Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 44 of 133
Found at i:9505305 original size:10 final size:10
Alignment explanation
Indices: 9505263--9505306 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
9505253 AAAATTTTTT
*
9505263 AAAAA-TTAT
1 AAAAATTTAA
9505272 AAAAATTT-A
1 AAAAATTTAA
*
9505281 ATAAATTTAA
1 AAAAATTTAA
9505291 AAAAATTTAA
1 AAAAATTTAA
9505301 AAAAAT
1 AAAAAT
9505307 ACTAAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
9 12 0.40
10 18 0.60
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AAAAATTTAA
Found at i:9505447 original size:21 final size:21
Alignment explanation
Indices: 9505421--9505462 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9505411 AAAATTCTAA
9505421 AATTTTCAAAATT-TCTAAAAT
1 AATTTTCAAAATTCT-TAAAAT
*
9505442 AATTTTTAAAATTCTTAAAAT
1 AATTTTCAAAATTCTTAAAAT
9505463 TTTATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (21 bp):
AATTTTCAAAATTCTTAAAAT
Found at i:9505454 original size:30 final size:28
Alignment explanation
Indices: 9505405--9505487 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 28
9505395 AAAACAAAAA
* *
9505405 TCTAAAAAAATTCTAAAATTTTCAAAATT
1 TCTAAAAAATTTTTAAAATTTT-AAAATT
9505434 TCTAAAATAATTTTTAAAATTCTTAAAATT
1 TCTAAAA-AATTTTTAAAATT-TTAAAATT
9505464 T-TATAAAAATTTTATAAAATTTTA
1 TCTA-AAAAATTTT-TAAAATTTTA
9505488 TAAAAATTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
29 18 0.38
30 28 0.58
31 2 0.04
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (28 bp):
TCTAAAAAATTTTTAAAATTTTAAAATT
Found at i:9505474 original size:11 final size:11
Alignment explanation
Indices: 9505458--9505503 Score: 78
Period size: 11 Copynumber: 4.4 Consensus size: 11
9505448 TAAAATTCTT
9505458 AAAATTTTATA
1 AAAATTTTATA
9505469 AAAATTTTAT-
1 AAAATTTTATA
9505479 AAAATTTTATA
1 AAAATTTTATA
9505490 AAAATTTTA-A
1 AAAATTTTATA
9505500 AAAA
1 AAAA
9505504 CTAAAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
10 15 0.44
11 19 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AAAATTTTATA
Found at i:9505481 original size:21 final size:21
Alignment explanation
Indices: 9505428--9505503 Score: 88
Period size: 21 Copynumber: 3.7 Consensus size: 21
9505418 TAAAATTTTC
9505428 AAAATTTCTAAAATAATTTT-T-
1 AAAATTT-TAAAA-AATTTTATA
9505449 AAAATTCTT--AAAATTTTATA
1 AAAATT-TTAAAAAATTTTATA
*
9505469 AAAATTTTATAAAATTTTATA
1 AAAATTTTAAAAAATTTTATA
9505490 AAAATTTTAAAAAA
1 AAAATTTTAAAAAA
9505504 CTAAAAAAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 10
0.82 0.02 0.17
Matches are distributed among these distances:
18 6 0.12
19 5 0.10
20 6 0.12
21 31 0.63
22 1 0.02
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (21 bp):
AAAATTTTAAAAAATTTTATA
Found at i:9505502 original size:9 final size:9
Alignment explanation
Indices: 9505410--9505502 Score: 71
Period size: 10 Copynumber: 9.6 Consensus size: 9
9505400 AAAAATCTAA
*
9505410 AAAAATTCT
1 AAAAATTTT
9505419 -AAAATTTT
1 AAAAATTTT
*
9505427 CAAAATTTCT
1 AAAAATTT-T
9505437 AAAATAATTTT
1 -AAA-AATTTT
*
9505448 TAAAATTCTT
1 AAAAATT-TT
*
9505458 AAAATTTTAT
1 AAAAATTT-T
9505468 AAAAATTTT
1 AAAAATTTT
9505477 ATAAAATTTTAT
1 A-AAAA-TTT-T
9505489 AAAAATTTT
1 AAAAATTTT
9505498 AAAAA
1 AAAAA
9505503 ACTAAAAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
8 7 0.10
9 20 0.29
10 25 0.36
11 10 0.14
12 7 0.10
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (9 bp):
AAAAATTTT
Found at i:9505503 original size:10 final size:10
Alignment explanation
Indices: 9505419--9505503 Score: 70
Period size: 11 Copynumber: 8.4 Consensus size: 10
9505409 AAAAAATTCT
*
9505419 AAAATTTT-C
1 AAAATTTTAA
9505428 AAAATTTCTAA
1 AAAATTT-TAA
*
9505439 AATAATTTT-T
1 AA-AATTTTAA
9505449 AAAATTCTT--
1 AAAATT-TTAA
9505458 AAAATTTTATA
1 AAAATTTTA-A
*
9505469 AAAATTTTAT
1 AAAATTTTAA
9505479 AAAATTTTATA
1 AAAATTTTA-A
9505490 AAAATTTTAA
1 AAAATTTTAA
9505500 AAAA
1 AAAA
9505504 CTAAAAAAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
8 2 0.03
9 17 0.27
10 19 0.30
11 21 0.33
12 5 0.08
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (10 bp):
AAAATTTTAA
Found at i:9505631 original size:20 final size:20
Alignment explanation
Indices: 9505606--9505662 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 20
9505596 ATGAAGGAAA
9505606 CTTAAAAATTTTCAAAAAAT
1 CTTAAAAATTTTCAAAAAAT
*
9505626 CTT-AAAATTTAT-AAAAATT
1 CTTAAAAATTT-TCAAAAAAT
* *
9505645 C-CAAAAAATTTCAAAAAA
1 CTTAAAAATTTTCAAAAAA
9505663 ATACAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
18 1 0.03
19 25 0.83
20 4 0.13
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.32
Consensus pattern (20 bp):
CTTAAAAATTTTCAAAAAAT
Found at i:9505715 original size:11 final size:11
Alignment explanation
Indices: 9505699--9505726 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
9505689 TATTAAAAAG
9505699 AAAATTTTTAA
1 AAAATTTTTAA
9505710 AAAATTTTTAA
1 AAAATTTTTAA
9505721 AAAATT
1 AAAATT
9505727 CACAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
AAAATTTTTAA
Found at i:9505795 original size:18 final size:17
Alignment explanation
Indices: 9505751--9505797 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
9505741 AATAGTTAAA
*
9505751 ATTAAAAATTAAAAATT
1 ATTAAAAAATAAAAATT
*
9505768 TTTCAAAAAATAAAAATT
1 ATT-AAAAAATAAAAATT
9505786 ATTAATAAAATA
1 ATTAA-AAAATA
9505798 CTAAAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
ATTAAAAAATAAAAATT
Found at i:9505986 original size:17 final size:18
Alignment explanation
Indices: 9505959--9505998 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
9505949 TTTTAAAATA
* *
9505959 TTTTAGATTTTTTTTATT
1 TTTTAGATTTTTGTGATT
9505977 TTTTAG-TTTTTGTGATT
1 TTTTAGATTTTTGTGATT
9505994 TTTTA
1 TTTTA
9505999 AACTGTAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.75
Consensus pattern (18 bp):
TTTTAGATTTTTGTGATT
Found at i:9506183 original size:20 final size:20
Alignment explanation
Indices: 9506127--9506184 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
9506117 TTCATATTGT
** *
9506127 AATTTTTAAAAAT-TTGGAA
1 AATTTTTAAAAATATTTTAG
*
9506146 AATTTTTAAAAATGTTTTAG
1 AATTTTTAAAAATATTTTAG
9506166 AATTTTTAAGAAA-ATTTTA
1 AATTTTTAA-AAATATTTTA
9506185 TTTTTTTTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 13 0.39
20 17 0.52
21 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.47
Consensus pattern (20 bp):
AATTTTTAAAAATATTTTAG
Found at i:9506267 original size:19 final size:19
Alignment explanation
Indices: 9506243--9506279 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
9506233 TTACTATTTG
9506243 AAAATTTA-AAATATTTTAT
1 AAAATTTATAAA-ATTTTAT
9506262 AAAATTTATAAAATTTTA
1 AAAATTTATAAAATTTTA
9506280 AAATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AAAATTTATAAAATTTTAT
Found at i:9506269 original size:9 final size:9
Alignment explanation
Indices: 9506243--9506285 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
9506233 TTACTATTTG
9506243 AAAATTTA-
1 AAAATTTAT
9506251 AAATATTTTAT
1 AAA-A-TTTAT
9506262 AAAATTTAT
1 AAAATTTAT
9506271 AAAATTT-T
1 AAAATTTAT
9506279 AAAATTT
1 AAAATTT
9506286 TTTTAGAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 11 0.34
9 13 0.41
10 5 0.16
11 3 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
AAAATTTAT
Found at i:9506274 original size:28 final size:28
Alignment explanation
Indices: 9506243--9506296 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
9506233 TTACTATTTG
9506243 AAAA-TTTAAAATATTTTATAAAATTTAT
1 AAAATTTTAAAAT-TTTTATAAAATTTAT
* *
9506271 AAAATTTTAAAATTTTTTTAGAATTT
1 AAAATTTTAAAATTTTTATAAAATTT
9506297 TTTTGTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (28 bp):
AAAATTTTAAAATTTTTATAAAATTTAT
Found at i:9506357 original size:21 final size:21
Alignment explanation
Indices: 9506331--9506374 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
9506321 TTTAGAATTG
9506331 TTTTG-AAGTTTTCAAAAGTTT
1 TTTTGAAAGTTTT-AAAAGTTT
*
9506352 TTTTGAAAGTTTTAGAAGTTT
1 TTTTGAAAGTTTTAAAAGTTT
9506373 TT
1 TT
9506375 AGAAAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.27, C:0.02, G:0.16, T:0.55
Consensus pattern (21 bp):
TTTTGAAAGTTTTAAAAGTTT
Found at i:9506384 original size:10 final size:10
Alignment explanation
Indices: 9506351--9506428 Score: 61
Period size: 10 Copynumber: 7.8 Consensus size: 10
9506341 TTCAAAAGTT
* *
9506351 TTTTTGAAAG
1 TTTTAGAAAA
**
9506361 TTTTAGAAGT
1 TTTTAGAAAA
9506371 TTTTAGAAAA
1 TTTTAGAAAA
*
9506381 TTTT-CAAAA
1 TTTTAGAAAA
9506390 TTTTAG-AAA
1 TTTTAGAAAA
*
9506399 TTTTAAAAAA
1 TTTTAGAAAA
*
9506409 TTTGTAAAAAAA
1 TTT-T-AGAAAA
9506421 TTTTAGAA
1 TTTTAGAA
9506429 TTTTAAAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
9 16 0.29
10 28 0.51
11 2 0.04
12 9 0.16
ACGTcount: A:0.45, C:0.01, G:0.10, T:0.44
Consensus pattern (10 bp):
TTTTAGAAAA
Found at i:9506408 original size:19 final size:19
Alignment explanation
Indices: 9506371--9506443 Score: 60
Period size: 19 Copynumber: 3.7 Consensus size: 19
9506361 TTTTAGAAGT
*
9506371 TTTTAGAAAATTTTCAAAA
1 TTTTAGAAAATTTTAAAAA
9506390 TTTTAG-AAATTTTAAAAAA
1 TTTTAGAAAATTTT-AAAAA
* *
9506409 TTTGTAAAAAAATTTT-AGAA
1 TTT-T-AGAAAATTTTAAAAA
*
9506429 TTTTAAAAAAGTTTT
1 TTTTAGAAAA-TTTT
9506444 TAGTATTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
18 13 0.28
19 18 0.39
20 7 0.15
21 1 0.02
22 7 0.15
ACGTcount: A:0.48, C:0.01, G:0.07, T:0.44
Consensus pattern (19 bp):
TTTTAGAAAATTTTAAAAA
Found at i:9506418 original size:11 final size:10
Alignment explanation
Indices: 9506371--9506443 Score: 55
Period size: 9 Copynumber: 7.4 Consensus size: 10
9506361 TTTTAGAAGT
*
9506371 TTTTAGAAAA
1 TTTTAAAAAA
*
9506381 TTTT-CAAAA
1 TTTTAAAAAA
*
9506390 TTTT-AGAAA
1 TTTTAAAAAA
9506399 TTTTAAAAAA
1 TTTTAAAAAA
9506409 TTTGTAAAAAAA
1 TTT-T-AAAAAA
*
9506421 TTTT--AGAA
1 TTTTAAAAAA
9506429 TTTTAAAAAA
1 TTTTAAAAAA
9506439 GTTTT
1 -TTTT
9506444 TAGTATTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
8 7 0.14
9 15 0.29
10 14 0.27
11 6 0.12
12 9 0.18
ACGTcount: A:0.48, C:0.01, G:0.07, T:0.44
Consensus pattern (10 bp):
TTTTAAAAAA
Found at i:9506437 original size:20 final size:20
Alignment explanation
Indices: 9506414--9506452 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9506404 AAAAATTTGT
9506414 AAAAAAATTTTAGAATTTTA
1 AAAAAAATTTTAGAATTTTA
** *
9506434 AAAAAGTTTTTAGTATTTT
1 AAAAAAATTTTAGAATTTT
9506453 TGAGTTATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (20 bp):
AAAAAAATTTTAGAATTTTA
Found at i:9507025 original size:22 final size:23
Alignment explanation
Indices: 9506980--9507032 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
9506970 AAATTTTCAT
*
9506980 AAAAATAATTTTAAAATATAAAA
1 AAAAAGAATTTTAAAATATAAAA
* * *
9507003 AATAAGAATTTT-AAATGTTAAA
1 AAAAAGAATTTTAAAATATAAAA
9507025 AAAAAGAA
1 AAAAAGAA
9507033 GACATAATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (23 bp):
AAAAAGAATTTTAAAATATAAAA
Found at i:9507274 original size:24 final size:21
Alignment explanation
Indices: 9507220--9507278 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 21
9507210 GTCAAAAAGT
*
9507220 AAAA-ATAATTATAAAATATA
1 AAAATATAATTTTAAAATATA
9507240 AAAATATTAATTTTAAATATTATA
1 AAAATA-TAATTTTAAA-A-TATA
9507264 AAAGATATAATTTTA
1 AAA-ATATAATTTTA
9507279 GTACATCCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 4 0.12
21 1 0.03
22 9 0.27
23 1 0.03
24 15 0.45
25 3 0.09
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
AAAATATAATTTTAAAATATA
Found at i:9515535 original size:69 final size:69
Alignment explanation
Indices: 9515461--9515697 Score: 330
Period size: 69 Copynumber: 3.4 Consensus size: 69
9515451 GCTCGTTTAC
** * * * * * *
9515461 TTTTGCAGATTCTGTTCTGAGCACCCCTGCCTACACAGGTGACATGTTCCATGGGAAAAGCTCAT
1 TTTTGCAGATTCTGTTCCAAGCACCCCTGCCTATACAGATAACATGTTCAAGGGGAAGAGCTCAT
9515526 CTAT
66 CTAT
* * *
9515530 TTTTGCAGATTCTGTTCCGAGCACCCCGGCTTATACAGATAACATGTTCAAGGGGAAGAGCTCAT
1 TTTTGCAGATTCTGTTCCAAGCACCCCTGCCTATACAGATAACATGTTCAAGGGGAAGAGCTCAT
*
9515595 CTGT
66 CTAT
* * *
9515599 TTTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGCAGATAACATGTTCAAGGGGAAGAGCTCGT
1 TTTTGCAGATTCTGTTCCAAGCACCCCTGCCTATACAGATAACATGTTCAAGGGGAAGAGCTCAT
9515664 CTAT
66 CTAT
*
9515668 TTTTGCTGATTCTGTTCCAAGCACCCCTGC
1 TTTTGCAGATTCTGTTCCAAGCACCCCTGC
9515698 TTATCATCAT
Statistics
Matches: 149, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 149 1.00
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (69 bp):
TTTTGCAGATTCTGTTCCAAGCACCCCTGCCTATACAGATAACATGTTCAAGGGGAAGAGCTCAT
CTAT
Found at i:9517530 original size:12 final size:13
Alignment explanation
Indices: 9517511--9517546 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
9517501 TATTTATTTA
9517511 ATTT-TATA-ATT
1 ATTTATATATATT
9517522 ATTTATATATATT
1 ATTTATATATATT
9517535 -TTTATATATATT
1 ATTTATATATATT
9517547 TAATTTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.17
12 16 0.70
13 3 0.13
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTATATATATT
Found at i:9517539 original size:16 final size:17
Alignment explanation
Indices: 9517520--9517563 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
9517510 AATTTTATAA
9517520 TTATTTATATAT-ATTT
1 TTATTTATATATAATTT
* *
9517536 TTATATATATTTAATTT
1 TTATTTATATATAATTT
9517553 TATATTTATAT
1 T-TATTTATAT
9517564 TAAAAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 10 0.43
17 5 0.22
18 8 0.35
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATTTATATATAATTT
Found at i:9521260 original size:9 final size:9
Alignment explanation
Indices: 9521246--9521271 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9521236 TCAATCCGTT
9521246 TTAAGTTTA
1 TTAAGTTTA
9521255 TTAAGTTTA
1 TTAAGTTTA
9521264 TTAAGTTT
1 TTAAGTTT
9521272 TGTTTCAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.58
Consensus pattern (9 bp):
TTAAGTTTA
Found at i:9527880 original size:3 final size:3
Alignment explanation
Indices: 9527872--9527899 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
9527862 CCACAAGATG
9527872 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9527900 AAGATTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:9533811 original size:24 final size:26
Alignment explanation
Indices: 9533784--9533832 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
9533774 ATATACATTT
9533784 AGTTTTA-CTTTTAG-TTTTTCACAC
1 AGTTTTATCTTTTAGTTTTTTCACAC
*
9533808 AGTTTTATTTTTTAGTTTTTTCACA
1 AGTTTTATCTTTTAGTTTTTTCACA
9533833 TAGTATCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 6 0.27
26 9 0.41
ACGTcount: A:0.20, C:0.12, G:0.08, T:0.59
Consensus pattern (26 bp):
AGTTTTATCTTTTAGTTTTTTCACAC
Found at i:9537853 original size:25 final size:25
Alignment explanation
Indices: 9537814--9537862 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
9537804 ATACATTTAA
9537814 TTTTATTCTTAGTTTTT-CACACAG
1 TTTTATTCTTAGTTTTTCCACACAG
*
9537838 TTTTATTTTTTAGTTTTTCCACACA
1 TTTTA-TTCTTAGTTTTTCCACACA
9537863 TACTAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.23
25 11 0.50
26 6 0.27
ACGTcount: A:0.20, C:0.16, G:0.06, T:0.57
Consensus pattern (25 bp):
TTTTATTCTTAGTTTTTCCACACAG
Found at i:9541903 original size:33 final size:32
Alignment explanation
Indices: 9541822--9541905 Score: 89
Period size: 33 Copynumber: 2.6 Consensus size: 32
9541812 GTGGGATGCT
*
9541822 TAAAAGCTTATATTATGATTTTGAAAATTTTC
1 TAAAAGCTTAAATTATGATTTTGAAAATTTTC
* * * *
9541854 TAAGAA-CCTAATTTATGATCTTTGGAGATTTTC
1 TAA-AAGCTTAAATTATGAT-TTTGAAAATTTTC
*
9541887 TAAAAGGTTAAATTATGAT
1 TAAAAGCTTAAATTATGAT
9541906 AATTAAATTA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
32 15 0.37
33 26 0.63
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (32 bp):
TAAAAGCTTAAATTATGATTTTGAAAATTTTC
Found at i:9555249 original size:34 final size:31
Alignment explanation
Indices: 9555211--9555282 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 31
9555201 TCGCAATCCG
9555211 ATAATTCGCAATTTAAGTTGAAACTCAAAGGTTC
1 ATAATTCG-AATTTAA--TGAAACTCAAAGGTTC
* * *
9555245 ATAATTTGAGTTTAATGAAATTCAAAGGTTC
1 ATAATTCGAATTTAATGAAACTCAAAGGTTC
*
9555276 TTAATTC
1 ATAATTC
9555283 AAAGATTCAC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
31 20 0.61
33 6 0.18
34 7 0.21
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (31 bp):
ATAATTCGAATTTAATGAAACTCAAAGGTTC
Found at i:9555321 original size:17 final size:18
Alignment explanation
Indices: 9555287--9555324 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
9555277 TAATTCAAAG
9555287 ATTCACAAGAATTTTCAT
1 ATTCACAAGAATTTTCAT
*
9555305 ATTCATAAGAA-TTTCAT
1 ATTCACAAGAATTTTCAT
9555322 ATT
1 ATT
9555325 GGTAAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.39, C:0.13, G:0.05, T:0.42
Consensus pattern (18 bp):
ATTCACAAGAATTTTCAT
Found at i:9555460 original size:18 final size:17
Alignment explanation
Indices: 9555437--9555473 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
9555427 TTGCAAGAAA
*
9555437 TTAGATCCATAAGAACTT
1 TTAGATCCACAAGAA-TT
9555455 TTAGATCCACAAGAATT
1 TTAGATCCACAAGAATT
9555472 TT
1 TT
9555474 CAAATTCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (17 bp):
TTAGATCCACAAGAATT
Found at i:9557354 original size:15 final size:15
Alignment explanation
Indices: 9557311--9557355 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
9557301 ATTTAATCCA
9557311 ATTTTTCACTTTTTTT
1 ATTTTTCAC-TTTTTT
* *
9557327 ATTTTTTATTTTTTT
1 ATTTTTCACTTTTTT
9557342 ATTTTTCACTTTTT
1 ATTTTTCACTTTTT
9557356 CACTTCATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
15 18 0.72
16 7 0.28
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (15 bp):
ATTTTTCACTTTTTT
Found at i:9562377 original size:78 final size:79
Alignment explanation
Indices: 9562247--9562403 Score: 262
Period size: 78 Copynumber: 2.0 Consensus size: 79
9562237 AGATAATCAA
* * *
9562247 TATATCACATAAATTGTTCCTTCTTGTATCCTAATTTTAGGTTACATTTATCAATGG-GAGGAAT
1 TATATCACACAAATTGTTCCTTCTTGTATCATAATTTTAGGTTACATCTATCAATGGAGAGGAAT
9562311 GGCTCTATCTTAAG
66 GGCTCTATCTTAAG
* *
9562325 TATATCACACAAATTGTTCCTTCTTGTGTCATAATTTTAGGTTACATCTATCAATGGATAGGAAT
1 TATATCACACAAATTGTTCCTTCTTGTATCATAATTTTAGGTTACATCTATCAATGGAGAGGAAT
9562390 GGCTCTATCTTAAG
66 GGCTCTATCTTAAG
9562404 GTTGGCTTCT
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
78 53 0.73
79 20 0.27
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (79 bp):
TATATCACACAAATTGTTCCTTCTTGTATCATAATTTTAGGTTACATCTATCAATGGAGAGGAAT
GGCTCTATCTTAAG
Found at i:9563993 original size:19 final size:20
Alignment explanation
Indices: 9563956--9563994 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
9563946 CTTGGTTCGA
* *
9563956 TTTTTGAAAATCCTTATTGG
1 TTTTTGAAAATCATGATTGG
9563976 TTTTTGAAAAT-ATGATTGG
1 TTTTTGAAAATCATGATTGG
9563995 AAAGTCATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.28, C:0.05, G:0.18, T:0.49
Consensus pattern (20 bp):
TTTTTGAAAATCATGATTGG
Found at i:9569669 original size:11 final size:11
Alignment explanation
Indices: 9569655--9569700 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
9569645 AAAACAAGGG
9569655 AAAAAATGAGA
1 AAAAAATGAGA
*
9569666 AAAAAATGAGGG
1 AAAAAATGA-GA
9569678 AAAAAA-GAGA
1 AAAAAATGAGA
*
9569688 AAAAAAAGAGA
1 AAAAAATGAGA
9569699 AA
1 AA
9569701 GTTTGAAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 7 0.23
11 17 0.55
12 7 0.23
ACGTcount: A:0.74, C:0.00, G:0.22, T:0.04
Consensus pattern (11 bp):
AAAAAATGAGA
Found at i:9569694 original size:23 final size:23
Alignment explanation
Indices: 9569651--9569693 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
9569641 TGTGAAAACA
9569651 AGGGAAAAAATGAGAAAAAAATG
1 AGGGAAAAAATGAGAAAAAAATG
9569674 AGGGAAAAAA-GAGAAAAAAA
1 AGGGAAAAAATGAGAAAAAAA
9569694 AGAGAAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.70, C:0.00, G:0.26, T:0.05
Consensus pattern (23 bp):
AGGGAAAAAATGAGAAAAAAATG
Found at i:9570696 original size:14 final size:14
Alignment explanation
Indices: 9570674--9570719 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
9570664 ACCCTAAATC
*
9570674 TAAATTCTAAACCT
1 TAAAATCTAAACCT
*
9570688 TAAACTCTAAACCT
1 TAAAATCTAAACCT
*
9570702 TAAAATCTAAACAT
1 TAAAATCTAAACCT
9570716 TAAA
1 TAAA
9570720 TCCCAAACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (14 bp):
TAAAATCTAAACCT
Found at i:9570727 original size:28 final size:27
Alignment explanation
Indices: 9570674--9570738 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
9570664 ACCCTAAATC
* *
9570674 TAAATTCTAAACCTTAAACTCTAAACCT
1 TAAATTCTAAACATTAAACTCCAAA-CT
*
9570702 TAAAATCTAAACATTAAA-TCCCAAACT
1 TAAATTCTAAACATTAAACT-CCAAACT
9570729 TAAATTCTAA
1 TAAATTCTAA
9570739 CCGCCTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 12 0.38
28 20 0.62
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.31
Consensus pattern (27 bp):
TAAATTCTAAACATTAAACTCCAAACT
Found at i:9574280 original size:62 final size:64
Alignment explanation
Indices: 9574159--9574291 Score: 164
Period size: 62 Copynumber: 2.1 Consensus size: 64
9574149 TACAAATGTC
* ** *
9574159 AAAAACTTATTCAATAATTTTTTATAAAAAATTTAATGAAAATTATTTAAAATGTTTTTTATCA
1 AAAAAATTATTCAATAATTTTTTATAAAAAATTTAATGAAAATTATTTAAAATCATTTTTATAA
* * * *
9574223 AAAAAATT-TTCAATTATTTTTTA-ATAAAAATTT-TTTAAAATTATTTAAAGTCATTTTTATAA
1 AAAAAATTATTCAATAATTTTTTATA-AAAAATTTAATGAAAATTATTTAAAATCATTTTTATAA
9574285 AAAAAAT
1 AAAAAAT
9574292 ATCTTAAATA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 31 0.52
63 22 0.37
64 7 0.12
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (64 bp):
AAAAAATTATTCAATAATTTTTTATAAAAAATTTAATGAAAATTATTTAAAATCATTTTTATAA
Found at i:9574908 original size:7 final size:7
Alignment explanation
Indices: 9574898--9574923 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9574888 GAAGATGTAG
9574898 TCTGGAC
1 TCTGGAC
9574905 TCTGGAC
1 TCTGGAC
9574912 TCTGGAC
1 TCTGGAC
9574919 TCTGG
1 TCTGG
9574924 CCTGATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.27, G:0.31, T:0.31
Consensus pattern (7 bp):
TCTGGAC
Found at i:9579803 original size:30 final size:30
Alignment explanation
Indices: 9579769--9579831 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
9579759 TAAAACGTAT
9579769 TGGCATCTAGTTGCAGAAGCAATGGAGTTA
1 TGGCATCTAGTTGCAGAAGCAATGGAGTTA
9579799 TGGCATCTAGTTGCAGAAGCAATGGAGTTA
1 TGGCATCTAGTTGCAGAAGCAATGGAGTTA
9579829 TGG
1 TGG
9579832 TAAATCATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.27
Consensus pattern (30 bp):
TGGCATCTAGTTGCAGAAGCAATGGAGTTA
Found at i:9584700 original size:2 final size:2
Alignment explanation
Indices: 9584693--9584742 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
9584683 AACCGAAGCA
* * *
9584693 AT AT AT AT GT GT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9584735 AT AT AT AT
1 AT AT AT AT
9584743 TATCATAGGC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9584718 original size:20 final size:20
Alignment explanation
Indices: 9584693--9584742 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
9584683 AACCGAAGCA
*
9584693 ATATATATGTGTATATATAT
1 ATATATATATGTATATATAT
9584713 ATATATATATGTATATATAT
1 ATATATATATGTATATATAT
9584733 ATATATATAT
1 ATATATATAT
9584743 TATCATAGGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (20 bp):
ATATATATATGTATATATAT
Found at i:9584927 original size:3 final size:3
Alignment explanation
Indices: 9584919--9584961 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
9584909 AAAGCACGAT
9584919 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
9584962 GAGTAATTAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:9586298 original size:21 final size:22
Alignment explanation
Indices: 9586272--9586333 Score: 90
Period size: 21 Copynumber: 2.8 Consensus size: 22
9586262 TAACATATAA
9586272 TACTTATAGTTATTTTTTTA-T
1 TACTTATAGTTATTTTTTTATT
9586293 TACTTATAGTTATTTTTTTTATT
1 TACTTATAGTTA-TTTTTTTATT
*
9586316 TATATTATAGTTATTTTT
1 TA-CTTATAGTTATTTTT
9586334 ATTTACATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
21 12 0.32
22 8 0.22
23 8 0.22
24 9 0.24
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (22 bp):
TACTTATAGTTATTTTTTTATT
Found at i:9586323 original size:24 final size:22
Alignment explanation
Indices: 9586275--9586338 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 22
9586265 CATATAATAC
*
9586275 TTATAGTTA-TTTTTTTATTAC
1 TTATAGTTATTTTTTTTATTAA
9586296 TTATAGTTATTTTTTTTATTTATA
1 TTATAGTTATTTTTTTTA-TTA-A
9586320 TTATAGTTATTTTTATTTA
1 TTATAGTTATTTTT-TTTA
9586339 CATTACAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
21 9 0.24
22 8 0.21
23 3 0.08
24 14 0.37
25 4 0.11
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.69
Consensus pattern (22 bp):
TTATAGTTATTTTTTTTATTAA
Found at i:9586334 original size:21 final size:21
Alignment explanation
Indices: 9586275--9586343 Score: 70
Period size: 21 Copynumber: 3.1 Consensus size: 21
9586265 CATATAATAC
9586275 TTATAGTTA-TTTT-TTTATTA
1 TTATAGTTATTTTTATTTA-TA
9586295 CTTATAGTTATTTTTTTTATTTATA
1 -TTATAGTTA---TTTTTATTTATA
*
9586320 TTATAGTTATTTTTATTTACA
1 TTATAGTTATTTTTATTTATA
9586341 TTA
1 TTA
9586344 CAATAATATT
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
21 23 0.55
24 9 0.21
25 6 0.14
26 4 0.10
ACGTcount: A:0.26, C:0.03, G:0.04, T:0.67
Consensus pattern (21 bp):
TTATAGTTATTTTTATTTATA
Found at i:9587008 original size:6 final size:6
Alignment explanation
Indices: 9586976--9587010 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
9586966 TCGATACTTC
* *
9586976 TTTTTA TTATTA TTATTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
9587011 TTTAAAGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:9588646 original size:27 final size:27
Alignment explanation
Indices: 9588608--9588659 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
9588598 ATTCCTTACC
*
9588608 ACATCTCCACCAGTATCTGCACATACT
1 ACATCTCCACCAGTATCTACACATACT
9588635 ACATCTCCACCAGTATCTACACATA
1 ACATCTCCACCAGTATCTACACATA
9588660 ATCATGTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.37, G:0.06, T:0.25
Consensus pattern (27 bp):
ACATCTCCACCAGTATCTACACATACT
Found at i:9589017 original size:12 final size:11
Alignment explanation
Indices: 9589000--9589034 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
9588990 CCCAATTATC
9589000 TATTTTCATTTT
1 TATTTT-ATTTT
9589012 TATTTTATATTT
1 TATTTTAT-TTT
9589024 TATTTTATTTT
1 TATTTTATTTT
9589035 ATTGGTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.23
12 17 0.77
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (11 bp):
TATTTTATTTT
Found at i:9589043 original size:17 final size:17
Alignment explanation
Indices: 9589009--9589049 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
9588999 CTATTTTCAT
*
9589009 TTTTATTTTATATTTTA
1 TTTTATTTTATATGTTA
9589026 TTTTATTTTAT-TGGTTA
1 TTTTATTTTATAT-GTTA
9589043 -TTTATTT
1 TTTTATTT
9589050 ATTTGTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.76
Consensus pattern (17 bp):
TTTTATTTTATATGTTA
Found at i:9595716 original size:27 final size:27
Alignment explanation
Indices: 9595678--9595732 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
9595668 GTTGTTAGGA
9595678 GAATATTTAAAACTTTGGTTTGGCCAT
1 GAATATTTAAAACTTTGGTTTGGCCAT
9595705 GAATATTTAAAACTTTGGTTTGGCCAT
1 GAATATTTAAAACTTTGGTTTGGCCAT
9595732 G
1 G
9595733 CACCTATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (27 bp):
GAATATTTAAAACTTTGGTTTGGCCAT
Found at i:9596120 original size:44 final size:44
Alignment explanation
Indices: 9596070--9596174 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 44
9596060 TCAAACTCGG
* * * *
9596070 ATGAGAAGCTTTGAACTCTTCGATATGAATCTCTAA-ATTT-TTGA
1 ATGAGAACCTTTGAA-T-TTAGATATGAAACTCCAAGATTTATTGA
*
9596114 ATGAGAACCTTTGAATTTAGATGTGAAACTCCAAGATTTATTGA
1 ATGAGAACCTTTGAATTTAGATATGAAACTCCAAGATTTATTGA
* *
9596158 ATGTGAATCTTTGAATT
1 ATGAGAACCTTTGAATT
9596175 CAAATGAAGA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 14 0.27
43 5 0.10
44 33 0.63
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.38
Consensus pattern (44 bp):
ATGAGAACCTTTGAATTTAGATATGAAACTCCAAGATTTATTGA
Found at i:9596314 original size:21 final size:21
Alignment explanation
Indices: 9596290--9596331 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
9596280 CTTTTGGGAC
9596290 GTGAATCTCCAGAATTTGAAT
1 GTGAATCTCCAGAATTTGAAT
9596311 GTGAATCTCCAGAATTTGAAT
1 GTGAATCTCCAGAATTTGAAT
9596332 CTTTAAATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (21 bp):
GTGAATCTCCAGAATTTGAAT
Found at i:9596492 original size:31 final size:31
Alignment explanation
Indices: 9596433--9596492 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 31
9596423 CTTGCATATG
9596433 TGAAATTTTACAAATCAAATTCTTGTGAAAT
1 TGAAATTTTACAAATCAAATTCTTGTGAAAT
9596464 TGAAATTTTA-ATAATCAAATT-TTGGTGAA
1 TGAAATTTTACA-AATCAAATTCTT-GTGAA
9596493 TTCTTACGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 3 0.11
31 24 0.89
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.40
Consensus pattern (31 bp):
TGAAATTTTACAAATCAAATTCTTGTGAAAT
Found at i:9596517 original size:19 final size:19
Alignment explanation
Indices: 9596493--9596529 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9596483 TTTTGGTGAA
9596493 TTCTTACGAAGCTAAAAAG
1 TTCTTACGAAGCTAAAAAG
* *
9596512 TTCTTATGAATCTAAAAA
1 TTCTTACGAAGCTAAAAA
9596530 TTTGTGTGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (19 bp):
TTCTTACGAAGCTAAAAAG
Found at i:9596733 original size:43 final size:43
Alignment explanation
Indices: 9596646--9596751 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 43
9596636 CATGAATATT
* *
9596646 GAGGAGCCTTATTTATTTTTCAAAATTGTTGAACATCTGCTTA
1 GAGGAGCCTTATTTATTTTTCAAAATTGTCGAACATCTGATTA
* * * * *
9596689 GAGGGGCCTTATTTATTTTTCAAAGTTGTCGAGCCTTTGATTA
1 GAGGAGCCTTATTTATTTTTCAAAATTGTCGAACATCTGATTA
** *
9596732 GAAAAGCATTATTTATTTTT
1 GAGGAGCCTTATTTATTTTT
9596752 TTTAAGTTGT
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.43
Consensus pattern (43 bp):
GAGGAGCCTTATTTATTTTTCAAAATTGTCGAACATCTGATTA
Found at i:9596897 original size:43 final size:42
Alignment explanation
Indices: 9596785--9597120 Score: 254
Period size: 43 Copynumber: 7.9 Consensus size: 42
9596775 AAATTTGCAT
* * * *
9596785 TATTTATTTTTCCAAAATCATTGAGCCTCTATTTAAAAGAGCC
1 TATTTATTTTT-CAAAGTTATTAAGCCTCTATTTAGAAGAGCC
* * * *
9596828 TTATTTATTTTTTCAAAGTTATTAAGCTTTTATTTATAGGAGCC
1 -TATTTA-TTTTTCAAAGTTATTAAGCCTCTATTTAGAAGAGCC
* *
9596872 ATATTTATTTTTCAAAGTTATTAAGCCTCTGTTTAGAAAAGCCC
1 -TATTTATTTTTCAAAGTTATTAAGCCTCTATTTAGAAGAG-CC
* ** ** *
9596916 TATTTATTTTTTAAAAATGCTGAGCCTCTATTTAGAAGAGCC
1 TATTTATTTTTCAAAGTTATTAAGCCTCTATTTAGAAGAGCC
* ** *
9596958 --TTTATTTTTTCCAAAGTCATTAAGTTTCTATTTAGATGAG-C
1 TATTTA-TTTTT-CAAAGTTATTAAGCCTCTATTTAGAAGAGCC
* * *
9596999 T-TTTATTTTTTCAAAGTCATTAAGCCTTTGTTTA-AAGGAGCCC
1 TATTTA-TTTTTCAAAGTTATTAAGCCTCTATTTAGAA-GAG-CC
* * *
9597042 TATTTATTTTTCAAAGTTATTGAGTCTCTATTTAGAGGAGCC
1 TATTTATTTTTCAAAGTTATTAAGCCTCTATTTAGAAGAGCC
* * *
9597084 --TTTATTTTGTCCAAAGTTGTTGAGCCTATATTTAGAA
1 TATTTATTTT-T-CAAAGTTATTAAGCCTCTATTTAGAA
9597121 AAGCTGTACT
Statistics
Matches: 233, Mismatches: 47, Indels: 26
0.76 0.15 0.08
Matches are distributed among these distances:
40 13 0.06
41 29 0.12
42 55 0.24
43 88 0.38
44 43 0.18
45 5 0.02
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.45
Consensus pattern (42 bp):
TATTTATTTTTCAAAGTTATTAAGCCTCTATTTAGAAGAGCC
Found at i:9596964 original size:87 final size:87
Alignment explanation
Indices: 9596784--9597075 Score: 224
Period size: 87 Copynumber: 3.4 Consensus size: 87
9596774 TAAATTTGCA
* * * **
9596784 TTATTTATTTTTCCAAAATCATTGAGCCTCTATTTAAAAGAGCCTTATTTATTTTTTCAAAGTTA
1 TTATTTATTTTT-CAAAGTCATTAAGCCTCTATTTAAAAGAGCCCTATTTATTTTTTCAAAAATA
* * * * *
9596849 TTAAGCTTTTATTTATAGGAGCC
65 CTAAGCCTCTATTTAGAAGAGCC
* * * *
9596872 ATATTTATTTTTCAAAGTTATTAAGCCTCTGTTTAGAAA-AGCCCTATTTATTTTTT-AAAAATG
1 TTATTTATTTTTCAAAGTCATTAAGCCTCTATTTA-AAAGAGCCCTATTTATTTTTTCAAAAATA
*
9596935 CTGAGCCTCTATTTAGAAGAGCC
65 CTAAGCCTCTATTTAGAAGAGCC
* ** * * *
9596958 TT-TATT-TTTTCCAAAGTCATTAAGTTTCTATTTAGATGAG--CT-TTTATTTTTTC-AAAGTC
1 TTAT-TTATTTTTCAAAGTCATTAAGCCTCTATTTAAAAGAGCCCTATTTATTTTTTCAAAAAT-
* * *
9597017 ATTAAGCCTTTGTTTA-AAGGAGCC
64 ACTAAGCCTCTATTTAGAA-GAGCC
* * * *
9597041 CTATTTATTTTTCAAAGTTATTGAGTCTCTATTTA
1 TTATTTATTTTTCAAAGTCATTAAGCCTCTATTTA
9597076 GAGGAGCCTT
Statistics
Matches: 162, Mismatches: 34, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
82 16 0.10
83 21 0.13
84 26 0.16
85 26 0.16
86 24 0.15
87 35 0.22
88 14 0.09
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.46
Consensus pattern (87 bp):
TTATTTATTTTTCAAAGTCATTAAGCCTCTATTTAAAAGAGCCCTATTTATTTTTTCAAAAATAC
TAAGCCTCTATTTAGAAGAGCC
Found at i:9597031 original size:126 final size:128
Alignment explanation
Indices: 9596785--9597100 Score: 374
Period size: 126 Copynumber: 2.5 Consensus size: 128
9596775 AAATTTGCAT
* * * *
9596785 TATTTATTTTTCCAAAATCATTGAGCCTCTATTTAAAAGAGCCTTATTTATTTTTT-CAAAGTTA
1 TATTTATTTTTCAAAAAT-ACTGAGCCTCTATTTAGAAGAGCC---TTTATTTTTTCCAAAGTCA
* *
9596849 TTAAGCTTTTATTTATAGGAGCCATATTTATTTTTCAAAGTTATTAAGCCTCTGTTTAGAA-AAG
62 TTAAGCTTTTATTTAGAGGAGCCATATTTATTTTTCAAAGTCATTAAGCCTCTGTTTA-AAGAAG
9596913 CCC
126 CCC
* *
9596916 TATTTATTTTTTAAAAATGCTGAGCCTCTATTTAGAAGAGCCTTTATTTTTTCCAAAGTCATTAA
1 TATTTATTTTTCAAAAATACTGAGCCTCTATTTAGAAGAGCCTTTATTTTTTCCAAAGTCATTAA
* * *
9596981 G-TTTCTATTTAGATGAG-C-T-TTTATTTTTTCAAAGTCATTAAGCCTTTGTTTAAAGGAGCCC
66 GCTTT-TATTTAGAGGAGCCATATTTA-TTTTTCAAAGTCATTAAGCCTCTGTTTAAAGAAGCCC
** * * * *
9597042 TATTTATTTTTCAAAGTTATTGAGTCTCTATTTAGAGGAGCCTTTATTTTGTCCAAAGT
1 TATTTATTTTTCAAAAATACTGAGCCTCTATTTAGAAGAGCCTTTATTTTTTCCAAAGT
9597101 TGTTGAGCCT
Statistics
Matches: 162, Mismatches: 19, Indels: 13
0.84 0.10 0.07
Matches are distributed among these distances:
125 6 0.04
126 83 0.51
127 14 0.09
128 22 0.14
130 21 0.13
131 16 0.10
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.45
Consensus pattern (128 bp):
TATTTATTTTTCAAAAATACTGAGCCTCTATTTAGAAGAGCCTTTATTTTTTCCAAAGTCATTAA
GCTTTTATTTAGAGGAGCCATATTTATTTTTCAAAGTCATTAAGCCTCTGTTTAAAGAAGCCC
Found at i:9597476 original size:24 final size:24
Alignment explanation
Indices: 9597442--9597489 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
9597432 TCATTTTTTT
*
9597442 TCATTTGATTTATCTTTAATTTAA
1 TCATTTAATTTATCTTTAATTTAA
9597466 TCATTTAATTTATCTTTAATTTAA
1 TCATTTAATTTATCTTTAATTTAA
9597490 GTTAGGTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.58
Consensus pattern (24 bp):
TCATTTAATTTATCTTTAATTTAA
Found at i:9597483 original size:11 final size:11
Alignment explanation
Indices: 9597449--9597488 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
9597439 TTTTCATTTG
9597449 ATTTATCTTTA
1 ATTTATCTTTA
9597460 ATTTAATCATTTA
1 ATTT-ATC-TTTA
9597473 ATTTATCTTTA
1 ATTTATCTTTA
9597484 ATTTA
1 ATTTA
9597489 AGTTAGGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 13 0.48
12 6 0.22
13 8 0.30
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (11 bp):
ATTTATCTTTA
Found at i:9608405 original size:9 final size:9
Alignment explanation
Indices: 9608381--9608422 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
9608371 CAATTTGTCC
*
9608381 TGTATTATTT
1 TGTATT-TTA
9608391 TGTATTTTA
1 TGTATTTTA
9608400 TGTATTTTA
1 TGTATTTTA
9608409 TGTATTTTA
1 TGTATTTTA
9608418 T-TATT
1 TGTATT
9608423 ATGATATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 4 0.13
9 21 0.68
10 6 0.19
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (9 bp):
TGTATTTTA
Found at i:9608414 original size:18 final size:19
Alignment explanation
Indices: 9608381--9608424 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
9608371 CAATTTGTCC
*
9608381 TGTATTATTTTGTATTTTA
1 TGTATTATTATGTATTTTA
9608400 TGTATT-TTATGTATTTTA
1 TGTATTATTATGTATTTTA
9608418 T-TATTAT
1 TGTATTAT
9608425 GATATATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 13 0.57
19 6 0.26
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (19 bp):
TGTATTATTATGTATTTTA
Found at i:9608440 original size:18 final size:15
Alignment explanation
Indices: 9608383--9608436 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 15
9608373 ATTTGTCCTG
*
9608383 TATTATTTTGTATTT
1 TATTATTATGTATTT
9608398 TATGTATTTTATGTATTT
1 TAT-TA--TTATGTATTT
9608416 TATTATTATGATATATT
1 TATTATTATG-TAT-TT
9608433 TATT
1 TATT
9608437 TATTTATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
15 8 0.24
16 5 0.15
17 8 0.24
18 12 0.36
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (15 bp):
TATTATTATGTATTT
Found at i:9608952 original size:31 final size:31
Alignment explanation
Indices: 9608917--9608984 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
9608907 AATTTCCAGA
* ** *
9608917 TTCCGGCAAAAATTCCGGCGAAGTTTGAATT
1 TTCCGGCAAAAATTCCGGCCAACATTGAAGT
* *
9608948 TTCCGACGAAAATTCCGGCCAACATTGAAGT
1 TTCCGGCAAAAATTCCGGCCAACATTGAAGT
9608979 TTCCGG
1 TTCCGG
9608985 TGACCTGCCC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (31 bp):
TTCCGGCAAAAATTCCGGCCAACATTGAAGT
Found at i:9609439 original size:23 final size:23
Alignment explanation
Indices: 9609396--9609439 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
9609386 CTCCAGGTTT
* * *
9609396 TTTTTTTTTTTTTTTTCTTTGAA
1 TTTTTTTTCTTTGTTTATTTGAA
9609419 TTTTTTTTCTTTGTTTATTTG
1 TTTTTTTTCTTTGTTTATTTG
9609440 TTTATTTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.07, C:0.05, G:0.07, T:0.82
Consensus pattern (23 bp):
TTTTTTTTCTTTGTTTATTTGAA
Found at i:9609499 original size:10 final size:10
Alignment explanation
Indices: 9609484--9609521 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
9609474 TGTAATATTC
9609484 TTTTTATTTA
1 TTTTTATTTA
9609494 TTTTTATTTA
1 TTTTTATTTA
9609504 TTTTT-TATTA
1 TTTTTAT-TTA
9609514 -TTTTATTT
1 TTTTTATTT
9609522 TCTTTAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:9609505 original size:14 final size:15
Alignment explanation
Indices: 9609485--9609522 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
9609475 GTAATATTCT
9609485 TTTTATTTATTT-TTA
1 TTTTATTT-TTTATTA
9609500 -TTTATTTTTTATTA
1 TTTTATTTTTTATTA
9609514 TTTTATTTT
1 TTTTATTTT
9609523 CTTTAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.14
14 10 0.48
15 8 0.38
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTATTTTTTATTA
Found at i:9609603 original size:57 final size:57
Alignment explanation
Indices: 9609540--9609762 Score: 333
Period size: 57 Copynumber: 3.8 Consensus size: 57
9609530 TAAAAATAAA
9609540 AAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 AAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
* *
9609597 AAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAGTTTTCCTCAGAAAT
1 AAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
* *
9609654 AAATTTCAAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAAT
1 AAATTTC----CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT
9609715 CGAAATTTCCAAAAAATA-TTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 --AAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
9609763 TCCTGCAAAA
Statistics
Matches: 151, Mismatches: 8, Indels: 13
0.88 0.05 0.08
Matches are distributed among these distances:
57 62 0.41
58 29 0.19
59 8 0.05
60 1 0.01
61 44 0.29
63 7 0.05
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (57 bp):
AAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
Found at i:9609701 original size:118 final size:118
Alignment explanation
Indices: 9609548--9609762 Score: 371
Period size: 118 Copynumber: 1.8 Consensus size: 118
9609538 AAAAATTTCC
*
9609548 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAAT-AAATTTCCAAAAAA
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCAAATTTCCAAAAAA
*
9609611 TATTTTTGGGGAAAAGTTGAAAGTATCAGTTTTCCTCAGAAATAAATTTCAAAAA
65 TA-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAA
9609666 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTCCAAAAAA
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAATTTCCAAAAAA
9609731 TATTTTGGGGAAAAGTTGAAAGTATCAATTTT
65 TATTTTGGGGAAAAGTTGAAAGTATCAATTTT
9609763 TCCTGCAAAA
Statistics
Matches: 92, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
118 46 0.50
119 30 0.33
120 16 0.17
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (118 bp):
AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTTCCAAAAAAT
ATTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAA
Found at i:9614308 original size:12 final size:12
Alignment explanation
Indices: 9614290--9614323 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
9614280 GTGATGGTGG
9614290 ATGAAATTTGTT
1 ATGAAATTTGTT
*
9614302 TTGAAATTTGTT
1 ATGAAATTTGTT
9614314 ATGAAATTTG
1 ATGAAATTTG
9614324 CTAGCGCTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (12 bp):
ATGAAATTTGTT
Found at i:9614912 original size:41 final size:40
Alignment explanation
Indices: 9614869--9615308 Score: 692
Period size: 41 Copynumber: 10.8 Consensus size: 40
9614859 AGTATTTGCT
9614869 TTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCAATTTAC
1 TTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCAATTTAC
9614909 TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC
1 TTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTAC
*
9614950 TTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTAC
1 TTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTAC
*
9614992 TTTTCAAAGTTCGT-TGCCTCGGTTTAGAGGAGCAATTTAC
1 TTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCAATTTAC
*
9615032 TTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTAC
1 TTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTAC
9615074 TTTTCAAAGTC--GTGCCTCTGTTTAGAGGAGCAATTTAC
1 TTTTCAAAGTCGTGTGCCTCTGTTTAGAGGAGCAATTTAC
9615112 TTTTCCAAAGTCGTGTGCCTCTGTTTAGAGGAGCAATTTAC
1 TTTT-CAAAGTCGTGTGCCTCTGTTTAGAGGAGCAATTTAC
9615153 TTTTCAAAGTCGT-TGCCTCTGTTTAGAGGAGCAATTTAC
1 TTTTCAAAGTCGTGTGCCTCTGTTTAGAGGAGCAATTTAC
9615192 TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC
1 TTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTAC
* *
9615233 TTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTAC
1 TTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTAC
9615274 TTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 TTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGC
9615309 TTTGTAAAAA
Statistics
Matches: 377, Mismatches: 10, Indels: 24
0.92 0.02 0.06
Matches are distributed among these distances:
38 30 0.08
39 50 0.13
40 50 0.13
41 146 0.39
42 101 0.27
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.37
Consensus pattern (40 bp):
TTTTCAAAGTCGTGTGCCTCTGTTTAGAGGAGCAATTTAC
Found at i:9615320 original size:1 final size:1
Alignment explanation
Indices: 9615314--9615429 Score: 160
Period size: 1 Copynumber: 116.0 Consensus size: 1
9615304 GGAGCTTTGT
* * * * *
9615314 AAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAAAAAACAAAAAACAAAAAAAAACAAAAAAAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
9615379 AAAAAAAAAAACAAAAAAACAAAAAAAAAAAAAAACAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9615430 TGTTGAGTTG
Statistics
Matches: 99, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
1 99 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:9615395 original size:55 final size:54
Alignment explanation
Indices: 9615314--9615429 Score: 196
Period size: 55 Copynumber: 2.1 Consensus size: 54
9615304 GGAGCTTTGT
*
9615314 AAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAAAAAACAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAAAAAAAAAAAAACAAAAAAAA
* *
9615368 ACAAAAAAAACAAAAAAAAAAACAAAAAAACAAAAAAAAAAAAAAACAAAAAAAA
1 A-AAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAAAAAAAAAAAAACAAAAAAAA
9615423 AAAAAAA
1 AAAAAAA
9615430 TGTTGAGTTG
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
54 7 0.12
55 51 0.88
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (54 bp):
AAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAAAAAAAAAAAAACAAAAAAAA
Found at i:9616150 original size:31 final size:31
Alignment explanation
Indices: 9616115--9616182 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
9616105 AATTTCTAGA
* ** *
9616115 TTCCGGCAAAAATTCCGGCGAAGTTTGAATT
1 TTCCGGCAAAAATTCCGGCCAACATTGAAGT
*
9616146 TTCCGGCGAAAATTCCGGCCAACATTGAAGT
1 TTCCGGCAAAAATTCCGGCCAACATTGAAGT
9616177 TTCCGG
1 TTCCGG
9616183 TGACCTGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (31 bp):
TTCCGGCAAAAATTCCGGCCAACATTGAAGT
Found at i:9616648 original size:23 final size:23
Alignment explanation
Indices: 9616605--9616648 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
9616595 CCAGGTTTTT
* * *
9616605 TTTTTTTTTTTTTTTTCTTTGAA
1 TTTTTTTTCTTTGTTTATTTGAA
9616628 TTTTTTTTCTTTGTTTATTTG
1 TTTTTTTTCTTTGTTTATTTG
9616649 TTTATTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.07, C:0.05, G:0.07, T:0.82
Consensus pattern (23 bp):
TTTTTTTTCTTTGTTTATTTGAA
Found at i:9616658 original size:12 final size:12
Alignment explanation
Indices: 9616641--9616666 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9616631 TTTTTCTTTG
9616641 TTTATTTGTTTA
1 TTTATTTGTTTA
9616653 TTTATTTGTTTA
1 TTTATTTGTTTA
9616665 TT
1 TT
9616667 ATTATATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (12 bp):
TTTATTTGTTTA
Found at i:9616707 original size:10 final size:10
Alignment explanation
Indices: 9616692--9616716 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9616682 TGTAATATTC
9616692 TTTTTATTTA
1 TTTTTATTTA
9616702 TTTTTATTTA
1 TTTTTATTTA
9616712 TTTTT
1 TTTTT
9616717 TATTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:9616713 original size:14 final size:14
Alignment explanation
Indices: 9616694--9616729 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
9616684 TAATATTCTT
9616694 TTTATTTATTT-TTA
1 TTTATTT-TTTATTA
9616708 TTTATTTTTTATTA
1 TTTATTTTTTATTA
9616722 TTTATTTT
1 TTTATTTT
9616730 CTTTAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 3 0.14
14 18 0.86
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTTTTATTA
Found at i:9620248 original size:17 final size:17
Alignment explanation
Indices: 9620223--9620267 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
9620213 CATTCACCCA
* *
9620223 ATCAGAGTTATCTATAT
1 ATCAAAGTTATCTACAT
9620240 ATCAAAGTTATCTACAT
1 ATCAAAGTTATCTACAT
*
9620257 GTCAAAGTTAT
1 ATCAAAGTTAT
9620268 TTGTTTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (17 bp):
ATCAAAGTTATCTACAT
Found at i:9624544 original size:26 final size:26
Alignment explanation
Indices: 9624518--9624567 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
9624508 TAAAACCTAG
9624518 GGATTT-GAGTTCCACTTAAGATTTA
1 GGATTTCGAGTTCCACTTAAGATTTA
* *
9624543 GGATTTCGAGTTTCACTTAGGATTT
1 GGATTTCGAGTTCCACTTAAGATTT
9624568 TTATTTTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.42
Consensus pattern (26 bp):
GGATTTCGAGTTCCACTTAAGATTTA
Found at i:9624739 original size:17 final size:18
Alignment explanation
Indices: 9624702--9624752 Score: 63
Period size: 17 Copynumber: 3.0 Consensus size: 18
9624692 TGCATTAAAA
* *
9624702 ATTTTATTA-TTATAATG
1 ATTTTATTATTTATTATT
9624719 A-TTTATTATTTATTATT
1 ATTTTATTATTTATTATT
9624736 ATTTTATT-TTTATTATT
1 ATTTTATTATTTATTATT
9624753 TAATAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 7 0.23
17 17 0.57
18 6 0.20
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (18 bp):
ATTTTATTATTTATTATT
Found at i:9624750 original size:14 final size:15
Alignment explanation
Indices: 9624724--9624753 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
9624714 TAATGATTTA
9624724 TTATTTATTATTATT
1 TTATTTATTATTATT
9624739 TTATTT-TTATTATT
1 TTATTTATTATTATT
9624753 T
1 T
9624754 AATAATTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTATTTATTATTATT
Found at i:9626006 original size:20 final size:21
Alignment explanation
Indices: 9625969--9626007 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
9625959 TGCTGCCAAA
* *
9625969 TGCCTACTGCTTCTTTTTTAT
1 TGCCTACTGCATCATTTTTAT
9625990 TGCCT-CTGCATCATTTTT
1 TGCCTACTGCATCATTTTT
9626008 TTTTTGCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.10, C:0.26, G:0.10, T:0.54
Consensus pattern (21 bp):
TGCCTACTGCATCATTTTTAT
Found at i:9626006 original size:21 final size:21
Alignment explanation
Indices: 9625969--9626008 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9625959 TGCTGCCAAA
*
9625969 TGCCTACTGCTTCTTTTTTAT
1 TGCCTACTGCATCTTTTTTAT
9625990 TGCCT-CTGCATCATTTTTT
1 TGCCTACTGCATC-TTTTTT
9626009 TTTTGCCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.25, G:0.10, T:0.55
Consensus pattern (21 bp):
TGCCTACTGCATCTTTTTTAT
Found at i:9626021 original size:24 final size:22
Alignment explanation
Indices: 9625982--9626031 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 22
9625972 CTACTGCTTC
*
9625982 TTTTTTATTGCCTCTGCATCAT
1 TTTTTTATTGCCTCTGCATCAA
* *
9626004 TTTTTTTTTGCCTTTCTGCTTCAA
1 TTTTTTATTGCC--TCTGCATCAA
9626028 TTTT
1 TTTT
9626032 CCTAGTCTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 11 0.48
24 12 0.52
ACGTcount: A:0.10, C:0.20, G:0.08, T:0.62
Consensus pattern (22 bp):
TTTTTTATTGCCTCTGCATCAA
Found at i:9626278 original size:33 final size:32
Alignment explanation
Indices: 9626217--9626282 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 32
9626207 TTCTGCTGAA
9626217 TTTTCTTTTTTTTTTTTGGTTGTTTTCTCTTT
1 TTTTCTTTTTTTTTTTTGGTTGTTTTCTCTTT
* *
9626249 TTTTTTTTTTTTTTTTTTGTT-TTGCTTCTCTTT
1 TTTTCTTTTTTTTTTTTGGTTGTT--TTCTCTTT
9626282 T
1 T
9626283 CCCTATTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 2 0.07
32 19 0.63
33 9 0.30
ACGTcount: A:0.00, C:0.09, G:0.08, T:0.83
Consensus pattern (32 bp):
TTTTCTTTTTTTTTTTTGGTTGTTTTCTCTTT
Found at i:9626282 original size:29 final size:29
Alignment explanation
Indices: 9626222--9626282 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
9626212 CTGAATTTTC
* *
9626222 TTTTTTTTTTTTGGTTGTTTTCTCTTTTT
1 TTTTTTTTTTTTGGTTGTTTTCTCTCTCT
**
9626251 TTTTTTTTTTTTTTTTGTTTTGCT-TCTCT
1 TTTTTTTTTTTTGGTTGTTTT-CTCTCTCT
9626280 TTT
1 TTT
9626283 CCCTATTAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 25 0.93
30 2 0.07
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (29 bp):
TTTTTTTTTTTTGGTTGTTTTCTCTCTCT
Found at i:9627433 original size:18 final size:17
Alignment explanation
Indices: 9627410--9627520 Score: 54
Period size: 18 Copynumber: 6.4 Consensus size: 17
9627400 TTGGGTTTTG
9627410 TATTTATTAACTTTTATT
1 TATTTATTAA-TTTTATT
9627428 TATTTA-T-ATTATTA-T
1 TATTTATTAATT-TTATT
*
9627443 TATTTCTTAATTTTTAATT
1 TATTTATTAA-TTTT-ATT
*
9627462 T-TTAATTAATTTTATATT
1 TATTTATTAA-TTT-TATT
* *
9627480 TATATATTTATTATTA-T
1 TATTTATTAATT-TTATT
*
9627497 TATTTTATATAACTTT-TT
1 TA-TTTAT-TAATTTTATT
9627515 TATTTA
1 TATTTA
9627521 ATGGGCAACA
Statistics
Matches: 72, Mismatches: 9, Indels: 25
0.68 0.08 0.24
Matches are distributed among these distances:
15 8 0.11
16 5 0.07
17 11 0.15
18 36 0.50
19 12 0.17
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (17 bp):
TATTTATTAATTTTATT
Found at i:9633287 original size:6 final size:6
Alignment explanation
Indices: 9633270--9633494 Score: 83
Period size: 6 Copynumber: 34.8 Consensus size: 6
9633260 ACCACAATCC
* * * *
9633270 AAACCTT AAACCT AAACCAT AACCCC AAAACT AAATCCT AAATCTT AAACTCT
1 AAACC-T AAACCT AAACC-T AAACCT AAACCT AAA-CCT AAA-CCT AAAC-CT
* * * *
9633323 AAACCT AAACCT AAACCT AAACCCC AAATCT CAACCTT AAA-CT GTAACCT
1 AAACCT AAACCT AAACCT AAA-CCT AAACCT AAACC-T AAACCT -AAACCT
* * * * * * * *
9633373 AGACCC AAAACT AACCCT AAACCCC AAATCTT AAACTT AAACCC AAACCCT
1 AAACCT AAACCT AAACCT AAA-CCT AAA-CCT AAACCT AAACCT AAA-CCT
* * * ** *
9633424 AAACAT AAATCCT AAACCCAA AAACCA AAATGT AACCCT AAACCT AAACCTT
1 AAACCT AAA-CCT AAA-CC-T AAACCT AAACCT AAACCT AAACCT AAACC-T
*
9633476 AAATCCAA AAACCT AAACC
1 AAA-CC-T AAACCT AAACC
9633495 ACTTTTCCAA
Statistics
Matches: 160, Mismatches: 45, Indels: 27
0.69 0.19 0.12
Matches are distributed among these distances:
5 1 0.01
6 86 0.54
7 65 0.41
8 8 0.05
ACGTcount: A:0.48, C:0.32, G:0.01, T:0.18
Consensus pattern (6 bp):
AAACCT
Found at i:9633324 original size:14 final size:12
Alignment explanation
Indices: 9633270--9633494 Score: 83
Period size: 13 Copynumber: 17.4 Consensus size: 12
9633260 ACCACAATCC
9633270 AAACCTTAAACCT
1 AAACC-TAAACCT
* *
9633283 AAACCATAACCCC
1 AAACC-TAAACCT
*
9633296 AAAACTAAATCCT
1 AAACCTAAA-CCT
*
9633309 AAATCTTAAACTCT
1 AAA-CCTAAAC-CT
9633323 AAACCTAAACCT
1 AAACCTAAACCT
*
9633335 AAACCTAAACCCC
1 AAACCTAAA-CCT
* *
9633348 AAATCTCAACCTT
1 AAACCTAAACC-T
*
9633361 AAA-CTGTAACCT
1 AAACCT-AAACCT
* * *
9633373 AGACCCAAAACT
1 AAACCTAAACCT
* *
9633385 AACCCTAAACCCC
1 AAACCTAAA-CCT
* *
9633398 AAATCTTAAACTT
1 AAA-CCTAAACCT
*
9633411 AAACCCAAACCCT
1 AAACCTAAA-CCT
*
9633424 AAACATAAATCCT
1 AAACCTAAA-CCT
* *
9633437 AAACCCAAAAACCA
1 AAA-CC-TAAACCT
** *
9633451 AAATGTAACCCT
1 AAACCTAAACCT
9633463 AAACCTAAACCTT
1 AAACCTAAACC-T
*
9633476 AAATCCAAAAACCT
1 AAA-CC-TAAACCT
9633490 AAACC
1 AAACC
9633495 ACTTTTCCAA
Statistics
Matches: 152, Mismatches: 45, Indels: 30
0.67 0.20 0.13
Matches are distributed among these distances:
12 47 0.31
13 71 0.47
14 26 0.17
15 8 0.05
ACGTcount: A:0.48, C:0.32, G:0.01, T:0.18
Consensus pattern (12 bp):
AAACCTAAACCT
Found at i:9633343 original size:39 final size:38
Alignment explanation
Indices: 9633265--9633353 Score: 99
Period size: 39 Copynumber: 2.3 Consensus size: 38
9633255 TCCAAACCAC
* *
9633265 AATCCAAACCTTAAACCTAAACCATAACCCCAAAACTA
1 AATCCAAATCTTAAACCTAAACCATAAACCCAAAACTA
* *
9633303 AATCCTAAATCTTAAACTCTAAACC-TAAACCTAAACCTA
1 AATCC-AAATCTTAAAC-CTAAACCATAAACCCAAAACTA
*
9633342 AACCCCAAATCT
1 AA-TCCAAATCT
9633354 CAACCTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
38 5 0.12
39 29 0.67
40 9 0.21
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (38 bp):
AATCCAAATCTTAAACCTAAACCATAAACCCAAAACTA
Found at i:9633426 original size:19 final size:20
Alignment explanation
Indices: 9633390--9633442 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
9633380 AAACTAACCC
* * *
9633390 TAAACCCCAAATCTTAAACT
1 TAAACCCCAAACCCTAAACA
9633410 TAAA-CCCAAACCCTAAACA
1 TAAACCCCAAACCCTAAACA
* *
9633429 TAAATCCTAAACCC
1 TAAACCCCAAACCC
9633443 AAAAACCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (20 bp):
TAAACCCCAAACCCTAAACA
Found at i:9634838 original size:24 final size:24
Alignment explanation
Indices: 9634799--9634862 Score: 103
Period size: 24 Copynumber: 2.7 Consensus size: 24
9634789 ATAATTTTAT
9634799 TATAATTA-ATAATAAATCATTCA
1 TATAATTATATAATAAATCATTCA
*
9634822 TATAATTATATAATAAATCATTTA
1 TATAATTATATAATAAATCATTCA
*
9634846 TATAATTATATAGTAAA
1 TATAATTATATAATAAA
9634863 CTAATTAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
23 8 0.21
24 30 0.79
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (24 bp):
TATAATTATATAATAAATCATTCA
Found at i:9636080 original size:13 final size:14
Alignment explanation
Indices: 9636035--9636084 Score: 61
Period size: 13 Copynumber: 3.7 Consensus size: 14
9636025 AAAAAATATA
9636035 AAAATATA-ATTTT
1 AAAATATATATTTT
9636048 AAAAT-TAATATTTT
1 AAAATAT-ATATTTT
*
9636062 ATAATATATA-TTT
1 AAAATATATATTTT
9636075 AAAATATATA
1 AAAATATATA
9636085 AAATTTTAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 1 0.03
13 18 0.56
14 12 0.38
15 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
AAAATATATATTTT
Found at i:9639298 original size:161 final size:158
Alignment explanation
Indices: 9638951--9639500 Score: 571
Period size: 161 Copynumber: 3.4 Consensus size: 158
9638941 AAACACATAT
* * * * * * * **
9638951 TATTAAAGCTATCCAAACTGTTAAAACAGAATAATAACAATAAATTTATATTTTTACCTTTTAAC
1 TATTTAAGCTATCAAAACTGTTAAAATAAAACAATAATAACAAATTTGCATTTTTACCTTTTAAC
* * * * * *
9639016 AGCACAAAAAGTCATAAACAGACTCTAAACAATAACTTTTTCACACATATCAACTGTGAAAATCA
66 AGCACAAAAAGTCTTAAATA-AATATAAACGATAACTTTTTCACACATATCAAC-ATGAAAA-CA
* *
9639081 AATTCAATCATTCGAACAAGTTTAGTATGATG
128 ATTTCAATCATTCG-ACAAGTTTAGTATCATG
* * * *
9639113 TATTTAAGCTATCAAAACTGTTAAAATAGAACAACAATAGCAAATTTGCACTTTTACCTTTTAAC
1 TATTTAAGCTATCAAAACTGTTAAAATAAAACAATAATAACAAATTTGCATTTTTACCTTTTAAC
* *
9639178 AGCATAAAAAGTCTTAAATATATATAAACGATAACTTTTTCACACATATCAACAATGAAAACCAA
66 AGCACAAAAAGTCTTAAATAAATATAAACGATAACTTTTTCACACATATCAAC-ATGAAAA-CAA
* * * *
9639243 TTTCAATTATTCTGACAAATTTTGTGTCATG
129 TTTCAATCATTC-GACAAGTTTAGTATCATG
** * * * *
9639274 TATTTAAGCTATTGAAATTGTTAAAACAAAACAATAATAACAATTTTGCATTTTTACCTTTTAAT
1 TATTTAAGCTATCAAAACTGTTAAAATAAAACAATAATAACAAATTTGCATTTTTACCTTTTAAC
* ** * * * * *
9639339 GGCACAAAAAG-CTCTAAATAAATGCAAATGACAACTTTTTCACACATATGAATCATGGAAACTA
66 AGCACAAAAAGTCT-TAAATAAATATAAACGATAACTTTTTCACACATATCAA-CATGAAAACAA
9639403 TATTCAATCATTCAGACAAGTTTAGTATCATG
129 T-TTCAATCATTC-GACAAGTTTAGTATCATG
** * * * *
9639435 TATTTAAATTATCAAAACTGTTAAAATAAAATAATAACAACAAATATACATTTTTACCTTTTAAC
1 TATTTAAGCTATCAAAACTGTTAAAATAAAACAATAATAACAAATTTGCATTTTTACCTTTTAAC
9639500 A
66 A
9639501 ATAAAAAGGT
Statistics
Matches: 319, Mismatches: 65, Indels: 9
0.81 0.17 0.02
Matches are distributed among these distances:
160 5 0.02
161 241 0.76
162 73 0.23
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (158 bp):
TATTTAAGCTATCAAAACTGTTAAAATAAAACAATAATAACAAATTTGCATTTTTACCTTTTAAC
AGCACAAAAAGTCTTAAATAAATATAAACGATAACTTTTTCACACATATCAACATGAAAACAATT
TCAATCATTCGACAAGTTTAGTATCATG
Found at i:9639526 original size:104 final size:104
Alignment explanation
Indices: 9639408--9639602 Score: 284
Period size: 104 Copynumber: 1.9 Consensus size: 104
9639398 AACTATATTC
* * * *
9639408 AATCATTCAGACAAGTTTAGTATCATGTATTTAAATTATCAAAACTGTTAAAATAAAATAATAAC
1 AATCATTCAGACAAGTTTAATATCATGTATTGAAACTATCAAAACTGTTAAAATAAAACAATAAC
9639473 AACAAATATACATTTTTACCTTTTAACAATAAAAAGGTT
66 AACAAATATACATTTTTACCTTTTAACAATAAAAAGGTT
* *
9639512 AATCATTC-GAACAAGTTTAATATTATGTATTGAAGCTATCAAAACTGTTAAAATAAAACAATAA
1 AATCATTCAG-ACAAGTTTAATATCATGTATTGAAACTATCAAAACTGTTAAAATAAAACAATAA
* * * *
9639576 CAGCAAATTTGCATTTTTGCCTTTTAA
65 CAACAAATATACATTTTTACCTTTTAA
9639603 TAGCACAAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
103 1 0.01
104 79 0.99
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (104 bp):
AATCATTCAGACAAGTTTAATATCATGTATTGAAACTATCAAAACTGTTAAAATAAAACAATAAC
AACAAATATACATTTTTACCTTTTAACAATAAAAAGGTT
Found at i:9639762 original size:265 final size:265
Alignment explanation
Indices: 9639271--9639764 Score: 645
Period size: 265 Copynumber: 1.9 Consensus size: 265
9639261 ATTTTGTGTC
* ** * * *
9639271 ATGTATTTAAGCTATTGAAATTGTTAAAACAAAACAATAATAACAATTTTGCATTTTTACCTTTT
1 ATGTATTGAAGCTATCAAAACTGTTAAAACAAAACAATAACAACAAATTTGCATTTTTACCTTTT
* * * *
9639336 AATGGCACAAAAAGCTCTAAATAAATGCAAATGACAACTTTTTCACACATATGAATCATGGAAAC
66 AATAGCACAAAAAGCTCTAAACAAATGCAAATGACAACTTTTTCACACATATCAATCATGAAAAC
* * * * *
9639401 TATATTCAATCATTCAGACAAGTTTAGTATCATGTATTTAAATTATCAAAACTGTTAAAATAAAA
131 CATATTCAATCATTCAGACAAGTTTAATATCATATATTTAAACTACCAAAACTGTTAAAATAAAA
*
9639466 TAATAACAACAAATATACATTTTTACCTTTTAACAATAAAAAGGTTAATCATTCGAACAAGTTTA
196 TAATAACAACAAATATACAGTTTTACCTTTTAACAATAAAAAGGTTAATCATTCGAACAAGTTTA
9639531 ATATT
261 ATATT
* * *
9639536 ATGTATTGAAGCTATCAAAACTGTTAAAATAAAACAATAACAGCAAATTTGCATTTTTGCCTTTT
1 ATGTATTGAAGCTATCAAAACTGTTAAAACAAAACAATAACAACAAATTTGCATTTTTACCTTTT
* * * *
9639601 AATAGCACAAAAAG-TCCTAAACAAATGTAAATGATAACTTTTTCATACATATCAATCGTGAAAA
66 AATAGCACAAAAAGCT-CTAAACAAATGCAAATGACAACTTTTTCACACATATCAATCATGAAAA
* *
9639665 CCA-AGTTCAATCATTC-GAACAAGTTTAATATCATATATTTAAGCTACCCAAA-TGGTTAAAAT
130 CCATA-TTCAATCATTCAG-ACAAGTTTAATATCATATATTTAAACTACCAAAACT-GTTAAAAT
* * * ** *
9639727 AGAATAATAACAATAAATTTGTAGTTTTGCCTTTTAAC
192 AAAATAATAACAACAAATATACAGTTTTACCTTTTAAC
9639765 GGTACAAAAA
Statistics
Matches: 194, Mismatches: 31, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
264 4 0.02
265 190 0.98
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (265 bp):
ATGTATTGAAGCTATCAAAACTGTTAAAACAAAACAATAACAACAAATTTGCATTTTTACCTTTT
AATAGCACAAAAAGCTCTAAACAAATGCAAATGACAACTTTTTCACACATATCAATCATGAAAAC
CATATTCAATCATTCAGACAAGTTTAATATCATATATTTAAACTACCAAAACTGTTAAAATAAAA
TAATAACAACAAATATACAGTTTTACCTTTTAACAATAAAAAGGTTAATCATTCGAACAAGTTTA
ATATT
Found at i:9639777 original size:161 final size:158
Alignment explanation
Indices: 9639512--9640342 Score: 780
Period size: 161 Copynumber: 5.2 Consensus size: 158
9639502 TAAAAAGGTT
* * * *
9639512 AATCATTCGAACAAGTTTAATATTATGTATTGAAGCTATCAAAACTGTTAAAATAAAACAATAAC
1 AATCATTCGAACAAGTTTAATATCATGTATTTAAGCTATCCAAA-TGTTAAAATAGAACAATAAC
* *
9639577 AGCAAATTTGCATTTTTGCCTTTTAATAGCACAAAAAGTCCTAAACAAATGTAAATGATAACTTT
65 AGCAAATTTGTA-TTTTGCCTTTTAACAGCACAAAAAGTCCTAAACAAATGTAAATGATAACTTT
*
9639642 TTCATACATATCAATCGTGAAAACCAAGTTC
129 TTCACACATATCAA-CGTGAAAACCAAGTTC
* * *
9639673 AATCATTCGAACAAGTTTAATATCATATATTTAAGCTACCCAAATGGTTAAAATAGAATAATAAC
1 AATCATTCGAACAAGTTTAATATCATGTATTTAAGCTATCCAAAT-GTTAAAATAGAACAATAAC
** * * * *
9639738 AATAAATTTGTAGTTTTGCCTTTTAACGGTACAAAAAGTCCTAAATAAACCT-TAAACGATAAC-
65 AGCAAATTTGTA-TTTTGCCTTTTAACAGCACAAAAAGTCCTAAACAAA--TGTAAATGATAACT
* * *
9639801 TTTTCACACATATCAACTATGAAAACCAAATTT
127 TTTTCACACATATCAAC-GTGAAAACCAAGTTC
* * * * * * ** * *
9639834 AATCTTTTGGATAAGTTTAGTATGATGTATTTAAGCTATTGAAACTATTAAAATAGAATAATAAC
1 AATCATTCGAACAAGTTTAATATCATGTATTTAAGCTATCCAAA-TGTTAAAATAGAACAATAAC
* * * * *
9639899 AGTAAATTTGTATTTTTGCCTTTTAACGGCACAAAAAG-CCTTAAACAAACGTAAATGGTAATTT
65 AGCAAATTTGTA-TTTTGCCTTTTAACAGCACAAAAAGTCC-TAAACAAATGTAAATGATAACTT
* * *
9639963 TTTCACACATATCAATAGTGGAAACCAAGCTC
128 TTTCACACATATCAA-CGTGAAAACCAAGTTC
* * *
9639995 AATCATTC-AGACAAATTTAATATCATGTATTTAAGCTACCCAAATGGTTAAAACA-AAGCAATA
1 AATCATTCGA-ACAAGTTTAATATCATGTATTTAAGCTATCCAAAT-GTTAAAATAGAA-CAATA
* * * * * *
9640058 ACAAG-AATTTTGTATTTTGACTTTTAACTGCACAAAAAAG-CTTTAAACAGATGTAAATAATAA
63 AC-AGCAAATTTGTATTTTGCCTTTTAACAGCAC-AAAAAGTC-CTAAACAAATGTAAATGATAA
* *
9640121 ATTTTTCACACATATCAACCGT-AGAAATCAAGTTC
125 CTTTTTCACACATATCAA-CGTGA-AAACCAAGTTC
* * * * * *
9640156 AATTATTCGGACAAGTTTAATATCATGTATTGAAACTATCCAAATTGTTAAAATAGAACAACAAT
1 AATCATTCGAACAAGTTTAATATCATGTATTTAAGCTATCCAAA-TGTTAAAATAGAACAATAAC
* * * * * * *
9640221 AGCCAATTTGCATTTTGACCTTTTAACACCATAAAAAGTCATAAACAAATGTTAATGGTAACTTT
65 AGCAAATTTGTATTTTG-CCTTTTAACAGCACAAAAAGTCCTAAACAAATGTAAATGATAACTTT
* *
9640286 TTCACCCATATCAACAATG-AAACTCAAGTTC
129 TTCACACATATCAAC-GTGAAAAC-CAAGTTC
* * * *
9640317 AAACATTTGAATAAATTTAATATCAT
1 AATCATTCGAACAAGTTTAATATCAT
9640343 AAACATTCTT
Statistics
Matches: 542, Mismatches: 103, Indels: 50
0.78 0.15 0.07
Matches are distributed among these distances:
160 38 0.07
161 476 0.88
162 27 0.05
163 1 0.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.32
Consensus pattern (158 bp):
AATCATTCGAACAAGTTTAATATCATGTATTTAAGCTATCCAAATGTTAAAATAGAACAATAACA
GCAAATTTGTATTTTGCCTTTTAACAGCACAAAAAGTCCTAAACAAATGTAAATGATAACTTTTT
CACACATATCAACGTGAAAACCAAGTTC
Found at i:9639808 original size:587 final size:588
Alignment explanation
Indices: 9638951--9640028 Score: 1395
Period size: 587 Copynumber: 1.8 Consensus size: 588
9638941 AAACACATAT
* * * * *
9638951 TATTAAAGCTATCCAAACTGTTAAAACAGAATAATAACAATAAATTTATATTTTTACCTTTTAAC
1 TATTAAAGCTATCAAAACTGTTAAAACAAAACAATAACAACAAATTTACATTTTTACCTTTTAAC
* *
9639016 AGCACAAAAAGTCATAAACAGACTCTAAACAATAACTTTTTCACACATATCAACTGTGAAAATCA
66 AGCACAAAAAGTCATAAACAGAATCTAAACAATAACTTTTTCACACATATCAACTGTGAAAACCA
* * * *
9639081 AATTCAATCATTCGAACAAGTTTAGTATGATGTATTTAAGCTATCAAAACTGTTAAAATAGAACA
131 AATTCAATCATTCGAACAAGTTTAATATCATATATTTAAGCTACCAAAACTGTTAAAATAGAACA
* * * * *
9639146 ACAATAGCAAATTTGCACTTTTACCTTTTAACAGCATAAAAAGTCTTAAATATATATAAACGATA
196 ACAACAACAAATTTGCACTTTTACCTTTTAACAGCACAAAAAGTCCTAAATAAATATAAACGATA
* *
9639211 ACTTTTTCACACATATCAACAATGAAAACC-AATTTCAAT-TATTCT-GACAAATTTTGTGTCAT
261 ACTTTTTCACACATATCAACAATGAAAACCAAATTT-AATCT-TT-TGGACAAATTTAGTATCAT
* * * *
9639273 GTATTTAAGCTATTGAAATTGTTAAAACAAAACAATAATAACAATTTTGCATTTTTACCTTTTAA
323 GTATTTAAGCTATTGAAACTATTAAAACAAAACAATAACAACAAATTTGCATTTTTACCTTTTAA
* * * *
9639338 TGGCACAAAAAG-CTCTAAATAAATGCAAATGACAACTTTTTCACACATATGAATCA-TGGAAAC
388 CGGCACAAAAAGCCT-TAAACAAACGCAAATGACAACTTTTTCACACATATCAAT-AGTGGAAAC
* * * *
9639401 TATA-TTCAATCATTCAGACAAGTTTAGTATCATGTATTTAAATTATCAAAACTGTTAAAATAAA
451 CA-AGCTCAATCATTCAGACAAATTTAATATCATGTATTTAAATTATCAAAACTGTTAAAATAAA
9639465 ATAATAACAACAAATATACATTTTTACCTTTTAACAATAAAAAGGTTAATCATTCGAACAAGTTT
515 ATAATAACAACAAATATACATTTTTACCTTTTAACAATAAAAAGGTTAATCATTCGAACAAGTTT
9639530 AATATTATG
580 AATATTATG
* * * * * *
9639539 TATTGAAGCTATCAAAACTGTTAAAATAAAACAATAACAGCAAATTTGCATTTTTGCCTTTTAAT
1 TATTAAAGCTATCAAAACTGTTAAAACAAAACAATAACAACAAATTTACATTTTTACCTTTTAAC
* * ** *
9639604 AGCACAAAAAGTCCTAAACA-AATGTAAATGATAACTTTTTCATACATATCAA-TCGTGAAAACC
66 AGCACAAAAAGTCATAAACAGAATCTAAACAATAACTTTTTCACACATATCAACT-GTGAAAACC
* *
9639667 AAGTTCAATCATTCGAACAAGTTTAATATCATATATTTAAGCTACCCAAA-TGGTTAAAATAGAA
130 AAATTCAATCATTCGAACAAGTTTAATATCATATATTTAAGCTACCAAAACT-GTTAAAATAGAA
* * * * * * * *
9639731 TAATAACAATAAATTTGTAGTTTTGCCTTTTAACGGTACAAAAAGTCCTAAATAAACCT-TAAAC
194 CAACAACAACAAATTTGCACTTTTACCTTTTAACAGCACAAAAAGTCCTAAATAAA--TATAAAC
* * * *
9639795 GATAAC-TTTTCACACATATCAACTATGAAAACCAAATTTAATCTTTTGGATAAGTTTAGTATGA
257 GATAACTTTTTCACACATATCAACAATGAAAACCAAATTTAATCTTTTGGACAAATTTAGTATCA
* * * ** * *
9639859 TGTATTTAAGCTATTGAAACTATTAAAATAGAATAATAACAGTAAATTTGTATTTTTGCCTTTTA
322 TGTATTTAAGCTATTGAAACTATTAAAACAAAACAATAACAACAAATTTGCATTTTTACCTTTTA
* ** *
9639924 ACGGCACAAAAAGCCTTAAACAAACGTAAATGGTAATTTTTTCACACATATCAATAGTGGAAACC
387 ACGGCACAAAAAGCCTTAAACAAACGCAAATGACAACTTTTTCACACATATCAATAGTGGAAACC
9639989 AAGCTCAATCATTCAGACAAATTTAATATCATGTATTTAA
452 AAGCTCAATCATTCAGACAAATTTAATATCATGTATTTAA
9640029 GCTACCCAAA
Statistics
Matches: 414, Mismatches: 66, Indels: 21
0.83 0.13 0.04
Matches are distributed among these distances:
586 5 0.01
587 316 0.76
588 92 0.22
589 1 0.00
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (588 bp):
TATTAAAGCTATCAAAACTGTTAAAACAAAACAATAACAACAAATTTACATTTTTACCTTTTAAC
AGCACAAAAAGTCATAAACAGAATCTAAACAATAACTTTTTCACACATATCAACTGTGAAAACCA
AATTCAATCATTCGAACAAGTTTAATATCATATATTTAAGCTACCAAAACTGTTAAAATAGAACA
ACAACAACAAATTTGCACTTTTACCTTTTAACAGCACAAAAAGTCCTAAATAAATATAAACGATA
ACTTTTTCACACATATCAACAATGAAAACCAAATTTAATCTTTTGGACAAATTTAGTATCATGTA
TTTAAGCTATTGAAACTATTAAAACAAAACAATAACAACAAATTTGCATTTTTACCTTTTAACGG
CACAAAAAGCCTTAAACAAACGCAAATGACAACTTTTTCACACATATCAATAGTGGAAACCAAGC
TCAATCATTCAGACAAATTTAATATCATGTATTTAAATTATCAAAACTGTTAAAATAAAATAATA
ACAACAAATATACATTTTTACCTTTTAACAATAAAAAGGTTAATCATTCGAACAAGTTTAATATT
ATG
Found at i:9639925 original size:426 final size:426
Alignment explanation
Indices: 9639086--9639899 Score: 1010
Period size: 426 Copynumber: 1.9 Consensus size: 426
9639076 AATCAAATTC
* * * *
9639086 AATCATTCGAACAAGTTTAGTATGATGTATTTAAGCTATCAAAACTGTTAAAATAGAACAACAAT
1 AATCATTCGAACAAGTTTAATATGATGTATTGAAGCTATCAAAACTGTTAAAATAAAACAACAAC
* * * *
9639151 AGCAAATTTGCACTTTTACCTTTTAACAGCATAAAAAGTCTTAAATATATATAAACGATAACTTT
66 AGCAAATTTGCACTTTTACCTTTTAACAGCACAAAAAGTCCTAAACAAATATAAACGATAACTTT
* * ** * *
9639216 TTCACACATATCAACAATGAAAACCAATTTCAATTATTCTGACAAATTTTGTGTCATGTATTTAA
131 TTCACACATATCAACAATGAAAACCAAGTTCAATCATTCTGACAAATTTAATATCATATATTTAA
*** * * * * *
9639281 GCTATTGAAATTGTTAAAACAAAACAATAATAACAATTTTGCATTTTTACCTTTTAATGGCACAA
196 GCTACCCAAATGGTTAAAACAAAACAATAACAACAAATTTGCAGTTTTACCTTTTAACGGCACAA
* * * * *
9639346 AAAGCTCTAAATAAATGCAAATGACAACTTTTTCACACATATGAATCATGGAAACTATATTCAAT
261 AAAGCTCTAAATAAATGCAAACGACAACTTTTTCACACATATCAATCATGAAAACCAAATTCAAT
* *
9639411 CATTCAGACAAGTTTAGTATCATGTATTTAAATTATCAAAACTGTTAAAATAAAATAATAACAAC
326 CATTCAGACAAGTTTAGTATCATGTATTTAAACTATCAAAACTATTAAAATAAAATAATAACAAC
9639476 AAATATACATTTTTACCTTTTAACAATAAAAAGGTT
391 AAATATACATTTTTACCTTTTAACAATAAAAAGGTT
* *
9639512 AATCATTCGAACAAGTTTAATATTATGTATTGAAGCTATCAAAACTGTTAAAATAAAACAATAAC
1 AATCATTCGAACAAGTTTAATATGATGTATTGAAGCTATCAAAACTGTTAAAATAAAACAACAAC
* * * * *
9639577 AGCAAATTTGCATTTTTGCCTTTTAATAGCACAAAAAGTCCTAAACAAATGTAAATGATAACTTT
66 AGCAAATTTGCACTTTTACCTTTTAACAGCACAAAAAGTCCTAAACAAATATAAACGATAACTTT
* * *
9639642 TTCATACATATCAATC-GTGAAAACCAAGTTCAATCATTC-GAACAAGTTTAATATCATATATTT
131 TTCACACATATCAA-CAATGAAAACCAAGTTCAATCATTCTG-ACAAATTTAATATCATATATTT
* * * * * * *
9639705 AAGCTACCCAAATGGTTAAAATAGAATAATAACAATAAATTTGTAGTTTTGCCTTTTAACGGTAC
194 AAGCTACCCAAATGGTTAAAACAAAACAATAACAACAAATTTGCAGTTTTACCTTTTAACGGCAC
* *
9639770 AAAAAG-TCCTAAATAAACCT-TAAACGATAAC-TTTTCACACATATCAA-CTATGAAAACCAAA
259 AAAAAGCT-CTAAATAAA--TGCAAACGACAACTTTTTCACACATATCAATC-ATGAAAACCAAA
* * ** * * * ** *
9639831 TTTAATCTTTTGGATAAGTTTAGTATGATGTATTTAAGCTATTGAAACTATTAAAATAGAATAAT
320 TTCAATCATTCAGACAAGTTTAGTATCATGTATTTAAACTATCAAAACTATTAAAATAAAATAAT
9639896 AACA
385 AACA
9639900 GTAAATTTGT
Statistics
Matches: 324, Mismatches: 58, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
425 3 0.01
426 311 0.96
427 9 0.03
428 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.33
Consensus pattern (426 bp):
AATCATTCGAACAAGTTTAATATGATGTATTGAAGCTATCAAAACTGTTAAAATAAAACAACAAC
AGCAAATTTGCACTTTTACCTTTTAACAGCACAAAAAGTCCTAAACAAATATAAACGATAACTTT
TTCACACATATCAACAATGAAAACCAAGTTCAATCATTCTGACAAATTTAATATCATATATTTAA
GCTACCCAAATGGTTAAAACAAAACAATAACAACAAATTTGCAGTTTTACCTTTTAACGGCACAA
AAAGCTCTAAATAAATGCAAACGACAACTTTTTCACACATATCAATCATGAAAACCAAATTCAAT
CATTCAGACAAGTTTAGTATCATGTATTTAAACTATCAAAACTATTAAAATAAAATAATAACAAC
AAATATACATTTTTACCTTTTAACAATAAAAAGGTT
Found at i:9640129 original size:322 final size:320
Alignment explanation
Indices: 9639516--9640343 Score: 938
Period size: 322 Copynumber: 2.6 Consensus size: 320
9639506 AAGGTTAATC
* * *
9639516 ATTCGAACAAGTTTAATATTATGTATTGAAGCTATCAAAACTGTTAAAATAAAACAATAACAGCA
1 ATTCGGACAAGTTTAATATCATGTATTGAAGCTATCAAAACTGTTAAAATAGAACAATAACAGCA
* *
9639581 AATTTGCATTTTTGCCTTTTAATAGCACAAAAAGTCCTAAACAAATGTAAATGATAACTTTTTCA
66 AATTTGCATTTTTGCCTTTTAACAGCACAAAAAG-CCTAAACAAATGTAAATGGTAACTTTTTCA
* * * *
9639646 TACATATCAATCGTGAAAACCAAGTTCAATCATTCGAACAAGTTTAATATCATATATTTAAGCTA
130 CACATATCAATAGTGGAAACCAAGTTCAATCATTCGAACAAATTTAATATCATATATTTAAGCTA
* * * * *
9639711 CCCAAATGGTTAAAATAGAATAATAACAATAAATTTGTAGTTTTGCCTTTTAACGGTACAAAAAG
195 CCCAAATGGTTAAAACAGAACAATAACAAGAAATTTGTAGTTTTGACTTTTAACGGCACAAAAAG
* * *
9639776 TCCTAAATAAACCTTAAACGATAACTTTTCACACATATCAA-C-TATGAAAACCAAATTTAATCT
260 TCCTAAACAAA-CTTAAACAATAACTTTTCACACATATCAACCGTA-G-AAACCAAATTCAAT-T
* * * * * ** * * *
9639839 -TTTGGATAAGTTTAGTATGATGTATTTAAGCTATTGAAACTATTAAAATAGAATAATAACAGTA
1 ATTCGGACAAGTTTAATATCATGTATTGAAGCTATCAAAACTGTTAAAATAGAACAATAACAGCA
* * * *
9639903 AATTTGTATTTTTGCCTTTTAACGGCACAAAAAGCCTTAAACAAACGTAAATGGTAATTTTTTCA
66 AATTTGCATTTTTGCCTTTTAACAGCACAAAAAGCC-TAAACAAATGTAAATGGTAACTTTTTCA
* *
9639968 CACATATCAATAGTGGAAACCAAGCTCAATCATTC-AGACAAATTTAATATCATGTATTTAAGCT
130 CACATATCAATAGTGGAAACCAAGTTCAATCATTCGA-ACAAATTTAATATCATATATTTAAGCT
* *
9640032 ACCCAAATGGTTAAAACA-AAGCAATAACAAGAATTTTGTA-TTTTGACTTTTAACTGCACAAAA
194 ACCCAAATGGTTAAAACAGAA-CAATAACAAGAAATTTGTAGTTTTGACTTTTAACGGCAC-AAA
* * * * * *
9640095 AAG-CTTTAAACAGA-TGTAAATAATAAATTTTTCACACATATCAACCGTAGAAATCAAGTTCAA
257 AAGTC-CTAAACAAACT-TAAACAAT-AACTTTTCACACATATCAACCGTAGAAACCAAATTCAA
9640158 TT
319 TT
* * * * * *
9640160 ATTCGGACAAGTTTAATATCATGTATTGAAACTATCCAAATTGTTAAAATAGAACAACAATAGCC
1 ATTCGGACAAGTTTAATATCATGTATTGAAGCTATCAAAACTGTTAAAATAGAACAATAACAGCA
* * * *
9640225 AATTTGCA-TTTTGACCTTTTAACACCATAAAAAGTCATAAACAAATGTTAATGGTAACTTTTTC
66 AATTTGCATTTTTG-CCTTTTAACAGCACAAAAAG-CCTAAACAAATGTAAATGGTAACTTTTTC
* * * * * *
9640289 ACCCATATCAACAAT-GAAACTCAAGTTCAAACATTTGAATAAATTTAATATCATA
129 ACACATATCAATAGTGGAAAC-CAAGTTCAATCATTCGAACAAATTTAATATCATA
9640344 AACATTCTTT
Statistics
Matches: 420, Mismatches: 71, Indels: 29
0.81 0.14 0.06
Matches are distributed among these distances:
320 1 0.00
321 39 0.09
322 374 0.89
323 4 0.01
324 2 0.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.32
Consensus pattern (320 bp):
ATTCGGACAAGTTTAATATCATGTATTGAAGCTATCAAAACTGTTAAAATAGAACAATAACAGCA
AATTTGCATTTTTGCCTTTTAACAGCACAAAAAGCCTAAACAAATGTAAATGGTAACTTTTTCAC
ACATATCAATAGTGGAAACCAAGTTCAATCATTCGAACAAATTTAATATCATATATTTAAGCTAC
CCAAATGGTTAAAACAGAACAATAACAAGAAATTTGTAGTTTTGACTTTTAACGGCACAAAAAGT
CCTAAACAAACTTAAACAATAACTTTTCACACATATCAACCGTAGAAACCAAATTCAATT
Found at i:9642767 original size:21 final size:21
Alignment explanation
Indices: 9642738--9642786 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
9642728 CCTCATCACT
*
9642738 TTGAATATCAAAATCACCAAC
1 TTGAGTATCAAAATCACCAAC
* *
9642759 TTGAGTATCAATATCATCAAC
1 TTGAGTATCAAAATCACCAAC
9642780 TTGAGTA
1 TTGAGTA
9642787 ATAGAAGATC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (21 bp):
TTGAGTATCAAAATCACCAAC
Found at i:9647477 original size:6 final size:6
Alignment explanation
Indices: 9647468--9647501 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
9647458 ACTTTTCTTT
9647468 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTT
9647502 CCATTTTCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:9647508 original size:12 final size:12
Alignment explanation
Indices: 9647469--9647520 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
9647459 CTTTTCTTTT
* *
9647469 TTTTCTTTTTCT
1 TTTTCTTTTCCA
* *
9647481 TTTTCTTTTTCT
1 TTTTCTTTTCCA
9647493 TTTTCTTTTCCA
1 TTTTCTTTTCCA
*
9647505 TTTTCTCTTCCA
1 TTTTCTTTTCCA
9647517 TTTT
1 TTTT
9647521 TTCTCTAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTCTTTTCCA
Found at i:9647508 original size:18 final size:18
Alignment explanation
Indices: 9647469--9647510 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
9647459 CTTTTCTTTT
* *
9647469 TTTTCTTTTTCTTTTTCT
1 TTTTCTTTTTCTTTTCCA
9647487 TTTTCTTTTTCTTTTCCA
1 TTTTCTTTTTCTTTTCCA
9647505 TTTTCT
1 TTTTCT
9647511 CTTCCATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTCTTTTTCTTTTCCA
Found at i:9648120 original size:15 final size:14
Alignment explanation
Indices: 9648101--9648144 Score: 54
Period size: 16 Copynumber: 3.0 Consensus size: 14
9648091 TTTATCTAAC
9648101 TAAAAAAATAAAAA
1 TAAAAAAATAAAAA
9648115 TCAAAAAAATCAAAAGA
1 T-AAAAAAAT-AAAA-A
9648132 TAAAAAAA-AAAAA
1 TAAAAAAATAAAAA
9648145 GCTAAATAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 1 0.04
14 5 0.19
15 8 0.30
16 11 0.41
17 2 0.07
ACGTcount: A:0.82, C:0.05, G:0.02, T:0.11
Consensus pattern (14 bp):
TAAAAAAATAAAAA
Found at i:9648121 original size:16 final size:15
Alignment explanation
Indices: 9648101--9648150 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
9648091 TTTATCTAAC
9648101 TAAAAAAATAAAA-A
1 TAAAAAAATAAAAGA
9648115 TCAAAAAAATCAAAAGA
1 T-AAAAAAAT-AAAAGA
* *
9648132 TAAAAAAAAAAAAGC
1 TAAAAAAATAAAAGA
9648147 TAAA
1 TAAA
9648151 TAGGATGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 1 0.03
15 17 0.55
16 11 0.35
17 2 0.06
ACGTcount: A:0.78, C:0.06, G:0.04, T:0.12
Consensus pattern (15 bp):
TAAAAAAATAAAAGA
Found at i:9654374 original size:30 final size:29
Alignment explanation
Indices: 9654334--9654390 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
9654324 CATTAAAGGT
* *
9654334 ATTAGAATAAAAATTAACAAATAATTTAAA
1 ATTAGAATAAAAAATAAAAAAT-ATTTAAA
*
9654364 ATTATAATAAAAAATAAAAAATATTTA
1 ATTAGAATAAAAAATAAAAAATATTTA
9654391 TTAGTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (29 bp):
ATTAGAATAAAAAATAAAAAATATTTAAA
Found at i:9654428 original size:28 final size:29
Alignment explanation
Indices: 9654374--9654437 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
9654364 ATTATAATAA
* *
9654374 AAAATAAAAAATATTTATTAGTTTATTAT
1 AAAATAAAAAATATTAATTAGATTATTAT
*
9654403 AAAATAAAATATATTAATTA-ATTATTAT
1 AAAATAAAAAATATTAATTAGATTATTAT
*
9654431 ATAATAA
1 AAAATAA
9654438 TAATCAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 13 0.42
29 18 0.58
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (29 bp):
AAAATAAAAAATATTAATTAGATTATTAT
Found at i:9654816 original size:16 final size:16
Alignment explanation
Indices: 9654782--9654835 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 16
9654772 TTTTTATTTA
**
9654782 TATATATTTGTATAAT
1 TATATATTTAAATAAT
9654798 TATATATTTAAAT-AT
1 TATATATTTAAATAAT
*
9654813 T-TATATTTAAA-AAA
1 TATATATTTAAATAAT
9654827 TATAT-TTTA
1 TATATATTTA
9654836 TTAATTTTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 16 0.48
15 6 0.18
16 11 0.33
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
TATATATTTAAATAAT
Found at i:9655471 original size:26 final size:25
Alignment explanation
Indices: 9655418--9655495 Score: 86
Period size: 26 Copynumber: 2.9 Consensus size: 25
9655408 TTTATTTAAA
9655418 TTATTTATTAATGTATTAAATAATAAAAT
1 TTATTTATT-ATG--TTAAATAA-AAAAT
9655447 TTATTTATTATGTTAAATTAAAAAAT
1 TTATTTATTATGTTAAA-TAAAAAAT
*
9655473 TTATTTCATT-TTTTAAATAAAAA
1 TTATTT-ATTATGTTAAATAAAAA
9655496 GATAAAAAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
25 6 0.13
26 22 0.48
27 6 0.13
28 3 0.07
29 9 0.20
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (25 bp):
TTATTTATTATGTTAAATAAAAAAT
Found at i:9657660 original size:96 final size:96
Alignment explanation
Indices: 9657496--9657689 Score: 370
Period size: 96 Copynumber: 2.0 Consensus size: 96
9657486 GACACAAGTA
*
9657496 TGCACACGTCACTTGCTTAGGCATCTCTCTCAACTTGATATTTCATATATTGAGTTGCTTTTAAT
1 TGCACACGTCACTTGCTTAAGCATCTCTCTCAACTTGATATTTCATATATTGAGTTGCTTTTAAT
9657561 AATCTATTATCATCTCTATTTCGAAATTATT
66 AATCTATTATCATCTCTATTTCGAAATTATT
*
9657592 TGCACACGTCACTTGCTTAAGCATCTCTCTGAACTTGATATTTCATATATTGAGTTGCTTTTAAT
1 TGCACACGTCACTTGCTTAAGCATCTCTCTCAACTTGATATTTCATATATTGAGTTGCTTTTAAT
9657657 AATCTATTATCATCTCTATTTCGAAATTATT
66 AATCTATTATCATCTCTATTTCGAAATTATT
9657688 TG
1 TG
9657690 AATTATTCAT
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.44
Consensus pattern (96 bp):
TGCACACGTCACTTGCTTAAGCATCTCTCTCAACTTGATATTTCATATATTGAGTTGCTTTTAAT
AATCTATTATCATCTCTATTTCGAAATTATT
Found at i:9666291 original size:2 final size:2
Alignment explanation
Indices: 9666284--9666312 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9666274 AAGTGTAATT
9666284 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9666313 GGATGCTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9666557 original size:22 final size:22
Alignment explanation
Indices: 9666521--9666606 Score: 75
Period size: 22 Copynumber: 3.7 Consensus size: 22
9666511 AATAATAATA
9666521 ATAAGATAATAAAAA-AAAATCAG
1 ATAA-ATAA-AAAAATAAAATCAG
9666544 ATAAATAAATAAAATAAAATTAACAG
1 ATAAATAAA-AAAATAAAA-T--CAG
* *
9666570 ATAATTAAAAAAATAAAATAAG
1 ATAAATAAAAAAATAAAATCAG
**
9666592 ATAAATTCAAAAATA
1 ATAAATAAAAAAATA
9666607 TTACAAAATA
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
21 1 0.02
22 22 0.42
23 8 0.15
24 2 0.04
25 9 0.17
26 11 0.21
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.22
Consensus pattern (22 bp):
ATAAATAAAAAAATAAAATCAG
Found at i:9666558 original size:18 final size:18
Alignment explanation
Indices: 9666506--9666560 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
9666496 AAAAAAAAAA
9666506 ATAATAATAATAATAATAAG
1 ATAATAA-AATAA-AATAAG
* *
9666526 ATAATAAAAAAAAATCAG
1 ATAATAAAATAAAATAAG
9666544 ATAA-ATAAATAAAATAA
1 ATAATA-AAATAAAATAA
9666561 AATTAACAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 1 0.03
18 18 0.60
19 4 0.13
20 7 0.23
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.24
Consensus pattern (18 bp):
ATAATAAAATAAAATAAG
Found at i:9666562 original size:26 final size:26
Alignment explanation
Indices: 9666520--9666590 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 26
9666510 TAATAATAAT
9666520 AATAAGATAATAA-AAAA-AAATCAGATA
1 AATAA-ATAA-AATAAAATAAA-CAGATA
*
9666547 AATAAATAAAATAAAATTAACAGATA
1 AATAAATAAAATAAAATAAACAGATA
*
9666573 ATTAAA-AAAATAAAATAA
1 AATAAATAAAATAAAATAA
9666591 GATAAATTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
25 13 0.33
26 19 0.49
27 7 0.18
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.21
Consensus pattern (26 bp):
AATAAATAAAATAAAATAAACAGATA
Done.