Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167826.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_1, whole genome shotgun sequence
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: 36299135
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Warning! 357000 characters in sequence are not A, C, G, or T
File 46 of 402
Found at i:8992299 original size:14 final size:13
Alignment explanation
Indices: 8992282--8992341 Score: 50
Period size: 14 Copynumber: 4.4 Consensus size: 13
8992272 ATATTTTAAG
8992282 TTTTTTTATTTCAT
1 TTTTTTTATTT-AT
* *
8992296 TTTTATT-TTAAGT
1 TTTTTTTATTTA-T
8992309 TTTTTATTATTTAT
1 TTTTT-TTATTTAT
*
8992323 TTTATTTTATTGAT
1 TTT-TTTTATTTAT
8992337 TTTTT
1 TTTTT
8992342 GTTGAAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
12 1 0.03
13 9 0.24
14 22 0.59
15 5 0.14
ACGTcount: A:0.18, C:0.02, G:0.03, T:0.77
Consensus pattern (13 bp):
TTTTTTTATTTAT
Found at i:8992325 original size:26 final size:26
Alignment explanation
Indices: 8992265--8992331 Score: 93
Period size: 26 Copynumber: 2.5 Consensus size: 26
8992255 TTTTTTAAAA
8992265 TCATTTTATATTTTAAGTTTTTTTATT
1 TCATTTT-TATTTTAAGTTTTTTTATT
8992292 TCATTTTTATTTTAAGTTTTTTATTATT
1 TCATTTTTATTTTAAG-TTTTT-TTATT
8992320 T-A-TTTTATTTTA
1 TCATTTTTATTTTA
8992332 TTGATTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
26 19 0.50
27 13 0.34
28 6 0.16
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.72
Consensus pattern (26 bp):
TCATTTTTATTTTAAGTTTTTTTATT
Found at i:8992339 original size:28 final size:28
Alignment explanation
Indices: 8992237--8992341 Score: 85
Period size: 26 Copynumber: 3.9 Consensus size: 28
8992227 TATTTACCAT
*
8992237 TTTATTTTTATTTTTTGATTTTTTA-AA
1 TTTATTTTTATTTTTTGATTTTTTATTA
* * * * *
8992264 ATCA-TTTTATATTTTAAGTTTTT-TTA
1 TTTATTTTTATTTTTTGATTTTTTATTA
**
8992290 TTTCATTTTTATTTTAAG-TTTTTTATTA
1 TTT-ATTTTTATTTTTTGATTTTTTATTA
8992318 TTTA-TTTTATTTTATTGATTTTTT
1 TTTATTTTTATTTT-TTGATTTTTT
8992342 GTTGAAAAAT
Statistics
Matches: 57, Mismatches: 15, Indels: 11
0.69 0.18 0.13
Matches are distributed among these distances:
26 27 0.47
27 10 0.18
28 20 0.35
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (28 bp):
TTTATTTTTATTTTTTGATTTTTTATTA
Found at i:9004490 original size:18 final size:18
Alignment explanation
Indices: 9004456--9004562 Score: 73
Period size: 18 Copynumber: 5.8 Consensus size: 18
9004446 TAGGTTTTTC
9004456 TTTTTTCATTTTAATTTTAA
1 TTTTTT-ATTTT-ATTTTAA
9004476 TTTTTTATTTTATTTTTTAA
1 TTTTTTATTTTA--TTTTAA
*
9004496 TCATTTTA---TATTTTAA
1 T-TTTTTATTTTATTTTAA
9004512 GTTTTTTATTTTA-TTT-A
1 -TTTTTTATTTTATTTTAA
*
9004529 TATTTTTAGTTTTA-TTTAT
1 T-TTTTTA-TTTTATTTTAA
9004548 TTATTTTATTTTATT
1 TT-TTTTATTTTATT
9004563 GATTTTTTAC
Statistics
Matches: 72, Mismatches: 3, Indels: 25
0.72 0.03 0.25
Matches are distributed among these distances:
16 12 0.17
17 8 0.11
18 20 0.28
19 14 0.19
20 13 0.18
21 5 0.07
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (18 bp):
TTTTTTATTTTATTTTAA
Found at i:9004516 original size:25 final size:23
Alignment explanation
Indices: 9004475--9004541 Score: 64
Period size: 25 Copynumber: 2.8 Consensus size: 23
9004465 TTTAATTTTA
*
9004475 ATTTTTTATTTTA-TTTTTTAATC
1 ATTTTATATTTTAGTTTTTT-ATC
*
9004498 ATTTTATATTTTAAGTTTTTTATT
1 ATTTTATATTTT-AGTTTTTTATC
*
9004522 TTATTTATATTTTTAGTTTT
1 AT-TTTATA-TTTTAGTTTT
9004542 ATTTATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
23 11 0.30
24 4 0.11
25 18 0.49
26 4 0.11
ACGTcount: A:0.22, C:0.01, G:0.03, T:0.73
Consensus pattern (23 bp):
ATTTTATATTTTAGTTTTTTATC
Found at i:9004525 original size:5 final size:5
Alignment explanation
Indices: 9004515--9004562 Score: 55
Period size: 5 Copynumber: 9.4 Consensus size: 5
9004505 ATTTTAAGTT
9004515 TTTTA TTTTA TTTATA TTTTTA GTTTTA -TTTA -TTTA TTTTA TTTTA
1 TTTTA TTTTA TTT-TA -TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA
9004561 TT
1 TT
9004563 GATTTTTTAC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
4 8 0.21
5 19 0.49
6 9 0.23
7 3 0.08
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:9004557 original size:25 final size:25
Alignment explanation
Indices: 9004498--9004559 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 25
9004488 TTTTTTAATC
9004498 ATTTTATATTTTAAGTTTTTTATTTT
1 ATTTTAT-TTTTAAGTTTTTTATTTT
9004524 ATTTATATTTTT-AGTTTTATT-TATTT
1 ATTT-TATTTTTAAGTTTT-TTAT-TTT
9004550 ATTTTATTTT
1 ATTTTATTTT
9004560 ATTGATTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
25 13 0.39
26 17 0.52
27 3 0.09
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (25 bp):
ATTTTATTTTTAAGTTTTTTATTTT
Found at i:9004560 original size:14 final size:14
Alignment explanation
Indices: 9004463--9004568 Score: 62
Period size: 14 Copynumber: 7.4 Consensus size: 14
9004453 TTCTTTTTTC
*
9004463 ATTTTAATTTTAATT
1 ATTTT-ATTTTATTT
9004478 -TTTTATTTTATTT
1 ATTTTATTTTATTT
9004491 -TTTAATCATTTTA--T
1 ATTT--T-ATTTTATTT
*
9004505 ATTTTAAGTTT-TTT
1 ATTTT-ATTTTATTT
9004519 ATTTTATTTATATTTTT
1 ATTTTATTT-TA--TTT
9004536 AGTTTTA-TTTATTT
1 A-TTTTATTTTATTT
*
9004550 ATTTTATTTTATTG
1 ATTTTATTTTATTT
9004564 ATTTT
1 ATTTT
9004569 TTACTGAGTA
Statistics
Matches: 74, Mismatches: 5, Indels: 25
0.71 0.05 0.24
Matches are distributed among these distances:
13 24 0.32
14 27 0.36
15 4 0.05
16 8 0.11
17 6 0.08
18 5 0.07
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.73
Consensus pattern (14 bp):
ATTTTATTTTATTT
Found at i:9004567 original size:18 final size:17
Alignment explanation
Indices: 9004513--9004570 Score: 80
Period size: 18 Copynumber: 3.3 Consensus size: 17
9004503 ATATTTTAAG
9004513 TTTTTTATTTTATTTAT
1 TTTTTTATTTTATTTAT
*
9004530 ATTTTTAGTTTTATTTAT
1 TTTTTTA-TTTTATTTAT
*
9004548 TTATTTTATTTTATTGAT
1 TT-TTTTATTTTATTTAT
9004566 TTTTT
1 TTTTT
9004571 ACTGAGTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 9 0.25
18 22 0.61
19 5 0.14
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTTTTATTTTATTTAT
Found at i:9004892 original size:16 final size:16
Alignment explanation
Indices: 9004871--9004901 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9004861 AGATTTAATG
9004871 AATTTTTACAAATATA
1 AATTTTTACAAATATA
*
9004887 AATTTTTATAAATAT
1 AATTTTTACAAATAT
9004902 TTTTACAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTTTTACAAATATA
Found at i:9005483 original size:3 final size:3
Alignment explanation
Indices: 9005465--9005497 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
9005455 TAGTAAAAGG
*
9005465 ATA AAA ATA A-A ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9005498 AACAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:9005969 original size:40 final size:39
Alignment explanation
Indices: 9005833--9006059 Score: 176
Period size: 40 Copynumber: 5.7 Consensus size: 39
9005823 TAAATGTTGT
* *
9005833 TTCAACACGAAGGCACACT-ACTCT-AAAATT-AAGGATTC
1 TTCAACACGAAAGCACA-TAACTTTAAAAATTAAAGG-TTC
* * * * * *
9005871 ATTTAACACGAAGGCACACAACTTAAAAAAAATTAAAAGCTC
1 -TTCAACACGAAAGCACATAACTT--TAAAAATTAAAGGTTC
* *
9005913 TTCAACACGAAGGCACATTACTTTAAAAATTAAAGGTTCC
1 TTCAACACGAAAGCACATAACTTTAAAAATTAAAGGTT-C
* * * *
9005953 TTTAACATGAAAGCACAGAAC-TTAAAAA-AAAAGGTTC
1 TTCAACACGAAAGCACATAACTTTAAAAATTAAAGGTTC
* * * *
9005990 ATTCAACACAAAAACACATAATTTTAAAAATTAAGGGCTTC
1 -TTCAACACGAAAGCACATAACTTTAAAAATTAAAGG-TTC
*
9006031 TTCAACACGAAAGCACACAACTTTAAAAA
1 TTCAACACGAAAGCACATAACTTTAAAAA
9006060 AATAATGACT
Statistics
Matches: 148, Mismatches: 30, Indels: 19
0.75 0.15 0.10
Matches are distributed among these distances:
37 1 0.01
38 22 0.15
39 45 0.30
40 46 0.31
41 23 0.16
42 8 0.05
43 3 0.02
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.23
Consensus pattern (39 bp):
TTCAACACGAAAGCACATAACTTTAAAAATTAAAGGTTC
Found at i:9006076 original size:41 final size:40
Alignment explanation
Indices: 9005833--9006086 Score: 128
Period size: 41 Copynumber: 6.4 Consensus size: 40
9005823 TAAATGTTGT
* * * * *
9005833 TTCAACACGAAGGCACACTACTCT--AAAATTAAGGATTCA
1 TTCAACACGAAAGCACACAACTTTAAAAAAATAA-GACTCA
* * * *
9005872 TTTAACACGAAGGCACACAACTTAAAAAAAATTAAAAGCTC-
1 TTCAACACGAAAGCACACAACTTTAAAAAAA-TAAGA-CTCA
* ** * ** *
9005913 TTCAACACGAAGGCACATTACTTT-AAAAATTAAAGGTTCC
1 TTCAACACGAAAGCACACAACTTTAAAAAAAT-AAGACTCA
* * * **
9005953 TTTAACATGAAAGCACAGAAC-TTAAAAAAA-AAGGTTCA
1 TTCAACACGAAAGCACACAACTTTAAAAAAATAAGACTCA
* * * * * *
9005991 TTCAACACAAAAACACATAA-TTTTAAAAATTAAGGGCTTC-
1 TTCAACACGAAAGCACACAACTTTAAAAAAATAA-GAC-TCA
9006031 TTCAACACGAAAGCACACAACTTTAAAAAAATAATGACTCA
1 TTCAACACGAAAGCACACAACTTTAAAAAAATAA-GACTCA
* *
9006072 TTCAATATGAAAGCA
1 TTCAACACGAAAGCA
9006087 AAAAATTTAA
Statistics
Matches: 163, Mismatches: 39, Indels: 24
0.72 0.17 0.11
Matches are distributed among these distances:
38 29 0.18
39 27 0.17
40 49 0.30
41 53 0.33
42 5 0.03
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.23
Consensus pattern (40 bp):
TTCAACACGAAAGCACACAACTTTAAAAAAATAAGACTCA
Found at i:9011922 original size:14 final size:14
Alignment explanation
Indices: 9011903--9011932 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9011893 AAGATTCTAA
9011903 TTTTTATTTTTAAT
1 TTTTTATTTTTAAT
*
9011917 TTTTTATTTTTTAT
1 TTTTTATTTTTAAT
9011931 TT
1 TT
9011933 ACTTTTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTATTTTTAAT
Found at i:9012219 original size:19 final size:19
Alignment explanation
Indices: 9012154--9012231 Score: 86
Period size: 19 Copynumber: 4.1 Consensus size: 19
9012144 TTAAGGTCTT
* *
9012154 GGGTTTTACCTAAGGTTTA
1 GGGTTTCACCTAAGATTTA
** *
9012173 GGGTTTCAAATAAGATTTT
1 GGGTTTCACCTAAGATTTA
*
9012192 GGGTTTCACTTAAGATTTA
1 GGGTTTCACCTAAGATTTA
9012211 GGGTTTCACCT-AGAGTTTA
1 GGGTTTCACCTAAGA-TTTA
9012230 GG
1 GG
9012232 ATTTTACTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
18 3 0.06
19 46 0.94
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.40
Consensus pattern (19 bp):
GGGTTTCACCTAAGATTTA
Found at i:9012296 original size:12 final size:13
Alignment explanation
Indices: 9012276--9012339 Score: 96
Period size: 13 Copynumber: 5.0 Consensus size: 13
9012266 TATGGCTTTG
9012276 TTTTAGGGTTTCA
1 TTTTAGGGTTTCA
9012289 TTTT-GGGTTTCA
1 TTTTAGGGTTTCA
*
9012301 TTTTAGGGTTTTA
1 TTTTAGGGTTTCA
9012314 TTTTAGGGTTTCGA
1 TTTTAGGGTTTC-A
9012328 -TTTAGGGTTTCA
1 TTTTAGGGTTTCA
9012340 CCTTGGATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
12 13 0.28
13 33 0.70
14 1 0.02
ACGTcount: A:0.14, C:0.06, G:0.25, T:0.55
Consensus pattern (13 bp):
TTTTAGGGTTTCA
Found at i:9012603 original size:3 final size:3
Alignment explanation
Indices: 9012595--9012635 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
9012585 TAATTAAAAA
9012595 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
9012636 CTTTTTATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:9014230 original size:2 final size:2
Alignment explanation
Indices: 9014217--9014252 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
9014207 CATGCAATAG
*
9014217 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9014253 TAGGCCCGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9014370 original size:4 final size:4
Alignment explanation
Indices: 9014348--9014417 Score: 58
Period size: 4 Copynumber: 17.2 Consensus size: 4
9014338 TTAATTTTCA
*
9014348 ATTT AGTT A-TT ATTTT ATTT ATTTT ATTT ATTT ATTT -TATT ATTT ATTT
1 ATTT ATTT ATTT A-TTT ATTT A-TTT ATTT ATTT ATTT AT-TT ATTT ATTT
9014397 AATGTT A-TT A-TT ATTT ATTT A
1 -AT-TT ATTT ATTT ATTT ATTT A
9014418 ATATTTTTTG
Statistics
Matches: 57, Mismatches: 1, Indels: 16
0.77 0.01 0.22
Matches are distributed among these distances:
3 10 0.18
4 34 0.60
5 11 0.19
6 2 0.04
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (4 bp):
ATTT
Found at i:9014382 original size:25 final size:24
Alignment explanation
Indices: 9014321--9014417 Score: 85
Period size: 25 Copynumber: 4.0 Consensus size: 24
9014311 TTCTTTTTTC
* * *
9014321 ATTTCATTTATT-TAATTTTAATT
1 ATTTAATTTATTATTATTTTATTT
*
9014344 -TTCAATTTAGTTATTATTTTATTT
1 ATTTAATTTA-TTATTATTTTATTT
*
9014368 ATTTTATTTATTTATT-TTATTATTT
1 ATTTAATTTA-TTATTATT-TTATTT
9014393 ATTTAATGTTATTATTA-TTTATTT
1 ATTTAAT-TTATTATTATTTTATTT
9014417 A
1 A
9014418 ATATTTTTTG
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
22 7 0.12
23 2 0.03
24 18 0.30
25 30 0.50
26 3 0.05
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (24 bp):
ATTTAATTTATTATTATTTTATTT
Found at i:9014395 original size:20 final size:20
Alignment explanation
Indices: 9014348--9014417 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
9014338 TTAATTTTCA
*
9014348 ATTTAGTTA-TTATTTTATTT
1 ATTTATTTATTTATTTTA-TT
9014368 ATTTTATTTATTTATTTTATT
1 A-TTTATTTATTTATTTTATT
9014389 ATTTATTTAATGTTA--TTATT
1 ATTTATTT-AT-TTATTTTATT
9014409 ATTTATTTA
1 ATTTATTTA
9014418 ATATTTTTTG
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
19 1 0.02
20 21 0.47
21 12 0.27
22 11 0.24
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (20 bp):
ATTTATTTATTTATTTTATT
Found at i:9014418 original size:20 final size:19
Alignment explanation
Indices: 9014357--9014419 Score: 80
Period size: 20 Copynumber: 3.5 Consensus size: 19
9014347 AATTTAGTTA
*
9014357 TTATTTTATTTATT-TTAT
1 TTATTTAATTTATTATTAT
9014375 TTATTT-A-TT-TTATTAT
1 TTATTTAATTTATTATTAT
9014391 TTATTTAATGTTATTATTAT
1 TTATTTAAT-TTATTATTAT
9014411 TTATTTAAT
1 TTATTTAAT
9014420 ATTTTTTGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
15 2 0.05
16 12 0.30
17 2 0.05
18 6 0.15
19 2 0.05
20 16 0.40
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (19 bp):
TTATTTAATTTATTATTAT
Found at i:9019259 original size:17 final size:18
Alignment explanation
Indices: 9019239--9019272 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9019229 TTCTAAAAGC
9019239 AAAATAAAAAT-AAATTA
1 AAAATAAAAATGAAATTA
*
9019256 AAAATAAGAATGAAATT
1 AAAATAAAAATGAAATT
9019273 TGGCTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (18 bp):
AAAATAAAAATGAAATTA
Found at i:9020213 original size:22 final size:22
Alignment explanation
Indices: 9020144--9020217 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 22
9020134 TTTTACCCGA
* *
9020144 AGGTCTTACAGATTATGTTTGG
1 AGGTCTTAGAGATTATGTCTGG
** * * **
9020166 AGAACTTAGAGATTTTGCCTAA
1 AGGTCTTAGAGATTATGTCTGG
*
9020188 AGGTCTTAGAGATTATGTGTGG
1 AGGTCTTAGAGATTATGTCTGG
9020210 AGGTCTTA
1 AGGTCTTA
9020218 CAAATCTCGA
Statistics
Matches: 37, Mismatches: 15, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.27, C:0.09, G:0.27, T:0.36
Consensus pattern (22 bp):
AGGTCTTAGAGATTATGTCTGG
Found at i:9020316 original size:21 final size:21
Alignment explanation
Indices: 9020292--9020343 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
9020282 TTTTGCTTAG
*
9020292 AAGTCTTAAA-ATTATGCTCGA
1 AAGTCTTAAAGATTATGC-CCA
9020313 AAGTCTTAAAGATTATGCCCA
1 AAGTCTTAAAGATTATGCCCA
9020334 AAGGTCTTAA
1 AA-GTCTTAA
9020344 CCCAAAGGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (21 bp):
AAGTCTTAAAGATTATGCCCA
Found at i:9020349 original size:14 final size:14
Alignment explanation
Indices: 9020330--9020356 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9020320 AAAGATTATG
9020330 CCCAAAGGTCTTAA
1 CCCAAAGGTCTTAA
9020344 CCCAAAGGTCTTA
1 CCCAAAGGTCTTA
9020357 CAAATCTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (14 bp):
CCCAAAGGTCTTAA
Found at i:9020549 original size:103 final size:104
Alignment explanation
Indices: 9020349--9020563 Score: 256
Period size: 103 Copynumber: 2.1 Consensus size: 104
9020339 CTTAACCCAA
* *
9020349 AGGTCTTACAAATCTCAACATCTTTGAATGCTCCTCCAATCAGAGGCATTGAAACTTTGAAATTT
1 AGGTCTTACAAATCTCAACATCTTTGAATGCTCCTCCAATCAGAGGCATTGAAACATAGAAATTT
* * * * * *
9020414 TAAAATGTTTTGCCTAGAGGTTTTATAGATTATGCT-GG
66 TAAAATGTTTTACCCAAAAGTTTGATAAATTATGCTCGG
* * *** *
9020452 AGGTTTTACAAATCTCGACATCTTTGAATGCTCCTCTTGTTAGAGGCATTGAAACATAGACAA-T
1 AGGTCTTACAAATCTCAACATCTTTGAATGCTCCTCCAATCAGAGGCATTGAAACATAGA-AATT
*
9020516 TTAAAATGTTTTACCCAAAAGTCTTGA-AAATTATGTTCGG
65 TTAAAATGTTTTACCCAAAAGT-TTGATAAATTATGCTCGG
9020556 AGGTCTTA
1 AGGTCTTA
9020564 GAGATCTATG
Statistics
Matches: 93, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
103 79 0.85
104 14 0.15
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.35
Consensus pattern (104 bp):
AGGTCTTACAAATCTCAACATCTTTGAATGCTCCTCCAATCAGAGGCATTGAAACATAGAAATTT
TAAAATGTTTTACCCAAAAGTTTGATAAATTATGCTCGG
Found at i:9021187 original size:14 final size:14
Alignment explanation
Indices: 9021168--9021196 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9021158 AATACTTTTT
9021168 CTATGATGCAAATG
1 CTATGATGCAAATG
9021182 CTATGATGCAAATG
1 CTATGATGCAAATG
9021196 C
1 C
9021197 CAATGTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (14 bp):
CTATGATGCAAATG
Found at i:9022499 original size:130 final size:131
Alignment explanation
Indices: 9022334--9022762 Score: 446
Period size: 130 Copynumber: 3.2 Consensus size: 131
9022324 TTTTTACTTG
* * * *
9022334 GGATTCTAGCTGATGCTTTATTCACTTTTTACCCTAGACTCTTATTTTCAAAGTGCATGTATTTC
1 GGATTCTAACTGAAGCCTTATTCACTTTTTACCCTAGACTCTCATTTTCAAAGTGCATGTATTTC
* * *
9022399 TTTCTTTGCTATTTTTTTTGGAAATATCTGACTTCAACTTTAACCTTCTACTTTCTTGAA-TCTT
66 TTTCTTTGCTATTTTTTTTGGAAACATCTGAATTCAACTTTAACATTCTACTTTCTTGAATTCTT
9022463 A
131 A
* * ** * *
9022464 GGATTTTAACTGAAGCCTTATTTACTTTTTACCCTAGACTCTCATTTTTTAGGTGCATGTCTTTC
1 GGATTCTAACTGAAGCCTTATTCACTTTTTACCCTAGACTCTCATTTTCAAAGTGCATGTATTTC
* * *
9022529 TTTCTTTGCTCTTTTTTTTGGAAACATTTGAATTCAACTTTAATATTCTACTTTCTTGAATTCTT
66 TTTCTTTGCTATTTTTTTTGGAAACATCTGAATTCAACTTTAACATTCTACTTTCTTGAATTCTT
9022594 A
131 A
* * * * * * *
9022595 GGATTCTAATTGAATCCTCATTCACTTTTTTTTCCCTTAAACTCTCATCTTCAAGGTGCATGTCT
1 GGATTCTAACTGAAGCCTTATTCAC--TTTTTACCC-TAGACTCTCATTTTCAAAGTGCATG--T
* * * * * * * ** * ** *
9022660 TTTTTTTTTTTTGTTCTTTTTTTTTTTGAAACATTTGACTTCATTTTTAGCAAACTACTCTCTTG
61 ATTTCTTTCTTTG--CTATTTTTTTTGGAAACATCTGAATTCAACTTTAACATTCTACTTTCTTG
9022725 AATTCTTA
124 AATTCTTA
**
9022733 GGATTCTAACTGAAGTTTTATTCACTTTTT
1 GGATTCTAACTGAAGCCTTATTCACTTTTT
9022763 CATTGGACTC
Statistics
Matches: 247, Mismatches: 44, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
130 109 0.44
131 25 0.10
133 8 0.03
134 21 0.09
136 16 0.06
138 68 0.28
ACGTcount: A:0.21, C:0.18, G:0.10, T:0.50
Consensus pattern (131 bp):
GGATTCTAACTGAAGCCTTATTCACTTTTTACCCTAGACTCTCATTTTCAAAGTGCATGTATTTC
TTTCTTTGCTATTTTTTTTGGAAACATCTGAATTCAACTTTAACATTCTACTTTCTTGAATTCTT
A
Found at i:9027957 original size:35 final size:35
Alignment explanation
Indices: 9027891--9027957 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
9027881 GCATAGGATG
* *
9027891 GATGTGCATGAAATGGAATGCATGTACTATCTATT
1 GATGTGAATGAAATGGAATGCATGCACTATCTATT
* *
9027926 GATGTGAATGAGATGGAATGCATGCATTATCT
1 GATGTGAATGAAATGGAATGCATGCACTATCT
9027958 TATGCATAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.33
Consensus pattern (35 bp):
GATGTGAATGAAATGGAATGCATGCACTATCTATT
Found at i:9029466 original size:7 final size:7
Alignment explanation
Indices: 9029454--9029478 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9029444 AAAAAACATA
9029454 TTTTTAT
1 TTTTTAT
9029461 TTTTTAT
1 TTTTTAT
9029468 TTTTTAT
1 TTTTTAT
9029475 TTTT
1 TTTT
9029479 ATCGTGGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:9030844 original size:16 final size:16
Alignment explanation
Indices: 9030823--9030856 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
9030813 TCTTTATTCC
9030823 TCTTTTT-TTATTTTTT
1 TCTTTTTCTT-TTTTTT
9030839 TCTTTTTCTTTTTTTT
1 TCTTTTTCTTTTTTTT
9030855 TC
1 TC
9030857 CTCATCTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (16 bp):
TCTTTTTCTTTTTTTT
Found at i:9033452 original size:18 final size:17
Alignment explanation
Indices: 9033424--9033457 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
9033414 TTGTTTATCT
*
9033424 TCATTATTTATTTTTAA
1 TCATTATTTATCTTTAA
9033441 TCATTGATTTATCTTTA
1 TCATT-ATTTATCTTTA
9033458 TTATAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (17 bp):
TCATTATTTATCTTTAA
Found at i:9034903 original size:13 final size:13
Alignment explanation
Indices: 9034885--9034910 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9034875 GAAAAGTTTG
9034885 TTTATTTATTTCC
1 TTTATTTATTTCC
9034898 TTTATTTATTTCC
1 TTTATTTATTTCC
9034911 ATTACTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTATTTATTTCC
Found at i:9035793 original size:3 final size:3
Alignment explanation
Indices: 9035779--9035825 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
9035769 AGAAAGTAAG
*
9035779 TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9035826 AATTACCTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:9037473 original size:16 final size:17
Alignment explanation
Indices: 9037452--9037484 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
9037442 AAACTTAATT
9037452 TTGAC-TTAAATAAATA
1 TTGACGTTAAATAAATA
9037468 TTGACTGTTAAATAAAT
1 TTGAC-GTTAAATAAAT
9037485 GAATTTTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
18 10 0.67
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.39
Consensus pattern (17 bp):
TTGACGTTAAATAAATA
Found at i:9038503 original size:157 final size:158
Alignment explanation
Indices: 9038308--9038602 Score: 430
Period size: 157 Copynumber: 1.9 Consensus size: 158
9038298 GAAGTCTTAC
* * *
9038308 AGATCATTCAAAGATTTAAGATTTTACCTGGAGCTCTTGGAGATCATTTAAAAATTTAAGATTTT
1 AGATCATTCAAAGATTTAAGATTTTACCTAGAGATCTTGGAGATCATTTAAAAATTCAAGATTTT
* * * * * *
9038373 CCATGGAGGTCATGGAAATCTTGT-AAAAAAATCTAAGGTTTTGTTTGAAAGTCTTTGGAAATCA
66 CCATAGAGGTCATGGAAATCATGTAAAAAAAAACTAAGGTTTTATTCGAAAGTCTTTAGAAATCA
9038437 TTCAAAAAAATTTGCTTGAAGTTCTTGG
131 TTCAAAAAAATTTGCTTGAAGTTCTTGG
* * *
9038465 AGATCATTCAAAGATTTAAGATTTTGCTTAGAGATCTTGGAGATCATTTAAAAGTTCAAGATTTT
1 AGATCATTCAAAGATTTAAGATTTTACCTAGAGATCTTGGAGATCATTTAAAAATTCAAGATTTT
* * * * *
9038530 GCTTAGAGGTCTTGGAAATCATGTAAAAAAAAACTAAGGTTTTATTCGAAGGTCTTTAGAGATCA
66 CCATAGAGGTCATGGAAATCATGTAAAAAAAAACTAAGGTTTTATTCGAAAGTCTTTAGAAATCA
9038595 TTCAAAAA
131 TTCAAAAA
9038603 TTTAAAATTT
Statistics
Matches: 120, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
157 78 0.65
158 42 0.35
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (158 bp):
AGATCATTCAAAGATTTAAGATTTTACCTAGAGATCTTGGAGATCATTTAAAAATTCAAGATTTT
CCATAGAGGTCATGGAAATCATGTAAAAAAAAACTAAGGTTTTATTCGAAAGTCTTTAGAAATCA
TTCAAAAAAATTTGCTTGAAGTTCTTGG
Found at i:9038671 original size:40 final size:40
Alignment explanation
Indices: 9038227--9038674 Score: 209
Period size: 40 Copynumber: 11.1 Consensus size: 40
9038217 GAGGTTTTCC
* * * * *
9038227 AAATCATGTAAAAATCTGAGGTTTTGCCTT-GAGGCCTTTGG
1 AAATCATTTAAAAATTTAAGATTTTG-CTTAGAGGTC-TTGG
* * * ** * **
9038268 AAATCATTTAGAAATTTAAAATTTTACCCAGAAGTCTTAC
1 AAATCATTTAAAAATTTAAGATTTTGCTTAGAGGTCTTGG
* * * * * * *
9038308 AGATCATTCAAAGATTTAAGATTTTACCTGGAGCTCTTGG
1 AAATCATTTAAAAATTTAAGATTTTGCTTAGAGGTCTTGG
* * * * *
9038348 AGATCATTTAAAAATTTAAGATTTTCCATGGAGGTCATGG
1 AAATCATTTAAAAATTTAAGATTTTGCTTAGAGGTCTTGG
* * * *
9038388 AAATC-TTGTAAAAAAATCTAAGGTTTTG-TTTGAAAGTCTTTGG
1 AAATCATT-T--AAAAATTTAAGATTTTGCTTAG-AGGTC-TTGG
* *
9038431 AAATCA-TTCAAAA---AA-A-TTTGCTT-GAAGTTCTTGG
1 AAATCATTTAAAAATTTAAGATTTTGCTTAG-AGGTCTTGG
* * * *
9038465 AGATCATTCAAAGATTTAAGATTTTGCTTAGAGATCTTGG
1 AAATCATTTAAAAATTTAAGATTTTGCTTAGAGGTCTTGG
* * *
9038505 AGATCATTTAAAAGTTCAAGATTTTGCTTAGAGGTCTTGG
1 AAATCATTTAAAAATTTAAGATTTTGCTTAGAGGTCTTGG
* ** * * * *
9038545 AAATCATGTAAAAAAAAACTAAGGTTTT-ATTCGAAGGTCTTTAG
1 AAATCAT-T--TAAAAATTTAAGATTTTGCTTAG-AGGTC-TTGG
* * * * *
9038589 AGATCATTCAAAAATTTAAAATTTTTG-TAAGAGATCTTTGG
1 AAATCATTTAAAAATTTAAGA-TTTTGCTTAGAGGTC-TTGG
* *
9038630 AAATCATTTAGAAATCTAAGATTTTGCTTAGAGGTCTTGG
1 AAATCATTTAAAAATTTAAGATTTTGCTTAGAGGTCTTGG
9038670 AAATC
1 AAATC
9038675 TTGTACTCAT
Statistics
Matches: 305, Mismatches: 79, Indels: 47
0.71 0.18 0.11
Matches are distributed among these distances:
34 9 0.03
35 13 0.04
36 2 0.01
37 2 0.01
38 2 0.01
39 3 0.01
40 145 0.48
41 66 0.22
42 28 0.09
43 26 0.09
44 9 0.03
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (40 bp):
AAATCATTTAAAAATTTAAGATTTTGCTTAGAGGTCTTGG
Found at i:9040156 original size:20 final size:20
Alignment explanation
Indices: 9040126--9040177 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
9040116 ATATTCATAT
*
9040126 TTCTT-TTTTTTTCTTGTTTC
1 TTCTTCTTTTTTTCTT-CTTC
9040146 TT-TTCTTTTTTTCTTCTTC
1 TTCTTCTTTTTTTCTTCTTC
9040165 TTCTTCTTTTTTT
1 TTCTTCTTTTTTT
9040178 TATTTTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 7 0.24
20 22 0.76
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (20 bp):
TTCTTCTTTTTTTCTTCTTC
Found at i:9040170 original size:9 final size:8
Alignment explanation
Indices: 9040125--9040174 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
9040115 CATATTCATA
9040125 TTTCTT-T
1 TTTCTTCT
*
9040132 TTTTTTCT
1 TTTCTTCT
*
9040140 TGT-TTCT
1 TTTCTTCT
*
9040147 TTTCTTTT
1 TTTCTTCT
9040155 TTTCTTCT
1 TTTCTTCT
9040163 TCTTCTTCT
1 T-TTCTTCT
9040172 TTT
1 TTT
9040175 TTTTATTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
7 11 0.31
8 16 0.46
9 8 0.23
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (8 bp):
TTTCTTCT
Found at i:9040177 original size:23 final size:20
Alignment explanation
Indices: 9040129--9040193 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
9040119 TTCATATTTC
9040129 TTTTTTTTTCTTGTTTCTTT
1 TTTTTTTTTCTTGTTTCTTT
* *
9040149 TCTTTTTTTCTT-CTTCTTCT
1 TTTTTTTTTCTTGTTTCTT-T
* * *
9040169 TCTTTTTTTTATTTTTTATTT
1 T-TTTTTTTTCTTGTTTCTTT
9040190 TTTT
1 TTTT
9040194 ACTTTTATAC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
19 5 0.14
20 16 0.44
21 11 0.31
22 4 0.11
ACGTcount: A:0.03, C:0.12, G:0.02, T:0.83
Consensus pattern (20 bp):
TTTTTTTTTCTTGTTTCTTT
Found at i:9040679 original size:18 final size:18
Alignment explanation
Indices: 9040639--9040672 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9040629 TTTTTTTTAT
*
9040639 TTTTCTTTATTTTTTCCC
1 TTTTCTTTATTTTCTCCC
9040657 TTTTC-TTATTTTCTCC
1 TTTTCTTTATTTTCTCC
9040673 TTATTTCACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTCTTTATTTTCTCCC
Found at i:9041205 original size:10 final size:10
Alignment explanation
Indices: 9041121--9041198 Score: 59
Period size: 10 Copynumber: 7.6 Consensus size: 10
9041111 AGATTTTTCC
*
9041121 TTTTTTCCTT
1 TTTTTTCTTT
*
9041131 TTCTTTCTTT
1 TTTTTTCTTT
*
9041141 TCATTTTTC-TC
1 T--TTTTTCTTT
*
9041152 TTTTTGCTTT
1 TTTTTTCTTT
*
9041162 TTTTTTCTAT
1 TTTTTTCTTT
9041172 TTTTTTCTTT
1 TTTTTTCTTT
**
9041182 GATTTTCTATT
1 TTTTTTCT-TT
9041193 TTTTTT
1 TTTTTT
9041199 TGTTTTTGTA
Statistics
Matches: 51, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
9 5 0.10
10 33 0.65
11 8 0.16
12 5 0.10
ACGTcount: A:0.05, C:0.14, G:0.03, T:0.78
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:9041886 original size:6 final size:7
Alignment explanation
Indices: 9041871--9041895 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9041861 CTTTCCTCTC
9041871 TTTTGTT
1 TTTTGTT
9041878 TTTTGTT
1 TTTTGTT
9041885 TTTTGTT
1 TTTTGTT
9041892 TTTT
1 TTTT
9041896 TTGCAAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTTGTT
Found at i:9048494 original size:3 final size:3
Alignment explanation
Indices: 9048486--9048520 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
9048476 TAAGTAACAA
9048486 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9048521 ATATAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9052247 original size:23 final size:20
Alignment explanation
Indices: 9052221--9052263 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 20
9052211 TCTTTATATG
9052221 TTTTAATTGACTTATTATTATTA
1 TTTTAATT-ACTT-TTA-TATTA
*
9052244 TTTTTATTACTTTTATATTA
1 TTTTAATTACTTTTATATTA
9052264 AGCTAATCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 3 0.16
22 4 0.21
23 7 0.37
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTAATTACTTTTATATTA
Found at i:9064929 original size:12 final size:12
Alignment explanation
Indices: 9064910--9064956 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
9064900 CTTTCACTTA
9064910 AACTAAATGAAG
1 AACTAAATGAAG
*
9064922 ATCTAAATGAAG
1 AACTAAATGAAG
*
9064934 AACTAATTGAAG
1 AACTAAATGAAG
9064946 AACTAAATGAA
1 AACTAAATGAA
9064957 AGTGTAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.55, C:0.09, G:0.15, T:0.21
Consensus pattern (12 bp):
AACTAAATGAAG
Found at i:9068751 original size:16 final size:16
Alignment explanation
Indices: 9068732--9068784 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
9068722 ATAAAGAAGT
9068732 ATGAAAATTAAATAAC
1 ATGAAAATTAAATAAC
**
9068748 ATGAAAATTAAATGGC
1 ATGAAAATTAAATAAC
* *
9068764 AAGTAAATTAAATAAC
1 ATGAAAATTAAATAAC
9068780 ATGAA
1 ATGAA
9068785 CTTAAAAATG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.58, C:0.06, G:0.11, T:0.25
Consensus pattern (16 bp):
ATGAAAATTAAATAAC
Found at i:9068902 original size:15 final size:15
Alignment explanation
Indices: 9068867--9068904 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
9068857 AGTAAATGAG
9068867 AGCATGAAATTAAAT
1 AGCATGAAATTAAAT
*
9068882 AACATGAAATTAAAT
1 AGCATGAAATTAAAT
*
9068897 TGCATGAA
1 AGCATGAA
9068905 CTTTAAAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.53, C:0.08, G:0.13, T:0.26
Consensus pattern (15 bp):
AGCATGAAATTAAAT
Found at i:9073956 original size:23 final size:23
Alignment explanation
Indices: 9073930--9073986 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
9073920 TTAAACATAT
9073930 AATAAACAAATACGTTCATGAAC
1 AATAAACAAATACGTTCATGAAC
* *
9073953 AATAAATAAATATGTTCATGAAC
1 AATAAACAAATACGTTCATGAAC
9073976 AATAAACAAAT
1 AATAAACAAAT
9073987 CATAACCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.56, C:0.12, G:0.07, T:0.25
Consensus pattern (23 bp):
AATAAACAAATACGTTCATGAAC
Found at i:9074544 original size:27 final size:28
Alignment explanation
Indices: 9074512--9074570 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
9074502 AAGTTTGTAT
9074512 ATAATAGA-AATTTTAAATTC-TAAAATA
1 ATAATA-ATAATTTTAAATTCTTAAAATA
* * *
9074539 ATAATAATATTTTTTAATTCTTAATATA
1 ATAATAATAATTTTAAATTCTTAAAATA
9074567 ATAA
1 ATAA
9074571 CAAATTATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.04
27 16 0.59
28 10 0.37
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (28 bp):
ATAATAATAATTTTAAATTCTTAAAATA
Found at i:9074588 original size:32 final size:31
Alignment explanation
Indices: 9074535--9074622 Score: 99
Period size: 32 Copynumber: 2.8 Consensus size: 31
9074525 TAAATTCTAA
* * *
9074535 AATAATAATAATATTTTTTAATTCT-TAATAT
1 AATAAAAATTATATTTATTAATT-TATAATAT
*
9074566 AATAACAAATTATATTTATTAATTTATTATAT
1 AATAA-AAATTATATTTATTAATTTATAATAT
9074598 AATAAAAATT-TATTTATTACATTTA
1 AATAAAAATTATATTTATTA-ATTTA
9074623 ATTAAAAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
30 9 0.18
31 16 0.32
32 25 0.50
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (31 bp):
AATAAAAATTATATTTATTAATTTATAATAT
Found at i:9074614 original size:30 final size:33
Alignment explanation
Indices: 9074562--9074622 Score: 101
Period size: 31 Copynumber: 1.9 Consensus size: 33
9074552 TTAATTCTTA
9074562 ATATAATAACAAATTATATTTATTA-ATTTATT
1 ATATAATAACAAATTATATTTATTACATTTATT
9074594 ATATAATAA-AAATT-TATTTATTACATTTA
1 ATATAATAACAAATTATATTTATTACATTTA
9074623 ATTAAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 9 0.32
31 10 0.36
32 9 0.32
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (33 bp):
ATATAATAACAAATTATATTTATTACATTTATT
Found at i:9074640 original size:30 final size:30
Alignment explanation
Indices: 9074562--9074622 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 30
9074552 TTAATTCTTA
*
9074562 ATATAATAACAAATTATATTTATTAATTTATT
1 ATATAAT-A-AAATTTTATTTATTAATTTATT
*
9074594 ATATAATAAAAATTTATTTATTACATTTA
1 ATATAATAAAATTTTATTTATTA-ATTTA
9074623 ATTAAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 13 0.50
31 6 0.23
32 7 0.27
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (30 bp):
ATATAATAAAATTTTATTTATTAATTTATT
Found at i:9075235 original size:63 final size:63
Alignment explanation
Indices: 9075059--9075935 Score: 711
Period size: 63 Copynumber: 14.0 Consensus size: 63
9075049 ATTGCAACAT
* * * * **
9075059 AGTAATTGATTGTTTTTATAAA-AATTATAATGATCAATTATTATATTATAAAACAAAGTAACAC
1 AGTAATTGATTG-TTTTA-AAACAATTACAATGATCAATTACTACATTATAAAACAAAGCAATGC
* ** * * * * * * * * *
9075123 AATAATTGATCATTTGATTAA-AATTAC-TTTATTAATTATTGCATCATAAAATAAAGCAATGC
1 AGTAATTGATTGTTTTA-AAACAATTACAATGATCAATTACTACATTATAAAACAAAGCAATGC
* * * * * * *
9075185 AGTAATTGATTATTTTAAAGCAAGTATAATGATCAATTACTATATTATAAATCAAATCAATGC
1 AGTAATTGATTGTTTTAAAACAATTACAATGATCAATTACTACATTATAAAACAAAGCAATGC
* * * * *
9075248 AGTAATTAATTG-TCTAAAAAAATTTACAATGATCAATTAC-AGCGTTATAAAACAAAGTAATGC
1 AGTAATTGATTGTTTTAAAACAA-TTACAATGATCAATTACTA-CATTATAAAACAAAGCAATGC
* * * * * * *
9075311 AATAATTGATTATTTTATTAA-AATTACAATTATCAATTACTGCACTATAAAACAAAGTAATGC
1 AGTAATTGATTGTTTTA-AAACAATTACAATGATCAATTACTACATTATAAAACAAAGCAATGC
* * * * ***
9075374 AATAATTGGTTATTTTTAAACAATTACAATGATCAATTACTGTGTTATAAAACAAAGCAATGC
1 AGTAATTGATTGTTTTAAAACAATTACAATGATCAATTACTACATTATAAAACAAAGCAATGC
* * * * * * **
9075437 AGTAACTGATTATTTTAAAATAATTACAATGATCAATTATTGCATTATAAAACAAAGTAACAC
1 AGTAATTGATTGTTTTAAAACAATTACAATGATCAATTACTACATTATAAAACAAAGCAATGC
* * * * *
9075500 AATACTTGATTGTTTGAAAA-AATTACAATGATCAATTACTACATTCTAAAACAAAGTAATGC
1 AGTAATTGATTGTTTTAAAACAATTACAATGATCAATTACTACATTATAAAACAAAGCAATGC
* * * * * * *
9075562 AGTAATTGATTGTTTGT-AAA-ATTTACAATTATCAATTATTA-AGTTTTTAAAATAAAGCGACG
1 AGTAATTGATTGTTT-TAAAACAATTACAATGATCAATTACTACA--TTATAAAACAAAGCAATG
*
9075624 T
63 C
* * * *
9075625 AGTAATTGATTGTTTTAAAACAATTACAATGATCAATTACTGCATTATAAAACAAAGTAACGT
1 AGTAATTGATTGTTTTAAAACAATTACAATGATCAATTACTACATTATAAAACAAAGCAATGC
* * * * * * **
9075688 AATAATTGATTGTTGTAAAA-ATTTAAAATTACCAATTACTACATGT-TAAAACAAAGCAACAC
1 AGTAATTGATTGTTTTAAAACAATTACAATGATCAATTACTACAT-TATAAAACAAAGCAATGC
* * * * * *
9075750 AGTAATTGATTGTTTTAAAACAATGACAATTATCAATT-TTACACTATAAAACAAAGAAATGT
1 AGTAATTGATTGTTTTAAAACAATTACAATGATCAATTACTACATTATAAAACAAAGCAATGC
* ** ** **
9075812 AGTAATT-AGTTGTTTTAAAAAAATTACAATGATCAATTACTATGTTATAAAACAAAATAACAC
1 AGTAATTGA-TTGTTTTAAAACAATTACAATGATCAATTACTACATTATAAAACAAAGCAATGC
* * * *
9075875 AATAATTGATTGTTTTAAAACAATTACAATAATCAATTACTGCATTATAAAATAAAGCAAT
1 AGTAATTGATTGTTTTAAAACAATTACAATGATCAATTACTACATTATAAAACAAAGCAAT
9075936 ACATATATGC
Statistics
Matches: 646, Mismatches: 147, Indels: 41
0.77 0.18 0.05
Matches are distributed among these distances:
61 4 0.01
62 224 0.35
63 383 0.59
64 32 0.05
65 3 0.00
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.35
Consensus pattern (63 bp):
AGTAATTGATTGTTTTAAAACAATTACAATGATCAATTACTACATTATAAAACAAAGCAATGC
Found at i:9075300 original size:188 final size:188
Alignment explanation
Indices: 9075059--9075935 Score: 846
Period size: 188 Copynumber: 4.7 Consensus size: 188
9075049 ATTGCAACAT
* * * * *
9075059 AGTAATTGATTGTTTTTATAAAAATTATAATGATCAATTATTA-TATTATAAAACAAAGTAACAC
1 AGTAATTAATTG-TTTTAAAAAAATTACAATGATCAATTA-CAGCATTATAAAACAAAGTAACAC
* * * * * * *
9075123 AATAATTGATCATTTGATTAAAATTAC-TTTATTAATTATTGCATCATAAAATAAAGCAATGCAG
64 AATAATTGATTATTTGATAAAAATTACAATTATCAATTACTACATCATAAAACAAAGCAATGCAG
* * * *
9075187 TAATTGATTATTTTAAAGCAAGTATAATGATCAATTACTATATTATAAATCAAATCAATGC
129 TAATTGATTATTTTAAA-CAATTACAATGATCAATTACTATATTATAAAACAAAGCAATGC
* * **
9075248 AGTAATTAATTG-TCTAAAAAAATTTACAATGATCAATTACAGCGTTATAAAACAAAGTAATGCA
1 AGTAATTAATTGTTTTAAAAAAA-TTACAATGATCAATTACAGCATTATAAAACAAAGTAACACA
* * * * *
9075312 ATAATTGATTATTTTATTAAAATTACAATTATCAATTACTGCA-CTATAAAACAAAGTAATGCAA
65 ATAATTGATTATTTGATAAAAATTACAATTATCAATTACTACATC-ATAAAACAAAGCAATGCAG
* * *
9075376 TAATTGGTTATTTTTAAACAATTACAATGATCAATTACTGTGTTATAAAACAAAGCAATGC
129 TAATTGATTA-TTTTAAACAATTACAATGATCAATTACTATATTATAAAACAAAGCAATGC
* * * * **
9075437 AGTAACTGATTATTTTAAAATAATTACAATGATCAATTATTGCATTATAAAACAAAGTAACACAA
1 AGTAATTAATTGTTTTAAAAAAATTACAATGATCAATTACAGCATTATAAAACAAAGTAACACAA
* * * *
9075502 TACTTGATTGTTTGA-AAAAATTACAATGATCAATTACTACATTC-TAAAACAAAGTAATGCAGT
66 TAATTGATTATTTGATAAAAATTACAATTATCAATTACTACA-TCATAAAACAAAGCAATGCAGT
* * * * * * * * *
9075565 AATTGATTGTTTGTAAA-ATTTACAATTATCAATTATTA-AGTTTTTAAAATAAAGCGACGT
130 AATTGATTATTT-TAAACAATTACAATGATCAATTACTATA--TTATAAAACAAAGCAATGC
* * * **
9075625 AGTAATTGATTGTTTTAAAACAATTACAATGATCAATTACTGCATTATAAAACAAAGTAACGTAA
1 AGTAATTAATTGTTTTAAAAAAATTACAATGATCAATTACAGCATTATAAAACAAAGTAACACAA
* * * ** **
9075690 TAATTGATT-GTTG-TAAAAATTTAAAATTACCAATTACTACATGTTAAAACAAAGCAACACAGT
66 TAATTGATTATTTGATAAAAA-TTACAATTATCAATTACTACATCATAAAACAAAGCAATGCAGT
* * * * * * * *
9075753 AATTGATTGTTTTAAAACAATGACAATTATCAATT-TTACACTATAAAACAAAGAAATGT
130 AATTGATTATTTT-AAACAATTACAATGATCAATTACTATATTATAAAACAAAGCAATGC
* *
9075812 AGTAATTAGTTGTTTTAAAAAAATTACAATGATCAATTACTATG--TTATAAAACAAAATAACAC
1 AGTAATTAATTGTTTTAAAAAAATTACAATGATCAATTAC-A-GCATTATAAAACAAAGTAACAC
* * * * * *
9075875 AATAATTGATTGTTTTA-AAACAATTACAATAATCAATTACTGCATTATAAAATAAAGCAAT
64 AATAATTGATTATTTGATAAA-AATTACAATTATCAATTACTACATCATAAAACAAAGCAAT
9075936 ACATATATGC
Statistics
Matches: 573, Mismatches: 93, Indels: 45
0.81 0.13 0.06
Matches are distributed among these distances:
187 116 0.20
188 278 0.49
189 163 0.28
190 16 0.03
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.35
Consensus pattern (188 bp):
AGTAATTAATTGTTTTAAAAAAATTACAATGATCAATTACAGCATTATAAAACAAAGTAACACAA
TAATTGATTATTTGATAAAAATTACAATTATCAATTACTACATCATAAAACAAAGCAATGCAGTA
ATTGATTATTTTAAACAATTACAATGATCAATTACTATATTATAAAACAAAGCAATGC
Found at i:9075850 original size:31 final size:30
Alignment explanation
Indices: 9075815--9075913 Score: 78
Period size: 31 Copynumber: 3.2 Consensus size: 30
9075805 GAAATGTAGT
9075815 AATTAGTTGTTTTAAAAAAATTACAATGATC
1 AATTAGTTGTTTTAAAAAAATTACAAT-ATC
* * *
9075846 AATTACTATGTTATAAAACAAAATAACACA-AT-
1 AATTAGT-TGTT-TTAAA-AAAATTACA-ATATC
*
9075878 AATT-GATTGTTTTAAAACAATTACAATAATC
1 AATTAG-TTGTTTTAAAAAAATTACAAT-ATC
9075909 AATTA
1 AATTA
9075914 CTGCATTATA
Statistics
Matches: 52, Mismatches: 7, Indels: 17
0.68 0.09 0.22
Matches are distributed among these distances:
28 1 0.02
29 7 0.13
30 6 0.12
31 14 0.27
32 9 0.17
33 6 0.12
34 8 0.15
35 1 0.02
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.35
Consensus pattern (30 bp):
AATTAGTTGTTTTAAAAAAATTACAATATC
Found at i:9080188 original size:62 final size:63
Alignment explanation
Indices: 9080059--9080215 Score: 164
Period size: 62 Copynumber: 2.5 Consensus size: 63
9080049 TTGGTAGGAG
* * * * * *
9080059 GGTATTGTTGTAATTATAATAAAAGGATATTATAATAGTTTTGATCAATCATGATAGTATAGA
1 GGTATTTTTGTAATTATAGTAAAAGGATATTATAATAATTTTGAGCAATAATGAAAGTATAGA
*
9080122 --TATTTTTGTAATTATAGTAAAAGGGATATTATAATAATTTT-AGC-CTAAT-AAAGTATGAGA
1 GGTATTTTTGTAATTATAGTAAAA-GGATATTATAATAATTTTGAGCAATAATGAAAGTAT-AGA
* *
9080182 GGTATTTTCGTAATTAT-GATATAAGGATATTATA
1 GGTATTTTTGTAATTATAG-TAAAAGGATATTATA
9080216 GGAATTTGAT
Statistics
Matches: 80, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
59 6 0.08
60 6 0.08
61 33 0.41
62 35 0.44
ACGTcount: A:0.39, C:0.03, G:0.17, T:0.41
Consensus pattern (63 bp):
GGTATTTTTGTAATTATAGTAAAAGGATATTATAATAATTTTGAGCAATAATGAAAGTATAGA
Found at i:9080327 original size:58 final size:57
Alignment explanation
Indices: 9080210--9080362 Score: 175
Period size: 57 Copynumber: 2.6 Consensus size: 57
9080200 ATATAAGGAT
* * * * * *
9080210 ATTATAGGAATTTGATATTTAGAAGAAGGGTATTTTTGTCATTTAAGACATAAGAGGC
1 ATTATAGTAATTTGATATTTAAAAGAA-GGTATTTTTCTCATTTAAGAAAAAAAAGGC
*
9080268 ATTAT-GTGATTTGATATTTATAAAGAAGGTATTTTTCTCATTTAAGAAAAAAAAAGGC
1 ATTATAGTAATTTGATATTTA-AAAGAAGGTATTTTTCTCATTTAAG-AAAAAAAAGGC
*
9080326 ATTATAGTAATTT-ATTATTTAAATGAAAGGTATTTTT
1 ATTATAGTAATTTGA-TATTTAAAAG-AAGGTATTTTT
9080363 GTTATTTACA
Statistics
Matches: 81, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
57 31 0.38
58 27 0.33
59 23 0.28
ACGTcount: A:0.39, C:0.04, G:0.17, T:0.41
Consensus pattern (57 bp):
ATTATAGTAATTTGATATTTAAAAGAAGGTATTTTTCTCATTTAAGAAAAAAAAGGC
Found at i:9083937 original size:9 final size:9
Alignment explanation
Indices: 9083893--9083975 Score: 53
Period size: 9 Copynumber: 8.8 Consensus size: 9
9083883 TTTATATGTT
9083893 TATATTAAA
1 TATATTAAA
* *
9083902 TTAAAATAAA
1 -TATATTAAA
9083912 TATA--AAA
1 TATATTAAA
9083919 TATATGTTAAA
1 TATA--TTAAA
*
9083930 TGTATTAAA
1 TATATTAAA
9083939 TATATTAAA
1 TATATTAAA
*
9083948 TATGTTAAAGA
1 TATATT-AA-A
*
9083959 TTAAATTAAA
1 -TATATTAAA
9083969 TATATTA
1 TATATTA
9083976 TTCATGCCAT
Statistics
Matches: 57, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
7 7 0.12
9 27 0.47
10 10 0.18
11 9 0.16
12 4 0.07
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (9 bp):
TATATTAAA
Found at i:9083938 original size:27 final size:25
Alignment explanation
Indices: 9083908--9083973 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 25
9083898 TAAATTAAAA
9083908 TAAATATAAAATATATGTTAAATGTAT
1 TAAATATAAAATATATGTTAAA-G-AT
*
9083935 TAAATATATTAA-ATATGTTAAAGAT
1 TAAATATA-AAATATATGTTAAAGAT
9083960 TAAAT-T-AAATATAT
1 TAAATATAAAATATAT
9083974 TATTCATGCC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
22 2 0.06
23 4 0.11
24 1 0.03
25 7 0.20
26 1 0.03
27 18 0.51
28 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (25 bp):
TAAATATAAAATATATGTTAAAGAT
Found at i:9086672 original size:27 final size:27
Alignment explanation
Indices: 9086630--9086683 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
9086620 TGTCGGTGCA
* *
9086630 TCAATTATAAATTTTTTAATAGAAATT
1 TCAAATATAAACTTTTTAATAGAAATT
9086657 TCAAATATAAACTTTTTAATAGAAATT
1 TCAAATATAAACTTTTTAATAGAAATT
9086684 ATCTAATCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (27 bp):
TCAAATATAAACTTTTTAATAGAAATT
Found at i:9088840 original size:64 final size:67
Alignment explanation
Indices: 9088701--9088954 Score: 225
Period size: 71 Copynumber: 3.7 Consensus size: 67
9088691 TAATTGATTT
** * * * * *
9088701 TTTGTGCTTTCTTTGCCTTTTTGTTTTCTTCAATTTAAAAGTAATATTTATCT-ATTA-ATTGTA
1 TTTG-GCTTTCTTTATCTTTTTATTTT-TTTATTTTAAAAATAATATTTAT-TAATGATATT-TA
*
9088764 T-TTTC
62 TGTATC
*
9088769 -TTGGCTTTCTTTATCTTTTTATTTTTTTATTTTAAAAATAA-ATTTATTAATGA-A-TTGTGTA
1 TTTGGCTTTCTTTATCTTTTTATTTTTTTATTTTAAAAATAATATTTATTAATGATATTTATGTA
9088830 TC
66 TC
* * * *
9088832 TTTGGCTTTTTTTACTTTTTTTAATTTTTTTGATTTGAAAAATAATATTTATTAATTATTTATTT
1 TTTGGCTTTCTTTA-TCTTTTT-ATTTTTTT-ATTTTAAAAATAATATTTATTAATGA--TATTT
*
9088897 ATTTATC
61 ATGTATC
*
9088904 TTTGGCTTTCTTTATCTTTTCTATTTTTTCAGTTTTAAAAATAATATTTAT
1 TTTGGCTTTCTTTATCTTTT-TATTTTTTTA-TTTTAAAAATAATATTTAT
9088955 CTATTAACTG
Statistics
Matches: 154, Mismatches: 19, Indels: 23
0.79 0.10 0.12
Matches are distributed among these distances:
62 2 0.01
63 5 0.03
64 22 0.14
65 19 0.12
66 27 0.18
67 15 0.10
68 11 0.07
70 1 0.01
71 31 0.20
72 21 0.14
ACGTcount: A:0.24, C:0.08, G:0.07, T:0.61
Consensus pattern (67 bp):
TTTGGCTTTCTTTATCTTTTTATTTTTTTATTTTAAAAATAATATTTATTAATGATATTTATGTA
TC
Found at i:9088950 original size:71 final size:66
Alignment explanation
Indices: 9088734--9088954 Score: 229
Period size: 71 Copynumber: 3.3 Consensus size: 66
9088724 TTTTCTTCAA
*
9088734 TTTAAAAGTAATATTTATCT-ATTAATTGTATTT-TC-TTGGCTTTCTTTATCTTTTTATTTTTT
1 TTTAAAAATAATATTTAT-TAATTAATT-TATTTATCTTTGGCTTTCTTTATCTTTTTA-TTTTT
9088796 TA-T
63 TAGT
* * * * *
9088799 TTTAAAAATAA-ATTTATTAATGAA-TTGTGTATCTTTGGCTTTTTTTACTTTTTTTAATTTTTT
1 TTTAAAAATAATATTTATTAATTAATTTATTTATCTTTGGCTTTCTTTA-TCTTTTT-ATTTTTT
*
9088862 TGAT
64 AG-T
*
9088866 TTGAAAAATAATATTTATTAATTATTTATTTATTTATCTTTGGCTTTCTTTATCTTTTCTATTTT
1 TTTAAAAATAATATTTATTAATTA---ATTTATTTATCTTTGGCTTTCTTTATCTTTT-TATTTT
9088931 TTCAGT
62 TT-AGT
9088937 TTTAAAAATAATATTTAT
1 TTTAAAAATAATATTTAT
9088955 CTATTAACTG
Statistics
Matches: 127, Mismatches: 15, Indels: 22
0.77 0.09 0.13
Matches are distributed among these distances:
62 3 0.02
63 4 0.03
64 22 0.17
65 22 0.17
66 1 0.01
67 11 0.09
68 11 0.09
71 31 0.24
72 22 0.17
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.60
Consensus pattern (66 bp):
TTTAAAAATAATATTTATTAATTAATTTATTTATCTTTGGCTTTCTTTATCTTTTTATTTTTTAG
T
Found at i:9091867 original size:3 final size:3
Alignment explanation
Indices: 9091853--9091900 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
9091843 TATTGTTAAT
* *
9091853 TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9091901 AATCTAATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9093051 original size:59 final size:59
Alignment explanation
Indices: 9092953--9093233 Score: 406
Period size: 59 Copynumber: 4.7 Consensus size: 59
9092943 TTTGTACGAA
* * * *
9092953 AAAATTAATACTTTTAACTTTTCCTCAAAAAAACCTTTTTTAGAAAA-TTATTTTCAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTAGAAAACTTATTTTCAAAG
*
9093012 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTAGAAAACTTA-TTTCCAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTAGAAAACTTATTTTCAAAG
* *
9093071 AAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAAACTTATTTTCAAGG
1 -AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTTCAAAG
* *
9093131 AAAATTGATACTTTCAACTTTCCCTCAAAAATA-TTTTTTAGAAAAACTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAG-AAAACTTATTTTCAAAG
* *
9093190 AAAATTGATACTTTTAACTTCTCCTCAAAAATATTTTTTTAGAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAA
9093234 TTTTATTTAA
Statistics
Matches: 203, Mismatches: 14, Indels: 10
0.89 0.06 0.04
Matches are distributed among these distances:
58 8 0.04
59 146 0.72
60 49 0.24
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.42
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTTCAAAG
Found at i:9093091 original size:119 final size:118
Alignment explanation
Indices: 9092952--9093233 Score: 433
Period size: 119 Copynumber: 2.4 Consensus size: 118
9092942 TTTTGTACGA
* * *
9092952 AAAAATTAATACTTTTAACTTTTCCTCAAAAAAACCTTTTTTAGAAAA-TTATTTTCAAAGAAAA
1 AAAAATTGATACTTTTAACTTTTCCTCAAAAATA-TTTTTTTAGAAAACTTATTTTCAAAGAAAA
*
9093016 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTAG-AAAACTTATTTCCAAG
65 TTGATACTTTCAACTTTCCCTCAAAAATA--TTTTTTAGAAAAACTTATTTCCAAG
* * *
9093071 AAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAAACTTATTTTCAAGGAAAAT
1 AAAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTTCAAAGAAAAT
*
9093136 TGATACTTTCAACTTTCCCTCAAAAATATTTTTTAGAAAAACTTATTTTCAAG
66 TGATACTTTCAACTTTCCCTCAAAAATATTTTTTAGAAAAACTTATTTCCAAG
* *
9093189 GAAAATTGATACTTTTAACTTCTCCTCAAAAATATTTTTTTAGAA
1 AAAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTTAGAA
9093234 TTTTATTTAA
Statistics
Matches: 149, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
117 8 0.05
118 68 0.46
119 73 0.49
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.41
Consensus pattern (118 bp):
AAAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTTCAAAGAAAAT
TGATACTTTCAACTTTCCCTCAAAAATATTTTTTAGAAAAACTTATTTCCAAG
Found at i:9093264 original size:5 final size:5
Alignment explanation
Indices: 9093254--9093298 Score: 56
Period size: 5 Copynumber: 8.8 Consensus size: 5
9093244 AGATAATCAA
*
9093254 AAAAT AAAAT AACAT AAAAAT AAAA- ATAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT -AAAAT AAAAT A-AAAT AAAAT AAAAT AAAA
9093299 AATTCTAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
4 1 0.03
5 29 0.83
6 5 0.14
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:9093299 original size:21 final size:21
Alignment explanation
Indices: 9093252--9093301 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
9093242 AAAGATAATC
*
9093252 AAAAAATAAAATAACATAAAA
1 AAAAAATAAAATAAAATAAAA
9093273 ATAAAAAT-AAATAAAATAAAA
1 A-AAAAATAAAATAAAATAAAA
9093294 TAAAAAAT
1 -AAAAAAT
9093302 TCTAATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (21 bp):
AAAAAATAAAATAAAATAAAA
Found at i:9094192 original size:23 final size:24
Alignment explanation
Indices: 9094158--9094250 Score: 86
Period size: 23 Copynumber: 4.0 Consensus size: 24
9094148 AAAATCCAAA
*
9094158 AATATATATTAATAGATAAA-AAT
1 AATATATATTAATACATAAATAAT
*
9094181 AATATATGTTAATACATAAATAAT
1 AATATATATTAATACATAAATAAT
* * * *
9094205 AATAAATAAT-ATATATTAATAAAT
1 AATATATATTAATACATAAAT-AAT
*
9094229 AATA-ATAGTAATA-ATAAATAAT
1 AATATATATTAATACATAAATAAT
9094251 TAAAAAATAA
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
22 3 0.05
23 35 0.60
24 20 0.34
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.35
Consensus pattern (24 bp):
AATATATATTAATACATAAATAAT
Found at i:9094207 original size:3 final size:3
Alignment explanation
Indices: 9094167--9094250 Score: 51
Period size: 3 Copynumber: 25.3 Consensus size: 3
9094157 AAATATATAT
* **
9094167 TAA TAGA TAA AAA TAA TATA TGT TAA TACA TAAA TAA TAA TAAA TAA
1 TAA TA-A TAA TAA TAA TA-A TAA TAA TA-A T-AA TAA TAA T-AA TAA
* *
9094214 TATA TAT TAA TAAA TAA TAA TAG TAA TAA TAAA TAA T
1 TA-A TAA TAA T-AA TAA TAA TAA TAA TAA T-AA TAA T
9094251 TAAAAAATAA
Statistics
Matches: 63, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
3 41 0.65
4 21 0.33
5 1 0.02
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:9094212 original size:7 final size:7
Alignment explanation
Indices: 9094202--9094268 Score: 57
Period size: 7 Copynumber: 9.3 Consensus size: 7
9094192 ATACATAAAT
9094202 AATAATA
1 AATAATA
9094209 AATAATA
1 AATAATA
9094216 TATATTAATA
1 -A-A-TAATA
9094226 AATAAT-
1 AATAATA
*
9094232 AATAGT-
1 AATAATA
9094238 AATAATA
1 AATAATA
9094245 AATAATTA
1 AATAA-TA
*
9094253 AAAAATA
1 AATAATA
*
9094260 AAAAATA
1 AATAATA
9094267 AA
1 AA
9094269 AATGCAAATG
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
6 10 0.19
7 27 0.52
8 8 0.15
9 2 0.04
10 5 0.10
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (7 bp):
AATAATA
Found at i:9094226 original size:27 final size:27
Alignment explanation
Indices: 9094158--9094260 Score: 93
Period size: 27 Copynumber: 3.7 Consensus size: 27
9094148 AAAATCCAAA
* *
9094158 AATATATATTAATAGATAAAAAT-AAT
1 AATATATATTAATAAATAATAATAAAT
* *
9094184 -ATATGTTAATACATAAATAATAATAAAT
1 AATAT-ATATTA-ATAAATAATAATAAAT
9094212 AATATATATTAATAAATAATAATAGTAAT
1 AATATATATTAATAAATAATAATA--AAT
* *
9094241 AATAAATAATTAAAAAATAA
1 AATATAT-ATTAATAAATAA
9094261 AAAATAAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
25 4 0.06
26 4 0.06
27 23 0.37
28 7 0.11
29 13 0.21
30 11 0.18
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (27 bp):
AATATATATTAATAAATAATAATAAAT
Found at i:9094240 original size:6 final size:6
Alignment explanation
Indices: 9094167--9094250 Score: 51
Period size: 7 Copynumber: 12.7 Consensus size: 6
9094157 AAATATATAT
* ** *
9094167 TAATAGA TAAAAA TAATATA TGTTAA TACATAAA TAATAA TAAATAA TATATAT
1 TAATA-A TAATAA TAATA-A TAATAA TA-AT-AA TAATAA T-AATAA TA-ATAA
*
9094221 TAATAAA TAATAA TAGTAA TAATAAA TAAT
1 TAAT-AA TAATAA TAATAA TAAT-AA TAAT
9094251 TAAAAAATAA
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
6 23 0.38
7 33 0.55
8 4 0.07
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.35
Consensus pattern (6 bp):
TAATAA
Found at i:9094260 original size:54 final size:54
Alignment explanation
Indices: 9094158--9094267 Score: 125
Period size: 54 Copynumber: 2.0 Consensus size: 54
9094148 AAAATCCAAA
* * * * *
9094158 AATATATATTAATAGATAAAAATAATATATGTTAATACATAAATAATAATAAAT
1 AATATATATTAATAAATAAAAATAATATATATAAATACATAAAAAATAAAAAAT
* *
9094212 AATATATATTAATAAATAATAATAGTA-ATAATAAATA-ATTAAAAAATAAAAAAT
1 AATATATATTAATAAATAAAAATAATATAT-ATAAATACA-TAAAAAATAAAAAAT
9094266 AA
1 AA
9094268 AAATGCAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
53 3 0.06
54 44 0.94
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.33
Consensus pattern (54 bp):
AATATATATTAATAAATAAAAATAATATATATAAATACATAAAAAATAAAAAAT
Found at i:9094494 original size:41 final size:41
Alignment explanation
Indices: 9094448--9094650 Score: 228
Period size: 41 Copynumber: 4.9 Consensus size: 41
9094438 AGGCTCATCA
*
9094448 ACTTT-GAAAATAAAATGGCTCCTCTAATCAGAGGCTCAATG
1 ACTTTGGAAAAT-AAATAGCTCCTCTAATCAGAGGCTCAATG
* * *
9094489 ACTTTGGAAAATAAATGGCTCCTCTAATCAGAGGCTTAACG
1 ACTTTGGAAAATAAATAGCTCCTCTAATCAGAGGCTCAATG
*
9094530 ACTTTGGAAAATAAATAGCTCCTCTCATCAGAGGCTCAATG
1 ACTTTGGAAAATAAATAGCTCCTCTAATCAGAGGCTCAATG
* * * *
9094571 ACTTTGGAAAGATAAATAAAGCTCCTCTAAACAGAGGCACCATA
1 ACTTTGGAAA-ATAAAT--AGCTCCTCTAATCAGAGGCTCAATG
* * * * *
9094615 ACTTTGAAAAAGTGAATTGCTTCTCTAAACAGAGGC
1 ACTTTGGAAAA-TAAATAGCTCCTCTAATCAGAGGC
9094651 ATCACAACTT
Statistics
Matches: 142, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
41 79 0.56
42 29 0.20
43 1 0.01
44 33 0.23
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.26
Consensus pattern (41 bp):
ACTTTGGAAAATAAATAGCTCCTCTAATCAGAGGCTCAATG
Found at i:9095712 original size:15 final size:15
Alignment explanation
Indices: 9095694--9095742 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
9095684 TTCATTCACT
9095694 TTTTTTTTCTTTTTA
1 TTTTTTTTCTTTTTA
* *
9095709 TTTTTTTTCATTTCA
1 TTTTTTTTCTTTTTA
*
9095724 TTTTTTCTCTTTTT-
1 TTTTTTTTCTTTTTA
9095738 TTTTT
1 TTTTT
9095743 CAAGCATAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 5 0.17
15 24 0.83
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTTTCTTTTTA
Found at i:9095717 original size:31 final size:29
Alignment explanation
Indices: 9095681--9095742 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
9095671 TGAGTCATCA
* *
9095681 TTTTTCA-TTCACTTTTTTTTTCTTTTTATT
1 TTTTTCATTTCA--TTTTTTCTCTTTTTTTT
9095711 TTTTTTCATTTCATTTTTTCTCTTTTTTTT
1 TTTTT-CATTTCATTTTTTCTCTTTTTTTT
9095741 TT
1 TT
9095743 CAAGCATAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 22 0.79
31 2 0.07
32 4 0.14
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (29 bp):
TTTTTCATTTCATTTTTTCTCTTTTTTTT
Found at i:9102994 original size:14 final size:15
Alignment explanation
Indices: 9102955--9102995 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
9102945 TGTTAAGTGT
*
9102955 AATGAGTGAAAATGC
1 AATGAATGAAAATGC
9102970 AATGAATGAAAATGC
1 AATGAATGAAAATGC
*
9102985 -ATGTATGAAAA
1 AATGAATGAAAA
9102996 GAACATTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.51, C:0.05, G:0.22, T:0.22
Consensus pattern (15 bp):
AATGAATGAAAATGC
Found at i:9104790 original size:20 final size:20
Alignment explanation
Indices: 9104739--9104790 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
9104729 TGTAGACACC
9104739 CAATTGGGTCC-GGCCCAGAT
1 CAATT-GGTCCTGGCCCAGAT
*
9104759 CAATTGGGCCTGGCCCA-ATT
1 CAATTGGTCCTGGCCCAGA-T
*
9104779 CAATTTGTCCTG
1 CAATTGGTCCTG
9104791 TATTATTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 5 0.19
20 22 0.81
ACGTcount: A:0.19, C:0.29, G:0.25, T:0.27
Consensus pattern (20 bp):
CAATTGGTCCTGGCCCAGAT
Found at i:9105297 original size:26 final size:24
Alignment explanation
Indices: 9105255--9105308 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
9105245 CTGGGAGTGA
*
9105255 GAAAAATTTTTTAGAAATTTTTGG
1 GAAAAATTTTTTAGAAATTTCTGG
* *
9105279 CGAAAATTTTTTCTGGAAATTTCTGG
1 -GAAAAATTTTT-TAGAAATTTCTGG
9105305 GAAA
1 GAAA
9105309 TTTCCAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.41
Consensus pattern (24 bp):
GAAAAATTTTTTAGAAATTTCTGG
Found at i:9105352 original size:31 final size:31
Alignment explanation
Indices: 9105317--9105387 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
9105307 AATTTCCAGA
* ** *
9105317 TTCCGGCGAAAATTCCGGCGAAGTTTGAATT
1 TTCCGGCGAAAATTCCGGCCAACATTGAAGT
*
9105348 TTCCGACGAAAATTCCGGCCAACATTGAAGT
1 TTCCGGCGAAAATTCCGGCCAACATTGAAGT
9105379 TTCCGGCGA
1 TTCCGGCGA
9105388 CCTACCCAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (31 bp):
TTCCGGCGAAAATTCCGGCCAACATTGAAGT
Found at i:9105464 original size:19 final size:20
Alignment explanation
Indices: 9105440--9105485 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
9105430 TCCGGCCAAC
9105440 TTCCGGCG-AAATTTCCAGA
1 TTCCGGCGAAAATTTCCAGA
9105459 TTCCGGCGAAAATTTCCAGA
1 TTCCGGCGAAAATTTCCAGA
*
9105479 ATCCGGC
1 TTCCGGC
9105486 ACCGGTGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (20 bp):
TTCCGGCGAAAATTTCCAGA
Found at i:9105847 original size:20 final size:19
Alignment explanation
Indices: 9105819--9105871 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 19
9105809 TTTTTTTTTT
*
9105819 TTTTTTATTTCTTTGTTTA
1 TTTTTTATTTATTTGTTTA
*
9105838 TTTGTTTATTTTATTTTTTTA
1 TTT-TTTA-TTTATTTGTTTA
9105859 TTTTTTATTTATT
1 TTTTTTATTTATT
9105872 AGATTAGGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 9 0.30
20 8 0.27
21 13 0.43
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.81
Consensus pattern (19 bp):
TTTTTTATTTATTTGTTTA
Found at i:9105852 original size:13 final size:13
Alignment explanation
Indices: 9105821--9105862 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
9105811 TTTTTTTTTT
9105821 TTTTATTTCTTT-
1 TTTTATTTCTTTA
* *
9105833 GTTTATTTGTTTA
1 TTTTATTTCTTTA
*
9105846 TTTTATTTTTTTA
1 TTTTATTTCTTTA
9105859 TTTT
1 TTTT
9105863 TTATTTATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.12, C:0.02, G:0.05, T:0.81
Consensus pattern (13 bp):
TTTTATTTCTTTA
Found at i:9105884 original size:33 final size:33
Alignment explanation
Indices: 9105818--9105884 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
9105808 TTTTTTTTTT
* * * *
9105818 TTTTTTTATTTCTTTGTTTATTTGTTTATTTTA
1 TTTTTTTATTTCTTTATTTATTAGATTAGTTTA
9105851 TTTTTTTATTT-TTTATTTATTAGATTAGGTTTA
1 TTTTTTTATTTCTTTATTTATTAGATTA-GTTTA
9105884 T
1 T
9105885 GTAATATTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.16, C:0.01, G:0.07, T:0.75
Consensus pattern (33 bp):
TTTTTTTATTTCTTTATTTATTAGATTAGTTTA
Found at i:9106012 original size:59 final size:59
Alignment explanation
Indices: 9105944--9106231 Score: 392
Period size: 59 Copynumber: 4.8 Consensus size: 59
9105934 AATAAAAAAA
9105944 TTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAA-
1 TTTC-AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAAT
* *
9106003 TTTC-CAAAAAATATTTTTAGGGAAAAATTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
9106061 TTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
*
9106120 TTTCAAAAAAAAAAGGGGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCG
1 TTTCAAAAAAAATA------TTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--
9106183 AAAT
56 AAAT
9106187 TTTC--AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
1 TTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
9106232 CTACAAAAAA
Statistics
Matches: 209, Mismatches: 6, Indels: 28
0.86 0.02 0.12
Matches are distributed among these distances:
57 49 0.23
58 5 0.02
59 100 0.48
60 1 0.00
64 2 0.01
65 44 0.21
67 8 0.04
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (59 bp):
TTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
Found at i:9106220 original size:124 final size:115
Alignment explanation
Indices: 9105950--9106231 Score: 383
Period size: 124 Copynumber: 2.4 Consensus size: 115
9105940 AAAATTTCAA
* *
9105950 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCCAAAAAAT
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCAAAAAAAA
9106015 ATTTTTAGGGAAAAATTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
66 ATTTTTAGGGAAAAATTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
9106065 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATTTTCAAAAA
1 -AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAG-AATAAA-TTTC-AAAA
*
9106129 AAAAAGGGGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTTC
62 AAAAA------TTTTTAG-GGAAAAATTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTTC
9106191 -AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
9106232 CTACAAAAAA
Statistics
Matches: 150, Mismatches: 3, Indels: 18
0.88 0.02 0.11
Matches are distributed among these distances:
115 2 0.01
116 50 0.33
117 4 0.03
118 7 0.05
123 2 0.01
124 77 0.51
126 8 0.05
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.34
Consensus pattern (115 bp):
AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCAAAAAAAA
ATTTTTAGGGAAAAATTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
Found at i:9110141 original size:27 final size:28
Alignment explanation
Indices: 9110105--9110163 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
9110095 AAACAATAAT
*
9110105 AAAATTTATTGTAACTACGATT-AAAAA
1 AAAAGTTATTGTAACTACGATTGAAAAA
* **
9110132 AAAAGTTATTGTAATTGTGATTGAAAAA
1 AAAAGTTATTGTAACTACGATTGAAAAA
9110160 AAAA
1 AAAA
9110164 TTAATGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 18 0.67
28 9 0.33
ACGTcount: A:0.53, C:0.03, G:0.12, T:0.32
Consensus pattern (28 bp):
AAAAGTTATTGTAACTACGATTGAAAAA
Found at i:9120603 original size:8 final size:8
Alignment explanation
Indices: 9120590--9120620 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
9120580 AATCAATAAT
9120590 AATATTAA
1 AATATTAA
9120598 AATATTAA
1 AATATTAA
9120606 AATATTAA
1 AATATTAA
*
9120614 AAAATTA
1 AATATTA
9120621 TAAAAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
AATATTAA
Found at i:9120611 original size:16 final size:16
Alignment explanation
Indices: 9120590--9120637 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
9120580 AATCAATAAT
*
9120590 AATATTAAAATATTAA
1 AATATTAAAAAATTAA
9120606 AATATTAAAAAATTATA
1 AATATTAAAAAATTA-A
* *
9120623 AAAATTATAAAATTA
1 AATATTAAAAAATTA
9120638 TAAAAAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 14 0.50
17 14 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AATATTAAAAAATTAA
Found at i:9120625 original size:8 final size:8
Alignment explanation
Indices: 9120588--9120642 Score: 51
Period size: 8 Copynumber: 6.8 Consensus size: 8
9120578 ATAATCAATA
*
9120588 ATAATATT
1 ATAAAATT
9120596 A-AAATATT
1 ATAAA-ATT
9120604 A-AAATATT
1 ATAAA-ATT
*
9120612 AAAAAATT
1 ATAAAATT
9120620 ATAAAAATT
1 AT-AAAATT
9120629 ATAAAATT
1 ATAAAATT
9120637 ATAAAA
1 ATAAAA
9120643 AAAAGTTTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
7 2 0.05
8 29 0.69
9 11 0.26
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
ATAAAATT
Found at i:9120625 original size:9 final size:9
Alignment explanation
Indices: 9120595--9120643 Score: 59
Period size: 8 Copynumber: 5.7 Consensus size: 9
9120585 ATAATAATAT
9120595 TAAAATATTA
1 TAAAA-ATTA
*
9120605 -AAATATTA
1 TAAAAATTA
9120613 -AAAAATTA
1 TAAAAATTA
9120621 TAAAAATTA
1 TAAAAATTA
9120630 T-AAAATTA
1 TAAAAATTA
9120638 TAAAAA
1 TAAAAA
9120644 AAAGTTTGGC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
8 19 0.54
9 16 0.46
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
TAAAAATTA
Found at i:9120629 original size:17 final size:17
Alignment explanation
Indices: 9120593--9120643 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 17
9120583 CAATAATAAT
* *
9120593 ATTAAAATATTA-AAAT
1 ATTAAAAAATTATAAAA
9120609 ATTAAAAAATTATAAAA
1 ATTAAAAAATTATAAAA
*
9120626 ATTATAAAATTATAAAA
1 ATTAAAAAATTATAAAA
9120643 A
1 A
9120644 AAAGTTTGGC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
16 11 0.35
17 20 0.65
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATTAAAAAATTATAAAA
Found at i:9120747 original size:19 final size:19
Alignment explanation
Indices: 9120708--9120747 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
9120698 AGTTCAAATT
* *
9120708 AGCCCGAAAACAAAGCCCA
1 AGCCCCAAAACAAAGACCA
*
9120727 AGCCCCAAAACAAAGATCA
1 AGCCCCAAAACAAAGACCA
9120746 AG
1 AG
9120748 TAGGCCATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.33, G:0.15, T:0.03
Consensus pattern (19 bp):
AGCCCCAAAACAAAGACCA
Found at i:9123046 original size:28 final size:28
Alignment explanation
Indices: 9123006--9123061 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
9122996 GGTTAGGACA
* *
9123006 AAGTCAGTATGTACGTAGGAAAGTTGGT
1 AAGTAAGTATGTACGCAGGAAAGTTGGT
*
9123034 AAGTAAGTATGTATGCAGGAAAGTTGGT
1 AAGTAAGTATGTACGCAGGAAAGTTGGT
9123062 GGGGATGGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.34, C:0.05, G:0.32, T:0.29
Consensus pattern (28 bp):
AAGTAAGTATGTACGCAGGAAAGTTGGT
Found at i:9123327 original size:17 final size:16
Alignment explanation
Indices: 9123302--9123344 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
9123292 TAAAATTTAT
9123302 AAAAAAATATTAATAA
1 AAAAAAATATTAATAA
*
9123318 AAAAATAATAGTAATAA
1 AAAAA-AATATTAATAA
*
9123335 ATAAAAATAT
1 AAAAAAATAT
9123345 ATATGTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (16 bp):
AAAAAAATATTAATAA
Found at i:9123678 original size:19 final size:18
Alignment explanation
Indices: 9123643--9123688 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
9123633 ATAAAACCCA
* *
9123643 AAATCTTAGTTGAAACTCG
1 AAATCCTAGATGAAACT-G
9123662 AAATCCTAGATGAAACTG
1 AAATCCTAGATGAAACTG
9123680 AAGATCCTA
1 AA-ATCCTA
9123689 AGTCTACCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 3 0.12
19 21 0.88
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.26
Consensus pattern (18 bp):
AAATCCTAGATGAAACTG
Found at i:9125962 original size:157 final size:157
Alignment explanation
Indices: 9125573--9126174 Score: 973
Period size: 157 Copynumber: 3.8 Consensus size: 157
9125563 TAAAATTTTA
* * * *
9125573 CCAAGTAATTAGTTGTTGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
1 CCAAGTAATTAATTATCGAAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
*
9125638 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGGGGCTCCGTCGTCGG
66 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
*** * * *
9125703 ATT--ATTTAAAGAAAATCAAGATCAA
131 ATTAAAAGAAAAAAAAATCAAAATCAG
* * *
9125728 CCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGGAAATTGAGAA
1 CCAAGTAATTAATTATCGAAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
9125793 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
66 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
9125858 ATTAAAAGAAAAAAAAATCAAAATCAG
131 ATTAAAAGAAAAAAAAATCAAAATCAG
*
9125885 CCAAGTAATTAATTATCGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
1 CCAAGTAATTAATTATCGAAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
9125950 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
66 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
9126015 ATTAATTAAAGAAAAAAAAATCAAAATCAG
131 ATT-A--AAAGAAAAAAAAATCAAAATCAG
9126045 CCAAGTAATTAATTATCGAAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
1 CCAAGTAATTAATTATCGAAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
* *
9126110 AATTCCCTCA-CTCAGGAGTATGCAAG--AAA-TACTGTTTTTACTTGTAGAGGCTCCGTCGTCG
66 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCG
9126171 GATT
130 GATT
9126175 GATTAAAAAA
Statistics
Matches: 420, Mismatches: 21, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
155 125 0.30
156 5 0.01
157 176 0.42
158 1 0.00
159 16 0.04
160 97 0.23
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.29
Consensus pattern (157 bp):
CCAAGTAATTAATTATCGAAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
ATTAAAAGAAAAAAAAATCAAAATCAG
Found at i:9126186 original size:312 final size:310
Alignment explanation
Indices: 9125573--9126174 Score: 1003
Period size: 312 Copynumber: 1.9 Consensus size: 310
9125563 TAAAATTTTA
* * *
9125573 CCAAGTAATTAGTTGTTGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
1 CCAAGTAATTAATTATCGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
*
9125638 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGGGGCTCCGTCGTCGG
66 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
* * * *
9125703 ATTATTTAAAGAAAATCAAGATCAACCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCT
131 ATTAATTAAAGAAAATCAAAATCAACCAAGTAATTAATTATCGAAAATTATTCTCAATTAACTCT
*
9125768 AATACTTTTAGCAGGAAATTGAGAAAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTT
196 AATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAGTATGCAAG-AAAACTACTGTT
9125833 TCACTTGCAGAGGCTCCGTCGTCGGATTAAAAGAAAAAAAAATCAAAATCAG
260 TCACTTGCAGAGGCTCCGTCGTCGGATT-AAAGAAAAAAAAATCAAAATCAG
9125885 CCAAGTAATTAATTATCGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
1 CCAAGTAATTAATTATCGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
9125950 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
66 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
*
9126015 ATTAATTAAAGAAAAAAAAATCAAAATCAGCCAAGTAATTAATTATCGAAAATTATTCTCAATTA
131 ATTAATTAAAG-----AAAATCAAAATCAACCAAGTAATTAATTATCGAAAATTATTCTCAATTA
9126080 ACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCA-CTCAGGAGTATGCAAG-AAA-TAC
191 ACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAGTATGCAAGAAAACTAC
* *
9126142 TGTTTTTACTTGTAGAGGCTCCGTCGTCGGATT
256 TG-TTTCACTTGCAGAGGCTCCGTCGTCGGATT
9126175 GATTAAAAAA
Statistics
Matches: 272, Mismatches: 12, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
312 136 0.50
313 5 0.02
314 31 0.11
316 16 0.06
317 84 0.31
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.29
Consensus pattern (310 bp):
CCAAGTAATTAATTATCGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
ATTAATTAAAGAAAATCAAAATCAACCAAGTAATTAATTATCGAAAATTATTCTCAATTAACTCT
AATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAGTATGCAAGAAAACTACTGTTT
CACTTGCAGAGGCTCCGTCGTCGGATTAAAGAAAAAAAAATCAAAATCAG
Found at i:9126204 original size:14 final size:12
Alignment explanation
Indices: 9126179--9126252 Score: 53
Period size: 11 Copynumber: 5.8 Consensus size: 12
9126169 CGGATTGATT
9126179 AAAAAAAAAAGA
1 AAAAAAAAAAGA
9126191 AAAAAAAATCAAGA
1 AAAAAAAA--AAGA
* **
9126205 TCAAAATCAAAGTCA
1 -AAAAAAAAAAG--A
9126220 AATAAAAAAAA-A
1 AA-AAAAAAAAGA
9126232 AAAAAAAAAA-A
1 AAAAAAAAAAGA
9126243 AAAAAAAAAA
1 AAAAAAAAAA
9126253 ACCTGGAGCG
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
11 19 0.38
12 11 0.22
13 3 0.06
14 5 0.10
15 12 0.24
ACGTcount: A:0.84, C:0.05, G:0.04, T:0.07
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:9126229 original size:1 final size:1
Alignment explanation
Indices: 9126223--9126253 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
9126213 AAAGTCAAAT
9126223 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9126254 CCTGGAGCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:9126615 original size:20 final size:20
Alignment explanation
Indices: 9126586--9126631 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
9126576 GGAAGATTCA
*
9126586 CCGGATTCTGGAAATTTTCG
1 CCGGAATCTGGAAATTTTCG
***
9126606 CCGGAATCTGGGTTTTTTCG
1 CCGGAATCTGGAAATTTTCG
9126626 CCGGAA
1 CCGGAA
9126632 GTTGGCCGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.17, C:0.22, G:0.28, T:0.33
Consensus pattern (20 bp):
CCGGAATCTGGAAATTTTCG
Found at i:9126674 original size:20 final size:20
Alignment explanation
Indices: 9126649--9126690 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
9126639 GGAAATTTGA
*
9126649 CGGTTTCTGGGATTCTTCGC
1 CGGTTTCTGGGATACTTCGC
9126669 CGGTTTCTGGGATACTTCGC
1 CGGTTTCTGGGATACTTCGC
9126689 CG
1 CG
9126691 AAAACTGGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.07, C:0.26, G:0.31, T:0.36
Consensus pattern (20 bp):
CGGTTTCTGGGATACTTCGC
Found at i:9127572 original size:1 final size:1
Alignment explanation
Indices: 9127568--9127659 Score: 76
Period size: 1 Copynumber: 92.0 Consensus size: 1
9127558 CATTTTTTGA
* ** * * ** * * *
9127568 TTTTTTTTTATTTTTTTGATTTTTTTTTATTTTTGTTTTGATTTTTTGTTTTTTTTATTTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
9127633 TTTTTGTTTTTTTATTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
9127660 GGGCCGAAGC
Statistics
Matches: 69, Mismatches: 22, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.87
Consensus pattern (1 bp):
T
Found at i:9127606 original size:22 final size:20
Alignment explanation
Indices: 9127560--9127659 Score: 109
Period size: 19 Copynumber: 5.0 Consensus size: 20
9127550 CAACTCAACA
*
9127560 TTTTTTGA-TTTTTTTTTAT
1 TTTTTTGATTTTTTTTTTTT
9127579 TTTTTTGATTTTTTTTTATTT
1 TTTTTTGATTTTTTTTT-TTT
9127600 TTGTTTTGATTTTTTGTTTTTT
1 TT-TTTTGATTTTTT-TTTTTT
* * *
9127622 TTATTT--TTGTTTTTTTGT
1 TTTTTTGATTTTTTTTTTTT
9127640 TTTTTT-ATTTTTTTTTTTT
1 TTTTTTGATTTTTTTTTTTT
9127659 T
1 T
9127660 GGGCCGAAGC
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
18 10 0.14
19 24 0.35
20 8 0.12
21 7 0.10
22 17 0.25
23 3 0.04
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.86
Consensus pattern (20 bp):
TTTTTTGATTTTTTTTTTTT
Found at i:9127660 original size:22 final size:22
Alignment explanation
Indices: 9127570--9127660 Score: 96
Period size: 22 Copynumber: 4.0 Consensus size: 22
9127560 TTTTTTGATT
9127570 TTTTTTTATTTTTTTGATTTTTTT-
1 TTTTTTTA--TTTTTG-TTTTTTTG
* *
9127594 TTATTTTT-GTTTTGATTTTTTG
1 TT-TTTTTATTTTTGTTTTTTTG
9127616 TTTTTTTTATTTTTGTTTTTTTG
1 -TTTTTTTATTTTTGTTTTTTTG
*
9127639 TTTTTTTATTTTTTTTTTTTTG
1 TTTTTTTATTTTTGTTTTTTTG
9127661 GGCCGAAGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
21 6 0.10
22 31 0.53
23 14 0.24
24 2 0.03
25 5 0.09
ACGTcount: A:0.07, C:0.00, G:0.08, T:0.86
Consensus pattern (22 bp):
TTTTTTTATTTTTGTTTTTTTG
Found at i:9127746 original size:40 final size:40
Alignment explanation
Indices: 9127668--9128437 Score: 1237
Period size: 40 Copynumber: 19.0 Consensus size: 40
9127658 TTGGGCCGAA
*
9127668 GCTCCTCTAAACAGAGACTCAACG-ACTTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAG--GCAACGAAC-TTTGAAAAGTAAATT
* *
9127709 GCTCCTCTAAACAGAGGCAACGGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
9127749 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
9127789 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
*
9127829 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCA--ACGAACTTT-GAAAAGTAAATT
* *
9127871 GCTCCTCTAAACAGAGGCAACGGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
* * *
9127911 GCTCCTCTCAACAGAGGCACCACG-ACTTTGGAAAAATAAACT
1 GCTCCTCTAAACAGAGGCA--ACGAACTTT-GAAAAGTAAATT
*
9127953 GCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
9127993 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
9128033 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
9128073 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
9128113 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
9128153 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGAACTTT-GAAAAGTAAATT
9128195 GCTCCTCTAAACAGAGGCAACGGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAAC-GAACTTTGAAAAGTAAATT
9128236 GCTCCTCTAAACAGAGGCAACGGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAAC-GAACTTTGAAAAGTAAATT
9128277 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
*
9128317 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCA--ACGAACTTT-GAAAAGTAAATT
*
9128359 GCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
9128399 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAAT
9128438 ACTCCTAGAC
Statistics
Matches: 691, Mismatches: 19, Indels: 39
0.92 0.03 0.05
Matches are distributed among these distances:
39 9 0.01
40 423 0.61
41 124 0.18
42 135 0.20
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (40 bp):
GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
Found at i:9127898 original size:82 final size:80
Alignment explanation
Indices: 9127668--9128437 Score: 1237
Period size: 82 Copynumber: 9.5 Consensus size: 80
9127658 TTGGGCCGAA
*
9127668 GCTCCTCTAAACAGAGACTCAACG-ACTTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCAACG
1 GCTCCTCTAAACAGAG--GCAACGAAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG
* *
9127731 GACTTTGGAAAGTAAATT
63 AACTTTGAAAAGTAAATT
9127749 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC
9127814 TTTGAAAAGTAAATT
66 TTTGAAAAGTAAATT
*
9127829 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCAACG
1 GCTCCTCTAAACAGAGGCA--ACGAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG
* *
9127893 GACTTTGGAAAGTAAATT
63 AACTTTGAAAAGTAAATT
* * *
9127911 GCTCCTCTCAACAGAGGCACCACG-ACTTTGGAAAAATAAACTGCTCCTCTAAACAGAGGCAACG
1 GCTCCTCTAAACAGAGGCA--ACGAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG
*
9127975 AACTTGGAAAAGTAAATT
63 AACTTTGAAAAGTAAATT
9127993 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC
9128058 TTTGAAAAGTAAATT
66 TTTGAAAAGTAAATT
9128073 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC
9128138 TTTGAAAAGTAAATT
66 TTTGAAAAGTAAATT
9128153 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG
1 GCTCCTCTAAACAGAGGCA--ACGAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAAC-
9128217 GAACTTTGAAAAGTAAATT
62 GAACTTTGAAAAGTAAATT
9128236 GCTCCTCTAAACAGAGGCAACGGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
1 GCTCCTCTAAACAGAGGCAAC-GAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
9128301 CTTTGAAAAGTAAATT
65 CTTTGAAAAGTAAATT
*
9128317 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCAACG
1 GCTCCTCTAAACAGAGGCA--ACGAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG
*
9128381 AACTTGGAAAAGTAAATT
63 AACTTTGAAAAGTAAATT
9128399 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAAT
9128438 ACTCCTAGAC
Statistics
Matches: 655, Mismatches: 18, Indels: 33
0.93 0.03 0.05
Matches are distributed among these distances:
79 9 0.01
80 233 0.36
81 81 0.12
82 287 0.44
83 45 0.07
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (80 bp):
GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC
TTTGAAAAGTAAATT
Found at i:9128282 original size:324 final size:322
Alignment explanation
Indices: 9127668--9128437 Score: 1321
Period size: 324 Copynumber: 2.4 Consensus size: 322
9127658 TTGGGCCGAA
* *
9127668 GCTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCAACGG
1 GCTCCTCTAAACAGAG--GCAACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
*
9127732 ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCT
63 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCT
9127797 AAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAA
128 AAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAA
* *
9127862 AAATAAATTGCTCCTCTAAACAGAGGCAACGGACTTTGGAAAGTAAATTGCTCCTCTCAACAGAG
193 AAATAAATTGCTCCTCTAAACAGAGGCAACGGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAG
9127927 GCACCACGACTTTGGAAAAATAAACTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAAT
258 GCA-CACGACTTTGGAAAAATAAACTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAAT
9127992 T
322 T
9127993 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC
9128058 TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAA
65 TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAA
9128123 ACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAA
130 ACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAA
*
9128188 GTAAATTGCTCCTCTAAACAGAGGCAACGGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG
195 ATAAATTGCTCCTCTAAACAGAGGCAACGG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG
* * *
9128253 CA-ACGGAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAAT
259 CACAC-G-ACTTTGGAAAAATAAACTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAAT
9128316 T
322 T
*
9128317 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGCA--ACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
*
9128382 ACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAAT
63 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAAT
9128438 ACTCCTAGAC
Statistics
Matches: 426, Mismatches: 11, Indels: 15
0.94 0.02 0.03
Matches are distributed among these distances:
323 11 0.03
324 263 0.62
325 60 0.14
326 92 0.22
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (322 bp):
GCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACT
TTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAA
CAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAA
TAAATTGCTCCTCTAAACAGAGGCAACGGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA
CACGACTTTGGAAAAATAAACTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
Found at i:9129638 original size:10 final size:10
Alignment explanation
Indices: 9129625--9129691 Score: 54
Period size: 10 Copynumber: 6.9 Consensus size: 10
9129615 TTTTTTTTCA
9129625 TTTTCTCATT
1 TTTTCTCATT
*
9129635 TTTTCCTTCTTT
1 TTTT-C-TCATT
9129647 TTTTCTCATT
1 TTTTCTCATT
9129657 TTTTCT--TT
1 TTTTCTCATT
*
9129665 TTTT-T-TTT
1 TTTTCTCATT
9129673 TTTTCATCATT
1 TTTTC-TCATT
9129684 TTTT-TCAT
1 TTTTCTCAT
9129692 CCATTGTTGA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
7 1 0.02
8 12 0.25
9 4 0.08
10 15 0.31
11 8 0.17
12 8 0.17
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTCTCATT
Found at i:9129653 original size:22 final size:22
Alignment explanation
Indices: 9129625--9129672 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
9129615 TTTTTTTTCA
9129625 TTTTCTCATTTTTTCCTTCTTT
1 TTTTCTCATTTTTTCCTTCTTT
* *
9129647 TTTTCTCATTTTTTCTTTTTTT
1 TTTTCTCATTTTTTCCTTCTTT
9129669 TTTT
1 TTTT
9129673 TTTTCATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTCTCATTTTTTCCTTCTTT
Found at i:9129665 original size:27 final size:27
Alignment explanation
Indices: 9129635--9129687 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
9129625 TTTTCTCATT
9129635 TTTTCCTTCTTTTTTTC-TCATTTTTTC
1 TTTT-CTTCTTTTTTTCATCATTTTTTC
* *
9129662 TTTTTTTTTTTTTTTCATCATTTTTT
1 TTTTCTTCTTTTTTTCATCATTTTTT
9129688 TCATCCATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (27 bp):
TTTTCTTCTTTTTTTCATCATTTTTTC
Found at i:9133661 original size:160 final size:159
Alignment explanation
Indices: 9133256--9133877 Score: 1045
Period size: 160 Copynumber: 3.9 Consensus size: 159
9133246 TAAAATTTTA
* * * * *
9133256 CCAAGTAATTAGTTGTTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAA
1 CCAAGTAATTAATTATCGAAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
*
9133321 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGGGGCTCCGTCGTCGG
66 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
* * *
9133386 ATTATTTAAAG---AAAAATCAAGATCAA
131 ATTAATTAAAGAAAAAAAATCAAAATCAG
* * *
9133412 CCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGGAAATTGAGAA
1 CCAAGTAATTAATTATCGAAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
9133477 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
66 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
9133542 ATTAATTAAAGAAAAAAAAATCAAAATCAG
131 ATTAATTAAAG-AAAAAAAATCAAAATCAG
*
9133572 CCAAGTAATTAATTATCGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
1 CCAAGTAATTAATTATCGAAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
9133637 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
66 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
9133702 ATTAATTAAAGAAAAAAAATCAAAATCAG
131 ATTAATTAAAGAAAAAAAATCAAAATCAG
9133731 CCAAGTAATTAATTATCGAAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
1 CCAAGTAATTAATTATCGAAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
* * *
9133796 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCATCGTCG
66 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCG
*
9133861 GATTGATTAAA-AAAAAA
130 GATTAATTAAAGAAAAAA
9133878 GAAAAAAAAA
Statistics
Matches: 442, Mismatches: 19, Indels: 7
0.94 0.04 0.01
Matches are distributed among these distances:
156 133 0.30
159 126 0.29
160 183 0.41
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (159 bp):
CCAAGTAATTAATTATCGAAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
ATTAATTAAAGAAAAAAAATCAAAATCAG
Found at i:9133875 original size:316 final size:313
Alignment explanation
Indices: 9133256--9133877 Score: 1046
Period size: 316 Copynumber: 2.0 Consensus size: 313
9133246 TAAAATTTTA
* * * *
9133256 CCAAGTAATTAGTTGTTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAA
1 CCAAGTAATTAATTATCGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
*
9133321 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGGGGCTCCGTCGTCGG
66 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
* * * *
9133386 ATTATTTAAAGAAAAATCAAGATCAACCAATTAATTAATTATCGAAAATTATTCTCAATTGACTC
131 ATTAATTAAAGAAAAATCAAAATCAACCAAGTAATTAATTATCGAAAATTATTCTCAATTAACTC
*
9133451 TAATACTTTTAGCAGGAAATTGAGAAAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGT
196 TAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGT
*
9133516 TTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAAAAATCAAAATCAG
261 TTCACTTGCAGAGGCTCCATCGTCGGATTAATT--A-AAAAAAAAATCAAAATCAG
9133572 CCAAGTAATTAATTATCGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
1 CCAAGTAATTAATTATCGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
9133637 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
66 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
*
9133702 ATTAATTAAAGAAAAAAAATCAAAATCAGCCAAGTAATTAATTATCGAAAATTATTCTCAATTAA
131 ATTAATTAAAG---AAAAATCAAAATCAACCAAGTAATTAATTATCGAAAATTATTCTCAATTAA
9133767 CTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTAC
193 CTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTAC
* * *
9133832 TGTTTTTACTTGTAGAGGCTCCATCGTCGGATTGATTAAAAAAAAA
258 TG-TTTCACTTGCAGAGGCTCCATCGTCGGATTAATTAAAAAAAAA
9133878 GAAAAAAAAA
Statistics
Matches: 287, Mismatches: 15, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
316 135 0.47
317 8 0.03
318 1 0.00
319 113 0.39
320 30 0.10
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (313 bp):
CCAAGTAATTAATTATCGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
ATTAATTAAAGAAAAATCAAAATCAACCAAGTAATTAATTATCGAAAATTATTCTCAATTAACTC
TAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGT
TTCACTTGCAGAGGCTCCATCGTCGGATTAATTAAAAAAAAAATCAAAATCAG
Found at i:9133929 original size:15 final size:16
Alignment explanation
Indices: 9133909--9133941 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
9133899 AATCAAAGTC
9133909 AAATAAAAAA-AAAAA
1 AAATAAAAAATAAAAA
9133924 AAATAAAAAATAAAAA
1 AAATAAAAAATAAAAA
9133940 AA
1 AA
9133942 CCTGGAGCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (16 bp):
AAATAAAAAATAAAAA
Found at i:9134371 original size:304 final size:302
Alignment explanation
Indices: 9133824--9134423 Score: 1173
Period size: 304 Copynumber: 2.0 Consensus size: 302
9133814 GTATGCAAGA
9133824 AAAACTACTGTTTTTACTTGTAGAGGCTCCATCGTCGGATTGATTAAAAAAAAAGAAAAAAAAAA
1 AAAACTACTGTTTTTACTTGTAGAGGCTCCATCGTCGGATTGATTAAAAAAAAAGAAAAAAAAAA
9133889 TCAAGATCAAAATCAAAGTCAAATAAAAAAAAAAAAAATAAAAAATAAAAAAACCTGGAGCGGCT
66 TCAAGATCAAAATCAAAGTCAAATAAAAAAAAAAAAAATAAAAAATAAAAAAACCTGGAGCGGCT
9133954 CGGCTATCGGCTCGGCTCGACTCGGCTCAAGGAAGAAAAAACGGCTCGGAGGAGCGGCTTGGGAA
131 CGGCTATCGGCTCGGCTCGACTCGGCTCAAGGAAGAAAAAACGGCTCGGAGGAGCGGCTTGGGAA
9134019 GACCGGCTCGGCTCGGCTCGGCTCGGAGGGGGGCTGGGCACGCGCGGGTCAGAATCGGGTCGACG
196 GACCGGCTCGGCTCGGCTCGGCTCGGAGGGGGGCTGGGCACGCGCGGGTCAGAATCGGGTCGACG
9134084 CTCGGGTCGGGTCGGGTTCGGCAAAACGCGCGGATCAAGATC
261 CTCGGGTCGGGTCGGGTTCGGCAAAACGCGCGGATCAAGATC
*
9134126 AAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTGATTAAAAAAAAAGAAAAAAAAAA
1 AAAACTACTGTTTTTACTTGTAGAGGCTCCATCGTCGGATTGATTAAAAAAAAAGAAAAAAAAAA
9134191 TCAAGATCAAAATCAAAGTCAAATAAAAAAAAAATAATAATAAAAAATAAAAAAACCTGGAGCGG
66 TCAAGATCAAAATCAAAGTCAAATAAAAAAAAAA-AA-AATAAAAAATAAAAAAACCTGGAGCGG
9134256 CTCGGCTATCGGCTCGGCTCGACTCGGCTCAAGGAAGAAAAAACGGCTCGGAGGAGCGGCTTGGG
129 CTCGGCTATCGGCTCGGCTCGACTCGGCTCAAGGAAGAAAAAACGGCTCGGAGGAGCGGCTTGGG
9134321 AAGACCGGCTCGGCTCGGCTCGGCTCGGAGGGGGGCTGGGCACGCGCGGGTCAGAATCGGGTCGA
194 AAGACCGGCTCGGCTCGGCTCGGCTCGGAGGGGGGCTGGGCACGCGCGGGTCAGAATCGGGTCGA
9134386 CGCTCGGGTCGGGTCGGGTTCGGCAAAACGCGCGGATC
259 CGCTCGGGTCGGGTCGGGTTCGGCAAAACGCGCGGATC
9134424 CTCTTATTAA
Statistics
Matches: 295, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
302 98 0.33
303 2 0.01
304 195 0.66
ACGTcount: A:0.33, C:0.20, G:0.29, T:0.17
Consensus pattern (302 bp):
AAAACTACTGTTTTTACTTGTAGAGGCTCCATCGTCGGATTGATTAAAAAAAAAGAAAAAAAAAA
TCAAGATCAAAATCAAAGTCAAATAAAAAAAAAAAAAATAAAAAATAAAAAAACCTGGAGCGGCT
CGGCTATCGGCTCGGCTCGACTCGGCTCAAGGAAGAAAAAACGGCTCGGAGGAGCGGCTTGGGAA
GACCGGCTCGGCTCGGCTCGGCTCGGAGGGGGGCTGGGCACGCGCGGGTCAGAATCGGGTCGACG
CTCGGGTCGGGTCGGGTTCGGCAAAACGCGCGGATCAAGATC
Found at i:9134609 original size:20 final size:20
Alignment explanation
Indices: 9134580--9134625 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
9134570 GGAAGATTCA
*
9134580 CCGGATTCTGGAAATTTTCG
1 CCGGAATCTGGAAATTTTCG
***
9134600 CCGGAATCTGGGTTTTTTCG
1 CCGGAATCTGGAAATTTTCG
9134620 CCGGAA
1 CCGGAA
9134626 GTTGGCCGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.17, C:0.22, G:0.28, T:0.33
Consensus pattern (20 bp):
CCGGAATCTGGAAATTTTCG
Found at i:9134663 original size:20 final size:20
Alignment explanation
Indices: 9134638--9134685 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
9134628 TGGCCGGAAA
*
9134638 TTCGCCGGTTTCTGGGATTC
1 TTCGCCGGTTTCTGGGATAC
9134658 TTCGCCGGTTTCTGGGATAC
1 TTCGCCGGTTTCTGGGATAC
9134678 TTCGCCGG
1 TTCGCCGG
9134686 AAACTGGGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.06, C:0.27, G:0.31, T:0.35
Consensus pattern (20 bp):
TTCGCCGGTTTCTGGGATAC
Found at i:9134692 original size:20 final size:20
Alignment explanation
Indices: 9134649--9134693 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
9134639 TCGCCGGTTT
* ***
9134649 CTGGGATTCTTCGCCGGTTT
1 CTGGGATACTTCGCCGGAAA
9134669 CTGGGATACTTCGCCGGAAA
1 CTGGGATACTTCGCCGGAAA
9134689 CTGGG
1 CTGGG
9134694 CAGGTCGCCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.13, C:0.24, G:0.33, T:0.29
Consensus pattern (20 bp):
CTGGGATACTTCGCCGGAAA
Done.