Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 33 of 125
Found at i:9345674 original size:78 final size:78
Alignment explanation
Indices: 9345541--9345725 Score: 217
Period size: 78 Copynumber: 2.4 Consensus size: 78
9345531 CTACAAGCTG
*** * * * **
9345541 CCCTAGGCTCGGGGTAAGAGATTGGTTGATGGTGATCTACCCCAATATCGGGGTAAGAGATTGAA
1 CCCT-GGCTCGGGGTAAGAGATTGGTTGACACTGATCTACCCCAAGATCGAGGTAAAAGATCAAA
*
9345606 TGGCTGTAATTTGC
65 TGGCTGCAATTTGC
* * *
9345620 CCCTGGCTCGGGGTAAGAGATTGGTTGACACTGATCTGCCCCAAGCTCGAGGTAAAATATCAAAT
1 CCCTGGCTCGGGGTAAGAGATTGGTTGACACTGATCTACCCCAAGATCGAGGTAAAAGATCAAAT
*
9345685 GGCTGCAATTTGT
66 GGCTGCAATTTGC
** *
9345698 CCCAAGCTCGGGGTAAAAGATTGGTTGA
1 CCCTGGCTCGGGGTAAGAGATTGGTTGA
9345726 TGATGTAACT
Statistics
Matches: 90, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
78 86 0.96
79 4 0.04
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (78 bp):
CCCTGGCTCGGGGTAAGAGATTGGTTGACACTGATCTACCCCAAGATCGAGGTAAAAGATCAAAT
GGCTGCAATTTGC
Found at i:9346336 original size:305 final size:306
Alignment explanation
Indices: 9345785--9346489 Score: 1164
Period size: 305 Copynumber: 2.3 Consensus size: 306
9345775 GCTGCTGTAG
*** *
9345785 TTTTAATCCAACTTCGTTGCAACTTCAAGAAGAT-AGAATTTGATG-TTGAAGCTTCATCTTGCT
1 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAAGAA-TTGATGTTTGAAGCTTCATCTTGCT
9345848 CTTACTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTACTGCAACTTCA
65 CTTACTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTACTGCAACTTCA
* *
9345913 AGAGGATAGGAATTGATGTTTGAAGTTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGAC
130 AAAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGAC
*
9345978 TTGCTATTATTTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTT
195 TTGCTATTATTTTTAATCCAACTTTACTGCAACTTCAAGAGGATAAGAATTGATGTTTGAAGCTT
** * *
9346043 CATCTTGCTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATTGT
260 CATCTCACTCTTACTACAACTTCAGAGAGATAAAGACTTACTATTGT
* * * * *
9346090 TTTTAATCTAACTTTACTGCAACTTTAAGAGGATAAGAATTAATGTTTAAAGCTTCCTCTTGCTC
1 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAAGAATTGATGTTTGAAGCTTCATCTTGCTC
*
9346155 TTACTATAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTACTGCAACTTCAA
66 TTACTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTACTGCAACTTCAA
**
9346220 AAGGATAGGAATTGATG-TTGAAGCTTCATCTTGCTCTTACTGTAACTTCAGAGAGATAAAGACT
131 AAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACT
*
9346284 TGCTATTGTTTTTAATCCAACTTTACTGCAACTTCAAGAGGATAAGAATTGATGTTTGAAGCTTC
196 TGCTATTATTTTTAATCCAACTTTACTGCAACTTCAAGAGGATAAGAATTGATGTTTGAAGCTTC
9346349 ATCTCACTCTTACTACAACTTCAGAGAGATAAAGACTTACTATTGT
261 ATCTCACTCTTACTACAACTTCAGAGAGATAAAGACTTACTATTGT
* * *
9346395 TTTTAATCCAACTTTATTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCCTCATCTTGCTC
1 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAAGAATTGATGTTTGAAGCTTCATCTTGCTC
*
9346460 TTACTGCAACTTCAGAGAGATAAAGACTTG
66 TTACTACAACTTCAGAGAGATAAAGACTTG
9346490 TCATTGTAAT
Statistics
Matches: 368, Mismatches: 30, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
305 267 0.73
306 101 0.27
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (306 bp):
TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAAGAATTGATGTTTGAAGCTTCATCTTGCTC
TTACTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTACTGCAACTTCAA
AAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACT
TGCTATTATTTTTAATCCAACTTTACTGCAACTTCAAGAGGATAAGAATTGATGTTTGAAGCTTC
ATCTCACTCTTACTACAACTTCAGAGAGATAAAGACTTACTATTGT
Found at i:9346496 original size:102 final size:102
Alignment explanation
Indices: 9345785--9346489 Score: 1164
Period size: 102 Copynumber: 6.9 Consensus size: 102
9345775 GCTGCTGTAG
*** *
9345785 TTTTAATCCAACTTCGTTGCAACTTCAAGAAGATA-GAATTTGATG-TTGAAGCTTCATCTTGCT
1 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAA-TTGATGTTTGAAGCTTCATCTTGCT
9345848 CTTACTACAACTTCAGAGAGATAAAGACTTGCTATTGT
65 CTTACTACAACTTCAGAGAGATAAAGACTTGCTATTGT
*
9345886 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGTTTCATCTTGCTC
1 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTC
*
9345951 TTACTACAACTTCAGAGAGATAAAGACTTGCTATTAT
66 TTACTACAACTTCAGAGAGATAAAGACTTGCTATTGT
9345988 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTC
1 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTC
*
9346053 TTACTACAACTTTAGAGAGATAAAGACTTGCTATTGT
66 TTACTACAACTTCAGAGAGATAAAGACTTGCTATTGT
* * * * * *
9346090 TTTTAATCTAACTTTACTGCAACTTTAAGAGGATAAGAATTAATGTTTAAAGCTTCCTCTTGCTC
1 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTC
*
9346155 TTACTATAACTTCAGAGAGATAAAGACTTGCTATTGT
66 TTACTACAACTTCAGAGAGATAAAGACTTGCTATTGT
*
9346192 TTTTAATCCAACTTTACTGCAACTTCAAAAGGATAGGAATTGATG-TTGAAGCTTCATCTTGCTC
1 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTC
**
9346256 TTACTGTAACTTCAGAGAGATAAAGACTTGCTATTGT
66 TTACTACAACTTCAGAGAGATAAAGACTTGCTATTGT
* **
9346293 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAAGAATTGATGTTTGAAGCTTCATCTCACTC
1 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTC
*
9346358 TTACTACAACTTCAGAGAGATAAAGACTTACTATTGT
66 TTACTACAACTTCAGAGAGATAAAGACTTGCTATTGT
* *
9346395 TTTTAATCCAACTTTATTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCCTCATCTTGCTC
1 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTC
*
9346460 TTACTGCAACTTCAGAGAGATAAAGACTTG
66 TTACTACAACTTCAGAGAGATAAAGACTTG
9346490 TCATTGTAAT
Statistics
Matches: 562, Mismatches: 39, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
101 133 0.24
102 429 0.76
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (102 bp):
TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTC
TTACTACAACTTCAGAGAGATAAAGACTTGCTATTGT
Found at i:9346682 original size:48 final size:48
Alignment explanation
Indices: 9346617--9347006 Score: 435
Period size: 48 Copynumber: 8.1 Consensus size: 48
9346607 TCCCTTCAAA
* * *
9346617 TCTTCGTGGTACTGGATCCACCGTTACAGCTTAGATCTTTCCCTTGTG
1 TCTTCGTGGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTGTG
* *
9346665 TCTTCGAGGTA-TAGGATCCGCCGTTGCGGCTTAGAACTTTCCCTTGTG
1 TCTTCGTGGTACT-GGATCCGCCGTTGCGGCTTAGATCTTTCCCTTGTG
*
9346713 TCTTCGTGGTA-TAGGATCCGCCGTTGCGGCTTAGAACTTTCCCTTGTG
1 TCTTCGTGGTACT-GGATCCGCCGTTGCGGCTTAGATCTTTCCCTTGTG
* **
9346761 TCTTCGTGGTACTGGATCCACCGTTGCGGCTTAGATCTTT-TATGTCGTG
1 TCTTCGTGGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCT-T-GTG
* ** * *
9346810 TTTTTATGGTACTGGATCCACCGTCGCGGCTTAGATCTTTCCCTTGTG
1 TCTTCGTGGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTGTG
* * ** * *
9346858 TCTTCGTGGTACTAGATCCGTCGTTGTAGCTTAGATCTTTCGCTTCATG
1 TCTTCGTGGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTT-GTG
** * ** *
9346907 TCTTTATGGTACTAGATCCGCAATTGCGGCTTAGATCTTTCCCTTATG
1 TCTTCGTGGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTGTG
* * **
9346955 TCTTCGCGGTACTGGATCCGTCGTTGCAACTTAGATCTTTCCCTTCGTG
1 TCTTCGTGGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTT-GTG
9347004 TCT
1 TCT
9347007 CTAAGGTACT
Statistics
Matches: 290, Mismatches: 45, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
47 2 0.01
48 202 0.70
49 85 0.29
50 1 0.00
ACGTcount: A:0.14, C:0.25, G:0.23, T:0.38
Consensus pattern (48 bp):
TCTTCGTGGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTGTG
Found at i:9346862 original size:97 final size:97
Alignment explanation
Indices: 9346623--9347016 Score: 463
Period size: 97 Copynumber: 4.1 Consensus size: 97
9346613 CAAATCTTCG
* * *
9346623 TGGTACTGGATCCACCGTTACAGCTTAGATCTTTCCCTTGTGTCTTCGAGGTA-TAGGATCCGCC
1 TGGTACTGGATCCACCGTTGCGGCTTAGATCTTTCCCTTGTGTCTTCGTGGTACT-GGATCCGCC
* * **
9346687 GTTGCGGCTTAGAACTTTCCCTT-GTGTCTTCG
65 GTTGCAGCTTAGATCTTTCCCTTCGTGTCTTTA
* * *
9346719 TGGTA-TAGGATCCGCCGTTGCGGCTTAGAACTTTCCCTTGTGTCTTCGTGGTACTGGATCCACC
1 TGGTACT-GGATCCACCGTTGCGGCTTAGATCTTTCCCTTGTGTCTTCGTGGTACTGGATCCGCC
* ** *
9346783 GTTGCGGCTTAGATCTTT-TATGTCGTGTTTTTA
65 GTTGCAGCTTAGATCTTTCCCT-TCGTGTCTTTA
* * *
9346816 TGGTACTGGATCCACCGTCGCGGCTTAGATCTTTCCCTTGTGTCTTCGTGGTACTAGATCCGTCG
1 TGGTACTGGATCCACCGTTGCGGCTTAGATCTTTCCCTTGTGTCTTCGTGGTACTGGATCCGCCG
* * *
9346881 TTGTAGCTTAGATCTTTCGCTTCATGTCTTTA
66 TTGCAGCTTAGATCTTTCCCTTCGTGTCTTTA
* * ** * * *
9346913 TGGTACTAGATCCGCAATTGCGGCTTAGATCTTTCCCTTATGTCTTCGCGGTACTGGATCCGTCG
1 TGGTACTGGATCCACCGTTGCGGCTTAGATCTTTCCCTTGTGTCTTCGTGGTACTGGATCCGCCG
* *
9346978 TTGCAACTTAGATCTTTCCCTTCGTGTCTCTA
66 TTGCAGCTTAGATCTTTCCCTTCGTGTCTTTA
*
9347010 AGGTACT
1 TGGTACT
9347017 AGGTTCGCTA
Statistics
Matches: 254, Mismatches: 38, Indels: 11
0.84 0.13 0.04
Matches are distributed among these distances:
95 2 0.01
96 72 0.28
97 178 0.70
98 2 0.01
ACGTcount: A:0.14, C:0.25, G:0.23, T:0.38
Consensus pattern (97 bp):
TGGTACTGGATCCACCGTTGCGGCTTAGATCTTTCCCTTGTGTCTTCGTGGTACTGGATCCGCCG
TTGCAGCTTAGATCTTTCCCTTCGTGTCTTTA
Found at i:9346966 original size:145 final size:144
Alignment explanation
Indices: 9346617--9347006 Score: 419
Period size: 145 Copynumber: 2.7 Consensus size: 144
9346607 TCCCTTCAAA
* * ** * *
9346617 TCTTCGTGGTACTGGATCCACCGTTACAGCTTAGATCTTTCCCTTGTGTCTTCGAGGTA-TAGGA
1 TCTTCATGGTACTAGATCCACAATTGCGGCTTAGATCTTTCCCTTGTGTCTTCGAGGTACT-GGA
* *
9346681 TCCGCCGTTGCGGCTTAGAACTTTCCCTTGTGTCTTCGTGGTATAGGATCCGCCGTTGCGGCTTA
65 TCCGCCGTTGCGGCTTAGATCTTTCCCTTGTGTCTTCGTGGTATAGGATCCGCCGTTGCAGCTTA
*
9346746 GAACTTTCCCTTGTG
130 GAACTTTCCCTTATG
* * ** ** **
9346761 TCTTCGTGGTACTGGATCCACCGTTGCGGCTTAGATCTTT-TATGTCGTGT-TTTTATGGTACTG
1 TCTTCATGGTACTAGATCCACAATTGCGGCTTAGATCTTTCCCT-T-GTGTCTTCGA-GGTACTG
* * * *
9346824 GATCCACCGTCGCGGCTTAGATCTTTCCCTTGTGTCTTCGTGGTACTA-GATCCGTCGTTGTAGC
63 GATCCGCCGTTGCGGCTTAGATCTTTCCCTTGTGTCTTCGTGGTA-TAGGATCCGCCGTTGCAGC
* *
9346888 TTAGATCTTTCGCTTCATG
127 TTAGAACTTTCCCTT-ATG
* * * *
9346907 TCTTTATGGTACTAGATCCGCAATTGCGGCTTAGATCTTTCCCTTATGTCTTCGCGGTACTGGAT
1 TCTTCATGGTACTAGATCCACAATTGCGGCTTAGATCTTTCCCTTGTGTCTTCGAGGTACTGGAT
* **
9346972 CCGTCGTTGCAACTTAGATCTTTCCCTTCGTGTCT
66 CCGCCGTTGCGGCTTAGATCTTTCCCTT-GTGTCT
9347007 CTAAGGTACT
Statistics
Matches: 205, Mismatches: 32, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
143 1 0.00
144 42 0.20
145 113 0.55
146 48 0.23
147 1 0.00
ACGTcount: A:0.14, C:0.25, G:0.23, T:0.38
Consensus pattern (144 bp):
TCTTCATGGTACTAGATCCACAATTGCGGCTTAGATCTTTCCCTTGTGTCTTCGAGGTACTGGAT
CCGCCGTTGCGGCTTAGATCTTTCCCTTGTGTCTTCGTGGTATAGGATCCGCCGTTGCAGCTTAG
AACTTTCCCTTATG
Found at i:9347036 original size:49 final size:48
Alignment explanation
Indices: 9346887--9347036 Score: 126
Period size: 49 Copynumber: 3.1 Consensus size: 48
9346877 GTCGTTGTAG
* * * * * *
9346887 CTTAGATCTTTCGCTTCATGTCTTTATGGTACTAGATCCGCAATTGCGG
1 CTTAGATCTTTCCCTTCATGTC-TTAAGGTACTAGGTTCGCTATTGCGA
** * * *
9346936 CTTAGATCTTTCCCTT-ATGTCTTCGCGGTACT-GGATC-CGTCGTTGCAA
1 CTTAGATCTTTCCCTTCATGTCTT-AAGGTACTAGGTTCGC-T-ATTGCGA
*
9346984 CTTAGATCTTTCCCTTCGTGTCTCTAAGGTACTAGGTTCGCTATTGCGA
1 CTTAGATCTTTCCCTTCATGTCT-TAAGGTACTAGGTTCGCTATTGCGA
9347033 CTTA
1 CTTA
9347037 AACCCTTCCC
Statistics
Matches: 78, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
46 1 0.01
47 4 0.05
48 31 0.40
49 35 0.45
50 6 0.08
51 1 0.01
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.39
Consensus pattern (48 bp):
CTTAGATCTTTCCCTTCATGTCTTAAGGTACTAGGTTCGCTATTGCGA
Found at i:9347046 original size:97 final size:97
Alignment explanation
Indices: 9346848--9347048 Score: 258
Period size: 97 Copynumber: 2.1 Consensus size: 97
9346838 GCTTAGATCT
* * * * * *
9346848 TTCCCTTGTGTCTTCGTGGTACTAGATCCGTCGTTGTAGCTTAGATCTTTCGCTTCATGTCTTTA
1 TTCCCTTATGTCTTCGCGGTACTAGATCCGTCGTTGCAACTTAGATCTTTCCCTTCATGTCTCTA
* * * * *
9346913 TGGTACTAGATCCGCAATTGCGGCTTAGATCT
66 AGGTACTAGATCCGCAATTGCGACTTAAACCC
* *
9346945 TTCCCTTATGTCTTCGCGGTACTGGATCCGTCGTTGCAACTTAGATCTTTCCCTTCGTGTCTCTA
1 TTCCCTTATGTCTTCGCGGTACTAGATCCGTCGTTGCAACTTAGATCTTTCCCTTCATGTCTCTA
* * *
9347010 AGGTACTAGGTTCGCTATTGCGACTTAAACCC
66 AGGTACTAGATCCGCAATTGCGACTTAAACCC
9347042 TTCCCTT
1 TTCCCTT
9347049 TTGTATCTTT
Statistics
Matches: 88, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
97 88 1.00
ACGTcount: A:0.15, C:0.26, G:0.20, T:0.39
Consensus pattern (97 bp):
TTCCCTTATGTCTTCGCGGTACTAGATCCGTCGTTGCAACTTAGATCTTTCCCTTCATGTCTCTA
AGGTACTAGATCCGCAATTGCGACTTAAACCC
Found at i:9347117 original size:80 final size:80
Alignment explanation
Indices: 9346984--9347143 Score: 239
Period size: 80 Copynumber: 2.0 Consensus size: 80
9346974 GTCGTTGCAA
* * * * *
9346984 CTTAGATCTTTCCCTTCGTGTCTCTAAGGTACTAGGTTCGCTATTGCGACTTAAACCCTTCCCTT
1 CTTAGATCTTTCCCGTCATGTCTCTAAGGTACAAGGTTCACCATTGCGACTTAAACCCTTCCCTT
9347049 TTGTATCTTTGCGGT
66 TTGTATCTTTGCGGT
* * * *
9347064 CTTAGATCTTTCCCGTCATGTCTCTGAGGTACAAGGTTCACCGTTGTGACTTAAACCCTTCCTTT
1 CTTAGATCTTTCCCGTCATGTCTCTAAGGTACAAGGTTCACCATTGCGACTTAAACCCTTCCCTT
9347129 TTGTATCTTTGCGGT
66 TTGTATCTTTGCGGT
9347144 ACTGGATCCG
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 71 1.00
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.41
Consensus pattern (80 bp):
CTTAGATCTTTCCCGTCATGTCTCTAAGGTACAAGGTTCACCATTGCGACTTAAACCCTTCCCTT
TTGTATCTTTGCGGT
Found at i:9348425 original size:12 final size:11
Alignment explanation
Indices: 9348408--9348464 Score: 53
Period size: 12 Copynumber: 5.1 Consensus size: 11
9348398 TCCCTTTTTA
9348408 TTTTTCTTCTT
1 TTTTTCTTCTT
*
9348419 GTTTTTCCTCTT
1 -TTTTTCTTCTT
9348431 TTTTT-TTCTT
1 TTTTTCTTCTT
* *
9348441 TTCTTCTGCTT
1 TTTTTCTTCTT
*
9348452 TCTTTTTTTCTT
1 T-TTTTCTTCTT
9348464 T
1 T
9348465 CTTCTTTTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
10 8 0.22
11 10 0.28
12 18 0.50
ACGTcount: A:0.00, C:0.19, G:0.04, T:0.77
Consensus pattern (11 bp):
TTTTTCTTCTT
Found at i:9348466 original size:12 final size:12
Alignment explanation
Indices: 9348408--9348473 Score: 50
Period size: 12 Copynumber: 5.4 Consensus size: 12
9348398 TCCCTTTTTA
9348408 TTTTTC-TTCTT
1 TTTTTCTTTCTT
*
9348419 GTTTTTC-CTC-T
1 -TTTTTCTTTCTT
9348430 TTTTT-TTTCTT
1 TTTTTCTTTCTT
9348441 TTCTTCTGCTTTCTT
1 TT-TT-T-CTTTCTT
9348456 TTTTTCTTTCTT
1 TTTTTCTTTCTT
9348468 CTTTTT
1 -TTTTT
9348474 TCCTTTATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
10 7 0.16
11 4 0.09
12 17 0.38
13 7 0.16
14 2 0.04
15 8 0.18
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (12 bp):
TTTTTCTTTCTT
Found at i:9348473 original size:15 final size:15
Alignment explanation
Indices: 9348401--9348479 Score: 52
Period size: 15 Copynumber: 4.8 Consensus size: 15
9348391 CGACCTCTCC
9348401 CTTTTTATT-TTTCTT
1 CTTTTT-TTCTTTCTT
*
9348416 CTTGTTTTTCCTCTTTTT
1 CTT-TTTTT-CT-TTCTT
*
9348434 TTTTCTTTTCTTCTGCTTT
1 CTTT-TTTTCTT-T-C-TT
9348453 CTTTTTTTCTTTCTT
1 CTTTTTTTCTTTCTT
*
9348468 CTTTTTTCCTTT
1 CTTTTTTTCTTT
9348480 ATTCATTGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
15 18 0.35
16 5 0.10
17 6 0.12
18 17 0.33
19 5 0.10
ACGTcount: A:0.01, C:0.20, G:0.03, T:0.76
Consensus pattern (15 bp):
CTTTTTTTCTTTCTT
Found at i:9354082 original size:22 final size:22
Alignment explanation
Indices: 9354054--9354096 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9354044 TGGTTGGGGC
* *
9354054 AGCTGGTGGCAGTGCAAGTTGA
1 AGCTGGTAGCAGGGCAAGTTGA
9354076 AGCTGGTAGCAGGGCAAGTTG
1 AGCTGGTAGCAGGGCAAGTTG
9354097 CAAGGTGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.14, G:0.42, T:0.21
Consensus pattern (22 bp):
AGCTGGTAGCAGGGCAAGTTGA
Found at i:9358417 original size:23 final size:23
Alignment explanation
Indices: 9358387--9359264 Score: 1148
Period size: 23 Copynumber: 38.2 Consensus size: 23
9358377 ATATCTATGT
9358387 TTAAATATTAATGTGATTTGTGC
1 TTAAATATTAATGTGATTTGTGC
* * *
9358410 TTAAATATTAATATGATTTATGA
1 TTAAATATTAATGTGATTTGTGC
9358433 TTAAATATTAATGTGATTTGTGC
1 TTAAATATTAATGTGATTTGTGC
* *
9358456 TTAAGTATTAATGTGATTTATGC
1 TTAAATATTAATGTGATTTGTGC
*
9358479 TTAAATATTAATATGATTTGTGC
1 TTAAATATTAATGTGATTTGTGC
* *
9358502 TCAAATATTAATATGATTTGTGC
1 TTAAATATTAATGTGATTTGTGC
* *
9358525 TAAAATATTAATGTGATTTATGC
1 TTAAATATTAATGTGATTTGTGC
*
9358548 TTAAATATTAATGTGATTTATGC
1 TTAAATATTAATGTGATTTGTGC
* * * *
9358571 ATAAACATTAATGTTATTTATGC
1 TTAAATATTAATGTGATTTGTGC
*
9358594 ATAAATATTAATGTGATTTGTG-
1 TTAAATATTAATGTGATTTGTGC
* *
9358616 TTCAAATATTAATGTGATTTATTC
1 TT-AAATATTAATGTGATTTGTGC
* * *
9358640 TCAAATATTAATATTATTTGTGC
1 TTAAATATTAATGTGATTTGTGC
*
9358663 TCAAAT-TTAATGTGATTTGTGC
1 TTAAATATTAATGTGATTTGTGC
* *
9358685 ATAAATATTATTGTGATTTGTGC
1 TTAAATATTAATGTGATTTGTGC
9358708 TTAAATATTAATGTGATTTGTGC
1 TTAAATATTAATGTGATTTGTGC
* * *
9358731 TTAAGTATTAATGTGATTTATGT
1 TTAAATATTAATGTGATTTGTGC
*
9358754 TTAAATATTAATATGATTTGTGC
1 TTAAATATTAATGTGATTTGTGC
* *
9358777 TCAAATATTAATATGATTTGTGC
1 TTAAATATTAATGTGATTTGTGC
* * * *
9358800 TCAGATATTTATGTGATTTATGC
1 TTAAATATTAATGTGATTTGTGC
*
9358823 TTAAATATTGATGTGATTTGTGC
1 TTAAATATTAATGTGATTTGTGC
*
9358846 TTAAATATTAATGTGATTTGTAC
1 TTAAATATTAATGTGATTTGTGC
* *
9358869 TTAAGTATTAATATGATTTGTGC
1 TTAAATATTAATGTGATTTGTGC
* * *
9358892 TCAAATATTGATGTGATTTATGC
1 TTAAATATTAATGTGATTTGTGC
* *
9358915 TCAAATATTAATGTGATTTGTAC
1 TTAAATATTAATGTGATTTGTGC
9358938 TTAAATATTAATGTGATTTGTGC
1 TTAAATATTAATGTGATTTGTGC
* * * *
9358961 TGAAATATTAATGTCATTTATAC
1 TTAAATATTAATGTGATTTGTGC
9358984 TTAAATATTAATGTGATTTGTGC
1 TTAAATATTAATGTGATTTGTGC
**
9359007 TTAAATATTAATGTGATTTGTAT
1 TTAAATATTAATGTGATTTGTGC
*
9359030 TTAAATATTATTGTGATTTGTGC
1 TTAAATATTAATGTGATTTGTGC
* *
9359053 TTAAATATTAATATGATTTGTTC
1 TTAAATATTAATGTGATTTGTGC
9359076 TTAAATATTAATGTGATTTGTGC
1 TTAAATATTAATGTGATTTGTGC
*
9359099 TTAAATATTAATATGATTTGTGC
1 TTAAATATTAATGTGATTTGTGC
* * *
9359122 TAAAATGTTAATGTGATTTATGC
1 TTAAATATTAATGTGATTTGTGC
9359145 TTAAATATTAATGTGATTTGTGC
1 TTAAATATTAATGTGATTTGTGC
* * * *
9359168 TTAAATATTAATATAATTTATGA
1 TTAAATATTAATGTGATTTGTGC
*
9359191 TTAAATATTAATGTGATTTGTAC
1 TTAAATATTAATGTGATTTGTGC
* ** *
9359214 TTAAATATTAATATGATTAATGA
1 TTAAATATTAATGTGATTTGTGC
9359237 TTAAATATTAATGTGATTTGTGC
1 TTAAATATTAATGTGATTTGTGC
9359260 TTAAA
1 TTAAA
9359265 GAATTAAGAT
Statistics
Matches: 740, Mismatches: 112, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
22 19 0.03
23 720 0.97
24 1 0.00
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.47
Consensus pattern (23 bp):
TTAAATATTAATGTGATTTGTGC
Found at i:9359413 original size:36 final size:37
Alignment explanation
Indices: 9359333--9359422 Score: 164
Period size: 37 Copynumber: 2.5 Consensus size: 37
9359323 TGATGACTGT
9359333 TATGTGGGTATGTTCTTTATGCCATGTAACAGAAAAA
1 TATGTGGGTATGTTCTTTATGCCATGTAACAGAAAAA
*
9359370 TATGTGGGTATGTTCTTTATGCCATGTGACAG-AAAA
1 TATGTGGGTATGTTCTTTATGCCATGTAACAGAAAAA
9359406 TATGTGGGTATGTTCTT
1 TATGTGGGTATGTTCTT
9359423 CAGGGCATTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
36 21 0.40
37 31 0.60
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (37 bp):
TATGTGGGTATGTTCTTTATGCCATGTAACAGAAAAA
Found at i:9359442 original size:36 final size:36
Alignment explanation
Indices: 9359333--9359443 Score: 159
Period size: 36 Copynumber: 3.1 Consensus size: 36
9359323 TGATGACTGT
*
9359333 TATGTGGGTATGTTCTTTATGCCATGTAACAGAAAAA
1 TATGTGGGTATGTTCTTTATGCCATGTGACA-AAAAA
*
9359370 TATGTGGGTATGTTCTTTATGCCATGTGACAGAAAA
1 TATGTGGGTATGTTCTTTATGCCATGTGACAAAAAA
* * * *
9359406 TATGTGGGTATGTTCTTCAGGGCATTTGACAAAAAA
1 TATGTGGGTATGTTCTTTATGCCATGTGACAAAAAA
9359442 TA
1 TA
9359444 CATGGTAATG
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
36 37 0.55
37 30 0.45
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (36 bp):
TATGTGGGTATGTTCTTTATGCCATGTGACAAAAAA
Found at i:9363840 original size:16 final size:17
Alignment explanation
Indices: 9363811--9363844 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
9363801 TAGACCGAGA
9363811 TATTAGGATTTAAAGTT
1 TATTAGGATTTAAAGTT
9363828 TATTAGG-TTTAAAGTT
1 TATTAGGATTTAAAGTT
9363844 T
1 T
9363845 CAGTTTAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (17 bp):
TATTAGGATTTAAAGTT
Found at i:9364386 original size:27 final size:27
Alignment explanation
Indices: 9364303--9364388 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 27
9364293 ACAGTAGGGT
*
9364303 GGTGCCTATCTGACAGGCAACACCAAA
1 GGTGCCTATCTGACAGGCGACACCAAA
* * * * * * *
9364330 GGTGCCTACCTCATAGGTGGCACTAGA
1 GGTGCCTATCTGACAGGCGACACCAAA
9364357 GGTGCCTATCTGACAGGCGACACCAAA
1 GGTGCCTATCTGACAGGCGACACCAAA
9364384 GGTGC
1 GGTGC
9364389 TTACCTGGCA
Statistics
Matches: 44, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.27, C:0.28, G:0.28, T:0.17
Consensus pattern (27 bp):
GGTGCCTATCTGACAGGCGACACCAAA
Found at i:9367729 original size:28 final size:28
Alignment explanation
Indices: 9367684--9367767 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 28
9367674 CATTTTTCAC
**
9367684 TTGGAATTAATTAAGTTTATGATTGAAT
1 TTGGAATTAATTTTGTTTATGATTGAAT
*
9367712 TTGGAATTAATTTTGTTTA-AATTTGAAT
1 TTGGAATTAATTTTGTTTATGA-TTGAAT
* *
9367740 TT--AATTAATAATT-TTTATGTTTGAAT
1 TTGGAATTAAT-TTTGTTTATGATTGAAT
9367766 TT
1 TT
9367768 ATTTAATGAG
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
26 19 0.40
27 3 0.06
28 25 0.53
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (28 bp):
TTGGAATTAATTTTGTTTATGATTGAAT
Found at i:9367782 original size:26 final size:26
Alignment explanation
Indices: 9367688--9367782 Score: 66
Period size: 26 Copynumber: 3.6 Consensus size: 26
9367678 TTTCACTTGG
*
9367688 AATTAATTAA-GTTTATGATTGAATTT
1 AATTAA-TAAGGTTTATGTTTGAATTT
*** **
9367714 GGAATTAATTTTGTTTAAATTTGAATTT
1 --AATTAATAAGGTTTATGTTTGAATTT
**
9367742 AATTAATAATTTTTATGTTTGAATTT
1 AATTAATAAGGTTTATGTTTGAATTT
* *
9367768 ATTTAATGAGGTTTA
1 AATTAATAAGGTTTA
9367783 GGATTAAAGG
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
26 32 0.62
27 1 0.02
28 19 0.37
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.53
Consensus pattern (26 bp):
AATTAATAAGGTTTATGTTTGAATTT
Found at i:9367929 original size:7 final size:7
Alignment explanation
Indices: 9367913--9368017 Score: 65
Period size: 7 Copynumber: 15.0 Consensus size: 7
9367903 GTTTATAATT
9367913 TTTAATGG
1 TTTAA-GG
9367921 TTTAAGG
1 TTTAAGG
9367928 TTTAAGG
1 TTTAAGG
* *
9367935 GTTAAGA
1 TTTAAGG
9367942 TTTAAGG
1 TTTAAGG
*
9367949 GTTAAGG
1 TTTAAGG
*
9367956 TTTTAGG
1 TTTAAGG
*
9367963 TATT-AGA
1 T-TTAAGG
9367970 TTT-AGG
1 TTTAAGG
**
9367976 TTTCAATA
1 TTT-AAGG
*
9367984 TTTAGGG
1 TTTAAGG
*
9367991 TTTTAGG
1 TTTAAGG
9367998 TATTAA-G
1 T-TTAAGG
9368005 TTTAAGG
1 TTTAAGG
9368012 -TTAAGG
1 TTTAAGG
9368018 GTTTTAGTTT
Statistics
Matches: 75, Mismatches: 17, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
6 17 0.23
7 44 0.59
8 14 0.19
ACGTcount: A:0.29, C:0.01, G:0.27, T:0.44
Consensus pattern (7 bp):
TTTAAGG
Found at i:9367937 original size:53 final size:55
Alignment explanation
Indices: 9367823--9367937 Score: 125
Period size: 53 Copynumber: 2.2 Consensus size: 55
9367813 GTCTTAAGAA
* *
9367823 TTTAA-GGTTTAAAGTGATGAGTCCATGGTTTAATGATTTTTAAGGTTTTAAGGG
1 TTTAAGGGTTTAAAGTGATGAGTCCAGGGTTTAATAATTTTTAAGGTTTTAAGGG
* * **
9367877 TTT--GGGTTTAAAGTGATTATTTTAGGGTTT-ATAATTTTTAATGG-TTTAA-GG
1 TTTAAGGGTTTAAAGTGATGAGTCCAGGGTTTAATAATTTTTAA-GGTTTTAAGGG
9367928 TTTAAGGGTT
1 TTTAAGGGTT
9367938 AAGATTTAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
51 5 0.10
52 15 0.29
53 28 0.55
54 3 0.06
ACGTcount: A:0.26, C:0.02, G:0.25, T:0.47
Consensus pattern (55 bp):
TTTAAGGGTTTAAAGTGATGAGTCCAGGGTTTAATAATTTTTAAGGTTTTAAGGG
Found at i:9367996 original size:28 final size:27
Alignment explanation
Indices: 9367957--9368039 Score: 62
Period size: 28 Copynumber: 3.0 Consensus size: 27
9367947 GGGTTAAGGT
*
9367957 TTTA-GGTATTAGATTTAGGTTTCAATA
1 TTTAGGGTTTTAG-TTTAGGTTTCAATA
* **
9367984 TTTAGGGTTTTAGGTATTAAGTTT-AAGG
1 TTTAGGGTTTTA-GT-TTAGGTTTCAATA
*
9368012 TTAAGGGTTTTAGTTTAGGGTTATCAAT
1 TTTAGGGTTTTAGTTTA-GGTT-TCAAT
9368040 TTTTTAAGTG
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
26 3 0.07
27 9 0.21
28 21 0.49
29 10 0.23
ACGTcount: A:0.27, C:0.02, G:0.24, T:0.47
Consensus pattern (27 bp):
TTTAGGGTTTTAGTTTAGGTTTCAATA
Found at i:9372134 original size:27 final size:28
Alignment explanation
Indices: 9372083--9372139 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
9372073 TGGGGAATAG
*
9372083 CATTAGGTGCCGCCTGTTAGATAGGAAC
1 CATTAGGTGCCGCCTGTCAGATAGGAAC
* * *
9372111 CATT-GGTGTCGCCTGTCAGGTAGGTAC
1 CATTAGGTGCCGCCTGTCAGATAGGAAC
9372138 CA
1 CA
9372140 CACAATAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (28 bp):
CATTAGGTGCCGCCTGTCAGATAGGAAC
Found at i:9377394 original size:23 final size:23
Alignment explanation
Indices: 9377364--9377791 Score: 554
Period size: 23 Copynumber: 18.7 Consensus size: 23
9377354 AATTCTAACG
9377364 GTGCTTAAATATTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
*
9377387 GTGCTTAAATATTAATGTAATTT
1 GTGCTTAAATATTAATGTGATTT
*
9377410 GTACTTAAATATTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
*
9377433 GTGCTTAAGTATTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
*
9377456 GTGCTTAAATATTAATATGATTT
1 GTGCTTAAATATTAATGTGATTT
* * *
9377479 ATGCTCAAATACTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
* *
9377502 GTGCTTAAATATTAATATAATTT
1 GTGCTTAAATATTAATGTGATTT
* * * *
9377525 ATGCTCAAATATTAATAT-AATT
1 GTGCTTAAATATTAATGTGATTT
* *
9377547 ATGCTTAAATATTAATATGATTT
1 GTGCTTAAATATTAATGTGATTT
* *
9377570 ATGCTTAAATATTAATCTGATTT
1 GTGCTTAAATATTAATGTGATTT
*
9377593 GTGCTGAAATATTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
*
9377616 GTGCTTAAATATTAATATGATTT
1 GTGCTTAAATATTAATGTGATTT
9377639 GTG-TTCAAATATTAATGTGATTT
1 GTGCTT-AAATATTAATGTGATTT
* * *
9377662 GTGCTTAAATATTCATATGATTG
1 GTGCTTAAATATTAATGTGATTT
*
9377685 GTGCTCAAATATTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
* *
9377708 ATGCATAAATATTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
* *
9377731 GTGCTTAAATATTAATATAATTT
1 GTGCTTAAATATTAATGTGATTT
* * *
9377754 ATGATTAAATATTAATGTGGTTT
1 GTGCTTAAATATTAATGTGATTT
*
9377777 GTGCTTAAAAATTAA
1 GTGCTTAAATATTAA
9377792 GATGTGATAT
Statistics
Matches: 352, Mismatches: 50, Indels: 6
0.86 0.12 0.01
Matches are distributed among these distances:
22 22 0.06
23 328 0.93
24 2 0.01
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.46
Consensus pattern (23 bp):
GTGCTTAAATATTAATGTGATTT
Found at i:9380036 original size:15 final size:14
Alignment explanation
Indices: 9380016--9380048 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9380006 ACGAATGTAA
9380016 TTTTTTTT-AAAAGT
1 TTTTTTTTCAAAA-T
9380030 TTTTTTTTCAAAAT
1 TTTTTTTTCAAAAT
9380044 TTTTT
1 TTTTT
9380049 AATTAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (14 bp):
TTTTTTTTCAAAAT
Found at i:9380077 original size:22 final size:23
Alignment explanation
Indices: 9380032--9380077 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
9380022 TTAAAAGTTT
* *
9380032 TTTTTTCAAAATTTTTTAATTAA
1 TTTTTTCAAAATTTTTAAAGTAA
9380055 TTTTTT-AAAATTTTTAAAGTAA
1 TTTTTTCAAAATTTTTAAAGTAA
9380077 T
1 T
9380078 AAAAAATAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
TTTTTTCAAAATTTTTAAAGTAA
Found at i:9380866 original size:25 final size:25
Alignment explanation
Indices: 9380832--9380886 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
9380822 AAAGGGTTGA
9380832 CCTAAGATCATGGGTACCTCAATAT
1 CCTAAGATCATGGGTACCTCAATAT
9380857 CCTAAGATCATGGGTACCTCAATAT
1 CCTAAGATCATGGGTACCTCAATAT
9380882 CCTAA
1 CCTAA
9380887 TTCATGTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (25 bp):
CCTAAGATCATGGGTACCTCAATAT
Found at i:9381620 original size:3 final size:3
Alignment explanation
Indices: 9381612--9381649 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
9381602 ATCACCATGC
9381612 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
9381650 AATTAGTTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:9392039 original size:23 final size:23
Alignment explanation
Indices: 9392011--9392064 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
9392001 ATTTAAAACA
* *
9392011 AAACATTATGACAGGAGAGTTAC
1 AAACATAATGACAAGAGAGTTAC
*
9392034 AAACATAATGGCAAGAGAGTTAC
1 AAACATAATGACAAGAGAGTTAC
9392057 AAA-ATAAT
1 AAACATAAT
9392065 AATAATTGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 5 0.18
23 23 0.82
ACGTcount: A:0.50, C:0.11, G:0.19, T:0.20
Consensus pattern (23 bp):
AAACATAATGACAAGAGAGTTAC
Found at i:9393274 original size:30 final size:30
Alignment explanation
Indices: 9393238--9393305 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
9393228 ACGTTAACAA
* * * *
9393238 GACACCCTCTACATTTTCAAGTGGTTTTAG
1 GACACCCCCCACATTTCCAAGTGGTTCTAG
9393268 GACACCCCCCACATTTCCAAGTGGTTCTAG
1 GACACCCCCCACATTTCCAAGTGGTTCTAG
9393298 GACACCCC
1 GACACCCC
9393306 TATATGTTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.26
Consensus pattern (30 bp):
GACACCCCCCACATTTCCAAGTGGTTCTAG
Found at i:9395167 original size:19 final size:20
Alignment explanation
Indices: 9395118--9395168 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
9395108 AAAGGCAATA
9395118 TAAAAA-AATATAATATAATT
1 TAAAAATAA-ATAATATAATT
* *
9395138 T-AAATTTAATAATA-AATT
1 TAAAAATAAATAATATAATT
9395156 TAAAAATAAATAA
1 TAAAAATAAATAA
9395169 AAAGTATACT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
18 5 0.20
19 18 0.72
20 2 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAAAATAAATAATATAATT
Found at i:9406911 original size:60 final size:60
Alignment explanation
Indices: 9406820--9407163 Score: 183
Period size: 61 Copynumber: 5.7 Consensus size: 60
9406810 TTTGTAAGAT
* ** *
9406820 AAAAAATTCAAATTTTTGGGTGTTGGTCATTGCATGGTTGGCA-CCTCCTTTTTATCTG-ATA
1 AAAAAATT-AAATTTTTTGGTGTTGGTCATTGCATGGCCGACATCCT--TTTTTATCTGAATA
* * *
9406881 AAAAAATTAAATTTTTTGGTGTTGAG-CATTGTATGGCCGATATCCTTTTTTATTTGAATA
1 AAAAAATTAAATTTTTTGGTGTTG-GTCATTGCATGGCCGACATCCTTTTTTATCTGAATA
* * * ** * *
9406941 AAAAAATCAAATTTTTTGATGTTGGTCA-TGCCATGACCGACGCCCCTTTTTTGTCAG-ATA
1 AAAAAATTAAATTTTTTGGTGTTGGTCATTG-CATGGCCGAC-ATCCTTTTTTATCTGAATA
* * * * * * * *
9407001 AAAAATTTAAAATTTTTTTTGTGTTGGCCA-TGTAATAGTCGACACCCCTTTTTTATCTG-GT-
1 AAAAAATT-AAA-TTTTTTGGTGTTGGTCATTG-CATGGCCGACA-TCCTTTTTTATCTGAATA
* * * * *
9407062 AAAAAATTCAAAATTTTTTGATGTTGGCCA-TGCAATGACCGACACCTCTTTTTTATCTG-GT-
1 AAAAAATT--AAATTTTTTGGTGTTGGTCATTGC-ATGGCCGACATC-CTTTTTTATCTGAATA
* * * *
9407123 AAAAAA-TCAATTTTTTTGTGTTGTTCA-TGCAATGGCTGACA
1 AAAAAATTAAATTTTTTGGTGTTGGTCATTGC-ATGGCCGACA
9407164 CCAACTTTCC
Statistics
Matches: 226, Mismatches: 45, Indels: 27
0.76 0.15 0.09
Matches are distributed among these distances:
58 27 0.12
59 12 0.05
60 72 0.32
61 76 0.34
62 39 0.17
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (60 bp):
AAAAAATTAAATTTTTTGGTGTTGGTCATTGCATGGCCGACATCCTTTTTTATCTGAATA
Found at i:9407005 original size:61 final size:59
Alignment explanation
Indices: 9406868--9407165 Score: 237
Period size: 60 Copynumber: 4.9 Consensus size: 59
9406858 TGGCACCTCC
* * * * * *
9406868 TTTTTATCTGATAAAAAAATTAAATTTTTTGGTGTTGAG-CATTG-TATGGCCGATA-TCCT
1 TTTTTATCTGGTAAAAAAATCAAATTTTTT-GTGTTG-GCCA-TGCAATGACCGACACCCCT
* * * * *
9406927 TTTTTATTTGAATAAAAAAATCAAATTTTTTGATGTTGGTCATGCCATGACCGACGCCCCT
1 TTTTTATCTG-GTAAAAAAATCAAATTTTTTG-TGTTGGCCATGCAATGACCGACACCCCT
* * * * * * *
9406988 TTTTTGTCAGATAAAAAATTTAAAATTTTTTTTGTGTTGGCCATGTAAT-AGTCGACACCCCT
1 TTTTTATCTGGTAAAAAA-ATCAAA--TTTTTTGTGTTGGCCATGCAATGA-CCGACACCCCT
* *
9407050 TTTTTATCTGGTAAAAAATTCAAAATTTTTTGATGTTGGCCATGCAATGACCGACACCTCT
1 TTTTTATCTGGTAAAAAAATC-AAATTTTTTG-TGTTGGCCATGCAATGACCGACACCCCT
* ** * *
9407111 TTTTTATCTGGT-AAAAAATCAATTTTTTTGTGTTGTTCATGCAATGGCTGACACC
1 TTTTTATCTGGTAAAAAAATCAAATTTTTTGTGTTGGCCATGCAATGACCGACACC
9407166 AACTTTCCCT
Statistics
Matches: 197, Mismatches: 30, Indels: 25
0.78 0.12 0.10
Matches are distributed among these distances:
58 21 0.11
59 22 0.11
60 55 0.28
61 52 0.26
62 40 0.20
63 7 0.04
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (59 bp):
TTTTTATCTGGTAAAAAAATCAAATTTTTTGTGTTGGCCATGCAATGACCGACACCCCT
Found at i:9407049 original size:62 final size:61
Alignment explanation
Indices: 9406924--9407165 Score: 244
Period size: 61 Copynumber: 4.0 Consensus size: 61
9406914 TGGCCGATAT
* * * * * *
9406924 CCTTTTTTATTTGAATAAAAAAATC-AAATTTTTTGATGTTGGTCATGCCATGACCGACGCC
1 CCTTTTTTATCTG-GTAAAAAATTCAAAATTTTTTGATGTTGGCCATGCAATGACCGACACC
* * * * * *
9406985 CCTTTTTTGTCAGATAAAAAATTTAAAATTTTTTTTG-TGTTGGCCATGTAAT-AGTCGACACC
1 CCTTTTTTATCTGGTAAAAAATTCAAAA--TTTTTTGATGTTGGCCATGCAATGA-CCGACACC
9407047 CCTTTTTTATCTGGTAAAAAATTCAAAATTTTTTGATGTTGGCCATGCAATGACCGACACC
1 CCTTTTTTATCTGGTAAAAAATTCAAAATTTTTTGATGTTGGCCATGCAATGACCGACACC
* * ** * *
9407108 TCTTTTTTATCTGGTAAAAAA-TC-AATTTTTTTG-TGTTGTTCATGCAATGGCTGACACC
1 CCTTTTTTATCTGGTAAAAAATTCAAAATTTTTTGATGTTGGCCATGCAATGACCGACACC
9407166 AACTTTCCCT
Statistics
Matches: 153, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
58 21 0.14
59 9 0.06
60 18 0.12
61 55 0.36
62 43 0.28
63 7 0.05
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (61 bp):
CCTTTTTTATCTGGTAAAAAATTCAAAATTTTTTGATGTTGGCCATGCAATGACCGACACC
Found at i:9410620 original size:82 final size:82
Alignment explanation
Indices: 9410529--9410685 Score: 253
Period size: 82 Copynumber: 1.9 Consensus size: 82
9410519 TTAATTTAAA
*
9410529 TATTAAAATATTAAAATTT-AGTAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATT
1 TATTAAAATATTAAAATTTGA-TAAATAATGTATTATCAAATCAACACATTATTTGATAAAAATT
**
9410593 GTAATATAATAGTTTTTT
65 AAAATATAATAGTTTTTT
* *
9410611 TATTTAAATATTAAAATTTGATAAATAATGTATTATCAAATCAACACATTATTTGATATAAATTA
1 TATTAAAATATTAAAATTTGATAAATAATGTATTATCAAATCAACACATTATTTGATAAAAATTA
9410676 AAATATAATA
66 AAATATAATA
9410686 ATAATCTTTT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
82 68 0.99
83 1 0.01
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (82 bp):
TATTAAAATATTAAAATTTGATAAATAATGTATTATCAAATCAACACATTATTTGATAAAAATTA
AAATATAATAGTTTTTT
Found at i:9410857 original size:16 final size:16
Alignment explanation
Indices: 9410821--9410855 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
9410811 CTTAATTTTA
*
9410821 AAATTAATTTCAACTT
1 AAATTAATTTCAAATT
9410837 AAATTAATTTTCAAATT
1 AAATTAA-TTTCAAATT
9410854 AA
1 AA
9410856 TTTTTACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (16 bp):
AAATTAATTTCAAATT
Found at i:9410868 original size:28 final size:28
Alignment explanation
Indices: 9410812--9410868 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
9410802 AACATGTACC
**
9410812 TTAATTTTAAAATTAATTTCAACTTAAA
1 TTAATTTTAAAATTAATTTCAACACAAA
* **
9410840 TTAATTTTCAAATTAATTTTTACACAAA
1 TTAATTTTAAAATTAATTTCAACACAAA
9410868 T
1 T
9410869 ATTCTTCATG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (28 bp):
TTAATTTTAAAATTAATTTCAACACAAA
Found at i:9413848 original size:26 final size:25
Alignment explanation
Indices: 9413812--9413861 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
9413802 TTATTTTCAT
9413812 TTATTTCTTAAAATTAATTTTAATTA
1 TTATTTCTTAAAA-TAATTTTAATTA
* * *
9413838 TTATTTTTTAATATATTTTTAATT
1 TTATTTCTTAAAATAATTTTAATT
9413862 TGTCAATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (25 bp):
TTATTTCTTAAAATAATTTTAATTA
Found at i:9414695 original size:59 final size:59
Alignment explanation
Indices: 9414601--9414944 Score: 212
Period size: 59 Copynumber: 5.7 Consensus size: 59
9414591 CATTGCATGA
* * ** * *
9414601 CAACACAAAAAAATT-AATTTTTTACCAAATAAAAAAGGGGGTGTCGGCCAT-GCAATGGC
1 CAACACAAAAAAATTCGATTTTTTATCTGA-CAAAAAGGGGGTGTCGACCATGGC-ATGGC
* * * *
9414660 CAACA-ATAAAAATTCGAATTTTTTATCTGACAAAAAAGGGGTGTCGACCATTGCATAGC
1 CAACACAAAAAAATTCG-ATTTTTTATCTGACAAAAAGGGGGTGTCGACCATGGCATGGC
** * * * * * * *
9414719 CAACACAAAAAAAAACTGATTTTTTACCAGATAAAAAGGTGGTGTAGATCATGGCATGAC
1 CAACACAAAAAAATTC-GATTTTTTATCTGACAAAAAGGGGGTGTCGACCATGGCATGGC
* *** *
9414779 CAACACAAAAAAAAATTCGATTTTTTATCTAACAAAAAGAAAGTGTCGGCCATGGCATGGC
1 CAACAC--AAAAAAATTCGATTTTTTATCTGACAAAAAGGGGGTGTCGACCATGGCATGGC
** * * * * * * **
9414840 CAACACCTAAAAATTTGATTTATTAT-TCAAATAAAAAGGGGTGTTGACCAT-GCAATGAT
1 CAACACAAAAAAATTCGATTTTTTATCTGACA-AAAAGGGGGTGTCGACCATGGC-ATGGC
* ** * *
9414899 CAATACCAAAAAAATTACTTTTTTTTATCAGACAAAAAAGGGGTGT
1 CAACA-CAAAAAAATT-CGATTTTTTATCTGACAAAAAGGGGGTGT
9414945 TGGCCATTGG
Statistics
Matches: 214, Mismatches: 59, Indels: 22
0.73 0.20 0.07
Matches are distributed among these distances:
58 13 0.06
59 68 0.32
60 65 0.30
61 58 0.27
62 10 0.05
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.26
Consensus pattern (59 bp):
CAACACAAAAAAATTCGATTTTTTATCTGACAAAAAGGGGGTGTCGACCATGGCATGGC
Found at i:9414731 original size:60 final size:58
Alignment explanation
Indices: 9414582--9414953 Score: 231
Period size: 60 Copynumber: 6.2 Consensus size: 58
9414572 AGGGAAAATT
* * * * * *
9414582 GGTGTCGGTCATTGCATGACAACACAAAAAAATT-AATTTTTTACCAAATAAAAAAGGG
1 GGTGTCGGCCATTGCATGCCAACACAAAAAAATTCGATTTTTTATCAGACAAAAAA-GG
* *
9414640 GGTGTCGGCCA-TGCAATGGCCAACA-ATAAAAATTCGAATTTTTTATCTGACAAAAAAGG
1 GGTGTCGGCCATTGC-AT-GCCAACACAAAAAAATTCG-ATTTTTTATCAGACAAAAAAGG
* ** * *
9414699 GGTGTCGACCATTGCATAGCCAACACAAAAAAAAACTGATTTTTTACCAGA-TAAAAAGG
1 GGTGTCGGCCATTGCAT-GCCAACACAAAAAAATTC-GATTTTTTATCAGACAAAAAAGG
* ** * *
9414758 TGGTGTAGATCATGGCATGACCAACACAAAAAAAAATTCGATTTTTTATCTA-AC-AAAAAGAA
1 -GGTGTCGGCCATTGCATG-CCAACAC--AAAAAAATTCGATTTTTTATC-AGACAAAAAAG-G
* * ** * *
9414820 AGTGTCGGCCATGGCATGGCCAACACCTAAAAATTTGATTTATTATTCA-A-ATAAAAAGG
1 GGTGTCGGCCATTGCAT-GCCAACACAAAAAAATTCGATTTTTTA-TCAGACA-AAAAAGG
* * * * **
9414879 GGTGTTGACCA-TGCAATGATCAATACCAAAAAAATTACTTTTTTTTATCAGACAAAAAAGG
1 GGTGTCGGCCATTGC-ATG-CCAACA-CAAAAAAATT-CGATTTTTTATCAGACAAAAAAGG
*
9414940 GGTGTTGGCCATTG
1 GGTGTCGGCCATTG
9414954 GGTGTCGACC
Statistics
Matches: 244, Mismatches: 45, Indels: 46
0.73 0.13 0.14
Matches are distributed among these distances:
57 3 0.01
58 23 0.09
59 66 0.27
60 77 0.32
61 62 0.25
62 13 0.05
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (58 bp):
GGTGTCGGCCATTGCATGCCAACACAAAAAAATTCGATTTTTTATCAGACAAAAAAGG
Found at i:9414950 original size:120 final size:121
Alignment explanation
Indices: 9414582--9414951 Score: 289
Period size: 120 Copynumber: 3.1 Consensus size: 121
9414572 AGGGAAAATT
* * * * * * *
9414582 GGTGTCGGTCATTGCAT-GACAACAC--AAAAAAATTAATTTTTTACCAAATAAAAAAGGGGGTG
1 GGTGTCGGCCATGGCATAGCCAACACAAAAAAAAACTGATTTATTACCAAAT-AAAAAGGTGGTG
* * * * *
9414644 TCGGCCAT-GCAATGGCC-A-AC-AATAAAAATTCGAATTTTTTATCTGACAAAAAAGG
65 TAGACCATGGC-ATGACCAACACAAAAAAAAATTCG-ATTTTTTATCAGACAAAAAAGG
* * * *
9414699 GGTGTCGACCATTGCATAGCCAACACAAAAAAAAACTGATTTTTTACCAGATAAAAAGGTGGTGT
1 GGTGTCGGCCATGGCATAGCCAACACAAAAAAAAACTGATTTATTACCAAATAAAAAGGTGGTGT
* *
9414764 AGATCATGGCATGACCAACACAAAAAAAAATTCGATTTTTTATCTA-AC-AAAAAGAA
66 AGACCATGGCATGACCAACACAAAAAAAAATTCGATTTTTTATC-AGACAAAAAAG-G
* * ** ** *
9414820 AGTGTCGGCCATGGCATGGCCAACAC-CTAAAAATTTGATTTATTATTCAAATAAAAAGG-GGTG
1 GGTGTCGGCCATGGCATAGCCAACACAAAAAAAAACTGATTTATTA-CCAAATAAAAAGGTGGTG
* * * * **
9414883 TTGACCAT-GCAATGATCAATAC-CAAAAAAATTACTTTTTTTTATCAGACAAAAAAGG
65 TAGACCATGGC-ATGACCAACACAAAAAAAAATT-CGATTTTTTATCAGACAAAAAAGG
*
9414940 GGTGTTGGCCAT
1 GGTGTCGGCCAT
9414952 TGGGTGTCGA
Statistics
Matches: 204, Mismatches: 35, Indels: 25
0.77 0.13 0.09
Matches are distributed among these distances:
117 15 0.07
118 7 0.03
119 33 0.16
120 85 0.42
121 53 0.26
122 11 0.05
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (121 bp):
GGTGTCGGCCATGGCATAGCCAACACAAAAAAAAACTGATTTATTACCAAATAAAAAGGTGGTGT
AGACCATGGCATGACCAACACAAAAAAAAATTCGATTTTTTATCAGACAAAAAAGG
Found at i:9415105 original size:54 final size:54
Alignment explanation
Indices: 9415006--9415122 Score: 139
Period size: 55 Copynumber: 2.1 Consensus size: 54
9414996 TTTATTTGAC
9415006 AAAAAGGGGTGTCGACCATGACATAACCAACACCAAAATTTTTTTTGTAAGATA
1 AAAAAGGGGTGTCGACCATGACATAACCAACACCAAAATTTTTTTTGTAAGATA
* * * * **
9415060 AAAAAGGGAGTGTC-AGTCATGGCATGACCAACACC-AATTTTTTTTTGTCGGATA
1 AAAAAGGG-GTGTCGA-CCATGACATAACCAACACCAAAATTTTTTTTGTAAGATA
9415114 AGAAAAGGG
1 A-AAAAGGG
9415123 TGTTGTCCAT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
54 26 0.48
55 28 0.52
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (54 bp):
AAAAAGGGGTGTCGACCATGACATAACCAACACCAAAATTTTTTTTGTAAGATA
Found at i:9419640 original size:18 final size:18
Alignment explanation
Indices: 9419617--9419651 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9419607 GCCACTTGTA
9419617 TTTTATAAAAAATATATT
1 TTTTATAAAAAATATATT
* *
9419635 TTTTATTAAATATATAT
1 TTTTATAAAAAATATAT
9419652 AAACTTTAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTATAAAAAATATATT
Found at i:9430470 original size:29 final size:30
Alignment explanation
Indices: 9430421--9430477 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
9430411 GAACCAAATC
*
9430421 AAATCAAAATTTCATGTATAAAAATATACA
1 AAATCAAAATTTCATATATAAAAATATACA
*
9430451 AAATCAAAATTT-ATATATAAAATTATA
1 AAATCAAAATTTCATATATAAAAATATA
9430478 TATTAAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (30 bp):
AAATCAAAATTTCATATATAAAAATATACA
Found at i:9434643 original size:57 final size:58
Alignment explanation
Indices: 9434576--9434694 Score: 179
Period size: 58 Copynumber: 2.1 Consensus size: 58
9434566 ACCTATCAAC
* *
9434576 AAACTAAACCCAAATA-TTTTAAACCCAAATATAATTTCATTCTTCAAA-AACATTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCT-AAATAACACTCAT
* *
9434633 AAACTAAACCCAAATATTTTTAAACCCAAGTATAATTTTATTCCTAAATAACACTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCAT
9434691 AAAC
1 AAAC
9434695 AACTCCTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
57 19 0.34
58 37 0.66
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (58 bp):
AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCAT
Found at i:9436779 original size:195 final size:195
Alignment explanation
Indices: 9436383--9436830 Score: 575
Period size: 195 Copynumber: 2.3 Consensus size: 195
9436373 GAAACCGACG
* * *
9436383 CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGATAGCTCGTGTGAGCAGTATCGTGAGTCG
1 CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGACTCG
*
9436448 GGAAATGAGAAAAGAATCCAAGAATGGATTACAGGCCCTACGATGGCTGAGATTTATGCATAAGT
66 GGAAATGAGAAAAGAATCCAAGAATGGATTACAGGCCCTACGATGGCTGAGATCTATGCATAAGT
* * * * * *
9436513 GCATATTCTTGACAACTCGTGTGAGCAGCATCGTTAGGGAACAATTATATGAACAGATACCGTAT
131 GCATACTCTCGACAACTCGTGTGAGCAGCATCGTTAGGGAACAATTATATCAACAGACACCATAC
9436578 CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGACTCG
1 CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGACTCG
* * * * * * *
9436643 GGAAA-GAGATAAGGATCCTA-AATGGATTATAGGCCCTATGATGGCT-AGGA-CTATGCTTTA-
66 GGAAATGAGAAAAGAATCCAAGAATGGATTACAGGCCCTACGATGGCTGA-GATCTATGCATAAG
* *
9436703 TGCATACTCTCGACAGCTCGTGTGAGCAGCATCGTTAGGGAACAGTTTATAGTACAGACAGACAC
130 TGCATACTCTCGACAACTCGTGTGAGCAGCATCGTTAGGGAACA-ATTATA-T-CA-ACAGACAC
9436768 CATAC
191 CATAC
* ** * * *
9436773 CGATGGCTG-GGATACCGCATACGTTATGAGTCCTCGACAACTCATGTGAACAGCATCG
1 CGATGGCTGAGG-TACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCG
9436831 AGCACTGGTA
Statistics
Matches: 222, Mismatches: 25, Indels: 12
0.86 0.10 0.05
Matches are distributed among these distances:
191 41 0.18
192 13 0.06
193 27 0.12
194 15 0.07
195 126 0.57
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (195 bp):
CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGACTCG
GGAAATGAGAAAAGAATCCAAGAATGGATTACAGGCCCTACGATGGCTGAGATCTATGCATAAGT
GCATACTCTCGACAACTCGTGTGAGCAGCATCGTTAGGGAACAATTATATCAACAGACACCATAC
Found at i:9439824 original size:19 final size:19
Alignment explanation
Indices: 9439802--9439846 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
9439792 TTATATTAGG
9439802 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
9439821 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
9439840 ATTTAAT
1 ATTTAAT
9439847 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:9440696 original size:21 final size:22
Alignment explanation
Indices: 9440657--9440703 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
9440647 TTTCTATATC
9440657 TTTTAATTCTATTTACTTTTAT
1 TTTTAATTCTATTTACTTTTAT
* *
9440679 TTTTAATTTTGTTT-CTTTTAT
1 TTTTAATTCTATTTACTTTTAT
9440700 TTTT
1 TTTT
9440704 CCTTAGATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTAATTCTATTTACTTTTAT
Found at i:9445038 original size:19 final size:19
Alignment explanation
Indices: 9445016--9445060 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
9445006 TTATATTAGG
9445016 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
9445035 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
9445054 ATTTAAT
1 ATTTAAT
9445061 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:9445882 original size:15 final size:16
Alignment explanation
Indices: 9445862--9445891 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9445852 CTTCCCTATT
9445862 TTCTATTT-CTTTTAA
1 TTCTATTTACTTTTAA
9445877 TTCTATTTACTTTTA
1 TTCTATTTACTTTTA
9445892 TTTTTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (16 bp):
TTCTATTTACTTTTAA
Found at i:9450946 original size:59 final size:55
Alignment explanation
Indices: 9450870--9451015 Score: 172
Period size: 52 Copynumber: 2.6 Consensus size: 55
9450860 CCCTCCCAAA
9450870 AATCGATTGTTTATATGTTTAAATCGATTTGTTATGGTGGAATAATACTACTTCTTTTG
1 AATCGATTGTTTATATGTTTAAATCGA-TTGTTATGGTGG---AATACTACTTCTTTTG
* * ** * *
9450929 AATCGATTGTTTTTATGTTTAAATCG---GCTGCGTTGGAATACTATTTCTTTTG
1 AATCGATTGTTTATATGTTTAAATCGATTGTTATGGTGGAATACTACTTCTTTTG
*
9450981 AATCGATTATTTATATGTTTAAATCGATTGTTATG
1 AATCGATTGTTTATATGTTTAAATCGATTGTTATG
9451016 TTGCACGTCT
Statistics
Matches: 73, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
52 39 0.53
55 9 0.12
59 25 0.34
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.48
Consensus pattern (55 bp):
AATCGATTGTTTATATGTTTAAATCGATTGTTATGGTGGAATACTACTTCTTTTG
Found at i:9472998 original size:21 final size:19
Alignment explanation
Indices: 9472962--9473000 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
9472952 ATCACAAACA
*
9472962 TTTTCTTCCTCGTCATTCT
1 TTTTCTTCCTCCTCATTCT
9472981 TTTTCTCTACCTCCTCATTC
1 TTTTCT-T-CCTCCTCATTC
9473001 ACGAGTTGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 1 0.06
21 10 0.59
ACGTcount: A:0.08, C:0.36, G:0.03, T:0.54
Consensus pattern (19 bp):
TTTTCTTCCTCCTCATTCT
Found at i:9493867 original size:21 final size:21
Alignment explanation
Indices: 9493820--9493875 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
9493810 CTGGAGTTTT
9493820 TAGTATCGATAGAAGCATGAC
1 TAGTATCGATAGAAGCATGAC
* *
9493841 TTGTATCGATAGAAGTTAT-AC
1 TAGTATCGATAGAAG-CATGAC
*
9493862 TAGTATCGGTAGAA
1 TAGTATCGATAGAA
9493876 CTAGCACAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (21 bp):
TAGTATCGATAGAAGCATGAC
Found at i:9498565 original size:20 final size:19
Alignment explanation
Indices: 9498540--9498577 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
9498530 GCAAGATTTG
*
9498540 ATATTATAATAACTAATAAA
1 ATATTAAAATAA-TAATAAA
9498560 ATATTAAAATAATAATAA
1 ATATTAAAATAATAATAA
9498578 TCAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (19 bp):
ATATTAAAATAATAATAAA
Found at i:9503920 original size:173 final size:173
Alignment explanation
Indices: 9503631--9503975 Score: 618
Period size: 173 Copynumber: 2.0 Consensus size: 173
9503621 GATCTTCACC
* * *
9503631 AAACATACGCCTACCTACCTTAGACCTCATAGTTGCAAAGTTTAGCTCCACAGCATCCCAAGAGT
1 AAACATACACCTACCTACCTTAGACCTCATAGTTGCAAAGGTTAGCTCCACAGCATCCCAAGAGC
*
9503696 TGCGTGTATGGGACAACTCAAAAGTGTCATGTCCTATGAGAAGTGGTATCAGAGGTTACTTTCGA
66 TGCGTGTATGGGACAACTCAAAAGTGTCATGTCCTATAAGAAGTGGTATCAGAGGTTACTTTCGA
9503761 TTTCACTTCAAGCACTCTAACAATAAGGTAGATTGAGTGCACT
131 TTTCACTTCAAGCACTCTAACAATAAGGTAGATTGAGTGCACT
*
9503804 AAACATACACCTACCTACCTTAGACCTCATGGTTGCAAAGGTTAGCTCCACAGCATCCCAAGAGC
1 AAACATACACCTACCTACCTTAGACCTCATAGTTGCAAAGGTTAGCTCCACAGCATCCCAAGAGC
* *
9503869 TGCGTGTATGGGACAACTCAAAAGTGTCATGTCCTATAAGAAGTGGTATCAGAGTTTACTTTTGA
66 TGCGTGTATGGGACAACTCAAAAGTGTCATGTCCTATAAGAAGTGGTATCAGAGGTTACTTTCGA
*
9503934 TTTCACTTCAAGCACTCTAACGATAAGGTAGATTGAGTGCAC
131 TTTCACTTCAAGCACTCTAACAATAAGGTAGATTGAGTGCAC
9503976 AAGAATATCG
Statistics
Matches: 164, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
173 164 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.27
Consensus pattern (173 bp):
AAACATACACCTACCTACCTTAGACCTCATAGTTGCAAAGGTTAGCTCCACAGCATCCCAAGAGC
TGCGTGTATGGGACAACTCAAAAGTGTCATGTCCTATAAGAAGTGGTATCAGAGGTTACTTTCGA
TTTCACTTCAAGCACTCTAACAATAAGGTAGATTGAGTGCACT
Found at i:9513547 original size:15 final size:17
Alignment explanation
Indices: 9513515--9513551 Score: 51
Period size: 15 Copynumber: 2.2 Consensus size: 17
9513505 GAATTTAGTG
9513515 TTTATGTTTTGAGGGTTT
1 TTTATGTTTTGA-GGTTT
9513533 TTTAT-TTTTGA-GTTT
1 TTTATGTTTTGAGGTTT
9513548 TTTA
1 TTTA
9513552 GGGTTTAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.14, C:0.00, G:0.19, T:0.68
Consensus pattern (17 bp):
TTTATGTTTTGAGGTTT
Found at i:9520111 original size:9 final size:9
Alignment explanation
Indices: 9520099--9520286 Score: 118
Period size: 9 Copynumber: 20.6 Consensus size: 9
9520089 AAAATGACTA
*
9520099 AAAAATCAT
1 AAAAATTAT
*
9520108 AAAAA-AAT
1 AAAAATTAT
*
9520116 AAAAATGAT
1 AAAAATTAT
*
9520125 ATAAACTTAT
1 A-AAAATTAT
*
9520135 AAATATTAT
1 AAAAATTAT
9520144 CAAAAA-TAT
1 -AAAAATTAT
*
9520153 AAAAACCTA-
1 AAAAA-TTAT
9520162 AAAAATTAT
1 AAAAATTAT
9520171 AAAAATTAT
1 AAAAATTAT
9520180 AAAAATTAT
1 AAAAATTAT
9520189 -AAAATTAAT
1 AAAAATT-AT
*
9520198 AAAACATATTT
1 AAAA-AT-TAT
*
9520209 AAAATTTTAT
1 AAAA-ATTAT
* *
9520219 CAAAATCAT
1 AAAAATTAT
9520228 AAAAA-TAT
1 AAAAATTAT
9520236 AAAAATTAT
1 AAAAATTAT
**
9520245 TTAAATTAAT
1 AAAAATT-AT
*
9520255 ATAAACTTAT
1 A-AAAATTAT
*
9520265 AACAATTAT
1 AAAAATTAT
*
9520274 -AAAATCAT
1 AAAAATTAT
9520282 AAAAA
1 AAAAA
9520287 CTTGAACTAG
Statistics
Matches: 139, Mismatches: 26, Indels: 28
0.72 0.13 0.15
Matches are distributed among these distances:
8 33 0.24
9 67 0.48
10 26 0.19
11 12 0.09
12 1 0.01
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:9520231 original size:39 final size:38
Alignment explanation
Indices: 9520135--9520249 Score: 98
Period size: 38 Copynumber: 3.1 Consensus size: 38
9520125 ATAAACTTAT
*
9520135 AAATATTATCAAAAAT-ATAAAAACCTA-AAAAATTA--TA
1 AAATTTTAT-AAAAATCATAAAAA--TATAAAAATTATTTA
* * *
9520172 AAA-ATTATAAAAATTATAAAATTAATAAAACA-TATTTA
1 AAATTTTATAAAAATCATAAAAAT-ATAAAA-ATTATTTA
*
9520210 AAATTTTATCAAAATCATAAAAATATAAAAATTATTTA
1 AAATTTTATAAAAATCATAAAAATATAAAAATTATTTA
9520248 AA
1 AA
9520250 TTAATATAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
34 1 0.02
35 7 0.11
36 17 0.26
37 5 0.08
38 19 0.29
39 16 0.25
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (38 bp):
AAATTTTATAAAAATCATAAAAATATAAAAATTATTTA
Found at i:9520258 original size:29 final size:29
Alignment explanation
Indices: 9520168--9520273 Score: 78
Period size: 29 Copynumber: 3.7 Consensus size: 29
9520158 CCTAAAAAAT
*
9520168 TATAAAAATTATAAAAATTA-TAAAATTAA
1 TATAAAAA-TATAAAAATTATTTAAATTAA
* * *
9520197 TA-AAACATATTTAAAATT-TTATCAA--AA
1 TATAAAAATA-TAAAAATTATT-TAAATTAA
9520224 TCATAAAAATATAAAAATTATTTAAATTAA
1 T-ATAAAAATATAAAAATTATTTAAATTAA
** *
9520254 TATAAACTTATAACAATTAT
1 TATAAAAATATAAAAATTAT
9520274 AAAATCATAA
Statistics
Matches: 59, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
27 5 0.08
28 23 0.39
29 28 0.47
30 3 0.05
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (29 bp):
TATAAAAATATAAAAATTATTTAAATTAA
Found at i:9520729 original size:9 final size:9
Alignment explanation
Indices: 9520715--9520884 Score: 71
Period size: 9 Copynumber: 18.6 Consensus size: 9
9520705 TCAGTTCAAG
*
9520715 TTTTTATGA
1 TTTTTATAA
9520724 TTTTTATAA
1 TTTTTATAA
9520733 TTTTATATAA
1 TTTT-TATAA
* *
9520743 ATTTTA-AT
1 TTTTTATAA
9520751 TTTTTATAA
1 TTTTTATAA
9520760 TTTTTTAATAA
1 -TTTTT-ATAA
* * *
9520771 TTCTAATACG
1 TTTTTATA-A
*
9520781 TTTTTTTAA
1 TTTTTATAA
9520790 -TTTTA-AA
1 TTTTTATAA
*
9520797 TATTTTAAAAA
1 T-TTTT-ATAA
*
9520808 GTTTTATTAA
1 TTTTTA-TAA
* *
9520818 TTTTTAGAT
1 TTTTTATAA
9520827 TTTTTA-AA
1 TTTTTATAA
***
9520835 AAATTATAA
1 TTTTTATAA
*
9520844 GTTTTAATAA
1 -TTTTTATAA
*
9520854 TTTATATAA
1 TTTTTATAA
*
9520863 TTTTAATAA
1 TTTTTATAA
*
9520872 -TTTTATGA
1 TTTTTATAA
9520880 TTTTT
1 TTTTT
9520885 TTTATTTTTT
Statistics
Matches: 116, Mismatches: 32, Indels: 26
0.67 0.18 0.15
Matches are distributed among these distances:
7 2 0.02
8 20 0.17
9 50 0.43
10 38 0.33
11 6 0.05
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:9520764 original size:17 final size:17
Alignment explanation
Indices: 9520715--9520764 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
9520705 TCAGTTCAAG
*
9520715 TTTTTATGATTTTTATAAT
1 TTTTTAT-AATTTT-TAAT
* *
9520734 TTTATATAAATTTTAAT
1 TTTTTATAATTTTTAAT
9520751 TTTTTATAATTTTT
1 TTTTTATAATTTTT
9520765 TAATAATTCT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (17 bp):
TTTTTATAATTTTTAAT
Found at i:9520794 original size:28 final size:28
Alignment explanation
Indices: 9520752--9520821 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
9520742 AATTTTAATT
* * *
9520752 TTTTA-TAATTTTTTAATAATTCTAATACG
1 TTTTATTAA-TTTTAAAT-ATTCTAAAAAG
* *
9520781 TTTTTTTAATTTTAAATATTTTAAAAAG
1 TTTTATTAATTTTAAATATTCTAAAAAG
9520809 TTTTATTAATTTT
1 TTTTATTAATTTT
9520822 TAGATTTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
28 20 0.59
29 11 0.32
30 3 0.09
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (28 bp):
TTTTATTAATTTTAAATATTCTAAAAAG
Found at i:9520823 original size:29 final size:29
Alignment explanation
Indices: 9520752--9520836 Score: 84
Period size: 29 Copynumber: 3.0 Consensus size: 29
9520742 AATTTTAATT
* * * *
9520752 TTTTA-TAATTTTTTAATAATTCTAATACG
1 TTTTATTAATTTTTAAAT-ATTTTAAAAAG
*
9520781 TTTTTTTAA-TTTTAAATATTTTAAAAAG
1 TTTTATTAATTTTTAAATATTTTAAAAAG
* *
9520809 TTTTATTAATTTTTAGATTTTTTAAAAA
1 TTTTATTAATTTTTAAATATTTTAAAAA
9520837 ATTATAAGTT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
28 16 0.35
29 27 0.59
30 3 0.07
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (29 bp):
TTTTATTAATTTTTAAATATTTTAAAAAG
Found at i:9520876 original size:19 final size:19
Alignment explanation
Indices: 9520723--9520877 Score: 62
Period size: 19 Copynumber: 8.4 Consensus size: 19
9520713 AGTTTTTATG
9520723 ATTTT-TATAATTTTATATAA
1 ATTTTATATAATTTTA-AT-A
*
9520743 ATTTTA-AT--TTTTTATA
1 ATTTTATATAATTTTAATA
* *
9520759 ATTTTTTAATAATTCTAATA
1 ATTTTAT-ATAATTTTAATA
* *
9520779 CGTTTT-TTTAATTTTAA-A
1 -ATTTTATATAATTTTAATA
* *
9520797 TATTTTA-AAAAGTTTTATTA
1 -ATTTTATATAA-TTTTAATA
* *
9520817 ATTTT-TAGATTTTTTAA-A
1 ATTTTATATA-ATTTTAATA
** *
9520835 AAATTATA-AGTTTTAATA
1 ATTTTATATAATTTTAATA
9520853 A-TTTATATAATTTTAATA
1 ATTTTATATAATTTTAATA
9520871 ATTTTAT
1 ATTTTAT
9520878 GATTTTTTTT
Statistics
Matches: 100, Mismatches: 20, Indels: 31
0.66 0.13 0.21
Matches are distributed among these distances:
16 6 0.06
17 13 0.13
18 30 0.30
19 32 0.32
20 15 0.15
21 4 0.04
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (19 bp):
ATTTTATATAATTTTAATA
Found at i:9520916 original size:12 final size:11
Alignment explanation
Indices: 9520872--9520906 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
9520862 ATTTTAATAA
9520872 TTTTATGATTTT
1 TTTTAT-ATTTT
9520884 TTTTAT-TTTT
1 TTTTATATTTT
9520894 TTTTATATTTT
1 TTTTATATTTT
9520905 TT
1 TT
9520907 ATGAGTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 6 0.27
12 6 0.27
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (11 bp):
TTTTATATTTT
Found at i:9523387 original size:45 final size:48
Alignment explanation
Indices: 9523331--9523425 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 48
9523321 ATTTTAGAGA
* **
9523331 TACACAAAACAAATATGTATTATATATGAGTG-TT-TTTTT-AGAATT
1 TACAAAAAACAAATACATATTATATATGAGTGCTTCTTTTTGAGAATT
*
9523376 TACAAAAAACAAATGCATATTATATATGAGTGCTTTCTTTTTGAGAATT
1 TACAAAAAACAAATACATATTATATATGAGTGC-TTCTTTTTGAGAATT
9523425 T
1 T
9523426 TTTTTGCAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
45 28 0.67
47 2 0.05
48 5 0.12
49 7 0.17
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (48 bp):
TACAAAAAACAAATACATATTATATATGAGTGCTTCTTTTTGAGAATT
Found at i:9531190 original size:29 final size:29
Alignment explanation
Indices: 9531120--9531452 Score: 219
Period size: 30 Copynumber: 11.2 Consensus size: 29
9531110 AAAACGGTGA
* *
9531120 TTTTGGACACTTCGAGGG-AAAAACGGTAAT
1 TTTTGGA-AATTCGAGGGTAAAAA-TGTAAT
** *
9531150 TTTTGGATGTTCGGGGGTAAAAATGTAA-
1 TTTTGGAAATTCGAGGGTAAAAATGTAAT
*
9531178 TTTTGGAAAGTTC-ATGGTCAAAAATGTAATT
1 TTTTGGAAA-TTCGAGGGT-AAAAATGTAA-T
* * *
9531209 TTTTGGACATCCGAGGGT-AAAATGGTAAC
1 TTTTGGAAATTCGAGGGTAAAAAT-GTAAT
** * *
9531238 TTTTCAAAATTTTGA-GGTCAAAAATGAAAT
1 TTTTGGAAA-TTCGAGGGT-AAAAATGTAAT
* *
9531268 TTTTGGACATCCGAGGGT-AAAATGGTAAT
1 TTTTGGAAATTCGAGGGTAAAAAT-GTAAT
** * *
9531297 TTTTGGAAATTTTAGGGTAAAAAATGGATT
1 TTTTGGAAATTCGAGGGT-AAAAATGTAAT
* * * *
9531327 TTTTAGACATTTGAAGGTAAAAATGTAAT
1 TTTTGGAAATTCGAGGGTAAAAATGTAAT
* *
9531356 TTTTGTAAAGTTTGAGGGTAAAAATGTAAT
1 TTTTGGAAA-TTCGAGGGTAAAAATGTAAT
*
9531386 TTTTAGAAAGTTCGAGGGTAAAAATGTAAT
1 TTTTGGAAA-TTCGAGGGTAAAAATGTAAT
* ** * * *
9531416 TTTTGAAAAGTTTAAGAGCAAAACTGTAAT
1 TTTTGGAAA-TTCGAGGGTAAAAATGTAAT
9531446 TTTTGGA
1 TTTTGGA
9531453 CATTTTAGGG
Statistics
Matches: 236, Mismatches: 52, Indels: 30
0.74 0.16 0.09
Matches are distributed among these distances:
28 15 0.06
29 74 0.31
30 125 0.53
31 22 0.09
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.35
Consensus pattern (29 bp):
TTTTGGAAATTCGAGGGTAAAAATGTAAT
Found at i:9531406 original size:60 final size:60
Alignment explanation
Indices: 9531145--9531456 Score: 280
Period size: 59 Copynumber: 5.3 Consensus size: 60
9531135 GGGAAAAACG
* ** * * * *
9531145 GTAATTTTTGGATGTTCGGGGGTAAAAATGTAA-TTTTGGAAAG-TTCATGGTCAAAAAT
1 GTAATTTTTAGACATTCGAGGGTAAAAATGTAATTTTTGAAAAGTTTGAGGGTCAAAAAT
* * * * *
9531203 GTAATTTTTTGGACATCCGAGGGT-AAAATGGTAACTTTTCAAAATTTTGA-GGTCAAAAAT
1 GTAA-TTTTTAGACATTCGAGGGTAAAAAT-GTAATTTTTGAAAAGTTTGAGGGTCAAAAAT
* * * * * *
9531263 GAAATTTTTGGACATCCGAGGGT-AAAATGGTAATTTTTGGAAA-TTTTAGGGTAAAAAAT
1 GTAATTTTTAGACATTCGAGGGTAAAAAT-GTAATTTTTGAAAAGTTTGAGGGTCAAAAAT
* * * * *
9531322 GGATTTTTTAGACATTTGAAGGTAAAAATGTAATTTTTGTAAAGTTTGAGGGT-AAAAAT
1 GTAATTTTTAGACATTCGAGGGTAAAAATGTAATTTTTGAAAAGTTTGAGGGTCAAAAAT
* * * *
9531381 GTAATTTTTAGAAAGTTCGAGGGTAAAAATGTAATTTTTGAAAAGTTTAAGAG-CAAAACT
1 GTAATTTTTAGACA-TTCGAGGGTAAAAATGTAATTTTTGAAAAGTTTGAGGGTCAAAAAT
*
9531441 GTAATTTTTGGACATT
1 GTAATTTTTAGACATT
9531457 TTAGGGACCT
Statistics
Matches: 212, Mismatches: 33, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
58 13 0.06
59 113 0.53
60 83 0.39
61 3 0.01
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.36
Consensus pattern (60 bp):
GTAATTTTTAGACATTCGAGGGTAAAAATGTAATTTTTGAAAAGTTTGAGGGTCAAAAAT
Found at i:9534104 original size:208 final size:209
Alignment explanation
Indices: 9533654--9534254 Score: 868
Period size: 208 Copynumber: 2.9 Consensus size: 209
9533644 TTCTTCTTTG
* * * * * *
9533654 TATCTCATCAGGAAGATGACCATTTTATTGCTTTGACTTGCTTCTTAGTATCTCATCAGGAAGCT
1 TATCTCATCAGGAAGGTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCT
* * * * *
9533719 GGGGTTCGAAGTTTCGCTCA-TATCGAACTTTGGTTTCATTGATTTGGTCTACTTCTAAGTATCT
66 GGGGTTCGAAGTTTAGCTCACT-TTGAGC-CTGGTTTCATTGATTTGGTCTACTTCTCAGTATCT
* * *
9533783 CATCAGGAAGATGACCGCCTC-GTTGTTTTGATCCACTTCTCTGTATCTTATCAGGAAGACGGAT
129 CATCAGGAAGATGACCGCCTCACTTGTTTTGATCCACTTCTCTGTGTCTCATCAGGAAGACGGAT
*
9533847 CTAGTTCACTCCTCTG
194 CTAGTTCACTCCTCTA
*
9533863 TATCTCATTAGGAAGGTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCT
1 TATCTCATCAGGAAGGTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCT
* * *
9533928 GGGGTTCGAAGATTT-GCTCACTTTGAGCCTAGCTTCACTGATTTGGTCTACTTCTCAGTATCTC
66 GGGGTTCGAAG-TTTAGCTCACTTTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTC
* * * *
9533992 ATCAGAAAGATGATCGACTCACTTGTTTTGATCCACTTCTCTGTGTCTCATCAGGAAGA-GGATT
130 ATCAGGAAGATGACCGCCTCACTTGTTTTGATCCACTTCTCTGTGTCTCATCAGGAAGACGGATC
* *
9534056 TGGTTCACTTCTCTA
195 TAGTTCACTCCTCTA
* * *
9534071 TATCTCATCAAGAAGGTAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTT
1 TATCTCATCAGGAAGGTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCT
* *
9534136 GGGGTTCAAAGTTTAGCTCACTTTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTTA
66 GGGGTTCGAAGTTTAGCTCACTTTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTCA
*
9534201 TCAGGAAGATGACCGCCTCACTTGTTTTGATCCACTTCTCTATGTCTCATCAGG
131 TCAGGAAGATGACCGCCTCACTTGTTTTGATCCACTTCTCTGTGTCTCATCAGG
9534255 TTCGGGTAAG
Statistics
Matches: 351, Mismatches: 37, Indels: 9
0.88 0.09 0.02
Matches are distributed among these distances:
207 3 0.01
208 231 0.66
209 113 0.32
210 4 0.01
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (209 bp):
TATCTCATCAGGAAGGTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCT
GGGGTTCGAAGTTTAGCTCACTTTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTCA
TCAGGAAGATGACCGCCTCACTTGTTTTGATCCACTTCTCTGTGTCTCATCAGGAAGACGGATCT
AGTTCACTCCTCTA
Found at i:9534698 original size:50 final size:50
Alignment explanation
Indices: 9534583--9534817 Score: 219
Period size: 50 Copynumber: 4.7 Consensus size: 50
9534573 GGTATGAGAC
* * *
9534583 TCGCCGTTGCGGCCTCAATTTTTCCCGTCATAT-TTTTAAGGTA-CAAGGT
1 TCGCCGTTGCGGCCTCAATCTTTCCCATCATATCTTTTAAGGTACCGA-GT
* * * *
9534632 TTGCCGTTGCGACCTCAATCTTTCCCATAATGTCTTTTAAGGTACCGAGT
1 TCGCCGTTGCGGCCTCAATCTTTCCCATCATATCTTTTAAGGTACCGAGT
* * * *
9534682 TCGTCGTTGTGGCCTCAA-CTTTTCCCTTCACATCTTCTT-AGGTACCGAGT
1 TCGCCGTTGCGGCCTCAATC-TTTCCCATCATATCTT-TTAAGGTACCGAGT
* * *
9534732 TCGCCGTTGCGGCCGCAACCTTTCCCATCATATCTTCTAAGGTACC-AGAT
1 TCGCCGTTGCGGCCTCAATCTTTCCCATCATATCTTTTAAGGTACCGAG-T
* * * * * *
9534782 TCGTCGTCGCGTCCTCAATCATTCCCTTCAAATCTT
1 TCGCCGTTGCGGCCTCAATCTTTCCCATCATATCTT
9534818 CATGGTATCG
Statistics
Matches: 150, Mismatches: 29, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
49 31 0.21
50 114 0.76
51 5 0.03
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.35
Consensus pattern (50 bp):
TCGCCGTTGCGGCCTCAATCTTTCCCATCATATCTTTTAAGGTACCGAGT
Found at i:9534755 original size:100 final size:99
Alignment explanation
Indices: 9534587--9534799 Score: 243
Period size: 100 Copynumber: 2.1 Consensus size: 99
9534577 TGAGACTCGC
* * * * *
9534587 CGTTGCGGCCTCAATTTTTCCCGTCATATTTTTAAGGTACAAGGTTTGCCGTTGCGACCTCAATC
1 CGTTGCGGCCTCAACTTTTCCCGTCACATTTTTAAGGTACAAGGTTCGCCGTTGCGACCGCAACC
* *
9534652 TTTCCCATAATGTCTTTTAAGGTACC-GAGTTCGT
66 TTTCCCATAATATCTTCTAAGGTACCAGA-TTCGT
* * * *
9534686 CGTTGTGGCCTCAACTTTTCCCTTCACATCTTCTT-AGGTAC-CGAGTTCGCCGTTGCGGCCGCA
1 CGTTGCGGCCTCAACTTTTCCCGTCACAT-TT-TTAAGGTACAAG-GTTCGCCGTTGCGACCGCA
*
9534749 ACCTTTCCCATCATATCTTCTAAGGTACCAGATTCGT
63 ACCTTTCCCATAATATCTTCTAAGGTACCAGATTCGT
* *
9534786 CGTCGCGTCCTCAA
1 CGTTGCGGCCTCAA
9534800 TCATTCCCTT
Statistics
Matches: 95, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
99 26 0.27
100 65 0.68
101 4 0.04
ACGTcount: A:0.18, C:0.29, G:0.19, T:0.34
Consensus pattern (99 bp):
CGTTGCGGCCTCAACTTTTCCCGTCACATTTTTAAGGTACAAGGTTCGCCGTTGCGACCGCAACC
TTTCCCATAATATCTTCTAAGGTACCAGATTCGT
Found at i:9535749 original size:18 final size:18
Alignment explanation
Indices: 9535728--9535776 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
9535718 TCTCCTCGAC
9535728 CTCTCTTTTTCTTTTTCT
1 CTCTCTTTTTCTTTTTCT
* *
9535746 CTCTCTTTTTATTTTTTT
1 CTCTCTTTTTCTTTTTCT
*
9535764 C-CTTTTTTTCTTT
1 CTCTCTTTTTCTTT
9535777 CCTTTTTTCC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 10 0.37
18 17 0.63
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (18 bp):
CTCTCTTTTTCTTTTTCT
Found at i:9535779 original size:13 final size:13
Alignment explanation
Indices: 9535738--9535799 Score: 52
Period size: 13 Copynumber: 4.6 Consensus size: 13
9535728 CTCTCTTTTT
* *
9535738 CTTTTTCTCTCTC
1 CTTTTTTTCTTTC
* *
9535751 TTTTTATTTTTTTC
1 CTTTT-TTTCTTTC
9535765 CTTTTTTTCTTTC
1 CTTTTTTTCTTTC
* *
9535778 CTTTTTTCCTTTT
1 CTTTTTTTCTTTC
9535791 CTTTCTTTT
1 CTTT-TTTT
9535800 TTATTCTTTT
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
13 26 0.68
14 12 0.32
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.76
Consensus pattern (13 bp):
CTTTTTTTCTTTC
Found at i:9535782 original size:21 final size:22
Alignment explanation
Indices: 9535758--9535798 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
9535748 CTCTTTTTAT
9535758 TTTTTTCCTTTT-TTTCTTTCC
1 TTTTTTCCTTTTCTTTCTTTCC
9535779 TTTTTTCCTTTTCTTTCTTT
1 TTTTTTCCTTTTCTTTCTTT
9535799 TTTATTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTTTTCCTTTTCTTTCTTTCC
Found at i:9535790 original size:27 final size:27
Alignment explanation
Indices: 9535760--9535812 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
9535750 CTTTTTATTT
9535760 TTTTCCTTT-TTTTCTT-TCCTTTTTTCC
1 TTTT-CTTTCTTTT-TTATCCTTTTTTCC
*
9535787 TTTTCTTTCTTTTTTATTCTTTTTTC
1 TTTTCTTTCTTTTTTATCCTTTTTTC
9535813 TTCATTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (27 bp):
TTTTCTTTCTTTTTTATCCTTTTTTCC
Found at i:9540902 original size:32 final size:32
Alignment explanation
Indices: 9540831--9540903 Score: 78
Period size: 32 Copynumber: 2.3 Consensus size: 32
9540821 CACGAAACAA
* *
9540831 AATAATTAAGCAGATAAATAATACACAAAATC
1 AATAATTAAGCAGATAAAAAATACAAAAAATC
* *
9540863 AAAAATTAA-TAGAATAAAAAATACAAAAGAAT-
1 AATAATTAAGCAG-ATAAAAAATACAAAA-AATC
9540895 AATAATTAA
1 AATAATTAA
9540904 AAATTAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
31 2 0.06
32 29 0.85
33 3 0.09
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.22
Consensus pattern (32 bp):
AATAATTAAGCAGATAAAAAATACAAAAAATC
Found at i:9541029 original size:29 final size:28
Alignment explanation
Indices: 9540957--9541051 Score: 93
Period size: 29 Copynumber: 3.3 Consensus size: 28
9540947 TAAAAATACA
**
9540957 AATTTTGGATGCCCGAGGGTAAAACGAT
1 AATTTTGGATGTTCGAGGGTAAAACGAT
* ** *
9540985 GATTTTGGACACTTCGGGGGTAAAACGAT
1 AATTTTGGA-TGTTCGAGGGTAAAACGAT
*
9541014 AATTTTTGGATGTTCGAGGGTAAAAATG-T
1 AA-TTTTGGATGTTCGAGGGT-AAAACGAT
9541043 AATTTTGGA
1 AATTTTGGA
9541052 AAGTTCATGG
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
28 15 0.28
29 26 0.49
30 12 0.23
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (28 bp):
AATTTTGGATGTTCGAGGGTAAAACGAT
Found at i:9541057 original size:29 final size:29
Alignment explanation
Indices: 9540970--9541167 Score: 113
Period size: 29 Copynumber: 6.8 Consensus size: 29
9540960 TTTGGATGCC
* * * *
9540970 CGAGGGTAAAACGATGA-TTTTGGACACTT
1 CGAGGGTAAAATG-TAATTTTTGGAAAGTT
* * *
9540999 CGGGGGTAAAACGATAATTTTTGG-ATGTT
1 CGAGGGTAAAATG-TAATTTTTGGAAAGTT
9541028 CGAGGGTAAAAATGTAA-TTTTGGAAAGTT
1 CGAGGGT-AAAATGTAATTTTTGGAAAGTT
* * *
9541057 C-ATGGTCAAAAATGCAATTTTTTGGATA-TT
1 CGAGGGT--AAAATGTAA-TTTTTGGAAAGTT
* * *
9541087 CGAGGGTAAAATGGTAACTGTTGAAAAGTT
1 CGAGGGTAAAAT-GTAATTTTTGGAAAGTT
* * *
9541117 TGA-GGTCAAAATGGAATTTTTGGACA-TT
1 CGAGGGT-AAAATGTAATTTTTGGAAAGTT
*
9541145 TGAGGGTAAAATGGTAATTTTTG
1 CGAGGGTAAAAT-GTAATTTTTG
9541168 AAAATTTTGG
Statistics
Matches: 133, Mismatches: 24, Indels: 24
0.73 0.13 0.13
Matches are distributed among these distances:
28 20 0.15
29 75 0.56
30 26 0.20
31 12 0.09
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (29 bp):
CGAGGGTAAAATGTAATTTTTGGAAAGTT
Found at i:9541076 original size:58 final size:57
Alignment explanation
Indices: 9541014--9541231 Score: 190
Period size: 59 Copynumber: 3.7 Consensus size: 57
9541004 GTAAAACGAT
*
9541014 AATTTTTGGATGTTCGAGGGTAAAAAT-GTAATTTTGGAAAGTTCATGGTCAAAAATGCA
1 AATTTTTGGATATTCGAGGGT-AAAATGGTAATTTTGGAAAGTT-ATGGTCAAAAATG-A
* * * *
9541073 ATTTTTTGGATATTCGAGGGTAAAATGGTAACTGTTGAAAAGTT-TGAGGTC-AAAATGG
1 AATTTTTGGATATTCGAGGGTAAAATGGTAA-TTTTGGAAAGTTAT--GGTCAAAAATGA
* * * * *
9541131 AATTTTTGGACATTTGAGGGTAAAATGGTAATTTTTGAAAATTTTGGGGTCAAAAATGA
1 AATTTTTGGATATTCGAGGGTAAAATGGTAATTTTGGAAAGTTAT--GGTCAAAAATGA
* * ** *
9541190 AATTTTTAGACATTTAAGGGGTAAAATGGTATTTTTTGGAAA
1 AATTTTTGGATATTCGA-GGGTAAAATGGTA-ATTTTGGAAA
9541232 TTTTGGACGC
Statistics
Matches: 133, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
57 8 0.06
58 40 0.30
59 50 0.38
60 27 0.20
61 8 0.06
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (57 bp):
AATTTTTGGATATTCGAGGGTAAAATGGTAATTTTGGAAAGTTATGGTCAAAAATGA
Found at i:9541174 original size:29 final size:29
Alignment explanation
Indices: 9541088--9541234 Score: 115
Period size: 29 Copynumber: 5.0 Consensus size: 29
9541078 TTGGATATTC
* *
9541088 GAGGGTAAAATGGTAACTGTTGAAAAGTTT
1 GAGGGTAAAATGGTAATTTTTGAAAA-TTT
* *
9541118 GA-GGTCAAAATGG-AATTTTTGGACATTT
1 GAGGGT-AAAATGGTAATTTTTGAAAATTT
9541146 GAGGGTAAAATGGTAATTTTTGAAAATTTT
1 GAGGGTAAAATGGTAATTTTTGAAAA-TTT
* *
9541176 G-GGGTCAAAAAT-GAAATTTTT-AGACATTT
1 GAGGGT--AAAATGGTAATTTTTGA-AAATTT
* * *
9541205 AAGGGGTAAAATGGTATTTTTTGGAAATTT
1 GA-GGGTAAAATGGTAATTTTTGAAAATTT
9541235 TGGACGCAAA
Statistics
Matches: 93, Mismatches: 13, Indels: 22
0.73 0.10 0.17
Matches are distributed among these distances:
28 12 0.13
29 37 0.40
30 35 0.38
31 9 0.10
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.36
Consensus pattern (29 bp):
GAGGGTAAAATGGTAATTTTTGAAAATTT
Found at i:9541245 original size:60 final size:59
Alignment explanation
Indices: 9541061--9541248 Score: 193
Period size: 58 Copynumber: 3.2 Consensus size: 59
9541051 AAAGTTCATG
* * * ** * * *
9541061 GTCAAAAATGCAATTTTTTGGATATTCGAGGGTAAAATGGTAACTGTTGAAAAGTTTGAG-
1 GTCAAAAATG-AAATTTTTAGACATTTAAGGGTAAAATGGTAATTTTTGAAAATTTTG-GC
* * * *
9541121 GTC-AAAATGGAATTTTTGGACATTTGAGGGTAAAATGGTAATTTTTGAAAATTTTGGG
1 GTCAAAAATGAAATTTTTAGACATTTAAGGGTAAAATGGTAATTTTTGAAAATTTTGGC
* *
9541179 GTCAAAAATGAAATTTTTAGACATTTAAGGGGTAAAATGGTATTTTTTGGAAATTTTGGAC
1 GTCAAAAATGAAATTTTTAGACATTTAA-GGGTAAAATGGTAATTTTTGAAAATTTTGG-C
9541240 G-CAAAAATG
1 GTCAAAAATG
9541249 TATTTTTTGG
Statistics
Matches: 111, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
57 1 0.01
58 43 0.39
59 27 0.24
60 39 0.35
61 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (59 bp):
GTCAAAAATGAAATTTTTAGACATTTAAGGGTAAAATGGTAATTTTTGAAAATTTTGGC
Found at i:9541256 original size:60 final size:59
Alignment explanation
Indices: 9541061--9541261 Score: 210
Period size: 60 Copynumber: 3.4 Consensus size: 59
9541051 AAAGTTCATG
* * ** * * *
9541061 GTCAAAAATGCAATTTTTTGGATATTCGAGGGTAAAATGGTAACTGTTGAAAAGTTTGAG-
1 GTCAAAAATG-AAATTTTTGGACATTTAAGGGTAAAATGGTAATTTTTGAAAATTTTG-GC
* * *
9541121 GTC-AAAATGGAATTTTTGGACATTTGAGGGTAAAATGGTAATTTTTGAAAATTTTGGG
1 GTCAAAAATGAAATTTTTGGACATTTAAGGGTAAAATGGTAATTTTTGAAAATTTTGGC
* * *
9541179 GTCAAAAATGAAATTTTTAGACATTTAAGGGGTAAAATGGTATTTTTTGGAAATTTTGGAC
1 GTCAAAAATGAAATTTTTGGACATTTAA-GGGTAAAATGGTAATTTTTGAAAATTTTGG-C
* *
9541240 G-CAAAAATGTATTTTTTGGACA
1 GTCAAAAATGAAATTTTTGGACA
9541262 GTCGAAGGAC
Statistics
Matches: 121, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
57 1 0.01
58 43 0.36
59 27 0.22
60 49 0.40
61 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.36
Consensus pattern (59 bp):
GTCAAAAATGAAATTTTTGGACATTTAAGGGTAAAATGGTAATTTTTGAAAATTTTGGC
Found at i:9560442 original size:27 final size:29
Alignment explanation
Indices: 9560398--9560458 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
9560388 AGGATCAGTT
*
9560398 GAAGGAGAAGGATCAAGAG-GAAGAAAAA
1 GAAGGAGAAGGAACAAGAGAGAAGAAAAA
*
9560426 GAAGGA-AAGGAAGAAGAGAAAGAAGAAAAA
1 GAAGGAGAAGGAACAAGAG--AGAAGAAAAA
9560456 GAA
1 GAA
9560459 CCTATCGAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 10 0.36
28 6 0.21
30 12 0.43
ACGTcount: A:0.62, C:0.02, G:0.34, T:0.02
Consensus pattern (29 bp):
GAAGGAGAAGGAACAAGAGAGAAGAAAAA
Found at i:9560895 original size:17 final size:18
Alignment explanation
Indices: 9560873--9560913 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
9560863 TTAGTTTTCA
9560873 TGCATTCTT-ATTGTGC-C
1 TGCATTCTTAATTGT-CAC
9560890 TGCATT-TTAATTGTCAC
1 TGCATTCTTAATTGTCAC
9560907 TGCATTC
1 TGCATTC
9560914 CTTTTAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (18 bp):
TGCATTCTTAATTGTCAC
Found at i:9565978 original size:25 final size:23
Alignment explanation
Indices: 9565950--9565995 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
9565940 GTTGGATCCA
9565950 AATTAAATTCTAAAAAGATAATTTG
1 AATTAAA-TCTAAAAA-ATAATTTG
* *
9565975 AATTGAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
9565996 CCCTAATTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 7 0.37
25 6 0.32
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.35
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTTG
Found at i:9567061 original size:21 final size:20
Alignment explanation
Indices: 9567019--9567067 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
9567009 TCTTTTTCTC
9567019 TTTCTTTT-TTTTCCTCAAT
1 TTTCTTTTCTTTTCCTCAAT
**
9567038 TTTCTTTTCTTTTTTTCAATT
1 TTTCTTTTCTTTTCCTCAA-T
9567059 TTTCTTTTC
1 TTTCTTTTC
9567068 GAATTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 8 0.31
20 8 0.31
21 10 0.38
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTCTTTTCTTTTCCTCAAT
Found at i:9568017 original size:7 final size:7
Alignment explanation
Indices: 9568000--9568072 Score: 67
Period size: 7 Copynumber: 9.7 Consensus size: 7
9567990 AAAATAGCGC
9568000 ATAATAAA
1 ATAA-AAA
9568008 ATAAAAA
1 ATAAAAA
9568015 ATAAAAA
1 ATAAAAA
9568022 ATAAAAA
1 ATAAAAA
*
9568029 TAAAAAAA
1 -ATAAAAA
*
9568037 ATGAAAA
1 ATAAAAA
9568044 ATGAAAAA
1 AT-AAAAA
9568052 GATAATAAA
1 -ATAA-AAA
9568061 A-ATAAAA
1 ATA-AAAA
9568068 ATAAA
1 ATAAA
9568073 TGTGCTATTT
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
7 31 0.56
8 19 0.35
9 5 0.09
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.16
Consensus pattern (7 bp):
ATAAAAA
Found at i:9568037 original size:29 final size:31
Alignment explanation
Indices: 9568005--9568072 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
9567995 AGCGCATAAT
9568005 AAAATAAAAAAT-AAAAA-ATAA-AAATAAAA
1 AAAATAAAAAATGAAAAAGATAATAAA-AAAA
* *
9568034 AAAATGAAAAATGAAAAAGATAATAAAAATA
1 AAAATAAAAAATGAAAAAGATAATAAAAAAA
9568065 AAAATAAA
1 AAAATAAA
9568073 TGTGCTATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 11 0.33
30 5 0.15
31 14 0.42
32 3 0.09
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (31 bp):
AAAATAAAAAATGAAAAAGATAATAAAAAAA
Found at i:9573407 original size:37 final size:37
Alignment explanation
Indices: 9573352--9573470 Score: 157
Period size: 37 Copynumber: 3.2 Consensus size: 37
9573342 GCATCTATAA
* *
9573352 ATTCAGGCTATGTGCCTAGCAGGTTTCGTGCCGGTGT
1 ATTCAGGCTGTGTGCCTAGCAGGCTTCGTGCCGGTGT
* * * *
9573389 ATTCAAGCTGTGTACCTAGCAGACTTCATGCCGGTGT
1 ATTCAGGCTGTGTGCCTAGCAGGCTTCGTGCCGGTGT
* **
9573426 ATTCAGGCTGTGTGCCTAGCAAGCTTCGTGCCAATGT
1 ATTCAGGCTGTGTGCCTAGCAGGCTTCGTGCCGGTGT
9573463 ATTCAGGC
1 ATTCAGGC
9573471 AAGCAGGCTT
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.18, C:0.24, G:0.28, T:0.30
Consensus pattern (37 bp):
ATTCAGGCTGTGTGCCTAGCAGGCTTCGTGCCGGTGT
Found at i:9574051 original size:78 final size:77
Alignment explanation
Indices: 9573922--9574080 Score: 282
Period size: 78 Copynumber: 2.1 Consensus size: 77
9573912 CTTGTGTTTT
9573922 AGTTGCCAAGATTGATAATTATAGGTTTATGCATGCACAAATGTGATTGTTTAGAGCTTAGAAAG
1 AGTTGCCAAGATTGATAATTATAGGTTTATGCATGCACAAATGTGATTGTTTAGAGCTTAG-AAG
9573987 AAAGCTTATATTG
65 AAAGCTTATATTG
* * *
9574000 AGTTGCCAAGATTGATAGTTATAGGTTTATGCATGCTCGAATGTGATTGTTTAGAGCTTAGAAGA
1 AGTTGCCAAGATTGATAATTATAGGTTTATGCATGCACAAATGTGATTGTTTAGAGCTTAGAAGA
9574065 AAGCTTATATTG
66 AAGCTTATATTG
9574077 AGTT
1 AGTT
9574081 ATAGGTAGAT
Statistics
Matches: 78, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
77 20 0.26
78 58 0.74
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (77 bp):
AGTTGCCAAGATTGATAATTATAGGTTTATGCATGCACAAATGTGATTGTTTAGAGCTTAGAAGA
AAGCTTATATTG
Found at i:9574856 original size:44 final size:44
Alignment explanation
Indices: 9574807--9574894 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
9574797 CTTTATAATC
9574807 GATGATAGTGTGGGGACTCTTGATCAATTTGAAATGTTTTATTT
1 GATGATAGTGTGGGGACTCTTGATCAATTTGAAATGTTTTATTT
9574851 GATGATAGTGTGGGGACTCTTGATCAATTTGAAATGTTTTATTT
1 GATGATAGTGTGGGGACTCTTGATCAATTTGAAATGTTTTATTT
9574895 AGATAAAAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.43
Consensus pattern (44 bp):
GATGATAGTGTGGGGACTCTTGATCAATTTGAAATGTTTTATTT
Found at i:9580767 original size:37 final size:37
Alignment explanation
Indices: 9580716--9580815 Score: 148
Period size: 37 Copynumber: 2.7 Consensus size: 37
9580706 GCATCTATAA
*
9580716 ATTCAGGCTATGTGCCTAGCAGGCTTCGTGTCAG-TGT
1 ATTCAGGCTATGTGCCTAGCAGGCTTCGTG-CAGATAT
* *
9580753 ATTCAGGCTGTGTGCCTAGCAGGCTTCGTGCCGATAT
1 ATTCAGGCTATGTGCCTAGCAGGCTTCGTGCAGATAT
*
9580790 ATTCGGGCTATGTGCCTAGCAGGCTT
1 ATTCAGGCTATGTGCCTAGCAGGCTT
9580816 TGTACCGGTG
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
36 2 0.04
37 55 0.96
ACGTcount: A:0.16, C:0.23, G:0.30, T:0.31
Consensus pattern (37 bp):
ATTCAGGCTATGTGCCTAGCAGGCTTCGTGCAGATAT
Found at i:9582417 original size:42 final size:42
Alignment explanation
Indices: 9582370--9582683 Score: 260
Period size: 42 Copynumber: 7.5 Consensus size: 42
9582360 ATGATCAACT
* * *
9582370 GAGTCATAAGTCTTCCTTTAAACGTAATCTCATGCTCATCTC
1 GAGTCATGAGTCTTCCTTTAAACATAATCTCATGCTCTTCTC
* * * * * *
9582412 GAGTCACGAGTCTTCTTTTAAACATAACCTAATACTC-TCCC
1 GAGTCATGAGTCTTCCTTTAAACATAATCTCATGCTCTTCTC
* * *
9582453 GAGTCACGAGTCTTTC-TTAAATCAAAATCTCATGCTCTTCTC
1 GAGTCATGAGTCTTCCTTTAAA-CATAATCTCATGCTCTTCTC
** * * *
9582495 GAGTCACAAGTCTTCCTTTAAACATAA-CATCATACTATTCCC
1 GAGTCATGAGTCTTCCTTTAAACATAATC-TCATGCTCTTCTC
* * * *
9582537 GTGACATGAGTCTTCC-TTAAATTAAAATCTCATGCTCTTCTC
1 GAGTCATGAGTCTTCCTTTAAA-CATAATCTCATGCTCTTCTC
* * *
9582579 GAATCATGAGTCTTCCTTTTTAACATAATATCATGCTCTTCTC
1 GAGTCATGAGTCTTCC-TTTAAACATAATCTCATGCTCTTCTC
* * * ** * * *
9582622 GAGACATAAGTCTTCCTTT-AATATACCCTCGTGCTCGTCCC
1 GAGTCATGAGTCTTCCTTTAAACATAATCTCATGCTCTTCTC
*
9582663 GAGACATGAGTCTTCCTTTAA
1 GAGTCATGAGTCTTCCTTTAA
9582684 TATGCATTAA
Statistics
Matches: 215, Mismatches: 48, Indels: 18
0.77 0.17 0.06
Matches are distributed among these distances:
40 5 0.02
41 67 0.31
42 103 0.48
43 36 0.17
44 4 0.02
ACGTcount: A:0.27, C:0.26, G:0.11, T:0.35
Consensus pattern (42 bp):
GAGTCATGAGTCTTCCTTTAAACATAATCTCATGCTCTTCTC
Found at i:9582509 original size:83 final size:84
Alignment explanation
Indices: 9582378--9582606 Score: 282
Period size: 83 Copynumber: 2.7 Consensus size: 84
9582368 CTGAGTCATA
** * *
9582378 AGTCTTCCTTTAAA-CGTAATCTCATGCTCATCTCGAGTCACGAGTCTTCTTTTAAACATAACCT
1 AGTCTTCC-TTAAATCAAAATCTCATGCTCTTCTCGAGTCACGAGTCTTCTTTTAAACATAACAT
*
9582442 AATACT-CTCCCGAGTCACG
65 AATACTACTCCCGAGACACG
* * * *
9582461 AGTCTTTCTTAAATCAAAATCTCATGCTCTTCTCGAGTCACAAGTCTTCCTTTAAACATAACATC
1 AGTCTTCCTTAAATCAAAATCTCATGCTCTTCTCGAGTCACGAGTCTTCTTTTAAACATAACATA
* * *
9582526 ATACTATTCCCGTGACATG
66 ATACTACTCCCGAGACACG
* * * *
9582545 AGTCTTCCTTAAATTAAAATCTCATGCTCTTCTCGAATCATGAGTCTTCCTTTTTAACATAA
1 AGTCTTCCTTAAATCAAAATCTCATGCTCTTCTCGAGTCACGAGTCTT-CTTTTAAACATAA
9582607 TATCATGCTC
Statistics
Matches: 124, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
82 5 0.04
83 56 0.45
84 52 0.42
85 11 0.09
ACGTcount: A:0.28, C:0.26, G:0.10, T:0.35
Consensus pattern (84 bp):
AGTCTTCCTTAAATCAAAATCTCATGCTCTTCTCGAGTCACGAGTCTTCTTTTAAACATAACATA
ATACTACTCCCGAGACACG
Found at i:9582575 original size:84 final size:83
Alignment explanation
Indices: 9582378--9582683 Score: 301
Period size: 84 Copynumber: 3.7 Consensus size: 83
9582368 CTGAGTCATA
** * * *
9582378 AGTCTTCCTTTAAA-CGTAATCTCATGCTCATCTCGAGTCACGAGTCTTCTTTTAAACATAACCT
1 AGTCTTCC-TTAAATCAAAATCTCATGCTCTTCTCGAGTCACGAGTCTTCCTTTAAACATAACAT
* * * *
9582442 AATACTCTCCCGAGTCACG
65 CATACTTTCCCGAGACATG
* *
9582461 AGTCTTTCTTAAATCAAAATCTCATGCTCTTCTCGAGTCACAAGTCTTCCTTTAAACATAACATC
1 AGTCTTCCTTAAATCAAAATCTCATGCTCTTCTCGAGTCACGAGTCTTCCTTTAAACATAACATC
*
9582526 ATACTATTCCCGTGACATG
66 ATACT-TTCCCGAGACATG
* * * * *
9582545 AGTCTTCCTTAAATTAAAATCTCATGCTCTTCTCGAATCATGAGTCTTCCTTTTTAACATAATAT
1 AGTCTTCCTTAAATCAAAATCTCATGCTCTTCTCGAGTCACGAGTCTTCC-TTTAAACATAACAT
* * *
9582610 CATGCTCTTCTCGAGACATA
65 CATACT-TTCCCGAGACATG
* * ** * * * * *
9582630 AGTCTTCCTTTAAT-ATACCCTCGTGCTCGTCCCGAGACATGAGTCTTCCTTTAA
1 AGTCTTCCTTAAATCAAAATCTCATGCTCTTCTCGAGTCACGAGTCTTCCTTTAA
9582684 TATGCATTAA
Statistics
Matches: 186, Mismatches: 34, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
82 5 0.03
83 60 0.32
84 81 0.44
85 40 0.22
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.35
Consensus pattern (83 bp):
AGTCTTCCTTAAATCAAAATCTCATGCTCTTCTCGAGTCACGAGTCTTCCTTTAAACATAACATC
ATACTTTCCCGAGACATG
Found at i:9589427 original size:41 final size:42
Alignment explanation
Indices: 9589381--9589463 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
9589371 GTCTTAAACT
*
9589381 TGTAATGACATGATCAAC-CGAGTCATAAGTCTTCCTTTAAA
1 TGTAATCACATGATCAACTCGAGTCATAAGTCTTCCTTTAAA
* * * *
9589422 TGTAATCTCATGCTCATCTCGAGTCATGAGTCTTCCTTTAAA
1 TGTAATCACATGATCAACTCGAGTCATAAGTCTTCCTTTAAA
9589464 CATAACCTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 14 0.39
42 22 0.61
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (42 bp):
TGTAATCACATGATCAACTCGAGTCATAAGTCTTCCTTTAAA
Found at i:9589446 original size:42 final size:42
Alignment explanation
Indices: 9589399--9589793 Score: 373
Period size: 42 Copynumber: 9.5 Consensus size: 42
9589389 CATGATCAAC
* * *
9589399 CGAGTCATAAGTCTTCCTTTAAATGTAATCTCATGCTCATCT
1 CGAGTCATGAGTCTTCCTTTAAATATAATCTCATGCTCTTCT
* * *
9589441 CGAGTCATGAGTCTTCCTTTAAACATAACCTCATACTC-TCT
1 CGAGTCATGAGTCTTCCTTTAAATATAATCTCATGCTCTTCT
*
9589482 CGAGTCATGAG---T-C-TTAAATCAAAATCTCATGCTCTTCT
1 CGAGTCATGAGTCTTCCTTTAAAT-ATAATCTCATGCTCTTCT
* * * *
9589520 CGAGTCACGAGTCTTCCTTTAAACATAACCTCATACTCTT-T
1 CGAGTCATGAGTCTTCCTTTAAATATAATCTCATGCTCTTCT
* *
9589561 CCGAGTCATGAGTCTTCC-TTAAATCAAAATCTCATGCTCTTTT
1 -CGAGTCATGAGTCTTCCTTTAAAT-ATAATCTCATGCTCTTCT
* * * *
9589604 CGAGTCACGAGTCTTCCTTTAAACATAACCTCATACTCTT-T
1 CGAGTCATGAGTCTTCCTTTAAATATAATCTCATGCTCTTCT
* *
9589645 CCGAGTCATGAGTCTT-TTTTAAATCAAAATCTCATGCTCTTCT
1 -CGAGTCATGAGTCTTCCTTTAAAT-ATAATCTCATGCTCTTCT
* * * *
9589688 CAAGTCACGAGTCTTCCTTTTTAACATAATCTCATGCTCTTCT
1 CGAGTCATGAGTCTTCC-TTTAAATATAATCTCATGCTCTTCT
* * ** *
9589731 CGAGACACGAGTCTTCCTTT-AATATACCCTCATGCTCATC-
1 CGAGTCATGAGTCTTCCTTTAAATATAATCTCATGCTCTTCT
* *
9589771 CTGAGACTTGAGTCTTCCTTTAA
1 C-GAGTCATGAGTCTTCCTTTAA
9589794 TACGTATCAA
Statistics
Matches: 291, Mismatches: 44, Indels: 36
0.78 0.12 0.10
Matches are distributed among these distances:
36 5 0.02
37 12 0.04
38 14 0.05
40 1 0.00
41 61 0.21
42 149 0.51
43 44 0.15
44 5 0.02
ACGTcount: A:0.26, C:0.27, G:0.11, T:0.36
Consensus pattern (42 bp):
CGAGTCATGAGTCTTCCTTTAAATATAATCTCATGCTCTTCT
Found at i:9589595 original size:121 final size:122
Alignment explanation
Indices: 9589399--9589745 Score: 301
Period size: 121 Copynumber: 2.8 Consensus size: 122
9589389 CATGATCAAC
* ** * *
9589399 CGAGTCATAAGTCTTCCTTTAAATGTAATCTCATGCTCATCTCGAGTCATGAGTCTTCCTTTAAA
1 CGAGTCACAAGTCTTCCTTTAAACATAACCTCATACTCATCTCGAGTCATGAGTCTTCCTTTAAA
* *
9589464 CATAACCTCATACTC-TCTCGAGTCATGAGTCTTAAATCAAAATCTCATGCTCTTCT
66 CAAAACCTCATACTCTTCTCGAGTCACGAGTCTTAAATCAAAATCTCATGCTCTTCT
* *
9589520 CGAGTCACGAGTCTTCCTTTAAACATAACCTCATACTC-TTTCCGAGTCATGAGTCTTCC-TTAA
1 CGAGTCACAAGTCTTCCTTTAAACATAACCTCATACTCATCT-CGAGTCATGAGTCTTCCTTTAA
* * * * * *
9589583 ATCAAAATCTCATGCTCTTTTCGAGTCACGAGTCTTCCTTTAAA-CATAACCTCATACTCTT-T
65 A-CAAAACCTCATACTCTTCTCGAGTCACGAG---T-C-TTAAATCAAAATCTCATGCTCTTCT
** * * * * * * *
9589645 CCGAGTCATGAGTCTT-TTTTAAATCAAAATCTCATGCTCTTCTCAAGTCACGAGTCTTCCTTTT
1 -CGAGTCACAAGTCTTCCTTTAAA-CATAACCTCATACTCATCTCGAGTCATGAGTCTTCC-TTT
* * * * *
9589709 TAACATAATCTCATGCTCTTCTCGAGACACGAGTCTT
63 AAACAAAACCTCATACTCTTCTCGAGTCACGAGTCTT
9589746 CCTTTAATAT
Statistics
Matches: 186, Mismatches: 27, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
120 7 0.04
121 61 0.33
122 14 0.08
123 1 0.01
124 1 0.01
125 8 0.04
126 56 0.30
127 34 0.18
128 4 0.02
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.36
Consensus pattern (122 bp):
CGAGTCACAAGTCTTCCTTTAAACATAACCTCATACTCATCTCGAGTCATGAGTCTTCCTTTAAA
CAAAACCTCATACTCTTCTCGAGTCACGAGTCTTAAATCAAAATCTCATGCTCTTCT
Found at i:9589609 original size:84 final size:84
Alignment explanation
Indices: 9589398--9589749 Score: 493
Period size: 84 Copynumber: 4.2 Consensus size: 84
9589388 ACATGATCAA
* ** * *
9589398 CCGAGTCATAAGTCTTCCTTTAAAT-GTAATCTCATGCTCATCTCGAGTCATGAGTCTTCCTTTA
1 CCGAGTCATGAGTCTTCC-TTAAATCAAAATCTCATGCTCTTCTCGAGTCACGAGTCTTCCTTTA
*
9589462 AACATAACCTCATACTCTCT
65 AACATAACCTCATACTCTTT
9589482 -CGAGTCATGAG---T-CTTAAATCAAAATCTCATGCTCTTCTCGAGTCACGAGTCTTCCTTTAA
1 CCGAGTCATGAGTCTTCCTTAAATCAAAATCTCATGCTCTTCTCGAGTCACGAGTCTTCCTTTAA
9589542 ACATAACCTCATACTCTTT
66 ACATAACCTCATACTCTTT
*
9589561 CCGAGTCATGAGTCTTCCTTAAATCAAAATCTCATGCTCTTTTCGAGTCACGAGTCTTCCTTTAA
1 CCGAGTCATGAGTCTTCCTTAAATCAAAATCTCATGCTCTTCTCGAGTCACGAGTCTTCCTTTAA
9589626 ACATAACCTCATACTCTTT
66 ACATAACCTCATACTCTTT
** * *
9589645 CCGAGTCATGAGTCTTTTTTAAATCAAAATCTCATGCTCTTCTCAAGTCACGAGTCTTCCTTTTT
1 CCGAGTCATGAGTCTTCCTTAAATCAAAATCTCATGCTCTTCTCGAGTCACGAGTCTTCC-TTTA
* *
9589710 AACATAATCTCATGCTC-TT
65 AACATAACCTCATACTCTTT
* *
9589729 CTCGAGACACGAGTCTTCCTT
1 C-CGAGTCATGAGTCTTCCTT
9589750 TAATATACCC
Statistics
Matches: 242, Mismatches: 18, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
78 6 0.02
79 55 0.23
80 12 0.05
83 11 0.05
84 125 0.52
85 33 0.14
ACGTcount: A:0.26, C:0.27, G:0.11, T:0.36
Consensus pattern (84 bp):
CCGAGTCATGAGTCTTCCTTAAATCAAAATCTCATGCTCTTCTCGAGTCACGAGTCTTCCTTTAA
ACATAACCTCATACTCTTT
Found at i:9594224 original size:25 final size:25
Alignment explanation
Indices: 9594194--9594249 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
9594184 AAATATTAAA
9594194 ATAATATTTACGAGTCAAATATAGT
1 ATAATATTTACGAGTCAAATATAGT
*
9594219 ATAATATTTATGAGTCAAATATAGT
1 ATAATATTTACGAGTCAAATATAGT
9594244 ATAATA
1 ATAATA
9594250 ATAAATGTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (25 bp):
ATAATATTTACGAGTCAAATATAGT
Found at i:9600719 original size:18 final size:17
Alignment explanation
Indices: 9600660--9600757 Score: 79
Period size: 18 Copynumber: 5.6 Consensus size: 17
9600650 GTTTACACTC
* *
9600660 TGATGAGTTCGCAACTT
1 TGATGAGCTCGCAGCTT
* * *
9600677 GGTTGAGCTCGTAGCTT
1 TGATGAGCTCGCAGCTT
*
9600694 TGATGAGCTCGCATCTT
1 TGATGAGCTCGCAGCTT
* *
9600711 TGAATGAGCTCGTAACTT
1 TG-ATGAGCTCGCAGCTT
* *
9600729 TGAATAAGCTTGCAGCTT
1 TG-ATGAGCTCGCAGCTT
9600747 CTGATGAGCTC
1 -TGATGAGCTC
9600758 ACAGATGTAG
Statistics
Matches: 62, Mismatches: 17, Indels: 3
0.76 0.21 0.04
Matches are distributed among these distances:
17 27 0.44
18 33 0.53
19 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (17 bp):
TGATGAGCTCGCAGCTT
Found at i:9600730 original size:35 final size:36
Alignment explanation
Indices: 9600680--9600757 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 36
9600670 GCAACTTGGT
* * *
9600680 TGAGCTCGTAGCTTTG-ATGAGCTCGCATCTT-TGAA
1 TGAGCTCGTAACTTTGAATAAGCTCGCAGCTTCTG-A
*
9600715 TGAGCTCGTAACTTTGAATAAGCTTGCAGCTTCTGA
1 TGAGCTCGTAACTTTGAATAAGCTCGCAGCTTCTGA
9600751 TGAGCTC
1 TGAGCTC
9600758 ACAGATGTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 15 0.41
36 20 0.54
37 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (36 bp):
TGAGCTCGTAACTTTGAATAAGCTCGCAGCTTCTGA
Found at i:9606572 original size:17 final size:17
Alignment explanation
Indices: 9606524--9606628 Score: 86
Period size: 18 Copynumber: 6.0 Consensus size: 17
9606514 AATAGCTCAC
* *
9606524 ACTTTGATGAGTTCGTA
1 ACTTTGATGAGCTCGCA
* * * *
9606541 ACTTGGCTGACCTCGTA
1 ACTTTGATGAGCTCGCA
9606558 ACTTTGATGAGCTCGCA
1 ACTTTGATGAGCTCGCA
*
9606575 TA-TTTGAATGAGCTTGCA
1 -ACTTTG-ATGAGCTCGCA
9606593 ACTTTGAATGAGCTCGCA
1 ACTTTG-ATGAGCTCGCA
* *
9606611 GCTTTAGACGAGCTCGCA
1 ACTTT-GATGAGCTCGCA
9606629 TATGTAGAGC
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
17 31 0.43
18 40 0.56
19 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (17 bp):
ACTTTGATGAGCTCGCA
Found at i:9608322 original size:52 final size:52
Alignment explanation
Indices: 9608249--9608540 Score: 433
Period size: 52 Copynumber: 5.6 Consensus size: 52
9608239 GTTTCATTTA
* * *
9608249 ATACTCATGATGACACATAGTCATCACACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACTTAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* * * **
9608301 ATACTCACGATGACACTTAGTCATCGGACCTCGTAATCTGTAAAGGATTTGT
1 ATACTCACGATGACACTTAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* *
9608353 ATACTCACGATGACACATAGTCATC-GAACCTCATAATTCGTAAAGGATTCAT
1 ATACTCACGATGACACTTAGTCATCAG-ACCTCATAATCCGTAAAGGATTCAT
*
9608405 ATACTCACGATGACACTTAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACTTAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* * *
9608457 ATACTCACGATGACACTTAGTCATTAAAACCCCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACTTAGTCA-TCAGACCTCATAATCCGTAAAGGATTCAT
9608510 ATACTCACGATGACACTTAGTCATCAGACCT
1 ATACTCACGATGACACTTAGTCATCAGACCT
9608541 TTTCGTTTAC
Statistics
Matches: 214, Mismatches: 23, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
51 1 0.00
52 164 0.77
53 49 0.23
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.27
Consensus pattern (52 bp):
ATACTCACGATGACACTTAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
Found at i:9611651 original size:21 final size:22
Alignment explanation
Indices: 9611627--9611669 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
9611617 ACTTTCATCA
9611627 TTAAGCTTAATT-AACCCATTT
1 TTAAGCTTAATTAAACCCATTT
*
9611648 TTAATCTTAATTAAACCCATTT
1 TTAAGCTTAATTAAACCCATTT
9611670 ATACTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.35, C:0.19, G:0.02, T:0.44
Consensus pattern (22 bp):
TTAAGCTTAATTAAACCCATTT
Found at i:9611676 original size:20 final size:21
Alignment explanation
Indices: 9611632--9611679 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
9611622 CATCATTAAG
*
9611632 CTTAATTAACCCATTTTTAAT
1 CTTAATTAACCCATTTATAAT
9611653 CTTAATTAAACCCATTTAT-A-
1 CTTAATT-AACCCATTTATAAT
9611673 CTTAATT
1 CTTAATT
9611680 TTACTCATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 7 0.28
21 8 0.32
22 10 0.40
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.46
Consensus pattern (21 bp):
CTTAATTAACCCATTTATAAT
Found at i:9613790 original size:23 final size:23
Alignment explanation
Indices: 9613763--9613834 Score: 99
Period size: 23 Copynumber: 3.1 Consensus size: 23
9613753 AATATGTATA
9613763 TGTATCTGAATTGCATCTATATT
1 TGTATCTGAATTGCATCTATATT
* * *
9613786 TGTATGTGAATTGCATCTGTATC
1 TGTATCTGAATTGCATCTATATT
* *
9613809 TATATCTGAATTGTATCTATATT
1 TGTATCTGAATTGCATCTATATT
9613832 TGT
1 TGT
9613835 TTTGTTTGCA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.25, C:0.11, G:0.15, T:0.49
Consensus pattern (23 bp):
TGTATCTGAATTGCATCTATATT
Found at i:9617608 original size:19 final size:19
Alignment explanation
Indices: 9617556--9617622 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
9617546 AAAAGGAATT
**
9617556 AGCAATACTGGCTCAAAAG
1 AGCAATACTGGCTCCTAAG
*
9617575 AGCAATATTGGCTCCTAAG
1 AGCAATACTGGCTCCTAAG
*
9617594 AGCAATACTGGCTCCTAAA
1 AGCAATACTGGCTCCTAAG
9617613 AGCAAATACT
1 AGC-AATACT
9617623 AGCTTGTGAG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 36 0.86
20 6 0.14
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (19 bp):
AGCAATACTGGCTCCTAAG
Found at i:9642393 original size:39 final size:40
Alignment explanation
Indices: 9642320--9642403 Score: 143
Period size: 40 Copynumber: 2.1 Consensus size: 40
9642310 ACAATTGAAC
*
9642320 TTAAATTTTTAAATGCAAAAAAATAAAAAAAATTAAATTT
1 TTAAATTTTTAAATGCAAAAAAATAAAAAAAATTAAATTA
*
9642360 TTAAATTTTTAAATGCAAAAAAAT-AAAAGAATTAAATTA
1 TTAAATTTTTAAATGCAAAAAAATAAAAAAAATTAAATTA
9642399 TTAAA
1 TTAAA
9642404 ATTAAAATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
39 18 0.43
40 24 0.57
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (40 bp):
TTAAATTTTTAAATGCAAAAAAATAAAAAAAATTAAATTA
Found at i:9642424 original size:28 final size:29
Alignment explanation
Indices: 9642379--9642439 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 29
9642369 TAAATGCAAA
*
9642379 AAAATAAAAGAATTAAATTATTAAA-AT-T
1 AAAATAAAAGAATCAAATT-TTAAATATAT
9642407 AAAATATAAAG-ATCAAATTTTAAATATAT
1 AAAATA-AAAGAATCAAATTTTAAATATAT
9642436 AAAA
1 AAAA
9642440 AAATAAAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 5 0.17
28 15 0.52
29 9 0.31
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (29 bp):
AAAATAAAAGAATCAAATTTTAAATATAT
Found at i:9644642 original size:17 final size:17
Alignment explanation
Indices: 9644612--9644654 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
9644602 CGATTAGAAA
**
9644612 AAATTAAAAATAAAATT
1 AAATTAAATTTAAAATT
* *
9644629 ATATTAAATTTAAATTT
1 AAATTAAATTTAAAATT
9644646 AAATTAAAT
1 AAATTAAAT
9644655 GATTTGTTGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATTAAATTTAAAATT
Found at i:9674454 original size:41 final size:41
Alignment explanation
Indices: 9674397--9674577 Score: 200
Period size: 41 Copynumber: 4.3 Consensus size: 41
9674387 AAACTCAAAA
*
9674397 GTAAAAGGAAGACTCATGTCTCGGGATGAGAATGAGATTAT
1 GTAAAAGGAAGACTCATGTCTCGGAATGAGAATGAGATTAT
**
9674438 GTAAAAGGAAGACTCATGTCTTAGAATGAGAATGAGATTAT
1 GTAAAAGGAAGACTCATGTCTCGGAATGAGAATGAGATTAT
* * * *
9674479 GTAAAAAGAAGACTCATGTCTCGGGACGAGCATGAGATTACAT
1 GTAAAAGGAAGACTCATGTCTCGGAATGAGAATGAGATT--AT
* * * * * *
9674522 ATAAATGGAAGGCTTATGTCTCGAAATGAGCATGAGATTAT
1 GTAAAAGGAAGACTCATGTCTCGGAATGAGAATGAGATTAT
**
9674563 GGTTTAAGGAAGACT
1 -GTAAAAGGAAGACT
9674578 TATGACTTAG
Statistics
Matches: 115, Mismatches: 22, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
41 73 0.63
42 9 0.08
43 33 0.29
ACGTcount: A:0.38, C:0.10, G:0.27, T:0.25
Consensus pattern (41 bp):
GTAAAAGGAAGACTCATGTCTCGGAATGAGAATGAGATTAT
Found at i:9675087 original size:9 final size:9
Alignment explanation
Indices: 9675073--9675098 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9675063 TACTTTCTCT
9675073 CAAAGAATA
1 CAAAGAATA
9675082 CAAAGAATA
1 CAAAGAATA
9675091 CAAAGAAT
1 CAAAGAAT
9675099 GGAATGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.12, G:0.12, T:0.12
Consensus pattern (9 bp):
CAAAGAATA
Found at i:9682210 original size:41 final size:41
Alignment explanation
Indices: 9682131--9682320 Score: 193
Period size: 41 Copynumber: 4.6 Consensus size: 41
9682121 AAACTCGAAA
* * *
9682131 GTAAAAGGAAGACTCATGTCT-TGGATGGGAATGAGATTAT
1 GTAAAAGGAAGACTTATGTCTCGGGATGAGAATGAGATTAT
9682171 GTAAAAGGAAGACTTATGTCTCGGGATGAGAATGAGATTAT
1 GTAAAAGGAAGACTTATGTCTCGGGATGAGAATGAGATTAT
** * * *
9682212 GTAAAAGGAAGACTTATGTCTCAAGACGAGCATGAGATTAC
1 GTAAAAGGAAGACTTATGTCTCGGGATGAGAATGAGATTAT
* * ** * *
9682253 GTATAAATGGAAGACTCATATCTCGAAATGAGCATTAGATTAT
1 GTA-AAA-GGAAGACTTATGTCTCGGGATGAGAATGAGATTAT
** *
9682296 GGTTTAAGGAAGACTTATGACTCGG
1 -GTAAAAGGAAGACTTATGTCTCGG
9682321 TGGAGCATAA
Statistics
Matches: 125, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
40 20 0.16
41 56 0.45
42 17 0.14
43 30 0.24
44 2 0.02
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (41 bp):
GTAAAAGGAAGACTTATGTCTCGGGATGAGAATGAGATTAT
Found at i:9682327 original size:84 final size:81
Alignment explanation
Indices: 9682131--9682334 Score: 203
Period size: 84 Copynumber: 2.5 Consensus size: 81
9682121 AAACTCGAAA
* * * * * * *
9682131 GTAAAAGGAAGACTCATGTCTTGGATGG-GAATGAGATTATGTAAAAGGAAGACTTATGTCTCGG
1 GTAAAAGGAAGACTTATGTCTCGG-TGGAGCATGAGATTACGTAAAAGGAAGACTCATATCTCGA
*
9682195 GATGAGAATGAGATTAT
65 AATGAGAATGAGATTAT
* **
9682212 GTAAAAGGAAGACTTATGTCTCAAGACGAGCATGAGATTACGTATAAATGGAAGACTCATATCTC
1 GTAAAAGGAAGACTTATGTCTC-GGTGGAGCATGAGATTACGTA-AAA-GGAAGACTCATATCTC
* *
9682277 GAAATGAGCATTAGATTAT
63 GAAATGAGAATGAGATTAT
** * *
9682296 GGTTTAAGGAAGACTTATGACTCGGTGGAGCATAAGATT
1 -GTAAAAGGAAGACTTATGTCTCGGTGGAGCATGAGATT
9682335 GTTTAAAAAT
Statistics
Matches: 98, Mismatches: 20, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
81 21 0.21
82 14 0.14
83 3 0.03
84 41 0.42
85 19 0.19
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.27
Consensus pattern (81 bp):
GTAAAAGGAAGACTTATGTCTCGGTGGAGCATGAGATTACGTAAAAGGAAGACTCATATCTCGAA
ATGAGAATGAGATTAT
Found at i:9705323 original size:10 final size:10
Alignment explanation
Indices: 9705308--9705351 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
9705298 TATATATACA
9705308 TTCTTTCTTT
1 TTCTTTCTTT
9705318 TTCTTTCTTT
1 TTCTTTCTTT
**
9705328 TTACTAAC-TT
1 TT-CTTTCTTT
9705338 TTCTTTCTTT
1 TTCTTTCTTT
9705348 TTCT
1 TTCT
9705352 CTTTCTCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (10 bp):
TTCTTTCTTT
Found at i:9718803 original size:12 final size:11
Alignment explanation
Indices: 9718777--9718824 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 11
9718767 TCAAGAAAAG
9718777 AAAAAAAAGTAA
1 AAAAAAAAG-AA
9718789 AAAAATAAATGAA
1 AAAAA-AAA-GAA
9718802 AAAGAAAAAGAA
1 AAA-AAAAAGAA
*
9718814 AAAAAATAGAA
1 AAAAAAAAGAA
9718825 CCTATGTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
11 7 0.22
12 11 0.34
13 11 0.34
14 3 0.09
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.08
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:9726400 original size:216 final size:217
Alignment explanation
Indices: 9726025--9726435 Score: 779
Period size: 216 Copynumber: 1.9 Consensus size: 217
9726015 TATGCTTTGG
9726025 GATGCTTCGACAAAAAGATGATTTTTATTCTTGCGTAGAATTTTAAAACGAAAAAAGTAAAAGTG
1 GATGCTTCGACAAAAAGATGATTTTTATTCTTGCGTAGAATTTTAAAACGAAAAAAGTAAAAGTG
*
9726090 AAACAAATAAAAGAAAATGTAAAAATGCGTTGACATTATTTAAATGTGAGCAGATCGATAGCCTC
66 AAACAAATAAAAGAAAATGTAAAAATGCGTTGACATTATTTAAATGTGACCAGATCGATAGCCTC
9726155 ATTTGGTTCTTTGACTTCTGGACTCACATAATGCTTAAGACGTTGATCATTCACCTTGAACTGTT
131 ATTTGGTTCTTTGACTTCTGGACTCACATAATGCTTAAGACGTTGATCATTCACCTTGAACTGTT
9726220 ACAGATCCTTACAACTTGTCGA
196 ACAGATCCTTACAACTTGTCGA
9726242 GATGCTTCGACAAAAAGATGATTTTTATTCTTGCGTAGAATTTT-AAACGAAAAAAGTAAAAGTG
1 GATGCTTCGACAAAAAGATGATTTTTATTCTTGCGTAGAATTTTAAAACGAAAAAAGTAAAAGTG
*
9726306 AAACAAATAAAAGAAAATGTAAAAATGCGTTGACATTATTTAAATGTGACCAGATCGATGGCCTC
66 AAACAAATAAAAGAAAATGTAAAAATGCGTTGACATTATTTAAATGTGACCAGATCGATAGCCTC
* *
9726371 GTTTGGTTCTTTGACTTCTGGACTCACATAATGCTTAAGACGTTGATCGTTCACCTTGAACTGTT
131 ATTTGGTTCTTTGACTTCTGGACTCACATAATGCTTAAGACGTTGATCATTCACCTTGAACTGTT
9726436 GCCCATCCTT
Statistics
Matches: 190, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
216 146 0.77
217 44 0.23
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.32
Consensus pattern (217 bp):
GATGCTTCGACAAAAAGATGATTTTTATTCTTGCGTAGAATTTTAAAACGAAAAAAGTAAAAGTG
AAACAAATAAAAGAAAATGTAAAAATGCGTTGACATTATTTAAATGTGACCAGATCGATAGCCTC
ATTTGGTTCTTTGACTTCTGGACTCACATAATGCTTAAGACGTTGATCATTCACCTTGAACTGTT
ACAGATCCTTACAACTTGTCGA
Found at i:9748021 original size:14 final size:16
Alignment explanation
Indices: 9747998--9748035 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
9747988 AATTTTTTTA
9747998 ATTT-TTTTGTTCA-T
1 ATTTATTTTGTTCATT
9748012 A-TTATTTTGTTCATT
1 ATTTATTTTGTTCATT
9748027 ATTTATTTT
1 ATTTATTTT
9748036 TATTTATTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.10
14 10 0.48
15 2 0.10
16 7 0.33
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.71
Consensus pattern (16 bp):
ATTTATTTTGTTCATT
Done.