Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold193
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: 3104049
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.32
Warning! 172765 characters in sequence are not A, C, G, or T
File 14 of 18
Found at i:2297456 original size:30 final size:30
Alignment explanation
Indices: 2297420--2297480 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
2297410 TAGAAGGGGT
2297420 AAGGATCAAGTCTTATCCCATTAGATGGGA
1 AAGGATCAAGTCTTATCCCATTAGATGGGA
2297450 AAGGATCAAGTCTTATCCCATTAGATGGGA
1 AAGGATCAAGTCTTATCCCATTAGATGGGA
2297480 A
1 A
2297481 TGAATAGCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.26
Consensus pattern (30 bp):
AAGGATCAAGTCTTATCCCATTAGATGGGA
Found at i:2298403 original size:20 final size:20
Alignment explanation
Indices: 2298361--2298415 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
2298351 ATAGTAACCC
*
2298361 ATGTATCCATACATTTCCAA
1 ATGTATCGATACATTTCCAA
*
2298381 ATGTATCGATACATCTTTC-A
1 ATGTATCGATACAT-TTCCAA
*
2298401 ATGTATTGATACATT
1 ATGTATCGATACATT
2298416 CTGAAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.03
20 27 0.87
21 3 0.10
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTCCAA
Found at i:2304586 original size:19 final size:19
Alignment explanation
Indices: 2304532--2304586 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
2304522 TGCAATTATG
*
2304532 CATGTATCGATACAATAAA
1 CATGTATCGATACAATGAA
2304551 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
2304570 CATGTATCGATACAATG
1 CATGTATCGATACAATG
2304587 TATCGATACA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:2304589 original size:13 final size:13
Alignment explanation
Indices: 2304571--2304627 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
2304561 TACAATGAAC
2304571 ATGTATCGATACA
1 ATGTATCGATACA
2304584 ATGTATCGATACA
1 ATGTATCGATACA
*
2304597 A---AGC-AT--A
1 ATGTATCGATACA
2304604 ATGTATCGATACA
1 ATGTATCGATACA
2304617 ATGTATCGATA
1 ATGTATCGATA
2304628 AAAAGCATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
7 2 0.06
9 2 0.06
10 4 0.11
11 2 0.06
13 26 0.72
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2304608 original size:20 final size:20
Alignment explanation
Indices: 2304583--2304649 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 20
2304573 GTATCGATAC
2304583 AATGTATCGATACAAAGCAT
1 AATGTATCGATACAAAGCAT
2304603 AATGTATCGAT----A-C--
1 AATGTATCGATACAAAGCAT
*
2304616 AATGTATCGATAAAAAGCAT
1 AATGTATCGATACAAAGCAT
2304636 AATGTATCGATACA
1 AATGTATCGATACA
2304650 TCTGGATGTG
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
13 11 0.28
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
20 24 0.62
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAAAGCAT
Found at i:2304613 original size:33 final size:33
Alignment explanation
Indices: 2304552--2304649 Score: 155
Period size: 33 Copynumber: 3.0 Consensus size: 33
2304542 TACAATAAAC
*
2304552 ATGTATCGATACAATG-A-ACATGTATCGATACA
1 ATGTATCGATACAAAGCATA-ATGTATCGATACA
2304584 ATGTATCGATACAAAGCATAATGTATCGATACA
1 ATGTATCGATACAAAGCATAATGTATCGATACA
*
2304617 ATGTATCGATAAAAAGCATAATGTATCGATACA
1 ATGTATCGATACAAAGCATAATGTATCGATACA
2304650 TCTGGATGTG
Statistics
Matches: 62, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
32 15 0.24
33 46 0.74
34 1 0.02
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACAAAGCATAATGTATCGATACA
Found at i:2307938 original size:204 final size:201
Alignment explanation
Indices: 2307372--2308178 Score: 1296
Period size: 204 Copynumber: 4.0 Consensus size: 201
2307362 TAACGTAAGT
* * * *
2307372 ATATAATTATAATTTAATTAAACTAAGGCTAAAAGAAATTACTATTAAAAAAAGGCTAGAAATTA
1 ATATAATTATAATTTAATAAAACCAAGGCCAAAAGAAATTACTATTAAAAAAAAGCTAGAAATTA
* *
2307437 GGGTATAAAGCAATCCATTTAATTGCATTATGTATACATAA-CCCTAAAAATCAATAATTAGATA
66 GGGTATAAAGCAATCCATTTAA-TGCATTCTATATACATAACCCCT-AAAATCAATAATTAGATA
*
2307501 TCTTTGAATTCGTTTGTTTAAATTAAATGAATTTATTTATGAATATTAAACGAACGTGTTCTAAT
129 TCTTTGAATTCGTTTGTTTAAATTAAATGAATTTATTTATAAATATTAAACGAACGTGTTCTAAT
2307566 ATATAATC
194 ATATAATC
* *
2307574 ATATAATTATAATTTAATAAAACTAAGGCCAAAAGAAACTACTATT--AAAAAAGCTAGAAATTA
1 ATATAATTATAATTTAATAAAACCAAGGCCAAAAGAAATTACTATTAAAAAAAAGCTAGAAATTA
*
2307637 GGGTATAAAGCAATCCATTTAATGCATTCTATATACATAACCCCTAAAATCAATAATTAGATGTC
66 GGGTATAAAGCAATCCATTTAATGCATTCTATATACATAACCCCTAAAATCAATAATTAGATATC
2307702 TTTGAATTCGTTTGTTTAAATTAAATGAATTTATTTATAAATATTAAACGAACGTGTTCTAATAT
131 TTTGAATTCGTTTGTTTAAATTAAATGAATTTATTTATAAATATTAAACGAACGTGTTCTAATAT
2307767 ATAATC
196 ATAATC
* * *
2307773 ATGTACTTATAATTTAATAAAACCAAGGCCGAAAGAAATTACTATTAAAAAAAAAAAGCTAGAAA
1 ATATAATTATAATTTAATAAAACCAAGGCCAAAAGAAATTACTATT---AAAAAAAAGCTAGAAA
* * * *
2307838 TGAAGGTATAAAGCAATCCATTTAATGCATTCTATATACATAACCCCTAAAATTAATTATTAGAT
63 TTAGGGTATAAAGCAATCCATTTAATGCATTCTATATACATAACCCCTAAAATCAATAATTAGAT
* * * *
2307903 ATCTTTGAATTCGTTTGTTTAAATTTAATGAATTTATTTATGAGTATTAAACGAACATGTTCTAA
128 ATCTTTGAATTCGTTTGTTTAAATTAAATGAATTTATTTATAAATATTAAACGAACGTGTTCTAA
2307968 TATATAATC
193 TATATAATC
* *
2307977 ATATAATTATAAGTTAATAAAACCAAGACCAAAAGAAATTACTATTAAAAAAAAGCTAGAAATTA
1 ATATAATTATAATTTAATAAAACCAAGGCCAAAAGAAATTACTATTAAAAAAAAGCTAGAAATTA
* * *
2308042 GGGTATAAAGCAATCCATTCAATGCATTCTATATACATAACTCCTAAAATTAATAATTAGATATC
66 GGGTATAAAGCAATCCATTTAATGCATTCTATATACATAACCCCTAAAATCAATAATTAGATATC
* *
2308107 TTTGAATTCGTTTATTTAAATTAAATAAATTTATTTATAAATATTAAACGAACGTGTTCTAATAT
131 TTTGAATTCGTTTGTTTAAATTAAATGAATTTATTTATAAATATTAAACGAACGTGTTCTAATAT
2308172 ATAATC
196 ATAATC
2308178 A
1 A
2308179 ATACATTCAT
Statistics
Matches: 561, Mismatches: 38, Indels: 13
0.92 0.06 0.02
Matches are distributed among these distances:
199 146 0.26
200 42 0.07
201 145 0.26
202 43 0.08
204 185 0.33
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.35
Consensus pattern (201 bp):
ATATAATTATAATTTAATAAAACCAAGGCCAAAAGAAATTACTATTAAAAAAAAGCTAGAAATTA
GGGTATAAAGCAATCCATTTAATGCATTCTATATACATAACCCCTAAAATCAATAATTAGATATC
TTTGAATTCGTTTGTTTAAATTAAATGAATTTATTTATAAATATTAAACGAACGTGTTCTAATAT
ATAATC
Found at i:2308167 original size:405 final size:401
Alignment explanation
Indices: 2307378--2308178 Score: 1318
Period size: 405 Copynumber: 2.0 Consensus size: 401
2307368 AAGTATATAA
* * * * * *
2307378 TTATAATTTAATTAAACTAAGGCTAAAAGAAATTACTATTAAAAAAAGGCTAGAAATTAGGGTAT
1 TTATAATTTAATAAAACCAAGGCCAAAAGAAATTACTATTAAAAAAAAGCTAGAAATGAAGGTAT
*
2307443 AAAGCAATCCATTTAATTGCATTATGTATACATAACCCTAAAAATCAATAATTAGATATCTTTGA
66 AAAGCAATCCATTTAATTGCATTATATATACATAACCCTAAAAATCAATAATTAGATATCTTTGA
*
2307508 ATTCGTTTGTTTAAATTAAATGAATTTATTTATGAATATTAAACGAACGTGTTCTAATATATAAT
131 ATTCGTTTGTTTAAATTAAATGAATTTATTTATGAATATTAAACGAACATGTTCTAATATATAAT
* * *
2307573 CATATAATTATAATTTAATAAAACTAAGGCCAAAAGAAACTACTATTAAAAAAGCTAGAAATTAG
196 CATATAATTATAAGTTAATAAAACCAAGACCAAAAGAAACTACTATTAAAAAAGCTAGAAATTAG
* *
2307638 GGTATAAAGCAATCCATTTAATGCATTCTATATACATAACCCCTAAAATCAATAATTAGATGTCT
261 GGTATAAAGCAATCCATTCAATGCATTCTATATACATAACCCCTAAAATCAATAATTAGATATCT
* *
2307703 TTGAATTCGTTTGTTTAAATTAAATGAATTTATTTATAAATATTAAACGAACGTGTTCTAATATA
326 TTGAATTCGTTTATTTAAATTAAATAAATTTATTTATAAATATTAAACGAACGTGTTCTAATATA
2307768 TAATCATGTAC
391 TAATCATGTAC
*
2307779 TTATAATTTAATAAAACCAAGGCCGAAAGAAATTACTATTAAAAAAAAAAAGCTAGAAATGAAGG
1 TTATAATTTAATAAAACCAAGGCCAAAAGAAATTACTATT---AAAAAAAAGCTAGAAATGAAGG
* * *
2307844 TATAAAGCAATCCATTTAA-TGCATTCTATATACATAACCCCT-AAAATTAATTATTAGATATCT
63 TATAAAGCAATCCATTTAATTGCATTATATATACATAA-CCCTAAAAATCAATAATTAGATATCT
* *
2307907 TTGAATTCGTTTGTTTAAATTTAATGAATTTATTTATGAGTATTAAACGAACATGTTCTAATATA
127 TTGAATTCGTTTGTTTAAATTAAATGAATTTATTTATGAATATTAAACGAACATGTTCTAATATA
*
2307972 TAATCATATAATTATAAGTTAATAAAACCAAGACCAAAAGAAATTACTATTAAAAAAAAGCTAGA
192 TAATCATATAATTATAAGTTAATAAAACCAAGACCAAAAGAAACTACTATT--AAAAAAGCTAGA
* *
2308037 AATTAGGGTATAAAGCAATCCATTCAATGCATTCTATATACATAACTCCTAAAATTAATAATTAG
255 AATTAGGGTATAAAGCAATCCATTCAATGCATTCTATATACATAACCCCTAAAATCAATAATTAG
2308102 ATATCTTTGAATTCGTTTATTTAAATTAAATAAATTTATTTATAAATATTAAACGAACGTGTTCT
320 ATATCTTTGAATTCGTTTATTTAAATTAAATAAATTTATTTATAAATATTAAACGAACGTGTTCT
2308167 AATATATAATCA
385 AATATATAATCA
2308179 ATACATTCAT
Statistics
Matches: 370, Mismatches: 24, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
401 36 0.10
403 144 0.39
404 42 0.11
405 148 0.40
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.35
Consensus pattern (401 bp):
TTATAATTTAATAAAACCAAGGCCAAAAGAAATTACTATTAAAAAAAAGCTAGAAATGAAGGTAT
AAAGCAATCCATTTAATTGCATTATATATACATAACCCTAAAAATCAATAATTAGATATCTTTGA
ATTCGTTTGTTTAAATTAAATGAATTTATTTATGAATATTAAACGAACATGTTCTAATATATAAT
CATATAATTATAAGTTAATAAAACCAAGACCAAAAGAAACTACTATTAAAAAAGCTAGAAATTAG
GGTATAAAGCAATCCATTCAATGCATTCTATATACATAACCCCTAAAATCAATAATTAGATATCT
TTGAATTCGTTTATTTAAATTAAATAAATTTATTTATAAATATTAAACGAACGTGTTCTAATATA
TAATCATGTAC
Found at i:2310353 original size:41 final size:41
Alignment explanation
Indices: 2310299--2310517 Score: 251
Period size: 41 Copynumber: 5.3 Consensus size: 41
2310289 CATTAAAACT
* *
2310299 CTATATGATTTTATTTAACGGCGTTTTAATGTAAAATATCG
1 CTATATGATTTTATTTAACGGCATTTTAATGTAAAATGTCG
*
2310340 CTATATGATTTTATTTAACAGCATTTTAATGTAAAATGTCG
1 CTATATGATTTTATTTAACGGCATTTTAATGTAAAATGTCG
* * * *** * *
2310381 TTATATGAGTTTATTTAGCGATGTTTTAATATAAAACGTCG
1 CTATATGATTTTATTTAACGGCATTTTAATGTAAAATGTCG
* * *
2310422 CTATACGATTTTATTTAACGGTATTTTAATGTAAAATGCCG
1 CTATATGATTTTATTTAACGGCATTTTAATGTAAAATGTCG
* ** * *
2310463 CTATACGATTTTATTTAGTGGCATTTTACAT-TAAAACGCCG
1 CTATATGATTTTATTTAACGGCATTTTA-ATGTAAAATGTCG
2310504 CTATATGATTTTAT
1 CTATATGATTTTAT
2310518 CTTGGATGAC
Statistics
Matches: 151, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
41 149 0.99
42 2 0.01
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (41 bp):
CTATATGATTTTATTTAACGGCATTTTAATGTAAAATGTCG
Found at i:2310556 original size:123 final size:123
Alignment explanation
Indices: 2310306--2310566 Score: 278
Period size: 123 Copynumber: 2.1 Consensus size: 123
2310296 ACTCTATATG
* * *
2310306 ATTTTATTTAACGGCGTTTTAATGTAAAATATCGCTATATGATTTTATTTAACAGCATTTTAATG
1 ATTTTATTTAACGGCATTTTAATGTAAAATACCGCTATACGATTTTATTTAACAGCATTTTAATG
* * * * * * *
2310371 TAAAATGTCGTTATATGAGTTTATTTAGCGATGTTTTAATATAAAACGTCGCTATACG
66 TAAAACGCCGCTATATGAGTTTATTTAGCGACGTTTTAATATAAAACGTCACTAAACA
* * ***
2310429 ATTTTATTTAACGGTATTTTAATGTAAAATGCCGCTATACGATTTTATTTAGTGGCATTTTACAT
1 ATTTTATTTAACGGCATTTTAATGTAAAATACCGCTATACGATTTTATTTAACAGCATTTTA-AT
* * * *
2310494 -TAAAACGCCGCTATATGATTTTATCTTGGATGACGTTTTTAA-A-AAAA-GTCACTAAATA
65 GTAAAACGCCGCTATATGAGTTTAT-TTAG-CGACG-TTTTAATATAAAACGTCACTAAACA
*
2310552 ATTTTATTTAGCGGC
1 ATTTTATTTAACGGC
2310567 GTTTCATTAT
Statistics
Matches: 113, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
123 94 0.83
124 9 0.08
125 4 0.04
126 6 0.05
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (123 bp):
ATTTTATTTAACGGCATTTTAATGTAAAATACCGCTATACGATTTTATTTAACAGCATTTTAATG
TAAAACGCCGCTATATGAGTTTATTTAGCGACGTTTTAATATAAAACGTCACTAAACA
Found at i:2313226 original size:13 final size:13
Alignment explanation
Indices: 2313208--2313233 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2313198 TTAAGTTTTT
2313208 TATATTTAAATAA
1 TATATTTAAATAA
2313221 TATATTTAAATAA
1 TATATTTAAATAA
2313234 ATTTATCTGC
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TATATTTAAATAA
Found at i:2316621 original size:18 final size:19
Alignment explanation
Indices: 2316578--2316622 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
2316568 TATATATATT
*
2316578 AATATATAATAATACATGA
1 AATATATTATAATACATGA
2316597 AAT-TATTATAATTA-AT-A
1 AATATATTATAA-TACATGA
2316614 AATATATTA
1 AATATATTA
2316623 CACGGTACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 4 0.17
18 14 0.61
19 5 0.22
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
AATATATTATAATACATGA
Found at i:2317165 original size:21 final size:22
Alignment explanation
Indices: 2317140--2317208 Score: 63
Period size: 21 Copynumber: 3.1 Consensus size: 22
2317130 AAATATAATA
*
2317140 ATTACACAAATTATATTATC-T
1 ATTACAAAAATTATATTATCAT
* *
2317161 ATTACATAAGTTA-ATTATCAT
1 ATTACAAAAATTATATTATCAT
2317182 ATGTAACAAAAATATATATTA-CAT
1 AT-T-ACAAAAAT-TATATTATCAT
2317206 ATT
1 ATT
2317209 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 6 0.15
21 14 0.36
22 1 0.03
23 7 0.18
24 7 0.18
25 4 0.10
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (22 bp):
ATTACAAAAATTATATTATCAT
Found at i:2317583 original size:21 final size:21
Alignment explanation
Indices: 2317541--2317584 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2317531 AAAAAATTAT
*
2317541 TATATACTTTTATTTTATTAA
1 TATATACTTTTATTTTAGTAA
*
2317562 TATATA-TTTTGTTATTAGTAA
1 TATATACTTTTATT-TTAGTAA
2317583 TA
1 TA
2317585 ACTATATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (21 bp):
TATATACTTTTATTTTAGTAA
Found at i:2318950 original size:19 final size:19
Alignment explanation
Indices: 2318926--2318965 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
2318916 AAATATTACA
2318926 AAAATTACACATAAAT-ATT
1 AAAATT-CACATAAATAATT
*
2318945 AAAATTTACATAAATAATT
1 AAAATTCACATAAATAATT
2318964 AA
1 AA
2318966 TTTGTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATTCACATAAATAATT
Found at i:2319274 original size:419 final size:424
Alignment explanation
Indices: 2318645--2319470 Score: 1036
Period size: 419 Copynumber: 2.0 Consensus size: 424
2318635 ATCATTAAAA
* ** *
2318645 ATTTACGTAAAATATTACCGAAACTATAATATATTTATGTAAAAAAAATATTTTAAGAAAAATAA
1 ATTTACATAAAATATTACCGAAACTATAATATATTTAAATAAAAAAAATATTATAAGAAAAATAA
*
2318710 AGTATAATCATTTCAAAATTATTTTTGATTTTTATTAAATATATTATATATAGAAATTAATTTTC
66 AGTATAATCATTTCAAAATTATTTTTGATTTTTATTAAATATATTATATATAAAAATTAATTTTC
* *
2318775 GTAGTAATTTTTTGAAGTTAAAAAAATTTTATATTTCTATTTTATTTATATATTAATATTAGCAT
131 GTAGTAATTTTTTGAAGTTAAAAAAATTTTATATTTCTATTTTATTTATATATTAATATTAACAA
* * *
2318840 TAAATATAATATATTAATAAAAAATTAATG-TATGATAAAATTTAGATTTTTTTATTAGTTGGTA
196 TAAATATAATATATTAATAAAAAATCAATGTTATAATAAAATTTAGA-TTTTTTATTAGTTCGTA
* * *
2318904 AGAATTAGAATTAAATATTACAAAAATTACACATAAATATTAAAATTTACATAAATAATTA-ATT
260 AGAATTACAACTAAATATTACAAAAATTACACATAAATATTAAAATTTACATAAATAATTAGAGT
* * * *
2318968 TGTAAATAATGCTTGTATGTAATATATG-TG-GTTAATGCACTTGTGTAAAGATTCTTTAAAGGT
325 T-TAAATAATGCTTGTATGTAATATATGTTGAGATAATGCACTTATATAAAGAATCTTTAAAGGT
*
2319031 AATATTTGTGTATAAAAAATTACAAAAAAATTACAT
389 AATATTTGTATATAAAAAATTACAAAAAAATTACAT
* * * *
2319067 ATTTACATAAAATATTA-CGAAAACTGTAATGTATTTAAAT-AAAAAATTCTTATAAGAAAAATA
1 ATTTACATAAAATATTACCG-AAACTATAATATATTTAAATAAAAAAAATATTATAAGAAAAATA
* ** *
2319130 AAGTTTAATTTTTTC-AAATT-TTTTTTATTTTTCATTAAATATATTATATATGTAAAAAAAGTT
65 AAGTATAATCATTTCAAAATTATTTTTGATTTTT-ATTAAATATATTATATA--T--AAAAA-TT
* *
2319193 GATTTT-TTAAGTAA-TTTTTGAAGTTAAAAAAA-TTTATATTT-TA-TTTATATT-T-T-TTAA
124 AATTTTCGT-AGTAATTTTTTGAAGTTAAAAAAATTTTATATTTCTATTTTAT-TTATATATTAA
* *
2319250 TATTAATAATAAATATAATATATTAATAAAAAATCAATGTTATAATAAAGTTTAGATTTTTTATT
187 TATTAACAATAAATATAATATATTAATAAAAAATCAATGTTATAATAAAATTTAGATTTTTTATT
** * * * *
2319315 AGTTCGTAAGAATTACAACTAAATATTATGAAAATTCCATATAAATATTACAATTTATATAAATA
252 AGTTCGTAAGAATTACAACTAAATATTACAAAAATTACACATAAATATTAAAATTTACATAAATA
** * * * *
2319380 ATTAGAGTTTAGGTAATGTTTGTATGTAATATGTGTTGTAGATAATGTATTTATATAAAGAATCT
317 ATTAGAGTTTAAATAATGCTTGTATGTAATATATGTTG-AGATAATGCACTTATATAAAGAATCT
* *
2319445 TTAAAGGTAATGTTTGTATGTAAAAA
381 TTAAAGGTAATATTTGTATATAAAAA
2319471 GTAACATATA
Statistics
Matches: 346, Mismatches: 44, Indels: 28
0.83 0.11 0.07
Matches are distributed among these distances:
419 141 0.41
420 42 0.12
421 40 0.12
422 79 0.23
423 9 0.03
424 23 0.07
425 12 0.03
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (424 bp):
ATTTACATAAAATATTACCGAAACTATAATATATTTAAATAAAAAAAATATTATAAGAAAAATAA
AGTATAATCATTTCAAAATTATTTTTGATTTTTATTAAATATATTATATATAAAAATTAATTTTC
GTAGTAATTTTTTGAAGTTAAAAAAATTTTATATTTCTATTTTATTTATATATTAATATTAACAA
TAAATATAATATATTAATAAAAAATCAATGTTATAATAAAATTTAGATTTTTTATTAGTTCGTAA
GAATTACAACTAAATATTACAAAAATTACACATAAATATTAAAATTTACATAAATAATTAGAGTT
TAAATAATGCTTGTATGTAATATATGTTGAGATAATGCACTTATATAAAGAATCTTTAAAGGTAA
TATTTGTATATAAAAAATTACAAAAAAATTACAT
Found at i:2319996 original size:22 final size:22
Alignment explanation
Indices: 2319956--2320015 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
2319946 ACATTCAATA
* **
2319956 ATATATACATTTAGCTATAA-C
1 ATATATACATTCAATTATAATC
*
2319977 AATATGTACATTCAATTATAATC
1 -ATATATACATTCAATTATAATC
*
2320000 ATATATACATTTAATT
1 ATATATACATTCAATT
2320016 TTATTTGAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
22 30 0.97
23 1 0.03
ACGTcount: A:0.43, C:0.12, G:0.03, T:0.42
Consensus pattern (22 bp):
ATATATACATTCAATTATAATC
Found at i:2320219 original size:21 final size:22
Alignment explanation
Indices: 2320193--2320241 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
2320183 ATAACCTACT
*
2320193 ATTTAGGCTAAAA-ATATATAC
1 ATTTAGGCTAAAACAGATATAC
*
2320214 ATTTA-GTTAAAATCAGATATAC
1 ATTTAGGCTAAAA-CAGATATAC
2320236 ATTTAG
1 ATTTAG
2320242 TTAAAGTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 6 0.26
21 5 0.22
22 12 0.52
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (22 bp):
ATTTAGGCTAAAACAGATATAC
Found at i:2320289 original size:22 final size:22
Alignment explanation
Indices: 2320206--2320297 Score: 94
Period size: 22 Copynumber: 4.2 Consensus size: 22
2320196 TAGGCTAAAA
2320206 ATATATACATTTAGTTAAAATC
1 ATATATACATTTAGTTAAAATC
* *
2320228 AGATATACATTTAGTTAAAGTC
1 ATATATACATTTAGTTAAAATC
* * * * *
2320250 AAATATATATTTAATTATATTC
1 ATATATACATTTAGTTAAAATC
* * *
2320272 ATATATACATTCAGTTATAATT
1 ATATATACATTTAGTTAAAATC
2320294 ATAT
1 ATAT
2320298 TTATATTCAA
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 57 1.00
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.43
Consensus pattern (22 bp):
ATATATACATTTAGTTAAAATC
Found at i:2320406 original size:22 final size:22
Alignment explanation
Indices: 2320381--2320431 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
2320371 AATTAAAGTT
*
2320381 ATATGTACATTAAGTTATTATC
1 ATATGTACATTAAGTTATGATC
** *
2320403 ATATGTGTATTCAGTTATGATC
1 ATATGTACATTAAGTTATGATC
2320425 ATATGTA
1 ATATGTA
2320432 ATCAATTTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (22 bp):
ATATGTACATTAAGTTATGATC
Found at i:2324393 original size:4 final size:4
Alignment explanation
Indices: 2324386--2324435 Score: 50
Period size: 4 Copynumber: 12.5 Consensus size: 4
2324376 TTGGGTAGCT
* *
2324386 AAGA AAGA AAGA AACAA AAGGA AAGA AAGA AAG- GAGA AA-A AAGA AAGA
1 AAGA AAGA AAGA AA-GA AA-GA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
2324434 AA
1 AA
2324436 AATGAATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
3 5 0.13
4 27 0.71
5 6 0.16
ACGTcount: A:0.74, C:0.02, G:0.24, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:2324414 original size:22 final size:22
Alignment explanation
Indices: 2324387--2324435 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
2324377 TGGGTAGCTA
2324387 AGAAAGAAA-GA-AACAAAAGGAA
1 AGAAAGAAAGGAGAA-AAAA-GAA
2324409 AGAAAGAAAGGAGAAAAAAGAA
1 AGAAAGAAAGGAGAAAAAAGAA
2324431 AGAAA
1 AGAAA
2324436 AATGAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 17 0.68
23 6 0.24
24 2 0.08
ACGTcount: A:0.73, C:0.02, G:0.24, T:0.00
Consensus pattern (22 bp):
AGAAAGAAAGGAGAAAAAAGAA
Found at i:2325171 original size:18 final size:19
Alignment explanation
Indices: 2325148--2325185 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
2325138 GTTAGTAACA
2325148 TATTT-ATATTATTTTTTG
1 TATTTAATATTATTTTTTG
2325166 TATTTAAAATATTATTTTTT
1 TATTT--AATATTATTTTTT
2325186 ATATATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
21 12 0.71
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TATTTAATATTATTTTTTG
Found at i:2325303 original size:14 final size:14
Alignment explanation
Indices: 2325279--2325312 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2325269 TTTCATTTTA
2325279 TGTTT-TAAATATT
1 TGTTTATAAATATT
*
2325292 TTTTTATAAATATT
1 TGTTTATAAATATT
2325306 TGTTTAT
1 TGTTTAT
2325313 GTTATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (14 bp):
TGTTTATAAATATT
Found at i:2326077 original size:21 final size:18
Alignment explanation
Indices: 2326038--2326083 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
2326028 TCCAAACATA
*
2326038 AATTTTATTATTGATTTT
1 AATTTTATTATTAATTTT
2326056 AATTTTATTATTACAATATTT
1 AATTTTATTATT--AAT-TTT
2326077 AATTTTA
1 AATTTTA
2326084 CTGTTACATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 12 0.50
20 2 0.08
21 10 0.42
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (18 bp):
AATTTTATTATTAATTTT
Found at i:2326114 original size:18 final size:18
Alignment explanation
Indices: 2326091--2326128 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
2326081 TTACTGTTAC
2326091 ATGATAAATCTCATCATA
1 ATGATAAATCTCATCATA
2326109 ATGATAAATCTCATCATA
1 ATGATAAATCTCATCATA
2326127 AT
1 AT
2326129 CATACTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (18 bp):
ATGATAAATCTCATCATA
Found at i:2335212 original size:13 final size:13
Alignment explanation
Indices: 2335196--2335220 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2335186 AGATTTTGAT
2335196 TATTAATTTAATG
1 TATTAATTTAATG
2335209 TATTAATTTAAT
1 TATTAATTTAAT
2335221 TTTAAAAAAT
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):
TATTAATTTAATG
Found at i:2335275 original size:20 final size:20
Alignment explanation
Indices: 2335236--2335280 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
2335226 AAAATATAAA
*
2335236 ATTAAATAATTATTAAATAT
1 ATTAAATAATTAATAAATAT
* *
2335256 ATTAAATATTTAATATATAT
1 ATTAAATAATTAATAAATAT
*
2335276 TTTAA
1 ATTAA
2335281 TGACATGATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTAAATAATTAATAAATAT
Found at i:2335358 original size:11 final size:11
Alignment explanation
Indices: 2335338--2335367 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
2335328 CTTAATATTT
*
2335338 ATAAAAATAAA
1 ATAAATATAAA
2335349 ATAAATATAAA
1 ATAAATATAAA
2335360 ATAAATAT
1 ATAAATAT
2335368 TTTTAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAAATATAAA
Found at i:2336307 original size:16 final size:16
Alignment explanation
Indices: 2336283--2336356 Score: 64
Period size: 16 Copynumber: 4.6 Consensus size: 16
2336273 TTCTATGAGA
2336283 ATATTATTTTATAAATG
1 ATATTATTTTATAAA-G
*
2336300 AT-TTATTTCATAAAG
1 ATATTATTTTATAAAG
2336315 ATATTATTTTAAATAAA-
1 ATATTATTTT--ATAAAG
* *
2336332 AAATTATTTTA-AAAA
1 ATATTATTTTATAAAG
*
2336347 ATTTTATTTT
1 ATATTATTTT
2336357 GAACAAGAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
14 3 0.06
15 12 0.25
16 17 0.35
17 11 0.23
18 5 0.10
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (16 bp):
ATATTATTTTATAAAG
Found at i:2336374 original size:16 final size:17
Alignment explanation
Indices: 2336353--2336388 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
2336343 AAAAATTTTA
2336353 TTTTGAACAAGAATT-T
1 TTTTGAACAAGAATTAT
*
2336369 TTTTGAATAAGAATTAT
1 TTTTGAACAAGAATTAT
2336386 TTT
1 TTT
2336389 AAATTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.36, C:0.03, G:0.11, T:0.50
Consensus pattern (17 bp):
TTTTGAACAAGAATTAT
Found at i:2336378 original size:48 final size:48
Alignment explanation
Indices: 2336312--2336441 Score: 129
Period size: 48 Copynumber: 2.7 Consensus size: 48
2336302 TTATTTCATA
* * *
2336312 AAGATATTATTTTAAATAAAAAATTATTTTAAA-AAATTTTATTTTGAAC
1 AAGA-ATTTTTTTGAAT-AAAAATTATTTTAAATAAATTTTATTTTAAAC
* * *
2336361 AAGAATTTTTTTGAATAAGAATTATTTTAAATTTATTTTTATTTTAAAC
1 AAGAATTTTTTTGAATAAAAATTATTTTAAA-TAAATTTTATTTTAAAC
* ** *
2336410 AA-AAATTACTTGAATAAAAATTGTTTTAAATA
1 AAGAATTTTTTTGAATAAAAATTATTTTAAATA
2336442 TGAGTTACTT
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
47 15 0.22
48 33 0.49
49 19 0.28
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (48 bp):
AAGAATTTTTTTGAATAAAAATTATTTTAAATAAATTTTATTTTAAAC
Found at i:2337751 original size:22 final size:22
Alignment explanation
Indices: 2337713--2337781 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
2337703 ATAAAACTTT
*
2337713 TATAAA-TTTAAATTAATTTAA
1 TATAAATTTTTAATTAATTTAA
2337734 TATAAATTTTTAATTAA-TTAA
1 TATAAATTTTTAATTAATTTAA
* *
2337755 TAAATAATTTTTATTTAAATTTAA
1 TATA-AATTTTTAATT-AATTTAA
2337779 TAT
1 TAT
2337782 TAAAATATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 13 0.32
22 19 0.47
23 2 0.05
24 6 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TATAAATTTTTAATTAATTTAA
Found at i:2340236 original size:13 final size:15
Alignment explanation
Indices: 2340212--2340244 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2340202 ATTGTAGTCT
2340212 TTATACTTTT-AAAA
1 TTATACTTTTAAAAA
2340226 TTATA-TTTTAAAAA
1 TTATACTTTTAAAAA
2340240 TTATA
1 TTATA
2340245 ACAAATAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (15 bp):
TTATACTTTTAAAAA
Found at i:2340464 original size:20 final size:19
Alignment explanation
Indices: 2340413--2340466 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
2340403 TATTAAAAAA
2340413 ATTAA-TATTTTATTAATAT
1 ATTAATTATTTT-TTAATAT
* *
2340432 ATAAATAATTTTTTTAATAT
1 ATTAATTA-TTTTTTAATAT
2340452 CATTAATTATTTTTT
1 -ATTAATTATTTTTT
2340467 TATTTATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
19 4 0.14
20 14 0.50
21 10 0.36
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTAATTATTTTTTAATAT
Found at i:2340479 original size:21 final size:21
Alignment explanation
Indices: 2340420--2340480 Score: 52
Period size: 21 Copynumber: 2.8 Consensus size: 21
2340410 AAAATTAATA
* *
2340420 TTTTATTAATATATAAATAATTT
1 TTTTATTTAT-TAT-AATTATTT
* *
2340443 TTTTA-ATATCATTAATTATTT
1 TTTTATTTATTA-TAATTATTT
2340464 TTTTATTTATTATAATT
1 TTTTATTTATTATAATT
2340481 TTCACCGAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
21 18 0.60
22 7 0.23
23 5 0.17
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTATTTATTATAATTATTT
Found at i:2340482 original size:18 final size:21
Alignment explanation
Indices: 2340413--2340468 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
2340403 TATTAAAAAA
*
2340413 ATTAAT-ATTTTATTAATAT-
1 ATTAATAATTTTTTTAATATC
*
2340432 ATAAATAATTTTTTTAATATC
1 ATTAATAATTTTTTTAATATC
*
2340453 ATTAATTATTTTTTTA
1 ATTAATAATTTTTTTA
2340469 TTTATTATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.16
20 12 0.39
21 14 0.45
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTAATAATTTTTTTAATATC
Found at i:2347091 original size:32 final size:32
Alignment explanation
Indices: 2347050--2347125 Score: 125
Period size: 32 Copynumber: 2.4 Consensus size: 32
2347040 TCTTTTAGCC
* *
2347050 ATTTAATCAATAATGGTAGCACCTTTGCACCA
1 ATTTAATCAACAATGGCAGCACCTTTGCACCA
*
2347082 ATTTAATCAACAATGGCAGCACCTTTGCACCT
1 ATTTAATCAACAATGGCAGCACCTTTGCACCA
2347114 ATTTAATCAACA
1 ATTTAATCAACA
2347126 CGTTTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.30
Consensus pattern (32 bp):
ATTTAATCAACAATGGCAGCACCTTTGCACCA
Found at i:2349301 original size:2 final size:2
Alignment explanation
Indices: 2349294--2349332 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2349284 ATATTTAAAC
2349294 TA TA TA TA 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 TA TA TA TA T
2349333 GTTGTGAACC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2356275 original size:79 final size:79
Alignment explanation
Indices: 2356186--2356340 Score: 256
Period size: 79 Copynumber: 2.0 Consensus size: 79
2356176 AAGTAAGAGA
* *
2356186 TTGAAAAGTATTCTAGATAAACACTTTTAGAACTAAAAATAAAGATTTGATGAGAAAAATCTAAA
1 TTGAAAAGTATTCTAAATAAACACTTTTAGAACTAAAAACAAAGATTTGATGAGAAAAATCTAAA
2356251 ACCTTAGAGTAGTT
66 ACCTTAGAGTAGTT
* * * *
2356265 TTGAAGAGTATTCTAAATAGACACTTTTAGAACTAAAAACAAAGATTTGATGAGAAAATTCTATA
1 TTGAAAAGTATTCTAAATAAACACTTTTAGAACTAAAAACAAAGATTTGATGAGAAAAATCTAAA
2356330 ACCTTAGAGTA
66 ACCTTAGAGTA
2356341 TTTGTTGATA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 70 1.00
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.30
Consensus pattern (79 bp):
TTGAAAAGTATTCTAAATAAACACTTTTAGAACTAAAAACAAAGATTTGATGAGAAAAATCTAAA
ACCTTAGAGTAGTT
Found at i:2364270 original size:21 final size:19
Alignment explanation
Indices: 2364245--2364287 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
2364235 TTTATTCACA
2364245 TAAATCAAATATATAAAAT-TT
1 TAAAT-AAA-ATA-AAAATATT
2364266 TAAATAAAATAAAAATATT
1 TAAATAAAATAAAAATATT
2364285 TAA
1 TAA
2364288 TTATTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 5 0.24
19 8 0.38
20 3 0.14
21 5 0.24
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAATAAAATAAAAATATT
Found at i:2364350 original size:28 final size:29
Alignment explanation
Indices: 2364305--2364369 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 29
2364295 TTTTATGTAA
** * * *
2364305 AAAAATATTTTATTTTTAAAT-ATGTATT
1 AAAAATATAATATCTTTAAATAATATAAT
*
2364333 AAAAATATAATATCTTTAACTAATATAAT
1 AAAAATATAATATCTTTAAATAATATAAT
2364362 AAAAATAT
1 AAAAATAT
2364370 TAAACCATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 17 0.57
29 13 0.43
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (29 bp):
AAAAATATAATATCTTTAAATAATATAAT
Found at i:2365291 original size:26 final size:27
Alignment explanation
Indices: 2365261--2365331 Score: 85
Period size: 25 Copynumber: 2.7 Consensus size: 27
2365251 ATTAATAAAA
*
2365261 AAATTAAAATTAAAATATTATTTTTTT
1 AAATTAAAATTAAAATAATATTTTTTT
* *
2365288 -AATT-TAATAAAAATAATATTTTTTT
1 AAATTAAAATTAAAATAATATTTTTTT
2365313 AAATTAATAATT-AAATAAT
1 AAATTAA-AATTAAAATAAT
2365332 CATCAATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
25 18 0.50
26 8 0.22
27 7 0.19
28 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
AAATTAAAATTAAAATAATATTTTTTT
Found at i:2365940 original size:20 final size:22
Alignment explanation
Indices: 2365893--2365947 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 22
2365883 TTAATATATT
*
2365893 TTTATATA-TTATAAATATATA
1 TTTATATATTTATAAATATAAA
2365914 TTT-TATATTTATAAA-A-AAA
1 TTTATATATTTATAAATATAAA
*
2365933 TTTATATATTAATAA
1 TTTATATATTTATAA
2365948 TTTATTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 5 0.17
20 15 0.50
21 10 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTATATATTTATAAATATAAA
Found at i:2365974 original size:23 final size:22
Alignment explanation
Indices: 2365941--2365984 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
2365931 AATTTATATA
*
2365941 TTAATAATTTATTTTATATAATT
1 TTAATAATTTATTATAT-TAATT
*
2365964 TTAATACTTTATTATATTAAT
1 TTAATAATTTATTATATTAAT
2365985 ATTATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
TTAATAATTTATTATATTAATT
Found at i:2366231 original size:21 final size:21
Alignment explanation
Indices: 2366205--2366244 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2366195 ATTAAAATAT
2366205 TATTTTAT-ATTAATATTTATA
1 TATTTTATAATTAA-ATTTATA
2366226 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
2366245 AATAAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATA
Found at i:2374109 original size:6 final size:6
Alignment explanation
Indices: 2374094--2374122 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
2374084 ATATATCATA
2374094 TTAA-T TTAATT TTAATT TTAATT TTAATT
1 TTAATT TTAATT TTAATT TTAATT TTAATT
2374123 AATTTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 19 0.83
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TTAATT
Found at i:2374364 original size:24 final size:24
Alignment explanation
Indices: 2374336--2374388 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
2374326 TTTTTTATTT
2374336 TTTAT-TTAATATATTTAGATTATA
1 TTTATGTTAAT-TATTTAGATTATA
* **
2374360 TTTATGTTAATTTTTTATTTTATA
1 TTTATGTTAATTATTTAGATTATA
2374384 TTTAT
1 TTTAT
2374389 ATAAATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (24 bp):
TTTATGTTAATTATTTAGATTATA
Found at i:2374424 original size:20 final size:21
Alignment explanation
Indices: 2374373--2374424 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 21
2374363 ATGTTAATTT
2374373 TTTATTTTATAT-TTATATAA
1 TTTATTTTATATATTATATAA
*
2374393 ---ATTTTAAAATATTA-ATAA
1 TTTATTTT-ATATATTATATAA
2374411 TTTATTTTATATAT
1 TTTATTTTATATAT
2374425 ACTTAGATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 10
0.68 0.05 0.27
Matches are distributed among these distances:
17 5 0.20
18 7 0.28
19 3 0.12
20 5 0.20
21 5 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTATTTTATATATTATATAA
Found at i:2374846 original size:38 final size:35
Alignment explanation
Indices: 2374795--2374871 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 35
2374785 TAATTGGAAA
*
2374795 ACTTTTTCTTATTTTATAAGATATATAACAATTTTCGC
1 ACTTTTTCTTA-TTTATAAGA-ATATAACAATGTT-GC
*
2374833 ACTTTTTCTTATTTATAAGAATATACCAATGTTGC
1 ACTTTTTCTTATTTATAAGAATATAACAATGTTGC
2374868 ACTT
1 ACTT
2374872 CTTGTAGTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
35 6 0.16
36 11 0.30
37 9 0.24
38 11 0.30
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.48
Consensus pattern (35 bp):
ACTTTTTCTTATTTATAAGAATATAACAATGTTGC
Found at i:2376691 original size:13 final size:13
Alignment explanation
Indices: 2376673--2376697 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2376663 TTTACTCTGT
2376673 GTTGGGGTTTAAA
1 GTTGGGGTTTAAA
2376686 GTTGGGGTTTAA
1 GTTGGGGTTTAA
2376698 GGCAAGGGGA
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:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (13 bp):
GTTGGGGTTTAAA
Found at i:2379912 original size:2 final size:2
Alignment explanation
Indices: 2379900--2379950 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
2379890 GGTCAGACAC
2379900 AG AG A- AG AG AG AG AG AG AG AG A- AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2379940 AG AG AG AG AG A
1 AG AG AG AG AG A
2379951 AAAGGAAATC
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 45 0.96
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2416822 original size:6 final size:6
Alignment explanation
Indices: 2416807--2416835 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
2416797 ATATATCATA
2416807 TTAA-T TTAATT TTAATT TTAATT TTAATT
1 TTAATT TTAATT TTAATT TTAATT TTAATT
2416836 AATTTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 19 0.83
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TTAATT
Found at i:2417077 original size:24 final size:24
Alignment explanation
Indices: 2417050--2417102 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
2417040 TTTTTTATTT
2417050 TTTAT-TTAATATATTTAGATTATA
1 TTTATGTTAAT-TATTTAGATTATA
* **
2417074 TTTATGTTAATTTTTTATTTTATA
1 TTTATGTTAATTATTTAGATTATA
2417098 TTTAT
1 TTTAT
2417103 ATAAATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (24 bp):
TTTATGTTAATTATTTAGATTATA
Found at i:2417138 original size:20 final size:21
Alignment explanation
Indices: 2417087--2417138 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 21
2417077 ATGTTAATTT
2417087 TTTATTTTATAT-TTATATAA
1 TTTATTTTATATATTATATAA
*
2417107 ---ATTTTAAAATATTA-ATAA
1 TTTATTTT-ATATATTATATAA
2417125 TTTATTTTATATAT
1 TTTATTTTATATAT
2417139 ACTTAGATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 10
0.68 0.05 0.27
Matches are distributed among these distances:
17 5 0.20
18 7 0.28
19 3 0.12
20 5 0.20
21 5 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTATTTTATATATTATATAA
Found at i:2417456 original size:31 final size:30
Alignment explanation
Indices: 2417421--2417478 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
2417411 TAATATCTTG
*
2417421 AATATGATTATAA-TATAAAAAATATAAACAC
1 AATATG-TAATAATTATAAAAAAT-TAAACAC
2417452 AATATGTAATAATTATAAAAAATTAAA
1 AATATGTAATAATTATAAAAAATTAAA
2417479 ATTGTATACC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 9 0.36
31 16 0.64
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (30 bp):
AATATGTAATAATTATAAAAAATTAAACAC
Found at i:2417560 original size:36 final size:36
Alignment explanation
Indices: 2417513--2417588 Score: 136
Period size: 36 Copynumber: 2.1 Consensus size: 36
2417503 ATTGGAAATA
2417513 ACTTTTTCTTATTTTATAAGATATATACAAT-TTCGC
1 ACTTTTTCTTATTTTATAAGATATATACAATGTT-GC
2417549 ACTTTTTCTTATTTTATAAGATATATACAATGTTGC
1 ACTTTTTCTTATTTTATAAGATATATACAATGTTGC
2417585 ACTT
1 ACTT
2417589 CTTGTAGTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 37 0.95
37 2 0.05
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (36 bp):
ACTTTTTCTTATTTTATAAGATATATACAATGTTGC
Found at i:2418282 original size:14 final size:15
Alignment explanation
Indices: 2418265--2418299 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
2418255 TTAATTTTTT
2418265 ATTATTA-AATAAAA
1 ATTATTATAATAAAA
*
2418279 ATTATTATATTAAAA
1 ATTATTATAATAAAA
2418294 ATTATT
1 ATTATT
2418300 GTAAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTATTATAATAAAA
Found at i:2418577 original size:6 final size:6
Alignment explanation
Indices: 2418566--2418605 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
2418556 ATCAAATTCG
*
2418566 TATATT TATA-T TATAAT TATATT T-T-TT TATATT TATATT T
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT T
2418606 TTACTTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
4 3 0.10
5 7 0.23
6 20 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATATT
Found at i:2418601 original size:16 final size:16
Alignment explanation
Indices: 2418566--2418607 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
2418556 ATCAAATTCG
*
2418566 TATATTTATATTATAAT
1 TATATTT-TTTTATAAT
*
2418583 TATATTTTTTTATATT
1 TATATTTTTTTATAAT
2418599 TATATTTTT
1 TATATTTTT
2418608 ACTTTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.70
17 7 0.30
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TATATTTTTTTATAAT
Found at i:2419433 original size:13 final size:13
Alignment explanation
Indices: 2419415--2419439 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2419405 TTTACTCTGT
2419415 GTTGGGGTTTAAA
1 GTTGGGGTTTAAA
2419428 GTTGGGGTTTAA
1 GTTGGGGTTTAA
2419440 GGCAAGGGGA
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:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (13 bp):
GTTGGGGTTTAAA
Found at i:2421691 original size:402 final size:409
Alignment explanation
Indices: 2420934--2421747 Score: 1410
Period size: 402 Copynumber: 2.0 Consensus size: 409
2420924 AGCTTTAATT
*
2420934 TGGTAGATTTGGAGAACTAAAAATGGTAAATGTTTAGCTAATGAGTCTTGGCAACTAAGCAGAAT
1 TGGTAGATTTGGAGAACTAAAAATGGTAAATGTTTAGCTAATGAGTATTGGCAACTAAGCAGAAT
2420999 CATATGTTCATCTTACAACTTTATAATACCATTAACAGGGGTCGTAAATACCAAATTTCATCCAG
66 CATATGTTCATCTTACAACTTTATAATACCATTAACAGGGGTCGT--ATA-C-AA-TTCAT-CAG
* *
2421064 GAGTACTGGAATGGTGAGTTGGACCAGACCCCTATTTGGTATTATGAAGTTGAATGTTGATGGCA
125 GAGTACTCGAATGGTGAGTTGGACCAGACCCCTATTTGGTATTATGAAGCTGAATGTTGATGGCA
* *
2421129 GCAGTCTCGGAAATCCAGGAAAGGTAAGGTTCTGAGGACTTATTTGAAGGGAGGATGGTGTTTGG
190 GCAGTCTCGGAAATCCAGGAAAGGCAAGGTTCAGAGGACTTATTTGAAGGGAGGATGGTGTTTGG
2421194 ATCATTGGTTTCACTAGATTTGTTCGCTTTTCTGATAACCTGCATGCAGAATTAATGGCAATATA
255 ATCATTGGTTTCACTAGATTTGTTCGCTTTTCTGATAACCTGCATGCAGAATTAATGGCAATATA
*
2421259 CAAAGGTTTACAGATTGCTTGGTCATCAAATGTTTGAAAGTTGGTTTATGAATCAGATTCTCTAG
320 CAAAGGTTTACAGATTGCTTGGTCATCAAATGTTTGAAAATTGGTTTATGAATCAGATTCTCTAG
2421324 ATGCTGTCCGACCTGTTACTAAAAA
385 ATGCTGTCCGACCTGTTACTAAAAA
* *
2421349 TGGTAGATTTGGAGAGCTAAAAATGGTAAATGTTTAGCTAATGAGTATTGGCAACTAGGCAGAAT
1 TGGTAGATTTGGAGAACTAAAAATGGTAAATGTTTAGCTAATGAGTATTGGCAACTAAGCAGAAT
2421414 CATATGTTCCATCTTACAACTTTATAATACCATTAACAGGGG-C-T-T-C-A-TC-T-AGGAGTA
66 CATATGTT-CATCTTACAACTTTATAATACCATTAACAGGGGTCGTATACAATTCATCAGGAGTA
*
2421471 CTCGAATGGTGAGTTGGACCAGACCCCTATTTGGTGTTATGAAGCTGAATGTTGATGGCAGCAGT
130 CTCGAATGGTGAGTTGGACCAGACCCCTATTTGGTATTATGAAGCTGAATGTTGATGGCAGCAGT
*
2421536 CTCGGAAATCCAGGAAAGGCAATGTTCAGAGGACTTATTTGAAGGGAGGATGGTGTTTGGATCAT
195 CTCGGAAATCCAGGAAAGGCAAGGTTCAGAGGACTTATTTGAAGGGAGGATGGTGTTTGGATCAT
2421601 TGGTTTCACTAGATTTGTTCGCTTTTCTGATAACCTGCATGCAGAATTAATGGCAATATACAAAG
260 TGGTTTCACTAGATTTGTTCGCTTTTCTGATAACCTGCATGCAGAATTAATGGCAATATACAAAG
*
2421666 GTTTACAGATTGCTTGGTCATCAAATGTTTGAAAATTGGTTTCTGAATCAGATTCTCTAGATGCT
325 GTTTACAGATTGCTTGGTCATCAAATGTTTGAAAATTGGTTTATGAATCAGATTCTCTAGATGCT
2421731 GTCCGACCTGTTACTAA
390 GTCCGACCTGTTACTAA
2421748 TCCTTGTCCT
Statistics
Matches: 387, Mismatches: 11, Indels: 15
0.94 0.03 0.04
Matches are distributed among these distances:
402 276 0.71
404 1 0.00
405 2 0.01
407 1 0.00
409 1 0.00
411 1 0.00
414 1 0.00
415 71 0.18
416 33 0.09
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (409 bp):
TGGTAGATTTGGAGAACTAAAAATGGTAAATGTTTAGCTAATGAGTATTGGCAACTAAGCAGAAT
CATATGTTCATCTTACAACTTTATAATACCATTAACAGGGGTCGTATACAATTCATCAGGAGTAC
TCGAATGGTGAGTTGGACCAGACCCCTATTTGGTATTATGAAGCTGAATGTTGATGGCAGCAGTC
TCGGAAATCCAGGAAAGGCAAGGTTCAGAGGACTTATTTGAAGGGAGGATGGTGTTTGGATCATT
GGTTTCACTAGATTTGTTCGCTTTTCTGATAACCTGCATGCAGAATTAATGGCAATATACAAAGG
TTTACAGATTGCTTGGTCATCAAATGTTTGAAAATTGGTTTATGAATCAGATTCTCTAGATGCTG
TCCGACCTGTTACTAAAAA
Found at i:2422480 original size:27 final size:29
Alignment explanation
Indices: 2422445--2422502 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 29
2422435 TTTTATATAT
*
2422445 TTTATATTTAAAT-TTAA-ATA-AATAAA
1 TTTATATTTAAATAATAATATATAATAAA
2422471 TTTATTATTTAAATAATAATATATAATAAA
1 TTTA-TATTTAAATAATAATATATAATAAA
2422501 TT
1 TT
2422503 ATCTAAATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 4 0.15
27 9 0.33
28 3 0.11
29 3 0.11
30 8 0.30
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
TTTATATTTAAATAATAATATATAATAAA
Found at i:2422647 original size:2 final size:2
Alignment explanation
Indices: 2422640--2422697 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
2422630 GGTCAGACAC
2422640 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
2422682 AG AG AG AG AG AA AG AG
1 AG AG AG AG AG AG AG AG
2422698 GAAATCTGAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2424675 original size:23 final size:23
Alignment explanation
Indices: 2424646--2424702 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
2424636 ATATTAATAA
2424646 AATATTTAAAATATTTTTAT-ATT
1 AATATTT-AAATATTTTTATAATT
*
2424669 AATATTTATATATTTTTATAATT
1 AATATTTAAATATTTTTATAATT
*
2424692 ATTA-TTAAATA
1 AATATTTAAATA
2424703 GTAATACAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
AATATTTAAATATTTTTATAATT
Found at i:2432215 original size:15 final size:15
Alignment explanation
Indices: 2432195--2432224 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2432185 TTGCAGAAAG
2432195 AGCTATGGCCGTTTC
1 AGCTATGGCCGTTTC
2432210 AGCTATGGCCGTTTC
1 AGCTATGGCCGTTTC
2432225 TTTGCTGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.27, T:0.33
Consensus pattern (15 bp):
AGCTATGGCCGTTTC
Found at i:2436324 original size:11 final size:11
Alignment explanation
Indices: 2436310--2436342 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
2436300 TCATATAAAA
2436310 TTATATTATTT
1 TTATATTATTT
2436321 TTATA-TATTT
1 TTATATTATTT
2436331 TTATAATTATTT
1 TTAT-ATTATTT
2436343 ATACAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 9 0.45
11 6 0.30
12 5 0.25
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTATATTATTT
Found at i:2436351 original size:21 final size:21
Alignment explanation
Indices: 2436310--2436362 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
2436300 TCATATAAAA
* *
2436310 TTATATTATTTTTATATATTT
1 TTATATTATTTATACATATTT
2436331 TTATAATTATTTATACA-ATTT
1 TTAT-ATTATTTATACATATTT
*
2436352 ATAT-TTATTTA
1 TTATATTATTTA
2436363 AATTAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 7 0.25
21 11 0.39
22 10 0.36
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
TTATATTATTTATACATATTT
Found at i:2436569 original size:2 final size:2
Alignment explanation
Indices: 2436564--2436611 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
2436554 TATATATATA
2436564 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2436606 TG TG TG
1 TG TG TG
2436612 CGTGCGTGTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:2442491 original size:2 final size:2
Alignment explanation
Indices: 2442486--2442524 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2442476 GTGTGTGTGT
2442486 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
2442525 GAGTAATGAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:2447319 original size:18 final size:17
Alignment explanation
Indices: 2447277--2447319 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
2447267 AGACAACAAA
*
2447277 AATATATTTAATAAAAT
1 AATATATATAATAAAAT
*
2447294 CATGATATATAATAAAAAT
1 AAT-ATATATAAT-AAAAT
2447313 AATATAT
1 AATATAT
2447320 TATTATCACG
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 2 0.10
18 12 0.57
19 7 0.33
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (17 bp):
AATATATATAATAAAAT
Found at i:2447401 original size:26 final size:26
Alignment explanation
Indices: 2447352--2447403 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
2447342 TGTAATTATT
* *
2447352 TAAAAAATTCAAAAGAATATAAAAAA
1 TAAAAAATTCAAAACAATACAAAAAA
2447378 TAAAAAATTCAAAACCAA-ACAAAAAA
1 TAAAAAATTCAAAA-CAATACAAAAAA
2447404 AGAGAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.73, C:0.10, G:0.02, T:0.15
Consensus pattern (26 bp):
TAAAAAATTCAAAACAATACAAAAAA
Found at i:2447870 original size:18 final size:17
Alignment explanation
Indices: 2447834--2447872 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
2447824 TATTTAAAAA
*
2447834 TTTTAAAAAATTTTTAC
1 TTTTAAAAAATTTTAAC
*
2447851 TTTTCAAAAATTTTAAAC
1 TTTTAAAAAATTTT-AAC
2447869 TTTT
1 TTTT
2447873 TATAAAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTAAAAAATTTTAAC
Found at i:2448041 original size:38 final size:38
Alignment explanation
Indices: 2447975--2448049 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
2447965 CGTTTTGAAT
*
2447975 TTTTTTATAAAATTTTCATATATTTTTTTCTTTTTTTA
1 TTTTTTATAAAATTTTCATATATTTTTTTATTTTTTTA
* *
2448013 TTTTTTATAAAATTTTTAT-TTTTATTTTTATTTTTTT
1 TTTTTTATAAAATTTTCATATATT-TTTTTATTTTTTT
2448050 TACAATTTCG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 3 0.09
38 30 0.91
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (38 bp):
TTTTTTATAAAATTTTCATATATTTTTTTATTTTTTTA
Found at i:2449689 original size:47 final size:47
Alignment explanation
Indices: 2449638--2449733 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
2449628 AAAGCTGTAT
2449638 TAAACTCTGAGTAACCCAAGAACTATGGATGGCAATATTTGAATTGA
1 TAAACTCTGAGTAACCCAAGAACTATGGATGGCAATATTTGAATTGA
*
2449685 TAAACTCTGGGTAACCCAAGAACTATGGATGGCAATATTTGAATTGA
1 TAAACTCTGAGTAACCCAAGAACTATGGATGGCAATATTTGAATTGA
2449732 TA
1 TA
2449734 GATTTTGATC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (47 bp):
TAAACTCTGAGTAACCCAAGAACTATGGATGGCAATATTTGAATTGA
Found at i:2450824 original size:16 final size:17
Alignment explanation
Indices: 2450799--2450847 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
2450789 GTGTAATTTT
*
2450799 AATAAAAATAAATATTA
1 AATAATAATAAATATTA
*
2450816 AAT-ATAATAAATATTT
1 AATAATAATAAATATTA
*
2450832 AATAATAATATATATT
1 AATAATAATAAATATT
2450848 TGATTTAGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 14 0.50
17 14 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AATAATAATAAATATTA
Found at i:2450833 original size:17 final size:17
Alignment explanation
Indices: 2450796--2450848 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
2450786 TATGTGTAAT
*
2450796 TTTAATAAAAATAAATA
1 TTTAATAATAATAAATA
*
2450813 TTAAAT-ATAATAAATA
1 TTTAATAATAATAAATA
*
2450829 TTTAATAATAATATATA
1 TTTAATAATAATAAATA
2450846 TTT
1 TTT
2450849 GATTTAGTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTTAATAATAATAAATA
Found at i:2451190 original size:2 final size:2
Alignment explanation
Indices: 2451185--2451209 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2451175 GTGTGTGTAC
2451185 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2451210 GATGAATTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2451864 original size:304 final size:296
Alignment explanation
Indices: 2451268--2451869 Score: 784
Period size: 304 Copynumber: 2.0 Consensus size: 296
2451258 AAAACGTAAC
*
2451268 CATATTTTCATGCCAATTAGTAACGAAAAGACTCACAACTTTGATTTCAATTATGATATTTTAAA
1 CATATTTTCATGCCAATTAATAACGAAAAGACTCACAACTTTGATTTCAATTATGATATTTTAAA
* *
2451333 CATTATTATCAAATAATAAATATTCATTATTTTTATTTTTTATTTTATATAAACTAAGACAAAAT
66 CATTACTATCAAATAATAAATATTCATTATTTTTATTTTTTATTTTATATAAACTAAGAAAAAAT
* * *
2451398 TTGCATTAAGAAAAAAGTTTATTATAAAATTAGTCTTATATTGTATTACTTTTTTAATTAGATAT
131 TTACATTAAGAAAAAAGTTTATTATAAAATTAGCCTTATATTATATTACTTTTTTAATTAGATAT
*
2451463 TTGAAGAAAATTTTTTATTTAAATAAATAATCAAAGTATCACTCCGTTAGATACTCCACCCTACC
196 TTGAAGAAAATTTTTGATTTAAATAAATAATCAAAGTATCACTCCGTTAGATACTCCACCCTACC
*
2451528 TTGATGCCGTTAAAAATAAGCTGATATGAAAATTTT
261 TTGATGCCGTTAAAAACAAGCTGATATGAAAATTTT
* * * * *
2451564 CATATTTTCATGTCAGATTAATAATGAGAAGACTTACAACTTTGATGTT-AGTT-TGATATTTTA
1 CATATTTTCATGCCA-ATTAATAACGAAAAGACTCACAACTTTGAT-TTCAATTATGATATTTTA
** * * *
2451627 AATGTTGCTATCGAATAATAAATATTTATTATTTTTATTTTTTATTTTATTTTATGTAAACTAAG
64 AACATTACTATCAAATAATAAATATTCATTATTTTTATTTTTTATTTTA---TA--TAAACTAAG
*
2451692 ATAAAACTGATTTACATTAAGAAAAATGTTTATTATAAAATTAGCCTTATATTATATTA-TTTTT
124 A-AAAA---ATTTACATTAAGAAAAAAGTTTATTATAAAATTAGCCTTATATTATATTACTTTTT
* * * * * *
2451756 TAATTAGATATTTATAAGGAAA-TTTTGATTTAAATAAGTAATCAAATTATCATTCTGTTA-AGT
185 TAATTAGATATTT-GAAGAAAATTTTTGATTTAAATAAATAATCAAAGTATCACTCCGTTAGA-T
* * *
2451819 ACTCCACCCCT-CCTTTATGCCGTTAAAAACAAGTTGATTTGAAAATTTT
248 ACTCCA-CCCTACCTTGATGCCGTTAAAAACAAGCTGATATGAAAATTTT
2451868 CA
1 CA
2451870 ATCAATCACA
Statistics
Matches: 264, Mismatches: 28, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
296 67 0.25
297 29 0.11
298 2 0.01
299 2 0.01
301 10 0.04
302 3 0.01
303 1 0.00
304 94 0.36
305 56 0.21
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.43
Consensus pattern (296 bp):
CATATTTTCATGCCAATTAATAACGAAAAGACTCACAACTTTGATTTCAATTATGATATTTTAAA
CATTACTATCAAATAATAAATATTCATTATTTTTATTTTTTATTTTATATAAACTAAGAAAAAAT
TTACATTAAGAAAAAAGTTTATTATAAAATTAGCCTTATATTATATTACTTTTTTAATTAGATAT
TTGAAGAAAATTTTTGATTTAAATAAATAATCAAAGTATCACTCCGTTAGATACTCCACCCTACC
TTGATGCCGTTAAAAACAAGCTGATATGAAAATTTT
Found at i:2452048 original size:28 final size:28
Alignment explanation
Indices: 2452007--2452160 Score: 115
Period size: 28 Copynumber: 5.5 Consensus size: 28
2451997 AATAAACTAT
* *
2452007 AAAAATTATTAAAATAAAATAAGATTCA
1 AAAAATTATAAAAATAAAATAAAATTCA
*** *
2452035 AAAAATTATAAAAAT-CTGTAAAATTTA
1 AAAAATTATAAAAATAAAATAAAATTCA
2452062 AAATAA--ATAATAAATAAGAATAAAATTCA
1 AAA-AATTATAA-AAATAA-AATAAAATTCA
*
2452091 AAAAATTATAAAAA-ATATATAAAATT-A
1 AAAAATTATAAAAATA-AAATAAAATTCA
* *
2452118 TAAATAATT-TAAAAATAAAA-ATAATTTTA
1 -AAA-AATTATAAAAATAAAATA-AAATTCA
2452147 AAAAATTATAAAAA
1 AAAAATTATAAAAA
2452161 ACTATAAAAT
Statistics
Matches: 100, Mismatches: 13, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
26 4 0.04
27 20 0.20
28 51 0.51
29 21 0.21
30 4 0.04
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (28 bp):
AAAAATTATAAAAATAAAATAAAATTCA
Found at i:2452090 original size:56 final size:56
Alignment explanation
Indices: 2452004--2452177 Score: 187
Period size: 56 Copynumber: 3.1 Consensus size: 56
2451994 TAAAATAAAC
* * *
2452004 TATAAA-AATTATTAAAATAAAATAAGATTCAAAAAATTATAAAAATCTGTAAAATT
1 TATAAATAA-TATAAAAATAAAATAAAATTCAAAAAATTATAAAAATCTATAAAATT
*
2452060 TA-AAATAA-ATAATAAATAAGAATAAAATTCAAAAAATTATAAAAAATATATAAAA-T
1 TATAAATAATATAA-AAATAA-AATAAAATTCAAAAAATTAT-AAAAATCTATAAAATT
* * * *
2452116 TATAAATAATTTAAAAATAAAA-ATAATTTTAAAAAATTATAAAAAACTATAAAATT
1 TATAAATAATATAAAAATAAAATA-AAATTCAAAAAATTATAAAAATCTATAAAATT
*
2452172 TTTAAA
1 TATAAA
2452178 AAAGCTAAAA
Statistics
Matches: 100, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
54 3 0.03
55 22 0.22
56 48 0.48
57 24 0.24
58 3 0.03
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (56 bp):
TATAAATAATATAAAAATAAAATAAAATTCAAAAAATTATAAAAATCTATAAAATT
Found at i:2452103 original size:10 final size:10
Alignment explanation
Indices: 2452090--2452169 Score: 80
Period size: 10 Copynumber: 8.4 Consensus size: 10
2452080 AATAAAATTC
2452090 AAAAAATTAT
1 AAAAAATTAT
2452100 AAAAAA-TAT
1 AAAAAATTAT
*
2452109 ATAAAATTAT
1 AAAAAATTAT
*
2452119 AAATAATT-T
1 AAAAAATTAT
2452128 -AAAAA-TA-
1 AAAAAATTAT
*
2452135 AAAATAATTTT
1 AAAA-AATTAT
2452146 AAAAAATTAT
1 AAAAAATTAT
*
2452156 AAAAAACTAT
1 AAAAAATTAT
2452166 AAAA
1 AAAA
2452170 TTTTTAAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
7 1 0.02
8 7 0.12
9 11 0.19
10 34 0.60
11 4 0.07
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:2452114 original size:19 final size:18
Alignment explanation
Indices: 2452036--2452171 Score: 75
Period size: 19 Copynumber: 7.3 Consensus size: 18
2452026 TAAGATTCAA
*
2452036 AAAATTAT-AAAAATCTGT
1 AAAATTATAAAAAAT-TAT
*
2452054 AAAATT-TAAAATAAATA-
1 AAAATTATAAAA-AATTAT
* * *
2452071 ATAAATAAGAATAAAATTCAA
1 A-AAATTATAA-AAAATT-AT
2452092 AAAATTATAAAAAATATAT
1 AAAATTATAAAAAAT-TAT
*
2452111 AAAATTATAAATAATT-T
1 AAAATTATAAAAAATTAT
* *
2452128 AAAAATA-AAAATAATTTTAA
1 AAAATTATAAAA-AA--TTAT
*
2452148 AAAATTATAAAAAACTAT
1 AAAATTATAAAAAATTAT
2452166 AAAATT
1 AAAATT
2452172 TTTAAAAAAG
Statistics
Matches: 90, Mismatches: 15, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
16 3 0.03
17 11 0.12
18 23 0.26
19 29 0.32
20 19 0.21
21 5 0.06
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.31
Consensus pattern (18 bp):
AAAATTATAAAAAATTAT
Found at i:2452121 original size:46 final size:45
Alignment explanation
Indices: 2452066--2452159 Score: 109
Period size: 46 Copynumber: 2.1 Consensus size: 45
2452056 AATTTAAAAT
* *
2452066 AAATAATAAATAAGAATAAAATTCAAAA-AATTATAAAAAATATATA
1 AAATAATAAATAA-AATAAAAATAAAAATAATTATAAAAAAT-TATA
* ** *
2452112 AAATTATAAATAATTTAAAAATAAAAATAATTTTAAAAAATTATA
1 AAATAATAAATAAAATAAAAATAAAAATAATTATAAAAAATTATA
2452157 AAA
1 AAA
2452160 AACTATAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
45 17 0.41
46 24 0.59
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (45 bp):
AAATAATAAATAAAATAAAAATAAAAATAATTATAAAAAATTATA
Found at i:2452139 original size:17 final size:17
Alignment explanation
Indices: 2452101--2452150 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
2452091 AAAAATTATA
* *
2452101 AAAAAT-ATATAAAATT
1 AAAAATAATTTAAAAAT
*
2452117 ATAAATAATTTAAAAAT
1 AAAAATAATTTAAAAAT
2452134 AAAAATAATTTTAAAAA
1 AAAAATAA-TTTAAAAA
2452151 ATTATAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 5 0.18
17 15 0.54
18 8 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAAATAATTTAAAAAT
Found at i:2453048 original size:29 final size:28
Alignment explanation
Indices: 2453016--2453093 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 28
2453006 TTTCTTCAAA
*
2453016 TTTAAGTTTTTTTAAATTTTATTA-CATTT
1 TTTAAG-TTTTTTAAATTTT-TTATAATTT
* *
2453045 TTTATGGTTTTTAAATTTTTTATAATTT
1 TTTAAGTTTTTTAAATTTTTTATAATTT
*
2453073 TTATAAATTTTTTAAATTTTT
1 TT-TAAGTTTTTTAAATTTTT
2453094 ATTTTCATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
27 3 0.07
28 18 0.44
29 20 0.49
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.67
Consensus pattern (28 bp):
TTTAAGTTTTTTAAATTTTTTATAATTT
Found at i:2453055 original size:28 final size:27
Alignment explanation
Indices: 2453024--2453076 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
2453014 AATTTAAGTT
*
2453024 TTTTTAAATTTTATTACATTTTTTATGG
1 TTTTTAAATTTT-TTACAATTTTTATGG
*
2453052 TTTTTAAATTTTTTATAATTTTTAT
1 TTTTTAAATTTTTTACAATTTTTAT
2453077 AAATTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (27 bp):
TTTTTAAATTTTTTACAATTTTTATGG
Found at i:2453062 original size:18 final size:20
Alignment explanation
Indices: 2453022--2453095 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 20
2453012 CAAATTTAAG
* *
2453022 TTTTTT-TAAATTTTATTACA
1 TTTTTTATAAGTTTTA-TAAA
*
2453042 TTTTTTAT-GGTTTT-TAAA
1 TTTTTTATAAGTTTTATAAA
*
2453060 TTTTTTATAATTTTTATAAA
1 TTTTTTATAAGTTTTATAAA
*
2453080 TTTTTTA-AATTTTTAT
1 TTTTTTATAAGTTTTAT
2453096 TTTCATATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
18 11 0.24
19 13 0.28
20 21 0.46
21 1 0.02
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (20 bp):
TTTTTTATAAGTTTTATAAA
Found at i:2453064 original size:9 final size:9
Alignment explanation
Indices: 2453023--2453093 Score: 79
Period size: 9 Copynumber: 7.6 Consensus size: 9
2453013 AAATTTAAGT
2453023 TTTTTTAAA
1 TTTTTTAAA
*
2453032 TTTTATTACA
1 TTTT-TTAAA
**
2453042 TTTTTTATG
1 TTTTTTAAA
*
2453051 GTTTTTAAA
1 TTTTTTAAA
2453060 TTTTTTATAA
1 TTTTTTA-AA
2453070 TTTTTATAAA
1 TTTTT-TAAA
2453080 TTTTTTAAA
1 TTTTTTAAA
2453089 TTTTT
1 TTTTT
2453094 ATTTTCATAT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
9 28 0.54
10 22 0.42
11 2 0.04
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:2453205 original size:19 final size:19
Alignment explanation
Indices: 2453160--2453220 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
2453150 TTGAATTAAA
* *
2453160 AAATTTT-TATAAAATTTT
1 AAATTTTATTTAAATTTTT
*
2453178 -AATTATATTTAAATTTTT
1 AAATTTTATTTAAATTTTT
*
2453196 AAATTTTATTAAAATTTTT
1 AAATTTTATTTAAATTTTT
2453215 AAATTT
1 AAATTT
2453221 GATAACATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
17 5 0.14
18 9 0.25
19 22 0.61
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
AAATTTTATTTAAATTTTT
Found at i:2453325 original size:21 final size:23
Alignment explanation
Indices: 2453301--2453345 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
2453291 TAACGTTTGT
*
2453301 ATAAAA-AT-ATTTACGTGTTTA
1 ATAAAATATAATTTAAGTGTTTA
2453322 ATAAAATTATAATTTAAGTGTTTA
1 ATAAAA-TATAATTTAAGTGTTTA
2453346 TTTAAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
23 2 0.10
24 12 0.60
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (23 bp):
ATAAAATATAATTTAAGTGTTTA
Found at i:2453342 original size:24 final size:23
Alignment explanation
Indices: 2453309--2453359 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
2453299 GTATAAAAAT
*
2453309 ATTTACGTGTTTAATAAAATTATA
1 ATTTAAGTGTTTAATAAAATTA-A
* *
2453333 ATTTAAGTGTTTATTTAAATTAA
1 ATTTAAGTGTTTAATAAAATTAA
2453356 ATTT
1 ATTT
2453360 TTTTTAAGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.51
Consensus pattern (23 bp):
ATTTAAGTGTTTAATAAAATTAA
Found at i:2456266 original size:14 final size:15
Alignment explanation
Indices: 2456242--2456271 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2456232 ATTTTGACAT
2456242 TTTATAAAAATATAA
1 TTTATAAAAATATAA
2456257 TTTA-AAAAATATAA
1 TTTATAAAAATATAA
2456271 T
1 T
2456272 AATATTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TTTATAAAAATATAA
Found at i:2456296 original size:25 final size:26
Alignment explanation
Indices: 2456268--2456317 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
2456258 TTAAAAAATA
*
2456268 TAATAATATTATTA-ATTTTTATTTT
1 TAATAATATTATAATATTTTTATTTT
* *
2456293 TAATTATTTTATAATATTTTTATTT
1 TAATAATATTATAATATTTTTATTT
2456318 GAAATTGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (26 bp):
TAATAATATTATAATATTTTTATTTT
Found at i:2460524 original size:28 final size:30
Alignment explanation
Indices: 2460493--2460560 Score: 83
Period size: 28 Copynumber: 2.4 Consensus size: 30
2460483 TAAAAAATTA
2460493 ATTAAATTAATAT-TATTTA-ATT-TATAAT
1 ATTAAATTAATATATATTTATATTAT-TAAT
*
2460521 ATTAAATTAA-ATATATTTTTATTATTAAT
1 ATTAAATTAATATATATTTATATTATTAAT
2460550 A-TAAATTAATA
1 ATTAAATTAATA
2460561 ATTCATACTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
27 2 0.06
28 23 0.66
29 9 0.26
30 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
ATTAAATTAATATATATTTATATTATTAAT
Found at i:2463907 original size:15 final size:14
Alignment explanation
Indices: 2463889--2463941 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
2463879 AGATTAAAGT
2463889 AAATATATTTAAATA
1 AAAT-TATTTAAATA
* *
2463904 AAATTTTTTTAAAAA
1 AAA-TTATTTAAATA
*
2463919 AAATTAATTTAATTA
1 AAATT-ATTTAAATA
2463934 AAATTATT
1 AAATTATT
2463942 AGTAATTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
14 5 0.16
15 25 0.81
16 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AAATTATTTAAATA
Found at i:2463961 original size:20 final size:21
Alignment explanation
Indices: 2463923--2463961 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2463913 TAAAAAAAAT
*
2463923 TAATTTAATTAAAATTATTAG
1 TAATTTAATTAAAAATATTAG
2463944 TAATTTAA-TAAAAATATT
1 TAATTTAATTAAAAATATT
2463962 TTTATTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (21 bp):
TAATTTAATTAAAAATATTAG
Found at i:2465614 original size:26 final size:28
Alignment explanation
Indices: 2465583--2465639 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
2465573 ATTTGATTAA
*
2465583 AAATTT-ATTAAAATATTTTTA-TAATT
1 AAATTTAAATAAAATATTTTTATTAATT
*
2465609 AAATTTAAATAAATTATTTTTATTAATT
1 AAATTTAAATAAAATATTTTTATTAATT
2465637 AAA
1 AAA
2465640 AAGTAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 6 0.22
27 13 0.48
28 8 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
AAATTTAAATAAAATATTTTTATTAATT
Found at i:2471920 original size:2 final size:2
Alignment explanation
Indices: 2471915--2471942 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2471905 TATTTTACAG
2471915 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
2471943 ATCATTTGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2475236 original size:8 final size:8
Alignment explanation
Indices: 2475223--2475249 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
2475213 AAATGAATAA
2475223 TAATTGAT
1 TAATTGAT
2475231 TAATTGAT
1 TAATTGAT
2475239 TAATTGAT
1 TAATTGAT
2475247 TAA
1 TAA
2475250 AAGCATGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (8 bp):
TAATTGAT
Found at i:2477008 original size:13 final size:13
Alignment explanation
Indices: 2476992--2477016 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2476982 GAAGTGACTT
2476992 TTTTTTAAAAATA
1 TTTTTTAAAAATA
2477005 TTTTTTAAAAAT
1 TTTTTTAAAAAT
2477017 GGTTTAAAGG
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:0.00, T:0.56
Consensus pattern (13 bp):
TTTTTTAAAAATA
Found at i:2477605 original size:12 final size:12
Alignment explanation
Indices: 2477588--2477612 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2477578 GATATAATTC
2477588 AAAATTATTATT
1 AAAATTATTATT
2477600 AAAATTATTATT
1 AAAATTATTATT
2477612 A
1 A
2477613 TATCTATATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAAATTATTATT
Found at i:2477848 original size:3 final size:3
Alignment explanation
Indices: 2477840--2477882 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
2477830 CATGATAATT
2477840 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2477883 TATTAAATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2478210 original size:13 final size:12
Alignment explanation
Indices: 2478160--2478209 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
2478150 TTATATTTTT
*
2478160 TAATTTGTATTA
1 TAATTTTTATTA
2478172 TAATTTTTA-TA
1 TAATTTTTATTA
* *
2478183 TACTTTTAATCTA
1 TAATTTTTAT-TA
2478196 -AATTTTTATTA
1 TAATTTTTATTA
2478207 TAA
1 TAA
2478210 ACTTTTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
11 11 0.37
12 17 0.57
13 2 0.07
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (12 bp):
TAATTTTTATTA
Found at i:2478558 original size:23 final size:23
Alignment explanation
Indices: 2478509--2478580 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
2478499 TATTTTTTGT
* **
2478509 TTTAATTAAGCTTTTAATTTAGG
1 TTTAAATAAGCTTTTAATTTAAA
* *
2478532 TTTAGATGAGCTTTTAATTTAAA
1 TTTAAATAAGCTTTTAATTTAAA
2478555 TTTAAATAAG--TTTAAGTTTAAA
1 TTTAAATAAGCTTTTAA-TTTAAA
2478577 TTTA
1 TTTA
2478581 TATTTTATTA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
21 5 0.12
22 10 0.24
23 26 0.63
ACGTcount: A:0.36, C:0.03, G:0.11, T:0.50
Consensus pattern (23 bp):
TTTAAATAAGCTTTTAATTTAAA
Found at i:2478612 original size:34 final size:34
Alignment explanation
Indices: 2478556--2478623 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
2478546 TAATTTAAAT
*
2478556 TTAAATAAGTTTAAGTTTAAATTT-A-TATTTTA
1 TTAAATAAGTTTAAATTTAAATTTAATTATTTTA
*
2478588 TTAAATATATTTTAAATATTAAATTTAATTATTTTA
1 TTAAATA-AGTTTAAAT-TTAAATTTAATTATTTTA
2478624 ATTTATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 7 0.23
33 7 0.23
34 8 0.27
35 1 0.03
36 7 0.23
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (34 bp):
TTAAATAAGTTTAAATTTAAATTTAATTATTTTA
Found at i:2478621 original size:22 final size:22
Alignment explanation
Indices: 2478594--2478648 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
2478584 TTTATTAAAT
2478594 ATATTTTAA-ATATTAAATTTA
1 ATATTTTAATATATTAAATTTA
* * *
2478615 ATTATTTTAATTTATTTAATTTT
1 A-TATTTTAATATATTAAATTTA
2478638 ATATTTTAATA
1 ATATTTTAATA
2478649 ACTAAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.04
22 17 0.61
23 10 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTTTAATATATTAAATTTA
Found at i:2478635 original size:23 final size:23
Alignment explanation
Indices: 2478579--2478648 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 23
2478569 AGTTTAAATT
* *
2478579 TATATTTTATTAAATATATTTTAA
1 TATATTTAATTTAAT-TATTTTAA
*
2478603 -ATATTAAATTTAATTATTTTAA
1 TATATTTAATTTAATTATTTTAA
* *
2478625 TTTATTTAATTTTA-TATTTTAA
1 TATATTTAATTTAATTATTTTAA
2478647 TA
1 TA
2478649 ACTAAAAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
22 17 0.45
23 21 0.55
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TATATTTAATTTAATTATTTTAA
Found at i:2484353 original size:2 final size:2
Alignment explanation
Indices: 2484348--2484383 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2484338 TAAAAAAAAT
2484348 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2484384 GATAACAGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2487604 original size:15 final size:15
Alignment explanation
Indices: 2487584--2487615 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2487574 GGTGAAAGTT
2487584 AGAAGCCAGAGACAG
1 AGAAGCCAGAGACAG
2487599 AGAAGCCAGAGACAG
1 AGAAGCCAGAGACAG
2487614 AG
1 AG
2487616 GGATTCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.19, G:0.34, T:0.00
Consensus pattern (15 bp):
AGAAGCCAGAGACAG
Found at i:2488024 original size:2 final size:2
Alignment explanation
Indices: 2488017--2488045 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2488007 ATTTATACAC
2488017 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2488046 TCTTATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:2489526 original size:25 final size:24
Alignment explanation
Indices: 2489483--2489533 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
2489473 GTTAAATATG
* *
2489483 ATATATATTTTATCATAATAATTT
1 ATATATATGTTATAATAATAATTT
*
2489507 ATATATTATGTTATAATAATATTTT
1 ATATA-TATGTTATAATAATAATTT
2489532 AT
1 AT
2489534 CATGTAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (24 bp):
ATATATATGTTATAATAATAATTT
Found at i:2496899 original size:16 final size:17
Alignment explanation
Indices: 2496878--2496911 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2496868 TTTAGGTAGA
2496878 TTTAGA-TCAGATTATT
1 TTTAGATTCAGATTATT
*
2496894 TTTAGATTTAGATTATT
1 TTTAGATTCAGATTATT
2496911 T
1 T
2496912 AAGATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.29, C:0.03, G:0.12, T:0.56
Consensus pattern (17 bp):
TTTAGATTCAGATTATT
Found at i:2496916 original size:16 final size:16
Alignment explanation
Indices: 2496886--2496941 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 16
2496876 GATTTAGATC
*
2496886 AGATTATTTTTAGATTT
1 AGATTA-TTTAAGATTT
2496903 AGATTATTTAAGATTT
1 AGATTATTTAAGATTT
*
2496919 AAATTTATTTAAGATTT
1 AGA-TTATTTAAGATTT
2496936 -GATTAT
1 AGATTAT
2496942 CTCAAGCTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
15 4 0.11
16 12 0.34
17 19 0.54
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.54
Consensus pattern (16 bp):
AGATTATTTAAGATTT
Found at i:2496962 original size:32 final size:32
Alignment explanation
Indices: 2496891--2496966 Score: 77
Period size: 33 Copynumber: 2.4 Consensus size: 32
2496881 AGATCAGATT
* *
2496891 ATTTTT-AGATTTAGATTATTTAAGATTTAAA
1 ATTTTTAAGATTTAGATTATTCAAGATTAAAA
* *
2496922 TTTATTTAAGATTT-GATTATCTCAAGCTTAAAA
1 ATT-TTTAAGATTTAGATTAT-TCAAGATTAAAA
2496955 ATTTTTAA-ATTT
1 ATTTTTAAGATTT
2496967 TATATTTCGA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
31 6 0.16
32 14 0.38
33 17 0.46
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (32 bp):
ATTTTTAAGATTTAGATTATTCAAGATTAAAA
Found at i:2497333 original size:21 final size:21
Alignment explanation
Indices: 2497271--2497331 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
2497261 CTAACAATTT
*
2497271 TTTATTTTTTTTAGCA-TTTTA
1 TTTATTTTTATTAG-ATTTTTA
2497292 TTTATTTTTATTAGATTTTTA
1 TTTATTTTTATTAGATTTTTA
2497313 TTTATTTATTA-TA-ATTTTT
1 TTTATTT-TTATTAGATTTTT
2497332 TAAGGTTGCA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
20 7 0.19
21 27 0.73
22 3 0.08
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTATTTTTATTAGATTTTTA
Found at i:2498721 original size:23 final size:23
Alignment explanation
Indices: 2498695--2498755 Score: 113
Period size: 23 Copynumber: 2.7 Consensus size: 23
2498685 TAAAATTTTT
2498695 AAATTTAAATAATTTGTGATTTA
1 AAATTTAAATAATTTGTGATTTA
2498718 AAATTTAAATAATTTGTGATTTA
1 AAATTTAAATAATTTGTGATTTA
*
2498741 AAATTTAAACAATTT
1 AAATTTAAATAATTT
2498756 TAAGTTTGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.46
Consensus pattern (23 bp):
AAATTTAAATAATTTGTGATTTA
Found at i:2501563 original size:29 final size:29
Alignment explanation
Indices: 2501531--2501599 Score: 77
Period size: 34 Copynumber: 2.2 Consensus size: 29
2501521 TTATTTTTTT
2501531 AATTTT-ATAAAAATAATATATTAAATGTA
1 AATTTTAATAAAAA-AATATATTAAATGTA
2501560 AATTTTTTTAAAATAAAAAAATATATTAAATGTA
1 AA---TTTT--AATAAAAAAATATATTAAATGTA
2501594 AATTTT
1 AATTTT
2501600 TTTTGAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
29 2 0.06
31 4 0.12
32 4 0.12
34 17 0.50
35 7 0.21
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (29 bp):
AATTTTAATAAAAAAATATATTAAATGTA
Found at i:2501601 original size:35 final size:35
Alignment explanation
Indices: 2501537--2501617 Score: 128
Period size: 35 Copynumber: 2.3 Consensus size: 35
2501527 TTTTAATTTT
2501537 ATAAAAATAATATATTAAATGTAAATTTTTTTAAA
1 ATAAAAATAATATATTAAATGTAAATTTTTTTAAA
*
2501572 ATAAAAA-AATATATTAAATGTAAATTTTTTTTGAA
1 ATAAAAATAATATATTAAATGTAAA-TTTTTTTAAA
2501607 ATAATAAATAA
1 ATAA-AAATAA
2501618 AAAATCCTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
34 17 0.40
35 20 0.48
36 3 0.07
37 2 0.05
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.41
Consensus pattern (35 bp):
ATAAAAATAATATATTAAATGTAAATTTTTTTAAA
Found at i:2501727 original size:2 final size:2
Alignment explanation
Indices: 2501720--2501748 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2501710 GGGTGAGGGG
2501720 GA GA GA GA GA GA GA GA GA GA GA GA G- GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
2501749 AAAGCGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Done.