Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 47 of 147
Found at i:9491231 original size:21 final size:18
Alignment explanation
Indices: 9491191--9491228 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
9491181 CTAAATATAT
*
9491191 ATTTTATTATTTATTTTA
1 ATTTTATTATTTATATTA
*
9491209 ATTTTATTA-TTATAATA
1 ATTTTATTATTTATATTA
9491226 ATT
1 ATT
9491229 AATATTATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTTATTATTTATATTA
Found at i:9491927 original size:146 final size:148
Alignment explanation
Indices: 9491658--9491927 Score: 346
Period size: 146 Copynumber: 1.8 Consensus size: 148
9491648 TAATTGAATC
* ****
9491658 AAATATGAATAAATTTTATTATATTTATAATCGATTATTTAATTAAATTTTTTTTAAAATATTAC
1 AAATATAAATAAATTTTATTATATTTATAAT--ATTATTTAATTAAATAAAATTTAAAATATTAC
* * * * ***
9491723 TCGTAATTGTTTGTTAATTTTAATAAATTAATATAAATAAACAAAAAATAAGTTTATTTTTAAAT
64 TCGTAATTATTTATTAAATTTAATAAATAAATATAAATAAACAAAAAATAAAAATATTTTTAAAT
9491788 TGTTCATTAAACACTTAATT
129 TGTTCATTAAACACTTAATT
* *
9491808 AAATATAAATGAATTTTATTATATTTATAAT-TTATTTAATT-AATAAAATTTAAAATATTACTT
1 AAATATAAATAAATTTTATTATATTTATAATATTATTTAATTAAATAAAATTTAAAATATTACTC
* * * *
9491871 GTGATTATTTATTAAATTTATTAAATAAATATAAATAAATAAAAATTAAAAATATTT
66 GTAATTATTTATTAAATTTAATAAATAAATATAAATAAACAAAAAATAAAAATATTT
9491928 ACGAATTATT
Statistics
Matches: 102, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
146 63 0.62
147 10 0.10
150 29 0.28
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (148 bp):
AAATATAAATAAATTTTATTATATTTATAATATTATTTAATTAAATAAAATTTAAAATATTACTC
GTAATTATTTATTAAATTTAATAAATAAATATAAATAAACAAAAAATAAAAATATTTTTAAATTG
TTCATTAAACACTTAATT
Found at i:9495049 original size:12 final size:12
Alignment explanation
Indices: 9495034--9495073 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
9495024 CAATTTATAT
9495034 TTTTTATTAAAA
1 TTTTTATTAAAA
9495046 TTTTTATT-AAA
1 TTTTTATTAAAA
*
9495057 TTATTTTTTAAAA
1 TT-TTTATTAAAA
9495070 TTTT
1 TTTT
9495074 CATAAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 5 0.20
12 15 0.60
13 5 0.20
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTTTATTAAAA
Found at i:9495072 original size:24 final size:24
Alignment explanation
Indices: 9495035--9495081 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
9495025 AATTTATATT
*
9495035 TTTTATTAAAATTTTTATTAAATTA
1 TTTTATTAAAATTTTCA-TAAATTA
9495060 TTTT-TTAAAATTTTCATAAATT
1 TTTTATTAAAATTTTCATAAATT
9495082 TTATCTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 11 0.52
25 4 0.19
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTTATTAAAATTTTCATAAATTA
Found at i:9500827 original size:13 final size:13
Alignment explanation
Indices: 9500809--9500833 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9500799 AACCCTAATA
9500809 ATAAATATTTTAC
1 ATAAATATTTTAC
9500822 ATAAATATTTTA
1 ATAAATATTTTA
9500834 AACAAATAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
ATAAATATTTTAC
Found at i:9501362 original size:2 final size:2
Alignment explanation
Indices: 9501316--9501346 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9501306 TCGAGTATTT
9501316 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9501347 TCAATTCTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9504760 original size:12 final size:12
Alignment explanation
Indices: 9504743--9504779 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
9504733 CCCTACATCT
9504743 TCTTCAGATTCA
1 TCTTCAGATTCA
9504755 TCTTCAGATTCA
1 TCTTCAGATTCA
9504767 TCTTCAGATTCA
1 TCTTCAGATTCA
9504779 T
1 T
9504780 GTTTCTCCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.43
Consensus pattern (12 bp):
TCTTCAGATTCA
Found at i:9506236 original size:19 final size:19
Alignment explanation
Indices: 9506201--9506237 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9506191 CTTGTCGAAC
*
9506201 TTTTCTTTTACTTTAATTT
1 TTTTCTTTTACTGTAATTT
*
9506220 TTTTCTTTTCCTGTAATT
1 TTTTCTTTTACTGTAATT
9506238 ATCACAACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.14, C:0.14, G:0.03, T:0.70
Consensus pattern (19 bp):
TTTTCTTTTACTGTAATTT
Found at i:9510975 original size:204 final size:202
Alignment explanation
Indices: 9510637--9511008 Score: 452
Period size: 204 Copynumber: 1.8 Consensus size: 202
9510627 TATTTTTTAA
* *
9510637 AATAAATCTTATAAAATAATAATAAAATAAATAAAAAAATAAAAATTTTATCCGACGATGAGATT
1 AATAAATCTAATAAAACAATAATAAAATAAATAAAAAAATAAAAATTTTATCCGACGATGAGATT
* * * * *
9510702 TAAAGGTACTCCGAATAATAATGTCTATAAAATTTTTAGGTGAAATTTTTTTTAAATACTACTAG
66 TAAAAGTACTCCGAATAATAATGTCTATAAAATTTCTAAGTGAAATTTTTTTTAAATAATACCAG
* *
9510767 TGTATTTGAGTATTTATAAAAAAGT-TTTCAATATAATAATTTTTTAATTATAAAATAATAAATT
131 TGTATTGGAATATTTATAAAAAA-TATTT-AATATAATAATTTTTTAATTATAAAATAATAAATT
9510831 AAATTAACC
194 AAATTAACC
* *
9510840 AATAAAT-TAATAAAACAATAA-AAAATAAATAAGAAAA-AAAAATTTTAT-CGAAGGATGAGAT
1 AATAAATCTAATAAAACAATAATAAAATAAATAAAAAAATAAAAATTTTATCCG-ACGATGAGAT
* * * * *
9510901 TCTAAAAGTATTTCGAGT-ATAGATG-CTTTAAGAAATTTCTAAGTGAGAATATTTTTTTTAATA
65 T-TAAAAGTACTCCGAATAATA-ATGTCTAT-A-AAATTTCTAAGTGA-AAT-TTTTTTTAAATA
* *
9510964 ATACCAGTGTATTGGAATGTTTATAGAAAATATTTAATATAATAA
124 ATACCAGTGTATTGGAATATTTATAAAAAATATTTAATATAATAA
9511009 AATTCATATT
Statistics
Matches: 143, Mismatches: 18, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
199 2 0.01
200 27 0.19
201 31 0.22
202 24 0.17
203 21 0.15
204 38 0.27
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (202 bp):
AATAAATCTAATAAAACAATAATAAAATAAATAAAAAAATAAAAATTTTATCCGACGATGAGATT
TAAAAGTACTCCGAATAATAATGTCTATAAAATTTCTAAGTGAAATTTTTTTTAAATAATACCAG
TGTATTGGAATATTTATAAAAAATATTTAATATAATAATTTTTTAATTATAAAATAATAAATTAA
ATTAACC
Found at i:9511588 original size:18 final size:18
Alignment explanation
Indices: 9511565--9511603 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
9511555 TTTTATTAAA
*
9511565 ATTATGGGGATACAAATC
1 ATTATGAGGATACAAATC
9511583 ATTATGAGGATACAAATC
1 ATTATGAGGATACAAATC
9511601 ATT
1 ATT
9511604 CCTCACGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (18 bp):
ATTATGAGGATACAAATC
Found at i:9511611 original size:133 final size:133
Alignment explanation
Indices: 9511451--9511698 Score: 451
Period size: 133 Copynumber: 1.9 Consensus size: 133
9511441 TAAATGATCG
* **
9511451 TTATGGGGATACAAATCATTCCTCACGTATAATCGACTTCCGAACCCAAGTCGTTTCGCAGACCA
1 TTATGAGGATACAAATCATTCCTCACGTATAATCGACTTCCGAACCCAAACCGTTTCGCAGACCA
9511516 TAAAAATATCTTTTTAATATATTTTAATTAATTTTAATATTTTATTAAAATTATGGGGATACAAA
66 TAAAAATATCTTTTTAATATATTTTAATTAATTTTAATATTTTATTAAAATTATGGGGATACAAA
9511581 TCA
131 TCA
* *
9511584 TTATGAGGATACAAATCATTCCTCACGTATAATCGATTTTCGAACCCAAACCGTTTCGCAGACCA
1 TTATGAGGATACAAATCATTCCTCACGTATAATCGACTTCCGAACCCAAACCGTTTCGCAGACCA
9511649 TAAAAATATCTTTTTAATATATTTTAATTAATTTTAATATTTTATTAAAA
66 TAAAAATATCTTTTTAATATATTTTAATTAATTTTAATATTTTATTAAAA
9511699 GGATATGTTT
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
133 110 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.38
Consensus pattern (133 bp):
TTATGAGGATACAAATCATTCCTCACGTATAATCGACTTCCGAACCCAAACCGTTTCGCAGACCA
TAAAAATATCTTTTTAATATATTTTAATTAATTTTAATATTTTATTAAAATTATGGGGATACAAA
TCA
Found at i:9512462 original size:9 final size:9
Alignment explanation
Indices: 9512448--9512487 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
9512438 TAAGTACACG
9512448 TTTAATATA
1 TTTAATATA
*
9512457 TTTAATACA
1 TTTAATATA
9512466 TTTAATATA
1 TTTAATATA
**
9512475 TTTTTTATA
1 TTTAATATA
9512484 TTTA
1 TTTA
9512488 TTTGAATTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTAATATA
Found at i:9513797 original size:29 final size:27
Alignment explanation
Indices: 9513728--9513799 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 27
9513718 AATTTTATGT
* *
9513728 TTATATCTATCTATTATATTAATAAAA
1 TTATATTTATATATTATATTAATAAAA
9513755 TTATTATTTAATATATTA-ATTTAATAAAA
1 TTA-TATTT-ATATATTATA-TTAATAAAA
9513784 TGTTATATTTATATAT
1 --TTATATTTATATAT
9513800 AGTTAAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
27 3 0.08
28 5 0.13
29 22 0.58
30 5 0.13
31 3 0.08
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (27 bp):
TTATATTTATATATTATATTAATAAAA
Found at i:9514321 original size:24 final size:24
Alignment explanation
Indices: 9514277--9514323 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
9514267 ACATTGTTTT
* *
9514277 ATTTTTATATTTTTTATTCATATC
1 ATTTTAATATTTTGTATTCATATC
9514301 ATTTTAATATTATTGTA-TCATAT
1 ATTTTAATATT-TTGTATTCATAT
9514324 TTAAGATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (24 bp):
ATTTTAATATTTTGTATTCATATC
Found at i:9514551 original size:21 final size:21
Alignment explanation
Indices: 9514527--9514566 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
9514517 ATAATAAAAA
9514527 TAAGA-TTAATTATTATAATAT
1 TAAGATTTAA-TATTATAATAT
9514548 TAAGATTTAATATTATAAT
1 TAAGATTTAATATTATAAT
9514567 GGTGAGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (21 bp):
TAAGATTTAATATTATAATAT
Found at i:9514574 original size:21 final size:22
Alignment explanation
Indices: 9514527--9514575 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
9514517 ATAATAAAAA
*
9514527 TAAGA-TTAATTATTATAATAT
1 TAAGATTTAATTATTATAATAG
*
9514548 TAAGATTTAA-TATTATAATGG
1 TAAGATTTAATTATTATAATAG
*
9514569 TGAGATT
1 TAAGATT
9514576 AAAATCAGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (22 bp):
TAAGATTTAATTATTATAATAG
Found at i:9515090 original size:15 final size:15
Alignment explanation
Indices: 9515072--9515114 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
9515062 AGTAATAAAA
9515072 ATTAATATAATTATT
1 ATTAATATAATTATT
* *
9515087 ATTAAAAAAATTATT
1 ATTAATATAATTATT
9515102 A-TAATTATAATTA
1 ATTAA-TATAATTA
9515115 AAAAATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 3 0.13
15 20 0.87
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTAATATAATTATT
Found at i:9515097 original size:24 final size:24
Alignment explanation
Indices: 9515068--9515119 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
9515058 AAATAGTAAT
*
9515068 AAAAATTAATATAATTATTATTAA
1 AAAAATTAATATAATTATAATTAA
*
9515092 AAAAATTATTATAATTATAATTAA
1 AAAAATTAATATAATTATAATTAA
9515116 AAAA
1 AAAA
9515120 TAAATTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAAATTAATATAATTATAATTAA
Found at i:9515147 original size:14 final size:14
Alignment explanation
Indices: 9515121--9515162 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
9515111 ATTAAAAAAT
*
9515121 AAATTT-TAATAAA
1 AAATTTATATTAAA
9515134 AAATTTATATTAAA
1 AAATTTATATTAAA
9515148 TAAATTTA-ATTAAA
1 -AAATTTATATTAAA
9515162 A
1 A
9515163 TTAAAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 7 0.27
14 12 0.46
15 7 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AAATTTATATTAAA
Found at i:9515173 original size:27 final size:28
Alignment explanation
Indices: 9515117--9515175 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
9515107 TATAATTAAA
* *
9515117 AAATAAATTTTAATAAAAAATTTATATT
1 AAATAAATTTTAATAAAAAATTAAAATT
*
9515145 AAATAAA-TTTAAT-TAAAATTAAAATTT
1 AAATAAATTTTAATAAAAAATTAAAA-TT
9515172 AAAT
1 AAAT
9515176 TTAATTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 8 0.30
27 12 0.44
28 7 0.26
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
AAATAAATTTTAATAAAAAATTAAAATT
Found at i:9520268 original size:29 final size:31
Alignment explanation
Indices: 9520225--9520301 Score: 88
Period size: 29 Copynumber: 2.5 Consensus size: 31
9520215 TCAATAAATT
**
9520225 TATAATTTTGATATC-TCATTAAAAATTTTAA
1 TATAATTTAAATATCAT-ATTAAAAATTTTAA
*
9520256 -A-AATTTAAATATCATATTAAATATTTTAA
1 TATAATTTAAATATCATATTAAAAATTTTAA
*
9520285 TATAATTTAAAAATCAT
1 TATAATTTAAATATCAT
9520302 GATATTAACC
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 23 0.59
30 3 0.08
31 13 0.33
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.45
Consensus pattern (31 bp):
TATAATTTAAATATCATATTAAAAATTTTAA
Found at i:9521479 original size:31 final size:31
Alignment explanation
Indices: 9521412--9521479 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
9521402 TAAAAAAATT
*
9521412 ATTTTATATTAATATAAATTATAATACATAA
1 ATTTTATATAAATATAAATTATAATACATAA
* *
9521443 TTTTTATATAAA-ATATAA-TATAATTATATAA
1 ATTTTATATAAATATA-AATTATAA-TACATAA
9521474 ATTTTA
1 ATTTTA
9521480 ATATTTTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
30 8 0.26
31 23 0.74
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (31 bp):
ATTTTATATAAATATAAATTATAATACATAA
Found at i:9522049 original size:21 final size:22
Alignment explanation
Indices: 9522008--9522049 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9521998 TTAATTTTTA
*
9522008 ATAAAAATTAAATATACGTTTG
1 ATAAAAATTAAATAAACGTTTG
*
9522030 ATAAAAATTAAA-AAATGTTT
1 ATAAAAATTAAATAAACGTTT
9522050 TACATATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (22 bp):
ATAAAAATTAAATAAACGTTTG
Found at i:9523435 original size:52 final size:52
Alignment explanation
Indices: 9523379--9523484 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
9523369 TCATTTTAAG
9523379 TAAGTTTTTAAAAATTATTAATTGTTTTATATTTATTTTGATGATTGATATT
1 TAAGTTTTTAAAAATTATTAATTGTTTTATATTTATTTTGATGATTGATATT
9523431 TAAGTTTTTAAAAATTATTAATTGTTTTATATTTATTTTGATGATTGATATT
1 TAAGTTTTTAAAAATTATTAATTGTTTTATATTTATTTTGATGATTGATATT
9523483 TA
1 TA
9523485 TTTATTAATA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (52 bp):
TAAGTTTTTAAAAATTATTAATTGTTTTATATTTATTTTGATGATTGATATT
Found at i:9523502 original size:52 final size:52
Alignment explanation
Indices: 9523379--9523502 Score: 198
Period size: 52 Copynumber: 2.4 Consensus size: 52
9523369 TCATTTTAAG
*
9523379 TAAGTTTTTAAAAATTATTAATTGTTTTATATTTATTTTGATGATTGATATT
1 TAAGTTTTTAAAAAATATTAATTGTTTTATATTTATTTTGATGATTGATATT
*
9523431 TAAGTTTTTAAAAATTATTAATTGTTTTATATTTATTTTGATGATTGATATT
1 TAAGTTTTTAAAAAATATTAATTGTTTTATATTTATTTTGATGATTGATATT
9523483 T-A-TTTATTAATAAAATATTA
1 TAAGTTT-TTAA-AAAATATTA
9523503 TCATTTAATT
Statistics
Matches: 69, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
50 3 0.04
51 5 0.07
52 61 0.88
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.56
Consensus pattern (52 bp):
TAAGTTTTTAAAAAATATTAATTGTTTTATATTTATTTTGATGATTGATATT
Found at i:9525450 original size:13 final size:13
Alignment explanation
Indices: 9525412--9525465 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
9525402 TATTGATTTG
*
9525412 TAATTTATAATTTA
1 TAATTT-TAATATA
*
9525426 TAATTTTTATATA
1 TAATTTTAATATA
*
9525439 TTATTTTAATATA
1 TAATTTTAATATA
* *
9525452 AAAATTTAATATA
1 TAATTTTAATATA
9525465 T
1 T
9525466 TTAAATAAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
13 26 0.81
14 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAATTTTAATATA
Found at i:9525534 original size:18 final size:19
Alignment explanation
Indices: 9525503--9525544 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
9525493 TTTTTTATTT
*
9525503 TATAAAAATTTAAAATATA
1 TATAAAAATATAAAATATA
*
9525522 TATAAAAA-ATAAAATGTA
1 TATAAAAATATAAAATATA
9525540 TATAA
1 TATAA
9525545 TTTGATTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
TATAAAAATATAAAATATA
Found at i:9525593 original size:11 final size:11
Alignment explanation
Indices: 9525577--9525627 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
9525567 TTTACTTTTA
*
9525577 AAATTTGATTT
1 AAATTTAATTT
*
9525588 AAATTTAATAT
1 AAATTTAATTT
*
9525599 ATATTTAATATTT
1 AAATTT-A-ATTT
9525612 AAATTTAATTT
1 AAATTTAATTT
9525623 AAATT
1 AAATT
9525628 AAATAAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
11 23 0.70
12 2 0.06
13 8 0.24
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (11 bp):
AAATTTAATTT
Found at i:9525632 original size:24 final size:24
Alignment explanation
Indices: 9525584--9525632 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
9525574 TTAAAATTTG
* *
9525584 ATTTAAATTTAATATATATTTAAT
1 ATTTAAATTTAATATAAATTAAAT
*
9525608 ATTTAAATTTAATTTAAATTAAAT
1 ATTTAAATTTAATATAAATTAAAT
9525632 A
1 A
9525633 AAAAATTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
ATTTAAATTTAATATAAATTAAAT
Found at i:9525642 original size:35 final size:35
Alignment explanation
Indices: 9525577--9525644 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
9525567 TTTACTTTTA
* * * * *
9525577 AAATTTGATTTAAATTTAATATATATTTAATATTT
1 AAATTTAATTTAAATTAAATAAAAAATTAATATTT
9525612 AAATTTAATTTAAATTAAATAAAAAATTAATAT
1 AAATTTAATTTAAATTAAATAAAAAATTAATAT
9525645 CAAATAATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (35 bp):
AAATTTAATTTAAATTAAATAAAAAATTAATATTT
Found at i:9526340 original size:16 final size:17
Alignment explanation
Indices: 9526313--9526346 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
9526303 ACAAAATATT
*
9526313 TTTTATTATTTATTTAA
1 TTTTATTATTTATATAA
9526330 TTTTA-TATTTATATAA
1 TTTTATTATTTATATAA
9526346 T
1 T
9526347 ATATTAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTATTATTTATATAA
Found at i:9526997 original size:9 final size:9
Alignment explanation
Indices: 9526985--9527012 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
9526975 CTTGCAGCCA
9526985 TTGCCAACT
1 TTGCCAACT
9526994 TTGCCAACT
1 TTGCCAACT
9527003 TTGCCAACT
1 TTGCCAACT
9527012 T
1 T
9527013 CGCCTGCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.32, G:0.11, T:0.36
Consensus pattern (9 bp):
TTGCCAACT
Found at i:9527179 original size:2 final size:2
Alignment explanation
Indices: 9527174--9527214 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
9527164 TATATATATA
9527174 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
9527215 CGAAACTATC
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:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:9530716 original size:4 final size:4
Alignment explanation
Indices: 9530707--9530755 Score: 50
Period size: 4 Copynumber: 13.0 Consensus size: 4
9530697 AGACTTAAAG
* * *
9530707 ATTT ATTT ATTT ATTT ATCT -TTT ATAT A-TT ATTT -GTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
9530752 ATTT
1 ATTT
9530756 CTTCTTCTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
3 6 0.17
4 30 0.83
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:9531760 original size:26 final size:24
Alignment explanation
Indices: 9531692--9531762 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 24
9531682 AATAAATATT
9531692 AATTATCTAATGATGAAATTTATAAA
1 AATT-TCTAATGA-GAAATTTATAAA
* *
9531718 AATTTCAAATG-GTAAATTTCTATAA
1 AATTTCTAATGAG-AAATTTATA-AA
9531743 AATTTCTAAGTGAGAAATTT
1 AATTTCTAA-TGAGAAATTT
9531763 TATCTAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 1 0.03
24 8 0.21
25 16 0.42
26 12 0.32
27 1 0.03
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (24 bp):
AATTTCTAATGAGAAATTTATAAA
Found at i:9538383 original size:31 final size:33
Alignment explanation
Indices: 9538329--9538394 Score: 109
Period size: 31 Copynumber: 2.1 Consensus size: 33
9538319 ATAATGAATG
9538329 GAAAAAATGAAAAAAAAATAAAAAATAAAAAAT
1 GAAAAAATGAAAAAAAAATAAAAAATAAAAAAT
*
9538362 GAAAAAAT-AAAAAAATA-AAAAAATAAAAAAT
1 GAAAAAATGAAAAAAAAATAAAAAATAAAAAAT
9538393 GA
1 GA
9538395 GAGTAAAGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 16 0.50
32 8 0.25
33 8 0.25
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (33 bp):
GAAAAAATGAAAAAAAAATAAAAAATAAAAAAT
Found at i:9538392 original size:7 final size:8
Alignment explanation
Indices: 9538330--9538391 Score: 81
Period size: 8 Copynumber: 7.6 Consensus size: 8
9538320 TAATGAATGG
9538330 AAAAAATGA
1 AAAAAAT-A
*
9538339 AAAAAAAA
1 AAAAAATA
9538347 TAAAAAAT-
1 -AAAAAATA
*
9538355 AAAAAATG
1 AAAAAATA
9538363 AAAAAATA
1 AAAAAATA
9538371 AAAAAATA
1 AAAAAATA
9538379 AAAAAATA
1 AAAAAATA
9538387 AAAAA
1 AAAAA
9538392 TGAGAGTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
7 7 0.15
8 29 0.60
9 12 0.25
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.11
Consensus pattern (8 bp):
AAAAAATA
Found at i:9539993 original size:45 final size:44
Alignment explanation
Indices: 9539863--9540142 Score: 318
Period size: 45 Copynumber: 6.3 Consensus size: 44
9539853 ATTGTCGATG
* * * *
9539863 AGCAATTTATTTTTTTTAAAGTTGTGGTTGCCTTTGTTTAGAGG
1 AGCAATTTATTTTTTTCAAAGTAGTGGTTGCCTCTGTTTAGAGA
*
9539907 AGCAATTTATTTTTTACAAAGTTA-TGG-TGACCTC-GTTTAGAGA
1 AGCAATTTATTTTTTTCAAAG-TAGTGGTTG-CCTCTGTTTAGAGA
* * *
9539950 AGCAATTTATTTTTTTCAAAGTCAATGGTTGCCTCTATTTAGAGG
1 AGCAATTTATTTTTTTCAAAGT-AGTGGTTGCCTCTGTTTAGAGA
* *
9539995 AGCAATTTATTTTTTTTCAAAATCAGTGGTTGCCTCTGTTTAGAGG
1 AGCAATTTA-TTTTTTTCAAAGT-AGTGGTTGCCTCTGTTTAGAGA
* * *
9540041 AGCAATTTATTTTTTCCAAAGTCAGTGATTGCTTCTGTTTAGAGA
1 AGCAATTTATTTTTTTCAAAGT-AGTGGTTGCCTCTGTTTAGAGA
* * *
9540086 AGTAATTTA-TTTTTTCAAAAGTTGTGG-TGCCTTTGTTTAGAGA
1 AGCAATTTATTTTTTTC-AAAGTAGTGGTTGCCTCTGTTTAGAGA
9540129 AGCAATTTATTTTT
1 AGCAATTTATTTTT
9540143 GAAATTGTGG
Statistics
Matches: 204, Mismatches: 23, Indels: 18
0.83 0.09 0.07
Matches are distributed among these distances:
42 1 0.00
43 53 0.26
44 45 0.22
45 63 0.31
46 42 0.21
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.45
Consensus pattern (44 bp):
AGCAATTTATTTTTTTCAAAGTAGTGGTTGCCTCTGTTTAGAGA
Found at i:9540117 original size:134 final size:132
Alignment explanation
Indices: 9539862--9540170 Score: 364
Period size: 134 Copynumber: 2.4 Consensus size: 132
9539852 GATTGTCGAT
* * *
9539862 GAGCAATTTATTTTTTTTAAAGTTGTGGTTGCCTTTGTTTAGAGGAGCAATTTATTTTTTACAAA
1 GAGCAATTTATTTTTTTTAAAATAGTGGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTACAAA
*
9539927 GTTATGGTGACCTCGTTTAGAGAAGCAATTTATTTTTTTCAAAGTCAATGGTTGCCTCTATTTAG
66 GTCATGGTGACCTCGTTTAGAGAAGCAATTTATTTTTTTCAAAGTCAATGGTTGCCTCTATTTAG
9539992 AG
131 AG
*
9539994 GAGCAATTTATTTTTTTTCAAAATCAGTGGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCCA
1 GAGCAATTTATTTTTTTT-AAAAT-AGTGGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTACA
* * * ** *
9540059 AAGTCAGTGATTG-CTTCTGTTTAGAGAAGTAATTTA-TTTTTTCAAAAGT-TGTGG-TGCCTTT
64 AAGTCA-TG-GTGACCTC-GTTTAGAGAAGCAATTTATTTTTTTC-AAAGTCAATGGTTGCCTCT
*
9540120 GTTTAGAG
125 ATTTAGAG
* * * *
9540128 AAGCAATTTA---TTTTTGAAATTGTGG-TGCCTCTGCTTAGAGGAG
1 GAGCAATTTATTTTTTTTAAAATAGTGGTTGCCTCTGTTTAGAGGAG
9540171 TTTTGTTTAT
Statistics
Matches: 155, Mismatches: 16, Indels: 16
0.83 0.09 0.09
Matches are distributed among these distances:
128 17 0.11
129 4 0.03
130 4 0.03
131 5 0.03
132 18 0.12
133 4 0.03
134 64 0.41
135 15 0.10
136 24 0.15
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.43
Consensus pattern (132 bp):
GAGCAATTTATTTTTTTTAAAATAGTGGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTACAAA
GTCATGGTGACCTCGTTTAGAGAAGCAATTTATTTTTTTCAAAGTCAATGGTTGCCTCTATTTAG
AG
Found at i:9540247 original size:44 final size:43
Alignment explanation
Indices: 9540154--9540261 Score: 126
Period size: 44 Copynumber: 2.5 Consensus size: 43
9540144 AAATTGTGGT
* * * *
9540154 GCCTCTGCTTAGAGGAGTTTTGTTTATTTTTCAAAGTCATTGA
1 GCCTCTACTTAAAGGAGCTTTGTTTATTTTTAAAAGTCATTGA
* * **
9540197 GCCTCTATTTATAGGAGCTTTGTTTATTTTTTAAAAGTTGTTGA
1 GCCTCTACTTAAAGGAGCTTTGTTTA-TTTTTAAAAGTCATTGA
*
9540241 GTCTCTACTTAAAGGAGCTTT
1 GCCTCTACTTAAAGGAGCTTT
9540262 AATAAAAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 22 0.41
44 32 0.59
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.45
Consensus pattern (43 bp):
GCCTCTACTTAAAGGAGCTTTGTTTATTTTTAAAAGTCATTGA
Found at i:9540446 original size:4 final size:4
Alignment explanation
Indices: 9540437--9540488 Score: 56
Period size: 4 Copynumber: 13.8 Consensus size: 4
9540427 AGGCCCAAAG
* * *
9540437 ATTT ATTT ATTT ATCT -TTT ATAT A-TT ATTT -GTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
9540482 ATTT ATT
1 ATTT ATT
9540489 CTTTTTTCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
3 6 0.15
4 33 0.85
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:9541456 original size:25 final size:25
Alignment explanation
Indices: 9541428--9541490 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
9541418 TTAATTATCC
9541428 AATGATGAAATTTATAGAAATT-TTA
1 AATGATGAAATTTATA-AAATTCTTA
*
9541453 AATGGT-AAATTTCTATAAAATTCTTA
1 AATGATGAAA-TT-TATAAAATTCTTA
9541479 AATGA-GAAATTT
1 AATGATGAAATTT
9541491 TGTCTAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
24 4 0.12
25 14 0.44
26 14 0.44
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.40
Consensus pattern (25 bp):
AATGATGAAATTTATAAAATTCTTA
Found at i:9541469 original size:26 final size:26
Alignment explanation
Indices: 9541428--9541490 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
9541418 TTAATTATCC
9541428 AATGATGAAA-TT-TATAGAAATT-TTA
1 AATGA-GAAATTTCTATA-AAATTCTTA
9541453 AATG-GTAAATTTCTATAAAATTCTTA
1 AATGAG-AAATTTCTATAAAATTCTTA
9541479 AATGAGAAATTT
1 AATGAGAAATTT
9541491 TGTCTAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
23 1 0.03
24 3 0.09
25 11 0.33
26 17 0.52
27 1 0.03
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.40
Consensus pattern (26 bp):
AATGAGAAATTTCTATAAAATTCTTA
Found at i:9541667 original size:25 final size:25
Alignment explanation
Indices: 9541638--9541698 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
9541628 TGATATTCTT
*
9541638 AGAAATTTTAAATGGTAAATTCCTA
1 AGAAATTTTAAATGATAAATTCCTA
* *
9541663 AGAAATTTCAAATGATAAATTCTTA
1 AGAAATTTTAAATGATAAATTCCTA
9541688 AGAAATATTTA
1 AGAAAT-TTTA
9541699 GGTGAGAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 28 0.90
26 3 0.10
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.36
Consensus pattern (25 bp):
AGAAATTTTAAATGATAAATTCCTA
Found at i:9543348 original size:15 final size:15
Alignment explanation
Indices: 9543330--9543361 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9543320 ATGTTATTCA
*
9543330 TTTTATTTTTTAATT
1 TTTTATTATTTAATT
9543345 TTTTATTATTTAATT
1 TTTTATTATTTAATT
9543360 TT
1 TT
9543362 CTCTTCTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTATTATTTAATT
Found at i:9543656 original size:20 final size:20
Alignment explanation
Indices: 9543633--9543672 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
9543623 TATAAATGAT
9543633 ATGGTAGATCTTACTTCTTC
1 ATGGTAGATCTTACTTCTTC
9543653 ATGGTAGATCTTACTTCTTC
1 ATGGTAGATCTTACTTCTTC
9543673 TTTCTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (20 bp):
ATGGTAGATCTTACTTCTTC
Found at i:9546329 original size:59 final size:57
Alignment explanation
Indices: 9546197--9546348 Score: 173
Period size: 59 Copynumber: 2.6 Consensus size: 57
9546187 TACTTTTGTA
* * * **
9546197 CAAGAAAAATTGATACTTTCAACTTTTTCTTAAAATATTTTTTAGAAATTTTAATTT
1 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAAATTTTTTAGAAAACTTAATTT
* *
9546254 CGAGGAAAATTAATACTTTCAACTTTTTCTCAAAAAATCCATTTTT-GAAAACTT-ATTCT
1 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAAAT---TTTTTAGAAAACTTAATT-T
* *
9546313 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA
1 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAA
9546349 TATATATTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
57 33 0.41
58 3 0.04
59 39 0.49
60 5 0.06
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.41
Consensus pattern (57 bp):
CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAAATTTTTTAGAAAACTTAATTT
Found at i:9546414 original size:6 final size:6
Alignment explanation
Indices: 9546398--9546533 Score: 50
Period size: 6 Copynumber: 21.8 Consensus size: 6
9546388 TAAAATTTTA
* * **
9546398 AAAAAT GAAAAT AAAAAT AAAAGAA AATTAAAT AAAAAT AAAAAGT ACTAA-
1 AAAAAT AAAAAT AAAAAT AAAA-AT AA--AAAT AAAAAT AAAAA-T AAAAAT
* * * *
9546449 ACAAAT ACAATAT AATAAAT --AAAT AATAAT AATAAAT AAATATAT AAATAT
1 AAAAAT A-AAAAT AA-AAAT AAAAAT AAAAAT AA-AAAT AAA-A-AT AAAAAT
*
9546500 ATAAA- AAAAAT -AAAAT AAAAAAT GAAAAA- AAAAA
1 AAAAAT AAAAAT AAAAAT -AAAAAT -AAAAAT AAAAA
9546534 ACTTGAAAAC
Statistics
Matches: 98, Mismatches: 17, Indels: 31
0.67 0.12 0.21
Matches are distributed among these distances:
4 4 0.04
5 18 0.18
6 36 0.37
7 30 0.31
8 8 0.08
9 2 0.02
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.21
Consensus pattern (6 bp):
AAAAAT
Found at i:9546471 original size:4 final size:4
Alignment explanation
Indices: 9546446--9546522 Score: 54
Period size: 4 Copynumber: 19.2 Consensus size: 4
9546436 TAAAAAGTAC
* *
9546446 TAAA CAAA TACAA TATAA TAAA TAAA T-AA T-AA T-AA TAAA TAAA TATA
1 TAAA TAAA TA-AA TA-AA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
* *
9546493 TAAA TATA TAAAA AAAA TAAAA TAAA -AAA T
1 TAAA TAAA T-AAA TAAA T-AAA TAAA TAAA T
9546523 GAAAAAAAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
3 12 0.20
4 33 0.56
5 14 0.24
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:9546527 original size:8 final size:7
Alignment explanation
Indices: 9546376--9546534 Score: 53
Period size: 8 Copynumber: 21.4 Consensus size: 7
9546366 TTATTTAAAG
9546376 AAAATAA
1 AAAATAA
9546383 AATAATAA
1 AA-AATAA
**
9546391 AATTTTAA
1 AA-AATAA
*
9546399 AAAAT-G
1 AAAATAA
9546405 AAAAT-A
1 AAAATAA
9546411 AAAATAA
1 AAAATAA
9546418 AAGAA-AA
1 AA-AATAA
*
9546425 TTAAAT-A
1 -AAAATAA
9546432 AAAATAA
1 AAAATAA
9546439 AAAGTACTAA
1 AAA--A-TAA
9546449 ACAAATACA
1 A-AAATA-A
9546458 ATATAATAA
1 A-A-AATAA
9546467 ATAAAT-A
1 A-AAATAA
*
9546474 ATAATAA
1 AAAATAA
*
9546481 TAAATAA
1 AAAATAA
*
9546488 ATATATAA
1 A-AAATAA
*
9546496 ATATATAA
1 A-AAATAA
9546504 AAAA-AA
1 AAAATAA
9546510 TAAAATAA
1 -AAAATAA
9546518 AAAATGAA
1 AAAAT-AA
9546526 AAAA-AA
1 AAAATAA
9546532 AAA
1 AAA
9546535 CTTGAAAACG
Statistics
Matches: 120, Mismatches: 15, Indels: 35
0.71 0.09 0.21
Matches are distributed among these distances:
6 24 0.20
7 34 0.28
8 43 0.36
9 9 0.08
10 8 0.07
11 2 0.02
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.22
Consensus pattern (7 bp):
AAAATAA
Found at i:9546534 original size:13 final size:12
Alignment explanation
Indices: 9546397--9546534 Score: 51
Period size: 13 Copynumber: 10.5 Consensus size: 12
9546387 ATAAAATTTT
*
9546397 AAAAAATGAAAA
1 AAAAAATAAAAA
*
9546409 TAAAAATAAAAGA
1 AAAAAATAAAA-A
9546422 AAATTAAATAAAAA
1 AAA--AAATAAAAA
9546436 TAAAAAGTACTAAACAA
1 -AAAAA--A-TAAA-AA
* * *
9546453 ATACAATATAATA
1 AAAAAATA-AAAA
* *
9546466 AATAAATAATAAT
1 AAAAAATAA-AAA
* *
9546479 AATAAATAAATA
1 AAAAAATAAAAA
* * *
9546491 TATAAATATATAA
1 AAAAAATA-AAAA
*
9546504 AAAAAATAAAAT
1 AAAAAATAAAAA
9546516 AAAAAATGAAAAA
1 AAAAAAT-AAAAA
9546529 AAAAAA
1 AAAAAA
9546535 CTTGAAAACG
Statistics
Matches: 93, Mismatches: 21, Indels: 23
0.68 0.15 0.17
Matches are distributed among these distances:
12 27 0.29
13 41 0.44
14 4 0.04
15 12 0.13
16 7 0.08
17 2 0.02
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (12 bp):
AAAAAATAAAAA
Found at i:9547381 original size:21 final size:21
Alignment explanation
Indices: 9547355--9547457 Score: 72
Period size: 21 Copynumber: 5.0 Consensus size: 21
9547345 AAAAATCAAA
9547355 TAAAAAATATTAATAGATAAT
1 TAAAAAATATTAATAGATAAT
* *
9547376 TAAAAAA-A-AAATAAGATAAA
1 TAAAAAATATTAAT-AGATAAT
*
9547396 T-CAAAATATTAATAGATAAAT
1 TAAAAAATATTAATAGAT-AAT
*
9547417 GAAAATAA-A-TAATAGATAAAT
1 TAAAA-AATATTAATAGAT-AAT
* * *
9547438 TATAATATATAAATAGATAA
1 TAAAAAATATTAATAGATAA
9547458 ATAATAATAA
Statistics
Matches: 63, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
19 7 0.11
20 14 0.22
21 30 0.48
22 10 0.16
23 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.28
Consensus pattern (21 bp):
TAAAAAATATTAATAGATAAT
Found at i:9547401 original size:20 final size:20
Alignment explanation
Indices: 9547366--9547468 Score: 84
Period size: 21 Copynumber: 5.0 Consensus size: 20
9547356 AAAAAATATT
* *
9547366 AATAGAT-AATTAAAAAAAA
1 AATAGATAAATCAAAATAAA
**
9547385 AATAAGATAAATCAAAATATT
1 AAT-AGATAAATCAAAATAAA
*
9547406 AATAGATAAATGAAAATAAA
1 AATAGATAAATCAAAATAAA
* *
9547426 TAATAGATAAATTATAATATATA
1 -AATAGATAAATCA-AA-ATAAA
9547449 AATAGATAAAT-AATAATAAA
1 AATAGATAAATCAA-AATAAA
9547469 TACATATATA
Statistics
Matches: 68, Mismatches: 10, Indels: 11
0.76 0.11 0.12
Matches are distributed among these distances:
19 3 0.04
20 23 0.34
21 25 0.37
22 13 0.19
23 4 0.06
ACGTcount: A:0.66, C:0.01, G:0.06, T:0.27
Consensus pattern (20 bp):
AATAGATAAATCAAAATAAA
Found at i:9547402 original size:40 final size:40
Alignment explanation
Indices: 9547358--9547457 Score: 121
Period size: 41 Copynumber: 2.4 Consensus size: 40
9547348 AATCAAATAA
*
9547358 AAAATATTAATAGATAATTAAAA-AAAAAATAAGATAAATC
1 AAAATATTAATAGATAATGAAAATAAAAAAT-AGATAAATC
* *
9547398 AAAATATTAATAGATAAATGAAAATAAATAATAGATAAATT
1 AAAATATTAATAGAT-AATGAAAATAAAAAATAGATAAATC
*
9547439 ATAATATATAAATAGATAA
1 A-AA-ATATTAATAGATAA
9547458 ATAATAATAA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
40 15 0.29
41 16 0.31
42 10 0.19
43 11 0.21
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.28
Consensus pattern (40 bp):
AAAATATTAATAGATAATGAAAATAAAAAATAGATAAATC
Found at i:9547428 original size:4 final size:4
Alignment explanation
Indices: 9547347--9547578 Score: 79
Period size: 4 Copynumber: 56.5 Consensus size: 4
9547337 ATAAAAATAA
* * *
9547347 AAAT CAAAT AAA- AAAT ATTAAT AGAT AATT AAA- AAAA AAAT AAGAT
1 AAAT -AAAT AAAT AAAT A--AAT AAAT AAAT AAAT AAAT AAAT AA-AT
* * * *
9547393 AAAT CAAA- ATAT TAAT AGAT AAAT GAAAAT AAAT -AAT AGAT AAATT
1 AAAT -AAAT AAAT AAAT AAAT AAAT --AAAT AAAT AAAT AAAT AAA-T
* * * *
9547439 ATAAT ATAT AAAT AGAT AAAT -AAT -AAT AAAT ACAT ATAT ATAAT -AAT
1 A-AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT
** ** * * * *
9547486 ATGT AAAT AGCT AAGT -AAT -AAT AAAT ATAT ATATT AACAC AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AA-AT AAAT AAAT
9547534 AAAT AAAT AAAT AGTAAT AAAT AGTAAT -AAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT A--AAT AAAT A--AAT AAAT AAAT AAAT AAAT AA
9547579 GTAATACATA
Statistics
Matches: 169, Mismatches: 35, Indels: 47
0.67 0.14 0.19
Matches are distributed among these distances:
3 28 0.17
4 103 0.61
5 21 0.12
6 17 0.10
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.29
Consensus pattern (4 bp):
AAAT
Found at i:9547483 original size:20 final size:19
Alignment explanation
Indices: 9547438--9547486 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 19
9547428 ATAGATAAAT
*
9547438 TATAATATATAAATAGATAA
1 TATAATA-ATAAATACATAA
9547458 -ATAATAATAAATACATATA
1 TATAATAATAAATACATA-A
9547477 TATAATAATA
1 TATAATAATA
9547487 TGTAAATAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 10 0.38
19 7 0.27
20 9 0.35
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
TATAATAATAAATACATAA
Found at i:9547505 original size:42 final size:42
Alignment explanation
Indices: 9547401--9547629 Score: 142
Period size: 42 Copynumber: 5.6 Consensus size: 42
9547391 ATAAATCAAA
* * *
9547401 ATATTAATAGATAAATGAA-AATAAATA-ATAGATAAATTATAAT
1 ATATAAATAGATAAAT-AATAATAAATACAT--ATATATAATAAT
9547444 ATATAAATAGATAAATAATAATAAATACATATATATAATAAT
1 ATATAAATAGATAAATAATAATAAATACATATATATAATAAT
* * * * *
9547486 ATGTAAATAGCTAAGTAATAATAAATATATATAT-TAACACA-
1 ATATAAATAGATAAATAATAATAAATACATATATATAATA-AT
* * *
9547527 A-ATAAATAAATAAATAAATAGT-AATA-A-ATA-GTAATAAT
1 ATATAAATAGATAAAT-AATAATAAATACATATATATAATAAT
* * * * *
9547565 AAATAAATAAATAAGTAATACATAAGATACATAGA-A-AAAAAT
1 ATATAAATAGATAAATAATA-ATAA-ATACATATATATAATAAT
* *
9547607 ATA-AAATATA-AAATAAAAATAAA
1 ATATAAATAGATAAATAATAATAAA
9547630 AGTATAAAAA
Statistics
Matches: 151, Mismatches: 23, Indels: 29
0.74 0.11 0.14
Matches are distributed among these distances:
37 1 0.01
38 13 0.09
39 19 0.13
40 21 0.14
41 19 0.13
42 51 0.34
43 25 0.17
44 2 0.01
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (42 bp):
ATATAAATAGATAAATAATAATAAATACATATATATAATAAT
Found at i:9547552 original size:22 final size:22
Alignment explanation
Indices: 9547366--9547578 Score: 130
Period size: 22 Copynumber: 10.0 Consensus size: 22
9547356 AAAAAATATT
*
9547366 AATAGATAATTAA-AA-AAA-A
1 AATAGATAAATAATAATAAATA
*
9547385 AATAAGATAAATCAA-AAT--ATT
1 AAT-AGATAAAT-AATAATAAATA
9547406 AATAGATAAATGAA-AATAAAT-
1 AATAGATAAAT-AATAATAAATA
* *
9547427 AATAGATAAATTATAATATATA
1 AATAGATAAATAATAATAAATA
9547449 AATAGATAAATAATAATAAATA
1 AATAGATAAATAATAATAAATA
* * **
9547471 CAT--ATATATAATAATATGTA
1 AATAGATAAATAATAATAAATA
* *
9547491 AATAGCTAAGTAATAATAAATA
1 AATAGATAAATAATAATAAATA
* * * *
9547513 TATATATTAACACA-AATAAATA
1 AATAGATAAATA-ATAATAAATA
* *
9547535 AATAAATAAATAGTAATAAATA
1 AATAGATAAATAATAATAAATA
9547557 GTAATA-ATAAAT-A-AATAAATA
1 --AATAGATAAATAATAATAAATA
9547578 A
1 A
9547579 GTAATACATA
Statistics
Matches: 151, Mismatches: 29, Indels: 28
0.73 0.14 0.13
Matches are distributed among these distances:
19 4 0.03
20 38 0.25
21 32 0.21
22 66 0.44
23 7 0.05
24 4 0.03
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (22 bp):
AATAGATAAATAATAATAAATA
Found at i:9547614 original size:7 final size:7
Alignment explanation
Indices: 9547602--9547665 Score: 73
Period size: 7 Copynumber: 9.6 Consensus size: 7
9547592 TACATAGAAA
9547602 AAAATAT
1 AAAATAT
9547609 AAAATAT
1 AAAATAT
9547616 AAAATA-
1 AAAATAT
9547622 AAAATA-
1 AAAATAT
*
9547628 AAAGTAT
1 AAAATAT
9547635 AAAAATAT
1 -AAAATAT
*
9547643 AAAATAC
1 AAAATAT
9547650 AAAATA-
1 AAAATAT
9547656 AAAA-AT
1 AAAATAT
9547662 AAAA
1 AAAA
9547666 ACAAAATGGG
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
5 1 0.02
6 19 0.37
7 25 0.49
8 6 0.12
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (7 bp):
AAAATAT
Found at i:9547639 original size:27 final size:27
Alignment explanation
Indices: 9547602--9547666 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 27
9547592 TACATAGAAA
9547602 AAAATAT-AAAATATAAAATA-AAAAT
1 AAAATATAAAAATATAAAATACAAAAT
9547627 AAAAGTATAAAAATATAAAATACAAAAT
1 AAAA-TATAAAAATATAAAATACAAAAT
*
9547655 AAAAAATAAAAA
1 AAAATATAAAAA
9547667 CAAAATGGGC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
25 4 0.11
26 3 0.08
27 20 0.56
28 9 0.25
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (27 bp):
AAAATATAAAAATATAAAATACAAAAT
Found at i:9548007 original size:41 final size:41
Alignment explanation
Indices: 9547850--9548104 Score: 253
Period size: 42 Copynumber: 6.1 Consensus size: 41
9547840 TTGATCAAAA
* * * *
9547850 CTCCTTTAAGCAGAGGCTCAACGACTTTCAAAAATAAATAAACAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAAT------GG
*
9547897 CTCCTCTAATCAGAGGCTCAACGACTTTG-AAAAT-AATGA
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATGG
* *
9547936 CTCCTCTAATCAGAGGCTAAATGACTTTTGAAAAATAAATGG
1 CTCCTCTAATCAGAGGCTCAACGAC-TTTGAAAAATAAATGG
* *
9547978 CTCCTCTAATCAAAGGTTCAACGACTTTGAAAAATAAATGG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATGG
* * * *
9548019 CTCATTTAGTCAGAGGCCCAACGACTTTTGAAAAATAAATGG
1 CTCCTCTAATCAGAGGCTCAACGAC-TTTGAAAAATAAATGG
* * * * * *
9548061 CTCATTTAATCAGAAGCTCAATGACTTTGAAAAGTAAATTG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATGG
9548102 CTC
1 CTC
9548105 ATTAAAAATC
Statistics
Matches: 180, Mismatches: 24, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
39 23 0.13
40 4 0.02
41 57 0.32
42 62 0.34
45 3 0.02
46 5 0.03
47 26 0.14
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (41 bp):
CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATGG
Found at i:9548054 original size:83 final size:83
Alignment explanation
Indices: 9547896--9548107 Score: 268
Period size: 83 Copynumber: 2.6 Consensus size: 83
9547886 AATAAACAAA
* * * * * *
9547896 GCTCCTCTAATCAGAGGCTCAACGACTTTG-AAAAT-AATGACTCCTCTAATCAGAGGCTAAATG
1 GCTCCTCTAATCAAAGGCTCAACGACTTTGAAAAATAAATGGCTCATTTAATCAGAGGCCAAACG
9547959 ACTTTTGAAAAATAAATG
66 ACTTTTGAAAAATAAATG
* * *
9547977 GCTCCTCTAATCAAAGGTTCAACGACTTTGAAAAATAAATGGCTCATTTAGTCAGAGGCCCAACG
1 GCTCCTCTAATCAAAGGCTCAACGACTTTGAAAAATAAATGGCTCATTTAATCAGAGGCCAAACG
9548042 ACTTTTGAAAAATAAATG
66 ACTTTTGAAAAATAAATG
* * * * *
9548060 GCTCATTTAATCAGAA-GCTCAATGACTTTGAAAAGTAAATTGCTCATT
1 GCTCCTCTAATCA-AAGGCTCAACGACTTTGAAAAATAAATGGCTCATT
9548108 AAAAATCATG
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
81 28 0.25
82 5 0.04
83 78 0.69
84 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (83 bp):
GCTCCTCTAATCAAAGGCTCAACGACTTTGAAAAATAAATGGCTCATTTAATCAGAGGCCAAACG
ACTTTTGAAAAATAAATG
Found at i:9549143 original size:26 final size:26
Alignment explanation
Indices: 9549102--9549171 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
9549092 TGAGTCTTCC
9549102 TTTTTCATTCATTTTTTTTATTTTTCT-T
1 TTTTTCA-TC-TTTTTTTTATTTTT-TAT
*
9549130 TTTTTCATCTTTTTTTCATTTTTTAT
1 TTTTTCATCTTTTTTTTATTTTTTAT
*
9549156 TTTTTTAT-TTTTTTTT
1 TTTTTCATCTTTTTTTT
9549172 CAAGCATAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
25 8 0.21
26 21 0.55
27 2 0.05
28 7 0.18
ACGTcount: A:0.10, C:0.09, G:0.00, T:0.81
Consensus pattern (26 bp):
TTTTTCATCTTTTTTTTATTTTTTAT
Found at i:9549204 original size:19 final size:17
Alignment explanation
Indices: 9549166--9549204 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
9549156 TTTTTTATTT
*
9549166 TTTTTTCAAGCATAGTA
1 TTTTTTCAAGCATAGAA
9549183 TTTTTTCACAGCATCAGAA
1 TTTTTTCA-AGCAT-AGAA
9549202 TTT
1 TTT
9549205 ATAAGATGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 5 0.26
19 6 0.32
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.46
Consensus pattern (17 bp):
TTTTTTCAAGCATAGAA
Found at i:9554740 original size:2 final size:2
Alignment explanation
Indices: 9554733--9554758 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9554723 CACCACTTTC
9554733 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
9554759 GATTGGGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9559218 original size:12 final size:12
Alignment explanation
Indices: 9559201--9559225 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9559191 CAGCAAACAA
9559201 ACTGTAGCTTAG
1 ACTGTAGCTTAG
9559213 ACTGTAGCTTAG
1 ACTGTAGCTTAG
9559225 A
1 A
9559226 TTTAATGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (12 bp):
ACTGTAGCTTAG
Found at i:9561353 original size:19 final size:20
Alignment explanation
Indices: 9561331--9561382 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 20
9561321 AATTCATGAA
9561331 TTTAATAAAAATTTTAA-AT
1 TTTAATAAAAATTTTAATAT
9561350 TTTAAT--AAATTTTAATTAT
1 TTTAATAAAAATTTTAA-TAT
9561369 TTTAATTAAAAATT
1 TTTAA-TAAAAATT
9561383 ATTACTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 9 0.32
19 13 0.46
20 1 0.04
22 5 0.18
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTAATAAAAATTTTAATAT
Found at i:9561361 original size:17 final size:18
Alignment explanation
Indices: 9561339--9561374 Score: 56
Period size: 17 Copynumber: 2.0 Consensus size: 18
9561329 AATTTAATAA
9561339 AAATTTTAA-ATTTTAAT
1 AAATTTTAATATTTTAAT
9561356 AAATTTTAATTATTTTAAT
1 AAATTTTAA-TATTTTAAT
9561375 TAAAAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
19 8 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AAATTTTAATATTTTAAT
Found at i:9561507 original size:11 final size:11
Alignment explanation
Indices: 9561491--9561550 Score: 83
Period size: 11 Copynumber: 5.7 Consensus size: 11
9561481 TTTAATTTTT
9561491 AATTTAAATTA
1 AATTTAAATTA
9561502 AATTTAAATTA
1 AATTTAAATTA
9561513 AA---AAATTAA
1 AATTTAAATT-A
9561522 AATTT-AATTA
1 AATTTAAATTA
9561532 AATTTAAATTA
1 AATTTAAATTA
9561543 AATTTAAA
1 AATTTAAA
9561551 ATAATAAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
8 5 0.11
9 3 0.07
10 6 0.14
11 30 0.68
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AATTTAAATTA
Found at i:9561508 original size:6 final size:6
Alignment explanation
Indices: 9561479--9561550 Score: 62
Period size: 6 Copynumber: 12.3 Consensus size: 6
9561469 GAATTAAAAT
* * * *
9561479 AATTTA ATTTTT AATTTA AA-TTA AATTTA AATTAAAA AATTAA AATTT-
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATT--TA AATTTA AATTTA
9561527 AA-TTA AATTTA AA-TTA AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AA
9561551 ATAATAAAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
4 2 0.04
5 14 0.26
6 33 0.61
8 5 0.09
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AATTTA
Found at i:9561539 original size:36 final size:36
Alignment explanation
Indices: 9561470--9561564 Score: 115
Period size: 36 Copynumber: 2.6 Consensus size: 36
9561460 TAATCGAACG
**
9561470 AATTAAAATAATTTAATTTTTAATTTAAATTAAATTTA
1 AATTAAAATAA-TTAAAATTTAATTTAAATTAAA-TTA
9561508 AATTAAAA-AATTAAAATTTAA-TTAAATTTAAATTA
1 AATTAAAATAATTAAAATTTAATTTAAA-TTAAATTA
9561543 AATTTAAAATAA-TAAAATTTAA
1 AA-TTAAAATAATTAAAATTTAA
9561565 AATGTTCATT
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
35 10 0.19
36 30 0.58
37 4 0.08
38 8 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (36 bp):
AATTAAAATAATTAAAATTTAATTTAAATTAAATTA
Found at i:9567878 original size:11 final size:12
Alignment explanation
Indices: 9567858--9567890 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
9567848 TATCTAGATT
*
9567858 TTTTTTTTTTAA
1 TTTTTATTTTAA
9567870 -TTTTATTTTAA
1 TTTTTATTTTAA
9567881 TTTTTATTTT
1 TTTTTATTTT
9567891 GGAGGGCTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTATTTTAA
Found at i:9568246 original size:31 final size:31
Alignment explanation
Indices: 9568208--9568277 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
9568198 AATTTCCAGA
*
9568208 TTCCGGCGAAAATTCCGGCG-ACTTTTGAATT
1 TTCCGGCGAAAATTCCGGCGAAC-TTTGAAGT
* *
9568239 TTTCGGCGACAATTCCGGCGAACTTTGAAGT
1 TTCCGGCGAAAATTCCGGCGAACTTTGAAGT
9568270 TTCCGGCG
1 TTCCGGCG
9568278 GAGAATCCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 32 0.94
32 2 0.06
ACGTcount: A:0.20, C:0.24, G:0.26, T:0.30
Consensus pattern (31 bp):
TTCCGGCGAAAATTCCGGCGAACTTTGAAGT
Found at i:9568350 original size:19 final size:19
Alignment explanation
Indices: 9568326--9568367 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
9568316 GGCCAATTTT
*
9568326 CGGCGAAATTCCCAGATTC
1 CGGCGAAATTCCCAGAATC
* *
9568345 CGGCGAATTTTCCAGAATC
1 CGGCGAAATTCCCAGAATC
9568364 CGGC
1 CGGC
9568368 ACCGGCGTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.21
Consensus pattern (19 bp):
CGGCGAAATTCCCAGAATC
Found at i:9568669 original size:15 final size:15
Alignment explanation
Indices: 9568636--9568679 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
9568626 GCTCCAGGTT
***
9568636 TTTTTTTTTTTTTTT
1 TTTTTTTTTTTTGAA
9568651 TTTTTTTTTTTTGAA
1 TTTTTTTTTTTTGAA
*
9568666 TTTTTTTTATTTGA
1 TTTTTTTTTTTTGA
9568680 CTTTGATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.09, C:0.00, G:0.05, T:0.86
Consensus pattern (15 bp):
TTTTTTTTTTTTGAA
Found at i:9568673 original size:1 final size:1
Alignment explanation
Indices: 9568634--9568662 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
9568624 CCGCTCCAGG
9568634 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
9568663 GAATTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:9569327 original size:156 final size:156
Alignment explanation
Indices: 9568712--9569309 Score: 1052
Period size: 156 Copynumber: 3.8 Consensus size: 156
9568702 TTTTTCTTTA
* *
9568712 TTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATACTCCT
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAGTTTTTCTTGCATACTCCT
*
9568777 GAGGTGAGGGAATTTTCTCAATTTTTTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGAT
65 GAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGAT
* * *
9568842 AATTAATTACTTGGCTGATTTTGATTTTTT
130 AATTAATTAATTGGTTGATCTTGA---TTT
9568872 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
9568937 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
9569002 ATTAATTAATTGGTTGATCTTGATTT
131 ATTAATTAATTGGTTGATCTTGATTT
*
9569028 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTTCTG
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
*
9569093 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTTGATA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
9569158 ATTAATTAATTGGTTGATCTTGATTT
131 ATTAATTAATTGGTTGATCTTGATTT
* * *
9569184 TTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGTATACTCTTG
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
*
9569249 AGGTGAGGGAATTTTCTCAATTTTTTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
9569310 AACAACTAAC
Statistics
Matches: 424, Mismatches: 14, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
156 277 0.65
159 112 0.26
160 35 0.08
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (156 bp):
TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
ATTAATTAATTGGTTGATCTTGATTT
Found at i:9571816 original size:19 final size:19
Alignment explanation
Indices: 9571778--9571815 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
9571768 TAATAATATT
*
9571778 ATTAAATATAATAATAAAA
1 ATTAAATAAAATAATAAAA
9571797 ATTAAATAAAAT-ATAAAA
1 ATTAAATAAAATAATAAAA
9571815 A
1 A
9571816 AAAATCAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
ATTAAATAAAATAATAAAA
Found at i:9573193 original size:18 final size:18
Alignment explanation
Indices: 9573154--9573196 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
9573144 TTTTATAAAA
*
9573154 TAATAAATAAAAATTAAT
1 TAATAAATAAAAATTAAG
*
9573172 TAATAAATTAAGAA-TAAG
1 TAATAAA-TAAAAATTAAG
9573190 TAATAAA
1 TAATAAA
9573197 AAATGAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (18 bp):
TAATAAATAAAAATTAAG
Found at i:9575039 original size:35 final size:36
Alignment explanation
Indices: 9575023--9575108 Score: 72
Period size: 35 Copynumber: 2.5 Consensus size: 36
9575013 ATATATGTAT
* * * *
9575023 ATATT-TATTTATTTATTTTTTGTTAATATTTATGT
1 ATATTATATTTATTTATGTATTATTAATAATTATGT
* * *
9575058 GTATTTTA-TTATTTATGTATTATTACTAA-TATGT
1 ATATTATATTTATTTATGTATTATTAATAATTATGT
9575092 ATATATATATTT-TTTAT
1 ATAT-TATATTTATTTAT
9575109 CTTTTTTATT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
34 8 0.20
35 28 0.70
36 4 0.10
ACGTcount: A:0.29, C:0.01, G:0.06, T:0.64
Consensus pattern (36 bp):
ATATTATATTTATTTATGTATTATTAATAATTATGT
Found at i:9575078 original size:16 final size:16
Alignment explanation
Indices: 9574974--9575078 Score: 60
Period size: 16 Copynumber: 6.6 Consensus size: 16
9574964 TCTTTTGTAT
*
9574974 TTTATGTATTGTATTA
1 TTTATGTATTTTATTA
9574990 TTTAT-TA--TTATTA
1 TTTATGTATTTTATTA
*
9575003 -TTATGTA-TTAATATA
1 TTTATGTATTTTAT-TA
* *
9575018 TGTATATA-TTTATTTA
1 TTTATGTATTTTA-TTA
* * *
9575034 TTTATTTTTTGTTAATA
1 TTTATGTATT-TTATTA
9575051 TTTATGTGTATTTTATTA
1 TTTA--TGTATTTTATTA
9575069 TTTATGTATT
1 TTTATGTATT
9575079 ATTACTAATA
Statistics
Matches: 68, Mismatches: 12, Indels: 18
0.69 0.12 0.18
Matches are distributed among these distances:
12 4 0.06
13 7 0.10
14 3 0.04
15 4 0.06
16 26 0.38
17 8 0.12
18 12 0.18
19 4 0.06
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.65
Consensus pattern (16 bp):
TTTATGTATTTTATTA
Found at i:9575136 original size:83 final size:76
Alignment explanation
Indices: 9574966--9575137 Score: 168
Period size: 83 Copynumber: 2.1 Consensus size: 76
9574956 TTTCTTCTTC
9574966 TTTTGTATTTTATGTATTGTATTATTTATTATTATTATTATGTATTAATATATGTATATATTTAT
1 TTTTGTATTTTATGTATTGTATTATTTATTATTATTATTATGTATTAATATATGTATATATTTAT
*
9575031 TTATTTATTTT
66 TTATTTATTAT
* * * *
9575042 TTGTTAATATTTATGTGTATTTTATTATTTATGTATTATTACTAATATGTA-TATATATAT-TTT
1 TT-TT-GTATTT-TATGTATTGTATTATTTAT-TATTATTA-T--TATGTATTA-ATATATGTAT
* *
9575105 TTATCTTTTTTATTTTATTCAT
58 ATAT-TTATTTA-TTTATT-AT
9575127 TTTTGTATTTT
1 TTTTGTATTTT
9575138 TACTTATCTA
Statistics
Matches: 77, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
76 2 0.03
77 2 0.03
78 5 0.06
79 17 0.22
80 8 0.10
81 1 0.01
82 8 0.10
83 23 0.30
84 8 0.10
85 3 0.04
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.66
Consensus pattern (76 bp):
TTTTGTATTTTATGTATTGTATTATTTATTATTATTATTATGTATTAATATATGTATATATTTAT
TTATTTATTAT
Found at i:9576114 original size:17 final size:17
Alignment explanation
Indices: 9576080--9576207 Score: 56
Period size: 17 Copynumber: 7.5 Consensus size: 17
9576070 TTTGAATGTT
*
9576080 TTTTA-TTTGTTTATTTA
1 TTTTATTTTATTTA-TTA
9576097 TTTTATTTTATTTATTA
1 TTTTATTTTATTTATTA
* * *
9576114 TATTAGGTTTATTTAATA
1 TTTTA-TTTTATTTATTA
* *
9576132 TTCT-TTTTATCTTA--G
1 TTTTATTTTAT-TTATTA
*
9576147 TTTTATTTTTATTT-TTG
1 TTTTA-TTTTATTTATTA
9576164 TTTTACTTTT-TATTATTCA
1 TTTTA-TTTTAT-TTATT-A
9576183 -TTTATATTT-TTTATTA
1 TTTTAT-TTTATTTATTA
*
9576199 TTCTATTTT
1 TTTTATTTT
9576208 CTTCAAATAA
Statistics
Matches: 87, Mismatches: 12, Indels: 25
0.70 0.10 0.20
Matches are distributed among these distances:
15 3 0.03
16 12 0.14
17 43 0.49
18 29 0.33
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (17 bp):
TTTTATTTTATTTATTA
Found at i:9576312 original size:59 final size:59
Alignment explanation
Indices: 9576215--9576749 Score: 655
Period size: 59 Copynumber: 8.9 Consensus size: 59
9576205 TTTCTTCAAA
* *
9576215 TAAAAATCAAATTTTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCT
1 TAAAAAT-AAA-TTTTC-AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
9576277 TAAAAATAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
* **** *
9576336 TAGAAATAAATTTTCAAAAAAGGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
* * *
9576395 TGACAATCAAAATTTCAAAGAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAAT-AAATTTTCAAA-AAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
* ** * *
9576457 TAGAAATAAATTTTCAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCACTTTTCCT
1 TAAAAATAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
* *** *
9576516 TAGAAATAAATTTTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
* * *
9576575 TGAAAATCGAAA-TTTC-CAAAAAATGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCT
1 TAAAAAT--AAATTTTCAAAAAAAAT-ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
* *** *
9576635 TAGAAATAAATTTTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
* * *
9576694 TGAAAATCGAAA-TTTC-CAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTT
1 TAAAAAT--AAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
9576750 TCCTACAAAA
Statistics
Matches: 412, Mismatches: 51, Indels: 23
0.85 0.10 0.05
Matches are distributed among these distances:
58 3 0.01
59 274 0.67
60 69 0.17
61 22 0.05
62 44 0.11
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (59 bp):
TAAAAATAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:9576521 original size:180 final size:178
Alignment explanation
Indices: 9576217--9576749 Score: 813
Period size: 180 Copynumber: 3.0 Consensus size: 178
9576207 TCTTCAAATA
* * * *
9576217 AAAATCAAATTTTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAA
1 AAAATCAAA-ATTTCAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAA
** *
9576282 ATAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
65 ATAAATTTTCAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
9576347 TTTCAAAAAAGGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
130 TTTCAAAAAA-GGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* *
9576397 ACAATCAAAATTTCAAAGAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAA
1 AAAATCAAAATTTCAAA-AAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAA
*
9576462 ATAAATTTTCAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCACTTTTCCTTAGAAATAAAT
65 ATAAATTTTCAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
9576527 TTTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
130 TTTC-AAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* * *
9576577 AAAATCGAAATTTCCAAAAAAT-GATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAA
1 AAAATCAAAATTTCAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAA
*
9576641 TAAATTTTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAA
66 TAAATTTTCAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AA
* **
9576705 ATTTCCAAAAAA-TATTTTTG-GAGAAAAGTTGAAAGTATCAATTTT
128 ATTTTCAAAAAAGGGTTTTTGAG-GAAAAGTTGAAAGTATCAATTTT
9576750 TCCTACAAAA
Statistics
Matches: 327, Mismatches: 20, Indels: 14
0.91 0.06 0.04
Matches are distributed among these distances:
177 2 0.01
178 125 0.38
179 18 0.06
180 176 0.54
181 6 0.02
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.35
Consensus pattern (178 bp):
AAAATCAAAATTTCAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAA
TAAATTTTCAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATT
TTCAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:9576637 original size:119 final size:117
Alignment explanation
Indices: 9576235--9576751 Score: 684
Period size: 119 Copynumber: 4.4 Consensus size: 117
9576225 ATTTTTCAAA
* *
9576235 AAAAAAT-ATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAA
1 AAAAAATGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTTCAAAAAAA
* * *
9576299 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
66 AGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* * * * *
9576351 AAAAAAGGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GACAATCAAAATTTCAAAG
1 AAAAAA-TGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAGA-AAT-AAATTTTCAAA-
* * *
9576415 AAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCA
62 AAAA-AGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTCC
* * * * *
9576473 AAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCACTTTTCCTTAGAAATAAATTTTCAAAAAAA
1 AAAAAATGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTTCAAAAAAA
* *
9576538 GGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTCC
66 AGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTCC
9576592 AAAAAATGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTTCAAAAAAA
1 AAAAAATGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTTCAAAAAAA
* *
9576657 GGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTCC
66 AGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTCC
*
9576711 AAAAAAT-ATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTC
1 AAAAAATGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTC
9576752 CTACAAAAAA
Statistics
Matches: 367, Mismatches: 23, Indels: 20
0.90 0.06 0.05
Matches are distributed among these distances:
116 6 0.02
117 2 0.01
118 106 0.29
119 139 0.38
120 17 0.05
121 86 0.23
122 11 0.03
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (117 bp):
AAAAAATGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTTCAAAAAAA
AGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
Found at i:9580204 original size:15 final size:14
Alignment explanation
Indices: 9580184--9580213 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
9580174 CAGAAATGCT
9580184 AGAGAAGGCTAGAAG
1 AGAGAAGGCTA-AAG
9580199 AGAGAAGGCTAAAG
1 AGAGAAGGCTAAAG
9580213 A
1 A
9580214 AGGAGAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.50, C:0.07, G:0.37, T:0.07
Consensus pattern (14 bp):
AGAGAAGGCTAAAG
Found at i:9585120 original size:7 final size:8
Alignment explanation
Indices: 9585102--9585194 Score: 129
Period size: 8 Copynumber: 11.8 Consensus size: 8
9585092 CTATGCTTGA
9585102 AAAAAATG
1 AAAAAATG
*
9585110 AAAAAATA
1 AAAAAATG
9585118 AAAAAATG
1 AAAAAATG
9585126 -AAAAATG
1 AAAAAATG
9585133 -AAAAATG
1 AAAAAATG
9585140 AAAAAATG
1 AAAAAATG
9585148 AAAAAAATG
1 -AAAAAATG
9585157 AAAAAATG
1 AAAAAATG
9585165 -AAAAATG
1 AAAAAATG
9585172 AAAAAATG
1 AAAAAATG
*
9585180 AAAATGATG
1 AAAA-AATG
9585189 AAAAAA
1 AAAAAA
9585195 GGTGAACAAG
Statistics
Matches: 77, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
7 21 0.27
8 41 0.53
9 15 0.19
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.13
Consensus pattern (8 bp):
AAAAAATG
Found at i:9585122 original size:15 final size:16
Alignment explanation
Indices: 9585101--9585194 Score: 113
Period size: 15 Copynumber: 5.9 Consensus size: 16
9585091 ACTATGCTTG
9585101 AAAAAAATGAAAAAAT
1 AAAAAAATGAAAAAAT
9585117 AAAAAAATG-AAAAAT
1 AAAAAAATGAAAAAAT
*
9585132 -GAAAAATGAAAAAAT
1 AAAAAAATGAAAAAAT
9585147 GAAAAAAATGAAAAAAT
1 -AAAAAAATGAAAAAAT
*
9585164 -GAAAAATGAAAAAAT
1 AAAAAAATGAAAAAAT
**
9585179 GAAAATGATGAAAAAA
1 -AAAAAAATGAAAAAA
9585195 GGTGAACAAG
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
14 7 0.10
15 26 0.39
16 9 0.13
17 25 0.37
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.13
Consensus pattern (16 bp):
AAAAAAATGAAAAAAT
Found at i:9585190 original size:32 final size:32
Alignment explanation
Indices: 9585103--9585194 Score: 152
Period size: 32 Copynumber: 2.9 Consensus size: 32
9585093 TATGCTTGAA
9585103 AAAAATGAAAAAAT-AAAAAAATG-AAAAATG
1 AAAAATGAAAAAATGAAAAAAATGAAAAAATG
9585133 AAAAATGAAAAAATGAAAAAAATGAAAAAATG
1 AAAAATGAAAAAATGAAAAAAATGAAAAAATG
**
9585165 AAAAATGAAAAAATGAAAATGATGAAAAAA
1 AAAAATGAAAAAATGAAAAAAATGAAAAAA
9585195 GGTGAACAAG
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
30 14 0.24
31 9 0.16
32 35 0.60
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.13
Consensus pattern (32 bp):
AAAAATGAAAAAATGAAAAAAATGAAAAAATG
Found at i:9586328 original size:39 final size:39
Alignment explanation
Indices: 9586211--9586643 Score: 692
Period size: 39 Copynumber: 10.8 Consensus size: 39
9586201 GTCTAGGAGT
9586211 ATTTACTTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAG-TCGTTGCCTCTGTTTAGAGGAGCA
9586252 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
*
9586294 ATTTACTTTTCAAAGTTGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
9586333 ATTTACTTTTCCAAAGTCGTGGTG-CTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
9586374 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
9586413 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
9586452 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCA
9586492 ATTTACTTTTCCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTTGCCTCTGTTTAGAGGAGCA
9586532 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
* *
9586571 ATTTACTTTCCAAA-ACG-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
*
9586608 ATTTATTTTCTCAAAGTCGTTGAGCCTCTGTTTAGA
1 ATTTACTTT-TCAAAGTCGTT--GCCTCTGTTTAGA
9586644 AGCTTGGTAA
Statistics
Matches: 372, Mismatches: 7, Indels: 25
0.92 0.02 0.06
Matches are distributed among these distances:
37 28 0.08
38 8 0.02
39 145 0.39
40 90 0.24
41 56 0.15
42 45 0.12
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (39 bp):
ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
Found at i:9586438 original size:119 final size:120
Alignment explanation
Indices: 9586211--9586643 Score: 722
Period size: 119 Copynumber: 3.6 Consensus size: 120
9586201 GTCTAGGAGT
9586211 ATTTACTTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTG
1 ATTTACTTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGT--TG
*
9586276 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTGTTGCCTCTGTTTAGAGGAGCA
64 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
9586333 ATTTACTTTTCCAAAG-TCGTGGTG-CTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTTG
1 ATTTACTTTTCCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTTG
9586395 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
64 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
9586452 ATTTACTTTT-CAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTTGCC
1 ATTTACTTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTTGCC
9586516 TCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
66 TCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
*
9586571 ATTTAC-TTTCCAAA--ACG-TGCCTCTGTTTAGAGGAGCAATTTA-TTTTCTCAAAGTCGTTGA
1 ATTTACTTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTC-CAAAGTCGTT--
9586631 GCCTCTGTTTAGA
63 GCCTCTGTTTAGA
9586644 AGCTTGGTAA
Statistics
Matches: 300, Mismatches: 2, Indels: 22
0.93 0.01 0.07
Matches are distributed among these distances:
115 5 0.02
116 35 0.12
117 4 0.01
118 48 0.16
119 150 0.50
121 13 0.04
122 43 0.14
123 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (120 bp):
ATTTACTTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTTGCC
TCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
Found at i:9586519 original size:158 final size:158
Alignment explanation
Indices: 9586211--9586643 Score: 714
Period size: 158 Copynumber: 2.7 Consensus size: 158
9586201 GTCTAGGAGT
9586211 ATTTACTTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTG
1 ATTTACTTTT-CAAAG-TCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGT--TG
9586276 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTT-GTTGCCTCTGTTTAGAGGAGCAATTTACT
61 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACT
9586340 TTTCCAAAGTCGTGGTGCTCTGTTTAGAGGAGCA
126 TTTCCAAAGTCGT-GTGCTCTGTTTAGAGGAGCA
9586374 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCT
1 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCT
9586439 GTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCC
66 GTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCC
9586504 AAAGTCGT-TGCCTCTGTTTAGAGGAGCA
131 AAAGTCGTGTG-CTCTGTTTAGAGGAGCA
* *
9586532 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAA-ACG-TGCCTCT
1 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCT
*
9586595 GTTTAGAGGAGCAATTTATTTTCTCAAAG-TCGTTGAGCCTCTGTTTAGA
66 GTTTAGAGGAGCAATTTACTTT-TCAAAGTTCGTT--GCCTCTGTTTAGA
9586644 AGCTTGGTAA
Statistics
Matches: 262, Mismatches: 3, Indels: 15
0.94 0.01 0.05
Matches are distributed among these distances:
156 33 0.13
157 10 0.04
158 119 0.45
159 42 0.16
160 9 0.03
161 34 0.13
162 5 0.02
163 10 0.04
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (158 bp):
ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCT
GTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCC
AAAGTCGTGTGCTCTGTTTAGAGGAGCA
Found at i:9586677 original size:17 final size:17
Alignment explanation
Indices: 9586655--9586695 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
9586645 GCTTGGTAAA
9586655 AAAAAAAAAAAAAAAAC
1 AAAAAAAAAAAAAAAAC
*
9586672 AAAAAAACAAAAAAAAC
1 AAAAAAAAAAAAAAAAC
*
9586689 CAAAAAA
1 AAAAAAA
9586696 TGTTGAGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAAC
Found at i:9586677 original size:18 final size:18
Alignment explanation
Indices: 9586654--9586695 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
9586644 AGCTTGGTAA
9586654 AAAAAAAAAAAAAAAAAC
1 AAAAAAAAAAAAAAAAAC
* *
9586672 AAAAAAACAAAAAAAACC
1 AAAAAAAAAAAAAAAAAC
9586690 AAAAAA
1 AAAAAA
9586696 TGTTGAGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAAAAAAAAC
Found at i:9586688 original size:9 final size:9
Alignment explanation
Indices: 9586654--9586695 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
9586644 AGCTTGGTAA
*
9586654 AAAAAAAAA
1 AAAAAAAAC
9586663 AAAAAAAAC
1 AAAAAAAAC
9586672 -AAAAAAAC
1 AAAAAAAAC
9586680 AAAAAAAACC
1 AAAAAAAA-C
9586690 AAAAAA
1 AAAAAA
9586696 TGTTGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 8 0.27
9 15 0.50
10 7 0.23
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:9586695 original size:1 final size:1
Alignment explanation
Indices: 9586652--9586687 Score: 54
Period size: 1 Copynumber: 36.0 Consensus size: 1
9586642 GAAGCTTGGT
* *
9586652 AAAAAAAAAAAAAAAAAAACAAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9586688 CCAAAAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.94, C:0.06, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:9586982 original size:16 final size:16
Alignment explanation
Indices: 9586878--9586982 Score: 60
Period size: 16 Copynumber: 6.6 Consensus size: 16
9586868 TCTTTTGTAT
*
9586878 TTTATGTATTGTATTA
1 TTTATGTATTTTATTA
9586894 TTTAT-TA--TTATTA
1 TTTATGTATTTTATTA
*
9586907 -TTATGTA-TTAATATA
1 TTTATGTATTTTAT-TA
* *
9586922 TGTATATA-TTTATTTA
1 TTTATGTATTTTA-TTA
* * *
9586938 TTTATTTTTTGTTAATA
1 TTTATGTATT-TTATTA
9586955 TTTATGTGTATTTTATTA
1 TTTA--TGTATTTTATTA
9586973 TTTATGTATT
1 TTTATGTATT
9586983 ATTACTAATA
Statistics
Matches: 68, Mismatches: 12, Indels: 18
0.69 0.12 0.18
Matches are distributed among these distances:
12 4 0.06
13 7 0.10
14 3 0.04
15 4 0.06
16 26 0.38
17 8 0.12
18 12 0.18
19 4 0.06
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.65
Consensus pattern (16 bp):
TTTATGTATTTTATTA
Found at i:9587031 original size:73 final size:74
Alignment explanation
Indices: 9586868--9587033 Score: 182
Period size: 73 Copynumber: 2.3 Consensus size: 74
9586858 TTTTTCTTCT
* * * * *
9586868 TCTTTTGTATTTTATGTATTGTATTATTTATTATTATTATTATGTATTAATATATGTATATATTT
1 TCTTTTTTATTTTATTTATTGTATTATTTATTATTATTATTATGTACTAATATATATATATATAT
9586933 ATTTATTTA
66 ATTTATTTA
** *
9586942 T-TTTTTGT-TAATATTTATGTGTA-T-TTTATTATTTATGTATTAT-TACTAATATGTATATAT
1 TCTTTTT-TATTTTATTTAT-TGTATTATTTATTA-TTAT-TATTATGTACTAATATATATATAT
9587002 ATATATTT-TTTA
62 ATATATTTATTTA
9587014 TCTTTTTTATTTTATTTATT
1 TCTTTTTTATTTTATTTATT
9587034 TTTGTATTTT
Statistics
Matches: 76, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
72 14 0.18
73 50 0.66
74 12 0.16
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (74 bp):
TCTTTTTTATTTTATTTATTGTATTATTTATTATTATTATTATGTACTAATATATATATATATAT
ATTTATTTA
Found at i:9587045 original size:18 final size:18
Alignment explanation
Indices: 9587010--9587043 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9587000 ATATATATTT
*
9587010 TTTATCTTTTTTATTTTA
1 TTTATCTTTTGTATTTTA
9587028 TTTAT-TTTTGTATTTT
1 TTTATCTTTTGTATTTT
9587044 TACTTATCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTATCTTTTGTATTTTA
Found at i:9587060 original size:55 final size:58
Alignment explanation
Indices: 9586963--9587086 Score: 139
Period size: 55 Copynumber: 2.2 Consensus size: 58
9586953 TATTTATGTG
* * **
9586963 TATTTTA-TTATTTATGTATTATTACTAATATGTATATATATATATTTTTTATCTTTTT
1 TATTTTATTTATTTATGTATTATTACT-ATATCTATATATATATATCTGATATCTTTTT
* * *
9587021 TATTTTATTTATTTTTGTATTTTTACT-TATCTA-AT-TATATATCTGATATTTTTTT
1 TATTTTATTTATTTATGTATTATTACTATATCTATATATATATATCTGATATCTTTTT
9587076 TATTATTATTT
1 TATT-TTATTT
9587087 TTATCCTATA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
55 20 0.35
56 8 0.14
57 5 0.09
58 7 0.12
59 17 0.30
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (58 bp):
TATTTTATTTATTTATGTATTATTACTATATCTATATATATATATCTGATATCTTTTT
Found at i:9587495 original size:31 final size:31
Alignment explanation
Indices: 9587467--9587528 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
9587457 AGATTCCGTC
9587467 AAAAATTCCAGTGAA-ATTTGAATTTTCCGAT
1 AAAAATTCCAGTGAACA-TTGAATTTTCCGAT
* * *
9587498 AACAATTCCGGTGAACATTGAATTTTTCGAT
1 AAAAATTCCAGTGAACATTGAATTTTCCGAT
9587529 GACCTGCCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (31 bp):
AAAAATTCCAGTGAACATTGAATTTTCCGAT
Found at i:9588036 original size:26 final size:25
Alignment explanation
Indices: 9588002--9588052 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
9587992 TTTTTATTTA
9588002 TTATATTAGGTTTATTTAATATTTTT
1 TTATATTAGGTTTATTT-ATATTTTT
* * *
9588028 TTATCTTAGTTTTATTTTTATTTTT
1 TTATATTAGGTTTATTTATATTTTT
9588053 GTTTTACTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.71
Consensus pattern (25 bp):
TTATATTAGGTTTATTTATATTTTT
Found at i:9588047 original size:17 final size:18
Alignment explanation
Indices: 9588025--9588066 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
9588015 ATTTAATATT
9588025 TTTTTATCTTAGTTTTA-
1 TTTTTATCTTAGTTTTAC
* *
9588042 TTTTTATTTTTGTTTTAC
1 TTTTTATCTTAGTTTTAC
9588060 TTTTTAT
1 TTTTTAT
9588067 TATTCATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTTTATCTTAGTTTTAC
Found at i:9588203 original size:59 final size:59
Alignment explanation
Indices: 9588105--9588521 Score: 518
Period size: 59 Copynumber: 6.9 Consensus size: 59
9588095 TTTCTTCAAA
* *
9588105 TAAAAATCAAATTTTCCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCT
1 TAAAAAT-AAATTTT-C--AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
9588168 TAAAAATAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
* * *
9588227 TAGAAATAAATTTTCAAAAAAGGAGT-TTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTTCAAAAAA--AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
* * * *
9588286 TGACAATCAAAATTTCAAAGAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCT
1 TAAAAAT-AAATTTTCAAA-AAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
* *** *
9588348 TAGAAATAAATTTTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
* *** *
9588407 TAGAAATAAATTTTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
* *
9588466 TGAAAATCAAAATTTTC--AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTT
1 TAAAAAT--AAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
9588522 TCCTACAAAA
Statistics
Matches: 317, Mismatches: 28, Indels: 22
0.86 0.08 0.06
Matches are distributed among these distances:
59 224 0.71
60 20 0.06
61 29 0.09
62 37 0.12
63 7 0.02
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (59 bp):
TAAAAATAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:9588444 original size:180 final size:178
Alignment explanation
Indices: 9588124--9588536 Score: 663
Period size: 180 Copynumber: 2.3 Consensus size: 178
9588114 AATTTTCCAA
*
9588124 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAA
1 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAA
* *
9588189 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAGGAGTT
66 AAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAGGAGTT
* *
9588254 TTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTGACAATCAAAATTTC
131 TTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
*
9588302 AAAGAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTTCAAAA
1 AAA-AAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAA
* *
9588367 AAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAAGG-
64 AAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC-AAAAAAGGA
9588431 GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTTC
128 GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAA-TTTC
* *
9588483 --AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCCTACAAAA-AAATT
1 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTA-AAAATAAATT
9588537 CATTCTTTCC
Statistics
Matches: 219, Mismatches: 11, Indels: 11
0.91 0.05 0.05
Matches are distributed among these distances:
177 42 0.19
178 10 0.05
179 5 0.02
180 150 0.68
181 12 0.05
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (178 bp):
AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAA
AAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAGGAGTT
TTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
Found at i:9590122 original size:54 final size:57
Alignment explanation
Indices: 9590056--9590179 Score: 173
Period size: 56 Copynumber: 2.2 Consensus size: 57
9590046 TAAACACTTT
* ** *
9590056 TTTTTTTGTTTTTATC-AA-ATATATATAATTTTTATTAAAATTTTAAATGGTATTG
1 TTTTTTTATTTTTATCAAAGATATATATAATTTTTATTAAAATTTTAAATCATATTA
* *
9590111 TTTTTTT-TTTTTGTCAAAGATATTTATAATTTTTATTAAAATTTTAAATCATATTA
1 TTTTTTTATTTTTATCAAAGATATATATAATTTTTATTAAAATTTTAAATCATATTA
9590167 TTTTTTTATTTTT
1 TTTTTTTATTTTT
9590180 TTAATTATTT
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
54 7 0.11
55 9 0.15
56 40 0.66
57 5 0.08
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (57 bp):
TTTTTTTATTTTTATCAAAGATATATATAATTTTTATTAAAATTTTAAATCATATTA
Found at i:9591514 original size:57 final size:59
Alignment explanation
Indices: 9591437--9591566 Score: 183
Period size: 59 Copynumber: 2.2 Consensus size: 59
9591427 TATTGAACAC
* ** *
9591437 TTTTTTTTTTGTTTTTATC-AA-ATATATATAATTTTTATTAAAATTTTAAATGGTATTG
1 TTTTTTTTTT-TTGTTATCAAAGATATATATAATTTTTATTAAAATTTTAAATCATATTA
*
9591495 TTTTTTTTTTTTGTTATCAAAGATATTTATAATTTTTATTAAAATTTTAAATCATATTA
1 TTTTTTTTTTTTGTTATCAAAGATATATATAATTTTTATTAAAATTTTAAATCATATTA
9591554 TTTTTTTATTTTT
1 TTTTTTT-TTTTT
9591567 TAATTATTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
57 7 0.11
58 12 0.19
59 40 0.62
60 5 0.08
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (59 bp):
TTTTTTTTTTTTGTTATCAAAGATATATATAATTTTTATTAAAATTTTAAATCATATTA
Found at i:9596016 original size:13 final size:14
Alignment explanation
Indices: 9595998--9596026 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9595988 CCAGCTCAAA
9595998 TAAAATA-TATAAT
1 TAAAATATTATAAT
9596011 TAAAATATTATAAT
1 TAAAATATTATAAT
9596025 TA
1 TA
9596027 TATAAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAAATATTATAAT
Found at i:9596864 original size:19 final size:19
Alignment explanation
Indices: 9596826--9596863 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
9596816 TAATAATATT
*
9596826 ATTAAATATAATAATAAAA
1 ATTAAATAAAATAATAAAA
9596845 ATTAAATAAAAT-ATAAAA
1 ATTAAATAAAATAATAAAA
9596863 A
1 A
9596864 AAACAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
ATTAAATAAAATAATAAAA
Found at i:9597783 original size:31 final size:31
Alignment explanation
Indices: 9597748--9597816 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
9597738 TCGATCTAGT
*
9597748 TGAACTGCCAGTGAATCGAATCGAGTTGGTC
1 TGAACCGCCAGTGAATCGAATCGAGTTGGTC
* *
9597779 TGAACCGCCAGTGAATCGATTCGAGTTTGTC
1 TGAACCGCCAGTGAATCGAATCGAGTTGGTC
9597810 TGAACCG
1 TGAACCG
9597817 TCGAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (31 bp):
TGAACCGCCAGTGAATCGAATCGAGTTGGTC
Found at i:9598285 original size:18 final size:18
Alignment explanation
Indices: 9598246--9598288 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
9598236 TTTTATAAAA
*
9598246 TAATAAATAAAAATTAAT
1 TAATAAATAAAAATTAAG
*
9598264 TAATAAATTAAGAA-TAAG
1 TAATAAA-TAAAAATTAAG
9598282 TAATAAA
1 TAATAAA
9598289 AAATGAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (18 bp):
TAATAAATAAAAATTAAG
Found at i:9601109 original size:60 final size:57
Alignment explanation
Indices: 9601015--9601145 Score: 172
Period size: 60 Copynumber: 2.2 Consensus size: 57
9601005 TATTAAACAC
* ** *
9601015 TTTTTTTTTGTTTTTATCAAATATATATAATTTTTATTAAAATTTTAAATGGTATTG
1 TTTTTTTTTTTTTTTATCAAATATATATAATTTTTATTAAAATTTTAAATCATATTA
* *
9601072 TTTTTTTTTTTTTGTTGTCAAAGATATTTATAATTTTTATTAAAATTTTAAATCATATTA
1 TTTTTTTTTTTTT-TTATC-AA-ATATATATAATTTTTATTAAAATTTTAAATCATATTA
*
9601132 TTTTTTTATTTTTT
1 TTTTTTTTTTTTTT
9601146 AAATTATTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
57 12 0.19
58 4 0.06
59 3 0.05
60 45 0.70
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.63
Consensus pattern (57 bp):
TTTTTTTTTTTTTTTATCAAATATATATAATTTTTATTAAAATTTTAAATCATATTA
Found at i:9602449 original size:58 final size:59
Alignment explanation
Indices: 9602387--9602518 Score: 180
Period size: 58 Copynumber: 2.3 Consensus size: 59
9602377 TATTGAACAC
**
9602387 TTTTTTTTTTGTTTTTATC-AA-ATATATATAATTTTTATTAAAATTTTAAATGGTATT-
1 TTTTTTTTTT-TTTTTATCAAAGATATATATAATTTTTATTAAAATTTTAAATCATATTA
* * *
9602444 GTTTTTTTTTTTGTTATCAAAGATATTTATAATTTTTATTAAAATTTTAAATCATATTA
1 TTTTTTTTTTTTTTTATCAAAGATATATATAATTTTTATTAAAATTTTAAATCATATTA
*
9602503 TTTTTTTTATTTTTTA
1 TTTTTTTTTTTTTTTA
9602519 ATTATTTTTA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
56 7 0.11
57 11 0.17
58 33 0.52
59 13 0.20
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (59 bp):
TTTTTTTTTTTTTTTATCAAAGATATATATAATTTTTATTAAAATTTTAAATCATATTA
Found at i:9606893 original size:14 final size:14
Alignment explanation
Indices: 9606876--9606903 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9606866 TTAAAATAAT
9606876 ATTTAAAAAATTAA
1 ATTTAAAAAATTAA
9606890 ATTTAAAAAATTAA
1 ATTTAAAAAATTAA
9606904 TAAATCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATTTAAAAAATTAA
Found at i:9606967 original size:15 final size:15
Alignment explanation
Indices: 9606925--9606968 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
9606915 AAATTAAACA
9606925 AAAAAAATTAA-TTT
1 AAAAAAATTAATTTT
* *
9606939 AAATAAGATAAATTTT
1 AAA-AAAATTAATTTT
9606955 AAAAAAATTAATTT
1 AAAAAAATTAATTT
9606969 GAATTCAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
14 3 0.12
15 15 0.62
16 6 0.25
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (15 bp):
AAAAAAATTAATTTT
Found at i:9606988 original size:32 final size:30
Alignment explanation
Indices: 9606925--9606991 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
9606915 AAATTAAACA
*
9606925 AAAAAAATTAATTTAAATAAGATAAATTTT
1 AAAAAAATTAATTTAAATAAGATAAAATTT
*
9606955 AAAAAAATTAATTTGAATTCAA-ATCAAAATTT
1 AAAAAAATTAATTT-AAAT-AAGAT-AAAATTT
9606987 AAAAA
1 AAAAA
9606992 TTTATAACTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 14 0.44
31 5 0.16
32 13 0.41
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (30 bp):
AAAAAAATTAATTTAAATAAGATAAAATTT
Found at i:9607537 original size:24 final size:26
Alignment explanation
Indices: 9607490--9607537 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
9607480 TTAAATAATT
* *
9607490 TTTTTAAAGTATTTTATCACTAAAAA
1 TTTTTAAAGTATTTTATAAATAAAAA
9607516 TTTTTAAA-T-TTTTATAAATAAA
1 TTTTTAAAGTATTTTATAAATAAA
9607538 GTTAATAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 11 0.55
25 1 0.05
26 8 0.40
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (26 bp):
TTTTTAAAGTATTTTATAAATAAAAA
Found at i:9609200 original size:33 final size:30
Alignment explanation
Indices: 9609137--9609200 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 30
9609127 GTGGATTTCC
* *
9609137 TTTTATATAGATTTAATATTTGTATATTTA
1 TTTTATATAAATTTAATATTTATATATTTA
9609167 TTTTATATAAAATATTAATAATTTATATATTTA
1 TTTTATAT-AAAT-TTAAT-ATTTATATATTTA
9609200 T
1 T
9609201 ATAATATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 8 0.28
31 3 0.10
32 5 0.17
33 13 0.45
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (30 bp):
TTTTATATAAATTTAATATTTATATATTTA
Found at i:9609368 original size:34 final size:35
Alignment explanation
Indices: 9609309--9609377 Score: 81
Period size: 34 Copynumber: 2.0 Consensus size: 35
9609299 AAATTTTAAA
* *
9609309 TTTTATTATCATCATACTTTTTA-TTTATATTATT
1 TTTTATTATCATCATACTTTATATTTTAAATTATT
9609343 TTTTATTAT-ATCACTA-TATTATATTTTAAATTATT
1 TTTTATTATCATCA-TACT-TTATATTTTAAATTATT
9609378 AGATCCATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
33 5 0.17
34 15 0.50
35 10 0.33
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (35 bp):
TTTTATTATCATCATACTTTATATTTTAAATTATT
Done.