Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 305 of 427
Found at i:88516261 original size:27 final size:27
Alignment explanation
Indices: 88516160--88516251 Score: 157
Period size: 27 Copynumber: 3.4 Consensus size: 27
88516150 ATTACCAAAG
* *
88516160 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACAGTTT
88516187 TACCCTCGATTTACAGAATTACAGTTT
1 TACCCTCGATTTACAGAATTACAGTTT
*
88516214 TACCCTCGATTTACAGAATTATAGTTT
1 TACCCTCGATTTACAGAATTACAGTTT
88516241 TACCCTCGATT
1 TACCCTCGATT
88516252 AGTAAAATTA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACAGTTT
Found at i:88516271 original size:27 final size:27
Alignment explanation
Indices: 88516253--88516356 Score: 154
Period size: 27 Copynumber: 3.9 Consensus size: 27
88516243 CCCTCGATTA
88516253 GTAAAATTACCAAAATACCCCTGGTTT
1 GTAAAATTACCAAAATACCCCTGGTTT
*
88516280 GTAAAATTACTAAAATACCCCTGGTTT
1 GTAAAATTACCAAAATACCCCTGGTTT
* *
88516307 GTAAAATTACCAAAATACCTCTGGCTT
1 GTAAAATTACCAAAATACCCCTGGTTT
* * *
88516334 GTAAATTTACCGAAATACTCCTG
1 GTAAAATTACCAAAATACCCCTG
88516357 TAGGGTAGAA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.31
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCCTGGTTT
Found at i:88516369 original size:54 final size:52
Alignment explanation
Indices: 88516257--88516432 Score: 149
Period size: 54 Copynumber: 3.3 Consensus size: 52
88516247 CGATTAGTAA
* * ** *
88516257 AATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCTGGT-TTGTAA
1 AATTACCAAAATACCTCTGG-TTGT-AAATTACCAAAATACCCCT-GTAGGGTAG
* *
88516311 AATTACCAAAATACCTCTGGCTTGTAAATTTACCGAAATACTCCTGTAGGGTAG
1 AATTACCAAAATACCTCTGG-TTGTAAA-TTACCAAAATACCCCTGTAGGGTAG
** * * * *
88516365 AATTACTGAAATA-CTCTTGTAGGTAGAAATACCAAAATACCCCTGTAGGATAG
1 AATTACCAAAATACCTCTGGT-TGTA-AATTACCAAAATACCCCTGTAGGGTAG
*
88516418 AATTACCGAAATACC
1 AATTACCAAAATACC
88516433 CCTGTAGGTA
Statistics
Matches: 100, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
52 1 0.01
53 46 0.46
54 53 0.53
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (52 bp):
AATTACCAAAATACCTCTGGTTGTAAATTACCAAAATACCCCTGTAGGGTAG
Found at i:88516402 original size:26 final size:26
Alignment explanation
Indices: 88516340--88516459 Score: 159
Period size: 26 Copynumber: 4.5 Consensus size: 26
88516330 GCTTGTAAAT
*
88516340 TTACCGAAATACTCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTA-GGTAGAA
* * *
88516367 TTACTGAAATACTCTTGTAGGTAGAA
1 TTACCGAAATACCCCTGTAGGTAGAA
* *
88516393 ATACCAAAATACCCCTGTAGGATAGAA
1 TTACCGAAATACCCCTGTAGG-TAGAA
88516420 TTACCGAAATACCCCTGTAGGTAGAA
1 TTACCGAAATACCCCTGTAGGTAGAA
*
88516446 TTACCGAGATACCC
1 TTACCGAAATACCC
88516460 TTATGGGGTA
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
26 41 0.50
27 41 0.50
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (26 bp):
TTACCGAAATACCCCTGTAGGTAGAA
Found at i:88516411 original size:53 final size:53
Alignment explanation
Indices: 88516341--88516459 Score: 166
Period size: 53 Copynumber: 2.2 Consensus size: 53
88516331 CTTGTAAATT
* * * * *
88516341 TACCGAAATACTCCTGTAGGGTAGAATTACTGAAATACTCTTGTAGGTAGAAA
1 TACCGAAATACCCCTGTAGGATAGAATTACCGAAATACCCCTGTAGGTAGAAA
* *
88516394 TACCAAAATACCCCTGTAGGATAGAATTACCGAAATACCCCTGTAGGTAGAAT
1 TACCGAAATACCCCTGTAGGATAGAATTACCGAAATACCCCTGTAGGTAGAAA
*
88516447 TACCGAGATACCC
1 TACCGAAATACCC
88516460 TTATGGGGTA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.24
Consensus pattern (53 bp):
TACCGAAATACCCCTGTAGGATAGAATTACCGAAATACCCCTGTAGGTAGAAA
Found at i:88516475 original size:53 final size:53
Alignment explanation
Indices: 88516341--88516477 Score: 148
Period size: 53 Copynumber: 2.6 Consensus size: 53
88516331 CTTGTAAATT
* * * * * *
88516341 TACCGAAATACTCCTGTAGGGTAGAATTACTGAAATACTCTTGTAGGTAGAAA
1 TACCAAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGTAGAAA
* * *
88516394 TACCAAAATACCCCTGTAGGATAGAATTACCGAAATACCCCTGTAGGTAGAAT
1 TACCAAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGTAGAAA
* * * * *
88516447 TACCGAGATACCCTTATGGGGTAAAATTACC
1 TACCAAAATACCCCTATAGGGTAGAATTACC
88516478 ATTTTGCCCC
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
53 70 1.00
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.26
Consensus pattern (53 bp):
TACCAAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGTAGAAA
Found at i:88516714 original size:25 final size:25
Alignment explanation
Indices: 88516680--88516772 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
88516670 AGGAAGTGCT
88516680 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
**
88516705 AAAAGGGCTTTGCCTTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
88516730 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTACCG
88516754 AAAA-GGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
88516773 ATTAAAAAAG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
23 15 0.24
24 4 0.06
25 44 0.70
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:88516780 original size:23 final size:25
Alignment explanation
Indices: 88516730--88516801 Score: 78
Period size: 23 Copynumber: 3.0 Consensus size: 25
88516720 TAGTTTACCG
*
88516730 AAAAGGGCTTTGCCCCAGTT-TAT-
1 AAAAAGGCTTTGCCCCAGTTATATA
*
88516753 CAAAAGGCTTTGCCCCAGTTAT-TA
1 AAAAAGGCTTTGCCCCAGTTATATA
**
88516777 AAAAAGGCTAGGCCTCCAGTTATAT
1 AAAAAGGCTTTGCC-CCAGTTATAT
88516802 GATAAAGCAG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 19 0.47
24 12 0.30
25 8 0.20
26 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (25 bp):
AAAAAGGCTTTGCCCCAGTTATATA
Found at i:88523204 original size:45 final size:45
Alignment explanation
Indices: 88523140--88523230 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
88523130 GAGTTATGCC
88523140 ATTGATGAATAATTGAGCTTTGTGAAGTTAGACGATGAACTATGA
1 ATTGATGAATAATTGAGCTTTGTGAAGTTAGACGATGAACTATGA
* * *
88523185 ATTGATGAATAATTGAGCTTTGTGGAGTTAGATGATGAATTATGA
1 ATTGATGAATAATTGAGCTTTGTGAAGTTAGACGATGAACTATGA
88523230 A
1 A
88523231 AGGTATGTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.35
Consensus pattern (45 bp):
ATTGATGAATAATTGAGCTTTGTGAAGTTAGACGATGAACTATGA
Found at i:88523937 original size:56 final size:56
Alignment explanation
Indices: 88523870--88523987 Score: 209
Period size: 56 Copynumber: 2.1 Consensus size: 56
88523860 CCATGGCATC
88523870 GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCT
1 GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCT
* *
88523926 GATATATGTGTGCGAGTAAGACCATGTTTAATATGTTGGCATCGATATGTGATTCT
1 GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCT
*
88523982 GGTATA
1 GATATA
88523988 GGTGATTACA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (56 bp):
GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCT
Found at i:88527524 original size:27 final size:27
Alignment explanation
Indices: 88527482--88527538 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
88527472 AGGAAGTGTC
*
88527482 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTATACCACATA-TATCTGAT
* *
88527509 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATACCACATATATCTGAT
88527536 CTG
1 CTG
88527539 TATCTGGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTATACCACATATATCTGAT
Found at i:88530839 original size:23 final size:23
Alignment explanation
Indices: 88530794--88530862 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
88530784 GACACTGCAT
* * *
88530794 ATATGCACTGCAGTGCCAAAATG
1 ATATGCACCGAAGTGCCAGAATG
*
88530817 ATATGCACCGAAGTGCTAGAATG
1 ATATGCACCGAAGTGCCAGAATG
* *
88530840 A-ATTGCATCGAAATGCCAGAATG
1 ATA-TGCACCGAAGTGCCAGAATG
88530863 CTCCTATCAA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
22 1 0.03
23 37 0.97
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (23 bp):
ATATGCACCGAAGTGCCAGAATG
Found at i:88533145 original size:108 final size:107
Alignment explanation
Indices: 88533019--88533416 Score: 499
Period size: 108 Copynumber: 3.8 Consensus size: 107
88533009 ATCTTACCAT
* *
88533019 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTGAT-GAGCTCACCAATGCCATGCCTT
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCACCAATGCCATGCCTT
* *
88533083 AGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
66 GGCATGGTCTTACATGGGA-CTTT-CCTTATAATAACTCATCAA
*
88533127 TGCCATTTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTT
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCACCAATGCCATGCCTT
*
88533191 GGCACGGTCTTACATGGGACTTTTACCTTATAATAACTCATCAA
66 GGCATGGTCTTACATGGGAC-TTT-CCTTATAATAACTCATCAA
* * * * *
88533235 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGGCTTATAGAACTTATCAATGCCATGCCTT
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCACCAATGCCATGCCTT
* * * *
88533300 GGCATGGTCTTACAT--GA-TATCATTAT-CTTAC-CA--AA
66 GGCATGGTCTTACATGGGACTTTCCTTATAATAACTCATCAA
*** * * *
88533335 TGCCATGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTATAGAACTTATCAATGCCATGCCT
1 TGCCATG-TCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCACCAATGCCATGCCT
88533400 TGGCATGGTCTTACATG
65 TGGCATGGTCTTACATG
88533417 ATATCCTTAT
Statistics
Matches: 262, Mismatches: 24, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
100 9 0.03
101 67 0.26
102 2 0.01
103 3 0.01
104 5 0.02
105 2 0.01
107 3 0.01
108 137 0.52
109 34 0.13
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (107 bp):
TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCACCAATGCCATGCCTT
GGCATGGTCTTACATGGGACTTTCCTTATAATAACTCATCAA
Found at i:88533151 original size:55 final size:53
Alignment explanation
Indices: 88533019--88533416 Score: 350
Period size: 55 Copynumber: 7.5 Consensus size: 53
88533009 ATCTTACCAT
* * * *
88533019 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTGAT-GAGCTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
*
88533072 TGCCATGCCTT-AGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGA-CATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
** *
88533127 TGCCATTTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* * * * * *
88533180 TGCCATGCCTTGGCACGGTCTTACATGGGACTTTTACCTTATAATAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTAC-CTTGCCTTAT-AGAACTCATCAA
* * * * *
88533235 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGGCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
* * * ***
88533289 TGCCATGCCTTGGCATGGTCTTACATGATA---T-CATTATCTTAC-CA--AA
1 TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
** * *
88533335 TGCCATGTTCC-AAACATGGTCTTACATGGTATCCTTGTCTTATAGAACTTATCAA
1 TGCCATG--CCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
*
88533390 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
88533417 ATATCCTTAT
Statistics
Matches: 272, Mismatches: 52, Indels: 41
0.75 0.14 0.11
Matches are distributed among these distances:
46 9 0.03
47 16 0.06
48 3 0.01
49 6 0.02
50 1 0.00
51 1 0.00
52 10 0.04
53 80 0.29
54 51 0.19
55 91 0.33
56 4 0.01
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:88533357 original size:47 final size:47
Alignment explanation
Indices: 88533302--88533477 Score: 176
Period size: 47 Copynumber: 3.6 Consensus size: 47
88533292 CATGCCTTGG
*
88533302 CATGGTCTTACATGATATCATTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
* * * ***
88533349 CATGGTCTTACATGGTATCCTTGTCTTATAGAACTTATCAATGCCATG--CCTTGG
1 CATGGTCTTACATGATATCCTTATC-T-T---AC-CA--AATGCCATGTTCC-AAA
88533403 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
* *
88533450 CATGGTCTTACATGGTATCCTTTTCTTA
1 CATGGTCTTACATGATATCCTTATCTTA
88533478 GTGCCAATGC
Statistics
Matches: 103, Mismatches: 15, Indels: 22
0.74 0.11 0.16
Matches are distributed among these distances:
46 9 0.09
47 48 0.47
48 4 0.04
49 3 0.03
52 3 0.03
53 4 0.04
54 23 0.22
55 9 0.09
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:88533377 original size:101 final size:101
Alignment explanation
Indices: 88533247--88533477 Score: 417
Period size: 101 Copynumber: 2.3 Consensus size: 101
88533237 CCATGTCTTG
* * *
88533247 ACATGGTCTTACATGATTTCCTTGGCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGTCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
88533312 CATGATATCATTATCTTACCAAATGCCATGTTCCAA
66 CATGATATCATTATCTTACCAAATGCCATGTTCCAA
88533348 ACATGGTCTTACATGGTATCCTTGTCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGTCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
*
88533413 CATGATATCCTTATCTTACCAAATGCCATGTTCCAA
66 CATGATATCATTATCTTACCAAATGCCATGTTCCAA
*
88533449 ACATGGTCTTACATGGTATCCTTTTCTTA
1 ACATGGTCTTACATGGTATCCTTGTCTTA
88533478 GTGCCAATGC
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 125 1.00
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.37
Consensus pattern (101 bp):
ACATGGTCTTACATGGTATCCTTGTCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
CATGATATCATTATCTTACCAAATGCCATGTTCCAA
Found at i:88537426 original size:13 final size:13
Alignment explanation
Indices: 88537408--88537446 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
88537398 CTTGACGGGT
*
88537408 ACACGCCTGTGTG
1 ACACGCCCGTGTG
88537421 ACACGCCCGTGTG
1 ACACGCCCGTGTG
88537434 ACACGCCCGTGTG
1 ACACGCCCGTGTG
88537447 GGGTGGCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.15, C:0.36, G:0.31, T:0.18
Consensus pattern (13 bp):
ACACGCCCGTGTG
Found at i:88548194 original size:27 final size:29
Alignment explanation
Indices: 88548164--88548278 Score: 99
Period size: 29 Copynumber: 4.0 Consensus size: 29
88548154 ACGCAAGAGC
*
88548164 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
88548191 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
88548220 ATATAATTTTCAGCTCGCACACTTAGTGCT
1 ATAT-ATGTGAAGCTCGCACACTTAGTGCT
* * ** *
88548250 ATATGTTTTCAGTTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
88548279 GTACAATTTT
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.06
28 3 0.04
29 42 0.53
30 29 0.37
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:88548231 original size:30 final size:29
Alignment explanation
Indices: 88548176--88548278 Score: 179
Period size: 29 Copynumber: 3.5 Consensus size: 29
88548166 ATAGTGAATC
88548176 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
88548205 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
* *
88548235 CGCACACTTAGTGCTATATGTTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
88548264 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
88548279 GTACAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
29 42 0.59
30 29 0.41
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:88548268 original size:59 final size:59
Alignment explanation
Indices: 88548176--88548288 Score: 190
Period size: 59 Copynumber: 1.9 Consensus size: 59
88548166 ATAGTGAATC
*
88548176 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTCAGCT
* * *
88548235 CGCACACTTAGTGCTATATGTTTTCAGTTCGCACACTTAGTGCTGTACAATTTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTT
88548289 TAAACCAGCA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTCAGCT
Found at i:88549648 original size:16 final size:18
Alignment explanation
Indices: 88549614--88549651 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
88549604 TCCACACCCA
88549614 TTTTTTTTTCATCATTTTC
1 TTTTTTTTTCA-CATTTTC
88549633 TTTTTTTTTC-CA-TTTC
1 TTTTTTTTTCACATTTTC
88549649 TTT
1 TTT
88549652 ATTCTCCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 2 0.11
19 10 0.53
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTTTTTCACATTTTC
Found at i:88556079 original size:27 final size:29
Alignment explanation
Indices: 88556049--88556163 Score: 99
Period size: 29 Copynumber: 4.0 Consensus size: 29
88556039 ACGCAAGAGC
*
88556049 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
88556076 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
88556105 ATATAATTTTCAGCTCGCACACTTAGTGCT
1 ATAT-ATGTGAAGCTCGCACACTTAGTGCT
* * ** *
88556135 ATATGTTTTCAGTTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
88556164 GTACAATTTT
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.06
28 3 0.04
29 42 0.53
30 29 0.37
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:88556116 original size:30 final size:29
Alignment explanation
Indices: 88556061--88556163 Score: 179
Period size: 29 Copynumber: 3.5 Consensus size: 29
88556051 ATAGTGAATC
88556061 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
88556090 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
* *
88556120 CGCACACTTAGTGCTATATGTTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
88556149 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
88556164 GTACAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
29 42 0.59
30 29 0.41
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:88556153 original size:59 final size:60
Alignment explanation
Indices: 88556060--88556193 Score: 198
Period size: 59 Copynumber: 2.2 Consensus size: 60
88556050 TATAGTGAAT
* * *
88556060 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
* * * *
88556119 TCGCACACTTAGTGCTATATGTTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
88556179 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
88556194 CAATCTTGTC
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
59 46 0.70
60 20 0.30
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (60 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
Found at i:88557532 original size:17 final size:19
Alignment explanation
Indices: 88557497--88557535 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
88557487 TCCACACCCA
88557497 TTTTTTTTTCATCATTTTCT
1 TTTTTTTTTCA-CATTTTCT
88557517 TTTTTTTTTC-CA-TTTCT
1 TTTTTTTTTCACATTTTCT
88557534 TT
1 TT
88557536 ATTCTCCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 2 0.11
20 10 0.53
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTTTTTCACATTTTCT
Found at i:88564651 original size:53 final size:54
Alignment explanation
Indices: 88564576--88564886 Score: 330
Period size: 53 Copynumber: 5.7 Consensus size: 54
88564566 TTTTGAAATT
* * * *
88564576 ACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTCT-GAACTC
1 ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTC
* *
88564629 ACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTC
1 ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG-AACTC
* * * *
88564684 ATCAAAGCCATGTCTTGACATGGTCTTACATGGTATCATTGCCTTAT-GAACTC
1 ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTC
* * *
88564737 ACCAATGCCATGCCTTGGCACGGTCTTACATAGG-A-CGTTTGCCTTATAGTAACTC
1 ACCAATGCCATGCCTTGACATGGTCTTACAT-GGTATC-CTTGCCTTATAG-AACTC
* * *
88564792 ATCAATGCCATG--TTACAAACATGGTCTTACATGGTATCCTTGCCTTATAGAACTT
1 ACCAATGCCATGCCTT---GACATGGTCTTACATGGTATCCTTGCCTTATAGAACTC
* * *
88564847 ATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
88564887 ATCTTGCCAA
Statistics
Matches: 216, Mismatches: 27, Indels: 29
0.79 0.10 0.11
Matches are distributed among these distances:
52 3 0.01
53 81 0.38
54 26 0.12
55 78 0.36
56 25 0.12
57 3 0.01
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.33
Consensus pattern (54 bp):
ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTC
Found at i:88564707 original size:55 final size:53
Alignment explanation
Indices: 88564581--88564878 Score: 318
Period size: 55 Copynumber: 5.5 Consensus size: 53
88564571 AAATTACCAT
* * * *
88564581 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTCT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* *
88564634 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * *
88564689 AGCCATGTCTTGACATGGTCTTACATGGTATCATTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* * *
88564742 TGCCATGCCTTGGCACGGTCTTACATAGG-ACGTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACAT-GGTAC-CTTGCCTTATAG-AACTCATCAA
* *
88564797 TGCCATG--TTACAAACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTT---GACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
*
88564852 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
88564879 ATATCCTTAT
Statistics
Matches: 205, Mismatches: 25, Indels: 29
0.79 0.10 0.11
Matches are distributed among these distances:
52 3 0.01
53 77 0.38
54 19 0.09
55 78 0.38
56 25 0.12
57 3 0.01
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:88564740 original size:108 final size:108
Alignment explanation
Indices: 88564582--88564878 Score: 461
Period size: 108 Copynumber: 2.7 Consensus size: 108
88564572 AATTACCATT
* *
88564582 GCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTCTGAACTCACCAATGCCATGCCTTGG
1 GCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGG
88564647 CATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAAA
66 CATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAAA
*
88564690 GCCATGTCTTGACATGGTCTTACATGGTATCATTGCCTTATGAACTCACCAATGCCATGCCTTGG
1 GCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGG
* * * *
88564755 CACGGTCTTACATAGGACGTTTGCCTTATAGTAACTCATCAAT
66 CATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAAA
** * *
88564798 GCCATGT-TACAAACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCT
1 GCCATGTCT--TGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGCCT
88564862 TGGCATGGTCTTACATG
63 TGGCATGGTCTTACATG
88564879 ATATCCTTAT
Statistics
Matches: 172, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
107 1 0.01
108 108 0.63
109 29 0.17
110 34 0.20
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (108 bp):
GCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGG
CATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAAA
Found at i:88564925 original size:101 final size:106
Alignment explanation
Indices: 88564593--88564939 Score: 395
Period size: 108 Copynumber: 3.3 Consensus size: 106
88564583 CCATGTCTTG
* * *
88564593 ACATGGTCTTACGTGGTATCCTTGCCTTCTGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCACGGTCTTAC
* * * * **
88564658 ATGGGACCTTTGCCTTATAGTAACTCATCAAAGCCATG-T-CTTG
66 AT-AGA-CTATGCCTTATACTAACTCA-CAATGCCATGTTAC-AA
*
88564701 ACATGGTCTTACATGGTATCATTGCCTTATGAACTCACCAATGCCATGCCTTGGCACGGTCTTAC
1 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCACGGTCTTAC
* *
88564766 ATAGGACGTTTGCCTTATAGTAACTCATCAATGCCATGTTACAA
66 ATA-GAC-TATGCCTTATACTAACTCA-CAATGCCATGTTACAA
* * *
88564810 ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGGCACGGTCTTA
** *
88564875 CAT-GA-TAT-CCTTAT-CTTGC-CA-AATGCCATGTTCCAA
65 CATAGACTATGCCTTATACTAACTCACAATGCCATGTTACAA
*
88564911 ACATGGTCTTACATGGTATCCTTGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTA
88564940 GTGCCAATGC
Statistics
Matches: 216, Mismatches: 18, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
101 42 0.19
103 2 0.01
104 2 0.01
105 6 0.03
106 2 0.01
107 1 0.00
108 96 0.44
109 30 0.14
110 35 0.16
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (106 bp):
ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCACGGTCTTAC
ATAGACTATGCCTTATACTAACTCACAATGCCATGTTACAA
Found at i:88569722 original size:40 final size:39
Alignment explanation
Indices: 88569629--88569730 Score: 118
Period size: 39 Copynumber: 2.6 Consensus size: 39
88569619 ACAATTCGGA
**
88569629 TATATATGGCACTTAGTGTAAGATTCAAGAAAGCTTCGC
1 TATATATGGCACTTAGTGTGTGATTCAAGAAAGCTTCGC
** *
88569668 TATAGT-TGGCACTTAGTGTGTGATT-TGGAATGGCTTCGAC
1 TATA-TATGGCACTTAGTGTGTGATTCAAGAA-AGCTTCG-C
88569708 TATATATGGCACTTAGTGTGTGA
1 TATATATGGCACTTAGTGTGTGA
88569731 GACTGTGATA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
38 3 0.06
39 28 0.52
40 23 0.43
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.35
Consensus pattern (39 bp):
TATATATGGCACTTAGTGTGTGATTCAAGAAAGCTTCGC
Found at i:88569813 original size:42 final size:42
Alignment explanation
Indices: 88569700--88569816 Score: 132
Period size: 41 Copynumber: 2.8 Consensus size: 42
88569690 ATTTGGAATG
* * * * *
88569700 GCTTCGACTATATAT-GGCACTTAGTGTGTGAGACTGTGATA
1 GCTTCGGCTATGTATAGGCACTTAGTGTGCGAGATTATGATA
* **
88569741 GCTTTGGCTATGTA-AGGCACTTAACGTGCGAGATTAT-ATTA
1 GCTTCGGCTATGTATAGGCACTTAGTGTGCGAGATTATGA-TA
88569782 GCTTCGGCTATGTATAGGCACTTAGTGTGCGAGAT
1 GCTTCGGCTATGTATAGGCACTTAGTGTGCGAGAT
88569817 ATTGAGTATT
Statistics
Matches: 62, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
40 1 0.02
41 43 0.69
42 18 0.29
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.33
Consensus pattern (42 bp):
GCTTCGGCTATGTATAGGCACTTAGTGTGCGAGATTATGATA
Found at i:88586302 original size:34 final size:33
Alignment explanation
Indices: 88586263--88586338 Score: 91
Period size: 34 Copynumber: 2.3 Consensus size: 33
88586253 CATATCCACA
88586263 ATAGTATCAGTGGGGGCATTAGCCC-ATTACAGT
1 ATAGTATCAGTGGGGGCATTAGCCCAATT-CAGT
* * *
88586296 AGTAGTAACAGTGTGGGCCTTAGCCCAATTCAGT
1 A-TAGTATCAGTGGGGGCATTAGCCCAATTCAGT
*
88586330 ACAGTATCA
1 ATAGTATCA
88586339 ATCATGCATA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
33 7 0.19
34 26 0.72
35 3 0.08
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (33 bp):
ATAGTATCAGTGGGGGCATTAGCCCAATTCAGT
Found at i:88601432 original size:27 final size:26
Alignment explanation
Indices: 88601388--88601438 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
88601378 CTCGCTGTAA
*
88601388 TCTGGTGGCATCGCCACATATATCTGT
1 TCTGGTGACATCGCCACA-ATATCTGT
* *
88601415 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACATCGCCACAATATCT
88601439 TGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGACATCGCCACAATATCTGT
Found at i:88603530 original size:17 final size:18
Alignment explanation
Indices: 88603508--88603541 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
88603498 TGAAGCATAC
88603508 AGAAAGA-CAGAATCGTG
1 AGAAAGATCAGAATCGTG
88603525 AGAAAGATCAGAATCGT
1 AGAAAGATCAGAATCGT
88603542 TTTAGTAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.47, C:0.12, G:0.26, T:0.15
Consensus pattern (18 bp):
AGAAAGATCAGAATCGTG
Found at i:88605577 original size:64 final size:64
Alignment explanation
Indices: 88605472--88605678 Score: 190
Period size: 67 Copynumber: 3.2 Consensus size: 64
88605462 CATCATGTGT
*
88605472 ACAAGAGAGCTACATGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACGTG--A-TAT-ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
88605537 TAG
62 TAG
* * * * *
88605540 ACAAGAGAGCTACGTGATATATGTAGCTAGGTCGCATGCGTGGCT-CCAGGTGAAGGACACCATG
1 ACAAGAGAGCTACGTGATATATGTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATG
88605604 TAG
62 TAG
* * * * *
88605607 ACAAGAGAGCTACGAGATAAATG--GCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-G
1 ACAAGAGAGCTACGTGATATATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG
88605668 TACAAGAGAGC
1 -ACAAGAGAGC
88605679 CGAACTCTAT
Statistics
Matches: 117, Mismatches: 15, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
61 1 0.01
62 19 0.16
63 1 0.01
64 24 0.21
65 20 0.17
66 4 0.03
67 33 0.28
68 15 0.13
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ACAAGAGAGCTACGTGATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
Found at i:88612531 original size:27 final size:26
Alignment explanation
Indices: 88612491--88612550 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
88612481 ATATATATAT
* *
88612491 ATATCTATTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
88612517 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
88612544 ATATCTG
1 ATATCTG
88612551 GCAGCCTCAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:88613940 original size:43 final size:43
Alignment explanation
Indices: 88613879--88614076 Score: 333
Period size: 43 Copynumber: 4.6 Consensus size: 43
88613869 CCGGCATTAT
* * *
88613879 GCCTGCTAGGCATGAAGGCTCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
88613922 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
88613965 GCCTGCTAGGCACGAAGGCCTGAATATACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
88614008 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGCCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
88614051 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
88614077 TAATACCAGC
Statistics
Matches: 145, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 145 1.00
ACGTcount: A:0.30, C:0.32, G:0.25, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:88614153 original size:38 final size:38
Alignment explanation
Indices: 88614069--88614192 Score: 140
Period size: 38 Copynumber: 3.2 Consensus size: 38
88614059 GGCACGAAGG
* * * * *
88614069 CCCGAATATAATACCAGCACTAGGCCTGCAGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
88614107 CCCTGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* ** *
88614145 CTCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
88614184 GCCCGGATA
1 -CCCGGATA
88614193 CACATCAAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
38 60 0.83
39 5 0.07
40 7 0.10
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:88624003 original size:29 final size:29
Alignment explanation
Indices: 88623960--88624042 Score: 114
Period size: 29 Copynumber: 2.8 Consensus size: 29
88623950 GTGAGCATGA
88623960 ATATAATGTGATTTGGGCCTAATGGGCA-AC
1 ATAT-ATGTGATTTGGGCCTAATGGG-AGAC
* *
88623990 ATATATGTGATTTGGGCCTAAAGGGAGAT
1 ATATATGTGATTTGGGCCTAATGGGAGAC
*
88624019 ATAAATGTGATTTGGGCCTAATGG
1 ATATATGTGATTTGGGCCTAATGG
88624043 TCTATGTGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
28 1 0.02
29 43 0.90
30 4 0.08
ACGTcount: A:0.30, C:0.10, G:0.29, T:0.31
Consensus pattern (29 bp):
ATATATGTGATTTGGGCCTAATGGGAGAC
Found at i:88625668 original size:29 final size:29
Alignment explanation
Indices: 88625634--88625706 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
88625624 AATCGATCTC
** *
88625634 GCACACTTAGTGCCATGTGATTT-AAGTTT
1 GCACACTTAGTGCCAT-ACATTTCAAGCTT
88625663 GCACACTTAGTGCCATACATTTCAAGCTT
1 GCACACTTAGTGCCATACATTTCAAGCTT
88625692 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
88625707 ATTCTCGTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 4 0.10
29 36 0.90
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (29 bp):
GCACACTTAGTGCCATACATTTCAAGCTT
Found at i:88625740 original size:15 final size:15
Alignment explanation
Indices: 88625720--88625764 Score: 81
Period size: 15 Copynumber: 3.0 Consensus size: 15
88625710 CTCGTCACCA
*
88625720 CGCACACTTATTGCC
1 CGCACACTTAGTGCC
88625735 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
88625750 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
88625765 GAAACTGAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.20, C:0.40, G:0.18, T:0.22
Consensus pattern (15 bp):
CGCACACTTAGTGCC
Found at i:88633730 original size:29 final size:30
Alignment explanation
Indices: 88633695--88633769 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 30
88633685 ATAATCGATC
**
88633695 TCGCACACTTAGTGCCATGTGATTT-AAG-T
1 TCGCACACTTAGTGCCAT-ACATTTCAAGCT
88633724 TCGCACACTTAGTGCCATACATTTCAAGCT
1 TCGCACACTTAGTGCCATACATTTCAAGCT
88633754 T-GCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
88633770 ATTCTCGTCA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
28 4 0.10
29 36 0.86
30 2 0.05
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (30 bp):
TCGCACACTTAGTGCCATACATTTCAAGCT
Found at i:88633803 original size:15 final size:15
Alignment explanation
Indices: 88633783--88633827 Score: 81
Period size: 15 Copynumber: 3.0 Consensus size: 15
88633773 CTCGTCACCA
*
88633783 CGCACACTTATTGCC
1 CGCACACTTAGTGCC
88633798 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
88633813 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
88633828 GAACACACTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.20, C:0.40, G:0.18, T:0.22
Consensus pattern (15 bp):
CGCACACTTAGTGCC
Found at i:88641443 original size:71 final size:71
Alignment explanation
Indices: 88641359--88641522 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
88641349 CGATTTGTCT
88641359 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
88641424 CTTTCA
66 CTTTCA
88641430 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
88641495 CTTTCA
66 CTTTCA
88641501 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
88641523 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:88641560 original size:71 final size:70
Alignment explanation
Indices: 88641359--88641556 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
88641349 CGATTTGTCT
* * * *
88641359 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
88641424 CTTTCA
65 CTTTCA
* * * *
88641430 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
88641495 CTTTCA
65 CTTTCA
* *
88641501 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
88641557 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:88644735 original size:47 final size:47
Alignment explanation
Indices: 88644455--88645014 Score: 868
Period size: 49 Copynumber: 11.7 Consensus size: 47
88644445 GATTTTATGC
* * * *
88644455 GATGAATGTGAATGTGTATATATATGAGATAAGGCCGAATGGCTGATGT
1 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGT
88644504 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGT
88644553 GATGAATGTGAGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGA-AA-GTGTATATATGTGATAAGGCCTAATGGCCGATGT
88644602 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGT
88644651 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGT
88644700 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
88644747 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGT
88644796 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
88644843 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* * * * *
88644890 GATGAATGTGAAGGCGTATATATGTGTTAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* * * * *
88644937 GATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* *
88644984 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAAGTGTATATATGTGATAAG
88645015 TCCCGAAGGG
Statistics
Matches: 488, Mismatches: 18, Indels: 12
0.94 0.03 0.02
Matches are distributed among these distances:
47 239 0.49
48 2 0.00
49 242 0.50
50 2 0.00
51 3 0.01
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.30
Consensus pattern (47 bp):
GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:88644744 original size:96 final size:95
Alignment explanation
Indices: 88644455--88645014 Score: 874
Period size: 94 Copynumber: 5.8 Consensus size: 95
88644445 GATTTTATGC
* * *
88644455 GATGAATGTG-AATGTGTATATATATGAGATAAGGCCGAATGGCTGATGTGATGAATGTGAAAGT
1 GATGAATGTGAAATGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
88644519 GTATATATATGTGATAAGGCCTAATGGCCGATGT
64 G--TATATATGTGATAAGGCCTAATGGCCGATGT
88644553 GATGAATGTGAGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTGA-AATGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--G
88644618 TGTATATATGTGATAAGGCCTAATGGCCGATGT
63 TGTATATATGTGATAAGGCCTAATGGCCGATGT
88644651 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
88644716 TATATATGTGATAAGGCCTAATGGCCGATGT
65 TATATATGTGATAAGGCCTAATGGCCGATGT
*
88644747 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
88644812 TATATATGTGATAAGGCCTAATGGCCGATGT
65 TATATATGTGATAAGGCCTAATGGCCGATGT
* *
88644843 GATGAATGTGAAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGCGT
1 GATGAATGTGAAATGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* * *
88644907 ATATATGTGTTAAGGCCGAATGGCCAATGT
66 ATATATGTGATAAGGCCTAATGGCCGATGT
* * * * * *
88644937 GATGAATGTGAAA-GTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGT
1 GATGAATGTGAAATGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
88645001 ATAAATGTGATAAG
66 ATATATGTGATAAG
88645015 TCCCGAAGGG
Statistics
Matches: 437, Mismatches: 20, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
94 143 0.33
96 142 0.32
97 2 0.00
98 141 0.32
100 9 0.02
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.30
Consensus pattern (95 bp):
GATGAATGTGAAATGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
ATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:88646493 original size:7 final size:7
Alignment explanation
Indices: 88646481--88646513 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
88646471 CCTAGATGAA
88646481 TTGGGCT
1 TTGGGCT
88646488 TTGGGCT
1 TTGGGCT
88646495 TTGGGCT
1 TTGGGCT
88646502 TTGGGCT
1 TTGGGCT
88646509 TTGGG
1 TTGGG
88646514 TCTCAGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.00, C:0.12, G:0.45, T:0.42
Consensus pattern (7 bp):
TTGGGCT
Found at i:88648461 original size:39 final size:39
Alignment explanation
Indices: 88648407--88648569 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
88648397 TGTGAATGAA
88648407 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
88648446 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
88648485 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
88648524 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
88648564 TGTGCG
1 TGTGCG
88648570 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:88648585 original size:40 final size:39
Alignment explanation
Indices: 88648407--88648599 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
88648397 TGTGAATGAA
* *
88648407 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
88648446 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
88648485 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
88648524 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
88648564 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
88648600 TGTTTTGAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:88651027 original size:16 final size:16
Alignment explanation
Indices: 88651006--88651048 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
88650996 GTAGATCAGC
88651006 AAAAGCCGAAATGCCA
1 AAAAGCCGAAATGCCA
* **
88651022 AAAAGCCAAAATGCTG
1 AAAAGCCGAAATGCCA
88651038 AAAAGCCGAAA
1 AAAAGCCGAAA
88651049 GTTTGGCTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.53, C:0.21, G:0.19, T:0.07
Consensus pattern (16 bp):
AAAAGCCGAAATGCCA
Found at i:88651346 original size:29 final size:29
Alignment explanation
Indices: 88651261--88651348 Score: 124
Period size: 29 Copynumber: 3.1 Consensus size: 29
88651251 GTGAGCATGA
*
88651261 ATAT-AATGTGATTTGGGCCTAATGGGCA
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* **
88651289 ACATAAATGTGATTTGGGCCTAAAAGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
*
88651318 ATATAAATGTGATTTGGTCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
88651347 AT
1 AT
88651349 GTGAATATAG
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 3 0.06
29 48 0.94
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:88655432 original size:28 final size:29
Alignment explanation
Indices: 88655358--88655462 Score: 130
Period size: 28 Copynumber: 3.7 Consensus size: 29
88655348 ACATACATGC
*
88655358 ATATGGCCCA-CTAGGCCCATTTCA--TTT
1 ATATGGCCCATC-AGGCCCAATTCACGTTT
88655385 ATATGGCCCATCAGGCCCAATTCACGTTT
1 ATATGGCCCATCAGGCCCAATTCACGTTT
*
88655414 ATAT-GCCCATCAAGG-CCAATTCACGTTC
1 ATATGGCCCATC-AGGCCCAATTCACGTTT
*
88655442 ATATGGCCCATTAGGCCCAAT
1 ATATGGCCCATCAGGCCCAAT
88655463 CTAATTTATA
Statistics
Matches: 69, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
27 21 0.30
28 27 0.39
29 21 0.30
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (29 bp):
ATATGGCCCATCAGGCCCAATTCACGTTT
Found at i:88655473 original size:28 final size:29
Alignment explanation
Indices: 88655358--88655474 Score: 111
Period size: 28 Copynumber: 4.2 Consensus size: 29
88655348 ACATACATGC
* *
88655358 ATATGGCCCACTAGGCCC-ATT-TCATTT
1 ATATGGCCCATTAGGCCCAATTCACATTT
* *
88655385 ATATGGCCCATCAGGCCCAATTCACGTTT
1 ATATGGCCCATTAGGCCCAATTCACATTT
* * *
88655414 ATAT-GCCCATCAAGG-CCAATTCACGTTC
1 ATATGGCCCAT-TAGGCCCAATTCACATTT
88655442 ATATGGCCCATTAGGCCCAA-TCTA-ATTT
1 ATATGGCCCATTAGGCCCAATTC-ACATTT
88655470 ATATG
1 ATATG
88655475 ACTCATCCGG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
27 16 0.21
28 37 0.49
29 22 0.29
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.30
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAATTCACATTT
Found at i:88662902 original size:28 final size:28
Alignment explanation
Indices: 88662857--88662925 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
88662847 TTTAAAACCC
*
88662857 TAGGGGT-ATATCGATAATTTTGCTCTT
1 TAGGGGTAATTTCGATAATTTTGCTCTT
*
88662884 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGATAATTTTGCTCTT
88662912 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
88662926 TGATCTACGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.20, C:0.10, G:0.26, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGATAATTTTGCTCTT
Found at i:88664756 original size:19 final size:18
Alignment explanation
Indices: 88664719--88664762 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
88664709 ATACATACAG
88664719 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
88664736 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
88664755 TACTAATT
1 TAATAATT
88664763 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:88665531 original size:17 final size:18
Alignment explanation
Indices: 88665509--88665542 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
88665499 CACATTGAAG
88665509 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
88665526 TGTTTTCATTGAAAACC
1 TGTTTTCAGTGAAAACC
88665543 CTTCCTTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:88666917 original size:16 final size:16
Alignment explanation
Indices: 88666896--88666938 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
88666886 GTAGCCAAAC
**
88666896 TTTCGGCTTTTTGGCA
1 TTTCGGCTTTTCAGCA
88666912 TTTCGGCTTTTCAGCA
1 TTTCGGCTTTTCAGCA
88666928 TTTCGGCTTTT
1 TTTCGGCTTTT
88666939 GCCGATCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.07, C:0.21, G:0.21, T:0.51
Consensus pattern (16 bp):
TTTCGGCTTTTCAGCA
Found at i:88670687 original size:27 final size:27
Alignment explanation
Indices: 88670657--88670765 Score: 85
Period size: 27 Copynumber: 4.1 Consensus size: 27
88670647 ATGACTAAAA
88670657 TGCCCCTACATGGTAAATTGACTATTT
1 TGCCCCTACATGGTAAATTGACTATTT
* ** * * *
88670684 TGCCCTTATGTGGTAAATTTATTGTTT
1 TGCCCCTACATGGTAAATTGACTATTT
** * ***
88670711 TG-CCCTAGTTGGTAAAATGACTAAAA
1 TGCCCCTACATGGTAAATTGACTATTT
* *
88670737 TGGCCCTACATGGAAAATTGACTATTT
1 TGCCCCTACATGGTAAATTGACTATTT
88670764 TG
1 TG
88670766 GCCTCATGTG
Statistics
Matches: 58, Mismatches: 23, Indels: 2
0.70 0.28 0.02
Matches are distributed among these distances:
26 16 0.28
27 42 0.72
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (27 bp):
TGCCCCTACATGGTAAATTGACTATTT
Found at i:88670744 original size:80 final size:79
Alignment explanation
Indices: 88670564--88670855 Score: 341
Period size: 80 Copynumber: 3.7 Consensus size: 79
88670554 CCTTAGTGGA
* * * * * * *
88670564 TAAAATGACTGAAATGCCCCTAAATAGTAAATTGACTGTTTGGCCCTTATGTGCTAAATAACCGT
1 TAAAATGACTAAAATGCCCCTACATGGTAAATTGACTATTTTGCCCTTATGTGGTAAATAACAGT
* *
88670629 TTTGCTCTTGTTGG
66 TTTGCCCTAGTTGG
* **
88670643 TAAAATGACTAAAATGCCCCTACATGGTAAATTGACTATTTTGCCCTTATGTGGTAAATTTATTG
1 TAAAATGACTAAAATGCCCCTACATGGTAAATTGACTATTTTGCCCTTATGTGGTAAA-TAACAG
88670708 TTTTGCCCTAGTTGG
65 TTTTGCCCTAGTTGG
* * * * *
88670723 TAAAATGACTAAAATGGCCCTACATGGAAAATTGACTATTTTGGCCTCATGTGGTAAAATGACAG
1 TAAAATGACTAAAATGCCCCTACATGGTAAATTGACTATTTTGCCCTTATGTGGT-AAATAACAG
*
88670788 TTTTACCCTAGTTGG
65 TTTTGCCCTAGTTGG
* * * * * * *
88670803 TAAAATAACTGAAATGCCCCTATATGATAAATTGATTGTTTTTCCCTTATGTG
1 TAAAATGACTAAAATGCCCCTACATGGTAAATTGACTATTTTGCCCTTATGTG
88670856 ATATATATTG
Statistics
Matches: 181, Mismatches: 30, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
79 52 0.29
80 126 0.70
81 3 0.02
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (79 bp):
TAAAATGACTAAAATGCCCCTACATGGTAAATTGACTATTTTGCCCTTATGTGGTAAATAACAGT
TTTGCCCTAGTTGG
Found at i:88670785 original size:27 final size:26
Alignment explanation
Indices: 88670640--88670808 Score: 80
Period size: 27 Copynumber: 6.3 Consensus size: 26
88670630 TTGCTCTTGT
***
88670640 TGGTAAAATGACTAAAATGCCCCTACA-
1 TGGTAAAATGACTATTTTG-CCCT-CAG
* *
88670667 TGGTAAATTGACTATTTTGCCCTTATG
1 TGGTAAAATGACTATTTTGCCCTCA-G
* * * *
88670694 TGGTAAATTTATTGTTTTGCCCT-AG
1 TGGTAAAATGACTATTTTGCCCTCAG
** *
88670719 TTGGTAAAATGACTAAAATGGCCCTACA-
1 -TGGTAAAATGACT-ATTTTGCCCT-CAG
*
88670747 TGG-AAAATTGACTATTTTGGCCTCATG
1 TGGTAAAA-TGACTATTTTGCCCTCA-G
*
88670774 TGGTAAAATGAC-AGTTTTACCCT-AG
1 TGGTAAAATGACTA-TTTTGCCCTCAG
88670799 TTGGTAAAAT
1 -TGGTAAAAT
88670809 AACTGAAATG
Statistics
Matches: 109, Mismatches: 21, Indels: 25
0.70 0.14 0.16
Matches are distributed among these distances:
25 5 0.05
26 36 0.33
27 63 0.58
28 4 0.04
29 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (26 bp):
TGGTAAAATGACTATTTTGCCCTCAG
Found at i:88671234 original size:18 final size:18
Alignment explanation
Indices: 88671178--88671259 Score: 85
Period size: 18 Copynumber: 4.6 Consensus size: 18
88671168 GGACTTGCAT
*
88671178 ACTGTTTACTGATACTGC
1 ACTGTTTACTGATATTGC
* *
88671196 ACTGTTTACTAATGTTGC
1 ACTGTTTACTGATATTGC
*
88671214 ACTGTTTACTGATATTCC
1 ACTGTTTACTGATATTGC
* *
88671232 ACTTTTTA-TAGTTATTGC
1 ACTGTTTACT-GATATTGC
*
88671250 ACTATTTACT
1 ACTGTTTACT
88671260 ATTACTGACT
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
17 1 0.02
18 50 0.96
19 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.12, T:0.46
Consensus pattern (18 bp):
ACTGTTTACTGATATTGC
Found at i:88671250 original size:36 final size:36
Alignment explanation
Indices: 88671178--88671259 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
88671168 GGACTTGCAT
* *
88671178 ACTGTTTACTGATACTGCACTGTTTACTAATGTTGC
1 ACTGTTTACTGATACTCCACTGTTTACTAATATTGC
* * *
88671214 ACTGTTTACTGATATTCCACTTTTTA-TAGTTATTGC
1 ACTGTTTACTGATACTCCACTGTTTACTA-ATATTGC
*
88671250 ACTATTTACT
1 ACTGTTTACT
88671260 ATTACTGACT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 2 0.05
36 37 0.95
ACGTcount: A:0.23, C:0.18, G:0.12, T:0.46
Consensus pattern (36 bp):
ACTGTTTACTGATACTCCACTGTTTACTAATATTGC
Found at i:88676299 original size:40 final size:39
Alignment explanation
Indices: 88676216--88676431 Score: 312
Period size: 40 Copynumber: 5.5 Consensus size: 39
88676206 AAACCAAGTA
* * *
88676216 CCTTCGGGATTTA-ACCGGATATAGTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
*
88676254 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTA-CTCGCACAAATG
88676294 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATG
88676334 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATG
*
88676374 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATG
88676414 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
88676432 TTATCATCCG
Statistics
Matches: 167, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
38 12 0.07
39 13 0.08
40 141 0.84
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
Found at i:88683536 original size:40 final size:40
Alignment explanation
Indices: 88683491--88683655 Score: 189
Period size: 40 Copynumber: 4.2 Consensus size: 40
88683481 CGGAATACAA
88683491 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * *
88683531 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
**
88683571 CCGGATAT-A--ACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
88683608 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
88683648 CCGGATAT
1 CCGGATAT
88683656 CATTCAATTG
Statistics
Matches: 109, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
37 33 0.30
39 3 0.03
40 73 0.67
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:88683628 original size:77 final size:77
Alignment explanation
Indices: 88683507--88683655 Score: 230
Period size: 77 Copynumber: 1.9 Consensus size: 77
88683497 ATAACCACAC
* *
88683507 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGCC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATGCCTTCGGGTATTAACC
88683572 CGGATATAACTT
66 CGGATATAACTT
* *
88683584 GCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAATTGCCTTCGGGTCTTAA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAACG--ACTAGCACAAATGCCTTCGGGTATTAA
88683647 CCCGGATAT
64 CCCGGATAT
88683656 CATTCAATTG
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
75 1 0.02
76 2 0.03
77 63 0.95
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (77 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATGCCTTCGGGTATTAACC
CGGATATAACTT
Found at i:88691532 original size:40 final size:40
Alignment explanation
Indices: 88691487--88691654 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
88691477 CGGAATACAA
88691487 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * *
88691527 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
88691567 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
88691607 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
88691647 CCGGATAT
1 CCGGATAT
88691655 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:88691627 original size:80 final size:80
Alignment explanation
Indices: 88691487--88691654 Score: 241
Period size: 80 Copynumber: 2.1 Consensus size: 80
88691477 CGGAATACAA
* *
88691487 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
88691552 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
88691567 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACG--ACTAGCACAAA
*
88691630 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
88691647 CCGGATAT
1 CCGGATAT
88691655 CATTCAATTG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 76 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:88695559 original size:40 final size:40
Alignment explanation
Indices: 88695481--88695714 Score: 348
Period size: 40 Copynumber: 5.9 Consensus size: 40
88695471 TAACCGGATA
* *
88695481 TAGTTACTCGCTCAAATGCCTTC-GGACTTAGCCCGG-AT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT
**
88695519 ATAGTAGTTCGCACAAATGCCTTCGGGACTTAGCCCGG-AT
1 -TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT
88695559 ATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT
1 -TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT
* * *
88695600 TAGTAACTCGCACAAATGCCTTCAGGAGTTAGCTCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT
88695640 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT
* *
88695680 TAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
88695715 CGTTATCATC
Statistics
Matches: 179, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 19 0.11
40 158 0.88
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT
Found at i:88703173 original size:56 final size:56
Alignment explanation
Indices: 88703077--88703239 Score: 197
Period size: 56 Copynumber: 2.9 Consensus size: 56
88703067 ACCATGGCAT
* * *
88703077 TGATATAGGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTAATT-
1 TGATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTAATTC
* *
88703132 TCGATATATGTGTGCGAGTAAGACCACGTTTAGTACATTGGCATCGATATGTGATTC
1 T-GATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTAATTC
* * * *
88703189 TAATTTATGTGTGCGAGTAAGACC-C-TATCTAAGACAGTGGCATCGATATGT
1 TGATATATGTGTGCGAGTAAGACCACGT-T-TAATACATTGGCATCGATATGT
88703240 GATTACATGT
Statistics
Matches: 94, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
54 1 0.01
55 3 0.03
56 89 0.95
57 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (56 bp):
TGATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTAATTC
Found at i:88706086 original size:55 final size:55
Alignment explanation
Indices: 88706002--88706113 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 55
88705992 GCTGTATGGC
88706002 GTGCTCGTTTGGGTTGGGAGTCGGCTAAGAGTGCTCGGAGCATGGATTAACTCTA
1 GTGCTCGTTTGGGTTGGGAGTCGGCTAAGAGTGCTCGGAGCATGGATTAACTCTA
*
88706057 GTGCTCGTTTGGGTTGGGAGTCGGCTAAGAGTGCTCGGAGCGTGGATTAACTCTA
1 GTGCTCGTTTGGGTTGGGAGTCGGCTAAGAGTGCTCGGAGCATGGATTAACTCTA
88706112 GT
1 GT
88706114 CTCCTATCAG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.17, C:0.16, G:0.38, T:0.29
Consensus pattern (55 bp):
GTGCTCGTTTGGGTTGGGAGTCGGCTAAGAGTGCTCGGAGCATGGATTAACTCTA
Found at i:88706441 original size:27 final size:27
Alignment explanation
Indices: 88706411--88706567 Score: 233
Period size: 27 Copynumber: 5.8 Consensus size: 27
88706401 ATTACCAAAG
* *
88706411 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
88706438 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
88706465 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
88706492 TACCCTCAATTTACAGAATTACAATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
88706519 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
88706546 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
88706568 TAAAATACCC
Statistics
Matches: 117, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:88706469 original size:54 final size:54
Alignment explanation
Indices: 88706411--88706567 Score: 260
Period size: 54 Copynumber: 2.9 Consensus size: 54
88706401 ATTACCAAAG
* * **
88706411 TACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACAATTT
*
88706465 TACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACAATTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACAATTT
*
88706519 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTAC
88706568 TAAAATACCC
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 96 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACAATTT
Found at i:88706576 original size:27 final size:27
Alignment explanation
Indices: 88706366--88706701 Score: 167
Period size: 27 Copynumber: 12.4 Consensus size: 27
88706356 AATACTTTAG
* * ** *
88706366 TTTACCAAATTACTAAAATGTCCTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
** *
88706393 TTTGTAAAATTACCAAAGTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * **** *
88706420 TTTATAGAATTACCGTTTTACCCTTGA
1 TTTACAAAATTACCAAAATACCCTCGA
* ****
88706447 TTTACAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * *** *
88706474 TTTATAGAATTACCATTTTACCCTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
* **
88706501 TTTACAGAATTA-CAATTTTACCCTCGA
1 TTTACAAAATTACCAA-AATACCCTCGA
* * ***
88706528 TTTATAGAATTACCATTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * *
88706555 TTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTCGA
* *
88706582 TTTACAAAATTATCAAAATA-CCTCTA
1 TTTACAAAATTACCAAAATACCCTCGA
** *
88706608 GTTTGTAAAATTACCAAAATACCACT-GG
1 -TTTACAAAATTACCAAAATACC-CTCGA
*** * *
88706636 TTTGTGAAATTACCAAAATTCCCTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
**
88706663 TTTGTAAAATTACCAAAATACTCCT-GA
1 TTTACAAAATTACCAAAATAC-CCTCGA
88706690 TTTACAAAATTA
1 TTTACAAAATTA
88706702 TAGAAATACC
Statistics
Matches: 250, Mismatches: 52, Indels: 14
0.79 0.16 0.04
Matches are distributed among these distances:
26 7 0.03
27 235 0.94
28 6 0.02
29 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTCGA
Found at i:88706586 original size:81 final size:81
Alignment explanation
Indices: 88706398--88706593 Score: 239
Period size: 81 Copynumber: 2.4 Consensus size: 81
88706388 CTCAATTTGT
* * ** * *
88706398 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACAATTTTACCCTCGATTTACAGAATTACCAT
*
88706463 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
* *** * *
88706479 AGAATTACCATTTTACCCTCAATTTACAGAATTACAATTTTACCCTCGATTTATAGAATTACCAT
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACAATTTTACCCTCGATTTACAGAATTACCAT
88706544 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* * * *
88706560 AAAATTACTAAAATACCCTTGGTTTACAAAATTA
1 AAAATTACCAAAATACCCTCGATTTACAGAATTA
88706594 TCAAAATACC
Statistics
Matches: 94, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 94 1.00
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTACAGAATTACAATTTTACCCTCGATTTACAGAATTACCAT
TTTACCCTCGATTTAC
Found at i:88706593 original size:54 final size:54
Alignment explanation
Indices: 88706398--88706578 Score: 238
Period size: 54 Copynumber: 3.4 Consensus size: 54
88706388 CTCAATTTGT
* * *
88706398 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTAC
1 AAAATTACCAAATTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAC
* *** *
88706452 AGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTAC
1 AAAATTACCAAATTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAC
* *
88706506 AGAATTA-CAATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAC
1 AAAATTACCAA-ATTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAC
* *
88706560 AAAATTACTAAAATACCCT
1 AAAATTACCAAATTACCCT
88706579 TGGTTTACAA
Statistics
Matches: 110, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 107 0.97
55 2 0.02
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.36
Consensus pattern (54 bp):
AAAATTACCAAATTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAC
Found at i:88706618 original size:54 final size:55
Alignment explanation
Indices: 88706560--88706798 Score: 190
Period size: 54 Copynumber: 4.4 Consensus size: 55
88706550 CTCGATTTAC
*
88706560 AAAATTACTAAAATACCCTTGGTTTACAAAATTATCAAAATA-CC-TCTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTATCAAAATACCCATC-AGTTTGT
*** * * *
88706614 AAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCAAAATTCCC-TCAATTTGT
1 AAAATTACCAAAATACC-CTTGGTTTACAAAATTATCAAAATACCCATCAGTTTGT
* * * *
88706668 AAAATTACCAAAATACTCC-TGATTTACAAAATTAT-AGAAATACCCATGACTTTCT
1 AAAATTACCAAAATAC-CCTTGGTTTACAAAATTATCA-AAATACCCATCAGTTTGT
* * * *
88706723 AAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAAA-ACCC-TTAGTTTGT
1 -AAAATTACCA-AAATACCCTTGGTTTACAAAATTA-TCAAAATACCCATCAGTTTGT
* * *
88706778 AGATTTACCAAAACACCCTTG
1 AAAATTACCAAAATACCCTTG
88706799 TAGGATGAAA
Statistics
Matches: 147, Mismatches: 27, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
53 1 0.01
54 89 0.61
55 21 0.14
56 31 0.21
57 4 0.03
58 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.32
Consensus pattern (55 bp):
AAAATTACCAAAATACCCTTGGTTTACAAAATTATCAAAATACCCATCAGTTTGT
Found at i:88706708 original size:27 final size:26
Alignment explanation
Indices: 88706678--88706757 Score: 81
Period size: 29 Copynumber: 2.9 Consensus size: 26
88706668 AAAATTACCA
88706678 AAATACTCCTGATTTACAAAATTATAG
1 AAATAC-CCTGATTTACAAAATTATAG
88706705 AAATACCCATGACTTT-CTAAAAATTATAG
1 AAATACCC-TGA-TTTAC--AAAATTATAG
* *
88706734 AAATACCATTGGTTTACAAAATTA
1 AAATACC-CTGATTTACAAAATTA
88706758 CTGAAAAACC
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
26 2 0.04
27 17 0.38
28 6 0.13
29 20 0.44
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (26 bp):
AAATACCCTGATTTACAAAATTATAG
Found at i:88706858 original size:27 final size:27
Alignment explanation
Indices: 88706828--88706889 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
88706818 TACCCCTAAT
*
88706828 GGGTAAAAAGACCGTAA-AGCCTCTGTA
1 GGGTAAAAAGACCGTAATACCCT-TGTA
**
88706855 GGGTAAAGTGACCGTAATACCCTTGTA
1 GGGTAAAAAGACCGTAATACCCTTGTA
*
88706882 TGGTAAAA
1 GGGTAAAA
88706890 TGATGAATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 25 0.86
28 4 0.14
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (27 bp):
GGGTAAAAAGACCGTAATACCCTTGTA
Found at i:88707624 original size:20 final size:20
Alignment explanation
Indices: 88707599--88707685 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
88707589 GATATGATAT
*
88707599 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
88707619 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
88707639 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
*
88707659 ACATGATATGTATGAAATGA
1 ACATGATATGTATGAAATGC
88707679 ACATGAT
1 ACATGAT
88707686 GTATTCATAA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
20 60 0.97
21 2 0.03
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:88707832 original size:25 final size:26
Alignment explanation
Indices: 88707735--88707857 Score: 196
Period size: 26 Copynumber: 4.8 Consensus size: 26
88707725 GAGGAAGTGC
**
88707735 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
88707761 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
88707787 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
88707813 AAAAGGGCTT-TGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
88707838 AAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTT
88707858 ATTAAAAGAG
Statistics
Matches: 94, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
25 34 0.36
26 60 0.64
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:88708062 original size:42 final size:42
Alignment explanation
Indices: 88708003--88708091 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
88707993 TAGTCTCCCC
* * ** *
88708003 AAATGGGCTTGCATACATTCTTTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
88708045 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
88708087 AAATG
1 AAATG
88708092 AGCCTATAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.37
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:88710979 original size:2 final size:2
Alignment explanation
Indices: 88710972--88711010 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
88710962 TCGATCGGAG
88710972 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
88711011 GTACGCACAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:88711133 original size:29 final size:29
Alignment explanation
Indices: 88711109--88711202 Score: 152
Period size: 29 Copynumber: 3.2 Consensus size: 29
88711099 TCGCACACCC
*
88711109 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
88711138 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
**
88711167 AGTGCCATATATTTCCAGCACACACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
88711196 TGTGCCA
1 AGTGCCA
88711203 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.30
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:88711134 original size:58 final size:58
Alignment explanation
Indices: 88711072--88711186 Score: 142
Period size: 58 Copynumber: 2.0 Consensus size: 58
88711062 ATTTAAGCCC
* * *
88711072 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACATAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCAT
* * * **
88711130 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 GCACACATAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
88711187 CACACACTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
58 47 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (58 bp):
GCACACATAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
Found at i:88716446 original size:27 final size:29
Alignment explanation
Indices: 88716416--88716530 Score: 99
Period size: 29 Copynumber: 4.0 Consensus size: 29
88716406 ACGCAAGAGC
*
88716416 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
88716443 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
88716472 ATATAATTTTCAGCTCGCACACTTAGTGCT
1 ATAT-ATGTGAAGCTCGCACACTTAGTGCT
* * ** *
88716502 ATATGTTTTCAGTTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
88716531 GTACAATTTT
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.06
28 3 0.04
29 42 0.53
30 29 0.37
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:88716483 original size:30 final size:29
Alignment explanation
Indices: 88716428--88716530 Score: 179
Period size: 29 Copynumber: 3.5 Consensus size: 29
88716418 ATAGTGAATC
88716428 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
88716457 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
* *
88716487 CGCACACTTAGTGCTATATGTTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
88716516 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
88716531 GTACAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
29 42 0.59
30 29 0.41
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:88716520 original size:59 final size:60
Alignment explanation
Indices: 88716427--88716560 Score: 198
Period size: 59 Copynumber: 2.2 Consensus size: 60
88716417 TATAGTGAAT
* * *
88716427 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
* * * *
88716486 TCGCACACTTAGTGCTATATGTTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
88716546 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
88716561 CAATCTTGTC
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
59 46 0.70
60 20 0.30
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (60 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
Found at i:88717900 original size:19 final size:21
Alignment explanation
Indices: 88717864--88717903 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
88717854 TCCACACCCA
88717864 TTTTTTTTCATCATTTTCTTTT
1 TTTTTTTTCA-CATTTTCTTTT
88717886 TTTTTTTTC-CA-TTTCTTT
1 TTTTTTTTCACATTTTCTTT
88717904 ATTCTCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 2 0.11
22 9 0.50
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTTTTCACATTTTCTTTT
Found at i:88722870 original size:2 final size:2
Alignment explanation
Indices: 88722863--88722905 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
88722853 TCGATCGGAG
88722863 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
88722905 A
1 A
88722906 GTACGCACAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:88723028 original size:29 final size:29
Alignment explanation
Indices: 88723004--88723097 Score: 170
Period size: 29 Copynumber: 3.2 Consensus size: 29
88722994 TCGCACACCC
*
88723004 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
88723033 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
88723062 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
88723091 AGTGCCA
1 AGTGCCA
88723098 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:88723029 original size:58 final size:58
Alignment explanation
Indices: 88722966--88723097 Score: 167
Period size: 58 Copynumber: 2.3 Consensus size: 58
88722956 GATTTAAGCC
* * * *
88722966 CGCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCA
* * * **
88723024 TGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
88723082 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
88723098 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 62 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
Found at i:88739409 original size:122 final size:122
Alignment explanation
Indices: 88739257--88739500 Score: 443
Period size: 122 Copynumber: 2.0 Consensus size: 122
88739247 GTAACACCCT
*
88739257 GAATTTGGGCTTAGAAGTTTTGGGCCTTGAGCATAGGAGCGGTTGAAGGCAGCTTATAATATTTT
1 GAATTTGGGCCTAGAAGTTTTGGGCCTTGAGCATAGGAGCGGTTGAAGGCAGCTTATAATATTTT
*
88739322 GTTGTGCATGTAAATTTAGTTAATAAAGGTTTGTTTTAGTGGTTAAGTGTGCTGAGA
66 GTTGTGCATGTAAATTTAGTTAATAAAGGCTTGTTTTAGTGGTTAAGTGTGCTGAGA
*
88739379 GAATTTGGGCCTAGAAGTTTTGGGCCTTGAGCATGGGAGCGGTTGAAGGCAGCTTATAATATTTT
1 GAATTTGGGCCTAGAAGTTTTGGGCCTTGAGCATAGGAGCGGTTGAAGGCAGCTTATAATATTTT
* *
88739444 GTTGTGCATGTAAATTTCGTTAATGAAGGCTTGTTTTAGTGGTTAAGTGTGCTGAGA
66 GTTGTGCATGTAAATTTAGTTAATAAAGGCTTGTTTTAGTGGTTAAGTGTGCTGAGA
88739501 AGTGTTGGAG
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
122 117 1.00
ACGTcount: A:0.24, C:0.09, G:0.30, T:0.37
Consensus pattern (122 bp):
GAATTTGGGCCTAGAAGTTTTGGGCCTTGAGCATAGGAGCGGTTGAAGGCAGCTTATAATATTTT
GTTGTGCATGTAAATTTAGTTAATAAAGGCTTGTTTTAGTGGTTAAGTGTGCTGAGA
Found at i:88740286 original size:27 final size:27
Alignment explanation
Indices: 88740255--88740342 Score: 140
Period size: 27 Copynumber: 3.3 Consensus size: 27
88740245 TCGATTTCTA
*
88740255 AATTACCAAAATACCCCGGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
88740282 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
88740309 AAATACTAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
88740336 AATTACC
1 AATTACC
88740343 GAGTTAACCT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGTAGGGTAG
Found at i:88740354 original size:54 final size:53
Alignment explanation
Indices: 88740253--88740365 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 53
88740243 CCTCGATTTC
* * *
88740253 TAAATTACCAAAATACCCCGGTAGGGTAGAATTACCAAAATACCCTTGTAGGG
1 TAAAATACTAAAATACCCCGGTAGGGTAGAATTACCAAAATAACCTTGTAGGG
* * ** *
88740306 TAGAAATACTAAAATACCCCTGTAGGGTAGAATTACCGAGTTAACCTTGTGGGG
1 TA-AAATACTAAAATACCCCGGTAGGGTAGAATTACCAAAATAACCTTGTAGGG
88740360 TAAAAT
1 TAAAAT
88740366 TACCATTTTG
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
53 6 0.12
54 45 0.88
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (53 bp):
TAAAATACTAAAATACCCCGGTAGGGTAGAATTACCAAAATAACCTTGTAGGG
Found at i:88740759 original size:20 final size:20
Alignment explanation
Indices: 88740713--88740760 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
88740703 CGAAGGTTGT
* *
88740713 GTGTCGTTATTGTGGGCTTT
1 GTGTCGATATTGTGGGCTTC
*
88740733 GTATCGATATTGTGGGCTTC
1 GTGTCGATATTGTGGGCTTC
88740753 GTGTCGAT
1 GTGTCGAT
88740761 TATAGACCCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.10, C:0.12, G:0.33, T:0.44
Consensus pattern (20 bp):
GTGTCGATATTGTGGGCTTC
Found at i:88741023 original size:19 final size:19
Alignment explanation
Indices: 88740973--88741024 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
88740963 GCATTACATT
*
88740973 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTCAC
*
88740992 CTGATACTGATTCTGTCAC
1 CTGATTCTGATTCTGTCAC
* *
88741011 TTGATTCTAATTCT
1 CTGATTCTGATTCT
88741025 AATTCTCATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.46
Consensus pattern (19 bp):
CTGATTCTGATTCTGTCAC
Found at i:88763337 original size:49 final size:50
Alignment explanation
Indices: 88763215--88763600 Score: 432
Period size: 49 Copynumber: 8.2 Consensus size: 50
88763205 GTACGTAATA
*
88763215 ATATATGTGATAAGGCCTAATGGACGATGTGATGAATGTGAAAATGTATATAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATG---ATAT
*
88763268 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATG-TAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGATAT
*
88763317 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAATGTATAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATG-ATAT
*
88763368 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGATAT
*
88763417 ATATATGTG---A----TAA-GGCC--TGTGATGAATGTGAAAGTG-TAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGATAT
* * * *
88763456 ATATATGTG---AGGCC---T-G-TGATG-AATG--TG-A-AAGTG-TAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGATAT
88763492 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATG-TAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGATAT
* *
88763541 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATG-ATAT
88763592 ATATATGTG
1 ATATATGTG
88763601 GTAAAGCCGA
Statistics
Matches: 294, Mismatches: 15, Indels: 50
0.82 0.04 0.14
Matches are distributed among these distances:
36 17 0.06
38 2 0.01
39 37 0.13
40 4 0.01
41 6 0.02
42 4 0.01
43 1 0.00
44 4 0.01
45 3 0.01
46 1 0.00
47 2 0.01
49 110 0.37
51 59 0.20
53 44 0.15
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (50 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGATAT
Found at i:88763438 original size:39 final size:39
Alignment explanation
Indices: 88763395--88763509 Score: 209
Period size: 39 Copynumber: 3.0 Consensus size: 39
88763385 TAATGGCCGA
88763395 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
88763434 TGTGATGAATGTGAAAGTGTATATATATGTG---AGGCC
1 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
88763470 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
88763509 T
1 T
88763510 AATGGCCGAT
Statistics
Matches: 73, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
36 36 0.49
39 37 0.51
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (39 bp):
TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
Found at i:88763476 original size:36 final size:36
Alignment explanation
Indices: 88763395--88763501 Score: 187
Period size: 36 Copynumber: 2.9 Consensus size: 36
88763385 TAATGGCCGA
88763395 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TGTGATGAATGTGAAAGTGTATATATATGTG---AGGCC
88763434 TGTGATGAATGTGAAAGTGTATATATATGTGAGGCC
1 TGTGATGAATGTGAAAGTGTATATATATGTGAGGCC
88763470 TGTGATGAATGTGAAAGTGTATATATATGTGA
1 TGTGATGAATGTGAAAGTGTATATATATGTGA
88763502 TAAGGCCTAA
Statistics
Matches: 68, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
36 37 0.54
39 31 0.46
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.35
Consensus pattern (36 bp):
TGTGATGAATGTGAAAGTGTATATATATGTGAGGCC
Found at i:88763719 original size:37 final size:36
Alignment explanation
Indices: 88763664--88763750 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
88763654 AACTTGAAAA
88763664 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
88763702 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
*
88763739 TATGTTCGGGTA
1 TATGTCCGGGTA
88763751 AGACTTCGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.89
38 4 0.09
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:88775272 original size:34 final size:33
Alignment explanation
Indices: 88775234--88775326 Score: 98
Period size: 34 Copynumber: 2.8 Consensus size: 33
88775224 ACAGCCTGGG
*
88775234 CCTTAGCCCATATCAATCGCAGTATCAGTATGGC
1 CCTTAGCCCATATCAAT-ACAGTATCAGTATGGC
* * * *
88775268 CCTTAGCCCA-ATACAGTAATAGTATCAGTGTGGG
1 CCTTAGCCCATAT-CAAT-ACAGTATCAGTATGGC
*
88775302 CCTTAGCCCATTTCAATACAGTATC
1 CCTTAGCCCATATCAATACAGTATC
88775327 CAAAATGCAT
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
33 9 0.19
34 38 0.79
35 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (33 bp):
CCTTAGCCCATATCAATACAGTATCAGTATGGC
Found at i:88781383 original size:27 final size:27
Alignment explanation
Indices: 88781324--88781385 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
88781314 CACAGCCCTA
* *
88781324 GGTAAATATGATCGACACAGAGTCATC
1 GGTAAATATGATAGACACAGAGCCATC
* * *
88781351 GATAAATATGATAGACACATAGCCATT
1 GGTAAATATGATAGACACAGAGCCATC
88781378 GGTAAATA
1 GGTAAATA
88781386 CGATTTGCAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.24
Consensus pattern (27 bp):
GGTAAATATGATAGACACAGAGCCATC
Found at i:88781847 original size:27 final size:27
Alignment explanation
Indices: 88781817--88782023 Score: 154
Period size: 27 Copynumber: 7.7 Consensus size: 27
88781807 TACCCTACAG
*
88781817 GGGTATTTTGGTAATTTTAC-ACTCTAA
1 GGGTATTTTGGTAATTTTACAAATC-AA
*
88781844 GGGTATTTTGGTAATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCAA
* **
88781871 GGGTATTTTGGTAATTTTACGAA-CTG
1 GGGTATTTTGGTAATTTTACAAATCAA
* **
88781897 GAGGTATTTTGATAATTTTACAAATTGA
1 G-GGTATTTTGGTAATTTTACAAATCAA
* * **
88781925 GGGTATTTCGATAATTTTACAAA-CTGG
1 GGGTATTTTGGTAATTTTACAAATC-AA
* * * *
88781952 GGGTATTTCGATAATTTTA-TAATCCGA
1 GGGTATTTTGGTAATTTTACAAAT-CAA
* * *
88781979 GGGTATTTCGATAATTTTACAAA-CAT
1 GGGTATTTTGGTAATTTTACAAATCAA
*
88782005 GAGGTATTTCGGTAATTTT
1 G-GGTATTTTGGTAATTTT
88782024 GAACAGTTTG
Statistics
Matches: 153, Mismatches: 19, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
26 6 0.04
27 140 0.92
28 7 0.05
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAA
Found at i:88781903 original size:54 final size:54
Alignment explanation
Indices: 88781845--88782023 Score: 236
Period size: 54 Copynumber: 3.3 Consensus size: 54
88781835 ACACTCTAAG
* * * * *
88781845 GGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACGAACTGGA
1 GGTATTTCGATAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAACTGGA
* * *
88781899 GGTATTTTGATAATTTTACAAATTGAGGGTATTTCGATAATTTTACAAACTGGG
1 GGTATTTCGATAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAACTGGA
*
88781953 GGTATTTCGATAATTTTA-TAATCCGAGGGTATTTCGATAATTTTACAAACAT-GA
1 GGTATTTCGATAATTTTACAAAT-CGAGGGTATTTCGATAATTTTACAAAC-TGGA
*
88782007 GGTATTTCGGTAATTTT
1 GGTATTTCGATAATTTT
88782024 GAACAGTTTG
Statistics
Matches: 112, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
53 3 0.03
54 108 0.96
55 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (54 bp):
GGTATTTCGATAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAACTGGA
Found at i:88781940 original size:81 final size:81
Alignment explanation
Indices: 88781817--88782023 Score: 226
Period size: 81 Copynumber: 2.6 Consensus size: 81
88781807 TACCCTACAG
* * * * *
88781817 GGGTATTTTGGTAATTTTAC-ACTCTAAGGGTATTTTGGTAATTTTACAAA-TCGAGGGTATTTT
1 GGGTATTTTGATAATTTTACAAAT-TGAGGGTATTTCGGTAATTTTACAAACT-GAGGGTATTTC
* *
88781880 GGTAATTTTACGAA-CTG-
64 GATAATTTTA-GAATCCGA
* *
88781897 GAGGTATTTTGATAATTTTACAAATTGAGGGTATTTCGATAATTTTACAAACTGGGGGTATTTCG
1 G-GGTATTTTGATAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACTGAGGGTATTTCG
*
88781962 ATAATTTTATAATCCGA
65 ATAATTTTAGAATCCGA
* *
88781979 GGGTATTTCGATAATTTTACAAACATGA-GGTATTTCGGTAATTTT
1 GGGTATTTTGATAATTTTACAAA-TTGAGGGTATTTCGGTAATTTT
88782024 GAACAGTTTG
Statistics
Matches: 108, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
80 3 0.03
81 98 0.91
82 7 0.06
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.42
Consensus pattern (81 bp):
GGGTATTTTGATAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACTGAGGGTATTTCGA
TAATTTTAGAATCCGA
Found at i:88786907 original size:40 final size:39
Alignment explanation
Indices: 88786862--88786991 Score: 154
Period size: 40 Copynumber: 3.3 Consensus size: 39
88786852 CGGAATACAA
88786862 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * *
88786902 CCGGATAGAACGACTTGCACGAATGCCTTCGAGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
88786942 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
88786982 CCGGATATAA
1 CCGGATATAA
88786992 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.04
40 72 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:88794971 original size:40 final size:39
Alignment explanation
Indices: 88794926--88795055 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
88794916 CGGAATACAA
88794926 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
88794966 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
88795006 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
88795046 CCGGATATAA
1 CCGGATATAA
88795056 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:88797532 original size:15 final size:15
Alignment explanation
Indices: 88797512--88797542 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
88797502 ATTATGAAAG
88797512 ATATGTTTTGGATTA
1 ATATGTTTTGGATTA
*
88797527 ATATGTTTTGTATTA
1 ATATGTTTTGGATTA
88797542 A
1 A
88797543 ATTTTTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (15 bp):
ATATGTTTTGGATTA
Found at i:88798212 original size:56 final size:56
Alignment explanation
Indices: 88798148--88798281 Score: 214
Period size: 56 Copynumber: 2.4 Consensus size: 56
88798138 ACTATGGCAT
88798148 CAATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCATCAATATGTGATTC
1 CAATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCATCAATATGTGATTC
* * *
88798204 TAATATATGTTTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTC
1 CAATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCATCAATATGTGATTC
* * *
88798260 CGATTTATGTGTGCAAGTAAGA
1 CAATATATGTGTGCGAGTAAGA
88798282 ACCTATTTGG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 70 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (56 bp):
CAATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCATCAATATGTGATTC
Found at i:88801223 original size:49 final size:47
Alignment explanation
Indices: 88801106--88801422 Score: 433
Period size: 47 Copynumber: 6.7 Consensus size: 47
88801096 GATTTTACGC
* *
88801106 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
88801153 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCT-AATGGCCAATGT
*
88801200 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCAATGT
*
88801249 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CAGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCA-ATGT
*
88801298 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATAGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCT-AATGGCCAATGT
* * * * *
88801345 GATGAATGTGAAGGTGTATATATGTGACAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
* * *
88801392 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAGGTGTATATATGTGATAAG
88801423 TCCCGAAGGG
Statistics
Matches: 244, Mismatches: 18, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
46 4 0.02
47 143 0.59
48 10 0.04
49 85 0.35
50 2 0.01
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.29
Consensus pattern (47 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
Found at i:88801230 original size:96 final size:93
Alignment explanation
Indices: 88801106--88801422 Score: 424
Period size: 96 Copynumber: 3.3 Consensus size: 93
88801096 GATTTTACGC
88801106 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
88801171 TATATGTGATAAGGCTGAATGGCCAATGT
65 TATATGTGATAAGGCTGAATGGCCAATGT
88801200 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTG-AA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-G
*
88801265 TATATATATGTGATAAGGCCT-AATGG-CAGATGT
61 TGTATATATGTGATAAGG-CTGAATGGCCA-ATGT
* *
88801298 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATAGCCAATGTGATGAATGTGAAGGTGT
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAAGGTGT
* * * * *
88801362 ATATATGTGACAGGGCCGAGTGGCCAACGT
64 ATATATGTGATAAGGCTGAATGGCCAATGT
* *
88801392 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTG-AAGTGTATATATGTGATAAG
88801423 TCCCGAAGGG
Statistics
Matches: 201, Mismatches: 12, Indels: 20
0.86 0.05 0.09
Matches are distributed among these distances:
93 1 0.00
94 59 0.29
95 11 0.05
96 84 0.42
97 7 0.03
98 37 0.18
99 2 0.01
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.29
Consensus pattern (93 bp):
GATGAATGTGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTAT
ATATGTGATAAGGCTGAATGGCCAATGT
Found at i:88803269 original size:23 final size:23
Alignment explanation
Indices: 88803239--88803290 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
88803229 ACAGGCTAGC
88803239 TTATGTTTATACTTGATTTTAGG
1 TTATGTTTATACTTGATTTTAGG
*
88803262 TTATGTTTATACTTGATTTTGGG
1 TTATGTTTATACTTGATTTTAGG
88803285 TTATGT
1 TTATGT
88803291 AAATATGAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.19, C:0.04, G:0.19, T:0.58
Consensus pattern (23 bp):
TTATGTTTATACTTGATTTTAGG
Found at i:88820585 original size:47 final size:47
Alignment explanation
Indices: 88820520--88820626 Score: 187
Period size: 47 Copynumber: 2.3 Consensus size: 47
88820510 ATGTATGAGA
* *
88820520 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGTATGTGAAAG
1 TGTATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
88820567 TGTATATAAGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
88820614 TGTATATATGTGA
1 TGTATATATGTGA
88820627 TAGGCCAGTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (47 bp):
TGTATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
Found at i:88820638 original size:21 final size:22
Alignment explanation
Indices: 88820612--88820654 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
88820602 TGAATGTGAA
88820612 AGTGTATATATGTGAT-AGGCC
1 AGTGTATATATGTGATAAGGCC
88820633 AGTGTATATATGTGATAAGGCC
1 AGTGTATATATGTGATAAGGCC
88820655 TAATGGCCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.33
Consensus pattern (22 bp):
AGTGTATATATGTGATAAGGCC
Found at i:88820641 original size:68 final size:69
Alignment explanation
Indices: 88820565--88820701 Score: 249
Period size: 68 Copynumber: 2.0 Consensus size: 69
88820555 TGTATGTGAA
88820565 AGTGTATATAAGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT-A
1 AGTGTATATAAGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
88820629 GGCC
66 GGCC
* *
88820633 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATAAGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
88820698 GGCC
66 GGCC
88820702 TAATGGCCGA
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
68 61 0.92
69 5 0.08
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (69 bp):
AGTGTATATAAGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCC
Found at i:88820649 original size:115 final size:116
Alignment explanation
Indices: 88820520--88820748 Score: 424
Period size: 115 Copynumber: 2.0 Consensus size: 116
88820510 ATGTATGAGA
*
88820520 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGTATGTGAAAGTGTATATAAGTGACAAGG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAAGTGACAAGG
88820585 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT-AGGCCAG
66 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCAG
* *
88820635 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAAGTGACAAGG
88820700 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
66 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
88820749 TAATGGCCGA
Statistics
Matches: 110, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
115 105 0.95
116 5 0.05
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.30
Consensus pattern (116 bp):
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAAGTGACAAGG
CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCAG
Found at i:88820686 original size:47 final size:47
Alignment explanation
Indices: 88820633--88820933 Score: 530
Period size: 47 Copynumber: 6.4 Consensus size: 47
88820623 GTGATAGGCC
88820633 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
88820680 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
88820727 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
88820774 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
88820821 AGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * *
88820868 AGTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
88820915 AGTGTATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
88820934 TCCCGGAGGG
Statistics
Matches: 247, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 247 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:88821110 original size:37 final size:37
Alignment explanation
Indices: 88821051--88821133 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
88821041 CCGAGCTCTA
* *
88821051 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
*
88821088 AAGACCCGATGACCACGGGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
*
88821125 AAGCCCCGA
1 AAGACCCGA
88821134 ACTAAAGGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.33, T:0.20
Consensus pattern (37 bp):
AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
Found at i:88824995 original size:19 final size:19
Alignment explanation
Indices: 88824971--88825027 Score: 114
Period size: 19 Copynumber: 3.0 Consensus size: 19
88824961 CCCCTAAAAG
88824971 CAATTTCAGCCTCGAAATT
1 CAATTTCAGCCTCGAAATT
88824990 CAATTTCAGCCTCGAAATT
1 CAATTTCAGCCTCGAAATT
88825009 CAATTTCAGCCTCGAAATT
1 CAATTTCAGCCTCGAAATT
88825028 TACCTGATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (19 bp):
CAATTTCAGCCTCGAAATT
Done.