Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 14 of 135
Found at i:6033475 original size:23 final size:24
Alignment explanation
Indices: 6033423--6033483 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 24
6033413 TAGCTCGTAC
*
6033423 GAGCTTACCGATATATCAGCTCTTAT
1 GAGCTTACCG-T-TATCAGCTCTGAT
6033449 GAGCTTACCGTT-TCAGCT-TGAT
1 GAGCTTACCGTTATCAGCTCTGAT
*
6033471 AGAGCTAACCGTT
1 -GAGCTTACCGTT
6033484 CTTCAGTTCG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 3 0.09
23 17 0.53
24 1 0.03
25 1 0.03
26 10 0.31
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (24 bp):
GAGCTTACCGTTATCAGCTCTGAT
Found at i:6039300 original size:9 final size:9
Alignment explanation
Indices: 6039286--6039314 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
6039276 CGTTAACGTG
6039286 TTGTAACAT
1 TTGTAACAT
6039295 TTGTAACAT
1 TTGTAACAT
6039304 TTGTAACAT
1 TTGTAACAT
6039313 TT
1 TT
6039315 TAGTCATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.48
Consensus pattern (9 bp):
TTGTAACAT
Found at i:6042525 original size:130 final size:131
Alignment explanation
Indices: 6042285--6042554 Score: 533
Period size: 130 Copynumber: 2.1 Consensus size: 131
6042275 TGGCTGCACT
6042285 AAATTAAAATTTTGGTCTATTTTCATGCTAGGTCTATCCATTTTGAAATTAAATTTAAATAATCC
1 AAATTAAAATTTTGGTCTATTTTCATGCTAGGTCTATCCATTTTGAAATTAAATTTAAATAATCC
6042350 TACAAAGATATAAGAATAACAAAAATAAACCTTTCCTATTTTTTTTTTATTTTTTTAAAAACAAC
66 TACAAAGATATAAGAATAACAAAAATAAACCTTTCCTATTTTTTTTTTATTTTTTTAAAAACAAC
6042415 A
131 A
6042416 AAATTAAAA-TTTGGTCTATTTTCATGCTAGGTCTATCCATTTTGAAATTAAATTTAAATAATCC
1 AAATTAAAATTTTGGTCTATTTTCATGCTAGGTCTATCCATTTTGAAATTAAATTTAAATAATCC
6042480 TACAAAGATATAAGAATAACAAAAATAAACCTTTCCTATTTTTTTTTTATTTTTTTAAAAACAAC
66 TACAAAGATATAAGAATAACAAAAATAAACCTTTCCTATTTTTTTTTTATTTTTTTAAAAACAAC
6042545 A
131 A
6042546 AAATTAAAA
1 AAATTAAAA
6042555 ATATATATAT
Statistics
Matches: 139, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
130 130 0.94
131 9 0.06
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (131 bp):
AAATTAAAATTTTGGTCTATTTTCATGCTAGGTCTATCCATTTTGAAATTAAATTTAAATAATCC
TACAAAGATATAAGAATAACAAAAATAAACCTTTCCTATTTTTTTTTTATTTTTTTAAAAACAAC
A
Found at i:6043039 original size:13 final size:13
Alignment explanation
Indices: 6043023--6043067 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
6043013 TCGAACCCCA
6043023 AACCTTAACCATG
1 AACCTTAACCATG
6043036 AACCTTAAACC-TG
1 AACCTT-AACCATG
*
6043049 AACCTCAAACCATG
1 AACCT-TAACCATG
6043063 AACCT
1 AACCT
6043068 CAAACCCAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.40, C:0.33, G:0.07, T:0.20
Consensus pattern (13 bp):
AACCTTAACCATG
Found at i:6043679 original size:59 final size:60
Alignment explanation
Indices: 6043608--6043724 Score: 164
Period size: 62 Copynumber: 1.9 Consensus size: 60
6043598 ATCAGTTTAA
* * * *
6043608 TATTAAATTAATATAATATTTATC-AATATAAATATTAAATTAAATTTAATATTAAATCT
1 TATTAAAATAATATAATACTTATCTAAGATAAATATTAAAGTAAATTTAATATTAAATCT
*
6043667 TATTAAAATAATATAATGCTTATCTATAAGATAAATATTAAAGTAAATTTAATATTAA
1 TATTAAAATAATATAATACTTATC--TAAGATAAATATTAAAGTAAATTTAATATTAA
6043725 GATAATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 21 0.42
62 29 0.58
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (60 bp):
TATTAAAATAATATAATACTTATCTAAGATAAATATTAAAGTAAATTTAATATTAAATCT
Found at i:6047657 original size:47 final size:47
Alignment explanation
Indices: 6047574--6047690 Score: 128
Period size: 47 Copynumber: 2.5 Consensus size: 47
6047564 TCTGTTCGAT
* * * * *
6047574 CAGTGGTTTATGCACAACGTATTTTATTCAGTAGTCATCTGCTCGAC
1 CAGTGGTTTATCCACAACATATTTTATTCAGCAGTCATCTACTCAAC
* *
6047621 TAGTGGTTTATCCACAACATATTTTAGTT-GGCAGTCATCTACTCAAC
1 CAGTGGTTTATCCACAACATATTTTA-TTCAGCAGTCATCTACTCAAC
* **
6047668 CAGTGGTTCATCCGTAACATATT
1 CAGTGGTTTATCCACAACATATT
6047691 AGCAGCTTTT
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
47 56 0.97
48 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (47 bp):
CAGTGGTTTATCCACAACATATTTTATTCAGCAGTCATCTACTCAAC
Found at i:6048607 original size:21 final size:23
Alignment explanation
Indices: 6048563--6048607 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
6048553 TCGTCAGCTT
*
6048563 TTCTAAAAATAGACTAAATATTA
1 TTCTAAAAATAGAATAAATATTA
*
6048586 TTCT-AAAATA-AATAAATGTTA
1 TTCTAAAAATAGAATAAATATTA
6048607 T
1 T
6048608 AAATTGATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 10 0.50
22 6 0.30
23 4 0.20
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (23 bp):
TTCTAAAAATAGAATAAATATTA
Found at i:6053406 original size:47 final size:47
Alignment explanation
Indices: 6053352--6053468 Score: 126
Period size: 47 Copynumber: 2.5 Consensus size: 47
6053342 TTTGCTTGAT
*
6053352 CAGTGGTTTATCCACAATGTATTTTAGTCAACAATCATCTGCTCGAC
1 CAGTGGTTTATCCACAATGTATTTTAGTCAACAATCATCTACTCGAC
* * * ** * *
6053399 CAGTGGTTTATCCACGATATTTTTTAGTTGACAATCATTTACTTGAC
1 CAGTGGTTTATCCACAATGTATTTTAGTCAACAATCATCTACTCGAC
* * * *
6053446 CAATGGTTCATCCATAACGTATT
1 CAGTGGTTTATCCACAATGTATT
6053469 AGCAACTTTT
Statistics
Matches: 55, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.38
Consensus pattern (47 bp):
CAGTGGTTTATCCACAATGTATTTTAGTCAACAATCATCTACTCGAC
Found at i:6056550 original size:5 final size:5
Alignment explanation
Indices: 6056540--6056570 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
6056530 CTCGAAAATT
6056540 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
6056571 CGAATGCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:6058130 original size:16 final size:16
Alignment explanation
Indices: 6058109--6058147 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
6058099 TCATTTATTA
6058109 AATAAAA-ATTATCTT
1 AATAAAACATTATCTT
*
6058124 AATTAAAACATTATTTT
1 AA-TAAAACATTATCTT
6058141 AATAAAA
1 AATAAAA
6058148 TGATTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 10 0.48
17 9 0.43
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (16 bp):
AATAAAACATTATCTT
Found at i:6059825 original size:15 final size:16
Alignment explanation
Indices: 6059805--6059835 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
6059795 GCTTTAAGCC
6059805 TTAGGGTT-TAGGGGT
1 TTAGGGTTATAGGGGT
6059820 TTAGGGTTATAGGGGT
1 TTAGGGTTATAGGGGT
6059836 CGGGTTAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.16, C:0.00, G:0.45, T:0.39
Consensus pattern (16 bp):
TTAGGGTTATAGGGGT
Found at i:6060142 original size:14 final size:13
Alignment explanation
Indices: 6060125--6060164 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
6060115 TTGGGGGTAA
6060125 GGGTTTGTGGTTTG
1 GGGTTTG-GGTTTG
6060139 GGGTTTGGGGTTTG
1 GGGTTT-GGGTTTG
*
6060153 GGATTTGGGTTT
1 GGGTTTGGGTTT
6060165 TTAAGTTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 6 0.25
14 17 0.71
15 1 0.04
ACGTcount: A:0.03, C:0.00, G:0.50, T:0.47
Consensus pattern (13 bp):
GGGTTTGGGTTTG
Found at i:6060149 original size:21 final size:21
Alignment explanation
Indices: 6060099--6060161 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
6060089 TGGTTTTTGA
*
6060099 GTTTGGGGTTTAGT-TTTTGGG
1 GTTTGGGGTTT-GTGGTTTGGG
* **
6060120 GGTAAGGGTTTGTGGTTTGGG
1 GTTTGGGGTTTGTGGTTTGGG
6060141 GTTTGGGGTTTG-GGATTTGGG
1 GTTTGGGGTTTGTGG-TTTGGG
6060162 TTTTTAAGTT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
20 4 0.12
21 29 0.88
ACGTcount: A:0.06, C:0.00, G:0.49, T:0.44
Consensus pattern (21 bp):
GTTTGGGGTTTGTGGTTTGGG
Found at i:6061033 original size:230 final size:230
Alignment explanation
Indices: 6060617--6061286 Score: 1115
Period size: 230 Copynumber: 2.9 Consensus size: 230
6060607 AGTTGTGAAG
** * *
6060617 AAAACGGCGTCGTTTTCTTATTACATTTAGTGGCGTTTTCTACAAAACGCCGCAACTATGTTTTC
1 AAAACGGCGTCGTTTTCTTATTACATTTAGTGGCGTTTTAGATAAAACGCCGCAAGTATGTTTTC
*** * ** * * *
6060682 TTTGTTACGGGAACGGCGTCGTTTTCCATTGTTATTAGTGGCGTTACACCCAAAACGCCGTAAAT
66 TTTGTTACAAAAACGGCATCGTTTT-CAAGGATATTTGTGGCGTTACACCCAAAACGCCGCAAAT
* * *
6060747 ATATTTTAAAGATTACATGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTT
130 ATATTTTAAAGATTACAGGAGTTTGCTTTAAACGACTGCGTTTGACCTTATATTTAGTGGCGCTT
* *
6060812 ATATATAAACGTCGCAAACTCGAAATGGTGTTACGA
195 ATATATAAACGCCGCAAAATCGAAATGGTGTTACGA
*
6060848 AAAACGACGTCGTTTTCTTATTACATTTAGTGGCGTTTTAGATAAAACGCCGCAAGTATGTTTTC
1 AAAACGGCGTCGTTTTCTTATTACATTTAGTGGCGTTTTAGATAAAACGCCGCAAGTATGTTTTC
* *
6060913 TTTGTTACAAAAACGGCATCGTTTTCAAGGATATTTGTGGCGTTACACCCAAAATGTCGCAAATA
66 TTTGTTACAAAAACGGCATCGTTTTCAAGGATATTTGTGGCGTTACACCCAAAACGCCGCAAATA
*
6060978 TATTTTAAAGATTACAGGAGTTTACTTTAAACGACTGCGTTTGACCTTATATTTAGTGGCGCTTA
131 TATTTTAAAGATTACAGGAGTTTGCTTTAAACGACTGCGTTTGACCTTATATTTAGTGGCGCTTA
6061043 TATATAAACGCCGCAAAATCGAAATGGTGTTACGA
196 TATATAAACGCCGCAAAATCGAAATGGTGTTACGA
*
6061078 AAAACGGCGCCGTTTTCTTATTACATTTAGTGGCGTTTTAGATAAAACGCCGCAAGTATGTTTTC
1 AAAACGGCGTCGTTTTCTTATTACATTTAGTGGCGTTTTAGATAAAACGCCGCAAGTATGTTTTC
6061143 TTTGTTACAAAAACGGCATCGTTTTCAAGGATATTTGTGGCGTTACACCCAAAACGCCGCAAATA
66 TTTGTTACAAAAACGGCATCGTTTTCAAGGATATTTGTGGCGTTACACCCAAAACGCCGCAAATA
*
6061208 TATTTTAAAGATTACAGGAGTTTGCTTTAAACGATTGCGTTTGACCTTATATTTAGTGGCGCTTA
131 TATTTTAAAGATTACAGGAGTTTGCTTTAAACGACTGCGTTTGACCTTATATTTAGTGGCGCTTA
6061273 TATATAAACGCCGC
196 TATATAAACGCCGC
6061287 NNNNNNNNNN
Statistics
Matches: 411, Mismatches: 28, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
230 330 0.80
231 81 0.20
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (230 bp):
AAAACGGCGTCGTTTTCTTATTACATTTAGTGGCGTTTTAGATAAAACGCCGCAAGTATGTTTTC
TTTGTTACAAAAACGGCATCGTTTTCAAGGATATTTGTGGCGTTACACCCAAAACGCCGCAAATA
TATTTTAAAGATTACAGGAGTTTGCTTTAAACGACTGCGTTTGACCTTATATTTAGTGGCGCTTA
TATATAAACGCCGCAAAATCGAAATGGTGTTACGA
Found at i:6061511 original size:19 final size:19
Alignment explanation
Indices: 6061489--6061532 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
6061479 CAGACATCTC
*
6061489 CCCCAAATCCCTAAAATTT
1 CCCCAAATCCCTAAAAGTT
* *
6061508 CCCCTAATCCCTAACAGTT
1 CCCCAAATCCCTAAAAGTT
6061527 CCCCAA
1 CCCCAA
6061533 CGTAGTCCAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.43, G:0.02, T:0.23
Consensus pattern (19 bp):
CCCCAAATCCCTAAAAGTT
Found at i:6063862 original size:20 final size:20
Alignment explanation
Indices: 6063837--6063898 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
6063827 TACAATTTCT
6063837 TAACTTATATAATATTAAGA
1 TAACTTATATAATATTAAGA
*
6063857 TAACTTATATAATATT-ACA
1 TAACTTATATAATATTAAGA
*
6063876 TAACTTATATAATGTTAAGA
1 TAACTTATATAATATTAAGA
6063896 TAA
1 TAA
6063899 AAAATCGAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 17 0.45
20 21 0.55
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.40
Consensus pattern (20 bp):
TAACTTATATAATATTAAGA
Found at i:6063975 original size:37 final size:37
Alignment explanation
Indices: 6063837--6063976 Score: 156
Period size: 37 Copynumber: 3.7 Consensus size: 37
6063827 TACAATTTCT
* * *
6063837 TAACTTATATAATATTAAGAT-AACTTATATAATATTACA
1 TAACTTATACAATATTAAGATAAAATT-TCT-A-ATTACA
* * ** *
6063876 TAACTTATATAATGTTAAGATAAAAAATCGAATTACA
1 TAACTTATACAATATTAAGATAAAATTTCTAATTACA
* *
6063913 TAACTTACACAATATTAAGGTAAAATTTCTAATTACA
1 TAACTTATACAATATTAAGATAAAATTTCTAATTACA
6063950 TAACTTATACAATATTAAGATAAAATT
1 TAACTTATACAATATTAAGATAAAATT
6063977 NNNNNNNNNN
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
37 61 0.72
38 1 0.01
39 21 0.25
40 2 0.02
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.36
Consensus pattern (37 bp):
TAACTTATACAATATTAAGATAAAATTTCTAATTACA
Found at i:6068053 original size:44 final size:42
Alignment explanation
Indices: 6067989--6068153 Score: 213
Period size: 44 Copynumber: 3.9 Consensus size: 42
6067979 CGTTTTTGTG
*
6067989 AAAAAGCGCCACTAAAGACCATGTTCTTTAGCGGCGCTTACAA
1 AAAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTA-AA
* *
6068032 ACAAAAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTAGAA
1 A-AAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTA-AA
* * *
6068076 AAAAAGCGCCACTAAAGACCATGTTCTTTAGCGGCACTTAGA
1 AAAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAAA
** * *
6068118 AAAAAACGCTGCTAAAGACAATGCTCTTTAGCGGCG
1 AAAAAACGCCACTAAAGACCATGTTCTTTAGCGGCG
6068154 TTTCTTTCAA
Statistics
Matches: 106, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
42 31 0.29
43 36 0.34
44 39 0.37
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (42 bp):
AAAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAAA
Found at i:6068104 original size:43 final size:43
Alignment explanation
Indices: 6067989--6068153 Score: 233
Period size: 43 Copynumber: 3.8 Consensus size: 43
6067979 CGTTTTTGTG
*
6067989 AAAAAGCGCCACTAAAGACCATGTTCTTTAGCGGCGCTTACAA
1 AAAAAGCGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* * *
6068032 ACAAAAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTAGAA
1 A-AAAAGCGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
6068076 AAAAAGCGCCACTAAAGACCATGTTCTTTAGCGGCACTTAGAA
1 AAAAAGCGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
** * *
6068119 AAAAA-CGCTGCTAAAGACAATGCTCTTTAGCGGCG
1 AAAAAGCGCCACTAAAGACCATGTTCTTTAGCGGCG
6068154 TTTCTTTCAA
Statistics
Matches: 108, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
42 25 0.23
43 44 0.41
44 39 0.36
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (43 bp):
AAAAAGCGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
Found at i:6068285 original size:43 final size:42
Alignment explanation
Indices: 6068128--6068327 Score: 303
Period size: 42 Copynumber: 4.7 Consensus size: 42
6068118 AAAAAACGCT
* * *
6068128 GCTAAAG-ACAATGCTCTTTAGCGGCGTTTCTTTCAAAGCGCC
1 GCTAAAGAAC-ATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCC
* *
6068170 GCTAAAGAACATGATCTTTAGCAGCGTTTTTTTCTAAGCGCC
1 GCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCC
*
6068212 GCTAAAGAACATGGTCTTCAGCGGCGTTTTTTTCTAAGCGCC
1 GCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCC
6068254 GCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTCTAAGCGCC
1 GCTAAAGAACATGGTCTTTAGCGGCG-TTTTTTTCTAAGCGCC
* *
6068297 GCTAAAGACCATGTTCTTTAGCGGCGTTTTT
1 GCTAAAGAACATGGTCTTTAGCGGCGTTTTT
6068328 ATTTGTAAAC
Statistics
Matches: 146, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
42 104 0.71
43 42 0.29
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.33
Consensus pattern (42 bp):
GCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCC
Found at i:6070219 original size:6 final size:6
Alignment explanation
Indices: 6070208--6070237 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
6070198 TTCAACCTTT
6070208 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA
6070238 TAGTTTTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
ATTTTA
Found at i:6070392 original size:23 final size:22
Alignment explanation
Indices: 6070357--6070405 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
6070347 TGTTTATCCC
6070357 AACA-TTTTTAAGGTTACCTTA
1 AACATTTTTTAAGGTTACCTTA
*
6070378 AACATTTTTTAAAGGTTTCCTTA
1 AACATTTTTT-AAGGTTACCTTA
*
6070401 GACAT
1 AACAT
6070406 GGTCTACCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 5 0.21
23 15 0.62
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (22 bp):
AACATTTTTTAAGGTTACCTTA
Found at i:6070459 original size:35 final size:36
Alignment explanation
Indices: 6070383--6070461 Score: 106
Period size: 35 Copynumber: 2.2 Consensus size: 36
6070373 CCTTAAACAT
* *
6070383 TTTTTAAAGGTTTCCTTAGACATGGTCTACCCCAACC
1 TTTTT-AAGGTTGCCTTAGACAGGGTCTACCCCAACC
* *
6070420 TTTTTAAGGTTGCCTTAGAC-GGGTGTATCCCAACC
1 TTTTTAAGGTTGCCTTAGACAGGGTCTACCCCAACC
6070455 TTTTTAA
1 TTTTTAA
6070462 AAGTTTAGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
35 19 0.50
36 14 0.37
37 5 0.13
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (36 bp):
TTTTTAAGGTTGCCTTAGACAGGGTCTACCCCAACC
Found at i:6072692 original size:131 final size:131
Alignment explanation
Indices: 6072458--6072714 Score: 478
Period size: 131 Copynumber: 2.0 Consensus size: 131
6072448 AACATTACTC
6072458 TTAAATTAGTCATATGCTTCTTACTTAGAGCGTCTATCACTACATTGGCTTTTCCGGAGTAGTAT
1 TTAAATTAGTCATATGCTTCTTACTTAGAGCGTCTATCACTACATTGGCTTTTCCGGAGTAGTAT
6072523 TCAATTACACAATCATAATCCTTTAATAGTTCTATCCACCTCCGTTGCCTCAGGTTCAATTTGCT
66 TCAATTACACAATCATAATCCTTTAATAGTTCTATCCACCTCCGTTGCCTCAGGTTCAATTTGCT
6072588 T
131 T
* * *
6072589 TTAAATTAGTCATATGCTTCTTACTTAGAGCGTCTGTCACTACATTGGGTTTTCCGGGGTAGTAT
1 TTAAATTAGTCATATGCTTCTTACTTAGAGCGTCTATCACTACATTGGCTTTTCCGGAGTAGTAT
*
6072654 TCAATTACACAATCATAATCCTTTAATAGTTCTATCCACCTTCGTTGCCTCAGGTTCAATT
66 TCAATTACACAATCATAATCCTTTAATAGTTCTATCCACCTCCGTTGCCTCAGGTTCAATT
6072715 CTTTTTAGTT
Statistics
Matches: 122, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
131 122 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (131 bp):
TTAAATTAGTCATATGCTTCTTACTTAGAGCGTCTATCACTACATTGGCTTTTCCGGAGTAGTAT
TCAATTACACAATCATAATCCTTTAATAGTTCTATCCACCTCCGTTGCCTCAGGTTCAATTTGCT
T
Found at i:6076846 original size:64 final size:65
Alignment explanation
Indices: 6076737--6076858 Score: 174
Period size: 64 Copynumber: 1.9 Consensus size: 65
6076727 ATTGTGAATG
* * * * *
6076737 CACAATGTGTTTGCAAATAAAAGCTACTAGTAAGTATGTGGATGAACCACTAGTGTTTATGGATA
1 CACAACGTGGTTGCAAAGAAAAGCTACCAGTAAGTATATGGATGAACCACTAGTGTTTATGGATA
* *
6076802 CACAACGTGGTTGCAGAGAAAAG-TACCAGTAAGTTTATGGATGAACCACTAGTGTTT
1 CACAACGTGGTTGCAAAGAAAAGCTACCAGTAAGTATATGGATGAACCACTAGTGTTT
6076859 GCACATTATT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
64 31 0.62
65 19 0.38
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (65 bp):
CACAACGTGGTTGCAAAGAAAAGCTACCAGTAAGTATATGGATGAACCACTAGTGTTTATGGATA
Found at i:6077046 original size:38 final size:38
Alignment explanation
Indices: 6076954--6077059 Score: 124
Period size: 38 Copynumber: 2.8 Consensus size: 38
6076944 TAGAAATAGT
* * *
6076954 AGACATGTTTAACATGTATTCAAATT-AACAGTAGCAGA
1 AGACATGTTTAACATGTATTC-AGTTCAACAATAACAGA
* * *
6076992 AGACATGCTTATCATGTATTCAGTTCAACAATAACAGT
1 AGACATGTTTAACATGTATTCAGTTCAACAATAACAGA
* *
6077030 TGGCATGTTTAACATGTATTCAGTTCAACA
1 AGACATGTTTAACATGTATTCAGTTCAACA
6077060 GTGATAGTAG
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
37 3 0.05
38 54 0.95
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (38 bp):
AGACATGTTTAACATGTATTCAGTTCAACAATAACAGA
Found at i:6077774 original size:22 final size:21
Alignment explanation
Indices: 6077733--6077780 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
6077723 TCGTAGCAGT
* *
6077733 TCAGATAAGATGCAACACAGA
1 TCAGATAAGATACAAAACAGA
6077754 TCAGATACAGATACAAAACAGA
1 TCAGATA-AGATACAAAACAGA
6077776 TCAGA
1 TCAGA
6077781 ATCACATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.50, C:0.19, G:0.17, T:0.15
Consensus pattern (21 bp):
TCAGATAAGATACAAAACAGA
Found at i:6081865 original size:31 final size:29
Alignment explanation
Indices: 6081828--6081889 Score: 79
Period size: 31 Copynumber: 2.1 Consensus size: 29
6081818 ATCTCAAAAT
* *
6081828 TATACATGAACTTTACTTTAATGTGCAATTA
1 TATACATGAACTTTAATTT--GGTGCAATTA
*
6081859 TATACATGAATTTTAATTTGGTGCAATTA
1 TATACATGAACTTTAATTTGGTGCAATTA
6081888 TA
1 TA
6081890 CACGTGAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 11 0.39
31 17 0.61
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (29 bp):
TATACATGAACTTTAATTTGGTGCAATTA
Found at i:6083260 original size:31 final size:31
Alignment explanation
Indices: 6083225--6083294 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
6083215 ATTATAAAAT
* *
6083225 AGTCACTTAATTATTTGAAAGTTTTCATTTA
1 AGTCACTGAACTATTTGAAAGTTTTCATTTA
*
6083256 AGTCACTGAACTATTTGAAAGTTTTTATTTA
1 AGTCACTGAACTATTTGAAAGTTTTCATTTA
6083287 AGTCACTG
1 AGTCACTG
6083295 GTTATTAAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.44
Consensus pattern (31 bp):
AGTCACTGAACTATTTGAAAGTTTTCATTTA
Found at i:6101537 original size:44 final size:43
Alignment explanation
Indices: 6101489--6101669 Score: 97
Period size: 44 Copynumber: 4.1 Consensus size: 43
6101479 GGAGTAGGTT
*
6101489 GAAGATTGCAGATCCTGTCTCCCTAAGCACTAGCGGAGCAGATC
1 GAAGATTG-AGATCCTATCTCCCTAAGCACTAGCGGAGCAGATC
* * * *
6101533 GAAGACAGTGA-ATCTTATCTTCCC-AAG-A-TAGTGGAGAAGCAGATT
1 GAAG--ATTGAGATCCTATC-TCCCTAAGCACTAG-CG-G-AGCAGATC
* * * * *
6101578 TAAGCCATT-AG-TCCTATCTCCCTAAGCAAC-AGTGGAGTAGGTT
1 GAAG--ATTGAGATCCTATCTCCCTAAGC-ACTAGCGGAGCAGATC
* * *
6101621 GAAGATTGCAGATCCTGTCTCACTAAGCAGTAGCGGAGCAGATC
1 GAAGATTG-AGATCCTATCTCCCTAAGCACTAGCGGAGCAGATC
6101665 GAAGA
1 GAAGA
6101670 CGGCAAATCT
Statistics
Matches: 102, Mismatches: 20, Indels: 30
0.67 0.13 0.20
Matches are distributed among these distances:
41 3 0.03
42 3 0.03
43 18 0.18
44 53 0.52
45 19 0.19
46 6 0.06
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.23
Consensus pattern (43 bp):
GAAGATTGAGATCCTATCTCCCTAAGCACTAGCGGAGCAGATC
Found at i:6101596 original size:132 final size:132
Alignment explanation
Indices: 6101355--6102051 Score: 930
Period size: 132 Copynumber: 5.3 Consensus size: 132
6101345 GAATAGACCA
* *
6101355 TTGAAGATTGCAGATCTTGTCTCCCTAAACAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATC
1 TTGAAGATTGCAGATCCTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATC
* *
6101420 TTCCCAAAATAGTGGAGAAGCAGATTTAAGCCATTAGTCTTATCTCCCTGAGCAGCAGTGGAGTA
66 TTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGTA
6101485 GG
131 GG
* * *
6101487 TTGAAGATTGCAGATCCTGTCTCCCTAAGCACTAGCGGAGCAGATCGAAGACAGTGAATCTTATC
1 TTGAAGATTGCAGATCCTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATC
* *
6101552 TTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAACAGTGGAGTA
66 TTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGTA
6101617 GG
131 GG
* *
6101619 TTGAAGATTGCAGATCCTGTCTCACTAAGCAGTAGCGGAGCAGATCGAAGACGGCAAATCTTATC
1 TTGAAGATTGCAGATCCTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATC
*
6101684 TTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTGGTCCTATCTCCCTGAGCAGCAGTAGGAGT
66 TTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGT-GGAGT
6101749 AGG
130 AGG
* * * * *
6101752 TTGAAGAATGTAGATACTGTCTCCCTAAGCAGTAGTGGAGCAGATC----A-TG-G-ATCTTATC
1 TTGAAGATTGCAGATCCTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATC
* * ** * *
6101810 TTCCCAAGGTAGTAGG-GAAGCAAATTTAAGCC---CCTCCTATTTCCCTGAGCAGTAGTGGAGT
66 TTCCCAAGATAGT-GGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGT
6101871 AGG
130 AGG
* * * * *
6101874 TTGAAGATTGTAGATCCTGTCTCCCTAAGTAGTAGCGGAGCAGGTCGAGGACGGCAAATCTTATC
1 TTGAAGATTGCAGATCCTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATC
* * * * *** *
6101939 TTTCTAAGATAGTAGTGAAGCAGATTTAAGCCACCGGTCCTATCGCCCTGAGCAGCAGTGGAGTA
66 TTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGTA
6102004 GG
131 GG
* * * * *
6102006 TTGAAGAATGTAGATACTGTCTCCCTAAGCAGTAGTGGACCAGATC
1 TTGAAGATTGCAGATCCTGTCTCCCTAAGCAGTAGCGGAGCAGATC
6102052 ATGGATCTTG
Statistics
Matches: 499, Mismatches: 53, Indels: 26
0.86 0.09 0.04
Matches are distributed among these distances:
122 49 0.10
123 20 0.04
126 36 0.07
127 3 0.01
128 2 0.00
129 34 0.07
132 306 0.61
133 49 0.10
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.25
Consensus pattern (132 bp):
TTGAAGATTGCAGATCCTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATC
TTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGTA
GG
Found at i:6106241 original size:154 final size:155
Alignment explanation
Indices: 6106078--6106387 Score: 613
Period size: 154 Copynumber: 2.0 Consensus size: 155
6106068 TTAAAATATT
6106078 AAATAAATTATAATGAATTATTTTCTATATTCTTATTAAAATTTTATAATATTAATTAATTTGAA
1 AAATAAATTATAATGAATTATTTTCTATATTCTTATTAAAATTTTATAATATTAATTAATTTGAA
6106143 AATTATTTAAATATTTATTTGTTACTTTATAATATCATATTTAAAATAGATAATTTATTTCTCAA
66 AATTATTTAAATATTTATTTGTTACTTTATAATATCATATTTAAAATAGATAATTTATTTCTCAA
6106208 AAATACTTTTT-AAAAAAATACTAA
131 AAATACTTTTTAAAAAAAATACTAA
6106232 AAATAAATTATAATGAATTATTTTCTATATTCTTATTAAAATTTTATAATATTAATTAATTTGAA
1 AAATAAATTATAATGAATTATTTTCTATATTCTTATTAAAATTTTATAATATTAATTAATTTGAA
6106297 AATTATTTAAATATTTATTTGTTACTTTATAATATCATATTTAAAATAGATAATTTATTTCTCAA
66 AATTATTTAAATATTTATTTGTTACTTTATAATATCATATTTAAAATAGATAATTTATTTCTCAA
6106362 AAATACTTTTTAAAAAAAATACTAA
131 AAATACTTTTTAAAAAAAATACTAA
6106387 A
1 A
6106388 TACTTAAATT
Statistics
Matches: 155, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
154 141 0.91
155 14 0.09
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (155 bp):
AAATAAATTATAATGAATTATTTTCTATATTCTTATTAAAATTTTATAATATTAATTAATTTGAA
AATTATTTAAATATTTATTTGTTACTTTATAATATCATATTTAAAATAGATAATTTATTTCTCAA
AAATACTTTTTAAAAAAAATACTAA
Found at i:6107612 original size:18 final size:18
Alignment explanation
Indices: 6107579--6107613 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6107569 GCAAAAGCGG
* *
6107579 GAAGAAGAATAGTAACAA
1 GAAGAAGAACAATAACAA
6107597 GAAGAAGAACAATAACA
1 GAAGAAGAACAATAACA
6107614 GCGACAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.09, G:0.20, T:0.09
Consensus pattern (18 bp):
GAAGAAGAACAATAACAA
Found at i:6112646 original size:217 final size:217
Alignment explanation
Indices: 6112271--6112698 Score: 748
Period size: 217 Copynumber: 2.0 Consensus size: 217
6112261 CGATGCAAAG
* * *
6112271 GGAATCTTTTGTATTTCTTGAATTTTAAGGTTACTTTTAGGTCATTCAGTAAGACTAAATTTATC
1 GGAATCTTTTGCATTTCTTGAATTTCAAGGTTACTTTTAGGTCATTCAGTAAGACTAAAATTATC
*
6112336 TCCTTTAGCAATAGGGGTGTCGCCTAGTCTACAACCTTGTATGTCAAACCTTTTGAGTACTTTGC
66 TCCTTTAGCAATAAGGGTGTCGCCTAGTCTACAACCTTGTATGTCAAACCTTTTGAGTACTTTGC
**
6112401 CGATATAGCTCTTTTGCAACAATCCAAGAATACCCTGAGATTGGTCTCGATGTATCTGAATTCCT
131 CGATATAGCTCTTTTGCAACAATCCAAGAATACCCTGAGATCAGTCTCGATGTATCTGAATTCCT
6112466 AAAACAAAGGAGGCGTGCATAA
196 AAAACAAAGGAGGCGTGCATAA
*
6112488 GGAATCTTTTGCATTTCTTGAATTTCAGGGTTACTTTTAGGTCATTCAGTAAGACTAAAATTATC
1 GGAATCTTTTGCATTTCTTGAATTTCAAGGTTACTTTTAGGTCATTCAGTAAGACTAAAATTATC
* * *
6112553 TCCTTTAGCAATAAGGGTGTCGCCTGGTCTACAACCTTGTATGTTAAACCTTTTGAGTACTTTGT
66 TCCTTTAGCAATAAGGGTGTCGCCTAGTCTACAACCTTGTATGTCAAACCTTTTGAGTACTTTGC
* *
6112618 CGATATAGCTCTTTTGCGACAATCCAAGAATACCTTGAGATCAGTCTCGATGTATCTGAATTCCT
131 CGATATAGCTCTTTTGCAACAATCCAAGAATACCCTGAGATCAGTCTCGATGTATCTGAATTCCT
6112683 AAAACAAAGGAGGCGT
196 AAAACAAAGGAGGCGT
6112699 CCTCAAGGTC
Statistics
Matches: 199, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
217 199 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (217 bp):
GGAATCTTTTGCATTTCTTGAATTTCAAGGTTACTTTTAGGTCATTCAGTAAGACTAAAATTATC
TCCTTTAGCAATAAGGGTGTCGCCTAGTCTACAACCTTGTATGTCAAACCTTTTGAGTACTTTGC
CGATATAGCTCTTTTGCAACAATCCAAGAATACCCTGAGATCAGTCTCGATGTATCTGAATTCCT
AAAACAAAGGAGGCGTGCATAA
Found at i:6114476 original size:17 final size:17
Alignment explanation
Indices: 6114435--6114476 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
6114425 TTTTATTTTG
6114435 ATTATTAAATATTATATA
1 ATTATT-AATATTATATA
*
6114453 ATAATTAATATTATA-A
1 ATTATTAATATTATATA
6114469 ATTTATTA
1 A-TTATTA
6114477 TTTTTTGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 2 0.10
17 14 0.67
18 5 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTATTAATATTATATA
Found at i:6115864 original size:42 final size:43
Alignment explanation
Indices: 6115794--6115896 Score: 111
Period size: 42 Copynumber: 2.4 Consensus size: 43
6115784 ATTGACTTGA
* *
6115794 GATTTACGTGTAAGACCATGTTCGGGACATTGGCATC-GTATAT
1 GATTT-CGTGTAAGACCATGTTCAGGACAGTGGCATCAGTATAT
* * *
6115837 GATTTCGTGTAAGACCCTG-TCTAGGACAGTGGCATCATTATTT
1 GATTTCGTGTAAGACCATGTTC-AGGACAGTGGCATCAGTATAT
* *
6115880 GATTACATGTAAGACCA
1 GATTTCGTGTAAGACCA
6115897 CGTCTGGGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
41 2 0.04
42 25 0.50
43 23 0.46
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (43 bp):
GATTTCGTGTAAGACCATGTTCAGGACAGTGGCATCAGTATAT
Found at i:6115913 original size:43 final size:42
Alignment explanation
Indices: 6115756--6115914 Score: 137
Period size: 43 Copynumber: 3.7 Consensus size: 42
6115746 TATGTGATAT
* *
6115756 CGTGTAAGACCACGTCTGGGACGTTGGCAT-TGACTTGAGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCTTA-TT-TGA-TTA
* * * * *
6115800 CGTGTAAGACCATGT-TCGGGACATTGGCATCGTATATGATTT
1 CGTGTAAGACCACGTCT-GGGACGTTGGCATCTTATTTGATTA
*
6115842 CGTGTAAGACC-CTGTCTAGGACAG-TGGCATCATTATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATC-TTATTTGATTA
* *
6115885 CATGTAAGACCACGTCTGGGATGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
6115915 TGTACGAGCT
Statistics
Matches: 91, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
42 27 0.30
43 35 0.38
44 28 0.31
45 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCTTATTTGATTA
Found at i:6124492 original size:23 final size:23
Alignment explanation
Indices: 6124457--6124501 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6124447 TGGAGTATAA
* *
6124457 AAGTTTTATATTTTTATATGTAC
1 AAGTTTTATATTTATACATGTAC
6124480 AAGTTTTGA-ATTTATACATGTA
1 AAGTTTT-ATATTTATACATGTA
6124502 TATACAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
AAGTTTTATATTTATACATGTAC
Found at i:6125154 original size:42 final size:41
Alignment explanation
Indices: 6125081--6125252 Score: 200
Period size: 42 Copynumber: 4.1 Consensus size: 41
6125071 CAGTGCCTAA
* * * * *
6125081 CAGGTTTATTGCCAGTGAAACATTTTAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAAAATTTCAGACTTTACGTCTAG
*
6125122 CAGGCTTAATGCCGGTGAAATAATTTCAGACTTTACATCTAG
1 CAGGCTTAATGCCGGTGAAA-AATTTCAGACTTTACGTCTAG
* * * *
6125164 CAGGCTTAATTCTGGTGAAACAATATCAAACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAA-AATTTCAGACTTTACGTCTAG
* * * *
6125206 CGGGCTTAATGCCGGTGAAACATTTCAGACTATATGTCTAG
1 CAGGCTTAATGCCGGTGAAAAATTTCAGACTTTACGTCTAG
6125247 CAGGCT
1 CAGGCT
6125253 AAGTGCTGGT
Statistics
Matches: 109, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
41 38 0.35
42 71 0.65
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.31
Consensus pattern (41 bp):
CAGGCTTAATGCCGGTGAAAAATTTCAGACTTTACGTCTAG
Found at i:6125262 original size:83 final size:84
Alignment explanation
Indices: 6125109--6125263 Score: 233
Period size: 84 Copynumber: 1.9 Consensus size: 84
6125099 AACATTTTAG
*
6125109 ACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAATTTCAGACTTTACATCTAGCAGGCTTAAT
1 ACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAATTTCAGACTATACATCTAGCAGGCTTAAT
*
6125174 TCTGGTGAAACAATATCAA
66 GCTGGTGAAACAATATCAA
* * **
6125193 ACTTTACGTCTAGCGGGCTTAATGCCGGTGAAA-CATTTCAGACTATATGTCTAGCAGGC-TAAG
1 ACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAATTTCAGACTATACATCTAGCAGGCTTAA-
6125256 TGCTGGTG
65 TGCTGGTG
6125264 TACTGAATCA
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
82 3 0.05
83 29 0.45
84 32 0.50
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.30
Consensus pattern (84 bp):
ACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAATTTCAGACTATACATCTAGCAGGCTTAAT
GCTGGTGAAACAATATCAA
Found at i:6129026 original size:43 final size:43
Alignment explanation
Indices: 6128879--6129028 Score: 130
Period size: 42 Copynumber: 3.5 Consensus size: 43
6128869 TATGTGTTAT
* *
6128879 CGTGTAAGACCACGTCTGGGAC-GTTGGCAT--TGACTTGAGATTTA
1 CGTGTAAGACCACGTCTGGGACAG-TGGCATCGTTA-TT-TGA-TTA
* * * * *
6128923 CGTGTAAGACCATGTCCGGGACATTGGCATCG-TATATGATTT
1 CGTGTAAGACCACGTCTGGGACAGTGGCATCGTTATTTGATTA
* *
6128965 CGTATAAGACC-CTATCTGGGACAGTGGCATCGTTATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGACAGTGGCATCGTTATTTGATTA
*
6129008 CATGTAAGACCACGTCTGGGA
1 CGTGTAAGACCACGTCTGGGA
6129029 TGTTGGCATT
Statistics
Matches: 83, Mismatches: 17, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
42 28 0.34
43 26 0.31
44 28 0.34
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACAGTGGCATCGTTATTTGATTA
Found at i:6129036 original size:43 final size:43
Alignment explanation
Indices: 6128879--6129037 Score: 139
Period size: 43 Copynumber: 3.7 Consensus size: 43
6128869 TATGTGTTAT
* *
6128879 CGTGTAAGACCACGTCTGGGACGTTGGCAT--TGACTTGAGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGTTA-TT-TGA-TTA
* * * * *
6128923 CGTGTAAGACCATGTCCGGGACATTGGCATCG-TATATGATTT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGTTATTTGATTA
* *
6128965 CGTATAAGACC-CTATCTGGGACAG-TGGCATCGTTATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGTTATTTGATTA
* *
6129008 CATGTAAGACCACGTCTGGGATGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
6129038 TGTACGAGCT
Statistics
Matches: 90, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
42 28 0.31
43 32 0.36
44 29 0.32
45 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGTTATTTGATTA
Found at i:6131053 original size:18 final size:19
Alignment explanation
Indices: 6131021--6131056 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
6131011 AATTTGTTCA
6131021 TTTTGATACTTATATTTTC
1 TTTTGATACTTATATTTTC
6131040 TTTTGATA-TTATATTTT
1 TTTTGATACTTATATTTT
6131057 GATATTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.67
Consensus pattern (19 bp):
TTTTGATACTTATATTTTC
Found at i:6132458 original size:41 final size:41
Alignment explanation
Indices: 6132396--6132622 Score: 303
Period size: 41 Copynumber: 5.5 Consensus size: 41
6132386 TTTCTACCTT
* *
6132396 TCGGCGCTTTAGCGGCGTTTTTTATA-AAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTCA-AGAAGCGCCGCTAATGC
** *
6132437 TCGGGGCTTTAGCGGCGTTTTTCAAGAAGCATCGCCAATGC
1 TCGGGGCTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGC
* * *
6132478 TCGGGTCTTTAGCGGCGTTTTTAAATAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGC
* *
6132519 TCGGGGCTTTAGCGGCGTTTTCCAAGAAGCGCCACTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGC
* * * *
6132560 TCAGGGCATTAGCAGCGTTTTCCAAGAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGC
*
6132601 TCAGGGCTTTAGCGGCGTTTTT
1 TCGGGGCTTTAGCGGCGTTTTT
6132623 GAAAAAGCAC
Statistics
Matches: 162, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 1 0.01
41 161 0.99
ACGTcount: A:0.19, C:0.24, G:0.28, T:0.29
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGC
Found at i:6132780 original size:26 final size:26
Alignment explanation
Indices: 6132732--6132782 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
6132722 AAAATGGATA
** * *
6132732 AATTTGAAATAATGACACGTAGAAAT
1 AATTTGAAATAAAAAAACATAGAAAT
6132758 AATTTGAAATAAAAAAACATAGAAA
1 AATTTGAAATAAAAAAACATAGAAA
6132783 AATATTTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (26 bp):
AATTTGAAATAAAAAAACATAGAAAT
Found at i:6132922 original size:14 final size:15
Alignment explanation
Indices: 6132894--6132926 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
6132884 AAGGTTTATA
6132894 GATTATGGAATTAGG
1 GATTATGGAATTAGG
6132909 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
6132923 GATT
1 GATT
6132927 TTGATTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:6132963 original size:14 final size:14
Alignment explanation
Indices: 6132946--6132998 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
6132936 GGGTTGTGAT
* *
6132946 TTAAGGTTTATGGG
1 TTAAGGGTTAGGGG
6132960 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
* *
6132974 TTAGGGGTTAGAGG
1 TTAAGGGTTAGGGG
*
6132988 TTAAGAGTTAG
1 TTAAGGGTTAG
6132999 AGATTTAGGG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.25, C:0.00, G:0.42, T:0.34
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:6132999 original size:14 final size:14
Alignment explanation
Indices: 6132958--6133010 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
6132948 AAGGTTTATG
*
6132958 GGTTAAGGGTTAGG
1 GGTTAAGGGTTAGA
*
6132972 GGTTAGGGGTTAGA
1 GGTTAAGGGTTAGA
*
6132986 GGTTAAGAGTTAGA
1 GGTTAAGGGTTAGA
* *
6133000 GATTTAGGGTT
1 GGTTAAGGGTT
6133011 TATAGATTCA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.43, T:0.32
Consensus pattern (14 bp):
GGTTAAGGGTTAGA
Found at i:6133103 original size:82 final size:82
Alignment explanation
Indices: 6133025--6133177 Score: 218
Period size: 82 Copynumber: 1.9 Consensus size: 82
6133015 GATTCAGTGT
* * * *
6133025 TAGG-TTAGGGTTTAGGGTTTAAATTAATTAGTGTGTTTTATTTTATATATTAAATAATATTTAG
1 TAGGATTAGGGTTAAGGGTTTAAATTAATTAATGTGTTTTAATTTATATATTAAATAAGATTTAG
6133089 GGGTTAGGGGTTCAGGG
66 GGGTTAGGGGTTCAGGG
* * * * *
6133106 TCGGATTAGGGTTAAGGGTTTAGATTGATTAATGTTTTTTAATTTATATATTAAATAAGGTTTAG
1 TAGGATTAGGGTTAAGGGTTTAAATTAATTAATGTGTTTTAATTTATATATTAAATAAGATTTAG
6133171 GGGTTAG
66 GGGTTAG
6133178 TGGATAGGGG
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
81 3 0.05
82 59 0.95
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.44
Consensus pattern (82 bp):
TAGGATTAGGGTTAAGGGTTTAAATTAATTAATGTGTTTTAATTTATATATTAAATAAGATTTAG
GGGTTAGGGGTTCAGGG
Found at i:6134321 original size:147 final size:144
Alignment explanation
Indices: 6134034--6134420 Score: 539
Period size: 147 Copynumber: 2.7 Consensus size: 144
6134024 ACACGCAAAA
* * *
6134034 TTTTATGAAAAACGTCACAAAAGGTAAGCAATAGCGGCATTTTTATAAAAAACGCCAC-AAAAA-
1 TTTTATGAAAAACG-C-CAAAAAGTAAGCAATAGCGGCGTTTTTATAAAAAAAGCCACAAAAAAT
* *
6134097 AA--TTACTTTAAAAAATAGCGCCATTTTATATAGTAAAATAGTGTCATTTTATTCCAAATGAAA
64 AATTTTACTTTAAAAAATAGCGCCATTTTATATAGCAAAACAGTGTCATTTTATTCCAAATGAAA
6134160 TAATTTTTTACGGCGT
129 TAATTTTTTACGGCGT
* * *
6134176 TTTTATGAAAGACGCCGCAAAAAGTAAGCAATAGCGGCGTTTTTATGAAAAATGCCACAAAAAAT
1 TTTTATGAAAAACG-C-CAAAAAGTAAGCAATAGCGGCGTTTTTATAAAAAAAGCCACAAAAAAT
* * *
6134241 AATTTTACTTTAAAAAAATAGCGCCATTTTATATAGCAAAACAGTTTCGTTTTATTTCAAATGAA
64 AATTTTACTTT-AAAAAATAGCGCCATTTTATATAGCAAAACAGTGTCATTTTATTCCAAATGAA
*
6134306 ATAATTTTTTGCGGCGT
128 ATAATTTTTTACGGCGT
* *
6134323 TTTTATGAAAAATGCCAGAAAAGATAAGCAATAGCGGCGTTTTTATAAAAAAAACCACAAAAAAT
1 TTTTATGAAAAACGCCA-AAAAG-TAAGCAATAGCGGCGTTTTTATAAAAAAAGCCACAAAAAAT
*
6134388 AATTTTACTTTTAAAAAATAGCACCATTTTATA
64 AATTTTAC-TTTAAAAAATAGCGCCATTTTATA
6134421 GAATCCCCTC
Statistics
Matches: 218, Mismatches: 19, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
142 51 0.23
143 5 0.02
144 2 0.01
145 2 0.01
146 13 0.06
147 142 0.65
148 3 0.01
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (144 bp):
TTTTATGAAAAACGCCAAAAAGTAAGCAATAGCGGCGTTTTTATAAAAAAAGCCACAAAAAATAA
TTTTACTTTAAAAAATAGCGCCATTTTATATAGCAAAACAGTGTCATTTTATTCCAAATGAAATA
ATTTTTTACGGCGT
Found at i:6134473 original size:20 final size:21
Alignment explanation
Indices: 6134436--6134474 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6134426 CCCTCCCCCG
*
6134436 AAATCCCTAACTTTCCCCCTA
1 AAATCCCTAACTTACCCCCTA
*
6134457 AAATCCTTAA-TTACCCCC
1 AAATCCCTAACTTACCCCC
6134475 CTTGAAACCC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.31, C:0.41, G:0.00, T:0.28
Consensus pattern (21 bp):
AAATCCCTAACTTACCCCCTA
Found at i:6140114 original size:43 final size:43
Alignment explanation
Indices: 6140025--6140146 Score: 138
Period size: 43 Copynumber: 2.9 Consensus size: 43
6140015 GTCATGTTTT
* * ** *
6140025 TAGCGGCGTTTGTCA-AAAAGCGCCGCTAAAGGTCTTGTTCTT
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATAATCTA
* *
6140067 TAGCGGCGTTTGTGAGAGAAGCGCCGCTAAAGATCATAATCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATAATCTA
* * * *
6140110 TAGCGCCGTCTGTGGGATAAGCGCCGCTAAAGGTCAT
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCAT
6140147 GACCTTTAGC
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 14 0.21
43 53 0.79
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (43 bp):
TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATAATCTA
Found at i:6140157 original size:43 final size:43
Alignment explanation
Indices: 6140042--6140157 Score: 142
Period size: 43 Copynumber: 2.7 Consensus size: 43
6140032 GTTTGTCAAA
* * * *
6140042 AAGCGCCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTGTGAGAG
1 AAGCGCCGCTAAAGGTCATGATCTTTAGCGCCGTCTGTGAGAG
* * * * *
6140085 AAGCGCCGCTAAAGATCATAATCTATAGCGCCGTCTGTGGGAT
1 AAGCGCCGCTAAAGGTCATGATCTTTAGCGCCGTCTGTGAGAG
*
6140128 AAGCGCCGCTAAAGGTCATGACCTTTAGCG
1 AAGCGCCGCTAAAGGTCATGATCTTTAGCG
6140158 GTGTTTTTGT
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCATGATCTTTAGCGCCGTCTGTGAGAG
Found at i:6140656 original size:14 final size:17
Alignment explanation
Indices: 6140621--6140661 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
6140611 TTAATATATA
6140621 AATTATATTATTAAATT
1 AATTATATTATTAAATT
6140638 AATTATATTA-TAAA-T
1 AATTATATTATTAAATT
6140653 -ATTATATTA
1 AATTATATTA
6140662 AGAAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.38
15 1 0.04
16 4 0.17
17 10 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AATTATATTATTAAATT
Found at i:6140898 original size:15 final size:17
Alignment explanation
Indices: 6140880--6140911 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6140870 CAGAATAGAA
6140880 AGAA-CAAA-GAAACAG
1 AGAAGCAAACGAAACAG
6140895 AGAAGCAAACGAAACAG
1 AGAAGCAAACGAAACAG
6140912 GGGAAGAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 4 0.27
17 7 0.47
ACGTcount: A:0.62, C:0.16, G:0.22, T:0.00
Consensus pattern (17 bp):
AGAAGCAAACGAAACAG
Found at i:6149738 original size:23 final size:24
Alignment explanation
Indices: 6149712--6149757 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
6149702 GTGTGAATTT
* *
6149712 GTGAAATAATTATTG-ATTGAAAG
1 GTGAAAAAATGATTGAATTGAAAG
6149735 GTGAAAAAATGATTGAATTGAAA
1 GTGAAAAAATGATTGAATTGAAA
6149758 ATGTGAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (24 bp):
GTGAAAAAATGATTGAATTGAAAG
Found at i:6150018 original size:39 final size:39
Alignment explanation
Indices: 6149879--6150019 Score: 142
Period size: 38 Copynumber: 3.6 Consensus size: 39
6149869 TACTTCGACC
* * *
6149879 TCGAGTCGATGAGACACTGGGTGTCACTATATTTCTTCAGA
1 TCGATTCGATGAGGCACTGGGTGTCAAT-TA-TTCTTCAGA
* ** *
6149920 TCGATTCGATGAGGTACTGGGTACCAACT-TTCTTCAGA
1 TCGATTCGATGAGGCACTGGGTGTCAATTATTCTTCAGA
*
6149958 TCGATTCGATGAGGTACTGGGTGTCAATTATTACTTC-GA
1 TCGATTCGATGAGGCACTGGGTGTCAATTATT-CTTCAGA
* * *
6149997 ACTATCCGATGAGGCACTGGGTG
1 TCGATTCGATGAGGCACTGGGTG
6150020 CCATACTGGT
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
38 35 0.42
39 23 0.27
40 5 0.06
41 21 0.25
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.31
Consensus pattern (39 bp):
TCGATTCGATGAGGCACTGGGTGTCAATTATTCTTCAGA
Found at i:6155330 original size:68 final size:69
Alignment explanation
Indices: 6155216--6155356 Score: 230
Period size: 68 Copynumber: 2.1 Consensus size: 69
6155206 TATTATGAAT
* *
6155216 TAACGTGTCAAATCAACTTCTCATACATCTTCAATTGAAATTTAAAGTGATTA-AATGTGATAAA
1 TAACATGTCAAATCAACTTCTCATACATCTTCAATTGAAAATTAAAGTGATTATAATGTGATAAA
*
6155280 TTGA
66 TCGA
* *
6155284 TAACATGTCAAATCAATTTCTCATATATCTTCAATTGAAAATTAAAGTGATTATAATGTGATAAA
1 TAACATGTCAAATCAACTTCTCATACATCTTCAATTGAAAATTAAAGTGATTATAATGTGATAAA
6155349 TCGA
66 TCGA
6155353 TAAC
1 TAAC
6155357 TTAATGGTCA
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
68 49 0.73
69 18 0.27
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (69 bp):
TAACATGTCAAATCAACTTCTCATACATCTTCAATTGAAAATTAAAGTGATTATAATGTGATAAA
TCGA
Found at i:6165392 original size:102 final size:101
Alignment explanation
Indices: 6165200--6165392 Score: 323
Period size: 102 Copynumber: 1.9 Consensus size: 101
6165190 GACAGTGACA
* * *
6165200 GGGCTGGTTTTGTTGATGATATGAAGAGCACTTCAGGGTATTTTTTCTCTCTAGGCTTAAGAGTG
1 GGGCTAGTTTTGTTGATGATATAAAGAGCACTTCAGGGTATTTTTTCTCTCTAGGCTCAAGAGTG
* * *
6165265 TTTTGTTGGAGCTCGAAGAAGCAAAAAACAATGGAT
66 TTTAGTTAGAGCTCAAAGAAGCAAAAAACAATGGAT
6165301 GGGCTAGTTTTGTTGATGATATAAAGAGCACTTCAGGGTATTTTTTTCTCTCTAGGCTCAAGAGT
1 GGGCTAGTTTTGTTGATGATATAAAGAGCACTTCAGGGTA-TTTTTTCTCTCTAGGCTCAAGAGT
6165366 GTTTAGTTAGAGCTCAAAGAAGCAAAA
65 GTTTAGTTAGAGCTCAAAGAAGCAAAA
6165393 GATAGTGGCA
Statistics
Matches: 85, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
101 38 0.45
102 47 0.55
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (101 bp):
GGGCTAGTTTTGTTGATGATATAAAGAGCACTTCAGGGTATTTTTTCTCTCTAGGCTCAAGAGTG
TTTAGTTAGAGCTCAAAGAAGCAAAAAACAATGGAT
Found at i:6167407 original size:3 final size:3
Alignment explanation
Indices: 6167399--6167473 Score: 132
Period size: 3 Copynumber: 25.0 Consensus size: 3
6167389 AATACTTTAA
*
6167399 AAT AAT AAT AAT AAT AAT ATT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
6167447 AAT AAT AAT AAT AAT AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
6167474 GATGATGATA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:6167750 original size:3 final size:3
Alignment explanation
Indices: 6167679--6167735 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
6167669 AATACTTTAA
*
6167679 AAT AAT AAT AAT AAT AAT ATT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6167727 AAT AAT AAT
1 AAT AAT AAT
6167736 GACGGAGTAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:6172862 original size:14 final size:14
Alignment explanation
Indices: 6172843--6172871 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6172833 AAGGTCTTAG
6172843 TACCTTACCACCTT
1 TACCTTACCACCTT
6172857 TACCTTACCACCTT
1 TACCTTACCACCTT
6172871 T
1 T
6172872 CTAGATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.41, G:0.00, T:0.38
Consensus pattern (14 bp):
TACCTTACCACCTT
Found at i:6174681 original size:214 final size:215
Alignment explanation
Indices: 6174303--6174740 Score: 779
Period size: 214 Copynumber: 2.0 Consensus size: 215
6174293 TTAATCTTAG
*
6174303 TAATTTTATATCATTTAAGCTCTAACATTCATAAAAAATTAGAAATACAATTTAGTTCATATTAA
1 TAATTTTATATCATTTAAGCTCTAACATTCATAAAAAATTACAAATACAATTTAGTTCATATTAA
* ** *
6174368 ATGAACTTACCTGATAAAAAAACGAAGTCAAAATTGGGAAAATGATCAATCCTTTACTTTAGCCT
66 ATGAACTTACCTGATAAAAAAACGAAGTCAAAATTGAGAAAACAATCAATCATTTACTTTAGCCT
*
6174433 TTCCGCGATTCAAACCTGATCGATTTATTTCTTGATCTAAAATAATAATTCTATTTAATTACCAA
131 TTCCGCGATTCAAACCTGATCGATTTATTTCTTGATCAAAAATAATAATTCTATTTAATTACCAA
6174498 CTTCCAGCAACATAATTAAC
196 CTTCCAGCAACATAATTAAC
*
6174518 TAATTTTA-ATCATTTAAGCTCTAACATTCATAAAAAATTACAAATATAATTTAGTTCATATTAA
1 TAATTTTATATCATTTAAGCTCTAACATTCATAAAAAATTACAAATACAATTTAGTTCATATTAA
*
6174582 ATGAACTTACCTGATAAAAAAACGAAGTCGAAATTGAGAAAACAATCAATCATTTACTTTAGCCT
66 ATGAACTTACCTGATAAAAAAACGAAGTCAAAATTGAGAAAACAATCAATCATTTACTTTAGCCT
*
6174647 TTCCGCGATTCAAACCTGATCGATTTATTTCTTGATCAAAAATAATAATTCTATTTAATTATCAA
131 TTCCGCGATTCAAACCTGATCGATTTATTTCTTGATCAAAAATAATAATTCTATTTAATTACCAA
*
6174712 CTTCCAGCAACATAATTAGC
196 CTTCCAGCAACATAATTAAC
6174732 TAATTTTAT
1 TAATTTTAT
6174741 GCAATTAAGT
Statistics
Matches: 212, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
214 204 0.96
215 8 0.04
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.35
Consensus pattern (215 bp):
TAATTTTATATCATTTAAGCTCTAACATTCATAAAAAATTACAAATACAATTTAGTTCATATTAA
ATGAACTTACCTGATAAAAAAACGAAGTCAAAATTGAGAAAACAATCAATCATTTACTTTAGCCT
TTCCGCGATTCAAACCTGATCGATTTATTTCTTGATCAAAAATAATAATTCTATTTAATTACCAA
CTTCCAGCAACATAATTAAC
Found at i:6177011 original size:17 final size:16
Alignment explanation
Indices: 6176985--6177018 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
6176975 GTAAACATAA
*
6176985 TGTAATAAATTGTTTT
1 TGTAATAAATTATTTT
6177001 TGTATATAAATTATTTT
1 TGTA-ATAAATTATTTT
6177018 T
1 T
6177019 AAATGGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (16 bp):
TGTAATAAATTATTTT
Found at i:6183304 original size:70 final size:70
Alignment explanation
Indices: 6183184--6183317 Score: 171
Period size: 70 Copynumber: 1.9 Consensus size: 70
6183174 AACCGCATAG
* * *
6183184 ATATATTACAGAGAACTGCAAAGCAATACAACTAGAAAAAATTCCAAGCCATATTAATATTCACA
1 ATATATTACAGAGAACTGAAAAGAAATACAACTAGAAAAAATTCCAAGCCATATTAACATTCACA
6183249 TAGAT
66 TAGAT
* * * * * *
6183254 ATATATTATAGAGAACTGAAAAGAAATATAACTTGAAAAAGA-TGCGAGCCATATTGACATTCAC
1 ATATATTACAGAGAACTGAAAAGAAATACAACTAGAAAAA-ATTCCAAGCCATATTAACATTCAC
6183318 CATTTAGTCC
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
70 53 0.98
71 1 0.02
ACGTcount: A:0.48, C:0.15, G:0.13, T:0.25
Consensus pattern (70 bp):
ATATATTACAGAGAACTGAAAAGAAATACAACTAGAAAAAATTCCAAGCCATATTAACATTCACA
TAGAT
Found at i:6206448 original size:4 final size:4
Alignment explanation
Indices: 6206431--6206557 Score: 119
Period size: 4 Copynumber: 31.8 Consensus size: 4
6206421 CAAAAAACAC
* * * * * *
6206431 ATGT ATGT ACGT ATGT ATGT ATGC ATGT ATGC ATGT ATGC ATGC ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
6206479 ATGC ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGA ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * **
6206527 ATGC ATGA ATGC ATGT ACAT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
6206558 CCAGTATGAG
Statistics
Matches: 103, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 103 1.00
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.39
Consensus pattern (4 bp):
ATGT
Found at i:6206595 original size:17 final size:17
Alignment explanation
Indices: 6206573--6206607 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
6206563 ATGAGTTAAG
6206573 ACAATAGAGATACTGAA
1 ACAATAGAGATACTGAA
6206590 ACAATAGAGATACTGAA
1 ACAATAGAGATACTGAA
6206607 A
1 A
6206608 GAGCAACCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (17 bp):
ACAATAGAGATACTGAA
Found at i:6215976 original size:17 final size:17
Alignment explanation
Indices: 6215954--6215993 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
6215944 CTTGATATTT
6215954 GAAATGGAAAAG-GATG
1 GAAATGGAAAAGAGATG
*
6215970 AGAAATGGAAATGAGATG
1 -GAAATGGAAAAGAGATG
6215988 GAAATG
1 GAAATG
6215994 AAATATGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.50, C:0.00, G:0.35, T:0.15
Consensus pattern (17 bp):
GAAATGGAAAAGAGATG
Found at i:6223171 original size:165 final size:164
Alignment explanation
Indices: 6222899--6223222 Score: 603
Period size: 165 Copynumber: 2.0 Consensus size: 164
6222889 AAGACTAAAT
6222899 TGTGGAGTTAAATGTTAATTTTGAGCAATAGGGATTAAATTGTAAAAAAATCAAAATTAAGGGGT
1 TGTGGAGTTAAATGTTAATTTTGAGCAATAGGGATTAAATTGTAAAAAAATCAAAATTAAGGGGT
6222964 AAAATTGAAAATAGGGAGCTAAGTTTAGCTTAGAGTGAAATTAGTCTCAGTTTAGGGACTAAATT
66 AAAATTGAAAATAGGGAGCTAAGTTTAGCTTAGAGTGAAATTAGTCTCAGTTTAGGGACTAAATT
*
6223029 GAGGAATAAACAAAATATAGTAGAAAAATAAAAAC
131 GAAGAATAAA-AAAATATAGTAGAAAAATAAAAAC
*
6223064 TGTGGAGTTAAATGTTAATTTTGAGCAATAGGGATTAAATTGTAAAAAATTCAAAATTAAGGGGT
1 TGTGGAGTTAAATGTTAATTTTGAGCAATAGGGATTAAATTGTAAAAAAATCAAAATTAAGGGGT
* *
6223129 AGAATTGAAAATAGGGAGCTAAGTTTAGCTTAGAGTGAAATTAGTCTCGGTTTAGGGACTAAATT
66 AAAATTGAAAATAGGGAGCTAAGTTTAGCTTAGAGTGAAATTAGTCTCAGTTTAGGGACTAAATT
6223194 GAAGAATAAAAAAATATAGTAGAAAAATA
131 GAAGAATAAAAAAATATAGTAGAAAAATA
6223223 GAAATTCTTG
Statistics
Matches: 155, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
164 19 0.12
165 136 0.88
ACGTcount: A:0.44, C:0.05, G:0.22, T:0.29
Consensus pattern (164 bp):
TGTGGAGTTAAATGTTAATTTTGAGCAATAGGGATTAAATTGTAAAAAAATCAAAATTAAGGGGT
AAAATTGAAAATAGGGAGCTAAGTTTAGCTTAGAGTGAAATTAGTCTCAGTTTAGGGACTAAATT
GAAGAATAAAAAAATATAGTAGAAAAATAAAAAC
Found at i:6223970 original size:18 final size:18
Alignment explanation
Indices: 6223929--6223975 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
6223919 GCTTGATATT
*
6223929 TGAAATGG-AATAATATG
1 TGAAATGGAAATAAGATG
* *
6223946 AGAAATGGAAATGAGATG
1 TGAAATGGAAATAAGATG
6223964 TGAAAT-GAAATA
1 TGAAATGGAAATA
6223976 TGAAATGGTG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.51, C:0.00, G:0.26, T:0.23
Consensus pattern (18 bp):
TGAAATGGAAATAAGATG
Found at i:6224996 original size:9 final size:9
Alignment explanation
Indices: 6224979--6225066 Score: 56
Period size: 9 Copynumber: 9.4 Consensus size: 9
6224969 ATGATATTTT
*
6224979 AAAATTATA
1 AAAACTATA
6224988 AAAACTAT-
1 AAAACTATA
6224996 AAAA-TA-A
1 AAAACTATA
6225003 TAAAACTATA
1 -AAAACTATA
**
6225013 AAATTTATA
1 AAAACTATA
6225022 TAAAACTATA
1 -AAAACTATA
*
6225032 AAAAGTTATTTTA
1 AAAA-CTA---TA
6225045 AAAACTATA
1 AAAACTATA
*
6225054 AGAACTATA
1 AAAACTATA
6225063 AAAA
1 AAAA
6225067 AAAGTTAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 18
0.69 0.10 0.20
Matches are distributed among these distances:
7 2 0.03
8 8 0.13
9 33 0.54
10 10 0.16
12 2 0.03
13 6 0.10
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAACTATA
Found at i:6228120 original size:21 final size:22
Alignment explanation
Indices: 6228094--6228139 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
6228084 TGTAACAAGA
* **
6228094 TTTTT-ATTTGACTTGTTTAAT
1 TTTTTAATTTAACTTGAATAAT
6228115 TTTTTAATTTAACTTGAATAAT
1 TTTTTAATTTAACTTGAATAAT
6228137 TTT
1 TTT
6228140 ACTCTATTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.26, C:0.04, G:0.07, T:0.63
Consensus pattern (22 bp):
TTTTTAATTTAACTTGAATAAT
Found at i:6244827 original size:18 final size:18
Alignment explanation
Indices: 6244786--6244827 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
6244776 GATTTTGTTG
6244786 AGTTATCTTTTCCATTTC
1 AGTTATCTTTTCCATTTC
*
6244804 ATTTATCTTTTCCATTTC
1 AGTTATCTTTTCCATTTC
*
6244822 GGTTAT
1 AGTTAT
6244828 TTAAAGCCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.19, G:0.07, T:0.57
Consensus pattern (18 bp):
AGTTATCTTTTCCATTTC
Found at i:6247718 original size:19 final size:19
Alignment explanation
Indices: 6247696--6247733 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6247686 TTAATGTTTT
*
6247696 TTTATGTTTTTGGAGTCCC
1 TTTACGTTTTTGGAGTCCC
6247715 TTTACGTTTTTGGAGTCCC
1 TTTACGTTTTTGGAGTCCC
6247734 GGTAACTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.11, C:0.18, G:0.21, T:0.50
Consensus pattern (19 bp):
TTTACGTTTTTGGAGTCCC
Found at i:6248435 original size:101 final size:101
Alignment explanation
Indices: 6248320--6248606 Score: 468
Period size: 101 Copynumber: 2.8 Consensus size: 101
6248310 AAAGTGATGG
6248320 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
6248385 TATGTGCAGGCTACTATGTATACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGTATACCGGATAGCTTCGA
*
6248421 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGTATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
**
6248486 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGTATACCGGATAGCTTCGA
* * * *
6248522 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGAT-GGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
* *
6248586 ACTATGTGTATGCTACTATGT
64 ACTATGTGCAGGCTACTATGT
6248607 GAATCCACAT
Statistics
Matches: 173, Mismatches: 11, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
101 137 0.79
102 32 0.18
103 4 0.02
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
TATGTGCAGGCTACTATGTATACCGGATAGCTTCGA
Found at i:6248440 original size:51 final size:50
Alignment explanation
Indices: 6248320--6248603 Score: 283
Period size: 51 Copynumber: 5.6 Consensus size: 50
6248310 AAAGTGATGG
* * * * *
6248320 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-ATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA-GTTCGA
* * * *
6248370 TCGCATGTGTAGTACTATGTGCAGGCTACTATGTATACCGGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-TTCGA
* *
6248421 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCG-
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-G---GATAGTTCGA
* *
6248474 T-A--TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-TTCGA
* *
6248522 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGAT-GG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT--TCGA
* * *
6248573 TCACATGTGTAGTACTATGTGTATGCTACTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA
6248604 TGTGAATCCA
Statistics
Matches: 195, Mismatches: 26, Indels: 25
0.79 0.11 0.10
Matches are distributed among these distances:
46 5 0.03
47 3 0.02
48 1 0.01
49 2 0.01
50 69 0.35
51 103 0.53
52 3 0.02
53 1 0.01
54 3 0.02
55 5 0.03
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTCGA
Found at i:6248607 original size:26 final size:25
Alignment explanation
Indices: 6248527--6248607 Score: 60
Period size: 26 Copynumber: 3.2 Consensus size: 25
6248517 TTCGATCACG
*
6248527 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTG-ATGCTACTA
* * *
6248553 CGTGTA-T-CGGATAGTGATGGTCAC-A
1 TGTGTAGTAC-TAT-GTGATGCT-ACTA
6248578 TGTGTAGTACTATGTGTATGCTACTA
1 TGTGTAGTACTATGTG-ATGCTACTA
6248604 TGTG
1 TGTG
6248608 AATCCACATA
Statistics
Matches: 41, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
24 1 0.02
25 17 0.41
26 22 0.54
27 1 0.02
ACGTcount: A:0.22, C:0.14, G:0.28, T:0.36
Consensus pattern (25 bp):
TGTGTAGTACTATGTGATGCTACTA
Found at i:6252886 original size:50 final size:50
Alignment explanation
Indices: 6252783--6253069 Score: 254
Period size: 50 Copynumber: 5.6 Consensus size: 50
6252773 TGCGAGCCAG
* * *
6252783 TGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGATAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGAG---ATGAGAGGTCCCA
* * *
6252839 TGTAAGACCATGTTTGGGGCATAGCGTTGGCACCGAGATGAGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
* * *
6252889 TGTAAGACTATGTCTGGGACATGGCGTTGGCACCGGGATGAGAGGTCCCC
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
* * * * **
6252939 CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
* * * * * * * * ** *
6252989 TGTAAGACCATATCTGAGATATAGCATTGGCA--GTACAGGAAACATCTCA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGATGAGAGGTCCCA
*
6253038 TGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCA
6253070 TGTTATTATC
Statistics
Matches: 192, Mismatches: 38, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
48 1 0.01
49 36 0.19
50 123 0.64
53 3 0.02
55 1 0.01
56 28 0.15
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (50 bp):
TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
Found at i:6253448 original size:22 final size:22
Alignment explanation
Indices: 6253420--6253462 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
6253410 CTCTCTGATA
*
6253420 TTTAGCACGTCAGTGCTCTCTT
1 TTTAGCACATCAGTGCTCTCTT
*
6253442 TTTAGCACATCTGTGCTCTCT
1 TTTAGCACATCAGTGCTCTCT
6253463 GTATAACACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.28, G:0.16, T:0.42
Consensus pattern (22 bp):
TTTAGCACATCAGTGCTCTCTT
Found at i:6258719 original size:23 final size:23
Alignment explanation
Indices: 6258692--6258735 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
6258682 ATTGGAAAAT
*
6258692 AATTTAATTGAAATAATTAATTA
1 AATTTAATTGAAATAAATAATTA
* *
6258715 AATTTATTTTAAATAAATAAT
1 AATTTAATTGAAATAAATAAT
6258736 ATTTTGGGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
AATTTAATTGAAATAAATAATTA
Found at i:6263297 original size:51 final size:51
Alignment explanation
Indices: 6263161--6263773 Score: 697
Period size: 51 Copynumber: 12.5 Consensus size: 51
6263151 TTTAATCTGT
*
6263161 TGCAATGCCAGGAAAATAAGATTCGCTGCCTTCAGCTTTAATC---T--AC
1 TGCAATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
* * *
6263207 TGCAACGCCAGGGAAA-AAGATTCGTTGCCTTCAGTTTTAATCTGTTCCAC
1 TGCAATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
* *
6263257 TGCAATGCCAGGGAAATAAGATTCGCTCCCTTCAGCTTTAATTTGTTCCAC
1 TGCAATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
* * *
6263308 TGCAATGCCAAGGAAATAAGATTCGTTGCCTTCAACTTTAATC---T--AC
1 TGCAATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
* * *
6263354 TACAACGCCAGGGAAA-AAGATTCGCTGCCTTTAGCTTTAATCTGTTCCAC
1 TGCAATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
* *
6263404 TGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATC---T--AC
1 TGCAATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
*
6263450 TGCAATGCCAGGGAAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTTCAC
1 TGCAATGCCAGGG-AAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
** * *
6263502 TGCAATGCCAAAGAAATGAGATTCGCTGTCTTCAGCTTTAATC---T--AC
1 TGCAATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
* *
6263548 TGCGATGCCAGGGAAATAAGATTTGCTGCCTTCAGCTTTAATCTGTTCCAC
1 TGCAATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
* * * * * * *
6263599 TGCAACGCCAAGGAAATTAGATTCGCTGCATTCATCTTTAATC--TACC-G
1 TGCAATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
* *
6263647 TG--ATGCCAGGGAAATGAGATTTGCTGCCTTCAGCTTTAATCTGTTCCAC
1 TGCAATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
** * *
6263696 TGCAACT-CCAAAGAAATGAGATTCGCTGCCTTCATCTTTAATCTGTTCCAC
1 TGCAA-TGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
*
6263747 TGCAATGCCAAGGAAATAAGATTCGCT
1 TGCAATGCCAGGGAAATAAGATTCGCT
6263774 ATGATAACTT
Statistics
Matches: 479, Mismatches: 58, Indels: 55
0.81 0.10 0.09
Matches are distributed among these distances:
45 47 0.10
46 114 0.24
47 30 0.06
48 10 0.02
49 6 0.01
50 35 0.07
51 223 0.47
52 14 0.03
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (51 bp):
TGCAATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
Found at i:6263615 original size:97 final size:97
Alignment explanation
Indices: 6263148--6263773 Score: 798
Period size: 97 Copynumber: 6.4 Consensus size: 97
6263138 TGCTGTCTGT
** *
6263148 AGCTTTAATCTGTTGCAATGCCAGGAAAATAAGATTCGCTGCCTTCAGCTTTAATC---T--ACT
1 AGCTTTAATCTACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
* *
6263208 GCAACGCCAGGGAAA-AAGATTCGTTGCCTTC
66 GCAACGCCAAGGAAATAAGATTCGCTGCCTTC
* * *
6263239 AGTTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTCCCTTCAGCTTTAATTTGTT
1 AGCTTTAATC---T--ACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTT
* *
6263304 CCACTGCAATGCCAAGGAAATAAGATTCGTTGCCTTC
61 CCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTC
* * * *
6263341 AACTTTAATCTACTACAACGCCAGGGAAA-AAGATTCGCTGCCTTTAGCTTTAATCTGTTCCACT
1 AGCTTTAATCTACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
6263405 GCAACGCCAAGGAAATAAGATTCGCTGCCTTC
66 GCAACGCCAAGGAAATAAGATTCGCTGCCTTC
*
6263437 AGCTTTAATCTACTGCAATGCCAGGGAAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTTCAC
1 AGCTTTAATCTACTGCAATGCCAGGG-AAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
* * * *
6263502 TGCAATGCCAAAGAAATGAGATTCGCTGTCTTC
65 TGCAACGCCAAGGAAATAAGATTCGCTGCCTTC
* *
6263535 AGCTTTAATCTACTGCGATGCCAGGGAAATAAGATTTGCTGCCTTCAGCTTTAATCTGTTCCACT
1 AGCTTTAATCTACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
* *
6263600 GCAACGCCAAGGAAATTAGATTCGCTGCATTC
66 GCAACGCCAAGGAAATAAGATTCGCTGCCTTC
* * ** * *
6263632 ATCTTTAATCTACCGTGATGCCAGGGAAATGAGATTTGCTGCCTTCAGCTTTAATCTGTTCCACT
1 AGCTTTAATCTACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
* * *
6263697 GCAACTCCAAAGAAATGAGATTCGCTGCCTTC
66 GCAACGCCAAGGAAATAAGATTCGCTGCCTTC
* *
6263729 ATCTTTAATCTGTTCCACTGCAATGCCAAGGAAATAAGATTCGCT
1 AGCTTTAATC---T--ACTGCAATGCCAGGGAAATAAGATTCGCT
6263774 ATGATAACTT
Statistics
Matches: 469, Mismatches: 48, Indels: 25
0.87 0.09 0.05
Matches are distributed among these distances:
91 9 0.02
94 1 0.00
96 125 0.27
97 182 0.39
98 86 0.18
99 2 0.00
100 1 0.00
101 16 0.03
102 47 0.10
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (97 bp):
AGCTTTAATCTACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
GCAACGCCAAGGAAATAAGATTCGCTGCCTTC
Found at i:6274337 original size:16 final size:16
Alignment explanation
Indices: 6274316--6274349 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6274306 TTTTATGATG
* *
6274316 AAATGCTATGCAGTCA
1 AAATGCCATGCAATCA
6274332 AAATGCCATGCAATCA
1 AAATGCCATGCAATCA
6274348 AA
1 AA
6274350 GCAAAACATA
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:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (16 bp):
AAATGCCATGCAATCA
Found at i:6275973 original size:20 final size:20
Alignment explanation
Indices: 6275931--6275973 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
6275921 TTTTTTGACA
*
6275931 AAAATAAAAAAATAGGATAT
1 AAAATAAAAAAATAGCATAT
*
6275951 AAAATAAAATAAAT-GCATTT
1 AAAATAAAA-AAATAGCATAT
6275971 AAA
1 AAA
6275974 GTGTTTAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.23
Consensus pattern (20 bp):
AAAATAAAAAAATAGCATAT
Found at i:6277132 original size:13 final size:13
Alignment explanation
Indices: 6277097--6277160 Score: 67
Period size: 13 Copynumber: 4.8 Consensus size: 13
6277087 TCCATGTAAA
*
6277097 CATTTCATATAAT
1 CATTTCATATAAC
*
6277110 TATTTCCATATAAC
1 CATTT-CATATAAC
*
6277124 CGA-TTCATATAGC
1 C-ATTTCATATAAC
*
6277137 CATTTCATATAAT
1 CATTTCATATAAC
6277150 CATTTCATATA
1 CATTTCATATA
6277161 TTCTTTTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
12 1 0.02
13 31 0.74
14 9 0.21
15 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.42
Consensus pattern (13 bp):
CATTTCATATAAC
Found at i:6283015 original size:17 final size:16
Alignment explanation
Indices: 6282973--6283016 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
6282963 TCCGTGCTTA
6282973 AGAATTGAGAGAATGG
1 AGAATTGAGAGAATGG
6282989 ATGAATTGAGAGAATTAGG
1 A-GAATTGAGAGAA-T-GG
6283008 AGAA-TGAGA
1 AGAATTGAGA
6283017 TTTGAATGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 1 0.04
17 17 0.68
18 4 0.16
19 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.34, T:0.20
Consensus pattern (16 bp):
AGAATTGAGAGAATGG
Found at i:6289518 original size:25 final size:27
Alignment explanation
Indices: 6289467--6289529 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 27
6289457 GTTATTTTAC
*
6289467 AATTTTATATTTTTTTATAAATTTATA
1 AATTTTATATTTTTTTATAAATGTATA
*
6289494 AATTTTA-A-TTTTTTATTAATGTATA
1 AATTTTATATTTTTTTATAAATGTATA
* *
6289519 TATTGTATATT
1 AATTTTATATT
6289530 ATGATTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
25 20 0.67
26 2 0.07
27 8 0.27
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (27 bp):
AATTTTATATTTTTTTATAAATGTATA
Found at i:6289607 original size:8 final size:8
Alignment explanation
Indices: 6289564--6289623 Score: 54
Period size: 8 Copynumber: 7.6 Consensus size: 8
6289554 TATTATAGGT
6289564 TTTTATAA
1 TTTTATAA
**
6289572 TAGTAT-A
1 TTTTATAA
*
6289579 TTTTGATAT
1 TTTT-ATAA
6289588 TTTTATAA
1 TTTTATAA
6289596 -TTTATAA
1 TTTTATAA
6289603 TTTTATAA
1 TTTTATAA
6289611 -TTTATATA
1 TTTTATA-A
6289619 TTTTA
1 TTTTA
6289624 AAATAATAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
7 16 0.39
8 17 0.41
9 8 0.20
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (8 bp):
TTTTATAA
Found at i:6289608 original size:15 final size:15
Alignment explanation
Indices: 6289565--6289623 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
6289555 ATTATAGGTT
** *
6289565 TTTATAATAGTATAT
1 TTTATAATTTTATAA
*
6289580 TTTGATATTTTTATAA
1 TTT-ATAATTTTATAA
6289596 TTTATAATTTTATAA
1 TTTATAATTTTATAA
6289611 TTTATATATTTTA
1 TTTATA-ATTTTA
6289624 AAATAATAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
15 20 0.54
16 17 0.46
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (15 bp):
TTTATAATTTTATAA
Found at i:6291027 original size:12 final size:12
Alignment explanation
Indices: 6291007--6291047 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
6290997 AAAGTAAATT
*
6291007 TTCACCATTTTC
1 TTCAACATTTTC
6291019 TTCAACATTTTTTC
1 TTCAACA--TTTTC
6291033 TTCAACATTTTC
1 TTCAACATTTTC
6291045 TTC
1 TTC
6291048 TTCTCCTCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 14 0.54
14 12 0.46
ACGTcount: A:0.20, C:0.27, G:0.00, T:0.54
Consensus pattern (12 bp):
TTCAACATTTTC
Found at i:6291033 original size:14 final size:14
Alignment explanation
Indices: 6291014--6291050 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
6291004 ATTTTCACCA
6291014 TTTTCTTCAACATT
1 TTTTCTTCAACATT
6291028 TTTTCTTCAACATT
1 TTTTCTTCAACATT
6291042 TTCTTCTTC
1 TT-TTCTTC
6291051 TCCTCCACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTCTTCAACATT
Found at i:6294449 original size:46 final size:46
Alignment explanation
Indices: 6294396--6294498 Score: 170
Period size: 46 Copynumber: 2.2 Consensus size: 46
6294386 GAGGGGGTGT
*
6294396 TAGGATATTATTATGGGATATTATATTTTAGCAATTTGATTCCTAA
1 TAGGATATTATTATGGGATATTATATCTTAGCAATTTGATTCCTAA
* *
6294442 TAGGATATTATTATGGGATATTATCTCTTAGCAATTTGGTTCCTAA
1 TAGGATATTATTATGGGATATTATATCTTAGCAATTTGATTCCTAA
*
6294488 TGGGATATTAT
1 TAGGATATTAT
6294499 AGGATATTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 53 1.00
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (46 bp):
TAGGATATTATTATGGGATATTATATCTTAGCAATTTGATTCCTAA
Found at i:6311685 original size:22 final size:23
Alignment explanation
Indices: 6311641--6311685 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
6311631 TTTTTCGTAG
** *
6311641 ATTTATATTTTTATTTTTTAAAA
1 ATTTATATTTTTAAATTTAAAAA
6311664 ATTTA-ATTTTTAAATTTAAAAA
1 ATTTATATTTTTAAATTTAAAAA
6311686 TTCAAATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
ATTTATATTTTTAAATTTAAAAA
Found at i:6312124 original size:5 final size:5
Alignment explanation
Indices: 6312114--6312139 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
6312104 TGAGCATTCG
6312114 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
6312140 AATTTTCGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:6312960 original size:9 final size:9
Alignment explanation
Indices: 6312943--6312973 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
6312933 TCAAGTTGAT
6312943 TCGAATAAC
1 TCGAATAAC
*
6312952 TCGATTAAC
1 TCGAATAAC
6312961 TCGAATAAC
1 TCGAATAAC
6312970 TCGA
1 TCGA
6312974 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:6319872 original size:14 final size:15
Alignment explanation
Indices: 6319853--6319882 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6319843 ATATACTAAG
6319853 ATTAAAC-TTAATTA
1 ATTAAACTTTAATTA
6319867 ATTAAACTTTAATTA
1 ATTAAACTTTAATTA
6319882 A
1 A
6319883 CCAAACCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTAAACTTTAATTA
Found at i:6321126 original size:13 final size:13
Alignment explanation
Indices: 6321108--6321132 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6321098 GCAACACGGA
6321108 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
6321121 AAAAAAGAAAAA
1 AAAAAAGAAAAA
6321133 CAGAACACGC
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:6321897 original size:20 final size:19
Alignment explanation
Indices: 6321874--6321941 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
6321864 CATTTTGGAT
6321874 TTAACTTTTAAATTTTTTTA
1 TTAA-TTTTAAATTTTTTTA
*
6321894 TTAATTTTAAATTTTTTAAA
1 TTAATTTTAAATTTTTT-TA
* * *
6321914 TT-TTTTTTAATATTTTTA
1 TTAATTTTAAATTTTTTTA
*
6321932 TTAACTTTAA
1 TTAATTTTAA
6321942 TAATGTATTA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
18 3 0.08
19 28 0.74
20 7 0.18
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (19 bp):
TTAATTTTAAATTTTTTTA
Found at i:6324297 original size:7 final size:7
Alignment explanation
Indices: 6324287--6324311 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6324277 ATTCGATTGA
6324287 TATTTAG
1 TATTTAG
6324294 TATTTAG
1 TATTTAG
6324301 TATTTAG
1 TATTTAG
6324308 TATT
1 TATT
6324312 ATGTATATAA
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:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:6324986 original size:18 final size:18
Alignment explanation
Indices: 6324960--6324994 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6324950 AGGTGCGTTT
*
6324960 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
6324978 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
6324995 TCATTTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:6325516 original size:25 final size:25
Alignment explanation
Indices: 6325482--6325594 Score: 114
Period size: 25 Copynumber: 4.7 Consensus size: 25
6325472 TATTTTGATA
6325482 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* *
6325507 TTATTTGATGTAATAAAATAAAAAT
1 TTATTTGATGTAATAAAATAGAAGT
** *
6325532 TT-TTTCGA-GT--T-ATTTTG-A-T
1 TTATTT-GATGTAATAAAATAGAAGT
6325551 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
6325577 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
6325595 ACCCTAACCT
Statistics
Matches: 70, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
19 1 0.01
20 5 0.07
21 7 0.10
22 1 0.01
23 1 0.01
24 8 0.11
25 46 0.66
26 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.13, T:0.44
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:6325558 original size:70 final size:69
Alignment explanation
Indices: 6325447--6325594 Score: 271
Period size: 70 Copynumber: 2.1 Consensus size: 69
6325437 NNNNNNNNNN
*
6325447 TGTAA-AAAATAGAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGTTTAT
1 TGTAATAAAATAAAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGTTTAT
6325511 TTGA
66 TTGA
6325515 TGTAATAAAATAAAAATTTTTTCGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGTTTA
1 TGTAATAAAATAAAAATTTTTT-GAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGTTTA
6325580 TTTGA
65 TTTGA
6325585 TGTAATAAAA
1 TGTAATAAAA
6325595 ACCCTAACCT
Statistics
Matches: 77, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
68 5 0.06
69 15 0.19
70 57 0.74
ACGTcount: A:0.41, C:0.01, G:0.14, T:0.45
Consensus pattern (69 bp):
TGTAATAAAATAAAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGTTTAT
TTGA
Found at i:6325642 original size:23 final size:23
Alignment explanation
Indices: 6325590--6325869 Score: 85
Period size: 23 Copynumber: 10.6 Consensus size: 23
6325580 TTTGATGTAA
* *
6325590 TAAAAACCCTAACCTAATTTAAC
1 TAAAAACCCTAACCTAAATTAAT
***
6325613 CCTAAACCCTAACCTAAATTAAT
1 TAAAAACCCTAACCTAAATTAAT
6325636 TAAAAACCCTAACCCTAACCTAATTTAAT
1 TAAAAACCCTAA-CCT-A---AA-TTAAT
6325665 TAAAAACCCTAACCCCTGACCTAAATTAAT
1 TAAAAACCCT-A------ACCTAAATTAAT
*
6325695 TACAAAACCTAACCCTAACCTAATTTAAT
1 T---AAA---AACCCTAACCTAAATTAAT
6325724 TAAAAATCCTAACCCTAACCTAAATTAAT
1 T--AAA----AACCCTAACCTAAATTAAT
*
6325753 TACAAACCCTAACCCTAACCTAATTTAAT
1 TAAAAACCCTAA-CCT-A---AA-TTAAT
*
6325782 TAAAAACCCTAAACCCTTAACTTAA-
1 TAAAAACCCT-AA-CC-TAAATTAAT
* * * *
6325807 AAACCCAAATCTTAACCTAATTTAAT
1 TAA---AAACCCTAACCTAAATTAAT
** *
6325833 TAAAAACCCTATTCTAATTTAAT
1 TAAAAACCCTAACCTAAATTAAT
6325856 TAAAAACCCTAACC
1 TAAAAACCCTAACC
6325870 CTAACCTAAT
Statistics
Matches: 200, Mismatches: 25, Indels: 64
0.69 0.09 0.22
Matches are distributed among these distances:
23 63 0.31
24 6 0.03
25 11 0.05
26 8 0.04
27 5 0.03
28 13 0.06
29 63 0.31
30 13 0.06
31 3 0.01
33 3 0.01
34 1 0.00
35 4 0.02
36 7 0.04
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.27
Consensus pattern (23 bp):
TAAAAACCCTAACCTAAATTAAT
Found at i:6325650 original size:29 final size:29
Alignment explanation
Indices: 6325610--6325892 Score: 326
Period size: 29 Copynumber: 10.1 Consensus size: 29
6325600 AACCTAATTT
*
6325610 AACCCTAAACCCTAACCTAAATTAATTAAA
1 AACCCT-AACCCTAACCTAATTTAATTAAA
6325640 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
6325669 AACCCTAACCCCTGACCTAAATTAATTACAA
1 AACCCTAA-CCCTAACCTAATTTAATTA-AA
6325700 AA-CCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* * *
6325728 AATCCTAACCCTAACCTAAATTAATTACA
1 AACCCTAACCCTAACCTAATTTAATTAAA
6325757 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
6325786 AACCCTAAACCCT----T-A---ACTTAAA
1 AACCCT-AACCCTAACCTAATTTAATTAAA
* * *
6325808 AACCCAAATCTTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
6325837 AACCCT-A---T--TCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
6325860 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
6325889 AACC
1 AACC
6325893 NNNNNNNNNN
Statistics
Matches: 217, Mismatches: 18, Indels: 37
0.80 0.07 0.14
Matches are distributed among these distances:
21 4 0.02
22 11 0.05
23 20 0.09
24 1 0.00
25 3 0.01
26 2 0.01
27 1 0.00
28 5 0.02
29 132 0.61
30 34 0.16
31 4 0.02
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (29 bp):
AACCCTAACCCTAACCTAATTTAATTAAA
Found at i:6325672 original size:52 final size:52
Alignment explanation
Indices: 6325594--6325892 Score: 318
Period size: 52 Copynumber: 5.5 Consensus size: 52
6325584 ATGTAATAAA
****
6325594 AACCCTAACCTAATTTAACCCTAAACCCTAACCTAAATTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAAATTAATTAAAAACCCT
6325646 AACCCTAACCTAATTTAATTAAAAACCCTAACCCCTGACCTAAATTAATTACAAAA-CCT
1 AACCCTAACCTAATTTAATTAAAAACCCT-A------ACCTAAATTAATTA-AAAACCCT
*
6325705 AACCCTAACCTAATTTAATTAAAAATCCTAACCCTAACCTAAATTAATTACAAACCCT
1 AACCCTAACCTAATTTAATT--AAA----AACCCTAACCTAAATTAATTAAAAACCCT
* *
6325763 AACCCTAACCTAATTTAATTAAAAACCCTAAACC---CTTAACTTAAAAACCCA
1 AACCCTAACCTAATTTAATTAAAAACCCT-AACCTAAATTAA-TTAAAAACCCT
* * ** *
6325814 AATCTTAACCTAATTTAATTAAAAACCCTATTCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAAATTAATTAAAAACCCT
6325866 AACCCTAACCTAATTTAATTAAAAACC
1 AACCCTAACCTAATTTAATTAAAAACC
6325893 NNNNNNNNNN
Statistics
Matches: 211, Mismatches: 16, Indels: 40
0.79 0.06 0.15
Matches are distributed among these distances:
50 6 0.03
51 36 0.17
52 66 0.31
53 9 0.04
56 3 0.01
57 3 0.01
58 37 0.18
59 37 0.18
60 4 0.02
61 3 0.01
64 1 0.00
65 6 0.03
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.27
Consensus pattern (52 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAACCTAAATTAATTAAAAACCCT
Found at i:6325687 original size:59 final size:57
Alignment explanation
Indices: 6325610--6325892 Score: 340
Period size: 59 Copynumber: 5.1 Consensus size: 57
6325600 AACCTAATTT
6325610 AACCCTAAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCT-AACCCT-ACCTAAATTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAA
6325669 AACCCTAACCCCTGACCTAAATTAATTACAAAA-CCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAA-CCCT-ACCTAAATTAATTA-AAAACCCTAACCCTAACCTAATTTAATTAAA
* *
6325728 AATCCTAACCCTAACCTAAATTAATTACAAACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCT-ACCTAAATTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAA
* * * *
6325786 AACCCTAAACCCT---T--A--ACTTAAAAACCCAAATCTTAACCTAATTTAATTAAA
1 AACCCT-AACCCTACCTAAATTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAA
* *
6325837 AACCCT-A---T-TCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTACCTAAATTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAA
6325889 AACC
1 AACC
6325893 NNNNNNNNNN
Statistics
Matches: 199, Mismatches: 15, Indels: 27
0.83 0.06 0.11
Matches are distributed among these distances:
46 1 0.01
48 1 0.01
49 1 0.01
51 37 0.19
52 36 0.18
53 1 0.01
55 1 0.01
57 3 0.02
58 51 0.26
59 63 0.32
60 4 0.02
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (57 bp):
AACCCTAACCCTACCTAAATTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAA
Found at i:6334963 original size:13 final size:12
Alignment explanation
Indices: 6334947--6334984 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
6334937 TAATTTAACG
*
6334947 TTCCTATTTGTTT
1 TTCCCATTT-TTT
6334960 TTCCCA-TTTTT
1 TTCCCATTTTTT
6334971 TTCCCATTTTTT
1 TTCCCATTTTTT
6334983 TT
1 TT
6334985 TCTTTTGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 9 0.39
12 9 0.39
13 5 0.22
ACGTcount: A:0.08, C:0.21, G:0.03, T:0.68
Consensus pattern (12 bp):
TTCCCATTTTTT
Found at i:6334980 original size:10 final size:11
Alignment explanation
Indices: 6334957--6334983 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
6334947 TTCCTATTTG
6334957 TTTTTCCCATT
1 TTTTTCCCATT
6334968 TTTTTCCCATT
1 TTTTTCCCATT
6334979 TTTTT
1 TTTTT
6334984 TTCTTTTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTTCCCATT
Found at i:6335809 original size:42 final size:42
Alignment explanation
Indices: 6335694--6335813 Score: 127
Period size: 41 Copynumber: 2.9 Consensus size: 42
6335684 TATTTTAGAA
* * * *
6335694 CCACACAGGCAATGGACATGGGCATGTGCCCAGG-CTGTGTAAG
1 CCACACGGGCAA-GGACATGAGCGTGTGTCCAGGTC-GTGTAAG
* * * * *
6335737 TCACGCGAGCAAAGACATGA-CGTGTGTCCAGGTCGTGTGAG
1 CCACACGGGCAAGGACATGAGCGTGTGTCCAGGTCGTGTAAG
6335778 CCACACGGGCAAGGACATGAGCGTGTGTCCAGGTCG
1 CCACACGGGCAAGGACATGAGCGTGTGTCCAGGTCG
6335814 CGTGGCATAT
Statistics
Matches: 62, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
41 32 0.52
42 22 0.35
43 8 0.13
ACGTcount: A:0.24, C:0.25, G:0.34, T:0.17
Consensus pattern (42 bp):
CCACACGGGCAAGGACATGAGCGTGTGTCCAGGTCGTGTAAG
Found at i:6339281 original size:19 final size:19
Alignment explanation
Indices: 6339257--6339319 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
6339247 AGTTTCTGGT
6339257 GATGCCTTTCGGCTTGATG
1 GATGCCTTTCGGCTTGATG
*
6339276 GATGCCTTTCGGCTTGACG
1 GATGCCTTTCGGCTTGATG
6339295 GATGCCTTTCGGCTTGATG
1 GATGCCTTTCGGCTTGATG
*
6339314 AATGCC
1 GATGCC
6339320 CCGACAGTGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.13, C:0.24, G:0.30, T:0.33
Consensus pattern (19 bp):
GATGCCTTTCGGCTTGATG
Found at i:6342821 original size:105 final size:104
Alignment explanation
Indices: 6342601--6342821 Score: 246
Period size: 104 Copynumber: 2.1 Consensus size: 104
6342591 TGAAGGGTTT
* * * * *
6342601 ACACGGACGTGTGTCTAGGCCGTGTAACTCACTGTTTGTGACTTAGGACCACACAGCTAGAGAAA
1 ACACGGACGTGTCTCTAGGACGTGTAACTCACCGTTTATGACTTAGAACCACACAGCTAGAGAAA
* * * *
6342666 TGGGCGTGTGCCCAAGCCTTGTGAGTCATACGGGCAAGG
66 TGGGCATGTGCCCAAGCCGTATGAGTCACACGGGCAAGG
* * * * *
6342705 GCACGGACGTGTCTCTAGGACGTGTAACTCACCGTTTAT-ATTTTAGAACCACACGGGTAGTGGA
1 ACACGGACGTGTCTCTAGGACGTGTAACTCACCGTTTATGA-CTTAGAACCACACAGCTAG-AGA
* * *
6342769 CATGGGCATGTGCCTAGGCCGTATGAGTCACACGGGCAAGG
64 AATGGGCATGTGCCCAAGCCGTATGAGTCACACGGGCAAGG
* *
6342810 ACATGGGCGTGT
1 ACACGGACGTGT
6342822 GTTCAAGCCG
Statistics
Matches: 95, Mismatches: 20, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
103 1 0.01
104 49 0.52
105 45 0.47
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.23
Consensus pattern (104 bp):
ACACGGACGTGTCTCTAGGACGTGTAACTCACCGTTTATGACTTAGAACCACACAGCTAGAGAAA
TGGGCATGTGCCCAAGCCGTATGAGTCACACGGGCAAGG
Found at i:6344618 original size:19 final size:20
Alignment explanation
Indices: 6344596--6344636 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
6344586 AAAAAAAAAC
6344596 TTTATTTCTAAA-A-TTTAAA
1 TTTATTT-TAAACATTTTAAA
6344615 TTTATTTTAAACATTTTAAA
1 TTTATTTTAAACATTTTAAA
6344635 TT
1 TT
6344637 AAGTATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 8 0.40
20 8 0.40
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTATTTTAAACATTTTAAA
Found at i:6347901 original size:3 final size:3
Alignment explanation
Indices: 6347888--6347940 Score: 97
Period size: 3 Copynumber: 17.3 Consensus size: 3
6347878 TATAGTGGTC
6347888 TAT TCAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6347934 TAT TAT T
1 TAT TAT T
6347941 TTGTTACCTT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:6354064 original size:165 final size:160
Alignment explanation
Indices: 6353739--6354051 Score: 418
Period size: 165 Copynumber: 1.9 Consensus size: 160
6353729 TCAAGTCAAG
** * *
6353739 TCAAGCATATGATTTTCAAATCTCAAAATCTAAAATATCTTCATTGCAAAACTCGCATAATTCTT
1 TCAAGCATACAATTTTCAAATCTCAAAATCTAAAATATCTTCATTGCAAAACTCACATAATTCGT
* * *
6353804 ATCTATAATTTTTATAGTCTTAGGAAATTAAGAGATTTGGCCTTTCAAATGAGTAGTGCAGAAAA
66 ATCTATAATTTTTATAGTCATAGGAAATAAAGAGAATTGGCCTTTCAAATGAGTAGTGCAGAAAA
*
6353869 TTTACAGATTCAGATTTTGAAGCATTGAAA
131 TTTACACATTCAGATTTTGAAGCATTGAAA
* *
6353899 TCAAGCATACAATTTTCAAAT-TGCAAATTCTAAGAATATTTTTCATTGCAAAAACTCACATAAT
1 TCAAGCATACAATTTTCAAATCT-CAAAATCTAA-AATA-TCTTCATTGC-AAAACTCACATAAT
* *
6353963 TCGTA-CTTATAA-TTTTAGTGAAGTCATATGAAATAAAGAGAATTGGCCTTTCAAATGATTAGT
62 TCGTATC-TATAATTTTTA-T--AGTCATAGGAAATAAAGAGAATTGGCCTTTCAAATGAGTAGT
6354026 GCAGAAAATTTACACATTCA-ATTTTG
123 GCAGAAAATTTACACATTCAGATTTTG
6354052 TAAGTGTTGA
Statistics
Matches: 133, Mismatches: 12, Indels: 12
0.85 0.08 0.08
Matches are distributed among these distances:
159 1 0.01
160 28 0.21
161 4 0.03
162 15 0.11
163 23 0.17
164 6 0.05
165 56 0.42
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.35
Consensus pattern (160 bp):
TCAAGCATACAATTTTCAAATCTCAAAATCTAAAATATCTTCATTGCAAAACTCACATAATTCGT
ATCTATAATTTTTATAGTCATAGGAAATAAAGAGAATTGGCCTTTCAAATGAGTAGTGCAGAAAA
TTTACACATTCAGATTTTGAAGCATTGAAA
Found at i:6362496 original size:19 final size:20
Alignment explanation
Indices: 6362474--6362511 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
6362464 AATTAACTTG
6362474 GTTTAAATAAG-TTAATCAT
1 GTTTAAATAAGTTTAATCAT
* *
6362493 GTTTTAATTAGTTTAATCA
1 GTTTAAATAAGTTTAATCA
6362512 ATCTTTAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (20 bp):
GTTTAAATAAGTTTAATCAT
Found at i:6371353 original size:40 final size:40
Alignment explanation
Indices: 6371298--6371437 Score: 244
Period size: 40 Copynumber: 3.5 Consensus size: 40
6371288 TCAGAACGCT
*
6371298 GGCATTAAGCCTGCTAGACATTAAGCCTGTAAAGTTCACC
1 GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
*
6371338 GGCATTAAGCCTGCTAGACATTAAGTTTGTAAAGTTCACC
1 GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
* *
6371378 GGCGTTAAGCCTGCTAGATATTAAGTCTGTAAAGTTCACC
1 GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
6371418 GGCATTAAGCCTGCTAGACA
1 GGCATTAAGCCTGCTAGACA
6371438 CAGGACCTGA
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 93 1.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.27
Consensus pattern (40 bp):
GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
Found at i:6372131 original size:21 final size:21
Alignment explanation
Indices: 6372105--6372155 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
6372095 TAGACTTACC
6372105 TCGGACGATGAAAAATCAAAG
1 TCGGACGATGAAAAATCAAAG
6372126 TCGGACGATGAAAAATCAAAG
1 TCGGACGATGAAAAATCAAAG
6372147 TCGGACGAT
1 TCGGACGAT
6372156 TATTCGACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.25, T:0.16
Consensus pattern (21 bp):
TCGGACGATGAAAAATCAAAG
Found at i:6375924 original size:28 final size:28
Alignment explanation
Indices: 6375883--6376003 Score: 152
Period size: 28 Copynumber: 4.3 Consensus size: 28
6375873 TCAGTTAATT
* * * *
6375883 AGTAGCAGTCTGGGCCTGAGCCCTATAC
1 AGTAACAGTGTGGGCCTTAGCCCAATAC
*
6375911 AGCAACAGTGTGGGCCTTAGCCCAATAC
1 AGTAACAGTGTGGGCCTTAGCCCAATAC
* * *
6375939 AGTAATAATGTGGGCCTTAGCCCAATAT
1 AGTAACAGTGTGGGCCTTAGCCCAATAC
* *
6375967 AGTAACAGTATGGGCCTTAGCCCAATTC
1 AGTAACAGTGTGGGCCTTAGCCCAATAC
6375995 AGTAACAGT
1 AGTAACAGT
6376004 ACAATGCAGT
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 79 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (28 bp):
AGTAACAGTGTGGGCCTTAGCCCAATAC
Found at i:6376443 original size:27 final size:27
Alignment explanation
Indices: 6376299--6376464 Score: 165
Period size: 27 Copynumber: 6.1 Consensus size: 27
6376289 TATAACAGTT
* * *
6376299 ATTTTACCCAAT-GGGGGTATTTTGGTC
1 ATTTTACCC-ATCGAGGGTATTTCGATC
* *
6376326 ATTTTACCCTTCGAGGGTATTTCGATT
1 ATTTTACCCATCGAGGGTATTTCGATC
* * * *
6376353 ATTTTACCCTTTGGGGGTATTTCGGTC
1 ATTTTACCCATCGAGGGTATTTCGATC
* * *
6376380 ATTTTACCCTTTGGGGGTATTTC-AGTC
1 ATTTTACCCATCGAGGGTATTTCGA-TC
6376407 ATTTTACCCATCGAGGGTATTTCGATC
1 ATTTTACCCATCGAGGGTATTTCGATC
* * *
6376434 ATTTTACCCATCGAAGTTATTTCGGTC
1 ATTTTACCCATCGAGGGTATTTCGATC
6376461 ATTT
1 ATTT
6376465 GCCTACGAAT
Statistics
Matches: 120, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 118 0.98
28 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.43
Consensus pattern (27 bp):
ATTTTACCCATCGAGGGTATTTCGATC
Found at i:6376455 original size:81 final size:81
Alignment explanation
Indices: 6376299--6376464 Score: 233
Period size: 81 Copynumber: 2.0 Consensus size: 81
6376289 TATAACAGTT
** * * *
6376299 ATTTTACCCAATGGGGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTCGATTATTTTACCCTT
1 ATTTTACCCAATGGGGGTATTTCAGTCATTTTACCCATCGAGGGTATTTCGATCATTTTACCCAT
* **
6376364 TGGGGGTATTTCGGTC
66 CGAAGGTATTTCGGTC
**
6376380 ATTTTACCCTTTGGGGGTATTTCAGTCATTTTACCCATCGAGGGTATTTCGATCATTTTACCCAT
1 ATTTTACCCAATGGGGGTATTTCAGTCATTTTACCCATCGAGGGTATTTCGATCATTTTACCCAT
*
6376445 CGAAGTTATTTCGGTC
66 CGAAGGTATTTCGGTC
6376461 ATTT
1 ATTT
6376465 GCCTACGAAT
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 74 1.00
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.43
Consensus pattern (81 bp):
ATTTTACCCAATGGGGGTATTTCAGTCATTTTACCCATCGAGGGTATTTCGATCATTTTACCCAT
CGAAGGTATTTCGGTC
Done.