Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 26 of 136
Found at i:8285950 original size:42 final size:43
Alignment explanation
Indices: 8285858--8285970 Score: 140
Period size: 43 Copynumber: 2.6 Consensus size: 43
8285848 CAATGCCAAC
* *
8285858 GTCCCAGACATGGTCTTACATGTAATCAAATATCGATGTCACT
1 GTCCCAGACATGGTCTTACACGAAATCAAATATCGATGTCACT
* **
8285901 GTCCCAGACAGGGTCTTACACGAAATCGTATA-CGATGTCGA-T
1 GTCCCAGACATGGTCTTACACGAAATCAAATATCGATGTC-ACT
*
8285943 GTCCCAGACATGATCTTACACGTAAATC
1 GTCCCAGACATGGTCTTACACG-AAATC
8285971 TCAAATCGAC
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
42 28 0.46
43 33 0.54
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATATCGATGTCACT
Found at i:8287145 original size:16 final size:16
Alignment explanation
Indices: 8287124--8287170 Score: 85
Period size: 16 Copynumber: 2.9 Consensus size: 16
8287114 CGTTGTATTA
8287124 GAATAGAGGCGTAATG
1 GAATAGAGGCGTAATG
*
8287140 GAATAGAGGTGTAATG
1 GAATAGAGGCGTAATG
8287156 GAATAGAGGCGTAAT
1 GAATAGAGGCGTAAT
8287171 AGTATTCTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.38, C:0.04, G:0.36, T:0.21
Consensus pattern (16 bp):
GAATAGAGGCGTAATG
Found at i:8287465 original size:21 final size:22
Alignment explanation
Indices: 8287425--8287482 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
8287415 ATGAATTTAC
*
8287425 TAAAATTATAATATATAATACT
1 TAAAATTATAATATAAAATACT
* *
8287447 TAAAA-TATAATTTAAAATAAT
1 TAAAATTATAATATAAAATACT
**
8287468 TATTATTA-AATATAA
1 TAAAATTATAATATAA
8287483 TTTAATAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 22 0.76
22 7 0.24
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAAATTATAATATAAAATACT
Found at i:8305244 original size:43 final size:42
Alignment explanation
Indices: 8305197--8305279 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
8305187 TCTTACATGT
*
8305197 AATTAAATATCGATG-CCACTATCCCAGACAGGGTCTTACACAA
1 AATTAAATA-CGATGTCCA-TATCCCAAACAGGGTCTTACACAA
* * *
8305240 AATTATATACGATGTCGATATCCCAAACATGGTCTTACAC
1 AATTAAATACGATGTCCATATCCCAAACAGGGTCTTACAC
8305280 GTAAATCTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 25 0.71
43 10 0.29
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (42 bp):
AATTAAATACGATGTCCATATCCCAAACAGGGTCTTACACAA
Found at i:8306450 original size:13 final size:13
Alignment explanation
Indices: 8306432--8306456 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8306422 TTAAACGGTA
8306432 AAATTTTCACACG
1 AAATTTTCACACG
8306445 AAATTTTCACAC
1 AAATTTTCACAC
8306457 ATATAAATTA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:8308308 original size:40 final size:40
Alignment explanation
Indices: 8308223--8308308 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
8308213 CATAAAGCAG
* * *
8308223 GAAAAAGCTTCCTTAAGGAAGCACTTTGTCCACGTGGACA
1 GAAAACGCTTCCTCAAGGAAGCACTTTATCCACGTGGACA
* * *
8308263 AAAAACGCTTCCTCAAGGAAGCGCTTTATCCACGTGGATA
1 GAAAACGCTTCCTCAAGGAAGCACTTTATCCACGTGGACA
8308303 GAAAAC
1 GAAAAC
8308309 TAAATAATTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (40 bp):
GAAAACGCTTCCTCAAGGAAGCACTTTATCCACGTGGACA
Found at i:8308701 original size:98 final size:98
Alignment explanation
Indices: 8308394--8308714 Score: 452
Period size: 97 Copynumber: 3.3 Consensus size: 98
8308384 GATTTTAGAT
* * * * * *
8308394 TTTAGGG-TTTTAAGGAAAAAATTAAATAAATAAGGTTTTAGGGTTTCTTAATTAAATTAATTAT
1 TTTAGGGTTTTTAAGGAAAAAATTAAATAAATTAGGGTTTAGAGTTACTTGAGTAAATTAATTAT
* *
8308458 AA-ATGTTTAAAAAATTAGATTAGGGTTTAGTG
66 AATTTTTTTAAAAAATTAGATTAGGGTTTAGTG
* *
8308490 TTTATGGTTTTTAAGGAAAAAATTAAATAAATTAGGGTTTAGAGTTACTTGAGTAAACTAATTAT
1 TTTAGGGTTTTTAAGGAAAAAATTAAATAAATTAGGGTTTAGAGTTACTTGAGTAAATTAATTAT
**
8308555 AATTTTTTTTTAAAA-TAGATTAGGGTTTAGTG
66 AATTTTTTTAAAAAATTAGATTAGGGTTTAGTG
* * *
8308587 TTTAAGGTTTTTAAGGAAAAAATGAAATAAATTAGGGTTTAGAATTACTTGAGTAAATTAATTAT
1 TTTAGGGTTTTTAAGGAAAAAATTAAATAAATTAGGGTTTAGAGTTACTTGAGTAAATTAATTAT
* *
8308652 AATTTTTTTAAAAAATTAGATTGGGGTTTAGTA
66 AATTTTTTTAAAAAATTAGATTAGGGTTTAGTG
*
8308685 TTTAGGGTTTTTAAGG-AAAAATCAAATAAA
1 TTTAGGGTTTTTAAGGAAAAAATTAAATAAA
8308715 ACTAGTTGTT
Statistics
Matches: 200, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
96 6 0.03
97 156 0.78
98 38 0.19
ACGTcount: A:0.40, C:0.02, G:0.17, T:0.41
Consensus pattern (98 bp):
TTTAGGGTTTTTAAGGAAAAAATTAAATAAATTAGGGTTTAGAGTTACTTGAGTAAATTAATTAT
AATTTTTTTAAAAAATTAGATTAGGGTTTAGTG
Found at i:8309143 original size:17 final size:18
Alignment explanation
Indices: 8309112--8309150 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
8309102 CTTAATAAAT
*
8309112 ATTTTTTAATTAATTTCTA
1 ATTTTTTAA-TAATTTATA
8309131 ATTTTTTAA-AATTTATA
1 ATTTTTTAATAATTTATA
8309148 ATT
1 ATT
8309151 AATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
19 9 0.47
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTTTAATAATTTATA
Found at i:8309181 original size:7 final size:7
Alignment explanation
Indices: 8309169--8309195 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
8309159 TAAGAGACCC
8309169 TAAACCT
1 TAAACCT
8309176 TAAACCT
1 TAAACCT
8309183 TAAACCT
1 TAAACCT
8309190 TAAACC
1 TAAACC
8309196 CCAAAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (7 bp):
TAAACCT
Found at i:8318436 original size:110 final size:112
Alignment explanation
Indices: 8318322--8318543 Score: 405
Period size: 110 Copynumber: 2.0 Consensus size: 112
8318312 ATTTATAAAA
8318322 TATATATTTTTAATTTT-TAAAATTCTAAAAAAAGTGTGAATATATCCAAATTATTTTCTTACAT
1 TATATATTTTTAATTTTAT-AAATTCTAAAAAAAGTGTGAATATATCCAAATTATTTTCTTACAT
8318386 CTGTAGCACAAGTTTCACGAGGCTAGAACTTAAG-TT-ACAAACCGTG
65 CTGTAGCACAAGTTTCACGAGGCTAGAACTTAAGTTTGACAAACCGTG
*
8318432 TATATATTTTTAATTTTATTAATTCTAAAAAAAGTGTGAATATATCCAAATTATTTTCTTACATC
1 TATATATTTTTAATTTTATAAATTCTAAAAAAAGTGTGAATATATCCAAATTATTTTCTTACATC
8318497 TGTAGCACAAGTTTCACGAGGCTAGAACTTAAGTTTGACAAACCGTG
66 TGTAGCACAAGTTTCACGAGGCTAGAACTTAAGTTTGACAAACCGTG
8318544 CCAAGCCAAC
Statistics
Matches: 108, Mismatches: 1, Indels: 4
0.96 0.01 0.04
Matches are distributed among these distances:
110 95 0.88
111 3 0.03
112 10 0.09
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (112 bp):
TATATATTTTTAATTTTATAAATTCTAAAAAAAGTGTGAATATATCCAAATTATTTTCTTACATC
TGTAGCACAAGTTTCACGAGGCTAGAACTTAAGTTTGACAAACCGTG
Found at i:8319938 original size:19 final size:19
Alignment explanation
Indices: 8319916--8319955 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
8319906 ATTAATTTTG
* *
8319916 ATCAAGTAAATTTAAATTA
1 ATCAAATAAATTAAAATTA
*
8319935 ATCAAATTAATTAAAATTA
1 ATCAAATAAATTAAAATTA
8319954 AT
1 AT
8319956 ATGATATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:8321685 original size:19 final size:19
Alignment explanation
Indices: 8321663--8321702 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
8321653 ATTAATTTTG
* *
8321663 ATCAAGTAAATTTAAATTA
1 ATCAAATAAATTAAAATTA
*
8321682 ATCAAATTAATTAAAATTA
1 ATCAAATAAATTAAAATTA
8321701 AT
1 AT
8321703 ATGATATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:8324244 original size:42 final size:42
Alignment explanation
Indices: 8324189--8324303 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 42
8324179 ATTGATTTGA
*
8324189 GATTTACGAGTAAGACCATGTCTGGGACATCGACATCG-TATAT
1 GATTT-CGTGTAAGACCATGTCTGGGACAT-GACATCGATATAT
* * * *
8324232 GATTTCGTGTAAGACCTTGTCTGGGATAGTGGCATCGATATTT
1 GATTTCGTGTAAGACCATGTCTGGGACA-TGACATCGATATAT
* * * *
8324275 GATTACATGTAACACCACGTCTGGGACAT
1 GATTTCGTGTAAGACCATGTCTGGGACAT
8324304 TGGCATTGTA
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
42 27 0.46
43 32 0.54
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (42 bp):
GATTTCGTGTAAGACCATGTCTGGGACATGACATCGATATAT
Found at i:8331393 original size:6 final size:6
Alignment explanation
Indices: 8331384--8331408 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8331374 TAATTATATA
8331384 ATACAT ATACAT ATACAT ATACAT A
1 ATACAT ATACAT ATACAT ATACAT A
8331409 CTTTTAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
ATACAT
Found at i:8333695 original size:18 final size:18
Alignment explanation
Indices: 8333672--8333721 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
8333662 AATAATCTTA
* *
8333672 TTTAATATTTTTTCTAAT
1 TTTAATATTTTTACAAAT
8333690 TTTAATAATGTTTTACAAAT
1 TTTAAT-AT-TTTTACAAAT
8333710 TTATAATATTTT
1 TT-TAATATTTT
8333722 AGTAAATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 6 0.22
19 5 0.19
20 12 0.44
21 4 0.15
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (18 bp):
TTTAATATTTTTACAAAT
Found at i:8335373 original size:19 final size:19
Alignment explanation
Indices: 8335340--8335389 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
8335330 CCCTCAATAA
8335340 AAAATGTAAAA-TAATTTTC
1 AAAAT-TAAAATTAATTTTC
*
8335359 AAAATTAAAATTAATTTTT
1 AAAATTAAAATTAATTTTC
8335378 AAAATTCAAAAT
1 AAAATT-AAAAT
8335390 ATTTATAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 5 0.18
19 18 0.64
20 5 0.18
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAATTAAAATTAATTTTC
Found at i:8335441 original size:21 final size:21
Alignment explanation
Indices: 8335415--8335455 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8335405 AAAATTTATA
8335415 TTTTTAAAAAAATTATAAAAT
1 TTTTTAAAAAAATTATAAAAT
* *
8335436 TTTTTAAAATAATTCTAAAA
1 TTTTTAAAAAAATTATAAAA
8335456 AATATATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTTTAAAAAAATTATAAAAT
Found at i:8335713 original size:16 final size:16
Alignment explanation
Indices: 8335679--8335720 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
8335669 AAGTTGAACA
* *
8335679 ATTTCAC-TCAATTTG
1 ATTTCACTTGAATTTC
*
8335694 ATTTGACTTGAATTTC
1 ATTTCACTTGAATTTC
8335710 ATTTCACTTGA
1 ATTTCACTTGA
8335721 CTCGATTCGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.48
Consensus pattern (16 bp):
ATTTCACTTGAATTTC
Found at i:8338699 original size:15 final size:15
Alignment explanation
Indices: 8338681--8338710 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8338671 TCTCACTCTT
8338681 TTTTTCTTCTTTTTC
1 TTTTTCTTCTTTTTC
*
8338696 TTTTTCTTTTTTTTC
1 TTTTTCTTCTTTTTC
8338711 AATTATACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTCTTCTTTTTC
Found at i:8340415 original size:15 final size:15
Alignment explanation
Indices: 8340390--8340424 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
8340380 AACTCTATTT
*
8340390 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
8340404 TAATTAATATTAAGA
1 TAATTAATATTAAGA
8340419 TAATTA
1 TAATTA
8340425 TTAAGAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:8347887 original size:101 final size:101
Alignment explanation
Indices: 8347700--8347888 Score: 265
Period size: 101 Copynumber: 1.9 Consensus size: 101
8347690 AAGAACATGT
* * *
8347700 TGGGCTGAGTAGCCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTTGATGTG
1 TGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTAGATATG
* * **
8347765 TTCTTAAGAAAAAATTGTAATAAGTTAGGAGTCTGC
66 TCCTAAAGAAAAAATAATAATAAGTTAGGAGTCTGC
8347801 TGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCAGTATA
1 TGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTT-AG-ATA
* *
8347866 T-TCCTAAAG-CATAATAATAATAA
64 TGTCCTAAAGAAAAAATAATAATAA
8347889 AAAAGAAAAA
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
101 67 0.87
102 7 0.09
103 3 0.04
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (101 bp):
TGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTAGATATG
TCCTAAAGAAAAAATAATAATAAGTTAGGAGTCTGC
Found at i:8352196 original size:22 final size:23
Alignment explanation
Indices: 8352171--8352213 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
8352161 GCATGGCATT
* *
8352171 TGTGGTTGTTATATG-TTTGTGG
1 TGTGCTTGATATATGATTTGTGG
8352193 TGTGCTTGATATATGATTTGT
1 TGTGCTTGATATATGATTTGT
8352214 ATAATATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.14, C:0.02, G:0.30, T:0.53
Consensus pattern (23 bp):
TGTGCTTGATATATGATTTGTGG
Found at i:8353482 original size:36 final size:37
Alignment explanation
Indices: 8353404--8353486 Score: 141
Period size: 37 Copynumber: 2.3 Consensus size: 37
8353394 TACTAACTCA
*
8353404 TATATATAATCAAATTTCTGTTAATGTATATTTTTTT
1 TATAAATAATCAAATTTCTGTTAATGTATATTTTTTT
*
8353441 TATAAATAATCAAATTTTTGTTAATGTATA-TTTTTT
1 TATAAATAATCAAATTTCTGTTAATGTATATTTTTTT
8353477 TATAAATAAT
1 TATAAATAAT
8353487 ATGTTAAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
36 16 0.36
37 28 0.64
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (37 bp):
TATAAATAATCAAATTTCTGTTAATGTATATTTTTTT
Found at i:8355378 original size:29 final size:27
Alignment explanation
Indices: 8355346--8355412 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
8355336 GAAATTTTAG
*
8355346 TTTGTTGGATTTTGATATTATGTCTTAAA
1 TTTGTTGGATATTG--ATTATGTCTTAAA
* * *
8355375 TTTGTTAGATATTGATTATGTTTTAAG
1 TTTGTTGGATATTGATTATGTCTTAAA
*
8355402 CTTGTTGGATA
1 TTTGTTGGATA
8355413 ATGAATTTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 20 0.62
29 12 0.38
ACGTcount: A:0.24, C:0.03, G:0.19, T:0.54
Consensus pattern (27 bp):
TTTGTTGGATATTGATTATGTCTTAAA
Found at i:8355432 original size:35 final size:36
Alignment explanation
Indices: 8355384--8355452 Score: 122
Period size: 35 Copynumber: 1.9 Consensus size: 36
8355374 ATTTGTTAGA
8355384 TATTGATTATGTTTTAAGCTTGTTGGATAATGAATT
1 TATTGATTATGTTTTAAGCTTGTTGGATAATGAATT
*
8355420 TATT-ATTATGTTTTAAGCTTGTTGGATATTGAA
1 TATTGATTATGTTTTAAGCTTGTTGGATAATGAA
8355453 ATGATTGACA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 28 0.88
36 4 0.12
ACGTcount: A:0.28, C:0.03, G:0.19, T:0.51
Consensus pattern (36 bp):
TATTGATTATGTTTTAAGCTTGTTGGATAATGAATT
Found at i:8356938 original size:25 final size:25
Alignment explanation
Indices: 8356904--8356960 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
8356894 TCATGTACAT
*
8356904 GTATGCTCATACGAGCTG-TGAATCG
1 GTATGCTCATACGAGCTGAAG-ATCG
**
8356929 GTATGCTCATTTGAGCTGAAGATCG
1 GTATGCTCATACGAGCTGAAGATCG
8356954 GTATGCT
1 GTATGCT
8356961 TTCACAAGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 27 0.96
26 1 0.04
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.32
Consensus pattern (25 bp):
GTATGCTCATACGAGCTGAAGATCG
Found at i:8357676 original size:11 final size:11
Alignment explanation
Indices: 8357650--8357683 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
8357640 ACGATCCTGA
8357650 AAATATAAAAAT
1 AAAT-TAAAAAT
8357662 -AATTAAAAAT
1 AAATTAAAAAT
8357672 AAATTAAAAAT
1 AAATTAAAAAT
8357683 A
1 A
8357684 CATACCTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AAATTAAAAAT
Found at i:8357742 original size:3 final size:3
Alignment explanation
Indices: 8357734--8357786 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
8357724 TTAAAAATGG
8357734 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
8357782 CTT CT
1 CTT CT
8357787 AATTTCGGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:8367530 original size:24 final size:25
Alignment explanation
Indices: 8367471--8367531 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 25
8367461 TTAGCGAGAA
* * *
8367471 GCTCGTGAGAGTCATATATTAGGAT
1 GCTCATGAGAGCCATATATCAGGAT
**
8367496 GCTCAAAAGAGCCA-ATATCAGGAT
1 GCTCATGAGAGCCATATATCAGGAT
8367520 GCTCATGAGAGC
1 GCTCATGAGAGC
8367532 TATTATCGGG
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
24 19 0.66
25 10 0.34
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (25 bp):
GCTCATGAGAGCCATATATCAGGAT
Found at i:8372063 original size:57 final size:57
Alignment explanation
Indices: 8371961--8372145 Score: 194
Period size: 57 Copynumber: 3.2 Consensus size: 57
8371951 CATTTGAAGC
* * * * *
8371961 CATTAAGACAACATCCATTATTCAACATTAAGACAATATAAAAATACACATTTAAAAA
1 CATTAAGACAACAGCCATT-CTCCACATTCAGACAACATAAAAATACACATTTAAAAA
*** * *
8372019 CATTAAGATTGCAGCTATTCTCCACATTCAGACAACATAAAAATACACATTTAAAGA
1 CATTAAGACAACAGCCATTCTCCACATTCAGACAACATAAAAATACACATTTAAAAA
* * * *
8372076 CATTAAGACAACAGCCATTCTCCATATTC-GAACAACTTAAAAATAAACATTTACAGAA
1 CATTAAGACAACAGCCATTCTCCACATTCAG-ACAACATAAAAATACACATTTA-AAAA
*
8372134 -ATTAAAACAACA
1 CATTAAGACAACA
8372146 TTTACAAACA
Statistics
Matches: 105, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
56 1 0.01
57 88 0.84
58 16 0.15
ACGTcount: A:0.49, C:0.20, G:0.06, T:0.25
Consensus pattern (57 bp):
CATTAAGACAACAGCCATTCTCCACATTCAGACAACATAAAAATACACATTTAAAAA
Found at i:8374827 original size:16 final size:16
Alignment explanation
Indices: 8374806--8374837 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8374796 AATTTAATGA
*
8374806 AATTAATTAATTTTCT
1 AATTAAATAATTTTCT
8374822 AATTAAATAATTTTCT
1 AATTAAATAATTTTCT
8374838 CAACCCAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTAAATAATTTTCT
Found at i:8374911 original size:13 final size:13
Alignment explanation
Indices: 8374895--8374919 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8374885 AATCTATTAC
8374895 TATTAAATATTTT
1 TATTAAATATTTT
8374908 TATTAAATATTT
1 TATTAAATATTT
8374920 ACGGAGTGAT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTAAATATTTT
Found at i:8376030 original size:45 final size:45
Alignment explanation
Indices: 8375981--8376284 Score: 290
Period size: 45 Copynumber: 6.7 Consensus size: 45
8375971 CGATTCAGAC
* *
8375981 AAATAAAACCATAGTTGAAAGACACTATGGTAATAGATCGGAAAT
1 AAATAAGACCATAGTTGAAAGACACTATGGCAATAGATCGGAAAT
* * * * *
8376026 AAATATGACCATAGTTAAAAGACAATATGGCAAAAGATTGGAAAT
1 AAATAAGACCATAGTTGAAAGACACTATGGCAATAGATCGGAAAT
* * * * *
8376071 AAACAAGATCGTATTTGAAAGAAACTATGGCAATAGATCGGAAAT
1 AAATAAGACCATAGTTGAAAGACACTATGGCAATAGATCGGAAAT
* * *
8376116 GAATAAGGCCATATTTGAAAGACACTATGGCAATATGA-CGGGAAAT
1 AAATAAGACCATAGTTGAAAGACACTATGGCAATA-GATC-GGAAAT
* * * *
8376162 AAATAAGACCATAGTTGAAAGACATTATGACAACATGA-CTAGAAAT
1 AAATAAGACCATAGTTGAAAGACACTATGGCAATA-GATC-GGAAAT
* * * **
8376208 GAATAAGACCATAGTTGAAAAACACTATGGCATTATG-TTAGAAAT
1 AAATAAGACCATAGTTGAAAGACACTATGGCAATA-GATCGGAAAT
* * * *
8376253 AAATAAGACCATGGCTGAAAGACGCTCTGGCA
1 AAATAAGACCATAGTTGAAAGACACTATGGCA
8376285 TCCTTTGAAC
Statistics
Matches: 212, Mismatches: 44, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
45 135 0.64
46 77 0.36
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.22
Consensus pattern (45 bp):
AAATAAGACCATAGTTGAAAGACACTATGGCAATAGATCGGAAAT
Found at i:8376227 original size:21 final size:21
Alignment explanation
Indices: 8376157--8376227 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
8376147 AATATGACGG
*
8376157 GAAATAAATAAGACCATAGTT
1 GAAATGAATAAGACCATAGTT
* * *
8376178 GAAA-GACATTATGACAACATGACTA
1 GAAATGA-A-TAAGAC--CAT-AGTT
8376203 GAAATGAATAAGACCATAGTT
1 GAAATGAATAAGACCATAGTT
8376224 GAAA
1 GAAA
8376228 AACACTATGG
Statistics
Matches: 37, Mismatches: 7, Indels: 12
0.66 0.12 0.21
Matches are distributed among these distances:
20 1 0.03
21 11 0.30
22 8 0.22
24 8 0.22
25 7 0.19
26 2 0.05
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.21
Consensus pattern (21 bp):
GAAATGAATAAGACCATAGTT
Found at i:8376348 original size:13 final size:13
Alignment explanation
Indices: 8376330--8376390 Score: 61
Period size: 13 Copynumber: 4.7 Consensus size: 13
8376320 AGATGACGGA
8376330 TGGTTATATGAAT
1 TGGTTATATGAAT
*
8376343 TGGTTATACGAGA-
1 TGGTTATATGA-AT
* *
8376356 TGGTTATGTGAAA
1 TGGTTATATGAAT
* *
8376369 TGGTTGTAAGAAT
1 TGGTTATATGAAT
8376382 TGGTTATAT
1 TGGTTATAT
8376391 AGAAATAGAT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
12 1 0.03
13 35 0.95
14 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.28, T:0.41
Consensus pattern (13 bp):
TGGTTATATGAAT
Found at i:8376358 original size:26 final size:26
Alignment explanation
Indices: 8376328--8376430 Score: 77
Period size: 26 Copynumber: 3.9 Consensus size: 26
8376318 TCAGATGACG
* *
8376328 GATGGTTATATGAATTGGTTATACGA
1 GATGGTTATATGAAATAGTTATACGA
* * * *
8376354 GATGGTTATGTGAAATGGTTGTAAGA
1 GATGGTTATATGAAATAGTTATACGA
*
8376380 -ATTGGTTATATAGAAATAGATATAC-A
1 GA-TGGTTATAT-GAAATAGTTATACGA
*
8376406 GAATAGTTATATG-AATCAGTTATAC
1 G-ATGGTTATATGAAAT-AGTTATAC
8376431 AAAAATAGAT
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
25 4 0.07
26 39 0.64
27 17 0.28
28 1 0.02
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.36
Consensus pattern (26 bp):
GATGGTTATATGAAATAGTTATACGA
Found at i:8376475 original size:27 final size:25
Alignment explanation
Indices: 8376445--8376510 Score: 87
Period size: 27 Copynumber: 2.6 Consensus size: 25
8376435 ATAGATAAAC
*
8376445 GAAATAATTATATAAATTGGTTATAT
1 GAAATAATTATATAAAGT-GTTATAT
*
8376471 GGAAATAATTATATGAAGTGTTATAT
1 -GAAATAATTATATAAAGTGTTATAT
*
8376497 GAAATGATTATATA
1 GAAATAATTATATA
8376511 GATAGATATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 12 0.34
26 7 0.20
27 16 0.46
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.39
Consensus pattern (25 bp):
GAAATAATTATATAAAGTGTTATAT
Found at i:8376477 original size:40 final size:40
Alignment explanation
Indices: 8376379--8376477 Score: 110
Period size: 40 Copynumber: 2.5 Consensus size: 40
8376369 TGGTTGTAAG
* * *
8376379 AATTGGTTATATAGAAATAGATATACAGAATAGTTATATG
1 AATTGGTTATATAGAAATAGATAAACAGAATAATTATATA
** * *
8376419 AATCAGTTATACAAAAATAGATAAAC-GAAATAATTATATA
1 AATTGGTTATATAGAAATAGATAAACAG-AATAATTATATA
*
8376459 AATTGGTTATATGGAAATA
1 AATTGGTTATATAGAAATA
8376478 ATTATATGAA
Statistics
Matches: 46, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
39 1 0.02
40 45 0.98
ACGTcount: A:0.49, C:0.04, G:0.14, T:0.32
Consensus pattern (40 bp):
AATTGGTTATATAGAAATAGATAAACAGAATAATTATATA
Found at i:8376496 original size:12 final size:13
Alignment explanation
Indices: 8376445--8376509 Score: 62
Period size: 13 Copynumber: 5.0 Consensus size: 13
8376435 ATAGATAAAC
*
8376445 GAAATAATTATAT
1 GAAATGATTATAT
*
8376458 -AAATTGGTTATAT
1 GAAA-TGATTATAT
*
8376471 GGAAATAATTATAT
1 -GAAATGATTATAT
*
8376485 GAAGTG-TTATAT
1 GAAATGATTATAT
8376497 GAAATGATTATAT
1 GAAATGATTATAT
8376510 AGATAGATAT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
12 14 0.34
13 17 0.41
14 7 0.17
15 3 0.07
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (13 bp):
GAAATGATTATAT
Found at i:8378469 original size:33 final size:34
Alignment explanation
Indices: 8378431--8378498 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 34
8378421 AAATAAAAAT
*
8378431 ATTAAAAAAAATTAGTTAACTAC-AAAAATTAAA
1 ATTAAAAAAAATTAATTAACTACAAAAAATTAAA
* * **
8378464 ATTAAAAATATTTAATTATTTACAAAAAATTAAA
1 ATTAAAAAAAATTAATTAACTACAAAAAATTAAA
8378498 A
1 A
8378499 CACTATATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 18 0.62
34 11 0.38
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.32
Consensus pattern (34 bp):
ATTAAAAAAAATTAATTAACTACAAAAAATTAAA
Found at i:8383449 original size:22 final size:22
Alignment explanation
Indices: 8383423--8383465 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
8383413 ACAGTGAAGG
*
8383423 TTCTCTGTG-ATGAATAGTAAAA
1 TTCTCTG-GCATGAATAATAAAA
8383445 TTCTCTGGCATGAATAATAAA
1 TTCTCTGGCATGAATAATAAA
8383466 TTTTACTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (22 bp):
TTCTCTGGCATGAATAATAAAA
Found at i:8384565 original size:2 final size:2
Alignment explanation
Indices: 8384558--8384583 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8384548 CATTTTAAGC
8384558 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
8384584 TACCATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8386967 original size:16 final size:16
Alignment explanation
Indices: 8386946--8386979 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8386936 CTTGGTGAGA
*
8386946 TTCCTTTAACAATTTT
1 TTCCTTAAACAATTTT
*
8386962 TTCCTTAAATAATTTT
1 TTCCTTAAACAATTTT
8386978 TT
1 TT
8386980 GTTGCCACAT
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:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (16 bp):
TTCCTTAAACAATTTT
Found at i:8394524 original size:48 final size:48
Alignment explanation
Indices: 8394430--8394553 Score: 119
Period size: 48 Copynumber: 2.6 Consensus size: 48
8394420 ATCACTAGGT
*
8394430 TGGTTAGCAACTAACATGCCCTACCAGAAACCCAACACTTAAGCCAA-C
1 TGGTTAGCAACTAACATACCCTACCAGAAACCCAACAC-TAAGCCAATC
* * *
8394478 TGGTTAGTAACTAACATACCCTACCA-ATGACCCATCA-TACACGCCAATC
1 TGGTTAGCAACTAACATACCCTACCAGA-AACCCAACACTA-A-GCCAATC
* ** *
8394527 TGGTTATCAACTATTATGCCCTACCAG
1 TGGTTAGCAACTAACATACCCTACCAG
8394554 TGGCCCTTCA
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
46 2 0.03
47 2 0.03
48 36 0.58
49 22 0.35
ACGTcount: A:0.34, C:0.31, G:0.12, T:0.23
Consensus pattern (48 bp):
TGGTTAGCAACTAACATACCCTACCAGAAACCCAACACTAAGCCAATC
Found at i:8402046 original size:19 final size:20
Alignment explanation
Indices: 8402010--8402047 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
8402000 ACTGTTACAA
*
8402010 AAAAATATAAATATAAATTC
1 AAAAATATAAATAAAAATTC
*
8402030 AAAAA-ATACATAAAAATT
1 AAAAATATAAATAAAAATT
8402048 TTAAAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAATATAAATAAAAATTC
Found at i:8402052 original size:9 final size:9
Alignment explanation
Indices: 8402040--8402074 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
8402030 AAAAAATACA
8402040 TAAAAATTT
1 TAAAAATTT
8402049 TAAAAATTT
1 TAAAAATTT
8402058 TAAAAATTT
1 TAAAAATTT
8402067 TAAAAATT
1 TAAAAATT
8402075 AAAATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
TAAAAATTT
Found at i:8402983 original size:18 final size:17
Alignment explanation
Indices: 8402962--8403016 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
8402952 AGTATTTTCT
8402962 ATATTTTTATGAATTTTA
1 ATATTTTT-TGAATTTTA
*
8402980 ATATTTTTTAAACTTTT-
1 ATATTTTTTGAA-TTTTA
*
8402997 ATCTATTTTTGAATTTTA
1 ATAT-TTTTTGAATTTTA
8403015 AT
1 AT
8403017 TTATATTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 10 0.32
18 21 0.68
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (17 bp):
ATATTTTTTGAATTTTA
Found at i:8404080 original size:22 final size:22
Alignment explanation
Indices: 8404058--8404099 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
8404048 TTGAATAATA
*
8404058 AATATTTATTATA-AAAATTAT
1 AATATTAATTATATAAAATTAT
*
8404079 AATGTTAATTATATAAAATTA
1 AATATTAATTATATAAAATTA
8404100 GAAAATGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
AATATTAATTATATAAAATTAT
Found at i:8404164 original size:11 final size:11
Alignment explanation
Indices: 8404148--8404183 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
8404138 CTATCCCTCT
8404148 CAAAAAAAAAA
1 CAAAAAAAAAA
8404159 C-AAAAAAAAA
1 CAAAAAAAAAA
*
8404169 CAAAACAAAAA
1 CAAAAAAAAAA
8404180 CAAA
1 CAAA
8404184 GTTTCTCTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:8404165 original size:10 final size:10
Alignment explanation
Indices: 8404150--8404183 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
8404140 ATCCCTCTCA
8404150 AAAAAAAAAC
1 AAAAAAAAAC
8404160 AAAAAAAAAC
1 AAAAAAAAAC
8404170 AAAACAAAAAC
1 AAAA-AAAAAC
8404181 AAA
1 AAA
8404184 GTTTCTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:8404173 original size:15 final size:14
Alignment explanation
Indices: 8404149--8404179 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
8404139 TATCCCTCTC
8404149 AAAAAAAAAACAAA
1 AAAAAAAAAACAAA
8404163 AAAAAACAAAACAAA
1 AAAAAA-AAAACAAA
8404178 AA
1 AA
8404180 CAAAGTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAACAAA
Found at i:8404946 original size:21 final size:20
Alignment explanation
Indices: 8404922--8404961 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8404912 TTAGTTTTGT
*
8404922 TTATGAAATATTTATTTTTAG
1 TTATGAAAT-TTAATTTTTAG
*
8404943 TTATTAAATTTAATTTTTA
1 TTATGAAATTTAATTTTTA
8404962 ATATTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TTATGAAATTTAATTTTTAG
Found at i:8405675 original size:51 final size:51
Alignment explanation
Indices: 8405620--8405780 Score: 150
Period size: 51 Copynumber: 3.1 Consensus size: 51
8405610 CAACCCCTTA
8405620 AAAATAATAATATTATAAATTAATCTATAGTAAAATTGTAATTTGACTTTC
1 AAAATAATAATATTATAAATTAATCTATAGTAAAATTGTAATTTGACTTTC
* * ** * * * ** * *
8405671 AAAATAAAAAAATT-TATGTTTAGTCCTCA-A--AAACTTTTAATTCAACCCCTTA
1 AAAATAATAATATTATA-AATTAAT-CT-ATAGTAAAATTGTAATTTGA--CTTTC
8405723 AAAATAATAATATTATAAATTAATCTATAGTAAAATTGTAATTTGACTTTC
1 AAAATAATAATATTATAAATTAATCTATAGTAAAATTGTAATTTGACTTTC
8405774 AAAATAA
1 AAAATAA
8405781 AAAAATTTAT
Statistics
Matches: 79, Mismatches: 22, Indels: 18
0.66 0.18 0.15
Matches are distributed among these distances:
50 14 0.18
51 29 0.37
52 22 0.28
53 14 0.18
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (51 bp):
AAAATAATAATATTATAAATTAATCTATAGTAAAATTGTAATTTGACTTTC
Found at i:8405776 original size:103 final size:104
Alignment explanation
Indices: 8405597--8405809 Score: 419
Period size: 103 Copynumber: 2.1 Consensus size: 104
8405587 ACTAGAAATT
8405597 AAAACTTTTAATTCAACCCCTTAAAAATAATAATATTATAAATTAATCTATAGTAAAATTGTAAT
1 AAAACTTTTAATTCAACCCCTTAAAAATAATAATATTATAAATTAATCTATAGTAAAATTGTAAT
8405662 TTGACTTTCAAAATAAAAAAATTTATGTTTAGTC-CTCA
66 TTGACTTTCAAAATAAAAAAATTTATGTTTAGTCTCTCA
8405700 AAAACTTTTAATTCAACCCCTTAAAAATAATAATATTATAAATTAATCTATAGTAAAATTGTAAT
1 AAAACTTTTAATTCAACCCCTTAAAAATAATAATATTATAAATTAATCTATAGTAAAATTGTAAT
8405765 TTGACTTTCAAAATAAAAAAATTTATGTTTAGTCTCTCA
66 TTGACTTTCAAAATAAAAAAATTTATGTTTAGTCTCTCA
8405804 AAAACT
1 AAAACT
8405810 GATGAAATTA
Statistics
Matches: 109, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
103 99 0.91
104 10 0.09
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.38
Consensus pattern (104 bp):
AAAACTTTTAATTCAACCCCTTAAAAATAATAATATTATAAATTAATCTATAGTAAAATTGTAAT
TTGACTTTCAAAATAAAAAAATTTATGTTTAGTCTCTCA
Found at i:8409796 original size:31 final size:31
Alignment explanation
Indices: 8409760--8409820 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
8409750 TCTTTAGATG
*
8409760 TATACA-ATTGAATCAAAATCAAAGTTTCATA
1 TATACATA-TGAATCAAAATCAAAATTTCATA
* *
8409791 TATACATATGAATCATAATTAAAATTTCAT
1 TATACATATGAATCAAAATCAAAATTTCAT
8409821 GTGCTTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (31 bp):
TATACATATGAATCAAAATCAAAATTTCATA
Found at i:8411173 original size:20 final size:20
Alignment explanation
Indices: 8411150--8411187 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
8411140 AAAAAAATTA
*
8411150 TTATTCTTAGAAAATAAAAT
1 TTATACTTAGAAAATAAAAT
8411170 TTATACTTAGAAAATAAA
1 TTATACTTAGAAAATAAA
8411188 TTCTCATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (20 bp):
TTATACTTAGAAAATAAAAT
Found at i:8418326 original size:15 final size:16
Alignment explanation
Indices: 8418306--8418351 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
8418296 AGGGCTTGAG
*
8418306 GTGGCCCAAACCTA-T
1 GTGGCCCAAACCAACT
8418321 GTGGCCCAAATCCAACT
1 GTGGCCCAAA-CCAACT
*
8418338 GAGGCCCAAACCAA
1 GTGGCCCAAACCAA
8418352 ACAGAGGCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 10 0.37
16 7 0.26
17 10 0.37
ACGTcount: A:0.33, C:0.35, G:0.20, T:0.13
Consensus pattern (16 bp):
GTGGCCCAAACCAACT
Found at i:8418345 original size:17 final size:17
Alignment explanation
Indices: 8418323--8418364 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
8418313 AAACCTATGT
*
8418323 GGCCCAAATCC-AACTGA
1 GGCCCAAA-CCAAACAGA
8418340 GGCCCAAACCAAACAGA
1 GGCCCAAACCAAACAGA
8418357 GGCCCAAA
1 GGCCCAAA
8418365 GCAGATTCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.40, C:0.36, G:0.19, T:0.05
Consensus pattern (17 bp):
GGCCCAAACCAAACAGA
Found at i:8419320 original size:20 final size:21
Alignment explanation
Indices: 8419269--8419320 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
8419259 GCCCCTCCGC
*
8419269 CCTTTTAATATGTTACAATTAG
1 CCTTTTAAT-TTTTACAATTAG
* *
8419291 -TTTTTTATTTTTA-AATTAG
1 CCTTTTAATTTTTACAATTAG
8419310 CCTTTTAATTT
1 CCTTTTAATTT
8419321 ATCTTAAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
19 6 0.25
20 12 0.50
21 6 0.25
ACGTcount: A:0.27, C:0.10, G:0.06, T:0.58
Consensus pattern (21 bp):
CCTTTTAATTTTTACAATTAG
Found at i:8419824 original size:15 final size:15
Alignment explanation
Indices: 8419801--8419833 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
8419791 TTTTTATGCC
8419801 ATTGATGTATTTATT
1 ATTGATGTATTTATT
*
8419816 ATTGTTGTATTTATT
1 ATTGATGTATTTATT
8419831 ATT
1 ATT
8419834 ATAGCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:8424064 original size:16 final size:16
Alignment explanation
Indices: 8424043--8424074 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8424033 ACATCCCTTG
*
8424043 CAAGAAATAATCACAA
1 CAAGAAATAAACACAA
8424059 CAAGAAATAAACACAA
1 CAAGAAATAAACACAA
8424075 TGAATAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.19, G:0.06, T:0.09
Consensus pattern (16 bp):
CAAGAAATAAACACAA
Found at i:8428067 original size:17 final size:17
Alignment explanation
Indices: 8428045--8428108 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
8428035 AATCTTAGAG
8428045 TTCTAATTGTATACAAC
1 TTCTAATTGTATACAAC
* *
8428062 TTCTAATTGTGT-CTTAGAG
1 TTCTAATTGTATAC--A-AC
*
8428081 TTCTAATTGTATACATC
1 TTCTAATTGTATACAAC
*
8428098 TTTTAATTGTA
1 TTCTAATTGTA
8428109 GCCTTTGATG
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
16 1 0.03
17 21 0.57
18 2 0.05
19 12 0.32
20 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.11, T:0.48
Consensus pattern (17 bp):
TTCTAATTGTATACAAC
Found at i:8428084 original size:36 final size:36
Alignment explanation
Indices: 8428037--8428107 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
8428027 GATTATGTAA
8428037 TCTTAGAGTTCTAATTGTATACAACTTCTAATTGTG
1 TCTTAGAGTTCTAATTGTATACAACTTCTAATTGTG
* *
8428073 TCTTAGAGTTCTAATTGTATACATCTTTTAATTGT
1 TCTTAGAGTTCTAATTGTATACAACTTCTAATTGT
8428108 AGCCTTTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.48
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAACTTCTAATTGTG
Found at i:8428086 original size:19 final size:19
Alignment explanation
Indices: 8428036--8428092 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
8428026 TGATTATGTA
8428036 ATCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
*
8428055 ATAC--A-ACTTCTAATTGT
1 AT-CTTAGAGTTCTAATTGT
*
8428072 GTCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
8428091 AT
1 AT
8428093 ACATCTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
16 1 0.03
17 12 0.40
18 2 0.07
19 14 0.47
20 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (19 bp):
ATCTTAGAGTTCTAATTGT
Found at i:8428387 original size:48 final size:48
Alignment explanation
Indices: 8428312--8428406 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
8428302 TGAGGGAATT
* *
8428312 CTGTTGAATCTTTTATCATTGCAAGTTAGGCCGACTTAGGTATTTTTG
1 CTGTTGAATCCTTTATCATTGCAAGTTAGGCCGACTTAGGCATTTTTG
* *
8428360 CTGTTGAATCCTTTATCATTGCGAGTTAGGCTGACTTAGGCATTTTT
1 CTGTTGAATCCTTTATCATTGCAAGTTAGGCCGACTTAGGCATTTTT
8428407 AAGCAAAGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.43
Consensus pattern (48 bp):
CTGTTGAATCCTTTATCATTGCAAGTTAGGCCGACTTAGGCATTTTTG
Found at i:8433020 original size:17 final size:17
Alignment explanation
Indices: 8432998--8433060 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
8432988 AACCTTAGAG
8432998 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
* *
8433015 TTCTAATTGTGT-CTTAGAG
1 TTCTAATTGTATAC--AG-C
8433034 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
8433051 TT-TAATTGTA
1 TTCTAATTGTA
8433061 AGCCTTTGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
16 9 0.24
17 13 0.34
18 4 0.11
19 11 0.29
20 1 0.03
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.46
Consensus pattern (17 bp):
TTCTAATTGTATACAGC
Found at i:8433038 original size:36 final size:35
Alignment explanation
Indices: 8432991--8433059 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 35
8432981 ATTATGTAAC
8432991 CTTAGAGTTCTAATTGTATACAGCTTCTAATTGTGT
1 CTTAGAGTTCTAATTGTATACAGCTT-TAATTGTGT
8433027 CTTAGAGTTCTAATTGTATACAGCTTTAATTGT
1 CTTAGAGTTCTAATTGTATACAGCTTTAATTGT
8433060 AAGCCTTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 7 0.21
36 26 0.79
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (35 bp):
CTTAGAGTTCTAATTGTATACAGCTTTAATTGTGT
Found at i:8433334 original size:48 final size:48
Alignment explanation
Indices: 8433263--8433359 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
8433253 CTTGAGGGAA
*
8433263 TTCTGCTGAATCCTTTATCATTGCAAGTTAGGCGGACTTAGGCGTTTT
1 TTCTGCTGAATCCTTTATCATTGCAAGTTAGGCGAACTTAGGCGTTTT
* * *
8433311 TTCTGTTGAATCCTTTATCATTGCGAGTTAGGCTAACTTAGGCGTTTT
1 TTCTGCTGAATCCTTTATCATTGCAAGTTAGGCGAACTTAGGCGTTTT
8433359 T
1 T
8433360 AAGCAAAGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.42
Consensus pattern (48 bp):
TTCTGCTGAATCCTTTATCATTGCAAGTTAGGCGAACTTAGGCGTTTT
Found at i:8444249 original size:27 final size:27
Alignment explanation
Indices: 8444218--8444393 Score: 176
Period size: 27 Copynumber: 6.6 Consensus size: 27
8444208 CCAATATCTA
*
8444218 TAAAATGACCGTAATACCCCTATAGGG
1 TAAAATGACCGTAATACCCCTATAAGG
* * * *
8444245 TAAAATGATCGAAAAAACCCC-ATAGGG
1 TAAAATGACCG-TAATACCCCTATAAGG
* ** *
8444272 TAAAATGACCGTAATGCCCCCGTAGGG
1 TAAAATGACCGTAATACCCCTATAAGG
* **
8444299 TAAAATGACTGTAATGTCCCTATAAGG
1 TAAAATGACCGTAATACCCCTATAAGG
** *
8444326 TAAAATGACTATAATACCCCCATAAGG
1 TAAAATGACCGTAATACCCCTATAAGG
* *
8444353 TTAAATGACCG-AATACCTCTATAAGG
1 TAAAATGACCGTAATACCCCTATAAGG
8444379 TAAAATGACCGTAAT
1 TAAAATGACCGTAAT
8444394 GCCCTTGGAG
Statistics
Matches: 123, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
26 29 0.24
27 87 0.71
28 7 0.06
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.23
Consensus pattern (27 bp):
TAAAATGACCGTAATACCCCTATAAGG
Found at i:8444320 original size:81 final size:79
Alignment explanation
Indices: 8444218--8444398 Score: 202
Period size: 81 Copynumber: 2.3 Consensus size: 79
8444208 CCAATATCTA
* * *
8444218 TAAAATGACCGTAATACCCCTATAGGGTAAAATGATCGA-AAAAACCCCATAGGGTAAAATGACC
1 TAAAATGACCGTAAT-GCCCTATAAGGTAAAATGA-CGATAAAAACCCCATAAGGTAAAATGACC
* * *
8444282 GTAATGCCCCCGTAGGG
64 G-AATACCCCCATAAGG
* * * * *
8444299 TAAAATGACTGTAATGTCCCTATAAGGTAAAATGACTATAATACCCCCATAAGGTTAAATGACCG
1 TAAAATGACCGTAATG-CCCTATAAGGTAAAATGACGATAAAAACCCCATAAGGTAAAATGACCG
* *
8444364 AATACCTCTATAAGG
65 AATACCCCCATAAGG
8444379 TAAAATGACCGTAATGCCCT
1 TAAAATGACCGTAATGCCCT
8444399 TGGAGGGTAA
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
79 4 0.05
80 27 0.32
81 53 0.63
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.23
Consensus pattern (79 bp):
TAAAATGACCGTAATGCCCTATAAGGTAAAATGACGATAAAAACCCCATAAGGTAAAATGACCGA
ATACCCCCATAAGG
Found at i:8444446 original size:26 final size:24
Alignment explanation
Indices: 8444405--8444469 Score: 78
Period size: 26 Copynumber: 2.6 Consensus size: 24
8444395 CCCTTGGAGG
8444405 GTAAATGACT-ATTTTGCCCGTCGAGT
1 GTAAATGACTGA-TTTGCCCGT-GA-T
* *
8444431 GTAAATGATTGATTTGTCCGTGAT
1 GTAAATGACTGATTTGCCCGTGAT
8444455 GTAAATGACTGATTT
1 GTAAATGACTGATTT
8444470 CTATGTGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 15 0.43
25 2 0.06
26 17 0.49
27 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.38
Consensus pattern (24 bp):
GTAAATGACTGATTTGCCCGTGAT
Found at i:8444503 original size:24 final size:24
Alignment explanation
Indices: 8444432--8444540 Score: 92
Period size: 24 Copynumber: 4.5 Consensus size: 24
8444422 CCGTCGAGTG
* * * *
8444432 TAAATGATTGATTTGTCCGTGATG
1 TAAATGACTAATTTGTCTGTGATT
* * *
8444456 TAAATGACTGATTTCTATGTGATT
1 TAAATGACTAATTTGTCTGTGATT
8444480 TAAATGACTAATTTGTCTGTGATT
1 TAAATGACTAATTTGTCTGTGATT
*** * *
8444504 GGTATGACTAATTTTTTTGTGATT
1 TAAATGACTAATTTGTCTGTGATT
**
8444528 TGTATGACTAATT
1 TAAATGACTAATT
8444541 CTGAGCATGG
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.27, C:0.07, G:0.19, T:0.47
Consensus pattern (24 bp):
TAAATGACTAATTTGTCTGTGATT
Found at i:8444665 original size:27 final size:27
Alignment explanation
Indices: 8444609--8444665 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
8444599 GGAAGTACTG
* *
8444609 TACTGGTGGCTCTGCCACAATCACTGT
1 TACTGGTGGCTCTACCACAATCACTAT
8444636 TACTGGTGGCT-TCACCACATAT-ACTAT
1 TACTGGTGGCTCT-ACCACA-ATCACTAT
8444663 TAC
1 TAC
8444666 GGTCAGCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 1 0.04
27 23 0.88
28 2 0.08
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.32
Consensus pattern (27 bp):
TACTGGTGGCTCTACCACAATCACTAT
Found at i:8444780 original size:32 final size:32
Alignment explanation
Indices: 8444744--8444882 Score: 199
Period size: 32 Copynumber: 4.4 Consensus size: 32
8444734 GCTGCAATGC
8444744 TACTGATGGCTTTGTGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*
8444776 TACTGATGGCTTTGTGCTGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * * * *
8444808 TACTGATGGCTGTGTGCTGATCATATCACTGC
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* *
8444840 TACTGATGGCTTTGTGCCAATCATATTACTG-
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
8444871 TACTGATGGCTT
1 TACTGATGGCTT
8444883 GTAGCCATTC
Statistics
Matches: 98, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
31 12 0.12
32 86 0.88
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.38
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACCGT
Found at i:8445894 original size:13 final size:13
Alignment explanation
Indices: 8445876--8445900 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8445866 ATATGAATTT
8445876 AAATATATGAAAC
1 AAATATATGAAAC
8445889 AAATATATGAAA
1 AAATATATGAAA
8445901 TGTTTATACG
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:0.64, C:0.04, G:0.08, T:0.24
Consensus pattern (13 bp):
AAATATATGAAAC
Found at i:8446965 original size:21 final size:21
Alignment explanation
Indices: 8446941--8446990 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
8446931 ACGGTTTGGG
8446941 CACACGGGTGTATGGAATAAC
1 CACACGGGTGTATGGAATAAC
* * ** *
8446962 CACACGAGTGTTTGGGGTAGC
1 CACACGGGTGTATGGAATAAC
8446983 CACACGGG
1 CACACGGG
8446991 CTGGCCTTTG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.22, G:0.34, T:0.18
Consensus pattern (21 bp):
CACACGGGTGTATGGAATAAC
Found at i:8447048 original size:20 final size:19
Alignment explanation
Indices: 8447023--8447062 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
8447013 GTGACCCCTA
*
8447023 TTTTCAATTTTTTTCCAGAT
1 TTTTCAATTTTGTT-CAGAT
8447043 TTTTCAATTTTGTTCAGAT
1 TTTTCAATTTTGTTCAGAT
8447062 T
1 T
8447063 AGTGCTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.20, C:0.12, G:0.07, T:0.60
Consensus pattern (19 bp):
TTTTCAATTTTGTTCAGAT
Found at i:8447053 original size:19 final size:20
Alignment explanation
Indices: 8447023--8447062 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
8447013 GTGACCCCTA
8447023 TTTTCAATTTTT-TTCCAGAT
1 TTTTCAATTTTTGTT-CAGAT
8447043 TTTTCAA-TTTTGTTCAGAT
1 TTTTCAATTTTTGTTCAGAT
8447062 T
1 T
8447063 AGTGCTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.20, C:0.12, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTTCAATTTTTGTTCAGAT
Found at i:8451406 original size:128 final size:125
Alignment explanation
Indices: 8451177--8451469 Score: 385
Period size: 128 Copynumber: 2.3 Consensus size: 125
8451167 GTTACACGGT
* * *
8451177 GGAATCAGCACTTAGCAACCACCTTTATATTCAAGGATACGAGGAATCAGCACATAGCAACCCCT
1 GGAATCAGCACTTAGCAACC-CCTTTATAATCAAGAATACGAGGAATCAACACATAGCAACCCCT
* *
8451242 TTTATAATCAAAGATACGGGGAGTCAACACATAGCAACCCCTTTGTTTATAATCAAAGATAAGG
65 TTGATAATCAAAGATACGGGGAATCAACACATAGCAACCCC--T-TTTATAATCAAAGATAAGG
* *
8451306 GGAATCATCACTTAGCAACCCCTTTGATAATC-AGAATACGAGGAATCAACACTTAGCAACCCCT
1 GGAATCAGCACTTAGCAACCCCTTT-ATAATCAAGAATACGAGGAATCAACACATAGCAACCCCT
* * *
8451370 TTGATAATC-AAGAATACGGGGAATCAGCATATAGCAACCCCTTTTATAATCAAAGATACGG
65 TTGATAATCAAAG-ATACGGGGAATCAACACATAGCAACCCCTTTTATAATCAAAGATAAGG
* *
8451431 GGAATCAGCATTTAGCAACCACTTT-TACATTCAAGAATA
1 GGAATCAGCACTTAGCAACCCCTTTATA-A-TCAAGAATA
8451470 TTTGGTGGAA
Statistics
Matches: 146, Mismatches: 13, Indels: 13
0.85 0.08 0.08
Matches are distributed among these distances:
123 2 0.01
124 1 0.01
125 42 0.29
126 7 0.05
127 3 0.02
128 67 0.46
129 24 0.16
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.24
Consensus pattern (125 bp):
GGAATCAGCACTTAGCAACCCCTTTATAATCAAGAATACGAGGAATCAACACATAGCAACCCCTT
TGATAATCAAAGATACGGGGAATCAACACATAGCAACCCCTTTTATAATCAAAGATAAGG
Found at i:8451456 original size:42 final size:42
Alignment explanation
Indices: 8451172--8451457 Score: 337
Period size: 42 Copynumber: 6.7 Consensus size: 42
8451162 TAACAGTTAC
* *
8451172 ACGGTGGAATCAGCACTTAGCAACCACC-TTTATATTCAAGGAT
1 ACGG-GGAATCAGCACTTAGCAACC-CCTTTTATAATCAAAGAT
* *
8451215 ACGAGGAATCAGCACATAGCAACCCCTTTTATAATCAAAGAT
1 ACGGGGAATCAGCACTTAGCAACCCCTTTTATAATCAAAGAT
* * *
8451257 ACGGGGAGTCAACACATAGCAACCCCTTTGTTTATAATCAAAGAT
1 ACGGGGAATCAGCACTTAGCAACCCC--T-TTTATAATCAAAGAT
* * * *
8451302 AAGGGGAATCATCACTTAGCAACCCCTTTGATAATCAGA-AT
1 ACGGGGAATCAGCACTTAGCAACCCCTTTTATAATCAAAGAT
* * *
8451343 ACGAGGAATCAACACTTAGCAACCCCTTTGATAATC-AAGAAT
1 ACGGGGAATCAGCACTTAGCAACCCCTTTTATAATCAAAG-AT
8451385 ACGGGGAATCAGCA-TATAGCAACCCCTTTTATAATCAAAGAT
1 ACGGGGAATCAGCACT-TAGCAACCCCTTTTATAATCAAAGAT
* *
8451427 ACGGGGAATCAGCATTTAGCAACCACTTTTA
1 ACGGGGAATCAGCACTTAGCAACCCCTTTTA
8451458 CATTCAAGAA
Statistics
Matches: 213, Mismatches: 21, Indels: 19
0.84 0.08 0.08
Matches are distributed among these distances:
40 1 0.00
41 38 0.18
42 128 0.60
43 8 0.04
44 1 0.00
45 37 0.17
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.24
Consensus pattern (42 bp):
ACGGGGAATCAGCACTTAGCAACCCCTTTTATAATCAAAGAT
Found at i:8451508 original size:170 final size:169
Alignment explanation
Indices: 8451177--8451508 Score: 395
Period size: 170 Copynumber: 2.0 Consensus size: 169
8451167 GTTACACGGT
* * *
8451177 GGAATCAGCACTTAGCAACCACCTTTATATTCAAGGATACGAGGAATCAGCACATAGCAACCCCT
1 GGAATCAACACTTAGCAACCACCTTTATAATCAAGAATACGAGGAATCAGCACATAGCAACCCCT
* * *
8451242 TTTATAATCAAAGATACGGGGAGTCAACACATAGCAACCCCTTTGTTTATAATCAAAGATAAGGG
66 TTTATAATCAAAGATACGGGGAATCAACACATAGCAACCAC-TTGTTTACAATCAAAGATAAGGG
* ** **
8451307 GAATCATCACTTAGCAACCCCTTTGATAATCAGAATACGA
130 GAATCAGCACACAGCAACCCAGTTGATAATCAGAATACGA
* *
8451347 GGAATCAACACTTAGCAACC-CCTTTGATAATCAAGAATACGGGGAATCAGCATATAGCAACCCC
1 GGAATCAACACTTAGCAACCACCTTT-ATAATCAAGAATACGAGGAATCAGCACATAGCAACCCC
* ** * *
8451411 TTTTATAATCAAAGATACGGGGAATCAGCATTTAGCAACCAC-T-TTTACATTC-AAGAATATTT
65 TTTTATAATCAAAGATACGGGGAATCAACACATAGCAACCACTTGTTTACAATCAAAG-ATA--A
*
8451473 GGTGGAATCAGCACACAGTAACCACAGTT-ATAATCA
127 GG-GGAATCAGCACACAGCAACC-CAGTTGATAATCA
8451509 TAGATACTTG
Statistics
Matches: 137, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
166 3 0.02
167 10 0.07
168 1 0.01
169 7 0.05
170 113 0.82
171 3 0.02
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.24
Consensus pattern (169 bp):
GGAATCAACACTTAGCAACCACCTTTATAATCAAGAATACGAGGAATCAGCACATAGCAACCCCT
TTTATAATCAAAGATACGGGGAATCAACACATAGCAACCACTTGTTTACAATCAAAGATAAGGGG
AATCAGCACACAGCAACCCAGTTGATAATCAGAATACGA
Found at i:8452747 original size:24 final size:24
Alignment explanation
Indices: 8452697--8452889 Score: 128
Period size: 24 Copynumber: 8.0 Consensus size: 24
8452687 TCGTTACATA
* *
8452697 GCTCTCACGAGCTTCCC-AATATTG
1 GCTCTCATGAGCTTCCCGATTA-TG
* *
8452721 GCTCACATGAGCTTCCCGATTACG
1 GCTCTCATGAGCTTCCCGATTATG
* *
8452745 GCTCTTATGAGCTTTCCGATTAATG
1 GCTCTCATGAGCTTCCCGATT-ATG
* *
8452770 GATCTC-TGAAGCTTCACGATTATG
1 GCTCTCATG-AGCTTCCCGATTATG
* *
8452794 GCTCTTATGAGCTTCCCGATTAAAG
1 GCTCTCATGAGCTTCCCGATT-ATG
* *
8452819 GCTCTC-TAGAGCTT-TCGATATTTG
1 GCTCTCAT-GAGCTTCCCGAT-TATG
*
8452843 GCTCT-ATTGAGCTTCCCGATAATTG
1 GCTCTCA-TGAGCTTCCCGATTA-TG
* * *
8452868 GCTCACAAGAGCTTTCCG-TTAT
1 GCTCTCATGAGCTTCCCGATTAT
8452890 ACAACTCACA
Statistics
Matches: 130, Mismatches: 27, Indels: 25
0.71 0.15 0.14
Matches are distributed among these distances:
23 1 0.01
24 73 0.56
25 55 0.42
26 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (24 bp):
GCTCTCATGAGCTTCCCGATTATG
Found at i:8452782 original size:25 final size:25
Alignment explanation
Indices: 8452754--8452834 Score: 71
Period size: 25 Copynumber: 3.3 Consensus size: 25
8452744 GGCTCTTATG
*
8452754 AGCTTTCCGATTAATGGATCTCTGA
1 AGCTTTCCGATTAATGGCTCTCTGA
*
8452779 AGC-TTCACGATT-ATGGCTCTTATG-
1 AGCTTTC-CGATTAATGGCTC-TCTGA
* *
8452803 AGCTTCCCGATTAAAGGCTCTCT-A
1 AGCTTTCCGATTAATGGCTCTCTGA
8452827 GAGCTTTC
1 -AGCTTTC
8452835 GATATTTGGC
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
24 19 0.43
25 25 0.57
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (25 bp):
AGCTTTCCGATTAATGGCTCTCTGA
Found at i:8452784 original size:73 final size:73
Alignment explanation
Indices: 8452705--8452881 Score: 184
Period size: 73 Copynumber: 2.4 Consensus size: 73
8452695 TAGCTCTCAC
* *
8452705 GAGCTTCCCAATATTGGCTCACATGAGCTTCCCGATT-ACGGCTCT-TATGAGCTTTCCGAT-TA
1 GAGCTTCCCGATATTGGCTCACATGAGCTTCCCGATTAAAGGCTCTCTA-GAGCTTT-CGATAT-
8452767 ATGGATCT-CT
63 ATGGATCTACT
* ** *
8452777 GAAGCTTCACGAT-TATGGCTCTTATGAGCTTCCCGATTAAAGGCTCTCTAGAGCTTTCGATATT
1 G-AGCTTCCCGATAT-TGGCTCACATGAGCTTCCCGATTAAAGGCTCTCTAGAGCTTTCGATATA
* *
8452841 TGGCTCTATT
64 TGGATCTACT
*
8452851 GAGCTTCCCGATAATTGGCTCACAAGAGCTT
1 GAGCTTCCCGAT-ATTGGCTCACATGAGCTT
8452882 TCCGTTATAC
Statistics
Matches: 85, Mismatches: 12, Indels: 14
0.77 0.11 0.13
Matches are distributed among these distances:
72 2 0.02
73 50 0.59
74 30 0.35
75 3 0.04
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (73 bp):
GAGCTTCCCGATATTGGCTCACATGAGCTTCCCGATTAAAGGCTCTCTAGAGCTTTCGATATATG
GATCTACT
Found at i:8452832 original size:49 final size:48
Alignment explanation
Indices: 8452728--8452862 Score: 157
Period size: 49 Copynumber: 2.8 Consensus size: 48
8452718 TTGGCTCACA
* * * *
8452728 TGAGCTTCCCGATTACGGCTCTTATGAGCTTTCCGATTAATGGATCTC
1 TGAGCTTCACGATTATGGCTCTTATGAGCTTCCCGATTAAAGGATCTC
*
8452776 TGAAGCTTCACGATTATGGCTCTTATGAGCTTCCCGATTAAAGGCTCTC
1 TG-AGCTTCACGATTATGGCTCTTATGAGCTTCCCGATTAAAGGATCTC
* *
8452825 TAGAGCTT-TCGATATTTGGCTC-TATTGAGCTTCCCGAT
1 T-GAGCTTCACGAT-TATGGCTCTTA-TGAGCTTCCCGAT
8452863 AATTGGCTCA
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
48 8 0.11
49 67 0.88
50 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (48 bp):
TGAGCTTCACGATTATGGCTCTTATGAGCTTCCCGATTAAAGGATCTC
Found at i:8460334 original size:24 final size:24
Alignment explanation
Indices: 8460282--8460426 Score: 114
Period size: 24 Copynumber: 6.0 Consensus size: 24
8460272 ATCTCGCTAC
* *
8460282 ATGGCTCTCACGAGCTTCCTGA-T
1 ATGGCTCTCATGAGCTTCCCGATT
*
8460305 ATTGGCTCGCATGAGCTTCCCGATT
1 A-TGGCTCTCATGAGCTTCCCGATT
* * * *
8460330 ATGGCTCTTATGAACTTCTCAATT
1 ATGGCTCTCATGAGCTTCCCGATT
* *
8460354 AATGGCTCTTC-GGAGTTTCCCGATAT
1 -ATGGCTC-TCATGAGCTTCCCGAT-T
* ** *
8460380 TTGGCTCTTTTGAGCTTCCCGCTT
1 ATGGCTCTCATGAGCTTCCCGATT
*
8460404 ATGGCTCGCATGAGCTTCCCGAT
1 ATGGCTCTCATGAGCTTCCCGAT
8460427 AATTGGTTTG
Statistics
Matches: 92, Mismatches: 24, Indels: 11
0.72 0.19 0.09
Matches are distributed among these distances:
23 1 0.01
24 56 0.61
25 33 0.36
26 2 0.02
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (24 bp):
ATGGCTCTCATGAGCTTCCCGATT
Found at i:8460360 original size:49 final size:49
Alignment explanation
Indices: 8460307--8460427 Score: 129
Period size: 49 Copynumber: 2.5 Consensus size: 49
8460297 TTCCTGATAT
*
8460307 TGGCTCGCATGAGCTTCCCGAT-TATGGCTCTTATGAACTTCTCAATTAA
1 TGGCTCGCATGAGCTTCCCGATATATGGCTCTTATGAACTTCCCAATT-A
* * * * * * **
8460356 TGGCTCTTC-GGAGTTTCCCGATATTTGGCTCTTTTGAGCTTCCCGCTTA
1 TGGCTC-GCATGAGCTTCCCGATATATGGCTCTTATGAACTTCCCAATTA
8460405 TGGCTCGCATGAGCTTCCCGATA
1 TGGCTCGCATGAGCTTCCCGATA
8460428 ATTGGTTTGC
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
48 1 0.02
49 36 0.63
50 20 0.35
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.36
Consensus pattern (49 bp):
TGGCTCGCATGAGCTTCCCGATATATGGCTCTTATGAACTTCCCAATTA
Found at i:8462792 original size:39 final size:39
Alignment explanation
Indices: 8462749--8462827 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
8462739 TCAAATTAAA
8462749 TCTCAATTATTCTTATAATAGCAAAAATAGACTAAATGC
1 TCTCAATTATTCTTATAATAGCAAAAATAGACTAAATGC
8462788 TCTCAATTATTCTTATAATAGCAAAAATAGACTAAATGC
1 TCTCAATTATTCTTATAATAGCAAAAATAGACTAAATGC
8462827 T
1 T
8462828 TTCTCAATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (39 bp):
TCTCAATTATTCTTATAATAGCAAAAATAGACTAAATGC
Found at i:8466130 original size:22 final size:22
Alignment explanation
Indices: 8466105--8466146 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
8466095 TATAAAGTTG
8466105 ATAAT-AAT-TAA-TATATATT
1 ATAATAAATATAATTATATATT
8466124 ATAATAAATATAATTATATATT
1 ATAATAAATATAATTATATATT
8466146 A
1 A
8466147 GTTATTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 3 0.15
21 3 0.15
22 9 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAATAAATATAATTATATATT
Found at i:8466133 original size:16 final size:15
Alignment explanation
Indices: 8466108--8466141 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
8466098 AAAGTTGATA
*
8466108 ATAATTAATATATATT
1 ATAATAAATATA-ATT
8466124 ATAATAAATATAATT
1 ATAATAAATATAATT
8466139 ATA
1 ATA
8466142 TATTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:8466265 original size:31 final size:31
Alignment explanation
Indices: 8466207--8466266 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
8466197 GCCTTTTGAA
* *
8466207 AATATTTACAAAAAAGAGAATCTAATTTTCT
1 AATATTTACAAAAAAGAGAACCAAATTTTCT
*
8466238 AATATTTA-GAAAAAGAGCAACCAAATTTT
1 AATATTTACAAAAAAGAG-AACCAAATTTT
8466267 GAAAATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.32
Consensus pattern (31 bp):
AATATTTACAAAAAAGAGAACCAAATTTTCT
Found at i:8478853 original size:21 final size:23
Alignment explanation
Indices: 8478808--8478854 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
8478798 CGATTTATCA
* *
8478808 CATTTTTACTGGCAGCTTGTCTG
1 CATTCTTACTGGCAGATTGTCTG
8478831 CATTCTTACTGGCA-ATT-TCTG
1 CATTCTTACTGGCAGATTGTCTG
8478852 CAT
1 CAT
8478855 ATTGTTATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 2 0.09
23 13 0.59
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (23 bp):
CATTCTTACTGGCAGATTGTCTG
Found at i:8482871 original size:15 final size:15
Alignment explanation
Indices: 8482829--8482871 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
8482819 AAATAGTAAC
* *
8482829 ACACAACTCTTTCTG
1 ACACCACTCTTTTTG
*
8482844 ACACCACACTTTTTG
1 ACACCACTCTTTTTG
8482859 ACACCACTCTTTT
1 ACACCACTCTTTT
8482872 ATATATAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.26, C:0.35, G:0.05, T:0.35
Consensus pattern (15 bp):
ACACCACTCTTTTTG
Found at i:8487857 original size:41 final size:40
Alignment explanation
Indices: 8487800--8488003 Score: 205
Period size: 41 Copynumber: 5.0 Consensus size: 40
8487790 GTACATCCAG
*
8487800 GGGTACCAAAGTACAAATAGGGGCACGTATGT-AAGATTCA
1 GGGTACCAAAGTACAAACAGGGGCACGTATGTGAA-ATTCA
** * * *
8487840 TGGGTATTAAAGTACAAAAAGAGGCACGTATGTGCAATTCA
1 -GGGTACCAAAGTACAAACAGGGGCACGTATGTGAAATTCA
**
8487881 GGAGTACCAAAGTACAAACAGAAGCACGTATGT-ACAATTCGA
1 GG-GTACCAAAGTACAAACAGGGGCACGTATGTGA-AATTC-A
* ** *
8487923 AGGTACCAAAGTACAAACAGGGGCACAAATGTGTAATTCA
1 GGGTACCAAAGTACAAACAGGGGCACGTATGTGAAATTCA
* * *
8487963 GGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATTCA
1 -GGGTACCAAAGTACAAACAGGGGCACGTATGTGAAATTCA
8488004 TCATTGTTCT
Statistics
Matches: 135, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
40 3 0.02
41 129 0.96
42 3 0.02
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (40 bp):
GGGTACCAAAGTACAAACAGGGGCACGTATGTGAAATTCA
Found at i:8487939 original size:82 final size:82
Alignment explanation
Indices: 8487797--8488004 Score: 258
Period size: 82 Copynumber: 2.5 Consensus size: 82
8487787 AAAGTACATC
* **
8487797 CAGGGGTACCAAAGTACAAATAGGGGCACGTATGTA-AGATTCATGGGTATTAAAGTACAAAAAG
1 CAGGGGTACCAAAGTACAAATAGGGGCACGTATGTACA-ATTCATAGGTACCAAAGTACAAAAAG
**
8487861 AGGCACGTATGTGCAATT
65 AGGCACAAATGTGCAATT
* * ** *
8487879 CAGGAGTACCAAAGTACAAACAGAAGCACGTATGTACAATTCGA-AGGTACCAAAGTACAAACAG
1 CAGGGGTACCAAAGTACAAATAGGGGCACGTATGTACAATTC-ATAGGTACCAAAGTACAAAAAG
* *
8487943 GGGCACAAATGTGTAATT
65 AGGCACAAATGTGCAATT
* *
8487961 CAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATTCAT
1 CAGGGGTACCAAAGTACAAATAGGGGCACGTATGTACAATTCAT
8488005 CATTGTTCTT
Statistics
Matches: 105, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
81 1 0.01
82 102 0.97
83 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.20
Consensus pattern (82 bp):
CAGGGGTACCAAAGTACAAATAGGGGCACGTATGTACAATTCATAGGTACCAAAGTACAAAAAGA
GGCACAAATGTGCAATT
Found at i:8489338 original size:18 final size:19
Alignment explanation
Indices: 8489303--8489338 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
8489293 TGACAAAATT
*
8489303 ATTCTTAGGTTTTTACTTC
1 ATTCTTAGGTTTTCACTTC
8489322 ATTCTTA-GTTTTCACTT
1 ATTCTTAGGTTTTCACTT
8489339 AGGTTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.17, C:0.17, G:0.08, T:0.58
Consensus pattern (19 bp):
ATTCTTAGGTTTTCACTTC
Found at i:8501165 original size:21 final size:21
Alignment explanation
Indices: 8501139--8501182 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
8501129 GAACTAAATG
8501139 TGTTTGTTGTGTGATTTAATT
1 TGTTTGTTGTGTGATTTAATT
8501160 TGTTTGTTGTGTGATTTAATT
1 TGTTTGTTGTGTGATTTAATT
8501181 TG
1 TG
8501183 GTAAAGCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.25, T:0.61
Consensus pattern (21 bp):
TGTTTGTTGTGTGATTTAATT
Found at i:8503010 original size:21 final size:21
Alignment explanation
Indices: 8502984--8503032 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
8502974 CCGAAGTTAG
*
8502984 CACACGAGCGTGTGGCG-TAGT
1 CACACGAGCGTGTGG-GATAGC
*
8503005 CACACGAGCTTGTGGGATAGC
1 CACACGAGCGTGTGGGATAGC
8503026 CACACGA
1 CACACGA
8503033 CCAAGTCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.24, C:0.27, G:0.33, T:0.16
Consensus pattern (21 bp):
CACACGAGCGTGTGGGATAGC
Found at i:8516621 original size:16 final size:16
Alignment explanation
Indices: 8516581--8516612 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8516571 AAGTGAGTGA
8516581 AAGAATGAGAGATGTG
1 AAGAATGAGAGATGTG
*
8516597 AAGAATGAGAGGTGTG
1 AAGAATGAGAGATGTG
8516613 TTGAATGAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.41, T:0.19
Consensus pattern (16 bp):
AAGAATGAGAGATGTG
Found at i:8518965 original size:27 final size:27
Alignment explanation
Indices: 8518927--8519330 Score: 508
Period size: 27 Copynumber: 15.0 Consensus size: 27
8518917 AGACTTCAAG
8518927 ATAGGGTAAAATGA-TCGAAATACCCCC
1 ATAGGGTAAAATGACT-GAAATACCCCC
* *
8518954 ATAGGGTAAAATGACCGAAATACACCC
1 ATAGGGTAAAATGACTGAAATACCCCC
** *
8518981 ATAGGGTAAAATGACAAAAATACCCCT
1 ATAGGGTAAAATGACTGAAATACCCCC
* ** *
8519008 ATAGGGTAGAATGACCAAAATACCCCT
1 ATAGGGTAAAATGACTGAAATACCCCC
* * * * *
8519035 ATAGGATAGAATGACCGAAATAACCTC
1 ATAGGGTAAAATGACTGAAATACCCCC
* *
8519062 ATAAGGTAAAATGA-TCGAAATACCCCT
1 ATAGGGTAAAATGACT-GAAATACCCCC
8519089 ATAGGGTAAAATGACTGAAATACCCCC
1 ATAGGGTAAAATGACTGAAATACCCCC
*
8519116 ATAGGGTAAAATGA-TCGAAATACCCTC
1 ATAGGGTAAAATGACT-GAAATACCCCC
* *
8519143 ATAGGGTAAAATGACCGAAATACCCCT
1 ATAGGGTAAAATGACTGAAATACCCCC
* *
8519170 ATAGGGTAAAATGACTAAAATACCCTC
1 ATAGGGTAAAATGACTGAAATACCCCC
*
8519197 ATAGGGTAAAATGACTAAAATACCCCC
1 ATAGGGTAAAATGACTGAAATACCCCC
8519224 ATAGGGTAAAATGACTGAAATACCCCC
1 ATAGGGTAAAATGACTGAAATACCCCC
* *
8519251 ATAAGGTAGAATGACTGAAATACCCCC
1 ATAGGGTAAAATGACTGAAATACCCCC
*
8519278 ACAGGGTAAAATGACTGAAATACCCCC
1 ATAGGGTAAAATGACTGAAATACCCCC
* **
8519305 ATAGGGTAAAATAACTGTTATACCCC
1 ATAGGGTAAAATGACTGAAATACCCC
8519331 TAGGAGATGA
Statistics
Matches: 331, Mismatches: 41, Indels: 10
0.87 0.11 0.03
Matches are distributed among these distances:
26 1 0.00
27 329 0.99
28 1 0.00
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.19
Consensus pattern (27 bp):
ATAGGGTAAAATGACTGAAATACCCCC
Found at i:8526046 original size:12 final size:12
Alignment explanation
Indices: 8526029--8526053 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8526019 TACCCTGTGA
8526029 TAGTGTGATAAT
1 TAGTGTGATAAT
8526041 TAGTGTGATAAT
1 TAGTGTGATAAT
8526053 T
1 T
8526054 CCTAACCCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (12 bp):
TAGTGTGATAAT
Found at i:8526491 original size:18 final size:18
Alignment explanation
Indices: 8526465--8526500 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8526455 AATGCTTGAA
8526465 ATGCCGAGAGATCGGATT
1 ATGCCGAGAGATCGGATT
* *
8526483 ATGCTGAGAGATTGGATT
1 ATGCCGAGAGATCGGATT
8526501 GATTGGGAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.11, G:0.33, T:0.28
Consensus pattern (18 bp):
ATGCCGAGAGATCGGATT
Found at i:8533428 original size:51 final size:49
Alignment explanation
Indices: 8533302--8533433 Score: 149
Period size: 49 Copynumber: 2.7 Consensus size: 49
8533292 AGAGTGATGG
* *
8533302 TCACGTGTGTAGTACTATGTGTAGGCTACTACATGTACCGGAATATAGG
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACACGTACCGGAATATAGA
** * * ** *
8533351 TTGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCA-A
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACACGTACCGGA-A-TAT-AGA
8533402 TCACGTGTGTAGTACTATGTGTAGGCTACTAC
1 TCACGTGTGTAGTACTATGTGTAGGCTACTAC
8533434 GTGTATCAGA
Statistics
Matches: 66, Mismatches: 14, Indels: 4
0.79 0.17 0.05
Matches are distributed among these distances:
49 35 0.53
50 1 0.02
51 29 0.44
52 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (49 bp):
TCACGTGTGTAGTACTATGTGTAGGCTACTACACGTACCGGAATATAGA
Found at i:8539629 original size:23 final size:23
Alignment explanation
Indices: 8539599--8539644 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
8539589 ACTTGAAGAG
8539599 TTAGTTTAGTTGTATGTATTTGA
1 TTAGTTTAGTTGTATGTATTTGA
8539622 TTAGTTTAGTTGTATGTATTTGA
1 TTAGTTTAGTTGTATGTATTTGA
8539645 GTTCATCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.57
Consensus pattern (23 bp):
TTAGTTTAGTTGTATGTATTTGA
Found at i:8541478 original size:25 final size:25
Alignment explanation
Indices: 8541441--8541488 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
8541431 TCTCAAAAAG
*
8541441 AAAAAAAATCACTATGAATCTACCA
1 AAAAAAAACCACTATGAATCTACCA
*
8541466 AAAAAAAACCACTCTGAATCTAC
1 AAAAAAAACCACTATGAATCTAC
8541489 AAGAATCAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.54, C:0.23, G:0.04, T:0.19
Consensus pattern (25 bp):
AAAAAAAACCACTATGAATCTACCA
Found at i:8544425 original size:22 final size:23
Alignment explanation
Indices: 8544395--8544437 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
8544385 ACAGCAGAAC
*
8544395 AGGTTTTTAGCGGC-CTTTTTTT
1 AGGTCTTTAGCGGCGCTTTTTTT
8544417 AGGTCTTTAGCGGCGCTTTTT
1 AGGTCTTTAGCGGCGCTTTTT
8544438 AACGCCACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.09, C:0.16, G:0.26, T:0.49
Consensus pattern (23 bp):
AGGTCTTTAGCGGCGCTTTTTTT
Found at i:8544584 original size:42 final size:42
Alignment explanation
Indices: 8544509--8544986 Score: 633
Period size: 42 Copynumber: 11.4 Consensus size: 42
8544499 ACGTCACTAA
* * *
8544509 CTTTTGCGGCGCTTACATAAAAAAATGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT--AGAAAAAAACGCCGCTAAAGATCATGTT
*
8544553 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGCT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* *
8544595 CTTTAGCGGCGCTT--AAAGAAACGCCCCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* * * *
8544635 CTTTAGCGGCGCTTATAAAAAAACACTGCTAAAGATCACGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
*
8544677 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
*
8544719 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGCT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* *
8544761 CTTTAGCGGCGCTTAGAAAGAAACGCCCCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* * * *
8544803 CTTTAGCGGCGCTTATAAAAAAACACTGCTAAAGATCACGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
*
8544845 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* * * *
8544887 CTTTAGCGGCGCTTTGGAAGAAAACGCCTCTAAA-AGTAATGTT
1 CTTTAGCGGCGC-TTAGAAAAAAACGCCGCTAAAGA-TCATGTT
* **
8544930 CTATAGCGGCGCTTATTAAAAAACGCCGCTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGA-TCA-TGTT
8544972 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
8544987 TTTCACAAAC
Statistics
Matches: 384, Mismatches: 45, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
40 37 0.10
41 1 0.00
42 299 0.78
43 34 0.09
44 13 0.03
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
Found at i:8545458 original size:21 final size:21
Alignment explanation
Indices: 8545402--8545469 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
8545392 TTCTTTTGAA
* *
8545402 CCTCTGCTTCTATCGCTGCGG
1 CCTCTGCTTCTCTCGCTGCAG
*
8545423 CCTCTGCTTCTCTCGCTGTAG
1 CCTCTGCTTCTCTCGCTGCAG
* * *
8545444 CCTCTGCTTCCCTCGTTGCTG
1 CCTCTGCTTCTCTCGCTGCAG
8545465 CCTCT
1 CCTCT
8545470 ACTTTAAGTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.41, G:0.19, T:0.37
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCAG
Found at i:8545521 original size:12 final size:12
Alignment explanation
Indices: 8545506--8545567 Score: 76
Period size: 12 Copynumber: 5.4 Consensus size: 12
8545496 ATATTCTATG
8545506 GCTGCTTCTCTC
1 GCTGCTTCTCTC
8545518 GCTGCTTCTCTC
1 GCTGCTTCTCTC
**
8545530 GCTGCGGC-CT-
1 GCTGCTTCTCTC
*
8545540 -TTGCTTCTCTC
1 GCTGCTTCTCTC
8545551 GCTGCTTCTCTC
1 GCTGCTTCTCTC
8545563 GCTGC
1 GCTGC
8545568 GGCCTCTGCT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
9 4 0.10
10 2 0.05
11 2 0.05
12 33 0.80
ACGTcount: A:0.00, C:0.40, G:0.21, T:0.39
Consensus pattern (12 bp):
GCTGCTTCTCTC
Found at i:8545550 original size:33 final size:33
Alignment explanation
Indices: 8545507--8545584 Score: 147
Period size: 33 Copynumber: 2.4 Consensus size: 33
8545497 TATTCTATGG
8545507 CTGCTTCTCTCGCTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCTTCTCTCGCTGCGGCCT
*
8545540 TTGCTTCTCTCGCTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCTTCTCTCGCTGCGGCCT
8545573 CTGCTTCTCTCG
1 CTGCTTCTCTCG
8545585 TTGTAACAGC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.00, C:0.41, G:0.21, T:0.38
Consensus pattern (33 bp):
CTGCTTCTCTCGCTGCTTCTCTCGCTGCGGCCT
Found at i:8545578 original size:21 final size:21
Alignment explanation
Indices: 8545552--8545620 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
8545542 GCTTCTCTCG
*
8545552 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* * * **
8545573 CTGCTTCTCTCGTTGTAACAG
1 CTGCTTCTCTCGCTGCAGCCT
* *
8545594 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
8545615 CTGCTT
1 CTGCTT
8545621 TAAGTTGCTG
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.04, C:0.41, G:0.20, T:0.35
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:8558152 original size:7 final size:7
Alignment explanation
Indices: 8558140--8558164 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8558130 GCTAAATCGT
8558140 TAAACCC
1 TAAACCC
8558147 TAAACCC
1 TAAACCC
8558154 TAAACCC
1 TAAACCC
8558161 TAAA
1 TAAA
8558165 ACCAATAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:8558413 original size:90 final size:89
Alignment explanation
Indices: 8558309--8558504 Score: 365
Period size: 90 Copynumber: 2.2 Consensus size: 89
8558299 CTAAATTAAC
8558309 ACCCTAACCCTAAACCTACATCGTAAACCCTAAACTTTAAACTTTACACTGTAATCCAAAAATAC
1 ACCCTAA-CCTAAACCTACATCGTAAACCCTAAACTTTAAACTTTACACTGTAATCCAAAAATAC
8558374 TAAACATTATATAATGAACCCTAAT
65 TAAACATTATATAATGAACCCTAAT
8558399 ACCCTAACTCTAAACCTACATCGTAAACCCTAAACTTTAAACTTTACACTGTAATCCAAAAATAC
1 ACCCTAAC-CTAAACCTACATCGTAAACCCTAAACTTTAAACTTTACACTGTAATCCAAAAATAC
8558464 TAAACATTATATAATGAACCCTAAT
65 TAAACATTATATAATGAACCCTAAT
8558489 ACCCTATACCTAAACC
1 ACCCTA-ACCTAAACC
8558505 AAATATGATT
Statistics
Matches: 104, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
89 1 0.01
90 101 0.97
91 2 0.02
ACGTcount: A:0.43, C:0.28, G:0.03, T:0.27
Consensus pattern (89 bp):
ACCCTAACCTAAACCTACATCGTAAACCCTAAACTTTAAACTTTACACTGTAATCCAAAAATACT
AAACATTATATAATGAACCCTAAT
Found at i:8558796 original size:115 final size:113
Alignment explanation
Indices: 8558596--8559123 Score: 434
Period size: 113 Copynumber: 4.6 Consensus size: 113
8558586 GCGCTTTCAA
* * * * * * * * *
8558596 CAAAGCGCCACTAATTTTAGTATAAATTAAGACCAAAACGTTGCGTTTTGTTTATGGTATGTCGC
1 CAAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGATGCGTTTTGGTTAAGATATTTTGC
** * *
8558661 GGCGCTAGCAACAAATCGCCGCTAATACTATGCTTTAGCGGCGTTTTAC
66 GGCGCTTTC-ACCAAGCGCCGCTAATACTATGCTTTAGCGGCGTTTTAC
* * * * *
8558710 CGAAATCGCCACTAAATCAAGTATACATCAAGACCAAAACGATGCGTTTTGGTTCAGATATTTGG
1 C-AAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGATGCGTTTTGGTTAAGATATTTTG
* * * *
8558775 TGGCGCTTTTATCCAAGCGCCGCTAATACTATGCTTTAACGGCGTTTCA-
65 CGGCGCTTTCA-CCAAGCGCCGCTAATACTATGCTTTAGCGGCGTTTTAC
* * * * * ** * *
8558824 CTAAGCGCCACTAATTCTACTATACATCGAGGCCGAAATTATGCATTTTGGTTAATATATTTTGC
1 CAAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGATGCGTTTTGGTTAAGATATTTTGC
* * * *
8558889 GGCGCTTCTCACAAAGCGCCGCTATTAATAT-CTTTCGCGGCAG-TTTAC
66 GGCGCTT-TCACCAAGCGCCGCTAATACTATGCTTTAGCGGC-GTTTTAC
* * * * * * * *
8558937 CATAAGCGTCACTAATTTTA-TGTACATTAAGATCACAACGCTGCGTTTTTGTTAAGATATTTTG
1 CA-AAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGATGCGTTTTGGTTAAGATATTTTG
** * * * * *
8559001 CGGCGCTAGACACAAATCGCCGCTAATACTATTCTTTACCGGCGTTTGAC
65 CGGCGCT-TTCACCAAGCGCCGCTAATACTATGCTTTAGCGGCGTTTTAC
* * * * * * * *
8559051 CGTATGCGCCACTAGTTGTAGTATAAATCAAGACCAAAACGATGTGTTTTGGTTCAGATAGTTTG
1 C-AAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGATGCGTTTTGGTTAAGATATTTTG
8559116 CGGCGCTT
65 CGGCGCTT
8559124 CACTATTACT
Statistics
Matches: 320, Mismatches: 83, Indels: 22
0.75 0.20 0.05
Matches are distributed among these distances:
112 11 0.03
113 133 0.42
114 46 0.14
115 130 0.41
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (113 bp):
CAAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGATGCGTTTTGGTTAAGATATTTTGC
GGCGCTTTCACCAAGCGCCGCTAATACTATGCTTTAGCGGCGTTTTAC
Found at i:8559334 original size:113 final size:113
Alignment explanation
Indices: 8559124--8559335 Score: 275
Period size: 113 Copynumber: 1.9 Consensus size: 113
8559114 TGCGGCGCTT
* **
8559124 CACTATTACTGTACTTTAACAGCGTTTTCCTATAAACGCCACTAATTCTAAGATACCTCAAGACC
1 CACTATTACTGTACTTTAACAGCGTTTTCCTATAAACGCCACTAATTCTAAGATACATCAAGAAA
* * ** *
8559189 AAACTCTGCGTTTTGGTTAAGCTATTTTGCGGCGTTTCCAAAAAGCGC
66 AAACACAGCGTTTTGGTTAAGAGATTTAGCGGCGTTTCCAAAAAGCGC
* * * * *
8559237 CACTATTACTGTCCTTTAACGGCG-TTTCGC-GTAAACGCCACTACTTTTAAGATACATCAAGAT
1 CACTATTACTGTACTTTAACAGCGTTTTC-CTATAAACGCCACTAATTCTAAGATACATCAAGA-
8559300 AAAAACACAGCGTTTTGGTTAAGAGATTTAGCGGCG
64 AAAAACACAGCGTTTTGGTTAAGAGATTTAGCGGCG
8559336 CATTGTGGTA
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
112 32 0.38
113 52 0.62
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (113 bp):
CACTATTACTGTACTTTAACAGCGTTTTCCTATAAACGCCACTAATTCTAAGATACATCAAGAAA
AAACACAGCGTTTTGGTTAAGAGATTTAGCGGCGTTTCCAAAAAGCGC
Found at i:8560854 original size:9 final size:9
Alignment explanation
Indices: 8560840--8560864 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
8560830 GTTATTGAAA
8560840 TGCATGTAT
1 TGCATGTAT
8560849 TGCATGTAT
1 TGCATGTAT
8560858 TGCATGT
1 TGCATGT
8560865 TTATAATGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.12, G:0.24, T:0.44
Consensus pattern (9 bp):
TGCATGTAT
Found at i:8561648 original size:52 final size:53
Alignment explanation
Indices: 8561574--8561704 Score: 174
Period size: 52 Copynumber: 2.5 Consensus size: 53
8561564 CGGAGTTTTT
* * * *
8561574 TAGGACAATAAACATAGGGTAGTCCTCCAGGATGATAAACATGGATAGTCTGC
1 TAGGACAATAAAAATGGGGTAGTCCGCCAGGACGATAAACATGGATAGTCTGC
* * * * *
8561627 TGGGACAA-CAAAATGTGGTAGTTCGCCAGGACGTTAAACATGGATAGTCTGC
1 TAGGACAATAAAAATGGGGTAGTCCGCCAGGACGATAAACATGGATAGTCTGC
8561679 TAGGACAATAAAAATGGGGTAGTCCG
1 TAGGACAATAAAAATGGGGTAGTCCG
8561705 TCAAGATGGT
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
52 43 0.67
53 21 0.33
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.22
Consensus pattern (53 bp):
TAGGACAATAAAAATGGGGTAGTCCGCCAGGACGATAAACATGGATAGTCTGC
Found at i:8561683 original size:26 final size:26
Alignment explanation
Indices: 8561574--8561695 Score: 88
Period size: 26 Copynumber: 4.7 Consensus size: 26
8561564 CGGAGTTTTT
*
8561574 TAGGACAATAAACATAGGGTAGTCCT-C
1 TAGGACAATAAACAT-GGATAGT-CTGC
* **
8561601 CAGGATGATAAACATGGATAGTCTGC
1 TAGGACAATAAACATGGATAGTCTGC
* * *
8561627 TGGGACAACAAA-ATGTGGTAGT-TCGC
1 TAGGACAATAAACATG-GATAGTCT-GC
* **
8561653 CAGGACGTTAAACATGGATAGTCTGC
1 TAGGACAATAAACATGGATAGTCTGC
*
8561679 TAGGACAATAAAAATGG
1 TAGGACAATAAACATGG
8561696 GGTAGTCCGT
Statistics
Matches: 70, Mismatches: 20, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
25 6 0.09
26 48 0.69
27 16 0.23
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (26 bp):
TAGGACAATAAACATGGATAGTCTGC
Found at i:8561814 original size:33 final size:33
Alignment explanation
Indices: 8561771--8561836 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
8561761 GCGATAGCTA
8561771 GCCAGCAGGTTTCAGGAATCCGTTGGTAAAGGC
1 GCCAGCAGGTTTCAGGAATCCGTTGGTAAAGGC
*
8561804 GCCAGTAGGTTTCAGGAATCCGTTGGTAAAGGC
1 GCCAGCAGGTTTCAGGAATCCGTTGGTAAAGGC
8561837 AAAACCATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.23
Consensus pattern (33 bp):
GCCAGCAGGTTTCAGGAATCCGTTGGTAAAGGC
Found at i:8562848 original size:13 final size:13
Alignment explanation
Indices: 8562830--8562856 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8562820 CCAAATTAAG
8562830 AGAAATTGTCCCA
1 AGAAATTGTCCCA
8562843 AGAAATTGTCCCA
1 AGAAATTGTCCCA
8562856 A
1 A
8562857 ATTAAGAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (13 bp):
AGAAATTGTCCCA
Done.