Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 13 of 310
Found at i:3311888 original size:126 final size:126
Alignment explanation
Indices: 3311658--3311901 Score: 407
Period size: 126 Copynumber: 1.9 Consensus size: 126
3311648 TATTGATCTT
*
3311658 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
* *
3311723 ACGTACTGGGTTTCGATTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCG
66 ACATACTGGGCTTCGATTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCG
** *
3311784 CTCTAAAAAATTTTCAAAATAAAGTTAATGTTCGGTATTTAAAGAATTCGAAGAATTGTGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
* * *
3311849 ACATATTGGGCTTCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCTTA
66 ACATACTGGGCTTCGATTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTA
3311902 AGGCTAAAAC
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 109 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (126 bp):
CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
ACATACTGGGCTTCGATTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCG
Found at i:3318948 original size:50 final size:50
Alignment explanation
Indices: 3318873--3319049 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
3318863 CCATGGAAAC
3318873 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
3318923 AAGTGATAAGTAATAACTTCGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
3318973 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * * *
3319023 CAACTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
3319050 CTGATCAGTG
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
50 89 0.79
51 24 0.21
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:3319235 original size:31 final size:31
Alignment explanation
Indices: 3319027--3319228 Score: 314
Period size: 31 Copynumber: 6.5 Consensus size: 31
3319017 AAATGACAAC
3319027 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
3319058 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
3319089 TGAAAAGTGGTAGCTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
3319120 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
3319151 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* **
3319182 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
3319213 TGAATAGTGGTAGCTT
1 TGAAAAGTGGTAGCTT
3319229 TGGCTACAAG
Statistics
Matches: 157, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 157 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:3319478 original size:47 final size:47
Alignment explanation
Indices: 3319261--3319477 Score: 339
Period size: 47 Copynumber: 4.6 Consensus size: 47
3319251 AGTGATTTCC
3319261 GTATAAGACCATATCTGGGATATGGCATCGTTGTGATATATGCTACT
1 GTATAAGACCATATCTGGGATATGGCATCGTTGTGATATATGCTACT
3319308 GTATAAGACCATATCTGGGATATGGCATCGTTGTGATATATGCTACT
1 GTATAAGACCATATCTGGGATATGGCATCGTTGTGATATATGCTACT
3319355 GTATAAGACCATATCTGGGATATGGCATCGTTGTGATATATGCTACT
1 GTATAAGACCATATCTGGGATATGGCATCGTTGTGATATATGCTACT
* * * *
3319402 GTATAAGACCATATCTGGGATATGACATCAG-TGAGATATGTGATTAC-
1 GTATAAGACCATATCTGGGATATGGCATC-GTTGTGATATATG-CTACT
* * *
3319449 GTGTAAGACCATAGCTGGGCTATGGCATC
1 GTATAAGACCATATCTGGGATATGGCATC
3319478 ATTATGTAAA
Statistics
Matches: 160, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
47 156 0.98
48 4 0.03
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (47 bp):
GTATAAGACCATATCTGGGATATGGCATCGTTGTGATATATGCTACT
Found at i:3322975 original size:13 final size:13
Alignment explanation
Indices: 3322959--3323007 Score: 66
Period size: 12 Copynumber: 3.8 Consensus size: 13
3322949 TTCAAAAAAA
3322959 AAAGAGAAAAAGG
1 AAAGAGAAAAAGG
3322972 AAAGAGAAAAAAGG
1 AAAGAG-AAAAAGG
*
3322986 AAA-AGAAAAAAG
1 AAAGAGAAAAAGG
3322998 -AAGAGAAAAA
1 AAAGAGAAAAA
3323008 TAAAAAAGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
11 2 0.06
12 13 0.39
13 8 0.24
14 10 0.30
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AAAGAGAAAAAGG
Found at i:3323014 original size:25 final size:25
Alignment explanation
Indices: 3322952--3323016 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 25
3322942 CTTCACTTTC
*
3322952 AAAAAAAAAAGAGAAAAAGGAAAGAG
1 AAAAAAAAAA-AGAAAAAAGAAAGAG
*
3322978 AAAAAAGGAAAAGAAAAAAG-AAGAG
1 AAAAAA-AAAAAGAAAAAAGAAAGAG
3323003 AAAAATAAAAAAGA
1 AAAAA-AAAAAAGA
3323017 GAATGAAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 16 0.47
26 15 0.44
27 3 0.09
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (25 bp):
AAAAAAAAAAAGAAAAAAGAAAGAG
Found at i:3324540 original size:133 final size:134
Alignment explanation
Indices: 3324321--3324596 Score: 383
Period size: 133 Copynumber: 2.1 Consensus size: 134
3324311 AGTGGAGCAA
* * * * *
3324321 ATCAAGTTTTGGTGAATCTTATCTCCATGTATCGGCAATGTAGCAGATTTCAGCCACCAGCCTTA
1 ATCAAATTTTGATGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTCCAACCACCAGCCTTA
* ** * * *
3324386 TCTTCATTGAGCAGGAGTGGAGCAGGCT-ATTTACTAGATCTTATCTTCGCTGAGCAGGAGCAAA
66 TCTTCACTGAGCAGGAGTGGAGCAGGCTAACATACCAGATCTTATCTTCACTGAGCAAGAGCAAA
3324450 GTAG
131 GTAG
* * * *
3324454 ATTAAATTTTGATGAATCTTATCTCCATGTATCGGTAATGGAGCAGATTCCAATCATCAGCCTTA
1 ATCAAATTTTGATGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTCCAACCACCAGCCTTA
* *
3324519 TCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTTACTGAGCAAGAGTAA
66 TCTTCACTGAGCAGGAGTGGAGCAGGCT-AACATACCAGATCTTATCTTCACTGAGCAAGAGCAA
3324584 AGTAG
130 AGTAG
3324589 ATCAAATT
1 ATCAAATT
3324597 ACAACAGATC
Statistics
Matches: 123, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
133 83 0.67
135 40 0.33
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (134 bp):
ATCAAATTTTGATGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTCCAACCACCAGCCTTA
TCTTCACTGAGCAGGAGTGGAGCAGGCTAACATACCAGATCTTATCTTCACTGAGCAAGAGCAAA
GTAG
Found at i:3325208 original size:61 final size:60
Alignment explanation
Indices: 3325118--3325257 Score: 158
Period size: 61 Copynumber: 2.3 Consensus size: 60
3325108 CCTTTTTTTA
* * * *
3325118 TTTTTGTTATTTTACTGTTAAATTAATTAATTTGAGCTT-T-ATTCTTATTAATTTTATATATT
1 TTTTTATTATTTTA-TATTAAATTAATTAATTTGAG-TTATGATTCATATT-ATTATAT-TATT
* *
3325180 TTTTTATTATTTTATATTAATTTAATTAATTTGAGTTATGTTTCATATTATTATATTATT
1 TTTTTATTATTTTATATTAAATTAATTAATTTGAGTTATGATTCATATTATTATATTATT
* *
3325240 TATTTATTATTATATATT
1 TTTTTATTATTTTATATT
3325258 TATTATGTAA
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
60 22 0.32
61 26 0.38
62 20 0.29
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (60 bp):
TTTTTATTATTTTATATTAAATTAATTAATTTGAGTTATGATTCATATTATTATATTATT
Found at i:3325211 original size:20 final size:21
Alignment explanation
Indices: 3325164--3325211 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
3325154 CTTTATTCTT
** *
3325164 ATTAATTTTATATATTTTTTT
1 ATTAATTTTATATATAATTTA
3325185 ATT-ATTTTATAT-TAATTTA
1 ATTAATTTTATATATAATTTA
3325204 ATTAATTT
1 ATTAATTT
3325212 GAGTTATGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 7 0.30
20 13 0.57
21 3 0.13
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTAATTTTATATATAATTTA
Found at i:3325249 original size:19 final size:18
Alignment explanation
Indices: 3325225--3325261 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
3325215 TTATGTTTCA
3325225 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
3325244 TATTATTATATATTTATT
1 TATTATTATATATTTATT
3325262 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:3325273 original size:17 final size:14
Alignment explanation
Indices: 3325233--3325263 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3325223 CATATTATTA
*
3325233 TATTATTTATTTAT
1 TATTATATATTTAT
3325247 TATTATATATTTAT
1 TATTATATATTTAT
3325261 TAT
1 TAT
3325264 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:3327496 original size:25 final size:23
Alignment explanation
Indices: 3327463--3327510 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
3327453 CATATCAATT
*
3327463 AACAATAATATTATCCATTTCATG
1 AACAATAAT-TCATCCATTTCATG
*
3327487 AACACATAATTCATGCATTTCATG
1 AACA-ATAATTCATCCATTTCATG
3327511 TGCATATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.35
Consensus pattern (23 bp):
AACAATAATTCATCCATTTCATG
Found at i:3327778 original size:41 final size:40
Alignment explanation
Indices: 3327681--3327788 Score: 123
Period size: 37 Copynumber: 2.8 Consensus size: 40
3327671 GGATAATTCA
* * *
3327681 AAGTAATAATTTGACACCCAGTGTCTCATCGGTTAAACCG
1 AAGTAGTAAATTGACACCCAGTGTCTCATCGATTAAACCG
* * *
3327721 -A--AGTAAATTGGCACCCAGTGCCTCATCGAATTAATCCG
1 AAGTAGTAAATTGACACCCAGTGTCTCATCG-ATTAAACCG
*
3327759 AAGTAGTAAATTGATACCCAGTGTCTCATC
1 AAGTAGTAAATTGACACCCAGTGTCTCATC
3327789 AACTTGAAGT
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
37 23 0.42
38 7 0.13
39 2 0.04
41 23 0.42
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (40 bp):
AAGTAGTAAATTGACACCCAGTGTCTCATCGATTAAACCG
Found at i:3327950 original size:15 final size:14
Alignment explanation
Indices: 3327930--3327968 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 14
3327920 AAATCAATAT
3327930 ATTCAATATATATAA
1 ATTCAATA-ATATAA
3327945 ATTCAATCAATATAA
1 ATTCAAT-AATATAA
3327960 ATTCAATAA
1 ATTCAATAA
3327969 ATTCATCAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 2 0.09
15 20 0.87
16 1 0.04
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (14 bp):
ATTCAATAATATAA
Found at i:3327968 original size:24 final size:24
Alignment explanation
Indices: 3327941--3327990 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
3327931 TTCAATATAT
3327941 ATAAATTCAATCA-ATA-TAAATTCA
1 ATAAATTC-ATCAGATACTAAA-TCA
3327965 ATAAATTCATCAGATACTAAATCA
1 ATAAATTCATCAGATACTAAATCA
3327989 AT
1 AT
3327991 CCATTTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 4 0.17
24 16 0.67
25 4 0.17
ACGTcount: A:0.52, C:0.14, G:0.02, T:0.32
Consensus pattern (24 bp):
ATAAATTCATCAGATACTAAATCA
Found at i:3331468 original size:47 final size:46
Alignment explanation
Indices: 3331417--3331593 Score: 182
Period size: 47 Copynumber: 3.8 Consensus size: 46
3331407 TGGTTGAACA
* *
3331417 TCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGTGAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT-AAACG
* * *
3331464 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CG
*
3331511 TCAGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCT-AACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-TAAACG
* * * *
3331557 TCCGAGCTCATTGAGTTGAGTCTGAGTTCATTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
3331594 GTGGGTTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
43 2 0.02
44 5 0.05
45 1 0.01
46 35 0.32
47 56 0.52
48 3 0.03
50 5 0.05
51 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:3332840 original size:192 final size:191
Alignment explanation
Indices: 3332513--3332895 Score: 664
Period size: 192 Copynumber: 2.0 Consensus size: 191
3332503 ATAAATAAAC
3332513 GTCATAGTCATATAAACTTTTCACAGAGAGAAATATGGTTCGTAGTAAACAGAGGTCAGTCCAGT
1 GTCATAGTCATATAAACTTTTCACAGAGAGAAATATGGTTCGTAGTAAACAGAGGTCAGTCCAGT
* *
3332578 CAAGTCCTGAAATACATGTAACTTTAACTAATAAACTGTATTAATTGGCCCAACCAAAATTTCTA
66 CAAGTCCTGAAACACAGGTAACTTTAACTAATAAACTGTATTAATTGGCCCAACCAAAATTTCTA
*
3332643 G-AAAAAATTAGTAAATAGATATATGAGTCTAGATTTAAGG-AAAATTTACGGATCTTGATTT
131 GAAAAAAATTAGTAAATAGATATATGAGTCTAGATTT-AGGAAAAATTTACAGAT-TTGATTT
3332704 NGTCATAGTCATATAAACTTTTCACAGAGAGAAATATGGTTCGTAGTAAACAGAGGTCAGTCCAG
1 -GTCATAGTCATATAAACTTTTCACAGAGAGAAATATGGTTCGTAGTAAACAGAGGTCAGTCCAG
**
3332769 TCAAGTCCTGAAACAGGGGTAACTTTAACTAATAAACTGTATTAATTGGCCCAACCAAAAATTT-
65 TCAAGTCCTGAAACACAGGTAACTTTAACTAATAAACTGTATTAATTGGCCCAACC-AAAATTTC
3332833 TAGAAAAAAATTAGTAAATAGATATATGAGTCTAGATTTAGGAAAAATTTACAGATTTGATTT
129 TAGAAAAAAATTAGTAAATAGATATATGAGTCTAGATTTAGGAAAAATTTACAGATTTGATTT
3332896 TGAGTTTTTT
Statistics
Matches: 183, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
192 129 0.70
193 54 0.30
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (191 bp):
GTCATAGTCATATAAACTTTTCACAGAGAGAAATATGGTTCGTAGTAAACAGAGGTCAGTCCAGT
CAAGTCCTGAAACACAGGTAACTTTAACTAATAAACTGTATTAATTGGCCCAACCAAAATTTCTA
GAAAAAAATTAGTAAATAGATATATGAGTCTAGATTTAGGAAAAATTTACAGATTTGATTT
Found at i:3333124 original size:43 final size:43
Alignment explanation
Indices: 3333063--3333152 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 43
3333053 GCATTACAGA
* * *
3333063 TTTTCCCGCAAATGCCGCTAAAGACCATGACCTTTAGCGGCGC
1 TTTTCCCGCAAACGCCGCTAAAAACCATGACCTTTAGCGGCAC
*
3333106 TTTTCCCGCAAACGCCGCTAAAAATCATGACCTTTAGCGGCAC
1 TTTTCCCGCAAACGCCGCTAAAAACCATGACCTTTAGCGGCAC
3333149 TTTT
1 TTTT
3333153 TTTTGAAAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (43 bp):
TTTTCCCGCAAACGCCGCTAAAAACCATGACCTTTAGCGGCAC
Found at i:3337525 original size:30 final size:30
Alignment explanation
Indices: 3337489--3337548 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
3337479 TTCCCGAGCC
3337489 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
3337519 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
3337549 CGTATTAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:3338137 original size:46 final size:46
Alignment explanation
Indices: 3337971--3338192 Score: 263
Period size: 46 Copynumber: 4.8 Consensus size: 46
3337961 GGTTGAACAT
* * *
3337971 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AACGC
* * *
3338018 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
3338063 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
3338111 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
3338157 CCGAGCTCATTGAGTTGAGTCTGAATTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
3338193 GCAGGTTACA
Statistics
Matches: 154, Mismatches: 12, Indels: 19
0.83 0.06 0.10
Matches are distributed among these distances:
42 2 0.01
44 4 0.03
45 1 0.01
46 80 0.52
47 56 0.36
48 4 0.03
50 4 0.03
51 3 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:3340053 original size:12 final size:12
Alignment explanation
Indices: 3340036--3340061 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3340026 AAACATTAAG
3340036 AATATATATAAT
1 AATATATATAAT
3340048 AATATATATAAT
1 AATATATATAAT
3340060 AA
1 AA
3340062 ACTTATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATATATAAT
Found at i:3342652 original size:26 final size:26
Alignment explanation
Indices: 3342614--3342679 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
3342604 TAATAATAAT
* *
3342614 AATATGTACATAATATGGTA-TTAAA
1 AATATATACATAATATAGTATTTAAA
*
3342639 ATATATATATATAATATAGTATTTAAA
1 A-ATATATACATAATATAGTATTTAAA
*
3342666 AATGTATACATAAT
1 AATATATACATAAT
3342680 TTATATATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 1 0.03
26 27 0.79
27 6 0.18
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (26 bp):
AATATATACATAATATAGTATTTAAA
Found at i:3342934 original size:25 final size:24
Alignment explanation
Indices: 3342906--3342982 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 24
3342896 ATAGTATTAG
3342906 AAATACATACATAAGATAGTATAAA
1 AAATACATACATAAGATA-TATAAA
*
3342931 AAATATATA-ACTAATGATAT-TAAA
1 AAATACATACA-TAA-GATATATAAA
3342955 ATATATACAT-CAT-A-ATATATAAA
1 A-A-ATACATACATAAGATATATAAA
3342978 AAATA
1 AAATA
3342983 TAATATTTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 16
0.71 0.03 0.26
Matches are distributed among these distances:
21 3 0.07
22 5 0.11
23 5 0.11
24 7 0.16
25 14 0.32
26 10 0.23
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (24 bp):
AAATACATACATAAGATATATAAA
Found at i:3342984 original size:86 final size:88
Alignment explanation
Indices: 3342885--3343061 Score: 220
Period size: 87 Copynumber: 2.0 Consensus size: 88
3342875 GGCATTAGAA
* * * *
3342885 ATATAAAATATATAGTA-TTAGAAATACATACATAAGATAGTAT-AAAAAATATATA-ACTAAT-
1 ATATAAAAAATATAATATTTAAAAATACATACATAACATA-TATAAAAAAATATATACA-TAATA
*
3342946 GA-TATTAAAATATATACATCATAAT
64 GAGTATTAAAATATATACATAAT-AT
* *
3342971 ATATAAAAAATATAATATTTAAAAATATATACATAACATATATAAAAAAATATATACATAATATA
1 ATATAAAAAATATAATATTTAAAAATACATACATAACATATATAAAAAAATATATACATAATAGA
*
3343036 GTATTAAAATATTTACATAATAT
66 GTATTAAAATATATACATAATAT
3343059 ATA
1 ATA
3343062 CATATTAGAA
Statistics
Matches: 78, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
86 18 0.23
87 35 0.45
88 7 0.09
89 18 0.23
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (88 bp):
ATATAAAAAATATAATATTTAAAAATACATACATAACATATATAAAAAAATATATACATAATAGA
GTATTAAAATATATACATAATAT
Found at i:3342985 original size:16 final size:17
Alignment explanation
Indices: 3342966--3343001 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
3342956 TATATACATC
3342966 ATAATATATAAAAA-AT
1 ATAATATATAAAAATAT
*
3342982 ATAATATTTAAAAATAT
1 ATAATATATAAAAATAT
3342999 ATA
1 ATA
3343002 CATAACATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATAATATATAAAAATAT
Found at i:3343018 original size:24 final size:24
Alignment explanation
Indices: 3342968--3343061 Score: 91
Period size: 25 Copynumber: 3.8 Consensus size: 24
3342958 TATACATCAT
* * *
3342968 AATATATAAAAAATATAATATTTAAA
1 AATATATACATAATAT-ATA-TAAAA
*
3342994 AATATATACATAACATATATAAAAA
1 AATATATACATAATATATAT-AAAA
*
3343019 AATATATACATAATATAGTAT-TAA
1 AATATATACATAATATA-TATAAAA
*
3343043 AATATTTACATAATATATA
1 AATATATACATAATATATA
3343062 CATATTAGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.03
24 19 0.32
25 22 0.37
26 16 0.27
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.35
Consensus pattern (24 bp):
AATATATACATAATATATATAAAA
Found at i:3343138 original size:17 final size:18
Alignment explanation
Indices: 3343112--3343149 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
3343102 AAATATATAC
*
3343112 ATATATATAT-TAAAAAT
1 ATATACATATATAAAAAT
3343129 ATATACATATATAAAAAT
1 ATATACATATATAAAAAT
3343147 ATA
1 ATA
3343150 CACTAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
ATATACATATATAAAAAT
Found at i:3343158 original size:18 final size:18
Alignment explanation
Indices: 3343116--3343167 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 18
3343106 ATATACATAT
*
3343116 ATATATTAAAAATATATAC
1 ATATA-TAAAAATATACAC
3343135 ATATATAAAAATATACAC
1 ATATATAAAAATATACAC
*
3343153 TAATATATAATAATA
1 --ATATATAAAAATA
3343168 ATAATAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 12 0.41
19 5 0.17
20 12 0.41
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (18 bp):
ATATATAAAAATATACAC
Found at i:3343167 original size:3 final size:3
Alignment explanation
Indices: 3343153--3343191 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
3343143 AAATATACAC
3343153 TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
3343192 TTGAAATACA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:3343452 original size:19 final size:21
Alignment explanation
Indices: 3343416--3343458 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
3343406 ATAACTATAT
3343416 ATATACACGTATATAATAAGA
1 ATATACACGTATATAATAAGA
*
3343437 ATATACAC-TA-ATAATAATA
1 ATATACACGTATATAATAAGA
3343456 ATA
1 ATA
3343459 ATACTAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 2 0.10
21 8 0.38
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.30
Consensus pattern (21 bp):
ATATACACGTATATAATAAGA
Found at i:3343487 original size:140 final size:140
Alignment explanation
Indices: 3343154--3343611 Score: 522
Period size: 140 Copynumber: 3.3 Consensus size: 140
3343144 AATATACACT
* * * * * *
3343154 AATATATAATAATAATAATAATAATAATAATAATAATATTGAAATAC--AAAAAGCAAATAT-A-
1 AATATACACTAATAATAATAATAATACTAACAATAATAATGAAATACAAAAAAAGTAAATATAAT
* * ** *
3343215 AT-A-AA-GATATTAAAATAAAGTAATAAAAAAATAATACTATATATAAATATATATACATATAC
66 ATAATAATGATATTAAAATAAAGTAATTAAAAAATAGTGTTATATATAAATATATAT--ATACAC
* * *
3343277 ATGTATAATAAA
129 GTATATAATAAG
**
3343289 AATATACACTAATATATAATAATGATAATAATACTAACAATAGCAATGAAATACAAAAAAAGTAA
1 AATATACAC---TA-ATAAT-A--ATAATAATACTAACAATAATAATGAAATACAAAAAAAGTAA
*
3343354 ATATAATATAATAATGATATTAAAATAAAGTAATTAAAAAATAGTGTTATATATAACTATATATA
59 ATATAATATAATAATGATATTAAAATAAAGTAATTAAAAAATAGTGTTATATATAAATATATATA
3343419 TACACGTATATAATAAG
124 TACACGTATATAATAAG
* *
3343436 AATATACACTAATAATAATAATAATACTAGA-AATAATAATGAAATACAAAAAAAATAAACATAA
1 AATATACACTAATAATAATAATAATACTA-ACAATAATAATGAAATACAAAAAAAGTAAATATAA
* * *
3343500 TATAATAATAATATTAAAAATAAAGTAATT-AAAAATAGTGTTATATATAAGTATATATGTACAC
65 TATAATAATGATATT-AAAATAAAGTAATTAAAAAATAGTGTTATATATAAATATATATATACAC
3343564 GTATATAATAAG
129 GTATATAATAAG
* * *
3343576 AATATACACTAAT-ATAGTAATAATAATAATAATAAT
1 AATATACACTAATAATAATAATAATACTAACAATAAT
3343612 GATTAGATTA
Statistics
Matches: 280, Mismatches: 26, Indels: 30
0.83 0.08 0.09
Matches are distributed among these distances:
135 7 0.03
138 3 0.01
139 24 0.09
140 113 0.40
141 15 0.05
142 26 0.09
143 5 0.02
144 14 0.05
145 1 0.00
146 2 0.01
147 24 0.09
148 2 0.01
149 44 0.16
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (140 bp):
AATATACACTAATAATAATAATAATACTAACAATAATAATGAAATACAAAAAAAGTAAATATAAT
ATAATAATGATATTAAAATAAAGTAATTAAAAAATAGTGTTATATATAAATATATATATACACGT
ATATAATAAG
Found at i:3345337 original size:14 final size:14
Alignment explanation
Indices: 3345320--3345348 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3345310 GATTTTGACG
3345320 AACAGAAATTGAAA
1 AACAGAAATTGAAA
3345334 AACAGAAATTGAAA
1 AACAGAAATTGAAA
3345348 A
1 A
3345349 TACCTCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:3345553 original size:75 final size:76
Alignment explanation
Indices: 3345133--3345702 Score: 525
Period size: 76 Copynumber: 7.3 Consensus size: 76
3345123 TCAGCGTATG
*
3345133 ACCTCTTGCAATATGAGCTTGATTTTTTTTGAAAAAACAGAAATTGAAAA-TACCTCAGCGTGTC
1 ACCTCTCGCAATATGAG-TTGA-TTTTTTTG-AAAAACAGAAATTGAAAATTACCTCAGCGTGTC
**
3345197 CCGAGGCTCAACTC
63 TTGAGGCTCAACTC
* * *
3345211 ACCTCTCGCAATATGAGTTGATTTTTGAAACATAAAAAACAGAAATTGAAAA-TACCTCAGCATG
1 ACCTCTCGCAATATGAGTTGATTTTT-----TTGAAAAACAGAAATTGAAAATTACCTCAGCGTG
*
3345275 TCCTGAGGCTCAACTC
61 TCTTGAGGCTCAACTC
** **
3345291 ACCTCTCGCAATATGAGTTGA---TTTTGACGAACAGAAATTGAAAAACAGAAATTGAAAAT-A-
1 ACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG------A-AAATT--ACCTCAG
* ** *
3345351 CCTCAG-CATGTGA-GCGGAGGCTC
57 CGT--GTC-T-TGAGGCTCA-ACTC
* * * **
3345374 AACTCACCCTCGCAAAATGAGTTGATTTTTTTTATGAACAGAAATT-AAAATTACCTCAGCGTGT
1 -A--C-CTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATTACCTCAGCGTGT
*
3345438 CTTGAGGCTCAACTT
62 CTTGAGGCTCAACTC
3345453 A-CTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATTACCTCAGCGTGTCTTG
1 ACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATTACCTCAGCGTGTCTTG
*
3345517 AGGCTAAACTC
66 AGGCTCAACTC
* * * * *
3345528 ACCTCTCACAATATGAGTTGATTTTTTTGAAAGACATAAATTGAAAATTACCTTAGCATGTCTTG
1 ACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATTACCTCAGCGTGTCTTG
3345593 AGGCTCAACTC
66 AGGCTCAACTC
* * * * *
3345604 ATCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATT-AAAAATACCTTAACGTGTCTTG
1 ACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATTACCTCAGCGTGTCTTG
*
3345668 AGGTTCAACTC
66 AGGCTCAACTC
3345679 ACCTCTCGCAATATGAGTTGATTT
1 ACCTCTCGCAATATGAGTTGATTT
3345703 CTGAAACAGA
Statistics
Matches: 411, Mismatches: 48, Indels: 69
0.78 0.09 0.13
Matches are distributed among these distances:
72 13 0.03
74 35 0.09
75 84 0.20
76 112 0.27
77 6 0.01
78 18 0.04
79 8 0.02
80 75 0.18
81 5 0.01
82 13 0.03
83 7 0.02
84 1 0.00
86 1 0.00
87 17 0.04
90 16 0.04
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (76 bp):
ACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATTACCTCAGCGTGTCTTG
AGGCTCAACTC
Found at i:3345630 original size:151 final size:149
Alignment explanation
Indices: 3345328--3345702 Score: 522
Period size: 151 Copynumber: 2.5 Consensus size: 149
3345318 CGAACAGAAA
* * *
3345328 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTGAGC-GGAGGCTCAACTCACC-CTCGCAAAA
1 TTGAAAAACAGAAATTGAAAATACCTCAGC--GTG-TCTTGAGGCTCAACTCACCTCTCGCAATA
* * * *
3345391 TGAGTTGATTTTTTTTATGAACAGAAATTAAAATTACCTCAGCGTGTCTTGAGGCTCAACTTACT
63 TGAGTTGATTTTTTTAAAGAACAGAAATTAAAATTACCTCAGCATGTCTTGAGGCTCAACTCACT
3345456 CTCGCAATATGAGTTGATTTTT
128 CTCGCAATATGAGTTGATTTTT
* *
3345478 TTGAAAAACAGAAATTGAAAATTACCTCAGCGTGTCTTGAGGCTAAACTCACCTCTCACAATATG
1 TTGAAAAACAGAAATTGAAAA-TACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
* *
3345543 AGTTGATTTTTTTGAAAG-ACATAAATTGAAAATTACCTTAGCATGTCTTGAGGCTCAACTCATC
65 AGTTGATTTTTTT-AAAGAACAGAAATT-AAAATTACCTCAGCATGTCTTGAGGCTCAACTCA-C
3345607 TCTCGCAATATGAGTTGATTTTT
127 TCTCGCAATATGAGTTGATTTTT
* * * * *
3345630 TTGAAAGACAGAAATTAAAAATACCTTAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
3345695 GTTGATTT
66 GTTGATTT
3345703 CTGAAACAGA
Statistics
Matches: 201, Mismatches: 18, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
148 1 0.00
149 17 0.08
150 51 0.25
151 89 0.44
152 43 0.21
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (149 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTAAAGAACAGAAATTAAAATTACCTCAGCATGTCTTGAGGCTCAACTCACTCTC
GCAATATGAGTTGATTTTT
Found at i:3355638 original size:63 final size:63
Alignment explanation
Indices: 3355512--3355639 Score: 150
Period size: 63 Copynumber: 2.0 Consensus size: 63
3355502 CACGATAGCC
* * * * *
3355512 TATATCAGGACGCTCATAAAGAGCTGCATTTGTGTCTACAATATATGCAGGATCACAACCGATCA
1 TATAGCAGGACGCTCATAAAGAGCTGCA--TGTGTCCACAACACATGCAAGATCACAACCGATCA
* * *
3355577 TATAGCAGGGCGCTCATAAAGAGCTGCA-GTAGTCCGCAACACATGCAAGATCACTACCGATCA
1 TATAGCAGGACGCTCATAAAGAGCTGCATGT-GTCCACAACACATGCAAGATCACAACCGATCA
3355640 AGATGCTTGC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
62 2 0.04
63 26 0.48
65 26 0.48
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (63 bp):
TATAGCAGGACGCTCATAAAGAGCTGCATGTGTCCACAACACATGCAAGATCACAACCGATCA
Found at i:3360531 original size:25 final size:24
Alignment explanation
Indices: 3360494--3360544 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
3360484 AGTTCAAGCA
*
3360494 AGCCATATCAGGA-AGCTCACAAAG
1 AGCCATACCAGGACA-CTCACAAAG
*
3360518 AGCCTATACCAGGACACTCATAAAG
1 AGCC-ATACCAGGACACTCACAAAG
3360543 AG
1 AG
3360545 TTGCGTTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 18 0.78
26 1 0.04
ACGTcount: A:0.41, C:0.25, G:0.20, T:0.14
Consensus pattern (24 bp):
AGCCATACCAGGACACTCACAAAG
Found at i:3362686 original size:5 final size:5
Alignment explanation
Indices: 3362676--3362700 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
3362666 AAATAAAAAG
3362676 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
3362701 TAACTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:3363471 original size:22 final size:21
Alignment explanation
Indices: 3363446--3363486 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
3363436 TTAAAAAATT
*
3363446 AATTTCCTTCGATTTTTTTTAA
1 AATTCCCTTC-ATTTTTTTTAA
*
3363468 AATTCCCTTCCTTTTTTTT
1 AATTCCCTTCATTTTTTTT
3363487 CCCTGAAGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.17, C:0.20, G:0.02, T:0.61
Consensus pattern (21 bp):
AATTCCCTTCATTTTTTTTAA
Found at i:3369572 original size:9 final size:9
Alignment explanation
Indices: 3369558--3369629 Score: 69
Period size: 9 Copynumber: 8.2 Consensus size: 9
3369548 TAAGTATAAT
3369558 TAAGTTATG
1 TAAGTTATG
3369567 TAAGTTATG
1 TAAGTTATG
* * *
3369576 ATATGATATA
1 -TAAGTTATG
*
3369586 T-ATTTATG
1 TAAGTTATG
3369594 T-A-TTATG
1 TAAGTTATG
3369601 TAAGTTATG
1 TAAGTTATG
*
3369610 TAAATTATG
1 TAAGTTATG
3369619 TAAGTTATG
1 TAAGTTATG
3369628 TA
1 TA
3369630 TTATGTACGA
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
7 6 0.12
8 6 0.12
9 33 0.65
10 6 0.12
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:3369600 original size:34 final size:34
Alignment explanation
Indices: 3369562--3369636 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
3369552 TATAATTAAG
* *
3369562 TTATGTAAGTTATG-ATATGATATATATTTATGTA
1 TTATGTAAGTTATGTAAATGATATA-AGTTATGTA
* *
3369596 TTATGTAAGTTATGTAAATTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAATGATATAAGTTATGTA
3369630 TTATGTA
1 TTATGTA
3369637 CGACATAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
34 29 0.81
35 7 0.19
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (34 bp):
TTATGTAAGTTATGTAAATGATATAAGTTATGTA
Found at i:3369776 original size:9 final size:9
Alignment explanation
Indices: 3369762--3369922 Score: 88
Period size: 9 Copynumber: 17.9 Consensus size: 9
3369752 TGTGTTAATT
3369762 TTATGTAAA
1 TTATGTAAA
*
3369771 TTATGTAAG
1 TTATGTAAA
3369780 TTATG-AAA
1 TTATGTAAA
*
3369788 TTTGATCTTTAAA
1 -TT-A--TGTAAA
*
3369801 TTATGTAAG
1 TTATGTAAA
*
3369810 TCATGT--A
1 TTATGTAAA
3369817 TTATGTAAGA
1 TTATGTAA-A
3369827 -TATGT--A
1 TTATGTAAA
*
3369833 TTATGTAAG
1 TTATGTAAA
3369842 TTATGTAAA
1 TTATGTAAA
* *
3369851 TTATATAAG
1 TTATGTAAA
3369860 TTATG-AAA
1 TTATGTAAA
*
3369868 TTCGAACTTTAAA
1 TT---A-TGTAAA
*
3369881 TTATGTAAG
1 TTATGTAAA
3369890 TTATGT--A
1 TTATGTAAA
3369897 TTATGTAAA
1 TTATGTAAA
*
3369906 TTAAGTAAA
1 TTATGTAAA
3369915 TTATGTAA
1 TTATGTAA
3369923 GTTGCTGGTG
Statistics
Matches: 114, Mismatches: 20, Indels: 36
0.67 0.12 0.21
Matches are distributed among these distances:
6 1 0.01
7 16 0.14
8 6 0.05
9 74 0.65
10 3 0.03
11 2 0.02
12 4 0.04
13 8 0.07
ACGTcount: A:0.39, C:0.02, G:0.14, T:0.44
Consensus pattern (9 bp):
TTATGTAAA
Found at i:3369821 original size:16 final size:15
Alignment explanation
Indices: 3369800--3369848 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 15
3369790 TGATCTTTAA
3369800 ATTATGTAAGTCATGT
1 ATTATGTAAGT-ATGT
3369816 ATTATGTAAGATATGT
1 ATTATGTAAG-TATGT
3369832 ATTATGTAAGTTATGT
1 ATTATGTAAG-TATGT
3369848 A
1 A
3369849 AATTATATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 30 0.97
17 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.45
Consensus pattern (15 bp):
ATTATGTAAGTATGT
Found at i:3370133 original size:99 final size:98
Alignment explanation
Indices: 3370030--3370498 Score: 694
Period size: 99 Copynumber: 4.7 Consensus size: 98
3370020 AATAAAATAG
3370030 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
1 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
*
3370095 ATTGAAATTATTTTTCGTGATTCAAATTAAATGA
66 ATTGAAATTATTTTTCGTGATTCAAA-AAAATGA
3370129 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
1 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
3370194 ATTGAAATTATTTTTCGTGATTCAAAAAAATGA
66 ATTGAAATTATTTTTCGTGATTCAAAAAAATGA
3370227 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTT--AA-AAAATAAAAT
1 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
*
3370289 ATTGAAATTATTTTTCGTGATTCAAATTAAATGA
66 ATTGAAATTATTTTTCGTGATTCAAA-AAAATGA
3370323 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATCAAAT
1 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATG-T----TAAAAT-AAA-
* *
3370388 ATTTAAAATCAAATATTAAAATTATTTTTCGTGATTCAAAAAAATAA
59 A--T---A--AAATATTGAAATTATTTTTCGTGATTCAAAAAAATGA
* **
3370435 AATATTTAAAATGAAACTTTAAATGTAATTTAATTTAATTAGGTAAT-TTGAAAATAAAATAAAA
1 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTT-AAAATAAAATAAAA
3370499 GATAAAAAAA
Statistics
Matches: 343, Mismatches: 8, Indels: 39
0.88 0.02 0.10
Matches are distributed among these distances:
95 36 0.10
96 56 0.16
97 1 0.00
98 59 0.17
99 91 0.27
100 1 0.00
101 1 0.00
103 3 0.01
105 4 0.01
106 5 0.01
107 5 0.01
108 1 0.00
110 1 0.00
111 1 0.00
112 49 0.14
113 29 0.08
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (98 bp):
AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
ATTGAAATTATTTTTCGTGATTCAAAAAAATGA
Found at i:3370341 original size:194 final size:201
Alignment explanation
Indices: 3370023--3370495 Score: 730
Period size: 194 Copynumber: 2.3 Consensus size: 201
3370013 AAAGTGAAAT
*
3370023 AAAATAGAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAA
1 AAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTT--AA-AAA
3370088 ATAAAATATTGAAATTATTTTTCGTGATTCAAATTAAATGAAATATTTAAAATAAAACTTTAAAT
63 ATAAAATATTGAAATTATTTTTCGTGATTCAAATTAAATGAAATATTTAAAATAAAACTTTAAAT
*
3370153 ACAATTTAATTTAATTAGGTAATG-T-TAAAAT-AAA-A-T-A-AAATATTGAAATTATTTTTCG
128 ACAATTTAATTTAATTAGGTAATGTTATAAAATCAAATATTAACAAATATTAAAATTATTTTTCG
3370211 TGATTCAAA
193 TGATTCAAA
*
3370220 AAAATGAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAAAATA
1 AAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAAAATA
3370285 AAATATTGAAATTATTTTTCGTGATTCAAATTAAATGAAATATTTAAAATAAAACTTTAAATACA
66 AAATATTGAAATTATTTTTCGTGATTCAAATTAAATGAAATATTTAAAATAAAACTTTAAATACA
3370350 ATTTAATTTAATTAGGTAATGTTAAAATAAAATCAAATATTTAAAATCAAATATTAAAATTATTT
131 ATTTAATTTAATTAGGTAATGTT---ATAAAATCAAATA-TT--AA-CAAATATTAAAATTATTT
3370415 TTCGTGATTCAAA
189 TTCGTGATTCAAA
* ** *
3370428 AAAATAAAATATTTAAAATGAAACTTTAAATGTAATTTAATTTAATTAGGTAAT-TT-GAAAATA
1 AAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAAAATA
3370491 AAATA
66 AAATA
3370496 AAAGATAAAA
Statistics
Matches: 254, Mismatches: 8, Indels: 19
0.90 0.03 0.07
Matches are distributed among these distances:
194 92 0.36
195 3 0.01
197 55 0.22
199 6 0.02
200 3 0.01
201 1 0.00
203 1 0.00
206 12 0.05
207 2 0.01
208 79 0.31
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (201 bp):
AAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAAAATA
AAATATTGAAATTATTTTTCGTGATTCAAATTAAATGAAATATTTAAAATAAAACTTTAAATACA
ATTTAATTTAATTAGGTAATGTTATAAAATCAAATATTAACAAATATTAAAATTATTTTTCGTGA
TTCAAA
Found at i:3370393 original size:62 final size:60
Alignment explanation
Indices: 3370312--3370498 Score: 171
Period size: 62 Copynumber: 3.2 Consensus size: 60
3370302 TTCGTGATTC
* *
3370312 AAATTAAATGAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATA-AATTTAATTTAATTAGGTAAT-TTA
* * * * *
3370374 AAATAAAATCAAATATTTAAAATCAAA-TATT--A-AAA-TT-ATTT--TT-CGTGA-TTC
1 AAATAAAATAAAATATTTAAAATAAAACT-TTAAATAAATTTAATTTAATTAGGTAATTTA
* *
3370425 AAA-AAAATAAAATATTTAAAATGAAACTTTAAATGTAATTTAATTTAATTAGGTAATTTGA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAAT-AAATTTAATTTAATTAGGTAATTT-A
3370486 AAATAAAATAAAA
1 AAATAAAATAAAA
3370499 GATAAAAAAA
Statistics
Matches: 99, Mismatches: 12, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
50 23 0.23
51 6 0.06
52 1 0.01
53 3 0.03
54 4 0.04
55 2 0.02
56 8 0.08
57 2 0.02
58 4 0.04
59 4 0.04
60 3 0.03
61 4 0.04
62 35 0.35
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (60 bp):
AAATAAAATAAAATATTTAAAATAAAACTTTAAATAAATTTAATTTAATTAGGTAATTTA
Found at i:3370408 original size:13 final size:14
Alignment explanation
Indices: 3370377--3370409 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
3370367 AATGTTAAAA
3370377 TAAAATCAAATATT
1 TAAAATCAAATATT
3370391 TAAAATCAAATA-T
1 TAAAATCAAATATT
3370404 TAAAAT
1 TAAAAT
3370410 TATTTTTCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAAATCAAATATT
Found at i:3370465 original size:112 final size:113
Alignment explanation
Indices: 3370279--3370494 Score: 346
Period size: 112 Copynumber: 1.9 Consensus size: 113
3370269 GTAATGTTAA
* * *
3370279 AAAATAAAATATTGAAATTATTTTTCGTGATTCAAATTAAATGAAATATTTAAAATAAAACTTTA
1 AAAATAAAATATTAAAATTATTTTTCGTGATTCAAATAAAATAAAATATTTAAAATAAAACTTTA
3370344 AATACAATTTAATTTAATTAGGTAATGTT-AAAATAAAATCAAATATTT
66 AATACAATTTAATTTAATTAGGTAAT-TTGAAAATAAAATCAAATATTT
* *
3370392 AAAATCAAATATTAAAATTATTTTTCGTGATTCAAA-AAAATAAAATATTTAAAATGAAACTTTA
1 AAAATAAAATATTAAAATTATTTTTCGTGATTCAAATAAAATAAAATATTTAAAATAAAACTTTA
**
3370456 AATGTAATTTAATTTAATTAGGTAATTTGAAAATAAAAT
66 AATACAATTTAATTTAATTAGGTAATTTGAAAATAAAAT
3370495 AAAAGATAAA
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
111 2 0.02
112 59 0.62
113 34 0.36
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.38
Consensus pattern (113 bp):
AAAATAAAATATTAAAATTATTTTTCGTGATTCAAATAAAATAAAATATTTAAAATAAAACTTTA
AATACAATTTAATTTAATTAGGTAATTTGAAAATAAAATCAAATATTT
Found at i:3373486 original size:12 final size:12
Alignment explanation
Indices: 3373469--3373494 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3373459 CAAGTTAAAT
3373469 TAAGTCACCAAA
1 TAAGTCACCAAA
3373481 TAAGTCACCAAA
1 TAAGTCACCAAA
3373493 TA
1 TA
3373495 TGCAAATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.23, G:0.08, T:0.19
Consensus pattern (12 bp):
TAAGTCACCAAA
Found at i:3375254 original size:82 final size:80
Alignment explanation
Indices: 3375151--3375379 Score: 255
Period size: 80 Copynumber: 2.8 Consensus size: 80
3375141 CCCATATTAA
* * * * ** * * *
3375151 TCCCCTACATCTCC-ATATAAAACGATGCCGTTTACGTTATACTTTTTTGCTTTTTGTGGCG-TT
1 TCCCCTAAATATCCAAT-TAAAACGATGCCGTTTTCGTTAAACTGCTATACTTTTTGCGGCGTTT
3375214 TTTCAAAAAACGCCGATAC
65 TTTC-AAAAA--CCGATAC
* * *
3375233 TCCCCTAAATATCCAATTAAAACGACGCCGTTTTCATTAAACTGCTATATTTTTTGCGGCGTTTT
1 TCCCCTAAATATCCAATTAAAACGATGCCGTTTTCGTTAAACTGCTATACTTTTTGCGGCGTTTT
*
3375298 TTCAAAAACCGCTAC
66 TTCAAAAACCGATAC
* ** *
3375313 TCCCCTAAATATCCAATTAAAACGATGTCGTTTTCGTTAAACTGCTATGTTTTTTGCGGTGTTTT
1 TCCCCTAAATATCCAATTAAAACGATGCCGTTTTCGTTAAACTGCTATACTTTTTGCGGCGTTTT
3375378 TT
66 TT
3375380 AAATAAACGC
Statistics
Matches: 127, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
80 68 0.54
82 51 0.40
83 8 0.06
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (80 bp):
TCCCCTAAATATCCAATTAAAACGATGCCGTTTTCGTTAAACTGCTATACTTTTTGCGGCGTTTT
TTCAAAAACCGATAC
Found at i:3375345 original size:80 final size:82
Alignment explanation
Indices: 3375201--3375387 Score: 265
Period size: 80 Copynumber: 2.3 Consensus size: 82
3375191 ACTTTTTTGC
*
3375201 TTTTTGTGGCG-TTTTTCAAAAAACGCCGATACTCCCCTAAATATCCAATTAAAACGACGCCGTT
1 TTTTTGCGGCGTTTTTTCAAAAAAC-CCGATACTCCCCTAAATATCCAATTAAAACGACGCCGTT
3375265 TTCATTAAACTGCTATAT
65 TTCATTAAACTGCTATAT
* * *
3375283 TTTTTGCGGCGTTTTTTC-AAAAA-CCGCTACTCCCCTAAATATCCAATTAAAACGATGTCGTTT
1 TTTTTGCGGCGTTTTTTCAAAAAACCCGATACTCCCCTAAATATCCAATTAAAACGACGCCGTTT
* *
3375346 TCGTTAAACTGCTATGT
66 TCATTAAACTGCTATAT
*
3375363 TTTTTGCGGTGTTTTTT-AAATAAAC
1 TTTTTGCGGCGTTTTTTCAAA-AAAC
3375388 GCCACTAATC
Statistics
Matches: 94, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
80 70 0.74
81 3 0.03
82 15 0.16
83 6 0.06
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (82 bp):
TTTTTGCGGCGTTTTTTCAAAAAACCCGATACTCCCCTAAATATCCAATTAAAACGACGCCGTTT
TCATTAAACTGCTATAT
Found at i:3375763 original size:28 final size:27
Alignment explanation
Indices: 3375739--3375791 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
3375729 CCCATAAACA
3375739 CTAAA-CTCTAAGCCCTAAATTATAAAGC
1 CTAAATCTCTAA-CCCTAAA-TATAAAGC
*
3375767 CTAAATCTTTAACCCTAAATATAAA
1 CTAAATCTCTAACCCTAAATATAAA
3375792 ATGATATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 6 0.26
28 12 0.52
29 5 0.22
ACGTcount: A:0.45, C:0.23, G:0.04, T:0.28
Consensus pattern (27 bp):
CTAAATCTCTAACCCTAAATATAAAGC
Found at i:3376452 original size:40 final size:40
Alignment explanation
Indices: 3376396--3376480 Score: 125
Period size: 40 Copynumber: 2.1 Consensus size: 40
3376386 TTTTAAGGTG
* * * *
3376396 ATCTTTAGCGGCGTTTTTTAGAAAGCGCCGCTAATGTTCT
1 ATCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAAAGATCT
*
3376436 ATCTTTAGCGGTGTTTTTCAAAAAGCGCCGCTAAAGATCT
1 ATCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAAAGATCT
3376476 ATCTT
1 ATCTT
3376481 CTAAACAAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (40 bp):
ATCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAAAGATCT
Found at i:3376720 original size:41 final size:41
Alignment explanation
Indices: 3376669--3376800 Score: 185
Period size: 41 Copynumber: 3.2 Consensus size: 41
3376659 GCATTTTCTA
* *
3376669 ATAAGCGCCGCTTATTCTCGATCTATTGCGGCGTTTGTTTC
1 ATAAACGCCGCTGATTCTCGATCTATTGCGGCGTTTGTTTC
3376710 ATAAACGCCGCTGATTCTCGATCTATTGCGGCGTTTGTTTC
1 ATAAACGCCGCTGATTCTCGATCTATTGCGGCGTTTGTTTC
* * * *
3376751 ATAAACGCCGCTGATTCTTGACCTTTTGTGGCGTTT-TTGTC
1 ATAAACGCCGCTGATTCTCGATCTATTGCGGCGTTTGTT-TC
*
3376792 ACAAACGCC
1 ATAAACGCC
3376801 ACTATAACTC
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 2 0.02
41 81 0.98
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.36
Consensus pattern (41 bp):
ATAAACGCCGCTGATTCTCGATCTATTGCGGCGTTTGTTTC
Found at i:3379242 original size:17 final size:19
Alignment explanation
Indices: 3379216--3379250 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
3379206 TTCATTCTCT
3379216 TTTTTCAATTTT-ACTTTA
1 TTTTTCAATTTTAACTTTA
3379234 TTTTT-AATTTTAACTTT
1 TTTTTCAATTTTAACTTT
3379251 TAAAAGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTCAATTTTAACTTTA
Found at i:3380395 original size:14 final size:14
Alignment explanation
Indices: 3380376--3380404 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3380366 CCACCAAATA
3380376 GTATGTCACATTAT
1 GTATGTCACATTAT
3380390 GTATGTCACATTAT
1 GTATGTCACATTAT
3380404 G
1 G
3380405 ACATCAGGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (14 bp):
GTATGTCACATTAT
Found at i:3381097 original size:116 final size:116
Alignment explanation
Indices: 3380893--3381121 Score: 422
Period size: 116 Copynumber: 2.0 Consensus size: 116
3380883 GTGCTAGGCC
*
3380893 GTGTAACTCATTGACTTGAAACACTAAGAAACTCTCAAATGACACATGGTTGTGTGCACCAAATT
1 GTGTAACTCACTGACTTGAAACACTAAGAAACTCTCAAATGACACATGGTTGTGTGCACCAAATT
*
3380958 TGACCCAAAAACTATGCCATTTTAAAACCAAACCATACCTATTCACCCGCT
66 TGACCCAAAAACCATGCCATTTTAAAACCAAACCATACCTATTCACCCGCT
* *
3381009 GTGTAACTCACTGGCTTGAAACACTAAGAAACTCTCAAATGACATATGGTTGTGTGCACCAAATT
1 GTGTAACTCACTGACTTGAAACACTAAGAAACTCTCAAATGACACATGGTTGTGTGCACCAAATT
3381074 TGACCCAAAAACCATGCCATTTTAAAACCAAACCATACCTATTCACCC
66 TGACCCAAAAACCATGCCATTTTAAAACCAAACCATACCTATTCACCC
3381122 ACTCTAATTA
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 109 1.00
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.25
Consensus pattern (116 bp):
GTGTAACTCACTGACTTGAAACACTAAGAAACTCTCAAATGACACATGGTTGTGTGCACCAAATT
TGACCCAAAAACCATGCCATTTTAAAACCAAACCATACCTATTCACCCGCT
Found at i:3390086 original size:28 final size:28
Alignment explanation
Indices: 3390041--3390096 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
3390031 TCTATGTCAG
* *
3390041 CTCAGAAATGTGCGAGAAAAGGTTGTGA
1 CTCAAAAATGTGCAAGAAAAGGTTGTGA
*
3390069 CTCAAAAATGTGTAAGAAAAGGTTGTGA
1 CTCAAAAATGTGCAAGAAAAGGTTGTGA
3390097 ACCTTATCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.39, C:0.09, G:0.29, T:0.23
Consensus pattern (28 bp):
CTCAAAAATGTGCAAGAAAAGGTTGTGA
Found at i:3393289 original size:16 final size:16
Alignment explanation
Indices: 3393268--3393299 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3393258 TATTAATAAA
*
3393268 GGTTAATTAGTAAATT
1 GGTTAATAAGTAAATT
3393284 GGTTAATAAGTAAATT
1 GGTTAATAAGTAAATT
3393300 AAAACAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (16 bp):
GGTTAATAAGTAAATT
Found at i:3398179 original size:45 final size:47
Alignment explanation
Indices: 3398101--3398202 Score: 136
Period size: 45 Copynumber: 2.2 Consensus size: 47
3398091 CACTGTATTG
*
3398101 GTAACAGTAACGGTACACGGAGTACCTCATCGGAACAAATCCAGAATA
1 GTAACAGTAACGGTACAC-GAGTACCTCATCGGAACAAATCCAGAACA
* * * *
3398149 GTAACAGTAA-GGTATA-GAGTACCTCTTCGGAACGAATCCGGAACA
1 GTAACAGTAACGGTACACGAGTACCTCATCGGAACAAATCCAGAACA
3398194 GTAACAGTA
1 GTAACAGTA
3398203 GCTGACACTT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
45 34 0.69
47 5 0.10
48 10 0.20
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.19
Consensus pattern (47 bp):
GTAACAGTAACGGTACACGAGTACCTCATCGGAACAAATCCAGAACA
Found at i:3403886 original size:18 final size:17
Alignment explanation
Indices: 3403858--3403892 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3403848 TTTAATTTTT
3403858 TAAAAATTAAAAAGATA
1 TAAAAATTAAAAAGATA
*
3403875 TAAAATATTAAAATGATA
1 TAAAA-ATTAAAAAGATA
3403893 ACATTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
TAAAAATTAAAAAGATA
Found at i:3404100 original size:30 final size:30
Alignment explanation
Indices: 3404046--3404110 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
3404036 TAGTAATGGT
*
3404046 AAAATTTTACTTTAATCCTCTAAAAATAATA
1 AAAATTTGACTTTAATCCTCT-AAAATAATA
* * *
3404077 AAAATTTGA-TTTAATCTTTTAAAATTATA
1 AAAATTTGACTTTAATCCTCTAAAATAATA
3404106 AAAAT
1 AAAAT
3404111 ATAAATTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 13 0.43
30 9 0.30
31 8 0.27
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.42
Consensus pattern (30 bp):
AAAATTTGACTTTAATCCTCTAAAATAATA
Found at i:3406456 original size:20 final size:22
Alignment explanation
Indices: 3406414--3406456 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
3406404 CTTGGAAAAT
*
3406414 TTATTGTGTTGAATAGTAGTGG
1 TTATTGTGTTGAATAATAGTGG
*
3406436 TTATTGT-TTTAATAATA-TGG
1 TTATTGTGTTGAATAATAGTGG
3406456 T
1 T
3406457 ATGATGGTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 8 0.42
22 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (22 bp):
TTATTGTGTTGAATAATAGTGG
Found at i:3407514 original size:33 final size:33
Alignment explanation
Indices: 3407472--3407537 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
3407462 AAAGTAGCTG
*
3407472 GTGTACTTAGTATTTTGAAAATAATTATGTTAC
1 GTGTACTTAGTATGTTGAAAATAATTATGTTAC
3407505 GTGTACTTAGTATGTTGAAAATAATTATGTTAC
1 GTGTACTTAGTATGTTGAAAATAATTATGTTAC
3407538 TCCAACTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (33 bp):
GTGTACTTAGTATGTTGAAAATAATTATGTTAC
Found at i:3411207 original size:19 final size:20
Alignment explanation
Indices: 3411174--3411212 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
3411164 GTTAATTTCA
*
3411174 ATTTTTAAATATTATTTAAT
1 ATTTTTAAATATTATGTAAT
*
3411194 ATTTTTTAAT-TTATGTAAT
1 ATTTTTAAATATTATGTAAT
3411213 TTTAATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
ATTTTTAAATATTATGTAAT
Found at i:3412794 original size:18 final size:18
Alignment explanation
Indices: 3412771--3412813 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
3412761 TGCTAGGTTC
**
3412771 GTATCCTAGCCCTTATAT
1 GTATCCTAAACCTTATAT
3412789 GTATCCTAAACCTTATAT
1 GTATCCTAAACCTTATAT
*
3412807 GTTTCCT
1 GTATCCT
3412814 TTTTCCAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.26, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAAACCTTATAT
Found at i:3417365 original size:18 final size:18
Alignment explanation
Indices: 3417339--3417377 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
3417329 TACAAAAATC
*
3417339 TAAATTTATTTCTCAAT-T
1 TAAACTTATTTC-CAATAT
3417357 TAAACTTATTTCCAATAT
1 TAAACTTATTTCCAATAT
3417375 TAA
1 TAA
3417378 TTAATTGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAACTTATTTCCAATAT
Found at i:3422795 original size:13 final size:13
Alignment explanation
Indices: 3422777--3422803 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3422767 TCTAGAAAAT
3422777 TTTTCAAGGTCAA
1 TTTTCAAGGTCAA
3422790 TTTTCAAGGTCAA
1 TTTTCAAGGTCAA
3422803 T
1 T
3422804 AGACAACGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTTTCAAGGTCAA
Found at i:3425935 original size:4 final size:4
Alignment explanation
Indices: 3425928--3425961 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
3425918 TTGCTTGTAC
*
3425928 ATAA ATAA ATAA ATAAA ATGA ATAA ATAA ATAA A
1 ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATAA A
3425962 GGCTCAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:3428271 original size:125 final size:126
Alignment explanation
Indices: 3428022--3428663 Score: 807
Period size: 125 Copynumber: 5.1 Consensus size: 126
3428012 AAGGCCAAGC
*
3428022 AGGAACTACTGTAGAAAAAGAGCATCCACGTGTGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
1 AGGAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
* * * *
3428087 TCCTGCTTGAAGTGTTTTTGACACTATTTTTTCAAAACTGTCTTCTCAAAATTA-ATTTTT
66 TCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTT
* * * * ** *
3428147 AGGAACTAGTGTAGAAAAAAAGCGTCCACATGGGAGCTTTTTTTTGTAATTTTGCTGATAGTGCA
1 AGGAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
* * * * **
3428212 TCCTACTTGAAGCGTTTTTTATATTA-TTTTTCAGAACTATCTTCTCAAAATTATTTTTTT
66 TCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTT
* * * *
3428272 AAGAACTACTATAGAAAAAGAGCATCCAC-TAGGAGCTTTTTTCAGTAATTTTGCTAACAGTGCA
1 AGGAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
* * * *
3428336 TCTTGCTTGAAGCATTTCTT-ATACTATTTTTTCATAACCGTCTTCTCAAAATTATTTTTTT
66 TCCTGCTTGAAGCGTTT-TTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTT
* * * * *
3428397 AAGAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGC-TTTTTCAGTAATTTTGTTGATAGTGCA
1 AGGAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
* * *
3428461 T-CTGCTTGAAGCGTTTTTGACACTATTTTTTTAGAACCGTCTTCTCCAAATTATTTTTTC
66 TCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTT
* * *
3428521 AGGAACTATTGTA-AAAAAGAGCATTCACGTGTGG-GCTTTTTTCAGTAATTTTACTGACAGTGC
1 AGGAACTACTGTAGAAAAAGAGCATCCACGTG-GGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * * *
3428584 ATCCTGCTTGAAGCGTTTTTGACATTATCTTTTCCGAACCGTCTTCTCAAAATTAATTTTTCT
65 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATT-ATTTTTTT
* *
3428647 -GAAACTATTGTAGAAAA
1 AGGAACTACTGTAGAAAA
3428664 TAAACAAAAT
Statistics
Matches: 444, Mismatches: 63, Indels: 19
0.84 0.12 0.04
Matches are distributed among these distances:
123 20 0.05
124 160 0.36
125 249 0.56
126 15 0.03
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (126 bp):
AGGAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
TCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTT
Found at i:3428506 original size:249 final size:251
Alignment explanation
Indices: 3428024--3428663 Score: 846
Period size: 249 Copynumber: 2.6 Consensus size: 251
3428014 GGCCAAGCAG
3428024 GAACTACTGTAGAAAAAGAGCATCCACGTGTGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGTGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * * *
3428089 CTGCTTGAAGTGTTTTTGACACTATTTTTTCAAAACTGTCTTCTCAAAATTA-ATTTTTAGGAAC
66 CTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTTTAAGAAC
* * **
3428153 TAGTGTAGAAAAAAAGCGTCCACATGGGAGCTTTTTTTTGTAATTTTGCTGATAGTGCATCCTAC
131 TACTGTAGAAAAAAAGCGTCCACATGAGAGCTTTTTTCAGTAATTTTGCTGATAGTGCATCCTAC
* * * * *
3428218 TTGAAGCGTTTTTTATATTATTTTTCAGAACTATCTTCTCAAAATTATTTTTTTAA
196 TTGAAGCGTTTTTGACACTATTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAA
* *
3428274 GAACTACTATAGAAAAAGAGCATCCAC-TAG-GAGCTTTTTTCAGTAATTTTGCTAACAGTGCAT
1 GAACTACTGTAGAAAAAGAGCATCCACGT-GTGAGCTTTTTTCAGTAATTTTGCTGACAGTGCAT
* * * *
3428337 CTTGCTTGAAGCATTTCTT-ATACTATTTTTTCATAACCGTCTTCTCAAAATTATTTTTTTAAGA
65 CCTGCTTGAAGCGTTT-TTGACACTATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTTTAAGA
* * *
3428401 ACTACTGTAGAAAAAGAGCGTCCACGTGAGAGC-TTTTTCAGTAATTTTGTTGATAGTGCAT-CT
129 ACTACTGTAGAAAAAAAGCGTCCACATGAGAGCTTTTTTCAGTAATTTTGCTGATAGTGCATCCT
* * * * *
3428464 GCTTGAAGCGTTTTTGACACTATTTTTTTAGAACCGTCTTCTCCAAATTATTTTTTCAG
194 ACTTGAAGCGTTTTTGACACTA-TTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAA
* * * *
3428523 GAACTATTGTA-AAAAAGAGCATTCACGTGTGGGCTTTTTTCAGTAATTTTACTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGTGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * ** * *
3428587 CTGCTTGAAGCGTTTTTGACATTATCTTTTCCGAACCGTCTTCTCAAAATTAATTTTTCTGA-AA
66 CTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAACCGTCTTCTCAAAATT-ATTTTTTTAAGAA
*
3428651 CTATTGTAGAAAA
130 CTACTGTAGAAAA
3428664 TAAACAAAAT
Statistics
Matches: 339, Mismatches: 43, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
248 37 0.11
249 228 0.67
250 74 0.22
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.39
Consensus pattern (251 bp):
GAACTACTGTAGAAAAAGAGCATCCACGTGTGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTTTAAGAAC
TACTGTAGAAAAAAAGCGTCCACATGAGAGCTTTTTTCAGTAATTTTGCTGATAGTGCATCCTAC
TTGAAGCGTTTTTGACACTATTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAA
Found at i:3428837 original size:34 final size:33
Alignment explanation
Indices: 3428748--3428880 Score: 110
Period size: 34 Copynumber: 4.0 Consensus size: 33
3428738 GCTAAACATA
* * *
3428748 AATTT-TTTTTTAAAAAACATAAACCCTAATTT
1 AATTTATTTCTTAAAAACCCTAAACCCTAATTT
* *
3428780 AATTAAATTTCTTAAAAATCCTAAACCCTAATTT
1 AATT-TATTTCTTAAAAACCCTAAACCCTAATTT
* * * *
3428814 AATTTATTTATTTTAAACCCCTAAAACCTAATTT
1 AATTTATTT-CTTAAAAACCCTAAACCCTAATTT
* *
3428848 AA-TTATTT-TAAAAAAAACTCTAAACCCTAATTT
1 AATTTATTTCT--TAAAAACCCTAAACCCTAATTT
3428881 TTTTTAAAAA
Statistics
Matches: 81, Mismatches: 15, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
31 1 0.01
32 4 0.05
33 27 0.33
34 49 0.60
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.41
Consensus pattern (33 bp):
AATTTATTTCTTAAAAACCCTAAACCCTAATTT
Found at i:3428889 original size:28 final size:27
Alignment explanation
Indices: 3428847--3428904 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
3428837 AAACCTAATT
3428847 TAATTATTTTAAAAAAAACTCTAAACCC
1 TAATTATTTTAAAAAAAACT-TAAACCC
* * **
3428875 TAATTTTTTTTAAAAATTCTTAAACCC
1 TAATTATTTTAAAAAAAACTTAAACCC
3428902 TAA
1 TAA
3428905 ATACATAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 10 0.38
28 16 0.62
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.40
Consensus pattern (27 bp):
TAATTATTTTAAAAAAAACTTAAACCC
Found at i:3440760 original size:6 final size:6
Alignment explanation
Indices: 3440744--3440782 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
3440734 GGAAACAATC
3440744 TTTCTTT TTTCTT TTTCTT TTTCTT TTTCTT TTT-TT TTT
1 TTTC-TT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
3440783 GGGGGGGGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.16
6 23 0.72
7 4 0.12
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTCTT
Found at i:3446016 original size:17 final size:18
Alignment explanation
Indices: 3445978--3446022 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
3445968 CCCAGAATCT
3445978 CACACGCCCGTGTAGACC
1 CACACGCCCGTGTAGACC
*
3445996 CACACGTCCGTGTAG-CC
1 CACACGCCCGTGTAGACC
3446013 CACACAGCCC
1 CACAC-GCCC
3446023 AAATCAGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.22, C:0.47, G:0.20, T:0.11
Consensus pattern (18 bp):
CACACGCCCGTGTAGACC
Found at i:3451522 original size:22 final size:23
Alignment explanation
Indices: 3451497--3451542 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
3451487 CAAACAAATC
3451497 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
3451519 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
3451542 A
1 A
3451543 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:3451548 original size:23 final size:23
Alignment explanation
Indices: 3451504--3451548 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
3451494 ATCAATTCAA
*
3451504 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
3451527 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
3451549 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:3451811 original size:57 final size:57
Alignment explanation
Indices: 3451723--3451835 Score: 217
Period size: 57 Copynumber: 2.0 Consensus size: 57
3451713 TCCGACCTCC
3451723 GAGCTCTTAACACTACAAAACAGGGAAAAAGGAAACGGGGTAAGCACTTTGTGCTTA
1 GAGCTCTTAACACTACAAAACAGGGAAAAAGGAAACGGGGTAAGCACTTTGTGCTTA
*
3451780 GAGCTCTTAACACTACAAAACAGGGAAAAAGGAAATGGGGTAAGCACTTTGTGCTT
1 GAGCTCTTAACACTACAAAACAGGGAAAAAGGAAACGGGGTAAGCACTTTGTGCTT
3451836 TGTAAGCTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (57 bp):
GAGCTCTTAACACTACAAAACAGGGAAAAAGGAAACGGGGTAAGCACTTTGTGCTTA
Found at i:3461599 original size:15 final size:16
Alignment explanation
Indices: 3461579--3461614 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
3461569 CGAGCCTAAA
3461579 ACATGCAAAT-TAACC
1 ACATGCAAATGTAACC
3461594 ACATGCAAATGTAACC
1 ACATGCAAATGTAACC
3461610 -CATGC
1 ACATGC
3461615 TAACTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.42, C:0.28, G:0.11, T:0.19
Consensus pattern (16 bp):
ACATGCAAATGTAACC
Found at i:3465851 original size:16 final size:16
Alignment explanation
Indices: 3465832--3465865 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
3465822 AATTTGATTT
*
3465832 AAAGGAGAGGAAAAGA
1 AAAGGAGAAGAAAAGA
3465848 AAAGGAGAAGAAAAGA
1 AAAGGAGAAGAAAAGA
3465864 AA
1 AA
3465866 TAAAAGATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (16 bp):
AAAGGAGAAGAAAAGA
Found at i:3476271 original size:68 final size:71
Alignment explanation
Indices: 3476130--3476274 Score: 181
Period size: 68 Copynumber: 2.1 Consensus size: 71
3476120 TATTAAATTT
*
3476130 TATTAAATTAATAAAATATCTATCTACAAGATAAACATTAAATTTAATTTAATATTAAGATAATT
1 TATTAAAATAATAAAATATCTATCTA-AAGATAAACATTAAATTTAATTTAATATTAAGATAATT
***
3476195 ACTTTAA
65 AAAATAA
** *
3476202 TATTAAAATAATAAAATA-CTAT-T-AAGATAAGTATTAAATTTAATTTAATATTAA-ATCTATT
1 TATTAAAATAATAAAATATCTATCTAAAGATAAACATTAAATTTAATTTAATATTAAGAT-AATT
3476263 AAAATAA
65 AAAATAA
3476270 TATTA
1 TATTA
3476275 TTTTTTAAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
67 2 0.03
68 41 0.63
70 1 0.02
71 4 0.06
72 17 0.26
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.41
Consensus pattern (71 bp):
TATTAAAATAATAAAATATCTATCTAAAGATAAACATTAAATTTAATTTAATATTAAGATAATTA
AAATAA
Found at i:3480966 original size:18 final size:17
Alignment explanation
Indices: 3480943--3480979 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
3480933 TATCATGCAT
3480943 TTTCATATACATAATCAA
1 TTTCATATACATAAT-AA
*
3480961 TTTCATGTACATAATAA
1 TTTCATATACATAATAA
3480978 TT
1 TT
3480980 GCACAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.41, C:0.14, G:0.03, T:0.43
Consensus pattern (17 bp):
TTTCATATACATAATAA
Found at i:3487149 original size:47 final size:46
Alignment explanation
Indices: 3487034--3487303 Score: 200
Period size: 47 Copynumber: 5.5 Consensus size: 46
3487024 TGCACATAGT
* * ** * *
3487034 CACATATTACACACCGAAGCCATAGCCCAGCCATGGTCTTATACGGAT
1 CACATA-T-CACACCGATGCCATATCCCAGATATGGTCTTATACGAAG
* * *
3487082 CACATATCACACTGATGCCATATCCCAGATATAGTCTTATACAGTAG
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATAC-GAAG
3487129 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACGGAAG
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATAC-GAAG
* * * *
3487176 CACATAATCACATCTCTCCGATGCCATAGCCCAGCTATGGTTTTATACGGAAAT
1 CACAT-ATCACA-----CCGATGCCATATCCCAGATATGGTCTTATAC-G-AAG
* * *
3487230 CACATGATCACATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAAT
1 CAC---AT---ATCACACCGATGCCATATCCCAGATATGGTCTTATAC-G-AAG
*
3487284 CACATATCACA-CGTTGCCAT
1 CACATATCACACCGATGCCAT
3487304 GGTCCAACCA
Statistics
Matches: 190, Mismatches: 19, Indels: 27
0.81 0.08 0.11
Matches are distributed among these distances:
46 29 0.15
47 59 0.31
48 18 0.09
51 2 0.01
53 30 0.16
54 44 0.23
57 2 0.01
59 6 0.03
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.24
Consensus pattern (46 bp):
CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACGAAG
Found at i:3487209 original size:53 final size:51
Alignment explanation
Indices: 3487034--3487294 Score: 238
Period size: 54 Copynumber: 5.2 Consensus size: 51
3487024 TGCACATAGT
* * * ** *
3487034 CACATATTACA-CACCGAAGCCATAGCCCAGCCATGGTCTTATACGG--AT
1 CACATATCACATCCCCGATGCCATAGCCCAGATATGGTCTTATACGGAAAG
* * * * *
3487082 CACATATCACA---CTGATGCCATATCCCAGATATAGTCTTATACAG-TAG
1 CACATATCACATCCCCGATGCCATAGCCCAGATATGGTCTTATACGGAAAG
*
3487129 CACATATCACA---CCGATGCCATATCCCAGATATGGTCTTATACGG-AAG
1 CACATATCACATCCCCGATGCCATAGCCCAGATATGGTCTTATACGGAAAG
* * *
3487176 CACATAATCACATCTCTCCGATGCCATAGCCCAGCTATGGTTTTATACGGAAAT
1 CACAT-ATCACATC-C-CCGATGCCATAGCCCAGATATGGTCTTATACGGAAAG
* *
3487230 CACATGATCACATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAAT
1 CACAT-ATCACATC-C-CCGATGCCATAGCCCAGATATGGTCTTATACGGAAAG
3487284 CACATATCACA
1 CACATATCACA
3487295 CGTTGCCATG
Statistics
Matches: 184, Mismatches: 21, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
46 26 0.14
47 49 0.27
48 16 0.09
53 36 0.20
54 57 0.31
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (51 bp):
CACATATCACATCCCCGATGCCATAGCCCAGATATGGTCTTATACGGAAAG
Found at i:3491214 original size:26 final size:26
Alignment explanation
Indices: 3491185--3491311 Score: 89
Period size: 26 Copynumber: 4.9 Consensus size: 26
3491175 AACAGGCATT
* *
3491185 GAGCTGGTGGTTATGTAGTAGGCCTC
1 GAGCTGGTGGTTATTTAGCAGGCCTC
* *
3491211 GAGCCGGTACG-TATTTAGCAGGCCTC
1 GAGCTGGT-GGTTATTTAGCAGGCCTC
* * *
3491237 GAGTTAGTGGTTATTTAGCAGGCCTT
1 GAGCTGGTGGTTATTTAGCAGGCCTC
* * * *
3491263 GAG-TCAGTGTTTATTTAGCAAGCCTT
1 GAGCT-GGTGGTTATTTAGCAGGCCTC
* *
3491289 GAG-TCGGTGTTTATTTAGTAGGC
1 GAGCT-GGTGGTTATTTAGCAGGC
3491312 TTTGATTCAG
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
25 2 0.02
26 81 0.96
27 1 0.01
ACGTcount: A:0.19, C:0.16, G:0.31, T:0.34
Consensus pattern (26 bp):
GAGCTGGTGGTTATTTAGCAGGCCTC
Found at i:3491278 original size:52 final size:52
Alignment explanation
Indices: 3491222--3491337 Score: 151
Period size: 52 Copynumber: 2.2 Consensus size: 52
3491212 AGCCGGTACG
* * *
3491222 TATTTAGCAGGCCTCGAGTTAGTGGTTATTTAGCAGGCCTTGAGTCAGTGTT
1 TATTTAGCAAGCCTCGAGTCAGTGGTTATTTAGCAGGCCTTGAGTCAGTGGT
* * * * * *
3491274 TATTTAGCAAGCCTTGAGTCGGTGTTTATTTAGTAGGCTTTGATTCAGTGGT
1 TATTTAGCAAGCCTCGAGTCAGTGGTTATTTAGCAGGCCTTGAGTCAGTGGT
3491326 TATTTAGCAAGC
1 TATTTAGCAAGC
3491338 TTTGAGCCGA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.21, C:0.14, G:0.27, T:0.39
Consensus pattern (52 bp):
TATTTAGCAAGCCTCGAGTCAGTGGTTATTTAGCAGGCCTTGAGTCAGTGGT
Found at i:3491316 original size:26 final size:26
Alignment explanation
Indices: 3491222--3491343 Score: 136
Period size: 26 Copynumber: 4.7 Consensus size: 26
3491212 AGCCGGTACG
* * * *
3491222 TATTTAGCAGGCCTCGAGTTAGTGGT
1 TATTTAGCAAGCCTTGAGTCAGTGTT
*
3491248 TATTTAGCAGGCCTTGAGTCAGTGTT
1 TATTTAGCAAGCCTTGAGTCAGTGTT
*
3491274 TATTTAGCAAGCCTTGAGTCGGTGTT
1 TATTTAGCAAGCCTTGAGTCAGTGTT
* * * * *
3491300 TATTTAGTAGGCTTTGATTCAGTGGT
1 TATTTAGCAAGCCTTGAGTCAGTGTT
*
3491326 TATTTAGCAAGCTTTGAG
1 TATTTAGCAAGCCTTGAG
3491344 CCGATGTACA
Statistics
Matches: 82, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.39
Consensus pattern (26 bp):
TATTTAGCAAGCCTTGAGTCAGTGTT
Found at i:3491357 original size:52 final size:52
Alignment explanation
Indices: 3491249--3491357 Score: 137
Period size: 52 Copynumber: 2.1 Consensus size: 52
3491239 GTTAGTGGTT
* * * **
3491249 ATTTAGCAGGCCTTGAGTCAGTGTTTATTTAGCAAGCCTTGAGTCGGTGTTT
1 ATTTAGCAGGCCTTGAGTCAGTGGTTATTTAGCAAGCCTTGAGCCGATGTAC
* * * *
3491301 ATTTAGTAGGCTTTGATTCAGTGGTTATTTAGCAAGCTTTGAGCCGATGTAC
1 ATTTAGCAGGCCTTGAGTCAGTGGTTATTTAGCAAGCCTTGAGCCGATGTAC
3491353 ATTTA
1 ATTTA
3491358 TCAAGTATTA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.39
Consensus pattern (52 bp):
ATTTAGCAGGCCTTGAGTCAGTGGTTATTTAGCAAGCCTTGAGCCGATGTAC
Found at i:3492513 original size:29 final size:29
Alignment explanation
Indices: 3492481--3492569 Score: 99
Period size: 29 Copynumber: 3.1 Consensus size: 29
3492471 ATAGGCTGTC
* *
3492481 ACATGGTTGTGTGCCACACATAGTCTCCT
1 ACATGGTCGTGTGCCACACACAGTCTCCT
** * *
3492510 ACATGACCGTGTGCCACATACGGTCTCCT
1 ACATGGTCGTGTGCCACACACAGTCTCCT
* *
3492539 ACATGGTCGTGTGCAACACACGGTCT-CT
1 ACATGGTCGTGTGCCACACACAGTCTCCT
3492567 ACA
1 ACA
3492570 CAGTCTTGTA
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 5 0.10
29 45 0.90
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.26
Consensus pattern (29 bp):
ACATGGTCGTGTGCCACACACAGTCTCCT
Found at i:3499878 original size:48 final size:47
Alignment explanation
Indices: 3499801--3499937 Score: 166
Period size: 48 Copynumber: 2.9 Consensus size: 47
3499791 GGGAGTCTCA
* * ** *
3499801 CACCCTAAGTGCCAATATCATGGGCCGAAGCCAAATTAATGTAACTTG
1 CACCCGAAGTGCCAATATCAT-GGCCGAAGCCAAATCAATACAACTCG
* *
3499849 CACCCGAAGTACCAATACCATGGCTCGAAGCCAAATCAATACAACTCG
1 CACCCGAAGTGCCAATATCATGGC-CGAAGCCAAATCAATACAACTCG
* *
3499897 CACCTGAAGTGCCAATATCATGGCCCGAAGCAAAATCAATA
1 CACCCGAAGTGCCAATATCATGG-CCGAAGCCAAATCAATA
3499938 TATTCCCTAA
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
47 3 0.04
48 72 0.95
49 1 0.01
ACGTcount: A:0.36, C:0.28, G:0.17, T:0.18
Consensus pattern (47 bp):
CACCCGAAGTGCCAATATCATGGCCGAAGCCAAATCAATACAACTCG
Found at i:3500530 original size:21 final size:20
Alignment explanation
Indices: 3500500--3500538 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
3500490 CCAAACTTGT
3500500 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
3500520 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
3500539 CAAAATACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:3512476 original size:17 final size:17
Alignment explanation
Indices: 3512444--3512477 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3512434 CACAGATATC
*
3512444 CTACTCATGAGACCTAT
1 CTACTCATAAGACCTAT
*
3512461 CTACTCATAAGGCCTAT
1 CTACTCATAAGACCTAT
3512478 AAGAAAAAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (17 bp):
CTACTCATAAGACCTAT
Found at i:3513571 original size:8 final size:8
Alignment explanation
Indices: 3513558--3513587 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
3513548 GAATTTAGAA
3513558 GAATTGGT
1 GAATTGGT
3513566 GAATTGGT
1 GAATTGGT
3513574 GAATTTGGT
1 GAA-TTGGT
3513583 GAATT
1 GAATT
3513588 AAAAGAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (8 bp):
GAATTGGT
Found at i:3527781 original size:26 final size:25
Alignment explanation
Indices: 3527733--3527788 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 25
3527723 TATTTAAGTT
* * *
3527733 TTTAAAATATTTTATGTATATTAAC
1 TTTAAAATAATTTATATAAATTAAC
3527758 TTTACAAATAATTTATATAAATT-A-
1 TTTA-AAATAATTTATATAAATTAAC
3527782 TTTAAAA
1 TTTAAAA
3527789 GGTATTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 3 0.11
24 4 0.15
25 5 0.19
26 15 0.56
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (25 bp):
TTTAAAATAATTTATATAAATTAAC
Found at i:3530380 original size:13 final size:13
Alignment explanation
Indices: 3530362--3530387 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3530352 TGCGTGGCTC
3530362 GGGTTATTTTTAT
1 GGGTTATTTTTAT
3530375 GGGTTATTTTTAT
1 GGGTTATTTTTAT
3530388 TCTTCATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (13 bp):
GGGTTATTTTTAT
Found at i:3549045 original size:16 final size:18
Alignment explanation
Indices: 3549013--3549045 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3549003 GTTAATAGAA
3549013 TAAATTTAGTGTTAATTG
1 TAAATTTAGTGTTAATTG
3549031 TAAATTT-GT-TTAATT
1 TAAATTTAGTGTTAATT
3549046 TATCAAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (18 bp):
TAAATTTAGTGTTAATTG
Found at i:3549942 original size:27 final size:27
Alignment explanation
Indices: 3549912--3549966 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
3549902 AAATTATCAC
*
3549912 TAAGGATTTAAATAAATAAAAAATTTA
1 TAAGGATTTAAATAAATAAAAAAATTA
3549939 TAAGGATTTAAATAAATAAAAAAATTA
1 TAAGGATTTAAATAAATAAAAAAATTA
3549966 T
1 T
3549967 TCTTTTTCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (27 bp):
TAAGGATTTAAATAAATAAAAAAATTA
Found at i:3551741 original size:9 final size:9
Alignment explanation
Indices: 3551727--3551751 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
3551717 ATTAAAGATA
3551727 AAAAAAAAG
1 AAAAAAAAG
3551736 AAAAAAAAG
1 AAAAAAAAG
3551745 AAAAAAA
1 AAAAAAA
3551752 GAAGTTGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:3553031 original size:31 final size:29
Alignment explanation
Indices: 3552990--3553052 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
3552980 CTCGAATGAT
3552990 TGATTCGTCACTTTTCGTAAACG-TTAGTGAC
1 TGATTCGTCACTTTT-G-AAA-GTTTAGTGAC
*
3553021 TGATTTGTCACTTTTGAAAGTTTAGTGAC
1 TGATTCGTCACTTTTGAAAGTTTAGTGAC
3553050 TGA
1 TGA
3553053 AATGTTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 1 0.03
29 14 0.47
30 1 0.03
31 14 0.47
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (29 bp):
TGATTCGTCACTTTTGAAAGTTTAGTGAC
Found at i:3570299 original size:40 final size:40
Alignment explanation
Indices: 3570242--3570495 Score: 264
Period size: 39 Copynumber: 6.4 Consensus size: 40
3570232 ATATTTGATG
* * *
3570242 TGTATCCGGGCTTAAAGACCCGTAGGCTAT-ATGCTAGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCTGGAAT
* *
3570282 TATATCCGGGCTTAAAGACCCGCAGACTTCGTGCTGGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
* * **
3570322 TGTATCCGGACTT-CAGGTCCGCAGGCTTCGTGCTGGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
3570361 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
* * * * *
3570401 TGTATCCGGACTT-AAGATCCGCAGGCTTCGTGCTAGTAC
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
* * * ** * * *
3570440 TATATCCAGACTT-AAGGTCCGCAGGCTTCGTACTGGTAC
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
*
3570479 TATATCCGGGCTTAAAG
1 TGTATCCGGGCTTAAAG
3570496 TCCTGTAGGC
Statistics
Matches: 184, Mismatches: 27, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
39 102 0.55
40 82 0.45
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.27
Consensus pattern (40 bp):
TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
Found at i:3570454 original size:79 final size:79
Alignment explanation
Indices: 3570242--3570493 Score: 292
Period size: 79 Copynumber: 3.2 Consensus size: 79
3570232 ATATTTGATG
* * * *
3570242 TGTATCCGGGCTTAAAGACCCGTAGGCTAT-ATGCTAGAATTATATCCGGGCTTAAAGACCCGCA
1 TGTATCCGGACTT-AAGATCCGCAGGCT-TCGTGCTAGAATTATATCCGGGCTTAAAGACCCGCA
*
3570306 GACTTCGTGCTGGAAT
64 GGCTTCGTGCTGGAAT
* * * *
3570322 TGTATCCGGACTTCAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCGCAGG
1 TGTATCCGGACTTAAGATCCGCAGGCTTCGTGCTAGAATTATATCCGGGCTTAAAGACCCGCAGG
3570387 CTTCGTGCTGGAAT
66 CTTCGTGCTGGAAT
* * * * **
3570401 TGTATCCGGACTTAAGATCCGCAGGCTTCGTGCTAGTACTATATCCAGACTT-AAGGTCCGCAGG
1 TGTATCCGGACTTAAGATCCGCAGGCTTCGTGCTAGAATTATATCCGGGCTTAAAGACCCGCAGG
* * *
3570465 CTTCGTACTGGTAC
66 CTTCGTGCTGGAAT
* *
3570479 TATATCCGGGCTTAA
1 TGTATCCGGACTTAA
3570494 AGTCCTGTAG
Statistics
Matches: 147, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
78 35 0.24
79 100 0.68
80 12 0.08
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.27
Consensus pattern (79 bp):
TGTATCCGGACTTAAGATCCGCAGGCTTCGTGCTAGAATTATATCCGGGCTTAAAGACCCGCAGG
CTTCGTGCTGGAAT
Found at i:3578375 original size:45 final size:44
Alignment explanation
Indices: 3578311--3578584 Score: 228
Period size: 45 Copynumber: 5.8 Consensus size: 44
3578301 GTTATAATGG
*
3578311 CAAATCTTATCTT-CTTGAAGTTGCAGT-GAAGCAGATTGAAAATA
1 CAAATCTTAT-TTCCCTGAAGTTGCAGTGGAA-CAGATTGAAAATA
3578355 GCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCACAAATTA
1 -CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT---G--A-AAA-TA
* * * * ** *
3578407 TAAATCTTATCTCCTTGAAGTTACAGTGGAGTAGATTGAAGATA
1 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAAATA
3578451 TCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCACAAATTA
1 -CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT---G--A-AAA-TA
* * * * ** *
3578503 TAAATCTTATCTCCTTGAAGTTACAGTGGAGTAGATTGAAGATA
1 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAAATA
3578547 TCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
1 -CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
3578585 AAAGCCACAA
Statistics
Matches: 183, Mismatches: 28, Indels: 36
0.74 0.11 0.15
Matches are distributed among these distances:
44 6 0.03
45 95 0.52
46 5 0.03
48 4 0.02
50 2 0.01
51 67 0.37
52 4 0.02
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (44 bp):
CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAAATA
Found at i:3578434 original size:51 final size:51
Alignment explanation
Indices: 3578357--3578626 Score: 289
Period size: 51 Copynumber: 5.5 Consensus size: 51
3578347 TGAAAATAGC
* *
3578357 AAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCACAAATTAT
1 AAATCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGCCACAAATTAT
* ** *
3578408 AAATCTTATCTCCTTGAAGTTACAGTGGAGTAGATT---G--A-AGA-TAT
1 AAATCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGCCACAAATTAT
* *
3578452 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCACAAATTAT
1 -AAATCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGCCACAAATTAT
* ** *
3578504 AAATCTTATCTCCTTGAAGTTACAGTGGAGTAGATT---G--A-AGA-TAT
1 AAATCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGCCACAAATTAT
* *
3578548 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCACAAATTAT
1 -AAATCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGCCACAAATTAT
*
3578600 AAATCTTATCTCCTTGAAGTTACAGTG
1 AAATCTTATCTCCCTGAAGTTACAGTG
3578627 CTGAAGTTGC
Statistics
Matches: 176, Mismatches: 27, Indels: 32
0.75 0.11 0.14
Matches are distributed among these distances:
44 6 0.03
45 66 0.38
46 2 0.01
48 4 0.02
50 2 0.01
51 90 0.51
52 6 0.03
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.31
Consensus pattern (51 bp):
AAATCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGCCACAAATTAT
Found at i:3578443 original size:96 final size:96
Alignment explanation
Indices: 3578312--3578626 Score: 576
Period size: 96 Copynumber: 3.3 Consensus size: 96
3578302 TTATAATGGC
* * * * * *
3578312 AAATCTTATCTTCTTGAAGTTGCAGTGAAGCAGATTGAAAATAGCAAATCTTATTTCCCTGAAGT
1 AAATCTTATCTCCTTGAAGTTACAGTGGAGTAGATTGAAGATATCAAATCTTATTTCCCTGAAGT
3578377 TGCAGTGGAACAGATTAAAGCCACAAATTAT
66 TGCAGTGGAACAGATTAAAGCCACAAATTAT
3578408 AAATCTTATCTCCTTGAAGTTACAGTGGAGTAGATTGAAGATATCAAATCTTATTTCCCTGAAGT
1 AAATCTTATCTCCTTGAAGTTACAGTGGAGTAGATTGAAGATATCAAATCTTATTTCCCTGAAGT
3578473 TGCAGTGGAACAGATTAAAGCCACAAATTAT
66 TGCAGTGGAACAGATTAAAGCCACAAATTAT
3578504 AAATCTTATCTCCTTGAAGTTACAGTGGAGTAGATTGAAGATATCAAATCTTATTTCCCTGAAGT
1 AAATCTTATCTCCTTGAAGTTACAGTGGAGTAGATTGAAGATATCAAATCTTATTTCCCTGAAGT
3578569 TGCAGTGGAACAGATTAAAGCCACAAATTAT
66 TGCAGTGGAACAGATTAAAGCCACAAATTAT
3578600 AAATCTTATCTCCTTGAAGTTACAGTG
1 AAATCTTATCTCCTTGAAGTTACAGTG
3578627 CTGAAGTTGC
Statistics
Matches: 213, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 213 1.00
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.31
Consensus pattern (96 bp):
AAATCTTATCTCCTTGAAGTTACAGTGGAGTAGATTGAAGATATCAAATCTTATTTCCCTGAAGT
TGCAGTGGAACAGATTAAAGCCACAAATTAT
Found at i:3578699 original size:44 final size:44
Alignment explanation
Indices: 3578628--3578737 Score: 139
Period size: 44 Copynumber: 2.5 Consensus size: 44
3578618 GTTACAGTGC
* * * * *
3578628 TGAAGTTGCAGTGGAGTAGGTTGAAGTTCCAAATTTCATCTCCT
1 TGAAGTTGCAGTGGAGTAGATTAAAGTTACAAATCTAATCTCCT
* *
3578672 TGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCTAATCTCCT
1 TGAAGTTGCAGTGGAGTAGATTAAAGTTACAAATCTAATCTCCT
* *
3578716 TGAAGTTACAGTGAAGTAGATT
1 TGAAGTTGCAGTGGAGTAGATT
3578738 GAAGCATCAA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 56 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.32
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAGTAGATTAAAGTTACAAATCTAATCTCCT
Found at i:3579330 original size:15 final size:15
Alignment explanation
Indices: 3579310--3579338 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3579300 TGGAAGAGGT
3579310 GATTTTTTTATTTTA
1 GATTTTTTTATTTTA
3579325 GATTTTTTTATTTT
1 GATTTTTTTATTTT
3579339 TTAAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (15 bp):
GATTTTTTTATTTTA
Found at i:3579393 original size:27 final size:28
Alignment explanation
Indices: 3579339--3579393 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
3579329 TTTTTATTTT
*
3579339 TTAAATAAAAGCATAAAACAAAACAAAA
1 TTAAATAAAAGCATAAAACAAAAAAAAA
3579367 TTAAA-AAAAGCATAAAA-AAATAAAAAA
1 TTAAATAAAAGCATAAAACAAA-AAAAAA
3579394 GGGAAATCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 3 0.12
27 17 0.68
28 5 0.20
ACGTcount: A:0.75, C:0.07, G:0.04, T:0.15
Consensus pattern (28 bp):
TTAAATAAAAGCATAAAACAAAAAAAAA
Found at i:3580065 original size:21 final size:22
Alignment explanation
Indices: 3580029--3580069 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
3580019 ATTTTAATCC
*
3580029 TTTACTTTACTTTATTTTATTG
1 TTTAATTTACTTTATTTTATTG
3580051 TTTAATTTA-TTTATTTTAT
1 TTTAATTTACTTTATTTTAT
3580070 AATGATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTAATTTACTTTATTTTATTG
Found at i:3580223 original size:3 final size:3
Alignment explanation
Indices: 3580217--3580267 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
3580207 TTCTTCTCAC
* * *
3580217 TAT TAT TA- TAT TAT T-T TAT CTAT TAT TAT TAG TAT TAG TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
3580261 TAT TAT T
1 TAT TAT T
3580268 TGTTTATGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 4 0.10
3 32 0.82
4 3 0.08
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:3580252 original size:12 final size:12
Alignment explanation
Indices: 3580217--3580267 Score: 61
Period size: 12 Copynumber: 4.3 Consensus size: 12
3580207 TTCTTCTCAC
3580217 TATTATTA-TAT
1 TATTATTAGTAT
*
3580228 TATT-TTATCTAT
1 TATTATTA-GTAT
3580240 TATTATTAGTAT
1 TATTATTAGTAT
*
3580252 TAGTATTAGTAT
1 TATTATTAGTAT
3580264 TATT
1 TATT
3580268 TGTTTATGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 3 0.09
11 4 0.12
12 24 0.71
13 3 0.09
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (12 bp):
TATTATTAGTAT
Found at i:3580380 original size:12 final size:13
Alignment explanation
Indices: 3580363--3580399 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
3580353 AAACAAACTG
3580363 TTTTATTTATT-A
1 TTTTATTTATTCA
3580375 TTTTATTTATTCA
1 TTTTATTTATTCA
*
3580388 -TTTATTTCTTCA
1 TTTTATTTATTCA
3580400 ACTTTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 22 0.96
13 1 0.04
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTATTTATTCA
Found at i:3580475 original size:3 final size:3
Alignment explanation
Indices: 3580453--3580501 Score: 64
Period size: 3 Copynumber: 16.3 Consensus size: 3
3580443 TGTACTTTTA
* *
3580453 TAT T-T TAT TAT CAT TGT TAT TAT TAT TAT TAT TATT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
3580498 TAT T
1 TAT T
3580502 TTCCTCTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:3584306 original size:144 final size:144
Alignment explanation
Indices: 3584038--3584339 Score: 498
Period size: 144 Copynumber: 2.1 Consensus size: 144
3584028 CATGGAAGTT
*
3584038 GGGATAGAACCAGAAAGCCCATTAGAATAAAGCCCAAGATTGTCCAAGTTAGTCAAGTTTGCTAT
1 GGGATAGAACCAGAAAGCCCATTAGAATAAAGCCCAAGATTGTCCAAGTTAGTCAAGTTTCCTAT
* *
3584103 GGAATCAGGGATGACACCAGTGAGATTATTCTCCGACAACTGCAAGTCGAAAAGAGATTTGAGCA
66 GGAAACAGGGATGACACCAGTGAGATTATTCTCCAACAACTGCAAGTCGAAAAGAGATTTGAGCA
3584168 TTCCTATCTCACTG
131 TTCCTATCTCACTG
* *
3584182 GGGATAGAACCAGAAAGCCCATTAGAATCAAGCTCAAGATTGTCCAAGTTAGTCAAGTTTCCTAT
1 GGGATAGAACCAGAAAGCCCATTAGAATAAAGCCCAAGATTGTCCAAGTTAGTCAAGTTTCCTAT
* * * * *
3584247 GGAAACAGGGATGACACCAGTGAGATTGTTTTTCAACAACTGCAA-TACGGAAAGCGATTTGAGC
66 GGAAACAGGGATGACACCAGTGAGATTATTCTCCAACAACTGCAAGT-CGAAAAGAGATTTGAGC
3584311 ATTCCTATCTCACTG
130 ATTCCTATCTCACTG
3584326 GGGATAGAACCAGA
1 GGGATAGAACCAGA
3584340 GAGATAATTA
Statistics
Matches: 147, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
143 1 0.01
144 146 0.99
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.24
Consensus pattern (144 bp):
GGGATAGAACCAGAAAGCCCATTAGAATAAAGCCCAAGATTGTCCAAGTTAGTCAAGTTTCCTAT
GGAAACAGGGATGACACCAGTGAGATTATTCTCCAACAACTGCAAGTCGAAAAGAGATTTGAGCA
TTCCTATCTCACTG
Found at i:3584384 original size:144 final size:144
Alignment explanation
Indices: 3584038--3584390 Score: 399
Period size: 144 Copynumber: 2.5 Consensus size: 144
3584028 CATGGAAGTT
* * * * ** * * *
3584038 GGGATAGAACCAGAAAGCCCATTAGAATAAAGCCCAAGATTGTCCAAGTTAGTCAAGTTTGCTAT
1 GGGATAGAACCAGAAAGACAATTACAATCAAGATCAAGATTATCCAAGTTACTCAAGTTTCCTAT
* *
3584103 GGAATCAGGGATGACACCAGTGAGATTATTCTCCGACAACTGCAAGTCGAAAAGAGATTTGAGCA
66 GGAAACAGGGATGACACCAGTGAGATTATTCTCCAACAACTGCAAGTCGAAAAGAGATTTGAGCA
3584168 TTCCTATCTCACTG
131 TTCCTATCTCACTG
* * * * * *
3584182 GGGATAGAACCAGAAAGCCCATTAGAATCAAGCTCAAGATTGTCCAAGTTAGTCAAGTTTCCTAT
1 GGGATAGAACCAGAAAGACAATTACAATCAAGATCAAGATTATCCAAGTTACTCAAGTTTCCTAT
* * * * *
3584247 GGAAACAGGGATGACACCAGTGAGATTGTTTTTCAACAACTGCAA-TACGGAAAGCGATTTGAGC
66 GGAAACAGGGATGACACCAGTGAGATTATTCTCCAACAACTGCAAGT-CGAAAAGAGATTTGAGC
3584311 ATTCCTATCTCACTG
130 ATTCCTATCTCACTG
* * * * *
3584326 GGGATAGAACCAGAGAGATAATTACCAT-ACAGAT-AGAGATATAT-CATGTTACTTAAGTTTCC
1 GGGATAGAACCAGAAAGACAATTACAATCA-AGATCA-AGAT-TATCCAAGTTACTCAAGTTTCC
3584388 TAT
63 TAT
3584391 ACATGTTGGG
Statistics
Matches: 184, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
143 3 0.02
144 179 0.97
145 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (144 bp):
GGGATAGAACCAGAAAGACAATTACAATCAAGATCAAGATTATCCAAGTTACTCAAGTTTCCTAT
GGAAACAGGGATGACACCAGTGAGATTATTCTCCAACAACTGCAAGTCGAAAAGAGATTTGAGCA
TTCCTATCTCACTG
Found at i:3585622 original size:34 final size:34
Alignment explanation
Indices: 3585584--3585651 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
3585574 AAAAGAATGT
3585584 GTAAATGTTGATAACTAAATATGTAGTTATACTA
1 GTAAATGTTGATAACTAAATATGTAGTTATACTA
3585618 GTAAATGTTGATAACTAAATATGTAGTTATACTA
1 GTAAATGTTGATAACTAAATATGTAGTTATACTA
3585652 AGTGAAAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (34 bp):
GTAAATGTTGATAACTAAATATGTAGTTATACTA
Found at i:3585651 original size:17 final size:17
Alignment explanation
Indices: 3585597--3585652 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
3585587 AATGTTGATA
3585597 ACTAAATATGTAGTTAT
1 ACTAAATATGTAGTTAT
* *
3585614 ACTAGTAA-ATGTTGATA-
1 ACTA--AATATGTAGTTAT
3585631 ACTAAATATGTAGTTAT
1 ACTAAATATGTAGTTAT
3585648 ACTAA
1 ACTAA
3585653 GTGAAAAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
15 2 0.06
16 7 0.23
17 13 0.42
18 7 0.23
19 2 0.06
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (17 bp):
ACTAAATATGTAGTTAT
Found at i:3586087 original size:14 final size:14
Alignment explanation
Indices: 3586068--3586095 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3586058 GGTGTACTTG
3586068 AATATGACAAGTCT
1 AATATGACAAGTCT
3586082 AATATGACAAGTCT
1 AATATGACAAGTCT
3586096 TCGTCGTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (14 bp):
AATATGACAAGTCT
Found at i:3586247 original size:20 final size:20
Alignment explanation
Indices: 3586196--3586247 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
3586186 TATAAGTGAG
3586196 TAAAA-TAATTAAATATTAA
1 TAAAATTAATTAAATATTAA
* * *
3586215 TAAATTTATTTAATTA-TAA
1 TAAAATTAATTAAATATTAA
3586234 TTAAAATTAATTAA
1 -TAAAATTAATTAA
3586248 CTTTTTTATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TAAAATTAATTAAATATTAA
Found at i:3588774 original size:25 final size:26
Alignment explanation
Indices: 3588746--3588794 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
3588736 TATTTGAAGA
*
3588746 CTGTCTTTTTGACACGA-GTTTTTGT
1 CTGTCCTTTTGACACGAGGTTTTTGT
3588771 CTGTCCTTTTGACACGAGGTTTTT
1 CTGTCCTTTTGACACGAGGTTTTT
3588795 TTGTTTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.12, C:0.18, G:0.20, T:0.49
Consensus pattern (26 bp):
CTGTCCTTTTGACACGAGGTTTTTGT
Found at i:3594537 original size:19 final size:20
Alignment explanation
Indices: 3594487--3594537 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 20
3594477 GTTGAGTGAG
*
3594487 AGGTTAATTAGATTTTAATTA
1 AGGTTAATTAGA-CTTAATTA
*
3594508 A-GTAAATTTAG-CTTAATTA
1 AGGTTAA-TTAGACTTAATTA
3594527 AGGTTAATTAG
1 AGGTTAATTAG
3594538 GTATAAGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
19 12 0.48
20 8 0.32
21 5 0.20
ACGTcount: A:0.39, C:0.02, G:0.16, T:0.43
Consensus pattern (20 bp):
AGGTTAATTAGACTTAATTA
Found at i:3594825 original size:24 final size:25
Alignment explanation
Indices: 3594779--3594825 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
3594769 TAAAGAATGA
3594779 ATAAAGAAAATAAAAGAAATAAAAC
1 ATAAAGAAAATAAAAGAAATAAAAC
*
3594804 ATAAAGAAAA-AAGAGAAATAAA
1 ATAAAGAAAATAAAAGAAATAAA
3594826 GGCACGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.77, C:0.02, G:0.11, T:0.11
Consensus pattern (25 bp):
ATAAAGAAAATAAAAGAAATAAAAC
Done.