Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 100 of 131
Found at i:17873147 original size:31 final size:31
Alignment explanation
Indices: 17873071--17873149 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
17873061 AAACCAAAAA
* *
17873071 AACTTAAACCTTAACTCAAACCCTAAACCTT
1 AACTTAAACCTTAAATCAAACCCTAAACCCT
* * **
17873102 AACCTATATTTTAAATCAAACCCTAAACCCT
1 AACTTAAACCTTAAATCAAACCCTAAACCCT
*
17873133 AACTTAGACCTTAAATC
1 AACTTAAACCTTAAATC
17873150 TACCCCAAAC
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.42, C:0.29, G:0.01, T:0.28
Consensus pattern (31 bp):
AACTTAAACCTTAAATCAAACCCTAAACCCT
Found at i:17874665 original size:19 final size:17
Alignment explanation
Indices: 17874631--17874669 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
17874621 CTATCGTAGG
17874631 TTTTTCTTTTTCTTTTA
1 TTTTTCTTTTTCTTTTA
*
17874648 TTTTTCATTTTTGTTTTTA
1 TTTTTC-TTTTT-CTTTTA
17874667 TTT
1 TTT
17874670 ATTTTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 5 0.26
19 8 0.42
ACGTcount: A:0.08, C:0.08, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTCTTTTTCTTTTA
Found at i:17874899 original size:17 final size:17
Alignment explanation
Indices: 17874877--17874909 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17874867 ACTATTGGAG
17874877 AATTTTTCATGAATTTA
1 AATTTTTCATGAATTTA
*
17874894 AATTTTTTATGAATTT
1 AATTTTTCATGAATTT
17874910 TACCATACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (17 bp):
AATTTTTCATGAATTTA
Found at i:17876363 original size:9 final size:9
Alignment explanation
Indices: 17876349--17876382 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
17876339 CTCGTTTTCC
17876349 TAAAAAAAT
1 TAAAAAAAT
17876358 T-AAAAAAT
1 TAAAAAAAT
*
17876366 TAAAAAAAA
1 TAAAAAAAT
17876375 TAAAAAAA
1 TAAAAAAA
17876383 CATTTTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (9 bp):
TAAAAAAAT
Found at i:17876371 original size:17 final size:17
Alignment explanation
Indices: 17876349--17876381 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17876339 CTCGTTTTCC
*
17876349 TAAAAAAATTAAAAAAT
1 TAAAAAAAATAAAAAAT
17876366 TAAAAAAAATAAAAAA
1 TAAAAAAAATAAAAAA
17876382 ACATTTTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (17 bp):
TAAAAAAAATAAAAAAT
Found at i:17883584 original size:20 final size:20
Alignment explanation
Indices: 17883559--17883599 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
17883549 TTTACATTCT
*
17883559 TTTATTCATGCCAATATATC
1 TTTATTCATACCAATATATC
* *
17883579 TTTATTCTTACTAATATATC
1 TTTATTCATACCAATATATC
17883599 T
1 T
17883600 ACCTATATTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTATTCATACCAATATATC
Found at i:17888531 original size:19 final size:19
Alignment explanation
Indices: 17888503--17888550 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
17888493 ATAAAAAAAC
*
17888503 AAAAAC-AAAAGCA-AAATA
1 AAAAACAAAAAG-ATAAAGA
*
17888521 AAAAACAAAAAGATAAAGG
1 AAAAACAAAAAGATAAAGA
17888540 AAAAACAAAAA
1 AAAAACAAAAA
17888551 AATGTAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.79, C:0.08, G:0.08, T:0.04
Consensus pattern (19 bp):
AAAAACAAAAAGATAAAGA
Found at i:17889892 original size:49 final size:47
Alignment explanation
Indices: 17889815--17890026 Score: 237
Period size: 49 Copynumber: 4.4 Consensus size: 47
17889805 TATCAAAACC
* * *
17889815 TTTCAAAATGAGATCTTTAAAGTCACTTGCCTATGTCTGTAAGAGCACT
1 TTTC-AAATGAGATTTTTAAAGTTACTTGCCTATGTCTAT-AGAGCACT
*
17889864 TTTCAAATTGAGATTTTTAAAGTTACTTGCCTATATCTATAGAGCACT
1 TTTCAAA-TGAGATTTTTAAAGTTACTTGCCTATGTCTATAGAGCACT
* * * *
17889912 TTTCAAATTAAGA-TTTTAAAGTTAATTGCCTATGTCTATGGCAACACT
1 TTTCAAA-TGAGATTTTTAAAGTTACTTGCCTATGTCTATAG-AGCACT
* ** *
17889960 TTTTAAAAAAGGTTTTTTAAAGTTACTTGCCTATGTCTATAGGAGCACT
1 TTTCAAATGA-GATTTTTAAAGTTACTTGCCTATGTCTATA-GAGCACT
17890009 TTTCAAATGAGAATTTTT
1 TTTCAAATGAG-ATTTTT
17890027 TTAAGTCACC
Statistics
Matches: 138, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
47 27 0.20
48 36 0.26
49 74 0.54
50 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (47 bp):
TTTCAAATGAGATTTTTAAAGTTACTTGCCTATGTCTATAGAGCACT
Found at i:17889960 original size:96 final size:98
Alignment explanation
Indices: 17889815--17890016 Score: 250
Period size: 96 Copynumber: 2.1 Consensus size: 98
17889805 TATCAAAACC
* * * * * **
17889815 TTTCAAAATGAGATCTTTAAAGTCACTTGCCTATGTCTGTAAGAGCACTTTTC-AAATTGAGATT
1 TTTCAAATTAAGATCTTTAAAGTCAATTGCCTATGTCTATAAGAACACTTTTCAAAAAAG-GATT
17889879 TTTAAAGTTACTTGCCTATATCTATA-GAGCACT
65 TTTAAAGTTACTTGCCTATATCTATAGGAGCACT
* * * *
17889912 TTTCAAATTAAGAT-TTTAAAGTTAATTGCCTATGTCTAT-GGCAACACTTTTTAAAAAAGGTTT
1 TTTCAAATTAAGATCTTTAAAGTCAATTGCCTATGTCTATAAG-AACACTTTTCAAAAAAGGATT
*
17889975 TTTAAAGTTACTTGCCTATGTCTATAGGAGCACT
65 TTTAAAGTTACTTGCCTATATCTATAGGAGCACT
17890009 TTTCAAAT
1 TTTCAAAT
17890017 GAGAATTTTT
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
95 1 0.01
96 58 0.64
97 31 0.34
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.40
Consensus pattern (98 bp):
TTTCAAATTAAGATCTTTAAAGTCAATTGCCTATGTCTATAAGAACACTTTTCAAAAAAGGATTT
TTAAAGTTACTTGCCTATATCTATAGGAGCACT
Found at i:17890458 original size:47 final size:47
Alignment explanation
Indices: 17890407--17890501 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
17890397 AGATAAAGTC
17890407 AAACTTTGTCAAAATTGATGAAAATCGATCAAAACGGATAGAACTCA
1 AAACTTTGTCAAAATTGATGAAAATCGATCAAAACGGATAGAACTCA
* *
17890454 AAACTTTGTCAAAATTGGTGAAAATCGATCAAAATGGATAGAACTCA
1 AAACTTTGTCAAAATTGATGAAAATCGATCAAAACGGATAGAACTCA
17890501 A
1 A
17890502 GTTATCTTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.24
Consensus pattern (47 bp):
AAACTTTGTCAAAATTGATGAAAATCGATCAAAACGGATAGAACTCA
Found at i:17891576 original size:22 final size:22
Alignment explanation
Indices: 17891538--17891587 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
17891528 TTTATTCTTT
17891538 GCATTT-TCATAAGTATTCCATA
1 GCATTTATCATAAGTATT-CATA
*
17891560 GCATTTATCAT-ATTATTCATA
1 GCATTTATCATAAGTATTCATA
*
17891581 CCATTTA
1 GCATTTA
17891588 GCTTTTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.40
22 11 0.44
23 4 0.16
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (22 bp):
GCATTTATCATAAGTATTCATA
Found at i:17892599 original size:31 final size:32
Alignment explanation
Indices: 17892564--17892648 Score: 81
Period size: 31 Copynumber: 2.8 Consensus size: 32
17892554 ACCAAAAAAA
*
17892564 CTTAAACCCT-AACC-CAAACCTTAACTTAGAC
1 CTTAAA-CCTGAACCTCAAACCCTAACTTAGAC
* *
17892595 CTTAAA-TTGAACCTTAAACCCTAACTTAGAC
1 CTTAAACCTGAACCTCAAACCCTAACTTAGAC
* *
17892626 CTTAAA-CT-TACCCCAAACCCTAA
1 CTTAAACCTGAACCTCAAACCCTAA
17892649 AACCAACCCT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
29 1 0.02
30 16 0.36
31 28 0.62
ACGTcount: A:0.39, C:0.33, G:0.04, T:0.25
Consensus pattern (32 bp):
CTTAAACCTGAACCTCAAACCCTAACTTAGAC
Found at i:17902573 original size:12 final size:12
Alignment explanation
Indices: 17902544--17902573 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
17902534 TGTTTTAATT
*
17902544 TTTTTAGTTTAA
1 TTTTTCGTTTAA
17902556 TTTTTCGTTTAA
1 TTTTTCGTTTAA
17902568 TTTTTC
1 TTTTTC
17902574 TTTTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.70
Consensus pattern (12 bp):
TTTTTCGTTTAA
Found at i:17903215 original size:23 final size:23
Alignment explanation
Indices: 17903188--17903252 Score: 105
Period size: 23 Copynumber: 2.9 Consensus size: 23
17903178 TTTTGCATGA
*
17903188 ATTTGCATGATTTATGTATTATT
1 ATTTGCATGATTTATATATTATT
17903211 ATTTGCATGATTTATATATTATT
1 ATTTGCATGATTTATATATTATT
*
17903234 ATTTGCAT-AATTATATATT
1 ATTTGCATGATTTATATATT
17903253 TAATTGCATG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
22 10 0.25
23 30 0.75
ACGTcount: A:0.31, C:0.05, G:0.09, T:0.55
Consensus pattern (23 bp):
ATTTGCATGATTTATATATTATT
Found at i:17903259 original size:20 final size:22
Alignment explanation
Indices: 17903190--17903261 Score: 67
Period size: 23 Copynumber: 3.3 Consensus size: 22
17903180 TTGCATGAAT
* * *
17903190 TTGCATGATTTATGTATTATTAT
1 TTGCAT-AATTATATATTATTAA
* *
17903213 TTGCATGATTTATATATTATTAT
1 TTGCAT-AATTATATATTATTAA
17903236 TTGCATAATTATATA-T-TTAA
1 TTGCATAATTATATATTATTAA
17903256 TTGCAT
1 TTGCAT
17903262 GCTTATTTGC
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
20 9 0.20
21 1 0.02
22 8 0.17
23 28 0.61
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.54
Consensus pattern (22 bp):
TTGCATAATTATATATTATTAA
Found at i:17903268 original size:55 final size:55
Alignment explanation
Indices: 17903209--17903339 Score: 192
Period size: 55 Copynumber: 2.4 Consensus size: 55
17903199 TTATGTATTA
* *
17903209 TTATTTGCATGATTTATATATTATTATTTGCATAATTATATATTTAATTGCATGC
1 TTATTTGCATGATTTATATATTAGTATTTGCATAATTATATATTTAATTACATGC
** ** *
17903264 TTATTTGCATGATTTAGGTATTAGTATTTGCATAATTATATATTTAATTATTTGT
1 TTATTTGCATGATTTATATATTAGTATTTGCATAATTATATATTTAATTACATGC
17903319 TTATTTGCATGA-TTATATATT
1 TTATTTGCATGATTTATATATT
17903340 TAATTGCATG
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
54 7 0.10
55 60 0.90
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (55 bp):
TTATTTGCATGATTTATATATTAGTATTTGCATAATTATATATTTAATTACATGC
Found at i:17903333 original size:20 final size:20
Alignment explanation
Indices: 17903310--17903358 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
17903300 TATATATTTA
*
17903310 ATTATTTGTTTATTTGCATG
1 ATTATTTGTTTAATTGCATG
* *
17903330 ATTATATATTTAATTGCATG
1 ATTATTTGTTTAATTGCATG
*
17903350 TTTATTTGT
1 ATTATTTGT
17903359 ATGATTTATA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.24, C:0.04, G:0.12, T:0.59
Consensus pattern (20 bp):
ATTATTTGTTTAATTGCATG
Found at i:17903352 original size:32 final size:32
Alignment explanation
Indices: 17903288--17903370 Score: 112
Period size: 32 Copynumber: 2.6 Consensus size: 32
17903278 TAGGTATTAG
* **
17903288 TATTTGCATAATTATATATTTAATTATTTGTT
1 TATTTGCATGATTATATATTTAATTACATGTT
*
17903320 TATTTGCATGATTATATATTTAATTGCATGTT
1 TATTTGCATGATTATATATTTAATTACATGTT
*
17903352 TATTTGTATGATTTATATA
1 TATTTGCATGA-TTATATA
17903371 CTATTGTTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 38 0.84
33 7 0.16
ACGTcount: A:0.30, C:0.04, G:0.10, T:0.57
Consensus pattern (32 bp):
TATTTGCATGATTATATATTTAATTACATGTT
Found at i:17903381 original size:87 final size:86
Alignment explanation
Indices: 17903232--17903428 Score: 236
Period size: 87 Copynumber: 2.2 Consensus size: 86
17903222 TTATATATTA
* * *
17903232 TTATTTGCATAATTATATATTTAATTGCATGCTTATTTGCATGATTTAGGTATTAGTATTTGCAT
1 TTATTTGCATGATTATATATTTAATTGCATGCTTATTTGCATGATTTAGATACTAGTATTTGCAT
17903297 AATTATATATTTAATTA-TT-TGT
66 AATT-TATA-TT-ATTATTTATGT
* * * * *
17903319 TTATTTGCATGATTATATATTTAATTGCATGTTTATTTGTATGATTTATATACTATTGTTTGCAT
1 TTATTTGCATGATTATATATTTAATTGCATGCTTATTTGCATGATTTAGATACTAGTATTTGCAT
*
17903384 GATTTATATTATTATTTGCATGT
66 AATTTATATTATTATTT--ATGT
*
17903407 TTATTTGCATAGTTTATATATT
1 TTATTTGCAT-GATTATATATT
17903429 ACTATTTGCA
Statistics
Matches: 95, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
84 4 0.04
85 4 0.04
86 4 0.04
87 60 0.63
88 13 0.14
89 10 0.11
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.55
Consensus pattern (86 bp):
TTATTTGCATGATTATATATTTAATTGCATGCTTATTTGCATGATTTAGATACTAGTATTTGCAT
AATTTATATTATTATTTATGT
Found at i:17903396 original size:21 final size:22
Alignment explanation
Indices: 17903351--17903410 Score: 79
Period size: 23 Copynumber: 2.8 Consensus size: 22
17903341 AATTGCATGT
*
17903351 TTATTTGTATGATTTATATACTA
1 TTATTTGCATGATTTATATA-TA
*
17903374 TTGTTTGCATGATTTATAT-TA
1 TTATTTGCATGATTTATATATA
17903395 TTATTTGCATG-TTTAT
1 TTATTTGCATGATTTAT
17903411 TTGCATAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.15
21 12 0.35
23 17 0.50
ACGTcount: A:0.25, C:0.05, G:0.12, T:0.58
Consensus pattern (22 bp):
TTATTTGCATGATTTATATATA
Found at i:17903410 original size:12 final size:13
Alignment explanation
Indices: 17903395--17903423 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
17903385 ATTTATATTA
17903395 TTATTTGCAT-GT
1 TTATTTGCATAGT
17903407 TTATTTGCATAGT
1 TTATTTGCATAGT
17903420 TTAT
1 TTAT
17903424 ATATTACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.59
Consensus pattern (13 bp):
TTATTTGCATAGT
Found at i:17903434 original size:23 final size:21
Alignment explanation
Indices: 17903406--17903465 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
17903396 TATTTGCATG
17903406 TTTATTTGCATAGTTTATATA
1 TTTATTTGCATAGTTTATATA
*
17903427 TTACTATTTGCAT-GATTATATA
1 TT--TATTTGCATAGTTTATATA
*
17903449 TTTAATTGCATA-TTTAT
1 TTTATTTGCATAGTTTAT
17903466 TTGCATGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 12 0.36
21 2 0.06
22 10 0.30
23 9 0.27
ACGTcount: A:0.30, C:0.07, G:0.08, T:0.55
Consensus pattern (21 bp):
TTTATTTGCATAGTTTATATA
Found at i:17903442 original size:111 final size:111
Alignment explanation
Indices: 17903320--17903527 Score: 312
Period size: 111 Copynumber: 1.9 Consensus size: 111
17903310 ATTATTTGTT
* * *
17903320 TATTTGCATGATTATATATTTAATTGCATGTTTATTTGTAT-GATTTATATACTATTGTTTGCAT
1 TATTTGCATGATTATATATTTAATTGCATATTTATTTGCATGGATTTATATACTATTATTTGCAT
* *
17903384 GATT-TATATTATTATTTGCATGTTTATTTGCATAGTTTATATATTAC
66 AATTATATA-T-TTAATTGCATGTTTATTTGCATAGTTTATATATTAC
* * *
17903431 TATTTGCATGATTATATATTTAATTGCATATTTATTTGCATGGTTTTATATATTTTTATTTGCAT
1 TATTTGCATGATTATATATTTAATTGCATATTTATTTGCATGGATTTATATACTATTATTTGCAT
17903496 AATTATATATTTAATTGCATGTTTATTTGCAT
66 AATTATATATTTAATTGCATGTTTATTTGCAT
17903528 TACTTGCATT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
111 60 0.69
112 23 0.26
113 4 0.05
ACGTcount: A:0.27, C:0.06, G:0.11, T:0.55
Consensus pattern (111 bp):
TATTTGCATGATTATATATTTAATTGCATATTTATTTGCATGGATTTATATACTATTATTTGCAT
AATTATATATTTAATTGCATGTTTATTTGCATAGTTTATATATTAC
Found at i:17903448 original size:22 final size:23
Alignment explanation
Indices: 17903408--17903450 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
17903398 TTTGCATGTT
*
17903408 TATTTGCATAGTTTATATATTAC
1 TATTTGCATAGATTATATATTAC
17903431 TATTTGCAT-GATTATATATT
1 TATTTGCATAGATTATATATT
17903451 TAATTGCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.53
Consensus pattern (23 bp):
TATTTGCATAGATTATATATTAC
Found at i:17903457 original size:20 final size:20
Alignment explanation
Indices: 17903406--17903521 Score: 60
Period size: 20 Copynumber: 5.8 Consensus size: 20
17903396 TATTTGCATG
* *
17903406 TTTATTTGCATAGTTTATATA
1 TTTAATTGCAT-GATTATATA
*
17903427 TTACTATTTGCATGATTATATA
1 TT--TAATTGCATGATTATATA
17903449 TTTAATTGCAT-ATT-TAT-
1 TTTAATTGCATGATTATATA
** * ** * *
17903466 TTGCATGGTTTTA-TATATT
1 TTTAATTGCATGATTATATA
* *
17903485 TTTATTTGCATAATTATATA
1 TTTAATTGCATGATTATATA
*
17903505 TTTAATTGCATGTTTAT
1 TTTAATTGCATGATTAT
17903522 TTGCATTACT
Statistics
Matches: 71, Mismatches: 18, Indels: 13
0.70 0.18 0.13
Matches are distributed among these distances:
17 7 0.10
18 7 0.10
19 9 0.13
20 27 0.38
21 2 0.03
22 10 0.14
23 9 0.13
ACGTcount: A:0.28, C:0.06, G:0.09, T:0.56
Consensus pattern (20 bp):
TTTAATTGCATGATTATATA
Found at i:17903465 original size:143 final size:142
Alignment explanation
Indices: 17903209--17903481 Score: 361
Period size: 143 Copynumber: 1.9 Consensus size: 142
17903199 TTATGTATTA
*
17903209 TTATTTGCATGATTTATATATTATTATTTGCATAATTATATATTTAATTGCATGCTTATTTGCAT
1 TTATTTGCATGATTTATATACTATTATTTGCATAATTATATATTTAATTGCATGCTTATTTGCAT
* * ** *
17903274 GATTTAGGTATTAGTATTTGCATAATTATATATTTAATTATTTGTTTATTTGCATGATTATATAT
66 GATTTAGATATTACTATTTGCATAATTATATATTTAATTACATATTTATTTGCATGATTATATAT
17903339 TTAATTGCATGT
131 TTAATTGCATGT
* * * * *
17903351 TTATTTGTATGATTTATATACTATTGTTTGCATGATT-TATATTATTATTTGCATGTTTATTTGC
1 TTATTTGCATGATTTATATACTATTATTTGCATAATTATATA-T-TTAATTGCATGCTTATTTGC
* * * * *
17903415 AT-AGTTTATATATTACTATTTGCATGATTATATATTTAATTGCATATTTATTTGCATGGTTTTA
64 ATGA-TTTAGATATTACTATTTGCATAATTATATATTTAATTACATATTTATTTGCATGATTATA
17903479 TAT
128 TAT
17903482 ATTTTTATTT
Statistics
Matches: 112, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
141 4 0.04
142 35 0.31
143 73 0.65
ACGTcount: A:0.28, C:0.06, G:0.11, T:0.55
Consensus pattern (142 bp):
TTATTTGCATGATTTATATACTATTATTTGCATAATTATATATTTAATTGCATGCTTATTTGCAT
GATTTAGATATTACTATTTGCATAATTATATATTTAATTACATATTTATTTGCATGATTATATAT
TTAATTGCATGT
Found at i:17903507 original size:56 final size:54
Alignment explanation
Indices: 17903319--17903575 Score: 286
Period size: 56 Copynumber: 4.7 Consensus size: 54
17903309 AATTATTTGT
* *
17903319 TTATTTGCATGATTATATATTTAATTGCATGTTTATTTGTATGATTTATATACTA
1 TTATTTGCATGATTATATATTTAATTGCATGTTTATTTGCATG-TTTATATATTA
* *
17903374 TTGTTTGCATGATT-TATATTATTATTTGCATGTTTATTTGCATAGTTTATATATTA
1 TTATTTGCATGATTATATA-T-TTAATTGCATGTTTATTTGCAT-GTTTATATATTA
* * *
17903430 CTATTTGCATGATTATATATTTAATTGCATATTTATTTGCATGGTTTTATATATTT
1 TTATTTGCATGATTATATATTTAATTGCATGTTTATTTGCAT-G-TTTATATATTA
* * ** *
17903486 TTATTTGCATAATTATATATTTAATTGCATGTTTATTTGCAT-TACT-TGCATTG
1 TTATTTGCATGATTATATATTTAATTGCATGTTTATTTGCATGT-TTATATATTA
* * * *
17903539 TTAATTGCATGATTATATGTTTAATTACATGATTATT
1 TTATTTGCATGATTATATATTTAATTGCATGTTTATT
17903576 AATTTGTTTA
Statistics
Matches: 174, Mismatches: 22, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
53 37 0.21
54 5 0.03
55 35 0.20
56 92 0.53
57 5 0.03
ACGTcount: A:0.28, C:0.07, G:0.11, T:0.54
Consensus pattern (54 bp):
TTATTTGCATGATTATATATTTAATTGCATGTTTATTTGCATGTTTATATATTA
Found at i:17903590 original size:111 final size:111
Alignment explanation
Indices: 17903321--17903590 Score: 288
Period size: 111 Copynumber: 2.4 Consensus size: 111
17903311 TTATTTGTTT
* * *
17903321 ATTTGCATGATTATATATTTAATTGCATG-TTTATTTGTATGATTTATATACTATTGTTTGCATG
1 ATTTGCATGATTATATATTTAATTGCATGATTTATTTGTATTATTTATATACTATTATTTGCATA
* * *
17903385 ATTTATATTATTATTTGCATGTTTATTTGCATAGTTTATATATTAC
66 ATTTATATTATTAATTGCATGTTTATTTGCATACTTCATATATTAC
* * *
17903431 TATTTGCATGATTATATATTTAATTGCAT-ATTTATTTGCATGGT-TTTATATATTTTTATTTGC
1 -ATTTGCATGATTATATATTTAATTGCATGATTTATTTGTAT--TATTTATATACTATTATTTGC
*
17903494 ATAA-TTATA-TATTTAATTGCATGTTTATTTGCATTACTTGCAT-TGTTA-
63 ATAATTTATATTA-TTAATTGCATGTTTATTTGCA-TACTT-CATATATTAC
* *
17903542 A-TTGCATGATTATATGTTTAATTACATGATTATTAATTTGT-TTATTTAT
1 ATTTGCATGATTATATATTTAATTGCATGA-T-TT-ATTTGTATTATTTAT
17903591 TGTGATTGTA
Statistics
Matches: 135, Mismatches: 13, Indels: 22
0.79 0.08 0.13
Matches are distributed among these distances:
109 24 0.18
110 5 0.04
111 69 0.51
112 30 0.22
113 7 0.05
ACGTcount: A:0.28, C:0.06, G:0.11, T:0.55
Consensus pattern (111 bp):
ATTTGCATGATTATATATTTAATTGCATGATTTATTTGTATTATTTATATACTATTATTTGCATA
ATTTATATTATTAATTGCATGTTTATTTGCATACTTCATATATTAC
Found at i:17903679 original size:19 final size:19
Alignment explanation
Indices: 17903642--17903680 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
17903632 TTATTTATTA
* *
17903642 TTATTGCATGATTTTATAT
1 TTATTGCATGATATGATAT
17903661 TTATTGCATGATATGATAT
1 TTATTGCATGATATGATAT
17903680 T
1 T
17903681 ATATGTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.05, G:0.13, T:0.54
Consensus pattern (19 bp):
TTATTGCATGATATGATAT
Found at i:17903682 original size:24 final size:24
Alignment explanation
Indices: 17903649--17903710 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
17903639 TTATTATTGC
*
17903649 ATGATTTTATATTTATTGCATGAT
1 ATGATATTATATTTATTGCATGAT
17903673 ATGATATTATATGTTATTGCATGAT
1 ATGATATTATAT-TTATTGCATGAT
*
17903698 -TAATATTATATTT
1 ATGATATTATATTT
17903711 GAATGATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
23 2 0.06
24 21 0.60
25 12 0.34
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.53
Consensus pattern (24 bp):
ATGATATTATATTTATTGCATGAT
Found at i:17903830 original size:20 final size:20
Alignment explanation
Indices: 17903794--17903898 Score: 55
Period size: 18 Copynumber: 5.3 Consensus size: 20
17903784 TTTGTGTGAT
*
17903794 TATATTTG-ATTTCATGATTA
1 TATATTTGCA-TTAATGATTA
17903814 TATATTTGCATTAATGATAATTAA
1 TATATTTGCATTAATG---ATT-A
* *
17903838 TATATTTGCA-TGATG-TTT
1 TATATTTGCATTAATGATTA
* *
17903856 TATA-TT--ATTGCATGATAA
1 TATATTTGCATT-AATGATTA
17903874 TATATTTGCA-TAAT-ATTA
1 TATATTTGCATTAATGATTA
17903892 TATATTT
1 TATATTT
17903899 ATACGATTGT
Statistics
Matches: 66, Mismatches: 8, Indels: 24
0.67 0.08 0.24
Matches are distributed among these distances:
15 1 0.02
16 1 0.02
17 5 0.08
18 19 0.29
19 6 0.09
20 14 0.21
21 2 0.03
23 7 0.11
24 11 0.17
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (20 bp):
TATATTTGCATTAATGATTA
Found at i:17903894 original size:18 final size:18
Alignment explanation
Indices: 17903827--17903945 Score: 75
Period size: 18 Copynumber: 6.4 Consensus size: 18
17903817 ATTTGCATTA
17903827 ATGATAATTAATATATTTGC
1 ATGAT-ATT-ATATATTTGC
* *
17903847 ATGATGTTTTATATTATTGC
1 ATGATATTATATA-T-TTGC
17903867 ATGATA--ATATATTTGC
1 ATGATATTATATATTTGC
* **
17903883 ATAATATTATATATTTAT
1 ATGATATTATATATTTGC
* *
17903901 ACGATTGTTAT-TA-TTGC
1 ATGA-TATTATATATTTGC
*
17903918 ATGATAATTAATATATGTGC
1 ATGAT-ATT-ATATATTTGC
17903938 ATGATATT
1 ATGATATT
17903946 CTTGCATGAA
Statistics
Matches: 75, Mismatches: 15, Indels: 19
0.69 0.14 0.17
Matches are distributed among these distances:
16 10 0.13
17 8 0.11
18 22 0.29
19 13 0.17
20 22 0.29
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.48
Consensus pattern (18 bp):
ATGATATTATATATTTGC
Found at i:17909847 original size:6 final size:7
Alignment explanation
Indices: 17909822--17909855 Score: 50
Period size: 7 Copynumber: 4.6 Consensus size: 7
17909812 TATGTGCAAA
17909822 AAAAAGAT
1 AAAAA-AT
17909830 AAAAAAT
1 AAAAAAT
17909837 AAAAAAT
1 AAAAAAT
17909844 AAAAAAAT
1 -AAAAAAT
17909852 AAAA
1 AAAA
17909856 GAGAAGAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 13 0.52
8 12 0.48
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:17911332 original size:42 final size:43
Alignment explanation
Indices: 17911269--17911757 Score: 556
Period size: 42 Copynumber: 11.6 Consensus size: 43
17911259 AGAATGATCT
* * *
17911269 CATTTTATTTTCCAAAAGTTTCAAAGCTTTAGTTGTGGGGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* *
17911312 CATTTTATGTTTC-AAAGTTTCAAAACCTCAGTTGTGGGGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* * * * ***
17911354 CATTTTTTTTTTCAAAAGTTCCAAAGCCTAAGTTATAAAGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* *
17911397 CATTTT-TTTTTCAAAAGTTTCAAAGCCTAAGTTATGGGGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* * * * *
17911439 CATTGTTTTTTTTC-AAAGCTCCAAAGTCTCAGCTG-GGGGGAG
1 CATT-TTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
*
17911481 CATTTT-TTTTTCCAAAAGTTCCAAAGCCTCAGTTGTGGGGGAG
1 CATTTTATTTTT-CAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* **
17911524 TATTTTATTTTTC-AAAGTTTCAAAGCCTCAGTTGCAGGGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* * *
17911566 CATTTTATTTTTCAAAAGTTCCAAAGCCTTAATTGTGGGGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* * * *
17911609 CAATTTA-TTTTCAAATGTTTCAAAGCCTCAATTGTGGGAGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
17911651 CATTTTATTTTTC-AAAGTTTCAAAGCCTCAGTTGT--GGG-G
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* *
17911690 C-TTTTATTTTT-AAAAGTTTCAAAGCCTTAGTTATGAGGGG-G
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTG-GGGGAG
*
17911731 TATTTTATTTTTCAAAAGTTTCAAAGC
1 CATTTTATTTTTCAAAAGTTTCAAAGC
17911758 TTTAATTATG
Statistics
Matches: 382, Mismatches: 49, Indels: 30
0.83 0.11 0.07
Matches are distributed among these distances:
38 30 0.08
39 2 0.01
40 7 0.02
41 7 0.02
42 207 0.54
43 118 0.31
44 11 0.03
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (43 bp):
CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
Found at i:17911414 original size:85 final size:86
Alignment explanation
Indices: 17911269--17911780 Score: 498
Period size: 85 Copynumber: 6.1 Consensus size: 86
17911259 AGAATGATCT
* * * * * * *
17911269 CATTTTATTTTCCAAAAGTTTCAAAGCTTTAGTTGTGGGGGAGCATTTTATGTTTC-AAAGTTTC
1 CATTTTTTTTTTCAAAAGTTTCAAAGCCTAAGTTATAGGGGAGCATTTTATTTTTCAAAAGTTTC
*
17911333 AAAACCTCAGTTGTGGGGGAG
66 AAAGCCTCAGTTGTGGGGGAG
* **
17911354 CATTTTTTTTTTCAAAAGTTCCAAAGCCTAAGTTATAAAGGAGCATTTT-TTTTTCAAAAGTTTC
1 CATTTTTTTTTTCAAAAGTTTCAAAGCCTAAGTTATAGGGGAGCATTTTATTTTTCAAAAGTTTC
* *
17911418 AAAGCCTAAGTTATGGGGGAG
66 AAAGCCTCAGTTGTGGGGGAG
* * * * * **
17911439 CATTGTTTTTTTTC-AAAGCTCCAAAGTCTCAGCT-GGGGGGAGCATTTT-TTTTTCCAAAAGTT
1 CATT-TTTTTTTTCAAAAGTTTCAAAGCCTAAGTTATAGGGGAGCATTTTATTTTT-CAAAAGTT
*
17911501 CCAAAGCCTCAGTTGTGGGGGAG
64 TCAAAGCCTCAGTTGTGGGGGAG
* * * ** *
17911524 TATTTTATTTTTC-AAAGTTTCAAAGCCTCAGTTGCAGGGGAGCATTTTATTTTTCAAAAGTTCC
1 CATTTTTTTTTTCAAAAGTTTCAAAGCCTAAGTTATAGGGGAGCATTTTATTTTTCAAAAGTTTC
* *
17911588 AAAGCCTTAATTGTGGGGGAG
66 AAAGCCTCAGTTGTGGGGGAG
* * * *
17911609 CA-ATTTATTTTCAAATGTTTCAAAGCCTCAA-TTGT-GGGAGAGCATTTTATTTTTC-AAAGTT
1 CATTTTTTTTTTCAAAAGTTTCAAAGCCT-AAGTTATAGGG-GAGCATTTTATTTTTCAAAAGTT
17911670 TCAAAGCCTCAGTTGT--GGG-G
64 TCAAAGCCTCAGTTGTGGGGGAG
* * *
17911690 C-TTTTATTTTT-AAAAGTTTCAAAGCCTTAGTTATGAGGGG-GTATTTTATTTTTCAAAAGTTT
1 CATTTTTTTTTTCAAAAGTTTCAAAGCCTAAGTTAT-AGGGGAGCATTTTATTTTTCAAAAGTTT
* * * * *
17911752 CAAAGCTTTAATTATGGGGTAG
65 CAAAGCCTCAGTTGTGGGGGAG
17911774 CATTTTT
1 CATTTTT
17911781 CAAAAAAAAA
Statistics
Matches: 353, Mismatches: 57, Indels: 34
0.80 0.13 0.08
Matches are distributed among these distances:
79 1 0.00
80 31 0.09
81 27 0.08
82 6 0.02
83 2 0.01
84 75 0.21
85 196 0.56
86 15 0.04
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.39
Consensus pattern (86 bp):
CATTTTTTTTTTCAAAAGTTTCAAAGCCTAAGTTATAGGGGAGCATTTTATTTTTCAAAAGTTTC
AAAGCCTCAGTTGTGGGGGAG
Found at i:17911497 original size:127 final size:125
Alignment explanation
Indices: 17911269--17911779 Score: 536
Period size: 127 Copynumber: 4.0 Consensus size: 125
17911259 AGAATGATCT
* * * * *
17911269 CATTTTATTTTCCAAAAGTTTCAAAGCTTTAGTTGTGGGGGAGCATTTTATGTTTCAAAGTTTCA
1 CATTTTATTTTTC-AAAGTTTCAAAGCCTCAGTTGTGGGGGAGCATTTTATTTTTCAAAGTTCCA
* * **
17911334 AAACCTCAGTTGTGGGGGAGCATTTTTTTTTTCAAAAGTTCCAAAGCCTAAGTTATAAAGGAG
65 AAGCCTCAGTTGTGGGGGAGCA-TTTTTTTTTCAAAAGTTCCAAAGCCTAAGTTGT-GGGGAG
* * * *
17911397 CATTTT-TTTTTCAAAAGTTTCAAAGCCTAAGTTATGGGGGAGCATTGTTTTTTTTCAAAGCTCC
1 CATTTTATTTTTC-AAAGTTTCAAAGCCTCAGTTGTGGGGGAGCATT-TTATTTTTCAAAGTTCC
* * *
17911461 AAAGTCTCAGCTG-GGGGGAGCATTTTTTTTTCCAAAAGTTCCAAAGCCTCAGTTGTGGGGGAG
64 AAAGCCTCAGTTGTGGGGGAGCATTTTTTTTT-CAAAAGTTCCAAAGCCTAAGTTGT-GGGGAG
* **
17911524 TATTTTATTTTTCAAAGTTTCAAAGCCTCAGTTGCAGGGGAGCATTTTATTTTTCAAAAGTTCCA
1 CATTTTATTTTTCAAAGTTTCAAAGCCTCAGTTGTGGGGGAGCATTTTATTTTTC-AAAGTTCCA
* * * * * *
17911589 AAGCCTTAATTGTGGGGGAGCAATTTATTTTCAAATGTTTCAAAGCCTCAA-TTGTGGGAGAG
65 AAGCCTCAGTTGTGGGGGAGCATTTTTTTTTCAAAAGTTCCAAAGCCT-AAGTTGTGGG-GAG
* *
17911651 CATTTTATTTTTCAAAGTTTCAAAGCCTCAGTTGT--GGG-GC-TTTTATTTTTAAAAGTTTCAA
1 CATTTTATTTTTCAAAGTTTCAAAGCCTCAGTTGTGGGGGAGCATTTTATTTTTCAAAGTTCCAA
* * * * * *
17911712 AGCCTTAGTTATGAGGGG-GTATTTTATTTTTCAAAAGTTTCAAAGCTTTAA-TTATGGGGTAG
66 AGCCTCAGTTGTG-GGGGAGCATTTT-TTTTTCAAAAGTTCCAAAGC-CTAAGTTGTGGGG-AG
17911774 CATTTT
1 CATTTT
17911780 TCAAAAAAAA
Statistics
Matches: 328, Mismatches: 44, Indels: 27
0.82 0.11 0.07
Matches are distributed among these distances:
122 26 0.08
123 48 0.15
124 3 0.01
125 3 0.01
126 20 0.06
127 176 0.54
128 52 0.16
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.39
Consensus pattern (125 bp):
CATTTTATTTTTCAAAGTTTCAAAGCCTCAGTTGTGGGGGAGCATTTTATTTTTCAAAGTTCCAA
AGCCTCAGTTGTGGGGGAGCATTTTTTTTTCAAAAGTTCCAAAGCCTAAGTTGTGGGGAG
Found at i:17917065 original size:19 final size:19
Alignment explanation
Indices: 17917037--17917084 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
17917027 AGGGCTTCAT
* *
17917037 GGGTGATTTAAGGTTT-CA
1 GGGTGGTTTAAAGTTTGCA
*
17917055 GGAGTGGTTTAAAGTTTGTA
1 GG-GTGGTTTAAAGTTTGCA
17917075 GGGTGGTTTA
1 GGGTGGTTTA
17917085 GGATTTCCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 2 0.08
19 20 0.80
20 3 0.12
ACGTcount: A:0.21, C:0.02, G:0.38, T:0.40
Consensus pattern (19 bp):
GGGTGGTTTAAAGTTTGCA
Found at i:17917121 original size:19 final size:19
Alignment explanation
Indices: 17917102--17917166 Score: 103
Period size: 19 Copynumber: 3.4 Consensus size: 19
17917092 CTCATTAGTT
* * *
17917102 TAGGGTTTTAAGGGTGGTT
1 TAGGGTTTCATGGGTGGTA
17917121 TAGGGTTTCATGGGTGGTA
1 TAGGGTTTCATGGGTGGTA
17917140 TAGGGTTTCATGGGTGGTA
1 TAGGGTTTCATGGGTGGTA
17917159 TAGGGTTT
1 TAGGGTTT
17917167 GGAATTTGGG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.15, C:0.03, G:0.42, T:0.40
Consensus pattern (19 bp):
TAGGGTTTCATGGGTGGTA
Found at i:17919369 original size:119 final size:118
Alignment explanation
Indices: 17919217--17919430 Score: 324
Period size: 119 Copynumber: 1.8 Consensus size: 118
17919207 TCCATTTGAT
* * * * *
17919217 TTTGATTTTTTTTATCAGGTTTGATTAGGTTTGACCTT-A-GACTGTATGGATCAAATTGGTCCA
1 TTTGATTTTGTTTAACAGGTTTGACTAGATTTGACCTTAAGGA--GTATAGATCAAATTGGTCCA
17919280 AATTTTGATTTTAGAGACTTGTGAAAATTAAAGGAGTTCCATTCAATTTAACTGA
64 AATTTTGATTTTAGAGACTTGTGAAAATTAAAGGAGTTCCATTCAATTTAACTGA
*
17919335 TTTGATTTTGTTTAACTAGGTTTGACTAGATTTGACCTTAAGGAGTATAGATCAAATTGGTTCAA
1 TTTGATTTTGTTTAAC-AGGTTTGACTAGATTTGACCTTAAGGAGTATAGATCAAATTGGTCCAA
*
17919400 ATTTTTATTTTAGAGACTTGTGAAAATTAAA
65 ATTTTGATTTTAGAGACTTGTGAAAATTAAA
17919431 AAACTGTTGG
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
118 14 0.16
119 69 0.80
120 1 0.01
121 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (118 bp):
TTTGATTTTGTTTAACAGGTTTGACTAGATTTGACCTTAAGGAGTATAGATCAAATTGGTCCAAA
TTTTGATTTTAGAGACTTGTGAAAATTAAAGGAGTTCCATTCAATTTAACTGA
Found at i:17921029 original size:2 final size:2
Alignment explanation
Indices: 17921022--17921046 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17921012 TTTATACATG
17921022 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
17921047 ATGATTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17932240 original size:12 final size:12
Alignment explanation
Indices: 17932223--17932247 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17932213 TAAAAAATGA
17932223 TATTTAATTATT
1 TATTTAATTATT
17932235 TATTTAATTATT
1 TATTTAATTATT
17932247 T
1 T
17932248 TTAATTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTTAATTATT
Found at i:17932251 original size:36 final size:37
Alignment explanation
Indices: 17932211--17932286 Score: 86
Period size: 39 Copynumber: 2.1 Consensus size: 37
17932201 TCTTTTAAAA
*
17932211 TTTAA-AAAATGA-TATTTAAT-TATTTATTTAATTATT
1 TTTAATAAAATCATTATTTAATATATTT-TTTAATT-TT
*
17932247 TTTAATTAAAATCATTATTTTATATATTTTTTAATTTT
1 TTTAA-TAAAATCATTATTTAATATATTTTTTAATTTT
17932285 TT
1 TT
17932287 ATCTAAATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
36 5 0.15
38 10 0.29
39 14 0.41
40 5 0.15
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (37 bp):
TTTAATAAAATCATTATTTAATATATTTTTTAATTTT
Found at i:17932302 original size:36 final size:38
Alignment explanation
Indices: 17932216--17932303 Score: 94
Period size: 37 Copynumber: 2.3 Consensus size: 38
17932206 TAAAATTTAA
* *
17932216 AAAATGATATTTAATTATTTATTTAATTATTTTTAATT
1 AAAATCATATTTTATTATTTATTTAATTATTTTTAATT
17932254 AAAATCATTATTTTATATATTT-TTTAA-T-TTTTT-ATCT
1 AAAATCA-TATTTTAT-TATTTATTTAATTATTTTTAAT-T
*
17932291 AAATTCATATTTT
1 AAAATCATATTTT
17932304 TTTCATAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
36 8 0.18
37 12 0.27
38 7 0.16
39 12 0.27
40 5 0.11
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.59
Consensus pattern (38 bp):
AAAATCATATTTTATTATTTATTTAATTATTTTTAATT
Found at i:17942002 original size:51 final size:51
Alignment explanation
Indices: 17941941--17942040 Score: 146
Period size: 51 Copynumber: 2.0 Consensus size: 51
17941931 TTTTCCTTCT
* * * *
17941941 ATTCACTTCCATTTTGCTTTTGCTAGATTTCTTCTGTAATAATGTAAGTCC
1 ATTCACTTCCATTTTCCTTCTACTAGATGTCTTCTGTAATAATGTAAGTCC
* *
17941992 ATTCATTTCCATTTTCCTTCTACTAGATGTCTTTTGTAATAATGTAAGT
1 ATTCACTTCCATTTTCCTTCTACTAGATGTCTTCTGTAATAATGTAAGT
17942041 TAGTTTGTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.23, C:0.18, G:0.11, T:0.48
Consensus pattern (51 bp):
ATTCACTTCCATTTTCCTTCTACTAGATGTCTTCTGTAATAATGTAAGTCC
Found at i:17950544 original size:162 final size:161
Alignment explanation
Indices: 17950114--17950546 Score: 532
Period size: 161 Copynumber: 2.7 Consensus size: 161
17950104 AAACTTGCAC
* * * *
17950114 TTTATATCTGTTTAGAACTTTTTCGTGCCATTAAAAGGCAAAAATGTAAATTTATTA-TTATTGT
1 TTTATATCT-TTTAGAACTTTTT-GTGCCGTTAAAAGGCAAAAATGCAAGTTT-TCAGTTATTGT
* *
17950178 TCTATTTTAACAATTTAGATAGTTTCAATATATGATATTAAACTT-ACTCGAATAATTGAACTTA
63 TCTATTTTAACAATTTAGATAGCTTCAATACATGATATTAAACTTGACTCGAATAATTGAACTTA
*
17950242 GTTTCCATGATTGATATACATGAAAAAGTTACAA
128 GTTTCCATGATTAATATACATGAAAAAGTTACAA
* * * * *
17950276 TTTATATTTGTTTAGAACTTTTTGTGCTGTTGAAAGGCAAAAATGCAAGTTTGCAGTTATTGTTT
1 TTTATATCT-TTTAGAACTTTTTGTGCCGTTAAAAGGCAAAAATGCAAGTTTTCAGTTATTGTTC
* * * * * *
17950341 TGTTTTAATC-GTTTAGATAGCTTCAATACATGATATTAAACTTGTC-CTAATGATTGAACTTGG
65 TATTTTAA-CAATTTAGATAGCTTCAATACATGATATTAAACTTGACTCGAATAATTGAACTTAG
* *** *
17950404 TTTTCATGATTAATATGTGTGAAAAAGTTACCA
129 TTTCCATGATTAATATACATGAAAAAGTTACAA
* *
17950437 TTTATGTCTTTTCAGAACTTTTTGTGCCGTTAAAAGGAAAAAAATGCAAGTTTTCAGTTATTGTT
1 TTTATATCTTTT-AGAACTTTTTGTGCCGTTAAAAGG-CAAAAATGCAAGTTTTCAGTTATTGTT
* *
17950502 CTATTTTAACAATTTTGATAGCTTCAATACATTATATTAAACTTG
64 CTATTTTAACAATTTAGATAGCTTCAATACATGATATTAAACTTG
17950547 GTTTCCACAA
Statistics
Matches: 231, Mismatches: 34, Indels: 12
0.83 0.12 0.04
Matches are distributed among these distances:
160 4 0.02
161 140 0.61
162 87 0.38
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (161 bp):
TTTATATCTTTTAGAACTTTTTGTGCCGTTAAAAGGCAAAAATGCAAGTTTTCAGTTATTGTTCT
ATTTTAACAATTTAGATAGCTTCAATACATGATATTAAACTTGACTCGAATAATTGAACTTAGTT
TCCATGATTAATATACATGAAAAAGTTACAA
Found at i:17950801 original size:144 final size:141
Alignment explanation
Indices: 17950397--17950830 Score: 491
Period size: 144 Copynumber: 3.0 Consensus size: 141
17950387 CTAATGATTG
* ***
17950397 AACTTGGTTTTCATGATTAATATGTGTGAAAAAGTTACCATTTATGTCT-TTTCAGAACTTTTTG
1 AACTTGGTTTTCATGATTTAT-TGTGTGAAAAAGTTATGGTTTATGTCTGTTT-AGAACTTTTTG
* *
17950461 TGCCGTTAAAAGGAAAAAAATGCAAGTTT-TCAGTTATTGTTCTATTTTAACAATTTTGATAGCT
64 TGCCGTT-AAAGG-AAAAAATGCAAGTTTGT-AGTTATTGTTCTATTTTAACAGTTTAGATAGCT
* *
17950525 TCAATACATTATATTA
126 TAAATACATGATATTA
* ** * * *
17950541 AACTTGGTTTCCACAATTTA-TGTGTGAAAAACTTATGGTTTATGTCTGTTTTGGACTTTTTGTG
1 AACTTGGTTTTCATGATTTATTGTGTGAAAAAGTTATGGTTTATGTCTGTTTAGAACTTTTTGTG
* * * *
17950605 CCGTTAAA-GATAAAAAT-TATAATTATGTAGTTATTGCTCTATTTTAAAAGTTTAGATAGCTTA
66 CCGTTAAAGGA-AAAAATGCA-AGTT-TGTAGTTATTGTTCTATTTTAACAGTTTAGATAGCTTA
17950668 AATACATGATATTA
128 AATACATGATATTA
*
17950682 AACTTGGTTTTCATGGTTTATGTGTGTGAAAAAAGTTATGGTTTATGTCTGTTTAGAACTTTTTG
1 AACTTGGTTTTCATGATTTAT-TGTGTG-AAAAAGTTATGGTTTATGTCTGTTTAGAACTTTTTG
* * * * * * * *
17950747 TGTCATTGAAAGGCAAAAATGCAAGTTTGTAGTTATTATTTTATTGTAACAGTTTATATAGCTTT
64 TGCCGTT-AAAGGAAAAAATGCAAGTTTGTAGTTATTGTTCTATTTTAACAGTTTAGATAGCTTA
17950812 AATACATGATATTA
128 AATACATGATATTA
17950826 AACTT
1 AACTT
17950831 ATTCGAATGA
Statistics
Matches: 242, Mismatches: 37, Indels: 22
0.80 0.12 0.07
Matches are distributed among these distances:
139 2 0.01
140 10 0.04
141 63 0.26
142 40 0.17
143 9 0.04
144 104 0.43
145 12 0.05
146 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (141 bp):
AACTTGGTTTTCATGATTTATTGTGTGAAAAAGTTATGGTTTATGTCTGTTTAGAACTTTTTGTG
CCGTTAAAGGAAAAAATGCAAGTTTGTAGTTATTGTTCTATTTTAACAGTTTAGATAGCTTAAAT
ACATGATATTA
Found at i:17950952 original size:161 final size:162
Alignment explanation
Indices: 17950682--17952125 Score: 1185
Period size: 161 Copynumber: 9.0 Consensus size: 162
17950672 CATGATATTA
* * * * *
17950682 AACTTGGTTTTCATGGTTTATGTGTGTGAAAAAAGTTATGGTTTATGTCTGTTTAGAACTTTTTG
1 AACTTGGTTTTCATAGTTGATATGTGTG-AAAAAGTTATCGTTTATGTTTGTTTAGAACTTTTTG
* * * * * *
17950747 TGTCATTGAAAGGCAAAAATGCAAGTTTG-TAGTTATTATTTTATTGTAACAGTTTATATAGCTT
65 TGCCATTAAAAGGCAAAAATGCAAGTTTGCTAGTTATTGTTCTATTTTAACAGTTTAGATAGCTT
*
17950811 TAATACATGATATTAAACTTATTCGAATGATTG
130 CAATACATGATATTAAACTTATTCGAATGATTG
*
17950844 AACTTGGTTTTCATAGTTGATATGTGTGAAAAAGTTATCATTTATGTTTGTTTAGAACTTTTTGT
1 AACTTGGTTTTCATAGTTGATATGTGTGAAAAAGTTATCGTTTATGTTTGTTTAGAACTTTTTGT
* * * *
17950909 GCCATTAAAAGGCAAAAATGCAAGTTT-CTAGTTATTGTTTTATTTTAACAATTTTGATAGCTAC
66 GCCATTAAAAGGCAAAAATGCAAGTTTGCTAGTTATTGTTCTATTTTAACAGTTTAGATAGCTTC
* * *
17950973 AATACATTATATTAAACTTATTTGAATGATTA
131 AATACATGATATTAAACTTATTCGAATGATTG
* * * * * *
17951005 AACTTGGTTTCCA-CGATTG--ATGTGTGAAAAAGTTATGGTTTATGTTTGTTTTGGACTTTTTA
1 AACTTGGTTTTCATAG-TTGATATGTGTGAAAAAGTTATCGTTTATGTTTGTTTAGAACTTTTTG
** * * * * * * *
17951067 TGCTGTT-AAAGATCAAAATTGTAA-TTATGC-AATTATTGTTCTGTTTTAATAGTTCAGAT-GC
65 TGCCATTAAAAG-GCAAAAATGCAAGTT-TGCTAGTTATTGTTCTATTTTAACAGTTTAGATAGC
* * *
17951128 TTAAACACATGATATTAAAGTTA-TCTGAATGATTG
128 TTCAATACATGATATTAAACTTATTC-GAATGATTG
* * * * *
17951163 AACTTGGTTTTCATGGTTTATATGTGTGAAAAAAGCT-GCGGTTTATGTCTT-TTTAGGACTTTT
1 AACTTGGTTTTCATAGTTGATATGTGTG-AAAAAGTTATC-GTTTATGT-TTGTTTAGAACTTTT
** * * * * * *
17951226 TACGCCATTGAAAA-GCAAAAATGCAAGTTTGCTA-TTATTATTTTGTTTTAACAATTTATATGG
63 TGTGCCATT-AAAAGGCAAAAATGCAAGTTTGCTAGTTATTGTTCTATTTTAACAGTTTAGATAG
* * *
17951289 CTTTAGTACATGATATTAAACTTATTTGAATGATTG
127 CTTCAATACATGATATTAAACTTATTCGAATGATTG
* * * * * **
17951325 AACTTGGTTTCCAT-GATTTATATGTGTGAAAAGGTTA-CTATTTATATTTGTTTATCACTTTTT
1 AACTTGGTTTTCATAG-TTGATATGTGTGAAAAAGTTATC-GTTTATGTTTGTTTAGAACTTTTT
* * *
17951388 GTGTCGTTGAAAAGG-AAAAATGCAAGTTTGC-AATTATTGTTCTATTTTAACAGTTTAGATAGC
64 GTGCCATT-AAAAGGCAAAAATGCAAGTTTGCTAGTTATTGTTCTATTTTAACAGTTTAGATAGC
* * *
17951451 TTCAATACATGATATTAAACTTGTCCAAATGATTG
128 TTCAATACATGATATTAAACTTATTCGAATGATTG
* * * * * *
17951486 AACTTAGTTTTTATAGTTGATATATGTGAAAAAGTTACCATTTATGTTTGTTTAAAACTTTTTGT
1 AACTTGGTTTTCATAGTTGATATGTGTGAAAAAGTTATCGTTTATGTTTGTTTAGAACTTTTTGT
* * *
17951551 GCCATTAAAAGGCAAAAATGCAAATTTGCTA-TTATTGTTCTATTTTAAGAGTTTGGATAGCTTC
66 GCCATTAAAAGGCAAAAATGCAAGTTTGCTAGTTATTGTTCTATTTTAACAGTTTAGATAGCTTC
* * *
17951615 AATACATGATATTAAACTTGTCCAAATGATTG
131 AATACATGATATTAAACTTATTCGAATGATTG
** * ** * * *
17951647 ATGTT-CTTTTCCACGGTTGATATGTGTGAAAAA-TTATTGTTTATGTCTGTTTAGGA-TATTTT
1 AACTTGGTTTT-CATAGTTGATATGTGTGAAAAAGTTATCGTTTATGTTTGTTTAGAACT-TTTT
** ** * *
17951709 GTGCTGTTAAAAGGCAAAAATATAATTTTG-TAGTTATAT-TTCTA-TTGAACAGTTTAGATAGC
64 GTGCCATTAAAAGGCAAAAATGCAAGTTTGCTAGTTAT-TGTTCTATTTTAACAGTTTAGATAGC
* * *
17951771 TTAAATACATGATATTAAACTT-GTCTGAATAATTG
128 TTCAATACATGATATTAAACTTATTC-GAATGATTG
* * * * * *
17951806 AATTTGGTTTCCATAATTGATATGTGTTAGAAAGTTATCGTTTATGTTTGTTTAGTACTTTTTGT
1 AACTTGGTTTTCATAGTTGATATGTGTGAAAAAGTTATCGTTTATGTTTGTTTAGAACTTTTTGT
* * * ** * * *
17951871 ACCATTAAAGGGTAAAAATATAATTTTGC-AGTTA-TATT-TATGCTTTAATAGTTTAGATAGCT
66 GCCATTAAAAGGCAAAAATGCAAGTTTGCTAGTTATTGTTCTAT--TTTAACAGTTTAGATAGCT
* * * *
17951933 TCAATATATGATATTAAATTTGTTTGAAT-ATTTG
129 TCAATACATGATATTAAACTTATTCGAATGA-TTG
** * * * ** * * * *
17951967 AACTTAATTGTCATACTTGGTATGCATGAATAAGTTATAGTTTATATCTGTTTATG-ACTTTTTG
1 AACTTGGTTTTCATAGTTGATATGTGTGAAAAAGTTATCGTTTATGTTTGTTTA-GAACTTTTTG
* * *
17952031 T--AATGTCAAAAGG----AA---AA-TTTG-TAGTTATTATTATATTTTAACAGTTTAGATAGC
65 TGCCAT-T-AAAAGGCAAAAATGCAAGTTTGCTAGTTATTGTTCTATTTTAACAGTTTAGATAGC
* * *
17952085 -TCTAATACATAATATTAAACTTTTTTC-AATGTTTG
128 TTC-AATACATGATATTAAAC-TTATTCGAATGATTG
17952120 AACTTG
1 AACTTG
17952126 AATGCCATGC
Statistics
Matches: 1050, Mismatches: 181, Indels: 111
0.78 0.13 0.08
Matches are distributed among these distances:
152 2 0.00
153 51 0.05
154 10 0.01
155 3 0.00
157 3 0.00
158 52 0.05
159 146 0.14
160 136 0.13
161 552 0.53
162 91 0.09
163 4 0.00
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (162 bp):
AACTTGGTTTTCATAGTTGATATGTGTGAAAAAGTTATCGTTTATGTTTGTTTAGAACTTTTTGT
GCCATTAAAAGGCAAAAATGCAAGTTTGCTAGTTATTGTTCTATTTTAACAGTTTAGATAGCTTC
AATACATGATATTAAACTTATTCGAATGATTG
Found at i:17951946 original size:642 final size:636
Alignment explanation
Indices: 17950114--17951971 Score: 1789
Period size: 642 Copynumber: 2.9 Consensus size: 636
17950104 AAACTTGCAC
* * * * ***
17950114 TTTATATCTGTTTAGAACTTTTTCGTGCCATTAAAAGGCAAAAATGTAAATTTATTATTATTGTT
1 TTTATATCTGTTTAGAACTTTTT-GTGTCATTGAAAGGCAAAAATGCAAGTTTGCAATTATTGTT
* * * * *
17950179 CTATTTTAACAATTTAGATAGTTTCAATATATGATATTAAACTTACTCGAATAATTGAACTTAGT
65 CTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTTC-CGAATGATTGAACTTAGT
* ** * * ** *
17950244 TTCCAT-GATTGATATACATGAAAAAGTTACAATTTATATTTGTTTAGAACTTTTTGTGCTGTTG
129 TTTCATAG-TTGATATATGTGAAAAAGTTACCATTTATGTTTGTTTAGAACTTTTTGTGCCATTA
*
17950308 AAAGGCAAAAATGCAAGTTTGC-AGTTATTGTTTTGTTTTAATC-GTTTAGATAGCTTCAATACA
193 AAAGGCAAAAATGCAAGTTTGCTAGTTATTGTTTTATTTTAA-CAGTTTAGATAGCTTCAATACA
* * * *
17950371 TGATATTAAACTTGTCCTAATGATTGAACTTGGTTTT-CATGATTAATATGTGTGAAAAAGTTAC
257 TGATATTAAACTTGTCCAAATGATTGAACTT-GTTTTCCACGATTGATATGTGTGAAAAAGTTAT
* * * *
17950435 CATTTATGTCT-TTTCAGAACTTTTTGTGCCGTTAAAAGG-AAAAAAATGCAAGTTTT-CAGTTA
321 CGTTTATGTCTGTTT-AGGACTTTTTGTGCTGTTAAAAGGCAAAAATAT--AA-TTTTGCAGTTA
* * *
17950497 TTGTTCTATTTTAACAATTTTGATAGCTTCAATACAT--TA-T--A----T---TA---AACTTG
382 TTGTTCTA-TTTAACAGTTTAGATAGCTTAAATACATGATATTAAATTTCTGAATATTGAACTTG
* * * * * * *
17950547 GTTTCCACAATT-TATGTGTGAAAAACTTATGGTTTATGTCTGTTTTGGACTTTTTGTGCCGTTA
446 GTTTCCATAATTATATGTGTAAAAAAGTTATCGTTTATGTTTGTTTAGGACTTTTTGTGCCATTA
* * *
17950611 AAGATAAAAATTATAATTATGTAGTTAT-TGCTCTAT-TTTAAAAGTTTAGATAG---C-T-TA-
511 AAGGTAAAAA-TATAATTTTGCAGTTATAT--T-TATGTTTAAAAGTTTAGATAGCTTCATATAT
* * * * *
17950668 -A-A-T--AC--A--TG-ATATTAAACTTGGTTTTCATGGTTTATGTGTGTGAAAAAAGTTATGG
572 GATATTAAACTTATTTGAATATTGAACTTGGTTTCCATGATTTATATGTGTGAAAAAAGTTATGA
* * * * *
17950723 TTTATGTCTGTTTAGAACTTTTTGTGTCATTGAAAGGCAAAAATGCAAGTTTGTAGTTATTATTT
1 TTTATATCTGTTTAGAACTTTTTGTGTCATTGAAAGGCAAAAATGCAAGTTTGCAATTATTGTTC
* * * * *
17950788 TATTGTAACAGTTTATATAGCTTTAATACATGATATTAAACTTATTCGAATGATTGAACTTGGTT
66 TATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTT-TCCGAATGATTGAACTTAGTT
* *
17950853 TTCATAGTTGATATGTGTGAAAAAGTTATCATTTATGTTTGTTTAGAACTTTTTGTGCCATTAAA
130 TTCATAGTTGATATATGTGAAAAAGTTACCATTTATGTTTGTTTAGAACTTTTTGTGCCATTAAA
* * * *
17950918 AGGCAAAAATGCAAGTTT-CTAGTTATTGTTTTATTTTAACAATTTTGATAGCTACAATACATTA
195 AGGCAAAAATGCAAGTTTGCTAGTTATTGTTTTATTTTAACAGTTTAGATAGCTTCAATACATGA
* *** * * *
17950982 TATTAAACTTATTTGAATGATTAAACTTGGTTTCCACGATTG--ATGTGTGAAAAAGTTATGGTT
260 TATTAAACTTGTCCAAATGATTGAACTTGTTTTCCACGATTGATATGTGTGAAAAAGTTATCGTT
* * * * * * * *
17951045 TATGTTTGTTTTGGACTTTTTATGCTGTT-AAAGATCAAAATTGTAATTATGCAATTATTGTTCT
325 TATGTCTGTTTAGGACTTTTTGTGCTGTTAAAAG-GCAAAAATATAATTTTGCAGTTATTGTTCT
* * * *
17951109 GTTTTAATAGTTCAGAT-GCTTAAACACATGATATTAAAGTTATCTGAATGATTGAACTTGGTTT
389 -ATTTAACAGTTTAGATAGCTTAAATACATGATATTAAA-TT-TCTGAAT-ATTGAACTTGGTTT
* ** * * **
17951173 TCATGGTTTATATGTGTGAAAAAAGCT-GCGGTTTATGTCTT-TTTAGGACTTTTTACGCCATTG
450 CCAT-AATTATATGTGT-AAAAAAGTTATC-GTTTATGT-TTGTTTAGGACTTTTTGTGCCATT-
* * ** * * * * *
17951236 AAAAGCAAAAATGCAAGTTTGCTA-TTATTATTT-TGTTTTAACAA-TTTATATGGCTTTAGTAC
510 AAAGGTAAAAATATAATTTTGC-AGTTA-TATTTATG-TTTAA-AAGTTTAGATAGCTTCA-TAT
*
17951298 ATGATATTAAACTTATTTGAATGATTGAACTTGGTTTCCATGATTTATATGTGTG-AAAAGGTTA
570 ATGATATTAAACTTATTTGAAT-ATTGAACTTGGTTTCCATGATTTATATGTGTGAAAAAAGTTA
17951362 CT-A
634 -TGA
* ** *
17951365 TTTATATTTGTTTATCACTTTTTGTGTCGTTGAAAAGG-AAAAATGCAAGTTTGCAATTATTGTT
1 TTTATATCTGTTTAGAACTTTTTGTGTCATTG-AAAGGCAAAAATGCAAGTTTGCAATTATTGTT
*
17951429 CTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTCCAAATGATTGAACTTAGT
65 CTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTT-TCCGAATGATTGAACTTAGT
* *
17951494 TTTTATAGTTGATATATGTGAAAAAGTTACCATTTATGTTTGTTTAAAACTTTTTGTGCCATTAA
129 TTTCATAGTTGATATATGTGAAAAAGTTACCATTTATGTTTGTTTAGAACTTTTTGTGCCATTAA
* * * *
17951559 AAGGCAAAAATGCAAATTTGCTA-TTATTGTTCTATTTTAAGAGTTTGGATAGCTTCAATACATG
194 AAGGCAAAAATGCAAGTTTGCTAGTTATTGTTTTATTTTAACAGTTTAGATAGCTTCAATACATG
** * * *
17951623 ATATTAAACTTGTCCAAATGATTGATGTTCTTTTCCACGGTTGATATGTGTGAAAAA-TTATTGT
259 ATATTAAACTTGTCCAAATGATTGAACTTGTTTTCCACGATTGATATGTGTGAAAAAGTTATCGT
*
17951687 TTATGTCTGTTTAGGA-TATTTTGTGCTGTTAAAAGGCAAAAATATAATTTTGTAGTTATAT-TT
324 TTATGTCTGTTTAGGACT-TTTTGTGCTGTTAAAAGGCAAAAATATAATTTTGCAGTTAT-TGTT
* *
17951750 CTATTGAACAGTTTAGATAGCTTAAATACATGATATTAAACTTGTCTGAATAATTGAATTTGGTT
387 CTATTTAACAGTTTAGATAGCTTAAATACATGATATTAAA-TT-TCTGAAT-ATTGAACTTGGTT
* * * *
17951815 TCCATAATTGATATGTGTTAGAAAGTTATCGTTTATGTTTGTTTAGTACTTTTTGTACCATTAAA
449 TCCATAATT-ATATGTGTAAAAAAGTTATCGTTTATGTTTGTTTAGGACTTTTTGTGCCATTAAA
*
17951880 GGGTAAAAATATAATTTTGCAGTTATATTTATGCTTTAATAGTTTAGATAGCTTCAATATATGAT
513 -GGTAAAAATATAATTTTGCAGTTATATTTATG-TTTAAAAGTTTAGATAGCTTC-ATATATGAT
* *
17951945 ATTAAATTTGTTTGAATATTTGAACTT
575 ATTAAACTTATTTGAATA-TTGAACTT
17951972 AATTGTCATA
Statistics
Matches: 997, Mismatches: 176, Indels: 119
0.77 0.14 0.09
Matches are distributed among these distances:
604 13 0.01
605 29 0.03
606 40 0.04
607 15 0.02
608 224 0.22
609 24 0.02
615 1 0.00
618 1 0.00
619 1 0.00
622 12 0.01
623 3 0.00
624 8 0.01
625 53 0.05
626 13 0.01
627 1 0.00
630 1 0.00
631 1 0.00
633 1 0.00
634 1 0.00
635 1 0.00
637 2 0.00
639 1 0.00
641 15 0.02
642 374 0.38
643 145 0.15
644 17 0.02
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (636 bp):
TTTATATCTGTTTAGAACTTTTTGTGTCATTGAAAGGCAAAAATGCAAGTTTGCAATTATTGTTC
TATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTTCCGAATGATTGAACTTAGTTT
TCATAGTTGATATATGTGAAAAAGTTACCATTTATGTTTGTTTAGAACTTTTTGTGCCATTAAAA
GGCAAAAATGCAAGTTTGCTAGTTATTGTTTTATTTTAACAGTTTAGATAGCTTCAATACATGAT
ATTAAACTTGTCCAAATGATTGAACTTGTTTTCCACGATTGATATGTGTGAAAAAGTTATCGTTT
ATGTCTGTTTAGGACTTTTTGTGCTGTTAAAAGGCAAAAATATAATTTTGCAGTTATTGTTCTAT
TTAACAGTTTAGATAGCTTAAATACATGATATTAAATTTCTGAATATTGAACTTGGTTTCCATAA
TTATATGTGTAAAAAAGTTATCGTTTATGTTTGTTTAGGACTTTTTGTGCCATTAAAGGTAAAAA
TATAATTTTGCAGTTATATTTATGTTTAAAAGTTTAGATAGCTTCATATATGATATTAAACTTAT
TTGAATATTGAACTTGGTTTCCATGATTTATATGTGTGAAAAAAGTTATGA
Found at i:17951970 original size:481 final size:476
Alignment explanation
Indices: 17950682--17951972 Score: 1372
Period size: 481 Copynumber: 2.7 Consensus size: 476
17950672 CATGATATTA
* * * * *
17950682 AACTTGGTTTTCATGGTTTATGTGTGTGAAAAAAGTTATGGTTTATGTCTGTTTAGAACTTTTTG
1 AACTTGCTTTTCACGGTTGATATGTGTGAAAAAAGTTATGGTTTATGTCTGTTTAGGACTTTTTG
*
17950747 TG-TCATTGAAAGGCAAAAATGCAAGTTTGTAGTTATTATTTTATTGTAACAGTTTATATAGCTT
66 TGCT-ATTAAAAGGCAAAAATGCAAGTTTGTAGTTATTATTTTATTG-AACAGTTTATATAGCTT
* *
17950811 TAATACATGATATTAAACTTATTCGAATGATTGAACTTGGTTTTCATAGTTGATATGTGTGAAAA
129 TAATACATGATATTAAACTTATT-GAATGATTGAACTTGGTTTCCATAATTGATATGTGTG-AAA
*
17950876 AGTTATCATTTATGTTTGTTTAGAACTTTTTGTGCCATTAAAAGGCAAAAATGCAAGTTT-CTAG
192 AGTTATCATTTATGTTTGTTTAGTACTTTTTGTGCCATTAAAAGG-AAAAATGCAAGTTTGC-AG
* * * * * * *
17950940 TTATTGTTTTATTTTAACAATTTTGATAGCTACAATACATTATATTAAACTTATTTGAATGATTA
255 TTATT-ATTTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTTGAATGATTG
* * * *** ***
17951005 AACTTGGTTTCCACGATTGATGTGTGAAAAAGTTATGGTTTATGTTTGTTTTGGACTTTTTATGC
319 AACTTAGTTTCCAAGATTGATATGTGAAAAAGTTACCATTTATGTTTGTTTAAAACTTTTTATGC
** * * * * *
17951070 TGTTAAAGATCAAAATTGTAATTATGCAATTATTGTTCTGTTTTAATAGTTCAGATGCTTAAACA
384 CATTAAAGAGCAAAAATGAAATTATGCAATTATTGTTCTATTTTAAGAGTTCAGATGCTTAAACA
* **
17951135 CATGATATTAAAGTTATCTGAATGATTG
449 CATGATATTAAACTTATCCAAATGATTG
* * * * ** * *
17951163 AACTTGGTTTTCATGGTTTATATGTGTGAAAAAAGCTGCGGTTTATGTCTTTTTAGGACTTTTTA
1 AACTTGCTTTTCACGGTTGATATGTGTGAAAAAAGTTATGGTTTATGTCTGTTTAGGACTTTTTG
* * * * * *
17951228 CGCCATTGAAAA-GCAAAAATGCAAGTTTGCTA-TTATTATTTTGTTTTAACAATTTATATGGCT
66 TGCTATT-AAAAGGCAAAAATGCAAGTTTG-TAGTTATTATTTT-ATTGAACAGTTTATATAGCT
* * *
17951291 TTAGTACATGATATTAAACTTATTTGAATGATTGAACTTGGTTTCCATGATTTATATGTGTGAAA
128 TTAATACATGATATTAAACTTA-TTGAATGATTGAACTTGGTTTCCATAATTGATATGTGTGAAA
* * *
17951356 AGGTTA-CTATTTATATTTGTTTA-TCACTTTTTGTGTCGTTGAAAAGGAAAAATGCAAGTTTGC
192 A-GTTATC-ATTTATGTTTGTTTAGT-ACTTTTTGTGCCATT-AAAAGGAAAAATGCAAGTTTGC
* * ***
17951419 AATTATTGTTCTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTCCAAATGAT
253 AGTTATTATT-TATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTTGAATGAT
**
17951484 TGAACTTAGTTTTTATAG-TTGATATATGTGAAAAAGTTACCATTTATGTTTGTTTAAAACTTTT
317 TGAACTTAGTTTCCA-AGATTG--ATATGTGAAAAAGTTACCATTTATGTTTGTTTAAAACTTTT
* * **
17951548 TGTGCCATTAAA-AGGCAAAAATGCAAATT-TGCTATTATTGTTCTATTTTAAGAGTTTGGATAG
379 TATGCCATTAAAGA-GCAAAAATG-AAATTATGCAATTATTGTTCTATTTTAAGAGTTCAGAT-G
* * *
17951611 CTTCAATACATGATATTAAACTTGTCCAAATGATTG
441 CTTAAACACATGATATTAAACTTATCCAAATGATTG
** *
17951647 ATGTT-CTTTTCCACGGTTGATATGTGTG-AAAAA-TTATTGTTTATGTCTGTTTAGGA-TATTT
1 AACTTGCTTTT-CACGGTTGATATGTGTGAAAAAAGTTATGGTTTATGTCTGTTTAGGACT-TTT
* ** * *
17951708 TGTGCTGTTAAAAGGCAAAAATATAATTTTGTAGTTA-TATTTCTATTGAACAGTTTAGATAGCT
64 TGTGCTATTAAAAGGCAAAAATGCAAGTTTGTAGTTATTATTT-TATTGAACAGTTTATATAGCT
* * * * *
17951772 TAAATACATGATATTAAACTTGTCTGAATAATTGAATTTGGTTTCCATAATTGATATGTGTTAGA
128 TTAATACATGATATTAAACTTAT-TGAATGATTGAACTTGGTTTCCATAATTGATATGTGTGA-A
* * * ** *
17951837 AAGTTATCGTTTATGTTTGTTTAGTACTTTTTGTACCATTAAAGGGTAAAAATATAATTTTGCAG
191 AAGTTATCATTTATGTTTGTTTAGTACTTTTTGTGCCATTAAAAGG-AAAAATGCAAGTTTGCAG
* * *
17951902 TTA-TATTTATGCTTTAATAGTTTAGATAGCTTCAATATATGATATTAAATTTGTTTGAAT-ATT
255 TTATTATTTAT--TTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTTGAATGA-T
17951965 TGAACTTA
317 TGAACTTA
17951973 ATTGTCATAC
Statistics
Matches: 671, Mismatches: 109, Indels: 60
0.80 0.13 0.07
Matches are distributed among these distances:
479 3 0.00
480 17 0.03
481 445 0.66
482 67 0.10
483 86 0.13
484 53 0.08
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (476 bp):
AACTTGCTTTTCACGGTTGATATGTGTGAAAAAAGTTATGGTTTATGTCTGTTTAGGACTTTTTG
TGCTATTAAAAGGCAAAAATGCAAGTTTGTAGTTATTATTTTATTGAACAGTTTATATAGCTTTA
ATACATGATATTAAACTTATTGAATGATTGAACTTGGTTTCCATAATTGATATGTGTGAAAAGTT
ATCATTTATGTTTGTTTAGTACTTTTTGTGCCATTAAAAGGAAAAATGCAAGTTTGCAGTTATTA
TTTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTTGAATGATTGAACTTAG
TTTCCAAGATTGATATGTGAAAAAGTTACCATTTATGTTTGTTTAAAACTTTTTATGCCATTAAA
GAGCAAAAATGAAATTATGCAATTATTGTTCTATTTTAAGAGTTCAGATGCTTAAACACATGATA
TTAAACTTATCCAAATGATTG
Found at i:17953160 original size:19 final size:19
Alignment explanation
Indices: 17953118--17953161 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
17953108 ATAATATTCA
***
17953118 ATTTATGAATTTAATTCAT
1 ATTTATGAATTTAAAAAAT
*
17953137 TTTTATGAATTTAAAAAAT
1 ATTTATGAATTTAAAAAAT
17953156 ATTTAT
1 ATTTAT
17953162 TTTTTTATTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (19 bp):
ATTTATGAATTTAAAAAAT
Found at i:17953407 original size:33 final size:34
Alignment explanation
Indices: 17953351--17953420 Score: 108
Period size: 33 Copynumber: 2.1 Consensus size: 34
17953341 TTATGTTAAA
17953351 AAATGCCACTAAATTTAACGGCATTTT-GGGACAC
1 AAATGCCACTAAATTTAACGGCATTTTAGGG-CAC
*
17953385 AAATGCCTCTAAA-TTAACGGCATTTTAGGGCAC
1 AAATGCCACTAAATTTAACGGCATTTTAGGGCAC
17953418 AAA
1 AAA
17953421 CACCGCTAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 19 0.56
34 15 0.44
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (34 bp):
AAATGCCACTAAATTTAACGGCATTTTAGGGCAC
Found at i:17968229 original size:134 final size:133
Alignment explanation
Indices: 17968011--17968324 Score: 351
Period size: 134 Copynumber: 2.3 Consensus size: 133
17968001 TAAAGCAATG
* * * * * * * *
17968011 GTGTTTTTCTCATAAAAATACCATTAAATTAGCGGCATCTTAAAGATACAAATGCCCCTAATATA
1 GTGTTTTTCTCATAAAAATATCACTAAATTAGCGGCGTCTCAAAGAAAAAAACGCCACTAATATA
* * * *
17968076 AAGGCATTTTCAAATACAAACATCTCTAAAGTAGCGGCGTCTTCAGTTACAAATGCCACCAAACC
66 AAGGCATTTTCAAATACAAACACCTCTAAAGTAACGACGTCTTCAGTTACAAACGCCACCAAACC
17968141 AAC
131 AAC
*
17968144 AGTGTTTTTCTCATAAAAACT-TCACTAAATTAGCGGCGTCTCAAAGAAAAAAACGCTACTAATA
1 -GTGTTTTTCTCATAAAAA-TATCACTAAATTAGCGGCGTCTCAAAGAAAAAAACGCCACTAATA
* * * ** * * * *
17968208 TAGAGGTATTTTCATATACAAATGCCTCTAAAGTAATGATGTTTTCAGTTACAAACGCCACTAAA
64 TAAAGGCATTTTCAAATACAAACACCTCTAAAGTAACGACGTCTTCAGTTACAAACGCCACCAAA
*
17968273 GCAAC
129 CCAAC
* * * *
17968278 GTCGTTTTTCTCATAAAAATGTCACTAATTTAGTGACGTCTCAAAGA
1 GT-GTTTTTCTCATAAAAATATCACTAAATTAGCGGCGTCTCAAAGA
17968325 TATAAATGCC
Statistics
Matches: 151, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
133 3 0.02
134 147 0.97
135 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (133 bp):
GTGTTTTTCTCATAAAAATATCACTAAATTAGCGGCGTCTCAAAGAAAAAAACGCCACTAATATA
AAGGCATTTTCAAATACAAACACCTCTAAAGTAACGACGTCTTCAGTTACAAACGCCACCAAACC
AAC
Found at i:17969594 original size:2 final size:2
Alignment explanation
Indices: 17969587--17969611 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17969577 TTTCTTTCTT
17969587 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 T
17969612 TTGAATTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17970405 original size:203 final size:202
Alignment explanation
Indices: 17969971--17970557 Score: 704
Period size: 202 Copynumber: 2.9 Consensus size: 202
17969961 TTTAAATCTG
*
17969971 TTTTGAAATTCGTTGTTTTGACCTCTTTGTGGTTTTTGGATAAGTAT-TTGATGAATTCTAATTT
1 TTTTGAAATTCGTAGTTTTGACCTCTTTGTGGTTTTTGGATAAGT-TCTTGATGAATTCTAATTT
* * * * * *
17970035 GTTTTGAGTCAAAATTTTTTTGTTAAATTTCTAACTCATAGATCTTCAATTTT-AAAAAAAGTTA
65 GTTTTAAGCCAAAAATTTTTTGTTAAATTCCTAGCTCATAGATCTTTAATTTTGAAAAAAA-TTA
* * * * *
17970099 GCTTTAAATTCAATCCACACAAGCACAGAAAATTCTTCAAAATCACGCCTAGACTTAGTTGACAG
129 GCTTCAAATTCAATCCACACAAGTACAGAAAATTCTTCAAAGTCACGCCTAAACTTAGTTAACAG
17970164 ATTAATTCA
194 ATTAATTCA
**
17970173 TTTTGAAATTCACAGTTTTGACCTCTTTGTGGTTTTTGGATAAGTTCTTGATGAATTCTAATTTG
1 TTTTGAAATTCGTAGTTTTGACCTCTTTGTGGTTTTTGGATAAGTTCTTGATGAATTCTAATTTG
* * * *
17970238 TTTTAAGCCAAAAGTTTTTTGTTAGATTCCTGGCTCATATATCTTTAATTTTGGAAAAAAATTAG
66 TTTTAAGCCAAAAATTTTTTGTTAAATTCCTAGCTCATAGATCTTTAATTTT-GAAAAAAATTAG
* * * *
17970303 CTTCAAATTCCATCCACACAAGTATAGAAAATTCTTCAAAGTCATGCCTAAACTTAGTTAACATA
130 CTTCAAATTCAATCCACACAAGTACAGAAAATTCTTCAAAGTCACGCCTAAACTTAGTTAACAGA
*
17970368 TTAGTTC-
195 TTAATTCA
* * * * * ** *
17970375 TTTTAGAAATTCGTGGTTTTGATCTCTTTGTGGTTTTTGAATCAGTTCTTGATGAATTTTAGCTA
1 TTTT-GAAATTCGTAGTTTTGACCTCTTTGTGGTTTTTGGATAAGTTCTTGATGAATTCTAATTT
* * *
17970440 G--TTAAGCAAAAAATTTTTT-TATCAAATTCCTAAG-TCATAGATTTTTATTTTTGAAAAAAAT
65 GTTTTAAGCCAAAAATTTTTTGT-T-AAATTCCT-AGCTCATAGATCTTTAATTTTGAAAAAAAT
* * * *
17970501 TAGCTTCATATTCTATCCAAACAAGTACA-AAAATTTCTCCAAAGTCACGCCTAAACT
127 TAGCTTCAAATTCAATCCACACAAGTACAGAAAA-TTCTTCAAAGTCACGCCTAAACT
17970558 CGGTTTCATC
Statistics
Matches: 332, Mismatches: 45, Indels: 17
0.84 0.11 0.04
Matches are distributed among these distances:
200 5 0.02
201 73 0.22
202 129 0.39
203 118 0.36
204 7 0.02
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (202 bp):
TTTTGAAATTCGTAGTTTTGACCTCTTTGTGGTTTTTGGATAAGTTCTTGATGAATTCTAATTTG
TTTTAAGCCAAAAATTTTTTGTTAAATTCCTAGCTCATAGATCTTTAATTTTGAAAAAAATTAGC
TTCAAATTCAATCCACACAAGTACAGAAAATTCTTCAAAGTCACGCCTAAACTTAGTTAACAGAT
TAATTCA
Found at i:17971825 original size:11 final size:11
Alignment explanation
Indices: 17971811--17971843 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
17971801 ATCTTGTAAT
17971811 TATCTTCCATA
1 TATCTTCCATA
17971822 TATCTTCCATA
1 TATCTTCCATA
17971833 TATCTTCCATA
1 TATCTTCCATA
17971844 GTTCCCTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.45
Consensus pattern (11 bp):
TATCTTCCATA
Found at i:17977344 original size:22 final size:21
Alignment explanation
Indices: 17977319--17977377 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
17977309 TATTTAATTT
17977319 AAAAATAAAAAAAATAATTGTA
1 AAAAAT-AAAAAAATAATTGTA
*
17977341 AAAAATCAAAAAATAATTGTA
1 AAAAATAAAAAAATAATTGTA
*
17977362 AAAAATCAAAAAATAA
1 AAAAATAAAAAAATAA
17977378 AAAAAATGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
21 30 0.83
22 6 0.17
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.20
Consensus pattern (21 bp):
AAAAATAAAAAAATAATTGTA
Found at i:17977375 original size:21 final size:21
Alignment explanation
Indices: 17977327--17977377 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
17977317 TTAAAAATAA
17977327 AAAAAATAATTGTAAAAAATC
1 AAAAAATAATTGTAAAAAATC
17977348 AAAAAATAATTGTAAAAAATC
1 AAAAAATAATTGTAAAAAATC
17977369 AAAAAATAA
1 AAAAAATAA
17977378 AAAAAATGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.22
Consensus pattern (21 bp):
AAAAAATAATTGTAAAAAATC
Found at i:17977840 original size:19 final size:19
Alignment explanation
Indices: 17977818--17977864 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
17977808 TATTTTTATT
17977818 TTTAAAAAATATTA-ATATA
1 TTTAAAAAA-ATTATATATA
*
17977837 TTTATAAAAAATTATATCTA
1 TTTA-AAAAAATTATATATA
*
17977857 TGTAAAAA
1 TTTAAAAA
17977865 TAAAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TTTAAAAAAATTATATATA
Found at i:18001252 original size:20 final size:23
Alignment explanation
Indices: 18001202--18001258 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 23
18001192 TAATTGAAAT
*
18001202 GAAATAAATGAAATAGAAATATTA
1 GAAATATAT-AAATAGAAATATTA
18001226 GAAATATATAAATAG-AATA-TA
1 GAAATATATAAATAGAAATATTA
18001247 -AAATATATAAAT
1 GAAATATATAAAT
18001259 TCAATAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 12 0.38
21 2 0.06
22 4 0.12
23 6 0.19
24 8 0.25
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (23 bp):
GAAATATATAAATAGAAATATTA
Found at i:18001264 original size:20 final size:20
Alignment explanation
Indices: 18001227--18001264 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18001217 GAAATATTAG
*
18001227 AAATATATAAATAGAATATA
1 AAATATATAAATACAATATA
*
18001247 AAATATATAAATTCAATA
1 AAATATATAAATACAATA
18001265 ATAAGTCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (20 bp):
AAATATATAAATACAATATA
Found at i:18001280 original size:18 final size:17
Alignment explanation
Indices: 18001259--18001344 Score: 79
Period size: 18 Copynumber: 4.9 Consensus size: 17
18001249 ATATATAAAT
18001259 TCAATAATAAGTCAATAG
1 TCAATAATAAGT-AATAG
18001277 TCAATAATAAGATAATA-
1 TCAATAATAAG-TAATAG
* * *
18001294 -CTATAATAA-TATAAAT
1 TCAATAATAAGTA-ATAG
18001310 TCAATAATAAGTTAATAG
1 TCAATAATAAG-TAATAG
18001328 TCAATAATAAGATAATA
1 TCAATAATAAG-TAATA
18001345 AGAAAGAATA
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
14 2 0.04
15 2 0.04
16 8 0.14
17 8 0.14
18 33 0.59
19 3 0.05
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (17 bp):
TCAATAATAAGTAATAG
Found at i:18001320 original size:51 final size:50
Alignment explanation
Indices: 18001251--18001366 Score: 187
Period size: 51 Copynumber: 2.3 Consensus size: 50
18001241 AATATAAAAT
** *
18001251 ATATAAATTCAATAATAAGTCAATAGTCAATAATAAGATAATACTATAATA
1 ATATAAATTCAATAATAAGTCAATAGTCAATAATAAGATAATAAGA-AAGA
*
18001302 ATATAAATTCAATAATAAGTTAATAGTCAATAATAAGATAATAAGAAAGA
1 ATATAAATTCAATAATAAGTCAATAGTCAATAATAAGATAATAAGAAAGA
18001352 ATATAAATTCAATAA
1 ATATAAATTCAATAA
18001367 AAAGAAATAA
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 18 0.30
51 43 0.70
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.30
Consensus pattern (50 bp):
ATATAAATTCAATAATAAGTCAATAGTCAATAATAAGATAATAAGAAAGA
Found at i:18002554 original size:190 final size:191
Alignment explanation
Indices: 18002221--18002602 Score: 595
Period size: 190 Copynumber: 2.0 Consensus size: 191
18002211 TTTTCATGGT
* *
18002221 AGGTTAGTATAAGATGTTAGACAAGCTCCTATGTCAAACAAAATTCTTTTGACCATATATACACC
1 AGGTTAGTATAAGATGTTAGACAAGCTCCCATGTCAAAAAAAATTCTTTTGACCATATATACACC
* * * *
18002286 ACTATTGTAATTTCTATGGCATTATTATGAAGATGTTGAATACCTTTTAAATTTTCTGTATTAAA
66 ACTATTGTAATTACTATGGCATTATTAAGAAGATGTTGAATACCATTTAAATTTTCTGTACTAAA
*
18002351 GCAAATCAGTTCATCCTTCAAA-TTTTTTCTTTTTTGGTCGAAAAGCCAAATGCCATAACC
131 GCAAATCAGTTCATCCTTCAAATTTTTTTCTATTTTGGTCGAAAAGCCAAATGCCATAACC
*
18002411 AGGTTAGTATAAGATGTTAGCCAAGCTCCCATGTCAAAAAAAATTCTTTTGACCATATATACACC
1 AGGTTAGTATAAGATGTTAGACAAGCTCCCATGTCAAAAAAAATTCTTTTGACCATATATACACC
* * *
18002476 ACTATTGTAATTACTATGGCATTATTAAGAAGATGTTGAATCCCATTTAGATTTTCTGTACTGAA
66 ACTATTGTAATTACTATGGCATTATTAAGAAGATGTTGAATACCATTTAAATTTTCTGTACTAAA
* * * * ** *
18002541 GTAAATTAGTTCATTCTTTAAATTTTTTTCTATTTTGGTCGAGGAGCCAACTGCCATAACC
131 GCAAATCAGTTCATCCTTCAAATTTTTTTCTATTTTGGTCGAAAAGCCAAATGCCATAACC
18002602 A
1 A
18002603 AGCCCTTATC
Statistics
Matches: 173, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
190 138 0.80
191 35 0.20
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.37
Consensus pattern (191 bp):
AGGTTAGTATAAGATGTTAGACAAGCTCCCATGTCAAAAAAAATTCTTTTGACCATATATACACC
ACTATTGTAATTACTATGGCATTATTAAGAAGATGTTGAATACCATTTAAATTTTCTGTACTAAA
GCAAATCAGTTCATCCTTCAAATTTTTTTCTATTTTGGTCGAAAAGCCAAATGCCATAACC
Found at i:18003138 original size:13 final size:13
Alignment explanation
Indices: 18003120--18003144 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18003110 ATTCCTTATC
18003120 TTTTTTCATGGTT
1 TTTTTTCATGGTT
18003133 TTTTTTCATGGT
1 TTTTTTCATGGT
18003145 AGCTTCAGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.08, G:0.16, T:0.68
Consensus pattern (13 bp):
TTTTTTCATGGTT
Found at i:18005946 original size:43 final size:42
Alignment explanation
Indices: 18005898--18005980 Score: 100
Period size: 41 Copynumber: 2.0 Consensus size: 42
18005888 TTTTCTCCAT
18005898 TTTTTCACACTTTTTTATTC-TTTTC-TTTCTTATTCAT-TTTTAC
1 TTTTTCA-A-TTTTTTATTCATTTTCATTT-TT-TTCATATTTTAC
*
18005941 TTTTTCAATTTTTTTTTCATTTTCATTTTTTTCATATTTT
1 TTTTTCAATTTTTTATTCATTTTCATTTTTTTCATATTTT
18005981 TATATTTCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
41 14 0.39
42 12 0.33
43 10 0.28
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (42 bp):
TTTTTCAATTTTTTATTCATTTTCATTTTTTTCATATTTTAC
Found at i:18005954 original size:17 final size:16
Alignment explanation
Indices: 18005934--18006002 Score: 50
Period size: 18 Copynumber: 4.0 Consensus size: 16
18005924 TTCTTATTCA
*
18005934 TTTTTACTTTTTCAATTT
1 TTTTTTCTTTTTCAA--T
*
18005952 TTTTTTCATTTTC-AT
1 TTTTTTCTTTTTCAAT
*
18005967 TTTTTTCATATTTTTATAT
1 TTTTTTC-T-TTTTCA-AT
18005986 TTCTTTTCTTTTTCAAT
1 TT-TTTTCTTTTTCAAT
18006003 ACTTCACTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
15 8 0.20
17 7 0.17
18 16 0.39
19 5 0.12
20 5 0.12
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTTCTTTTTCAAT
Found at i:18005959 original size:26 final size:28
Alignment explanation
Indices: 18005930--18006002 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 28
18005920 TTCTTTCTTA
18005930 TTCATTTTTACTTTTTCAATTTTT-T-T
1 TTCATTTTTACTTTTTCAATTTTTATAT
* *
18005956 TTCATTTTCATTTTTTTCATATTTTTATAT
1 TTCATTTTTA-CTTTTTCA-ATTTTTATAT
18005986 TTC--TTTT-CTTTTTCAAT
1 TTCATTTTTACTTTTTCAAT
18006003 ACTTCACTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
25 2 0.05
26 16 0.41
27 7 0.18
28 9 0.23
29 1 0.03
30 4 0.10
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.71
Consensus pattern (28 bp):
TTCATTTTTACTTTTTCAATTTTTATAT
Found at i:18006454 original size:20 final size:20
Alignment explanation
Indices: 18006429--18006472 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
18006419 AAACCCTAAA
18006429 CTAACTTAAATCCTTAGACC
1 CTAACTTAAATCCTTAGACC
18006449 CTAACTTAAATCCTTAGACC
1 CTAACTTAAATCCTTAGACC
18006469 CTAA
1 CTAA
18006473 ATCAACCTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.30, G:0.05, T:0.30
Consensus pattern (20 bp):
CTAACTTAAATCCTTAGACC
Found at i:18006524 original size:17 final size:17
Alignment explanation
Indices: 18006468--18006525 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 17
18006458 ATCCTTAGAC
*
18006468 CCTAAATCAACCTCTAAA
1 CCTAAAGCAACC-CTAAA
18006486 CCTTAAAGCAA-CCTAAA
1 CC-TAAAGCAACCCTAAA
18006503 CCCTAAA-CTAACCCTAAA
1 -CCTAAAGC-AACCCTAAA
18006521 CCTAA
1 CCTAA
18006526 CTTAAACTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
16 1 0.03
17 16 0.46
18 11 0.31
19 7 0.20
ACGTcount: A:0.45, C:0.34, G:0.02, T:0.19
Consensus pattern (17 bp):
CCTAAAGCAACCCTAAA
Found at i:18006579 original size:20 final size:19
Alignment explanation
Indices: 18006416--18006580 Score: 84
Period size: 20 Copynumber: 9.0 Consensus size: 19
18006406 CAAACCAACC
*
18006416 CTTAAACCCTAAA--CTAA
1 CTTAAACCTTAAACCCTAA
*
18006433 CTTAAATCCTTAGACCCTAA
1 CTTAAA-CCTTAAACCCTAA
*
18006453 CTTAAATCCTTAGACCCTAA
1 CTTAAA-CCTTAAACCCTAA
* * *
18006473 -ATCAACCTCTAAACCTTAA
1 CTTAAACCT-TAAACCCTAA
***
18006492 -AGCAACC-TAAACCCTAAA
1 CTTAAACCTTAAACCCT-AA
*
18006510 C-T-AACCCTAAA-CCTAA
1 CTTAAACCTTAAACCCTAA
18006526 CTTAAA-C-TAAA-CC-AA
1 CTTAAACCTTAAACCCTAA
* *
18006541 CCTAAATCCTTAAAGCCTAA
1 CTTAAA-CCTTAAACCCTAA
18006561 CTTAAACCCTTAAACCCTAA
1 CTTAAA-CCTTAAACCCTAA
18006581 ACTAACCTTT
Statistics
Matches: 121, Mismatches: 13, Indels: 25
0.76 0.08 0.16
Matches are distributed among these distances:
15 7 0.06
16 9 0.07
17 23 0.19
18 20 0.17
19 19 0.16
20 43 0.36
ACGTcount: A:0.42, C:0.32, G:0.02, T:0.24
Consensus pattern (19 bp):
CTTAAACCTTAAACCCTAA
Found at i:18006653 original size:28 final size:27
Alignment explanation
Indices: 18006622--18006691 Score: 77
Period size: 28 Copynumber: 2.6 Consensus size: 27
18006612 TTAAAATCCC
* *
18006622 AAACTAAACCAAACCAACCTAAAATCTT
1 AAACCAAACCAAACCAACCCAAAA-CTT
** * *
18006650 AAACCAAGTCAGACCAACCCCAAACTT
1 AAACCAAACCAAACCAACCCAAAACTT
18006677 AAACCAAACCAAACC
1 AAACCAAACCAAACC
18006692 TTCCCTTCAA
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
27 15 0.45
28 18 0.55
ACGTcount: A:0.51, C:0.34, G:0.03, T:0.11
Consensus pattern (27 bp):
AAACCAAACCAAACCAACCCAAAACTT
Found at i:18006993 original size:18 final size:18
Alignment explanation
Indices: 18006970--18007060 Score: 96
Period size: 18 Copynumber: 5.0 Consensus size: 18
18006960 ATCCCAAATG
18006970 CCTAAACCTTAACCAAAC
1 CCTAAACCTTAACCAAAC
*
18006988 CCTAAATCTTAACCAAAC
1 CCTAAACCTTAACCAAAC
* *
18007006 CCCAAACCCTAACCAAAC
1 CCTAAACCTTAACCAAAC
* *
18007024 CATAAATCC-TAACTAAAC
1 CCTAAA-CCTTAACCAAAC
18007042 TCC-AAACCTTAAACCAAAC
1 -CCTAAACCTT-AACCAAAC
18007061 TTTAAACTCT
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
17 2 0.03
18 48 0.80
19 10 0.17
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.16
Consensus pattern (18 bp):
CCTAAACCTTAACCAAAC
Found at i:18007013 original size:36 final size:36
Alignment explanation
Indices: 18006973--18007060 Score: 122
Period size: 36 Copynumber: 2.4 Consensus size: 36
18006963 CCAAATGCCT
* *
18006973 AAACCTTAACCAAACCCTAAATCTTAACCAAACCCC
1 AAACCTTAACCAAACCATAAATCCTAACCAAACCCC
* * *
18007009 AAACCCTAACCAAACCATAAATCCTAACTAAACTCC
1 AAACCTTAACCAAACCATAAATCCTAACCAAACCCC
18007045 AAACCTTAAACCAAAC
1 AAACCTT-AACCAAAC
18007061 TTTAAACTCT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
36 37 0.82
37 8 0.18
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (36 bp):
AAACCTTAACCAAACCATAAATCCTAACCAAACCCC
Found at i:18008032 original size:19 final size:19
Alignment explanation
Indices: 18008009--18008120 Score: 81
Period size: 19 Copynumber: 5.9 Consensus size: 19
18007999 GAAAATCTTA
18008009 AAAAATTCTAAAAATTTTT
1 AAAAATTCTAAAAATTTTT
* ** **
18008028 TAAAACCCTAAAAATTTCA
1 AAAAATTCTAAAAATTTTT
18008047 AAATAATTCT--AAATTTCTT
1 AAA-AATTCTAAAAATTT-TT
*
18008066 AAAAAATTTCTAAAAAATTTT
1 -AAAAA-TTCTAAAAATTTTT
18008087 -AAAATTCTGAAAAA-TTTT
1 AAAAATTCT-AAAAATTTTT
*
18008105 AAAAATT-AAAAAATTT
1 AAAAATTCTAAAAATTT
18008121 CAAAATTTTA
Statistics
Matches: 72, Mismatches: 12, Indels: 19
0.70 0.12 0.18
Matches are distributed among these distances:
17 5 0.07
18 16 0.22
19 33 0.46
20 11 0.15
21 2 0.03
22 5 0.07
ACGTcount: A:0.54, C:0.08, G:0.01, T:0.38
Consensus pattern (19 bp):
AAAAATTCTAAAAATTTTT
Found at i:18008073 original size:30 final size:30
Alignment explanation
Indices: 18008037--18008110 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
18008027 TTAAAACCCT
* *
18008037 AAAAATTTCAAAATAATTCTAAATTTCTTA
1 AAAAATTTCAAAATAATTCTAAAATTCTGA
*
18008067 AAAAATTTCTAAAA-AATTTTAAAATTCTGA
1 AAAAATTTC-AAAATAATTCTAAAATTCTGA
* *
18008097 AAAATTTTAAAAAT
1 AAAAATTTCAAAAT
18008111 TAAAAAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 4 0.11
30 29 0.78
31 4 0.11
ACGTcount: A:0.54, C:0.07, G:0.01, T:0.38
Consensus pattern (30 bp):
AAAAATTTCAAAATAATTCTAAAATTCTGA
Found at i:18008081 original size:11 final size:11
Alignment explanation
Indices: 18008057--18008109 Score: 53
Period size: 11 Copynumber: 5.2 Consensus size: 11
18008047 AAATAATTCT
18008057 AAATTTCTTAAA
1 AAATTTC-TAAA
18008069 AAATTTCTAAA
1 AAATTTCTAAA
18008080 AAATTT-T--A
1 AAATTTCTAAA
*
18008088 AAA-TTCTGAA
1 AAATTTCTAAA
18008098 AAATTT-TAAA
1 AAATTTCTAAA
18008108 AA
1 AA
18008110 TTAAAAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
7 2 0.06
8 5 0.14
10 10 0.28
11 12 0.33
12 7 0.19
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.38
Consensus pattern (11 bp):
AAATTTCTAAA
Found at i:18008099 original size:18 final size:18
Alignment explanation
Indices: 18008068--18008127 Score: 77
Period size: 18 Copynumber: 3.3 Consensus size: 18
18008058 AATTTCTTAA
18008068 AAAATTTCTAAAAAATTTT
1 AAAA-TTCTAAAAAATTTT
*
18008087 AAAATTCTGAAAAATTTT
1 AAAATTCTAAAAAATTTT
* *
18008105 AAAAAT-TAAAAAATTTC
1 AAAATTCTAAAAAATTTT
18008122 AAAATT
1 AAAATT
18008128 TTAGTGAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
17 14 0.39
18 18 0.50
19 4 0.11
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (18 bp):
AAAATTCTAAAAAATTTT
Found at i:18008119 original size:58 final size:58
Alignment explanation
Indices: 18008004--18008121 Score: 134
Period size: 58 Copynumber: 2.0 Consensus size: 58
18007994 AAAAAGAAAA
* **
18008004 TCTTAAAAAATTCTAAAAATTTTTTAAAACCCTAAAAATTTCAAAATAATTCTAAATT
1 TCTTAAAAAATTCTAAAAATATTTTAAAACCCTAAAAATTTCAAAATAATTAAAAATT
** *
18008062 TCTTAAAAAATTTCTAAAAA-ATTTTAAAATTCTGAAAAATTT-TAAA-AATTAAAAAATT
1 TCTTAAAAAA-TTCTAAAAATATTTTAAAACCCT-AAAAATTTCAAAATAATT-AAAAATT
18008120 TC
1 TC
18008122 AAAATTTTAG
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
57 4 0.08
58 30 0.59
59 17 0.33
ACGTcount: A:0.52, C:0.09, G:0.01, T:0.38
Consensus pattern (58 bp):
TCTTAAAAAATTCTAAAAATATTTTAAAACCCTAAAAATTTCAAAATAATTAAAAATT
Found at i:18008162 original size:19 final size:18
Alignment explanation
Indices: 18008009--18008182 Score: 72
Period size: 19 Copynumber: 9.3 Consensus size: 18
18007999 GAAAATCTTA
*
18008009 AAAAATTCTAAAAATTTTT
1 AAAAATTCTAAAAA-TTTC
* **
18008028 TAAAACCCTAAAAATTTC
1 AAAAATTCTAAAAATTTC
** *
18008046 AAAATAATTCTAAATTTCTTA
1 -AAA-AATTCTAAAAAT-TTC
18008067 AAAAATTTCTAAAAAATTT-
1 AAAAA-TTCT-AAAAATTTC
* *
18008086 TAAAATTCTGAAAAATTTT
1 AAAAATTCT-AAAAATTTC
*
18008105 AAAAATT-AAAAAATTTC
1 AAAAATTCTAAAAATTTC
* *
18008122 -AAAATTTTAGTGAAAA-AT-
1 AAAAATTCTA---AAAATTTC
18008140 AAAAAGTTCTAAAAATTTC
1 AAAAA-TTCTAAAAATTTC
*
18008159 AAAAAAATT-TCAAAATTTC
1 --AAAAATTCTAAAAATTTC
18008178 AAAAA
1 AAAAA
18008183 AAATCAAAAC
Statistics
Matches: 117, Mismatches: 22, Indels: 34
0.68 0.13 0.20
Matches are distributed among these distances:
16 6 0.05
17 18 0.15
18 16 0.14
19 39 0.33
20 27 0.23
21 11 0.09
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.34
Consensus pattern (18 bp):
AAAAATTCTAAAAATTTC
Found at i:18008189 original size:18 final size:18
Alignment explanation
Indices: 18008151--18008209 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
18008141 AAAAGTTCTA
*
18008151 AAAATTTCAAAAAAATTTC
1 AAAATTTCAAAAAAA-ATC
18008170 AAAATTTCAAAAAAAATC
1 AAAATTTCAAAAAAAATC
*
18008188 AAAACTT-AATAAAAAATAC
1 AAAATTTCAA-AAAAAAT-C
18008207 AAA
1 AAA
18008210 TACAAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.06
18 15 0.42
19 19 0.53
ACGTcount: A:0.66, C:0.10, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAATTTCAAAAAAAATC
Found at i:18008328 original size:20 final size:20
Alignment explanation
Indices: 18008305--18008350 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
18008295 TTTTTTTTGT
18008305 AAAATTCTAAAAAAT-TTTCA
1 AAAATTCTAAAAAATGTTT-A
*
18008325 AAAATTGTAAAAAATGTTTA
1 AAAATTCTAAAAAATGTTTA
18008345 AAAATT
1 AAAATT
18008351 TTTCCTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (20 bp):
AAAATTCTAAAAAATGTTTA
Found at i:18008459 original size:19 final size:18
Alignment explanation
Indices: 18008429--18008499 Score: 63
Period size: 19 Copynumber: 3.9 Consensus size: 18
18008419 TTTTATTTTA
*
18008429 TTTTTAAGTTTTCAAAAT
1 TTTTTAATTTTTCAAAAT
*
18008447 TTTATTAATTTTTTAAAAT
1 TTT-TTAATTTTTCAAAAT
* * * *
18008466 GTTTCAAATTTT-GAAAT
1 TTTTTAATTTTTCAAAAT
*
18008483 TATTTAATTTTTCAAAA
1 TTTTTAATTTTTCAAAA
18008500 AATTTAAAAA
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
17 12 0.30
18 13 0.32
19 15 0.38
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (18 bp):
TTTTTAATTTTTCAAAAT
Found at i:18008536 original size:21 final size:20
Alignment explanation
Indices: 18008511--18008555 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
18008501 ATTTAAAAAT
*
18008511 TTTTAGAATTTTTTTTTTAAC
1 TTTTA-AATTTTTTTTTTAAA
*
18008532 TTTTAAGTTTTTTTTTTAAA
1 TTTTAAATTTTTTTTTTAAA
18008552 TTTT
1 TTTT
18008556 CATATTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (20 bp):
TTTTAAATTTTTTTTTTAAA
Found at i:18008584 original size:21 final size:21
Alignment explanation
Indices: 18008501--18008584 Score: 55
Period size: 21 Copynumber: 4.0 Consensus size: 21
18008491 TTTTCAAAAA
18008501 ATTTAAAAATTTTTAGAATTTT
1 ATTTAAAAATTTTTA-AATTTT
*** * *
18008523 -TTTTTTAACTTTTAAGTTTT
1 ATTTAAAAATTTTTAAATTTT
* ** * *
18008543 TTTTTTAAATTTTCATA-TTT
1 ATTTAAAAATTTTTAAATTTT
18008563 ATTTAAAAATTTTTAAATTTT
1 ATTTAAAAATTTTTAAATTTT
18008584 A
1 A
18008585 AAGAAAATTT
Statistics
Matches: 45, Mismatches: 15, Indels: 5
0.69 0.23 0.08
Matches are distributed among these distances:
20 20 0.44
21 25 0.56
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (21 bp):
ATTTAAAAATTTTTAAATTTT
Found at i:18008698 original size:18 final size:18
Alignment explanation
Indices: 18008616--18008701 Score: 63
Period size: 18 Copynumber: 4.8 Consensus size: 18
18008606 AATTTCTATT
18008616 TTTTTAAG-ATTTTAGAA
1 TTTTTAAGAATTTTAGAA
*
18008633 TTTTTTAA-AATTTCTAAAA
1 -TTTTTAAGAATTT-TAGAA
* *
18008652 TTGTT-GGAATTTTTA-AA
1 TTTTTAAGAA-TTTTAGAA
* * *
18008669 ATTTAAAAAATTTTAGAA
1 TTTTTAAGAATTTTAGAA
18008687 TTTTTAAGAATTTTA
1 TTTTTAAGAATTTTA
18008702 AACGTTTTTT
Statistics
Matches: 51, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
17 9 0.18
18 35 0.69
19 7 0.14
ACGTcount: A:0.40, C:0.01, G:0.08, T:0.51
Consensus pattern (18 bp):
TTTTTAAGAATTTTAGAA
Found at i:18008709 original size:27 final size:25
Alignment explanation
Indices: 18008617--18008703 Score: 102
Period size: 27 Copynumber: 3.3 Consensus size: 25
18008607 ATTTCTATTT
*
18008617 TTTTAAGATTTTAGAATTTTTTAAAA
1 TTTTAAAATTTTAGAA-TTTTTAAAA
*
18008643 TTTCTAAAATTGTTGGAATTTTTAAAA
1 TTT-TAAAATT-TTAGAATTTTTAAAA
*
18008670 TTTAAAAAATTTTAGAATTTTTAAGAA
1 TTT-TAAAATTTTAGAATTTTTAA-AA
18008697 TTTTAAA
1 TTTTAAA
18008704 CGTTTTTTGG
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
26 18 0.35
27 29 0.56
28 5 0.10
ACGTcount: A:0.41, C:0.01, G:0.08, T:0.49
Consensus pattern (25 bp):
TTTTAAAATTTTAGAATTTTTAAAA
Found at i:18009644 original size:27 final size:27
Alignment explanation
Indices: 18009606--18009657 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
18009596 TGAGATTATG
*
18009606 ATAGGATAAGATAAAATGATATTATAA
1 ATAGGATAAGATAAAATAATATTATAA
* *
18009633 ATAGGATTAGATTAAATAATATTAT
1 ATAGGATAAGATAAAATAATATTAT
18009658 CTTATCTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.35
Consensus pattern (27 bp):
ATAGGATAAGATAAAATAATATTATAA
Found at i:18011776 original size:16 final size:17
Alignment explanation
Indices: 18011755--18011790 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
18011745 AGTCAAATTT
*
18011755 AAAATATTAATAAAG-A
1 AAAATATTAAAAAAGTA
18011771 AAAATATTAAAAAAGTA
1 AAAATATTAAAAAAGTA
18011788 AAA
1 AAA
18011791 CTAAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (17 bp):
AAAATATTAAAAAAGTA
Found at i:18011798 original size:39 final size:39
Alignment explanation
Indices: 18011755--18011836 Score: 107
Period size: 39 Copynumber: 2.1 Consensus size: 39
18011745 AGTCAAATTT
18011755 AAAATATT-AATAAAGA-AAAATATT-AAAAAAGTAAAACTA
1 AAAATATTAAAT-AAGATAAAATATTCAAAAAA--AAAACTA
*
18011794 AAAATATTAAATAAGATGAAATATTCAAAAAAAAAACTA
1 AAAATATTAAATAAGATAAAATATTCAAAAAAAAAACTA
18011833 AAAA
1 AAAA
18011837 AAGACAATGA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
39 23 0.59
40 10 0.26
41 6 0.15
ACGTcount: A:0.70, C:0.04, G:0.05, T:0.22
Consensus pattern (39 bp):
AAAATATTAAATAAGATAAAATATTCAAAAAAAAAACTA
Found at i:18033927 original size:143 final size:142
Alignment explanation
Indices: 18033523--18034004 Score: 361
Period size: 143 Copynumber: 3.4 Consensus size: 142
18033513 AATCAACTTT
* * * * * *
18033523 GAAAAGGTCAAATTATAAAAATATCCCTAAAGGGTATTTTGATAATTTCATACCTTTTAAAGGTG
1 GAAAAAGTCAAATTATGAAAATACCCCTAAAAGGTATTTTGATAATTTCACA-CTTTTCAAGGTG
* * * * * *
18033588 TGATC-GAGGTTTTTAATGCATCAAAAATCATGAAATAATTTGTAAATATAATTTGGAATGTTTT
65 TGATCAG-GGTTTTTAATGCATCAAAAATCATCAAATTATTT-TAATTATGATCTAG-ATGTTTT
*
18033652 GCAAAAAATCGACCTT
127 GCAAAAAATCGACCTC
* * * * **
18033668 GAGAATGTCAAATTACGAAAATACCCCT-AAAGGATATTTAG-TAATTTCACA-TATTTCGTGGT
1 GAAAAAGTCAAATTATGAAAATACCCCTAAAAGG-TATTTTGATAATTTCACACT-TTTCAAGGT
* *** * ** ** **
18033730 GTGATGAAAATTTTTAATGCATAAAAAAAGATCAAATTATGTCAAATTGGGATCTAGA-GCTTTC
64 GTGATCAGGGTTTTTAATGCATCAAAAATCATCAAATTAT-TTTAATTATGATCTAGATG-TTT-
* *
18033794 TGCTAAAAATTGACCTC
126 TGCAAAAAATCGACCTC
* ** *
18033811 GAAAAAGTCAAATTATGAAAATA-CCTTAAAAGGTATTTTGATAATTTCACACTTTTCAACATGC
1 GAAAAAGTCAAATTATGAAAATACCCCTAAAAGGTATTTTGATAATTTCACACTTTTCAAGGTGT
*
18033875 GATCAGGGTTTTTAATGCATCAAAAATCAT-AAATTGATATTTAATTATGATCTAGAAGTTTT-C
66 GATCAGGGTTTTTAATGCATCAAAAATCATCAAATT-AT-TTTAATTATGATCTAGATGTTTTGC
* **
18033938 AAGAAAAATCAATTTC
129 -A-AAAAATCGACCTC
* * * * * *
18033954 -AAGAATGTTAAATTACGAAAATACCTCTAAACGATATTTTGATAATTTCAC
1 GAA-AAAGTCAAATTATGAAAATACCCCTAAAAGGTATTTTGATAATTTCAC
18034005 CCCTCCATAA
Statistics
Matches: 257, Mismatches: 65, Indels: 31
0.73 0.18 0.09
Matches are distributed among these distances:
141 2 0.01
142 22 0.09
143 165 0.64
144 39 0.15
145 29 0.11
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (142 bp):
GAAAAAGTCAAATTATGAAAATACCCCTAAAAGGTATTTTGATAATTTCACACTTTTCAAGGTGT
GATCAGGGTTTTTAATGCATCAAAAATCATCAAATTATTTTAATTATGATCTAGATGTTTTGCAA
AAAATCGACCTC
Found at i:18034122 original size:10 final size:11
Alignment explanation
Indices: 18034107--18034165 Score: 54
Period size: 10 Copynumber: 5.6 Consensus size: 11
18034097 GATTGACTCG
18034107 AGTTTGATCT-
1 AGTTTGATCTA
*
18034117 AGTTTGAT-TG
1 AGTTTGATCTA
*
18034127 ATTTTGATC-A
1 AGTTTGATCTA
*
18034137 TGTTTGA-CTA
1 AGTTTGATCTA
18034147 AGTTTGATCATA
1 AGTTTGATC-TA
18034159 AGTTTGA
1 AGTTTGA
18034166 CCTTGAGGCG
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 1 0.03
12 9 0.23
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.47
Consensus pattern (11 bp):
AGTTTGATCTA
Found at i:18034141 original size:20 final size:21
Alignment explanation
Indices: 18034107--18034166 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
18034097 GATTGACTCG
* *
18034107 AGTTTGATC-TAGTTTGATTG
1 AGTTTGATCATAGTTTGACTA
*
18034127 ATTTTGATCAT-GTTTGACTA
1 AGTTTGATCATAGTTTGACTA
18034147 AGTTTGATCATAAGTTTGAC
1 AGTTTGATCAT-AGTTTGAC
18034167 CTTGAGGCGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 25 0.76
21 1 0.03
22 7 0.21
ACGTcount: A:0.25, C:0.08, G:0.20, T:0.47
Consensus pattern (21 bp):
AGTTTGATCATAGTTTGACTA
Found at i:18035297 original size:28 final size:28
Alignment explanation
Indices: 18035242--18035297 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
18035232 CTCTTAAGTT
* **
18035242 TTTAATTTAAAAGTAAAAAAAATTAAAA
1 TTTAATCTAAAAGTAAAAAAAAAAAAAA
*
18035270 TTTAATCTAAATGTAAAAAAAAAAAAAA
1 TTTAATCTAAAAGTAAAAAAAAAAAAAA
18035298 CAATTTAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.29
Consensus pattern (28 bp):
TTTAATCTAAAAGTAAAAAAAAAAAAAA
Found at i:18036606 original size:68 final size:68
Alignment explanation
Indices: 18036497--18036653 Score: 233
Period size: 68 Copynumber: 2.3 Consensus size: 68
18036487 TTGTATATAG
*
18036497 GACTAATTTCATATTTGTATTTTTATAACAAAAATCATACTTGTGTGAATGATATAAAAATTACA
1 GACTAATTTCATATTTGTATTTTTAGAACAAAAATCATACTTGTGTGAATGATATAAAAATTACA
18036562 TTT
66 TTT
* * ** * ***
18036565 GACTAATTTCTTATTTATATTTTTAGAACAAAAATTGTACTTGTGTGAATGATATAACAATTTGG
1 GACTAATTTCATATTTGTATTTTTAGAACAAAAATCATACTTGTGTGAATGATATAAAAATTACA
18036630 TTT
66 TTT
18036633 GACTAATTTCATATTTGTATT
1 GACTAATTTCATATTTGTATT
18036654 AATATAAATG
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 78 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (68 bp):
GACTAATTTCATATTTGTATTTTTAGAACAAAAATCATACTTGTGTGAATGATATAAAAATTACA
TTT
Found at i:18039783 original size:24 final size:24
Alignment explanation
Indices: 18039755--18039806 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
18039745 TTCTATCAAC
18039755 ATATC-CAAAAAGTAAATACAACCA
1 ATATCTCAAAAAGTAAATA-AACCA
* * *
18039779 ATATCTCATAGAGTAAATATACCA
1 ATATCTCAAAAAGTAAATAAACCA
18039803 ATAT
1 ATAT
18039807 ACATTACATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.52, C:0.17, G:0.06, T:0.25
Consensus pattern (24 bp):
ATATCTCAAAAAGTAAATAAACCA
Found at i:18040625 original size:65 final size:65
Alignment explanation
Indices: 18040556--18041069 Score: 360
Period size: 65 Copynumber: 8.0 Consensus size: 65
18040546 TGAAAAACAT
* **
18040556 GATCAATTAAGGCATTCATATACACAAACACCTTAATTGATCATGTTTTATAAATTATAAAAAAA
1 GATCAATTAAGGCATTCATATAGACAAATGCCTTAATTGATCATGTTTTATAAATTATAAAAAAA
* * *
18040621 GATCAATTAAGGCATTTATA-ATGAGAAATGCCTCAATTGATCATGTTTTATAAATTA-AATTAA
1 GATCAATTAAGGCATTCATATA-GACAAATGCCTTAATTGATCATGTTTTATAAATTATAA--AA
*
18040684 ATA
63 AAA
* * * *
18040687 GATCAATTAAGGCGTTCATAATAAAAAAATGCCTTAACTGATCATGTTTTATAAATTAT-AAAAA
1 GATCAATTAAGGCATTCAT-ATAGACAAATGCCTTAATTGATCATGTTTTATAAATTATAAAAAA
18040751 A
65 A
* * * * * *
18040752 GATCAATTAAGGCGTTCATA-ATGAGAAATACTTTAATTAATCATGTTTTATAAATTA-AATTTA
1 GATCAATTAAGGCATTCATATA-GACAAATGCCTTAATTGATCATGTTTTATAAATTATAA--AA
*
18040815 ATA
63 AAA
* * * *
18040818 CATCAATTAAGGCATTCATA-ATGAGAAATTCCTTACTTGATCATGTTTTAT-AA--AT-AAAAA
1 GATCAATTAAGGCATTCATATA-GACAAATGCCTTAATTGATCATGTTTTATAAATTATAAAAAA
18040878 A
65 A
** * * * * * **
18040879 -ATCAATTAAGGCATTCACCTAAAAAAAGGCCTTAATTGATGATGTCTTCCATGCA-TATAAAAA
1 GATCAATTAAGGCATTCATATAGACAAATGCCTTAATTGATCATGT-TT-TATAAATTATAAAAA
*
18040942 AT
64 AA
** * * * *
18040944 GTATCAATTAAGGTGTTCATTGTA-ACAAACGCCTTAATTGATGATGTTTTA-AACAATAT-AAA
1 G-ATCAATTAAGGCATTCA-TATAGACAAATGCCTTAATTGATCATGTTTTATAA-ATTATAAAA
**
18041006 ATT
63 AAA
**** * * *
18041009 G-TCAATTAAAATGTTCATGTTA-ACAAATGCCTTATTTGATGATGTTTTATAAATTATAAAA
1 GATCAATTAAGGCATTCAT-ATAGACAAATGCCTTAATTGATCATGTTTTATAAATTATAAAA
18041070 CTTATAATTA
Statistics
Matches: 367, Mismatches: 57, Indels: 51
0.77 0.12 0.11
Matches are distributed among these distances:
60 35 0.10
61 6 0.02
62 3 0.01
63 49 0.13
64 41 0.11
65 87 0.24
66 74 0.20
67 69 0.19
68 3 0.01
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.35
Consensus pattern (65 bp):
GATCAATTAAGGCATTCATATAGACAAATGCCTTAATTGATCATGTTTTATAAATTATAAAAAAA
Found at i:18040759 original size:131 final size:131
Alignment explanation
Indices: 18040556--18040895 Score: 460
Period size: 131 Copynumber: 2.6 Consensus size: 131
18040546 TGAAAAACAT
* * * *
18040556 GATCAATTAAGGCATTCAT-ATACACAAACACCTTAATTGATCATGTTTTATAAATTATAAAAAA
1 GATCAATTAAGGCATTCATAATAAAAAAATACCTTAACTGATCATGTTTTATAAATTAT-AAAAA
* * *
18040620 AGATCAATTAAGGCATTTATAATGAGAAATGCCTCAATTGATCATGTTTTATAAATTAAATTAAA
65 AGATCAATTAAGGCATTCATAATGAGAAATACCTCAATTAATCATGTTTTATAAATTAAATTAAA
18040685 TA
130 TA
* *
18040687 GATCAATTAAGGCGTTCATAATAAAAAAATGCCTTAACTGATCATGTTTTATAAATTATAAAAAA
1 GATCAATTAAGGCATTCATAATAAAAAAATACCTTAACTGATCATGTTTTATAAATTATAAAAAA
* * * *
18040752 GATCAATTAAGGCGTTCATAATGAGAAATACTTTAATTAATCATGTTTTATAAATTAAATTTAAT
66 GATCAATTAAGGCATTCATAATGAGAAATACCTCAATTAATCATGTTTTATAAATTAAATTAAAT
18040817 A
131 A
* * * *
18040818 CATCAATTAAGGCATTCATAAT-GAGAAATTCCTT-ACTTGATCATGTTTTAT-AA--ATAAAAA
1 GATCAATTAAGGCATTCATAATAAAAAAATACCTTAAC-TGATCATGTTTTATAAATTATAAAAA
18040878 A-ATCAATTAAGGCATTCA
65 AGATCAATTAAGGCATTCA
18040896 CCTAAAAAAA
Statistics
Matches: 188, Mismatches: 19, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
126 16 0.09
127 8 0.04
129 4 0.02
130 23 0.12
131 103 0.55
132 34 0.18
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.35
Consensus pattern (131 bp):
GATCAATTAAGGCATTCATAATAAAAAAATACCTTAACTGATCATGTTTTATAAATTATAAAAAA
GATCAATTAAGGCATTCATAATGAGAAATACCTCAATTAATCATGTTTTATAAATTAAATTAAAT
A
Found at i:18040837 original size:66 final size:63
Alignment explanation
Indices: 18040556--18040895 Score: 391
Period size: 66 Copynumber: 5.3 Consensus size: 63
18040546 TGAAAAACAT
* * *
18040556 GATCAATTAAGGCATTCAT-ATACACAAACACCTTAATTGATCATGTTTTATAAATTATAAAAAA
1 GATCAATTAAGGCATTCATAAT-GAGAAATACCTTAATTGATCATGTTTTATAAA-T-TAAAAAA
18040620 A
63 A
* * *
18040621 GATCAATTAAGGCATTTATAATGAGAAATGCCTCAATTGATCATGTTTTATAAATTAAATTAAAT
1 GATCAATTAAGGCATTCATAATGAGAAATACCTTAATTGATCATGTTTTATAAATTAAA--AAA-
18040686 A
63 A
* * * * *
18040687 GATCAATTAAGGCGTTCATAATAAAAAAATGCCTTAACTGATCATGTTTTATAAATTATAAAAAA
1 GATCAATTAAGGCATTCATAAT-GAGAAATACCTTAATTGATCATGTTTTATAAATTA-AAAAAA
* * * *
18040752 GATCAATTAAGGCGTTCATAATGAGAAATACTTTAATTAATCATGTTTTATAAATTAAATTTAAT
1 GATCAATTAAGGCATTCATAATGAGAAATACCTTAATTGATCATGTTTTATAAATTAAA---AAA
18040817 A
63 A
* * *
18040818 CATCAATTAAGGCATTCATAATGAGAAATTCCTTACTTGATCATGTTTTATAAA-T-AAAAAA
1 GATCAATTAAGGCATTCATAATGAGAAATACCTTAATTGATCATGTTTTATAAATTAAAAAAA
18040879 -ATCAATTAAGGCATTCA
1 GATCAATTAAGGCATTCA
18040896 CCTAAAAAAA
Statistics
Matches: 240, Mismatches: 26, Indels: 23
0.83 0.09 0.08
Matches are distributed among these distances:
60 17 0.07
61 3 0.01
63 6 0.03
64 32 0.13
65 72 0.30
66 77 0.32
67 31 0.13
68 2 0.01
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.35
Consensus pattern (63 bp):
GATCAATTAAGGCATTCATAATGAGAAATACCTTAATTGATCATGTTTTATAAATTAAAAAAA
Found at i:18040978 original size:67 final size:63
Alignment explanation
Indices: 18040907--18041055 Score: 165
Period size: 63 Copynumber: 2.3 Consensus size: 63
18040897 CTAAAAAAAG
** **
18040907 GCCTTAATTGATGATGTCTTCCATGCATATAAAAAATGTATCAATTAAGGTGTTCAT-TGTAACA
1 GCCTTAATTGATGATGT-TT-CAAACA-ATAAAAAAT-TATCAATTAAAATGTTCATGT-TAACA
18040971 AAC
61 AAC
* * * *
18040974 GCCTTAATTGATGATGTTTTAAACAATATAAAATTGTCAATTAAAATGTTCATGTTAACAAAT
1 GCCTTAATTGATGATGTTTCAAACAATAAAAAATTATCAATTAAAATGTTCATGTTAACAAAC
*
18041037 GCCTTATTTGATGATGTTT
1 GCCTTAATTGATGATGTTT
18041056 TATAAATTAT
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
63 41 0.57
64 9 0.12
65 3 0.04
66 2 0.03
67 17 0.24
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (63 bp):
GCCTTAATTGATGATGTTTCAAACAATAAAAAATTATCAATTAAAATGTTCATGTTAACAAAC
Found at i:18041067 original size:63 final size:62
Alignment explanation
Indices: 18040947--18041145 Score: 177
Period size: 63 Copynumber: 3.2 Consensus size: 62
18040937 AAAAAATGTA
** * *
18040947 TCAATTAAGGTGTTCATTGTAACAAACGCCTTAATTGATGATGTTTTA-AACAATATAAAATTG
1 TCAATTAAAATGTTCATT-TAACAAATGCCTTAATTGATGATGTTTTATAA-ATTATAAAATTG
* *
18041010 TCAATTAAAATGTTCATGTTAACAAATGCCTTATTTGATGATGTTTTATAAATTATAAAACTTA
1 TCAATTAAAATGTTCAT-TTAACAAATGCCTTAATTGATGATGTTTTATAAATTATAAAA-TTG
** ** * *** * * *
18041074 T-AATTAAGGTAATCATATTAAGAAATATTTTAATTGATGATGTTTTATAAATAAAAAAATAG
1 TCAATTAAAATGTTCAT-TTAACAAATGCCTTAATTGATGATGTTTTATAAATTATAAAATTG
*
18041136 TCAAGTAAAA
1 TCAATTAAAA
18041146 CCTTTGTTTT
Statistics
Matches: 109, Mismatches: 23, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
62 2 0.02
63 101 0.93
64 6 0.06
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.38
Consensus pattern (62 bp):
TCAATTAAAATGTTCATTTAACAAATGCCTTAATTGATGATGTTTTATAAATTATAAAATTG
Found at i:18041853 original size:145 final size:143
Alignment explanation
Indices: 18041653--18041915 Score: 320
Period size: 144 Copynumber: 1.8 Consensus size: 143
18041643 AGGTGTGAAA
* ** **
18041653 TTACCAATATACCATTTAGAGGTAATTTCGTAATTTGACCTTCTTGAGATTGATTTTTTTGTAAA
1 TTACCAAAATACCATTTAGAGGTAATTTCGTAATTTGACCTTCTCAAGATTGATTTTCATG-AAA
* * * * *
18041718 ACTTTTC-GAGTCATGATTTTATAATATTTGATGATTTTTGGTGCATTCAAAATCATATTATTCC
65 AATTTTCAGA-TCATAATGTCATAATATTTCATGATTTTTGGTGC-TTCAAAATCATATTATTCC
18041782 CTCGAGAGGTGAAAAT
128 CTCGAGAGGTGAAAAT
18041798 TTACCAAAATACCCA-TTA-AGGATAATTTCGTAATTTGA-CTTCTCAATG-TTAGATTTTCATG
1 TTACCAAAATA-CCATTTAGAGG-TAATTTCGTAATTTGACCTTCTCAA-GATT-GATTTTCATG
* *
18041859 AAAAATTTTCAGATCTTAATGTCATAATATTTCATGATTTTTGGTGCTTTAAAATCA
62 AAAAATTTTCAGATCATAATGTCATAATATTTCATGATTTTTGGTGCTTCAAAATCA
18041916 CAAAAGAAGC
Statistics
Matches: 101, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
143 9 0.09
144 49 0.49
145 40 0.40
146 3 0.03
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (143 bp):
TTACCAAAATACCATTTAGAGGTAATTTCGTAATTTGACCTTCTCAAGATTGATTTTCATGAAAA
ATTTTCAGATCATAATGTCATAATATTTCATGATTTTTGGTGCTTCAAAATCATATTATTCCCTC
GAGAGGTGAAAAT
Found at i:18042521 original size:25 final size:25
Alignment explanation
Indices: 18042493--18042541 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
18042483 ATTAAAGTTG
*
18042493 GAAAACAAACAAAACAACATAAATA
1 GAAAACAAACAAAACAACACAAATA
** *
18042518 GAAAGTAAACAAAGCAACACAAAT
1 GAAAACAAACAAAACAACACAAAT
18042542 CTACCATTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.67, C:0.16, G:0.08, T:0.08
Consensus pattern (25 bp):
GAAAACAAACAAAACAACACAAATA
Found at i:18043413 original size:7 final size:7
Alignment explanation
Indices: 18043403--18043493 Score: 54
Period size: 7 Copynumber: 13.7 Consensus size: 7
18043393 CCCAAATCTC
18043403 AAACCTT
1 AAACCTT
*
18043410 AAACTTT
1 AAACCTT
*
18043417 GAA-CTT
1 AAACCTT
18043423 CAAACCTT
1 -AAACCTT
18043431 AAA-CTCT
1 AAACCT-T
18043438 AAA-C-T
1 AAACCTT
18043443 AAA-CTCT
1 AAACCT-T
*
18043450 -AACCCT
1 AAACCTT
18043456 AAACCTT
1 AAACCTT
18043463 AAACCTT
1 AAACCTT
*
18043470 -AACGTT
1 AAACCTT
18043476 AAACC-T
1 AAACCTT
18043482 AAACCTT
1 AAACCTT
*
18043489 GAACC
1 AAACC
18043494 AAAACCCCAA
Statistics
Matches: 66, Mismatches: 9, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
5 5 0.08
6 18 0.27
7 40 0.61
8 3 0.05
ACGTcount: A:0.42, C:0.29, G:0.03, T:0.26
Consensus pattern (7 bp):
AAACCTT
Found at i:18043442 original size:21 final size:21
Alignment explanation
Indices: 18043401--18043442 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
18043391 ACCCCAAATC
* *
18043401 TCAAACCTTAAACTTTGAACT
1 TCAAACCTTAAACTCTAAACT
18043422 TCAAACCTTAAACTCTAAACT
1 TCAAACCTTAAACTCTAAACT
18043443 AAACTCTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.26, G:0.02, T:0.31
Consensus pattern (21 bp):
TCAAACCTTAAACTCTAAACT
Found at i:18043484 original size:26 final size:25
Alignment explanation
Indices: 18043403--18043493 Score: 78
Period size: 26 Copynumber: 3.5 Consensus size: 25
18043393 CCCAAATCTC
*
18043403 AAACCTTAAACTTTGAACTTCAAACCTT
1 AAACCTTAAACCTT-AACTT-AAACC-T
* *
18043431 AAA-CTCTAAA-CTAAACTCTAACCCT
1 AAACCT-TAAACCTTAACT-TAAACCT
18043456 AAACCTTAAACCTTAACGTTAAACCT
1 AAACCTTAAACCTTAAC-TTAAACCT
*
18043482 AAACCTTGAACC
1 AAACCTTAAACC
18043494 AAAACCCCAA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
25 8 0.15
26 32 0.62
27 5 0.10
28 7 0.13
ACGTcount: A:0.42, C:0.29, G:0.03, T:0.26
Consensus pattern (25 bp):
AAACCTTAAACCTTAACTTAAACCT
Found at i:18043493 original size:13 final size:13
Alignment explanation
Indices: 18043373--18043514 Score: 69
Period size: 13 Copynumber: 10.7 Consensus size: 13
18043363 AACCCTAATT
18043373 CCTAAACCTTAAAA
1 CCTAAACCTT-AAA
**
18043387 CCT-AACCCCAAA
1 CCTAAACCTTAAA
*
18043399 TCTCAAACCTTAAA
1 CCT-AAACCTTAAA
* *
18043413 CTTTGAA-CTTCAAA
1 C-CTAAACCTT-AAA
18043427 CCTTAAA-CTCTAAA
1 CC-TAAACCT-TAAA
*
18043441 -CTAAA-CTCTAAC
1 CCTAAACCT-TAAA
18043453 CCTAAACCTTAAA
1 CCTAAACCTTAAA
* *
18043466 CCTTAACGTTAAA
1 CCTAAACCTTAAA
*
18043479 CCTAAACCTTGAA
1 CCTAAACCTTAAA
* **
18043492 CCAAAACCCCAAA
1 CCTAAACCTTAAA
18043505 CTCTAAACCT
1 C-CTAAACCT
18043515 AAGCCCTAAC
Statistics
Matches: 96, Mismatches: 23, Indels: 18
0.70 0.17 0.13
Matches are distributed among these distances:
12 15 0.16
13 47 0.49
14 32 0.33
15 2 0.02
ACGTcount: A:0.42, C:0.32, G:0.02, T:0.23
Consensus pattern (13 bp):
CCTAAACCTTAAA
Found at i:18043512 original size:7 final size:7
Alignment explanation
Indices: 18043495--18043566 Score: 60
Period size: 7 Copynumber: 10.4 Consensus size: 7
18043485 CCTTGAACCA
*
18043495 AAACCCC
1 AAACCCT
*
18043502 AAACTCT
1 AAACCCT
18043509 AAA-CCT
1 AAACCCT
*
18043515 AAGCCCT
1 AAACCCT
18043522 -AACACCT
1 AAAC-CCT
18043529 -AACCCTT
1 AAACCC-T
18043536 AAACCCT
1 AAACCCT
**
18043543 AAATTCT
1 AAACCCT
18043550 AAACCCT
1 AAACCCT
18043557 AAACCCT
1 AAACCCT
18043564 AAA
1 AAA
18043567 TCTAGACCCC
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
6 8 0.15
7 39 0.75
8 5 0.10
ACGTcount: A:0.43, C:0.38, G:0.01, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:18043542 original size:21 final size:21
Alignment explanation
Indices: 18043507--18043581 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 21
18043497 ACCCCAAACT
*
18043507 CTAAA-CCTAAGCCCTAACA-C
1 CTAAACCCTAAACCCTAA-ATC
*
18043527 CT-AACCCTTAAACCCTAAATT
1 CTAAACCC-TAAACCCTAAATC
18043548 CTAAACCCTAAACCCTAAAT-
1 CTAAACCCTAAACCCTAAATC
* *
18043568 CTAGACCCCAAACC
1 CTAAACCCTAAACC
18043582 AATCCAAACC
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
19 2 0.04
20 17 0.36
21 23 0.49
22 5 0.11
ACGTcount: A:0.40, C:0.39, G:0.03, T:0.19
Consensus pattern (21 bp):
CTAAACCCTAAACCCTAAATC
Found at i:18044044 original size:18 final size:17
Alignment explanation
Indices: 18044014--18044048 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18044004 TTGATTTGTT
18044014 AAAAAAAAAAAGAAAAG
1 AAAAAAAAAAAGAAAAG
*
18044031 AAAAGAAAAGAAGAAAAG
1 AAAA-AAAAAAAGAAAAG
18044049 GAATTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAGAAAAG
Found at i:18048798 original size:158 final size:158
Alignment explanation
Indices: 18048510--18048804 Score: 581
Period size: 158 Copynumber: 1.9 Consensus size: 158
18048500 GTTTTTTGAA
18048510 AATATGTGTAACTTCAACTAAGTGAACATCATAACGAGATTTAGCAAGTCAATTTGGTTCAAAAA
1 AATATGTGTAACTTCAACTAAGTGAACATCATAACGAGATTTAGCAAGTCAATTTGGTTCAAAAA
18048575 TAAATATGGGTTAATATTGCAAAGTCTATGCAAATCATCTTACCTTTTTGGAGAGAGCTTACCTT
66 TAAATATGGGTTAATATTGCAAAGTCTATGCAAATCATCTTACCTTTTTGGAGAGAGCTTACCTT
18048640 GTTGCATATTTAAAAATAAATATGGGTT
131 GTTGCATATTTAAAAATAAATATGGGTT
*
18048668 AATATGTGTAACTTCAACTAAGTGAACATCATAACGAGATTTAGCAAGTCAATTTGGTTTAAAAA
1 AATATGTGTAACTTCAACTAAGTGAACATCATAACGAGATTTAGCAAGTCAATTTGGTTCAAAAA
18048733 TAAATATGGGTTAATATTGCAAAGTCTATGCAAATCATCTTACCTTTTTGGAGAGAGCTTACCTT
66 TAAATATGGGTTAATATTGCAAAGTCTATGCAAATCATCTTACCTTTTTGGAGAGAGCTTACCTT
18048798 GTTGCAT
131 GTTGCAT
18048805 CTTTTTTTTT
Statistics
Matches: 136, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
158 136 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (158 bp):
AATATGTGTAACTTCAACTAAGTGAACATCATAACGAGATTTAGCAAGTCAATTTGGTTCAAAAA
TAAATATGGGTTAATATTGCAAAGTCTATGCAAATCATCTTACCTTTTTGGAGAGAGCTTACCTT
GTTGCATATTTAAAAATAAATATGGGTT
Found at i:18054355 original size:15 final size:15
Alignment explanation
Indices: 18054335--18054364 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18054325 TCCATTTTAT
*
18054335 TACTTAATCTGTGCA
1 TACTTAATATGTGCA
18054350 TACTTAATATGTGCA
1 TACTTAATATGTGCA
18054365 CTTGAAAGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (15 bp):
TACTTAATATGTGCA
Found at i:18067886 original size:18 final size:18
Alignment explanation
Indices: 18067830--18067917 Score: 76
Period size: 19 Copynumber: 4.9 Consensus size: 18
18067820 TGGATGAAGT
*
18067830 AAAAAAATGAAACATAA--
1 AAAAAAATGAAA-AAAATG
*
18067847 AAAAAAATG-AACAAAT-
1 AAAAAAATGAAAAAAATG
* *
18067863 AAAAAAAAGAGAAAAATGTG
1 AAAAAAATGA-AAAAA-ATG
18067883 AAAAAAATGAAAAAAATG
1 AAAAAAATGAAAAAAATG
18067901 AAAAAAAATGAAAAAAA
1 -AAAAAAATGAAAAAAA
18067918 AATAGAGAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
15 2 0.03
16 10 0.17
17 9 0.16
18 6 0.10
19 22 0.38
20 9 0.16
ACGTcount: A:0.77, C:0.02, G:0.10, T:0.10
Consensus pattern (18 bp):
AAAAAAATGAAAAAAATG
Found at i:18067888 original size:11 final size:11
Alignment explanation
Indices: 18067874--18067920 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
18067864 AAAAAAAGAG
*
18067874 AAAAATGTGAA
1 AAAAATGTAAA
18067885 AAAAATG--AA
1 AAAAATGTAAA
18067894 AAAAATG-AAA
1 AAAAATGTAAA
*
18067904 AAAAATGAAAA
1 AAAAATGTAAA
18067915 AAAAAT
1 AAAAAT
18067921 AGAGAAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
9 9 0.26
10 9 0.26
11 16 0.47
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.13
Consensus pattern (11 bp):
AAAAATGTAAA
Found at i:18067893 original size:9 final size:9
Alignment explanation
Indices: 18067830--18067917 Score: 76
Period size: 9 Copynumber: 9.8 Consensus size: 9
18067820 TGGATGAAGT
18067830 AAAAAAATG
1 AAAAAAATG
*
18067839 AAACATAA--
1 AAA-AAAATG
18067847 AAAAAAATG
1 AAAAAAATG
*
18067856 -AACAAAT-
1 AAAAAAATG
*
18067863 AAAAAAAAG
1 AAAAAAATG
*
18067872 AGAAAAATGTG
1 A-AAAAA-ATG
18067883 AAAAAAATG
1 AAAAAAATG
18067892 AAAAAAATG
1 AAAAAAATG
18067901 AAAAAAAATG
1 -AAAAAAATG
18067911 AAAAAAA
1 AAAAAAA
18067918 AATAGAGAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
7 3 0.05
8 14 0.22
9 22 0.35
10 22 0.35
11 2 0.03
ACGTcount: A:0.77, C:0.02, G:0.10, T:0.10
Consensus pattern (9 bp):
AAAAAAATG
Found at i:18067913 original size:19 final size:19
Alignment explanation
Indices: 18067846--18067917 Score: 87
Period size: 19 Copynumber: 3.9 Consensus size: 19
18067836 ATGAAACATA
*
18067846 AAAAAAAATG-AACAAAT-
1 AAAAAAAATGAAAAAAATG
*
18067863 AAAAAAAA-GAGAAAAATG
1 AAAAAAAATGAAAAAAATG
*
18067881 TGAAAAAAATGAAAAAAATG
1 -AAAAAAAATGAAAAAAATG
18067901 AAAAAAAATGAAAAAAA
1 AAAAAAAATGAAAAAAA
18067918 AATAGAGAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
16 1 0.02
17 13 0.28
19 23 0.50
20 9 0.20
ACGTcount: A:0.78, C:0.01, G:0.11, T:0.10
Consensus pattern (19 bp):
AAAAAAAATGAAAAAAATG
Found at i:18067928 original size:11 final size:10
Alignment explanation
Indices: 18067864--18067928 Score: 53
Period size: 11 Copynumber: 6.4 Consensus size: 10
18067854 TGAACAAATA
*
18067864 AAAAAAAGAG
1 AAAAAATGAG
*
18067874 -AAAAATGTG
1 AAAAAATGAG
18067883 AAAAAAATGA-
1 -AAAAAATGAG
*
18067893 AAAAAATGAA
1 AAAAAATGAG
*
18067903 AAAAAATGAAA
1 AAAAAATG-AG
18067914 AAAAAATAGAG
1 AAAAAAT-GAG
18067925 AAAA
1 AAAA
18067929 GAAATATTCA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
9 16 0.35
10 8 0.17
11 21 0.46
12 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (10 bp):
AAAAAATGAG
Found at i:18070388 original size:14 final size:14
Alignment explanation
Indices: 18070369--18070395 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18070359 CCATAATTGG
18070369 AATTTCATGGCATT
1 AATTTCATGGCATT
18070383 AATTTCATGGCAT
1 AATTTCATGGCAT
18070396 ATGCATCACA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (14 bp):
AATTTCATGGCATT
Found at i:18070916 original size:24 final size:24
Alignment explanation
Indices: 18070854--18070916 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 24
18070844 TTTTTGAATG
* * *
18070854 AGAATCTTTGTAA-TTTTCGATAG
1 AGAATCTTTGAAATTTTTCGAAAA
*
18070877 A-AATCTCT-AAAGTTTTTCGAAAA
1 AGAATCTTTGAAA-TTTTTCGAAAA
18070900 AGAATCTTTGAAATTTT
1 AGAATCTTTGAAATTTT
18070917 AAATGTGAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
21 2 0.06
22 6 0.19
23 10 0.32
24 10 0.32
25 3 0.10
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.41
Consensus pattern (24 bp):
AGAATCTTTGAAATTTTTCGAAAA
Found at i:18070966 original size:21 final size:21
Alignment explanation
Indices: 18070937--18070990 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
18070927 CTATAAAATT
* *
18070937 TTTTAATGTGAATATTTG-AA
1 TTTTGATGTGAATATGTGAAA
*
18070957 TTTTGGATGTGAA-CTGTGAAA
1 TTTT-GATGTGAATATGTGAAA
18070978 TTTTGATGTGAAT
1 TTTTGATGTGAAT
18070991 CCCTAAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.30, C:0.02, G:0.22, T:0.46
Consensus pattern (21 bp):
TTTTGATGTGAATATGTGAAA
Found at i:18071041 original size:9 final size:9
Alignment explanation
Indices: 18071029--18071077 Score: 66
Period size: 9 Copynumber: 5.7 Consensus size: 9
18071019 TTTGAATCCG
18071029 AATCTTGCA
1 AATCTTGCA
18071038 AATCTTGCA
1 AATCTTGCA
18071047 AATCTT-CA
1 AATCTTGCA
*
18071055 ATTCTTGCA
1 AATCTTGCA
*
18071064 AAT-TTGAA
1 AATCTTGCA
18071072 AATCTT
1 AATCTT
18071078 ATGAATCTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
8 14 0.40
9 21 0.60
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (9 bp):
AATCTTGCA
Done.