Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 177 of 352
Found at i:57883553 original size:22 final size:22
Alignment explanation
Indices: 57883499--57883569 Score: 80
Period size: 22 Copynumber: 3.4 Consensus size: 22
57883489 TCAAAAGAAA
*
57883499 AAGAA-AAATAAGAAT-AAAAT
1 AAGAATAAATAAAAATAAAAAT
57883519 -A-AATAAA-ATAAAATAAAAAT
1 AAGAATAAATA-AAAATAAAAAT
57883539 AAGAATAAATAAAAATAAAAAT
1 AAGAATAAATAAAAATAAAAAT
*
57883561 AAAAATAAA
1 AAGAATAAA
57883570 ATAGGAGGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
18 3 0.07
19 8 0.19
20 5 0.12
21 1 0.02
22 25 0.58
23 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (22 bp):
AAGAATAAATAAAAATAAAAAT
Found at i:57888672 original size:5 final size:5
Alignment explanation
Indices: 57888662--57888686 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
57888652 ATACATAGTA
57888662 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
57888687 GGAAGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:57897282 original size:10 final size:10
Alignment explanation
Indices: 57897267--57897316 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
57897257 TATGTAAATA
57897267 TTTATTTATT
1 TTTATTTATT
57897277 TTTATTTATT
1 TTTATTTATT
*
57897287 TTT-TTTGTT
1 TTTATTTATT
*
57897296 TTTTTTTCATT
1 TTTATTT-ATT
*
57897307 TATA-TTATT
1 TTTATTTATT
57897316 T
1 T
57897317 GCAATGTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
9 12 0.35
10 18 0.53
11 4 0.12
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (10 bp):
TTTATTTATT
Found at i:57897282 original size:14 final size:13
Alignment explanation
Indices: 57897265--57897302 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
57897255 AATATGTAAA
57897265 TATTTATTTATTTT
1 TATTTATTT-TTTT
57897279 TATTTATTTTTTT
1 TATTTATTTTTTT
*
57897292 TGTTT-TTTTTT
1 TATTTATTTTTT
57897303 CATTTATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 6 0.26
13 8 0.35
14 9 0.39
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.84
Consensus pattern (13 bp):
TATTTATTTTTTT
Found at i:57902358 original size:24 final size:24
Alignment explanation
Indices: 57902326--57902396 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
57902316 CTGTCAGGAG
57902326 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
*
57902350 AGGATTTAGGAGTTGGTAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
57902374 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
57902397 GGAAATCTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.34, C:0.01, G:0.39, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:57902548 original size:27 final size:27
Alignment explanation
Indices: 57902462--57902576 Score: 149
Period size: 27 Copynumber: 4.0 Consensus size: 27
57902452 TGGGAATTTT
57902462 GGCTAGGGTTAGTGCCAGTATAAATTC
1 GGCTAGGGTTAGTGCCAGTATAAATTC
* *
57902489 GGCATTAGTGGTAAGTGGTGTCAGTATAAATTC
1 GGC--TAG-GGT---TAGTGCCAGTATAAATTC
*
57902522 AGCTAGGGTTAGTGCCAGTATAAATTC
1 GGCTAGGGTTAGTGCCAGTATAAATTC
57902549 GGCTAGGGTTAGTGCCAGTATAAATTC
1 GGCTAGGGTTAGTGCCAGTATAAATTC
57902576 G
1 G
57902577 ACTTTTGTTA
Statistics
Matches: 76, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
27 46 0.61
29 3 0.04
30 6 0.08
31 3 0.04
33 18 0.24
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.30
Consensus pattern (27 bp):
GGCTAGGGTTAGTGCCAGTATAAATTC
Found at i:57903536 original size:27 final size:26
Alignment explanation
Indices: 57903496--57903607 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
57903486 AGGAAGCATC
*
57903496 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
57903523 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
57903550 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
57903578 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
57903604 CTGG
1 CTGG
57903608 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 51 0.69
28 16 0.22
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:57903600 original size:54 final size:54
Alignment explanation
Indices: 57903496--57903607 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
57903486 AGGAAGCATC
*
57903496 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
57903550 CTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
57903604 CTGG
1 CTGG
57903608 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:57909044 original size:14 final size:14
Alignment explanation
Indices: 57909025--57909054 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
57909015 AACTAAGGAG
*
57909025 TACAAAATTAAAAA
1 TACAAAAATAAAAA
57909039 TACAAAAATAAAAA
1 TACAAAAATAAAAA
57909053 TA
1 TA
57909055 ATCAAAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (14 bp):
TACAAAAATAAAAA
Found at i:57929042 original size:23 final size:23
Alignment explanation
Indices: 57929012--57929060 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
57929002 TAACCAACAT
57929012 AAGTAATTCATATTTTATTTACA
1 AAGTAATTCATATTTTATTTACA
57929035 AAGTAATTCATATTTTATTTACA
1 AAGTAATTCATATTTTATTTACA
57929058 AAG
1 AAG
57929061 CCAAGATATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (23 bp):
AAGTAATTCATATTTTATTTACA
Found at i:57974704 original size:48 final size:48
Alignment explanation
Indices: 57974632--57975108 Score: 430
Period size: 48 Copynumber: 9.9 Consensus size: 48
57974622 TGTCCCAGAC
* * * *
57974632 ATGCTGATGCTAAGTCCCAGACATGGTCTTACACTAGCTCTCATATAA
1 ATGCTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAA
* * *
57974680 ATGCTGATGCCATGTTCCAAACATGGTCTCACACTGGCTCAT-ATATCGA
1 ATGCTGATGCCATGTTCCAAACATGGTCTTACACTAGCTC-TCATAT-AA
** * * *
57974729 GGGC-GATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATAA
1 ATGCTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAA
* * **
57974776 ATGTTGATGCCATGTTCCAAACA-GGATCTTACACTGGCTCAT-ATATCG
1 ATGCTGATGCCATGTTCCAAACATGG-TCTTACACTAGCTC-TCATATAA
*
57974824 A-GGTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAA
1 ATGCT-GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAA
* * * **
57974872 ATGTTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCG
1 ATGCTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAA
* * * * * * * *
57974920 A-GGTCGATGCCATATTCTAACCAAGTTCTTACGCTAGCTCTAATATAA
1 ATGCT-GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAA
* * **
57974968 ATG-TCGATGCCATGTTCTAAACATGGTCTTACACT-GACTCACATATCG
1 ATGCT-GATGCCATGTTCCAAACATGGTCTTACACTAG-CTCTCATATAA
* * *
57975016 AGGCCGATGCCATGTTCCAAACATGGTCTTCCACTAGCTCTCATATAA
1 ATGCTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAA
** * ** * *
57975064 ATGCCAATGCCCTAATCCAAACATGGTCTTACACTGGCTCACATA
1 ATGCTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATA
57975109 ACCCTAGTAT
Statistics
Matches: 345, Mismatches: 69, Indels: 30
0.78 0.16 0.07
Matches are distributed among these distances:
47 11 0.03
48 323 0.94
49 11 0.03
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (48 bp):
ATGCTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAA
Found at i:57974810 original size:96 final size:96
Alignment explanation
Indices: 57974652--57975108 Score: 664
Period size: 96 Copynumber: 4.8 Consensus size: 96
57974642 TAAGTCCCAG
* *
57974652 ACATGGTCTTACACTAGCTCTCATATAAATGCTGATGCCATGTTCCAAACATGGTCTCACACTGG
1 ACATGGTCTTACACTAGCTCTCATATAAATGTTGATGCCATGTTCCAAACATGGTCTTACACTGG
* * * *
57974717 CTCATATATCGAGGGCGATGCCATGTCCCAG
66 CTCACATATCGAGGTCGATGCCATGTTCCAA
*
57974748 ACATGGTCTTACACTAACTCTCATATAAATGTTGATGCCATGTTCCAAACA-GGATCTTACACTG
1 ACATGGTCTTACACTAGCTCTCATATAAATGTTGATGCCATGTTCCAAACATGG-TCTTACACTG
*
57974812 GCTCATATATCGAGGTCGATGCCATGTTCCAA
65 GCTCACATATCGAGGTCGATGCCATGTTCCAA
57974844 ACATGGTCTTACACTAGCTCTCATATAAATGTTGATGCCATGTTCCAAACATGGTCTTACACTGG
1 ACATGGTCTTACACTAGCTCTCATATAAATGTTGATGCCATGTTCCAAACATGGTCTTACACTGG
* *
57974909 CTCACATATCGAGGTCGATGCCATATTCTAA
66 CTCACATATCGAGGTCGATGCCATGTTCCAA
* * * * * * * *
57974940 CCAAGTTCTTACGCTAGCTCTAATATAAATGTCGATGCCATGTTCTAAACATGGTCTTACACTGA
1 ACATGGTCTTACACTAGCTCTCATATAAATGTTGATGCCATGTTCCAAACATGGTCTTACACTGG
*
57975005 CTCACATATCGAGGCCGATGCCATGTTCCAA
66 CTCACATATCGAGGTCGATGCCATGTTCCAA
* *** * **
57975036 ACATGGTCTTCCACTAGCTCTCATATAAATGCCAATGCCCTAATCCAAACATGGTCTTACACTGG
1 ACATGGTCTTACACTAGCTCTCATATAAATGTTGATGCCATGTTCCAAACATGGTCTTACACTGG
57975101 CTCACATA
66 CTCACATA
57975109 ACCCTAGTAT
Statistics
Matches: 325, Mismatches: 34, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
95 2 0.01
96 321 0.99
97 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (96 bp):
ACATGGTCTTACACTAGCTCTCATATAAATGTTGATGCCATGTTCCAAACATGGTCTTACACTGG
CTCACATATCGAGGTCGATGCCATGTTCCAA
Found at i:57980225 original size:27 final size:27
Alignment explanation
Indices: 57980195--57980310 Score: 121
Period size: 27 Copynumber: 4.3 Consensus size: 27
57980185 CCTTATGTGA
**
57980195 TAAAATGACGATTTTACCCTTATAAGG
1 TAAAATGACGATAATACCCTTATAAGG
* *
57980222 TAAAATGACCGA-AATACCCCTATAAGT
1 TAAAATGA-CGATAATACCCTTATAAGG
*
57980249 TAAAATGACTG-TAATA-CCTCTGTAAGG
1 TAAAATGAC-GATAATACCCT-TATAAGG
* *
57980276 TAAAATGACCATAATACCCTTGTAAGG
1 TAAAATGACGATAATACCCTTATAAGG
57980303 TAAAATGA
1 TAAAATGA
57980311 ATTATTTGCC
Statistics
Matches: 75, Mismatches: 8, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
26 3 0.04
27 66 0.88
28 6 0.08
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (27 bp):
TAAAATGACGATAATACCCTTATAAGG
Found at i:57980794 original size:34 final size:33
Alignment explanation
Indices: 57980712--57980804 Score: 82
Period size: 34 Copynumber: 2.8 Consensus size: 33
57980702 TGCATACTGC
* * *
57980712 ACTGATTCTGTAATGGACTTAGGCTCCACTGAT
1 ACTGATTCTGAAATGGACTAAGGCCCCACTGAT
* *
57980745 ACTG-TTACT-AGAATGGACTCAGGCCCACACTGTT
1 ACTGATT-CTGA-AATGGACTAAGGCCC-CACTGAT
* *
57980779 TCTGATTCTGAAATGGGCTAAGGCCC
1 ACTGATTCTGAAATGGACTAAGGCCC
57980805 TAACTGAAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
32 2 0.04
33 19 0.40
34 24 0.50
35 3 0.06
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.29
Consensus pattern (33 bp):
ACTGATTCTGAAATGGACTAAGGCCCCACTGAT
Found at i:57992650 original size:55 final size:53
Alignment explanation
Indices: 57992527--57992727 Score: 215
Period size: 55 Copynumber: 3.7 Consensus size: 53
57992517 CTTACCATTT
* * * * *
57992527 CCATGTCTTTACATGGTCTTACGTGGTATCCTTGCCTTATA-AACTCACCAATG
1 CCATGCCTTGACATGGTCTTACATGGTA-CCTTACCTTATAGAACTCATCAATG
* *
57992580 CCATGCCTTGGCATGGTCTTACATGGGACCTTTACCTTATAGTAACTCATCAATG
1 CCATGCCTTGACATGGTCTTACATGGTACC-TTACCTTATAG-AACTCATCAATG
* * * *
57992635 CCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTATAGAACTTATCAATG
1 CCATGCCTTGACATGGTCTTACATG-GTACCTTACCTTATAGAACTCATCAATG
* * * *
57992689 ACATGCCTTGGCATGGTCTTACATGATATCCTTATCTTA
1 CCATGCCTTGACATGGTCTTACATGGTA-CCTTACCTTA
57992728 CCAAATGCCA
Statistics
Matches: 124, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
52 2 0.02
53 33 0.27
54 42 0.34
55 45 0.36
56 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.36
Consensus pattern (53 bp):
CCATGCCTTGACATGGTCTTACATGGTACCTTACCTTATAGAACTCATCAATG
Found at i:57992710 original size:54 final size:54
Alignment explanation
Indices: 57992538--57992727 Score: 240
Period size: 54 Copynumber: 3.5 Consensus size: 54
57992528 CATGTCTTTA
* * * *
57992538 CATGGTCTTACGTGGTATCCTTGCCTTATA-AACTCACCAATGCCATGCCTTGG
1 CATGGTCTTACATGATATCCTTACCTTATAGAACTCATCAATGCCATGCCTTGG
** * *
57992591 CATGGTCTTACATGGGA-CCTTTACCTTATAGTAACTCATCAATGCCATGTCTTGA
1 CATGGTCTTACATGATATCC-TTACCTTATAG-AACTCATCAATGCCATGCCTTGG
* * *
57992646 CATGGTCTTACATGATTTCCTTACCTTATAGAACTTATCAATGACATGCCTTGG
1 CATGGTCTTACATGATATCCTTACCTTATAGAACTCATCAATGCCATGCCTTGG
*
57992700 CATGGTCTTACATGATATCCTTATCTTA
1 CATGGTCTTACATGATATCCTTACCTTA
57992728 CCAAATGCCA
Statistics
Matches: 118, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 2 0.02
53 24 0.20
54 45 0.38
55 45 0.38
56 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (54 bp):
CATGGTCTTACATGATATCCTTACCTTATAGAACTCATCAATGCCATGCCTTGG
Found at i:57992963 original size:44 final size:44
Alignment explanation
Indices: 57992914--57992997 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
57992904 TCCTTAACCG
* *
57992914 TCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTCCA
1 TCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTCCA
* * *
57992958 TCAATTCTTCTTTAATTGCCATGGTACAACCATGGACTTT
1 TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
57992998 GAGATATCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 32 0.94
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTCCA
Found at i:57996164 original size:29 final size:29
Alignment explanation
Indices: 57996130--57996203 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
57996120 TAATCAACCG
*
57996130 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
57996159 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
57996188 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
57996204 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:58004282 original size:21 final size:19
Alignment explanation
Indices: 58004240--58004278 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
58004230 TTTATAGAAA
58004240 ATATATAGTGGGTTCGCAC
1 ATATATAGTGGGTTCGCAC
58004259 ATATATAGTGGGTTCGCAC
1 ATATATAGTGGGTTCGCAC
58004278 A
1 A
58004279 CATAGTGCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (19 bp):
ATATATAGTGGGTTCGCAC
Found at i:58004285 original size:17 final size:18
Alignment explanation
Indices: 58004244--58004285 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
58004234 TAGAAAATAT
*
58004244 ATAGTGGGTTCGCACATAT
1 ATAGTGGGTTCGCACA-AC
58004263 ATAGTGGGTTCGCAC-AC
1 ATAGTGGGTTCGCACAAC
58004280 ATAGTG
1 ATAGTG
58004286 CTTAATAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
19 15 0.68
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (18 bp):
ATAGTGGGTTCGCACAAC
Found at i:58004335 original size:29 final size:29
Alignment explanation
Indices: 58004301--58004374 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
58004291 TAATCAACCG
*
58004301 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
58004330 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
58004359 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
58004375 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:58006380 original size:185 final size:184
Alignment explanation
Indices: 58006062--58006420 Score: 646
Period size: 185 Copynumber: 1.9 Consensus size: 184
58006052 GGCTGTCACA
*
58006062 ATTAATGAGATGGCCGGCCATAGGGAAACAGAAAATCAAAATGTCAAGGTTAGGTGAGTTTTTGG
1 ATTAATGAGATGGCCAGCCATAGGGAAACAGAAAATCAAAATGTCAAGGTTAGGTGAGTTTTTGG
* * *
58006127 TGACTTATTTGACTAAAATAAATTAAAGAAAAGGAAGGCTATAATGTTATTCTTCTCCACCGAAA
66 TGACTTAATTGACTAAAATAAAATAAAGAAAAGGAAGGCTATAATGTTATTCTTCTCCACCAAAA
58006192 TTCTCAGAAAAAATAAGGGTTTTTGGAGCTTAAAAATTCAGCCAAATAGCCTTTT
131 TTCTCAG-AAAAATAAGGGTTTTTGGAGCTTAAAAATTCAGCCAAATAGCCTTTT
*
58006247 ATTAATGAGATGGCCAGCCATAGGGACACAGAAAATCAAAATGTCAAGGTTAGGTGAGTTTTTGG
1 ATTAATGAGATGGCCAGCCATAGGGAAACAGAAAATCAAAATGTCAAGGTTAGGTGAGTTTTTGG
*
58006312 TGACTTAATTGACTAAAATAAAATAAAGAAAAGGAAGGCTATAGTGTTATTCTTCTCCACCAAAA
66 TGACTTAATTGACTAAAATAAAATAAAGAAAAGGAAGGCTATAATGTTATTCTTCTCCACCAAAA
*
58006377 TTCTCAGAAAAATAAGGGTTTTTGGAGCTTAAAACTTCAGCCAA
131 TTCTCAGAAAAATAAGGGTTTTTGGAGCTTAAAAATTCAGCCAA
58006421 GCTATCCTCT
Statistics
Matches: 167, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
184 36 0.22
185 131 0.78
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.28
Consensus pattern (184 bp):
ATTAATGAGATGGCCAGCCATAGGGAAACAGAAAATCAAAATGTCAAGGTTAGGTGAGTTTTTGG
TGACTTAATTGACTAAAATAAAATAAAGAAAAGGAAGGCTATAATGTTATTCTTCTCCACCAAAA
TTCTCAGAAAAATAAGGGTTTTTGGAGCTTAAAAATTCAGCCAAATAGCCTTTT
Found at i:58007251 original size:48 final size:47
Alignment explanation
Indices: 58007176--58007451 Score: 243
Period size: 48 Copynumber: 5.8 Consensus size: 47
58007166 TGATATGTGT
* * * *
58007176 GCTAGTGTAAGACTATGTTTGGAACATGGCATCTGCCATATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATA-TATGAGA
* * * *** * *
58007224 GCTAGTGAAAGACCATGTCTGGGACATGGCACCAGTGTTGATATGTGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAT-ATATGAGA
*
58007272 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAATATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-TATATGAGA
* * * * * *
58007320 GCTGGTGTAAGACCATGTTTGGAACATGGCATCGG-TATTGAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-T-ATATGAGA
* *
58007368 GCTAGTGTGAGACCATGTCTGGGACATGGCATCGGCC-TCGACATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAT--ATATG-AGA
* * *
58007416 GCCAGTGTAAGACCATGTCTGGGACATAGCGTCGGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
58007452 AATTTGCTCT
Statistics
Matches: 183, Mismatches: 39, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
47 2 0.01
48 179 0.98
49 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATATGAGA
Found at i:58007278 original size:96 final size:95
Alignment explanation
Indices: 58007166--58007442 Score: 315
Period size: 96 Copynumber: 2.9 Consensus size: 95
58007156 GACATTTGAG
* * * * *
58007166 TGATATGTGTGCTAGTGTAAGACTATGTTTGGAACATGGCATCTGCCATATTATGAGAGCTAGTG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATA-TATGAGAGCTAGTG
* *
58007231 AAAGACCATGTCTGGGACATGGCACCAGTGT
65 TAAGACCATGTCTGGGACATGGCACCAGTAT
* * *
58007262 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAATATGAGAGCTGGTG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-TATATGAGAGCTAGTG
* * * *
58007327 TAAGACCATGTTTGGAACATGGCATCGGTAT
65 TAAGACCATGTCTGGGACATGGCACCAGTAT
* * * * * *
58007358 TGAGACGAGAGCTAGTGTGAGACCATGTCTGGGACATGGCATCGGCC-TCGACATGTA-AGCCAG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAT--ATATG-AGAGCTAG
58007421 TGTAAGACCATGTCTGGGACAT
63 TGTAAGACCATGTCTGGGACAT
58007443 AGCGTCGGCA
Statistics
Matches: 153, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
96 151 0.99
97 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (95 bp):
TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATATGAGAGCTAGTGT
AAGACCATGTCTGGGACATGGCACCAGTAT
Found at i:58007428 original size:144 final size:143
Alignment explanation
Indices: 58007180--58007451 Score: 350
Period size: 144 Copynumber: 1.9 Consensus size: 143
58007170 ATGTGTGCTA
* *
58007180 GTGTAAGACTATGTTTGGAACATGGCATCTGCCATATTATGAGAGCTAGTGAAAGACCATGTCTG
1 GTGTAAGACCATGTTTGGAACATGGCATCTG-CATATTACGAGAGCTAGTGAAAGACCATGTCTG
** * * ** * *
58007245 GGACATGGCACCAGTGTTGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
65 GGACATGGCACCAGCCTCGACATGTAAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGGCCA
58007310 CAATATGAGAGCTG
130 CAATATGAGAGCTG
* **
58007324 GTGTAAGACCATGTTTGGAACATGGCATC-G-GTATTGAGACGAGAGCTAGTGTGAGACCATGTC
1 GTGTAAGACCATGTTTGGAACATGGCATCTGCATATT---ACGAGAGCTAGTGAAAGACCATGTC
* * *
58007387 TGGGACATGGCATCGGCCTCGACATGTAAGCCAGTGTAAGACCATGTCTGGGACATAGCGTCGGC
63 TGGGACATGGCACCAGCCTCGACATGTAAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGGC
58007452 AATTTGCTCT
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
141 4 0.04
143 1 0.01
144 104 0.95
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (143 bp):
GTGTAAGACCATGTTTGGAACATGGCATCTGCATATTACGAGAGCTAGTGAAAGACCATGTCTGG
GACATGGCACCAGCCTCGACATGTAAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGGCCAC
AATATGAGAGCTG
Found at i:58030582 original size:105 final size:101
Alignment explanation
Indices: 58030394--58030590 Score: 295
Period size: 105 Copynumber: 1.9 Consensus size: 101
58030384 ATGTTATAGA
* * *
58030394 TATTTTTCGGGTTGAATTAGGTGAACCAGATAGCTTTTACTAATTTCTTCTATGACTGCTGTGAA
1 TATTTTTAGGGTTGAATCAGGTGAACCAGATAGCTTTTACTAATTTCTTCAATGACTGCTGTGAA
* *
58030459 ATATATGAGAAGAGGGTATGAGTCTTAACTTACGTT
66 ATATATGAGAAAAAGGTATGAGTCTTAACTTACGTT
**
58030495 TATTTTTAGGGTTGAATCAGGTGAACCAGATAGCTTACCTATACTGGTTTCTTCAATGACTGCTG
1 TATTTTTAGGGTTGAATCAGGTGAACCAGATAGCTT---T-TACTAATTTCTTCAATGACTGCTG
58030560 TGAAATATATGAGAAAAAGGTATGAGTCTTA
62 TGAAATATATGAGAAAAAGGTATGAGTCTTA
58030591 TCTCGCATTT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
101 34 0.40
104 1 0.01
105 50 0.59
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (101 bp):
TATTTTTAGGGTTGAATCAGGTGAACCAGATAGCTTTTACTAATTTCTTCAATGACTGCTGTGAA
ATATATGAGAAAAAGGTATGAGTCTTAACTTACGTT
Found at i:58033079 original size:46 final size:46
Alignment explanation
Indices: 58033029--58033204 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
58033019 TATTTGGGCA
*
58033029 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* * * *
58033075 TCCGAACTCATTGAGTTGTGTCCGAGTTC-GTGA--GAT-TTAACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
* *
58033120 CATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* * *
58033168 CCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
58033205 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 60 0.57
47 27 0.25
48 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:58033184 original size:93 final size:93
Alignment explanation
Indices: 58033025--58033197 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
58033015 TGGATATTTG
* * *
58033025 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCATTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAACTCATTGAG
*
58033090 TTGTGTCCGAGTTCGTGAGATTTAACTA
66 TTGAGTCCGAGTTCGTGAGATTTAACTA
* *
58033118 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAACTCATTGAG
58033183 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
58033198 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATTTAACTA
Found at i:58047825 original size:28 final size:28
Alignment explanation
Indices: 58047770--58047825 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
58047760 ACAGGGGTTT
58047770 TCACACGGCCTGACACATGCCCGTGTCCC
1 TCACACGGCCTGACACA-GCCCGTGTCCC
58047799 TCACACGGCCATGACAC-GCCCGTGTCC
1 TCACACGGCC-TGACACAGCCCGTGTCC
58047826 TAGCCCGTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 10 0.38
29 10 0.38
30 6 0.23
ACGTcount: A:0.18, C:0.45, G:0.21, T:0.16
Consensus pattern (28 bp):
TCACACGGCCTGACACAGCCCGTGTCCC
Found at i:58048927 original size:46 final size:45
Alignment explanation
Indices: 58048832--58048950 Score: 161
Period size: 46 Copynumber: 2.6 Consensus size: 45
58048822 GGGCCAACAC
*
58048832 CATGTCCCAGACATGGTCTTACACTGAC-ACATCTCGTAGCCCATA
1 CATGTCCCAGACAT-GTCTTACACTGGCTACATCTCGTAGCCCATA
* *
58048877 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCG-AGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGC-TACATCTCGTA-GCCCATA
*
58048923 CATGTCCCAGACATGTCTTACACGGGCT
1 CATGTCCCAGACATGTCTTACACTGGCT
58048951 CACAAATAAC
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
44 12 0.18
45 16 0.24
46 39 0.58
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTACATCTCGTAGCCCATA
Found at i:58052306 original size:48 final size:48
Alignment explanation
Indices: 58052232--58052459 Score: 214
Period size: 48 Copynumber: 4.8 Consensus size: 48
58052222 TGATATGTGT
* *
58052232 CTAGTGTAAGACCATGTTTGGAACATGGCATCGGCCATATTATGAGAG
1 CTAGTGTAAGACCATGTCTGGAACATGGCATCGGCCATAATATGAGAG
* * * * * *
58052280 CTAGTGAAAGACCATGCCTGGGACATGCCATCGGCGC-TGATATGTGCA-
1 CTAGTGTAAGACCATGTCTGGAACATGGCATCGGC-CATAATATGAG-AG
* * * *
58052328 CTAGTGTAAGACCAAGTCTGGGAA-ATGGCTTCGGTCACAATATGAGAG
1 CTAGTGTAAGACCATGTCT-GGAACATGGCATCGGCCATAATATGAGAG
* * * *
58052376 CCAGTGTAAGACCATGTTTAGAACATGGCATCGG-CATAGAGACT-AGAG
1 CTAGTGTAAGACCATGTCTGGAACATGGCATCGGCCATA-ATA-TGAGAG
* *
58052424 CTAGTGTGAGACCATGTCTAGAACATGGCATCGGCC
1 CTAGTGTAAGACCATGTCTGGAACATGGCATCGGCC
58052460 TCGACATGTA
Statistics
Matches: 143, Mismatches: 28, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
47 8 0.06
48 128 0.90
49 7 0.05
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (48 bp):
CTAGTGTAAGACCATGTCTGGAACATGGCATCGGCCATAATATGAGAG
Found at i:58052484 original size:48 final size:48
Alignment explanation
Indices: 58052372--58052485 Score: 140
Period size: 48 Copynumber: 2.4 Consensus size: 48
58052362 TCACAATATG
* *
58052372 AGAGCCAGTGTAAGACCATGTTTAGAACATGGCATCGGCATAGAGACT
1 AGAGCCAGTGTAAGACCATGTCTAGAACATGGCATCGGCATAGACACT
* * * * *
58052420 AGAGCTAGTGTGAGACCATGTCTAGAACATGGCATCGGCCTCGACATGT
1 AGAGCCAGTGTAAGACCATGTCTAGAACATGGCATCGGCATAGACA-CT
*
58052469 A-AGCCAATGTAAGACCA
1 AGAGCCAGTGTAAGACCA
58052486 CATCTGGGAC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 53 0.96
49 2 0.04
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.20
Consensus pattern (48 bp):
AGAGCCAGTGTAAGACCATGTCTAGAACATGGCATCGGCATAGACACT
Found at i:58052494 original size:144 final size:144
Alignment explanation
Indices: 58052234--58052500 Score: 330
Period size: 144 Copynumber: 1.9 Consensus size: 144
58052224 ATATGTGTCT
* **
58052234 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCATATTATGAGAGCTAGTGAAAGACCATGCCT
1 AGTGTAAGACCATGTTTAGAACATGGCATCGGCCATAAGATGAGAGCTAGTGAAAGACCATGCCT
* * * *
58052299 GGGACATGCCATCGGCGCTGATATGTGCACTAGTGTAAGACCAAGTCTGGGAAATGGCTTCGGTC
66 AGAACATGCCATCGGCGCTGACATGTGCACTAATGTAAGACCAAGTCTGGGAAATGGCTTCGGTC
58052364 ACAATATGAGAGCC
131 ACAATATGAGAGCC
** *
58052378 AGTGTAAGACCATGTTTAGAACATGGCATCGG-CATAGAGACT-AGAGCTAGTGTGAGACCATGT
1 AGTGTAAGACCATGTTTAGAACATGGCATCGGCCATA-AGA-TGAGAGCTAGTGAAAGACCATGC
* *
58052441 CTAGAACATGGCATCGGC-CTCGACATGTAAGC-C-AATGTAAGACCACA-TCTGGGACATGGC
64 CTAGAACATGCCATCGGCGCT-GACATGT--GCACTAATGTAAGACCA-AGTCTGGGAAATGGC
58052501 ATTGGCAATT
Statistics
Matches: 105, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
143 6 0.06
144 94 0.90
145 3 0.03
146 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (144 bp):
AGTGTAAGACCATGTTTAGAACATGGCATCGGCCATAAGATGAGAGCTAGTGAAAGACCATGCCT
AGAACATGCCATCGGCGCTGACATGTGCACTAATGTAAGACCAAGTCTGGGAAATGGCTTCGGTC
ACAATATGAGAGCC
Found at i:58059592 original size:27 final size:27
Alignment explanation
Indices: 58059540--58059592 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
58059530 ACCACTTCTT
* *
58059540 TCTCCTTTCTCCCATTTTTCTCCCCTC
1 TCTCCCTTCTCCCATTCTTCTCCCCTC
58059567 TCTCCCTTCTCCCA-TCTTCTCACCCT
1 TCTCCCTTCTCCCATTCTTCTC-CCCT
58059593 TGCGCACACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.06, C:0.51, G:0.00, T:0.43
Consensus pattern (27 bp):
TCTCCCTTCTCCCATTCTTCTCCCCTC
Found at i:58063413 original size:13 final size:13
Alignment explanation
Indices: 58063395--58063420 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58063385 CTAAGCCACC
58063395 CCACACGGGCGTG
1 CCACACGGGCGTG
58063408 CCACACGGGCGTG
1 CCACACGGGCGTG
58063421 TCCCTGTCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.38, T:0.08
Consensus pattern (13 bp):
CCACACGGGCGTG
Found at i:58070342 original size:7 final size:7
Alignment explanation
Indices: 58070326--58070358 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
58070316 TTCCTGAATG
*
58070326 TTTCTTA
1 TTTCTCA
58070333 TTTCTCA
1 TTTCTCA
58070340 TTTCTCA
1 TTTCTCA
58070347 TTTCTCA
1 TTTCTCA
58070354 TTTCT
1 TTTCT
58070359 TATTCATTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.64
Consensus pattern (7 bp):
TTTCTCA
Found at i:58071875 original size:10 final size:10
Alignment explanation
Indices: 58071860--58071884 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
58071850 CACTAACAGG
58071860 ACTAAATAGT
1 ACTAAATAGT
58071870 ACTAAATAGT
1 ACTAAATAGT
58071880 ACTAA
1 ACTAA
58071885 TTTAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.12, G:0.08, T:0.28
Consensus pattern (10 bp):
ACTAAATAGT
Found at i:58076017 original size:30 final size:29
Alignment explanation
Indices: 58075970--58076094 Score: 146
Period size: 28 Copynumber: 4.3 Consensus size: 29
58075960 GAAAACATGT
*
58075970 ATATGAATGT-ATTTGGGCCTAATGGGTC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
58075998 GTATGAATGTGATTTTGGGCCTAATGTGCC
1 ATATGAATGTGA-TTTGGGCCTAATGGGCC
* *
58076028 ATACGAATATGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
58076057 ATTTGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
58076085 ATATGCATGT
1 ATATGAATGT
58076095 ATGTAGACTT
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
28 31 0.39
29 25 0.31
30 24 0.30
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.33
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:58078049 original size:13 final size:13
Alignment explanation
Indices: 58078031--58078055 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58078021 AGGTCATGTG
58078031 AGGGACACGGGCC
1 AGGGACACGGGCC
58078044 AGGGACACGGGC
1 AGGGACACGGGC
58078056 GTGTGCTTGG
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:0.24, C:0.28, G:0.48, T:0.00
Consensus pattern (13 bp):
AGGGACACGGGCC
Found at i:58078971 original size:15 final size:16
Alignment explanation
Indices: 58078935--58078977 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
58078925 TAAATAAAAC
*
58078935 TAAAGAACGGAATTTA
1 TAAAGAACAGAATTTA
58078951 TAAAG-ACAGAATTTA
1 TAAAGAACAGAATTTA
58078966 CT-AAGAACAGAA
1 -TAAAGAACAGAA
58078978 ATTGAAATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.53, C:0.09, G:0.16, T:0.21
Consensus pattern (16 bp):
TAAAGAACAGAATTTA
Found at i:58080244 original size:15 final size:16
Alignment explanation
Indices: 58080220--58080252 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
58080210 ATTAAATGAA
58080220 TTTATCTTGAAT-TAT
1 TTTATCTTGAATATAT
*
58080235 TTTATTTTGAATATAT
1 TTTATCTTGAATATAT
58080251 TT
1 TT
58080253 AGATCAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.64
Consensus pattern (16 bp):
TTTATCTTGAATATAT
Found at i:58080628 original size:43 final size:43
Alignment explanation
Indices: 58080553--58080672 Score: 147
Period size: 43 Copynumber: 2.8 Consensus size: 43
58080543 ATAGGATTTA
* *
58080553 CGATATGTGATTGCATGTAAGACCATGTCTGGGACA-TCGGTAT
1 CGATATGTGATTACATGTAAGACCATGTCTGGGACAGT-GGCAT
* *
58080596 CGTATATGTGATT-CGTGTAAGACCCT-TCCTGGGACAGTGGCAT
1 CG-ATATGTGATTACATGTAAGACCATGT-CTGGGACAGTGGCAT
*
58080639 CGATATGTGATTACATGTAAGACCACGTCTGGGA
1 CGATATGTGATTACATGTAAGACCATGTCTGGGA
58080673 TGTTGGCATT
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
42 11 0.17
43 43 0.65
44 12 0.18
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (43 bp):
CGATATGTGATTACATGTAAGACCATGTCTGGGACAGTGGCAT
Found at i:58081705 original size:22 final size:22
Alignment explanation
Indices: 58081679--58081746 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
58081669 TATATGAAGT
58081679 ATGGTTTGAAATGGCTAAGTTA
1 ATGGTTTGAAATGGCTAAGTTA
* *
58081701 ATGGTTGTG-TAT-G-T--GTTT
1 ATGGTT-TGAAATGGCTAAGTTA
58081719 ATGGTTTGAAATGGCTAAGTTA
1 ATGGTTTGAAATGGCTAAGTTA
58081741 ATGGTT
1 ATGGTT
58081747 GTGTATGTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
17 2 0.06
18 11 0.31
19 1 0.03
20 2 0.06
21 1 0.03
22 17 0.47
23 2 0.06
ACGTcount: A:0.25, C:0.03, G:0.29, T:0.43
Consensus pattern (22 bp):
ATGGTTTGAAATGGCTAAGTTA
Found at i:58081722 original size:40 final size:40
Alignment explanation
Indices: 58081678--58081760 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
58081668 TTATATGAAG
58081678 TATGGTTTGAAATGGCTAAGTTAATGGTTGTGTATGTGTT
1 TATGGTTTGAAATGGCTAAGTTAATGGTTGTGTATGTGTT
58081718 TATGGTTTGAAATGGCTAAGTTAATGGTTGTGTATGTGTT
1 TATGGTTTGAAATGGCTAAGTTAATGGTTGTGTATGTGTT
58081758 TAT
1 TAT
58081761 TAAATTATGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.23, C:0.02, G:0.29, T:0.46
Consensus pattern (40 bp):
TATGGTTTGAAATGGCTAAGTTAATGGTTGTGTATGTGTT
Found at i:58081724 original size:18 final size:18
Alignment explanation
Indices: 58081701--58081760 Score: 50
Period size: 18 Copynumber: 3.1 Consensus size: 18
58081691 GGCTAAGTTA
58081701 ATGGTTGTGTATGTGTTT
1 ATGGTTGTGTATGTGTTT
* *
58081719 ATGGTT-TGAAATGGCTAAGTTA
1 ATGGTTGTG-TAT-G-T--GTTT
58081741 ATGGTTGTGTATGTGTTT
1 ATGGTTGTGTATGTGTTT
58081759 AT
1 AT
58081761 TAAATTATGG
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
17 2 0.06
18 13 0.41
19 1 0.03
20 2 0.06
21 1 0.03
22 11 0.34
23 2 0.06
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.48
Consensus pattern (18 bp):
ATGGTTGTGTATGTGTTT
Found at i:58087072 original size:26 final size:26
Alignment explanation
Indices: 58087043--58087150 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
58087033 TGGTACAAAT
58087043 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
58087069 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58087095 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
58087121 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58087147 TGAT
1 TGAT
58087151 GGCCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:58092051 original size:28 final size:28
Alignment explanation
Indices: 58091952--58092038 Score: 138
Period size: 28 Copynumber: 3.1 Consensus size: 28
58091942 GCAATCAAAT
* *
58091952 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
58091980 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
58092008 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
58092036 ATG
1 ATG
58092039 ATACTTCGTG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:58092058 original size:28 final size:28
Alignment explanation
Indices: 58091952--58092058 Score: 133
Period size: 28 Copynumber: 3.8 Consensus size: 28
58091942 GCAATCAAAT
* * *
58091952 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
58091980 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
58092008 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
** * *
58092036 ATGATACTTCGTGTGCTAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
58092059 CGAATGATTC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:58101115 original size:31 final size:31
Alignment explanation
Indices: 58101073--58101135 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
58101063 CTTTTTACAC
*
58101073 TTCATATTTCATAACACTAGGCCGAAGCCTT
1 TTCATACTTCATAACACTAGGCCGAAGCCTT
** *
58101104 TTCATACTTCATATTACTGGGCCGAAGCCTT
1 TTCATACTTCATAACACTAGGCCGAAGCCTT
58101135 T
1 T
58101136 ACTGTAAACG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (31 bp):
TTCATACTTCATAACACTAGGCCGAAGCCTT
Found at i:58101435 original size:25 final size:24
Alignment explanation
Indices: 58101329--58101471 Score: 164
Period size: 25 Copynumber: 5.9 Consensus size: 24
58101319 GCTTTATCAT
*
58101329 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
** *
58101354 ATAACTAAGG-AAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
58101377 ATAACTGGGGCAGAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
58101401 ATAATTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
*
58101426 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
58101451 ATAACTGGGGCATAAGCCCTT
1 ATAACTGGGGCATAAGCCCTT
58101472 CTACACTTCC
Statistics
Matches: 104, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.13
24 38 0.37
25 52 0.50
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:58101435 original size:49 final size:49
Alignment explanation
Indices: 58101366--58101471 Score: 160
Period size: 49 Copynumber: 2.2 Consensus size: 49
58101356 AACTAAGGAA
*
58101366 AAGCCCTTTTAATAACTGGGGCAGAAGCCCTTT-TAATAATTGGGGCAT
1 AAGCCCTTTTAATAACTGGGGCAGAAGCCCTTTATAATAACTGGGGCAT
* * *
58101414 AAGCCCTTTATCATAACTGGGGCATAAGCCCTTTATCATAACTGGGGCAT
1 AAGCCCTTT-TAATAACTGGGGCAGAAGCCCTTTATAATAACTGGGGCAT
58101464 AAGCCCTT
1 AAGCCCTT
58101472 CTACACTTCC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
48 9 0.17
49 22 0.42
50 21 0.40
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (49 bp):
AAGCCCTTTTAATAACTGGGGCAGAAGCCCTTTATAATAACTGGGGCAT
Found at i:58101548 original size:20 final size:20
Alignment explanation
Indices: 58101523--58101569 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
58101513 TTATGAATAC
58101523 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58101543 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
58101563 ACCATGT
1 ATCATGT
58101570 TTATCAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:58123728 original size:3 final size:3
Alignment explanation
Indices: 58123720--58123746 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
58123710 TTTTGTAGGT
58123720 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
58123747 ACTTTGACTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:58126472 original size:27 final size:27
Alignment explanation
Indices: 58126434--58126489 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
58126424 GGCGCATATG
58126434 TTAATTTCTTCTTCTTATTATTTGGCA
1 TTAATTTCTTCTTCTTATTATTTGGCA
58126461 TTAATTTCTTCTTCTTATTATTTGGCA
1 TTAATTTCTTCTTCTTATTATTTGGCA
58126488 TT
1 TT
58126490 TTTGGGGGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.18, C:0.14, G:0.07, T:0.61
Consensus pattern (27 bp):
TTAATTTCTTCTTCTTATTATTTGGCA
Found at i:58147478 original size:24 final size:24
Alignment explanation
Indices: 58147451--58147499 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
58147441 TTAAGAAAAG
58147451 TTAGTAGATATTTTTGATGAATCA
1 TTAGTAGATATTTTTGATGAATCA
*
58147475 TTAGTTGATATTTTTGATGAATCA
1 TTAGTAGATATTTTTGATGAATCA
58147499 T
1 T
58147500 CCATGGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.04, G:0.16, T:0.49
Consensus pattern (24 bp):
TTAGTAGATATTTTTGATGAATCA
Found at i:58151571 original size:14 final size:14
Alignment explanation
Indices: 58151533--58151575 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
58151523 CAAAATTTAC
58151533 AATATAATTAAA-T
1 AATATAATTAAATT
58151546 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
58151561 AA-ATAATTTAATT
1 AATATAATTAAATT
58151574 AA
1 AA
58151576 CTATTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:58157269 original size:26 final size:26
Alignment explanation
Indices: 58157222--58157275 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 26
58157212 AAAGAAACGA
58157222 ATCAAGACAAAAAAAAATTAGGTACTT
1 ATCAAGAC-AAAAAAAATTAGGTACTT
58157249 ATCAAGAC-AAAAAAATCTAGGTACTT
1 ATCAAGACAAAAAAAAT-TAGGTACTT
58157275 A
1 A
58157276 CTTGAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 8 0.31
26 10 0.38
27 8 0.31
ACGTcount: A:0.54, C:0.13, G:0.11, T:0.22
Consensus pattern (26 bp):
ATCAAGACAAAAAAAATTAGGTACTT
Found at i:58162102 original size:38 final size:38
Alignment explanation
Indices: 58162013--58162200 Score: 196
Period size: 38 Copynumber: 4.9 Consensus size: 38
58162003 CGAAGTATAA
* * * * * *
58162013 AACCCAAACATAACACCAGCACGAAGCCTACAGGACTTT
1 AACCCAGATATAATACCAGCACAAAGCCTGCGGGA-TTT
* * *
58162052 AAACTCAGATATAATACCAGCACCAGGCCTGCGGGATTT
1 -AACCCAGATATAATACCAGCACAAAGCCTGCGGGATTT
* * *
58162091 AACCCAGATATAATTCTAGCACGAAGCCTGCGGGATTT
1 AACCCAGATATAATACCAGCACAAAGCCTGCGGGATTT
* *
58162129 AACCCGGATATATTACCAGCACAAAGCCTGCGGGATTT
1 AACCCAGATATAATACCAGCACAAAGCCTGCGGGATTT
* * * *
58162167 AACCCGGATATAATTCCAGCATATAGCCTGCGGG
1 AACCCAGATATAATACCAGCACAAAGCCTGCGGG
58162201 TCTTTAAGCC
Statistics
Matches: 126, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
38 96 0.76
39 3 0.02
40 27 0.21
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.20
Consensus pattern (38 bp):
AACCCAGATATAATACCAGCACAAAGCCTGCGGGATTT
Found at i:58162158 original size:76 final size:76
Alignment explanation
Indices: 58162028--58162230 Score: 230
Period size: 76 Copynumber: 2.6 Consensus size: 76
58162018 AAACATAACA
* * * * * *
58162028 CCAGCACGAAGCCTACAGGACTTTAAACTCAGATATAATACCAGCACCAGGCCTGCGGGATTTAA
1 CCAGCACGAAGCCTGCGGGA-TTT-AACCCGGATATAATACCAGCACAAAGCCTGCGGGATTTAA
58162093 CCCAGATATAATT
64 CCCAGATATAATT
* *
58162106 CTAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACAAAGCCTGCGGGATTTAACC
1 CCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACAAAGCCTGCGGGATTTAACC
*
58162171 CGGATATAATT
66 CAGATATAATT
* * *
58162182 CCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATACAAT-CTCAGCACAA
1 CCAGCACGA-AGCCTGCGGG-ATTTAA-CCCGGATATAATAC-CAGCACAA
58162231 TTTATTTTAT
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
75 1 0.01
76 62 0.58
77 9 0.08
78 35 0.33
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (76 bp):
CCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACAAAGCCTGCGGGATTTAACC
CAGATATAATT
Found at i:58162227 original size:40 final size:38
Alignment explanation
Indices: 58162059--58162230 Score: 181
Period size: 38 Copynumber: 4.5 Consensus size: 38
58162049 TTTAAACTCA
* * *
58162059 GATATAATAC-CAGCACCAGGCCTGCGGGATTTAACCCA
1 GATATAAT-CTCAGCACAAAGCCTGCGGGATTTAACCCG
*
58162097 GATATAAT-TCTAGCACGAAGCCTGCGGGATTTAACCCG
1 GATATAATCTC-AGCACAAAGCCTGCGGGATTTAACCCG
*
58162135 GATATATTAC-CAGCACAAAGCCTGCGGGATTTAACCCG
1 GATATAAT-CTCAGCACAAAGCCTGCGGGATTTAACCCG
* * *
58162173 GATATAAT-TCCAGCATATAGCCTGCGGGTCTTTAAGCCCG
1 GATATAATCT-CAGCACAAAGCCTGCGGG-ATTTAA-CCCG
*
58162213 GATACAATCTCAGCACAA
1 GATATAATCTCAGCACAA
58162231 TTTATTTTAT
Statistics
Matches: 113, Mismatches: 12, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
37 1 0.01
38 88 0.78
39 6 0.05
40 17 0.15
41 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (38 bp):
GATATAATCTCAGCACAAAGCCTGCGGGATTTAACCCG
Found at i:58165054 original size:40 final size:40
Alignment explanation
Indices: 58164943--58165121 Score: 183
Period size: 40 Copynumber: 4.5 Consensus size: 40
58164933 TTGAATGCTG
* *
58164943 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTA-AGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGA-T-ACTAAT
**
58164982 ATCCGGACTAAGAT-CCGAAGG--TTTGTGCGAGATACTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCCTTTGTGCGAGATACTAAT
58165021 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
* * ** *
58165061 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-TTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACT-AAT
58165101 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
58165122 ATTGAATGAG
Statistics
Matches: 123, Mismatches: 9, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
37 1 0.01
38 19 0.15
39 13 0.11
40 89 0.72
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
Found at i:58165078 original size:78 final size:80
Alignment explanation
Indices: 58164943--58165121 Score: 192
Period size: 78 Copynumber: 2.3 Consensus size: 80
58164933 TTGAATGCTG
* * *
58164943 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGG-TTT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGATTC
*
58165006 GTGCGAGATACT-AAT
66 GTGCGAG-TACTAAAA
**
58165021 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGG-
**
58165082 ATTCGTGCGAGTTTTAAAA
62 ATTCGTGCGAGTACTAAAA
58165101 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
58165122 ATTGAATGAG
Statistics
Matches: 86, Mismatches: 8, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
77 2 0.02
78 41 0.48
79 11 0.13
80 32 0.37
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGATTC
GTGCGAGTACTAAAA
Found at i:58165145 original size:39 final size:38
Alignment explanation
Indices: 58165022--58165171 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
58165012 GATACTAATT
* ** * *
58165022 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
58165062 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
58165101 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
58165141 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
58165172 GAGCTAAATC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:58172862 original size:40 final size:40
Alignment explanation
Indices: 58172778--58172961 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
58172768 TTGAATGCTG
* * * *
58172778 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
58172817 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
58172858 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
58172898 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
58172938 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
58172962 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:58172915 original size:80 final size:81
Alignment explanation
Indices: 58172778--58172958 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
58172768 TTGAATGCTG
* * *
58172778 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
58172842 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
58172858 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
58172919 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
58172938 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
58172959 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:58172982 original size:39 final size:38
Alignment explanation
Indices: 58172859--58173008 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
58172849 GTTATTAATT
* ** * *
58172859 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
58172899 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
58172938 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
58172978 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
58173009 GAGCTAAATC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:58175953 original size:40 final size:39
Alignment explanation
Indices: 58175869--58176050 Score: 160
Period size: 40 Copynumber: 4.6 Consensus size: 39
58175859 TTGAATGATG
* * *
58175869 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGA-T-ACTAAA
* *
58175909 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGATACTAAA
* * *
58175949 TCCGGGCTAAGCCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAAA
* *
58175988 TCCGGGTTAAGTCCCGAAGGCA-TT-TGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGATACTA-AA
*
58176027 -CCGGGCTATGTCCCGAA-GCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
58176051 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
37 3 0.03
38 29 0.24
39 38 0.32
40 39 0.32
41 10 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:58176057 original size:77 final size:78
Alignment explanation
Indices: 58175922--58176073 Score: 170
Period size: 77 Copynumber: 2.0 Consensus size: 78
58175912 GGACTAAGAT
* **
58175922 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCAAAGGCATTTGTGCGAGTTA-CTA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAG-TAGCTA
58175986 AATCCGGGTTAAGTC
65 AATCC-GGTTAAGTC
* * *
58176001 CCGAAGGCA-TT-TGCGAGTTACT-ATAACCGGGCTATGTCCCGAA-GCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTTGAACGAGTAGCT
*
58176062 ATATCCGGTTAA
64 AAATCCGGTTAA
58176074 ATTCCAAAGG
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
76 10 0.16
77 37 0.59
78 7 0.11
79 9 0.14
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTAGCTAA
ATCCGGTTAAGTC
Found at i:58179500 original size:45 final size:45
Alignment explanation
Indices: 58179427--58179535 Score: 132
Period size: 45 Copynumber: 2.4 Consensus size: 45
58179417 ATTAAGCTCA
* * *
58179427 TTGAGTTGGTCTGAGTT-GTGATATATGTG-AGAAATCCGAACTTG
1 TTGAGTTGGTCCGAGTTCATGATATATGTGAAG-AATCCGAACTCG
* * * *
58179471 TTGAGTTGGTCCAAGTTCATGATATATGTGAAGCATCTGAGCTCG
1 TTGAGTTGGTCCGAGTTCATGATATATGTGAAGAATCCGAACTCG
58179516 TTGAGTTGGTCCGAGTTCAT
1 TTGAGTTGGTCCGAGTTCAT
58179536 TATGGATACG
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
44 15 0.27
45 38 0.69
46 2 0.04
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.36
Consensus pattern (45 bp):
TTGAGTTGGTCCGAGTTCATGATATATGTGAAGAATCCGAACTCG
Found at i:58179565 original size:44 final size:48
Alignment explanation
Indices: 58179510--58179636 Score: 154
Period size: 52 Copynumber: 2.6 Consensus size: 48
58179500 GAAGCATCTG
*
58179510 AGCTCGTTGAGTTGGTCCGAGTTCATTATGGAT-A-C-GAG-CATCCA
1 AGCTCGTTGAGTTGGTCTGAGTTCATTATGGATGAGCAGAGACATCCA
* * *
58179554 AGCTCGTTGAGTTGGTCTGAGTTTATTATGGATGCGATGCATGTGACATCCG
1 AGCTCGTTGAGTTGGTCTGAGTTCATTATGGAT--GA-GCA-GAGACATCCA
58179606 AGCTCGTTGAGTTGGTCTGAGTTCATTATGG
1 AGCTCGTTGAGTTGGTCTGAGTTCATTATGG
58179637 TTGTATACAT
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
44 31 0.44
47 1 0.01
49 1 0.01
51 2 0.03
52 35 0.50
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.34
Consensus pattern (48 bp):
AGCTCGTTGAGTTGGTCTGAGTTCATTATGGATGAGCAGAGACATCCA
Found at i:58190741 original size:137 final size:136
Alignment explanation
Indices: 58190581--58190841 Score: 303
Period size: 137 Copynumber: 1.9 Consensus size: 136
58190571 TATATTATAA
* * * * *
58190581 GATATTTATATGATAAATAAATTAAATTATGACAAGTGTGTGATAAAAATAAAATAT-ATGTGTA
1 GATATTTATATGATAAATAAATTAAATAAAGACAAATGTATGAT--AAATAAAATATAAAGTGTA
* *
58190645 ATAAATATTATACATACATTTGTAATATA-TGTATGTATTTACTTATTATTTAAGTAAATATTAT
64 ATAAATA-TATACATACAATTGTAATATATTGTATGTAATTACTTATTATTTAAGTAAATATTAT
58190709 TATTAAATT
128 TATTAAATT
* *
58190718 GATA-TTATATTATGAAATAAATTAAATAAAGACAAATGTATGGTAAATAAAATATACAAGTGTA
1 GATATTTATATGAT-AAATAAATTAAATAAAGACAAATGTATGATAAATAAAATATA-AAGTGTA
* *** * * * *
58190782 ATACATATATTTGTACAATTGTAATATATTTTATTTAATTGCTTTTTATTTAAGTAAATA
64 ATAAATATATACATACAATTGTAATATATTGTATGTAATTACTTATTATTTAAGTAAATA
58190842 GATTTTTATA
Statistics
Matches: 103, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
135 11 0.11
136 25 0.24
137 67 0.65
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (136 bp):
GATATTTATATGATAAATAAATTAAATAAAGACAAATGTATGATAAATAAAATATAAAGTGTAAT
AAATATATACATACAATTGTAATATATTGTATGTAATTACTTATTATTTAAGTAAATATTATTAT
TAAATT
Found at i:58190945 original size:22 final size:23
Alignment explanation
Indices: 58190903--58190945 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
58190893 AATGATTTGG
*
58190903 TACAAGTGTAATAATATATATGC
1 TACAAGTGTAATAATAAATATGC
*
58190926 TACAAGTGTTA-AATAAATAT
1 TACAAGTGTAATAATAAATAT
58190946 TTGTTATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.35
Consensus pattern (23 bp):
TACAAGTGTAATAATAAATATGC
Found at i:58192436 original size:18 final size:18
Alignment explanation
Indices: 58192327--58192436 Score: 123
Period size: 18 Copynumber: 6.1 Consensus size: 18
58192317 TAAATAAAGA
**
58192327 TACTGAATAACTGACTAC
1 TACTGAATAACTGACTGT
*
58192345 TGCTGAATAACTGACTGT
1 TACTGAATAACTGACTGT
* *
58192363 TACTGGATAACTGACTGC
1 TACTGAATAACTGACTGT
* *
58192381 TACTGAATAATTGATTGT
1 TACTGAATAACTGACTGT
* *
58192399 TACTGAATAATTTA-TCGT
1 TACTGAATAACTGACT-GT
58192417 TACTGAATAACTGACTGT
1 TACTGAATAACTGACTGT
58192435 TA
1 TA
58192437 AAGAGTGATT
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
17 1 0.01
18 75 0.97
19 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.35
Consensus pattern (18 bp):
TACTGAATAACTGACTGT
Found at i:58196668 original size:51 final size:51
Alignment explanation
Indices: 58196610--58196726 Score: 197
Period size: 47 Copynumber: 2.4 Consensus size: 51
58196600 TATTTGAATA
58196610 AATGTGAAAGTGTATATATATATGTGATAAGGCATAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATATGTGATAAGGCATAATGGCCGATGTGATG
*
58196661 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATATGTGATAAGGCATAATGGCCGATGTGATG
58196708 AATGTGAAAGTGTATATAT
1 AATGTGAAAGTGTATATAT
58196727 GTGACAGGGC
Statistics
Matches: 61, Mismatches: 1, Indels: 8
0.87 0.01 0.11
Matches are distributed among these distances:
47 46 0.75
51 15 0.25
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (51 bp):
AATGTGAAAGTGTATATATATATGTGATAAGGCATAATGGCCGATGTGATG
Found at i:58196695 original size:47 final size:47
Alignment explanation
Indices: 58196626--58196781 Score: 231
Period size: 47 Copynumber: 3.3 Consensus size: 47
58196616 AAAGTGTATA
*
58196626 TATATATGTGATAAGGCATAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
58196673 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
58196720 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
58196767 TATAAATGTGATAAG
1 TATATATGTGATAAG
58196782 TCCCGAAGGG
Statistics
Matches: 98, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 98 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:58198598 original size:14 final size:14
Alignment explanation
Indices: 58198579--58198609 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
58198569 TGCTACTATT
58198579 TTACTATTATGTTG
1 TTACTATTATGTTG
*
58198593 TTACTATTTTGTTG
1 TTACTATTATGTTG
58198607 TTA
1 TTA
58198610 TTGTTTGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.61
Consensus pattern (14 bp):
TTACTATTATGTTG
Found at i:58198674 original size:30 final size:30
Alignment explanation
Indices: 58198640--58198701 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
58198630 ACTTATTTTA
58198640 TTGTTAATTTTGTTATTATTTTAAAGAGAT
1 TTGTTAATTTTGTTATTATTTTAAAGAGAT
* *
58198670 TTGTTAATTTTGTTATTATTTTAGAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGAGAT
58198700 TT
1 TT
58198702 TCTTGTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGAGAT
Found at i:58201187 original size:13 final size:13
Alignment explanation
Indices: 58201169--58201194 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58201159 GCATTTTCCA
58201169 TTATTTATCAGTT
1 TTATTTATCAGTT
58201182 TTATTTATCAGTT
1 TTATTTATCAGTT
58201195 ACACATATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (13 bp):
TTATTTATCAGTT
Found at i:58205972 original size:41 final size:41
Alignment explanation
Indices: 58205913--58205995 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
58205903 GCTGGTAAAA
58205913 GTATGTAAGAAAAACTCATCTAAATGACCTCGGTATGTGAT
1 GTATGTAAGAAAAACTCATCTAAATGACCTCGGTATGTGAT
* *
58205954 GTATGTACGAAAAGCTCATCTAAATGACCTCGGTATGTGAT
1 GTATGTAAGAAAAACTCATCTAAATGACCTCGGTATGTGAT
58205995 G
1 G
58205996 AACTTTTGGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (41 bp):
GTATGTAAGAAAAACTCATCTAAATGACCTCGGTATGTGAT
Found at i:58212255 original size:15 final size:15
Alignment explanation
Indices: 58212235--58212264 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
58212225 TAAGAGGGGA
58212235 GAATTGTAACATCCT
1 GAATTGTAACATCCT
58212250 GAATTGTAACATCCT
1 GAATTGTAACATCCT
58212265 AAGGGGGGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (15 bp):
GAATTGTAACATCCT
Found at i:58217941 original size:76 final size:76
Alignment explanation
Indices: 58217860--58218009 Score: 264
Period size: 76 Copynumber: 2.0 Consensus size: 76
58217850 AATATTTACG
* *
58217860 AAGTTAATTGAGTGGTTTATTTGATTTTAGTTAGGTAAATTAGCTTAAAATAAGGTTAATTAGAT
1 AAGTTAATTGAGTGGTTAATTAGATTTTAGTTAGGTAAATTAGCTTAAAATAAGGTTAATTAGAT
*
58217925 ATAAGGACTCA
66 ATAAAGACTCA
*
58217936 AAGTTAATTGAGTGGTTAATTAGATTTTAGTTAGGTAAATTAGCTTAAAATAAGGTTAATTTGAT
1 AAGTTAATTGAGTGGTTAATTAGATTTTAGTTAGGTAAATTAGCTTAAAATAAGGTTAATTAGAT
58218001 ATAAAGACT
66 ATAAAGACT
58218010 AGATTGAATA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.39
Consensus pattern (76 bp):
AAGTTAATTGAGTGGTTAATTAGATTTTAGTTAGGTAAATTAGCTTAAAATAAGGTTAATTAGAT
ATAAAGACTCA
Found at i:58219443 original size:18 final size:18
Alignment explanation
Indices: 58219421--58219470 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
58219411 TGAATGGCTA
*
58219421 ATTGTTACTGAATAATTG
1 ATTGTTACTGAATAACTG
* *
58219439 TTTGTTACTGAATGACTG
1 ATTGTTACTGAATAACTG
*
58219457 ATTGTTGCTGAATA
1 ATTGTTACTGAATA
58219471 TCGAACAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (18 bp):
ATTGTTACTGAATAACTG
Found at i:58230764 original size:43 final size:43
Alignment explanation
Indices: 58230681--58230837 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
58230671 CTGAGACATT
* * * *
58230681 GTGTAAGACCGTGTCTCGGACA-CAGGCCTCGAT-TGAGATTTAC
1 GTGTAAGACCATGTCTGGGACATC-GGCATCGATAT-TGATTTAC
*
58230724 GTATAAGACCATGTCTGGGACATCGGCATCG-TATCTGATTT-C
1 GTGTAAGACCATGTCTGGGACATCGGCATCGATAT-TGATTTAC
* ** *
58230766 GTGTAAGACCTTGTCTGGGACAGAGGCATCGATATTGAATTAC
1 GTGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTAC
* * *
58230809 ATGTAAAACCATGTCTAGGACATCGGCAT
1 GTGTAAGACCATGTCTGGGACATCGGCAT
58230838 TGTACTTGTT
Statistics
Matches: 93, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 34 0.37
43 58 0.62
44 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTAC
Found at i:58230820 original size:85 final size:85
Alignment explanation
Indices: 58230681--58230837 Score: 210
Period size: 85 Copynumber: 1.8 Consensus size: 85
58230671 CTGAGACATT
* * * *
58230681 GTGTAAGACCGTGTCTCGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGACA
1 GTGTAAGACCGTGTCTCGGACACAGGCATCGATTGAGATTTACATATAAAACCATGTCTAGGACA
58230746 TCGGCATCGTATCTGATTTC
66 TCGGCATCGTATCTGATTTC
* * * *
58230766 GTGTAAGACCTTGTCTGGGACAGAGGCATCGATATTGA-A-TTACATGTAAAACCATGTCTAGGA
1 GTGTAAGACCGTGTCTCGGACACAGGCATCG--ATTGAGATTTACATATAAAACCATGTCTAGGA
58230829 CATCGGCAT
64 CATCGGCAT
58230838 TGTACTTGTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 56 0.90
86 1 0.02
87 5 0.08
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (85 bp):
GTGTAAGACCGTGTCTCGGACACAGGCATCGATTGAGATTTACATATAAAACCATGTCTAGGACA
TCGGCATCGTATCTGATTTC
Found at i:58236283 original size:25 final size:25
Alignment explanation
Indices: 58236249--58236374 Score: 119
Period size: 25 Copynumber: 5.0 Consensus size: 25
58236239 CTTAATGACG
* * *
58236249 TTACATATAACTCACCAAAAAGGCT
1 TTACAGATAACTCGCCACAAAGGCT
* * * * *
58236274 TTTCTGATAATTCGTCACAAAAGCT
1 TTACAGATAACTCGCCACAAAGGCT
* *
58236299 TTACAAATAACTTGCCACAAAGGCTT
1 TTACAGATAACTCGCCACAAAGGC-T
* *
58236325 TTA-TGATAATTCGCCACAAAGGCT
1 TTACAGATAACTCGCCACAAAGGCT
*
58236349 TTACAGATAACTTGCCACAAAGGCT
1 TTACAGATAACTCGCCACAAAGGCT
58236374 T
1 T
58236375 GGACTGATTT
Statistics
Matches: 77, Mismatches: 22, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
24 4 0.05
25 69 0.90
26 4 0.05
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.29
Consensus pattern (25 bp):
TTACAGATAACTCGCCACAAAGGCT
Found at i:58236303 original size:50 final size:50
Alignment explanation
Indices: 58236249--58236374 Score: 180
Period size: 50 Copynumber: 2.5 Consensus size: 50
58236239 CTTAATGACG
* ** * * *
58236249 TTACATATAACTCACCAAAAAGGCTTTTCTGATAATTCGTCACAAAAGCT
1 TTACAAATAACTTGCCACAAAGGCTTTTATGATAATTCGCCACAAAAGCT
*
58236299 TTACAAATAACTTGCCACAAAGGCTTTTATGATAATTCGCCACAAAGGCT
1 TTACAAATAACTTGCCACAAAGGCTTTTATGATAATTCGCCACAAAAGCT
*
58236349 TTACAGATAACTTGCCACAAAGGCTT
1 TTACAAATAACTTGCCACAAAGGCTT
58236375 GGACTGATTT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 68 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.29
Consensus pattern (50 bp):
TTACAAATAACTTGCCACAAAGGCTTTTATGATAATTCGCCACAAAAGCT
Found at i:58244544 original size:39 final size:40
Alignment explanation
Indices: 58244444--58244628 Score: 182
Period size: 40 Copynumber: 4.7 Consensus size: 40
58244434 TCGAATGATG
* * *
58244444 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
58244483 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTAGTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * * *
58244524 TTCGGGCTAAG-CCCGAAGGCATTGGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
58244563 TCCGGGTTTAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
58244602 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
58244629 AACGAGTAGC
Statistics
Matches: 118, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
39 32 0.27
40 76 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:58244661 original size:79 final size:79
Alignment explanation
Indices: 58244497--58244653 Score: 185
Period size: 79 Copynumber: 2.0 Consensus size: 79
58244487 GGACTAAGAT
* ** *
58244497 CCGAAGGCATTTGTGCGAGTTAGTAATTTCGGGCTAAGCCCGAAGGCATTGGTACGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
* *
58244562 ATCCGGGTTTAGTC
66 ATCCGGGTTAAATC
* *
58244576 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
58244639 TATATCC-GGTTAAAT
63 TAAATCCGGGTTAAAT
58244654 TCTGAAGGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 39 0.59
80 25 0.38
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:58261700 original size:47 final size:47
Alignment explanation
Indices: 58261512--58262815 Score: 1597
Period size: 47 Copynumber: 27.9 Consensus size: 47
58261502 AGTATGGCGT
58261512 ATGGCCGATGTGATGAATGTG-AA-TG-ATATATGTGA-AAGGCCTA
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
58261555 AT-G-CGATGTGATGAATGTG-AA--G--TATAT-TGATAAGGCCTA
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
58261594 ATGG-CGATGTGATGAATGTG-AAGTGTATATATGTGATAA-GCCTA
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
*
58261638 ATGGCCGATGTGATGAATGTGGAAGTGTATATATGTGATAAGGCCTA
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
* *
58261685 ATGGCCGATGTGATGAATGTGAGAGTGTATA-ATGTGATAAGGCATA
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
* *
58261731 A-AGCCGATGTGATGAATGTGGAAGTGTA-ATAT-TCGATAAAGGCCTA
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGT-GAT-AAGGCCTA
*
58261777 AT-GTCGAT-TGATG-ATGTGAAAGTGTATATACTGTGATAA-GCCTA
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATA-TGTGATAAGGCCTA
** * *
58261821 ATATCCG-TGTGATGAACGTG-AAGTGTATATATATGTGATAAGGCATA
1 ATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTA
*
58261868 ATGGCCGATGTGATGAACTGTGAAAGTGTATATA-ATGATAAGGCCTA
1 ATGGCCGATGTGATGAA-TGTGAAAGTGTATATATGTGATAAGGCCTA
*
58261915 ATGG-CGATGTGATGAATGTGAAAGTAGTATAATATGTGATTAAGCGCATA
1 ATGGCCGATGTGATGAATGTGAAAGT-GTAT-ATATGTGA-TAAG-GCCTA
58261965 ATGG-CGATAGTCGATGAATGTGAAAGTGTAT-TATGTGATAAGGCCTA
1 ATGGCCGAT-GT-GATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
58262012 ATGGCCGATG-GATG-ATGTGAAAGTGTATATATGTGATAAGGCCTA
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
58262057 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGT-ATAAGG-CTA
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
58262102 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
58262149 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
*
58262196 ATGG-CGAT-TGATGAATGTGAAAGTATATATATGTGAT-AGGCCTA
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
58262240 ATGGCCGA-GTGATGAATGTGAAAGTGTATATAT-TGATAAGGCCTA
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
*
58262285 ATGGCCGATGTGATGAAAGTGAAAGTGTATATATATGTGATAAGGCCTA
1 ATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTA
** *
58262334 ATGGCCGATGTGATGAATGTGATGGCCGATGTGATGA-ATGTGAAAGTTATATGTG-ATA
1 ATGGCCGATGTGATGAATGTGA---AAG-TGT-AT-ATATGTG--A--TA-A-G-GCCTA
* * * * * * * **
58262392 A-GGCCTAATGGCCGATG--TGATGAATGTGAAAGTGTATATATG-TGATAAGGCCT
1 ATGGCC-GAT-G-TGATGAATG-TGAAAGT----GTATATATGTGAT-A-AGGCCTA
58262445 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
58262492 ATGGCCGATGTGATGAATGTGAAAAGTGTATATATGTGATAAGGCCTA
1 ATGGCCGATGTGATGAATGTG-AAAGTGTATATATGTGATAAGGCCTA
58262540 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGGCCTA
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA-GGCCTA
58262588 ATGGCCGATGTGATG-ATGTGAAAGTGTATATATATGTGATAAGGCCTA
1 ATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTA
58262636 AT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG-CTA
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
58262681 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
* * *
58262728 AT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGA
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
* * * * *
58262774 GTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
58262816 TCCCGAAGGG
Statistics
Matches: 1122, Mismatches: 57, Indels: 160
0.84 0.04 0.12
Matches are distributed among these distances:
38 3 0.00
39 15 0.01
40 20 0.02
41 18 0.02
42 2 0.00
43 2 0.00
44 65 0.06
45 225 0.20
46 214 0.19
47 256 0.23
48 130 0.12
49 62 0.06
50 17 0.02
51 11 0.01
52 31 0.03
53 9 0.01
54 8 0.01
55 1 0.00
56 3 0.00
57 6 0.01
58 13 0.01
59 7 0.01
60 4 0.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
Found at i:58261701 original size:92 final size:94
Alignment explanation
Indices: 58261512--58262815 Score: 1785
Period size: 92 Copynumber: 13.9 Consensus size: 94
58261502 AGTATGGCGT
58261512 ATGGCCGATGTGATGAATGTG-AA-TG-ATATATGTGA-AAGGCCTAAT-G-CGATGTGATGAAT
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
58261571 GTG-AA--G--TATAT-TGATAAGGCCTA
66 GTGAAAGTGTATATATGTGATAAGGCCTA
58261594 ATGG-CGATGTGATGAATGTG-AAGTGTATATATGTGATAA-GCCTAATGGCCGATGTGATGAAT
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
58261656 GTGGAAGTGTATATATGTGATAAGGCCTA
66 GTGAAAGTGTATATATGTGATAAGGCCTA
* * *
58261685 ATGGCCGATGTGATGAATGTGAGAGTGTATA-ATGTGATAAGGCATAA-AGCCGATGTGATGAAT
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
58261748 GTGGAAGTGTA-ATAT-TCGATAAAGGCCTA
66 GTGAAAGTGTATATATGT-GAT-AAGGCCTA
* **
58261777 AT-GTCGAT-TGATG-ATGTGAAAGTGTATATACTGTGATAA-GCCTAATATCCG-TGTGATGAA
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATA-TGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
58261837 CGTG-AAGTGTATATATATGTGATAAGGCATA
65 TGTGAAAGTG--TATATATGTGATAAGGCCTA
*
58261868 ATGGCCGATGTGATGAACTGTGAAAGTGTATATA-ATGATAAGGCCTAATGG-CGATGTGATGAA
1 ATGGCCGATGTGATGAA-TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
58261931 TGTGAAAGTAGTATAATATGTGATTAAGCGCATA
65 TGTGAAAGT-GTAT-ATATGTGA-TAAG-GCCTA
58261965 ATGG-CGATAGTCGATGAATGTGAAAGTGTAT-TATGTGATAAGGCCTAATGGCCGATG-GATG-
1 ATGGCCGAT-GT-GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
58262026 ATGTGAAAGTGTATATATGTGATAAGGCCTA
64 ATGTGAAAGTGTATATATGTGATAAGGCCTA
58262057 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGT-ATAAGG-CTAATGGCCGATGTGATGAAT
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
58262120 GTGAAAGTGTATATATGTGATAAGGCCTA
66 GTGAAAGTGTATATATGTGATAAGGCCTA
58262149 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG-CGAT-TGATGAAT
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
58262212 GTGAAAGTATATATATGTGAT-AGGCCTA
66 GTGAAAGTGTATATATGTGATAAGGCCTA
*
58262240 ATGGCCGA-GTGATGAATGTGAAAGTGTATATAT-TGATAAGGCCTAATGGCCGATGTGATGAAA
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
58262303 GTGAAAGTGTATATATATGTGATAAGGCCTA
66 GTGAAAGTG--TATATATGTGATAAGGCCTA
58262334 ATGGCCGATGTGATGAATGTGATGGCCGATGTGATGAATGTGAAAGTTATATGTGATAAGGCCTA
1 ATGGCCGATGTGATGAATGTGA------A----A-G--TGT-A----TATATGTGATAAGGCCTA
58262399 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT-
48 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
58262445 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
58262510 GTGAAAAGTGTATATATGTGATAAGGCCTA
66 GTG-AAAGTGTATATATGTGATAAGGCCTA
58262540 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGGCCTAATGGCCGATGTGATG-A
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA-GGCCTAATGGCCGATGTGATGAA
58262604 TGTGAAAGTGTATATATATGTGATAAGGCCTA
65 TGTGAAAGTG--TATATATGTGATAAGGCCTA
58262636 AT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG-CTAATGGCCGATGTGATGAAT
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
58262699 GTGAAAGTGTATATATGTGATAAGGCCTA
66 GTGAAAGTGTATATATGTGATAAGGCCTA
* * * * * * *
58262728 AT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGAT
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
58262792 GTGAAAGTGTATAAATGTGATAAG
66 GTGAAAGTGTATATATGTGATAAG
58262816 TCCCGAAGGG
Statistics
Matches: 1118, Mismatches: 28, Indels: 141
0.87 0.02 0.11
Matches are distributed among these distances:
81 18 0.02
82 6 0.01
83 17 0.02
84 3 0.00
85 16 0.01
86 2 0.00
88 1 0.00
89 35 0.03
90 71 0.06
91 110 0.10
92 243 0.22
93 153 0.14
94 97 0.09
95 129 0.12
96 64 0.06
97 45 0.04
98 14 0.01
100 1 0.00
101 2 0.00
105 2 0.00
106 1 0.00
108 3 0.00
109 1 0.00
111 22 0.02
112 19 0.02
113 5 0.00
114 38 0.03
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (94 bp):
ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
GTGAAAGTGTATATATGTGATAAGGCCTA
Found at i:58262347 original size:22 final size:21
Alignment explanation
Indices: 58262319--58262415 Score: 63
Period size: 22 Copynumber: 4.5 Consensus size: 21
58262309 GTGTATATAT
58262319 ATGTGAT-AAGGCCTAATGGCCG
1 ATGTGATGAAGG--TAATGGCCG
* *
58262341 ATGTGATGAATGTGATGGCCG
1 ATGTGATGAAGGTAATGGCCG
* * ****
58262362 ATGTGATGAATGTGAAAGTTAT
1 ATGTGATGAAGGT-AATGGCCG
58262384 ATGTGAT-AAGGCCTAATGGCCG
1 ATGTGATGAAGG--TAATGGCCG
58262406 ATGTGATGAA
1 ATGTGATGAA
58262416 TGTGAAAGTG
Statistics
Matches: 56, Mismatches: 14, Indels: 9
0.71 0.18 0.11
Matches are distributed among these distances:
21 24 0.43
22 26 0.46
23 6 0.11
ACGTcount: A:0.30, C:0.10, G:0.32, T:0.28
Consensus pattern (21 bp):
ATGTGATGAAGGTAATGGCCG
Found at i:58262360 original size:21 final size:21
Alignment explanation
Indices: 58262334--58262376 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
58262324 ATAAGGCCTA
58262334 ATGGCCGATGTGATGAATGTG
1 ATGGCCGATGTGATGAATGTG
58262355 ATGGCCGATGTGATGAATGTG
1 ATGGCCGATGTGATGAATGTG
58262376 A
1 A
58262377 AAGTTATATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.09, G:0.37, T:0.28
Consensus pattern (21 bp):
ATGGCCGATGTGATGAATGTG
Found at i:58262405 original size:65 final size:68
Alignment explanation
Indices: 58262285--58262420 Score: 224
Period size: 65 Copynumber: 2.0 Consensus size: 68
58262275 ATAAGGCCTA
58262285 ATGGCCGATGTGATGAAAGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGGCCGATGTGATGAAAGTGAAAG-G-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
58262350 ATGTG
64 ATGTG
*
58262355 ATGGCCGATGTGATGAATGTGAAA-G-T-TATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 ATGGCCGATGTGATGAAAGTGAAAGGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
58262417 GTG
66 GTG
58262420 A
1 A
58262421 AAGTGTATAT
Statistics
Matches: 65, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
65 40 0.62
66 1 0.02
68 1 0.02
70 23 0.35
ACGTcount: A:0.31, C:0.09, G:0.32, T:0.29
Consensus pattern (68 bp):
ATGGCCGATGTGATGAAAGTGAAAGGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
GTG
Found at i:58262406 original size:114 final size:112
Alignment explanation
Indices: 58262240--58262466 Score: 386
Period size: 114 Copynumber: 2.0 Consensus size: 112
58262230 GATAGGCCTA
*
58262240 ATGGCCGAGTGATGAATGTGAAAGTGTATATATTGATAAGGCCTAATGGCCGATGTGATGAAAGT
1 ATGGCCGAGTGATGAATGTGAAAGTGTATATAGTGATAAGGCCTAATGGCCGATGTGATGAAAGT
58262305 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
66 GAAAGTG--TATATATGTGATAAGGCCT-ATGGCCGATGTGATGAATGTG
*
58262355 ATGGCCGATGTGATGAATGTGAAAGT-TATAT-GTGATAAGGCCTAATGGCCGATGTGATGAATG
1 ATGGCCGA-GTGATGAATGTGAAAGTGTATATAGTGATAAGGCCTAATGGCCGATGTGATGAAAG
58262418 TGAAAGTGTATATATGTGATAAGGCCTATGGCCGATGTGATGAATGTG
65 TGAAAGTGTATATATGTGATAAGGCCTATGGCCGATGTGATGAATGTG
58262466 A
1 A
58262467 AAGTGTATAT
Statistics
Matches: 109, Mismatches: 2, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
111 22 0.20
112 19 0.17
114 38 0.35
115 13 0.12
116 17 0.16
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (112 bp):
ATGGCCGAGTGATGAATGTGAAAGTGTATATAGTGATAAGGCCTAATGGCCGATGTGATGAAAGT
GAAAGTGTATATATGTGATAAGGCCTATGGCCGATGTGATGAATGTG
Found at i:58262526 original size:206 final size:206
Alignment explanation
Indices: 58262149--58262748 Score: 905
Period size: 206 Copynumber: 3.0 Consensus size: 206
58262139 ATAAGGCCTA
58262149 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG-CGAT-TGATGAAT
1 ATGGCCGATGTGATGAATGTGAAA--GT-TATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
58262212 GTGAAAGTATATATATGTGAT-AGGCCTAATGGCCGA-GTGATGAATGTGAAAGTGTATATAT-T
63 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
*
58262274 GATAAGGCCTAATGGCCGATGTGATGAAAGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
128 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
58262339 CGATGTGATGAATGTG
191 CGATGTGATGAATGTG
58262355 ATGGCCGATGTGATGAATGTGAAAGTTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 ATGGCCGATGTGATGAATGTGAAAGTTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
58262420 AAAGTGTATATATGTGATAAGGCCT-ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
66 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
58262484 AAGGCCTAATGGCCGATGTGATGAATGTGAAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
131 AAGGCCTAATGGCCGATGTGATGAATGTG-AAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
58262549 GTGATGAATGTG
195 GTGATGAATGTG
58262561 A------A----A-G--TGT---A--TATATGTGATAAGGGCCTAATGGCCGATGTGATG-ATGT
1 ATGGCCGATGTGATGAATGTGAAAGTTATATGTGATAA-GGCCTAATGGCCGATGTGATGAATGT
58262607 GAAAGTGTATATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGT
65 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
58262671 GATAAGG-CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCG
128 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
58262734 ATGTGATGAATGTG
193 ATGTGATGAATGTG
58262748 A
1 A
58262749 AAGTGTATAT
Statistics
Matches: 382, Mismatches: 2, Indels: 39
0.90 0.00 0.09
Matches are distributed among these distances:
187 19 0.05
188 51 0.13
189 45 0.12
190 60 0.16
191 2 0.01
193 3 0.01
195 1 0.00
196 1 0.00
200 1 0.00
203 22 0.06
204 6 0.02
205 36 0.09
206 97 0.25
207 32 0.08
208 6 0.02
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (206 bp):
ATGGCCGATGTGATGAATGTGAAAGTTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG
TGATGAATGTG
Found at i:58262986 original size:36 final size:37
Alignment explanation
Indices: 58262932--58263008 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
58262922 CCGAGCTCTA
* *
58262932 AAGA-CCGATGACTACGTGTGG-GATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
58262967 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
58263004 AAGAC
1 AAGAC
58263009 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 4 0.11
36 15 0.41
37 18 0.49
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:58264581 original size:40 final size:40
Alignment explanation
Indices: 58264220--58264563 Score: 532
Period size: 40 Copynumber: 8.7 Consensus size: 40
58264210 GAGAATTGAG
58264220 AGTGATATATCCGGGCTAAGT-CCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
58264259 AGTGATATATCCGGGCTAAGT-CCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
58264298 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
58264338 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
58264378 AGTGATATATCCGGGCTATGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
58264418 AGTGATATATCCGGGTTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
58264458 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * * *
58264498 AGTAATATATCTGTGCTAA-ACCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCC-CGAGGAGCATTCGTGCT
* * *
58264538 GGTGTTATATCCGGGCTAGGTCCCGA
1 AGTGATATATCCGGGCTAAGTCCCGA
58264564 AGAGTAATCA
Statistics
Matches: 280, Mismatches: 22, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
39 61 0.22
40 217 0.77
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:58268028 original size:47 final size:47
Alignment explanation
Indices: 58267969--58268673 Score: 1252
Period size: 47 Copynumber: 14.9 Consensus size: 47
58267959 TAGTATGGCG
58267969 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
58268016 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
58268063 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
58268110 TAATGGCCGATGTGATGAATGTG-AAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
58268156 TAATGGCCGATGTGATGAATGTGGAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
58268203 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
58268250 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
58268297 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
58268344 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
58268391 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT-AGAGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAG-GCC
58268440 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
58268489 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
58268536 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
58268583 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
58268630 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
58268674 TCCCGAAGGG
Statistics
Matches: 638, Mismatches: 15, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
46 46 0.07
47 498 0.78
48 2 0.00
49 90 0.14
50 2 0.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:58268848 original size:37 final size:37
Alignment explanation
Indices: 58268792--58268870 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
58268782 CCGAGCTCTA
* * *
58268792 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
58268829 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
58268866 AAGAC
1 AAGAC
58268871 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:58280343 original size:57 final size:57
Alignment explanation
Indices: 58280208--58280405 Score: 222
Period size: 57 Copynumber: 3.5 Consensus size: 57
58280198 CTTATTATAG
* * * *
58280208 AAAGGATTTAGCCTGGACGGGTAATCCTGATAT-AA-TCCCTCTTGAGCATATGTTACA-
1 AAAGGATTTAGCCTGGACTGGTAATCCTAAT-TGAACT-CTTC-TGAGCATACGTTACAT
* * * *
58280265 ATTATGATTTAACCTGGACTGGTAATCCTAATTGAGCTCTTCTGAGCATACGTTACAT
1 A-AAGGATTTAGCCTGGACTGGTAATCCTAATTGAACTCTTCTGAGCATACGTTACAT
* * *
58280323 AAAGGATTTAGCCTGAACTGGTATTCCTAATTGAACTCTTCTGAGCATACATTACAT
1 AAAGGATTTAGCCTGGACTGGTAATCCTAATTGAACTCTTCTGAGCATACGTTACAT
* *
58280380 AAAGGATTTAGCCTGGAATAGTAATC
1 AAAGGATTTAGCCTGGACTGGTAATC
58280406 TTGTAATACG
Statistics
Matches: 118, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
57 87 0.74
58 30 0.25
59 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (57 bp):
AAAGGATTTAGCCTGGACTGGTAATCCTAATTGAACTCTTCTGAGCATACGTTACAT
Found at i:58281605 original size:21 final size:22
Alignment explanation
Indices: 58281579--58281622 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
58281569 CGACCTGCAG
58281579 CACGGGCGTG-TCCTTGGACCA
1 CACGGGCGTGTTCCTTGGACCA
58281600 CACGGGCGTGTTCCTTGGACCA
1 CACGGGCGTGTTCCTTGGACCA
58281622 C
1 C
58281623 CTGGGCATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.14, C:0.34, G:0.32, T:0.20
Consensus pattern (22 bp):
CACGGGCGTGTTCCTTGGACCA
Found at i:58284162 original size:17 final size:16
Alignment explanation
Indices: 58284136--58284167 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
58284126 TGTAAAAGTT
58284136 ATGTTCTAATAGCTAA
1 ATGTTCTAATAGCTAA
58284152 ATGTGTCTAATAGCTA
1 ATGT-TCTAATAGCTA
58284168 TATAACTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (16 bp):
ATGTTCTAATAGCTAA
Found at i:58288849 original size:46 final size:44
Alignment explanation
Indices: 58288655--58288878 Score: 191
Period size: 46 Copynumber: 4.8 Consensus size: 44
58288645 ATTTGTTTGT
* ** *
58288655 GAGCTAGTGTAAGACATGTTTGGGACATGTGTCGGCTAC-ATTATGA
1 GAGC-AGTGTAAGACATGTCTGGGACATGCATCGGCT-CGA-GATGA
* *
58288701 GAGGCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAGACGA
1 GA-GCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TCGAGATGA
* * * *
58288749 GAGCTAGTGTAAGACATGTATGGGACATGCATCAGCCTCAAGGTGTA
1 GAGC-AGTGTAAGACATGTCTGGGACATGCATC-GGCTCGAGATG-A
*
58288796 -AGCCAGTGTAAGACATGTCTGGGACATGCATTGGCTACGAGATGA
1 GAG-CAGTGTAAGACATGTCTGGGACATGCATCGGCT-CGAGATGA
*
58288841 TAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GAG-CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
58288879 ACCTTACCCA
Statistics
Matches: 146, Mismatches: 19, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
45 4 0.03
46 65 0.45
47 48 0.33
48 27 0.18
49 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (44 bp):
GAGCAGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGATGA
Found at i:58288866 original size:93 final size:95
Alignment explanation
Indices: 58288705--58288875 Score: 235
Period size: 93 Copynumber: 1.8 Consensus size: 95
58288695 TTATGAGAGG
*
58288705 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAGACGAGAGCTAGTGTAAGACATGTAT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTCGAGACGAGAGCTAGTGTAAGACATGTAT
58288770 GGGACAT-GCATCAGCCTCAAGGTGTAAGC
66 GGGACATGGCATCAGCCTCAAGGTGTAAGC
* * *
58288799 CAGTGTAAGA-CATGTCTGGGACAT-GCATTGGC-TACGAGATGATAG-TCAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT-CGAGACGAGAGCT-AGTGTAAGA-CATG
*
58288860 TCTGGGACATGGCATC
63 TATGGGACATGGCATC
58288876 GGCACCTTAC
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
91 2 0.03
92 24 0.35
93 27 0.40
94 15 0.22
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (95 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTCGAGACGAGAGCTAGTGTAAGACATGTAT
GGGACATGGCATCAGCCTCAAGGTGTAAGC
Found at i:58307834 original size:28 final size:29
Alignment explanation
Indices: 58307803--58307857 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
58307793 ACGAGTGACA
58307803 ACACGAGCGTG-TCTAAGCCATGTGAAGT
1 ACACGAGCGTGTTCTAAGCCATGTGAAGT
* * *
58307831 ACACGGGCGTGTTCTCAGCCGTGTGAA
1 ACACGAGCGTGTTCTAAGCCATGTGAA
58307858 AACCCTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 10 0.43
29 13 0.57
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.22
Consensus pattern (29 bp):
ACACGAGCGTGTTCTAAGCCATGTGAAGT
Found at i:58323637 original size:49 final size:49
Alignment explanation
Indices: 58323352--58323655 Score: 170
Period size: 46 Copynumber: 6.4 Consensus size: 49
58323342 TATGTGAGCC
* * * *
58323352 AGTGTAAGACATGTCTGGGACAT-GCATC-GAC-C-AAATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGATA-TATGAAAGCT
* * * * * *** *
58323398 AGTGTAAGACATTTTTGGGACAT-GCATCGGCATTG--AGCCGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGATATATGAAAGCT
* **
58323444 AGTGTAAGACATGTCTGGGACAT-GTATCAGCCTCGGGATAT-ACAAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGATATATGA-AAGCT
* * * * * * * *
58323492 AGTGTAAGACCTATCTAGGACATGGCCTCAG-CTTG-T-TGTG--TGTT
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGATATATGAAAGCT
* * * * * *
58323536 AATGTAAGACTTGTCTGAGACATGGCATCAACACT-GATAGATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCAGC-CTCGATATATGAAAGCT
* * *
58323585 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTT
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGATATATGAAAGCT
*
58323634 AGTGTAAGACATGTTTGGGACA
1 AGTGTAAGACATGTCTGGGACA
58323656 CGACATCGAC
Statistics
Matches: 193, Mismatches: 50, Indels: 27
0.71 0.19 0.10
Matches are distributed among these distances:
44 26 0.13
45 1 0.01
46 66 0.34
47 5 0.03
48 30 0.16
49 65 0.34
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (49 bp):
AGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGATATATGAAAGCT
Found at i:58340683 original size:28 final size:27
Alignment explanation
Indices: 58340626--58340777 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
58340616 TAAATTGTGC
*
58340626 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
58340653 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
58340681 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
58340708 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
58340736 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
58340763 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
58340778 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:58340690 original size:55 final size:55
Alignment explanation
Indices: 58340626--58340777 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
58340616 TAAATTGTGC
*
58340626 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
58340681 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
58340736 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
58340778 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:58348840 original size:40 final size:40
Alignment explanation
Indices: 58348756--58348981 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
58348746 TTGAATGATG
* * * *
58348756 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
58348796 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58348836 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58348875 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58348915 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
58348956 -CCGGGCTATGTCCCTGAAGGCATTTG
1 TCCGGGCTAAGTCCC-GAAGGCATTTG
58348982 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
39 33 0.20
40 109 0.67
41 21 0.13
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:58348892 original size:79 final size:80
Alignment explanation
Indices: 58348756--58348981 Score: 280
Period size: 79 Copynumber: 2.8 Consensus size: 80
58348746 TTGAATGATG
* * * * * *
58348756 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGTAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
*
58348819 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
* *
58348836 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
*
58348900 GTGCGAGTTACTAAA
66 GTGCGAGATACTAAA
* *
58348915 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCTGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCC-GAAGGCAT
58348979 TTG
64 TTG
58348982 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
78 1 0.01
79 59 0.46
80 54 0.43
81 13 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:58349003 original size:80 final size:79
Alignment explanation
Indices: 58348795--58349004 Score: 214
Period size: 80 Copynumber: 2.6 Consensus size: 79
58348785 AAGTGACCAT
* * ** * *
58348795 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGAT-ACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGCCCGAAGGCAT
58348858 TGGTGCGAGTTACTAA
64 TGGTGCGAGTTACTAA
* ** *
58348874 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAG-CCCGAAGGCATT
*
58348939 TGTGCGAGTTACTATA
65 GGTGCGAGTTACTA-A
* *
58348955 A-CCGGGCTATGTCCCTGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAA
1 ATCCGGGCTAAGTCCC-GAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAA
58349005 ATTTCGAAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
78 2 0.02
79 43 0.38
80 44 0.39
81 24 0.21
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGCCCGAAGGCATTG
GTGCGAGTTACTAA
Found at i:58350924 original size:22 final size:23
Alignment explanation
Indices: 58350899--58350950 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
58350889 AAACTCTGAT
*
58350899 GAGCT-GAACAGTAAGCTCATAC
1 GAGCTAGAACAATAAGCTCATAC
*
58350921 GAGCTGAGAACAATAAGCTCTTAC
1 GAGCT-AGAACAATAAGCTCATAC
58350945 GAGCTA
1 GAGCTA
58350951 ATATATAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 5 0.19
23 1 0.04
24 20 0.77
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (23 bp):
GAGCTAGAACAATAAGCTCATAC
Found at i:58350937 original size:24 final size:24
Alignment explanation
Indices: 58350904--58350949 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
58350894 CTGATGAGCT
*
58350904 GAACAGTAAGCTCATACGAGCTGA
1 GAACAATAAGCTCATACGAGCTGA
*
58350928 GAACAATAAGCTCTTACGAGCT
1 GAACAATAAGCTCATACGAGCT
58350950 AATATATAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (24 bp):
GAACAATAAGCTCATACGAGCTGA
Found at i:58355537 original size:50 final size:50
Alignment explanation
Indices: 58355442--58355537 Score: 158
Period size: 50 Copynumber: 1.9 Consensus size: 50
58355432 ACTATTTTAC
* *
58355442 TTAAATAACTTGAAAAAAGTAATTATTTATGAGGATGGATCAAATTCAAA
1 TTAAATAACTTGAAAAAAGTAATTATTTATAAGGATGGACCAAATTCAAA
58355492 TTAAATAACTTGAAAAAAGTAATTATTTATAAGGAT-GACCTAAATT
1 TTAAATAACTTGAAAAAAGTAATTATTTATAAGGATGGACC-AAATT
58355538 TAAAAACAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
49 3 0.07
50 40 0.93
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.33
Consensus pattern (50 bp):
TTAAATAACTTGAAAAAAGTAATTATTTATAAGGATGGACCAAATTCAAA
Found at i:58356542 original size:11 final size:11
Alignment explanation
Indices: 58356526--58356551 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
58356516 TTTTTTTGAA
58356526 CTTGAATCATT
1 CTTGAATCATT
58356537 CTTGAATCATT
1 CTTGAATCATT
58356548 CTTG
1 CTTG
58356552 TAAATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (11 bp):
CTTGAATCATT
Found at i:58357252 original size:20 final size:20
Alignment explanation
Indices: 58357205--58357254 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
58357195 AAAATTATTA
* *
58357205 TTTTAGATTTTTTTTAAAAC
1 TTTTAAATTTTTTATAAAAC
* *
58357225 TTTT-AATTTTTTATATAAT
1 TTTTAAATTTTTTATAAAAC
58357244 TTTTAAATTTT
1 TTTTAAATTTT
58357255 AAAAAAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTAAATTTTTTATAAAAC
Found at i:58358759 original size:19 final size:20
Alignment explanation
Indices: 58358721--58358759 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
58358711 CAATCTTCAA
* *
58358721 TTAATTATTTATAAAGATAT
1 TTAATAATTTATAAACATAT
58358741 TTAATAATTT-TAAACATAT
1 TTAATAATTTATAAACATAT
58358760 AGAAATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (20 bp):
TTAATAATTTATAAACATAT
Found at i:58360341 original size:49 final size:45
Alignment explanation
Indices: 58360284--58360504 Score: 150
Period size: 46 Copynumber: 4.8 Consensus size: 45
58360274 ATGGGGTAAG
58360284 GTGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCTCAGCATATCT-
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACAGG--CA-C--ATCTA
* * *
58360333 GTGCCGATGCCTTGTCCCAGACAAGGTCTTACACTGGCACATCTA
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATCTA
* * * *
58360378 GTAGCTGATG-CATGTCCCAGACAT-GTCTTACACTGACTTACGTCTCAA
1 GT-GCCGATGCCATGTCCCAGACATGGTCTTACACAGGC--ACATCT--A
* * * *
58360426 G-GTCGATG-CATGTCCCAGACAT-GTCTTACATTA-ACACTCGTCTCA
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACA-CAGGCA--CATCT-A
* *
58360471 ATGCCGATGCCATGCCCCAGACATGGTCTTACAC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACAC
58360505 TGGCTCTCAT
Statistics
Matches: 143, Mismatches: 17, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
44 17 0.12
45 15 0.10
46 52 0.36
47 15 0.10
48 10 0.07
49 34 0.24
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (45 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATCTA
Found at i:58360440 original size:46 final size:46
Alignment explanation
Indices: 58360384--58360551 Score: 160
Period size: 46 Copynumber: 3.6 Consensus size: 46
58360374 TCTAGTAGCT
* *
58360384 GATGCATGTCCCAGACATGTCTTACACTGAC-TTACGTCTCAAGGTC
1 GATGCATGTCCCAGACATGTCTTACACTGACACT-CGTCTCAAGGCC
* * *
58360430 GATGCATGTCCCAGACATGTCTTACATTAACACTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGACACTCGTCTCAAGGCC
* * * * * ** *
58360476 GATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACACTCGT-CTCAAGGCC
*
58360524 GATGCATGTCCCAAACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
58360552 AGCTCACAAT
Statistics
Matches: 100, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
46 53 0.53
47 26 0.26
48 20 0.20
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGACACTCGTCTCAAGGCC
Found at i:58367575 original size:38 final size:38
Alignment explanation
Indices: 58367524--58367679 Score: 249
Period size: 38 Copynumber: 4.1 Consensus size: 38
58367514 TCGAAATATG
* *
58367524 ATATCCGGGTTAAATCTCGCAGGCTTCGTGCTCGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* *
58367562 ATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
58367600 ATATCCGGGTTAAATCCCGCAGGGTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* *
58367638 ATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
58367676 ATAT
1 ATAT
58367680 TAGGGCCTTT
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 108 1.00
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.31
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
Done.