Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 83 of 378
Found at i:22532751 original size:2 final size:2
Alignment explanation
Indices: 22532744--22532770 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22532734 TGTATCTGAT
22532744 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
22532771 GATTTCTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22535437 original size:19 final size:20
Alignment explanation
Indices: 22535413--22535469 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
22535403 CAATGACTAA
22535413 AATGGAAATGAGAAA-AATT
1 AATGGAAATGAGAAATAATT
*
22535432 AATGG--ATGATAAATAATT
1 AATGGAAATGAGAAATAATT
*
22535450 AATAGGAAAT-AAAAATAATT
1 AAT-GGAAATGAGAAATAATT
22535470 TTATGTCATC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
17 7 0.22
18 7 0.22
19 7 0.22
20 9 0.28
21 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.16, T:0.26
Consensus pattern (20 bp):
AATGGAAATGAGAAATAATT
Found at i:22538163 original size:20 final size:20
Alignment explanation
Indices: 22538140--22538280 Score: 75
Period size: 20 Copynumber: 7.0 Consensus size: 20
22538130 AAGCCATCAA
*
22538140 TAATGCAGACAAGCTGCTAG
1 TAATGCAGACAAGCTGCCAG
** * ** *
22538160 TAATGTGGTCAAGCCACTAG
1 TAATGCAGACAAGCTGCCAG
* **
22538180 TAATGCAGATAAATTGCCAG
1 TAATGCAGACAAGCTGCCAG
** * *
22538200 TGGTACAGACAAGCTACCAG
1 TAATGCAGACAAGCTGCCAG
* * * *
22538220 TAATGCAAATAAACTGCTAG
1 TAATGCAGACAAGCTGCCAG
* *
22538240 TAGTGCAGAAAAGCTGCCAG
1 TAATGCAGACAAGCTGCCAG
* * *
22538260 AAATGCAGATAAACTGCCAG
1 TAATGCAGACAAGCTGCCAG
22538280 T
1 T
22538281 GATGTAAAAA
Statistics
Matches: 82, Mismatches: 39, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 82 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (20 bp):
TAATGCAGACAAGCTGCCAG
Found at i:22538213 original size:40 final size:40
Alignment explanation
Indices: 22538169--22538281 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 40
22538159 GTAATGTGGT
* * *
22538169 CAAGCCACTAGTAATGCAGATAAATTGCCAGTGGTACAGA
1 CAAGCTACCAGTAATGCAGATAAACTGCCAGTGGTACAGA
* * * *
22538209 CAAGCTACCAGTAATGCAAATAAACTGCTAGTAGTGCAGA
1 CAAGCTACCAGTAATGCAGATAAACTGCCAGTGGTACAGA
* * *
22538249 AAAGCTGCCAGAAATGCAGATAAACTGCCAGTG
1 CAAGCTACCAGTAATGCAGATAAACTGCCAGTG
22538282 ATGTAAAAAG
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (40 bp):
CAAGCTACCAGTAATGCAGATAAACTGCCAGTGGTACAGA
Found at i:22545460 original size:29 final size:29
Alignment explanation
Indices: 22545422--22545487 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
22545412 TTAAGTGATT
*
22545422 TTGAGTAAAAATGCATATT-AGGGATTAAA
1 TTGAG-AAAAATGCAAATTGAGGGATTAAA
* *
22545451 TTGAGAAAAATGTAAATTGAGGGGTTAAA
1 TTGAGAAAAATGCAAATTGAGGGATTAAA
*
22545480 TTGTGAAA
1 TTGAGAAA
22545488 TAGATGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 11 0.34
29 21 0.66
ACGTcount: A:0.44, C:0.02, G:0.24, T:0.30
Consensus pattern (29 bp):
TTGAGAAAAATGCAAATTGAGGGATTAAA
Found at i:22552351 original size:20 final size:20
Alignment explanation
Indices: 22552323--22552371 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
22552313 TTGAATCCTC
* *
22552323 TTATCTTTTTATTTTTATTT
1 TTATCTTTTCAATTTTATTT
*
22552343 TTATTTTTTCAATTTTATTAT
1 TTATCTTTTCAATTTTATT-T
22552364 TT-TCTTTT
1 TTATCTTTT
22552372 GAAATACATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (20 bp):
TTATCTTTTCAATTTTATTT
Found at i:22555710 original size:43 final size:43
Alignment explanation
Indices: 22555609--22555713 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 43
22555599 TACCGAGATG
* *
22555609 TGATTACATGTAAGACAATGTCTGAGACATTGGCATTGTATTA
1 TGATTACATGTAAGACCATGTCTGAGACAGTGGCATTGTATTA
* * * *
22555652 TGATTTCGTGTAAGACCTTGTCTGGGACAGTGGCATTG-ATATA
1 TGATTACATGTAAGACCATGTCTGAGACAGTGGCATTGTAT-TA
* *
22555695 TGATAACATGAAAGACCAT
1 TGATTACATGTAAGACCAT
22555714 ATTTGGAATA
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
42 2 0.04
43 48 0.96
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.32
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGAGACAGTGGCATTGTATTA
Found at i:22558126 original size:26 final size:26
Alignment explanation
Indices: 22558097--22558171 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 26
22558087 TCTACTGAGG
22558097 AGATCATGTGTAAACGATTCGTTGAC
1 AGATCATGTGTAAACGATTCGTTGAC
* *
22558123 AGAT-ATGTGT---C--TAC--TGAGG
1 AGATCATGTGTAAACGATTCGTTGA-C
22558142 AGATCATGTGTAAACGATTCGTTGAC
1 AGATCATGTGTAAACGATTCGTTGAC
22558168 AGAT
1 AGAT
22558172 TGAATGAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 18
0.62 0.07 0.31
Matches are distributed among these distances:
18 3 0.08
19 4 0.11
20 8 0.22
22 1 0.03
23 1 0.03
25 8 0.22
26 8 0.22
27 3 0.08
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (26 bp):
AGATCATGTGTAAACGATTCGTTGAC
Found at i:22558145 original size:45 final size:45
Alignment explanation
Indices: 22558081--22558171 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
22558071 TGCCCGAGTG
22558081 TATGTGTCTACTGAGGAGATCATGTGTAAACGATTCGTTGACAGA
1 TATGTGTCTACTGAGGAGATCATGTGTAAACGATTCGTTGACAGA
22558126 TATGTGTCTACTGAGGAGATCATGTGTAAACGATTCGTTGACAGA
1 TATGTGTCTACTGAGGAGATCATGTGTAAACGATTCGTTGACAGA
22558171 T
1 T
22558172 TGAATGAAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (45 bp):
TATGTGTCTACTGAGGAGATCATGTGTAAACGATTCGTTGACAGA
Found at i:22560743 original size:25 final size:25
Alignment explanation
Indices: 22560714--22560763 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
22560704 CCTTATAATA
* *
22560714 TAAAAATGACCGTTTTGCCCCTAGG
1 TAAAAATGACCGTTATACCCCTAGG
*
22560739 TAAAAATGATCGTTATACCCCTAGG
1 TAAAAATGACCGTTATACCCCTAGG
22560764 GTTTAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (25 bp):
TAAAAATGACCGTTATACCCCTAGG
Found at i:22560866 original size:20 final size:20
Alignment explanation
Indices: 22560800--22560866 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
22560790 ATTTTGATAA
*
22560800 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
22560820 ACATGACATGTATGAGATGC
1 ACATGATATGTATGATATGC
22560840 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
22560860 ACATGAT
1 ACATGAT
22560867 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:22560999 original size:24 final size:24
Alignment explanation
Indices: 22560915--22561060 Score: 197
Period size: 25 Copynumber: 6.0 Consensus size: 24
22560905 GGAGGAAGTG
*
22560915 TAAAAGGGCTTATGCCCTAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
22560939 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
*
22560964 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
*
22560989 TAAAAGGGCTTATGCCCTAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
22561013 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
22561036 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
22561061 ATGATAAAGC
Statistics
Matches: 112, Mismatches: 6, Indels: 7
0.90 0.05 0.06
Matches are distributed among these distances:
23 18 0.16
24 39 0.35
25 55 0.49
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:22561012 original size:49 final size:48
Alignment explanation
Indices: 22560916--22561060 Score: 195
Period size: 47 Copynumber: 3.0 Consensus size: 48
22560906 GAGGAAGTGT
* *
22560916 AAAAGGGCTTATGCCCTAGTTATGATAAAGGGCTTATGCCCCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATTA-AAAGGGCTTATGCCCCAGTTATG
* *
22560965 ATAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCTAGTTATT
1 A-AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATG
*
22561014 AAAAGGGCTT-TGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAG-GGCTTATGCC-CCAGTTAT
22561061 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
47 23 0.26
48 19 0.22
49 23 0.26
50 22 0.25
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATG
Found at i:22561289 original size:31 final size:31
Alignment explanation
Indices: 22561254--22561317 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
22561244 CGTTTACAGT
22561254 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
22561285 AAAGGCTTCGGCCCAGTGTTATGAAATCTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
22561316 AA
1 AA
22561318 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:22570026 original size:33 final size:34
Alignment explanation
Indices: 22569970--22570037 Score: 120
Period size: 33 Copynumber: 2.0 Consensus size: 34
22569960 TGGTTAGATT
22569970 AAGTTAACTTTAATATATAAAATGATAAATAAAA
1 AAGTTAACTTTAATATATAAAATGATAAATAAAA
*
22570004 AAGTTAACTTTCA-ATATAAAATGATAAATAAAA
1 AAGTTAACTTTAATATATAAAATGATAAATAAAA
22570037 A
1 A
22570038 TTAAAGTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 21 0.64
34 12 0.36
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (34 bp):
AAGTTAACTTTAATATATAAAATGATAAATAAAA
Found at i:22572391 original size:30 final size:30
Alignment explanation
Indices: 22572357--22572424 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
22572347 CAAGTCAAAG
22572357 AGTTACACGG-TCGTGTGTCCCT-TTTTCGAA
1 AGTTACACGGCT-GTGTGTCCCTATTTT-GAA
*
22572387 AGTTACATGGCTGTGTGTCCCTATTTTGAA
1 AGTTACACGGCTGTGTGTCCCTATTTTGAA
22572417 AGTTACAC
1 AGTTACAC
22572425 AAGCGTGTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 29 0.85
31 5 0.15
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (30 bp):
AGTTACACGGCTGTGTGTCCCTATTTTGAA
Found at i:22572433 original size:30 final size:29
Alignment explanation
Indices: 22572368--22572434 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 29
22572358 GTTACACGGT
**
22572368 CGTGTGTCCCTTTTTCGAAAGTTACATGG
1 CGTGTGTCCCTTTTTCGAAAGTTACAAAG
22572397 CTGTGTGTCCCTATTTT-GAAAGTTACACAAG
1 C-GTGTGTCCCT-TTTTCGAAAGTTACA-AAG
22572428 CGTGTGT
1 CGTGTGT
22572435 TTCAACTGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 1 0.03
30 26 0.79
31 6 0.18
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.37
Consensus pattern (29 bp):
CGTGTGTCCCTTTTTCGAAAGTTACAAAG
Found at i:22572749 original size:21 final size:21
Alignment explanation
Indices: 22572723--22572768 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
22572713 TGTTACATAG
* *
22572723 TGACTGTTTGAAAGCTATTTC
1 TGACTGGTTGAAAGATATTTC
*
22572744 TGACTGGTTGAAAGATGTTTC
1 TGACTGGTTGAAAGATATTTC
22572765 TGAC
1 TGAC
22572769 CGTCAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.39
Consensus pattern (21 bp):
TGACTGGTTGAAAGATATTTC
Found at i:22587220 original size:12 final size:12
Alignment explanation
Indices: 22587203--22587228 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22587193 GCATCAAGAC
22587203 ACAGGGATTTCA
1 ACAGGGATTTCA
22587215 ACAGGGATTTCA
1 ACAGGGATTTCA
22587227 AC
1 AC
22587229 CAGTCAAAAC
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:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (12 bp):
ACAGGGATTTCA
Found at i:22591050 original size:40 final size:40
Alignment explanation
Indices: 22591006--22591185 Score: 129
Period size: 40 Copynumber: 4.7 Consensus size: 40
22590996 GTTCAAAACA
* * ***
22591006 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
* * *
22591046 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
* * * * * *
22591086 CCTTC-GG-CTTAGCCCGGATATCA-TA-GCTCACAATTG
1 CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
* * ** *
22591122 CCTTCGGG-CTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
* *
22591161 CCTTCGGG-CTTAGCCCGGATATCAC
1 CCTTCGGGACATAACCCGGATATCAC
22591186 TCGAACATTC
Statistics
Matches: 122, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
36 14 0.11
37 19 0.16
38 16 0.13
39 36 0.30
40 37 0.30
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
Found at i:22591154 original size:75 final size:77
Alignment explanation
Indices: 22591038--22591184 Score: 253
Period size: 75 Copynumber: 1.9 Consensus size: 77
22591028 TGGTAACCCG
22591038 CACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTC-GGCTTAGCCCG
1 CACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCG
22591102 GATATCATAGCT
66 GATATCATAGCT
* * *
22591114 CACAATTGCCTTCGGG-CTTAGCCCGGATATCACAATTCGCACAATTGCCTTCGGGCTTAGCCCG
1 CACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCG
22591178 GATATCA
66 GATATCA
22591185 CTCGAACATT
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
75 34 0.51
76 33 0.49
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (77 bp):
CACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCG
GATATCATAGCT
Found at i:22591168 original size:39 final size:38
Alignment explanation
Indices: 22591036--22591185 Score: 214
Period size: 39 Copynumber: 3.9 Consensus size: 38
22591026 TATGGTAACC
* *
22591036 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAA-T
* *
22591076 CGCACAATTGCCTTC-GGCTTAGCCCGGATATCA-TAG
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAAT
*
22591112 CTCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA-T
22591151 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
22591186 TCGAACATTC
Statistics
Matches: 99, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
36 14 0.14
37 19 0.19
38 16 0.16
39 36 0.36
40 14 0.14
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (38 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAAT
Found at i:22599062 original size:40 final size:39
Alignment explanation
Indices: 22599018--22599198 Score: 238
Period size: 39 Copynumber: 4.6 Consensus size: 39
22599008 GTTCAAAACA
* * ** * *
22599018 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
22599058 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
22599098 CCTTC-GGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
22599136 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
22599175 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
22599199 CTCGAACATT
Statistics
Matches: 126, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 33 0.26
39 56 0.44
40 37 0.29
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:22599157 original size:39 final size:39
Alignment explanation
Indices: 22599048--22599199 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
22599038 TATGGTAACC
* *
22599048 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
22599088 CGCACAATTGCCTTC-GGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
22599126 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
22599165 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
22599200 TCGAACATTC
Statistics
Matches: 104, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
38 33 0.32
39 57 0.55
40 14 0.13
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:22608298 original size:40 final size:40
Alignment explanation
Indices: 22608254--22608436 Score: 129
Period size: 39 Copynumber: 4.7 Consensus size: 40
22608244 GTTCAAAACA
* * ***
22608254 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
* * *
22608294 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
* * * * * * *
22608334 CCTTCGGG-CTTAGCTCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
* * * * ** *
22608373 CCTTCGGG-CTTAGCTCAGATATCACAATTCGCACAATTG
1 CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
* *
22608412 CCTTCGGG-CTTAGCCCGGATATCAC
1 CCTTCGGGACATAACCCGGATATCAC
22608437 TCGAACATTC
Statistics
Matches: 125, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 85 0.68
40 40 0.32
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
Found at i:22608365 original size:39 final size:39
Alignment explanation
Indices: 22608284--22608436 Score: 225
Period size: 39 Copynumber: 3.9 Consensus size: 39
22608274 TATGGTAACC
* *
22608284 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* * *
22608324 CGCACAATTGCCTTCGGGCTTAGCTCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* * *
22608363 CGCACAATTGCCTTCGGGCTTAGCTCAGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
22608402 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
22608437 TCGAACATTC
Statistics
Matches: 102, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 85 0.83
40 17 0.17
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:22614755 original size:25 final size:25
Alignment explanation
Indices: 22614712--22614760 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
22614702 CAAATATGTA
** *
22614712 AACGGGAAGCTTTTTCGAGCCATAT
1 AACGGGAAGCTCATCCGAGCCATAT
22614737 AACGGGAAGCTCATCCGAGCCATA
1 AACGGGAAGCTCATCCGAGCCATA
22614761 ATTGGGAAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.20
Consensus pattern (25 bp):
AACGGGAAGCTCATCCGAGCCATAT
Found at i:22614822 original size:25 final size:25
Alignment explanation
Indices: 22614728--22614829 Score: 82
Period size: 24 Copynumber: 4.2 Consensus size: 25
22614718 AAGCTTTTTC
* ***
22614728 GAGCCATATAACGGGAAGCTCATCC
1 GAGCCATATATCGGGAAGCTCAAAA
* * **
22614753 GAGCCATA-ATTGGGAAGTTCAAGT
1 GAGCCATATATCGGGAAGCTCAAAA
* *
22614777 GAGCCA-ATATCGAGAAACTCAAAA
1 GAGCCATATATCGGGAAGCTCAAAA
* *
22614801 GAGCCATATATCGGGACGCTCATAA
1 GAGCCATATATCGGGAAGCTCAAAA
22614826 GAGC
1 GAGC
22614830 TGCGGTGTGT
Statistics
Matches: 59, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
23 1 0.02
24 32 0.54
25 26 0.44
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.18
Consensus pattern (25 bp):
GAGCCATATATCGGGAAGCTCAAAA
Found at i:22614907 original size:24 final size:24
Alignment explanation
Indices: 22614880--22614950 Score: 63
Period size: 25 Copynumber: 2.9 Consensus size: 24
22614870 GGATGCTCCG
22614880 AAGAGCTATTAACGGGAAGCTCAC
1 AAGAGCTATTAACGGGAAGCTCAC
* * * *
22614904 AAGAACCATTTAA-TGGAAGGCTCAT
1 AAGAGCTA-TTAACGGGAA-GCTCAC
* *
22614929 AAGAGCTAATAACGGGACGCTC
1 AAGAGCTATTAACGGGAAGCTC
22614951 TTTTGAGCTG
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
24 17 0.49
25 18 0.51
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (24 bp):
AAGAGCTATTAACGGGAAGCTCAC
Found at i:22617131 original size:43 final size:45
Alignment explanation
Indices: 22617081--22617245 Score: 199
Period size: 45 Copynumber: 3.7 Consensus size: 45
22617071 TAGGATGTCG
* * * * *
22617081 ATGTCCCAGACATGGTCTTACTCG-TAGC-CACATATCGATGCTA
1 ATGTCCCAGACGTGGTCTTACACGAAAACACACATATCGATGCCA
*
22617124 ATGTCCCAGACGTGGTCTTACACGAAAACACATATATCGATGCCA
1 ATGTCCCAGACGTGGTCTTACACGAAAACACACATATCGATGCCA
* * * * *
22617169 ACGTCCCAAACGTGGTCTTACATGAAAACACATATATTGATGCCA
1 ATGTCCCAGACGTGGTCTTACACGAAAACACACATATCGATGCCA
* *
22617214 ACGTCCCAGACGTGGTCTTACATGAAAACACA
1 ATGTCCCAGACGTGGTCTTACACGAAAACACA
22617246 TAGCATAATC
Statistics
Matches: 109, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
43 22 0.20
44 2 0.02
45 85 0.78
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (45 bp):
ATGTCCCAGACGTGGTCTTACACGAAAACACACATATCGATGCCA
Found at i:22617176 original size:45 final size:45
Alignment explanation
Indices: 22617112--22617247 Score: 227
Period size: 45 Copynumber: 3.0 Consensus size: 45
22617102 TCGTAGCCAC
* * *
22617112 ATATCGATGCTAATGTCCCAGACGTGGTCTTACACGAAAACACAT
1 ATATCGATGCCAACGTCCCAGACGTGGTCTTACATGAAAACACAT
*
22617157 ATATCGATGCCAACGTCCCAAACGTGGTCTTACATGAAAACACAT
1 ATATCGATGCCAACGTCCCAGACGTGGTCTTACATGAAAACACAT
*
22617202 ATATTGATGCCAACGTCCCAGACGTGGTCTTACATGAAAACACAT
1 ATATCGATGCCAACGTCCCAGACGTGGTCTTACATGAAAACACAT
22617247 A
1 A
22617248 GCATAATCCT
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 85 1.00
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.24
Consensus pattern (45 bp):
ATATCGATGCCAACGTCCCAGACGTGGTCTTACATGAAAACACAT
Found at i:22617741 original size:30 final size:29
Alignment explanation
Indices: 22617707--22617772 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 29
22617697 TGTTCATACA
*
22617707 AGTCCATACAATTCATTTTTTTTACATTTT
1 AGTCC-TACAATTCATTATTTTTACATTTT
* *
22617737 AGTCCTTCAATTTATTATTTTTACATTTT
1 AGTCCTACAATTCATTATTTTTACATTTT
22617766 AGTCCTA
1 AGTCCTA
22617773 ATTACTCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 27 0.84
30 5 0.16
ACGTcount: A:0.26, C:0.17, G:0.05, T:0.53
Consensus pattern (29 bp):
AGTCCTACAATTCATTATTTTTACATTTT
Found at i:22618361 original size:14 final size:15
Alignment explanation
Indices: 22618344--22618372 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
22618334 TCACGAAAAT
22618344 TTCACACAT-ATAAA
1 TTCACACATAATAAA
22618358 TTCACACATAATAAA
1 TTCACACATAATAAA
22618373 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:22621964 original size:40 final size:40
Alignment explanation
Indices: 22621904--22621979 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
22621894 CGGTACTTTA
* *
22621904 TGGTGTGTAGGGTTGGATGGGTCGATTTTATCCCCATATT
1 TGGTGTGTAGGGATGAATGGGTCGATTTTATCCCCATATT
22621944 TGGTGTGTAGGGATGAATGGGTCGATTTTATCCCCA
1 TGGTGTGTAGGGATGAATGGGTCGATTTTATCCCCA
22621980 CATGGTGTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.17, C:0.13, G:0.33, T:0.37
Consensus pattern (40 bp):
TGGTGTGTAGGGATGAATGGGTCGATTTTATCCCCATATT
Found at i:22628938 original size:40 final size:40
Alignment explanation
Indices: 22628877--22628952 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
22628867 CAGTACTTTA
* * *
22628877 TGGTTTGTAGGGTTGGATGGGTCGATTTTATCCCCATATT
1 TGGTGTGTAGGGATGGATGGGTCAATTTTATCCCCATATT
* *
22628917 TGGTGTGTAGGGATGGGTGGGTCAATTTTATTCCCA
1 TGGTGTGTAGGGATGGATGGGTCAATTTTATCCCCA
22628953 CATGGTGTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.16, C:0.12, G:0.33, T:0.39
Consensus pattern (40 bp):
TGGTGTGTAGGGATGGATGGGTCAATTTTATCCCCATATT
Found at i:22634761 original size:3 final size:3
Alignment explanation
Indices: 22634753--22634834 Score: 157
Period size: 3 Copynumber: 27.7 Consensus size: 3
22634743 AAATATAGAA
22634753 GAT GAT GAT GAT GAT GAT GAT -AT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
22634800 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
22634835 ATAAGAAGAA
Statistics
Matches: 78, Mismatches: 0, Indels: 2
0.98 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 76 0.97
ACGTcount: A:0.34, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:22637432 original size:34 final size:34
Alignment explanation
Indices: 22637394--22637459 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
22637384 TTGTTATCGA
* * *
22637394 ATTGATTTAAGATAAGCATATTAATTGCTACCAC
1 ATTGATCTAAGATAAACATATTAAATGCTACCAC
* *
22637428 ATTGATCTGATATAAACATATTAAATGCTACC
1 ATTGATCTAAGATAAACATATTAAATGCTACC
22637460 GCTTTAATCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (34 bp):
ATTGATCTAAGATAAACATATTAAATGCTACCAC
Found at i:22637470 original size:34 final size:34
Alignment explanation
Indices: 22637405--22637476 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
22637395 TTGATTTAAG
* * *
22637405 ATAAGCATATTAATTGCTACCACATTGATCTGAT
1 ATAAACATATTAAATGCTACCACATTAATCTGAT
* * *
22637439 ATAAACATATTAAATGCTACCGCTTTAATCTGTT
1 ATAAACATATTAAATGCTACCACATTAATCTGAT
22637473 ATAA
1 ATAA
22637477 TTATGCCACA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.36
Consensus pattern (34 bp):
ATAAACATATTAAATGCTACCACATTAATCTGAT
Found at i:22639293 original size:24 final size:24
Alignment explanation
Indices: 22639247--22639293 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
22639237 AAATATTTAA
* * *
22639247 TTAGATAAACATAAATTTTAAAAT
1 TTAGATAAACAGAAAATTAAAAAT
*
22639271 TTAGATAAATAGAAAATTAAAAA
1 TTAGATAAACAGAAAATTAAAAA
22639294 AATATTTCCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (24 bp):
TTAGATAAACAGAAAATTAAAAAT
Found at i:22639338 original size:28 final size:28
Alignment explanation
Indices: 22639284--22639338 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
22639274 GATAAATAGA
*
22639284 AAATTAAAAAAATATTTCCATTTAATTT
1 AAATTAAAAAAATATTTCCATTAAATTT
* * **
22639312 AAATTAAATAAATTTTTTTATTAAATT
1 AAATTAAAAAAATATTTCCATTAAATT
22639339 ATATACTATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (28 bp):
AAATTAAAAAAATATTTCCATTAAATTT
Found at i:22639837 original size:15 final size:17
Alignment explanation
Indices: 22639819--22639860 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
22639809 TTTTTTTATG
22639819 TTTTTCTTTTCT-TC-T
1 TTTTTCTTTTCTATCGT
*
22639834 TTTTTCTATTCTATCGT
1 TTTTTCTTTTCTATCGT
*
22639851 TCTTTCTTTT
1 TTTTTCTTTT
22639861 TCCCTCTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 11 0.50
16 2 0.09
17 9 0.41
ACGTcount: A:0.05, C:0.19, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTTTCTTTTCTATCGT
Found at i:22647335 original size:14 final size:14
Alignment explanation
Indices: 22647316--22647342 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22647306 CTATTTTTAT
22647316 TATGTGTGAAATTA
1 TATGTGTGAAATTA
22647330 TATGTGTGAAATT
1 TATGTGTGAAATT
22647343 TTCGTGATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TATGTGTGAAATTA
Found at i:22648511 original size:56 final size:56
Alignment explanation
Indices: 22648415--22648523 Score: 148
Period size: 56 Copynumber: 1.9 Consensus size: 56
22648405 CATGGCTTCG
* * * **
22648415 ATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTTCA
1 ATATATGTGTACGAGTAAGACCACGTCTAAGACAGCGGCATCGATATGTGATTTCA
*
22648471 ATATATGTGTACGAGTAAGACC-CTGTCTAGGACAGCGGCATCGATATGTGATT
1 ATATATGTGTACGAGTAAGACCAC-GTCTAAGACAGCGGCATCGATATGTGATT
22648524 ACATGTAAGA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
55 1 0.02
56 45 0.98
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (56 bp):
ATATATGTGTACGAGTAAGACCACGTCTAAGACAGCGGCATCGATATGTGATTTCA
Found at i:22653343 original size:22 final size:21
Alignment explanation
Indices: 22653300--22653362 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 21
22653290 TAAATTAAAT
22653300 TAAAAATATAAACATAATTTTTTA
1 TAAAAATA-AAA-ATAA-TTTTTA
22653324 TAAAAATAAAAAT-ATATTTTA
1 TAAAAATAAAAATAAT-TTTTA
* * *
22653345 AAAAAATTAAAACAATTT
1 TAAAAATAAAAATAATTT
22653363 AACAAGCATA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 1 0.03
21 18 0.53
22 4 0.12
23 3 0.09
24 8 0.24
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAAAATAAAAATAATTTTTA
Found at i:22655442 original size:12 final size:12
Alignment explanation
Indices: 22655420--22655456 Score: 65
Period size: 12 Copynumber: 3.0 Consensus size: 12
22655410 AATGATTAAT
22655420 TAAGTTCAAGTGG
1 TAAG-TCAAGTGG
22655433 TAAGTCAAGTGG
1 TAAGTCAAGTGG
22655445 TAAGTCAAGTGG
1 TAAGTCAAGTGG
22655457 CTTTTACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 20 0.83
13 4 0.17
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.27
Consensus pattern (12 bp):
TAAGTCAAGTGG
Found at i:22656538 original size:2 final size:2
Alignment explanation
Indices: 22656531--22656566 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
22656521 AAATGAATCA
22656531 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
22656567 GTTATTATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22659641 original size:29 final size:29
Alignment explanation
Indices: 22659599--22659657 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
22659589 AACACAAATA
22659599 TTAAATTTGATAAAGGGCTAGTTTAGCCT
1 TTAAATTTGATAAAGGGCTAGTTTAGCCT
*
22659628 TTAAATTTGATAAATGGCTAGTTTAGCCT
1 TTAAATTTGATAAAGGGCTAGTTTAGCCT
22659657 T
1 T
22659658 ACTTTTGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.41
Consensus pattern (29 bp):
TTAAATTTGATAAAGGGCTAGTTTAGCCT
Found at i:22664698 original size:131 final size:131
Alignment explanation
Indices: 22664464--22664726 Score: 499
Period size: 131 Copynumber: 2.0 Consensus size: 131
22664454 AGGCACTTTT
*
22664464 CAATCAGCTGAAGTTGGTGAGATGGTTATAATTTGTAGTAGGTTTTAAGCTGAAAAATGAGGTCA
1 CAATCAGCTGAAGTTGGAGAGATGGTTATAATTTGTAGTAGGTTTTAAGCTGAAAAATGAGGTCA
*
22664529 GGACCGTCAGGTAGAGCTTTAGGTTGAAAAGTTTGGGCATTGAGATGGACCATAGAAGTGTTTTG
66 GGACCGTCAGGTAAAGCTTTAGGTTGAAAAGTTTGGGCATTGAGATGGACCATAGAAGTGTTTTG
22664594 G
131 G
22664595 CAATCAGCTGAAGTTGGAGAGATGGTTATAATTTGTAGTAGGTTTTAAGCTGAAAAATGAGGTCA
1 CAATCAGCTGAAGTTGGAGAGATGGTTATAATTTGTAGTAGGTTTTAAGCTGAAAAATGAGGTCA
*
22664660 GGACTGTCAGGTAAAGCTTTAGGTTGAAAAGTTTGGGCATTGAGATGGACCATAGAAGTGTTTTG
66 GGACCGTCAGGTAAAGCTTTAGGTTGAAAAGTTTGGGCATTGAGATGGACCATAGAAGTGTTTTG
22664725 G
131 G
22664726 C
1 C
22664727 CTCATACATA
Statistics
Matches: 129, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 129 1.00
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (131 bp):
CAATCAGCTGAAGTTGGAGAGATGGTTATAATTTGTAGTAGGTTTTAAGCTGAAAAATGAGGTCA
GGACCGTCAGGTAAAGCTTTAGGTTGAAAAGTTTGGGCATTGAGATGGACCATAGAAGTGTTTTG
G
Found at i:22669722 original size:12 final size:12
Alignment explanation
Indices: 22669705--22669756 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
22669695 CTGTTATGAG
22669705 TAGCAA-TTCTGT
1 TAGCAAGTT-TGT
22669717 TAGCAAGTTTGT
1 TAGCAAGTTTGT
*
22669729 TAGCTAAGCTTGT
1 TAGC-AAGTTTGT
*
22669742 TAGCTAAGTCTGT
1 TAGC-AAGTTTGT
22669755 TA
1 TA
22669757 ACTAAGTCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
12 13 0.37
13 22 0.63
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.40
Consensus pattern (12 bp):
TAGCAAGTTTGT
Found at i:22669764 original size:13 final size:13
Alignment explanation
Indices: 22669712--22669765 Score: 67
Period size: 13 Copynumber: 4.2 Consensus size: 13
22669702 GAGTAGCAAT
22669712 TCTGTTAGC-AAG
1 TCTGTTAGCTAAG
*
22669724 TTTGTTAGCTAAG
1 TCTGTTAGCTAAG
22669737 -CTTGTTAGCTAAG
1 TC-TGTTAGCTAAG
*
22669750 TCTGTTAACTAAG
1 TCTGTTAGCTAAG
22669763 TCT
1 TCT
22669766 ATAAATACTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
12 8 0.22
13 27 0.75
14 1 0.03
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (13 bp):
TCTGTTAGCTAAG
Found at i:22673426 original size:25 final size:26
Alignment explanation
Indices: 22673398--22673459 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
22673388 TTGTTATGAG
* *
22673398 TAGCTAAGTCTGTTAGC-AAGTTTGT
1 TAGCTAAGTCTGTTAGCTAAGTCTAT
*
22673423 TAGCTAAGTTTGTTAGCTAAGTCTAT
1 TAGCTAAGTCTGTTAGCTAAGTCTAT
*
22673449 TAACTAAGTCT
1 TAGCTAAGTCT
22673460 ATAAATACTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
25 16 0.52
26 15 0.48
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.40
Consensus pattern (26 bp):
TAGCTAAGTCTGTTAGCTAAGTCTAT
Found at i:22673431 original size:13 final size:13
Alignment explanation
Indices: 22673398--22673444 Score: 78
Period size: 13 Copynumber: 3.7 Consensus size: 13
22673388 TTGTTATGAG
*
22673398 TAGCTAAGTCTGT
1 TAGCTAAGTTTGT
22673411 TAGC-AAGTTTGT
1 TAGCTAAGTTTGT
22673423 TAGCTAAGTTTGT
1 TAGCTAAGTTTGT
22673436 TAGCTAAGT
1 TAGCTAAGT
22673445 CTATTAACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 11 0.34
13 21 0.66
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (13 bp):
TAGCTAAGTTTGT
Found at i:22675455 original size:13 final size:13
Alignment explanation
Indices: 22675424--22675479 Score: 78
Period size: 13 Copynumber: 4.4 Consensus size: 13
22675414 TATGAGTAGT
22675424 TAAGTTTGTTAGC
1 TAAGTTTGTTAGC
22675437 -AAGTTTGTTAGC
1 TAAGTTTGTTAGC
22675449 TAAGTTTGTTAGC
1 TAAGTTTGTTAGC
* * *
22675462 TAAATCTGTTAAC
1 TAAGTTTGTTAGC
22675475 TAAGT
1 TAAGT
22675480 CTATAAATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
12 12 0.32
13 26 0.68
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.43
Consensus pattern (13 bp):
TAAGTTTGTTAGC
Found at i:22680914 original size:18 final size:18
Alignment explanation
Indices: 22680875--22680917 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
22680865 TATATTTTTA
*
22680875 AAAAATATTAATTACCAT
1 AAAAATATTAAGTACCAT
*
22680893 AAAAATATT-AGTACGAT
1 AAAAATATTAAGTACCAT
22680910 GAAAAATA
1 -AAAAATA
22680918 ATTTCTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.28
Consensus pattern (18 bp):
AAAAATATTAAGTACCAT
Found at i:22682160 original size:14 final size:13
Alignment explanation
Indices: 22682142--22682175 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
22682132 CTTTTCTTCT
22682142 TTCTTTTTTTTTG
1 TTCTTTTTTTTTG
*
22682155 TCTCTTTCTTTTTG
1 T-TCTTTTTTTTTG
22682169 TTCTTTT
1 TTCTTTT
22682176 CCTTTCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (13 bp):
TTCTTTTTTTTTG
Found at i:22682162 original size:18 final size:20
Alignment explanation
Indices: 22682139--22682185 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
22682129 TCCCTTTTCT
22682139 TCTTTCTTTTT-TT-TTGTC
1 TCTTTCTTTTTGTTCTTGTC
*
22682157 TCTTTCTTTTTGTTCTTTTC
1 TCTTTCTTTTTGTTCTTGTC
22682177 -CTTTCTTTT
1 TCTTTCTTTT
22682186 CTTCATCCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 11 0.42
19 11 0.42
20 4 0.15
ACGTcount: A:0.00, C:0.19, G:0.04, T:0.77
Consensus pattern (20 bp):
TCTTTCTTTTTGTTCTTGTC
Found at i:22685332 original size:12 final size:12
Alignment explanation
Indices: 22685315--22685340 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22685305 GAATTTATTA
22685315 TTATACACTGAG
1 TTATACACTGAG
22685327 TTATACACTGAG
1 TTATACACTGAG
22685339 TT
1 TT
22685341 CTCTACTCAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (12 bp):
TTATACACTGAG
Found at i:22686249 original size:30 final size:30
Alignment explanation
Indices: 22686215--22686274 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
22686205 ACTTAACAAG
*
22686215 CAAATACCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
** *
22686245 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
22686275 TAATAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:22689397 original size:15 final size:15
Alignment explanation
Indices: 22689377--22689432 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
22689367 ACTACAAAAC
22689377 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
22689392 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
22689411 ATTTATTATTAA-ATT
1 ATTTATTATTAATA-T
22689426 ATTTATT
1 ATTTATT
22689433 TTGAATATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 1 0.03
15 15 0.44
16 1 0.03
17 7 0.21
18 1 0.03
19 9 0.26
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:22689441 original size:24 final size:24
Alignment explanation
Indices: 22689414--22689482 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 24
22689404 AATAAATATT
22689414 TATTATTAAATTATTTATTTTGAA
1 TATTATTAAATTATTTATTTTGAA
* * * * ***
22689438 TATTTTTCAATAATATATGAAGAA
1 TATTATTAAATTATTTATTTTGAA
22689462 TATTATTTAAATT-TTTATTTT
1 TATTA-TTAAATTATTTATTTT
22689483 TAAAATTTAT
Statistics
Matches: 30, Mismatches: 14, Indels: 2
0.65 0.30 0.04
Matches are distributed among these distances:
24 25 0.83
25 5 0.17
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (24 bp):
TATTATTAAATTATTTATTTTGAA
Found at i:22690413 original size:24 final size:24
Alignment explanation
Indices: 22690381--22690430 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
22690371 TCATAATCAA
* * *
22690381 ATACAAATGCATATACAGATTTAG
1 ATACAAATGCAGACACAGATATAG
22690405 ATACAAATGCAGACACAGATATAG
1 ATACAAATGCAGACACAGATATAG
22690429 AT
1 AT
22690431 GTAGTCATAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (24 bp):
ATACAAATGCAGACACAGATATAG
Found at i:22693330 original size:18 final size:18
Alignment explanation
Indices: 22693307--22693342 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
22693297 AATAAAGTTC
*
22693307 ATCATTTAAATTAATTAA
1 ATCATTTAAATCAATTAA
22693325 ATCATTTAAATCAATTAA
1 ATCATTTAAATCAATTAA
22693343 TAATATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (18 bp):
ATCATTTAAATCAATTAA
Found at i:22695028 original size:16 final size:17
Alignment explanation
Indices: 22694997--22695030 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
22694987 AATAAAAAAT
*
22694997 GAATACTACGATATAAA
1 GAATAATACGATATAAA
22695014 GAATAATAC-ATATAAA
1 GAATAATACGATATAAA
22695030 G
1 G
22695031 CAAAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (17 bp):
GAATAATACGATATAAA
Found at i:22695601 original size:20 final size:21
Alignment explanation
Indices: 22695569--22695617 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
22695559 TGATATACAT
22695569 AACAT-AT-ATATAAAAA-AA
1 AACATAATAATATAAAAATAA
22695587 CAACA-AATAATATAAAAATAA
1 -AACATAATAATATAAAAATAA
22695608 AACATAATAA
1 AACATAATAA
22695618 AGATTATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 6 0.23
20 13 0.50
21 7 0.27
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.20
Consensus pattern (21 bp):
AACATAATAATATAAAAATAA
Found at i:22695682 original size:46 final size:46
Alignment explanation
Indices: 22695606--22695695 Score: 105
Period size: 46 Copynumber: 2.0 Consensus size: 46
22695596 ATATAAAAAT
*
22695606 AAAACATAATAAAGATTATATAATAAAATGTAATATAAAC-ATATAAG
1 AAAACATAATAAAGATAATATAATAAAATGT-ATA-AAACAATATAAG
* *
22695653 AAAA-ATAATAAATATAATATAA-AGTAATGTATAAAACAATATA
1 AAAACATAATAAAGATAATATAATA-AAATGTATAAAACAATATA
22695696 TATATATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
44 4 0.11
45 9 0.24
46 21 0.55
47 4 0.11
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (46 bp):
AAAACATAATAAAGATAATATAATAAAATGTATAAAACAATATAAG
Found at i:22695698 original size:2 final size:2
Alignment explanation
Indices: 22695691--22695715 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22695681 GTATAAAACA
22695691 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 A
22695716 AGTAATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22695746 original size:17 final size:18
Alignment explanation
Indices: 22695726--22695762 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
22695716 AGTAATTAAT
*
22695726 AAATATAAT-ATATGTGA
1 AAATATAATAATATATGA
22695743 AAATATAATAATATATGA
1 AAATATAATAATATATGA
22695761 AA
1 AA
22695763 GAGATGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
AAATATAATAATATATGA
Found at i:22697834 original size:83 final size:83
Alignment explanation
Indices: 22697695--22698128 Score: 769
Period size: 83 Copynumber: 5.2 Consensus size: 83
22697685 TTCGATTTGT
* *
22697695 AAGGATGTCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
22697760 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
22697778 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
22697843 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
22697861 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
22697926 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* * *
22697944 AAGGATGCCAAACTATCTTGAGTCTGTTTGAAAACATTTGAGAGTCATATCTGCAACGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
22698009 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* * *
22698027 AAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTACAACGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
*
22698092 TTTGTTCTTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* *
22698110 AAGGATACCAAATCATCTT
1 AAGGATGCCAAACCATCTT
22698129 AGATCTGCTT
Statistics
Matches: 340, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 340 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (83 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:22698262 original size:118 final size:117
Alignment explanation
Indices: 22698053--22698395 Score: 488
Period size: 118 Copynumber: 3.0 Consensus size: 117
22698043 CTTGAGTCTG
* * * * * * *
22698053 TTTGAGAACATTTGAGAGTCATATCTACAACGTCCTCGATTTGTTCTTTGTAAGCACAAGGATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTC-TTGTAA-CACAAGAATAC
*
22698118 CAAATCATCTTAGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
64 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
22698172 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCTTGTAAACACAAGAATACC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCTTGT-AACACAAGAATACC
22698237 AAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
65 AAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
22698290 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTG---TT-T----CAAGAATACCA
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCTTGTAACACAAGAATACCA
* **
22698347 AATCATCTTGGATCTGCTTCAGCATAAATGTCTGAA-GTCTAGATCTGCT
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGT-TAGATCTGCT
22698396 GTCTTCAATT
Statistics
Matches: 211, Mismatches: 11, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
108 2 0.01
109 54 0.26
114 1 0.00
115 2 0.01
118 110 0.52
119 42 0.20
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (117 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCTTGTAACACAAGAATACCA
AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:22702865 original size:12 final size:12
Alignment explanation
Indices: 22702848--22702874 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
22702838 AGTTGTTAGA
22702848 ATTTAAAGGAAT
1 ATTTAAAGGAAT
22702860 ATTTAAAGGAAT
1 ATTTAAAGGAAT
22702872 ATT
1 ATT
22702875 GGTTGATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (12 bp):
ATTTAAAGGAAT
Found at i:22709753 original size:16 final size:17
Alignment explanation
Indices: 22709722--22709755 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
22709712 AATAAAAAAT
*
22709722 GAATACTACGATATAAA
1 GAATAATACGATATAAA
22709739 GAATAATAC-ATATAAA
1 GAATAATACGATATAAA
22709755 G
1 G
22709756 CAAAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (17 bp):
GAATAATACGATATAAA
Found at i:22710321 original size:18 final size:20
Alignment explanation
Indices: 22710298--22710336 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
22710288 CATAACATCT
22710298 ATATAAAAA-AAA-AAAATA
1 ATATAAAAATAAACAAAATA
22710316 ATATAAAAATAAACAAAATA
1 ATATAAAAATAAACAAAATA
22710336 A
1 A
22710337 AGATTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
19 3 0.16
20 7 0.37
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (20 bp):
ATATAAAAATAAACAAAATA
Found at i:22710327 original size:24 final size:26
Alignment explanation
Indices: 22710300--22710347 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
22710290 TAACATCTAT
22710300 ATAAA-AAAA-AAAAATAATATAAAA
1 ATAAACAAAATAAAAATAATATAAAA
* *
22710324 ATAAACAAAATAAAGATTATATAA
1 ATAAACAAAATAAAAATAATATAA
22710348 TAAAATGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 4 0.20
26 11 0.55
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (26 bp):
ATAAACAAAATAAAAATAATATAAAA
Found at i:22710417 original size:2 final size:2
Alignment explanation
Indices: 22710410--22710438 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22710400 GTATAAAACA
22710410 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 A
22710439 AGTAATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22710469 original size:17 final size:18
Alignment explanation
Indices: 22710449--22710485 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
22710439 AGTAATTAAT
*
22710449 AAATATAAT-ATATGTGA
1 AAATATAATAATATATGA
22710466 AAATATAATAATATATGA
1 AAATATAATAATATATGA
22710484 AA
1 AA
22710486 GAGATGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
AAATATAATAATATATGA
Found at i:22710472 original size:46 final size:45
Alignment explanation
Indices: 22710422--22710546 Score: 113
Period size: 46 Copynumber: 2.8 Consensus size: 45
22710412 ATATATATAT
*
22710422 ATATATATATATATATAAGTAATTAATAAATATAATATATGTGAAA
1 ATATATATATATATATAAGTAATTAATAAATATAATATAAG-GAAA
*
22710468 ATATA-ATA-ATATATGAAAG-AGATGT-A-AAATAATAATTTAAGGAAA
1 ATATATATATATATAT--AAGTA-AT-TAATAAAT-ATAATATAAGGAAA
22710513 ATA-ATATATATA-ATAAGTAA-TAATAATATATAAT
1 ATATATATATATATATAAGTAATTAATAA-ATATAAT
22710547 TAAAAAGAAT
Statistics
Matches: 66, Mismatches: 2, Indels: 25
0.71 0.02 0.27
Matches are distributed among these distances:
41 1 0.02
42 1 0.02
43 11 0.17
44 10 0.15
45 20 0.30
46 22 0.33
47 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (45 bp):
ATATATATATATATATAAGTAATTAATAAATATAATATAAGGAAA
Found at i:22710480 original size:8 final size:9
Alignment explanation
Indices: 22710409--22710481 Score: 60
Period size: 10 Copynumber: 7.8 Consensus size: 9
22710399 CGTATAAAAC
22710409 AATATATAT
1 AATATATAT
22710418 ATATATATAT
1 A-ATATATAT
22710428 ATATATATAT
1 A-ATATATAT
22710438 AAGTA-AT-T
1 AA-TATATAT
*
22710446 AATAAATAT
1 AATATATAT
*
22710455 AATATATGT
1 AATATATAT
*
22710464 GAAAATATAAT
1 -AATATAT-AT
22710475 AATATAT
1 AATATAT
22710482 GAAAGAGATG
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
7 2 0.04
8 5 0.09
9 12 0.23
10 33 0.62
11 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (9 bp):
AATATATAT
Found at i:22710624 original size:2 final size:2
Alignment explanation
Indices: 22710617--22710653 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
22710607 TAAACAAATA
22710617 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 A
22710654 GAATAATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:22715946 original size:29 final size:30
Alignment explanation
Indices: 22715891--22715960 Score: 90
Period size: 28 Copynumber: 2.4 Consensus size: 30
22715881 TAATTAATTA
*
22715891 AATTTTAAAAAATATTTTTAAA-ATTTTT-
1 AATTTTTAAAAATATTTTTAAATATTTTTG
* *
22715919 AATTTTTAAAAATAGTTTTTATATTTTTTTG
1 AATTTTTAAAAATA-TTTTTAAATATTTTTG
22715950 AATTTTTAAAA
1 AATTTTTAAAA
22715961 TTTTAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 13 0.36
29 7 0.19
30 5 0.14
31 11 0.31
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (30 bp):
AATTTTTAAAAATATTTTTAAATATTTTTG
Found at i:22717390 original size:35 final size:34
Alignment explanation
Indices: 22717351--22717416 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
22717341 AAATAATTTT
* * * *
22717351 TAAAATTCTAAATATTTATAGAAATTCTAAAATTC
1 TAAAATTATAAAT-TTTAAAAAAAATCTAAAATTC
22717386 TAAAATTATAAATTTTAAAAAAAATCTAAAA
1 TAAAATTATAAATTTTAAAAAAAATCTAAAA
22717417 AAATTTGTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 15 0.56
35 12 0.44
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.36
Consensus pattern (34 bp):
TAAAATTATAAATTTTAAAAAAAATCTAAAATTC
Found at i:22717406 original size:16 final size:16
Alignment explanation
Indices: 22717345--22717406 Score: 54
Period size: 16 Copynumber: 3.7 Consensus size: 16
22717335 TTTTGAAAAT
*
22717345 AATTTTTAAAATTCTA
1 AATTTTAAAAATTCTA
22717361 AATATTTATAGAAATTCTAA
1 AAT-TTTA-A-AAATTCT-A
* *
22717381 AATTCT-AAAATTATA
1 AATTTTAAAAATTCTA
22717396 AATTTTAAAAA
1 AATTTTAAAAA
22717407 AAATCTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
15 6 0.16
16 13 0.35
17 4 0.11
18 1 0.03
19 9 0.24
20 4 0.11
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (16 bp):
AATTTTAAAAATTCTA
Found at i:22719143 original size:22 final size:22
Alignment explanation
Indices: 22719100--22719144 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
22719090 GGCCTATTAT
* *
22719100 AAACCAAAGATAATAAATATAA
1 AAACCAAAGATAAAAAAAATAA
22719122 AAACCAAA-ATAAAAAACAATAA
1 AAACCAAAGATAAAAAA-AATAA
22719144 A
1 A
22719145 CGACCCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.73, C:0.11, G:0.02, T:0.13
Consensus pattern (22 bp):
AAACCAAAGATAAAAAAAATAA
Found at i:22721339 original size:2 final size:2
Alignment explanation
Indices: 22721332--22721362 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
22721322 TGAACGTTGG
*
22721332 TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22721363 TATTCTATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22721369 original size:10 final size:12
Alignment explanation
Indices: 22721334--22721371 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
22721324 AACGTTGGTA
*
22721334 TATATATATATA
1 TATATATATATC
22721346 TATATATATATC
1 TATATATATATC
22721358 TATAT-TAT-TC
1 TATATATATATC
22721368 TATA
1 TATA
22721372 CATAACTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 6 0.24
11 3 0.12
12 16 0.64
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (12 bp):
TATATATATATC
Found at i:22722560 original size:132 final size:132
Alignment explanation
Indices: 22722386--22722630 Score: 427
Period size: 132 Copynumber: 1.9 Consensus size: 132
22722376 CATTCAAAAA
* *
22722386 TTCTTCAAAATGAAGACGAGATTCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGG
1 TTCTTCAAAATGAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGTTGGG
* *
22722451 TTGCAATTTCGTGTTTGCTCAAAATAATCGAATATTACTTCAAAATTTTCACTCATGTCTTTTAA
66 TTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTTCACTCATGTCTTTTAA
22722516 AG
131 AG
*
22722518 TTCTTCAAAATGAAGACGAGATTCGATATTTAGCAATTCGCGGAATTGTGCCCTAACGTGTTGGG
1 TTCTTCAAAATGAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGTTGGG
* *
22722583 TTGCAATTTCGCGTTTGCTCAAAATAATCGAGTATCCCTTCAAAATTT
66 TTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTT
22722631 CATTCATATT
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 106 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (132 bp):
TTCTTCAAAATGAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGTTGGG
TTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTTCACTCATGTCTTTTAA
AG
Found at i:22722674 original size:132 final size:132
Alignment explanation
Indices: 22722382--22722674 Score: 383
Period size: 132 Copynumber: 2.2 Consensus size: 132
22722372 CATTCATTCA
* * * * *
22722382 AAAATTCTTCAAAATGAAGACGAGATTCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGT
1 AAAATTATTCAAAACGAAGACAAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGT
* * *
22722447 TGGGTTGCAATTTCGTGTTTGCTCAAAATAATCGAATATTACTTCAAAATTTTCACTCATGTCTT
66 TGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTTCACTCATATCTT
22722512 TT
131 TT
* * * * *
22722514 AAAGTTCTTCAAAATGAAGACGAGATTCGATATTTAGCAATTCGCGGAATTGTGCCCTAACGTGT
1 AAAATTATTCAAAACGAAGACAAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGT
* * *
22722579 TGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAGTATCCCTTCAAAA-TTTCATTCATAT-TT
66 TGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTTCACTCATATCTT
22722642 TCT
131 T-T
* * *
22722645 AAAAATTATTTAAAACGAAGGCAATATTCG
1 -AAAATTATTCAAAACGAAGACAAGATTCG
22722675 GCGTTCGACA
Statistics
Matches: 142, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
130 3 0.02
131 11 0.08
132 128 0.90
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (132 bp):
AAAATTATTCAAAACGAAGACAAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGT
TGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTTCACTCATATCTT
TT
Found at i:22722687 original size:132 final size:132
Alignment explanation
Indices: 22722382--22722745 Score: 351
Period size: 132 Copynumber: 2.8 Consensus size: 132
22722372 CATTCATTCA
* * * **
22722382 AAAATTCTTCAAAATGAAGACGAGATTCGATGTTTG-GCAATTCGCGGAATCGTGCCCTAACGTG
1 AAAATTATTCAAAACGAAGACAAGATTCGA-CATTGAGCAATTCGCGGAATCGTGCCCTAACGTG
* * *
22722446 TTGGGTTGCAATTTCGTGTTTGCTCAAAATAATCGAATATTACTTCAAAATTTTCACTCATGTCT
65 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTTCACTCATATCT
22722511 TTT
130 TTT
* * * * * * *
22722514 AAAGTTCTTCAAAATGAAGACGAGATTCGATATTTAGCAATTCGCGGAATTGTGCCCTAACGTGT
1 AAAATTATTCAAAACGAAGACAAGATTCGACATTGAGCAATTCGCGGAATCGTGCCCTAACGTGT
* * *
22722579 TGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAGTATCCCTTCAAAA-TTTCATTCATAT-TT
66 TGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTTCACTCATATCTT
22722642 TCT
131 T-T
* * * * * * * * *
22722645 AAAAATTATTTAAAACGAAGGCAATATTCGGCGTTCGA-CAATTCG-AGAATCATGCCTTATCGT
1 -AAAATTATTCAAAACGAAGACAAGATTCGACATT-GAGCAATTCGCGGAATCGTGCCCTAACGT
* * * ** * *
22722708 GCTAGGTCGTGATTTCTCGTTTGCTCAAAATGATCGAA
64 GTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAA
22722746 CATTCCTTTA
Statistics
Matches: 193, Mismatches: 35, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
130 3 0.02
131 56 0.29
132 133 0.69
133 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (132 bp):
AAAATTATTCAAAACGAAGACAAGATTCGACATTGAGCAATTCGCGGAATCGTGCCCTAACGTGT
TGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTTCACTCATATCTT
TT
Found at i:22723034 original size:130 final size:130
Alignment explanation
Indices: 22722787--22723027 Score: 340
Period size: 130 Copynumber: 1.9 Consensus size: 130
22722777 AAAAAACTTA
* *
22722787 AAAACGAAGACGATGTTCAATGTTTGGCGATTTGAGAATCGTGCCCTATCGTGCTGGGTTGCGCT
1 AAAACGAAGACGATGTTCAATGTTTGACGATTTGAGAATCGAGCCCTATCGTGCTGGGTTGCGCT
* * * *
22722852 TTTTCATTGGTTCGAAACAATTGAAGATCCCTTCGGAATTTCACTCACATTTTCTAAAATCTTTC
66 TTTTCATTGGTCCAAAACAATCGAAGATCCCTTCGGAATTTCACACACATTTTCTAAAATCTTTC
* * * *
22722917 AAAATGAAGGCGATGTTCGATGTTTGACGGTTTGAGAATCGAGCCCTATCGTGCTGGGTTGCGCT
1 AAAACGAAGACGATGTTCAATGTTTGACGATTTGAGAATCGAGCCCTATCGTGCTGGGTTGCGCT
* * * *
22722982 TTTTCATTTGTCCAAAATAATCGAATATCTCC-TCGGGATTTCACAC
66 TTTTCATTGGTCCAAAACAATCGAAGATC-CCTTCGGAATTTCACAC
22723028 GTATTTTATA
Statistics
Matches: 96, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
130 94 0.98
131 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (130 bp):
AAAACGAAGACGATGTTCAATGTTTGACGATTTGAGAATCGAGCCCTATCGTGCTGGGTTGCGCT
TTTTCATTGGTCCAAAACAATCGAAGATCCCTTCGGAATTTCACACACATTTTCTAAAATCTTTC
Found at i:22724601 original size:23 final size:23
Alignment explanation
Indices: 22724565--22724619 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 23
22724555 TTAAAATTCT
*
22724565 TTTTATATCATATTT-TTTTAACA
1 TTTTATATCATATTTCGTTTAA-A
22724588 TTTTATAT-AGTATTTCGTTTAAA
1 TTTTATATCA-TATTTCGTTTAAA
22724611 TGTTTATAT
1 T-TTTATAT
22724620 GTAGATTAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 1 0.04
23 15 0.54
24 12 0.43
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.60
Consensus pattern (23 bp):
TTTTATATCATATTTCGTTTAAA
Found at i:22726196 original size:17 final size:16
Alignment explanation
Indices: 22726174--22726245 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
22726164 ACCTTTTACA
*
22726174 AAAATAGTATAAAAAAT
1 AAAATACTA-AAAAAAT
22726191 AAAATACTAAAAAAAT
1 AAAATACTAAAAAAAT
*** * *
22726207 ATCTTAATGAAAAAAT
1 AAAATACTAAAAAAAT
22726223 AAAATA-TGAAAAGAAAT
1 AAAATACT-AAAA-AAAT
22726240 AAAATA
1 AAAATA
22726246 AAATACAAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
15 1 0.02
16 24 0.56
17 18 0.42
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (16 bp):
AAAATACTAAAAAAAT
Found at i:22726480 original size:153 final size:152
Alignment explanation
Indices: 22726296--22726841 Score: 736
Period size: 151 Copynumber: 3.6 Consensus size: 152
22726286 CGGGTTTTTT
*
22726296 TACTAAAA-AATAT-AAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATGC-AAAAAC
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAAT-CTAAAAA-
* * * *
22726358 TTAAAAAAATACAAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAAACACTA
64 TAAAAAAAATACAAACAAAGGGCCAAAATCAAGGTTATTTATTAAATTAATATAAAAAAACACTT
* *
22726423 AAATAATAAAATTAAAATATTATG
129 AAATAATAAATTTGAAATATTATG
* *
22726447 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAGATAAAATCTGAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTAAAAATA
*
22726512 AAAAAAATAACAAA-AAA-TGCCAAAATCAAGGTTATTTATTAAATTAATATAAAAAAACACTTA
66 AAAAAAAT-ACAAACAAAGGGCCAAAATCAAGGTTATTTATTAAATTAATATAAAAAAACACTTA
* * *
22726575 AACAATACATTTGAAACATTATG
130 AATAATAAATTTGAAATATTATG
*
22726598 TACTAAAATAATATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAAT
1 TACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTAAAAAT
* * * *
22726663 AAAAAAATTATC-AACAAATGGCCAAAATCAAAGTTATTTATTAAATTAATAT--AAAAACAATT
65 AAAAAAAATA-CAAACAAAGGGCCAAAATCAAGGTTATTTATTAAATTAATATAAAAAAACACTT
*
22726725 AAATAATATATTTGAAATATTATG
129 AAATAATAAATTTGAAATATTATG
* *
22726749 TACTAAAATAATA-AAAAAAT-AAATA-TAAAATAAGTATATTTTAAAAAATAAAATCTGAAAAT
1 TACTAAAATAATATAAAAAATAAAATACGAAAAT-AGTATATTTTAAAAAATAAAATCTAAAAAT
* * *
22726811 AAAATAAAAAACCAACAAAGGGCCAACATCA
65 AAAA-AAAATACAAACAAAGGGCCAAAATCA
22726842 CCGAACAAAA
Statistics
Matches: 354, Mismatches: 30, Indels: 24
0.87 0.07 0.06
Matches are distributed among these distances:
147 5 0.01
148 38 0.11
149 27 0.08
151 128 0.36
152 77 0.22
153 79 0.22
ACGTcount: A:0.60, C:0.08, G:0.06, T:0.27
Consensus pattern (152 bp):
TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTAAAAATA
AAAAAAATACAAACAAAGGGCCAAAATCAAGGTTATTTATTAAATTAATATAAAAAAACACTTAA
ATAATAAATTTGAAATATTATG
Found at i:22733012 original size:24 final size:23
Alignment explanation
Indices: 22732968--22733012 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
22732958 ATATAAAAAT
**
22732968 AATTATATTAAGAATTGTTATTA
1 AATTATATTAAGAATAATTATTA
*
22732991 AATTATATTTAATAATAATTAT
1 AATTATA-TTAAGAATAATTAT
22733013 ATTAAAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 7 0.39
24 11 0.61
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (23 bp):
AATTATATTAAGAATAATTATTA
Found at i:22733252 original size:16 final size:16
Alignment explanation
Indices: 22733231--22733277 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
22733221 TTGAATTACT
22733231 TATTACAGCCCTATTC
1 TATTACAGCCCTATTC
*
22733247 TATTACAGCTCTATTC
1 TATTACAGCCCTATTC
*
22733263 CATTACAGCCCTATT
1 TATTACAGCCCTATT
22733278 TCATTCCAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.26, C:0.30, G:0.06, T:0.38
Consensus pattern (16 bp):
TATTACAGCCCTATTC
Found at i:22733432 original size:26 final size:26
Alignment explanation
Indices: 22733350--22733433 Score: 73
Period size: 26 Copynumber: 3.1 Consensus size: 26
22733340 GGAACAAACT
*
22733350 TTAAATACATTACAATATTAATCTAA
1 TTAAATACATTACAACATTAATCTAA
* *
22733376 TTAAATAAATTA-ATCTAATTGGAA-CATTAA
1 TTAAATACATTACAAC--ATT--AATC--TAA
22733406 TTAAATACATTACAACATTAATCTAA
1 TTAAATACATTACAACATTAATCTAA
22733432 TT
1 TT
22733434 GGAACAAACT
Statistics
Matches: 45, Mismatches: 5, Indels: 16
0.68 0.08 0.24
Matches are distributed among these distances:
25 1 0.02
26 16 0.36
27 5 0.11
28 2 0.04
29 5 0.11
30 14 0.31
31 2 0.04
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (26 bp):
TTAAATACATTACAACATTAATCTAA
Found at i:22736386 original size:13 final size:13
Alignment explanation
Indices: 22736368--22736406 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
22736358 TTTTAGTTAC
22736368 TAATAATATATTA
1 TAATAATATATTA
*
22736381 TAATAATTTATTTA
1 TAATAATATA-TTA
22736395 TATATAATATAT
1 TA-ATAATATAT
22736407 AAATATTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 9 0.41
14 6 0.27
15 7 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TAATAATATATTA
Found at i:22739691 original size:26 final size:26
Alignment explanation
Indices: 22739662--22739802 Score: 174
Period size: 27 Copynumber: 5.3 Consensus size: 26
22739652 AGCATGGCTG
* *
22739662 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
22739688 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
22739716 CCAGAACAGATATTGTGGCAGAGCCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
22739742 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
22739769 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
22739796 CCAGAAC
1 CCAGAAC
22739803 GCTTCCTCCA
Statistics
Matches: 106, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
26 28 0.26
27 63 0.59
28 15 0.14
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:22739786 original size:54 final size:54
Alignment explanation
Indices: 22739662--22739800 Score: 199
Period size: 54 Copynumber: 2.6 Consensus size: 54
22739652 AGCATGGCTG
* * *
22739662 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATTGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* *
22739716 CCAGAACAGATATTGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATTGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* *
22739769 CCAGATCAGATATTTGTGGCATAGCCACCAGA
1 CCAGAACAGATA-TTGTGGCAGAGCCACCAGA
22739801 ACGCTTCCTC
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 30 0.39
54 47 0.61
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATATTGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:22741453 original size:26 final size:26
Alignment explanation
Indices: 22741415--22741498 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
22741405 CATGAAATTC
* *
22741415 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
22741441 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
22741467 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
22741493 TTATCA
1 TTATCA
22741499 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:22745439 original size:27 final size:27
Alignment explanation
Indices: 22745375--22745489 Score: 133
Period size: 27 Copynumber: 4.3 Consensus size: 27
22745365 AGCATGGCTG
* * *
22745375 CCAGAACAGATAA-AGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* *
22745401 CCAGATATAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
*
22745429 CCAGAACAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* * *
22745456 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
22745483 CCAGAAC
1 CCAGAAC
22745490 GCTTCCTCCA
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
26 5 0.06
27 57 0.74
28 15 0.19
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:22747135 original size:26 final size:26
Alignment explanation
Indices: 22747097--22747180 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
22747087 CATGAAATTC
* *
22747097 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
22747123 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
*
22747149 TTATCATGGAACATTTACCTAGCCTA
1 TTATCATGGAACATTTACCTAACCTA
22747175 TTATCA
1 TTATCA
22747181 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:22748860 original size:18 final size:17
Alignment explanation
Indices: 22748822--22748863 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
22748812 ATATATATAT
*
22748822 ATTAT-TTTTTTTATTG
1 ATTATGTTTTTTTACTG
*
22748838 TTTATGTTTTTTTAACTG
1 ATTATGTTTTTTT-ACTG
22748856 ATTATGTT
1 ATTATGTT
22748864 AGAAACCAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 4 0.19
17 7 0.33
18 10 0.48
ACGTcount: A:0.19, C:0.02, G:0.10, T:0.69
Consensus pattern (17 bp):
ATTATGTTTTTTTACTG
Found at i:22749265 original size:33 final size:33
Alignment explanation
Indices: 22749199--22749265 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
22749189 AAAAGTTTAA
**
22749199 TTATTATTTAATATAAAATAATTTATACGTATT
1 TTATTATTTAATATAAAATAATTTATAAATATT
* *
22749232 TTATTATTTATTATGAATATAATTTA-AAATATT
1 TTATTATTTAATAT-AAAATAATTTATAAATATT
22749265 T
1 T
22749266 AAATTTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 19 0.66
34 10 0.34
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (33 bp):
TTATTATTTAATATAAAATAATTTATAAATATT
Found at i:22749373 original size:24 final size:23
Alignment explanation
Indices: 22749340--22749388 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
22749330 AGGTTATATT
22749340 ATTTAATATTAATATTAATATAA
1 ATTTAATATTAATATTAATATAA
* * *
22749363 ATTTAATTATTTATTTTATTATAA
1 ATTTAA-TATTAATATTAATATAA
22749387 AT
1 AT
22749389 ACATTGTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTTAATATTAATATTAATATAA
Found at i:22749862 original size:35 final size:35
Alignment explanation
Indices: 22749823--22749890 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
22749813 TTTACGAATT
*
22749823 AAAATTTAAACAATTTTATTTTCT-AACCTCTTATC
1 AAAATTCAAACAATTTTATTTTCTGAA-CTCTTATC
*
22749858 AAAATTCAAACGATTTTATTTTCTGAACTCTTA
1 AAAATTCAAACAATTTTATTTTCTGAACTCTTA
22749891 CGCTAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 28 0.93
36 2 0.07
ACGTcount: A:0.37, C:0.16, G:0.03, T:0.44
Consensus pattern (35 bp):
AAAATTCAAACAATTTTATTTTCTGAACTCTTATC
Found at i:22760586 original size:15 final size:15
Alignment explanation
Indices: 22760566--22760601 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
22760556 CTCAGTAGGA
*
22760566 GCTATTCTGTAAGGT
1 GCTATTATGTAAGGT
22760581 GCTATTATGTAAGGT
1 GCTATTATGTAAGGT
22760596 GCTATT
1 GCTATT
22760602 GATATCAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.22, C:0.11, G:0.25, T:0.42
Consensus pattern (15 bp):
GCTATTATGTAAGGT
Found at i:22764217 original size:25 final size:25
Alignment explanation
Indices: 22764189--22764236 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
22764179 CTGTGAATCA
**
22764189 GTATGCTCTCTTGAGTTGTAAATTG
1 GTATGCTCTCACGAGTTGTAAATTG
22764214 GTATGCTCTCACGAGTTGTAAAT
1 GTATGCTCTCACGAGTTGTAAAT
22764237 CGATAAACTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.40
Consensus pattern (25 bp):
GTATGCTCTCACGAGTTGTAAATTG
Found at i:22767851 original size:82 final size:82
Alignment explanation
Indices: 22767750--22768000 Score: 335
Period size: 82 Copynumber: 3.0 Consensus size: 82
22767740 AAAACTATCT
* * * * *
22767750 AATTAAATCTTATTTGGAAACAAAAACAAAATTGAATAAAATCTGTTAAACGACAAGAATAAATT
1 AATTAATTCTCATTTGGAAACAAAAACAAAATCGAATAAAATCTGTTAAACGACAGGAATAAATC
22767815 CCAAAACAGAATTATTC
66 CCAAAACAGAATTATTC
* * * *
22767832 AATTAATTCTCATTTGGAAACAAAATCAAAGTCGAATAAAATCTGTGAAATGA-AGGGAATAAAT
1 AATTAATTCTCATTTGGAAACAAAAACAAAATCGAATAAAATCTGTTAAACGACA-GGAATAAAT
*
22767896 CCCGAAACAGAATTATTC
65 CCCAAAACAGAATTATTC
* * *
22767914 AATTAATTCTCATTTGGAAACAAAATA-AAAATCAAATAAAATCTGTTAAACGGCGGGAATAAAT
1 AATTAATTCTCATTTGGAAACAAAA-ACAAAATCGAATAAAATCTGTTAAACGACAGGAATAAAT
*
22767978 CCCAAAACAGATTTTATTC
65 CCCAAAACAGA-ATTATTC
22767997 AATT
1 AATT
22768001 TTAATTTTTA
Statistics
Matches: 146, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
81 1 0.01
82 135 0.92
83 10 0.07
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.27
Consensus pattern (82 bp):
AATTAATTCTCATTTGGAAACAAAAACAAAATCGAATAAAATCTGTTAAACGACAGGAATAAATC
CCAAAACAGAATTATTC
Found at i:22770728 original size:25 final size:25
Alignment explanation
Indices: 22770700--22770751 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
22770690 AGGAACCTTT
*
22770700 AAATCAATTTGAATAAAATAAAATC
1 AAATCAATTGGAATAAAATAAAATC
** * *
22770725 AAATTGATTGGAATCAAATTAAATC
1 AAATCAATTGGAATAAAATAAAATC
22770750 AA
1 AA
22770752 GATATATGTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.29
Consensus pattern (25 bp):
AAATCAATTGGAATAAAATAAAATC
Found at i:22771735 original size:22 final size:21
Alignment explanation
Indices: 22771705--22771745 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
22771695 TAACATTAAT
22771705 ATAACTTTAATATATAATTTCA
1 ATAACTTTAAT-TATAATTTCA
* *
22771727 ATAATTTTAATTATTATTT
1 ATAACTTTAATTATAATTT
22771746 AAAGTTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (21 bp):
ATAACTTTAATTATAATTTCA
Found at i:22774063 original size:22 final size:22
Alignment explanation
Indices: 22773974--22774064 Score: 112
Period size: 22 Copynumber: 4.1 Consensus size: 22
22773964 TTCACTATGG
* *
22773974 TGCCTACTGATTCGTATTACGA
1 TGCCTATTGATTCGCATTACGA
* **
22773996 TGCCTATTGTTTCGCATTATAA
1 TGCCTATTGATTCGCATTACGA
*
22774018 TGCCTATTGATTCGCATTAAGA
1 TGCCTATTGATTCGCATTACGA
22774040 TGCCTATTGATTCGCAGTT-CGA
1 TGCCTATTGATTCGCA-TTACGA
22774062 TGC
1 TGC
22774065 ACAATAATTA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
22 57 0.97
23 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (22 bp):
TGCCTATTGATTCGCATTACGA
Found at i:22781245 original size:17 final size:18
Alignment explanation
Indices: 22781232--22781356 Score: 100
Period size: 19 Copynumber: 6.9 Consensus size: 18
22781222 TAATCTTCAA
22781232 TGATATGCAATCTTAGATG
1 TGATATGCAATCTTAGA-G
22781251 TGATATGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
22781268 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
22781287 TGAT-TGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
22781303 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
*
22781322 TGAT-TGCAATCTTAGATA
1 TGATATGCAATCTTAGA-G
*
22781340 TGATATACAATCTTAGA
1 TGATATGCAATCTTAGA
22781357 AGATATGATT
Statistics
Matches: 91, Mismatches: 5, Indels: 20
0.78 0.04 0.17
Matches are distributed among these distances:
15 2 0.02
16 3 0.03
17 24 0.26
18 28 0.31
19 30 0.33
20 4 0.04
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (18 bp):
TGATATGCAATCTTAGAG
Found at i:22781301 original size:35 final size:35
Alignment explanation
Indices: 22781239--22781356 Score: 200
Period size: 35 Copynumber: 3.3 Consensus size: 35
22781229 CAATGATATG
*
22781239 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
22781275 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
22781310 CAATCTTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
22781347 CAATCTTAGA
1 CAATCTTAGA
22781357 AGATATGATT
Statistics
Matches: 79, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
35 51 0.65
36 15 0.19
37 13 0.16
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:22781860 original size:17 final size:16
Alignment explanation
Indices: 22781840--22781897 Score: 64
Period size: 17 Copynumber: 3.6 Consensus size: 16
22781830 CCAATATATT
22781840 TTATATTTTTTGTATAA
1 TTATATTTTTT-TATAA
* *
22781857 TTAT-TATTCTTATAA
1 TTATATTTTTTTATAA
*
22781872 ATATATTTTTTTATATA
1 TTATATTTTTTTATA-A
22781889 TTATATTTT
1 TTATATTTT
22781898 AAATTTGTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 8 0.24
16 12 0.36
17 13 0.39
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (16 bp):
TTATATTTTTTTATAA
Found at i:22787872 original size:11 final size:11
Alignment explanation
Indices: 22787856--22787893 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
22787846 CTTCTATTTC
22787856 AAAAAAAAAGA
1 AAAAAAAAAGA
22787867 AAAAAAAAAGA
1 AAAAAAAAAGA
*
22787878 AAAAGAAAAATA
1 AAAA-AAAAAGA
22787890 AAAA
1 AAAA
22787894 GAGAAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.89, C:0.00, G:0.08, T:0.03
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:22787892 original size:21 final size:21
Alignment explanation
Indices: 22787856--22787909 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
22787846 CTTCTATTTC
*
22787856 AAAAAA-AAAGAAAAAAAAAAG
1 AAAAAAGAAA-AATAAAAAAAG
*
22787877 -AAAAAGAAAAATAAAAAGAG
1 AAAAAAGAAAAATAAAAAAAG
22787897 AAAAAAGAAAAAT
1 AAAAAAGAAAAAT
22787910 GGAGAGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.85, C:0.00, G:0.11, T:0.04
Consensus pattern (21 bp):
AAAAAAGAAAAATAAAAAAAG
Found at i:22788936 original size:44 final size:45
Alignment explanation
Indices: 22788791--22789115 Score: 165
Period size: 44 Copynumber: 7.4 Consensus size: 45
22788781 CAAAGAAACA
* * * *
22788791 AGATTTGGCATCCCTGTATTTATAAGGAAC-AGATCGAAGATAAC
1 AGATTTGACATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGC
* * * * * * * **
22788835 ATATCTAACA-CTCCTGTGCTTACAGCGAAGC-AGATCGAGGATTTC
1 AGATTTGACATC-CCTGTGTTTATAGGGAA-CAAGATCGAAGATAGC
* *
22788880 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAG-TTGAAGATAGC
1 AG-ATTTGACATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGC
* *
22788923 AGATTTGACATCCCTGTGTTAATAGGGAAC-AGATCGAAGATAAC
1 AGATTTGACATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGC
* * * * **
22788967 AGATCTGACA-CTCCTGTGCTTACAGTGAA-ACAGATCGAAGATTTC
1 AGATTTGACATC-CCTGTGTTTATAGGGAACA-AGATCGAAGATAGC
** * *
22789012 AGCA--TGGTATCCCTGTGTTTATAGGGAACAAG-TTGAAGACAGC
1 AG-ATTTGACATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGC
* * * * * * *
22789055 AGATTCGGCATCTCTGTATTGT-CAGAGAAC-AGATCGAAGATACC
1 AGATTTGACATCCCTGTGTT-TATAGGGAACAAGATCGAAGATAGC
* *
22789099 AGATTTGGCATCTCTGT
1 AGATTTGACATCCCTGT
22789116 ATTGGTGGAG
Statistics
Matches: 211, Mismatches: 52, Indels: 36
0.71 0.17 0.12
Matches are distributed among these distances:
42 2 0.01
43 25 0.12
44 151 0.72
45 31 0.15
46 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (45 bp):
AGATTTGACATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGC
Found at i:22789028 original size:132 final size:131
Alignment explanation
Indices: 22788791--22789102 Score: 462
Period size: 132 Copynumber: 2.4 Consensus size: 131
22788781 CAAAGAAACA
* *
22788791 AGATTTGGCATCCCTGTATTTATAAGGAACAGATCGAAGATAACATATCTAACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTA-TTATAGGGAACAGATCGAAGATAACAGATCTAACACTCCTGTGCTT
* * *
22788856 ACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
65 ACAGCGAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGACA
22788921 GC
130 GC
* * *
22788923 AGATTTGACATCCCTGTGTTAATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTATT-ATAGGGAACAGATCGAAGATAACAGATCTAACACTCCTGTGCTT
* *
22788988 ACAGTGAAACAGATCGAAGATTTCAGCATGGTATCCCTGTGTTTATAGGGAACAAGTTGAAGACA
65 ACAGCGAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGACA
22789053 GC
130 GC
* * * * *
22789055 AGATTCGGCATCTCTGTATTGTCAGAGAACAGATCGAAGATACCAGAT
1 AGATTTGGCATCCCTGTATTAT-AGGGAACAGATCGAAGATAACAGAT
22789103 TTGGCATCTC
Statistics
Matches: 161, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
131 3 0.02
132 158 0.98
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (131 bp):
AGATTTGGCATCCCTGTATTATAGGGAACAGATCGAAGATAACAGATCTAACACTCCTGTGCTTA
CAGCGAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGACAG
C
Found at i:22789116 original size:44 final size:44
Alignment explanation
Indices: 22789054--22789138 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 44
22789044 TTGAAGACAG
22789054 CAGATTCGGCATCTCTGTATT-GTCAGAGAACAGATCGAAGATAC
1 CAGATTCGGCATCTCTGTATTGGT-AGAGAACAGATCGAAGATAC
* * *
22789098 CAGATTTGGCATCTCTGTATTGGTGGAGAGCAGATCGAAGA
1 CAGATTCGGCATCTCTGTATTGGTAGAGAACAGATCGAAGA
22789139 CATAGCTGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 35 0.95
45 2 0.05
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (44 bp):
CAGATTCGGCATCTCTGTATTGGTAGAGAACAGATCGAAGATAC
Found at i:22789483 original size:205 final size:205
Alignment explanation
Indices: 22789131--22789839 Score: 1168
Period size: 205 Copynumber: 3.5 Consensus size: 205
22789121 TGGAGAGCAG
*
22789131 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTATTTACGATGAAGCAAATCTAAGATGATTTGTCA
* *
22789196 TCTCTGTATTGTCAGAGAACAAATCAAAGTCTGG-TATCTCTACTTCAATAGAGAGCAGATACAT
66 TCTCTGTAGTGTCAGAGAACAAATCGAAGTCTGGCT-TCTCTACTTCAATAGAGAGCAGATACAT
22789260 AGCAGATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTT
130 AGCAGATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTT
22789325 ACAAGGAACAA
195 ACAAGGAACAA
* * * * *
22789336 ATCGAAGACATAGCTAATTTGGCTTTTATGTATTTATGATGAAGCAAATCTAAGATGATTTGTCG
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTATTTACGATGAAGCAAATCTAAGATGATTTGTCA
*
22789401 TCTCTATAGTGTCAGAGAACAAATCGAAGTCTGGCTTCTCTACTTCAATAGAGAGCAGATACATA
66 TCTCTGTAGTGTCAGAGAACAAATCGAAGTCTGGCTTCTCTACTTCAATAGAGAGCAGATACATA
22789466 GCAGATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTA
131 GCAGATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTA
22789531 CAAGGAACAA
196 CAAGGAACAA
*
22789541 ATCGAAGACATAGCTGATTTGGCTTTCACGTATTTACGATGAAGCAAATCTAAGATGATTTGTCG
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTATTTACGATGAAGCAAATCTAAGATGATTTGTCA
* * * * * *
22789606 TCTCTGTAGTGTTAGAGAACAAATCGAAGTCTGGCATCTCCACTTTAATGGAGAGCAGATACATG
66 TCTCTGTAGTGTCAGAGAACAAATCGAAGTCTGGCTTCTCTACTTCAATAGAGAGCAGATACATA
* *
22789671 GCAGATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAAGTTGGTTTGGCATCCTTGTGCTTA
131 GCAGATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTA
*
22789736 CAAGGAGCAA
196 CAAGGAACAA
** * * *
22789746 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTATTTACGATGAAGCAAATCTAAGATGATTTGTCA
* *
22789811 TCTCTGTATTGTCAGGGAACAAATCGAAG
66 TCTCTGTAGTGTCAGAGAACAAATCGAAG
22789840 AAGTTAATTT
Statistics
Matches: 471, Mismatches: 32, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
205 470 1.00
206 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (205 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTATTTACGATGAAGCAAATCTAAGATGATTTGTCA
TCTCTGTAGTGTCAGAGAACAAATCGAAGTCTGGCTTCTCTACTTCAATAGAGAGCAGATACATA
GCAGATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTA
CAAGGAACAA
Found at i:22790227 original size:19 final size:19
Alignment explanation
Indices: 22790202--22790292 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
22790192 ATAATCTTCA
22790202 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
22790221 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
22790240 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
22790257 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
22790275 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
22790293 AGATATGATT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 34 0.52
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Done.