Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 29 of 189
Found at i:9315172 original size:14 final size:17
Alignment explanation
Indices: 9315141--9315177 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
9315131 ATTATAAAGG
9315141 ATATTATTAAATTAATT
1 ATATTATTAAATTAATT
9315158 ATATTA-TAAA-T-ATT
1 ATATTATTAAATTAATT
9315172 ATATTA
1 ATATTA
9315178 AGAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 4 0.20
17 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTATTAAATTAATT
Found at i:9315353 original size:14 final size:14
Alignment explanation
Indices: 9315327--9315377 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
9315317 GAAAACAAAA
9315327 GAAATAAAATAAAG
1 GAAATAAAATAAAG
*
9315341 GAAATAAAGTAAAG
1 GAAATAAAATAAAG
* * *
9315355 TAAGTTAAAATAAAA
1 GAA-ATAAAATAAAG
9315370 G-AATAAAA
1 GAAATAAAA
9315378 GAAACAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.18
Consensus pattern (14 bp):
GAAATAAAATAAAG
Found at i:9315388 original size:17 final size:16
Alignment explanation
Indices: 9315366--9315399 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9315356 AAGTTAAAAT
9315366 AAAAGAATAAAAGAAAC
1 AAAAGAA-AAAAGAAAC
*
9315383 AAAAGAAGAAAGAAAC
1 AAAAGAAAAAAGAAAC
9315399 A
1 A
9315400 GAATAGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAC
Found at i:9316313 original size:22 final size:25
Alignment explanation
Indices: 9316270--9316346 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 25
9316260 TGAAAATGTG
* *
9316270 TGAATTTGTGAAATAATTATTG-AT
1 TGAATGTGTGAAATAATGATTGAAT
9316294 TGAATGTG-GAAA-AATGATTGAAT
1 TGAATGTGTGAAATAATGATTGAAT
* **
9316317 TGAAAGTGTGAGAAATTGTGATTGAAT
1 TG-AA-TGTGTGAAATAATGATTGAAT
9316344 TGA
1 TGA
9316347 GAATATATGT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
22 7 0.16
23 8 0.18
24 9 0.20
25 4 0.09
26 5 0.11
27 11 0.25
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (25 bp):
TGAATGTGTGAAATAATGATTGAAT
Found at i:9316318 original size:23 final size:24
Alignment explanation
Indices: 9316270--9316327 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
9316260 TGAAAATGTG
* *
9316270 TGAATTTGTGAAATAATTATTGAT
1 TGAATGTGTGAAATAATGATTGAT
9316294 TGAATGTG-GAAA-AATGATTGAAT
1 TGAATGTGTGAAATAATGATTG-AT
*
9316317 TGAAAGTGTGA
1 TGAATGTGTGA
9316328 GAAATTGTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 7 0.24
23 13 0.45
24 9 0.31
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (24 bp):
TGAATGTGTGAAATAATGATTGAT
Found at i:9316549 original size:37 final size:39
Alignment explanation
Indices: 9316490--9316585 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
9316480 CGGATAGATT
* * * *
9316490 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
9316527 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
9316566 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
9316586 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:9317545 original size:22 final size:21
Alignment explanation
Indices: 9317483--9317545 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 21
9317473 GGGGTGTTAC
9317483 ATGATATGTAATCTT--AGAT
1 ATGATATGTAATCTTAGAGAT
* *
9317502 ATGATATGCAACCTTAGAAGAT
1 ATGATATGTAATCTTAG-AGAT
*
9317524 ATGATTTTGTAATCTTAGAGAT
1 ATGA-TATGTAATCTTAGAGAT
9317546 TTAATTTGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 13 0.37
22 12 0.34
23 10 0.29
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (21 bp):
ATGATATGTAATCTTAGAGAT
Found at i:9317768 original size:23 final size:23
Alignment explanation
Indices: 9317724--9317768 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
9317714 TCTTATTTTG
* *
9317724 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
9317747 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
9317769 TAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:9317946 original size:20 final size:20
Alignment explanation
Indices: 9317923--9317960 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9317913 ATTTGTTATT
* *
9317923 TTAATTTTTTTATTATTAAA
1 TTAATTATTTTAATATTAAA
9317943 TTAATTATTTTAATATTA
1 TTAATTATTTTAATATTA
9317961 TTAATACTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTAATTATTTTAATATTAAA
Found at i:9319690 original size:20 final size:22
Alignment explanation
Indices: 9319650--9319694 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
9319640 ATGAAATGAA
*
9319650 GTATTTAATATAAATAATATAT
1 GTATTTAATATAAACAATATAT
9319672 GTATTT-ATAT-AACAATATAT
1 GTATTTAATATAAACAATATAT
9319692 GTA
1 GTA
9319695 AAAGAGGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.55
21 4 0.18
22 6 0.27
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (22 bp):
GTATTTAATATAAACAATATAT
Found at i:9324383 original size:21 final size:22
Alignment explanation
Indices: 9324345--9324393 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
9324335 TTTACATCCA
*
9324345 AAAAAATTATAAATATATATAT
1 AAAAAATTATAAAAATATATAT
* * *
9324367 AAAAACTTA-AAAAATATTTTT
1 AAAAAATTATAAAAATATATAT
9324388 AAAAAA
1 AAAAAA
9324394 ATCTAAACTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAAAATTATAAAAATATATAT
Found at i:9325492 original size:26 final size:25
Alignment explanation
Indices: 9325454--9325515 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
9325444 AAAATAACTC
* *
9325454 TTTTCTATTTTTATTAATGAAAGCAAA
1 TTTT-TATATTTATTAATCAAA-CAAA
* *
9325481 TTTTTATATTTATTTATCAAACATA
1 TTTTTATATTTATTAATCAAACAAA
9325506 TTTTTA-ATTT
1 TTTTTATATTT
9325516 TAAAAAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 4 0.13
25 9 0.29
26 14 0.45
27 4 0.13
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.56
Consensus pattern (25 bp):
TTTTTATATTTATTAATCAAACAAA
Found at i:9325517 original size:25 final size:25
Alignment explanation
Indices: 9325462--9325517 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
9325452 TCTTTTCTAT
*
9325462 TTTTATTAATGAAAGCAAATTTTTA
1 TTTTATTAATCAAAGCAAATTTTTA
* *
9325487 TATTTATTTATCAAA-CATATTTTTAA
1 T-TTTATTAATCAAAGCAAATTTTT-A
9325513 TTTTA
1 TTTTA
9325518 AAAAATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.54
Consensus pattern (25 bp):
TTTTATTAATCAAAGCAAATTTTTA
Found at i:9325631 original size:59 final size:59
Alignment explanation
Indices: 9325562--9325699 Score: 188
Period size: 59 Copynumber: 2.3 Consensus size: 59
9325552 TAAATTCCGT
* *
9325562 CAAAT-GTCACTAGACTATTAATAAGTTTACATTTTGGTCAATAAACTTTAAAAAGTTA
1 CAAATGGTCACTAAACTATTAATAAGTTTACATTTTGGTCAATAAACTTCAAAAAGTTA
* * * * *
9325620 CAAATGGTCACTAAATTATTAGTAAGTTTATATTTTGGTCACTTAACTTCAAAAAGTTA
1 CAAATGGTCACTAAACTATTAATAAGTTTACATTTTGGTCAATAAACTTCAAAAAGTTA
*
9325679 CAAAATGGTCATTAAACTATT
1 C-AAATGGTCACTAAACTATT
9325700 TGAAAGTTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
58 5 0.07
59 47 0.68
60 17 0.25
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (59 bp):
CAAATGGTCACTAAACTATTAATAAGTTTACATTTTGGTCAATAAACTTCAAAAAGTTA
Found at i:9325721 original size:60 final size:59
Alignment explanation
Indices: 9325562--9325727 Score: 167
Period size: 59 Copynumber: 2.8 Consensus size: 59
9325552 TAAATTCCGT
* * ** * *
9325562 CAAAT-GTCACTAGACTATTA-ATAAGTTTACATTTTGGTCAATAAACTTTAAAAAGTTA
1 CAAATGGTCACTAAACTATTAGA-AAGTTTATATTTAAGTCACTAAACTTCAAAAAGTTA
* * ** *
9325620 CAAATGGTCACTAAATTATTAGTAAGTTTATATTTTGGTCACTTAACTTCAAAAAGTTA
1 CAAATGGTCACTAAACTATTAGAAAGTTTATATTTAAGTCACTAAACTTCAAAAAGTTA
* *
9325679 CAAAATGGTCATTAAACTATTTGAAAGTTT-TCATTTAAGTCACTAAACT
1 C-AAATGGTCACTAAACTATTAGAAAGTTTAT-ATTTAAGTCACTAAACT
9325728 ACTAAAATAT
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
58 5 0.06
59 47 0.52
60 38 0.42
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (59 bp):
CAAATGGTCACTAAACTATTAGAAAGTTTATATTTAAGTCACTAAACTTCAAAAAGTTA
Found at i:9339162 original size:13 final size:13
Alignment explanation
Indices: 9339140--9339180 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
9339130 AGCCTAGCCC
9339140 ATATTAAATATAT
1 ATATTAAATATAT
*
9339153 ATATTTAATATAT
1 ATATTAAATATAT
**
9339166 ATAAAAAATATAT
1 ATATTAAATATAT
9339179 AT
1 AT
9339181 TTGATTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATTAAATATAT
Found at i:9339200 original size:25 final size:24
Alignment explanation
Indices: 9339149--9339205 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
9339139 CATATTAAAT
* *
9339149 ATATATATTTAATATATATAAAAA
1 ATATATATTTAATAAAAATAAAAA
* *
9339173 ATATATATTTGATTAAAAATAAGAA
1 ATATATATTT-AATAAAAATAAAAA
9339198 ATATATAT
1 ATATATAT
9339206 AATATATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (24 bp):
ATATATATTTAATAAAAATAAAAA
Found at i:9340603 original size:25 final size:25
Alignment explanation
Indices: 9340571--9340622 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
9340561 ATTTTTTTTC
9340571 TTTTACATTTGAATTACCAAAACCT
1 TTTTACATTTGAATTACCAAAACCT
9340596 TTTTACATTTGAATTACCAAAACCT
1 TTTTACATTTGAATTACCAAAACCT
9340621 TT
1 TT
9340623 CTTTGACCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.42
Consensus pattern (25 bp):
TTTTACATTTGAATTACCAAAACCT
Found at i:9350492 original size:166 final size:166
Alignment explanation
Indices: 9350084--9350476 Score: 599
Period size: 166 Copynumber: 2.4 Consensus size: 166
9350074 CCAAAAAGCG
* * * *
9350084 CCGCAAATAATTAAGTAGAACACCGTCGTTTAACTTTGACATGTACTGGCACTAGCGGCGTTTAT
1 CCGCAAATAATTAAGCAGAACGCCGTCGTTTAACTTTGACCTGTAGTGGCACTAGCGGCGTTTAT
* * * * *
9350149 CTGGAAATGCCGGTAAAGATCTAGCATTTGCGGCGCTTATAAAACAACGCTGCTAATGACCGGTA
66 CTGGAAACGCCGGTAAAGATCAAGCAGTTGCGGCGCTTATAAAACAACGCCGCTAAAGACCGGTA
* **
9350214 CATTTGCGGCGCTAGGACAAAAACGCCACTAAGGCT
131 CATTAGCGGCGCTACAACAAAAACGCCACTAAGGCT
*
9350250 CCGAAAATAATTAAGCAGAACGCCGTCGTTTAACTTTGACCTGTAGTGGCACTAGCGGCGTTTAT
1 CCGCAAATAATTAAGCAGAACGCCGTCGTTTAACTTTGACCTGTAGTGGCACTAGCGGCGTTTAT
*
9350315 CTGGAAACGCCGGTAAAGATCAAGCAGTTGCGGCGCTTATATAAA-AACGCCGCTAAAGATCGGT
66 CTGGAAACGCCGGTAAAGATCAAGCAGTTGCGGCGCTTATA-AAACAACGCCGCTAAAGACCGGT
* *
9350379 ACATTAGCGGCGCTACAATAAAAACGCCACTAATGCT
130 ACATTAGCGGCGCTACAACAAAAACGCCACTAAGGCT
* * *
9350416 CTGCAAATAATTAAGCAGAACGTCGTCGTTTAACTTTGACCTGTAGTGGTACTAGCGGCGT
1 CCGCAAATAATTAAGCAGAACGCCGTCGTTTAACTTTGACCTGTAGTGGCACTAGCGGCGT
9350477 CTTTATACAA
Statistics
Matches: 206, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
166 203 0.99
167 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.24
Consensus pattern (166 bp):
CCGCAAATAATTAAGCAGAACGCCGTCGTTTAACTTTGACCTGTAGTGGCACTAGCGGCGTTTAT
CTGGAAACGCCGGTAAAGATCAAGCAGTTGCGGCGCTTATAAAACAACGCCGCTAAAGACCGGTA
CATTAGCGGCGCTACAACAAAAACGCCACTAAGGCT
Found at i:9351000 original size:14 final size:14
Alignment explanation
Indices: 9350967--9351003 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
9350957 TAGTGTTTAC
9350967 GGTTTAT-GTTGTA
1 GGTTTATGGTTGTA
9350980 GGTTTATGGTT-TA
1 GGTTTATGGTTGTA
9350993 GTGTTTATGGT
1 G-GTTTATGGT
9351004 GTACGTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.14, C:0.00, G:0.32, T:0.54
Consensus pattern (14 bp):
GGTTTATGGTTGTA
Found at i:9351091 original size:22 final size:22
Alignment explanation
Indices: 9351043--9351092 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
9351033 TAGAGGTGAG
*
9351043 GGCTTAGGGTTTAGGGGTTATA
1 GGCTTAGGGTCTAGGGGTTATA
*
9351065 AGCTTAGGGTCTAGGGGTTAGT-
1 GGCTTAGGGTCTAGGGGTTA-TA
9351087 GGCTTA
1 GGCTTA
9351093 AGGTTATGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.18, C:0.08, G:0.40, T:0.34
Consensus pattern (22 bp):
GGCTTAGGGTCTAGGGGTTATA
Found at i:9351357 original size:21 final size:21
Alignment explanation
Indices: 9351333--9351385 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
9351323 GGTTAAGGGC
9351333 TTATGGTTTAGGGTTTAAAT-T
1 TTATGGTTTAGGGTTT-AATGT
**
9351354 TTATATTTTAGGGTTTAATGT
1 TTATGGTTTAGGGTTTAATGT
*
9351375 TTAGGGTTTAG
1 TTATGGTTTAG
9351386 CTAAAAACAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.53
Consensus pattern (21 bp):
TTATGGTTTAGGGTTTAATGT
Found at i:9351956 original size:83 final size:83
Alignment explanation
Indices: 9351797--9351956 Score: 221
Period size: 83 Copynumber: 1.9 Consensus size: 83
9351787 TAACAATTTG
* * *
9351797 CCAATGCGGTGCCATTTTTGTACTGGAAAAAAAATGATAGTGGCGTTTTTTAAGAAAACGCCGCA
1 CCAACGCGGCGCCATTTCTGTACTGGAAAAAAAATGATAGTGGCGTTTTTTAAGAAAACGCCGCA
* **
9351862 AAGATTTATTAAACTTTC
66 AAAATGAATTAAACTTTC
* * ** *
9351880 CCAACGCGGCGCCGTTTCTGTACTGGGAAAAATTTGATAGTGGCGTTTTTTAGGAAAACGCCGCA
1 CCAACGCGGCGCCATTTCTGTACTGGAAAAAAAATGATAGTGGCGTTTTTTAAGAAAACGCCGCA
9351945 AAAATGAATTAA
66 AAAATGAATTAA
9351957 CGTTTCACAA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
83 66 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.29
Consensus pattern (83 bp):
CCAACGCGGCGCCATTTCTGTACTGGAAAAAAAATGATAGTGGCGTTTTTTAAGAAAACGCCGCA
AAAATGAATTAAACTTTC
Found at i:9351976 original size:83 final size:83
Alignment explanation
Indices: 9351815--9351980 Score: 208
Period size: 83 Copynumber: 2.0 Consensus size: 83
9351805 GTGCCATTTT
* **
9351815 TGTACTGGAAAAAAAATGATAGTGGCGTTTTTTAAGAAAACGCCGCAAAGATTTATTAAACTTTC
1 TGTACTGGAAAAAAAATGATAGTGGCGTTTTTTAAGAAAACGCCGCAAAAATGAATTAAACTTTC
* ** *
9351880 CCAACGCGGCGCCGTTTC
66 ACAAAACAGCGCCGTTTC
* ** *
9351898 TGTACTGGGAAAAATTTGATAGTGGCGTTTTTTAGGAAAACGCCGCAAAAATGAATT-AACGTTT
1 TGTACTGGAAAAAAAATGATAGTGGCGTTTTTTAAGAAAACGCCGCAAAAATGAATTAAAC-TTT
*
9351962 CACAAAACATCGCCGTTTC
65 CACAAAACAGCGCCGTTTC
9351981 GCTTAATGAA
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
82 3 0.04
83 67 0.96
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (83 bp):
TGTACTGGAAAAAAAATGATAGTGGCGTTTTTTAAGAAAACGCCGCAAAAATGAATTAAACTTTC
ACAAAACAGCGCCGTTTC
Found at i:9352045 original size:15 final size:15
Alignment explanation
Indices: 9352027--9352065 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
9352017 TCCCAGCCCC
9352027 CAGCCCCAATTTCAT
1 CAGCCCCAATTTCAT
9352042 CAGCCCCAATTTCAT
1 CAGCCCCAATTTCAT
9352057 CAGCCCCAA
1 CAGCCCCAA
9352066 ATCTCTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.28, C:0.44, G:0.08, T:0.21
Consensus pattern (15 bp):
CAGCCCCAATTTCAT
Found at i:9353740 original size:7 final size:7
Alignment explanation
Indices: 9353728--9353769 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
9353718 ATGTGAATTT
9353728 GATATTA
1 GATATTA
9353735 GATATTA
1 GATATTA
* *
9353742 CATATTT
1 GATATTA
*
9353749 GGTATT-
1 GATATTA
9353755 GATATTA
1 GATATTA
9353762 GATATTA
1 GATATTA
9353769 G
1 G
9353770 GCTGTGATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
6 5 0.17
7 24 0.83
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (7 bp):
GATATTA
Found at i:9353760 original size:20 final size:21
Alignment explanation
Indices: 9353724--9353767 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
9353714 TTTGATGTGA
9353724 ATTTGATATTAGATATTACAT
1 ATTTGATATTAGATATTACAT
* *
9353745 ATTTGGTATT-GATATTAGAT
1 ATTTGATATTAGATATTACAT
9353765 ATT
1 ATT
9353768 AGGCTGTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.34, C:0.02, G:0.14, T:0.50
Consensus pattern (21 bp):
ATTTGATATTAGATATTACAT
Found at i:9354816 original size:26 final size:22
Alignment explanation
Indices: 9354747--9354807 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
9354737 ACATAACTTA
9354747 TTAATATATAT-TTTTTAAAAT
1 TTAATATATATATTTTTAAAAT
9354768 TT--TATATATATTTTTAAAAT
1 TTAATATATATATTTTTAAAAT
9354788 TTAATATATATATTTTTAAA
1 TTAATATATATATTTTTAAA
9354808 TCTAATTTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.19
20 12 0.32
21 2 0.05
22 16 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTAATATATATATTTTTAAAAT
Found at i:9354862 original size:19 final size:19
Alignment explanation
Indices: 9354838--9354877 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
9354828 TAACGTATTA
9354838 ATATATATATTT-AAAATTT
1 ATATATAT-TTTAAAAATTT
9354857 ATATATATTTTAAAAATTT
1 ATATATATTTTAAAAATTT
9354876 AT
1 AT
9354878 CAATCATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATATATTTTAAAAATTT
Found at i:9354952 original size:12 final size:12
Alignment explanation
Indices: 9354935--9355016 Score: 61
Period size: 12 Copynumber: 7.2 Consensus size: 12
9354925 TACACAATAC
9354935 ATAACTTACATA
1 ATAACTTACATA
9354947 ATAACTTAC---
1 ATAACTTACATA
*
9354956 ATAACTTATAT-
1 ATAACTTACATA
*
9354967 ATAAACTTATAT-
1 AT-AACTTACATA
*
9354979 ATAACTTTCATA
1 ATAACTTACATA
*
9354991 ACTTACTT--ATA
1 A-TAACTTACATA
9355002 ATAACTTACATA
1 ATAACTTACATA
9355014 ATA
1 ATA
9355017 CATAGCCTAC
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
9 8 0.14
10 5 0.09
11 13 0.22
12 27 0.47
13 5 0.09
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:9355002 original size:32 final size:33
Alignment explanation
Indices: 9354937--9355016 Score: 101
Period size: 32 Copynumber: 2.4 Consensus size: 33
9354927 CACAATACAT
9354937 AACTTACATAATAACTTACATAACTTATATATA
1 AACTTACATAATAACTTACATAACTTATATATA
* *
9354970 AACTTATAT-ATAACTTTCATAACTTACT-TATAA
1 AACTTACATAATAACTTACATAACTTA-TATAT-A
9355003 TAACTTACATAATA
1 -AACTTACATAATA
9355017 CATAGCCTAC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
32 19 0.47
33 10 0.25
34 8 0.20
35 3 0.08
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (33 bp):
AACTTACATAATAACTTACATAACTTATATATA
Found at i:9355052 original size:25 final size:25
Alignment explanation
Indices: 9355002--9355064 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
9354992 CTTACTTATA
* *
9355002 ATAACTTACATAATACATAGCCTAC
1 ATAACTTACATAATACACAACCTAC
* *
9355027 ATGACTTACATAATACACAACTTAC
1 ATAACTTACATAATACACAACCTAC
*
9355052 ATAACTTAAATAA
1 ATAACTTACATAA
9355065 CTTACATGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.29
Consensus pattern (25 bp):
ATAACTTACATAATACACAACCTAC
Found at i:9355054 original size:34 final size:34
Alignment explanation
Indices: 9355015--9355090 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
9355005 ACTTACATAA
* * *
9355015 TACATAGCCTACATGACTTACATAATACACAACT
1 TACATAACCTAAATAACTTACATAATACACAACT
* * *
9355049 TACATAACTTAAATAACTTACATGATACATAACT
1 TACATAACCTAAATAACTTACATAATACACAACT
*
9355083 TTCATAAC
1 TACATAAC
9355091 TTACATTATA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.43, C:0.22, G:0.04, T:0.30
Consensus pattern (34 bp):
TACATAACCTAAATAACTTACATAATACACAACT
Found at i:9355069 original size:59 final size:60
Alignment explanation
Indices: 9354995--9355173 Score: 195
Period size: 59 Copynumber: 3.0 Consensus size: 60
9354985 TTCATAACTT
* *
9354995 ACTTATAATAACTTACATAATACATAGCCTACATGACTTACATAATACACAACTTACATA
1 ACTTATAATAACTTACATAATACATAACCTACATAACTTACATAATACACAACTTACATA
* * * *
9355055 ACTTA-AATAACTTACATGATACATAACTTTCATAACTTACATTATACACAACTTACATA
1 ACTTATAATAACTTACATAATACATAACCTACATAACTTACATAATACACAACTTACATA
* * * * * **
9355114 ACTTACATTATAC--ACA-ACTTACATAACTTACATAGCTTACATTCTACACAACTTACATA
1 ACTTATAATA-ACTTACATA-ATACATAACCTACATAACTTACATAATACACAACTTACATA
9355173 A
1 A
9355174 TATACATAAT
Statistics
Matches: 104, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
59 94 0.90
60 8 0.08
61 2 0.02
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.32
Consensus pattern (60 bp):
ACTTATAATAACTTACATAATACATAACCTACATAACTTACATAATACACAACTTACATA
Found at i:9355077 original size:25 final size:25
Alignment explanation
Indices: 9355049--9355146 Score: 151
Period size: 25 Copynumber: 3.9 Consensus size: 25
9355039 ATACACAACT
* * *
9355049 TACATAACTTAAATAACTTACATGA
1 TACACAACTTACATAACTTACATTA
* *
9355074 TACATAACTTTCATAACTTACATTA
1 TACACAACTTACATAACTTACATTA
9355099 TACACAACTTACATAACTTACATTA
1 TACACAACTTACATAACTTACATTA
9355124 TACACAACTTACATAACTTACAT
1 TACACAACTTACATAACTTACAT
9355147 AGCTTACATT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 68 1.00
ACGTcount: A:0.44, C:0.21, G:0.01, T:0.34
Consensus pattern (25 bp):
TACACAACTTACATAACTTACATTA
Found at i:9355094 original size:84 final size:84
Alignment explanation
Indices: 9355002--9355222 Score: 300
Period size: 84 Copynumber: 2.6 Consensus size: 84
9354992 CTTACTTATA
* * * *
9355002 ATAACTTACATAATACATAGCCTACATGACTTACATAATACACAACTTACATAACTTAAATAACT
1 ATAACTTACATAATACACAACTTACATAACTTACATAATACACAACTTACATAACTTAAATAACT
* *
9355067 TACATGATACATAACTTTC
66 TACATGATACACAACTTAC
* * * *
9355086 ATAACTTACATTATACACAACTTACATAACTTACATTATACACAACTTACATAACTTACATAGCT
1 ATAACTTACATAATACACAACTTACATAACTTACATAATACACAACTTACATAACTTAAATAACT
**
9355151 TACATTCTACACAACTTAC
66 TACATGATACACAACTTAC
* *
9355170 ATAA-TATACATAATACACAACTTACATAACATACATAATACATAACTTACATA
1 ATAACT-TACATAATACACAACTTACATAACTTACATAATACACAACTTACATA
9355223 GCTAACATAA
Statistics
Matches: 120, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
83 1 0.01
84 119 0.99
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.31
Consensus pattern (84 bp):
ATAACTTACATAATACACAACTTACATAACTTACATAATACACAACTTACATAACTTAAATAACT
TACATGATACACAACTTAC
Found at i:9355112 original size:34 final size:33
Alignment explanation
Indices: 9355074--9355173 Score: 108
Period size: 34 Copynumber: 3.2 Consensus size: 33
9355064 ACTTACATGA
9355074 TACATAACTTTCATAACTTACATTATACACAAC-
1 TACATAAC-TTCATAACTTACATTATACACAACT
9355107 T---T-A---CATAACTTACATTATACACAACT
1 TACATAACTTCATAACTTACATTATACACAACT
* *
9355133 TACATAACTTACATAGCTTACATTCTACACAACT
1 TACATAACTT-CATAACTTACATTATACACAACT
9355167 TACATAA
1 TACATAA
9355174 TATACATAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 17
0.75 0.03 0.23
Matches are distributed among these distances:
25 22 0.39
26 1 0.02
29 2 0.04
30 2 0.04
33 1 0.02
34 28 0.50
ACGTcount: A:0.42, C:0.24, G:0.01, T:0.33
Consensus pattern (33 bp):
TACATAACTTCATAACTTACATTATACACAACT
Found at i:9355140 original size:50 final size:50
Alignment explanation
Indices: 9354981--9355270 Score: 207
Period size: 50 Copynumber: 5.7 Consensus size: 50
9354971 ACTTATATAT
* * * *
9354981 AACTTTCATAACTTAC-TTATA-ATAACTTACATAA--TACATAGCCTACAT
1 AACTTACATAACTTACATAATACATAACTTACATAACTTACATA--ATACAC
* * * * *
9355029 GACTTACATAA--TACACAACTTACATAACTTAAATAACTTACATGATACAT
1 AACTTACATAACTTACATAA--TACATAACTTACATAACTTACATAATACAC
* * * *
9355079 AACTTTCATAACTTACATTATACACAACTTACATAACTTACATTATACAC
1 AACTTACATAACTTACATAATACATAACTTACATAACTTACATAATACAC
*
9355129 AACTTACATAACTTACATAGCTTACATTCTACACAACTTACATAA-TATACATAATACAC
1 AACTTACATAACTTAC--A---TA-A---TACATAACTTACATAACT-TACATAATACAC
* * * * * *
9355188 AACTTACATAACATACATAATACATAACTTACATAGCTAACATAAAATAT
1 AACTTACATAACTTACATAATACATAACTTACATAACTTACATAATACAC
* *
9355238 AACTTACATAACTTATACAATACATAACTTACA
1 AACTTACATAACTTACATAATACATAACTTACA
9355271 CAATTTACTG
Statistics
Matches: 195, Mismatches: 28, Indels: 36
0.75 0.11 0.14
Matches are distributed among these distances:
46 3 0.02
47 1 0.01
48 9 0.05
49 2 0.01
50 119 0.61
51 1 0.01
52 11 0.06
53 1 0.01
54 2 0.01
55 1 0.01
56 1 0.01
57 1 0.01
58 1 0.01
59 42 0.22
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (50 bp):
AACTTACATAACTTACATAATACATAACTTACATAACTTACATAATACAC
Found at i:9355161 original size:25 final size:25
Alignment explanation
Indices: 9355133--9355270 Score: 125
Period size: 25 Copynumber: 5.5 Consensus size: 25
9355123 ATACACAACT
* **
9355133 TACATAACTTACATAGCTTACATTC
1 TACACAACTTACATAGCTTACATAA
*
9355158 TACACAACTTACATA-ATATACATAA
1 TACACAACTTACATAGCT-TACATAA
* *
9355183 TACACAACTTACATAACATACATAA
1 TACACAACTTACATAGCTTACATAA
* *
9355208 TACATAACTTACATAGCTAACATAA
1 TACACAACTTACATAGCTTACATAA
* * * * * *
9355233 AATATAACTTACATAACTTATACAA
1 TACACAACTTACATAGCTTACATAA
*
9355258 TACATAACTTACA
1 TACACAACTTACA
9355271 CAATTTACTG
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
24 1 0.01
25 92 0.99
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.30
Consensus pattern (25 bp):
TACACAACTTACATAGCTTACATAA
Found at i:9355180 original size:34 final size:34
Alignment explanation
Indices: 9355099--9355182 Score: 125
Period size: 34 Copynumber: 2.5 Consensus size: 34
9355089 ACTTACATTA
*
9355099 TACACAACTTACATAACTTACATTATACACAACT
1 TACATAACTTACATAACTTACATTATACACAACT
* *
9355133 TACATAACTTACATAGCTTACATTCTACACAACT
1 TACATAACTTACATAACTTACATTATACACAACT
9355167 TACATAA-TATACATAA
1 TACATAACT-TACATAA
9355183 TACACAACTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
33 1 0.02
34 44 0.98
ACGTcount: A:0.44, C:0.24, G:0.01, T:0.31
Consensus pattern (34 bp):
TACATAACTTACATAACTTACATTATACACAACT
Found at i:9355186 original size:16 final size:18
Alignment explanation
Indices: 9355108--9355222 Score: 52
Period size: 16 Copynumber: 6.8 Consensus size: 18
9355098 ATACACAACT
*
9355108 TACATAACTTACAT--TA
1 TACATAACATACATAATA
* *
9355124 TACACAACTTACATAACT-
1 TACATAACATACATAA-TA
* * *
9355142 TACATAGCTTACAT--TC
1 TACATAACATACATAATA
* *
9355158 TACACAACTTACATAATA
1 TACATAACATACATAATA
*
9355176 TACAT-A-ATACACAACT-
1 TACATAACATACATAA-TA
9355192 TACATAACATACAT-A-A
1 TACATAACATACATAATA
*
9355208 TACATAACTTACATA
1 TACATAACATACATA
9355223 GCTAACATAA
Statistics
Matches: 77, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
15 1 0.01
16 49 0.64
17 4 0.05
18 22 0.29
19 1 0.01
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.30
Consensus pattern (18 bp):
TACATAACATACATAATA
Found at i:9355254 original size:16 final size:16
Alignment explanation
Indices: 9355242--9355274 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
9355232 AAATATAACT
9355242 TACATAACTTATACAA
1 TACATAACTTATACAA
*
9355258 TACATAACTTACACAA
1 TACATAACTTATACAA
9355274 T
1 T
9355275 TTACTGAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.30
Consensus pattern (16 bp):
TACATAACTTATACAA
Found at i:9357868 original size:21 final size:21
Alignment explanation
Indices: 9357842--9357888 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
9357832 CTACAACTTA
* *
9357842 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGACAGCGAGAG
*
9357863 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCGACAGCGAGAG
9357884 AAGCA
1 AAGCA
9357889 TAGGTTCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.19, G:0.43, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGACAGCGAGAG
Found at i:9357941 original size:87 final size:87
Alignment explanation
Indices: 9357803--9357975 Score: 265
Period size: 87 Copynumber: 2.0 Consensus size: 87
9357793 ACCACAGTTG
* * *
9357803 AGGTCCAAAGGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCGAGGGAAGCA
1 AGGTCCAAAAGAAATATGAAGAACTCCAACTACAACTTAAAGCAGAGGCGGCAGCGAGAGAAGCA
9357868 GAGGCTACAGCGAGAGAAGCAT
66 GAGGCTACAGCGAGAGAAGCAT
* * * *
9357890 AGGTTCAAAAGAAATATGAAGAACTCCAACTACAACTTAAAGTAGATGCGGCATCGAGAGAAGCA
1 AGGTCCAAAAGAAATATGAAGAACTCCAACTACAACTTAAAGCAGAGGCGGCAGCGAGAGAAGCA
* *
9357955 GAGGCTGCAGCGAGGGAAGCA
66 GAGGCTACAGCGAGAGAAGCA
9357976 GAGCAGAGCA
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 77 1.00
ACGTcount: A:0.40, C:0.18, G:0.29, T:0.12
Consensus pattern (87 bp):
AGGTCCAAAAGAAATATGAAGAACTCCAACTACAACTTAAAGCAGAGGCGGCAGCGAGAGAAGCA
GAGGCTACAGCGAGAGAAGCAT
Found at i:9358526 original size:44 final size:43
Alignment explanation
Indices: 9358478--9358595 Score: 141
Period size: 42 Copynumber: 2.7 Consensus size: 43
9358468 CAACCAAACA
* *
9358478 ATAGCGGCGTTTGCTTGAAAAAGCGCCGCTAAAAGTCAGGTTCT
1 ATAGCGACGTTTG-TTGAAAAAGCGCCGCTAAAAGCCAGGTTCT
* *
9358522 ATAGCGACGTTTG-TGAGAAAA-CGTCGCTAAAAGCCATGTTCT
1 ATAGCGACGTTTGTTGA-AAAAGCGCCGCTAAAAGCCAGGTTCT
* * *
9358564 TTAGCGCCGTTTGTGGAAAAAGCGCCGCTAAA
1 ATAGCGACGTTTGTTGAAAAAGCGCCGCTAAA
9358596 GAACATGACC
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
42 36 0.57
43 15 0.24
44 12 0.19
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (43 bp):
ATAGCGACGTTTGTTGAAAAAGCGCCGCTAAAAGCCAGGTTCT
Found at i:9358609 original size:43 final size:43
Alignment explanation
Indices: 9358562--9358746 Score: 246
Period size: 43 Copynumber: 4.3 Consensus size: 43
9358552 AAGCCATGTT
* * *
9358562 CTTTAGCGCCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGAC
1 CTTTAGCGGCGTTTGTAGAATAAGCGCCGCTAAAGAACATGAC
* *
9358605 CTTTAGCGGCGTTTGTAGTATAAGCACCGCTAAAGAACATGAC
1 CTTTAGCGGCGTTTGTAGAATAAGCGCCGCTAAAGAACATGAC
* * *
9358648 CTTTAGCGGCGTTTGTAGTATAAGTGCCGCTAAAGAACATAAC
1 CTTTAGCGGCGTTTGTAGAATAAGCGCCGCTAAAGAACATGAC
* ** **
9358691 CTTTAGCGGCGTTTTTA-TTTTTGCGCCGCTAAAGAACATGAC
1 CTTTAGCGGCGTTTGTAGAATAAGCGCCGCTAAAGAACATGAC
9358733 CTTTAGCGGCGTTT
1 CTTTAGCGGCGTTT
9358747 TGTTTCTATA
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
42 34 0.27
43 94 0.73
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTAGAATAAGCGCCGCTAAAGAACATGAC
Found at i:9359122 original size:22 final size:22
Alignment explanation
Indices: 9359095--9359136 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
9359085 TGTATTTTAA
9359095 AAATAATTAAATATAAATATTT
1 AAATAATTAAATATAAATATTT
*
9359117 AAATAATTTAATATAAATAT
1 AAATAATTAAATATAAATAT
9359137 ATATAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATAATTAAATATAAATATTT
Found at i:9359154 original size:22 final size:22
Alignment explanation
Indices: 9359095--9359154 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
9359085 TGTATTTTAA
*
9359095 AAATAAT-TAAATATAAATATTT
1 AAATAATATAAA-ATAAATATAT
* *
9359117 AAATAATTTAATATAAATATAT
1 AAATAATATAAAATAAATATAT
9359139 ATAA-AATATAAAATAA
1 A-AATAATATAAAATAA
9359155 TCTAATTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 27 0.84
23 5 0.16
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AAATAATATAAAATAAATATAT
Found at i:9360775 original size:17 final size:17
Alignment explanation
Indices: 9360749--9360781 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9360739 TAAAAGGTAT
*
9360749 TTTTAGGATAAAAATAA
1 TTTTAAGATAAAAATAA
9360766 TTTTAAGATAAAAATA
1 TTTTAAGATAAAAATA
9360782 TTACTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (17 bp):
TTTTAAGATAAAAATAA
Found at i:9361077 original size:20 final size:20
Alignment explanation
Indices: 9361046--9361094 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
9361036 TTTTATTAGT
*
9361046 TATA-TTTA-ATATTTAAAA
1 TATATTTTATATATTCAAAA
*
9361064 TATATTTTATATATTCAAAT
1 TATATTTTATATATTCAAAA
*
9361084 TAAATTTTATA
1 TATATTTTATA
9361095 AATAATTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 4 0.15
19 4 0.15
20 18 0.69
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
TATATTTTATATATTCAAAA
Found at i:9362160 original size:35 final size:35
Alignment explanation
Indices: 9362116--9362276 Score: 150
Period size: 35 Copynumber: 4.7 Consensus size: 35
9362106 GAGATTTTTT
*
9362116 TTTTTGAAAACACGAAAATTTTCAAAACACCGAAA
1 TTTTTGAAAACACGAAAATTTTTAAAACACCGAAA
* ** * *
9362151 TTTTTGAAAACAAGAGGATTTTTGAAATA-CGAAAA
1 TTTTTGAAAACACGAAAATTTTTAAAACACCG-AAA
* *
9362186 ATTTTGAAAACACGAAAA-TTTTAAAACACGGAAA
1 TTTTTGAAAACACGAAAATTTTTAAAACACCGAAA
* **
9362220 TTTTTG-AAA-ACGAAAATTTTTGAAACACAAAAA
1 TTTTTGAAAACACGAAAATTTTTAAAACACCGAAA
* * *
9362253 TTTTTAGAAGACACTAAAAATTTT
1 TTTTT-GAAAACACGAAAATTTTT
9362277 GGAAAATGGA
Statistics
Matches: 100, Mismatches: 20, Indels: 11
0.76 0.15 0.08
Matches are distributed among these distances:
32 7 0.07
33 21 0.21
34 19 0.19
35 43 0.43
36 10 0.10
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTTAAAACACCGAAA
Found at i:9362213 original size:16 final size:17
Alignment explanation
Indices: 9362117--9362256 Score: 128
Period size: 17 Copynumber: 8.2 Consensus size: 17
9362107 AGATTTTTTT
9362117 TTTTGAAAACACGAAAA
1 TTTTGAAAACACGAAAA
* *
9362134 TTTTCAAAACACCGAAAT
1 TTTTGAAAACA-CGAAAA
* * *
9362152 TTTTGAAAACAAGAGGAT
1 TTTTGAAAACACGA-AAA
*
9362170 TTTTG-AAATACGAAAAA
1 TTTTGAAAACACG-AAAA
9362187 TTTTGAAAACACGAAAA
1 TTTTGAAAACACGAAAA
*
9362204 TTTT-AAAACACGGAAAT
1 TTTTGAAAACAC-GAAAA
9362221 TTTTG-AAA-ACGAAAA
1 TTTTGAAAACACGAAAA
*
9362236 TTTTTG-AAACACAAAAA
1 -TTTTGAAAACACGAAAA
9362253 TTTT
1 TTTT
9362257 TAGAAGACAC
Statistics
Matches: 102, Mismatches: 13, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
15 4 0.04
16 21 0.21
17 48 0.47
18 29 0.28
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (17 bp):
TTTTGAAAACACGAAAA
Found at i:9362257 original size:17 final size:17
Alignment explanation
Indices: 9362116--9362281 Score: 115
Period size: 17 Copynumber: 9.5 Consensus size: 17
9362106 GAGATTTTTT
*
9362116 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACAAAAA
** **
9362134 TTTTCAAAACACCGAAA
1 TTTTTGAAACACAAAAA
*
9362151 TTTTTGAAA-ACAAGAGGA
1 TTTTTGAAACACAA-A-AA
*
9362169 TTTTTGAAATACGAAAAA
1 TTTTTGAAACAC-AAAAA
*
9362187 -TTTTGAAAACACGAAAA
1 TTTTTG-AAACACAAAAA
* **
9362204 -TTTTAAAACACGGAAA
1 TTTTTGAAACACAAAAA
*
9362220 TTTTTGAAA-ACGAAAA
1 TTTTTGAAACACAAAAA
9362236 TTTTTGAAACACAAAAA
1 TTTTTGAAACACAAAAA
9362253 TTTTTAGAAGACACTAAAAA
1 TTTTT-GAA-ACAC-AAAAA
*
9362273 TTTTGGAAA
1 TTTTTGAAA
9362282 ATGGATTTTT
Statistics
Matches: 120, Mismatches: 18, Indels: 20
0.76 0.11 0.13
Matches are distributed among these distances:
16 27 0.22
17 48 0.40
18 24 0.20
19 10 0.08
20 11 0.09
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (17 bp):
TTTTTGAAACACAAAAA
Found at i:9362491 original size:20 final size:19
Alignment explanation
Indices: 9362453--9362499 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
9362443 GAATATATTT
9362453 TTTTTGAAACACGAGAAAAA
1 TTTTTGAAACACG-GAAAAA
*
9362473 TTTTTGAAGGCAC-GAAAAA
1 TTTTTGAA-ACACGGAAAAA
9362492 -TTTTGAAA
1 TTTTTGAAA
9362500 ATAGAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 7 0.29
19 6 0.25
20 8 0.33
21 3 0.12
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.30
Consensus pattern (19 bp):
TTTTTGAAACACGGAAAAA
Found at i:9362871 original size:7 final size:7
Alignment explanation
Indices: 9362859--9362945 Score: 95
Period size: 8 Copynumber: 11.9 Consensus size: 7
9362849 AAACTCTCTT
9362859 TTTTTTC
1 TTTTTTC
9362866 TTTTTTCC
1 TTTTTT-C
9362874 TTTTTTCC
1 TTTTTT-C
9362882 TTTTTTCC
1 TTTTTT-C
9362890 TTTTTTC
1 TTTTTTC
*
9362897 TCTTTTC
1 TTTTTTC
9362904 TTTTTTTC
1 -TTTTTTC
*
9362912 TTCTTTC
1 TTTTTTC
9362919 TTTTTTTC
1 -TTTTTTC
9362927 TTTTTTC
1 TTTTTTC
*
9362934 -TTTCTC
1 TTTTTTC
9362940 TTTTTT
1 TTTTTT
9362946 TTTCCTGGCC
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
6 5 0.07
7 30 0.43
8 35 0.50
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTTTC
Found at i:9362879 original size:15 final size:15
Alignment explanation
Indices: 9362859--9362951 Score: 107
Period size: 15 Copynumber: 6.1 Consensus size: 15
9362849 AAACTCTCTT
9362859 TTTTTTCTTTTTTCC
1 TTTTTTCTTTTTTCC
9362874 TTTTTTCCTTTTTTCC
1 TTTTTT-CTTTTTTCC
* *
9362890 TTTTTTCTCTTTTCT
1 TTTTTTCTTTTTTCC
* *
9362905 TTTTTTCTTCTTTCT
1 TTTTTTCTTTTTTCC
9362920 TTTTTTCTTTTTT-C
1 TTTTTTCTTTTTTCC
*
9362934 TTTCTCTTTTTTTTTCC
1 TTT-T-TTCTTTTTTCC
9362951 T
1 T
9362952 GGCCTGCTTC
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
14 3 0.04
15 39 0.58
16 23 0.34
17 2 0.03
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTTCTTTTTTCC
Found at i:9362938 original size:23 final size:22
Alignment explanation
Indices: 9362859--9362946 Score: 99
Period size: 22 Copynumber: 4.0 Consensus size: 22
9362849 AAACTCTCTT
*
9362859 TTTTTTCTTTTTTCCTTTTTTCC
1 TTTTTTCTTTTTT-CTTTTTTTC
*
9362882 TTTTTTCCTTTTTTC-TCTTTTC
1 TTTTTT-CTTTTTTCTTTTTTTC
*
9362904 TTTTTTTCTTCTTTCTTTTTTTC
1 -TTTTTTCTTTTTTCTTTTTTTC
*
9362927 TTTTTTC-TTTCTCTTTTTTT
1 TTTTTTCTTTTTTCTTTTTTT
9362947 TTCCTGGCCT
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
21 11 0.20
22 19 0.34
23 19 0.34
24 7 0.12
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTTTCTTTTTTCTTTTTTTC
Found at i:9362947 original size:23 final size:22
Alignment explanation
Indices: 9362859--9362949 Score: 80
Period size: 23 Copynumber: 4.0 Consensus size: 22
9362849 AAACTCTCTT
*
9362859 TTTTTTCTTT-TTTCCTTTTTTCC
1 TTTTTTCTTTCTTT--TTTTTTTC
* *
9362882 TTTTTTCCTTT-TTTCTCTTTTC
1 TTTTTT-CTTTCTTTTTTTTTTC
9362904 TTTTTT-TCTTCTTTCTTTTTTTC
1 TTTTTTCT-TTCTTT-TTTTTTTC
9362927 TTTTTTCTTTCTCTTTTTTTTTC
1 TTTTTTCTTTCT-TTTTTTTTTC
9362950 CTGGCCTGCT
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
20 1 0.02
21 2 0.04
22 14 0.25
23 30 0.53
24 10 0.18
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTTTCTTTCTTTTTTTTTTC
Found at i:9363078 original size:15 final size:15
Alignment explanation
Indices: 9363038--9363095 Score: 64
Period size: 15 Copynumber: 3.7 Consensus size: 15
9363028 CTGTGGCCTG
9363038 CTTTTTTTTTCTGGG-
1 CTTTTTTTTT-TGGGC
9363053 CTATTTTTTTTTGGGC
1 CT-TTTTTTTTTGGGC
*
9363069 CTTTTCTTTTTGGGC
1 CTTTTTTTTTTGGGC
9363084 TGCTTTTTTTTT
1 --CTTTTTTTTT
9363096 GCTTTGGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
15 18 0.49
16 10 0.27
17 9 0.24
ACGTcount: A:0.02, C:0.14, G:0.17, T:0.67
Consensus pattern (15 bp):
CTTTTTTTTTTGGGC
Found at i:9363095 original size:16 final size:16
Alignment explanation
Indices: 9363035--9363128 Score: 68
Period size: 16 Copynumber: 5.8 Consensus size: 16
9363025 CTGCTGTGGC
9363035 CTGCTTTTTTTTTCTGGG
1 CTGC-TTTTTTTT-TGGG
*
9363053 CT-ATTTTTTTTTGGG
1 CTGCTTTTTTTTTGGG
9363068 C--CTTTTCTTTTTGGG
1 CTGCTTTT-TTTTTGGG
**
9363083 CTGCTTTTTTTTTGCT
1 CTGCTTTTTTTTTGGG
* * *
9363099 TTGGTTTTTTTTGGGG
1 CTGCTTTTTTTTTGGG
*
9363115 CTGATTTGTTTTTT
1 CTGCTTT-TTTTTT
9363129 TGTGTTGTTT
Statistics
Matches: 60, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
14 4 0.07
15 14 0.23
16 30 0.50
17 10 0.17
18 2 0.03
ACGTcount: A:0.02, C:0.12, G:0.21, T:0.65
Consensus pattern (16 bp):
CTGCTTTTTTTTTGGG
Found at i:9363244 original size:3 final size:3
Alignment explanation
Indices: 9363238--9363272 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
9363228 TGTTTTTTCT
9363238 TTC TTC TTC TTC TTTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC T
9363273 CCTCCTCCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:9363250 original size:13 final size:13
Alignment explanation
Indices: 9363234--9363272 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
9363224 TTTTTGTTTT
9363234 TTCTTTCTTCTTC
1 TTCTTTCTTCTTC
9363247 TTCTTTCTTCTTC
1 TTCTTTCTTCTTC
9363260 TTC-TTCTTCTTC
1 TTCTTTCTTCTTC
9363272 T
1 T
9363273 CCTCCTCCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (13 bp):
TTCTTTCTTCTTC
Found at i:9363361 original size:10 final size:10
Alignment explanation
Indices: 9363346--9363375 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
9363336 GGTCTCCTCT
9363346 TTCTCTTTTC
1 TTCTCTTTTC
9363356 TTCTCTTTTC
1 TTCTCTTTTC
*
9363366 TTCTTTTTTC
1 TTCTCTTTTC
9363376 CTTCGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (10 bp):
TTCTCTTTTC
Found at i:9363657 original size:29 final size:29
Alignment explanation
Indices: 9363624--9363738 Score: 115
Period size: 30 Copynumber: 3.9 Consensus size: 29
9363614 TGTAATTTTT
* *
9363624 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTCAAAATGAAATTTAA
* * * *
9363653 TGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAATTTA-GGGTCAAAATGAAATTTAA
*
9363683 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTCAAAATGAAATTTAA
* * *
9363712 GGAAAAGTTAGGGTCAAAATGCAATTT
1 AGAAAATTTAGGGTCAAAATGAAATTT
9363739 TTATTTTTAA
Statistics
Matches: 71, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
28 17 0.24
29 15 0.21
30 38 0.54
31 1 0.01
ACGTcount: A:0.45, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTCAAAATGAAATTTAA
Found at i:9363679 original size:30 final size:30
Alignment explanation
Indices: 9363639--9363738 Score: 116
Period size: 30 Copynumber: 3.4 Consensus size: 30
9363629 ATTTAGGATT
* *
9363639 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAAGGGTC
* *
9363669 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAAGGGTC
*
9363699 AAAATGAAATTT-AGGAAAAG-TT-AGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAAGGGTC
*
9363727 AAAATGCAATTT
1 AAAATGAAATTT
9363739 TTATTTTTAA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
28 17 0.28
29 4 0.07
30 40 0.66
ACGTcount: A:0.45, C:0.04, G:0.22, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAAGGGTC
Found at i:9363759 original size:14 final size:15
Alignment explanation
Indices: 9363734--9363768 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
9363724 GTCAAAATGC
9363734 AATTTTTATTTTTAA
1 AATTTTTATTTTTAA
*
9363749 AATTTTT-TTTTTGA
1 AATTTTTATTTTTAA
9363763 AATTTT
1 AATTTT
9363769 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
AATTTTTATTTTTAA
Found at i:9364094 original size:55 final size:52
Alignment explanation
Indices: 9364010--9364212 Score: 270
Period size: 54 Copynumber: 3.8 Consensus size: 52
9364000 CACGTGAGCC
*
9364010 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-AGAA-TTG-AA
*
9364065 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG--AAA-AATAGAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAAGAATTG-AA
*
9364116 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAA-AG-AATTGAA
9364170 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAGAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-GAAA
9364213 TTGAAAAGTA
Statistics
Matches: 134, Mismatches: 6, Indels: 17
0.85 0.04 0.11
Matches are distributed among these distances:
50 6 0.04
51 36 0.27
52 2 0.01
53 3 0.02
54 45 0.34
55 33 0.25
56 9 0.07
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (52 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAGAATTGAA
Found at i:9364224 original size:14 final size:14
Alignment explanation
Indices: 9364207--9364233 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9364197 AGTTGATTTT
9364207 TAGAAATTGAAAAG
1 TAGAAATTGAAAAG
9364221 TAGAAATTGAAAA
1 TAGAAATTGAAAA
9364234 TACCTCAGCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (14 bp):
TAGAAATTGAAAAG
Found at i:9364436 original size:177 final size:169
Alignment explanation
Indices: 9364174--9364553 Score: 487
Period size: 176 Copynumber: 2.2 Consensus size: 169
9364164 AATTAAAAGG
* ** *
9364174 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTAGAAATTGAAAAGTAGAAATTGAAAATACCT
1 CTCAACTCACCTCTTGCAATATGAGTTGATTTAAAGAAATTGAAAAGCAGAAATTGAAAATACCT
* *
9364239 CAGCGTGCCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTTGAAACA-CAGAA
66 CAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA----TTTTTGAAA-AGCAGAA
* *
9364303 ATT-AAAAACAGAATTTGAAAAGACCTCAGCGTGTG-GCCTGAGA
126 ATTAAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCC-GAGA
*
9364346 CTCAACTCACCTCTTGCAATATGAGTTGATTTGAAAAGTAGAATTAGTAAAGCAGAAATTGAAAA
1 CTCAACTCACCTCTTGCAATATGAGTTGATTT--AAAG-A-AATT-GAAAAGCAGAAATTGAAAA
* * *
9364411 TACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAGCATAG
61 TACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAGCAGAA
* * *
9364476 ATTGAAAAAAACATAAATTGAAAATACCTCAGCATGTGAGCCGAGG
126 ATT--AAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGA
9364522 CTCAACTCACCTCTTGCAATATGAGTTGATTT
1 CTCAACTCACCTCTTGCAATATGAGTTGATTT
9364554 TTGAAAAACA
Statistics
Matches: 183, Mismatches: 15, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
172 32 0.17
173 15 0.08
174 2 0.01
175 1 0.01
176 67 0.37
177 66 0.36
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (169 bp):
CTCAACTCACCTCTTGCAATATGAGTTGATTTAAAGAAATTGAAAAGCAGAAATTGAAAATACCT
CAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAGCAGAAATTAA
AAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGA
Found at i:9364450 original size:85 final size:86
Alignment explanation
Indices: 9364171--9364553 Score: 378
Period size: 85 Copynumber: 4.4 Consensus size: 86
9364161 AGAAATTAAA
* ** **
9364171 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTT--TTAG-A-AATT-GAAAAGTAGAAATTGA
1 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTGAAAAGTAGAATTAGAAAAACAGAAATTGA
*
9364231 AAATACCTCAGC-GTGCCCTG
66 AAATACCTCAGCTGTGGCCTG
*
9364251 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTTGAAACA-CAGAAATT--AAAAACA
1 AGGCTCAACTCACCTCTTGCAATATGAGTTGA------TTTGAAA-AGTAG-AATTAGAAAAACA
* *
9364313 GAATTTGAAAAGACCTCAGCGTGTGGCCTG
58 GAAATTGAAAATACCTCAGC-TGTGGCCTG
* * *
9364343 AGACTCAACTCACCTCTTGCAATATGAGTTGATTTGAAAAGTAGAATTAGTAAAGCAGAAATTGA
1 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTGAAAAGTAGAATTAGAAAAACAGAAATTGA
9364408 AAATACCTCAGC-GT-GCCTTG
66 AAATACCTCAGCTGTGGCC-TG
* * * *
9364428 AGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAGCATAG-ATTGAAAAAAACATAA
1 AGGCTCAACTCACCTCTTGCAATATGAGTTGA--TTTGAAAAG--TAGAATT-AGAAAAACAGAA
9364492 ATTGAAAATACCTCAGCATGTGAGCC-G
61 ATTGAAAATACCTCAGC-TGTG-GCCTG
9364519 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTT
1 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTT
9364554 TTGAAAAACA
Statistics
Matches: 253, Mismatches: 23, Indels: 45
0.79 0.07 0.14
Matches are distributed among these distances:
80 31 0.12
84 3 0.01
85 38 0.15
86 12 0.05
87 32 0.13
88 3 0.01
89 33 0.13
90 23 0.09
91 37 0.15
92 38 0.15
93 3 0.01
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (86 bp):
AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTGAAAAGTAGAATTAGAAAAACAGAAATTGA
AAATACCTCAGCTGTGGCCTG
Found at i:9364499 original size:15 final size:16
Alignment explanation
Indices: 9364466--9364499 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9364456 TTGATTTTTG
* *
9364466 AAAAGCATAGATTGAA
1 AAAAACATAAATTGAA
9364482 AAAAACATAAATTGAA
1 AAAAACATAAATTGAA
9364498 AA
1 AA
9364500 TACCTCAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (16 bp):
AAAAACATAAATTGAA
Found at i:9365344 original size:192 final size:192
Alignment explanation
Indices: 9364518--9365509 Score: 1870
Period size: 190 Copynumber: 5.2 Consensus size: 192
9364508 CATGTGAGCC
** *
9364518 GAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGGCTTAACT
9364583 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTG-CCCGAGGCTC
65 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
* *
9364647 AACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
130 AACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
9364710 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAAC-AAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
9364774 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
9364839 ACTCACTTCTCGCAATATGAGTTGA-TTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
9364900 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
9364965 ACCTCTCGCAATATGAGTCAATTTAAAACATAAAC-AAAAATACCTCGGCGTG-CCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
9365028 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
9365090 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
9365155 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
9365220 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
9365282 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
*
9365347 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCAAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
*
9365412 ACTCACTTCTCGCAATATGAGTTGA-TTTTTTAAAAAAATTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
9365473 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
9365510 CCTTGGAAAG
Statistics
Matches: 788, Mismatches: 7, Indels: 11
0.98 0.01 0.01
Matches are distributed among these distances:
189 36 0.05
190 305 0.39
191 190 0.24
192 257 0.33
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.30
Consensus pattern (192 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:9365455 original size:69 final size:71
Alignment explanation
Indices: 9365335--9365509 Score: 205
Period size: 69 Copynumber: 2.5 Consensus size: 71
9365325 CAAAAATTAA
* * * * **
9365335 AAGGCTTAACTCACCTCTCGCAATATGAG-TCA-ATTTAAAACATAAACTAAAAATACCTCGGCG
1 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAACATAAACTAAAAATACCTCAACG
9365398 TGCCCC
66 TGCCCC
* *
9365404 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTAAA-A-AAATTAAAAATACCTCAACG
1 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAACATAAACTAAAAATACCTCAACG
* **
9365467 TGTCTT
66 TGCCCC
* *
9365473 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
9365510 CCTTGGAAAG
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
69 82 0.90
70 3 0.03
71 6 0.07
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (71 bp):
AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAACATAAACTAAAAATACCTCAACG
TGCCCC
Found at i:9373708 original size:17 final size:17
Alignment explanation
Indices: 9373682--9373825 Score: 130
Period size: 17 Copynumber: 8.4 Consensus size: 17
9373672 CGAGATTTTT
9373682 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
*
9373700 TTTTCAAAACACCG-AAA
1 TTTTTAAAACA-CGAAAA
* **
9373717 TTTTTGAAAACAAGAGGA
1 TTTTT-AAAACACGAAAA
* *
9373735 TTTTTGAAATACGAAAAA
1 TTTTTAAAACACG-AAAA
*
9373753 TTTTGAAAACACGAAAA
1 TTTTTAAAACACGAAAA
* *
9373770 TTTTTGAAACACGGAAA
1 TTTTTAAAACACGAAAA
*
9373787 TTTTTGAAA-ACGAAAA
1 TTTTTAAAACACGAAAA
* *
9373803 TTTTTGAAACACAAAAA
1 TTTTTAAAACACGAAAA
9373820 TTTTTA
1 TTTTTA
9373826 GAAAACACTA
Statistics
Matches: 102, Mismatches: 19, Indels: 11
0.77 0.14 0.08
Matches are distributed among these distances:
16 15 0.15
17 57 0.56
18 30 0.29
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:9373715 original size:18 final size:17
Alignment explanation
Indices: 9373683--9373849 Score: 128
Period size: 17 Copynumber: 9.5 Consensus size: 17
9373673 GAGATTTTTT
9373683 TTTTGAAAACACGAAAA
1 TTTTGAAAACACGAAAA
* *
9373700 TTTTCAAAACACCGAAAT
1 TTTTGAAAACA-CGAAAA
* * *
9373718 TTTTGAAAACAAGAGGAT
1 TTTTGAAAACACGA-AAA
*
9373736 TTTTG-AAATACGAAAAA
1 TTTTGAAAACACG-AAAA
9373753 TTTTGAAAACACGAAAA
1 TTTTGAAAACACGAAAA
*
9373770 TTTTTG-AAACACGGAAAT
1 -TTTTGAAAACAC-GAAAA
9373788 TTTTG-AAA-ACGAAAA
1 TTTTGAAAACACGAAAA
*
9373803 TTTTTG-AAACACAAAAA
1 -TTTTGAAAACACGAAAA
*
9373820 TTTTTAGAAAACACTAAAAA
1 -TTTT-GAAAACAC-GAAAA
9373840 TTTTGGAAAA
1 TTTT-GAAAA
9373850 TGGATTTTTT
Statistics
Matches: 125, Mismatches: 14, Indels: 20
0.79 0.09 0.13
Matches are distributed among these distances:
15 4 0.03
16 10 0.08
17 52 0.42
18 39 0.31
19 15 0.12
20 5 0.04
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (17 bp):
TTTTGAAAACACGAAAA
Found at i:9373728 original size:35 final size:35
Alignment explanation
Indices: 9373682--9373844 Score: 179
Period size: 35 Copynumber: 4.7 Consensus size: 35
9373672 CGAGATTTTT
**
9373682 TTTTTGAAAACACGAAAATTTTCAAAACACCGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
* ** *
9373717 TTTTTGAAAACAAGAGGATTTTTGAAATA-CGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCG-AAA
* *
9373752 ATTTTGAAAACACGAAAATTTTTGAAACACGGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
**
9373787 TTTTTG-AAA-ACGAAAATTTTTGAAACACAAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
* *
9373820 TTTTTAGAAAACACTAAAAATTTTG
1 TTTTT-GAAAACACGAAAATTTTTG
9373845 GAAAATGGAT
Statistics
Matches: 106, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
33 27 0.25
34 6 0.06
35 61 0.58
36 12 0.11
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
Found at i:9374030 original size:218 final size:217
Alignment explanation
Indices: 9373803--9374225 Score: 477
Period size: 218 Copynumber: 1.9 Consensus size: 217
9373793 AAAACGAAAA
* * *
9373803 TTTTTGAAACAC-AAAAATTTTTAGAAAACACTAAAAATTTTGGAAAAT-G-GATTTTTTTTTTG
1 TTTTTGAAACACGAAAAATTTTT-GAAAACACGAAAAATTTTGAAAAATAGAAATTTTTTTTTTG
* *
9373865 AAAACACTG-GA-TTTTTTTACACAAAATTTTTGATTTTTTATTAAA-CACGTATCG-TATTTAA
65 AAAACA-TGAGACTTTTTTT--A-AAAATTTTT--TATTTTA-AAAAGCACGTATCGAT-TTTAA
* * *
9373926 CACGAATCGGTGATATTCACTCAACATAGCAATGAAATCAACGA-ATTAGTGTCAAATCGATTCA
122 CACGAACCAGTGATATTCACCCAACATAGCAATGAAATCAACGATATTA-TGTCAAATCGATTCA
*
9373990 TTGTCTTATTT-TTAAAAACACGAATATATTT
186 TTGCCTTATTTATTAAAAACACGAATATATTT
**
9374021 TTTTTGAAACACGAGAAAAATTTTTGAAGGCACGAAAAATTTTGAAAAATAGAAATTTTTTTTTT
1 TTTTTGAAACAC--GAAAAATTTTTGAAAACACGAAAAATTTTGAAAAATAGAAATTTTTTTTTT
* * * ** *
9374086 GTAAATATGAGACTTTTTTTAAATATTTTTTATTTTAAAAAGGGCGTATCGATTTTAACGCGAAC
64 GAAAACATGAGACTTTTTTTAAAAATTTTTTATTTTAAAAAGCACGTATCGATTTTAACACGAAC
* * * * *
9374151 CAGTGATATTCACCCAACGTAGCGATGAAATCAACGATTTTATGTTAAATCGATTCGTTGCCTTA
129 CAGTGATATTCACCCAACATAGCAATGAAATCAACGATATTATGTCAAATCGATTCATTGCCTTA
9374216 TTTATTAAAA
194 TTTATTAAAA
9374226 TTATCTAAAA
Statistics
Matches: 172, Mismatches: 22, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
217 3 0.02
218 91 0.53
219 10 0.06
220 29 0.17
221 14 0.08
222 18 0.10
223 7 0.04
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (217 bp):
TTTTTGAAACACGAAAAATTTTTGAAAACACGAAAAATTTTGAAAAATAGAAATTTTTTTTTTGA
AAACATGAGACTTTTTTTAAAAATTTTTTATTTTAAAAAGCACGTATCGATTTTAACACGAACCA
GTGATATTCACCCAACATAGCAATGAAATCAACGATATTATGTCAAATCGATTCATTGCCTTATT
TATTAAAAACACGAATATATTT
Found at i:9374059 original size:20 final size:19
Alignment explanation
Indices: 9374021--9374067 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
9374011 GAATATATTT
9374021 TTTTTGAAACACGAGAAAAA
1 TTTTTGAAACACG-GAAAAA
*
9374041 TTTTTGAAGGCAC-GAAAAA
1 TTTTTGAA-ACACGGAAAAA
9374060 -TTTTGAAA
1 TTTTTGAAA
9374068 AATAGAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 7 0.29
19 6 0.25
20 8 0.33
21 3 0.12
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.30
Consensus pattern (19 bp):
TTTTTGAAACACGGAAAAA
Found at i:9374450 original size:8 final size:7
Alignment explanation
Indices: 9374428--9374505 Score: 77
Period size: 7 Copynumber: 10.7 Consensus size: 7
9374418 ATTGAAACTC
9374428 TTTTT-T
1 TTTTTCT
*
9374434 TTCTTCT
1 TTTTTCT
9374441 TTTTTCCT
1 TTTTT-CT
9374449 TTTTTCT
1 TTTTTCT
*
9374456 CTTTTCTT
1 TTTTTC-T
9374464 TTTTTCT
1 TTTTTCT
*
9374471 TCTTTCTT
1 TTTTTC-T
9374479 TTTTTCT
1 TTTTTCT
9374486 TTTTTCT
1 TTTTTCT
*
9374493 TTCTCTCT
1 TT-TTTCT
9374501 TTTTT
1 TTTTT
9374506 TCCTGGCCTG
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
6 4 0.07
7 30 0.51
8 25 0.42
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTCT
Found at i:9374462 original size:22 final size:21
Alignment explanation
Indices: 9374437--9374503 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 21
9374427 CTTTTTTTTC
9374437 TTCTTTTTTCCTTTTTTCTCTT
1 TTCTTTTTT-CTTTTTTCTCTT
* *
9374459 TTCTTTTTTTCTTCTTTCTTTTT
1 TTC-TTTTTTCTTTTTTC-TCTT
*
9374482 TTCTTTTTTC-TTTCTCTCTT
1 TTCTTTTTTCTTTTTTCTCTT
9374502 TT
1 TT
9374504 TTTCCTGGCC
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 5 0.13
21 4 0.11
22 17 0.45
23 12 0.32
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (21 bp):
TTCTTTTTTCTTTTTTCTCTT
Found at i:9374482 original size:30 final size:30
Alignment explanation
Indices: 9374425--9374494 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 30
9374415 CGAATTGAAA
*
9374425 CTCTTTT-TTTTCTTCTTTTTTCCTTTTTT
1 CTCTTTTCTTTTCTTCTTCTTTCCTTTTTT
* *
9374454 CTCTTTTCTTTTTTTCTTCTTTCTTTTTTT
1 CTCTTTTCTTTTCTTCTTCTTTCCTTTTTT
*
9374484 CTTTTTTCTTT
1 CTCTTTTCTTT
9374495 CTCTCTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 7 0.19
30 29 0.81
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (30 bp):
CTCTTTTCTTTTCTTCTTCTTTCCTTTTTT
Found at i:9374483 original size:23 final size:23
Alignment explanation
Indices: 9374426--9374507 Score: 89
Period size: 23 Copynumber: 3.6 Consensus size: 23
9374416 GAATTGAAAC
*
9374426 TCTTT-TTTTTCTTCTTTTTTCCT
1 TCTTTCTTTTT-TTCTTTTTTTCT
* *
9374449 TTTTTC-TCTTTTCTTTTTTTCT
1 TCTTTCTTTTTTTCTTTTTTTCT
9374471 TCTTTCTTTTTTTC-TTTTTTCTT
1 TCTTTCTTTTTTTCTTTTTTTC-T
*
9374494 TCTCTCTTTTTTTC
1 TCTTTCTTTTTTTC
9374508 CTGGCCTGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
22 23 0.46
23 27 0.54
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (23 bp):
TCTTTCTTTTTTTCTTTTTTTCT
Found at i:9374505 original size:15 final size:15
Alignment explanation
Indices: 9374428--9374505 Score: 81
Period size: 15 Copynumber: 5.3 Consensus size: 15
9374418 ATTGAAACTC
9374428 TTTTT-TTTC-TTCT
1 TTTTTCTTTCTTTCT
9374441 TTTTTCCTTT-TTTCT
1 TTTTT-CTTTCTTTCT
* *
9374456 CTTTTCTTTTTTTCT
1 TTTTTCTTTCTTTCT
* *
9374471 TCTTTCTTTTTTTCT
1 TTTTTCTTTCTTTCT
*
9374486 TTTTTCTTTCTCTCT
1 TTTTTCTTTCTTTCT
9374501 TTTTT
1 TTTTT
9374506 TCCTGGCCTG
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
13 5 0.09
14 4 0.07
15 46 0.84
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTCTTTCTTTCT
Found at i:9374631 original size:14 final size:14
Alignment explanation
Indices: 9374600--9374650 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
9374590 GGCCTGCTTC
*
9374600 TTTTTTCTGGGCTA
1 TTTTTTTTGGGCTA
*
9374614 TTTTTTTTGGGC-C
1 TTTTTTTTGGGCTA
* *
9374627 TTTTTTTTAGGCTGC
1 TTTTTTTTGGGCT-A
9374642 TTTTTTTTG
1 TTTTTTTTG
9374651 CTTTAGTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 11 0.35
14 11 0.35
15 9 0.29
ACGTcount: A:0.04, C:0.12, G:0.20, T:0.65
Consensus pattern (14 bp):
TTTTTTTTGGGCTA
Found at i:9374800 original size:3 final size:3
Alignment explanation
Indices: 9374794--9374831 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
9374784 TTTTTTTTCT
9374794 TTC TTC TTC TTTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC T
9374832 CCTCCTACAC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:9374917 original size:10 final size:10
Alignment explanation
Indices: 9374902--9374931 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
9374892 GGTCTCCTCT
9374902 TTCTCTTTTC
1 TTCTCTTTTC
9374912 TTCTCTTTTC
1 TTCTCTTTTC
*
9374922 TTCTTTTTTC
1 TTCTCTTTTC
9374932 CTTCGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (10 bp):
TTCTCTTTTC
Found at i:9375238 original size:30 final size:30
Alignment explanation
Indices: 9375195--9375296 Score: 116
Period size: 30 Copynumber: 3.4 Consensus size: 30
9375185 ATTTAGGATT
* *
9375195 AAAATGGAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
9375225 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
9375255 AAAATGAAATTT-AGGAAAAGCTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
9375285 AAAATGCAATTT
1 AAAATGAAATTT
9375297 TTATTTTTAA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 2 0.03
30 58 0.97
ACGTcount: A:0.43, C:0.05, G:0.24, T:0.28
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:9375311 original size:14 final size:15
Alignment explanation
Indices: 9375292--9375326 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
9375282 GTCAAAATGC
9375292 AATTTTTATTTTT-A
1 AATTTTTATTTTTGA
*
9375306 AATTTTTTTTTTTGA
1 AATTTTTATTTTTGA
9375321 AATTTT
1 AATTTT
9375327 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (15 bp):
AATTTTTATTTTTGA
Found at i:9377745 original size:29 final size:29
Alignment explanation
Indices: 9377697--9377759 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
9377687 GGAACCCAAC
* *
9377697 TAATAATTGGATTTAGTTGTAATTGCTTG
1 TAATAATTGGATTTAGTTGTAACTACTTG
*
9377726 TAATAATTGGATTT-GATTGTTACTACTTG
1 TAATAATTGGATTTAG-TTGTAACTACTTG
9377755 TAATA
1 TAATA
9377760 CTATTGTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.30, C:0.05, G:0.17, T:0.48
Consensus pattern (29 bp):
TAATAATTGGATTTAGTTGTAACTACTTG
Found at i:9378036 original size:19 final size:19
Alignment explanation
Indices: 9377997--9378037 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
9377987 TATATTATTT
* *
9377997 AAATTATAAAAAATTTCTA
1 AAATTATAAAAAATATATA
*
9378016 AAATTATGAAAAATATATA
1 AAATTATAAAAAATATATA
9378035 AAA
1 AAA
9378038 AATAATTAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
AAATTATAAAAAATATATA
Found at i:9384835 original size:17 final size:17
Alignment explanation
Indices: 9384813--9384845 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9384803 AGAAACCCAT
*
9384813 AAAATAAAATTAAAAAC
1 AAAATAAAACTAAAAAC
9384830 AAAATAAAACTAAAAA
1 AAAATAAAACTAAAAA
9384846 TGGCCAGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAATAAAACTAAAAAC
Found at i:9385705 original size:18 final size:19
Alignment explanation
Indices: 9385682--9385722 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
9385672 TATTTTATAC
* *
9385682 TAATTTTTTGATTCTTT-T
1 TAATTTTTTAATTATTTAT
9385700 TAATTTTTTAATTATTTAT
1 TAATTTTTTAATTATTTAT
9385719 TAAT
1 TAAT
9385723 ATGACATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (19 bp):
TAATTTTTTAATTATTTAT
Found at i:9389822 original size:13 final size:13
Alignment explanation
Indices: 9389804--9389828 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9389794 CAATCAAATT
9389804 CACACAAAATAAA
1 CACACAAAATAAA
9389817 CACACAAAATAA
1 CACACAAAATAA
9389829 TATTAAAATA
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:9390337 original size:15 final size:15
Alignment explanation
Indices: 9390284--9390496 Score: 178
Period size: 15 Copynumber: 14.1 Consensus size: 15
9390274 ACCCTTTGCC
9390284 GCTGTACCAAATGCT
1 GCTGTACCAAATGCT
* *
9390299 G-TAGCACCAAATGTT
1 GCT-GTACCAAATGCT
* *
9390314 G-TTTACCAAATGTT
1 GCTGTACCAAATGCT
* *
9390328 GCGGTACCAAATGAT
1 GCTGTACCAAATGCT
* *
9390343 GCTGTACCAAACGCC
1 GCTGTACCAAATGCT
* *
9390358 ACGGTACCAAATGCT
1 GCTGTACCAAATGCT
9390373 GCTGTACCAAATGCT
1 GCTGTACCAAATGCT
* * *
9390388 GTTGTACCAAACGTT
1 GCTGTACCAAATGCT
*
9390403 GCGGTACCAAATGCT
1 GCTGTACCAAATGCT
*
9390418 GCTGTACCAAACGCT
1 GCTGTACCAAATGCT
* *
9390433 GCGGTGCCAAATGCT
1 GCTGTACCAAATGCT
* *
9390448 GCTATACCAAAACGCT
1 GCTGTACC-AAATGCT
* *
9390464 GCGGTGCCAAATGCT
1 GCTGTACCAAATGCT
* *
9390479 ACTATACCGAAATGCT
1 GCTGTACC-AAATGCT
9390495 GC
1 GC
9390497 GATAGCAAAT
Statistics
Matches: 152, Mismatches: 42, Indels: 7
0.76 0.21 0.03
Matches are distributed among these distances:
14 12 0.08
15 121 0.80
16 19 0.12
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (15 bp):
GCTGTACCAAATGCT
Found at i:9397953 original size:30 final size:30
Alignment explanation
Indices: 9397917--9397973 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
9397907 GGGGACACAC
9397917 GCCCGTGTGTCTCACACGGCCAAAAGACAT
1 GCCCGTGTGTCTCACACGGCCAAAAGACAT
*
9397947 GCCCGTGTGTCTCACATGGCCAAAAGA
1 GCCCGTGTGTCTCACACGGCCAAAAGA
9397974 AACGCCTGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.26, C:0.32, G:0.25, T:0.18
Consensus pattern (30 bp):
GCCCGTGTGTCTCACACGGCCAAAAGACAT
Found at i:9400796 original size:18 final size:20
Alignment explanation
Indices: 9400775--9400815 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
9400765 GACATATTTA
*
9400775 TTTTGATGT-TTTTA-GTAT
1 TTTTGATGTATTATATGTAT
9400793 TTTTGATGTATTATATGTAT
1 TTTTGATGTATTATATGTAT
9400813 TTT
1 TTT
9400816 AAAATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 4 0.20
20 7 0.35
ACGTcount: A:0.20, C:0.00, G:0.15, T:0.66
Consensus pattern (20 bp):
TTTTGATGTATTATATGTAT
Found at i:9403009 original size:60 final size:60
Alignment explanation
Indices: 9402887--9403040 Score: 186
Period size: 60 Copynumber: 2.6 Consensus size: 60
9402877 AATTGCTGCG
* *
9402887 GTACCAAACGCTGCT-ATTCCAAATGTT-TCTGTACAAAACGTTACGGTAGCAAATACTACT
1 GTACCAAATGCTG-TGATACCAAATGTTGT-TGTACAAAACGTTACGGTAGCAAATACTACT
* * ** *
9402947 GTACCAAATGCTGTGATACCAAATGTTGTTGTACAAAACGTTGCGGTAGCAAGTGTTGCT
1 GTACCAAATGCTGTGATACCAAATGTTGTTGTACAAAACGTTACGGTAGCAAATACTACT
* * *
9403007 GTACCAAATGCTGCGGTACCAAATGCTGTTGTAC
1 GTACCAAATGCTGTGATACCAAATGTTGTTGTAC
9403041 TAAATGCGGA
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
59 1 0.01
60 80 0.98
61 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (60 bp):
GTACCAAATGCTGTGATACCAAATGTTGTTGTACAAAACGTTACGGTAGCAAATACTACT
Found at i:9403040 original size:15 final size:15
Alignment explanation
Indices: 9402826--9403047 Score: 131
Period size: 15 Copynumber: 14.8 Consensus size: 15
9402816 CCTCTTCCAT
*
9402826 TGTACCAAATGCTAC
1 TGTACCAAATGCTGC
* *
9402841 AGCACCAAATGCTGC
1 TGTACCAAATGCTGC
* * *
9402856 GGTACCAAATGCAGG
1 TGTACCAAATGCTGC
*
9402871 TGTACCAATTGCTGC
1 TGTACCAAATGCTGC
* *
9402886 GGTACCAAACGCTGC
1 TGTACCAAATGCTGC
* * * *
9402901 TATTCCAAATGTTTC
1 TGTACCAAATGCTGC
* * * *
9402916 TGTACAAAACGTTAC
1 TGTACCAAATGCTGC
* * * *
9402931 GGTAGCAAATACTAC
1 TGTACCAAATGCTGC
9402946 TGTACCAAATGCTG-
1 TGTACCAAATGCTGC
* *
9402960 TGATACCAAATGTTGT
1 TG-TACCAAATGCTGC
* * *
9402976 TGTACAAAACGTTGC
1 TGTACCAAATGCTGC
* * * *
9402991 GGTAGCAAGTGTTGC
1 TGTACCAAATGCTGC
9403006 TGTACCAAATGCTGC
1 TGTACCAAATGCTGC
* *
9403021 GGTACCAAATGCTGT
1 TGTACCAAATGCTGC
*
9403036 TGTACTAAATGC
1 TGTACCAAATGC
9403048 GGATGAGAAA
Statistics
Matches: 153, Mismatches: 52, Indels: 4
0.73 0.25 0.02
Matches are distributed among these distances:
14 2 0.01
15 149 0.97
16 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (15 bp):
TGTACCAAATGCTGC
Found at i:9403063 original size:60 final size:58
Alignment explanation
Indices: 9402945--9403064 Score: 143
Period size: 60 Copynumber: 2.0 Consensus size: 58
9402935 GCAAATACTA
* * *
9402945 CTGTACCAAATGCTGTGATACCAAATGTTGTTGTACAAAACGTTGCGGTAGCAAGTGTTG
1 CTGTACCAAATGCTGCGATACCAAATGCTGTTGTACAAAAC--TGCGGTAGAAAGTGTTG
* *
9403005 CTGTACCAAATGCTGCGGTACCAAATGCTGTTGTACTAAA-TGCGGATGAGAAATGTGTTG
1 CTGTACCAAATGCTGCGATACCAAATGCTGTTGTACAAAACTGCGG-T-AGAAA-GTGTTG
9403065 ACAATGCGAA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
57 5 0.10
58 1 0.02
59 4 0.08
60 42 0.81
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (58 bp):
CTGTACCAAATGCTGCGATACCAAATGCTGTTGTACAAAACTGCGGTAGAAAGTGTTG
Found at i:9407194 original size:62 final size:61
Alignment explanation
Indices: 9407093--9407211 Score: 220
Period size: 62 Copynumber: 1.9 Consensus size: 61
9407083 ATGAGATAGC
9407093 AGTGGTTTTGACCACATGTTGGCACATAGTGTGCAAGATTCTCGGGTATTCGATATTATTCT
1 AGTGGTTTTGACCACATGTTGGCACATAGTGTGCAAGATTCTCGGGTATTCGA-ATTATTCT
*
9407155 AGTGGTTTTGACCACATGTTGGCACATAGTGTGCGAGATTCTCGGGTATTCGAATTA
1 AGTGGTTTTGACCACATGTTGGCACATAGTGTGCAAGATTCTCGGGTATTCGAATTA
9407212 GAAGAAGGAA
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
61 4 0.07
62 52 0.93
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (61 bp):
AGTGGTTTTGACCACATGTTGGCACATAGTGTGCAAGATTCTCGGGTATTCGAATTATTCT
Found at i:9414316 original size:22 final size:22
Alignment explanation
Indices: 9414287--9414416 Score: 120
Period size: 22 Copynumber: 6.0 Consensus size: 22
9414277 GAAAGCACCA
*
9414287 TAAT-AGAGAGCATAAAAGTGC
1 TAATCAGAGAGCACAAAAGTGC
**
9414308 TAATCAGAGAGCACCGAAGTGC
1 TAATCAGAGAGCACAAAAGTGC
* ** *
9414330 TAAACAGAGAGCACAAATTTAC
1 TAATCAGAGAGCACAAAAGTGC
* * *
9414352 TAATCAAAGAGCACCAAAGTGT
1 TAATCAGAGAGCACAAAAGTGC
*
9414374 TGAA-CAGAGAGCACATAAGTGC
1 T-AATCAGAGAGCACAAAAGTGC
* *
9414396 TAATCAAAGAGCACCAAAGTG
1 TAATCAGAGAGCACAAAAGTG
9414417 TTGAACAGTT
Statistics
Matches: 83, Mismatches: 23, Indels: 5
0.75 0.21 0.05
Matches are distributed among these distances:
21 6 0.07
22 75 0.90
23 2 0.02
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.16
Consensus pattern (22 bp):
TAATCAGAGAGCACAAAAGTGC
Found at i:9414417 original size:44 final size:43
Alignment explanation
Indices: 9414291--9414424 Score: 178
Period size: 44 Copynumber: 3.0 Consensus size: 43
9414281 GCACCATAAT
* * * * *
9414291 AGAGAGCATAAAAGTGCTAATCAGAGAGCACCGAAGTGCTAAAC
1 AGAGAGCA-CAAAGTGCTAATCAAAGAGCACCAAAGTGTTGAAC
* *
9414335 AGAGAGCACAAATTTACTAATCAAAGAGCACCAAAGTGTTGAAC
1 AGAGAGCACAAA-GTGCTAATCAAAGAGCACCAAAGTGTTGAAC
9414379 AGAGAGCACATAAGTGCTAATCAAAGAGCACCAAAGTGTTGAAC
1 AGAGAGCACA-AAGTGCTAATCAAAGAGCACCAAAGTGTTGAAC
9414423 AG
1 AG
9414425 TTAATAGAGC
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
43 3 0.04
44 74 0.94
45 2 0.03
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (43 bp):
AGAGAGCACAAAGTGCTAATCAAAGAGCACCAAAGTGTTGAAC
Found at i:9424096 original size:21 final size:22
Alignment explanation
Indices: 9424057--9424109 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
9424047 TTCTCTTAAA
9424057 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
9424079 CTCTCAATTTCCTTCAAAAAAT-
1 CTCTCAAATTCCTTC-CAAAATC
9424101 CTCTCAAAT
1 CTCTCAAAT
9424110 CCATATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:9424176 original size:29 final size:28
Alignment explanation
Indices: 9424141--9424199 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 28
9424131 ATTCAAATTC
9424141 ATTTTTTTAAAGAAAATTTTAAATATTTTT
1 ATTTTTTTAAA-AAAATTTTAAA-ATTTTT
*
9424171 ATTTTTTTAAAATAATTTTAAAATTTTT
1 ATTTTTTTAAAAAAATTTTAAAATTTTT
9424199 A
1 A
9424200 AAATTTTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 7 0.25
29 10 0.36
30 11 0.39
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (28 bp):
ATTTTTTTAAAAAAATTTTAAAATTTTT
Found at i:9424206 original size:29 final size:30
Alignment explanation
Indices: 9424144--9424206 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 30
9424134 CAAATTCATT
**
9424144 TTTTTAAAGAAAATTTTAAATATTTTTATT
1 TTTTTAAAGAAAATTTTAAATATTTTTAAA
*
9424174 TTTTTAAA-ATAATTTTAAA-ATTTTTAAA
1 TTTTTAAAGAAAATTTTAAATATTTTTAAA
*
9424202 ATTTT
1 TTTTT
9424207 CAACAATGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 11 0.38
29 10 0.34
30 8 0.28
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (30 bp):
TTTTTAAAGAAAATTTTAAATATTTTTAAA
Found at i:9424321 original size:14 final size:15
Alignment explanation
Indices: 9424289--9424322 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
9424279 AAATTTTAAA
9424289 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
9424304 TTTTATTTAAG-TAT
1 TTTTATTTAAGATAT
9424318 TTTTA
1 TTTTA
9424323 GATAATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:9426147 original size:24 final size:24
Alignment explanation
Indices: 9426120--9426175 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
9426110 GCATGGCTTT
9426120 CAAACACCGTCGCCGTTCATGATG
1 CAAACACCGTCGCCGTTCATGATG
*
9426144 CAAACACCGTCGCTGTTCATGATG
1 CAAACACCGTCGCCGTTCATGATG
9426168 CAAACACC
1 CAAACACC
9426176 TCCGCATACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.20
Consensus pattern (24 bp):
CAAACACCGTCGCCGTTCATGATG
Found at i:9426565 original size:28 final size:28
Alignment explanation
Indices: 9426534--9427703 Score: 897
Period size: 29 Copynumber: 42.1 Consensus size: 28
9426524 TATTAAAAAC
*
9426534 CCTAAACTAATTTAATTAAAAACCCTAA
1 CCTAATCTAATTTAATTAAAAACCCTAA
9426562 -C----CTAATTTAATT-AAAACCCTAA
1 CCTAATCTAATTTAATTAAAAACCCTAA
*
9426584 CCTAATTTAATTTAATTAAAAACCCTAA
1 CCTAATCTAATTTAATTAAAAACCCTAA
* * *
9426612 CCCTAACCTATTTTAATTAAAAACCTTAA
1 -CCTAATCTAATTTAATTAAAAACCCTAA
*
9426641 CCTAATTTAATTTAATTAAAAACCCTAA
1 CCTAATCTAATTTAATTAAAAACCCTAA
*
9426669 CCTAATTTAATTTAATT-AAAACCCTAA
1 CCTAATCTAATTTAATTAAAAACCCTAA
* *
9426696 CTTAATTTAATTTAATTAAAAACCCTAA
1 CCTAATCTAATTTAATTAAAAACCCTAA
* * *
9426724 CCCTAACCCATTTTAATTAAAAACCCTAA
1 -CCTAATCTAATTTAATTAAAAACCCTAA
**** *
9426753 CC----CTAA-TTAACCCTAAACCTTAAA
1 CCTAATCTAATTTAATTAAAAACCCT-AA
* * *
9426777 CCCTAACCTATTTTAATTAAAATCCCTAA
1 -CCTAATCTAATTTAATTAAAAACCCTAA
* * *
9426806 CCCTAATTTAATTTAATTTAATACCCTAA
1 -CCTAATCTAATTTAATTAAAAACCCTAA
*
9426835 CCTAATTTAATTTAATTAAAAACCCTAA
1 CCTAATCTAATTTAATTAAAAACCCTAA
* * *
9426863 CCCTAACCCATTTTAATTAAAAACCCTAA
1 -CCTAATCTAATTTAATTAAAAACCCTAA
*
9426892 -C---TCTAATTTTAATTTAAGAACCCTAA
1 CCTAATCTAA-TTTAA-TTAAAAACCCTAA
* ***
9426918 CC----CTAATTT-GTCCTAAACCCTAAA
1 CCTAATCTAATTTAATTAAAAACCCT-AA
* *
9426942 CCCTAACCTAATTTAATTAACAACCCTAA
1 -CCTAATCTAATTTAATTAAAAACCCTAA
*
9426971 CC----C-ATTTTAATTAAAAACCCT-A
1 CCTAATCTAATTTAATTAAAAACCCTAA
9426993 ---AA-CTAATTTAATTAAAAACCCTAA
1 CCTAATCTAATTTAATTAAAAACCCTAA
* * *
9427017 CCCTAACCCATTTTAATTAAAAACCCTAA
1 -CCTAATCTAATTTAATTAAAAACCCTAA
* *
9427046 CCTAATTTAATTTAATTAAAAACCCTTA
1 CCTAATCTAATTTAATTAAAAACCCTAA
*
9427074 CCTAATTTAATTTAATTAAAAACCCTAA
1 CCTAATCTAATTTAATTAAAAACCCTAA
* * *
9427102 CCCTAACCCATTTTAATTAAAAACCCTAA
1 -CCTAATCTAATTTAATTAAAAACCCTAA
* *
9427131 CCCTAATTTAATTTAATTTTAAGAACCCTAAA
1 -CCTAATCTAATTTAA--TTAAAAACCCT-AA
* * * *
9427163 CTCTAACCCTAATTT-GTCATAAACCCTAAA
1 C-CTAA-TCTAATTTAATTAAAAACCCT-AA
*
9427193 CCCTAACCTAATTTAATTAAAAACCCTAA
1 -CCTAATCTAATTTAATTAAAAACCCTAA
* *
9427222 CCCTAATCCATTTTAATTAAAAACCCT-A
1 -CCTAATCTAATTTAATTAAAAACCCTAA
*
9427250 ---AA-CTAATTTAATTAAAAACTCTAA
1 CCTAATCTAATTTAATTAAAAACCCTAA
*
9427274 CCTAATTTAATTTAATTAAAAACCCTAAA
1 CCTAATCTAATTTAATTAAAAACCCT-AA
* *
9427303 TCTAA-CTCATTTTAATTAAAAACCCTAA
1 CCTAATCT-AATTTAATTAAAAACCCTAA
*
9427331 CCTAATTTAATTTAATTAAAAACCCTAA
1 CCTAATCTAATTTAATTAAAAACCCTAA
*
9427359 CCTAATTTAATTTAATTAAAAACCCTAA
1 CCTAATCTAATTTAATTAAAAACCCTAA
*
9427387 CC----C-ATTTTAATTAAAAACCCTAA
1 CCTAATCTAATTTAATTAAAAACCCTAA
*
9427410 CCCTAATTTAATTTAATTTAAAAACCCTAAA
1 -CCTAATCTAATTTAA-TTAAAAACCCT-AA
* * * **
9427441 CCCTAACCCTAATTTACCCTAAACCTTAAATACTAAA
1 -CCTAA-TCTAATTTA--ATTAA----AAACCCT-AA
* *
9427478 CCCTAACCTAATTTAATTTAAAACCCTAA
1 -CCTAATCTAATTTAATTAAAAACCCTAA
* * * *
9427507 CCCTAACCCATTTTAATTAAAAACGCT-A
1 -CCTAATCTAATTTAATTAAAAACCCTAA
9427535 ---AA-CTAATTTAATTAAAAACCCTAA
1 CCTAATCTAATTTAATTAAAAACCCTAA
*
9427559 CCTAATTTAATTTAATTAAAAACCCTAA
1 CCTAATCTAATTTAATTAAAAACCCTAA
* * *
9427587 CCTTAACCCATTTTAATTAAAAACCCTAA
1 CC-TAATCTAATTTAATTAAAAACCCTAA
*
9427616 CCTAATTTAATTTAATTAAAAACCCTAA
1 CCTAATCTAATTTAATTAAAAACCCTAA
* * *
9427644 CCCTAACCCATTTTAATTAAAAACCCTAA
1 -CCTAATCTAATTTAATTAAAAACCCTAA
* * *
9427673 CCCTAACCCATTTTAATTAAAAACCCTAA
1 -CCTAATCTAATTTAATTAAAAACCCTAA
9427702 CC
1 CC
9427704 ATTAACAAAA
Statistics
Matches: 935, Mismatches: 133, Indels: 148
0.77 0.11 0.12
Matches are distributed among these distances:
22 12 0.01
23 115 0.12
24 18 0.02
25 12 0.01
26 16 0.02
27 43 0.05
28 266 0.28
29 330 0.35
30 56 0.06
31 20 0.02
32 13 0.01
33 9 0.01
34 2 0.00
36 9 0.01
37 14 0.01
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.32
Consensus pattern (28 bp):
CCTAATCTAATTTAATTAAAAACCCTAA
Found at i:9426598 original size:23 final size:23
Alignment explanation
Indices: 9426507--9427630 Score: 240
Period size: 23 Copynumber: 42.0 Consensus size: 23
9426497 CCTAAACCTT
* * *
9426507 AAACCCTAACC-CATTTGTATTAA
1 AAACCCTAACCTAATTT-AATTTA
* *
9426530 AAACCCTAAACTAATTTAATTAA
1 AAACCCTAACCTAATTTAATTTA
9426553 AAACCCTAACCTAATTTAA-TTA
1 AAACCCTAACCTAATTTAATTTA
9426575 AAACCCTAACCTAATTTAATTTAATTAA
1 AAACCCTAACCTAATTTAA--T--TT-A
*
9426603 AAACCCTAACCCTAACCTATTTTAATTAA
1 AAACCCTAA-CCT-A---A-TTTAATTTA
*
9426632 AAACCTTAACCTAATTTAATTTAATTAA
1 AAACCCTAACCTAATTTAA--T--TT-A
9426660 AAACCCTAACCTAATTTAATTTAATTA
1 AAACCCTAACCTAATTTAA--T--TTA
*
9426687 AAACCCTAACTTAATTTAATTTAATTAA
1 AAACCCTAACCTAATTTAA--T--TT-A
*
9426715 AAACCCTAACCCTAACCCATTTTAATTAA
1 AAACCCTAA-CCT-A---A-TTTAATTTA
*
9426744 AAACCCTAACCCTAATTAACCCTAAACCTT-
1 AAACCCTAA-CCTAATT-----T-AA-TTTA
*
9426774 AAACCCTAACCTATTTTAA-TTA
1 AAACCCTAACCTAATTTAATTTA
9426796 AAATCCCTAACCCTAATTTAATTTAA
1 AAA-CCCTAA-CCTAATTTAATTT-A
9426822 TTTAATACCCTAACCTAATTTAATTTAATTAA
1 ---AA-ACCCTAACCTAATTTAA--T--TT-A
*
9426854 AAACCCTAACCCTAACCCATTTTAATTAA
1 AAACCCTAA-CCT-A---A-TTTAATTTA
9426883 AAACCCTAACTCTAATTTTAATTTA
1 AAACCCTAAC-CTAA-TTTAATTTA
* *
9426908 AGAACCCTAACCCTAATTT-GTCCTAAA
1 A-AACCCTAA-CCTAATTTAAT--T-TA
9426935 CCCTAAACCCTAACCTAATTTAA-TTA
1 ----AAACCCTAACCTAATTTAATTTA
* * *
9426961 ACAACCCTAACCCATTTTAATTAA
1 A-AACCCTAACCTAATTTAATTTA
* *
9426985 AAACCCTAAACTAATTTAATTAA
1 AAACCCTAACCTAATTTAATTTA
*
9427008 AAACCCTAACCCTAACCCATTTTAATTAA
1 AAACCCTAA-CCT-A---A-TTTAATTTA
9427037 AAACCCTAACCTAATTTAATTTAATTAA
1 AAACCCTAACCTAATTTAA--T--TT-A
*
9427065 AAACCCTTACCTAATTTAATTTAATTAA
1 AAACCCTAACCTAATTTAA--T--TT-A
*
9427093 AAACCCTAACCCTAACCCATTTTAATTAA
1 AAACCCTAA-CCT-A---A-TTTAATTTA
9427122 AAACCCTAACCCTAATTTAATTTAATTTTA
1 AAACCCTAA-CC-----TAATTTAA-TTTA
**
9427152 AGAACCCTAAACTCTAACCCTAATTTGTCATAAA
1 A-AACCCT-AAC-CTAA-TTTAA--T-T--T--A
*
9427186 CCCTAAACCCTAACCTAATTTAATTAA
1 ----AAACCCTAACCTAATTTAATTTA
*
9427213 AAACCCTAACCCTAATCCATTTTAATTAA
1 AAACCCTAA-CCT-A---A-TTTAATTTA
* *
9427242 AAACCCTAAACTAATTTAATTAA
1 AAACCCTAACCTAATTTAATTTA
*
9427265 AAACTCTAACCTAATTTAATTTAATTAA
1 AAACCCTAACCTAATTTAA--T--TT-A
* *
9427293 AAACCCTAAATCTAACTCATTTTAATTAA
1 AAACCCT-AA-C---CT-AATTTAATTTA
9427322 AAACCCTAACCTAATTTAATTTAATTAA
1 AAACCCTAACCTAATTTAA--T--TT-A
9427350 AAACCCTAACCTAATTTAATTTAATTAA
1 AAACCCTAACCTAATTTAA--T--TT-A
* * *
9427378 AAACCCTAACCCATTTTAATTAA
1 AAACCCTAACCTAATTTAATTTA
9427401 AAACCCTAACCCTAATTTAATTTAATTTAA
1 AAACCCTAA-CC-----TAATTTAATTT-A
**
9427431 AAACCCTAAACCCTAACCCTAATTT-
1 AAACCCT-AA-CCTAA-TTTAATTTA
* *
9427456 --ACCCTAAACC---TTAAATACT-
1 AAACCCT-AACCTAATTTAAT-TTA
9427475 AAACCCTAACCTAATTTAATTTA
1 AAACCCTAACCTAATTTAATTTA
*
9427498 AAACCCTAACCCTAACCCATTTTAATTAA
1 AAACCCTAA-CCT-A---A-TTTAATTTA
* * *
9427527 AAACGCTAAACTAATTTAATTAA
1 AAACCCTAACCTAATTTAATTTA
9427550 AAACCCTAACCTAATTTAATTTAATTAA
1 AAACCCTAACCTAATTTAA--T--TT-A
*
9427578 AAACCCTAACCTTAACCCATTTTAATTAA
1 AAACCCTAACC-T-A---A-TTTAATTTA
9427607 AAACCCTAACCTAATTTAATTTA
1 AAACCCTAACCTAATTTAATTTA
9427630 A
1 A
9427631 TTAAAAACCC
Statistics
Matches: 875, Mismatches: 70, Indels: 312
0.70 0.06 0.25
Matches are distributed among these distances:
18 3 0.00
19 1 0.00
20 4 0.00
21 7 0.01
22 28 0.03
23 203 0.23
24 38 0.04
25 25 0.03
26 19 0.02
27 52 0.06
28 186 0.21
29 174 0.20
30 47 0.05
31 15 0.02
32 15 0.02
33 8 0.01
34 36 0.04
35 4 0.00
36 3 0.00
37 6 0.01
38 1 0.00
ACGTcount: A:0.43, C:0.23, G:0.01, T:0.33
Consensus pattern (23 bp):
AAACCCTAACCTAATTTAATTTA
Found at i:9426843 original size:139 final size:137
Alignment explanation
Indices: 9426477--9427703 Score: 593
Period size: 137 Copynumber: 9.1 Consensus size: 137
9426467 ACCCAAACCT
* *
9426477 ACCCTAA-CCTAATCTAAAACCCTAAACCTTAAACCCTAACCCATTTGT-ATTAAAAACCCTAAA
1 ACCCTAACCCTAAT-T--AACCCTAAACCTTAAACCCTAACCTATTT-TAATTAAAAACCCTAAC
*** *
9426540 CTAATTTAA-TT-A--AAAACCCTAACC-----TAATTTAATT-AAAACCCTAA-CCTAATTTAA
62 CTAATTTAATTTAATTAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCCTAACCCAT
9426594 TTTAATTAAAA
127 TTTAATTAAAA
**** ** *
9426605 ACCCTAACCCTAACCTATTTTAATTAAAAACCTT-AA-CCTAATTTAATTTAATTAAAAACCCTA
1 ACCCTAACCCT-A---A--TTAACCCTAAACCTTAAACCCTAACCTATTTTAATTAAAAACCCTA
*
9426668 ACCTAATTTAATTTAATTAAAACCCTAACTTAATTTAATTTAATTAAAAACCCTAACCCTAACCC
60 ACCTAATTTAATTTAATTAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCCTAACCC
9426733 ATTTTAATTAAAA
125 ATTTTAATTAAAA
*
9426746 ACCCTAACCCTAATTAACCCTAAACCTTAAACCCTAACCTATTTTAATTAAAATCCCTAACCCTA
1 ACCCTAACCCTAATTAACCCTAAACCTTAAACCCTAACCTATTTTAATTAAAAACCCTAA-CCTA
*
9426811 ATTTAATTTAATTTAATACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCCTAACCCATTT
65 ATTTAATTTAA-TTAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCCTAACCCATTT
9426876 TAATTAAAA
129 TAATTAAAA
* * * * * ***
9426885 ACCCTAACTCTAATT-----TTAA-TTTAAGAACCCTAACCCTAATTT-GTCCTAAACCCTAAAC
1 ACCCTAACCCTAATTAACCCTAAACCTT-A-AACCCTAA-CCTATTTTAATTAAAAACCCT-AA-
** * *
9426943 CCTAACCTAATTTAATTAACAACCCTAACC-CA--T--TTTAATTAAAAACCCTAA-ACT-A---
61 CCTAATTTAATTTAATTAA-AACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCCTAACCC
9426998 A-TTTAATTAAAA
125 ATTTTAATTAAAA
*** ** *
9427010 ACCCTAACCCTAACCCA-TTTTAA--TTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCT
1 ACCCTAACCCTAATTAACCCTAAACCTT--AAACCCTAACCT-A--T--TTTAATTAAAAACCCT
* *** *
9427072 TACCTAATTTAATTTAATTAAAAACCCTAACCCTAACCCATTTTAATTAAAAACCCTAACCCTAA
59 AACCTAATTTAATTTAATT-AAAACCCTAA-CCTAATTTAATTTAATTAAAAACCCTAACCCTAA
*** *
9427137 TTTAATTTAATTTTAAGAACCCTAA
122 CCCATTTTAA--TT---AA----AA
* *** * * *
9427162 ACTCTAACCCTAATTTGTCATAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTA
1 ACCCTAACCCTAATTAACCCTAAACCTTAAACCCTAACCTATTTTAATTAAAAACCCTAA-CCTA
** * * * *** *
9427227 ATCCATTTTAATTAAAAACCCT-A---AA-CTAATTTAATTAAAAACTCTAA-CCTAATTTAATT
65 ATTTAATTTAATT-AAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCCTAACCCATTT
9427286 TAATTAAAA
129 TAATTAAAA
** * * ** *
9427295 ACCCTAAATCTAACTCA-TTTTAA--TTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCT
1 ACCCTAACCCTAATTAACCCTAAACCTT--AAACCCTAACCT-A--T--TTTAATTAAAAACCCT
* *
9427357 AACCTAATTTAATTTAATTAAAAACCCTAACC-CA--T--TTTAATTAAAAACCCTAACCCTAAT
59 AACCTAATTTAATTTAATT-AAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCCTAAC
** *
9427417 TTAATTTAATTTAAAA
123 CCATTTTAA-TTAAAA
* * ***
9427433 ACCCTAAACCC----TAACCCT-AA--TT-TACCCTAAACC---TTAAATACTAAACCCTAACCT
1 ACCCT-AACCCTAATTAACCCTAAACCTTAAACCCT-AACCTATTTTAATTAAAAACCCTAACCT
*** * * *
9427487 AATTTAATT----TAAAACCCTAACCCTAACCCATTTTAATTAAAAACGCTAA-ACT-A---A-T
64 AATTTAATTTAATTAAAACCCTAA-CCTAATTTAATTTAATTAAAAACCCTAACCCTAACCCATT
9427542 TTAATTAAAA
128 TTAATTAAAA
*** * * *
9427552 ACCCTAA-CCTAATTTAATTTAATTAAAAACCCT-AACCTTAACCCATTTTAATTAAAAACCCTA
1 ACCCTAACCCTAA-TTAA---CCCT--AAACCTTAAACCCTAACCTATTTTAATTAAAAACCCTA
*** *
9427615 ACCTAATTTAATTTAATTAAAAACCCTAACCCTAACCCATTTTAATTAAAAACCCTAACCCTAAC
60 ACCTAATTTAATTTAATT-AAAACCCTAA-CCTAATTTAATTTAATTAAAAACCCTAACCCTAAC
9427680 CCATTTTAATTAAAA
123 CCATTTTAATTAAAA
9427695 ACCCTAACC
1 ACCCTAACC
9427704 ATTAACAAAA
Statistics
Matches: 874, Mismatches: 111, Indels: 212
0.73 0.09 0.18
Matches are distributed among these distances:
117 2 0.00
118 2 0.00
119 11 0.01
120 15 0.02
121 4 0.00
122 4 0.00
124 1 0.00
125 52 0.06
126 18 0.02
127 3 0.00
128 20 0.02
129 15 0.02
130 40 0.05
131 45 0.05
132 64 0.07
133 31 0.04
134 16 0.02
135 38 0.04
136 76 0.09
137 117 0.13
138 31 0.04
139 90 0.10
140 13 0.01
141 28 0.03
142 17 0.02
143 42 0.05
144 3 0.00
145 2 0.00
148 20 0.02
149 23 0.03
152 15 0.02
153 15 0.02
155 1 0.00
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.32
Consensus pattern (137 bp):
ACCCTAACCCTAATTAACCCTAAACCTTAAACCCTAACCTATTTTAATTAAAAACCCTAACCTAA
TTTAATTTAATTAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCCTAACCCATTTTA
ATTAAAA
Found at i:9427078 original size:33 final size:32
Alignment explanation
Indices: 9427039--9427119 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 32
9427029 TTAATTAAAA
9427039 ACCCTAACCTAATTTAATTTAATT-AAAA---
1 ACCCTAACCTAATTTAATTTAATTAAAAACCC
*
9427067 ACCCTTACCTAATTTAATTTAATTAAAAACCC
1 ACCCTAACCTAATTTAATTTAATTAAAAACCC
* *
9427099 TAACCCTAACCCATTTTAATT
1 --ACCCTAACCTAATTTAATT
9427120 AAAAACCCTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
28 23 0.53
29 4 0.09
34 16 0.37
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.36
Consensus pattern (32 bp):
ACCCTAACCTAATTTAATTTAATTAAAAACCC
Found at i:9427479 original size:285 final size:278
Alignment explanation
Indices: 9426534--9427703 Score: 534
Period size: 285 Copynumber: 4.2 Consensus size: 278
9426524 TATTAAAAAC
*
9426534 CCTAAACTAATTTAATTAAAAACCCTAA-CCT-A---A-TTTAATT-AAAACCCTAACCTAATTT
1 CCTAATCTAATTTAATTAAAAACCCTAACCCTAACCCATTTTAATTAAAAACCCTAACCTAA-TT
** * * **
9426592 AATTTAATTAAAAACCCTAACCCTAACCTATTTTAATTAAAAACCTTAA-CCTAATTTAATTTAA
65 -ATTTAATTAAAAACCCTAA-CCTAATTTAATTTAATTAAAAACCCTAACCCTAACCT-ATTTAA
***
9426656 TTAAAAACCCTAA-CCTAATTTAATTTAA-TT-AAAACCCT-AACT-TAATTTAA-TT-TAA-TT
127 TTAAAAACCCTAACCCTAATTTAATTTAATTTAAAAACCCTAAACTCTAACCCAATTTCTAACTT
** * *
9426713 AA-AAACCCTAACCCTAACCCATTTTAATTAAAAACCCTAACCCTAA-TTAACCCTAAACCTT--
192 AACAAACCCTAA-CCT-A---A-TTTAATTAAAAACCCTAACCCTAACCCAA--TTTAA--TTAA
* * *
9426774 AAACCCTAACCTATTTTAATTAAAATCCCTAA
247 AAACCCTAAACTAATTTAATTAAAAACCCTAA
* * * *** *
9426806 CCCTAATTTAATTTAATTTAATACCCTAA-CCTAATTTAATTTAATTAAAAACCCTAACCCTAAC
1 -CCTAATCTAATTTAATTAAAAACCCTAACCCTAACCCATTTTAATTAAAAACCCTAA-CCTAA-
** *
9426870 CCATTTTAATTAAAAACCCTAACTCTAA--T--TTTAATTTAAGAACCCTAACCCTAA--T-TTG
63 TTA-TTTAATTAAAAACCCTAAC-CTAATTTAATTTAA-TTAAAAACCCTAACCCTAACCTATT-
** ** *
9426928 T-CCT--AAACCCTAAACCCTAACCTAATTTAA-TT---AA--C--AACCCTAACCC-ATTT-TA
124 TAATTAAAAACCCT-AACCCTAATTTAATTTAATTTAAAAACCCTAAACTCTAACCCAATTTCTA
* *
9426980 A-TTAA-AAACCCTAAACTAATTTAATTAAAAACCCTAACCCTAACCCATTTTAATTAAAAACCC
188 ACTTAACAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCCAATTTAATTAAAAACCC
* *
9427043 TAACCTAATTTAATTTAATTAAAAACCCTTA
253 T-A---AA-CTAATTTAATTAAAAACCCTAA
*
9427074 CCTAATTTAATTTAATTAAAAACCCTAACCCTAACCCATTTTAATTAAAAACCCTAACCCTAATT
1 CCTAATCTAATTTAATTAAAAACCCTAACCCTAACCCATTTTAATTAAAAACCCTAA-CCTAA-T
* ** * * *
9427139 TAATTTAATTTTAAGAACCCTAAACTCTAACCCTAATTT-GTCATAAACCCTAAACCCTAACCTA
64 T-ATTTAA--TTAAAAACCCT-AAC-CTAA-TTTAATTTAATTAAAAACCCT-AACCCTAACCT-
** * *** **
9427203 ATTTAATTAAAAACCCTAACCCTAATCCATTTTAA-TTAAAAACCCTAAA--CTAATTTAATTAA
121 ATTTAATTAAAAACCCTAACCCTAATTTAATTTAATTTAAAAACCCTAAACTCTAACCCAATTTC
* * ** ** * *
9427265 AAAC-T--CTAA-CCTAATTTAATTTAATTAAAAACCCTAAATCTAACTCATTTTAATTAAAAAC
186 TAACTTAACAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCCAATTTAATTAAAAAC
*
9427326 CCTAACCTAATTTAATTTAATTAAAAACCCTAA
251 CCT-A---AA-CTAATTTAATTAAAAACCCTAA
*
9427359 CCTAATTTAATTTAATT--AAA----AACCCTAACCCATTTTAATTAAAAACCCTAACCCTAATT
1 CCTAATCTAATTTAATTAAAAACCCTAACCCTAACCCATTTTAATTAAAAACCCTAA-CCTAA-T
** * * **
9427418 TAATTTAATTTAAAAACCCTAAACCCTAACCCTAATTTACCCTAAACCTTAAATACTAAACCCTA
64 T-ATTTAA-TTAAAAACCCT-AA-CCTAA-TTTAATTTA--ATTAA----AAACCCT-AACCCTA
* *** * *
9427483 ACCTAATTTAATTTAAAACCCTAACCCTAACCCATTTTAA-TTAAAAACGCTAAA--CT-----A
117 ACCT-ATTTAATTAAAAACCCTAACCCTAATTTAATTTAATTTAAAAACCCTAAACTCTAACCCA
* *
9427540 A-TT-TAA-TTAA-AAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCTTAACCCATTTT
181 ATTTCTAACTTAACAAACCCTAACC-----TAATTTAATTAAAAACCCTAACCCTAACCCAATTT
*
9427601 AATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAA
241 AATTAAAAACCCT-A---AA-CTAATTTAATTAAAAACCCTAA
* * *
9427644 CCCTAACCCATTTTAATTAAAAACCCTAACCCTAACCCATTTTAATTAAAAACCCTAACC
1 -CCTAATCTAATTTAATTAAAAACCCTAACCCTAACCCATTTTAATTAAAAACCCTAACC
9427704 ATTAACAAAA
Statistics
Matches: 739, Mismatches: 81, Indels: 136
0.77 0.08 0.14
Matches are distributed among these distances:
261 2 0.00
263 10 0.01
264 25 0.03
265 2 0.00
267 27 0.04
268 54 0.07
269 7 0.01
270 32 0.04
271 8 0.01
272 9 0.01
273 29 0.04
274 28 0.04
275 9 0.01
276 9 0.01
277 13 0.02
278 44 0.06
279 66 0.09
280 51 0.07
281 9 0.01
283 5 0.01
285 241 0.33
286 18 0.02
287 5 0.01
288 3 0.00
291 2 0.00
292 31 0.04
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.32
Consensus pattern (278 bp):
CCTAATCTAATTTAATTAAAAACCCTAACCCTAACCCATTTTAATTAAAAACCCTAACCTAATTA
TTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCCTAACCTATTTAATTAA
AAACCCTAACCCTAATTTAATTTAATTTAAAAACCCTAAACTCTAACCCAATTTCTAACTTAACA
AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCCAATTTAATTAAAAACCCTAAACTAA
TTTAATTAAAAACCCTAA
Found at i:9427502 original size:37 final size:38
Alignment explanation
Indices: 9427401--9427499 Score: 116
Period size: 37 Copynumber: 2.7 Consensus size: 38
9427391 TTTTAATTAA
*
9427401 AAACCCTAACCCTAATTTAATTT-AA-TTTAAAAACCCT
1 AAACCCTAACCCTAATTTAATTTAAACCTTAAAAA-CCT
*** *
9427438 AAACCCTAACCCTAATTTACCCTAAACCTTAAATA-CT
1 AAACCCTAACCCTAATTTAATTTAAACCTTAAAAACCT
9427475 AAACCCTAA-CCTAATTTAATTTAAA
1 AAACCCTAACCCTAATTTAATTTAAA
9427500 ACCCTAACCC
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
36 13 0.25
37 31 0.60
38 2 0.04
39 6 0.12
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.30
Consensus pattern (38 bp):
AAACCCTAACCCTAATTTAATTTAAACCTTAAAAACCT
Found at i:9427642 original size:23 final size:23
Alignment explanation
Indices: 9427518--9427643 Score: 72
Period size: 28 Copynumber: 4.8 Consensus size: 23
9427508 CCTAACCCAT
* **
9427518 TTTAATTAAAAACGCTAAACTAA
1 TTTAATTAAAAACCCTAATTTAA
9427541 TTTAATTAAAAACCCTAACCTAATTTAA
1 TTTAATTAAAAA--C---CCTAATTTAA
*
9427569 TTTAATTAAAAACCCTAACCTTAACCCA
1 TTTAATTAAAAACCCTAA--TTTA---A
9427597 TTTTAATTAAAAACCCTAACCTAATTTAA
1 -TTTAATTAAAAA--C---CCTAATTTAA
9427626 TTTAATTAAAAACCCTAA
1 TTTAATTAAAAACCCTAA
9427644 CCCTAACCCA
Statistics
Matches: 82, Mismatches: 5, Indels: 32
0.69 0.04 0.27
Matches are distributed among these distances:
23 22 0.27
25 4 0.05
26 2 0.02
28 32 0.39
29 13 0.16
31 1 0.01
32 3 0.04
34 5 0.06
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.33
Consensus pattern (23 bp):
TTTAATTAAAAACCCTAATTTAA
Found at i:9427672 original size:23 final size:23
Alignment explanation
Indices: 9427505--9427703 Score: 92
Period size: 23 Copynumber: 7.4 Consensus size: 23
9427495 TTAAAACCCT
9427505 AACCCTAACCCATTTTAATTAAA
1 AACCCTAACCCATTTTAATTAAA
* * * *
9427528 AACGCTAAACTAATTTAATTAAA
1 AACCCTAACCCATTTTAATTAAA
*
9427551 AACCCTAACCTAATTTAATTTAATTAAA
1 AACCCTAACC-CA--T--TTTAATTAAA
9427579 AACCCTAACCTTAACCCATTTTAATTAAA
1 AA--C---CC-TAACCCATTTTAATTAAA
*
9427608 AACCCTAACCTAATTTAATTTAATTAAA
1 AACCCTAACC-CA--T--TTTAATTAAA
9427636 AACCCTAACCCTAACCCATTTTAATTAAAAA
1 AA------CCCTAACCCATTTTAATT--AAA
9427667 CCCTAACCCTAACCCATTTTAATTAAA
1 ----AACCCTAACCCATTTTAATTAAA
9427694 AACCCTAACC
1 AACCCTAACC
9427704 ATTAACAAAA
Statistics
Matches: 137, Mismatches: 11, Indels: 56
0.67 0.05 0.27
Matches are distributed among these distances:
23 42 0.31
24 4 0.03
26 1 0.01
27 4 0.03
28 24 0.18
29 37 0.27
30 1 0.01
31 5 0.04
33 4 0.03
34 13 0.09
35 2 0.01
ACGTcount: A:0.44, C:0.25, G:0.01, T:0.30
Consensus pattern (23 bp):
AACCCTAACCCATTTTAATTAAA
Found at i:9431123 original size:125 final size:125
Alignment explanation
Indices: 9430909--9431178 Score: 447
Period size: 125 Copynumber: 2.2 Consensus size: 125
9430899 AATTTGACAT
9430909 TATTTGCTCAGAAACGTCAAAAAATAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGTCC
1 TATTTGCTCAGAAACGTCAAAAAATAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGTCC
* **
9430974 ACGAGGGCGCGATTTCACAATTTCTTCTCAT-ATAGCATCCTGGTATCAGCGATTTTATAC
66 ACGAGGGCACGATTTCACAATTTCTTC-CATGATAGCATCCTGGTAGAAGCGATTTTATAC
*
9431034 TATTTGCTCAGAAAACGTCAAAAAA-AATTATTTCTTACATGACCAACTGTAGCGAAATCGCGTC
1 TATTTGCTCAG-AAACGTCAAAAAATAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGTC
*
9431098 CACGAGGGCACGATTTCACAATTTCTTCCCTGATAGCATCCTGGTAGAAGCGATTTTATAC
65 CACGAGGGCACGATTTCACAATTTCTTCCATGATAGCATCCTGGTAGAAGCGATTTTATAC
9431159 TATTTGAC-CAGAAACGTCAA
1 TATTTG-CTCAGAAACGTCAA
9431179 CTCGAAATAA
Statistics
Matches: 137, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
124 11 0.08
125 112 0.82
126 14 0.10
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (125 bp):
TATTTGCTCAGAAACGTCAAAAAATAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGTCC
ACGAGGGCACGATTTCACAATTTCTTCCATGATAGCATCCTGGTAGAAGCGATTTTATAC
Found at i:9431436 original size:29 final size:27
Alignment explanation
Indices: 9431401--9431454 Score: 81
Period size: 29 Copynumber: 1.9 Consensus size: 27
9431391 TCGCGGAAAA
9431401 TGGCCCATTCCGGTAAATAATTAAAAATG
1 TGGCCCATTCCGGTAAAT--TTAAAAATG
*
9431430 TGGCCCATTTCGGTAAATTTAAAAA
1 TGGCCCATTCCGGTAAATTTAAAAA
9431455 AAAGGGCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 7 0.29
29 17 0.71
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (27 bp):
TGGCCCATTCCGGTAAATTTAAAAATG
Found at i:9451476 original size:19 final size:20
Alignment explanation
Indices: 9451442--9451479 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
9451432 TAGAGAAGAA
9451442 AGAAAAACACATGAGAAATG
1 AGAAAAACACATGAGAAATG
*
9451462 AGAAGAACA-ATGAGAAAT
1 AGAAAAACACATGAGAAAT
9451480 ATGACACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.61, C:0.08, G:0.21, T:0.11
Consensus pattern (20 bp):
AGAAAAACACATGAGAAATG
Found at i:9454187 original size:45 final size:45
Alignment explanation
Indices: 9454047--9454529 Score: 404
Period size: 45 Copynumber: 10.8 Consensus size: 45
9454037 GATCTGCTCT
* *
9454047 CTGCAACTTCAGAGAGATAAGA-TCTAC-AGTCTT-AATCCGCTCCA
1 CTGCAACTTCAGAGAGATAAGACT-TGCTA-TCTTCAATCCACTCCA
* ** * ***
9454091 CTGCAACTTCAGAGAGATAGGA-TTATTTTCTTCAATCTGTTCCA
1 CTGCAACTTCAGAGAGATAAGACTTGCTATCTTCAATCCACTCCA
* * * *
9454135 CTGCAACTTTAGAGAGATAAGACTTACTATCTTTAATCCGCTCCA
1 CTGCAACTTCAGAGAGATAAGACTTGCTATCTTCAATCCACTCCA
* * * * ** *
9454180 CTGCAACTTCAGGGAGATAGGATTTGCTATCTTCAGTCTGCTCCG
1 CTGCAACTTCAGAGAGATAAGACTTGCTATCTTCAATCCACTCCA
*
9454225 CTGCAACTTCA-AGGAGATAAGACTTGTTATCTTCAATCCACTCCA
1 CTGCAACTTCAGA-GAGATAAGACTTGCTATCTTCAATCCACTCCA
* * * * * * * *
9454270 CTGCAACTTTAGGGAGATAGGATTTGCTATCTTCAGTCTATTCCG
1 CTGCAACTTCAGAGAGATAAGACTTGCTATCTTCAATCCACTCCA
* * * * *** *
9454315 CAGCAACCTCAGAGAGATAAGACTTGTTATCTTCAGTTTGCTCCG
1 CTGCAACTTCAGAGAGATAAGACTTGCTATCTTCAATCCACTCCA
* * * *
9454360 CTGCAACTTCAGAGAGATAAAACTTGTTATTTTCAATCCACTCAA
1 CTGCAACTTCAGAGAGATAAGACTTGCTATCTTCAATCCACTCCA
* * * *
9454405 CTGCAACTTCA-AGGAGATAGGATTTGCTATCTTCAATCTACTCCG
1 CTGCAACTTCAGA-GAGATAAGACTTGCTATCTTCAATCCACTCCA
* * * *
9454450 CTGTAACCTCAGGGAGATAAGACTTGCTATCTTTAATCCACTCCA
1 CTGCAACTTCAGAGAGATAAGACTTGCTATCTTCAATCCACTCCA
* * *
9454495 CTGCAACTTCATG-GAGATAGGATTTGTTATCTTCA
1 CTGCAACTTCA-GAGAGATAAGACTTGCTATCTTCA
9454530 CCGATCTATT
Statistics
Matches: 351, Mismatches: 80, Indels: 15
0.79 0.18 0.03
Matches are distributed among these distances:
43 6 0.02
44 52 0.15
45 292 0.83
46 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (45 bp):
CTGCAACTTCAGAGAGATAAGACTTGCTATCTTCAATCCACTCCA
Found at i:9454263 original size:90 final size:89
Alignment explanation
Indices: 9453908--9454529 Score: 471
Period size: 90 Copynumber: 7.0 Consensus size: 89
9453898 ATCTGATTTT
* *
9453908 AATCCGCTCCACTGCAACTTCAGGGAGATAGAATTAT-TTTCTTCAATCTGCTCCACTGCAACTT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATT-TGTATCTTCAATCTGCTCCACTGCAACTT
* * * *
9453972 CAGGGAAATCAGA-TTGGTT-TATTC
65 CAAGGAGATAAGACTT-GTTATCTTC
* * * * * * * * * *
9453996 AGTCTGCTCCTCTGCAAATTCAGGGAGATAAGACTAG-AT-GT-GATCTGCT-CTCTGCAACTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTGTATCTTCAATCTGCTCCACTGCAACTTC
**
9454057 -AGAGAGATAAGA-TCT-ACAGTCTT-
66 AAG-GAGATAAGACT-TGTTA-TCTTC
* * *
9454080 AATCCGCTCCACTGCAACTTCAGAGAGATAGGATTAT-TTTCTTCAATCTGTTCCACTGCAACTT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATT-TGTATCTTCAATCTGCTCCACTGCAACTT
* ** *
9454144 -TAGAGAGATAAGACTTACTATCTTT
65 CAAG-GAGATAAGACTTGTTATCTTC
* *
9454169 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTGCTATCTTCAGTCTGCTCCGCTGCAACTT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTG-TATCTTCAATCTGCTCCACTGCAACTT
9454234 CAAGGAGATAAGACTTGTTATCTTC
65 CAAGGAGATAAGACTTGTTATCTTC
* * * ** * * *
9454259 AATCCACTCCACTGCAACTTTAGGGAGATAGGATTTGCTATCTTCAGTCTATTCCGCAGCAACCT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTG-TATCTTCAATCTGCTCCACTGCAACTT
9454324 C-AGAGAGATAAGACTTGTTATCTTC
65 CAAG-GAGATAAGACTTGTTATCTTC
* ** * * ** * * ** *
9454349 AGTTTGCTCCGCTGCAACTTCAGAGAGATAAAACTTGTTATTTTCAATCCACTCAACTGCAACTT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTG-TATCTTCAATCTGCTCCACTGCAACTT
* * *
9454414 CAAGGAGATAGGATTTGCTATCTTC
65 CAAGGAGATAAGACTTGTTATCTTC
** * * * * * * **
9454439 AATCTACTCCGCTGTAACCTCAGGGAGATAAGACTTGCTATCTTTAATCCACTCCACTGCAACTT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTG-TATCTTCAATCTGCTCCACTGCAACTT
* * *
9454504 CATGGAGATAGGATTTGTTATCTTC
65 CAAGGAGATAAGACTTGTTATCTTC
9454529 A
1 A
9454530 CCGATCTATT
Statistics
Matches: 432, Mismatches: 83, Indels: 36
0.78 0.15 0.07
Matches are distributed among these distances:
83 1 0.00
84 47 0.11
85 12 0.03
86 2 0.00
87 7 0.02
88 56 0.13
89 38 0.09
90 265 0.61
91 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (89 bp):
AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTGTATCTTCAATCTGCTCCACTGCAACTTC
AAGGAGATAAGACTTGTTATCTTC
Done.