Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 44 of 91
Found at i:15201316 original size:19 final size:20
Alignment explanation
Indices: 15201294--15201334 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
15201284 ACAAAAGGAA
15201294 ATTTTTA-GAATAAAATAAT
1 ATTTTTATGAATAAAATAAT
*
15201313 A-TTTTATTAATAAAATAAT
1 ATTTTTATGAATAAAATAAT
15201332 ATT
1 ATT
15201335 AAAATATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 5 0.26
19 13 0.68
20 1 0.05
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
ATTTTTATGAATAAAATAAT
Found at i:15236338 original size:12 final size:12
Alignment explanation
Indices: 15236321--15236362 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
15236311 TCGAAGGAAA
15236321 AAAATAAATAAT
1 AAAATAAATAAT
*
15236333 AAAATAAAAAAT
1 AAAATAAATAAT
15236345 AAATATAAATATAT
1 AAA-ATAAATA-AT
15236359 AAAA
1 AAAA
15236363 AATAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 14 0.54
13 7 0.27
14 5 0.19
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAATAAATAAT
Found at i:15236352 original size:21 final size:20
Alignment explanation
Indices: 15236319--15236369 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
15236309 GCTCGAAGGA
15236319 AAAAAAT-AAAT-AATAAAAT
1 AAAAAATAAAATAAAT-AAAT
*
15236338 AAAAAATAAATATAAATATAT
1 AAAAAATAAA-ATAAATAAAT
15236359 AAAAAATAAAA
1 AAAAAATAAAA
15236370 ATATTGATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 7 0.25
20 3 0.11
21 15 0.54
22 3 0.11
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (20 bp):
AAAAAATAAAATAAATAAAT
Found at i:15246301 original size:2 final size:2
Alignment explanation
Indices: 15246294--15246332 Score: 51
Period size: 2 Copynumber: 19.0 Consensus size: 2
15246284 TTGTGGTGAA
* *
15246294 AT AT AT AT AT AT AT AT AT AT AT CT AA AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
15246333 GTATTGATAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:15248316 original size:22 final size:23
Alignment explanation
Indices: 15248282--15248328 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
15248272 ATTTCTATGC
15248282 ATTACTATAAAAAATAAG-CCAA
1 ATTACTATAAAAAATAAGCCCAA
* * *
15248304 ATTATTATCAAAATTAAGCCCAA
1 ATTACTATAAAAAATAAGCCCAA
15248327 AT
1 AT
15248329 AACTCTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.53, C:0.15, G:0.04, T:0.28
Consensus pattern (23 bp):
ATTACTATAAAAAATAAGCCCAA
Found at i:15249646 original size:292 final size:292
Alignment explanation
Indices: 15249122--15249713 Score: 1044
Period size: 292 Copynumber: 2.0 Consensus size: 292
15249112 GTGAGGGTTG
** *
15249122 CAAAATTGGAAATTTAATTTTAAGGCTAAGCTCAATTGTTATGTAGTTAAACAAAGAAAAGGGAA
1 CAAAATTGGAAATTTAATACTAAGGCTAAGCTCAATTATTATGTAGTTAAACAAAGAAAAGGGAA
15249187 ATTAGGCTCAAAAGGGGTATACTAGGGATAAAATTTAACAAGGTTGGCCTTTTAGGCTTAAAAGG
66 ATTAGGCTCAAAAGGGGTATACTAGGGATAAAATTTAACAAGGTTGGCCTTTTAGGCTTAAAAGG
* *
15249252 TCCAAAGATGGCCTAGATCATCTCCCTAACTAAGTATTGCCTAGCATTTCGTCTCGAGAGAAAAT
131 TCCAAAAATGGCCTAGATCATCTCCCTAACTAAGTATTGCCTAGCATTTCGCCTCGAGAGAAAAT
15249317 CAAGTAAATTCTAGAATTCATGACATAATCTAAAATTCATATCAATATAAACCTT-CTCTAGATA
196 CAAGTAAATTCTAGAATTCATGACATAATCTAAAATTCATATCAATATAAACCTTCCT-TAGATA
15249381 TTCAAAATAATTCAAAGTAAAAGATATAGTGCT
260 TTCAAAATAATTCAAAGTAAAAGATATAGTGCT
15249414 CAAAATTGGAAATTTAATACTAAGGCTAAGCTCAATTATTATGTAGTTAAACAAAGAAAAGGGAA
1 CAAAATTGGAAATTTAATACTAAGGCTAAGCTCAATTATTATGTAGTTAAACAAAGAAAAGGGAA
* *
15249479 ATTAGGCTCAAAAGGGGTATACTAGGGATAAAATTTAACAAGGTTGGCTTTTTAGG-TTCAAACG
66 ATTAGGCTCAAAAGGGGTATACTAGGGATAAAATTTAACAAGGTTGGCCTTTTAGGCTT-AAAAG
* * *
15249543 GTCCAAAAATGGCCTAGATCATCTCCCTAACTAAGTATTGCCTAGGATTTTGCCTTGAGAGAAAA
130 GTCCAAAAATGGCCTAGATCATCTCCCTAACTAAGTATTGCCTAGCATTTCGCCTCGAGAGAAAA
* *
15249608 TCAAGTAAATTCTAGAATTCATGATATAATCTAAAATTCATATCAATATAAACGTTCCTTAGATA
195 TCAAGTAAATTCTAGAATTCATGACATAATCTAAAATTCATATCAATATAAACCTTCCTTAGATA
15249673 TTCAAAATAATTCAAAGTAAAAGATATAGTGCT
260 TTCAAAATAATTCAAAGTAAAAGATATAGTGCT
15249706 CAAAATTG
1 CAAAATTG
15249714 TGGAAATCAC
Statistics
Matches: 286, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
291 2 0.01
292 282 0.99
293 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (292 bp):
CAAAATTGGAAATTTAATACTAAGGCTAAGCTCAATTATTATGTAGTTAAACAAAGAAAAGGGAA
ATTAGGCTCAAAAGGGGTATACTAGGGATAAAATTTAACAAGGTTGGCCTTTTAGGCTTAAAAGG
TCCAAAAATGGCCTAGATCATCTCCCTAACTAAGTATTGCCTAGCATTTCGCCTCGAGAGAAAAT
CAAGTAAATTCTAGAATTCATGACATAATCTAAAATTCATATCAATATAAACCTTCCTTAGATAT
TCAAAATAATTCAAAGTAAAAGATATAGTGCT
Found at i:15258340 original size:37 final size:37
Alignment explanation
Indices: 15258227--15258333 Score: 187
Period size: 37 Copynumber: 2.9 Consensus size: 37
15258217 CATATGCATT
15258227 CATCATCATGTGTGCACTCCCTACTCGCACACTCTAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTCTAA
* * *
15258264 CATCATCATCTGTGCACTCTCTACTCGCACCCTCTAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTCTAA
15258301 CATCATCATGTGTGCACTCCCTACTCGCACACT
1 CATCATCATGTGTGCACTCCCTACTCGCACACT
15258334 TCAACATACT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.22, C:0.39, G:0.10, T:0.28
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCGCACACTCTAA
Found at i:15271007 original size:28 final size:29
Alignment explanation
Indices: 15270966--15271025 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
15270956 GTCTATGGGC
*
15270966 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
15270994 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
15271024 AA
1 AA
15271026 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:15275580 original size:19 final size:19
Alignment explanation
Indices: 15275556--15275619 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
15275546 CATCCCCCCA
15275556 CATCGTGCACAATCAGTGC
1 CATCGTGCACAATCAGTGC
** ****
15275575 CATCGTGTGC-ATCCCCCC
1 CATCGTGCACAATCAGTGC
15275593 ACATCGTGCACAATCAGTGC
1 -CATCGTGCACAATCAGTGC
15275613 CATCGTG
1 CATCGTG
15275620 TACATCCCCC
Statistics
Matches: 31, Mismatches: 12, Indels: 4
0.66 0.26 0.09
Matches are distributed among these distances:
18 4 0.13
19 23 0.74
20 4 0.13
ACGTcount: A:0.22, C:0.36, G:0.20, T:0.22
Consensus pattern (19 bp):
CATCGTGCACAATCAGTGC
Found at i:15275592 original size:38 final size:38
Alignment explanation
Indices: 15275506--15275642 Score: 188
Period size: 38 Copynumber: 3.6 Consensus size: 38
15275496 GGCTCATGTA
* * *
15275506 CATCCCCCCACATCGTGCACATAGCCG-GCACCATTGTGTG
1 CATCCCCCCACATCGTGCACA-ATCAGTG--CCATCGTGTG
15275546 CATCCCCCCACATCGTGCACAATCAGTGCCATCGTGTG
1 CATCCCCCCACATCGTGCACAATCAGTGCCATCGTGTG
*
15275584 CATCCCCCCACATCGTGCACAATCAGTGCCATCGTGTA
1 CATCCCCCCACATCGTGCACAATCAGTGCCATCGTGTG
*
15275622 CAT-CCCCCACATCATGCACAA
1 CATCCCCCCACATCGTGCACAA
15275643 GAGCACTATC
Statistics
Matches: 91, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
37 17 0.19
38 49 0.54
39 3 0.03
40 22 0.24
ACGTcount: A:0.23, C:0.41, G:0.16, T:0.20
Consensus pattern (38 bp):
CATCCCCCCACATCGTGCACAATCAGTGCCATCGTGTG
Found at i:15280589 original size:27 final size:28
Alignment explanation
Indices: 15280559--15280616 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
15280549 TCCCCAACCT
*
15280559 TTTCCTATTGGGCCATGCCCA-TTTTTC
1 TTTCCTATTGGGCCATGCCCACTCTTTC
* *
15280586 TTTCTTGTTGGGCCATGCCCACTCTTTC
1 TTTCCTATTGGGCCATGCCCACTCTTTC
15280614 TTT
1 TTT
15280617 TTTTCTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.09, C:0.29, G:0.16, T:0.47
Consensus pattern (28 bp):
TTTCCTATTGGGCCATGCCCACTCTTTC
Found at i:15280631 original size:5 final size:5
Alignment explanation
Indices: 15280617--15280666 Score: 63
Period size: 5 Copynumber: 10.6 Consensus size: 5
15280607 CTCTTTCTTT
15280617 TTTTC TTTTTC TTTTC TTTTC TTTTC TTTTC -TTTC -TTTC -TTTC -TTTC
1 TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
15280664 TTT
1 TTT
15280667 CACCGTCCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
4 16 0.37
5 22 0.51
6 5 0.12
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:15280653 original size:4 final size:4
Alignment explanation
Indices: 15280608--15280667 Score: 61
Period size: 4 Copynumber: 14.5 Consensus size: 4
15280598 CCATGCCCAC
*
15280608 TCTT TCTT TTTT TC-T T-TT TCTTT TCTTT TCTTT TCTTT TCTT TCTT
1 TCTT TCTT TCTT TCTT TCTT TC-TT TC-TT TC-TT TC-TT TCTT TCTT
15280654 TCTT TCTT TCTT TC
1 TCTT TCTT TCTT TC
15280668 ACCGTCCAAC
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
3 4 0.08
4 28 0.55
5 19 0.37
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TCTT
Found at i:15282608 original size:37 final size:37
Alignment explanation
Indices: 15282567--15282644 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
15282557 CATATGCATT
15282567 CATCATCATATGTGCACTCCCTACGCGCACAC-TCTAA
1 CATCATCATATGTGCACTCCCTACGCGCACACTTC-AA
* * *
15282604 CATCATCATGTGTGCACTCCCTACTCGTACACTTCAA
1 CATCATCATATGTGCACTCCCTACGCGCACACTTCAA
15282641 CATC
1 CATC
15282645 CTCACACAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.26, C:0.37, G:0.10, T:0.27
Consensus pattern (37 bp):
CATCATCATATGTGCACTCCCTACGCGCACACTTCAA
Found at i:15286099 original size:33 final size:34
Alignment explanation
Indices: 15286027--15286106 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 34
15286017 GTAGCTTTGG
*
15286027 CTGCTGATTTTTGAAGGGAAAACAGAGCAGCTTAG
1 CTGCTGA-TTTTGAAGGGAAAACAGAGCAGCTTAA
15286062 CTGCTGATTTTG-AGGAGAAATA-A-AGCAGCTTAA
1 CTGCTGATTTTGAAGG-GAAA-ACAGAGCAGCTTAA
*
15286095 CTGCTAATTTTG
1 CTGCTGATTTTG
15286107 GTGTGGATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 23 0.56
34 10 0.24
35 8 0.20
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (34 bp):
CTGCTGATTTTGAAGGGAAAACAGAGCAGCTTAA
Found at i:15286280 original size:13 final size:14
Alignment explanation
Indices: 15286262--15286310 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
15286252 TGGTCGGCTG
15286262 GAGAAAAGAG-GAA
1 GAGAAAAGAGAGAA
15286275 GAG-AAAGAGAGAA
1 GAGAAAAGAGAGAA
*
15286288 -AGAAAAGAAAAGAA
1 GAGAAAAG-AGAGAA
*
15286302 AAGAAAAGA
1 GAGAAAAGA
15286311 AAAGAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
12 8 0.26
13 10 0.32
14 6 0.19
15 7 0.23
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (14 bp):
GAGAAAAGAGAGAA
Found at i:15286283 original size:12 final size:12
Alignment explanation
Indices: 15286266--15286312 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 12
15286256 CGGCTGGAGA
15286266 AAAGAG-GAAGAG
1 AAAGAGAGAA-AG
15286278 AAAGAGAGAAAG
1 AAAGAGAGAAAG
15286290 AAA-AGA-AAAG
1 AAAGAGAGAAAG
15286300 AAA-AGA-AAAG
1 AAAGAGAGAAAG
15286310 AAA
1 AAA
15286313 AGAAAAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 17 0.50
11 3 0.09
12 11 0.32
13 3 0.09
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
AAAGAGAGAAAG
Found at i:15286296 original size:5 final size:5
Alignment explanation
Indices: 15286276--15286318 Score: 68
Period size: 5 Copynumber: 8.2 Consensus size: 5
15286266 AAAGAGGAAG
15286276 AGAAA GAGAGAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA -AGA-AA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA A
15286319 ATATATATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 28 0.78
6 6 0.17
7 2 0.06
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:15286326 original size:2 final size:2
Alignment explanation
Indices: 15286319--15286354 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
15286309 GAAAAGAAAA
* *
15286319 AT AT AT AT AT AT AT AT AT AT AT AT AT CT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15286355 GCATATAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:15292722 original size:36 final size:34
Alignment explanation
Indices: 15292682--15292769 Score: 83
Period size: 33 Copynumber: 2.6 Consensus size: 34
15292672 TAATTTTTGT
*
15292682 AGCTTTGGCTGCTAATTTTTGAAGG-GAAAATAAAGC
1 AGCTTTAGCTGCTAA-TTTTG-AGGAG-AAATAAAGC
* *
15292718 AGC-TTAGCTGTTAATTTTGAGGAGAAATAGAGC
1 AGCTTTAGCTGCTAATTTTGAGGAGAAATAAAGC
* *
15292751 AGC-TTAACTACTAATTTTG
1 AGCTTTAGCTGCTAATTTTG
15292770 GTGTGGATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
33 27 0.60
34 6 0.13
35 9 0.20
36 3 0.07
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (34 bp):
AGCTTTAGCTGCTAATTTTGAGGAGAAATAAAGC
Found at i:15292961 original size:5 final size:5
Alignment explanation
Indices: 15292930--15292998 Score: 77
Period size: 5 Copynumber: 13.2 Consensus size: 5
15292920 TCGGCTGGAG
* *
15292930 AGAAA AGGAAG AGAAA GAGAGAA AGAAA AGAAA AGAAA AGAAA AAAAA
1 AGAAA A-GAAA AGAAA -AGA-AA AGAAA AGAAA AGAAA AGAAA AGAAA
15292978 AGAGAA AGAAA AGAAA A-AAA A
1 AGA-AA AGAAA AGAAA AGAAA A
15292999 ATATATATCT
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
4 4 0.07
5 35 0.62
6 15 0.27
7 2 0.04
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:15296533 original size:55 final size:55
Alignment explanation
Indices: 15296386--15296539 Score: 227
Period size: 55 Copynumber: 2.8 Consensus size: 55
15296376 AACCACCAGC
* * *
15296386 TCATCAGCTTATGTGCACTCCCACACCGCACATAGCTAGAATCATCATCCACTGG
1 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCATCAGCCACTGG
* *
15296441 TCATCAGCTCATGTGCAATCTCACACCGCACATAGCTGGAATCATCAGCCACTGG
1 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCATCAGCCACTGG
* ** *
15296496 TCATTAGCTCATGTGCACTCCCACATTGCACATAGCTGAAATCA
1 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCA
15296540 CCCGTCATCA
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 88 1.00
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (55 bp):
TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCATCAGCCACTGG
Found at i:15297406 original size:20 final size:19
Alignment explanation
Indices: 15297374--15297419 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
15297364 AGAAGTAAGA
* *
15297374 AAAAAAAGGAAATGAAAAG
1 AAAACAAGGAAATCAAAAG
*
15297393 AAAACAAGGAAAATCAAATG
1 AAAACAAGG-AAATCAAAAG
15297413 AAAACAA
1 AAAACAA
15297420 ATTTGATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.72, C:0.07, G:0.15, T:0.07
Consensus pattern (19 bp):
AAAACAAGGAAATCAAAAG
Found at i:15300559 original size:43 final size:43
Alignment explanation
Indices: 15300499--15300585 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
15300489 GCAATATCAC
* * *
15300499 CATCATCAGCTGATGTGCACTCCCACACTGTACATAGCTGGGT
1 CATCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGGT
15300542 CATCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGGT
1 CATCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGGT
15300585 C
1 C
15300586 CACATTATCA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.23
Consensus pattern (43 bp):
CATCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGGT
Found at i:15306421 original size:86 final size:86
Alignment explanation
Indices: 15306274--15306439 Score: 235
Period size: 86 Copynumber: 1.9 Consensus size: 86
15306264 TTGACTCGGC
** *
15306274 TATGTGCGAATAGGGAGTGCGCATAAGCCGAGGATGACCCAATTATGTGCGAGTAGAGAGTGTGC
1 TATGTGCGAATAGGGAGTGCGCATAAGCCGAGGATGACCCAACCATGTGCGAGTAGAGAGTGCGC
15306339 ATAACCTGGTGATGACCCGAT
66 ATAACCTGGTGATGACCCGAT
* * * *
15306360 TATGTGCGAGTAGGGAGTGCGCATAA-CCTAGTGATGACCCAGCCATGTGCGAGTAGGGAGTGCG
1 TATGTGCGAATAGGGAGTGCGCATAAGCCGAG-GATGACCCAACCATGTGCGAGTAGAGAGTGCG
* *
15306424 CATGAGCTGGTGATGA
65 CATAACCTGGTGATGA
15306440 TGATGATGGG
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
85 4 0.06
86 66 0.94
ACGTcount: A:0.26, C:0.17, G:0.35, T:0.22
Consensus pattern (86 bp):
TATGTGCGAATAGGGAGTGCGCATAAGCCGAGGATGACCCAACCATGTGCGAGTAGAGAGTGCGC
ATAACCTGGTGATGACCCGAT
Found at i:15306437 original size:43 final size:43
Alignment explanation
Indices: 15306274--15306439 Score: 203
Period size: 43 Copynumber: 3.9 Consensus size: 43
15306264 TTGACTCGGC
* *
15306274 TATGTGCGAATAGGGAGTGCGCATAAGCC-GAG-GATGACCCAAT
1 TATGTGCGAGTAGGGAGTGCGCATAA-CCTG-GTGATGACCCAGT
* *
15306317 TATGTGCGAGTAGAGAGTGTGCATAACCTGGTGATGACCC-GAT
1 TATGTGCGAGTAGGGAGTGCGCATAACCTGGTGATGACCCAG-T
* *
15306360 TATGTGCGAGTAGGGAGTGCGCATAACCTAGTGATGACCCAGC
1 TATGTGCGAGTAGGGAGTGCGCATAACCTGGTGATGACCCAGT
* * *
15306403 CATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 TATGTGCGAGTAGGGAGTGCGCATAACCTGGTGATGA
15306440 TGATGATGGG
Statistics
Matches: 107, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
42 3 0.03
43 103 0.96
44 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.35, T:0.22
Consensus pattern (43 bp):
TATGTGCGAGTAGGGAGTGCGCATAACCTGGTGATGACCCAGT
Found at i:15330385 original size:2 final size:2
Alignment explanation
Indices: 15330378--15330406 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15330368 ATATGGAAAG
15330378 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
15330407 TTCTAGAACG
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:15331110 original size:21 final size:22
Alignment explanation
Indices: 15331086--15331127 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15331076 TCTCTCCTAT
15331086 CTGAAA-CCTAT-TCTCTCAAAA
1 CTGAAACCCTATCT-TCTCAAAA
15331107 CTGAAACCCTATCTTCTCAAA
1 CTGAAACCCTATCTTCTCAAA
15331128 CTTTCCAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 12 0.63
23 1 0.05
ACGTcount: A:0.36, C:0.31, G:0.05, T:0.29
Consensus pattern (22 bp):
CTGAAACCCTATCTTCTCAAAA
Found at i:15333152 original size:27 final size:27
Alignment explanation
Indices: 15333093--15333153 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
15333083 TGACAAAAAG
*
15333093 GGGGAGATAGAAAGTAGAAGAAATTTA
1 GGGGAGATAGAAAGTAAAAGAAATTTA
**
15333120 ATGGAGATAGAAAGTAAAAGAAATTTA
1 GGGGAGATAGAAAGTAAAAGAAATTTA
15333147 GGGGAGA
1 GGGGAGA
15333154 AAGTAGAAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.33, T:0.18
Consensus pattern (27 bp):
GGGGAGATAGAAAGTAAAAGAAATTTA
Found at i:15333158 original size:23 final size:23
Alignment explanation
Indices: 15333101--15333173 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 23
15333091 AGGGGGAGAT
*
15333101 AGAAAGTAGAAGAAATTTAATGGAGAT
1 AGAAAGTAGAAGAAATTT-A-GG-G-G
*
15333128 AGAAAGTAAAAGAAATTTAGGGG
1 AGAAAGTAGAAGAAATTTAGGGG
* *
15333151 AGAAAGTAGAAGTAACTTAGGGG
1 AGAAAGTAGAAGAAATTTAGGGG
15333174 TAATTTAGGA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 20 0.49
24 1 0.02
25 2 0.05
26 1 0.02
27 17 0.41
ACGTcount: A:0.49, C:0.01, G:0.30, T:0.19
Consensus pattern (23 bp):
AGAAAGTAGAAGAAATTTAGGGG
Found at i:15337843 original size:2 final size:2
Alignment explanation
Indices: 15337836--15337876 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
15337826 GATATGTATA
15337836 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
15337877 TTACTTAGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:15340625 original size:20 final size:21
Alignment explanation
Indices: 15340589--15340628 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
15340579 AAAAACTAAT
*
15340589 AAATAACAATCAAATTAAAAG
1 AAATAACAATAAAATTAAAAG
15340610 AAATAAC-ATAAAATTAAAA
1 AAATAACAATAAAATTAAAA
15340629 TAGCTCACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.70, C:0.07, G:0.03, T:0.20
Consensus pattern (21 bp):
AAATAACAATAAAATTAAAAG
Found at i:15347210 original size:20 final size:21
Alignment explanation
Indices: 15347164--15347212 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
15347154 TTAGTTTGAC
* *
15347164 TTATGTTTA-AATGCTTATTT
1 TTATGTTAATAATGCTTAGTT
15347184 TTA-GTTAATAATG-TTAGTT
1 TTATGTTAATAATGCTTAGTT
15347203 TTATGTTAAT
1 TTATGTTAAT
15347213 TATATATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (21 bp):
TTATGTTAATAATGCTTAGTT
Found at i:15347227 original size:21 final size:20
Alignment explanation
Indices: 15347178--15347230 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
15347168 GTTTAAATGC
*
15347178 TTATTTTTA-GTTAATAATG
1 TTATTTTTATGTTAATAATA
* *
15347197 TTAGTTTTATGTTAATTATA
1 TTATTTTTATGTTAATAATA
15347217 TATATTTTTATGTT
1 T-TATTTTTATGTT
15347231 TTTGTAGGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 8 0.29
20 9 0.32
21 11 0.39
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.62
Consensus pattern (20 bp):
TTATTTTTATGTTAATAATA
Found at i:15356366 original size:21 final size:21
Alignment explanation
Indices: 15356341--15356397 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
15356331 ATGTATATAT
15356341 ATGAATATGTGTTGTGCATTG
1 ATGAATATGTGTTGTGCATTG
15356362 ATGAATATGTGTTGTGCATTG
1 ATGAATATGTGTTGTGCATTG
*
15356383 ATGAATA-ATGTTGTG
1 ATGAATATGTGTTGTG
15356398 TGATAATGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 7 0.20
21 28 0.80
ACGTcount: A:0.26, C:0.04, G:0.28, T:0.42
Consensus pattern (21 bp):
ATGAATATGTGTTGTGCATTG
Found at i:15356495 original size:42 final size:42
Alignment explanation
Indices: 15356445--15356579 Score: 164
Period size: 42 Copynumber: 3.2 Consensus size: 42
15356435 CACATGAGCT
* *
15356445 GATGATGACCCGACTATGAGCGAGTAAGAGTGTGCATAAGCC
1 GATGATGACCCGACTATGTGAGAGTAAGAGTGTGCATAAGCC
* ** *
15356487 GACGATGACCCGGTTATGTGAGAGTAGGAGT-TCGCATAAGCC
1 GATGATGACCCGACTATGTGAGAGTAAGAGTGT-GCATAAGCC
* * *
15356529 GATGATGACCCAACTATGTGTGAGTAAGGAGTGTGCATAGGCC
1 GATGATGACCCGACTATGTGAGAGTAA-GAGTGTGCATAAGCC
15356572 GATGATGA
1 GATGATGA
15356580 TGACCCAGCT
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.01
42 55 0.71
43 20 0.26
44 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.33, T:0.21
Consensus pattern (42 bp):
GATGATGACCCGACTATGTGAGAGTAAGAGTGTGCATAAGCC
Found at i:15363635 original size:42 final size:42
Alignment explanation
Indices: 15363576--15363709 Score: 160
Period size: 42 Copynumber: 3.2 Consensus size: 42
15363566 TCACATGAGT
*
15363576 TGATGATGACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGT
1 TGATGATGACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGC
** * * *
15363618 TGATGATGACCTAGCTATGTGAGAGTAGGAATACGCATAAGC
1 TGATGATGACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGC
** * * *
15363660 CAATGATGACCCGGCTATGTGCAAGTAGCAAGTGTGCATAAGC
1 TGATGATGACCCGGCTATGTGCGAGTAG-GAGTGCGCATAAGC
15363703 TGATGAT
1 TGATGAT
15363710 AATGACTCGG
Statistics
Matches: 73, Mismatches: 18, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
42 58 0.79
43 15 0.21
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (42 bp):
TGATGATGACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGC
Found at i:15365377 original size:27 final size:27
Alignment explanation
Indices: 15365339--15365394 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
15365329 AAATAAGAGA
15365339 TAGAGAATGTTGACTCTATATGTTTTT
1 TAGAGAATGTTGACTCTATATGTTTTT
15365366 TAGAGAATGTTGACTCTATATGTTTTT
1 TAGAGAATGTTGACTCTATATGTTTTT
15365393 TA
1 TA
15365395 TGATAGCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.07, G:0.18, T:0.48
Consensus pattern (27 bp):
TAGAGAATGTTGACTCTATATGTTTTT
Found at i:15366242 original size:32 final size:33
Alignment explanation
Indices: 15366147--15366242 Score: 97
Period size: 35 Copynumber: 2.9 Consensus size: 33
15366137 AAAAGTTAGT
* * *
15366147 TGTTGGGTTTTGGTTGATCCCGTGAAAAAGCAT
1 TGTTGGGTTTTGGTTGATCCTGTGAAAAACCAC
* *
15366180 TGTTGTAGGTTATGGTTGAGCCT-TGGAAAAACCAC
1 TGTTG--GGTTTTGGTTGATCCTGT-GAAAAACCAC
*
15366215 T-TTGGGTTTTGGTTGATCCTGTAAAAAA
1 TGTTGGGTTTTGGTTGATCCTGTGAAAAA
15366243 TCATTGCTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
32 19 0.37
33 6 0.12
34 4 0.08
35 22 0.43
ACGTcount: A:0.24, C:0.11, G:0.28, T:0.36
Consensus pattern (33 bp):
TGTTGGGTTTTGGTTGATCCTGTGAAAAACCAC
Found at i:15368638 original size:60 final size:60
Alignment explanation
Indices: 15368571--15368732 Score: 213
Period size: 60 Copynumber: 2.7 Consensus size: 60
15368561 CGAGATTCTT
* * *
15368571 TCTCGCTGCGGCGAAATTGTAACCC-GAAAACAAAAGGTTTCTCA-CTGCAACGAAATTCAA
1 TCTCGCTGCAGCAAAATTGCAACCCAG-AAACAAAAGGTTTCT-AGCTGCAACGAAATTCAA
* * *
15368631 TCTCGCTGCAGCAAAATTACAACCCAGAAACAGAAGGTTTCTAGCTGCAATGAAATTCAA
1 TCTCGCTGCAGCAAAATTGCAACCCAGAAACAAAAGGTTTCTAGCTGCAACGAAATTCAA
*
15368691 TCTCGCTGCAGCAAAATTGCAACTCAGAAACAGAAA-GTTTCT
1 TCTCGCTGCAGCAAAATTGCAACCCAGAAACA-AAAGGTTTCT
15368733 CGTTGTAGCG
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
59 1 0.01
60 86 0.96
61 3 0.03
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.22
Consensus pattern (60 bp):
TCTCGCTGCAGCAAAATTGCAACCCAGAAACAAAAGGTTTCTAGCTGCAACGAAATTCAA
Found at i:15368754 original size:23 final size:23
Alignment explanation
Indices: 15368728--15368788 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 23
15368718 AAACAGAAAG
*
15368728 TTTCTCGTTGTAGCGAGAATGTA
1 TTTCTCGCTGTAGCGAGAATGTA
15368751 -TT-TCGCTGTAGCGAGAATGTA
1 TTTCTCGCTGTAGCGAGAATGTA
*
15368772 -TT-TCGCTGCAGCGAGAA
1 TTTCTCGCTGTAGCGAGAA
15368789 GCTATAGTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 34 0.94
22 2 0.06
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (23 bp):
TTTCTCGCTGTAGCGAGAATGTA
Found at i:15368760 original size:21 final size:21
Alignment explanation
Indices: 15368736--15368788 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
15368726 AGTTTCTCGT
15368736 TGTAGCGAGAATGTATTTCGC
1 TGTAGCGAGAATGTATTTCGC
15368757 TGTAGCGAGAATGTATTTCGC
1 TGTAGCGAGAATGTATTTCGC
*
15368778 TGCAGCGAGAA
1 TGTAGCGAGAA
15368789 GCTATAGTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.28
Consensus pattern (21 bp):
TGTAGCGAGAATGTATTTCGC
Found at i:15369256 original size:43 final size:43
Alignment explanation
Indices: 15369141--15369272 Score: 158
Period size: 43 Copynumber: 3.1 Consensus size: 43
15369131 CCCATCATCA
* * * * *
15369141 TCATCACCAGCTCATGCGCACTCCCTAATCGCACATGGCTGGG
1 TCATCACCGGCTTATGCGCACTCCCTACTCGCACATAGCCGGG
* *
15369184 TCATCACCGGGTTATGCGCACTCCCTACTCGCACATAACCGGG
1 TCATCACCGGCTTATGCGCACTCCCTACTCGCACATAGCCGGG
* * *
15369227 TCATC-CTCGGCTTATGCGCACTCCTTACTCACACATAGCCGAG
1 TCATCAC-CGGCTTATGCGCACTCCCTACTCGCACATAGCCGGG
15369270 TCA
1 TCA
15369273 ATATAATTAC
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
42 1 0.01
43 75 0.99
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (43 bp):
TCATCACCGGCTTATGCGCACTCCCTACTCGCACATAGCCGGG
Found at i:15370090 original size:19 final size:21
Alignment explanation
Indices: 15370048--15370091 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
15370038 AGGGAAGAAG
15370048 AAGACAGCTGCTAGAAATTTC
1 AAGACAGCTGCTAGAAATTTC
15370069 AAGA-AGCTGCT-GCAAA-TTC
1 AAGACAGCTGCTAG-AAATTTC
15370088 AAGA
1 AAGA
15370092 TATTTATAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.36
20 10 0.45
21 4 0.18
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.20
Consensus pattern (21 bp):
AAGACAGCTGCTAGAAATTTC
Found at i:15386536 original size:20 final size:20
Alignment explanation
Indices: 15386511--15386554 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
15386501 AATAATAACC
15386511 AAATTAAAAGAAATAACATA
1 AAATTAAAAGAAATAACATA
* * *
15386531 AAATTAAAATAAATCACTTA
1 AAATTAAAAGAAATAACATA
15386551 AAAT
1 AAAT
15386555 GAACTAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.25
Consensus pattern (20 bp):
AAATTAAAAGAAATAACATA
Found at i:15387623 original size:20 final size:20
Alignment explanation
Indices: 15387584--15387624 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
15387574 TTTTTAGCAC
*
15387584 AAATAAAACATGTAAAACAT
1 AAATAAAACATGCAAAACAT
* *
15387604 AAATAAAACGTGCAAGACAT
1 AAATAAAACATGCAAAACAT
15387624 A
1 A
15387625 GCTTAAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.61, C:0.12, G:0.10, T:0.17
Consensus pattern (20 bp):
AAATAAAACATGCAAAACAT
Found at i:15400520 original size:8 final size:7
Alignment explanation
Indices: 15400504--15400578 Score: 60
Period size: 8 Copynumber: 9.3 Consensus size: 7
15400494 TCTTTTTTTA
15400504 TTTATTT
1 TTTATTT
15400511 TTTCATTT
1 TTT-ATTT
15400519 TTTATTTT
1 TTTA-TTT
15400527 TTTATTTT
1 TTTA-TTT
15400535 TATTAGATTT
1 T-TT--ATTT
15400545 ATTTATTT
1 -TTTATTT
15400553 TTTATTTT
1 TTTA-TTT
15400561 TTTATTATT
1 TTTA-T-TT
15400570 TTTATTT
1 TTTATTT
15400577 TT
1 TT
15400579 ATTGAATGGG
Statistics
Matches: 60, Mismatches: 0, Indels: 16
0.79 0.00 0.21
Matches are distributed among these distances:
7 12 0.20
8 33 0.55
9 8 0.13
10 5 0.08
11 2 0.03
ACGTcount: A:0.17, C:0.01, G:0.01, T:0.80
Consensus pattern (7 bp):
TTTATTT
Found at i:15400524 original size:15 final size:16
Alignment explanation
Indices: 15400499--15400578 Score: 83
Period size: 15 Copynumber: 4.8 Consensus size: 16
15400489 ACTCTTCTTT
*
15400499 TTTTATTTATTTTTTCA
1 TTTT-TTTATTTTTTTA
15400516 -TTTTTTATTTTTTTA
1 TTTTTTTATTTTTTTA
*
15400531 TTTTTATTAGATTTATTTA
1 TTTTT-TT--ATTTTTTTA
15400550 -TTTTTTATTTTTTTA
1 TTTTTTTATTTTTTTA
15400565 TTATTTTTATTTTT
1 TT-TTTTTATTTTT
15400579 ATTGAATGGG
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
15 19 0.35
16 8 0.15
17 15 0.28
18 4 0.07
19 8 0.15
ACGTcount: A:0.17, C:0.01, G:0.01, T:0.80
Consensus pattern (16 bp):
TTTTTTTATTTTTTTA
Found at i:15400562 original size:42 final size:43
Alignment explanation
Indices: 15400500--15400581 Score: 141
Period size: 42 Copynumber: 1.9 Consensus size: 43
15400490 CTCTTCTTTT
15400500 TTTATTTATTTTTTCATTTTTTATT-TTTTTATTTTTATTAGA
1 TTTATTTATTTTTTCATTTTTTATTATTTTTATTTTTATTAGA
15400542 TTTATTTATTTTTT-ATTTTTTTATTATTTTTATTTTTATT
1 TTTATTTATTTTTTCA-TTTTTTATTATTTTTATTTTTATT
15400582 GAATGGGTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
41 1 0.03
42 23 0.61
43 14 0.37
ACGTcount: A:0.18, C:0.01, G:0.01, T:0.79
Consensus pattern (43 bp):
TTTATTTATTTTTTCATTTTTTATTATTTTTATTTTTATTAGA
Found at i:15400580 original size:34 final size:34
Alignment explanation
Indices: 15400496--15400581 Score: 111
Period size: 34 Copynumber: 2.5 Consensus size: 34
15400486 CAAACTCTTC
*
15400496 TTTTTTTATTTATTTTTTCATTTTTTATTTTTTTA
1 TTTTTTTATTT-TTATTTCATTTTTTATTTTTTTA
**
15400531 TTTTTATTAGATTTATTT-ATTTTTTATTTTTTTA
1 TTTTT-TTATTTTTATTTCATTTTTTATTTTTTTA
15400565 TTATTTTTATTTTTATT
1 TT-TTTTTATTTTTATT
15400582 GAATGGGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
34 27 0.61
35 13 0.30
36 4 0.09
ACGTcount: A:0.17, C:0.01, G:0.01, T:0.80
Consensus pattern (34 bp):
TTTTTTTATTTTTATTTCATTTTTTATTTTTTTA
Found at i:15404598 original size:35 final size:35
Alignment explanation
Indices: 15404552--15404641 Score: 117
Period size: 35 Copynumber: 2.6 Consensus size: 35
15404542 TCCCCCCAAC
*
15404552 TCATGTGCACTCCCACACCGCACAGAGCTAGGTCA
1 TCATGTGCACTCCCACACCGCACAGAGCTAGATCA
* *** **
15404587 TCATGTTCACTCCCACATTACACATTGCTAGATCA
1 TCATGTGCACTCCCACACCGCACAGAGCTAGATCA
15404622 TCATGTGCACTCCCACACCG
1 TCATGTGCACTCCCACACCG
15404642 TACATCACAA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.26, C:0.37, G:0.14, T:0.23
Consensus pattern (35 bp):
TCATGTGCACTCCCACACCGCACAGAGCTAGATCA
Found at i:15408363 original size:40 final size:36
Alignment explanation
Indices: 15408302--15408395 Score: 100
Period size: 38 Copynumber: 2.5 Consensus size: 36
15408292 ACCCAGCTCA
* *
15408302 TGTGCAGCCCCCACATCGTGCACATAGCTGGAGT-CATCG
1 TGTGCATCCCCCACATCGTG--CATAGCT--AATACATCG
*
15408341 TGTGCATCCCCCCACATTGTGCATAGCTAATACCATCG
1 TGTGCAT-CCCCCACATCGTGCATAGCTAATA-CATCG
15408379 TGTGCATCCCCCACATC
1 TGTGCATCCCCCACATC
15408396 ACGCACAGGC
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
36 2 0.04
37 9 0.19
38 19 0.40
39 6 0.12
40 12 0.25
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.23
Consensus pattern (36 bp):
TGTGCATCCCCCACATCGTGCATAGCTAATACATCG
Found at i:15411444 original size:35 final size:35
Alignment explanation
Indices: 15411366--15411480 Score: 110
Period size: 36 Copynumber: 3.2 Consensus size: 35
15411356 TCTCACTAGC
*
15411366 TCATGTGCACTTCCACACTGCACATA-GCTAGA-ATCA
1 TCATGTGCACTCCCACAC-GCACA-AGGC-AGATATCA
*
15411402 TCCTGTGCACTCCCACACAGCACAAGGCA-ATATCA
1 TCATGTGCACTCCCACAC-GCACAAGGCAGATATCA
* * *
15411437 TCATGTGCACTCCCACATCGCACATGCCATATATCA
1 TCATGTGCACTCCCACA-CGCACAAGGCAGATATCA
15411473 TCAATGTG
1 TC-ATGTG
15411481 TGCACTCACA
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
34 1 0.01
35 30 0.44
36 32 0.47
37 5 0.07
ACGTcount: A:0.30, C:0.33, G:0.14, T:0.23
Consensus pattern (35 bp):
TCATGTGCACTCCCACACGCACAAGGCAGATATCA
Found at i:15411537 original size:52 final size:52
Alignment explanation
Indices: 15411457--15411556 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 52
15411447 TCCCACATCG
*
15411457 CACATGCCATATATCATCAATGTGTGCACTCACACAACACACCACTATCACA
1 CACATGCCATATATCATCAATGTATGCACTCACACAACACACCACTATCACA
* * *
15411509 CACATGGCGTATATCATCAGTGTATGCACTCACACAACACACCACTAT
1 CACATGCCATATATCATCAATGTATGCACTCACACAACACACCACTAT
15411557 TATCGTCATG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.35, C:0.33, G:0.10, T:0.22
Consensus pattern (52 bp):
CACATGCCATATATCATCAATGTATGCACTCACACAACACACCACTATCACA
Found at i:15415334 original size:28 final size:29
Alignment explanation
Indices: 15415293--15415352 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
15415283 GTCTATGGGA
*
15415293 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
15415321 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
15415351 AA
1 AA
15415353 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:15429346 original size:38 final size:37
Alignment explanation
Indices: 15429303--15429436 Score: 121
Period size: 40 Copynumber: 3.5 Consensus size: 37
15429293 CTTGTTCACG
*
15429303 ATGTGGGGGGATGCACATGATGGCATCAACTATGTGCA
1 ATGTGGGGGGATGCACATGATGAC-TCAACTATGTGCA
* * ** *
15429341 ATGT-GGGGGA-GCACACGATGTCTGTAC-CTGTGCA
1 ATGTGGGGGGATGCACATGATGACTCAACTATGTGCA
* *
15429375 CGATGTGGGGGGATGCACGTGATGACTCCAGCTATGTGCACA
1 --ATGTGGGGGGATGCACATGATGACT-CAACTATGTG--CA
15429417 ATGTGGGGGGATGCACATGA
1 ATGTGGGGGGATGCACATGA
15429437 GCTGGGTGAG
Statistics
Matches: 75, Mismatches: 13, Indels: 14
0.74 0.13 0.14
Matches are distributed among these distances:
34 6 0.08
35 3 0.04
36 14 0.19
37 12 0.16
38 14 0.19
39 1 0.01
40 23 0.31
42 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.22
Consensus pattern (37 bp):
ATGTGGGGGGATGCACATGATGACTCAACTATGTGCA
Found at i:15433122 original size:36 final size:36
Alignment explanation
Indices: 15433067--15433159 Score: 89
Period size: 35 Copynumber: 2.6 Consensus size: 36
15433057 CTGTGTGAAG
* *
15433067 TAGTTATTTTGTGCAAAGTAGTTGCTCCAATTGTAT
1 TAGTTATTTTGCGCGAAGTAGTTGCTCCAATTGTAT
* * * * *
15433103 TAGTTATTTTGCGGGAAGTAG-TGTTTCATTTGTTT
1 TAGTTATTTTGCGCGAAGTAGTTGCTCCAATTGTAT
* * *
15433138 TACTTATTTGGCGTGAAGTAGT
1 TAGTTATTTTGCGCGAAGTAGT
15433160 ATTTCACTTG
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
35 28 0.61
36 18 0.39
ACGTcount: A:0.22, C:0.09, G:0.24, T:0.46
Consensus pattern (36 bp):
TAGTTATTTTGCGCGAAGTAGTTGCTCCAATTGTAT
Found at i:15433156 original size:35 final size:35
Alignment explanation
Indices: 15433097--15433204 Score: 126
Period size: 35 Copynumber: 3.1 Consensus size: 35
15433087 GTTGCTCCAA
* * *
15433097 TTGTATTAGTTATTTTGCGGGAAGTAGTGTTTCAT
1 TTGTTTTAGTTATTTCGCGTGAAGTAGTGTTTCAT
* * * *
15433132 TTGTTTTACTTATTTGGCGTGAAGTAGTATTTCAC
1 TTGTTTTAGTTATTTCGCGTGAAGTAGTGTTTCAT
* **
15433167 TTGTTCTAGTGGTTTCGCGTGAAGTAGTGTTTCAT
1 TTGTTTTAGTTATTTCGCGTGAAGTAGTGTTTCAT
15433202 TTG
1 TTG
15433205 CTCTAGTCAT
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 60 1.00
ACGTcount: A:0.18, C:0.09, G:0.25, T:0.48
Consensus pattern (35 bp):
TTGTTTTAGTTATTTCGCGTGAAGTAGTGTTTCAT
Found at i:15434871 original size:13 final size:13
Alignment explanation
Indices: 15434853--15434877 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15434843 GAAGAAATTG
15434853 TGATTTTATAAAA
1 TGATTTTATAAAA
15434866 TGATTTTATAAA
1 TGATTTTATAAA
15434878 TTTTCTGGAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:15438098 original size:20 final size:20
Alignment explanation
Indices: 15438054--15438091 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15438044 ACAGTCTCCA
*
15438054 ATTACTCAATTTCTAAAATC
1 ATTATTCAATTTCTAAAATC
15438074 ATTATTCAATTTC-AAAAT
1 ATTATTCAATTTCTAAAAT
15438092 GATTTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTATTCAATTTCTAAAATC
Found at i:15442745 original size:10 final size:11
Alignment explanation
Indices: 15442722--15442750 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
15442712 AGGGTTTTTG
15442722 TTCTTCCTCTT
1 TTCTTCCTCTT
15442733 TTCTTCC-CTT
1 TTCTTCCTCTT
15442743 TTCTTCCT
1 TTCTTCCT
15442751 TTGGCTGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (11 bp):
TTCTTCCTCTT
Found at i:15448050 original size:21 final size:22
Alignment explanation
Indices: 15448025--15448065 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
15448015 CCTAGGTGGA
*
15448025 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
15448046 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
15448066 AAAAAAGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:15448066 original size:20 final size:21
Alignment explanation
Indices: 15448025--15448069 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
15448015 CCTAGGTGGA
*
15448025 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
15448046 AAAATTCAA-GGAAACA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
15448066 AAAA
1 AAAA
15448070 AAGGTAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:15448070 original size:21 final size:20
Alignment explanation
Indices: 15448023--15448070 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
15448013 ACCCTAGGTG
*
15448023 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
15448043 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAAGGAAA-AAGT
15448065 GAAAAA
1 GAAAAA
15448071 AGGTAAGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.56, C:0.06, G:0.23, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:15450749 original size:2 final size:2
Alignment explanation
Indices: 15450742--15450790 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
15450732 NNNNNNNNNN
* *
15450742 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
15450784 TC TA TA T
1 TA TA TA T
15450791 GAATGACATT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15455491 original size:24 final size:24
Alignment explanation
Indices: 15455464--15455513 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
15455454 GCACTTGATT
* * *
15455464 CTTTTTCTGCAGCTCTTCATGGTG
1 CTTTTCCTGCAGCTCATCATGCTG
*
15455488 CTTTTCCTGCTGCTCATCATGCTG
1 CTTTTCCTGCAGCTCATCATGCTG
15455512 CT
1 CT
15455514 ACTCTTACTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.08, C:0.30, G:0.18, T:0.44
Consensus pattern (24 bp):
CTTTTCCTGCAGCTCATCATGCTG
Found at i:15457505 original size:26 final size:26
Alignment explanation
Indices: 15457465--15457516 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
15457455 AACATTATTC
*
15457465 TGTATCATTTCCATATTATTCTTTGT
1 TGTATCATTTACATATTATTCTTTGT
15457491 TGTATCATTTACATATTATTCTTTGT
1 TGTATCATTTACATATTATTCTTTGT
15457517 ATTCATTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.21, C:0.13, G:0.08, T:0.58
Consensus pattern (26 bp):
TGTATCATTTACATATTATTCTTTGT
Found at i:15457516 original size:23 final size:23
Alignment explanation
Indices: 15457458--15457523 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 23
15457448 TATAAATAAC
*
15457458 ATTATTC--TGTATCATTTCCAT
1 ATTATTCTTTGTATCATTTACAT
15457479 ATTATTCTTTGTTGTATCATTTACAT
1 ATTATTC--T-TTGTATCATTTACAT
15457505 ATTATTCTTTGTATTCATT
1 ATTATTCTTTGTA-TCATT
15457524 CATGTGATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
21 7 0.18
23 5 0.13
24 6 0.16
26 20 0.53
ACGTcount: A:0.23, C:0.14, G:0.06, T:0.58
Consensus pattern (23 bp):
ATTATTCTTTGTATCATTTACAT
Found at i:15457886 original size:23 final size:23
Alignment explanation
Indices: 15457860--15458185 Score: 111
Period size: 23 Copynumber: 14.2 Consensus size: 23
15457850 CTAATCGACT
*
15457860 TGGAATCGCGTGAGTAGTAAATA
1 TGGAATCGCGTGAGTAGTTAATA
* *** *
15457883 TGG-ATCACGTGAACCGTTAAGATT
1 TGGAATCGCGTGAGTAGTT-A-ATA
* * *
15457907 TCGAATCACGTGAGTAGTTGATA
1 TGGAATCGCGTGAGTAGTTAATA
* * * *
15457930 TTGACTCGAGTGAGTAGTAAATA
1 TGGAATCGCGTGAGTAGTTAATA
* * * *
15457953 TGGAATGGCGTTACTAGTTATTA
1 TGGAATCGCGTGAGTAGTTAATA
** * ** *
15457976 TGGAAGAGCGTGACTAGTTTTTG
1 TGGAATCGCGTGAGTAGTTAATA
* * *
15457999 TGAAATTGCGTGAGTAGTTGATA
1 TGGAATCGCGTGAGTAGTTAATA
* * *
15458022 TTGACTCGCGTGAGTA-ATATATA
1 TGGAATCGCGTGAGTAGTTA-ATA
* * * * *
15458045 TGGAGTGGCGTTACTAGTTATTA
1 TGGAATCGCGTGAGTAGTTAATA
* * * *
15458068 TGGAATGGCGTGAGTATTTATTC
1 TGGAATCGCGTGAGTAGTTAATA
** * * * *
15458091 TAAAATTGCGTGAGCAG-AAAAA
1 TGGAATCGCGTGAGTAGTTAATA
* * * *
15458113 TGGAGTCGCGTGACTGGTTATTA
1 TGGAATCGCGTGAGTAGTTAATA
* * * *
15458136 TGGAATTGCGTTACTAGTTGATA
1 TGGAATCGCGTGAGTAGTTAATA
*
15458159 TGGAGTCGCGTGAGTAG-TATATA
1 TGGAATCGCGTGAGTAGTTA-ATA
15458182 TGGA
1 TGGA
15458186 GTGGCGTTAC
Statistics
Matches: 210, Mismatches: 86, Indels: 14
0.68 0.28 0.05
Matches are distributed among these distances:
22 23 0.11
23 169 0.80
24 6 0.03
25 12 0.06
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.33
Consensus pattern (23 bp):
TGGAATCGCGTGAGTAGTTAATA
Found at i:15458024 original size:92 final size:92
Alignment explanation
Indices: 15457915--15458104 Score: 285
Period size: 92 Copynumber: 2.1 Consensus size: 92
15457905 TTTCGAATCA
*
15457915 CGTGAGTAGTTGATATTGACTCGAGTGAGTAGTAAATATGGAATGGCGTTACTAGTTATTATGGA
1 CGTGAGTAGTTGATATTGACTCGAGTGAGTAATAAATATGGAATGGCGTTACTAGTTATTATGGA
* *
15457980 A-GAGCGTGACTAGTTT-TTGTGAAATTG
66 ATG-GCGTGACTA-TTTATTCTAAAATTG
* * *
15458007 CGTGAGTAGTTGATATTGACTCGCGTGAGTAATATATATGGAGTGGCGTTACTAGTTATTATGGA
1 CGTGAGTAGTTGATATTGACTCGAGTGAGTAATAAATATGGAATGGCGTTACTAGTTATTATGGA
*
15458072 ATGGCGTGAGTATTTATTCTAAAATTG
66 ATGGCGTGACTATTTATTCTAAAATTG
15458099 CGTGAG
1 CGTGAG
15458105 CAGAAAAATG
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
91 3 0.03
92 85 0.96
93 1 0.01
ACGTcount: A:0.27, C:0.08, G:0.29, T:0.35
Consensus pattern (92 bp):
CGTGAGTAGTTGATATTGACTCGAGTGAGTAATAAATATGGAATGGCGTTACTAGTTATTATGGA
ATGGCGTGACTATTTATTCTAAAATTG
Found at i:15458079 original size:46 final size:46
Alignment explanation
Indices: 15457939--15458206 Score: 136
Period size: 46 Copynumber: 5.8 Consensus size: 46
15457929 ATTGACTCGA
*
15457939 GTGAGTAGTAAATATGGAATGGCGTTACTAGTTATTATGGAA-GAGC
1 GTGAGTAGTATATATGGAATGGCGTTACTAGTTATTATGGAATG-GC
* * * * * * * * * * *
15457985 GTGACTAGTTTTTGTGAAATTGCGTGAGTAGTTGA-TATTGACTCGC
1 GTGAGTAGTATATATGGAATGGCGTTACTAGTT-ATTATGGAATGGC
* *
15458031 GTGAGTAATATATATGGAGTGGCGTTACTAGTTATTATGGAATGGC
1 GTGAGTAGTATATATGGAATGGCGTTACTAGTTATTATGGAATGGC
* * ** * * * ** * *
15458077 GTGAGTA-TTTATTCTAAAATTGCGTGAGC-AG-AAAAATGGAGTCGC
1 GTGAGTAGTATA-TATGGAATGGCGTTA-CTAGTTATTATGGAATGGC
* * * * *
15458122 GTGACTGGT-TATTATGGAATTGCGTTACTAGTTGA-TATGGAGTCGC
1 GTGAGTAGTATA-TATGGAATGGCGTTACTAGTT-ATTATGGAATGGC
* * *
15458168 GTGAGTAGTATATATGGAGTGGCGTTACCACTTATTATG
1 GTGAGTAGTATATATGGAATGGCGTTACTAGTTATTATG
15458207 CAATCGCTTG
Statistics
Matches: 160, Mismatches: 51, Indels: 22
0.69 0.22 0.09
Matches are distributed among these distances:
44 1 0.01
45 35 0.22
46 119 0.74
47 5 0.03
ACGTcount: A:0.27, C:0.09, G:0.29, T:0.34
Consensus pattern (46 bp):
GTGAGTAGTATATATGGAATGGCGTTACTAGTTATTATGGAATGGC
Found at i:15461729 original size:28 final size:27
Alignment explanation
Indices: 15461639--15461731 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
15461629 TTTTCCCATC
**
15461639 TCTTTCTAATTGGGCCATGCCCATTTT
1 TCTTTCTTGTTGGGCCATGCCCATTTT
*
15461666 TCTTTCTTGTTGGGCCATACCCATTTT
1 TCTTTCTTGTTGGGCCATGCCCATTTT
**
15461693 TCTTTCTTGTTGGGTTATGCCCATTTTT
1 TCTTTCTTGTTGGGCCATGCCCA-TTTT
15461721 TCTTTCTTGTT
1 TCTTTCTTGTT
15461732 ACTTTCTTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 44 0.75
28 15 0.25
ACGTcount: A:0.10, C:0.23, G:0.15, T:0.53
Consensus pattern (27 bp):
TCTTTCTTGTTGGGCCATGCCCATTTT
Found at i:15461744 original size:5 final size:5
Alignment explanation
Indices: 15461734--15461778 Score: 76
Period size: 5 Copynumber: 9.4 Consensus size: 5
15461724 TTCTTGTTAC
15461734 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTC- TTTC- TTTCT TT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TT
15461779 CTTCCACCGT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 8 0.21
5 31 0.79
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTCT
Found at i:15469147 original size:22 final size:22
Alignment explanation
Indices: 15469122--15469185 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
15469112 ATGGCCCAAT
*
15469122 GTCACGTAATACATAACAACAA
1 GTCACGTAATACATAAAAACAA
* *
15469144 GTCACGTAATATATAAAAACCA
1 GTCACGTAATACATAAAAACAA
* * *
15469166 GTCACGCAATCCATGAAAAC
1 GTCACGTAATACATAAAAAC
15469186 TAGTGACCAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.47, C:0.23, G:0.11, T:0.19
Consensus pattern (22 bp):
GTCACGTAATACATAAAAACAA
Found at i:15469422 original size:157 final size:160
Alignment explanation
Indices: 15469144--15469433 Score: 401
Period size: 161 Copynumber: 1.8 Consensus size: 160
15469134 ATAACAACAA
* * *
15469144 GTCACGTAATATATAAAAACCAGTCACGCAATCCATGAAAACTAGTGACCAAAAACCTCAAAACA
1 GTCACGTAATACATAAAAACCAGTCACGCAAACCATGAAAACTAGTGAACAAAAACCTCAAAACA
*
15469209 AGATATAAATTGCATAAGTCAGTCACGCACTGCCAGTCTCGCTATACCTAAGAATAAGTCACTCA
66 AGAGATAAATTGCATAAGTCAGTCACGCAC--CCAGTCTCGCTATACCTAAGAATAAGTCACTCA
15469274 ATGACATTGGGCCAGTCACATACTGGCCCAAT
129 ATGACATTGGGCCAGTCACATACTGGCCCAAT
* * * * *
15469306 GTCACGTAATACATAAAAACTAGTCACGCAAACCCT-AAAAGTAGTGAACAAAAGCCTCAAAGCA
1 GTCACGTAATACATAAAAACCAGTCACGCAAACCATGAAAACTAGTGAACAAAAACCTCAAAACA
* * *
15469370 AGAGGTGAATTGCATAAGTCACG-CA-GCA-CCAGTCTCG-TAATACCTAATAATAAGTCACTCA
66 AGAGATAAATTGCATAAGTCA-GTCACGCACCCAGTCTCGCT-ATACCTAAGAATAAGTCACTCA
15469431 ATG
129 ATG
15469434 CGTAATATCC
Statistics
Matches: 114, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
156 1 0.01
157 33 0.29
160 3 0.03
161 44 0.39
162 33 0.29
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (160 bp):
GTCACGTAATACATAAAAACCAGTCACGCAAACCATGAAAACTAGTGAACAAAAACCTCAAAACA
AGAGATAAATTGCATAAGTCAGTCACGCACCCAGTCTCGCTATACCTAAGAATAAGTCACTCAAT
GACATTGGGCCAGTCACATACTGGCCCAAT
Found at i:15474752 original size:29 final size:28
Alignment explanation
Indices: 15474705--15474844 Score: 176
Period size: 29 Copynumber: 5.0 Consensus size: 28
15474695 TGGCAGCTTT
15474705 AACATGTTTGTCTTAATTTAGACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAA
15474733 AACATGTTTGGTCTTAATTTAGACAAGAA
1 AACATGTTT-GTCTTAATTTAGACAAGAA
* *
15474762 AATATGTTTGTCTTAATTTAAGACAAGGA
1 AACATGTTTGTCTTAATTT-AGACAAGAA
* *
15474791 AA-AT-ATTGTCTTAATCTAGACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAA
* * *
15474817 TACATATTTGTCTCAAATTTAGACAAGA
1 AACATGTTTGTCT-TAATTTAGACAAGA
15474845 TAAAATATTT
Statistics
Matches: 98, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
26 9 0.09
27 13 0.13
28 27 0.28
29 49 0.50
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (28 bp):
AACATGTTTGTCTTAATTTAGACAAGAA
Found at i:15474815 original size:55 final size:55
Alignment explanation
Indices: 15474705--15474853 Score: 183
Period size: 55 Copynumber: 2.6 Consensus size: 55
15474695 TGGCAGCTTT
* *
15474705 AACATGTTTGTCTTAATTTAGACAAGAAAACATGTTTGGTCTTAATTTAGACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAAAA-AT-ATTGGTCTTAATCTAGACAAGAA
* *
15474762 AATATGTTTGTCTTAATTTAAGACAAGGAAAATATT-GTCTTAATCTAGACAAGAA
1 AACATGTTTGTCTTAATTT-AGACAAGAAAAATATTGGTCTTAATCTAGACAAGAA
* * *
15474817 TACATATTTGTCTCAAATTTAGACAAGATAAAATATT
1 AACATGTTTGTCT-TAATTTAGACAAGA-AAAATATT
15474854 TTTTATTTTA
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
55 35 0.44
56 15 0.19
57 20 0.25
58 10 0.12
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (55 bp):
AACATGTTTGTCTTAATTTAGACAAGAAAAATATTGGTCTTAATCTAGACAAGAA
Found at i:15478091 original size:35 final size:35
Alignment explanation
Indices: 15478052--15478138 Score: 129
Period size: 35 Copynumber: 2.5 Consensus size: 35
15478042 ACACTCTGCA
*
15478052 TGATTTGTTCTCTGCCCGTTGCTTCAGCATGTGCG
1 TGATTTGTTCTCTGCCCGTTGCTTCAGCAAGTGCG
* * *
15478087 TGATTTGTTCTCTTCTCGTTGCTTCAGTAAGTGCG
1 TGATTTGTTCTCTGCCCGTTGCTTCAGCAAGTGCG
15478122 TGATTTGTTTCTCTGCC
1 TGATTTG-TTCTCTGCC
15478139 AATTGGCCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
35 38 0.84
36 7 0.16
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.45
Consensus pattern (35 bp):
TGATTTGTTCTCTGCCCGTTGCTTCAGCAAGTGCG
Found at i:15479275 original size:43 final size:43
Alignment explanation
Indices: 15479200--15479404 Score: 250
Period size: 43 Copynumber: 4.8 Consensus size: 43
15479190 TTCCCAGCTC
* * * **
15479200 ATGCACACTCCCTACTTGCACATGGCTAGGTCATCACCGGGC-T
1 ATGCGCACTCCCTACTCGCACATAGCCGGGTCATCACC-GGCTT
* * * *
15479243 ATGGGCACTCCCTACTAGCACATAACCGGGTCATCACCGGGTT
1 ATGCGCACTCCCTACTCGCACATAGCCGGGTCATCACCGGCTT
* * * * *
15479286 ATGCGCACTCCCTACTCGCACATAACTGAGTCATCATCGACTT
1 ATGCGCACTCCCTACTCGCACATAGCCGGGTCATCACCGGCTT
*
15479329 ATGCGCACTCCCTACTCGCACATAGCCGGGTCATCATCGGCTT
1 ATGCGCACTCCCTACTCGCACATAGCCGGGTCATCACCGGCTT
*
15479372 ATGCGCACTCCCTACTCGCACATAGCCGAGTCA
1 ATGCGCACTCCCTACTCGCACATAGCCGGGTCA
15479405 ATATCATTAC
Statistics
Matches: 141, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
42 2 0.01
43 139 0.99
ACGTcount: A:0.22, C:0.36, G:0.20, T:0.22
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAGCCGGGTCATCACCGGCTT
Found at i:15505786 original size:5 final size:5
Alignment explanation
Indices: 15505771--15505813 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
15505761 AAAACATGTC
* *
15505771 AAAAT -AAAC AAAAC AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
15505814 AACCCTTAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
4 3 0.09
5 32 0.91
ACGTcount: A:0.81, C:0.05, G:0.00, T:0.14
Consensus pattern (5 bp):
AAAAT
Found at i:15514455 original size:21 final size:21
Alignment explanation
Indices: 15514431--15514471 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
15514421 AATTGTGAAG
15514431 TATAGAAGGC-ATAGTCAACCA
1 TATAGAA-GCTATAGTCAACCA
15514452 TATAGAAGCTATAGTCAACC
1 TATAGAAGCTATAGTCAACC
15514472 TTAGGATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (21 bp):
TATAGAAGCTATAGTCAACCA
Found at i:15514551 original size:71 final size:72
Alignment explanation
Indices: 15514434--15514593 Score: 168
Period size: 71 Copynumber: 2.2 Consensus size: 72
15514424 TGTGAAGTAT
* * * * ** *
15514434 AGAAGGCATAGTCAACCATATAGAAGCTATAGTCAACCTTAGGATAGATTGCAC-T-AGTAATTC
1 AGAAGCCATAGTCGACCATATAGAAGATATAGTCAACCTCAGGATAGA--GCACATGAAAAAATC
15514497 AA-GATTTG
64 AAGGATTTG
*
15514505 AGAAGCCATAGTCGACCCTGAT-GAAGATATAGTCAACCCTCA-GATAGAGCACATGAAAAAATC
1 AGAAGCCATAGTCGACCAT-ATAGAAGATATAGTCAA-CCTCAGGATAGAGCACATGAAAAAATC
15514568 AAGGATTTG
64 AAGGATTTG
*
15514577 AGAAGCCATAGTTGACC
1 AGAAGCCATAGTCGACC
15514594 TGCAAGCCCT
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
69 4 0.05
70 1 0.01
71 42 0.56
72 28 0.37
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.23
Consensus pattern (72 bp):
AGAAGCCATAGTCGACCATATAGAAGATATAGTCAACCTCAGGATAGAGCACATGAAAAAATCAA
GGATTTG
Found at i:15521372 original size:105 final size:105
Alignment explanation
Indices: 15521190--15521395 Score: 313
Period size: 105 Copynumber: 2.0 Consensus size: 105
15521180 ATGTGCATGA
* * * *
15521190 AAAACCCAACTCTATAAACACATGTCATGACATACATGTACTGAGTAGCATGTTATTACCCTAGG
1 AAAACCCAACCCTATAAACACATGTCATAACATACATGCACTGAGTAGCATGTTATTACCCTAAG
*
15521255 AAAGTCTCTAAGAATAGACAAAACCCGATATTGTACTTGT
66 AAAGTCCCTAAGAATAGACAAAACCCGATATTGTACTTGT
* * * **
15521295 AAAACCCGACCCTATAAATATATGTCATAACATACATGCACTGAGTAGCATGTTATTATGCTAAG
1 AAAACCCAACCCTATAAACACATGTCATAACATACATGCACTGAGTAGCATGTTATTACCCTAAG
*
15521360 AAAGTCCCTAAGAATAGACAAAACCCGGTATTGTAC
66 AAAGTCCCTAAGAATAGACAAAACCCGATATTGTAC
15521396 CTAACGGTAC
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
105 90 1.00
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.26
Consensus pattern (105 bp):
AAAACCCAACCCTATAAACACATGTCATAACATACATGCACTGAGTAGCATGTTATTACCCTAAG
AAAGTCCCTAAGAATAGACAAAACCCGATATTGTACTTGT
Found at i:15535845 original size:19 final size:20
Alignment explanation
Indices: 15535806--15535846 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
15535796 GGTTTTACAC
15535806 TTAGTCAACTAAAGAGAATT
1 TTAGTCAACTAAAGAGAATT
*
15535826 TTAGTCAACT-AAGAGCATT
1 TTAGTCAACTAAAGAGAATT
15535845 TT
1 TT
15535847 GTCTCATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (20 bp):
TTAGTCAACTAAAGAGAATT
Found at i:15549675 original size:19 final size:19
Alignment explanation
Indices: 15549651--15549713 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
15549641 AATATTTTAA
15549651 AATAAAATATTATTTTATG
1 AATAAAATATTATTTTATG
15549670 AATAAAATA--A---TAT-
1 AATAAAATATTATTTTATG
15549683 --TAAAATATTATTTTATG
1 AATAAAATATTATTTTATG
*
15549700 AATAAAATAATATT
1 AATAAAATATTATT
15549714 AAAATATTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 16
0.67 0.02 0.31
Matches are distributed among these distances:
11 7 0.20
13 1 0.03
14 3 0.09
16 3 0.09
17 1 0.03
19 20 0.57
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (19 bp):
AATAAAATATTATTTTATG
Found at i:15549687 original size:30 final size:30
Alignment explanation
Indices: 15549653--15549722 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
15549643 TATTTTAAAA
15549653 TAAAATATTATTTTATGAATAAAATAATAT
1 TAAAATATTATTTTATGAATAAAATAATAT
15549683 TAAAATATTATTTTATGAATAAAATAATAT
1 TAAAATATTATTTTATGAATAAAATAATAT
15549713 TAAAATATTA
1 TAAAATATTA
15549723 ATATTTTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (30 bp):
TAAAATATTATTTTATGAATAAAATAATAT
Found at i:15551929 original size:17 final size:19
Alignment explanation
Indices: 15551888--15551929 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
15551878 ATGTATATAC
15551888 ATGAATATATGTTGTGCATTG
1 ATGAATATATGTTGTG-A-TG
15551909 ATGAATA-ATGTTGTG-TG
1 ATGAATATATGTTGTGATG
15551926 ATGA
1 ATGA
15551930 TGATGACTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.29
20 8 0.38
21 7 0.33
ACGTcount: A:0.31, C:0.02, G:0.26, T:0.40
Consensus pattern (19 bp):
ATGAATATATGTTGTGATG
Found at i:15551975 original size:46 final size:45
Alignment explanation
Indices: 15551924--15552097 Score: 189
Period size: 43 Copynumber: 3.9 Consensus size: 45
15551914 TAATGTTGTG
15551924 TGATGATGATGACTCCGCTATGTGCGAGTAGGGAGTGCACATAAGC
1 TGATGATGAT-ACTCCGCTATGTGCGAGTAGGGAGTGCACATAAGC
* * * * * *
15551970 CGATGATGA-CCT-GGCTATGTGTGAGTAGAGAGTTCACATAAG-
1 TGATGATGATACTCCGCTATGTGCGAGTAGGGAGTGCACATAAGC
*
15552012 TG--GATGATGAC-CCAGCTATGTGCAAGTAGGGAGTGCACATAAGC
1 TGATGATGAT-ACTCC-GCTATGTGCGAGTAGGGAGTGCACATAAGC
* *
15552056 TGATGATGATAATCAAGCTATGTGCGAGTAGGGAGTGCACAT
1 TGATGATGATACTC-CGCTATGTGCGAGTAGGGAGTGCACAT
15552098 GACGATGAAT
Statistics
Matches: 103, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
40 5 0.05
42 2 0.02
43 51 0.50
44 4 0.04
45 1 0.01
46 40 0.39
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.24
Consensus pattern (45 bp):
TGATGATGATACTCCGCTATGTGCGAGTAGGGAGTGCACATAAGC
Found at i:15556771 original size:35 final size:35
Alignment explanation
Indices: 15556732--15556850 Score: 130
Period size: 35 Copynumber: 3.4 Consensus size: 35
15556722 CTTACTCAGC
* * *
15556732 TCATGTGTACTCCCTACATGTACAAGGCAATATCA
1 TCATGTGCACTCCCTACACGCACAAGGCAATATCA
* ***
15556767 TCATGTGCACTCCTTACACGCACATTTCAATATCA
1 TCATGTGCACTCCCTACACGCACAAGGCAATATCA
***
15556802 TCATGTGCACTCCCTACACGCACATTTCAATATCA
1 TCATGTGCACTCCCTACACGCACAAGGCAATATCA
**
15556837 TCATACGCACTCCC
1 TCATGTGCACTCCC
15556851 ACCCACATCA
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 74 1.00
ACGTcount: A:0.29, C:0.33, G:0.10, T:0.29
Consensus pattern (35 bp):
TCATGTGCACTCCCTACACGCACAAGGCAATATCA
Found at i:15557788 original size:20 final size:20
Alignment explanation
Indices: 15557746--15557788 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
15557736 AAGAAGAAGA
* **
15557746 AGAAGCTGCTGGAAGGGAGG
1 AGAAGCTACTGGAAGAAAGG
*
15557766 AGAAGCTACTGGAAGAAATG
1 AGAAGCTACTGGAAGAAAGG
15557786 AGA
1 AGA
15557789 TATTTATCCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.09, G:0.40, T:0.12
Consensus pattern (20 bp):
AGAAGCTACTGGAAGAAAGG
Found at i:15559303 original size:61 final size:61
Alignment explanation
Indices: 15559207--15559434 Score: 366
Period size: 61 Copynumber: 3.7 Consensus size: 61
15559197 GGTTCATGTG
* *
15559207 CATCATTACTGACATGTGCACTGCCCACTCCGCACATGCACGGTTGTGAATATCACGACAA
1 CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTGAATATCACGACAA
* *
15559268 CATCATTACCGGCTTGTGCACTGCCCACTCTGCACATGCACGGTTGTGAATATCACGACAA
1 CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTGAATATCACGACAA
* * * * *
15559329 CATCATTACCGGCATGTGCACTACCCACTCCGCGCATGCACGATTGTAAATATCACAACAA
1 CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTGAATATCACGACAA
*
15559390 CATCATTACCGGTATGTGCACTGCCCACTCCGCACATGCACGGTT
1 CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTT
15559435 ACATCAATTA
Statistics
Matches: 152, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 152 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.23
Consensus pattern (61 bp):
CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTGAATATCACGACAA
Found at i:15565207 original size:28 final size:29
Alignment explanation
Indices: 15565166--15565220 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
15565156 ACAAGTGTTG
*
15565166 GGTGCGTAAAATTA-CAATTTTGCCCCTGA
1 GGTGCGTAAAATTATC-ATTTTACCCCTGA
15565195 GGTG-GTAAAATTATCATTTTACCCCT
1 GGTGCGTAAAATTATCATTTTACCCCT
15565221 ATACTCTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (29 bp):
GGTGCGTAAAATTATCATTTTACCCCTGA
Found at i:15575125 original size:17 final size:16
Alignment explanation
Indices: 15575099--15575137 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
15575089 CCGACCCATG
15575099 AAAAAGAAAAAAAAGA
1 AAAAAGAAAAAAAAGA
*
15575115 AAAATAGAAAAAATAGA
1 AAAA-AGAAAAAAAAGA
15575132 ATAAAA
1 A-AAAA
15575138 AAGAATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 4 0.20
17 13 0.65
18 3 0.15
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.08
Consensus pattern (16 bp):
AAAAAGAAAAAAAAGA
Found at i:15575146 original size:10 final size:9
Alignment explanation
Indices: 15575099--15575142 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
15575089 CCGACCCATG
15575099 AAAAAGAAA
1 AAAAAGAAA
15575108 AAAAAG-AA
1 AAAAAGAAA
*
15575116 AAATAGAAA
1 AAAAAGAAA
*
15575125 AAATAGAATA
1 AAAAAGAA-A
15575135 AAAAAGAA
1 AAAAAGAA
15575143 TAAATTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
8 7 0.23
9 16 0.52
10 8 0.26
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:15575565 original size:27 final size:27
Alignment explanation
Indices: 15575535--15575587 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
15575525 ATACCAAACT
*
15575535 ACGTAAT-ACTTATTCTATTCTATTCCC
1 ACGTAATAAC-TATTCTATTCCATTCCC
*
15575562 ACGTAATAACTATTTTATTCCATTCC
1 ACGTAATAACTATTCTATTCCATTCC
15575588 TGTCTATTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.28, C:0.25, G:0.04, T:0.43
Consensus pattern (27 bp):
ACGTAATAACTATTCTATTCCATTCCC
Found at i:15576943 original size:55 final size:55
Alignment explanation
Indices: 15576865--15577025 Score: 223
Period size: 55 Copynumber: 2.9 Consensus size: 55
15576855 TGATGATGGG
* *
15576865 TGATTCCAGCTATGTGCGATGTGGGAGTGCACATGAGTTGATGACCGGTGGGTGA
1 TGATTCCAGCTATGTGCGATGTGGGAGTGCACATGAGCTGATGACCGGTGGATGA
* * * ** *
15576920 TGATTCTAGCTATGTGCGGTGTGGGAGTGCACATGAGCTAATGATTGGAGGATGA
1 TGATTCCAGCTATGTGCGATGTGGGAGTGCACATGAGCTGATGACCGGTGGATGA
** *
15576975 TGATTCCAGCTATGTGCTCTGTAGGAGTGCACATGAGCTGATGACCGGTGG
1 TGATTCCAGCTATGTGCGATGTGGGAGTGCACATGAGCTGATGACCGGTGG
15577026 TTGTATACAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.21, C:0.15, G:0.36, T:0.28
Consensus pattern (55 bp):
TGATTCCAGCTATGTGCGATGTGGGAGTGCACATGAGCTGATGACCGGTGGATGA
Found at i:15576958 original size:28 final size:28
Alignment explanation
Indices: 15576872--15576959 Score: 69
Period size: 28 Copynumber: 3.2 Consensus size: 28
15576862 GGGTGATTCC
*
15576872 AGCTATGTGCGATGTGGGAGTGCACATG
1 AGCTATGTGCGGTGTGGGAGTGCACATG
* **
15576900 AGTTGATGACCGGTG-GGTGA-TG-ATTC-T-
1 AGCT-ATGTGCGGTGTGG-GAGTGCA--CATG
15576927 AGCTATGTGCGGTGTGGGAGTGCACATG
1 AGCTATGTGCGGTGTGGGAGTGCACATG
15576955 AGCTA
1 AGCTA
15576960 ATGATTGGAG
Statistics
Matches: 44, Mismatches: 7, Indels: 18
0.64 0.10 0.26
Matches are distributed among these distances:
26 11 0.25
27 9 0.20
28 14 0.32
29 10 0.23
ACGTcount: A:0.20, C:0.14, G:0.39, T:0.27
Consensus pattern (28 bp):
AGCTATGTGCGGTGTGGGAGTGCACATG
Found at i:15585530 original size:20 final size:19
Alignment explanation
Indices: 15585505--15585553 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
15585495 TGTTGAATAG
15585505 TTAATTTAAGTTATTTTAGC
1 TTAATTTAAGTTATTTT-GC
**
15585525 TTAATTTTACTTTATTTTGC
1 TTAA-TTTAAGTTATTTTGC
15585545 TTCAATTTA
1 TT-AATTTA
15585554 CTTTAATAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.27, C:0.08, G:0.06, T:0.59
Consensus pattern (19 bp):
TTAATTTAAGTTATTTTGC
Found at i:15585554 original size:20 final size:21
Alignment explanation
Indices: 15585515--15585558 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
15585505 TTAATTTAAG
15585515 TTATTTTAGCTTAATTTTACT
1 TTATTTTAGCTTAATTTTACT
15585536 TTATTTT-GCTTCAA-TTTACT
1 TTATTTTAGCTT-AATTTTACT
15585556 TTA
1 TTA
15585559 ATAAGAGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.23, C:0.11, G:0.05, T:0.61
Consensus pattern (21 bp):
TTATTTTAGCTTAATTTTACT
Found at i:15586268 original size:20 final size:20
Alignment explanation
Indices: 15586243--15586298 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
15586233 CTACCCGAAC
*
15586243 ATCTATGGATAGATGAG-CAG
1 ATCTATCGATAGATG-GTCAG
* *
15586263 ATCTATCCATAGATGGTTAG
1 ATCTATCGATAGATGGTCAG
*
15586283 ATCTATTGATAGATGG
1 ATCTATCGATAGATGG
15586299 CAAGTAGAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (20 bp):
ATCTATCGATAGATGGTCAG
Found at i:15586379 original size:21 final size:21
Alignment explanation
Indices: 15586337--15586379 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
15586327 AAAGCTCATC
* *
15586337 TATCGATAGATGACCCCGTTT
1 TATCGATAGATGACACCATTT
*
15586358 TATCGATCGATGACACCATTT
1 TATCGATAGATGACACCATTT
15586379 T
1 T
15586380 CAAAAAAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (21 bp):
TATCGATAGATGACACCATTT
Found at i:15588365 original size:18 final size:18
Alignment explanation
Indices: 15588339--15588375 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15588329 GAGTCAATTG
*
15588339 TATGTTTATATTTATGGA
1 TATGATTATATTTATGGA
*
15588357 TATGATTATGTTTATGGA
1 TATGATTATATTTATGGA
15588375 T
1 T
15588376 TACGAACATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (18 bp):
TATGATTATATTTATGGA
Found at i:15588536 original size:2 final size:2
Alignment explanation
Indices: 15588529--15588558 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15588519 GCACTTCTTG
15588529 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
15588559 CAAATGCTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15588639 original size:2 final size:2
Alignment explanation
Indices: 15588632--15588662 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15588622 TGCANATTAT
15588632 TA TA 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 TA TA T
15588663 CAAATGCTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15588676 original size:104 final size:103
Alignment explanation
Indices: 15588529--15588729 Score: 393
Period size: 104 Copynumber: 1.9 Consensus size: 103
15588519 GCACTTCTTG
15588529 ATATATATATATATATATATATATATATATCAAATGCTTGAGCTTATACAATTAAGTCGAGAAGT
1 ATATATATATATATATATATATATATATATCAAATGCTTGAGCTTATACAATTAAGTCGAGAAGT
15588594 TCGTTAATTGTATAATGAGTATTATGAATGCANATTATT
66 TCGTTAATTGTATAATGAGTATTATGAATGCA-ATTATT
15588633 ATATATATATATATATATATATATATATATCAAATGCTTGAGCTTATACAATTAAGTCGAGAAGT
1 ATATATATATATATATATATATATATATATCAAATGCTTGAGCTTATACAATTAAGTCGAGAAGT
15588698 TCGTTAATTGTATAATGAGTATTATGAATGCA
66 TCGTTAATTGTATAATGAGTATTATGAATGCA
15588730 TGCATGATGA
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 97 1.00
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (103 bp):
ATATATATATATATATATATATATATATATCAAATGCTTGAGCTTATACAATTAAGTCGAGAAGT
TCGTTAATTGTATAATGAGTATTATGAATGCAATTATT
Found at i:15591375 original size:19 final size:18
Alignment explanation
Indices: 15591351--15591401 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
15591341 GAGGGCACCA
15591351 ATTTAATTAATAAAAAATT
1 ATTTAA-TAATAAAAAATT
*
15591370 ATTTAAAAATTAAAAAAATT
1 ATTTAATAA-T-AAAAAATT
*
15591390 ATATAATAATAA
1 ATTTAATAATAA
15591402 TTTTTAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 4 0.15
19 8 0.30
20 15 0.56
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTTAATAATAAAAAATT
Found at i:15591390 original size:31 final size:32
Alignment explanation
Indices: 15591355--15591414 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
15591345 GCACCAATTT
15591355 AATTA-ATAA-AA-AATTATTTAAAAATTAAAAA
1 AATTATATAATAATAATT-TTT-AAAATTAAAAA
15591386 AATTATATAATAATAATTTTTAAAATTAA
1 AATTATATAATAATAATTTTTAAAATTAA
15591415 GAAAGGGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
31 5 0.19
32 12 0.46
33 5 0.19
34 4 0.15
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (32 bp):
AATTATATAATAATAATTTTTAAAATTAAAAA
Found at i:15601381 original size:20 final size:20
Alignment explanation
Indices: 15601356--15601401 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
15601346 TTTTGACCCC
15601356 ATTTGACTTATT-AGAGTATA
1 ATTTGACTTATTGA-AGTATA
*
15601376 ATTTGACTTATTGAAGTATG
1 ATTTGACTTATTGAAGTATA
15601396 ATTTGA
1 ATTTGA
15601402 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGAAGTATA
Found at i:15601477 original size:28 final size:27
Alignment explanation
Indices: 15601446--15601498 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
15601436 TTTGGAGTAT
*
15601446 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTT-CCACCTC
*
15601474 AGGGGCAAAATTGTAATTTTCCACC
1 AGGGGCAAAATGGTAATTTTCCACC
15601499 ACCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (27 bp):
AGGGGCAAAATGGTAATTTTCCACCTC
Found at i:15601504 original size:28 final size:28
Alignment explanation
Indices: 15601446--15601504 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
15601436 TTTGGAGTAT
* *
15601446 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTTGCCACCCC
*
15601474 AGGGGCAAAATTGTAATTTT-CCACCACC
1 AGGGGCAAAATGGTAATTTTGCCACC-CC
15601502 AGG
1 AGG
15601505 ATATTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (28 bp):
AGGGGCAAAATGGTAATTTTGCCACCCC
Found at i:15605675 original size:13 final size:13
Alignment explanation
Indices: 15605657--15605682 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15605647 ATAATTATTC
15605657 AAATAAACTAGCA
1 AAATAAACTAGCA
15605670 AAATAAACTAGCA
1 AAATAAACTAGCA
15605683 GTCTCAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.15, G:0.08, T:0.15
Consensus pattern (13 bp):
AAATAAACTAGCA
Found at i:15611457 original size:22 final size:22
Alignment explanation
Indices: 15611431--15611474 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15611421 TTAGAGTGGT
*
15611431 ATCAGAGCTTTTGGTTTTAAAG
1 ATCAGAGCTTTTGGGTTTAAAG
15611453 ATCAGAGCTTTTGGGTTTAAAG
1 ATCAGAGCTTTTGGGTTTAAAG
15611475 TTGTTTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (22 bp):
ATCAGAGCTTTTGGGTTTAAAG
Found at i:15626012 original size:17 final size:17
Alignment explanation
Indices: 15625980--15626046 Score: 68
Period size: 17 Copynumber: 3.9 Consensus size: 17
15625970 GTTTCCTTAA
15625980 TTATTATTTATT-TATTT
1 TTATT-TTTATTATATTT
15625997 TTATTTTTATTATATTT
1 TTATTTTTATTATATTT
15626014 ATTATTTTT-TTAT-TTT
1 -TTATTTTTATTATATTT
* *
15626030 TAATATTTTATTTTATT
1 TTAT-TTTTATTATATT
15626047 AAAATATTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
15 3 0.07
16 13 0.30
17 17 0.40
18 10 0.23
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTATTTTTATTATATTT
Found at i:15626023 original size:26 final size:26
Alignment explanation
Indices: 15625960--15626041 Score: 87
Period size: 26 Copynumber: 3.1 Consensus size: 26
15625950 TCTGTTGATT
*
15625960 TTATTTTTTTGTTTCCTTAATTATTATTTA
1 TTATTTTTTTATTT--TT-ATTA-TATTTA
*
15625990 TT-TATTTTTATTTTTATTATATTTA
1 TTATTTTTTTATTTTTATTATATTTA
*
15626015 TTATTTTTTTATTTTTAATAT-TTTA
1 TTATTTTTTTATTTTTATTATATTTA
15626040 TT
1 TT
15626042 TTATTAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
25 14 0.30
26 20 0.43
27 2 0.04
29 9 0.19
30 2 0.04
ACGTcount: A:0.22, C:0.02, G:0.01, T:0.74
Consensus pattern (26 bp):
TTATTTTTTTATTTTTATTATATTTA
Found at i:15626026 original size:32 final size:34
Alignment explanation
Indices: 15625980--15626046 Score: 102
Period size: 32 Copynumber: 2.0 Consensus size: 34
15625970 GTTTCCTTAA
15625980 TTATTATTTATTTATTTTT-AT-TTTTATTATAT
1 TTATTATTTATTTATTTTTAATATTTTATTATAT
* *
15626012 TTATTATTTTTTTATTTTTAATATTTTATTTTAT
1 TTATTATTTATTTATTTTTAATATTTTATTATAT
15626046 T
1 T
15626047 AAAATATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 18 0.58
33 2 0.06
34 11 0.35
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (34 bp):
TTATTATTTATTTATTTTTAATATTTTATTATAT
Found at i:15627640 original size:21 final size:19
Alignment explanation
Indices: 15627614--15627652 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
15627604 ATGGCTCTCC
15627614 TTCCTTCTCTCTTTCTTTCTT
1 TTCCTTCT-TCTTT-TTTCTT
15627635 TTCCTTCTTCTTTTTTCT
1 TTCCTTCTTCTTTTTTCT
15627653 CCTTTTTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 5 0.28
21 8 0.44
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (19 bp):
TTCCTTCTTCTTTTTTCTT
Found at i:15628262 original size:10 final size:10
Alignment explanation
Indices: 15628247--15628284 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
15628237 CGTGCTTCAG
15628247 CTTTTTTTTT
1 CTTTTTTTTT
*
15628257 C--TTTTTTA
1 CTTTTTTTTT
15628265 CTTTTTTTTT
1 CTTTTTTTTT
15628275 CTTTTTTTTT
1 CTTTTTTTTT
15628285 AAATTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
8 7 0.29
10 17 0.71
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.87
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:15628270 original size:18 final size:18
Alignment explanation
Indices: 15628247--15628281 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
15628237 CGTGCTTCAG
15628247 CTTTTTTTTTCTTTTTTA
1 CTTTTTTTTTCTTTTTTA
15628265 CTTTTTTTTTCTTTTTT
1 CTTTTTTTTTCTTTTTT
15628282 TTTAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (18 bp):
CTTTTTTTTTCTTTTTTA
Found at i:15629901 original size:36 final size:37
Alignment explanation
Indices: 15629861--15629953 Score: 127
Period size: 36 Copynumber: 2.6 Consensus size: 37
15629851 TGATGATGTG
* *
15629861 GTGTGGGAGTGTACATGATGA-TATTGGCCATGTGCA
1 GTGTGGGAGTGCACATGATGAGTATTAGCCATGTGCA
* * *
15629897 GTGTGGGAATGCACATGA-CAGTATTAGCTATGTGCA
1 GTGTGGGAGTGCACATGATGAGTATTAGCCATGTGCA
15629933 GTGTGGGAGTGCACATGATGA
1 GTGTGGGAGTGCACATGATGA
15629954 CCTAGCTATG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
35 1 0.02
36 46 0.96
37 1 0.02
ACGTcount: A:0.25, C:0.12, G:0.35, T:0.28
Consensus pattern (37 bp):
GTGTGGGAGTGCACATGATGAGTATTAGCCATGTGCA
Found at i:15630142 original size:22 final size:22
Alignment explanation
Indices: 15630110--15630151 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
15630100 TTCCAAATTT
*
15630110 ATTTTCATTGTAGCAAGAATGG
1 ATTTTCATTGTAACAAGAATGG
*
15630132 ATTTTCGTTGTAACAAGAAT
1 ATTTTCATTGTAACAAGAAT
15630152 TCTTCTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (22 bp):
ATTTTCATTGTAACAAGAATGG
Done.