Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 106 of 208
Found at i:32171960 original size:50 final size:50
Alignment explanation
Indices: 32171902--32172017 Score: 205
Period size: 50 Copynumber: 2.3 Consensus size: 50
32171892 TTGGGTTAGC
32171902 TGACAAAACAGTCACTTAGGTTTCATTTCAATCACTCAACCTTGGAAAAG
1 TGACAAAACAGTCACTTAGGTTTCATTTCAATCACTCAACCTTGGAAAAG
* * *
32171952 TGACAAAACAATCACCTAGGTTTCATTTCAATCACTCAACTTTGGAAAAG
1 TGACAAAACAGTCACTTAGGTTTCATTTCAATCACTCAACCTTGGAAAAG
32172002 TGACAAAACAGTCACT
1 TGACAAAACAGTCACT
32172018 AATGTTATAA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (50 bp):
TGACAAAACAGTCACTTAGGTTTCATTTCAATCACTCAACCTTGGAAAAG
Found at i:32172566 original size:16 final size:16
Alignment explanation
Indices: 32172547--32172577 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32172537 TATTTTTTTA
*
32172547 GATTTAGGGTTATTTC
1 GATTTACGGTTATTTC
32172563 GATTTACGGTTATTT
1 GATTTACGGTTATTT
32172578 TGGGTTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.06, G:0.23, T:0.52
Consensus pattern (16 bp):
GATTTACGGTTATTTC
Found at i:32172692 original size:16 final size:16
Alignment explanation
Indices: 32172668--32172699 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
32172658 TTTGATTTTG
*
32172668 ATTTTGATTTTGGGTT
1 ATTTCGATTTTGGGTT
32172684 ATTTCGATTTTGGGTT
1 ATTTCGATTTTGGGTT
32172700 TTATTTGTTA
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:0.12, C:0.03, G:0.25, T:0.59
Consensus pattern (16 bp):
ATTTCGATTTTGGGTT
Found at i:32172693 original size:6 final size:6
Alignment explanation
Indices: 32172584--32172679 Score: 140
Period size: 6 Copynumber: 16.0 Consensus size: 6
32172574 ATTTTGGGTT
** * *
32172584 ATTTTG ATTTCA ATTTTA ATTTCG ATTTTG ATTTTG ATTTTG ATTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
32172632 ATTTTG ATTTTG ATTTTG ATTTCT- ATTTTG ATTTTG ATTTTG ATTTTG
1 ATTTTG ATTTTG ATTTTG ATTT-TG ATTTTG ATTTTG ATTTTG ATTTTG
32172680 GGTTATTTCG
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
5 1 0.01
6 80 0.98
7 1 0.01
ACGTcount: A:0.19, C:0.03, G:0.14, T:0.65
Consensus pattern (6 bp):
ATTTTG
Found at i:32174299 original size:24 final size:25
Alignment explanation
Indices: 32174247--32174303 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
32174237 ACGGCTAGAA
*
32174247 AGAGCATCCCGTTAATATCCCTCTC
1 AGAGCATCCCGTTAATAGCCCTCTC
* *
32174272 -GAGCTTCCCGTTAATAGCTCT-TC
1 AGAGCATCCCGTTAATAGCCCTCTC
32174295 AGAGCATCC
1 AGAGCATCC
32174304 TGATTGGTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 2 0.07
24 25 0.93
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (25 bp):
AGAGCATCCCGTTAATAGCCCTCTC
Found at i:32174380 original size:25 final size:26
Alignment explanation
Indices: 32174351--32174410 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
32174341 ACAACTCTTA
32174351 TGAGCTTCCCGATT-A-TGGCTCTTTG
1 TGAGCTTCCC-ATTAATTGGCTCTTTG
32174376 TGAGCTTCCCATTAATTGGCTCTTTG
1 TGAGCTTCCCATTAATTGGCTCTTTG
*
32174402 TAAGCTTCC
1 TGAGCTTCC
32174411 TGATAAGGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 3 0.09
25 11 0.34
26 18 0.56
ACGTcount: A:0.15, C:0.25, G:0.20, T:0.40
Consensus pattern (26 bp):
TGAGCTTCCCATTAATTGGCTCTTTG
Found at i:32174492 original size:24 final size:24
Alignment explanation
Indices: 32174447--32174492 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
32174437 TATTAAGCTA
* **
32174447 TTCGGAGCTTCCTGTTAATGGCCC
1 TTCGGAGCTACCCATTAATGGCCC
*
32174471 TTCGGAGCTACCCATTATTGGC
1 TTCGGAGCTACCCATTAATGGC
32174493 TCGCATGAGC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.15, C:0.28, G:0.24, T:0.33
Consensus pattern (24 bp):
TTCGGAGCTACCCATTAATGGCCC
Found at i:32174502 original size:24 final size:24
Alignment explanation
Indices: 32174475--32174545 Score: 88
Period size: 25 Copynumber: 2.9 Consensus size: 24
32174465 TGGCCCTTCG
* *
32174475 GAGCTACCCATTATTGGCTCGCAT
1 GAGCTTCCCGTTATTGGCTCGCAT
* *
32174499 GAGCTTCCCGTTACATGGCTCACAT
1 GAGCTTCCCGTTA-TTGGCTCGCAT
32174524 GAGCTTCCCGTTATATGGCTCG
1 GAGCTTCCCGTTAT-TGGCTCG
32174546 AGAGAGTGCT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
24 11 0.28
25 28 0.72
ACGTcount: A:0.18, C:0.30, G:0.23, T:0.30
Consensus pattern (24 bp):
GAGCTTCCCGTTATTGGCTCGCAT
Found at i:32174518 original size:25 final size:25
Alignment explanation
Indices: 32174489--32174545 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
32174479 TACCCATTAT
32174489 TGGCTCGCATGAGCTTCCCGTTACA
1 TGGCTCGCATGAGCTTCCCGTTACA
* *
32174514 TGGCTCACATGAGCTTCCCGTTATA
1 TGGCTCGCATGAGCTTCCCGTTACA
32174539 TGGCTCG
1 TGGCTCG
32174546 AGAGAGTGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.16, C:0.30, G:0.25, T:0.30
Consensus pattern (25 bp):
TGGCTCGCATGAGCTTCCCGTTACA
Found at i:32175153 original size:2 final size:2
Alignment explanation
Indices: 32175146--32175181 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
32175136 TCATGTTTTG
*
32175146 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32175182 GGTATTATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:32176201 original size:15 final size:15
Alignment explanation
Indices: 32176181--32176226 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
32176171 AAGAAATGTT
32176181 TGGTAGTGATGTGTC
1 TGGTAGTGATGTGTC
**
32176196 TGGTAGTGATGCATC
1 TGGTAGTGATGTGTC
**
32176211 TGAAAGTGATGTGTC
1 TGGTAGTGATGTGTC
32176226 T
1 T
32176227 AATAGGATAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.20, C:0.09, G:0.35, T:0.37
Consensus pattern (15 bp):
TGGTAGTGATGTGTC
Found at i:32177046 original size:3 final size:3
Alignment explanation
Indices: 32177038--32177071 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
32177028 CCTCTTCTCA
*
32177038 TTC TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
32177072 CTAACCCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:32182443 original size:43 final size:44
Alignment explanation
Indices: 32182337--32182444 Score: 125
Period size: 44 Copynumber: 2.5 Consensus size: 44
32182327 TGTGTTGTCG
* *
32182337 TGTAAGACCACGTCTGGGACGTTGGTATCGACTTGTGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGGATCGACTTGTGATTTACA
* *
32182381 TGTAAAACC-CTGTTTGGGACAG-TGGGATCGA-TATGTGA-TTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGGATCGACT-TGTGATTTACA
32182424 TGTAAGACCACGTCTGGGACG
1 TGTAAGACCACGTCTGGGACG
32182445 ATGGCGTTGT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
42 1 0.02
43 22 0.41
44 30 0.56
45 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.29
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACGTTGGGATCGACTTGTGATTTACA
Found at i:32183280 original size:47 final size:46
Alignment explanation
Indices: 32183226--32183562 Score: 370
Period size: 47 Copynumber: 7.2 Consensus size: 46
32183216 TTCGATTCAA
* **
32183226 GTCCAATTTGGTGTATATATGCTGTCCAATTTTGGTGTAAAAATATT
1 GTCCAATTTGGTGTATATATGCTGTCCAA-TTTGGTGTATAAATGCT
* * * *
32183273 GTCCAATTTGGTATATATATGCTGCCCAATTTGGTGTCTATATGCT
1 GTCCAATTTGGTGTATATATGCTGTCCAATTTGGTGTATAAATGCT
* * * *
32183319 GTCCAATTTTGGTGTAAAAATGCTGTCCAATTTGGTATATATATGCT
1 GTCCAA-TTTGGTGTATATATGCTGTCCAATTTGGTGTATAAATGCT
* * * * *
32183366 GCCCAATTTTGGTGTAAAAATGCTGTCCAATTTGGTATATATATGCT
1 GTCCAA-TTTGGTGTATATATGCTGTCCAATTTGGTGTATAAATGCT
* * *
32183413 GCCCAATTTGGTGTATAAATGCTGTCCAATTTTGGTGTATAAATGCA
1 GTCCAATTTGGTGTATATATGCTGTCCAA-TTTGGTGTATAAATGCT
* * *
32183460 GTTCAATTTGGTGTTTATATGCTGTCCAA-ATGAGATGTATAAATGCT
1 GTCCAATTTGGTGTATATATGCTGTCCAATTTG-G-TGTATAAATGCT
* * * *
32183507 GTTCAATTTGGTGTTTATATGCTGTCCAAATGGGATGTATAAATGCT
1 GTCCAATTTGGTGTATATATGCTGTCCAATTTGG-TGTATAAATGCT
32183554 GTCCAATTT
1 GTCCAATTT
32183563 TATGTATAAG
Statistics
Matches: 258, Mismatches: 27, Indels: 10
0.87 0.09 0.03
Matches are distributed among these distances:
45 2 0.01
46 41 0.16
47 214 0.83
48 1 0.00
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.40
Consensus pattern (46 bp):
GTCCAATTTGGTGTATATATGCTGTCCAATTTGGTGTATAAATGCT
Found at i:32183309 original size:70 final size:69
Alignment explanation
Indices: 32183228--32183562 Score: 357
Period size: 70 Copynumber: 4.8 Consensus size: 69
32183218 CGATTCAAGT
** *
32183228 CCAATTTGGTGTATATATGCTGTCCAATTTTGGTGTAAAAATATTGTCCAATTTGGTATATATAT
1 CCAATTTGGTGTATATATGCTGTCCAA-TTTGGTGTAAAAATGCTGTCCAATTTGGTATATAAAT
32183293 GCTGC
65 GCTGC
* *
32183298 CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCCAATTTGGTATATATAT
1 CCAATTTGGTGTATATATGCTGTCCAA-TTTGGTGTAAAAATGCTGTCCAATTTGGTATATAAAT
32183363 GCTGC
65 GCTGC
* * * * * * *
32183368 CCAATTTTGGTGTAAAAATGCTGTCCAATTTGGTATATATATGCTGCCCAATTTGGTGTATAAAT
1 CCAA-TTTGGTGTATATATGCTGTCCAATTTGGTGTAAAAATGCTGTCCAATTTGGTATATAAAT
*
32183433 GCTGT
65 GCTGC
* * * ** * * *
32183438 CCAATTTTGGTGTATAAATGCAGTTCAATTTGGTGTTTATATGCTGTCCAA-ATGAGATGTATAA
1 CCAA-TTTGGTGTATATATGCTGTCCAATTTGGTGTAAAAATGCTGTCCAATTTG-G-TATATAA
*
32183502 ATGCTGT
63 ATGCTGC
* * * * *
32183509 TCAATTTGGTGTTTATATGCTGTCCAAATGGGATGTATAAATGCTGTCCAATTT
1 CCAATTTGGTGTATATATGCTGTCCAATTTGG-TGTAAAAATGCTGTCCAATTT
32183563 TATGTATAAG
Statistics
Matches: 230, Mismatches: 30, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
69 2 0.01
70 174 0.76
71 53 0.23
72 1 0.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (69 bp):
CCAATTTGGTGTATATATGCTGTCCAATTTGGTGTAAAAATGCTGTCCAATTTGGTATATAAATG
CTGC
Found at i:32183569 original size:117 final size:117
Alignment explanation
Indices: 32183225--32183571 Score: 480
Period size: 117 Copynumber: 3.0 Consensus size: 117
32183215 ATTCGATTCA
**
32183225 AGTCCAATTTGGTGTATATATGCTGTCCAATTTTGGTGTAAAAATATTGTCCAATTTGGTATATA
1 AGTCCAATTTGGTGTATATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCCAATTTGGTATATA
* * *
32183290 TATGCTGCCCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGC
66 TATGCTGCCCAATTTGGTGTATAAATGCTGTCCAATTTTGGTGTATAAATGC
* * *
32183342 TGTCCAATTTGGTATATATATGCTGCCCAATTTTGGTGTAAAAATGCTGTCCAATTTGGTATATA
1 AGTCCAATTTGGTGTATATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCCAATTTGGTATATA
32183407 TATGCTGCCCAATTTGGTGTATAAATGCTGTCCAATTTTGGTGTATAAATGC
66 TATGCTGCCCAATTTGGTGTATAAATGCTGTCCAATTTTGGTGTATAAATGC
* * * ** * * * * *
32183459 AGTTCAATTTGGTGTTTATATGCTGTCCAAATGAGATGTATAAATGCTGTTCAATTTGGTGTTTA
1 AGTCCAATTTGGTGTATATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCCAATTTGGTATATA
* * * *
32183524 TATGCTGTCCAAATGGGATGTATAAATGCTGTCCAATTTT-ATGTATAA
66 TATGCTGCCCAATTTGG-TGTATAAATGCTGTCCAATTTTGGTGTATAA
32183572 GAGCTATCTA
Statistics
Matches: 204, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
117 182 0.89
118 22 0.11
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (117 bp):
AGTCCAATTTGGTGTATATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCCAATTTGGTATATA
TATGCTGCCCAATTTGGTGTATAAATGCTGTCCAATTTTGGTGTATAAATGC
Found at i:32185052 original size:17 final size:17
Alignment explanation
Indices: 32185023--32185055 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
32185013 TTATATTATG
32185023 TTATTAGTTTTGTATTA
1 TTATTAGTTTTGTATTA
32185040 TTATT-GTTATTGTATT
1 TTATTAGTT-TTGTATT
32185056 TCTATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (17 bp):
TTATTAGTTTTGTATTA
Found at i:32185119 original size:13 final size:13
Alignment explanation
Indices: 32185101--32185125 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32185091 TTAATCTTGT
32185101 ATTATTATTATTG
1 ATTATTATTATTG
32185114 ATTATTATTATT
1 ATTATTATTATT
32185126 TACTCATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
ATTATTATTATTG
Found at i:32185397 original size:111 final size:115
Alignment explanation
Indices: 32185278--32185507 Score: 414
Period size: 111 Copynumber: 2.0 Consensus size: 115
32185268 TTATAACTTA
32185278 TATACATATATCTATATTTATATTCTTTATCTTCACAAATATATGTAGACATACTTATATATATA
1 TATACATATATCTATATTTATATTCTTTATCTTCACAAATATATGTAGACATACTTATATATATA
*
32185343 TATATATATATATATAT-TA-T-TTTT-TGACTTTATATATATACATTTT
66 TATATATATATATATATATATTATTTTATAACTTTATATATATACATTTT
*
32185389 TATACATATATCTATATTTATATTCTTTATCTTCACAAATATATGTATACATACTTATATATATA
1 TATACATATATCTATATTTATATTCTTTATCTTCACAAATATATGTAGACATACTTATATATATA
32185454 TATATATATATATATATATATTATTTTATAACTTTATATATATACATTTT
66 TATATATATATATATATATATTATTTTATAACTTTATATATATACATTTT
32185504 TATA
1 TATA
32185508 TTTTGTTCGT
Statistics
Matches: 113, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
111 81 0.72
112 2 0.02
113 1 0.01
114 4 0.04
115 25 0.22
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (115 bp):
TATACATATATCTATATTTATATTCTTTATCTTCACAAATATATGTAGACATACTTATATATATA
TATATATATATATATATATATTATTTTATAACTTTATATATATACATTTT
Found at i:32185493 original size:2 final size:2
Alignment explanation
Indices: 32185333--32185474 Score: 69
Period size: 2 Copynumber: 71.5 Consensus size: 2
32185323 TAGACATACT
* * *
32185333 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA T- TT TT TGA CTT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A -TA TA
* * * * * * * *
32185375 TA TA TA TA CA TT TT TA TA CA TA TA TC TA TA TT TA TA T- TC TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
32185416 TA TC T- TCA CA AA TA TA TG TA TA CA TA CT- TA TA TA TA TA TA TA
1 TA TA TA T-A TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
32185458 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
32185475 TATTTTATAA
Statistics
Matches: 108, Mismatches: 23, Indels: 18
0.72 0.15 0.12
Matches are distributed among these distances:
1 5 0.05
2 101 0.94
3 1 0.01
4 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32187647 original size:19 final size:19
Alignment explanation
Indices: 32187623--32187669 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
32187613 AACGTCTCTT
*
32187623 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTGCAT-CA
32187642 TTTGCATTACATTGCATCA
1 TTTGCATTACATTGCATCA
*
32187661 TATGCATTA
1 TTTGCATTA
32187670 GATTTTCACG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTGCATCA
Found at i:32190267 original size:11 final size:11
Alignment explanation
Indices: 32190251--32190301 Score: 66
Period size: 11 Copynumber: 4.4 Consensus size: 11
32190241 AGTTCAGATT
32190251 CAAAAAAAAAA
1 CAAAAAAAAAA
32190262 CAAAAACAAAAA
1 CAAAAA-AAAAA
32190274 CAAAACAAAAAAA
1 C-AAA-AAAAAAA
*
32190287 CAAAAAAAAAT
1 CAAAAAAAAAA
32190298 CAAA
1 CAAA
32190302 GTCAAAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
11 16 0.44
12 9 0.25
13 9 0.25
14 2 0.06
ACGTcount: A:0.84, C:0.14, G:0.00, T:0.02
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:32190309 original size:25 final size:25
Alignment explanation
Indices: 32190255--32190301 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
32190245 CAGATTCAAA
32190255 AAAAAAACAAAAACAAAAACAAAAC
1 AAAAAAACAAAAACAAAAACAAAAC
*
32190280 AAAAAAACAAAAA-AAAATCAAA
1 AAAAAAACAAAAACAAAAACAAA
32190302 GTCAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.02
Consensus pattern (25 bp):
AAAAAAACAAAAACAAAAACAAAAC
Found at i:32192088 original size:88 final size:88
Alignment explanation
Indices: 32191583--32192073 Score: 795
Period size: 88 Copynumber: 5.6 Consensus size: 88
32191573 AACAGATCAG
32191583 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
32191648 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
*
32191671 TGAAGACAAAAGATCTTGCCTTCCTGCATTGATAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
32191736 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
*
32191759 TGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
* *
32191824 CTCTTGATTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
*
32191847 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
* * *
32191912 CTCTCGATTGTGGTGGAGCTAGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * *
32191935 TGAAGACAATAGATCTTGCCTTCTTGCCTTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
* *
32192000 TTCTCGGTTGT-AGCGGAGCTGGT
66 CTCTCGGTTGTGA-TGGAGCTGGT
* * * * **
32192023 TGAAGACAACAGATCTTGCCTTCCTACACTGGCAGCGAAGCAAATCGAAGA
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGA
32192074 AGCTAGTCTT
Statistics
Matches: 376, Mismatches: 26, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
88 376 1.00
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (88 bp):
TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
CTCTCGGTTGTGATGGAGCTGGT
Found at i:32193637 original size:17 final size:17
Alignment explanation
Indices: 32193608--32193640 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
32193598 TTATATTATG
32193608 TTATTAGTTTTGTATTA
1 TTATTAGTTTTGTATTA
32193625 TTATT-GTTATTGTATT
1 TTATTAGTT-TTGTATT
32193641 TCTATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (17 bp):
TTATTAGTTTTGTATTA
Found at i:32193704 original size:13 final size:13
Alignment explanation
Indices: 32193686--32193710 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32193676 TTAATCTTGT
32193686 ATTATTATTATTG
1 ATTATTATTATTG
32193699 ATTATTATTATT
1 ATTATTATTATT
32193711 TACTCATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
ATTATTATTATTG
Found at i:32193905 original size:87 final size:87
Alignment explanation
Indices: 32193814--32193973 Score: 200
Period size: 87 Copynumber: 1.8 Consensus size: 87
32193804 TAATTGATTT
* *
32193814 ATATATATATACATACAAACT-TATATATATTTTTATATTTTATAAC-TTATATACATATAT-CT
1 ATATATATATACATACAAA-TATATATATATATAT-TATTTTATAACTTTATATACATATATAC-
32193876 ATATTTATATTCTTTATCTTCACAA
63 ATATTTATATTCTTTATCTTCACAA
* ** * * *
32193901 ATATATGTATACATACTTATATATATATATATATTCTTTTATAACTTTATATATATATATACATT
1 ATATATATATACATACAAATATATATATATATATTATTTTATAACTTTATATACATATATACATA
32193966 TTTATATT
66 TTTATATT
32193974 TTGTTCGTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
86 11 0.18
87 50 0.81
88 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.01, T:0.51
Consensus pattern (87 bp):
ATATATATATACATACAAATATATATATATATATTATTTTATAACTTTATATACATATATACATA
TTTATATTCTTTATCTTCACAA
Found at i:32208504 original size:19 final size:19
Alignment explanation
Indices: 32208469--32208511 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
32208459 GATAACTAAC
32208469 TATAAAAATTTAATAAATA
1 TATAAAAATTTAATAAATA
*
32208488 TATATAAAA-TTATTAAATA
1 TATA-AAAATTTAATAAATA
32208507 T-TAAA
1 TATAAA
32208512 TTAAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 2 0.09
18 2 0.09
19 14 0.64
20 4 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TATAAAAATTTAATAAATA
Found at i:32208892 original size:11 final size:11
Alignment explanation
Indices: 32208834--32208900 Score: 66
Period size: 11 Copynumber: 5.9 Consensus size: 11
32208824 TCAATTTTGC
32208834 TATTTAT-ATA
1 TATTTATAATA
*
32208844 TTTTTATAATA
1 TATTTATAATA
*
32208855 GTATTTAT-CTA
1 -TATTTATAATA
32208866 TAATTTATAATCTA
1 T-ATTTATAA--TA
32208880 TATTTATAATA
1 TATTTATAATA
32208891 TATTTATAAT
1 TATTTATAAT
32208901 TCTATAAAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.15
11 23 0.49
12 6 0.13
13 8 0.17
14 3 0.06
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (11 bp):
TATTTATAATA
Found at i:32210115 original size:3 final size:3
Alignment explanation
Indices: 32210090--32210146 Score: 55
Period size: 3 Copynumber: 19.3 Consensus size: 3
32210080 TTTTTTTAGT
* * *
32210090 TTA TT- TTA TTA ATA -TA GTTA TTA TTA TTT TTA TTT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
32210134 CTA TTA TTA TTA T
1 TTA TTA TTA TTA T
32210147 ATTTGTTATA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
2 4 0.09
3 38 0.86
4 2 0.05
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:32210277 original size:13 final size:12
Alignment explanation
Indices: 32210256--32210294 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
32210246 TTTTATTACC
*
32210256 ATATTTTTATAT
1 ATATATTTATAT
32210268 ATATAGTTTATAT
1 ATATA-TTTATAT
32210281 ATATATATTATAT
1 ATATAT-TTATAT
32210294 A
1 A
32210295 CATTCATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 5 0.21
13 19 0.79
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (12 bp):
ATATATTTATAT
Found at i:32210334 original size:25 final size:26
Alignment explanation
Indices: 32210306--32210365 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
32210296 ATTCATATTT
32210306 TTTTATAATT-ATTTATGTTT-T-CATG
1 TTTTATAATTCA--TATGTTTATACATG
*
32210331 TTTTATAATTCATATGTTTATACATT
1 TTTTATAATTCATATGTTTATACATG
32210357 TTTTATAAT
1 TTTTATAAT
32210366 ATGTACAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
24 7 0.23
25 11 0.35
26 13 0.42
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (26 bp):
TTTTATAATTCATATGTTTATACATG
Found at i:32217860 original size:27 final size:27
Alignment explanation
Indices: 32217830--32217902 Score: 146
Period size: 27 Copynumber: 2.7 Consensus size: 27
32217820 TTTGAGCCAG
32217830 TATTCTTTTATTCTTTTTTCGAGTAAT
1 TATTCTTTTATTCTTTTTTCGAGTAAT
32217857 TATTCTTTTATTCTTTTTTCGAGTAAT
1 TATTCTTTTATTCTTTTTTCGAGTAAT
32217884 TATTCTTTTATTCTTTTTT
1 TATTCTTTTATTCTTTTTT
32217903 GCTACATCAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.16, C:0.11, G:0.05, T:0.67
Consensus pattern (27 bp):
TATTCTTTTATTCTTTTTTCGAGTAAT
Found at i:32222783 original size:44 final size:44
Alignment explanation
Indices: 32222720--32222914 Score: 131
Period size: 44 Copynumber: 4.5 Consensus size: 44
32222710 ACTCCAGTCT
* * *
32222720 TATCTCCCTAAAATTGCAGTGGAGCAGACAGAGGAAAT-CAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAG-CAGAAGAAATCCAATCC
** *
32222764 TATCTCCCTGAAGTTGCAGTGGAGC-G--GATTAACATCCAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGCAGAAGAA-ATCCA-ATCC
** * * * * *
32222807 TATCTTTCTGAGGTTGCA---GAG-AGCAGATCG-CATCCAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGCAGA-AGAAATCCAATCC
* *
32222847 TATCTCCTTGAAGTTGCAGTGGAGTAGACAGAAGAAAT-CAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAG-CAGAAGAAATCCAATCC
*
32222891 TATCTCCCTGAAGTTGCAATGGAG
1 TATCTCCCTGAAGTTGCAGTGGAG
32222915 AGGATTAACA
Statistics
Matches: 116, Mismatches: 22, Indels: 26
0.71 0.13 0.16
Matches are distributed among these distances:
40 25 0.22
41 7 0.06
42 4 0.03
43 22 0.19
44 52 0.45
45 6 0.05
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGCAGAAGAAATCCAATCC
Found at i:32222863 original size:40 final size:40
Alignment explanation
Indices: 32222764--32223001 Score: 160
Period size: 40 Copynumber: 5.7 Consensus size: 40
32222754 AAATCAATCC
* * *
32222764 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCT
1 TATCTCCCTGAAGTTGCAG-AGAGCAGA-TAGCATCCAG-TCT
** * *
32222807 TATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAGTCT
1 TATCTCCCTGAAGTTGCAGAGAGCAGATAGCATCCAGTCT
* * * *
32222847 TATCTCCTTGAAGTTGCAGTGGAGTAGACAGA-AGAAAT-CAATCC
1 TATCTCCCTGAAGTTGCA---GAG-AG-CAGATAG-CATCCAGTCT
*
32222891 TATCTCCCTGAAGTTGCA-ATGGAG-AGGATTAACATCCAGATCT
1 TATCTCCCTGAAGTTGCAGA--GAGCA-GA-TAGCATCCAG-TCT
** * *
32222934 TATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAGTCT
1 TATCTCCCTGAAGTTGCAGAGAGCAGATAGCATCCAGTCT
*
32222974 TATCTCCCTGAAGTTGCAGTGGAGCAGA
1 TATCTCCCTGAAGTTGCAG-AGAGCAGA
32223002 CTAAAAATAG
Statistics
Matches: 150, Mismatches: 29, Indels: 34
0.70 0.14 0.16
Matches are distributed among these distances:
39 1 0.01
40 39 0.26
41 27 0.18
42 15 0.10
43 37 0.25
44 25 0.17
45 6 0.04
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (40 bp):
TATCTCCCTGAAGTTGCAGAGAGCAGATAGCATCCAGTCT
Found at i:32222938 original size:127 final size:127
Alignment explanation
Indices: 32222712--32223002 Score: 519
Period size: 127 Copynumber: 2.3 Consensus size: 127
32222702 CTGGTGAAAC
* * *
32222712 TCCAGTCTTATCTCCCTAAAATTGCAGTGGAGCAGACAGAGGAAATCAATCCTATCTCCCTGAAG
1 TCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAG
* *
32222777 TTGCAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCA
66 TTGCAATGGAGAGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCA
* *
32222839 TCCAGTCTTATCTCCTTGAAGTTGCAGTGGAGTAGACAGAAGAAATCAATCCTATCTCCCTGAAG
1 TCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAG
32222904 TTGCAATGGAGAGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCA
66 TTGCAATGGAGAGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCA
32222966 TCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
1 TCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
32223003 TAAAAATAGC
Statistics
Matches: 155, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
127 155 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (127 bp):
TCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAG
TTGCAATGGAGAGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCA
Found at i:32224430 original size:13 final size:13
Alignment explanation
Indices: 32224414--32224438 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32224404 TTACCATATT
32224414 TTTATATATATAG
1 TTTATATATATAG
32224427 TTTATATATATA
1 TTTATATATATA
32224439 TATATTATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
TTTATATATATAG
Found at i:32224436 original size:15 final size:15
Alignment explanation
Indices: 32224416--32224449 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
32224406 ACCATATTTT
32224416 TATATATATAGT-TTA
1 TATATATATA-TATTA
32224431 TATATATATATATTA
1 TATATATATATATTA
32224446 TATA
1 TATA
32224450 CATTCATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 1 0.06
15 17 0.94
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
TATATATATATATTA
Found at i:32224488 original size:25 final size:26
Alignment explanation
Indices: 32224460--32224519 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
32224450 CATTCATATT
32224460 TTTTATAATT-ATTTATGTTT-T-CATG
1 TTTTATAATTCA--TATGTTTATACATG
*
32224485 TTTTATAATTCATATGTTTATACATT
1 TTTTATAATTCATATGTTTATACATG
32224511 TTTTATAAT
1 TTTTATAAT
32224520 ATGTACAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
24 7 0.23
25 11 0.35
26 13 0.42
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (26 bp):
TTTTATAATTCATATGTTTATACATG
Found at i:32224488 original size:26 final size:26
Alignment explanation
Indices: 32224457--32224519 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 26
32224447 ATACATTCAT
32224457 ATTTTTTATAATT-ATTTATGTTT-T-C
1 ATTTTTTATAATTCA--TATGTTTATAC
*
32224482 ATGTTTTATAATTCATATGTTTATAC
1 ATTTTTTATAATTCATATGTTTATAC
32224508 ATTTTTTATAAT
1 ATTTTTTATAAT
32224520 ATGTACAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
24 7 0.21
25 13 0.39
26 13 0.39
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (26 bp):
ATTTTTTATAATTCATATGTTTATAC
Found at i:32226032 original size:6 final size:6
Alignment explanation
Indices: 32226021--32226052 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
32226011 ATAATATAAA
32226021 ATAATT ATAATT ATAATT ATAATT ATAATT AT
1 ATAATT ATAATT ATAATT ATAATT ATAATT AT
32226053 TTGTTAGCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATAATT
Found at i:32226936 original size:101 final size:99
Alignment explanation
Indices: 32226747--32227064 Score: 336
Period size: 101 Copynumber: 3.1 Consensus size: 99
32226737 TATTGATATC
* ** * * * *
32226747 GTATCGATACTTTATAAGTTTTGTGAGAAACATAATGTTATTTTTAGTATCGTTTTTAAGAAGGG
1 GTATCGATAC-TTATTAGGGTT-TGAAAAACAAAATGTCA-TTTTGGTATCG-TTTTAAGAAGGG
*
32226812 GTATCAATAATTCAGAAAATATCGATACTTAATCAAATG
62 GTATCAATAATTCA-AAAATATCGATACTTAATCAAAAG
32226851 GTATCGATACTTATTAGGGTTTGAAAAACAAAATGTCATTTTGGTATCGCTTTTAAGAAGGGGTA
1 GTATCGATACTTATTAGGGTTTGAAAAACAAAATGTCATTTTGGTATCG-TTTTAAGAAGGGGTA
* *
32226916 TTAATATTTCAAAAATTATCGATACTTAATCAAAAG
65 TCAATAATTCAAAAA-TATCGATACTTAATCAAAAG
* * * * * *
32226952 GTATTGATACTTATTAGGGTTTGTGAAAATAGAATGCCACTTTGGTATCG-TTTAAG-AGAGGGT
1 GTATCGATACTTATTAGGGTTTG-AAAAACAAAATGTCATTTTGGTATCGTTTTAAGAAG-GGGT
* * *
32227015 ATCGATAATTCAAAAAATATCAATACTTGGA-CAAAAAG
64 ATCAATAATTC-AAAAATATCGATACTT-AATC-AAAAG
32227053 GTATCGATACTT
1 GTATCGATACTT
32227065 GTTGGTTTAG
Statistics
Matches: 185, Mismatches: 23, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
99 2 0.01
100 33 0.18
101 97 0.52
102 35 0.19
103 8 0.04
104 10 0.05
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.36
Consensus pattern (99 bp):
GTATCGATACTTATTAGGGTTTGAAAAACAAAATGTCATTTTGGTATCGTTTTAAGAAGGGGTAT
CAATAATTCAAAAATATCGATACTTAATCAAAAG
Found at i:32226950 original size:21 final size:21
Alignment explanation
Indices: 32226924--32226964 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
32226914 TATTAATATT
*
32226924 TCAAAAATTATCGATACTTAA
1 TCAAAAAGTATCGATACTTAA
* *
32226945 TCAAAAGGTATTGATACTTA
1 TCAAAAAGTATCGATACTTA
32226965 TTAGGGTTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (21 bp):
TCAAAAAGTATCGATACTTAA
Found at i:32227049 original size:21 final size:22
Alignment explanation
Indices: 32227025--32227065 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
32227015 ATCGATAATT
32227025 CAAAAA-ATATCAATACTTGGA
1 CAAAAAGATATCAATACTTGGA
* *
32227046 CAAAAAGGTATCGATACTTG
1 CAAAAAGATATCAATACTTG
32227066 TTGGTTTAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.24
Consensus pattern (22 bp):
CAAAAAGATATCAATACTTGGA
Found at i:32234999 original size:29 final size:29
Alignment explanation
Indices: 32234941--32234999 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
32234931 TCCACCTTGA
* * * * *
32234941 CACGAATTCTCAATGAATAAGTTTTTCAC
1 CACGAACTCTCAACGAACAAGTTCTCCAC
32234970 CACGAACTCTCAACGAACAAGTTCTCCAC
1 CACGAACTCTCAACGAACAAGTTCTCCAC
32234999 C
1 C
32235000 TCTTCCATGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.34, C:0.31, G:0.10, T:0.25
Consensus pattern (29 bp):
CACGAACTCTCAACGAACAAGTTCTCCAC
Found at i:32242394 original size:23 final size:22
Alignment explanation
Indices: 32242311--32242401 Score: 62
Period size: 23 Copynumber: 4.0 Consensus size: 22
32242301 CATAAAATCT
32242311 ATAAAATAATA-TAT-TACAAAA
1 ATAAAATAATACTATATA-AAAA
* * *
32242332 ATTAAATAATAATATATGGAAAAC
1 ATAAAATAATACTATAT--AAAAA
***
32242356 GCCAAATAATACTATATAATAAA
1 ATAAAATAATACTATATAA-AAA
32242379 ATAAAATAA-ACGTATATAAAAA
1 ATAAAATAATAC-TATATAAAAA
32242401 A
1 A
32242402 GTTAGGAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
21 10 0.19
22 11 0.20
23 16 0.30
24 16 0.30
25 1 0.02
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.26
Consensus pattern (22 bp):
ATAAAATAATACTATATAAAAA
Found at i:32242441 original size:3 final size:3
Alignment explanation
Indices: 32242435--32242511 Score: 154
Period size: 3 Copynumber: 25.7 Consensus size: 3
32242425 AATAAAAAAA
32242435 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
32242483 TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
32242512 ATAATAATAA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:32243558 original size:18 final size:19
Alignment explanation
Indices: 32243537--32243577 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
32243527 CCCTGGTGGT
*
32243537 GGCGTGGC-TCGGCTCGGA
1 GGCGTGGCTTCGGCGCGGA
*
32243555 GGCGTGGCTTTGGCGCGGA
1 GGCGTGGCTTCGGCGCGGA
32243574 GGCG
1 GGCG
32243578 CTACATACAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.05, C:0.24, G:0.54, T:0.17
Consensus pattern (19 bp):
GGCGTGGCTTCGGCGCGGA
Found at i:32247200 original size:28 final size:28
Alignment explanation
Indices: 32247164--32247310 Score: 145
Period size: 28 Copynumber: 5.2 Consensus size: 28
32247154 AGTTCCTGAG
32247164 GACTCTTGCTTGAAAGATAGTCCATGCA
1 GACTCTTGCTTGAAAGATAGTCCATGCA
* * ** **
32247192 GACTATTGCTTGAAGGATAGTTTATGGG
1 GACTCTTGCTTGAAAGATAGTCCATGCA
* * **
32247220 GACTCTTGCTGGAATGATAGTCCATGTG
1 GACTCTTGCTTGAAAGATAGTCCATGCA
* *
32247248 GACTCTTACATG-AAGAATAGTCCATGCA
1 GACTCTTGCTTGAAAG-ATAGTCCATGCA
*
32247276 GACTCTTGCTTGAATGATAGTCCATGC-
1 GACTCTTGCTTGAAAGATAGTCCATGCA
32247303 GAACTCTT
1 G-ACTCTT
32247311 ACATGGAATA
Statistics
Matches: 95, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
27 3 0.03
28 90 0.95
29 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (28 bp):
GACTCTTGCTTGAAAGATAGTCCATGCA
Found at i:32247239 original size:56 final size:56
Alignment explanation
Indices: 32247163--32247324 Score: 177
Period size: 56 Copynumber: 2.9 Consensus size: 56
32247153 TAGTTCCTGA
* * * * ** *
32247163 GGACTCTTGCTTGAAAGATAGTCCATGCAGACTATTGCTTGAAGGATAGTTTATGG
1 GGACTCTTGCTTGAATGATAGTCCATGCAGACTATTACATGAAGAATAGTCCATGC
* ** *
32247219 GGACTCTTGCTGGAATGATAGTCCATGTGGACTCTTACATGAAGAATAGTCCATGC
1 GGACTCTTGCTTGAATGATAGTCCATGCAGACTATTACATGAAGAATAGTCCATGC
* *
32247275 AGACTCTTGCTTGAATGATAGTCCATGC-GAACTCTTACATG--GAATAGTCC
1 GGACTCTTGCTTGAATGATAGTCCATGCAG-ACTATTACATGAAGAATAGTCC
32247325 TTGTAGACTC
Statistics
Matches: 91, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 9 0.10
55 1 0.01
56 81 0.89
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (56 bp):
GGACTCTTGCTTGAATGATAGTCCATGCAGACTATTACATGAAGAATAGTCCATGC
Found at i:32247309 original size:84 final size:85
Alignment explanation
Indices: 32247163--32247319 Score: 210
Period size: 84 Copynumber: 1.9 Consensus size: 85
32247153 TAGTTCCTGA
* * ** * * *
32247163 GGACTCTTGCTTGAAAGATAGTCCATGCAGACTATTGCTTGAAGGATAGTTTATGGGGACTCTTG
1 GGACTCTTACATGAAAGATAGTCCATGCAGACTATTGCTTGAAGGATAGTCCATGCGAACTCTTA
32247228 C-TGGAATGATAGTCCATGT
66 CATGGAATGATAGTCCATGT
* *
32247247 GGACTCTTACATG-AAGAATAGTCCATGCAGACTCTTGCTTGAATGATAGTCCATGCGAACTCTT
1 GGACTCTTACATGAAAG-ATAGTCCATGCAGACTATTGCTTGAAGGATAGTCCATGCGAACTCTT
32247311 ACATGGAAT
65 ACATGGAAT
32247320 AGTCCTTGTA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
83 3 0.05
84 53 0.85
85 6 0.10
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (85 bp):
GGACTCTTACATGAAAGATAGTCCATGCAGACTATTGCTTGAAGGATAGTCCATGCGAACTCTTA
CATGGAATGATAGTCCATGT
Found at i:32251754 original size:60 final size:58
Alignment explanation
Indices: 32251687--32251843 Score: 181
Period size: 60 Copynumber: 2.7 Consensus size: 58
32251677 TAAATTTAGG
* * * * *
32251687 TACCAAATTAGGAAAAAATACCAAGTTCAAGTACCAAATTGGGTCCCAAAAAAGTATAGA
1 TACCAAATTAGGAAAAAATATCAAGTTTAGGTACCAAATTAGG--CAAAAAAAGTATAGA
* * * * *
32251747 TACCAAATTAGGAAAAAGTGTCAAGTTTAGGTACCCAATTAGGCAAAAAAAGTTTAGT
1 TACCAAATTAGGAAAAAATATCAAGTTTAGGTACCAAATTAGGCAAAAAAAGTATAGA
*
32251805 TA-AAAATTAGGAAAAAAGTATCAAGTTTAGGTACCAAAT
1 TACCAAATTAGGAAAAAA-TATCAAGTTTAGGTACCAAAT
32251844 GTTATGTTAA
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
57 13 0.16
58 33 0.40
60 36 0.44
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.24
Consensus pattern (58 bp):
TACCAAATTAGGAAAAAATATCAAGTTTAGGTACCAAATTAGGCAAAAAAAGTATAGA
Found at i:32251829 original size:58 final size:60
Alignment explanation
Indices: 32251691--32251843 Score: 179
Period size: 58 Copynumber: 2.6 Consensus size: 60
32251681 TTTAGGTACC
* * * * * *
32251691 AAATTAGGAAAAAA-TACCAAGTTCAAGTACCAAATTGGGTCCCAAAAAAGTATAGATACC
1 AAATTAGGAAAAAAGTATCAAGTTTAGGTACCAAATTAGG-CCAAAAAAAGTATAGATACA
* * * *
32251751 AAATTAGG-AAAAAGTGTCAAGTTTAGGTACCCAATTAGG-CAAAAAAAGTTTAGTTA-A
1 AAATTAGGAAAAAAGTATCAAGTTTAGGTACCAAATTAGGCCAAAAAAAGTATAGATACA
32251808 AAATTAGGAAAAAAGTATCAAGTTTAGGTACCAAAT
1 AAATTAGGAAAAAAGTATCAAGTTTAGGTACCAAAT
32251844 GTTATGTTAA
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
57 8 0.10
58 39 0.49
59 5 0.06
60 27 0.34
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.24
Consensus pattern (60 bp):
AAATTAGGAAAAAAGTATCAAGTTTAGGTACCAAATTAGGCCAAAAAAAGTATAGATACA
Found at i:32251978 original size:2 final size:2
Alignment explanation
Indices: 32251971--32252008 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
32251961 NNAGTAGTAG
32251971 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32252009 AGATGTTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32252446 original size:7 final size:7
Alignment explanation
Indices: 32252427--32252461 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
32252417 ACGTAGGGAA
32252427 TATTTAT
1 TATTTAT
32252434 TA-TTAT
1 TATTTAT
32252440 TATTTAT
1 TATTTAT
32252447 TATTTAT
1 TATTTAT
32252454 TATTTAT
1 TATTTAT
32252461 T
1 T
32252462 CTTTTGTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TATTTAT
Found at i:32263213 original size:20 final size:20
Alignment explanation
Indices: 32263188--32263247 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
32263178 AAAGAATATA
*
32263188 ATTTCCTTTCCTTTCCTTTC
1 ATTTCCTTTCCTTTCTTTTC
**
32263208 ATTTCCTCCCCTTTCTTTTC
1 ATTTCCTTTCCTTTCTTTTC
* * *
32263228 TTTTCTTTTTCTTTCTTTTC
1 ATTTCCTTTCCTTTCTTTTC
32263248 TTTTTCTTTA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTTCCTTTCCTTTCTTTTC
Found at i:32263242 original size:15 final size:15
Alignment explanation
Indices: 32263219--32263256 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
32263209 TTTCCTCCCC
32263219 TTTCTTTTCTTTTCTT
1 TTTC-TTTCTTTTCTT
32263235 TTTCTTTCTTTTCTT
1 TTTCTTTCTTTTCTT
32263250 TTTCTTT
1 TTTCTTT
32263257 ATTGACTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTCTTTCTTTTCTT
Found at i:32263248 original size:5 final size:5
Alignment explanation
Indices: 32263219--32263256 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
32263209 TTTCCTCCCC
32263219 TTTCT TTTCT TTTCT TTT-T CTTTCT TTTCTT TTTCT TT
1 TTTCT TTTCT TTTCT TTTCT -TTTCT TTTC-T TTTCT TT
32263257 ATTGACTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 1 0.03
5 23 0.77
6 6 0.20
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:32263248 original size:20 final size:21
Alignment explanation
Indices: 32263218--32263256 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
32263208 ATTTCCTCCC
32263218 CTTTCTTTTC-TTTTCTTTTT
1 CTTTCTTTTCTTTTTCTTTTT
32263238 CTTTCTTTTCTTTTTCTTT
1 CTTTCTTTTCTTTTTCTTT
32263257 ATTGACTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (21 bp):
CTTTCTTTTCTTTTTCTTTTT
Found at i:32264774 original size:28 final size:28
Alignment explanation
Indices: 32264692--32264765 Score: 121
Period size: 28 Copynumber: 2.6 Consensus size: 28
32264682 AGTATCAGTG
**
32264692 TGTGGGCCACAGCCCAATACAGTAACAA
1 TGTGGGCCTTAGCCCAATACAGTAACAA
*
32264720 TGTGGGCCTTAGCCCAATACAGTAACAT
1 TGTGGGCCTTAGCCCAATACAGTAACAA
32264748 TGTGGGCCTTAGCCCAAT
1 TGTGGGCCTTAGCCCAAT
32264766 GTAGAAACAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAGTAACAA
Found at i:32265060 original size:32 final size:32
Alignment explanation
Indices: 32265005--32265242 Score: 275
Period size: 32 Copynumber: 7.5 Consensus size: 32
32264995 GAATGACCAC
* * *
32265005 AAGCCATAAGTA-CACTAATATGATTGGCACA
1 AAGCCATCAGTAGCAGTAATATGATCGGCACA
* * *
32265036 AAGCCATCAGTAGCAATGATATGATCGGCATA
1 AAGCCATCAGTAGCAGTAATATGATCGGCACA
* * *
32265068 CAGCCATCAGTAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAGCAGTAATATGATCGGCACA
*
32265100 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAGCAGTAATATGATCGGCACA
* * *
32265132 CAA-CCATCAATAACGGTAATATGATCGGCACA
1 -AAGCCATCAGTAGCAGTAATATGATCGGCACA
*
32265164 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAGCAGTAATATGATCGGCACA
* * *
32265196 CAA-CCATCAGTAACGGTAATATGACCGGCACA
1 -AAGCCATCAGTAGCAGTAATATGATCGGCACA
*
32265228 AAGCCATTAGTAGCA
1 AAGCCATCAGTAGCA
32265243 TCGCAGCAAA
Statistics
Matches: 172, Mismatches: 30, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
31 15 0.09
32 153 0.89
33 4 0.02
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (32 bp):
AAGCCATCAGTAGCAGTAATATGATCGGCACA
Found at i:32265121 original size:64 final size:64
Alignment explanation
Indices: 32265020--32265242 Score: 383
Period size: 64 Copynumber: 3.5 Consensus size: 64
32265010 ATAAGTACAC
* * * *
32265020 TAATATGATTGGCACAAAGCCATCAGTAGCAATGATATGATCGGCATACAGCCATCAGTAACGG
1 TAATATGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAACGG
*
32265084 TAATATGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAATAACGG
1 TAATATGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAACGG
32265148 TAATATGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAACGG
1 TAATATGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAACGG
* *
32265212 TAATATGACCGGCACAAAGCCATTAGTAGCA
1 TAATATGATCGGCACAAAGCCATCAGTAGCA
32265243 TCGCAGCAAA
Statistics
Matches: 151, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 151 1.00
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (64 bp):
TAATATGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAACGG
Found at i:32265262 original size:23 final size:23
Alignment explanation
Indices: 32265236--32265288 Score: 61
Period size: 26 Copynumber: 2.2 Consensus size: 23
32265226 CAAAGCCATT
32265236 AGTAGCATCGCAGCAAAGCTGCC
1 AGTAGCATCGCAGCAAAGCTGCC
* *
32265259 AGTAACAGTATCGCAGCAAAGCTGCT
1 AGT---AGCATCGCAGCAAAGCTGCC
32265285 AGTA
1 AGTA
32265289 ACAGTATATG
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
23 4 0.16
26 21 0.84
ACGTcount: A:0.34, C:0.25, G:0.25, T:0.17
Consensus pattern (23 bp):
AGTAGCATCGCAGCAAAGCTGCC
Found at i:32265271 original size:26 final size:26
Alignment explanation
Indices: 32265242--32265295 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
32265232 CATTAGTAGC
32265242 ATCGCAGCAAAGCTGCCAGTAACAGT
1 ATCGCAGCAAAGCTGCCAGTAACAGT
*
32265268 ATCGCAGCAAAGCTGCTAGTAACAGT
1 ATCGCAGCAAAGCTGCCAGTAACAGT
32265294 AT
1 AT
32265296 ATGTGGCCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAGTAACAGT
Found at i:32265342 original size:27 final size:27
Alignment explanation
Indices: 32265285--32265347 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
32265275 CAAAGCTGCT
*
32265285 AGTAACAGTATATGTGGCCAAACCACT
1 AGTAACAGTATATGTGGCCAAACCACC
*
32265312 AGTAACAGTGAT-TGTGG-CAGAGCCACC
1 AGTAACAGT-ATATGTGGCCA-AACCACC
32265339 AGT-ACAGTA
1 AGTAACAGTA
32265348 CTTCCTCTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 1 0.03
26 7 0.22
27 22 0.69
28 2 0.06
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (27 bp):
AGTAACAGTATATGTGGCCAAACCACC
Found at i:32265456 original size:24 final size:24
Alignment explanation
Indices: 32265410--32265563 Score: 130
Period size: 24 Copynumber: 6.4 Consensus size: 24
32265400 CCATGCTCAG
* * * *
32265410 AATCAGTTATACAATTCATAGACA
1 AATCAGTCATATAAATCACAGACA
* * **
32265434 AATTAGTTATACCAATCACAGACA
1 AATCAGTCATATAAATCACAGACA
*
32265458 AATCAGTCATTTAAATCACAGACA
1 AATCAGTCATATAAATCACAGACA
*
32265482 AATCAGTCATTTAAATCACAGACA
1 AATCAGTCATATAAATCACAGACA
* * * *
32265506 AATCAGTCATTTACATCTCAGACT
1 AATCAGTCATATAAATCACAGACA
* * *
32265530 AATCAATCACT-TACATCACAAACA
1 AATCAGTCA-TATAAATCACAGACA
*
32265554 AATCAATCAT
1 AATCAGTCAT
32265564 TTAACCTCGA
Statistics
Matches: 113, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
23 1 0.01
24 111 0.98
25 1 0.01
ACGTcount: A:0.45, C:0.22, G:0.06, T:0.27
Consensus pattern (24 bp):
AATCAGTCATATAAATCACAGACA
Found at i:32265483 original size:48 final size:48
Alignment explanation
Indices: 32265429--32265567 Score: 147
Period size: 48 Copynumber: 2.9 Consensus size: 48
32265419 TACAATTCAT
* * *
32265429 AGACAAATTAGTTATACCAATCACAGACAAATCAGTCATTTAAATCAC
1 AGACAAATCAGTCATACAAATCACAGACAAATCAGTCATTTAAATCAC
** * *
32265477 AGACAAATCAGTCATTTAAATCACAGACAAATCAGTCATTTACATCTC
1 AGACAAATCAGTCATACAAATCACAGACAAATCAGTCATTTAAATCAC
* * * *
32265525 AGACTAATCAATCACTTAC--ATCACAAACAAATCAATCATTTAA
1 AGACAAATCAGTCA--TACAAATCACAGACAAATCAGTCATTTAA
32265568 CCTCGAAGGG
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
48 74 0.99
50 1 0.01
ACGTcount: A:0.45, C:0.22, G:0.06, T:0.26
Consensus pattern (48 bp):
AGACAAATCAGTCATACAAATCACAGACAAATCAGTCATTTAAATCAC
Found at i:32265686 original size:27 final size:27
Alignment explanation
Indices: 32265639--32265753 Score: 155
Period size: 27 Copynumber: 4.3 Consensus size: 27
32265629 ATGTATTATA
32265639 GTCATTTTA-CCTACAGGGGCATTA-G
1 GTCATTTTACCCTACAGGGGCATTACG
*
32265664 AGTCATTTTACCCTACAGGGGCATTATG
1 -GTCATTTTACCCTACAGGGGCATTACG
*
32265692 GTTATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
32265719 GTCATTTTACCCTATA-GGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
32265745 ATTATTTTA
1 GTCATTTTA
32265754 TAAATTTTGG
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
26 26 0.32
27 54 0.67
28 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:32265714 original size:54 final size:52
Alignment explanation
Indices: 32265633--32265753 Score: 163
Period size: 53 Copynumber: 2.3 Consensus size: 52
32265623 TAACAAATGT
* *
32265633 ATTATAGTCATTTTACCTACAGGGGCATTA-GAGTCATTTTACCCTACAGGGGC
1 ATTATGGTTATTTTACCTACAGGGGCATTACG-GTCATTTTACCCTACA-GGGC
*
32265686 ATTATGGTTATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAGGGC
1 ATTATGGTTATTTTA-CCTACAGGGGCATTACGGTCATTTTACCCTACAGGGC
* *
32265739 ATTACGATTATTTTA
1 ATTATGGTTATTTTA
32265754 TAAATTTTGG
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
53 30 0.49
54 30 0.49
55 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (52 bp):
ATTATGGTTATTTTACCTACAGGGGCATTACGGTCATTTTACCCTACAGGGC
Found at i:32266073 original size:19 final size:17
Alignment explanation
Indices: 32266033--32266075 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
32266023 TTTATCCGTG
*
32266033 TGGCCCACAAGCCCACT
1 TGGCCCACAAGCCCAAT
*
32266050 GGGCCCACACAGCCCATAT
1 TGGCCCACA-AGCCCA-AT
32266069 TGGCCCA
1 TGGCCCA
32266076 TCGAGGCCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 8 0.38
18 6 0.29
19 7 0.33
ACGTcount: A:0.23, C:0.44, G:0.21, T:0.12
Consensus pattern (17 bp):
TGGCCCACAAGCCCAAT
Found at i:32267989 original size:46 final size:46
Alignment explanation
Indices: 32267922--32268036 Score: 196
Period size: 46 Copynumber: 2.5 Consensus size: 46
32267912 CCACACTAAT
32267922 ATGTAGCCGAAGCTACCACTGATATGTAGCCA-TAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGATATGTAG-CAGTAGCTACCACTGAA
32267968 ATGTAGCCGAAGCTACCACTGATATGTAGCAGTAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGATATGTAGCAGTAGCTACCACTGAA
* *
32268014 TTGTAGCCGAAGCTCCCACTGAT
1 ATGTAGCCGAAGCTACCACTGAT
32268037 CAATAACACT
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
45 2 0.03
46 64 0.97
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (46 bp):
ATGTAGCCGAAGCTACCACTGATATGTAGCAGTAGCTACCACTGAA
Found at i:32268034 original size:23 final size:24
Alignment explanation
Indices: 32267915--32268035 Score: 164
Period size: 23 Copynumber: 5.2 Consensus size: 24
32267905 ATAAATGCCA
32267915 CACT-AATATGTAGCCGAAGCTAC
1 CACTGAATATGTAGCCGAAGCTAC
32267938 CACTG-ATATGTAGCC-ATAGCTAC
1 CACTGAATATGTAGCCGA-AGCTAC
32267961 CACTGAA-ATGTAGCCGAAGCTAC
1 CACTGAATATGTAGCCGAAGCTAC
* *
32267984 CACTG-ATATGTAGCAGTAGCTAC
1 CACTGAATATGTAGCCGAAGCTAC
*
32268007 CACTGAAT-TGTAGCCGAAGCTCC
1 CACTGAATATGTAGCCGAAGCTAC
32268030 CACTGA
1 CACTGA
32268036 TCAATAACAC
Statistics
Matches: 87, Mismatches: 5, Indels: 12
0.84 0.05 0.12
Matches are distributed among these distances:
22 2 0.02
23 81 0.93
24 4 0.05
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.22
Consensus pattern (24 bp):
CACTGAATATGTAGCCGAAGCTAC
Found at i:32268280 original size:18 final size:17
Alignment explanation
Indices: 32268254--32268292 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
32268244 ATTTTCCTTC
32268254 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
32268271 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
32268289 CACA
1 CACA
32268293 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:32278558 original size:20 final size:20
Alignment explanation
Indices: 32278533--32278581 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
32278523 AGGGGCAATT
*
32278533 AAATCAATTTGATTAAAATC
1 AAATCAAATTGATTAAAATC
*
32278553 AAATCAAATTGATTAGAATC
1 AAATCAAATTGATTAAAATC
*
32278573 AAATAAAAT
1 AAATCAAAT
32278582 CAGGATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.31
Consensus pattern (20 bp):
AAATCAAATTGATTAAAATC
Found at i:32287820 original size:37 final size:37
Alignment explanation
Indices: 32287775--32287848 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
32287765 AGCATGAGAA
32287775 TGAAAAGATGAGCTGGTTAGATATTCATCCTTATGAG
1 TGAAAAGATGAGCTGGTTAGATATTCATCCTTATGAG
32287812 TGAAAAGATGAGCTGGTTAGATATTCATCCTTATGAG
1 TGAAAAGATGAGCTGGTTAGATATTCATCCTTATGAG
32287849 CCTGGGAGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.32
Consensus pattern (37 bp):
TGAAAAGATGAGCTGGTTAGATATTCATCCTTATGAG
Found at i:32292896 original size:44 final size:45
Alignment explanation
Indices: 32292835--32293748 Score: 394
Period size: 44 Copynumber: 20.7 Consensus size: 45
32292825 GATCGCATCT
32292835 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA-AGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTATAGCA
* *
32292879 AGTTTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAG-ATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTATAGCA
* * * * * *
32292924 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGTTGCAGAGAGCAGATCGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG--AC-TA-AG--TATAGCA
32292975 TCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA-AGCA
1 ---AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTATAGCA
*
32293022 AGTCTTATCCCCCTGAAGTTGCAGTGGAGCAGACTAAGTA-AGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTATAGCA
* *
32293066 AGTC-TATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAAG-ATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTATAGCA
* ** *** *
32293110 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCGA-TA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTATAGCA
** * ** * * *
32293155 A-TCTTATCTTTCTGAAGTTGCAGTAGAGTGGATTAA--A-ACCTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTATAGC-A
* * ** * * *
32293197 GGATCTTATCTCTCTGAAGTTGCAG-ACAGCAGA-T-CGCAT--CT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTATAGCA
*
32293238 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTA-AGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTATAGCA
* * * *
32293282 AATCTTATC-CTCCTGAAGTTGCAGT-GAGGTAGAGTGAAG-ATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTATAGCA
* * ** *** *
32293327 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGCCGA-TA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTATAGCA
* * ** * * *
32293372 A-TCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAA--A-ACCTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTATAGC-A
* * * * * *
32293414 GGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCA-CAT--CT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTATAGCA
*
32293455 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTA-AGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTATAGCA
* *
32293499 ATTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAG-ATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTATAGCA
** * * ** *** *
32293544 AACCTTATCTCCATGAAGTTGTAGTGGAGCAGGTTAAAGCCGA-TA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTATAGCA
* * * ** * ** * *
32293589 A-TCCTATCTTCCTGAAGTTGTAGTGGAGTGGATTAAAACATTG-G
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTATAGCA
* * * * * *
32293633 A-TCTTATCTCTCTGAAGTTGCAG-AGAGCA-AAT-CGCAT--CT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTATAGCA
*
32293672 AGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTA-AGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTATAGCA
* * **
32293716 AGTATTATCTCTCTGAAGTTGCAGCAGAGCAGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
32293749 TCACATCAAA
Statistics
Matches: 669, Mismatches: 132, Indels: 138
0.71 0.14 0.15
Matches are distributed among these distances:
39 1 0.00
40 67 0.10
41 22 0.03
42 15 0.02
43 58 0.09
44 318 0.48
45 129 0.19
46 12 0.02
47 5 0.01
48 3 0.00
50 2 0.00
51 6 0.01
52 1 0.00
54 30 0.04
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTATAGCA
Found at i:32293341 original size:217 final size:217
Alignment explanation
Indices: 32293022--32293739 Score: 1224
Period size: 217 Copynumber: 3.3 Consensus size: 217
32293012 TAAGTAAGCA
*
32293022 AGTCTTATCCCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTC-TATCCTCCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
* *
32293086 TAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCC
66 CAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGCC
* * *
32293151 GATAATCTTATCTTTCTGAAGTTGCAGTAGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAG
131 GATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAG
*
32293216 TTGCAGACAGCAGATCGCATCT
196 TTGCAGAGAGCAGATCGCATCT
* *
32293238 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAATCTTATCCTCCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
* *
32293303 CAGTGAGGTAGAGTGAAGATGGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGCC
66 CAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGCC
32293368 GATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAG
131 GATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAG
*
32293433 TTGCAGAGAGCAGATCACATCT
196 TTGCAGAGAGCAGATCGCATCT
* *
32293455 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAATTCTTATCCTCCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
* *
32293520 CAGTGAGGCAGACTGAAGATGGCAAACCTTATCTCCATGAAGTTGTAGTGGAGCAGGTTAAAGCC
66 CAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGCC
* *
32293585 GATAATCCTATCTTCCTGAAGTTGTAGTGGAGTGGATTAAAACATTGGATCTTATCTCTCTGAAG
131 GATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAG
*
32293650 TTGCAGAGAGCAAATCGCATCT
196 TTGCAGAGAGCAGATCGCATCT
* *
32293672 AGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTATTAT-CTCTCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTC-CTGAAGTT
32293736 GCAG
65 GCAG
32293740 CAGAGCAGAT
Statistics
Matches: 473, Mismatches: 27, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
216 48 0.10
217 425 0.90
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (217 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
CAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGCC
GATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAG
TTGCAGAGAGCAGATCGCATCT
Found at i:32295345 original size:16 final size:17
Alignment explanation
Indices: 32295324--32295356 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
32295314 TAAATCTATA
32295324 TACATA-TATATTTTTG
1 TACATATTATATTTTTG
32295340 TACATATTTATATTTTT
1 TACATA-TTATATTTTT
32295357 TTTTCAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (17 bp):
TACATATTATATTTTTG
Found at i:32296530 original size:29 final size:30
Alignment explanation
Indices: 32296478--32296541 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
32296468 TCTAATATTT
* * *
32296478 AATTTGATAGATAAATTTTGA-TTTTGTGC
1 AATTTGATACATAAATATTAATTTTTGTGC
* *
32296507 AATTTGATACATGAATATTAATTTTTGTTC
1 AATTTGATACATAAATATTAATTTTTGTGC
32296537 AATTT
1 AATTT
32296542 TCACAAATCA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (30 bp):
AATTTGATACATAAATATTAATTTTTGTGC
Found at i:32299029 original size:23 final size:23
Alignment explanation
Indices: 32298983--32299030 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
32298973 CTATACATGT
* *
32298983 TTTTAGAAAAATATTATAATATA
1 TTTTAGAAAAATATGATAAAATA
32299006 TTTTAGAAAAATATGGA-AAAATA
1 TTTTAGAAAAATAT-GATAAAATA
32299029 TT
1 TT
32299031 GAAACATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (23 bp):
TTTTAGAAAAATATGATAAAATA
Found at i:32299753 original size:11 final size:11
Alignment explanation
Indices: 32299739--32299775 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
32299729 TTTCTATACC
32299739 TTTTTTTTATA
1 TTTTTTTTATA
32299750 -TTTTTTTATA
1 TTTTTTTTATA
*
32299760 TTTTTTCTATA
1 TTTTTTTTATA
32299771 TTTTT
1 TTTTT
32299776 CTAAAACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTTTTATA
Found at i:32299755 original size:10 final size:10
Alignment explanation
Indices: 32299740--32299775 Score: 63
Period size: 10 Copynumber: 3.5 Consensus size: 10
32299730 TTCTATACCT
32299740 TTTTTTTATA
1 TTTTTTTATA
32299750 TTTTTTTATA
1 TTTTTTTATA
32299760 TTTTTTCTATA
1 TTTTTT-TATA
32299771 TTTTT
1 TTTTT
32299776 CTAAAACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTTTATA
Found at i:32299776 original size:10 final size:10
Alignment explanation
Indices: 32299726--32299778 Score: 52
Period size: 10 Copynumber: 4.9 Consensus size: 10
32299716 AACATTTAAG
32299726 ATTTTTCTAT
1 ATTTTTCTAT
*
32299736 ACCTTTTTTTTAT
1 A---TTTTTCTAT
*
32299749 ATTTTTTTAT
1 ATTTTTCTAT
32299759 ATTTTTTCTAT
1 A-TTTTTCTAT
32299770 ATTTTTCTA
1 ATTTTTCTA
32299779 AAACTTTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
10 19 0.51
11 9 0.24
13 9 0.24
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (10 bp):
ATTTTTCTAT
Found at i:32299808 original size:30 final size:30
Alignment explanation
Indices: 32299772--32299838 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
32299762 TTTTCTATAT
*
32299772 TTTTCTAAAACTTTTTATAA-CATTTAAAAA
1 TTTTCTAAAA-TTTCTATAATCATTTAAAAA
* * *
32299802 TTTTCTATAATTTCTATAATTATTTATAAA
1 TTTTCTAAAATTTCTATAATCATTTAAAAA
32299832 -TTTCTAA
1 TTTTCTAA
32299839 TAATATTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 14 0.45
30 17 0.55
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (30 bp):
TTTTCTAAAATTTCTATAATCATTTAAAAA
Found at i:32299848 original size:21 final size:20
Alignment explanation
Indices: 32299810--32299859 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
32299800 AATTTTCTAT
32299810 AATTTCTATAAT-TATTTATA
1 AATTTCTATAATAT-TTTATA
*
32299830 AATTTCTAATAATATTTTATG
1 AATTTCT-ATAATATTTTATA
32299851 AATTT-TATA
1 AATTTCTATA
32299860 TTTAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 3 0.11
20 8 0.30
21 15 0.56
22 1 0.04
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (20 bp):
AATTTCTATAATATTTTATA
Found at i:32300840 original size:39 final size:41
Alignment explanation
Indices: 32300748--32300846 Score: 123
Period size: 39 Copynumber: 2.4 Consensus size: 41
32300738 TTAGATAACG
* *
32300748 TTATTGACAATAACAATATCGAAATTTTAAATTAAATAAATA
1 TTATTAACAATAA-AATATCAAAATTTTAAATTAAATAAATA
* *
32300790 TT-TGTAACAATAAAATATCAAAATTTTATATT-AA-GAATA
1 TTAT-TAACAATAAAATATCAAAATTTTAAATTAAATAAATA
32300829 TTATTAACAATAAAATAT
1 TTATTAACAATAAAATAT
32300847 TTATAGTGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
39 20 0.39
40 3 0.06
41 18 0.35
42 10 0.20
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.37
Consensus pattern (41 bp):
TTATTAACAATAAAATATCAAAATTTTAAATTAAATAAATA
Found at i:32301484 original size:15 final size:16
Alignment explanation
Indices: 32301464--32301498 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
32301454 AATTAAACTT
32301464 AAATGA-CTAAATCTG
1 AAATGATCTAAATCTG
*
32301479 AAATGATCTAAATTTG
1 AAATGATCTAAATCTG
32301495 AAAT
1 AAAT
32301499 AATCCGTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (16 bp):
AAATGATCTAAATCTG
Found at i:32309161 original size:12 final size:11
Alignment explanation
Indices: 32309138--32309185 Score: 53
Period size: 12 Copynumber: 4.3 Consensus size: 11
32309128 TAAGTCTAAG
32309138 AAAATAACAATA
1 AAAATAA-AATA
*
32309150 AACATAAAAATA
1 AAAAT-AAAATA
32309162 AAAATAAAAT-
1 AAAATAAAATA
*
32309172 AAAATAAAACA
1 AAAATAAAATA
32309183 AAA
1 AAA
32309186 CAAATGGACT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 9 0.29
11 8 0.26
12 12 0.39
13 2 0.06
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:32309161 original size:18 final size:17
Alignment explanation
Indices: 32309138--32309180 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
32309128 TAAGTCTAAG
*
32309138 AAAATAACAATAAACATA
1 AAAATAAAAATAAA-ATA
32309156 AAAATAAAAATAAAAT-
1 AAAATAAAAATAAAATA
32309172 AAAATAAAA
1 AAAATAAAA
32309181 CAAAACAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 9 0.38
17 2 0.08
18 13 0.54
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAATAAAAATAAAATA
Found at i:32309189 original size:5 final size:5
Alignment explanation
Indices: 32309138--32309185 Score: 51
Period size: 5 Copynumber: 8.8 Consensus size: 5
32309128 TAAGTCTAAG
*
32309138 AAAAT AACAAT AAACAT AAAAAT AAAAAT AAAAT AAAAT AAAAC AAAA
1 AAAAT AA-AAT AAA-AT -AAAAT -AAAAT AAAAT AAAAT AAAAT AAAA
32309186 CAAATGGACT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
5 21 0.54
6 15 0.38
7 3 0.08
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:32327060 original size:45 final size:44
Alignment explanation
Indices: 32326996--32327172 Score: 223
Period size: 45 Copynumber: 4.0 Consensus size: 44
32326986 ACCGGGTACC
* * * *
32326996 ATTGATTATAAAAGTGGTTGCTGGGTGTTGATTCCATCGAGTAT
1 ATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCACCGAGTAT
32327040 AATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCACCGAGTACT
1 -ATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCACCGAGTA-T
* *
32327086 ATTGATTATGAAGGTGGTTGCTATGTGCTGATTCCACCGAGTAT
1 ATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCACCGAGTAT
* * * *
32327130 CATTGACTATAAGGGTGG-TGCTATGTGCTGA-TCCACCGTGTAT
1 -ATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCACCGAGTAT
32327173 CTGTTATTAT
Statistics
Matches: 120, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
43 11 0.09
44 14 0.12
45 94 0.78
46 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.36
Consensus pattern (44 bp):
ATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCACCGAGTAT
Found at i:32334771 original size:17 final size:18
Alignment explanation
Indices: 32334731--32334772 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
32334721 GATCTAAATT
* *
32334731 AATAATTTCATTCAATAT
1 AATAATTTCATACAATAA
*
32334749 ATTAATTT-ATACAATAA
1 AATAATTTCATACAATAA
32334766 AATAATT
1 AATAATT
32334773 CATTTCATGC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (18 bp):
AATAATTTCATACAATAA
Found at i:32338454 original size:12 final size:12
Alignment explanation
Indices: 32338435--32338464 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
32338425 CCTTACACGC
32338435 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
32338447 CTGTGTGCTAGG
1 CCGTGTGCTAGG
32338459 CCGTGT
1 CCGTGT
32338465 AAAACCAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.23, G:0.40, T:0.30
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:32347340 original size:17 final size:17
Alignment explanation
Indices: 32347318--32347380 Score: 81
Period size: 17 Copynumber: 3.5 Consensus size: 17
32347308 CCTTCTCAAA
*
32347318 TTCTTTTTCGATTTCTT
1 TTCTTTTTCAATTTCTT
*
32347335 TTCTTTTTCAATTTTTT
1 TTCTTTTTCAATTTCTT
32347352 TTCTGTTTTTCAATTTCTT
1 TTC--TTTTTCAATTTCTT
32347371 TCTCTTTTTC
1 T-TCTTTTTC
32347381 TTCTTTTTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
17 18 0.45
18 6 0.15
19 14 0.35
20 2 0.05
ACGTcount: A:0.08, C:0.17, G:0.03, T:0.71
Consensus pattern (17 bp):
TTCTTTTTCAATTTCTT
Found at i:32354105 original size:19 final size:19
Alignment explanation
Indices: 32354083--32354120 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
32354073 TCAATCATCC
32354083 CTCATCACATCA-TCTCTCA
1 CTCAT-ACATCATTCTCTCA
*
32354102 CTCATTCATCATTCTCTCA
1 CTCATACATCATTCTCTCA
32354121 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.24, C:0.39, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATACATCATTCTCTCA
Found at i:32367425 original size:157 final size:157
Alignment explanation
Indices: 32367137--32367456 Score: 568
Period size: 157 Copynumber: 2.0 Consensus size: 157
32367127 AATTATTCTT
* *
32367137 GGAAGACCTTTTCTTGCTATAGACAGGACTTTAATTGATGTGCAGAAAGGTGAACTGACTATGAG
1 GGAAGACCTTTTCTTGCTACAGACAGGACTTTAATTGATGTGCAGAAAGGTGAACTAACTATGAG
*
32367202 GATGAATGATCAACATGTCACATTCAATGTTTTTAATGCGCTAATGATAATGAAGAATGTCGTGC
66 GATGAATGATCAACATGTCACATTCAATGTTTTTAATGCGCTAATGATAATGAAGAATGTCATGC
32367267 CATTGACTTGAGAGGAGTAGCAGTGGA
131 CATTGACTTGAGAGGAGTAGCAGTGGA
* *
32367294 GGAAGACCTTTTCTTGCTACATATAGGACTTTAATTGATGTGCAGAAAGGTGAACTAACTATGAG
1 GGAAGACCTTTTCTTGCTACAGACAGGACTTTAATTGATGTGCAGAAAGGTGAACTAACTATGAG
* *
32367359 GATGAATGATCAGCATGTCACATTCAATGTTTTTAATGCGCTAATTATAATGAAGAATGTCATGC
66 GATGAATGATCAACATGTCACATTCAATGTTTTTAATGCGCTAATGATAATGAAGAATGTCATGC
*
32367424 CATTGACTTGATAGGAGTAGCAGTGGA
131 CATTGACTTGAGAGGAGTAGCAGTGGA
32367451 GGAAGA
1 GGAAGA
32367457 GTTCACGAGA
Statistics
Matches: 155, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
157 155 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (157 bp):
GGAAGACCTTTTCTTGCTACAGACAGGACTTTAATTGATGTGCAGAAAGGTGAACTAACTATGAG
GATGAATGATCAACATGTCACATTCAATGTTTTTAATGCGCTAATGATAATGAAGAATGTCATGC
CATTGACTTGAGAGGAGTAGCAGTGGA
Found at i:32381378 original size:5 final size:5
Alignment explanation
Indices: 32381368--32381394 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
32381358 GCATTAGAAC
32381368 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT
32381395 ACTTTGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:32389202 original size:51 final size:50
Alignment explanation
Indices: 32389070--32389257 Score: 225
Period size: 51 Copynumber: 3.7 Consensus size: 50
32389060 TATCATTTGA
* * * *
32389070 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTTTCTAG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACCTTCCAG
*
32389120 TTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAGCCTTCCAG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAA-CCTTCCAG
* * * * * * *
32389171 TACACATAGTAGCCTGTACATTGTACTACACATGTGACCATTATCTATCGA-
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-AACCT-TCCAG
*
32389222 TACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTG
32389258 TTTATAGGCA
Statistics
Matches: 117, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
50 39 0.33
51 74 0.63
52 4 0.03
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (50 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACCTTCCAG
Found at i:32394021 original size:19 final size:18
Alignment explanation
Indices: 32393975--32394022 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
32393965 GATAGAATTT
*
32393975 TTGTCATAAAATAATTAAT
1 TTGT-ATAAAATAATTAAA
*
32393994 TTTTATAAAATAATTAAA
1 TTGTATAAAATAATTAAA
32394012 TTGTATTAAAA
1 TTGTA-TAAAA
32394023 ATTTGAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (18 bp):
TTGTATAAAATAATTAAA
Found at i:32394654 original size:14 final size:14
Alignment explanation
Indices: 32394631--32394660 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
32394621 CATCCCTCAT
*
32394631 TCACATCTCTTCTC
1 TCACAACTCTTCTC
32394645 TCACAACTCTTCTC
1 TCACAACTCTTCTC
32394659 TC
1 TC
32394661 CTCTCTCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.43, G:0.00, T:0.40
Consensus pattern (14 bp):
TCACAACTCTTCTC
Found at i:32400268 original size:82 final size:82
Alignment explanation
Indices: 32400069--32400286 Score: 238
Period size: 82 Copynumber: 2.7 Consensus size: 82
32400059 GTGTAATCAA
* * * * * ** *
32400069 GGCACGTAAGTGCTATTCAAGGGTACCGAAGTATAAAAAGGGACACATAGGTGTTACTCATGGGT
1 GGCACGTATGTGCAATTCAAGGGTACCGAAGTACAAAAAGGGGCACATATGTGCGACTCAAGGGT
*
32400134 ACCAAAGTACAAACAAG
66 ACCAAAGTAAAAACAAG
* * *** * *
32400151 GGCACGTATATGCAATTTAAGGGTTTTGAAGTACAAAAAGGGGCACATATGTGCGATTTAAGGGT
1 GGCACGTATGTGCAATTCAAGGGTACCGAAGTACAAAAAGGGGCACATATGTGCGACTCAAGGGT
* * *
32400216 ACCGAAGTAAAAATAGG
66 ACCAAAGTAAAAACAAG
* * *
32400233 GGCACGTATGTGCAATTCAGGGGTACCGAACTACAAATAGGGGCACATATGTGC
1 GGCACGTATGTGCAATTCAAGGGTACCGAAGTACAAAAAGGGGCACATATGTGC
32400287 AATTCAGGGA
Statistics
Matches: 109, Mismatches: 27, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
82 109 1.00
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.22
Consensus pattern (82 bp):
GGCACGTATGTGCAATTCAAGGGTACCGAAGTACAAAAAGGGGCACATATGTGCGACTCAAGGGT
ACCAAAGTAAAAACAAG
Found at i:32400269 original size:123 final size:123
Alignment explanation
Indices: 32400069--32400290 Score: 275
Period size: 123 Copynumber: 1.8 Consensus size: 123
32400059 GTGTAATCAA
* * ** *
32400069 GGCACGTAAGTGCTATTCAAGGGTACCGAAGTATAAAAAGGGACACATAGGTGTTACTCATGGGT
1 GGCACATAAGTGCGATTCAAGGGTACCGAAGTATAAAAAGGGACACATAGGTGCAACTCAGGGGT
* *
32400134 ACCAAAGTACAAACAAGGGCACGTATATGCAATTTAAGGGTTTTGAAGTACAAAAAGG
66 ACCAAACTACAAACAAGGGCACATATATGCAATTTAAGGGTTTTGAAGTACAAAAAGG
* * * * * *
32400192 GGCACATATGTGCGATTTAAGGGTACCGAAGTA-AAAATAGGGGCACGTATGTGCAATTCAGGGG
1 GGCACATAAGTGCGATTCAAGGGTACCGAAGTATAAAA-AGGGACACATAGGTGCAACTCAGGGG
* * * *
32400256 TACCGAACTACAAATAGGGGCACATATGTGCAATT
65 TACCAAACTACAAACAAGGGCACATATATGCAATT
32400291 CAGGGAATAA
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
122 4 0.05
123 77 0.95
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (123 bp):
GGCACATAAGTGCGATTCAAGGGTACCGAAGTATAAAAAGGGACACATAGGTGCAACTCAGGGGT
ACCAAACTACAAACAAGGGCACATATATGCAATTTAAGGGTTTTGAAGTACAAAAAGG
Found at i:32400295 original size:41 final size:41
Alignment explanation
Indices: 32400069--32400292 Score: 209
Period size: 41 Copynumber: 5.5 Consensus size: 41
32400059 GTGTAATCAA
* * * *
32400069 GGCACGTAAGTGCTATTCAAGGGTACCGAAGTATAAAAAGG
1 GGCACATATGTGCAATTCAAGGGTACCGAAGTACAAAAAGG
* * ** * * *
32400110 GACACATAGGTGTTACTCATGGGTACCAAAGTACAAACAA-G
1 GGCACATATGTGCAATTCAAGGGTACCGAAGTACAAA-AAGG
* * * ***
32400151 GGCACGTATATGCAATTTAAGGGTTTTGAAGTACAAAAAGG
1 GGCACATATGTGCAATTCAAGGGTACCGAAGTACAAAAAGG
* *
32400192 GGCACATATGTGCGATTTAAGGGTACCGAAGTA-AAAATAGG
1 GGCACATATGTGCAATTCAAGGGTACCGAAGTACAAAA-AGG
* * * *
32400233 GGCACGTATGTGCAATTCAGGGGTACCGAACTACAAATAGG
1 GGCACATATGTGCAATTCAAGGGTACCGAAGTACAAAAAGG
32400274 GGCACATATGTGCAATTCA
1 GGCACATATGTGCAATTCA
32400293 GGGAATAATT
Statistics
Matches: 145, Mismatches: 34, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
40 6 0.04
41 134 0.92
42 5 0.03
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.22
Consensus pattern (41 bp):
GGCACATATGTGCAATTCAAGGGTACCGAAGTACAAAAAGG
Found at i:32416422 original size:39 final size:39
Alignment explanation
Indices: 32416334--32416488 Score: 197
Period size: 39 Copynumber: 3.9 Consensus size: 39
32416324 TTAGACAAAC
* *
32416334 ATTAATGATG-TCAGAATTTAAGACACTTAATTAAA-ACACAT
1 ATTAATGATGTTCA-AA-CTAAGACA--TAATTAAAGACATAT
*
32416375 ATTAATGATGTTCAAAATAAGACATAATTAAAGACATAT
1 ATTAATGATGTTCAAACTAAGACATAATTAAAGACATAT
* *
32416414 ATTAATGATGTTTAAACTAAGACATAATTAAATACATAT
1 ATTAATGATGTTCAAACTAAGACATAATTAAAGACATAT
* *
32416453 ATTAATGATGTTTAAACTAAGACATAATTAAGGACA
1 ATTAATGATGTTCAAACTAAGACATAATTAAAGACA
32416489 CAAACTAAAA
Statistics
Matches: 105, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
38 8 0.08
39 75 0.71
40 7 0.07
41 12 0.11
42 3 0.03
ACGTcount: A:0.48, C:0.09, G:0.10, T:0.32
Consensus pattern (39 bp):
ATTAATGATGTTCAAACTAAGACATAATTAAAGACATAT
Found at i:32421734 original size:42 final size:42
Alignment explanation
Indices: 32421668--32421797 Score: 170
Period size: 42 Copynumber: 3.1 Consensus size: 42
32421658 CCACCACCAA
* * * *
32421668 GCCCACCCGGAATAGTTCCAAACCCGCCGATTATATTTCCAG
1 GCCCACCCGGAATAGTCCCGAACCCACCGAGTATATTTCCAG
* *
32421710 GCCCACCCGGAATAGTCCCGAACCCACCTAGTATTTTTCCAG
1 GCCCACCCGGAATAGTCCCGAACCCACCGAGTATATTTCCAG
* * * *
32421752 GCCCACCTGGAATAGTCCCGAACCCACCTAGTATTTTTCCAA
1 GCCCACCCGGAATAGTCCCGAACCCACCGAGTATATTTCCAG
32421794 GCCC
1 GCCC
32421798 TCCACAAGCA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 80 1.00
ACGTcount: A:0.25, C:0.38, G:0.16, T:0.22
Consensus pattern (42 bp):
GCCCACCCGGAATAGTCCCGAACCCACCGAGTATATTTCCAG
Found at i:32421777 original size:21 final size:21
Alignment explanation
Indices: 32421711--32421780 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
32421701 TATTTCCAGG
*
32421711 CCCACCCGGAATAGTCCCGAA
1 CCCACCTGGAATAGTCCCGAA
* * ** * *
32421732 CCCACCTAGTATTTTTCC-AGG
1 CCCACCTGGAATAGTCCCGA-A
32421753 CCCACCTGGAATAGTCCCGAA
1 CCCACCTGGAATAGTCCCGAA
32421774 CCCACCT
1 CCCACCT
32421781 AGTATTTTTC
Statistics
Matches: 34, Mismatches: 13, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
20 1 0.03
21 32 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.41, G:0.16, T:0.19
Consensus pattern (21 bp):
CCCACCTGGAATAGTCCCGAA
Found at i:32424951 original size:12 final size:12
Alignment explanation
Indices: 32424931--32424964 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
32424921 TTTCATTGAC
*
32424931 TCTTCTTTTTTT
1 TCTTTTTTTTTT
*
32424943 TCTTTTTTTCTT
1 TCTTTTTTTTTT
32424955 TCTTTTTTTT
1 TCTTTTTTTT
32424965 GTTTTTTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TCTTTTTTTTTT
Found at i:32432636 original size:194 final size:195
Alignment explanation
Indices: 32432307--32432704 Score: 728
Period size: 194 Copynumber: 2.0 Consensus size: 195
32432297 ACACAATAGC
*
32432307 AATAAAAAAGTCAAACTATATTCAAGAAAACAATGTGAAAAAGCGCAAGAAGCCAATGACCAACA
1 AATAAAAAAGTCAAACTAAATTCAAGAAAACAATGTGAAAAAGCGCAAGAAGCCAATGACCAACA
32432372 CTTCACCACAGCAAAAATGAAAATGCACAAATGGTTTTGCAATCAAATTTAATAGTAAAGATCTT
66 CTTCACCACAGCAAAAATGAAAATGCACAAATGGTTTTGCAATCAAATTTAATAGTAAAGATCTT
*
32432437 AATGTAACAGAAGATAGCAATCA-TTTTTTT-TTTAAAATATCAGTACCATATTTTGGCGAACAC
131 AATGTAA-AGAAGATAGCAATCATTTTTTTTGTTTAAAATATCAGTACCATATTTTGGCAAACAC
32432500 A
195 A
32432501 AATAAAAAAGTCAAACTAAATTCAAGAAAACAATGTGAAAAAGCGCAAGAAGCCAATGACCAACA
1 AATAAAAAAGTCAAACTAAATTCAAGAAAACAATGTGAAAAAGCGCAAGAAGCCAATGACCAACA
*
32432566 CTTCACCACAGCAAAAATGAAAATGCACAAATGGTTTTGCGATCAAATTTAATAGTAAAGATCTT
66 CTTCACCACAGCAAAAATGAAAATGCACAAATGGTTTTGCAATCAAATTTAATAGTAAAGATCTT
*
32432631 AATGTAAAGAAGATAGCAATCATTTTTTTTGTTTTAAATATCAGTACCATATTTTGGCAAACACA
131 AATGTAAAGAAGATAGCAATCATTTTTTTTGTTTAAAATATCAGTACCATATTTTGGCAAACACA
32432696 AAGTAAAAA
1 AA-TAAAAA
32432705 TTTTAGGTCT
Statistics
Matches: 197, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
193 15 0.08
194 142 0.72
195 34 0.17
196 6 0.03
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.25
Consensus pattern (195 bp):
AATAAAAAAGTCAAACTAAATTCAAGAAAACAATGTGAAAAAGCGCAAGAAGCCAATGACCAACA
CTTCACCACAGCAAAAATGAAAATGCACAAATGGTTTTGCAATCAAATTTAATAGTAAAGATCTT
AATGTAAAGAAGATAGCAATCATTTTTTTTGTTTAAAATATCAGTACCATATTTTGGCAAACACA
Found at i:32435146 original size:15 final size:15
Alignment explanation
Indices: 32435126--32435157 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
32435116 TTTTGTTTTA
32435126 GAGTTCTACCAACAT
1 GAGTTCTACCAACAT
*
32435141 GAGTTCTACCAATAT
1 GAGTTCTACCAACAT
32435156 GA
1 GA
32435158 TTGGATAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (15 bp):
GAGTTCTACCAACAT
Found at i:32436044 original size:22 final size:22
Alignment explanation
Indices: 32436019--32436065 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
32436009 GAGTCGTGGA
*
32436019 GGACTGGAGGTGGATCGGTGCC
1 GGACCGGAGGTGGATCGGTGCC
*
32436041 GGACCGGAGGTGGATTGGTGCC
1 GGACCGGAGGTGGATCGGTGCC
32436063 GGA
1 GGA
32436066 GGTGAAGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.15, C:0.17, G:0.51, T:0.17
Consensus pattern (22 bp):
GGACCGGAGGTGGATCGGTGCC
Found at i:32436192 original size:22 final size:22
Alignment explanation
Indices: 32436167--32436213 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
32436157 GAGCCGTGGA
32436167 GGAC-CGAAGGTGGATCGGTGTC
1 GGACTCGAA-GTGGATCGGTGTC
*
32436189 GGACTGGAAGTGGATCGGTGTC
1 GGACTCGAAGTGGATCGGTGTC
32436211 GGA
1 GGA
32436214 GTTGAAGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.19, C:0.15, G:0.47, T:0.19
Consensus pattern (22 bp):
GGACTCGAAGTGGATCGGTGTC
Found at i:32441091 original size:31 final size:31
Alignment explanation
Indices: 32441050--32441126 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
32441040 ATTTAAAAAA
32441050 TTGTT-ATTTTAGTCAC-T-CATGGTAGATAAG
1 TTGTTAATTTTAGTCACTTCCAT--TAGATAAG
*
32441080 TTGTTAATTTTAGTTACTTCCATTAGATAAG
1 TTGTTAATTTTAGTCACTTCCATTAGATAAG
* *
32441111 TAGTCAATTTTAGTCA
1 TTGTTAATTTTAGTCA
32441127 TTTTACCGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 5 0.12
31 31 0.77
32 1 0.03
33 3 0.08
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.45
Consensus pattern (31 bp):
TTGTTAATTTTAGTCACTTCCATTAGATAAG
Found at i:32441559 original size:30 final size:31
Alignment explanation
Indices: 32441490--32441563 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
32441480 AAAATTTGTT
* ** **
32441490 ATTTTAGTCACTCTTGTTAGATAAGTTGTTA
1 ATTTTAGCCACTCCCGTTAGATAAGTTGACA
*
32441521 ATTTTAGCCACTCCCGTTAGGTAAGTTGACA
1 ATTTTAGCCACTCCCGTTAGATAAGTTGACA
32441552 A-TTTAGCCACTC
1 ATTTTAGCCACTC
32441564 TACCGTTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 11 0.30
31 26 0.70
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (31 bp):
ATTTTAGCCACTCCCGTTAGATAAGTTGACA
Found at i:32442589 original size:21 final size:21
Alignment explanation
Indices: 32442558--32442597 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
32442548 ATTTATAAAT
32442558 TTTAATAATTTTTAAATTTCAA
1 TTTAATAATTTTT-AATTTCAA
32442580 TTTAA-AATTTTTAATTTC
1 TTTAATAATTTTTAATTTC
32442598 TAAAATCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 7 0.39
22 5 0.28
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTAATAATTTTTAATTTCAA
Found at i:32442804 original size:31 final size:31
Alignment explanation
Indices: 32442767--32442842 Score: 125
Period size: 31 Copynumber: 2.5 Consensus size: 31
32442757 TTTAAACCAT
*
32442767 AGAGTGACTAAAATTGACAACTTATTTAACA
1 AGAGTGACTAAAATTGACAACTTATCTAACA
*
32442798 CGAGTGACTAAAATTGACAACTTATCTAACA
1 AGAGTGACTAAAATTGACAACTTATCTAACA
*
32442829 AGAGGGACTAAAAT
1 AGAGTGACTAAAAT
32442843 AATAAATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (31 bp):
AGAGTGACTAAAATTGACAACTTATCTAACA
Found at i:32443853 original size:12 final size:12
Alignment explanation
Indices: 32443836--32443881 Score: 53
Period size: 11 Copynumber: 4.0 Consensus size: 12
32443826 AACTAATCCT
32443836 CTCTCAAATTTC
1 CTCTCAAATTTC
*
32443848 CTCTC-AATTTG
1 CTCTCAAATTTC
32443859 CTCTCAAA-TTC
1 CTCTCAAATTTC
32443870 CT-TCCAAATTTC
1 CTCT-CAAATTTC
32443882 TCTAAAATCC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
10 1 0.03
11 18 0.62
12 10 0.34
ACGTcount: A:0.24, C:0.33, G:0.02, T:0.41
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:32443884 original size:22 final size:21
Alignment explanation
Indices: 32443835--32443889 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
32443825 AAACTAATCC
32443835 TCTCTCAAATTTCCTCTCAATT
1 TCTCTCAAA-TTCCTCTCAATT
32443857 TGCTCTCAAATTCCT-TCCAAATT
1 T-CTCTCAAATTCCTCT-C-AATT
*
32443880 TCTCTAAAAT
1 TCTCTCAAAT
32443890 CCATATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
21 1 0.03
22 15 0.52
23 13 0.45
ACGTcount: A:0.27, C:0.29, G:0.02, T:0.42
Consensus pattern (21 bp):
TCTCTCAAATTCCTCTCAATT
Found at i:32443930 original size:51 final size:50
Alignment explanation
Indices: 32443849--32443948 Score: 121
Period size: 51 Copynumber: 2.0 Consensus size: 50
32443839 TCAAATTTCC
*
32443849 TCTCAATTTGCTCTCAAATTCCTTCCAAATTTCTCTAAAATCCATATTTAA
1 TCTCAATTTACTCTCAAATTCCTT-CAAATTTCTCTAAAATCCATATTTAA
* * * *
32443900 TCTCAATTTACTCTCAATTTGCTCTT-AAATTTCTTTTAAATCCCTATTT
1 TCTCAATTTACTCTCAAATT-C-CTTCAAATTTCTCTAAAATCCATATTT
32443949 TTAAATAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
51 38 0.90
52 1 0.02
53 3 0.07
ACGTcount: A:0.28, C:0.24, G:0.02, T:0.46
Consensus pattern (50 bp):
TCTCAATTTACTCTCAAATTCCTTCAAATTTCTCTAAAATCCATATTTAA
Found at i:32445787 original size:18 final size:18
Alignment explanation
Indices: 32445760--32445799 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
32445750 CAGGTGCGTT
* *
32445760 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
32445778 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
32445796 TCCT
1 TCCT
32445800 TTTTCGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:32446365 original size:22 final size:22
Alignment explanation
Indices: 32446340--32446624 Score: 307
Period size: 22 Copynumber: 13.0 Consensus size: 22
32446330 TTTAATTGTC
32446340 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
32446362 AAACCCTAACCCTAACCCTTAACTTAA
1 AAACCCT-A----AACCCTTAACTTAA
*
32446389 AAACTCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
**
32446410 AAACCCTAAACTTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
32446432 AAACCCTAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
32446454 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
32446476 AAACCCT-AACCATTGACTTTA
1 AAACCCTAAACCCTTAACTTAA
32446497 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* ****
32446519 AAACCCT-AACTC-TAACCCCT
1 AAACCCTAAACCCTTAACTTAA
* * *
32446539 AAACCAT-AATCCTTGAA-TAAA
1 AAACCCTAAACCCTT-AACTTAA
32446560 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
32446582 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
**
32446603 AAATTCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
32446624 A
1 A
32446625 TATAATTTGA
Statistics
Matches: 221, Mismatches: 31, Indels: 23
0.80 0.11 0.08
Matches are distributed among these distances:
20 13 0.06
21 85 0.38
22 102 0.46
23 1 0.00
27 20 0.09
ACGTcount: A:0.44, C:0.31, G:0.01, T:0.25
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Done.