATTGTTATACACATTAAGCTTTGATCTCGTTCTATTTGTATTTTCA
131 AACTCCATATAATTGTTTTATTCATATACACATTAAGCTTTGATCCCGTTCTATTTGTATTTTCA
* * * *
6273256 TTTGATGTGAAAAATTATTTTACTTATAAAAAAATTTTAATAATAAAAAATATCATTTAAATTAA
196 TTTGATGTAAAAAATCATGTTACTTATAAAAAAAGTTTAATAATAAAAAATATCATTTAAATTAA
6273321 AATTTATAAAAAATTTCTAATAGTATTATGGTCAATAACTTTTATCAATTTTGAAATAAA
261 AATTTATAAAAAATTTCTAATAGTATTATGGTCAATAACTTTTATCAATTTTGAAATAAA
* *
6273381 AAAAAATTGAAAGACAAAATATAAA-AGAAAAACAAATATGCTTTAAT-AATTTAACTATAG-TT
1 AAAAAATTGAAAGACAAAAAATAAAGA-AAAAACAAATATGCTTCAATGAATTT-ACTAT-GTTT
* * * *
6273443 ATCTTTAATAAATTTATTTATTGATATAAACTACATATACAATTATTTTTGCAATAATTAAATAA
63 ATCTTTAATAAATTTATTTATTAACATAAACTACATATACAATTATTTTTGCAACAAATAAATAA
* * * * *
6273508 ACAAACTCCATATGATTTTTTTATTCATATGCATATTAAGTTTTGA-CACCGTTCTATTTGTATT
128 ACAAACTCCATATAATTGTTTTATTCATATACACATTAAGCTTTGATC-CCGTTCTATTTGTATT
* *
6273572 TTTATTTGATGTAAAAAATCATGTTACTTATAAAAAATAGTTTAATAATTAAAAA-ATCATTTAA
192 TTCATTTGATGTAAAAAATCATGTTACTTATAAAAAA-AGTTTAATAATAAAAAATATCATTTAA
6273636 ATTAAAATTTATAAAAAA
256 ATTAAAATTTATAAAAAA
6273654 AAATTAGTAA
Statistics
Matches: 244, Mismatches: 24, Indels: 10
0.88 0.09 0.04
Matches are distributed among these distances:
319 6 0.02
320 222 0.91
321 16 0.07
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (320 bp):
AAAAAATTGAAAGACAAAAAATAAAGAAAAAACAAATATGCTTCAATGAATTTACTATGTTTATC
TTTAATAAATTTATTTATTAACATAAACTACATATACAATTATTTTTGCAACAAATAAATAAACA
AACTCCATATAATTGTTTTATTCATATACACATTAAGCTTTGATCCCGTTCTATTTGTATTTTCA
TTTGATGTAAAAAATCATGTTACTTATAAAAAAAGTTTAATAATAAAAAATATCATTTAAATTAA
AATTTATAAAAAATTTCTAATAGTATTATGGTCAATAACTTTTATCAATTTTGAAATAAA
Found at i:6274534 original size:48 final size:48
Alignment explanation
Indices: 6274482--6274576 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
6274472 ATAAGATTGA
*
6274482 ATCTACTCTAAATAAAGTTGTAATAAAATCAACTAAGCCTTATATTTT
1 ATCTACTCGAAATAAAGTTGTAATAAAATCAACTAAGCCTTATATTTT
* * *
6274530 ATCTACTCGAGATAAAGTTGTAATGACATCAACTAAGCCTTATATTT
1 ATCTACTCGAAATAAAGTTGTAATAAAATCAACTAAGCCTTATATTT
6274577 GAATAGTATA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (48 bp):
ATCTACTCGAAATAAAGTTGTAATAAAATCAACTAAGCCTTATATTTT
Found at i:6277510 original size:2 final size:2
Alignment explanation
Indices: 6277503--6277527 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6277493 TTGTGAGTTT
6277503 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 T
6277528 TATTAATAGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6277878 original size:20 final size:22
Alignment explanation
Indices: 6277837--6277879 Score: 56
Period size: 20 Copynumber: 2.0 Consensus size: 22
6277827 TCATAATAAA
6277837 AATATAAATATAATAATTTTTT
1 AATATAAATATAATAATTTTTT
6277859 AATA-AAAT-TAA-AATTCTTTT
1 AATATAAATATAATAATT-TTTT
6277879 A
1 A
6277880 TTTTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.20
20 8 0.40
21 4 0.20
22 4 0.20
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
AATATAAATATAATAATTTTTT
Found at i:6279396 original size:11 final size:10
Alignment explanation
Indices: 6279366--6279399 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
6279356 ATATTTATAC
6279366 AATAAAAATA
1 AATAAAAATA
*
6279376 ATTAAAAATA
1 AATAAAAATA
6279386 AATAAATAATA
1 AATAAA-AATA
6279397 AAT
1 AAT
6279400 TTAATATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 14 0.67
11 7 0.33
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (10 bp):
AATAAAAATA
Found at i:6279633 original size:21 final size:21
Alignment explanation
Indices: 6279609--6279663 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
6279599 TTAAATTCAT
6279609 ATCTCATTTTTATAATAATCA
1 ATCTCATTTTTATAATAATCA
* *
6279630 ATCTCATTACTTA-AATAATTA
1 ATCTCATT-TTTATAATAATCA
* *
6279651 ATTTTATTTTTAT
1 ATCTCATTTTTAT
6279664 CATTATTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
20 3 0.11
21 21 0.78
22 3 0.11
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (21 bp):
ATCTCATTTTTATAATAATCA
Found at i:6280968 original size:22 final size:23
Alignment explanation
Indices: 6280935--6281022 Score: 117
Period size: 22 Copynumber: 3.9 Consensus size: 23
6280925 ATAAAATACA
6280935 TTTATAAAAATTAAAA-ATTATTT
1 TTTA-AAAAATTAAAATATTATTT
*
6280958 TTTAAAAAATTAAAATATGATTT
1 TTTAAAAAATTAAAATATTATTT
* *
6280981 TTT-AAAGATGAAAATATTATTT
1 TTTAAAAAATTAAAATATTATTT
*
6281003 TTTAGAAAATTAAAATATTA
1 TTTAAAAAATTAAAATATTA
6281023 AAAAAAATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
22 30 0.54
23 26 0.46
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (23 bp):
TTTAAAAAATTAAAATATTATTT
Found at i:6281500 original size:20 final size:21
Alignment explanation
Indices: 6281477--6281515 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
6281467 CATCACATTG
6281477 ACAAAATTAATG-TTATATCA
1 ACAAAATTAATGTTTATATCA
**
6281497 ACAAGGTTAATGTTTATAT
1 ACAAAATTAATGTTTATAT
6281516 TATAAAGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (21 bp):
ACAAAATTAATGTTTATATCA
Found at i:6291144 original size:57 final size:58
Alignment explanation
Indices: 6291076--6291351 Score: 421
Period size: 58 Copynumber: 4.8 Consensus size: 58
6291066 TGCTTTTGTA
**
6291076 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTAGAAAA-TTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
* *
6291133 CAA-AGAAAATTGATATTTTTAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
1 CAAGA-AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
* * *
6291191 CAAGAAAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTAAAAAACTGATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
6291249 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
* * * *
6291307 CAAGAAAAATTAATACTTTTAACTTCTCTTCAAAAATATATTTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTT
6291352 TAAAATTTTT
Statistics
Matches: 199, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
56 1 0.01
57 44 0.22
58 148 0.74
59 6 0.03
ACGTcount: A:0.40, C:0.13, G:0.05, T:0.42
Consensus pattern (58 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
Found at i:6291223 original size:30 final size:29
Alignment explanation
Indices: 6291181--6291275 Score: 74
Period size: 29 Copynumber: 3.2 Consensus size: 29
6291171 TTTTTTAGAA
6291181 AACTTATTTTCAAGAAAAATTGATACTTTC
1 AACTT-TTTTCAAGAAAAATTGATACTTTC
* *
6291211 AACTTTTCTTCAA-AAATATT--T--TTTAAAA
1 AACTTTT-TTCAAGAAAAATTGATACTTT---C
*
6291239 AACTGATTTTCAAGAAAAATTGATACTTTC
1 AACT-TTTTTCAAGAAAAATTGATACTTTC
6291269 AACTTTT
1 AACTTTT
6291276 CCTCAAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 21
0.64 0.08 0.28
Matches are distributed among these distances:
25 3 0.06
27 1 0.02
28 9 0.18
29 18 0.37
30 14 0.29
31 1 0.02
33 3 0.06
ACGTcount: A:0.40, C:0.13, G:0.05, T:0.42
Consensus pattern (29 bp):
AACTTTTTTCAAGAAAAATTGATACTTTC
Found at i:6291388 original size:5 final size:5
Alignment explanation
Indices: 6291378--6291425 Score: 62
Period size: 5 Copynumber: 9.4 Consensus size: 5
6291368 AGAAAAATCA
*
6291378 AAAAT AAAAT AAAAT AAAAAT AAAAAT AGAAT -AAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AA
6291426 GAAATACTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
4 3 0.08
5 25 0.64
6 11 0.28
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:6291403 original size:17 final size:16
Alignment explanation
Indices: 6291371--6291431 Score: 72
Period size: 17 Copynumber: 3.8 Consensus size: 16
6291361 TATTTAAAGA
6291371 AAAATCAAAAATAAAAT
1 AAAAT-AAAAATAAAAT
6291388 AAAATAAAAATAAAAAT
1 AAAATAAAAAT-AAAAT
*
6291405 AGAAT--AAATAAAAT
1 AAAATAAAAATAAAAT
6291419 AAAATAAGAAATA
1 AAAATAA-AAATA
6291432 CTAAATAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 9 0.24
15 4 0.11
16 6 0.16
17 19 0.50
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (16 bp):
AAAATAAAAATAAAAT
Found at i:6291981 original size:22 final size:25
Alignment explanation
Indices: 6291953--6292002 Score: 70
Period size: 22 Copynumber: 2.1 Consensus size: 25
6291943 ACCGAAATTT
*
6291953 AAAAATTTT-TC-AAAAAT-TTCCA
1 AAAAATTTTGTCTAAAAATCCTCCA
6291975 AAAAATTTTGTCTAAAAATCCTCCA
1 AAAAATTTTGTCTAAAAATCCTCCA
6292000 AAA
1 AAA
6292003 TCTCTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 9 0.38
23 2 0.08
24 6 0.25
25 7 0.29
ACGTcount: A:0.50, C:0.16, G:0.02, T:0.32
Consensus pattern (25 bp):
AAAAATTTTGTCTAAAAATCCTCCA
Found at i:6292292 original size:3 final size:3
Alignment explanation
Indices: 6292272--6292425 Score: 57
Period size: 3 Copynumber: 48.7 Consensus size: 3
6292262 AAATAAAAAA
* *
6292272 AAT ATT AAT AGAT AAAT AAT AAT ATAT GAAT AGAT AAAT AAT AA- AAA
1 AAT AAT AAT A-AT -AAT AAT AAT A-AT -AAT A-AT -AAT AAT AAT AAT
* * **
6292319 AAT ATT AAC AGAT AAAT AAT AA- AAT -AT GTT AAT AGAT AAAT AAT AAT
1 AAT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT AAT A-AT -AAT AAT AAT
* * *
6292366 AAT AA- AAT TAT -AT ATT AAT AAAT AAT AAT AGT AAT AAT AAAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT -AAT -AAT
* *
6292412 AAA AAT AAA AAT AA
1 AAT AAT AAT AAT AA
6292426 AAAATAAAAT
Statistics
Matches: 115, Mismatches: 19, Indels: 34
0.68 0.11 0.20
Matches are distributed among these distances:
2 10 0.09
3 71 0.62
4 29 0.25
5 5 0.04
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6292303 original size:22 final size:22
Alignment explanation
Indices: 6292270--6292369 Score: 110
Period size: 22 Copynumber: 4.3 Consensus size: 22
6292260 AAAAATAAAA
*
6292270 AAAATATTAATAGATAAATAAT
1 AAAATATGAATAGATAAATAAT
*
6292292 AATATATGAATAGATAAATAAT
1 AAAATATGAATAGATAAATAAT
* *
6292314 AAAAAAATATTAACAGATAAATAAT
1 ---AAAATATGAATAGATAAATAAT
6292339 AAAATATGTTAATAGATAAATAAT
1 AAAATATG--AATAGATAAATAAT
6292363 AATAATA
1 AA-AATA
6292370 AAATTATATA
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
22 27 0.42
24 15 0.23
25 23 0.35
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (22 bp):
AAAATATGAATAGATAAATAAT
Found at i:6292332 original size:47 final size:48
Alignment explanation
Indices: 6292267--6292416 Score: 166
Period size: 49 Copynumber: 3.1 Consensus size: 48
6292257 AAAAAAAATA
* *
6292267 AAAAAAATATTAATAGATAAATAATAATATATG-AATAGATAAATAAT
1 AAAAAAATATTAACAGATAAATAATAAAATATGTAATAGATAAATAAT
6292314 AAAAAAATATTAACAGATAAATAATAAAATATGTTAATAGATAAATAAT
1 AAAAAAATATTAACAGATAAATAATAAAATATG-TAATAGATAAATAAT
* * *
6292363 AATAATAAA-ATT-ATATATTAATAAATAATAATA-GTAATA-ATAAATAAAT
1 AA-AA-AAATATTAACAGATAAAT-AATAA-AATATGTAATAGATAAAT-AAT
6292412 AAAAA
1 AAAAA
6292417 TAAAAATAAA
Statistics
Matches: 91, Mismatches: 5, Indels: 14
0.83 0.05 0.13
Matches are distributed among these distances:
47 32 0.35
48 8 0.09
49 33 0.36
50 11 0.12
51 7 0.08
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.30
Consensus pattern (48 bp):
AAAAAAATATTAACAGATAAATAATAAAATATGTAATAGATAAATAAT
Found at i:6292400 original size:16 final size:16
Alignment explanation
Indices: 6292263--6292425 Score: 68
Period size: 17 Copynumber: 9.8 Consensus size: 16
6292253 AATAAAAAAA
* *
6292263 AATAA-AAAAAATATT
1 AATAATAAATAATAAT
6292278 AATAGATAAATAATAAT
1 AATA-ATAAATAATAAT
*
6292295 ATATGAATAGATAAATAAT
1 A-AT-AATAAAT-AATAAT
* *
6292314 AA-AAAAATATTAACAGAT
1 AATAATAA-A-TAATA-AT
**
6292332 AAATAATAAA-ATATGTT
1 -AATAATAAATA-ATAAT
6292349 AATAGATAAATAATAAT
1 AATA-ATAAATAATAAT
* *
6292366 AATAA-AATTATATATT
1 AATAATAAATA-ATAAT
*
6292382 AATAA-ATAATAATAGT
1 AATAATA-AATAATAAT
*
6292398 AATAATAAATAAATAAA
1 AATAATAAAT-AATAAT
6292415 AATAA-AAATAA
1 AATAATAAATAA
6292426 AAAATAAAAT
Statistics
Matches: 113, Mismatches: 18, Indels: 34
0.68 0.11 0.21
Matches are distributed among these distances:
15 10 0.09
16 35 0.31
17 40 0.35
18 13 0.12
19 11 0.10
20 4 0.04
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (16 bp):
AATAATAAATAATAAT
Found at i:6294772 original size:16 final size:17
Alignment explanation
Indices: 6294745--6294776 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
6294735 AGATGATGTT
6294745 ATTTTATTAAAAAATAA
1 ATTTTATTAAAAAATAA
6294762 ATTTT-TTAAAAAATA
1 ATTTTATTAAAAAATA
6294777 TTAATTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTTTATTAAAAAATAA
Found at i:6326219 original size:3 final size:3
Alignment explanation
Indices: 6326211--6326237 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
6326201 TAGACCCTTG
6326211 TCC TCC TCC TCC TCC TCC TCC TCC TCC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC
6326238 ATCACCATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (3 bp):
TCC
Found at i:6327748 original size:24 final size:24
Alignment explanation
Indices: 6327703--6327750 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
6327693 TAATTCGATC
* *
6327703 ATTTAATATTTACATTTAATTTTG
1 ATTTAATATTAAAATTTAATTTTG
*
6327727 ATTTAATATTAAAATATTATTTTT
1 ATTTAATATTAAAAT-TTAATTTT
6327751 ATATCAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (24 bp):
ATTTAATATTAAAATTTAATTTTG
Found at i:6329198 original size:170 final size:169
Alignment explanation
Indices: 6328992--6329307 Score: 393
Period size: 170 Copynumber: 1.9 Consensus size: 169
6328982 TTCGGATATA
* * * * * *
6328992 CAAAATGCTTTCATAAAGGCCCAATTCGATAAAATAGCTTGGTCAAAGAGCTCGGACTCAGCTCA
1 CAAAATACTTTCATAAAGGCCCAACTCGACAAAATAGCTTGGCCAAAAAGCTCAGACTCAGCTCA
* * * *
6329057 ATAAAAA-AGGCTTAGATTTACAAAATG-TTTCATAAAGACTCAATTCGACAAAGTAACTTGACC
66 ATAAAAAGA-GCTTAGATTTACAAAATGCTTT-ATAAAGACCCAACTAGACAAAATAACTTGACC
6329120 AAAGAGCGCGGACTTAGTTCGATCAAAAGAACTTGAATCTT
129 AAAGAGCGCGGACTTAGTTCGATCAAAAGAACTTGAATCTT
* * * *
6329161 CAAAATACTTTTATAAAAGGCCTAACTCGACAAAATAGCTTGGCCAAAAAGCTCAGATTCAGCTT
1 CAAAATACTTTCAT-AAAGGCCCAACTCGACAAAATAGCTTGGCCAAAAAGCTCAGACTCAGCTC
* * * * * *
6329226 AGTCAAAAGAGCTTGGATTTACAAAATGCCTTTATAAAGGCCCAACTAGACAAAATAGCTTGATC
65 AATAAAAAGAGCTTAGATTTACAAAATG-CTTTATAAAGACCCAACTAGACAAAATAACTTGACC
*
6329291 AAAGAGCTCGGACTTAG
129 AAAGAGCGCGGACTTAG
6329308 CTAAGCCAAA
Statistics
Matches: 122, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
169 12 0.10
170 65 0.53
171 42 0.34
172 3 0.02
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.24
Consensus pattern (169 bp):
CAAAATACTTTCATAAAGGCCCAACTCGACAAAATAGCTTGGCCAAAAAGCTCAGACTCAGCTCA
ATAAAAAGAGCTTAGATTTACAAAATGCTTTATAAAGACCCAACTAGACAAAATAACTTGACCAA
AGAGCGCGGACTTAGTTCGATCAAAAGAACTTGAATCTT
Found at i:6329318 original size:85 final size:85
Alignment explanation
Indices: 6328889--6329324 Score: 339
Period size: 85 Copynumber: 5.1 Consensus size: 85
6328879 TACCTCGACT
* * * * * * * * *
6328889 AAAAGAGTTTGAATTTACAAAATGCTTTCATAAAAGACCCAATTCAATAAAACAACTCGACCAAA
1 AAAAGAGCTTGGATTTACAAAATGCTTTCAT-AAAGGCCCAACTCGACAAAATAGCTTGACCAAA
* ** * * **
6328954 GAACTCAAACTCAACTTGGTC
65 GAGCTCGGACTTAGCTAAGTC
* * * **
6328975 AAAAGAG-TTCGGATATACAAAATGCTTTCATAAAGGCCCAATTCGATAAAATAGCTTGGTCAAA
1 AAAAGAGCTT-GGATTTACAAAATGCTTTCATAAAGGCCCAACTCGACAAAATAGCTTGACCAAA
*
6329039 GAGCTCGGACTCAGCTCAA-T-
65 GAGCTCGGACTTAGCT-AAGTC
* * * * * * *
6329059 AAAAAAGGCTTAGATTTACAAAATG-TTTCATAAAGACTCAATTCGACAAAGTAACTTGACCAAA
1 AAAAGA-GCTTGGATTTACAAAATGCTTTCATAAAGGCCCAACTCGACAAAATAGCTTGACCAAA
* **
6329123 GAGCGCGGACTTAG-TTCGATC
65 GAGCTCGGACTTAGCTAAG-TC
* * * * * *
6329144 AAAAGAACTTGAATCTT-CAAAATACTTTTATAAAAGGCCTAACTCGACAAAATAGCTTGGCCAA
1 AAAAGAGCTTGGAT-TTACAAAATGCTTTCAT-AAAGGCCCAACTCGACAAAATAGCTTGACCAA
* * *
6329208 AAAGCTCAGA-TTCAGCTTAGTC
64 AGAGCTCGGACTT-AGCTAAGTC
* *
6329230 AAAAGAGCTTGGATTTACAAAATGCCTTT-ATAAAGGCCCAACTAGACAAAATAGCTTGATCAAA
1 AAAAGAGCTTGGATTTACAAAATG-CTTTCATAAAGGCCCAACTCGACAAAATAGCTTGACCAAA
*
6329294 GAGCTCGGACTTAGCTAAGCC
65 GAGCTCGGACTTAGCTAAGTC
6329315 AAAAGAGCTT
1 AAAAGAGCTT
6329325 AGATCTCTAA
Statistics
Matches: 278, Mismatches: 57, Indels: 31
0.76 0.16 0.08
Matches are distributed among these distances:
83 1 0.00
84 61 0.22
85 123 0.44
86 86 0.31
87 7 0.03
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (85 bp):
AAAAGAGCTTGGATTTACAAAATGCTTTCATAAAGGCCCAACTCGACAAAATAGCTTGACCAAAG
AGCTCGGACTTAGCTAAGTC
Found at i:6329348 original size:85 final size:84
Alignment explanation
Indices: 6328972--6329365 Score: 275
Period size: 85 Copynumber: 4.6 Consensus size: 84
6328962 ACTCAACTTG
* * * * * **
6328972 GTCAAAAGAG-TTCGGATATACAAAATGCTTTCATAAAGGCCCAATTCGATAAAATAGCTTGGTC
1 GTCAAAAGAGCTT-AGATCTACAAAACG-TTTCATAAAGGCCCAACTCGACAAAATAGCTTGACC
*
6329036 AAAGAGCTCGGACTCAGCTCAA
64 AAAGAGCTCGGACTTAGCT-AA
* * * * * * * *
6329058 -T-AAAAAAGGCTTAGATTTACAAAATGTTTCATAAAGACTCAATTCGACAAAGTAACTTGACCA
1 GTCAAAAGA-GCTTAGATCTACAAAACGTTTCATAAAGGCCCAACTCGACAAAATAGCTTGACCA
* **
6329121 AAGAGCGCGGACTTAG-TTC
65 AAGAGCTCGGACTTAGCTAA
* * * *
6329140 GATCAAAAGAACTT-GAATCTTCAAAATAC-TTTTATAAAAGGCCTAACTCGACAAAATAGCTTG
1 G-TCAAAAGAGCTTAG-ATCTAC-AAA-ACGTTTCAT-AAAGGCCCAACTCGACAAAATAGCTTG
* * * *
6329203 GCCAAAAAGCTCAGA-TTCAGCTTA
61 ACCAAAGAGCTCGGACTT-AGCTAA
* * * * *
6329227 GTCAAAAGAGCTTGGATTTACAAAATGCCTTT-ATAAAGGCCCAACTAGACAAAATAGCTTGATC
1 GTCAAAAGAGCTTAGATCTACAAAA--CGTTTCATAAAGGCCCAACTCGACAAAATAGCTTGACC
6329291 AAAGAGCTCGGACTTAGCTAA
64 AAAGAGCTCGGACTTAGCTAA
* * * *
6329312 GCCAAAAGAGCTTAGATCT-CTAAAACGTCTTCATAAAGGTCTAACTCGATAAAA
1 GTCAAAAGAGCTTAGATCTAC-AAAACGT-TTCATAAAGGCCCAACTCGACAAAA
6329366 CAAGTCTGTC
Statistics
Matches: 240, Mismatches: 49, Indels: 39
0.73 0.15 0.12
Matches are distributed among these distances:
83 4 0.02
84 61 0.25
85 111 0.46
86 57 0.24
87 7 0.03
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (84 bp):
GTCAAAAGAGCTTAGATCTACAAAACGTTTCATAAAGGCCCAACTCGACAAAATAGCTTGACCAA
AGAGCTCGGACTTAGCTAA
Found at i:6329358 original size:170 final size:169
Alignment explanation
Indices: 6328992--6329365 Score: 391
Period size: 170 Copynumber: 2.2 Consensus size: 169
6328982 TTCGGATATA
* * * * * *
6328992 CAAAATGCTTTCATAAAGGCCCAATTCGATAAAATAGCTTGGTCAAAGAGCTCGGACTCAGCTCA
1 CAAAATACTTTCATAAAGGCCTAACTCGATAAAATAGCTTGGCCAAAAAGCTCAGACTCAGCTCA
* * * *
6329057 ATAAAAAAGGCTTAGATTTACAAAATGTTTCATAAAGACTCAATTCGACAAAGTAACTTGACCAA
66 ATAAAAAAGGCTTAGATTTACAAAATGTTTCATAAAGACCCAACTAGACAAAATAACTTGACCAA
** *
6329122 AGAGCGCGGACTTAGTTCGATCAAAAGAACTTGAATCTT
131 AGAGCGCGGACTTAGTAAGACCAAAAGAACTTGAATCTT
* * * *
6329161 CAAAATACTTTTATAAAAGGCCTAACTCGACAAAATAGCTTGGCCAAAAAGCTCAGATTCAGCTT
1 CAAAATACTTTCAT-AAAGGCCTAACTCGATAAAATAGCTTGGCCAAAAAGCTCAGACTCAGCTC
* * * * *
6329226 AGT-CAAAAGAGCTTGGATTTACAAAATGCCTTT-ATAAAGGCCCAACTAGACAAAATAGCTTGA
65 AATAAAAAAG-GCTTAGATTTACAAAATG--TTTCATAAAGACCCAACTAGACAAAATAACTTGA
* * *
6329289 TCAAAGAGCTCGGACTTAGCTAAG-CCAAAAGAGCTT-AGATC-T
127 CCAAAGAGCGCGGACTTAG-TAAGACCAAAAGAACTTGA-ATCTT
* *
6329331 CTAAA-ACGTCTTCATAAAGGTCTAACTCGATAAAA
1 CAAAATAC-T-TTCATAAAGGCCTAACTCGATAAAA
6329366 CAAGTCTGTC
Statistics
Matches: 168, Mismatches: 29, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
169 19 0.11
170 86 0.51
171 58 0.35
172 5 0.03
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.24
Consensus pattern (169 bp):
CAAAATACTTTCATAAAGGCCTAACTCGATAAAATAGCTTGGCCAAAAAGCTCAGACTCAGCTCA
ATAAAAAAGGCTTAGATTTACAAAATGTTTCATAAAGACCCAACTAGACAAAATAACTTGACCAA
AGAGCGCGGACTTAGTAAGACCAAAAGAACTTGAATCTT
Found at i:6329512 original size:19 final size:19
Alignment explanation
Indices: 6329490--6329545 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
6329480 AAGTGATCAA
*
6329490 TTTGGCTAAAAGAGCTCAG
1 TTTGGCTAAAAGAGCTCAC
*
6329509 TTTGGCCAAAAGAGCTCAC
1 TTTGGCTAAAAGAGCTCAC
* **
6329528 TTCGTTTAAAAGAGCTCA
1 TTTGGCTAAAAGAGCTCA
6329546 TTGATCACCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (19 bp):
TTTGGCTAAAAGAGCTCAC
Found at i:6329686 original size:19 final size:18
Alignment explanation
Indices: 6329664--6329710 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
6329654 AAGTGATCAG
6329664 TTTGGCCAAAAGAGCTCA
1 TTTGGCCAAAAGAGCTCA
* *
6329682 CTTTGGTCAATAGAGCTCA
1 -TTTGGCCAAAAGAGCTCA
6329701 TATTGGCCAA
1 T-TTGGCCAA
6329711 CTTGATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 1 0.04
19 23 0.96
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (18 bp):
TTTGGCCAAAAGAGCTCA
Found at i:6329881 original size:19 final size:19
Alignment explanation
Indices: 6329859--6329895 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6329849 AAAAATTTAG
6329859 CTTGATCAAAAAAGCTCAC
1 CTTGATCAAAAAAGCTCAC
*
6329878 CTTGATCAAAAGAGCTCA
1 CTTGATCAAAAAAGCTCA
6329896 TCTCAGCCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.22
Consensus pattern (19 bp):
CTTGATCAAAAAAGCTCAC
Found at i:6330255 original size:159 final size:159
Alignment explanation
Indices: 6329966--6330260 Score: 380
Period size: 159 Copynumber: 1.9 Consensus size: 159
6329956 GGTTGCCTTT
** * * * * *
6329966 GCCAAAAGAGCTCACCTTGATCTAAAGAGCTTATCTCGATCACCTTAGCTAAAAAGTTTATCTTA
1 GCCAAAAGAGCTCACCTCAATCAAAAGAGCTCATCTCAATCACCTTAGCCAAAAAGCTTATCTTA
* * * * *
6330031 GTAAATTGACTTCATAAAGGTTTAGTTGGGCCACTTCGACTAAAAGAGCTTAGCTCGATCAAAAG
66 GTAAATTGACTTCATAAAGGCTTAGTTGAGCCACCTCAACTAAAAGAGCTTAGCTCAATCAAAAG
6330096 AGCTCACATTAGACAAAGTGATTAGCTTA
131 AGCTCACATTAGACAAAGTGATTAGCTTA
* * * *
6330125 GCCAAAAGAGCTCACCTCAATCAAAAGAGCTCATCTTAATCATCTT-GACCAAAGAGCTTATTTT
1 GCCAAAAGAGCTCACCTCAATCAAAAGAGCTCATCTCAATCACCTTAG-CCAAAAAGCTTATCTT
* *
6330189 GGTAAATT-ACATTCATAAAGGCTTAGTTGAGCCACCTCAACTAAAATAGCTTAGCTCAA-CTAA
65 AGTAAATTGAC-TTCATAAAGGCTTAGTTGAGCCACCTCAACTAAAAGAGCTTAGCTCAATC-AA
6330252 AAGAGCTCA
128 AAGAGCTCA
6330261 TCTCGACCAA
Statistics
Matches: 115, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
158 4 0.03
159 111 0.97
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (159 bp):
GCCAAAAGAGCTCACCTCAATCAAAAGAGCTCATCTCAATCACCTTAGCCAAAAAGCTTATCTTA
GTAAATTGACTTCATAAAGGCTTAGTTGAGCCACCTCAACTAAAAGAGCTTAGCTCAATCAAAAG
AGCTCACATTAGACAAAGTGATTAGCTTA
Found at i:6330504 original size:19 final size:18
Alignment explanation
Indices: 6330454--6330510 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 18
6330444 TAGTTGGACC
6330454 ACCTTAACTAAAAATAGCTT
1 ACCTTAAC-AAAAA-AGCTT
* *
6330474 AACTTGACCAAAAAAGCTT
1 ACCTT-AACAAAAAAGCTT
*
6330493 ACCTTAATCAAAAGAGCT
1 ACCTTAA-CAAAAAAGCT
6330511 CATCTCGATC
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
18 1 0.03
19 18 0.60
20 9 0.30
21 2 0.07
ACGTcount: A:0.46, C:0.21, G:0.09, T:0.25
Consensus pattern (18 bp):
ACCTTAACAAAAAAGCTT
Found at i:6330621 original size:19 final size:19
Alignment explanation
Indices: 6330599--6330638 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6330589 AGAGCTCAAC
*
6330599 TTAGTAAAAAAAGTTCACT
1 TTAGTAAAAAAAGCTCACT
* *
6330618 TTAGTCAAAAGAGCTCACT
1 TTAGTAAAAAAAGCTCACT
6330637 TT
1 TT
6330639 GGACAAAGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (19 bp):
TTAGTAAAAAAAGCTCACT
Found at i:6330645 original size:19 final size:18
Alignment explanation
Indices: 6330623--6330695 Score: 67
Period size: 19 Copynumber: 3.9 Consensus size: 18
6330613 TCACTTTAGT
*
6330623 CAAAAGAGCTCACTTTGGA
1 CAAAAGAGCTCACCTT-GA
* * * *
6330642 C-AAAGTGATTAGCTTGA
1 CAAAAGAGCTCACCTTGA
6330659 CCAAAAGAGCTCACCTTGA
1 -CAAAAGAGCTCACCTTGA
6330678 CCAAAAGAGCTCACCTTG
1 -CAAAAGAGCTCACCTTG
6330696 GACTAAGTGA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
17 2 0.05
18 10 0.23
19 31 0.72
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.21
Consensus pattern (18 bp):
CAAAAGAGCTCACCTTGA
Found at i:6332089 original size:62 final size:63
Alignment explanation
Indices: 6331991--6332225 Score: 249
Period size: 63 Copynumber: 3.7 Consensus size: 63
6331981 TAATACTTTT
* * * * *
6331991 AACGCCTTAATTGATTTATTTTAAAATTTATAAAATAAATAAATTAAAATATTTTTGAACCCG
1 AACGCCTTAATTGATTTATTTTAAAATTTATAAAACAAATCAATTAAGATATTTTTGAACACA
* * * * * * *
6332054 AACGCCTTAATTGA-TTCTTTTAAAATTTATAAAATAGATCAATTAAGACATTTGTGAATAAA
1 AACGCCTTAATTGATTTATTTTAAAATTTATAAAACAAATCAATTAAGATATTTTTGAACACA
* * * * * *
6332116 AATGCCTTAATTAATTTGTTTTAAAAATTATAAAACAAATCAATTAAGGTATTTTTCAACACA
1 AACGCCTTAATTGATTTATTTTAAAATTTATAAAACAAATCAATTAAGATATTTTTGAACACA
** * *
6332179 AACATCTTAATTGATCTATTTTATAACTTT-TAAAACAAATCAATTAA
1 AACGCCTTAATTGATTTATTTTA-AAATTTATAAAACAAATCAATTAA
6332226 TACGTTCAAA
Statistics
Matches: 140, Mismatches: 30, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
62 50 0.36
63 86 0.61
64 4 0.03
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.39
Consensus pattern (63 bp):
AACGCCTTAATTGATTTATTTTAAAATTTATAAAACAAATCAATTAAGATATTTTTGAACACA
Found at i:6332147 original size:125 final size:126
Alignment explanation
Indices: 6331994--6332225 Score: 297
Period size: 125 Copynumber: 1.8 Consensus size: 126
6331984 TACTTTTAAC
* * * * * * *
6331994 GCCTTAATTGATTTATTTTAAAATTTATAAAATAAATAAATTAAAATATTTTTGAACCCGAACGC
1 GCCTTAATTAATTTATTTTAAAAATTATAAAACAAATAAATTAAAATATTTTTCAACACAAACAC
* * *
6332059 CTTAATTGAT-TCTTTTA-AAATTTATAAAATAGATCAATTAAGACATTTGTGAATAAAAAT
66 CTTAATTGATCTATTTTATAAATTT-TAAAACAAATCAATTAAGACATTTGTGAATAAAAAT
* * ** *
6332119 GCCTTAATTAATTTGTTTTAAAAATTATAAAACAAATCAATTAAGGTATTTTTCAACACAAACAT
1 GCCTTAATTAATTTATTTTAAAAATTATAAAACAAATAAATTAAAATATTTTTCAACACAAACAC
*
6332184 CTTAATTGATCTATTTTATAACTTTTAAAACAAATCAATTAA
66 CTTAATTGATCTATTTTATAAATTTTAAAACAAATCAATTAA
6332226 TACGTTCAAA
Statistics
Matches: 89, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
125 63 0.71
126 21 0.24
127 5 0.06
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.39
Consensus pattern (126 bp):
GCCTTAATTAATTTATTTTAAAAATTATAAAACAAATAAATTAAAATATTTTTCAACACAAACAC
CTTAATTGATCTATTTTATAAATTTTAAAACAAATCAATTAAGACATTTGTGAATAAAAAT
Found at i:6365039 original size:27 final size:27
Alignment explanation
Indices: 6364980--6365032 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
6364970 ACTTTACATC
**
6364980 AGCTTTATGTCAAGTTTACTTTATGTT
1 AGCTTTATGTCAAGTTTAAGTTATGTT
* *
6365007 AGCTTTATGTCTATTTTAAGTTATGT
1 AGCTTTATGTCAAGTTTAAGTTATGT
6365033 CTACTTTTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.09, G:0.15, T:0.53
Consensus pattern (27 bp):
AGCTTTATGTCAAGTTTAAGTTATGTT
Found at i:6368009 original size:18 final size:19
Alignment explanation
Indices: 6367982--6368019 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
6367972 AATCTATATC
6367982 TAAAAATTTTT-TAAAGTT
1 TAAAAATTTTTATAAAGTT
*
6368000 TAAAATTTTTTATAAAGTT
1 TAAAAATTTTTATAAAGTT
6368019 T
1 T
6368020 TTCCGGTTAC
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:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
TAAAAATTTTTATAAAGTT
Found at i:6369683 original size:26 final size:26
Alignment explanation
Indices: 6369620--6369687 Score: 86
Period size: 26 Copynumber: 2.6 Consensus size: 26
6369610 TTAACATAAC
*
6369620 TATT-AAAATATTAAAAATTATTTAT
1 TATTAAAAATATTAAAAATTATTTAA
6369645 TATTAAAATATATTAAAAATT-TTTAA
1 TATTAAAA-ATATTAAAAATTATTTAA
*
6369671 TATTATATAATATTAAA
1 TATTA-AAAATATTAAA
6369688 CACTTAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
25 4 0.11
26 20 0.53
27 14 0.37
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
TATTAAAAATATTAAAAATTATTTAA
Found at i:6369830 original size:24 final size:22
Alignment explanation
Indices: 6369788--6369832 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
6369778 TTTAATAAAT
*
6369788 ATTAAAAATAATAATATTTATG
1 ATTAAAAATAAAAATATTTATG
6369810 ATTAAAATATTAAAAATATTTAT
1 ATTAAAA-A-TAAAAATATTTAT
6369833 ACTATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 1 0.05
24 12 0.60
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
ATTAAAAATAAAAATATTTATG
Found at i:6369844 original size:17 final size:18
Alignment explanation
Indices: 6369817--6369850 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6369807 ATGATTAAAA
*
6369817 TATTAAAAATATTTATAC
1 TATTAAAAATAGTTATAC
6369835 TATT-AAAATAGTTATA
1 TATTAAAAATAGTTATA
6369851 TTTTATATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
TATTAAAAATAGTTATAC
Found at i:6371832 original size:2 final size:2
Alignment explanation
Indices: 6371825--6371857 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6371815 TAACAAATGT
6371825 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6371858 TTTAAATGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6375176 original size:16 final size:15
Alignment explanation
Indices: 6375154--6375213 Score: 63
Period size: 16 Copynumber: 4.1 Consensus size: 15
6375144 ATATCATGTA
6375154 AAATATTATATTTAT
1 AAATATTATATTTAT
6375169 ATAATATT-T-TTTAT
1 A-AATATTATATTTAT
*
6375183 AAAAATTATATATTAT
1 AAATATTATAT-TTAT
*
6375199 AAAT-TTAAATTTAT
1 AAATATTATATTTAT
6375213 A
1 A
6375214 TAAAAATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
13 5 0.13
14 12 0.32
15 8 0.21
16 13 0.34
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AAATATTATATTTAT
Found at i:6375256 original size:17 final size:15
Alignment explanation
Indices: 6375234--6375283 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 15
6375224 AAATATAATT
6375234 TTTTAAATTTTATTAAA
1 TTTTAAATTTTATT--A
*
6375251 TTTTAAATTATATTA
1 TTTTAAATTTTATTA
6375266 TTTTAAAATTTT-TTA
1 TTTT-AAATTTTATTA
6375281 TTT
1 TTT
6375284 ATATGATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 11 0.37
16 6 0.20
17 13 0.43
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTTAAATTTTATTA
Done.