Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 9 of 163
Found at i:2738352 original size:17 final size:17
Alignment explanation
Indices: 2738332--2738419 Score: 79
Period size: 17 Copynumber: 5.0 Consensus size: 17
2738322 TTCATTTTGG
* *
2738332 GTTTGAATTTAGTTTAA
1 GTTTAAATTTAATTTAA
**
2738349 GTTTAAACTTTTTTTTTAA
1 GTTTAAA--TTTAATTTAA
*
2738368 GTTTAAATTTAAATTAA
1 GTTTAAATTTAATTTAA
2738385 GTTTAAATTTAATTTGAA
1 GTTTAAATTTAATTT-AA
*
2738403 -TTTGAATTTAAATTTAA
1 GTTTAAATTT-AATTTAA
2738420 ATTAATTAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
17 37 0.63
18 7 0.12
19 15 0.25
ACGTcount: A:0.36, C:0.01, G:0.09, T:0.53
Consensus pattern (17 bp):
GTTTAAATTTAATTTAA
Found at i:2738372 original size:6 final size:6
Alignment explanation
Indices: 2738363--2738422 Score: 70
Period size: 6 Copynumber: 10.3 Consensus size: 6
2738353 AAACTTTTTT
* * * *
2738363 TTTAAG TTTAAA TTTAAA -TTAAG TTTAAA TTT-AA TTTGAA TTTGAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
2738409 TTTAAA TTTAAA TT
1 TTTAAA TTTAAA TT
2738423 AATTAAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
5 9 0.19
6 39 0.81
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:2738395 original size:23 final size:24
Alignment explanation
Indices: 2738363--2738422 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
2738353 AAACTTTTTT
*
2738363 TTTAAGTTTAAATTT-AAATT-AA
1 TTTAAATTTAAATTTGAAATTGAA
*
2738385 GTTTAAATTT-AATTTGAATTTGAA
1 -TTTAAATTTAAATTTGAAATTGAA
2738409 TTTAAATTTAAATT
1 TTTAAATTTAAATT
2738423 AATTAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 5 0.16
23 21 0.66
24 6 0.19
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.52
Consensus pattern (24 bp):
TTTAAATTTAAATTTGAAATTGAA
Found at i:2738396 original size:12 final size:11
Alignment explanation
Indices: 2738363--2738424 Score: 63
Period size: 11 Copynumber: 5.5 Consensus size: 11
2738353 AAACTTTTTT
*
2738363 TTTAAGTTTAAA
1 TTTAAATTT-AA
2738375 TTTAAA-TTAA
1 TTTAAATTTAA
2738385 GTTTAAATTTAA
1 -TTTAAATTTAA
*
2738397 TTTGAATTTGAA
1 TTTAAATTT-AA
2738409 TTTAAATTTAA
1 TTTAAATTTAA
*
2738420 ATTAA
1 TTTAA
2738425 TTAAAAAAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
10 2 0.05
11 22 0.51
12 19 0.44
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:2738511 original size:15 final size:15
Alignment explanation
Indices: 2738477--2738512 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
2738467 TTGGGCCCAA
2738477 ACCCAATTACAAAGG
1 ACCCAATTACAAAGG
* *
2738492 GCCCAATTACAAATG
1 ACCCAATTACAAAGG
2738507 ACCCAA
1 ACCCAA
2738513 ACCTAGACAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.44, C:0.31, G:0.11, T:0.14
Consensus pattern (15 bp):
ACCCAATTACAAAGG
Found at i:2740161 original size:29 final size:30
Alignment explanation
Indices: 2740119--2740250 Score: 137
Period size: 30 Copynumber: 4.5 Consensus size: 30
2740109 TAAATGACCA
2740119 AAAATTATATTTTTACCCCTAAACTTCTAC
1 AAAATTATATTTTTACCCCTAAACTTCTAC
**
2740149 AAAATTATATTTTTA-CCCTAAAACTTCTTT
1 AAAATTATATTTTTACCCCT-AAACTTCTAC
* * *
2740179 AAAATTATATTTTTAACCTTAAACTTTTTA-
1 AAAATTATATTTTTACCCCTAAAC-TTCTAC
* * *
2740209 AAAATTACA-TTTTCCCCCTAAACTT-TCC
1 AAAATTATATTTTTACCCCTAAACTTCTAC
*
2740237 AAAATTCTATTTTT
1 AAAATTATATTTTT
2740251 GATCCCGAAT
Statistics
Matches: 85, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
27 1 0.01
28 9 0.11
29 19 0.22
30 50 0.59
31 6 0.07
ACGTcount: A:0.36, C:0.19, G:0.00, T:0.45
Consensus pattern (30 bp):
AAAATTATATTTTTACCCCTAAACTTCTAC
Found at i:2740308 original size:59 final size:59
Alignment explanation
Indices: 2740208--2740486 Score: 293
Period size: 59 Copynumber: 4.7 Consensus size: 59
2740198 TAAACTTTTT
* * * * **
2740208 AAAAATTA-CATTTT-CCCCCTAAACTTTCC-AAAATTCTATTTTTGATCCCGAATTTTCC
1 AAAAATTACCATTTTACCCTC-GAAC-TTCCAAAAATTCCATTTTTGATCCCAAAACTTCC
* *
2740266 AAAAATTACCATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGA-CCCTAAAATTTCT
1 AAAAATTACCATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGATCCC-AAAACTTCC
* * * *
2740325 AAAATTTACCATTTTACCGCTCAAACTCCCAAAAATTCCATTTTTGATCTCAAAACTTCC
1 AAAAATTACCATTTTACC-CTCGAACTTCCAAAAATTCCATTTTTGATCCCAAAACTTCC
* * * *
2740385 AAAAATTACCACTTTACCCTCGGA-TGTCTAAAAATTCCATTTTTGATCCCGAAACTTCC
1 AAAAATTACCATTTTACCCTCGAACT-TCCAAAAATTCCATTTTTGATCCCAAAACTTCC
* *
2740444 AAAAATTACCATTTTACCC-CGGA-TGTCCAAATATTCCATTTTT
1 AAAAATTACCATTTTACCCTCGAACT-TCCAAAAATTCCATTTTT
2740487 AACCTCGAGC
Statistics
Matches: 191, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
58 38 0.20
59 98 0.51
60 53 0.28
61 2 0.01
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.35
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGATCCCAAAACTTCC
Found at i:2740387 original size:30 final size:30
Alignment explanation
Indices: 2740228--2740458 Score: 122
Period size: 30 Copynumber: 7.8 Consensus size: 30
2740218 TTTTCCCCCT
* *
2740228 AAACTTTCC-AAAATT-CTATTTTTGATCCC
1 AAAC-TTCCAAAAATTACCATTTTTGATCTC
** *
2740257 GAATTTTCCAAAAATTACCA-TTTT-ACCCTC
1 -AAACTTCCAAAAATTACCATTTTTGA-TCTC
* * *
2740287 GAACTTCCAAAAATT-CCATTTTTGACCCTA
1 AAACTTCCAAAAATTACCATTTTTGA-TCTC
* * * ****
2740317 AAATTTCTAAAATTTACCATTTTACCGCTC
1 AAACTTCCAAAAATTACCATTTTTGATCTC
*
2740347 AAACTCCCAAAAATT-CCATTTTTGATCTC
1 AAACTTCCAAAAATTACCATTTTTGATCTC
* *
2740376 AAAACTTCCAAAAATTACCA-CTTT-ACCCTC
1 -AAACTTCCAAAAATTACCATTTTTGA-TCTC
** * *
2740406 GGA-TGTCTAAAAATT-CCATTTTTGATCCC
1 AAACT-TCCAAAAATTACCATTTTTGATCTC
2740435 GAAACTTCCAAAAATTACCATTTT
1 -AAACTTCCAAAAATTACCATTTT
2740459 ACCCCGGATG
Statistics
Matches: 148, Mismatches: 38, Indels: 29
0.69 0.18 0.13
Matches are distributed among these distances:
28 7 0.05
29 47 0.32
30 74 0.50
31 20 0.14
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (30 bp):
AAACTTCCAAAAATTACCATTTTTGATCTC
Found at i:2740387 original size:119 final size:119
Alignment explanation
Indices: 2740208--2740461 Score: 311
Period size: 119 Copynumber: 2.2 Consensus size: 119
2740198 TAAACTTTTT
* * * * * **
2740208 AAAAATTA-CATTTTCCCCCT-AAACTTTCC-AAAATTCTATTTTTGATCCCGAATTTTCCAAAA
1 AAAAATTACCATTTTACCGCTCAAAC-TCCCAAAAATTCCATTTTTGATCCCAAAACTTCCAAAA
* * *
2740270 ATTACCATTTTACCCTCGAACT-TCCAAAAATTCCATTTTTGA-CCCTAAAATTTCT
65 ATTACCACTTTACCCTCGAA-TGTCCAAAAATTCCATTTTTGATCCC-AAAACTTCC
* *
2740325 AAAATTTACCATTTTACCGCTCAAACTCCCAAAAATTCCATTTTTGATCTCAAAACTTCCAAAAA
1 AAAAATTACCATTTTACCGCTCAAACTCCCAAAAATTCCATTTTTGATCCCAAAACTTCCAAAAA
* * *
2740390 TTACCACTTTACCCTCGGATGTCTAAAAATTCCATTTTTGATCCCGAAACTTCC
66 TTACCACTTTACCCTCGAATGTCCAAAAATTCCATTTTTGATCCCAAAACTTCC
2740444 AAAAATTACCATTTTACC
1 AAAAATTACCATTTTACC
2740462 CCGGATGTCC
Statistics
Matches: 116, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
117 7 0.06
118 14 0.12
119 92 0.79
120 3 0.03
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.35
Consensus pattern (119 bp):
AAAAATTACCATTTTACCGCTCAAACTCCCAAAAATTCCATTTTTGATCCCAAAACTTCCAAAAA
TTACCACTTTACCCTCGAATGTCCAAAAATTCCATTTTTGATCCCAAAACTTCC
Found at i:2740506 original size:58 final size:58
Alignment explanation
Indices: 2740237--2740533 Score: 246
Period size: 59 Copynumber: 5.1 Consensus size: 58
2740227 TAAACTTTCC
* * *** *
2740237 AAAATTCTATTTTTGATCCCGAATTTTCCAAAAATTACCATTTTACCCTCGAACT-TCCA
1 AAAATTCCATTTTTGAACCCGAAACATCCAAAAATTACCATTTTACCC-CGGA-TGTCCA
* * * ** *
2740296 AAAATTCCATTTTTG-ACCCTAAA-ATTTCTAAAATTTACCATTTTACCGCTCAAACT-CCCA
1 AAAATTCCATTTTTGAACCCGAAACA--TCCAAAAATTACCATTTTACC-C-CGGA-TGTCCA
* * * * * *
2740356 AAAATTCCATTTTTGATCTCAAAACTTCCAAAAATTACCACTTTACCCTCGGATGTCTA
1 AAAATTCCATTTTTGAACCCGAAACATCCAAAAATTACCATTTTACCC-CGGATGTCCA
* *
2740415 AAAATTCCATTTTTGATCCCGAAACTTCCAAAAATTACCATTTTACCCCGGATGTCCA
1 AAAATTCCATTTTTGAACCCGAAACATCCAAAAATTACCATTTTACCCCGGATGTCCA
* ** *
2740473 AATATTCCATTTTT-AACCTCGAGCCATCTAAAAATTACCATTTTACCCC-GAGTGTCCA
1 AAAATTCCATTTTTGAACC-CGAAACATCCAAAAATTACCATTTTACCCCGGA-TGTCCA
2740531 AAA
1 AAA
2740534 TTATCGTTTT
Statistics
Matches: 199, Mismatches: 31, Indels: 17
0.81 0.13 0.07
Matches are distributed among these distances:
57 5 0.03
58 62 0.31
59 84 0.42
60 43 0.22
61 5 0.03
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (58 bp):
AAAATTCCATTTTTGAACCCGAAACATCCAAAAATTACCATTTTACCCCGGATGTCCA
Found at i:2740534 original size:27 final size:28
Alignment explanation
Indices: 2740386--2740548 Score: 97
Period size: 29 Copynumber: 5.7 Consensus size: 28
2740376 AAAACTTCCA
* *
2740386 AAAATTACCACTTTACCCTCG-GATGTCTA
1 AAAATTACCATTTTACCC-CGAGATGTC-C
* *
2740415 AAAATT-CCATTTTTGATCCCGAAACT-TCC
1 AAAATTACCA-TTTT-ACCCCGAGA-TGTCC
2740444 AAAAATTACCATTTTACCCCG-GATGTCC
1 -AAAATTACCATTTTACCCCGAGATGTCC
* * *
2740472 AAATATT-CCATTTTTAACCTCGAGCCATCT-A
1 AAA-ATTACCA-TTTT-ACCCCGAG--ATGTCC
2740503 AAAATTACCATTTTACCCCGAG-TGTCC
1 AAAATTACCATTTTACCCCGAGATGTCC
* *
2740530 AAAATTATCGTTTTACCCC
1 AAAATTACCATTTTACCCC
2740549 TCGGGCATCC
Statistics
Matches: 105, Mismatches: 14, Indels: 32
0.70 0.09 0.21
Matches are distributed among these distances:
26 2 0.02
27 24 0.23
28 14 0.13
29 28 0.27
30 24 0.23
31 10 0.10
32 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.33
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCGAGATGTCC
Found at i:2740672 original size:15 final size:15
Alignment explanation
Indices: 2740654--2740682 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2740644 TCGTTTTTTC
2740654 TGATTTTTGTATATT
1 TGATTTTTGTATATT
2740669 TGATTTTTGTATAT
1 TGATTTTTGTATAT
2740683 CATTTATCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.66
Consensus pattern (15 bp):
TGATTTTTGTATATT
Found at i:2748469 original size:23 final size:23
Alignment explanation
Indices: 2748438--2748494 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
2748428 TGACGTGGCG
* *
2748438 TCCAATCAGCAGCTTCTAGAAGA
1 TCCAGTCAGCAGCTTCCAGAAGA
*
2748461 TCCAGTCAGCAGCTTCCAGAAGG
1 TCCAGTCAGCAGCTTCCAGAAGA
*
2748484 TCTAGTCAGCA
1 TCCAGTCAGCA
2748495 AGAATGGACG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (23 bp):
TCCAGTCAGCAGCTTCCAGAAGA
Found at i:2748576 original size:22 final size:23
Alignment explanation
Indices: 2748551--2748603 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
2748541 TTATCTTTTG
*
2748551 TTTTTAGGATTTA-ATTTAAATA
1 TTTTTAGGAATTATATTTAAATA
* * *
2748573 TTTTTAAGAATTATCTTTTAATA
1 TTTTTAGGAATTATATTTAAATA
2748596 TTTTTAGG
1 TTTTTAGG
2748604 TTATTTTTAG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (23 bp):
TTTTTAGGAATTATATTTAAATA
Found at i:2761341 original size:25 final size:23
Alignment explanation
Indices: 2761313--2761358 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
2761303 GTTGGATCCA
2761313 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
2761338 AATTAAATCTAAATAATAATT
1 AATTAAATCTAAAAAATAATT
2761359 TCTTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:2766234 original size:25 final size:23
Alignment explanation
Indices: 2766193--2766238 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
2766183 CCAATTAGGG
2766193 AATTATTATTTAGATTTAATTCA
1 AATTATTATTTAGATTTAATTCA
*
2766216 AATTATTTTTTTAGAATTTAATT
1 AATTA-TTATTTAG-ATTTAATT
2766239 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 7 0.35
25 8 0.40
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (23 bp):
AATTATTATTTAGATTTAATTCA
Found at i:2766543 original size:13 final size:14
Alignment explanation
Indices: 2766525--2766554 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
2766515 TTTAGCCATT
2766525 TTTTTATTTT-TTA
1 TTTTTATTTTATTA
2766538 TTTTTATTTTATTA
1 TTTTTATTTTATTA
2766552 TTT
1 TTT
2766555 GCATTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTATTTTATTA
Found at i:2766579 original size:14 final size:13
Alignment explanation
Indices: 2766558--2766589 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
2766548 ATTATTTGCA
2766558 TTTTTAATTTAAT
1 TTTTTAATTTAAT
2766571 TTTTCTAATTTAAT
1 TTTT-TAATTTAAT
2766585 TTTTT
1 TTTTT
2766590 CCCTCTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTAATTTAAT
Found at i:2772097 original size:22 final size:22
Alignment explanation
Indices: 2772072--2772119 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
2772062 TTAAAAAAAC
2772072 TGAAAAAAAATTAAAAAAAGTT
1 TGAAAAAAAATTAAAAAAAGTT
2772094 TGAAAAAAAATTAAAAAAAGTT
1 TGAAAAAAAATTAAAAAAAGTT
2772116 TGAA
1 TGAA
2772120 TTTTTTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.23
Consensus pattern (22 bp):
TGAAAAAAAATTAAAAAAAGTT
Found at i:2772180 original size:22 final size:22
Alignment explanation
Indices: 2772148--2772194 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
2772138 AAAAAATTAG
2772148 TTTATTTATTTCATTTTT-ATT
1 TTTATTTATTTCATTTTTAATT
*
2772169 TTTATTTTATTTTATTTTTAATT
1 TTTA-TTTATTTCATTTTTAATT
2772192 TTT
1 TTT
2772195 TAATTATGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.17
22 13 0.57
23 6 0.26
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTATTTATTTCATTTTTAATT
Found at i:2773135 original size:12 final size:11
Alignment explanation
Indices: 2773121--2773173 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
2773111 AGTCGGAAAG
2773121 AAAAAAATGAA
1 AAAAAAATGAA
2773132 GAAAAAAATTG-A
1 -AAAAAAA-TGAA
*
2773144 AAAAAATTGAA
1 AAAAAAATGAA
*
2773155 AAAAAAAAGAA
1 AAAAAAATGAA
2773166 AAAGAAAA
1 AAA-AAAA
2773174 AAAGAAGAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
10 2 0.06
11 19 0.54
12 12 0.34
13 2 0.06
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.09
Consensus pattern (11 bp):
AAAAAAATGAA
Found at i:2773146 original size:9 final size:10
Alignment explanation
Indices: 2773132--2773159 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
2773122 AAAAAATGAA
2773132 GAAAAAAATT
1 GAAAAAAATT
2773142 GAAAAAAATT
1 GAAAAAAATT
2773152 GAAAAAAA
1 GAAAAAAA
2773160 AAAGAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.14
Consensus pattern (10 bp):
GAAAAAAATT
Found at i:2773154 original size:23 final size:22
Alignment explanation
Indices: 2773120--2773162 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
2773110 AAGTCGGAAA
*
2773120 GAAAAAAATGAAGAAAAAAATT
1 GAAAAAAATGAAAAAAAAAATT
2773142 GAAAAAAATTGAAAAAAAAAA
1 GAAAAAAA-TGAAAAAAAAAA
2773163 GAAAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (22 bp):
GAAAAAAATGAAAAAAAAAATT
Found at i:2773173 original size:14 final size:14
Alignment explanation
Indices: 2773156--2773189 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2773146 AAAATTGAAA
2773156 AAAAAAAGAAAAAG
1 AAAAAAAGAAAAAG
*
2773170 AAAAAAAGAAGAAG
1 AAAAAAAGAAAAAG
2773184 ACAAAA
1 A-AAAA
2773190 GTGTGTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAAAG
Found at i:2774592 original size:15 final size:15
Alignment explanation
Indices: 2774555--2774592 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
2774545 TTATGTGTGC
2774555 TTAATTCTTGATATA
1 TTAATTCTTGATATA
*
2774570 GT-ATTCTTGATATA
1 TTAATTCTTGATATA
2774584 TTAATTCTT
1 TTAATTCTT
2774593 ATTTGATGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.55
Consensus pattern (15 bp):
TTAATTCTTGATATA
Found at i:2781405 original size:17 final size:18
Alignment explanation
Indices: 2781383--2781419 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
2781373 ATTCTTTTGA
2781383 TGAGATTGATTTGT-AAT
1 TGAGATTGATTTGTGAAT
*
2781400 TGAGATTGCTTTGTGAAT
1 TGAGATTGATTTGTGAAT
2781418 TG
1 TG
2781420 GTTCAAGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.24, C:0.03, G:0.27, T:0.46
Consensus pattern (18 bp):
TGAGATTGATTTGTGAAT
Found at i:2789568 original size:69 final size:70
Alignment explanation
Indices: 2789445--2789584 Score: 264
Period size: 70 Copynumber: 2.0 Consensus size: 70
2789435 AAAAATTGTC
*
2789445 CTTAATGAATTAAAGTAATTTTTTAAAGTTTTCGTCAAATAAAAAAAATTCAAAGGGAAAAAATC
1 CTTAATGAATTAAAGTAATTTTTTAAAGTTTTCGTCAAATAAAAAAAATTCAAAGAGAAAAAATC
2789510 ACAAA
66 ACAAA
2789515 CTTAATGAATTAAAGTAATTTTTTAAAGTTTTCGTCAAAT-AAAAAAATTCAAAGAGAAAAAATC
1 CTTAATGAATTAAAGTAATTTTTTAAAGTTTTCGTCAAATAAAAAAAATTCAAAGAGAAAAAATC
2789579 ACAAA
66 ACAAA
2789584 C
1 C
2789585 AATTAAATTT
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
69 29 0.42
70 40 0.58
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.30
Consensus pattern (70 bp):
CTTAATGAATTAAAGTAATTTTTTAAAGTTTTCGTCAAATAAAAAAAATTCAAAGAGAAAAAATC
ACAAA
Found at i:2791150 original size:97 final size:97
Alignment explanation
Indices: 2790981--2791170 Score: 310
Period size: 97 Copynumber: 2.0 Consensus size: 97
2790971 TAGAAAAAAA
* *
2790981 GTATTTGATTATCCCGGTTTGAAGAAAAGTCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAAC
1 GTATTTGATTATCCCGGTTTGAAGAAAAATCACGCCTAGTAAGTTAAGGCACAAATTTTCAAAAC
* *
2791046 TCGAAATAAATGAATATTGCCTCGATTTAAGG
66 TCAAAATAAAAGAATATTGCCTCGATTTAAGG
* *
2791078 GTATTTGATTATCCCGGTTTGAAGAAAAATCACGCCTAGTAAGTTAATGCACGAATTTTCAAAA-
1 GTATTTGATTATCCCGGTTTGAAGAAAAATCACGCCTAGTAAGTTAAGGCACAAATTTTCAAAAC
2791142 TCCAAAATAAAAGAATATTGCCTCGATTT
66 T-CAAAATAAAAGAATATTGCCTCGATTT
2791171 TAAATAGTTT
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
96 1 0.01
97 85 0.99
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (97 bp):
GTATTTGATTATCCCGGTTTGAAGAAAAATCACGCCTAGTAAGTTAAGGCACAAATTTTCAAAAC
TCAAAATAAAAGAATATTGCCTCGATTTAAGG
Found at i:2791327 original size:14 final size:14
Alignment explanation
Indices: 2791298--2791349 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
2791288 CACAAACAAT
2791298 TATACGAATGAATAAA
1 TATACGAA--AATAAA
2791314 TATACGAAAATAAA
1 TATACGAAAATAAA
* *
2791328 TTTAAGAAAAATAAA
1 TATACG-AAAATAAA
2791343 -ATACGAA
1 TATACGAA
2791350 TCATGAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
13 2 0.06
14 13 0.42
15 8 0.26
16 8 0.26
ACGTcount: A:0.62, C:0.06, G:0.10, T:0.23
Consensus pattern (14 bp):
TATACGAAAATAAA
Found at i:2791523 original size:30 final size:28
Alignment explanation
Indices: 2791461--2791524 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
2791451 GAAGTTTCAA
**
2791461 AAAATTTGGGGTTGAAACATAATTTTGG
1 AAAATTTGGGGTAAAAACATAATTTTGG
*
2791489 AAAATTTAGGGGTAAAAATATAATTTTAGG
1 AAAATTT-GGGGTAAAAACATAATTTT-GG
2791519 AAAATT
1 AAAATT
2791525 GGAAGTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 7 0.23
29 16 0.52
30 8 0.26
ACGTcount: A:0.44, C:0.02, G:0.20, T:0.34
Consensus pattern (28 bp):
AAAATTTGGGGTAAAAACATAATTTTGG
Found at i:2791532 original size:29 final size:29
Alignment explanation
Indices: 2791479--2791665 Score: 77
Period size: 29 Copynumber: 6.4 Consensus size: 29
2791469 GGGTTGAAAC
*
2791479 ATAATTTTGGAAAATTTAGGGGTAAAAAT
1 ATAATTTTGGAAAATTTAGGAGTAAAAAT
2791508 ATAATTTTAGGAAAA-TT-GGAAGTAAAAAT
1 ATAATTTT-GGAAAATTTAGG-AGTAAAAAT
* * * *
2791537 GTGATTTTTGG-AAGTTCGAGG-GTAAAAAT
1 AT-AATTTTGGAAAATT-TAGGAGTAAAAAT
* *
2791566 GTAATTCTT-GAGAAGTTTGAGG-GTAAAAAT
1 ATAATT-TTGGA-AAATTT-AGGAGTAAAAAT
* * * * *
2791596 GTGATTTTTGG-AAGTTTGGGGGT-AAAAT
1 AT-AATTTTGGAAAATTTAGGAGTAAAAAT
* * *
2791624 GTAATTTTTGAGAAATTTAAGG-GCAAAAAT
1 ATAATTTTGGA-AAATTT-AGGAGTAAAAAT
*
2791654 GTAATTTTGGAA
1 ATAATTTTGGAA
2791666 GTTTGAGGGA
Statistics
Matches: 126, Mismatches: 15, Indels: 34
0.72 0.09 0.19
Matches are distributed among these distances:
27 6 0.05
28 17 0.13
29 49 0.39
30 48 0.38
31 6 0.05
ACGTcount: A:0.39, C:0.02, G:0.25, T:0.35
Consensus pattern (29 bp):
ATAATTTTGGAAAATTTAGGAGTAAAAAT
Found at i:2791560 original size:58 final size:56
Alignment explanation
Indices: 2791498--2791693 Score: 202
Period size: 58 Copynumber: 3.4 Consensus size: 56
2791488 GAAAATTTAG
* *
2791498 GGGTAAAAATATAATTTT-AGGAAAATTGGAAGTAAAAATGTGATTTTTGGAAGTTCGA
1 GGGTAAAAATGTAATTTTGA-G-AAATT-GAAGTAAAAATGTGATTTTTGGAAGTTTGA
* * *
2791556 GGGTAAAAATGTAATTCTTGAGAAGTTTGAGGGTAAAAATGTGATTTTTGGAAGTTTGG
1 GGGTAAAAATGTAATT-TTGAGAA-ATTGA-AGTAAAAATGTGATTTTTGGAAGTTTGA
* * *
2791615 GGGT-AAAATGTAATTTTTGAGAAATTTAAGGGCAAAAATGT-AATTTTGGAAGTTTGA
1 GGGTAAAAATGTAA-TTTTGAGAAATTGAA--GTAAAAATGTGATTTTTGGAAGTTTGA
2791672 GGG-AAAAATGTAATTTTTGAGA
1 GGGTAAAAATGTAA-TTTTGAGA
2791694 TGTTAGGGGG
Statistics
Matches: 119, Mismatches: 11, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
57 38 0.32
58 44 0.37
59 36 0.30
60 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.27, T:0.34
Consensus pattern (56 bp):
GGGTAAAAATGTAATTTTGAGAAATTGAAGTAAAAATGTGATTTTTGGAAGTTTGA
Found at i:2791588 original size:30 final size:30
Alignment explanation
Indices: 2791529--2791732 Score: 233
Period size: 30 Copynumber: 7.0 Consensus size: 30
2791519 AAAATTGGAA
* *
2791529 GTAAAAATGTGATTTTTG-GAAGTTCGAGG
1 GTAAAAATGTAATTTTTGAGAAGTTTGAGG
*
2791558 GTAAAAATGTAATTCTTGAGAAGTTTGAGG
1 GTAAAAATGTAATTTTTGAGAAGTTTGAGG
* *
2791588 GTAAAAATGTGATTTTTG-GAAGTTTGGGG
1 GTAAAAATGTAATTTTTGAGAAGTTTGAGG
* *
2791617 GT-AAAATGTAATTTTTGAGAAATTTAAGG
1 GTAAAAATGTAATTTTTGAGAAGTTTGAGG
*
2791646 GCAAAAATGTAA-TTTTG-GAAGTTTGAGG
1 GTAAAAATGTAATTTTTGAGAAGTTTGAGG
* * *
2791674 G-AAAAATGTAATTTTTGAGATGTTAGGGG
1 GTAAAAATGTAATTTTTGAGAAGTTTGAGG
* * *
2791703 GCAAAATTGTAATTTTTAAGAAGTTT-AGG
1 GTAAAAATGTAATTTTTGAGAAGTTTGAGG
2791732 G
1 G
2791733 GTCAAAATAT
Statistics
Matches: 148, Mismatches: 21, Indels: 12
0.82 0.12 0.07
Matches are distributed among these distances:
27 10 0.07
28 29 0.20
29 54 0.36
30 55 0.37
ACGTcount: A:0.35, C:0.02, G:0.28, T:0.35
Consensus pattern (30 bp):
GTAAAAATGTAATTTTTGAGAAGTTTGAGG
Found at i:2791687 original size:57 final size:58
Alignment explanation
Indices: 2791531--2791693 Score: 229
Period size: 57 Copynumber: 2.8 Consensus size: 58
2791521 AATTGGAAGT
* * * * * *
2791531 AAAAATGTGATTTTTGGAAGTTCGAGGGTAAAAATGTAATTCTTGAGAAGTTTGAGGGT
1 AAAAATGTGAATTTTGGAAGTTTGAGGG-AAAAATGTAATTTTTGAGAAATTTAAGGGC
* * *
2791590 AAAAATGTGATTTTTGGAAGTTTGGGGGTAAAATGTAATTTTTGAGAAATTTAAGGGC
1 AAAAATGTGAATTTTGGAAGTTTGAGGGAAAAATGTAATTTTTGAGAAATTTAAGGGC
2791648 AAAAATGT-AATTTTGGAAGTTTGAGGGAAAAATGTAATTTTTGAGA
1 AAAAATGTGAATTTTGGAAGTTTGAGGGAAAAATGTAATTTTTGAGA
2791694 TGTTAGGGGG
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
57 35 0.37
58 33 0.35
59 26 0.28
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.35
Consensus pattern (58 bp):
AAAAATGTGAATTTTGGAAGTTTGAGGGAAAAATGTAATTTTTGAGAAATTTAAGGGC
Found at i:2791705 original size:57 final size:58
Alignment explanation
Indices: 2791531--2791718 Score: 222
Period size: 57 Copynumber: 3.3 Consensus size: 58
2791521 AATTGGAAGT
* * * * * *
2791531 AAAAATGTGATTTTTGGAAGTTCGAGGGTAAAAATGTAATTCTTGAGAAGTTTGAGGGT
1 AAAAATGTGAATTTTGGAAGTTTGAGGG-AAAAATGTAATTTTTGAGATGTTAGAGGGC
* * *
2791590 AAAAATGTGATTTTTGGAAGTTTGGGGGTAAAATGTAATTTTTGAGAAAT-TTA-AGGGC
1 AAAAATGTGAATTTTGGAAGTTTGAGGGAAAAATGTAATTTTTGAG--ATGTTAGAGGGC
*
2791648 AAAAATGT-AATTTTGGAAGTTTGAGGGAAAAATGTAATTTTTGAGATGTTAGGGGGC
1 AAAAATGTGAATTTTGGAAGTTTGAGGGAAAAATGTAATTTTTGAGATGTTAGAGGGC
*
2791705 AAAATTGT-AATTTT
1 AAAAATGTGAATTTT
2791719 TAAGAAGTTT
Statistics
Matches: 113, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
55 2 0.02
56 3 0.03
57 51 0.45
58 28 0.25
59 28 0.25
60 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.36
Consensus pattern (58 bp):
AAAAATGTGAATTTTGGAAGTTTGAGGGAAAAATGTAATTTTTGAGATGTTAGAGGGC
Found at i:2791748 original size:30 final size:29
Alignment explanation
Indices: 2791532--2791789 Score: 102
Period size: 30 Copynumber: 8.8 Consensus size: 29
2791522 ATTGGAAGTA
* * * *
2791532 AAAATGTGATTTTTGGAAG-TTCGAGGGTA
1 AAAATATGATTTTTAGAAGTTTAG-GGGTC
* * * *
2791561 AAAATGTAATTCTTGAGAAGTTT-GAGGGTA
1 AAAATATGATT-TTTAGAAGTTTAG-GGGTC
* * *
2791591 AAAATGTGATTTTTGGAAGTTTGGGGGT-
1 AAAATATGATTTTTAGAAGTTTAGGGGTC
* * * *
2791619 AAAATGTAATTTTTGAGAAATTTAAGGG-C
1 AAAATATGATTTTT-AGAAGTTTAGGGGTC
* * *
2791648 AAAA-ATGTAATTTTGGAAGTTT-GAGGG-A
1 AAAATATG-ATTTTTAGAAGTTTAG-GGGTC
* * * *
2791676 AAAATGTAATTTTTGAGATG-TTAGGGGGC
1 AAAATATGATTTTT-AGAAGTTTAGGGGTC
2791705 AAAAT-TGTAATTTTTAAGAAGTTTAGGGGTC
1 AAAATATG--ATTTTT-AGAAGTTTAGGGGTC
* * * *
2791736 AAAATATGATTTTGGAAAAGTGTAGGGGTT
1 AAAATATGATTTT-TAGAAGTTTAGGGGTC
*
2791766 AAAATATGATTTTTGGATAGTTTA
1 AAAATATGATTTTTAGA-AGTTTA
2791790 AGGACCTTCT
Statistics
Matches: 176, Mismatches: 36, Indels: 33
0.72 0.15 0.13
Matches are distributed among these distances:
28 38 0.22
29 52 0.30
30 69 0.39
31 15 0.09
32 2 0.01
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.36
Consensus pattern (29 bp):
AAAATATGATTTTTAGAAGTTTAGGGGTC
Found at i:2792949 original size:20 final size:21
Alignment explanation
Indices: 2792924--2792965 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2792914 GTACATAAAT
2792924 ATATAATA-GATAAATATTAA
1 ATATAATACGATAAATATTAA
* *
2792944 ATATAATACTATATATATTAA
1 ATATAATACGATAAATATTAA
2792965 A
1 A
2792966 ATGTTTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (21 bp):
ATATAATACGATAAATATTAA
Found at i:2792967 original size:22 final size:21
Alignment explanation
Indices: 2792919--2792967 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
2792909 AATAAGTACA
2792919 TAAATATATAATAGATAAATAT
1 TAAA-ATATAATAGATAAATAT
* *
2792941 T-AAATATAATACTATATATAT
1 TAAAATATAATA-GATAAATAT
2792962 TAAAAT
1 TAAAAT
2792968 GTTTTGAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 8 0.35
21 10 0.43
22 5 0.22
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
TAAAATATAATAGATAAATAT
Found at i:2793678 original size:6 final size:6
Alignment explanation
Indices: 2793667--2793712 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
2793657 CTAGAATAAT
* *
2793667 TTTAAA TTTAAA CTTAAA -TTAAA TTTAAA TTTTAAA -ATAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA TTTAA
2793713 CCTTAAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
5 9 0.26
6 19 0.56
7 6 0.18
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (6 bp):
TTTAAA
Found at i:2793685 original size:12 final size:12
Alignment explanation
Indices: 2793668--2793719 Score: 54
Period size: 11 Copynumber: 4.4 Consensus size: 12
2793658 TAGAATAATT
2793668 TTAAATTTAAAC
1 TTAAATTTAAAC
*
2793680 TTAAA-TTAAAT
1 TTAAATTTAAAC
2793691 TTAAATTTTAAA-
1 TTAAA-TTTAAAC
* *
2793703 ATAAATTTAACC
1 TTAAATTTAAAC
2793715 TTAAA
1 TTAAA
2793720 ATAAATTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
11 15 0.45
12 13 0.39
13 5 0.15
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (12 bp):
TTAAATTTAAAC
Found at i:2793730 original size:18 final size:17
Alignment explanation
Indices: 2793669--2793727 Score: 82
Period size: 17 Copynumber: 3.4 Consensus size: 17
2793659 AGAATAATTT
*
2793669 TAAATTTAAACTTAAAT
1 TAAATTTAAACTTAAAA
*
2793686 TAAATTTAAATTTTAAAA
1 TAAATTTAAA-CTTAAAA
*
2793704 TAAATTTAACCTTAAAA
1 TAAATTTAAACTTAAAA
2793721 TAAATTT
1 TAAATTT
2793728 TAAAAAATGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
17 23 0.62
18 14 0.38
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATTTAAACTTAAAA
Found at i:2794200 original size:39 final size:39
Alignment explanation
Indices: 2794142--2794596 Score: 225
Period size: 39 Copynumber: 11.7 Consensus size: 39
2794132 AATGACTGTA
* * * *
2794142 ATCTGCCCCATGATGGGGGTAAGAGATTGGCTGATGATG-
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGA-GATGC
* * * *
2794181 ATCTGCCCCAAGCTCGGGGTAAAAGATCGAATG-GTTGC
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGAGATGC
* * *
2794219 AATCTGCCCCAAGCTTGGGGTGAGAGATTGGATG-GCTGC
1 -ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGAGATGC
* *
2794258 AATCTGCCCCAAGCTCGGGGTAAGAGATTTGTTGATGATG-
1 -ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGA-GATGC
* * * * *
2794298 ATCCGCCCCAGGCTCGGGGTAAGAGATCGAAT-AGTTGC
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGAGATGC
* * * * * * * *
2794336 ATTTTGCCTCATGATCAGGGTAAGAGATTTGCTGATGAT-A
1 A-TCTGCCCCAAGCTCGGGGTAAGAGATTGGATGA-GATGC
* * * * * *
2794376 ATCTGCCTCAGGCTCGAGGTAAGAGATTAGATG-GCTGTA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGAGATG-C
** * * *
2794415 AT-TTACCCAGGCTCGGGGTAAGAGATTGAATG-GCTGC
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGAGATGC
* * * * * *
2794452 AATCTGTCCCATGATCGGGGTAAGAGATTTGCTG-GCTGC
1 -ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGAGATGC
* * *
2794491 AATCTGCCCCAGGATCGGGGTAAGAGATT-TACTGATGATG-
1 -ATCTGCCCCAAGCTCGGGGTAAGAGATTGGA-TGA-GATGC
* * * * *
2794531 ATCTACCTCAAGCTCAGGGTAAGAGATTGAATG-GCTGC
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGAGATGC
* * *
2794569 AATTTGCCCCAGGCTCGGGGTAAAAGAT
1 -ATCTGCCCCAAGCTCGGGGTAAGAGAT
2794597 CAACTTGCTG
Statistics
Matches: 320, Mismatches: 78, Indels: 36
0.74 0.18 0.08
Matches are distributed among these distances:
37 11 0.03
38 32 0.10
39 266 0.83
40 3 0.01
41 8 0.03
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (39 bp):
ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGAGATGC
Found at i:2794306 original size:78 final size:78
Alignment explanation
Indices: 2794220--2794596 Score: 348
Period size: 78 Copynumber: 4.8 Consensus size: 78
2794210 AATGGTTGCA
* * *
2794220 ATCTGCCCCAAGCTTGGGGTGAGAGATTGGATGGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGA
*
2794285 TTTGTTGATGATG
66 TTTGCTGATGATG
* * * * * * * * * * * *
2794298 ATCCGCCCCAGGCTCGGGGTAAGAGATCGAATAGTTGCATTTTGCCTCATGATCAGGGTAAGAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGA
*
2794363 TTTGCTGATGATA
66 TTTGCTGATGATG
* * * * * **
2794376 ATCTGCCTCAGGCTCGAGGTAAGAGATTAGATGGCTGTAAT-TTACCCAGGCTCGGGGTAAGAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGA
* *
2794440 -TTG--AATGGCTG
66 TTTGCTGAT-GATG
* * * * * *
2794451 CAATCTGTCCCATGATCGGGGTAAGAGATTTGCTGGCTGCAATCTGCCCCAGGATCGGGGTAAGA
1 --ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGA
*
2794516 GATTTACTGATGATG
64 GATTTGCTGATGATG
* * * * * *
2794531 ATCTACCTCAAGCTCAGGGTAAGAGATTGAATGGCTGCAATTTGCCCCAGGCTCGGGGTAAAAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGA
2794596 T
66 T
2794597 CAACTTGCTG
Statistics
Matches: 231, Mismatches: 61, Indels: 14
0.75 0.20 0.05
Matches are distributed among these distances:
74 2 0.01
75 2 0.01
76 3 0.01
77 50 0.22
78 167 0.72
79 2 0.01
80 3 0.01
81 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (78 bp):
ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGA
TTTGCTGATGATG
Found at i:2794362 original size:117 final size:116
Alignment explanation
Indices: 2794141--2794596 Score: 450
Period size: 117 Copynumber: 3.9 Consensus size: 116
2794131 GAATGACTGT
* * * *
2794141 AATCTGCCCCATGATGGGGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTCGGGGTAAAAG
1 AATCTGCCCCAGGATCGGGGTAAGAGATTTGCTGATGATGATCTGCCCCAAGCTCGGGGTAAGAG
* * * * * * *
2794206 ATCGAATGGTTGCAATCTGCCCCAAGCTTGGGGTGAGAGATTGGATGGCTGC
66 ATCGAATGGCTGCAATCTG-CCCATGATCGGGGTAAGAGATTTGCTGGCTGC
* * * * *
2794258 AATCTGCCCCAAGCTCGGGGTAAGAGATTTGTTGATGATGATCCGCCCCAGGCTCGGGGTAAGAG
1 AATCTGCCCCAGGATCGGGGTAAGAGATTTGCTGATGATGATCTGCCCCAAGCTCGGGGTAAGAG
* * * * * * *
2794323 ATCGAATAGTTGCATTTTGCCTCATGATCAGGGTAAGAGATTTGCT-GATGAT
66 ATCGAATGGCTGCAATCTGCC-CATGATCGGGGTAAGAGATTTGCTGGCTG-C
* * * * * * * ** *
2794375 AATCTGCCTCAGGCTCGAGGTAAGAGATTAGATGGCTG-TAAT-TTACCCAGGCTCGGGGTAAGA
1 AATCTGCCCCAGGATCGGGGTAAGAGATTTGCT-GATGATGATCTGCCCCAAGCTCGGGGTAAGA
*
2794438 GATTGAATGGCTGCAATCTGTCCCATGATCGGGGTAAGAGATTTGCTGGCTGC
65 GATCGAATGGCTGCAATCTG-CCCATGATCGGGGTAAGAGATTTGCTGGCTGC
* * * *
2794491 AATCTGCCCCAGGATCGGGGTAAGAGATTTACTGATGATGATCTACCTCAAGCTCAGGGTAAGAG
1 AATCTGCCCCAGGATCGGGGTAAGAGATTTGCTGATGATGATCTGCCCCAAGCTCGGGGTAAGAG
* * * * *
2794556 ATTGAATGGCTGCAATTTGCCCCAGGCTCGGGGTAAAAGAT
66 ATCGAATGGCTGCAATCTG-CCCATGATCGGGGTAAGAGAT
2794597 CAACTTGCTG
Statistics
Matches: 276, Mismatches: 56, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
115 3 0.01
116 91 0.33
117 179 0.65
118 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (116 bp):
AATCTGCCCCAGGATCGGGGTAAGAGATTTGCTGATGATGATCTGCCCCAAGCTCGGGGTAAGAG
ATCGAATGGCTGCAATCTGCCCATGATCGGGGTAAGAGATTTGCTGGCTGC
Found at i:2794584 original size:194 final size:193
Alignment explanation
Indices: 2794158--2794596 Score: 422
Period size: 194 Copynumber: 2.3 Consensus size: 193
2794148 CCCATGATGG
* * ** * * * * *
2794158 GGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTCGGGGTAAAAGA-TCGAATGGTTGCAAT
1 GGGTAAGAGATTTGATGATGACAATCTGCCCCAGGCTCGAGGTAAAAGATTAG-ATGGCTGTAAT
** * * * *
2794222 CTGCCCCAAGCTTGGGGTGAGAGATTGGATGGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGATT
65 -TTACCCAAGCTCGGGGTAAGAGATTGAATGGCTGCAATCTGCCCCAAGATCGGGGTAAGAGATT
* * * * * *
2794287 TGTTGATGATGATCCGCCCCAGGCTCGGGGTAAGAGATCGAATAGTTGCATTTTGCCTCATGATC
129 TGTGGATGA-GATCCGCCCCAGGATCGGGGTAAGAGATCGAATAGATGCATTCTACCTCAAGATC
2794352 A
193 A
* * * *
2794353 GGGTAAGAGATTTGCTGATGATAATCTGCCTCAGGCTCGAGGTAAGAGATTAGATGGCTGTAATT
1 GGGTAAGAGATTTGATGATGACAATCTGCCCCAGGCTCGAGGTAAAAGATTAGATGGCTGTAATT
* * *
2794418 TACCCAGGCTCGGGGTAAGAGATTGAATGGCTGCAATCTGTCCCATGATCGGGGTAAGAGATTTG
66 TACCCAAGCTCGGGGTAAGAGATTGAATGGCTGCAATCTGCCCCAAGATCGGGGTAAGAGATTTG
* * ** * *
2794483 CTGGCTGCA-ATCTGCCCCAGGATCGGGGTAAGAGATTTACT-GATG-ATGATCTACCTCAAGCT
131 -TGGATG-AGATCCGCCCCAGGATCGGGGTAAGAGATCGAATAGATGCAT--TCTACCTCAAGAT
2794545 CA
192 CA
* * *
2794547 GGGTAAGAGA-TTGAATGGCTG-CAATTTGCCCCAGGCTCGGGGTAAAAGAT
1 GGGTAAGAGATTTG-AT-GATGACAATCTGCCCCAGGCTCGAGGTAAAAGAT
2794597 CAACTTGCTG
Statistics
Matches: 200, Mismatches: 37, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
192 2 0.01
193 6 0.03
194 130 0.65
195 59 0.29
196 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (193 bp):
GGGTAAGAGATTTGATGATGACAATCTGCCCCAGGCTCGAGGTAAAAGATTAGATGGCTGTAATT
TACCCAAGCTCGGGGTAAGAGATTGAATGGCTGCAATCTGCCCCAAGATCGGGGTAAGAGATTTG
TGGATGAGATCCGCCCCAGGATCGGGGTAAGAGATCGAATAGATGCATTCTACCTCAAGATCA
Found at i:2796070 original size:6 final size:6
Alignment explanation
Indices: 2796061--2796136 Score: 70
Period size: 6 Copynumber: 12.8 Consensus size: 6
2796051 TTATTTCTAG
*
2796061 ATTTAA ATTTAC A-TTAA ATTTAA ATTTAAA ATTTAAA ATTT-- ATGTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTT-AA ATTT-AA ATTTAA AT-TTAA
* *
2796109 ATTTAA ATTT-G CTTTAA ATTTAA ATTTA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTA
2796137 GTTTAGATTT
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
4 2 0.03
5 9 0.16
6 32 0.55
7 15 0.26
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (6 bp):
ATTTAA
Found at i:2796109 original size:31 final size:30
Alignment explanation
Indices: 2796061--2796118 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
2796051 TTATTTCTAG
2796061 ATTTAAATTTACATTAAATTTAAATTTAAA
1 ATTTAAATTTACATTAAATTTAAATTTAAA
**
2796091 ATTTAAAATTTATGTTAAATTTAAATTT
1 ATTT-AAATTTACATTAAATTTAAATTT
2796119 GCTTTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (30 bp):
ATTTAAATTTACATTAAATTTAAATTTAAA
Found at i:2796141 original size:17 final size:16
Alignment explanation
Indices: 2796061--2796151 Score: 80
Period size: 17 Copynumber: 5.5 Consensus size: 16
2796051 TTATTTCTAG
*
2796061 ATTTAAATTTACATTAA
1 ATTTAAATTTA-TTTAA
2796078 ATTTAAATTTA---AA
1 ATTTAAATTTATTTAA
2796091 ATTTAAAATTTATGTTAA
1 ATTT-AAATTTAT-TTAA
*
2796109 ATTTAAATTTGCTTTAA
1 ATTTAAATTT-ATTTAA
*
2796126 ATTTAAATTTAGTTTAG
1 ATTTAAATTTA-TTTAA
2796143 ATTTGAAAT
1 ATTT-AAAT
2796152 AATTTTAAAC
Statistics
Matches: 63, Mismatches: 3, Indels: 15
0.78 0.04 0.19
Matches are distributed among these distances:
13 6 0.10
14 7 0.11
17 39 0.62
18 11 0.17
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (16 bp):
ATTTAAATTTATTTAA
Found at i:2798506 original size:29 final size:29
Alignment explanation
Indices: 2798461--2798718 Score: 307
Period size: 29 Copynumber: 9.0 Consensus size: 29
2798451 CATCAAAGGT
*
2798461 CCCT-AAACTATCCAAAAATTACATTTTTA
1 CCCTCAAACT-TCCAAAAATTCCATTTTTA
* *
2798490 CCCTCAAACTTCTAAAAATTCCATTTTAA
1 CCCTCAAACTTCCAAAAATTCCATTTTTA
*
2798519 CCC-CTAAACTACCAAAAATTCCATTTTTA
1 CCCTC-AAACTTCCAAAAATTCCATTTTTA
*
2798548 CCCTCGAACTTCCAAAAATTCCATTTTTGA
1 CCCTCAAACTTCCAAAAATTCCATTTTT-A
* *
2798578 CCC-CGAAACTTCAAAAAATTACA-TTTTA
1 CCCTC-AAACTTCCAAAAATTCCATTTTTA
*
2798606 CCACT-AAACTTCCAAAAATTCCATTTTAA
1 CC-CTCAAACTTCCAAAAATTCCATTTTTA
*
2798635 CCC-CAAAACTTCCAAAAATTACATTTTT-
1 CCCTC-AAACTTCCAAAAATTCCATTTTTA
* *
2798663 CCC-CGAACTTCCAAAAATTACATTTTTA
1 CCCTCAAACTTCCAAAAATTCCATTTTTA
2798691 CCCTCAAACTTCCAAAAATTCCATTTTT
1 CCCTCAAACTTCCAAAAATTCCATTTTT
2798719 TGATATCAAT
Statistics
Matches: 198, Mismatches: 19, Indels: 24
0.82 0.08 0.10
Matches are distributed among these distances:
27 22 0.11
28 28 0.14
29 123 0.62
30 25 0.13
ACGTcount: A:0.38, C:0.28, G:0.02, T:0.33
Consensus pattern (29 bp):
CCCTCAAACTTCCAAAAATTCCATTTTTA
Found at i:2799673 original size:312 final size:310
Alignment explanation
Indices: 2799021--2799725 Score: 841
Period size: 312 Copynumber: 2.2 Consensus size: 310
2799011 AAGTTATTTT
* * * *
2799021 AAAACCGAGGCAATATTCTTTTCGTGTGGAAACTTTGAGAAATCATGCCCCAACGTGTCGGTTGT
1 AAAACCGAGGCAATTTTC-TTTCATGTGGAAACTTCGAGAAATCATGCCCCAACGTGTCGGGTGT
* *
2799086 -ATTTTTTCGTATAACTCATACGAATCGAATACCCTTTTCCATGTCTTTTTTAATGCCTATTAAC
65 GA--TTTTCGTATAACTCATACGAATCAAATACCCTTTTCCAAGTCTTTTTTAATGCCTATTAAC
* * * * **
2799150 TTCGTGATTTCGAGAACGTTGTGCCCTAACGTGTTGGTCACGACTTCAATTCTTTGCGAGAATTG
128 TTCGAGATTCCGAGAACGTTGTGCCCTAACGTGTTGGTCACAACTTCAATTCTTTGCGAAAATCA
* * * **
2799215 AAGTAAACGGGTATTCTATCTCCAAATCCTTTAAGTCACGTGTTCGAGGATCGTGTTTTAAACTC
193 AAGTAAACGGGCATTCCATATCCAAAT-CTTTAAGTCACGTGTTCGAGGATCGTACTTTAAACTC
* *
2799280 AATACGAAATTTTAAGTTTTCAAATACATACATACAAATAAATTATCTTAAAAA
257 AATACGAAATTTTAAGTTCTCAAATACATACATACAAATAAATGATCTTAAAAA
* *
2799334 AGGAAACCGGGGCAATTTTATTTTCATGTGGAAACTTCGAGAAATCATGCCCCAACGTGTCGGGT
1 A--AAACCGAGGCAATTTT-CTTTCATGTGGAAACTTCGAGAAATCATGCCCCAACGTGTCGGGT
* * *
2799399 GTGATTTTCGTATAACTCATACGAATCAAATATCCTTTTTCAAGT-TTTTTT-ATGCCTGTTAAC
63 GTGATTTTCGTATAACTCATACGAATCAAATACCCTTTTCCAAGTCTTTTTTAATGCCTATTAAC
* *
2799462 TTCGAGATTCCGAGAACGTTGTGTCCTAACGTGTTGGTCACAACTTTAATTCTTTGCGAAAATCA
128 TTCGAGATTCCGAGAACGTTGTGCCCTAACGTGTTGGTCACAACTTCAATTCTTTGCGAAAATCA
* * * * *
2799527 AAGTAAACGGGCATTCCATATGCAAAT-TTTCCAAGTTATGTG-TCTGAGGATTGTACTTTAAAT
193 AAGTAAACGGGCATTCCATATCCAAATCTTT--AAGTCACGTGTTC-GAGGATCGTACTTTAAAC
* ** * * *
2799590 TCAATGCGAAATTTTTAAGTTCTCAAAATTTATATCTATATATATAAATGATCTTAAAAC
255 TCAATACGAAA-TTTTAAGTTCTC-AAATACATA-C-ATACAAATAAATGATCTTAAAAA
* * * *
2799650 AAAA-CGAGGCAATTTTCTTTCATGT-GAAGACCTCGAAAAACCATGCCCAAACGTG-CTGGGTG
1 AAAACCGAGGCAATTTTCTTTCATGTGGAA-ACTTCGAGAAATCATGCCCCAACGTGTC-GGGTG
2799712 TGATTTTCGTATAA
64 TGATTTTCGTATAA
2799726 TTCACACGGT
Statistics
Matches: 336, Mismatches: 43, Indels: 27
0.83 0.11 0.07
Matches are distributed among these distances:
310 3 0.01
311 6 0.02
312 172 0.51
313 29 0.09
314 47 0.14
315 58 0.17
316 21 0.06
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (310 bp):
AAAACCGAGGCAATTTTCTTTCATGTGGAAACTTCGAGAAATCATGCCCCAACGTGTCGGGTGTG
ATTTTCGTATAACTCATACGAATCAAATACCCTTTTCCAAGTCTTTTTTAATGCCTATTAACTTC
GAGATTCCGAGAACGTTGTGCCCTAACGTGTTGGTCACAACTTCAATTCTTTGCGAAAATCAAAG
TAAACGGGCATTCCATATCCAAATCTTTAAGTCACGTGTTCGAGGATCGTACTTTAAACTCAATA
CGAAATTTTAAGTTCTCAAATACATACATACAAATAAATGATCTTAAAAA
Found at i:2810084 original size:11 final size:11
Alignment explanation
Indices: 2810044--2810084 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
2810034 ATTAATTATT
2810044 TTTTAAAA-TA
1 TTTTAAAATTA
2810054 TTTTAAAATTA
1 TTTTAAAATTA
*
2810065 ATTTAAAATTA
1 TTTTAAAATTA
*
2810076 TTTTTAAAT
1 TTTTAAAAT
2810085 ATAAAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 8 0.30
11 19 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATTA
Found at i:2810978 original size:11 final size:11
Alignment explanation
Indices: 2810937--2810977 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
2810927 ATAATTTTAT
*
2810937 ATTTAAAAATA
1 ATTTTAAAATA
*
2810948 ATTTTAAATTA
1 ATTTTAAAATA
2810959 ATTTTAAAAT-
1 ATTTTAAAATA
2810969 ATTTTAAAA
1 ATTTTAAAA
2810978 AATAATTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATTTTAAAATA
Found at i:2811614 original size:97 final size:97
Alignment explanation
Indices: 2811444--2811637 Score: 316
Period size: 97 Copynumber: 2.0 Consensus size: 97
2811434 AACCTAGAAA
* *
2811444 AAGGGTATTCGATTATCCCGATTTGAAGAAAAGTTGCGCCTAGTAAGTTAAGGCACAAATTTTCA
1 AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
*
2811509 AAACTCGAAATAATGGAATATTGCCTCGATTT
66 AAACTCGAAATAAAGGAATATTGCCTCGATTT
* * * *
2811541 AAGGGTTTTCGATTATCCCTATTTGAAGAAAAATCGCGCCTATTAAGTTAAGGCACTAATTTTCA
1 AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
*
2811606 AAATTCGAAATAAAGGAATATTGCCTCGATTT
66 AAACTCGAAATAAAGGAATATTGCCTCGATTT
2811638 TAAATATTTC
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
97 89 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (97 bp):
AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
AAACTCGAAATAAAGGAATATTGCCTCGATTT
Found at i:2811791 original size:14 final size:14
Alignment explanation
Indices: 2811762--2811813 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
2811752 CACAAGCAAT
2811762 TATACGAATGAATAAA
1 TATACGAA--AATAAA
2811778 TATACGAAAATAAA
1 TATACGAAAATAAA
*
2811792 TATAAGAAAAATAAA
1 TATACG-AAAATAAA
2811807 -ATACGAA
1 TATACGAA
2811814 TCATGAATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
13 2 0.06
14 15 0.45
15 8 0.24
16 8 0.24
ACGTcount: A:0.63, C:0.06, G:0.10, T:0.21
Consensus pattern (14 bp):
TATACGAAAATAAA
Found at i:2811961 original size:28 final size:29
Alignment explanation
Indices: 2811920--2812155 Score: 220
Period size: 29 Copynumber: 8.3 Consensus size: 29
2811910 AGTTTCAGAG
* *
2811920 AGTTT-GGGGTTAAAATGTAATTTTAGAA
1 AGTTTAGGGGTAAAAATGTAATTTTTGAA
* *
2811948 AATTTAGGGGTAAAAATGTAATTTTAGGAA
1 AGTTTAGGGGTAAAAATGTAATTTT-TGAA
* * * *
2811978 A-ATTCGAGGTAAAAATGTGATTTTTGAA
1 AGTTTAGGGGTAAAAATGTAATTTTTGAA
* *
2812006 AGTTT-GGGG-GAAAATGTAATTTTTGGA
1 AGTTTAGGGGTAAAAATGTAATTTTTGAA
*
2812033 AGTTTAGGGG-AAAAATGTATTTTTTTGGAA
1 AGTTTAGGGGTAAAAATGTA-ATTTTT-GAA
* *
2812063 A-TTTAGAGGTAAAAATGTAA-TTTTGTA
1 AGTTTAGGGGTAAAAATGTAATTTTTGAA
* *
2812090 AGTTTGGGGGTAAAAATGTAATTTTTGGA
1 AGTTTAGGGGTAAAAATGTAATTTTTGAA
* *
2812119 AGTTCAGGGG--AAAATGTAATTTTTGGA
1 AGTTTAGGGGTAAAAATGTAATTTTTGAA
*
2812146 AGTTTTGGGG
1 AGTTTAGGGG
2812156 GTCAAAATAA
Statistics
Matches: 173, Mismatches: 26, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
27 48 0.28
28 44 0.25
29 65 0.38
30 16 0.09
ACGTcount: A:0.35, C:0.01, G:0.27, T:0.37
Consensus pattern (29 bp):
AGTTTAGGGGTAAAAATGTAATTTTTGAA
Found at i:2812037 original size:113 final size:112
Alignment explanation
Indices: 2811920--2812155 Score: 303
Period size: 113 Copynumber: 2.1 Consensus size: 112
2811910 AGTTTCAGAG
* *
2811920 AGTTTGGGGTTAAAATGTA-ATTTTAGAAAATTTAGGGGTAAAAATGTAATTTTAGGAAAATTCG
1 AGTTTGGGG-AAAAATGTATATTTTAGAAAATTTAGAGGTAAAAATGTAATTTT-GGAAAATTCG
* **
2811984 AGGTAAAAATGTGATTTTTGAAAGTTTGGGGGAAAATGTAATTTTTGGA
64 AGGTAAAAATGTAATTTTTGAAAGTTCAGGGGAAAATGTAATTTTTGGA
* * * * ** * *
2812033 AGTTTAGGGGAAAAATGTATTTTTTTGGAAATTTAGAGGTAAAAATGTAATTTTGTAAGTTTGGG
1 AGTTT-GGGGAAAAATGTATATTTTAGAAAATTTAGAGGTAAAAATGTAATTTTGGAAAATTCGA
*
2812098 GGTAAAAATGTAATTTTTGGAAGTTCAGGGGAAAATGTAATTTTTGGA
65 GGTAAAAATGTAATTTTTGAAAGTTCAGGGGAAAATGTAATTTTTGGA
2812146 AGTTTTGGGG
1 AG-TTTGGGG
2812156 GTCAAAATAA
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
113 69 0.65
114 37 0.35
ACGTcount: A:0.35, C:0.01, G:0.27, T:0.37
Consensus pattern (112 bp):
AGTTTGGGGAAAAATGTATATTTTAGAAAATTTAGAGGTAAAAATGTAATTTTGGAAAATTCGAG
GTAAAAATGTAATTTTTGAAAGTTCAGGGGAAAATGTAATTTTTGGA
Found at i:2812163 original size:85 final size:85
Alignment explanation
Indices: 2811920--2812146 Score: 307
Period size: 85 Copynumber: 2.7 Consensus size: 85
2811910 AGTTTCAGAG
* * * * * * *
2811920 AGTTTGGGGTTAAAATGTAATTTTAGAAAATTTAGGGGTAAAAATGTAATTTTAGGAAAATTCGA
1 AGTTTGGGGGTAAAATGTAATTTTTGGAAGTTTAGGGG-AAAAATGTAATTTTTGGAAATTTAGA
*
2811985 GGTAAAAATGTGATTTTTGAA
65 GGTAAAAATGTGAATTTTGAA
*
2812006 AGTTTGGGGG-AAAATGTAATTTTTGGAAGTTTAGGGGAAAAATGTATTTTTTTGGAAATTTAGA
1 AGTTTGGGGGTAAAATGTAATTTTTGGAAGTTTAGGGGAAAAATGTA-ATTTTTGGAAATTTAGA
*
2812070 GGTAAAAATGT-AATTTTGTA
65 GGTAAAAATGTGAATTTTGAA
*
2812090 AGTTTGGGGGTAAAAATGTAATTTTTGGAAGTTCAGGGG-AAAATGTAATTTTTGGAA
1 AGTTTGGGGGT-AAAATGTAATTTTTGGAAGTTTAGGGGAAAAATGTAATTTTTGGAA
2812147 GTTTTGGGGG
Statistics
Matches: 126, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
84 35 0.28
85 56 0.44
86 35 0.28
ACGTcount: A:0.36, C:0.01, G:0.26, T:0.37
Consensus pattern (85 bp):
AGTTTGGGGGTAAAATGTAATTTTTGGAAGTTTAGGGGAAAAATGTAATTTTTGGAAATTTAGAG
GTAAAAATGTGAATTTTGAA
Found at i:2813381 original size:20 final size:21
Alignment explanation
Indices: 2813356--2813397 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2813346 GTACATAAAT
2813356 ATATAATA-GATAAATATTAA
1 ATATAATACGATAAATATTAA
* *
2813376 ATATAATACTATATATATTAA
1 ATATAATACGATAAATATTAA
2813397 A
1 A
2813398 ACGTTTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (21 bp):
ATATAATACGATAAATATTAA
Found at i:2815341 original size:6 final size:6
Alignment explanation
Indices: 2815330--2815395 Score: 57
Period size: 6 Copynumber: 11.3 Consensus size: 6
2815320 GGACACTATT
* **
2815330 AATTTA AATTTA GAA--TA ATTTTA AATTTA AAAATA AATTTA AATTTA
1 AATTTA AATTTA -AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* *
2815377 AA-ATA AATTTA ACTTTA AA
1 AATTTA AATTTA AATTTA AA
2815396 ATAAATTTTA
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
4 1 0.02
5 6 0.13
6 37 0.80
7 2 0.04
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (6 bp):
AATTTA
Found at i:2815352 original size:17 final size:17
Alignment explanation
Indices: 2815330--2815403 Score: 112
Period size: 17 Copynumber: 4.3 Consensus size: 17
2815320 GGACACTATT
*
2815330 AATTTAAATTTAGAATA
1 AATTTAAATTTAAAATA
*
2815347 ATTTTAAATTTAAAAATA
1 AATTTAAATTT-AAAATA
2815365 AATTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
*
2815382 AATTTAACTTTAAAATA
1 AATTTAAATTTAAAATA
2815399 AATTT
1 AATTT
2815404 TAAAAAATGG
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
17 37 0.71
18 15 0.29
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:2815407 original size:35 final size:35
Alignment explanation
Indices: 2815330--2815403 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
2815320 GGACACTATT
* *
2815330 AATTTAAATTTAGAATAATTTTAAATTTAAAAATA
1 AATTTAAATTTAAAATAAATTTAAATTTAAAAATA
*
2815365 AATTTAAATTTAAAATAAATTTAACTTT-AAAATA
1 AATTTAAATTTAAAATAAATTTAAATTTAAAAATA
2815399 AATTT
1 AATTT
2815404 TAAAAAATGG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
34 11 0.31
35 25 0.69
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (35 bp):
AATTTAAATTTAAAATAAATTTAAATTTAAAAATA
Found at i:2815842 original size:23 final size:21
Alignment explanation
Indices: 2815792--2815843 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 21
2815782 ATTATTATTA
* *
2815792 TTATTAATGTTATTAATGTCT
1 TTATTAATCTTATTAATGCCT
2815813 TTCATTAATCCTTATTAATGCCAT
1 TT-ATTAAT-CTTATTAATGCC-T
2815837 TTATTAA
1 TTATTAA
2815844 ATTCAGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 2 0.08
22 6 0.23
23 15 0.58
24 3 0.12
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.52
Consensus pattern (21 bp):
TTATTAATCTTATTAATGCCT
Found at i:2816523 original size:6 final size:6
Alignment explanation
Indices: 2816507--2816581 Score: 79
Period size: 6 Copynumber: 13.0 Consensus size: 6
2816497 TTAAATTTGT
*
2816507 TTTATAA TTTAAA TTTAAA TTTAAA TTT-AA GTTAAA TTTAAA TTTAAGA
1 TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA-A
*
2816556 --TAGA TTTAAA TTTAAA --TAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
2816582 ATCAATTTAA
Statistics
Matches: 58, Mismatches: 4, Indels: 13
0.77 0.05 0.17
Matches are distributed among these distances:
4 5 0.09
5 6 0.10
6 42 0.72
7 5 0.09
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:2816564 original size:23 final size:22
Alignment explanation
Indices: 2816511--2816572 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 22
2816501 ATTTGTTTTA
2816511 TAATTTAAATTTAAATTTAAATT
1 TAATTTAAATTTAAATTTAAA-T
*
2816534 TAAGTTAAATTTAAATTTAAGA-
1 TAATTTAAATTTAAATTTAA-AT
2816556 TAGATTTAAATTTAAAT
1 TA-ATTTAAATTTAAAT
2816573 AAATTTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 2 0.06
23 32 0.91
24 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (22 bp):
TAATTTAAATTTAAATTTAAAT
Found at i:2816583 original size:17 final size:17
Alignment explanation
Indices: 2816522--2816581 Score: 95
Period size: 17 Copynumber: 3.6 Consensus size: 17
2816512 AATTTAAATT
*
2816522 TAAATTTAAATTTAAGT
1 TAAATTTAAATTTAAGA
2816539 TAAATTTAAATTTAAGA
1 TAAATTTAAATTTAAGA
*
2816556 TAGATTTAAATTTAA-A
1 TAAATTTAAATTTAAGA
2816572 TAAATTTAAA
1 TAAATTTAAA
2816582 ATCAATTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
16 10 0.25
17 30 0.75
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (17 bp):
TAAATTTAAATTTAAGA
Found at i:2816589 original size:27 final size:28
Alignment explanation
Indices: 2816545--2816600 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
2816535 AAGTTAAATT
*
2816545 TAAATTTAAGATAGATTTAA-ATTTAAA
1 TAAATTTAAAATAGATTTAACATTTAAA
*
2816572 TAAATTTAAAATCA-ATTTAACCTTTAAA
1 TAAATTTAAAAT-AGATTTAACATTTAAA
2816600 T
1 T
2816601 TAAAGCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (28 bp):
TAAATTTAAAATAGATTTAACATTTAAA
Found at i:2816965 original size:68 final size:68
Alignment explanation
Indices: 2816865--2817463 Score: 869
Period size: 68 Copynumber: 8.8 Consensus size: 68
2816855 GCTCTTCAGG
* * * * *
2816865 GAGATAAAGACTTCGCTATCCAACTTTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAA
1 GAGATGAAGACTT-GTTATCC-ACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAA
*
2816930 TTTTA
64 TTTCA
* * *
2816935 GAGGTAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATT
1 GAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATT
2817000 TCA
66 TCA
* * *
2817003 GAGATGAAGACATGTTATCCACTCTATTTCAATTTCAAGGGGATGACGTCGCTCTTACTTCAATT
1 GAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATT
2817068 TCA
66 TCA
* * * *
2817071 GAGAGGAAGTCTTGATATCCAACTCTACTTCAATTTCAAGGGGATGACATTGCTCTTACTTCAAT
1 GAGATGAAGACTTGTTATCC-ACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAAT
2817136 TTCA
65 TTCA
* *
2817140 GAGATGAAGACATGTTATCCACTCTATTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATT
1 GAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATT
2817205 TCA
66 TCA
* * * *
2817208 GAGAGGAAGACTTGATATCCAACTCTACTTTAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
1 GAGATGAAGACTTGTTATCC-ACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAAT
2817273 TTCA
65 TTCA
*
2817277 GAGAT-AAGGACTTGTTATCCACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
1 GAGATGAA-GACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAAT
2817341 TTCA
65 TTCA
* * *
2817345 GAGAGGAAGTCTTGTTATCCACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATT
1 GAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATT
2817410 TCA
66 TCA
* * *
2817413 GAGAT-AGAGACGTGTTATCCACTCTACTTCGATTTCAAGGGGATGATGTTG
1 GAGATGA-AGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTG
2817464 AGATCTGCAA
Statistics
Matches: 482, Mismatches: 42, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
67 1 0.00
68 341 0.71
69 129 0.27
70 11 0.02
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (68 bp):
GAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATT
TCA
Found at i:2817126 original size:137 final size:135
Alignment explanation
Indices: 2816881--2817463 Score: 889
Period size: 137 Copynumber: 4.3 Consensus size: 135
2816871 AAGACTTCGC
* * * * *
2816881 TATCCAACTTTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAATTTTAGAG-GTAAAGA
1 TATCC-ACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAG-GAAGA
* * *
2816945 CGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGA
64 CTTGATATCCACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGAT-A
2817010 AGACATGT
128 AGACATGT
* * *
2817018 TATCCACTCTATTTCAATTTCAAGGGGATGACGTCGCTCTTACTTCAATTTCAGAGAGGAAGTCT
1 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAGGAAGACT
* *
2817083 TGATATCCAACTCTACTTCAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGAGATGAA
66 TGATATCC-ACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGAT-AA
2817148 GACATGT
129 GACATGT
*
2817155 TATCCACTCTATTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAGGAAGACT
1 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAGGAAGACT
*
2817220 TGATATCCAACTCTACTTTAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAG
66 TGATATCC-ACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAA-
*
2817285 GACTTGT
129 GACATGT
* *
2817292 TATCCACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGAGGAAGTCT
1 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAGGAAGACT
*
2817357 TGTTATCCACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAGAG
66 TGATATCCACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATA-AG
*
2817422 ACGTGT
130 ACATGT
* *
2817428 TATCCACTCTACTTCGATTTCAAGGGGATGATGTTG
1 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTG
2817464 AGATCTGCAA
Statistics
Matches: 416, Mismatches: 26, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
136 150 0.36
137 266 0.64
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (135 bp):
TATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAGGAAGACT
TGATATCCACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAGA
CATGT
Found at i:2817303 original size:205 final size:203
Alignment explanation
Indices: 2816865--2817463 Score: 869
Period size: 205 Copynumber: 2.9 Consensus size: 203
2816855 GCTCTTCAGG
* * *
2816865 GAGATAAAGACTTCGCTATCCAACTTTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAA
1 GAGAT-AAGACTT-GATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAA
* * * *
2816930 TTTTAGAGGTAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTT
64 TTTCAGAGATGAAGACATGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTT
*
2816995 CAATTTCAGAGATGAAGACATGTTATCCACTCTA-TTTCAATTTCAAGGGGATGACGTCGCTCTT
129 CAATTTCAGAGA-GAAGACATGTTATCCACTCTACTTT-AATTTCAAGGGGATGACGTTGCTCTT
2817059 ACTTCAATTTCA
192 ACTTCAATTTCA
* * * *
2817071 GAGAGGAAGTCTTGATATCCAACTCTACTTCAATTTCAAGGGGATGACATTGCTCTTACTTCAAT
1 GAGA-TAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
*
2817136 TTCAGAGATGAAGACATGTTATCCACTCTATTTCAATTTCAAGGGGATGACGTTGCTCTTACTTC
65 TTCAGAGATGAAGACATGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTC
* * *
2817201 AATTTCAGAGAGGAAGACTTGATATCCAACTCTACTTTAATTTCAAGAGGATGACGTTGCTCTTA
130 AATTTCAGAGA-GAAGACATGTTATCC-ACTCTACTTTAATTTCAAGGGGATGACGTTGCTCTTA
2817266 CTTCAATTTCA
193 CTTCAATTTCA
*
2817277 GAGATAAGGACTTGTTATCC-ACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
1 GAGATAA-GACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
* * * *
2817341 TTCAGAGAGGAAGTCTTGTTATCCACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTC
65 TTCAGAGATGAAGACATGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTC
* * ** *
2817406 AATTTCAGAGATAGAGACGTGTTATCCACTCTACTTCGATTTCAAGGGGATGATGTTG
130 AATTTCAGAGAGA-AGACATGTTATCCACTCTACTTTAATTTCAAGGGGATGACGTTG
2817464 AGATCTGCAA
Statistics
Matches: 354, Mismatches: 34, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
204 28 0.08
205 257 0.73
206 66 0.19
207 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (203 bp):
GAGATAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATT
TCAGAGATGAAGACATGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCA
ATTTCAGAGAGAAGACATGTTATCCACTCTACTTTAATTTCAAGGGGATGACGTTGCTCTTACTT
CAATTTCA
Found at i:2827484 original size:5 final size:5
Alignment explanation
Indices: 2827474--2827505 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
2827464 GAAATAATGT
2827474 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA
2827506 TTTTAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:2831812 original size:111 final size:114
Alignment explanation
Indices: 2831686--2831926 Score: 312
Period size: 117 Copynumber: 2.1 Consensus size: 114
2831676 AATCTATAAA
* * * *
2831686 TAAAATTAAATTAAGAGTGTTGATTTATTTAAACATATTTGAAAAATT-AAC-ATG-T-TCATTG
1 TAAAATTAAACTAAGAGTGTTGACTTATTTAAAAATAATTG-AAAATTCAACTATGATGTCATTG
* *
2831747 GGGCATATAAATAATGCCCAATAGGAAT-ATATAAAGCAGCACTACATTTC
65 GGGCATATAAATAATACCCAATA-AAATAATATAAAGCAGCACTACATTTC
* * *
2831797 TAAAATTAAACTAAGAGTGTTGACTTATTTAAAAATAATTGAGATTTCAACTTTTTGATTGTCAT
1 TAAAATTAAACTAAGAGTGTTGACTTATTTAAAAATAATTGAAAATTCAAC--TATGA-TGTCAT
*
2831862 TTGGGCATATAAATAATACCCAATAAAATAATATAAAGCAGCACTACATTTC
63 TGGGGCATATAAATAATACCCAATAAAATAATATAAAGCAGCACTACATTTC
2831914 TAAAATTAAACTA
1 TAAAATTAAACTA
2831927 CATCCTTTTT
Statistics
Matches: 112, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
110 4 0.04
111 40 0.36
114 2 0.02
116 4 0.04
117 62 0.55
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (114 bp):
TAAAATTAAACTAAGAGTGTTGACTTATTTAAAAATAATTGAAAATTCAACTATGATGTCATTGG
GGCATATAAATAATACCCAATAAAATAATATAAAGCAGCACTACATTTC
Found at i:2835226 original size:5 final size:5
Alignment explanation
Indices: 2835216--2835247 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
2835206 GAAATAATGT
2835216 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA
2835248 TTTTAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:2839554 original size:111 final size:114
Alignment explanation
Indices: 2839428--2839668 Score: 312
Period size: 117 Copynumber: 2.1 Consensus size: 114
2839418 AATCTATAAA
* * * *
2839428 TAAAATTAAATTAAGAGTGTTGATTTATTTAAACATATTTGAAAAATT-AAC-ATG-T-TCATTG
1 TAAAATTAAACTAAGAGTGTTGACTTATTTAAAAATAATTG-AAAATTCAACTATGATGTCATTG
* *
2839489 GGGCATATAAATAATGCCCAATAGGAAT-ATATAAAGCAGCACTACATTTC
65 GGGCATATAAATAATACCCAATA-AAATAATATAAAGCAGCACTACATTTC
* * *
2839539 TAAAATTAAACTAAGAGTGTTGACTTATTTAAAAATAATTGAGATTTCAACTTTTTGATTGTCAT
1 TAAAATTAAACTAAGAGTGTTGACTTATTTAAAAATAATTGAAAATTCAAC--TATGA-TGTCAT
*
2839604 TTGGGCATATAAATAATACCCAATAAAATAATATAAAGCAGCACTACATTTC
63 TGGGGCATATAAATAATACCCAATAAAATAATATAAAGCAGCACTACATTTC
2839656 TAAAATTAAACTA
1 TAAAATTAAACTA
2839669 CATCCTTTTT
Statistics
Matches: 112, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
110 4 0.04
111 40 0.36
114 2 0.02
116 4 0.04
117 62 0.55
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (114 bp):
TAAAATTAAACTAAGAGTGTTGACTTATTTAAAAATAATTGAAAATTCAACTATGATGTCATTGG
GGCATATAAATAATACCCAATAAAATAATATAAAGCAGCACTACATTTC
Found at i:2842968 original size:5 final size:5
Alignment explanation
Indices: 2842958--2842984 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
2842948 GAAATAATGT
2842958 AAAAG AAAAG AAAAG AAAAG AAAAG AA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AA
2842985 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:2847291 original size:111 final size:114
Alignment explanation
Indices: 2847165--2847405 Score: 312
Period size: 117 Copynumber: 2.1 Consensus size: 114
2847155 AATCTATAAA
* * * *
2847165 TAAAATTAAATTAAGAGTGTTGATTTATTTAAACATATTTGAAAAATT-AAC-ATG-T-TCATTG
1 TAAAATTAAACTAAGAGTGTTGACTTATTTAAAAATAATTG-AAAATTCAACTATGATGTCATTG
* *
2847226 GGGCATATAAATAATGCCCAATAGGAAT-ATATAAAGCAGCACTACATTTC
65 GGGCATATAAATAATACCCAATA-AAATAATATAAAGCAGCACTACATTTC
* * *
2847276 TAAAATTAAACTAAGAGTGTTGACTTATTTAAAAATAATTGAGATTTCAACTTTTTGATTGTCAT
1 TAAAATTAAACTAAGAGTGTTGACTTATTTAAAAATAATTGAAAATTCAAC--TATGA-TGTCAT
*
2847341 TTGGGCATATAAATAATACCCAATAAAATAATATAAAGCAGCACTACATTTC
63 TGGGGCATATAAATAATACCCAATAAAATAATATAAAGCAGCACTACATTTC
2847393 TAAAATTAAACTA
1 TAAAATTAAACTA
2847406 CATCCTTTTT
Statistics
Matches: 112, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
110 4 0.04
111 40 0.36
114 2 0.02
116 4 0.04
117 62 0.55
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (114 bp):
TAAAATTAAACTAAGAGTGTTGACTTATTTAAAAATAATTGAAAATTCAACTATGATGTCATTGG
GGCATATAAATAATACCCAATAAAATAATATAAAGCAGCACTACATTTC
Found at i:2850705 original size:5 final size:5
Alignment explanation
Indices: 2850695--2850721 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
2850685 GAAATAATGT
2850695 AAAAG AAAAG AAAAG AAAAG AAAAG AA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AA
2850722 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:2854514 original size:111 final size:114
Alignment explanation
Indices: 2854388--2854628 Score: 312
Period size: 117 Copynumber: 2.1 Consensus size: 114
2854378 AATCTATAAA
* * * *
2854388 TAAAATTAAATTAAGAGTGTTGATTTATTTAAACATATTTGAAAAATT-AAC-ATG-T-TCATTG
1 TAAAATTAAACTAAGAGTGTTGACTTATTTAAAAATAATTG-AAAATTCAACTATGATGTCATTG
* *
2854449 GGGCATATAAATAATGCCCAATAGGAAT-ATATAAAGCAGCACTACATTTC
65 GGGCATATAAATAATACCCAATA-AAATAATATAAAGCAGCACTACATTTC
* * *
2854499 TAAAATTAAACTAAGAGTGTTGACTTATTTAAAAATAATTGAGATTTCAACTTTTTGATTGTCAT
1 TAAAATTAAACTAAGAGTGTTGACTTATTTAAAAATAATTGAAAATTCAAC--TATGA-TGTCAT
*
2854564 TTGGGCATATAAATAATACCCAATAAAATAATATAAAGCAGCACTACATTTC
63 TGGGGCATATAAATAATACCCAATAAAATAATATAAAGCAGCACTACATTTC
2854616 TAAAATTAAACTA
1 TAAAATTAAACTA
2854629 CATCCTTTTT
Statistics
Matches: 112, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
110 4 0.04
111 40 0.36
114 2 0.02
116 4 0.04
117 62 0.55
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (114 bp):
TAAAATTAAACTAAGAGTGTTGACTTATTTAAAAATAATTGAAAATTCAACTATGATGTCATTGG
GGCATATAAATAATACCCAATAAAATAATATAAAGCAGCACTACATTTC
Found at i:2854898 original size:17 final size:16
Alignment explanation
Indices: 2854878--2854957 Score: 101
Period size: 17 Copynumber: 4.9 Consensus size: 16
2854868 TAAGTTTAAA
*
2854878 TTAATTTTAAATTTTAT
1 TTAAATTTAAA-TTTAT
2854895 TTAAATTTAAATTTAT
1 TTAAATTTAAATTTAT
*
2854911 CTTAAATTTGAATTTAT
1 -TTAAATTTAAATTTAT
2854928 TT--ATTTAAATTTATT
1 TTAAATTTAAATTTA-T
2854943 TTAAATTTAAATTTA
1 TTAAATTTAAATTTA
2854958 AAAATGATAT
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
14 10 0.18
15 3 0.05
16 7 0.12
17 36 0.64
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (16 bp):
TTAAATTTAAATTTAT
Found at i:2854909 original size:6 final size:6
Alignment explanation
Indices: 2854866--2854959 Score: 72
Period size: 6 Copynumber: 16.0 Consensus size: 6
2854856 ATTTTGATTT
* * *
2854866 TTTAAG TTTAAA -TTAAT TTTAAA TTT-TA TTTAAA TTTAAA TTT--A
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
2854910 TCTTAAA TTTGAA TTTATTTA TTTAAA TTT-AT TTTAAA TTTAAA TTTAAA
1 T-TTAAA TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
2854960 AATGATATTA
Statistics
Matches: 69, Mismatches: 11, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
4 2 0.03
5 14 0.20
6 46 0.67
7 2 0.03
8 5 0.07
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:2854915 original size:11 final size:10
Alignment explanation
Indices: 2854899--2854951 Score: 56
Period size: 11 Copynumber: 5.1 Consensus size: 10
2854889 TTTTATTTAA
2854899 ATTTAAATTT
1 ATTTAAATTT
2854909 ATCTTAAATTT
1 AT-TTAAATTT
2854920 GAATTT--ATTT
1 --ATTTAAATTT
2854930 ATTTAAATTT
1 ATTTAAATTT
2854940 ATTTTAAATTT
1 A-TTTAAATTT
2854951 A
1 A
2854952 AATTTAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
8 4 0.11
10 11 0.30
11 18 0.49
12 2 0.05
13 2 0.05
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (10 bp):
ATTTAAATTT
Found at i:2854937 original size:31 final size:32
Alignment explanation
Indices: 2854878--2854957 Score: 108
Period size: 31 Copynumber: 2.5 Consensus size: 32
2854868 TAAGTTTAAA
*
2854878 TTAATTTTAAATTTTATTTAAATTTAAATTTATC
1 TTAAATTTAAA-TTTATTT-AATTTAAATTTATC
* *
2854912 TTAAATTTGAATTTATTT-ATTTAAATTTATT
1 TTAAATTTAAATTTATTTAATTTAAATTTATC
2854943 TTAAATTTAAATTTA
1 TTAAATTTAAATTTA
2854958 AAAATGATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
31 26 0.62
33 7 0.17
34 9 0.21
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (32 bp):
TTAAATTTAAATTTATTTAATTTAAATTTATC
Found at i:2856131 original size:21 final size:21
Alignment explanation
Indices: 2856102--2856141 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2856092 TAAAATAAAA
2856102 AAAAAAAAAAG-AATAGGAAAT
1 AAAAAAAAAAGCAA-AGGAAAT
*
2856123 AAAATAAAAAGCAAAGGAA
1 AAAAAAAAAAGCAAAGGAA
2856142 GAGGAGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.75, C:0.03, G:0.15, T:0.07
Consensus pattern (21 bp):
AAAAAAAAAAGCAAAGGAAAT
Found at i:2856981 original size:29 final size:29
Alignment explanation
Indices: 2856915--2856995 Score: 103
Period size: 29 Copynumber: 2.8 Consensus size: 29
2856905 CCCCAAACAG
2856915 TCCAAAAATTACATTTTGACCCCAAAATT
1 TCCAAAAATTACATTTTGACCCCAAAATT
* * *
2856944 T-TAGGAAATGACATTTTGACCCCAAAATT
1 TCCA-AAAATTACATTTTGACCCCAAAATT
2856973 TCCAAAAATTACCATTTT-ACCCC
1 TCCAAAAATTA-CATTTTGACCCC
2856996 CGAACCTTCT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
28 1 0.02
29 35 0.81
30 7 0.16
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (29 bp):
TCCAAAAATTACATTTTGACCCCAAAATT
Found at i:2857009 original size:29 final size:28
Alignment explanation
Indices: 2856975--2857369 Score: 239
Period size: 29 Copynumber: 13.5 Consensus size: 28
2856965 CCAAAATTTC
*
2856975 CAAAAATTACCATTTTACCCCCGAACCTT
1 CAAAAATT-CCATTTTACCCCCGAACTTT
* * *
2857004 CTAAAATTCCATTTTTAACCCTG-A-TTT
1 CAAAAATTCCA-TTTTACCCCCGAACTTT
*
2857031 CACCAAAAATTACCATTTTACCCTCGAACTTT
1 ---CAAAAATT-CCATTTTACCCCCGAACTTT
* *
2857063 CCAAAATTCCATTTTA-ACCCG-A-TTT
1 CAAAAATTCCATTTTACCCCCGAACTTT
*
2857088 CACCAAAAATTACCATTTTACCCCCAAACTTT
1 ---CAAAAATT-CCATTTTACCCCCGAACTTT
* * *
2857120 CCAAAATTCTATTTTTAACCCCG-A-TTT
1 CAAAAATTCCA-TTTTACCCCCGAACTTT
2857147 CACCAAAAATTACCATTTTACCCCCGAACTTT
1 ---CAAAAATT-CCATTTTACCCCCGAACTTT
* * *
2857179 CCAAAATTCCATTTTTAACCCCG-ATTTT
1 CAAAAATTCCA-TTTTACCCCCGAACTTT
* * *
2857207 ACCAAAAATTACTATTTTACACCCGAAATTT
1 --CAAAAATT-CCATTTTACCCCCGAACTTT
* * **
2857238 CTAAAATTCCATTTTTAGCCCCGATTTTAT
1 CAAAAATTCCA-TTTTACCCCCGAACTT-T
** *
2857268 TGAAAATTACCATTTTACCCCCGAACCTT
1 CAAAAATT-CCATTTTACCCCCGAACTTT
* * ***
2857297 CTAAAATTCCATTTTAACCCCGGTTTTAT
1 CAAAAATTCCATTTTACCCCCGAACTT-T
*
2857326 CAAAAATTACCATTTTACCCCTGAACTTT
1 CAAAAATT-CCATTTTACCCCCGAACTTT
*
2857355 CCAAAATTCCATTTT
1 CAAAAATTCCATTTT
2857370 CAATCCTAAT
Statistics
Matches: 280, Mismatches: 55, Indels: 63
0.70 0.14 0.16
Matches are distributed among these distances:
25 3 0.01
26 1 0.00
27 8 0.03
28 52 0.19
29 106 0.38
30 84 0.30
31 17 0.06
32 9 0.03
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.35
Consensus pattern (28 bp):
CAAAAATTCCATTTTACCCCCGAACTTT
Found at i:2857042 original size:59 final size:59
Alignment explanation
Indices: 2856974--2857406 Score: 595
Period size: 59 Copynumber: 7.4 Consensus size: 59
2856964 CCCAAAATTT
* * * *
2856974 CCAAAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCTGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTTA
* *
2857033 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCA-TTTTAA-CCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTTA
* * *
2857090 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCTATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTTA
2857149 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTTA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTTA
* * * * *
2857208 CCAAAAATTACTATTTTACACCCGAAATTTCTAAAATTCCATTTTTAGCCCCGATTTTA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTTA
*** * * *
2857267 TTGAAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCA-TTTTAACCCCGGTTTTA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTTA
* * * * **
2857325 TCAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTCAATCCTAATTTTA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTTA
*
2857384 CC-AAAATTACCATTTTGCCCCCG
1 CCAAAAATTACCATTTTACCCCCG
2857407 GGTATCCAAA
Statistics
Matches: 334, Mismatches: 37, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
57 47 0.14
58 82 0.25
59 205 0.61
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTTA
Found at i:2857126 original size:116 final size:117
Alignment explanation
Indices: 2856974--2857406 Score: 584
Period size: 116 Copynumber: 3.7 Consensus size: 117
2856964 CCCAAAATTT
* * * *
2856974 CCAAAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCTGATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAA
* *
2857039 ATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTAA-CCCGATTTCA
66 ATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAACCCCGATTTTA
*
2857090 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCTATTTTTAACCCCGATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAA
2857155 ATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTTA
66 ATTACCATTTTACCCCCGAACTTTCCAAAATTCCA-TTTTAACCCCGATTTTA
* * * * * ***
2857208 CCAAAAATTACTATTTTACACCCGAAA-TTTCTAAAATTCCATTTTTAGCCCCGATTTTATTGAA
1 CCAAAAATTACCATTTTAC-CCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAA
* * *
2857272 AATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTAACCCCGGTTTTA
65 AATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAACCCCGATTTTA
* ** * * ** *
2857325 TCAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTCAATCCTAATTTTACC-AAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAA
*
2857389 ATTACCATTTTGCCCCCG
66 ATTACCATTTTACCCCCG
2857407 GGTATCCAAA
Statistics
Matches: 281, Mismatches: 32, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
116 119 0.42
117 65 0.23
118 91 0.32
119 6 0.02
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (117 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAA
ATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAACCCCGATTTTA
Found at i:2869852 original size:76 final size:75
Alignment explanation
Indices: 2869494--2870379 Score: 1137
Period size: 76 Copynumber: 12.0 Consensus size: 75
2869484 ACTAGACCGT
* * * *
2869494 AGCAAGATCTTTTCCTGTCCGCTTGAAATTGAAGTAAAG-TGGATAACACGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACA-GTCTTTATCTCTGAA
2869558 ATTGAAGTAAG
65 ATTGAAGTAAG
*
2869569 AGCAAG-----GT-C-ATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACA-GTCTTTATCTCTGAA
2869626 ATTGAAGTAAG
65 ATTGAAGTAAG
*
2869637 AGCAAAATCATTTCCTATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACA-GTCTTTATCTCTGAA
2869701 ATTGAAGTAAG
65 ATTGAAGTAAG
*
2869712 AGCAACG-TCA--T-C--T--GCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGA
1 AGCAA-GATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACA-GTCTTTATCTCTGA
2869769 AATTGAAGTAAG
64 AATTGAAGTAAG
*
2869781 AGCAAGATCATTTCATATCCTCTTGAAATTGAAGTAGAGTTGGATAACGAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAAC-AGTCTTTATCTCTGAA
2869846 ATTGAAGTAAG
65 ATTGAAGTAAG
*
2869857 AGCAAGATCATTTCATATCCTCTTGAAATTGAAGTAGAGTTGGATAACGAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAAC-AGTCTTTATCTCTGAA
2869922 ATTGAAGTAAG
65 ATTGAAGTAAG
* ** *
2869933 AGTAAGATCGCTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACGAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAAC-AGTCTTTATCTCTGAA
2869998 ATTGAAGTAAG
65 ATTGAAGTAAG
*
2870009 AGCAAGATCATTTCATATCCTCTTGAAATTGAAGTAGAGTTGGAT-ACAAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAAC-AGTCTTTATCTCTGAA
2870073 ATTGAAGTAAG
65 ATTGAAGTAAG
* * *
2870084 AGCAAGATCA-TGCCATATCCTCTTGAAATTGAAGTAGAGTTGGATAACGGGTCGTTATCTCTGA
1 AGCAAGATCATTTCC-TATCCTCTTGAAATTGAAGTAGAGTTGGATAAC-AGTCTTTATCTCTGA
*
2870148 AATTGTAGTAAG
64 AATTGAAGTAAG
* *
2870160 AGC-A-A-CA--T-C-ATCCTCTTGAAATTGAAGTAAAGATTGGATAACAAGTCTTTATCTCTAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAG-TTGGATAAC-AGTCTTTATCTCTGA
2870218 AATTGAAGTAAG
64 AATTGAAGTAAG
* * * * * * *
2870230 AGCAAGATCGTTTCCCATCCCCTTGAAATTGAAGTAAAGCTGGGTATTA-AGTCTTTATATCTGA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAG-TTGG-ATAACAGTCTTTATCTCTGA
2870294 AATTGAAGTAAG
64 AATTGAAGTAAG
* * * * *
2870306 AGTAAGATCATTGCCTATCCCCTTGAAATTGAAGTACAGTTGGATAACAAGCCTTTATCT-TGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAAC-AGTCTTTATCTCTGAA
2870370 ATTGAAGTAA
65 ATTGAAGTAA
2870380 AGCTGGGGAT
Statistics
Matches: 730, Mismatches: 50, Indels: 62
0.87 0.06 0.07
Matches are distributed among these distances:
68 80 0.11
69 67 0.09
70 37 0.05
71 3 0.00
72 2 0.00
73 5 0.01
74 8 0.01
75 161 0.22
76 338 0.46
77 26 0.04
78 3 0.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.32
Consensus pattern (75 bp):
AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAGTCTTTATCTCTGAAA
TTGAAGTAAG
Found at i:2870149 original size:38 final size:37
Alignment explanation
Indices: 2869517--2870416 Score: 355
Period size: 38 Copynumber: 24.4 Consensus size: 37
2869507 CCTGTCCGCT
* *
2869517 TGAAATTGAAGTAAAG-TGGATAACACGTCTTTATCTC
1 TGAAATTGAAGTAGAGTTGGAT-ACAAGTCTTTATCTC
* * **
2869554 TGAAATTGAAGTA-A----GA-GCAAGGTCATCCTCT-
1 TGAAATTGAAGTAGAGTTGGATACAA-GTCTTTATCTC
*
2869585 TGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTC
1 TGAAATTGAAGTAGAGTTGGAT-ACAAGTCTTTATCTC
**** ** *
2869622 TGAAATTGAAGTAAGAGCAAAAT-CATTTC-CTATCCTC
1 TGAAATTGAAGT-AGAGTTGGATACAAGTCTTTAT-CTC
*
2869659 TTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTC
1 -TGAAATTGAAGTAGAGTTGGAT-ACAAGTCTTTATCTC
* *
2869697 TGAAATTGAAGTA-AG-AGCA-AC--GTC---ATCTGC
1 TGAAATTGAAGTAGAGTTGGATACAAGTCTTTATCT-C
*
2869727 TTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTC
1 -TGAAATTGAAGTAGAGTTGGAT-ACAAGTCTTTATCTC
*** ** *
2869766 TGAAATTGAAGTAAGAGCAAGAT-CATTTC-ATATCCTC
1 TGAAATTGAAGT-AGAGTTGGATACAAGTCTTTAT-CTC
*
2869803 TTGAAATTGAAGTAGAGTTGGATAACGAGTCTTTATCTC
1 -TGAAATTGAAGTAGAGTTGGAT-ACAAGTCTTTATCTC
*** ** *
2869842 TGAAATTGAAGTAAGAGCAAGAT-CATTTC-ATATCCTC
1 TGAAATTGAAGT-AGAGTTGGATACAAGTCTTTAT-CTC
*
2869879 TTGAAATTGAAGTAGAGTTGGATAACGAGTCTTTATCTC
1 -TGAAATTGAAGTAGAGTTGGAT-ACAAGTCTTTATCTC
**
2869918 TGAAATTGAAGTAAGAGTAAGAT-C--G-CTTCCTATCCTC
1 TGAAATTGAAGT-AGAGTTGGATACAAGTCTT--TAT-CTC
* *
2869955 TTGAAATTGAAGTAAAGTTGGATAACGAGTCTTTATCTC
1 -TGAAATTGAAGTAGAGTTGGAT-ACAAGTCTTTATCTC
*** ** *
2869994 TGAAATTGAAGTAAGAGCAAGAT-CATTTC-ATATCCTC
1 TGAAATTGAAGT-AGAGTTGGATACAAGTCTTTAT-CTC
2870031 TTGAAATTGAAGTAGAGTTGGATACAAGTCTTTATCTC
1 -TGAAATTGAAGTAGAGTTGGATACAAGTCTTTATCTC
*** * **
2870069 TGAAATTGAAGTAAGAGCAAGAT-CATG-CCATATCCTC
1 TGAAATTGAAGT-AGAGTTGGATACAAGTCTTTAT-CTC
** *
2870106 TTGAAATTGAAGTAGAGTTGGATAACGGGTCGTTATCTC
1 -TGAAATTGAAGTAGAGTTGGAT-ACAAGTCTTTATCTC
* * * * **
2870145 TGAAATTGTAGTA-AG-AGCA-AC-A-TCATCCTCT-
1 TGAAATTGAAGTAGAGTTGGATACAAGTCTTTATCTC
*
2870176 TGAAATTGAAGTAAAGATTGGATAACAAGTCTTTATCTC
1 TGAAATTGAAGTAGAG-TTGGAT-ACAAGTCTTTATCTC
* *** * *
2870215 TAAAATTGAAGTAAGAGCAAGAT-C--GT-TTCCCATCCCC
1 TGAAATTGAAGT-AGAGTTGGATACAAGTCTT--TAT-CTC
* * * * *
2870252 TTGAAATTGAAGTAAAGCTGGGTATTAAGTCTTTATATC
1 -TGAAATTGAAGTAGAGTTGGATA-CAAGTCTTTATCTC
** * * *
2870291 TGAAATTGAAGTAAGAGTAAGAT-C-ATTGC-CTATCCCC
1 TGAAATTGAAGT-AGAGTTGGATACAAGT-CTTTAT-CTC
* *
2870328 TTGAAATTGAAGTACAGTTGGATAACAAGCCTTTATCT-
1 -TGAAATTGAAGTAGAGTTGGAT-ACAAGTCTTTATCTC
* *
2870366 TGAAATTGAAGTAAAGCTGGGGAT-CAAGTCTTTATCTC
1 TGAAATTGAAGTAGAG-T-TGGATACAAGTCTTTATCTC
2870404 TGAAATTGAAGTA
1 TGAAATTGAAGTA
2870417 AGAGCAAGAT
Statistics
Matches: 641, Mismatches: 134, Indels: 175
0.67 0.14 0.18
Matches are distributed among these distances:
29 4 0.01
30 1 0.00
31 40 0.06
32 21 0.03
33 4 0.01
34 11 0.02
35 7 0.01
36 44 0.07
37 178 0.28
38 212 0.33
39 85 0.13
40 26 0.04
41 3 0.00
42 5 0.01
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (37 bp):
TGAAATTGAAGTAGAGTTGGATACAAGTCTTTATCTC
Found at i:2870416 original size:297 final size:295
Alignment explanation
Indices: 2869515--2870379 Score: 1216
Period size: 297 Copynumber: 2.9 Consensus size: 295
2869505 TTCCTGTCCG
* **
2869515 CTTGAAATTGAAGTAAAG-TGGATAAC-ACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGGTC
1 CTTGAAATTGAAGTAGAGTTGGATAACGA-GTCTTTATCTCTGAAATTGAAGTAAGAGCAACATC
* *
2869578 ATCCTCTTGAAATTGAAGT-AGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
65 ATCCTCTTGAAATTGAAGTAAGATTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
* * * *
2869642 AATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAA
130 GATCGTTTCCTATCCTCTTGAAATTGAAGTAAAGTGGATAACAAGTCTTTATCTCTGAAATTGAA
* *
2869707 GTAAGAGCAACG-TCA-T-C--T--GCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCT
195 GTAAGAGCAA-GATCATTCCTATCCCCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCT
*
2869765 CTGAAATTGAAGTAAGAGCAAGATCATTTCATATCCT
259 CTGAAATTGAAGTAAGAGCAAGATCATGTCATATCCT
2869802 CTTGAAATTGAAGTAGAGTTGGATAACGAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCA
1 CTTGAAATTGAAGTAGAGTTGGATAACGAGTCTTTATCTCTGAAATTGAAGTAAGAGC-A-A-CA
*
2869867 TTTCATATCCTCTTGAAATTGAAGT-AGAGTTGGATAACGAGTCTTTATCTCTGAAATTGAAGTA
63 --TC--ATCCTCTTGAAATTGAAGTAAGA-TTGGATAACAAGTCTTTATCTCTGAAATTGAAGTA
* * *
2869931 AGAGTAAGATCGCTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACGAGTCTTTATCTCTG
123 AGAGCAAGATCGTTTCCTATCCTCTTGAAATTGAAGTAAAG-TGGATAACAAGTCTTTATCTCTG
* *
2869996 AAATTGAAGTAAGAGCAAGATCATTTCATATCCTCTTGAAATTGAAGTAGAGTTGGAT-ACAAGT
187 AAATTGAAGTAAGAGCAAGATCA-TTCCTATCCCCTTGAAATTGAAGTAGAGTTGGATAACAAGT
*
2870060 CTTTATCTCTGAAATTGAAGTAAGAGCAAGATCATGCCATATCCT
251 CTTTATCTCTGAAATTGAAGTAAGAGCAAGATCATGTCATATCCT
* * *
2870105 CTTGAAATTGAAGTAGAGTTGGATAACGGGTCGTTATCTCTGAAATTGTAGTAAGAGCAACATCA
1 CTTGAAATTGAAGTAGAGTTGGATAACGAGTCTTTATCTCTGAAATTGAAGTAAGAGCAACATCA
*
2870170 TCCTCTTGAAATTGAAGTAAAGATTGGATAACAAGTCTTTATCTCTAAAATTGAAGTAAGAGCAA
66 TCCTCTTGAAATTGAAGT-AAGATTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
* * * ** *
2870235 GATCGTTTCCCATCCCCTTGAAATTGAAGTAAAGCTGGGTATTAAGTCTTTATATCTGAAATTGA
130 GATCGTTTCCTATCCTCTTGAAATTGAAGTAAAG-TGGATAACAAGTCTTTATCTCTGAAATTGA
* * *
2870300 AGTAAGAGTAAGATCATTGCCTATCCCCTTGAAATTGAAGTACAGTTGGATAACAAGCCTTTATC
194 AGTAAGAGCAAGATCATT-CCTATCCCCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATC
2870365 T-TGAAATTGAAGTAA
258 TCTGAAATTGAAGTAA
2870380 AGCTGGGGAT
Statistics
Matches: 517, Mismatches: 38, Indels: 36
0.87 0.06 0.06
Matches are distributed among these distances:
287 17 0.03
288 37 0.07
289 2 0.00
290 1 0.00
293 2 0.00
295 22 0.04
296 90 0.17
297 195 0.38
298 18 0.03
299 1 0.00
300 2 0.00
301 1 0.00
302 2 0.00
303 103 0.20
304 24 0.05
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (295 bp):
CTTGAAATTGAAGTAGAGTTGGATAACGAGTCTTTATCTCTGAAATTGAAGTAAGAGCAACATCA
TCCTCTTGAAATTGAAGTAAGATTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
ATCGTTTCCTATCCTCTTGAAATTGAAGTAAAGTGGATAACAAGTCTTTATCTCTGAAATTGAAG
TAAGAGCAAGATCATTCCTATCCCCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCT
GAAATTGAAGTAAGAGCAAGATCATGTCATATCCT
Found at i:2870722 original size:17 final size:16
Alignment explanation
Indices: 2870702--2870793 Score: 73
Period size: 17 Copynumber: 5.6 Consensus size: 16
2870692 TAAGTTTAAA
2870702 TTAATTTTAAATTTTAT
1 TTAA-TTTAAATTTTAT
* *
2870719 TTAAATTTAAATCTATCT
1 TT-AATTTAAAT-TTTAT
*
2870737 TTAATTTGAA-TTTAT
1 TTAATTTAAATTTTAT
2870752 TT-ATTTAAA-TTTATT
1 TTAATTTAAATTTTA-T
*
2870767 TTAAATTTAAATTTAAT
1 TT-AATTTAAATTTTAT
*
2870784 TAAATTTAAA
1 TTAATTTAAA
2870794 AATGATATTA
Statistics
Matches: 61, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
14 10 0.16
15 8 0.13
16 8 0.13
17 25 0.41
18 10 0.16
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (16 bp):
TTAATTTAAATTTTAT
Found at i:2870727 original size:6 final size:6
Alignment explanation
Indices: 2870690--2870793 Score: 67
Period size: 6 Copynumber: 18.0 Consensus size: 6
2870680 ATTTTGATTT
* * * * **
2870690 TTTAAG TTTAAA -TTAAT TTTAAA TTT-TA TTTAAA TTTAAA TCTATC
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
2870736 TTT-AA TTTGAA TTTATTTA TTTAAA TTT-AT TTTAAA TTTAAA TTT-AA
1 TTTAAA TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
2870783 -TTAAA TTTAAA
1 TTTAAA TTTAAA
2870794 AATGATATTA
Statistics
Matches: 74, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
4 2 0.03
5 19 0.26
6 48 0.65
8 5 0.07
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:2870761 original size:31 final size:32
Alignment explanation
Indices: 2870702--2870793 Score: 98
Period size: 31 Copynumber: 2.8 Consensus size: 32
2870692 TAAGTTTAAA
*
2870702 TTAATTTTAAATTTTATTTAAATTTAAATCTATCT
1 TTAAATTTAAA-TTTATTT-AATTTAAATCTAT-T
* *
2870737 TT-AATTTGAATTTATTT-ATTTAAATTTATT
1 TTAAATTTAAATTTATTTAATTTAAATCTATT
*
2870767 TTAAATTTAAATTTAATTAAATTTAAA
1 TTAAATTTAAATTT-ATTTAATTTAAA
2870794 AATGATATTA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
30 3 0.06
31 21 0.43
32 3 0.06
33 14 0.29
34 6 0.12
35 2 0.04
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (32 bp):
TTAAATTTAAATTTATTTAATTTAAATCTATT
Found at i:2872868 original size:59 final size:59
Alignment explanation
Indices: 2872802--2873170 Score: 481
Period size: 59 Copynumber: 6.3 Consensus size: 59
2872792 CCCGAAATTT
* * *
2872802 CCAAAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCTCGATTTTA
1 CCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCA
*** * *
2872861 CCAAAAATTACCATTTTACCCTTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * *
2872920 CCAAAAATTACCATTTTACTCCCAAACTTTCCAAAATTCCA-TTTTAACCCCAATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * * *
2872978 CCAAAAATTACCATTTTACCCTCGAACTTTTCAAAATTCTATTTTTAACCCTGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCA
** * *
2873037 CCAAAAATTACCATTTTACCCCCGAACCTTTTAAAATTTCATTTTTAACCCCGATTTTA
1 CCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * * * *
2873096 TCAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTCAATCCCGATTTTA
1 CCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCA
2873155 CC-AAAATTACCATTTT
1 CCAAAAATTACCATTTT
2873171 TCCCTCAGGT
Statistics
Matches: 275, Mismatches: 34, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
58 67 0.24
59 208 0.76
ACGTcount: A:0.34, C:0.28, G:0.02, T:0.36
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:2872995 original size:117 final size:118
Alignment explanation
Indices: 2872802--2873170 Score: 528
Period size: 117 Copynumber: 3.1 Consensus size: 118
2872792 CCCGAAATTT
* * *
2872802 CCAAAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCTCGATTTTACCAAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTTTACCAAAA
* *
2872867 ATTACCATTTTACCCTTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
66 ATTACCATTTTACCCTTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * *
2872920 CCAAAAATTACCATTTTACTCCCAAACTTTCCAAAATTCCA-TTTTAACCCCAATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTTTACCAAAA
* * * *
2872984 ATTACCATTTTACCCTCGAACTTTTCAAAATTCTATTTTTAACCCTGATTTCA
66 ATTACCATTTTACCCTTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * *
2873037 CCAAAAATTACCATTTTACCCCCGAACCTTT-TAAAATTTCATTTTTAACCCCGATTTTATCAAA
1 CCAAAAATTACCATTTTACCCCC-AAACTTTCTAAAATTCCATTTTTAACCCCGATTTTACCAAA
* * * *
2873101 AATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTCAATCCCGATTTTA
65 AATTACCATTTTACCCTTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
2873155 CC-AAAATTACCATTTT
1 CCAAAAATTACCATTTT
2873171 TCCCTCAGGT
Statistics
Matches: 221, Mismatches: 28, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
117 111 0.50
118 110 0.50
ACGTcount: A:0.34, C:0.28, G:0.02, T:0.36
Consensus pattern (118 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTTTACCAAAA
ATTACCATTTTACCCTTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:2873042 original size:176 final size:175
Alignment explanation
Indices: 2872777--2873176 Score: 515
Period size: 176 Copynumber: 2.3 Consensus size: 175
2872767 AAATTTTAGG
* * *
2872777 AAATTACATTTTGACCCCGAAATTT-CCAAAAATTACCATTTTACCCCCGAACCTTCTAAAATTC
1 AAATTCCATTTTAACCCC--AATTTACCAAAAATTACCATTTTACCCTCGAACCTTCTAAAATTC
* **
2872841 CATTTTTAACCTCGATTTTACCAAAAATTACCATTTTA-CCCTTAAACTTTCCAAAATTCCATTT
64 CATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCCGAAACTTT-CAAAATTCCATTT
2872905 TTAACCCCAATTTCACCAAAAATTACCATTTTACTCCC-AAACTTTCCA
128 TTAACCCCAATTTCACCAAAAATTACCATTTTAC-CCCTAAACTTTCCA
*
2872953 AAATTCCATTTTAACCCCAATTTCACCAAAAATTACCATTTTACCCTCGAA-CTTTTCAAAATTC
1 AAATTCCATTTTAACCCCAATTT-ACCAAAAATTACCATTTTACCCTCGAACCTTCT-AAAATTC
* * * *
2873017 TATTTTTAACC-CTGATTTCACCAAAAATTACCATTTTACCCCCGAACCTTTTAAAATTTCATTT
64 CATTTTTAACCTC-GATTTCACCAAAAATTACCATTTTACCCCCGAAACTTTCAAAATTCCATTT
* * * *
2873081 TTAACCCCGATTTTATCAAAAATTACCATTTTACCCCTGAACTTTCCA
128 TTAACCCCAATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCA
* * *
2873129 AAATTCCATTTTCAATCCCGATTTTACC-AAAATTACCATTTTTCCCTC
1 AAATTCCATTTT-AA-CCCCAATTTACCAAAAATTACCATTTTACCCTC
2873177 AGGTATCCAA
Statistics
Matches: 198, Mismatches: 18, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
174 5 0.03
175 8 0.04
176 164 0.83
177 14 0.07
178 7 0.04
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (175 bp):
AAATTCCATTTTAACCCCAATTTACCAAAAATTACCATTTTACCCTCGAACCTTCTAAAATTCCA
TTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCCGAAACTTTCAAAATTCCATTTTTA
ACCCCAATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCA
Found at i:2873199 original size:58 final size:59
Alignment explanation
Indices: 2872803--2873215 Score: 281
Period size: 59 Copynumber: 7.0 Consensus size: 59
2872793 CCGAAATTTC
* * * *
2872803 CAAAAATTACCATTTTACCCC-CGAACCT-TCTAAAATTCCATTTTTAA-CCTCGATTTTAC
1 CAAAAATTACCATTTTACCCCTC-AA-CTATCCAAAAGTCCATTTTCAATCC-CGATTTTAT
* * * * * * * * *
2872862 CAAAAATTACCATTTTACCCTTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCAC
1 CAAAAATTACCATTTTACCCCTCAACTATCCAAAAGTCCATTTTCAATCCCGATTTTAT
* * * * * * *
2872921 CAAAAATTACCATTTTACTCCC-AAACTTTCCAAAATTCCATTTT-AACCCCAATTTCAC
1 CAAAAATTACCATTTTAC-CCCTCAACTATCCAAAAGTCCATTTTCAATCCCGATTTTAT
* * * * * * *
2872979 CAAAAATTACCATTTTA-CCCTCGAACTTTTCAAAATTCTATTTTTAA-CCCTGATTTCAC
1 CAAAAATTACCATTTTACCCCTC-AACTATCCAAAAGTCCATTTTCAATCCC-GATTTTAT
** * * * *
2873038 CAAAAATTACCATTTTACCCC-CGAACCT-TTTAAAATTTCATTTTTAACCCCGATTTTAT
1 CAAAAATTACCATTTTACCCCTC-AA-CTATCCAAAAGTCCATTTTCAATCCCGATTTTAT
* * *
2873097 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTCAATCCCGATTTTA-
1 CAAAAATTACCATTTTACCCCTCAACTATCCAAAAGTCCATTTTCAATCCCGATTTTAT
* * ** * * *
2873155 CCAAAATTACCATTTT-TCCCTCAGGTATCCAAAAGTCTCGTTTTCACTCCCGATTTCAT
1 CAAAAATTACCATTTTACCCCTCAACTATCCAAAAGTC-CATTTTCAATCCCGATTTTAT
2873214 CA
1 CA
2873216 TTTCTTCTTC
Statistics
Matches: 307, Mismatches: 32, Indels: 30
0.83 0.09 0.08
Matches are distributed among these distances:
56 3 0.01
57 15 0.05
58 89 0.29
59 188 0.61
60 12 0.04
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.36
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCCTCAACTATCCAAAAGTCCATTTTCAATCCCGATTTTAT
Found at i:2875504 original size:35 final size:35
Alignment explanation
Indices: 2875458--2875526 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
2875448 ATCATATAAT
2875458 AAGATATACAAGCATTTTAGACAATATTAAATGAC
1 AAGATATACAAGCATTTTAGACAATATTAAATGAC
2875493 AAGATATACAAGCATTTTAGACAATATTAAATGA
1 AAGATATACAAGCATTTTAGACAATATTAAATGA
2875527 TAGAATGAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (35 bp):
AAGATATACAAGCATTTTAGACAATATTAAATGAC
Found at i:2877067 original size:145 final size:146
Alignment explanation
Indices: 2876745--2877068 Score: 388
Period size: 145 Copynumber: 2.2 Consensus size: 146
2876735 TTTTGGATAC
2876745 CCGGGGGCAAAATGGTAATTTTA-GACTCTCGAGGGCAAAATGATAATTTTGGGAAAATTTAGGG
1 CCGGGGGCAAAATGGTAATTTTAGGACTCTCGAGGGCAAAATGATAATTTTGGGAAAATTTAGGG
* * * * * * * *
2876809 TTAGAAATGACATTTTAGATATTCGAGGGTAAAACGGTAGTTTTTAGCAGAAACGGGATCAAAAA
66 TTAAAAATAACATTTTAGACAATCGAGGGTAAAACAGTAATTTTTAGCAGAAACGAGATAAAAAA
*
2876874 CGGGACTTTTTGGATG
131 CGGGACTTTTTGGACG
*** * * * * *
2876890 CCTAAGGCAAAATGGTAATTTT-GGACTCTCGAGGGTAGAATGGTAGTTTTGGGAAAATTTGGGG
1 CCGGGGGCAAAATGGTAATTTTAGGACTCTCGAGGGCAAAATGATAATTTTGGGAAAATTTAGGG
* *
2876954 TTAAAAATAATATTTTAGACAATCGAGGGTAAAATAGTAATTTTTAG-A-AAATCGAGATAAAAA
66 TTAAAAATAACATTTTAGACAATCGAGGGTAAAACAGTAATTTTTAGCAGAAA-CGAGATAAAAA
*
2877017 ATGGGA-TTTTTGGACG
130 ACGGGACTTTTTGGACG
* * *
2877033 TCCGGGGGTAAAATGGTAATTTTAGGAGTTTCGAGG
1 -CCGGGGGCAAAATGGTAATTTTAGGACTCTCGAGG
2877069 TCAATATTGG
Statistics
Matches: 149, Mismatches: 26, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
143 12 0.08
144 33 0.22
145 104 0.70
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (146 bp):
CCGGGGGCAAAATGGTAATTTTAGGACTCTCGAGGGCAAAATGATAATTTTGGGAAAATTTAGGG
TTAAAAATAACATTTTAGACAATCGAGGGTAAAACAGTAATTTTTAGCAGAAACGAGATAAAAAA
CGGGACTTTTTGGACG
Found at i:2877141 original size:58 final size:58
Alignment explanation
Indices: 2877079--2877379 Score: 236
Period size: 58 Copynumber: 5.1 Consensus size: 58
2877069 TCAATATTGG
* *
2877079 AATTTTTGGAAGTTCGGGGTCAAAAATGAAATTTTTGGAAGTTTGGGGGAAAAAATGT
1 AATTTTTAGAAGTTCGGGGTCAAAAATGAAATTTTTGGAAGTTTGGGGGCAAAAATGT
* * * *
2877137 AA-TTTTAAAAGTTACGGGATTAAAAATGGAAA-TTTTGGAAGTTTGGGGGTAAAAATGT
1 AATTTTTAGAAGTT-CGGGGTCAAAAAT-GAAATTTTTGGAAGTTTGGGGGCAAAAATGT
** * * * *
2877195 AATTTTTAGAAGTTTTGGGTCAAAAATGGAAATTTTT-GTAGTTTGAGGCCAAAAATAT
1 AATTTTTAGAAGTTCGGGGTCAAAAAT-GAAATTTTTGGAAGTTTGGGGGCAAAAATGT
* *** * * * * *
2877253 AATTTTTGGAAGTTTTAAGGTTAAAAAT-ATAATTTTTGGGAAGTTTTAGTGTCAAAAATGG
1 AATTTTTAGAAG-TTCGGGGTCAAAAATGA-AATTTTT-GGAAG-TTTGGGGGCAAAAATGT
* * * * *
2877314 AATTTTT-GAATGTTCGAAGG-AAAAAATGTAATTTTTGAAAGTTTTAGGGGCAAAAATGT
1 AATTTTTAGAA-GTTCG-GGGTCAAAAATGAAATTTTTGGAAG-TTTGGGGGCAAAAATGT
2877373 AATTTTT
1 AATTTTT
2877380 TAAAGTTTTA
Statistics
Matches: 197, Mismatches: 34, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
57 10 0.05
58 88 0.45
59 56 0.28
60 21 0.11
61 22 0.11
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (58 bp):
AATTTTTAGAAGTTCGGGGTCAAAAATGAAATTTTTGGAAGTTTGGGGGCAAAAATGT
Found at i:2877298 original size:31 final size:30
Alignment explanation
Indices: 2877042--2877408 Score: 184
Period size: 29 Copynumber: 12.4 Consensus size: 30
2877032 GTCCGGGGGT
* **
2877042 AAAATGGTAATTTTAGG-AGTTTCGAGGTCA
1 AAAAT-GTAATTTTTGGAAGTTTTAAGGTCA
* * * ***
2877072 ATATTGGAATTTTTGGAAG-TTCGGGGTCA
1 AAAATGTAATTTTTGGAAGTTTTAAGGTCA
* ** **
2877101 AAAATGAAATTTTTGGAAG-TTTGGGGGAA
1 AAAATGTAATTTTTGGAAGTTTTAAGGTCA
** * *
2877130 AAAATGTAA-TTTTAAAAG--TTACGGGATTA
1 AAAATGTAATTTTTGGAAGTTTTA-AGG-TCA
* * ***
2877159 AAAATGGAAATTTTGGAAGTTTGGGGGT-A
1 AAAATGTAATTTTTGGAAGTTTTAAGGTCA
* *
2877188 AAAATGTAATTTTTAGAAGTTTT-GGGTCA
1 AAAATGTAATTTTTGGAAGTTTTAAGGTCA
* * * *
2877217 AAAATGGAAATTTTT-GTAG-TTTGAGGCCA
1 AAAAT-GTAATTTTTGGAAGTTTTAAGGTCA
* *
2877246 AAAATATAATTTTTGGAAGTTTTAAGGTTA
1 AAAATGTAATTTTTGGAAGTTTTAAGGTCA
*
2877276 AAAATATAATTTTTGGGAAGTTTT-AGTGTCA
1 AAAATGTAATTTTT-GGAAGTTTTAAG-GTCA
* ** *
2877307 AAAATGGAATTTTT-GAATGTTCGAAGG-AA
1 AAAATGTAATTTTTGGAA-GTTTTAAGGTCA
* * *
2877336 AAAATGTAATTTTTGAAAGTTTTAGGGGCA
1 AAAATGTAATTTTTGGAAGTTTTAAGGTCA
** * * *
2877366 AAAATGTAATTTTTTAAAGTTTTACGATTA
1 AAAATGTAATTTTTGGAAGTTTTAAGGTCA
2877396 AAAATGTAATTTT
1 AAAATGTAATTTT
2877409 GGGGATGTTC
Statistics
Matches: 267, Mismatches: 53, Indels: 34
0.75 0.15 0.10
Matches are distributed among these distances:
27 2 0.01
28 24 0.09
29 122 0.46
30 89 0.33
31 29 0.11
32 1 0.00
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (30 bp):
AAAATGTAATTTTTGGAAGTTTTAAGGTCA
Found at i:2877430 original size:90 final size:90
Alignment explanation
Indices: 2877187--2877420 Score: 212
Period size: 90 Copynumber: 2.6 Consensus size: 90
2877177 GTTTGGGGGT
* * * * * * *
2877187 AAAAATGTAATTTTTAG-AAGTTTT-GGGTCAAAAATGGAAATTTTTGTA-GTTTG-AGGCCAAA
1 AAAAATATAATTTTTGGAAAGTTTTAGTGTCAAAAATGG-AATTTTGGAATGTTCGAAGG-AAAA
* **
2877248 AATATAATTTTTGGAAGTTTTAAGGTT
64 AATATAATTTTTGAAAGTTTTAAGGGC
* *
2877275 AAAAATATAATTTTTGGGAAGTTTTAGTGTCAAAAATGGAATTTTTGAATGTTCGAAGGAAAAAA
1 AAAAATATAATTTTTGGAAAGTTTTAGTGTCAAAAATGGAATTTTGGAATGTTCGAAGGAAAAAA
* *
2877340 TGTAATTTTTGAAAGTTTTAGGGGC
66 TATAATTTTTGAAAGTTTTAAGGGC
* * * *
2877365 AAAAATGTAATTTTT-TAAAGTTTTACGAT-T-AAAAATGTAATTTTGGGGATGTTCGA
1 AAAAATATAATTTTTGGAAAGTTTTA-G-TGTCAAAAATGGAATTTT-GGAATGTTCGA
2877421 GGGTCAAAAT
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
88 15 0.12
89 37 0.30
90 66 0.54
91 4 0.03
ACGTcount: A:0.37, C:0.03, G:0.21, T:0.39
Consensus pattern (90 bp):
AAAAATATAATTTTTGGAAAGTTTTAGTGTCAAAAATGGAATTTTGGAATGTTCGAAGGAAAAAA
TATAATTTTTGAAAGTTTTAAGGGC
Found at i:2879480 original size:6 final size:6
Alignment explanation
Indices: 2879469--2879520 Score: 63
Period size: 6 Copynumber: 9.0 Consensus size: 6
2879459 TTTAATCAAT
* *
2879469 TTTAAA TTTAAA TTCAAA -TTAAA TTTAAA CTT-AA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
2879515 CTTAAA
1 TTTAAA
2879521 AGAAAATTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
5 8 0.21
6 31 0.79
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:2879492 original size:17 final size:17
Alignment explanation
Indices: 2879470--2879520 Score: 77
Period size: 17 Copynumber: 3.0 Consensus size: 17
2879460 TTAATCAATT
2879470 TTAAATTTAAA-TTCAAA
1 TTAAATTTAAACTT-AAA
*
2879487 TTAAATTTAAACTTAAT
1 TTAAATTTAAACTTAAA
2879504 TTAAATTTAAACTTAAA
1 TTAAATTTAAACTTAAA
2879521 AGAAAATTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 29 0.94
18 2 0.06
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAAATTTAAACTTAAA
Found at i:2879556 original size:25 final size:25
Alignment explanation
Indices: 2879523--2879603 Score: 144
Period size: 25 Copynumber: 3.2 Consensus size: 25
2879513 AACTTAAAAG
*
2879523 AAAATTTCAATCATGAATTAAAATT
1 AAAAATTCAATCATGAATTAAAATT
2879548 AAAAATTCAATCATGAATTAAAATT
1 AAAAATTCAATCATGAATTAAAATT
2879573 AAAAATTCAATCATGAATTAAAATTT
1 AAAAATTCAATCATGAATTAAAA-TT
2879599 AAAAA
1 AAAAA
2879604 ATTAATAGTT
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
25 47 0.87
26 7 0.13
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.32
Consensus pattern (25 bp):
AAAAATTCAATCATGAATTAAAATT
Found at i:2880272 original size:92 final size:92
Alignment explanation
Indices: 2880175--2880956 Score: 1386
Period size: 92 Copynumber: 8.5 Consensus size: 92
2880165 ATTTGGTATC
* * *
2880175 GAAGCTTTATCTTGCTATTACTACAACTTCAGAGAGATAAAGACTTGTTATCCAACTTTACTACA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
2880240 ACTTCAAGAGGATAGGAATTGATGTTT
66 ACTTCAAGAGGATAGGAATTGATGTTT
2880267 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
*
2880332 ACTTCAAGAGGATAGGAGTTGATGTTT
66 ACTTCAAGAGGATAGGAATTGATGTTT
* *
2880359 GAAGTTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAAACTTGCTATCCAACTTTACTACA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
2880424 ACTTCAAGAGGATAGGAATTGATGTTT
66 ACTTCAAGAGGATAGGAATTGATGTTT
2880451 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
*
2880516 ACTTCAAGAGGATAGAAATTGATGTTT
66 ACTTCAAGAGGATAGGAATTGATGTTT
*
2880543 GAAACTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
2880608 ACTTCAAGAGGATAGGAATTGATGTTT
66 ACTTCAAGAGGATAGGAATTGATGTTT
2880635 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
2880700 ACTTCAAGAGGATAGGAATTGATGTTT
66 ACTTCAAGAGGATAGGAATTGATGTTT
* *
2880727 GAAGATTCATCTTGCTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
*
2880792 ACTTCACGAGGATAGGAATTGATGTTT
66 ACTTCAAGAGGATAGGAATTGATGTTT
* * * *
2880819 GAAACTTCATTTTGCTCTTACTATAACTTCAGAGAGATAAAGACTTACTATCCAACTTTACTACA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
* *
2880884 ACTTTAAAAGGATAGGAATTGATGTTT
66 ACTTCAAGAGGATAGGAATTGATGTTT
*
2880911 GAAGCTTCATCTTGCTCTTACTACAACTTCAAAGAGATGAAA-ACTT
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGAT-AAAGACTT
2880957 TTCCCTTTTG
Statistics
Matches: 660, Mismatches: 29, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
92 657 1.00
93 3 0.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (92 bp):
GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
ACTTCAAGAGGATAGGAATTGATGTTT
Found at i:2881091 original size:50 final size:51
Alignment explanation
Indices: 2880956--2881115 Score: 166
Period size: 51 Copynumber: 3.2 Consensus size: 51
2880946 GATGAAAACT
* *
2880956 TTTCCCTTTTGTCTTTTTGCGGTACTGGATCCGCCGTTGCAGTCTTAGATC
1 TTTCCCTTTTGTCTTTTTACGGTATTGGATCCGCCGTTGCAGTCTTAGATC
** * * * * *
2881007 TTTCCCATCGTGTC-TTCTAAGGTACATT-G-CCCGCCGTTGC-GACTTAGACC
1 TTTCCC-TTTTGTCTTTTTACGGT--ATTGGATCCGCCGTTGCAGTCTTAGATC
* *
2881057 TTTCCCTTTTGTCTTTTTTCGGTATTGGATCCGCCGTTGCGGTCTTAGATC
1 TTTCCCTTTTGTCTTTTTACGGTATTGGATCCGCCGTTGCAGTCTTAGATC
2881108 TTTCCCTT
1 TTTCCCTT
2881116 CATGTCTTCA
Statistics
Matches: 85, Mismatches: 17, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
48 3 0.04
49 6 0.07
50 30 0.35
51 38 0.45
52 6 0.07
53 2 0.02
ACGTcount: A:0.11, C:0.28, G:0.20, T:0.42
Consensus pattern (51 bp):
TTTCCCTTTTGTCTTTTTACGGTATTGGATCCGCCGTTGCAGTCTTAGATC
Found at i:2881136 original size:50 final size:50
Alignment explanation
Indices: 2880976--2881173 Score: 172
Period size: 50 Copynumber: 4.0 Consensus size: 50
2880966 GTCTTTTTGC
* * * *
2880976 GGTACTGGATCCGCCGTTGCAGTCTTAGATCTTTCCCATCGTGTCTTCTAA
1 GGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCTTCTTGTCTTC-AT
* * * * **
2881027 GGTACATTG-CCCGCCGTTGC-GACTTAGACCTTTCCCTT-TTGTCTTTTTT
1 GGTAC-TGGATCCGCCGTTGCGGTCTTAGATCTTTCCCTTCTTGTC-TTCAT
* *
2881076 CGGTATTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCTTCATGTCTTCAT
1 -GGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCTTCTTGTCTTCAT
* * * *
2881127 GGTACTGGATTCGCCATTGCGG-CTCA-AGTTTTTCCCTTCTTGTCTTC
1 GGTACTGGATCCGCCGTTGCGGTCTTAGA-TCTTTCCCTTCTTGTCTTC
2881174 TGAGGTACGC
Statistics
Matches: 117, Mismatches: 23, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
48 1 0.01
49 26 0.22
50 50 0.43
51 34 0.29
52 6 0.05
ACGTcount: A:0.12, C:0.28, G:0.21, T:0.39
Consensus pattern (50 bp):
GGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCTTCTTGTCTTCAT
Found at i:2881170 original size:101 final size:101
Alignment explanation
Indices: 2880953--2881172 Score: 266
Period size: 101 Copynumber: 2.2 Consensus size: 101
2880943 AGAGATGAAA
*
2880953 ACTTTTCCCTTTTGTCTTTTTGCGGTACTGGATCCGCCGTTGCAGTCTTAGATCTTTCCCATCGT
1 ACTTTTCCCTTTTGTCTTTTTGCGGTACTGGATCCGCCGTTGCAGTCTTAGATCTTTCCCATCAT
* * *
2881018 GTCTTCTAAGGTACATTGCCCGCCGTTGCGACTTAG
66 GTCTTCTAAGGTACATGGCCCGCCATTGCGACTAAG
* * * * *
2881054 ACCTTTCCCTTTTGTCTTTTTTCGGTATTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCTTCAT
1 ACTTTTCCCTTTTGTCTTTTTGCGGTACTGGATCCGCCGTTGCAGTCTTAGATCTTTCCCATCAT
* ** *
2881119 GTCTTC-ATGGTAC-TGGATTCGCCATTGCGGCTCAAG
66 GTCTTCTAAGGTACATGG-CCCGCCATTGCGACT-AAG
*
2881155 -TTTTTCCCTTCTTGTCTT
1 ACTTTTCCCTT-TTGTCTT
2881173 CTGAGGTACG
Statistics
Matches: 101, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
99 2 0.02
100 25 0.25
101 74 0.73
ACGTcount: A:0.11, C:0.27, G:0.20, T:0.42
Consensus pattern (101 bp):
ACTTTTCCCTTTTGTCTTTTTGCGGTACTGGATCCGCCGTTGCAGTCTTAGATCTTTCCCATCAT
GTCTTCTAAGGTACATGGCCCGCCATTGCGACTAAG
Found at i:2888451 original size:146 final size:146
Alignment explanation
Indices: 2888185--2888451 Score: 342
Period size: 146 Copynumber: 1.8 Consensus size: 146
2888175 ACCTGGGGGT
* * **
2888185 AAAATGGTAATTTTAGACTCTCAGGGGTAAAATGGTAATTTTGGGAAAATTTAGGGTTAGAAATG
1 AAAATGGTAATTTTAGACTCTCAGGGGCAAAATGGTAATTTTGGGAAAATTTAGGGTTAAAAACA
** * * * * *
2888250 ACATTTTAGATGTTCGAGGGTAAAACGATAATTTTCGAAAGAAACGGGATCAAAAACGAGACTAG
66 ACATTTTAGATAATCAAGGGTAAAAAGATAATTTTAGAAAGAAACAGGATAAAAAACGAGACTAG
2888315 TTGGATGCCCGAGGGC
131 TTGGATGCCCGAGGGC
* * *
2888331 AAAATGGTAATTTTGGACTCTC-GAGGGCAAAATGGTAGTTTTGGGAAAATTTGGGGTTAAAAAC
1 AAAATGGTAATTTTAGACTCTCAG-GGGCAAAATGGTAATTTTGGGAAAATTTAGGGTTAAAAAC
* *
2888395 AACATTTTAGATAATCAAGGGTAAAATAG-TAATTTTTAGAAA-AATCATGATAAAAAA
65 AACATTTTAGATAATCAAGGGTAAAA-AGATAA-TTTTAGAAAGAAACAGGATAAAAAA
2888452 TGGGATTTTT
Statistics
Matches: 102, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
145 1 0.01
146 92 0.90
147 9 0.09
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (146 bp):
AAAATGGTAATTTTAGACTCTCAGGGGCAAAATGGTAATTTTGGGAAAATTTAGGGTTAAAAACA
ACATTTTAGATAATCAAGGGTAAAAAGATAATTTTAGAAAGAAACAGGATAAAAAACGAGACTAG
TTGGATGCCCGAGGGC
Found at i:2888631 original size:59 final size:59
Alignment explanation
Indices: 2888486--2888695 Score: 212
Period size: 59 Copynumber: 3.6 Consensus size: 59
2888476 AGAATGGTAA
* *
2888486 TTTTAGGAGTTTTGGGGTCAAAAATGA-AATTTTGGAAG-TTTGAGGGCAAAAATGCAAT
1 TTTTAGAAGTTTCGGGGTCAAAAAT-ATAATTTTGGAAGTTTTGAGGGCAAAAATGCAAT
* * ** * * *
2888544 TTTTTGAAGTTTCGAGGTTGAAAATATAATTTTGGGTAGTTTTGAGGTCAAAAATGGAAT
1 TTTTAGAAGTTTCGGGGTCAAAAATATAATTTT-GGAAGTTTTGAGGGCAAAAATGCAAT
* * * *
2888604 TTTTAAAAG-TTCGGGGGCAAAAATATAATTTTTAGAAGTTTT-AGGGGCAAAAATGTAAT
1 TTTTAGAAGTTTCGGGGTCAAAAATATAA-TTTTGGAAGTTTTGA-GGGCAAAAATGCAAT
* * *
2888663 TTTTGGAAGTTTCAGGGTCAAAAATGTAATTTT
1 TTTTAGAAGTTTCGGGGTCAAAAATATAATTTT
2888696 AGAGATGTTC
Statistics
Matches: 122, Mismatches: 24, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
57 1 0.01
58 26 0.21
59 50 0.41
60 45 0.37
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (59 bp):
TTTTAGAAGTTTCGGGGTCAAAAATATAATTTTGGAAGTTTTGAGGGCAAAAATGCAAT
Found at i:2888657 original size:89 final size:88
Alignment explanation
Indices: 2888483--2888724 Score: 217
Period size: 89 Copynumber: 2.7 Consensus size: 88
2888473 GGTAGAATGG
* * ** * *
2888483 TAATTTTAGGAGTTTTGGGGTCAAAAAT-GAAATTTTGGAAGTTTGAGGGCAAAAATGCAATTTT
1 TAATTTTAGGAGTTTTGAGGTCAAAAATGGAATTTTTAAAAGTTCGAGGGCAAAAATACAATTTT
* *
2888547 TTGAAGTTTCGAGGTTGAAAATA
66 TAGAAGTTTCGAGGTGGAAAATA
* * *
2888570 TAATTTTGGGTAGTTTTGAGGTCAAAAATGGAATTTTTAAAAGTTCGGGGGCAAAAATATAATTT
1 TAATTTTAGG-AGTTTTGAGGTCAAAAATGGAATTTTTAAAAGTTCGAGGGCAAAAATACAATTT
* *
2888635 TTAGAAGTTT-TAGG-GGCAAAAATG
65 TTAGAAGTTTCGAGGTGG--AAAATA
* * * *
2888659 TAATTTTTGGAAG-TTTCAGGGTCAAAAATGTAA-TTTTAGAGATGTTCGAGGGTC-AAAATACA
1 TAATTTTAGG-AGTTTTGA-GGTCAAAAATGGAATTTTTA-A-AAGTTCGAGGG-CAAAAATACA
2888721 ATTT
61 ATTT
2888725 ATGGATAGTT
Statistics
Matches: 127, Mismatches: 20, Indels: 13
0.79 0.12 0.08
Matches are distributed among these distances:
87 10 0.08
88 29 0.23
89 67 0.53
90 20 0.16
91 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (88 bp):
TAATTTTAGGAGTTTTGAGGTCAAAAATGGAATTTTTAAAAGTTCGAGGGCAAAAATACAATTTT
TAGAAGTTTCGAGGTGGAAAATA
Found at i:2888717 original size:30 final size:30
Alignment explanation
Indices: 2888482--2888716 Score: 155
Period size: 30 Copynumber: 7.9 Consensus size: 30
2888472 GGGTAGAATG
**
2888482 GTAATTTTAGG-AGTTTTGGGGTCAAAAAT
1 GTAATTTTAGGAAGTTTCAGGGTCAAAAAT
* *
2888511 GAAATTTT-GGAAGTTTGAGGG-CAAAAAT
1 GTAATTTTAGGAAGTTTCAGGGTCAAAAAT
* ** **
2888539 GCAATTTTTTGAAGTTTC-GAGGTTGAAAAT
1 GTAATTTTAGGAAGTTTCAG-GGTCAAAAAT
* * * *
2888569 ATAATTTTGGGTAGTTT-TGAGGTCAAAAAT
1 GTAATTTTAGGAAGTTTCAG-GGTCAAAAAT
* * * *
2888599 GGAATTTTTA-AAAG-TTCGGGGGCAAAAAT
1 GTAA-TTTTAGGAAGTTTCAGGGTCAAAAAT
* * *
2888628 ATAATTTTTA-GAAGTTTTAGGGGCAAAAAT
1 GTAA-TTTTAGGAAGTTTCAGGGTCAAAAAT
*
2888658 GTAATTTTTGGAAGTTTCAGGGTCAAAAAT
1 GTAATTTTAGGAAGTTTCAGGGTCAAAAAT
*
2888688 GTAATTTTAGAGATG-TTCGAGGGTCAAAA
1 GTAATTTTAG-GAAGTTTC-AGGGTCAAAA
2888717 TACAATTTAT
Statistics
Matches: 162, Mismatches: 33, Indels: 20
0.75 0.15 0.09
Matches are distributed among these distances:
28 17 0.10
29 50 0.31
30 78 0.48
31 17 0.10
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (30 bp):
GTAATTTTAGGAAGTTTCAGGGTCAAAAAT
Found at i:2890143 original size:17 final size:18
Alignment explanation
Indices: 2890116--2890154 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
2890106 GACTTTTTAA
2890116 TTAATTTTAAATTTAAAC
1 TTAATTTTAAATTTAAAC
2890134 TTAA-TTTAAATTTAAAC
1 TTAATTTTAAATTTAAAC
2890151 TTAA
1 TTAA
2890155 AAGAAAAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAATTTTAAATTTAAAC
Found at i:2890147 original size:23 final size:22
Alignment explanation
Indices: 2890112--2890184 Score: 62
Period size: 23 Copynumber: 3.4 Consensus size: 22
2890102 ATTGGACTTT
* *
2890112 TTAATTAATTTTAAATTTAAAC
1 TTAATTAAATTTAAACTTAAAC
2890134 TTAATTTAAATTTAAACTTAAA-
1 TTAA-TTAAATTTAAACTTAAAC
** *
2890156 AGAA--AAGTTTAAACTTAAAC
1 TTAATTAAATTTAAACTTAAAC
*
2890176 TAAATTAAA
1 TTAATTAAA
2890185 AATTCAATCA
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
19 14 0.36
20 2 0.05
22 8 0.21
23 15 0.38
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (22 bp):
TTAATTAAATTTAAACTTAAAC
Found at i:2891940 original size:5 final size:5
Alignment explanation
Indices: 2891930--2891956 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
2891920 GAAATAATGT
2891930 AAAAG AAAAG AAAAG AAAAG AAAAG AA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AA
2891957 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:2892218 original size:30 final size:31
Alignment explanation
Indices: 2892184--2892254 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 31
2892174 TGATTAACGG
* *
2892184 AGGTACCAATTCTAGAAAAAAAA-GTAATTT
1 AGGTACCAATTATAGAAAAAAAATATAATTT
* * *
2892214 AGGTATCAA-GATGGAAAAAAAATATAATTT
1 AGGTACCAATTATAGAAAAAAAATATAATTT
*
2892244 AAGTACCAATT
1 AGGTACCAATT
2892255 TGTGAGTTAA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
29 10 0.32
30 21 0.68
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.27
Consensus pattern (31 bp):
AGGTACCAATTATAGAAAAAAAATATAATTT
Found at i:2893022 original size:87 final size:87
Alignment explanation
Indices: 2892876--2893041 Score: 305
Period size: 87 Copynumber: 1.9 Consensus size: 87
2892866 TCTATCTCCA
*
2892876 ACATATAGAAATAGTTGCAAAGGAAAATCCTGTTAATCCAAGGGAACTTGACTGATTAGCAGAAT
1 ACATATAGAAATAGTTGCAAAGGAAAATCCTGTTAATCCAAAGGAACTTGACTGATTAGCAGAAT
2892941 ATTTAAGTTTGTCTCACAAATT
66 ATTTAAGTTTGTCTCACAAATT
* *
2892963 ACATATAGAAATAGTTGCAAAGGGAAATCCTGTTAATTCAAAGGAACTTGACTGATTAGCAGAAT
1 ACATATAGAAATAGTTGCAAAGGAAAATCCTGTTAATCCAAAGGAACTTGACTGATTAGCAGAAT
2893028 ATTTAAGTTTGTCT
66 ATTTAAGTTTGTCT
2893042 GCGTATAGGA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 76 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.31
Consensus pattern (87 bp):
ACATATAGAAATAGTTGCAAAGGAAAATCCTGTTAATCCAAAGGAACTTGACTGATTAGCAGAAT
ATTTAAGTTTGTCTCACAAATT
Found at i:2894706 original size:18 final size:18
Alignment explanation
Indices: 2894660--2894695 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2894650 ACTTTTTCTT
2894660 TTAAAGTTTAAATTTAAA
1 TTAAAGTTTAAATTTAAA
*
2894678 TTAAAGATTAAATTTAAA
1 TTAAAGTTTAAATTTAAA
2894696 ATTGAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (18 bp):
TTAAAGTTTAAATTTAAA
Found at i:2896596 original size:30 final size:29
Alignment explanation
Indices: 2896503--2896641 Score: 151
Period size: 29 Copynumber: 4.8 Consensus size: 29
2896493 CCCTAAATTG
* * *
2896503 TCCAAAAATTATATTTTGACCCTGAAACT
1 TCCAAAAATTACATTTTTACCCCGAAACT
* *
2896532 TCCAAAAATTACATTTTTACCCTTG-AATT
1 TCCAAAAATTACATTTTTACCC-CGAAACT
*
2896561 TCCAAAAATT-CTATTTTTAACCCCAAAACT
1 TCCAAAAATTAC-ATTTTT-ACCCCGAAACT
2896591 TCCAAAAATTACATTTTTACCCCGAAACT
1 TCCAAAAATTACATTTTTACCCCGAAACT
*
2896620 T-TAAAAATTACCA-TTTTACCCC
1 TCCAAAAATTA-CATTTTTACCCC
2896642 TAGACGTCCA
Statistics
Matches: 96, Mismatches: 8, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
28 18 0.19
29 52 0.54
30 25 0.26
31 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.35
Consensus pattern (29 bp):
TCCAAAAATTACATTTTTACCCCGAAACT
Found at i:2896601 original size:59 final size:59
Alignment explanation
Indices: 2896498--2896612 Score: 178
Period size: 59 Copynumber: 1.9 Consensus size: 59
2896488 GAGGTCCCTA
* **
2896498 AATTGTCCAAAAATTATATTTTGACCCTGAAACTTCCAAAAATTACATTTTTACCCTTG
1 AATTGTCCAAAAATTATATTTTAACCCCAAAACTTCCAAAAATTACATTTTTACCCTTG
*
2896557 AATT-TCCAAAAATTCTATTTTTAACCCCAAAACTTCCAAAAATTACATTTTTACCC
1 AATTGTCCAAAAATTATA-TTTTAACCCCAAAACTTCCAAAAATTACATTTTTACCC
2896613 CGAAACTTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
58 12 0.24
59 39 0.76
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.37
Consensus pattern (59 bp):
AATTGTCCAAAAATTATATTTTAACCCCAAAACTTCCAAAAATTACATTTTTACCCTTG
Done.