Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 100 of 161
Found at i:31657309 original size:21 final size:21
Alignment explanation
Indices: 31657283--31657330 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
31657273 CCAGTCAGTG
31657283 TACACGGGCATGTGAAGTAGC
1 TACACGGGCATGTGAAGTAGC
*
31657304 TACACGGGCGTGTGAAGTAGC
1 TACACGGGCATGTGAAGTAGC
*
31657325 CACACG
1 TACACG
31657331 ACCATATTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.23, G:0.33, T:0.17
Consensus pattern (21 bp):
TACACGGGCATGTGAAGTAGC
Found at i:31658340 original size:23 final size:22
Alignment explanation
Indices: 31658314--31658356 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
31658304 GAGAAATAAA
*
31658314 AATTAAGTGAAAATTTAAGAGGG
1 AATTAAGAG-AAATTTAAGAGGG
*
31658337 AATTGAGAGAAATTTAAGAG
1 AATTAAGAGAAATTTAAGAG
31658357 AGATTTGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.26
Consensus pattern (22 bp):
AATTAAGAGAAATTTAAGAGGG
Found at i:31658352 original size:22 final size:22
Alignment explanation
Indices: 31658324--31658366 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
31658314 AATTAAGTGA
*
31658324 AAATTTAAGAGGGAATTGAGAG
1 AAATTTAAGAGAGAATTGAGAG
*
31658346 AAATTTAAGAGAGATTTGAGA
1 AAATTTAAGAGAGAATTGAGA
31658367 ATGTGAGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.28, T:0.26
Consensus pattern (22 bp):
AAATTTAAGAGAGAATTGAGAG
Found at i:31662808 original size:56 final size:56
Alignment explanation
Indices: 31662719--31662843 Score: 189
Period size: 56 Copynumber: 2.2 Consensus size: 56
31662709 TATGTAAAAC
* ** *
31662719 TATGTAAAATTATTAAGCCCAATAACTTTTGTTAATGGTTAGTAA-ATTTATCAAAT
1 TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGA-TTATCAAAT
31662775 TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGATTATCAAAT
1 TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGATTATCAAAT
*
31662831 TAGGTAAAATTAT
1 TATGTAAAATTAT
31662844 GTTATGGTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 62 0.98
57 1 0.02
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.38
Consensus pattern (56 bp):
TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGATTATCAAAT
Found at i:31662863 original size:23 final size:23
Alignment explanation
Indices: 31662837--31662945 Score: 164
Period size: 23 Copynumber: 4.7 Consensus size: 23
31662827 AAATTAGGTA
* *
31662837 AAATTATGTTATGGTTTTTAAAT
1 AAATTAGGTTAGGGTTTTTAAAT
31662860 AAATTAGGTTAGGGTTTTTAAAT
1 AAATTAGGTTAGGGTTTTTAAAT
*
31662883 AAATTAAGTTAGGGTTTTTAAAT
1 AAATTAGGTTAGGGTTTTTAAAT
*
31662906 AAATTAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAAAT
* *
31662929 AAATTAGGGTAGAGTTT
1 AAATTAGGTTAGGGTTT
31662946 AGGGTTATGG
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 79 1.00
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (23 bp):
AAATTAGGTTAGGGTTTTTAAAT
Found at i:31663000 original size:29 final size:29
Alignment explanation
Indices: 31662944--31663736 Score: 1160
Period size: 29 Copynumber: 28.2 Consensus size: 29
31662934 AGGGTAGAGT
*
31662944 TTAGGGTTATGGTTTTTAATT-AA--A--
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
31662968 TTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
31662997 TTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
31663026 TTTAGGGTTAGGGTTTTTAATTAAATTAGG
1 -TTAGGGTTAGGGTTTTTAATTAAATTAGG
31663056 TTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
31663085 TTAGGGTTAGGGTTTTTAATTAAATTAAG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
31663114 TTAAGGTTAGGG-TTTTAATTAAATTAAGG
1 TTAGGGTTAGGGTTTTTAATTAAATT-AGG
31663143 -TAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
31663171 TTTAGGTTTAGGGTTTTTAATTAAATTAGG
1 -TTAGGGTTAGGGTTTTTAATTAAATTAGG
* *
31663201 TTAAGGTTAGGG-TTTTAATTATATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
31663229 GTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
31663258 TTA--G-T---GTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
31663281 TTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
* *
31663310 GTACGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
31663339 TTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
31663368 TTAAGGTTAGGG-TTTTAATT--A-TA--
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
31663391 TTAGGG-TAGGG-TTTTAATTATATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
31663418 GTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
31663447 TTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
31663476 TTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
31663505 TTAAGGTTAGGG-TTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
* *
31663533 GTAGGGTTAGGGTTTTTAATCAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
31663562 TTTAGTGTTAGGGTTTTTAATTAAATTAGG
1 -TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
31663592 TTAAGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
31663621 TTAAGGTTAGGG-TTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
31663649 GTAGGGTTAGGGTTTTTAATT-AA--A--
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
31663673 TTA-GGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
31663701 TTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
31663730 CTAGGGT
1 TTAGGGT
31663737 ATGAAATAAA
Statistics
Matches: 701, Mismatches: 35, Indels: 61
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.02
23 43 0.06
24 25 0.04
25 7 0.01
26 5 0.01
27 7 0.01
28 121 0.17
29 398 0.57
30 82 0.12
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.45
Consensus pattern (29 bp):
TTAGGGTTAGGGTTTTTAATTAAATTAGG
Found at i:31663401 original size:22 final size:22
Alignment explanation
Indices: 31663375--31663425 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
31663365 AGGTTAAGGT
31663375 TAGGGTTTTAATTATATTAGGG
1 TAGGGTTTTAATTATATTAGGG
31663397 TAGGGTTTTAATTATATTAGGG
1 TAGGGTTTTAATTATATTAGGG
31663419 TAGGGTT
1 TAGGGTT
31663426 AGGGTTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.45
Consensus pattern (22 bp):
TAGGGTTTTAATTATATTAGGG
Found at i:31663575 original size:391 final size:394
Alignment explanation
Indices: 31662844--31663736 Score: 1272
Period size: 391 Copynumber: 2.3 Consensus size: 394
31662834 GTAAAATTAT
* * * *
31662844 GTTATGGTTTTTAAATAAATTAGGTTAGGGTTTTTAAATAAATTA--A-GTTAGGGTTTTTAAAT
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTATTAGGTTAGGGTTTTTAATT
* * *
31662906 AAA-T---TAGGTTAGGGTTTTTAATTAAATTAGGGTAGAGTTTAGGGTTATGGTTTTTAATTAA
66 AAATTAGGTAGGTTAGGGTTTTTAATTAAATTAGGCTAG-GGTTAGGGTTAT-GTTTTAAATTAA
* *
31662967 ATTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTTAGG
129 ATTAAGGTTAGGGTTTTTAATT-AATTA-GTTAGGGTTAGGGTTTTTAATTAAATTAGGTGTAGG
31663032 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG
192 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG
31663097 TTTTTAATTAAATTAAGTTAAGGTTAGGGTTTTAATTAAATTAAGGTAGGGTTAGGGTTTTTAAT
257 TTTTTAATTAAATTAAGTTAAGGTTAGGGTTTTAATTAAATTAAGGTAGGGTTAGGGTTTTTAAT
* *
31663162 TAAATTAGGTTTAGGTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGG-TTTTAATTATATT
322 CAAATTAGGTTTAGGTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATT
*
31663226 AGGGTAGG
387 AGGGTAAG
*
31663234 GTTAGGGTTTTTAATTAAATTAGGTTAGTGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTA--TTA-GGTTAGGGTTTTTA
*
31663299 ATTAAATTAGGGTACGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTT-T-TTAATTAA
63 ATTAAATTA-GGTA-GGTTAGGGTTTTTAATTAAATTAGGCTAGGGTTAGGGTTATGTT--TTAA
** *
31663362 ATTAGGTTAAGGTTAGGG-TTTTAATT-A-TA-TTAGGG-TAGGG-TTTTAATTATATTAGG-GT
124 ATTAAATTAAGGTTAGGGTTTTTAATTAATTAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTGT
31663420 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTA
189 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTA
* *
31663485 GGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTAATTAAATTAGGGTAGGGTTAGGGTTTTT
254 GGGTTTTTAATTAAATTAAGTTAAGGTTAGGGTTTTAATTAAATTAAGGTAGGGTTAGGGTTTTT
31663550 AATCAAATTAGGTTTA-GTGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTA
319 AATCAAATTAGGTTTAGGT-TTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTA
*
31663614 AATTAGGTTAAG
383 AATTAGGGTAAG
31663626 GTTAGGG-TTTTAATTAAATTAGGGTAGGGTTAGGGTTTTTAATT-AA--ATTAGGTTAGGGTTT
1 GTTAGGGTTTTTAATTAAA-T----TA-GGTTAGGGTTTTTAATTAAATTATTAGGTTAGGGTTT
31663687 TTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGCTAGGGT
60 TTAATTAAATTAGG-TA-GGTTAGGGTTTTTAATTAAATTAGGCTAGGGT
31663737 ATGAAATAAA
Statistics
Matches: 458, Mismatches: 22, Indels: 45
0.87 0.04 0.09
Matches are distributed among these distances:
390 45 0.10
391 246 0.54
392 44 0.10
393 5 0.01
394 8 0.02
396 24 0.05
397 18 0.04
398 2 0.00
399 8 0.02
400 19 0.04
401 11 0.02
402 28 0.06
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (394 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTATTAGGTTAGGGTTTTTAATT
AAATTAGGTAGGTTAGGGTTTTTAATTAAATTAGGCTAGGGTTAGGGTTATGTTTTAAATTAAAT
TAAGGTTAGGGTTTTTAATTAATTAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTGTAGGGTTA
GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTT
TAATTAAATTAAGTTAAGGTTAGGGTTTTAATTAAATTAAGGTAGGGTTAGGGTTTTTAATCAAA
TTAGGTTTAGGTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGG
TAAG
Found at i:31663699 original size:18 final size:21
Alignment explanation
Indices: 31663654--31663708 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 21
31663644 TTAGGGTAGG
31663654 GTTAGGGTTTTTAATTAAATTA
1 GTTAGGGTTTTTAATTAAA-TA
31663676 GGTTAGGGTTTTTAATTAAATTA
1 -GTTAGGGTTTTTAATTAAA-TA
31663699 GGTTAGGGTT
1 -GTTAGGGTT
31663709 AGGGTTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.47
Consensus pattern (21 bp):
GTTAGGGTTTTTAATTAAATA
Found at i:31663770 original size:26 final size:25
Alignment explanation
Indices: 31663740--31663797 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
31663730 CTAGGGTATG
31663740 AAATAAA-TTACGATTTTTATTACATC
1 AAATAAACTT-CGA-TTTTATTACATC
* *
31663766 AAATAGAACTTCTATTTTATTATATC
1 AAATA-AACTTCGATTTTATTACATC
31663792 AAATAA
1 AAATAA
31663798 TATCAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 1 0.04
26 21 0.75
27 4 0.14
28 2 0.07
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.41
Consensus pattern (25 bp):
AAATAAACTTCGATTTTATTACATC
Found at i:31665537 original size:10 final size:10
Alignment explanation
Indices: 31665518--31665583 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 10
31665508 GCCATTGATG
*
31665518 AAAATATAAA
1 AAAATTTAAA
31665528 AAAATTTAAA
1 AAAATTTAAA
* *
31665538 ATTATTTTAAA
1 A-AAATTTAAA
*
31665549 AAAATATAAA
1 AAAATTTAAA
*
31665559 AAAATTTGAA
1 AAAATTTAAA
**
31665569 ATTATTTAAA
1 AAAATTTAAA
31665579 AAAAT
1 AAAAT
31665584 GAAATTGAGG
Statistics
Matches: 42, Mismatches: 13, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
10 34 0.81
11 8 0.19
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:31665553 original size:31 final size:30
Alignment explanation
Indices: 31665518--31665583 Score: 114
Period size: 31 Copynumber: 2.2 Consensus size: 30
31665508 GCCATTGATG
31665518 AAAATATAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTA-TTTAAA
*
31665549 AAAATATAAAAAAATTTGAAATTATTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTAAA
31665579 AAAAT
1 AAAAT
31665584 GAAATTGAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 11 0.32
31 23 0.68
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (30 bp):
AAAATATAAAAAAATTTAAAATTATTTAAA
Found at i:31665565 original size:21 final size:21
Alignment explanation
Indices: 31665524--31665565 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
31665514 GATGAAAATA
* **
31665524 TAAAAAAATTTAAAATTATTT
1 TAAAAAAATATAAAAAAATTT
31665545 TAAAAAAATATAAAAAAATTT
1 TAAAAAAATATAAAAAAATTT
31665566 GAAATTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
TAAAAAAATATAAAAAAATTT
Found at i:31665642 original size:22 final size:21
Alignment explanation
Indices: 31665617--31665667 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 21
31665607 TAATATGGAT
*
31665617 TTGAGAGATTTTTGGAATGAAA
1 TTGAGAGA-TTTTGGAAGGAAA
31665639 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGA-GATTTTGGAAGGAAA
31665661 TTGAGAG
1 TTGAGAG
31665668 TTTAAGAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 1 0.04
22 24 0.89
23 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.31
Consensus pattern (21 bp):
TTGAGAGATTTTGGAAGGAAA
Found at i:31665684 original size:52 final size:52
Alignment explanation
Indices: 31665620--31665718 Score: 180
Period size: 52 Copynumber: 1.9 Consensus size: 52
31665610 TATGGATTTG
* *
31665620 AGAGATTTTTGGAATGAAATTGAGAGGATTTTGGAAGGAAATTGAGAGTTTA
1 AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGAGTTTA
31665672 AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGA
1 AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGA
31665719 TAGGATTTGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.29
Consensus pattern (52 bp):
AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGAGTTTA
Found at i:31665702 original size:22 final size:22
Alignment explanation
Indices: 31665672--31665718 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
31665662 TGAGAGTTTA
31665672 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
*
31665694 AGAGGATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
31665716 AGA
1 AGA
31665719 TAGGATTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.34, T:0.26
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:31665773 original size:69 final size:68
Alignment explanation
Indices: 31665687--31665821 Score: 234
Period size: 69 Copynumber: 2.0 Consensus size: 68
31665677 ATTTTGGAAG
*
31665687 GAAATTGAGAGGATTTTGGAAGGAAATTGAGATAGGATTTGTTCGTGAAAAAAAAGGGGTGGGGG
1 GAAATTGAGAGGATTTTGGAAGGAAATTAAGATAGGATTTGTTCGTG-AAAAAAAGGGGTGGGGG
31665752 GTAT
65 GTAT
* *
31665756 GAAATTGAGAGGATTTTGGAATGAAATTAAGATAGGATTTGTTTGTGAAAAAAAGGGGTGGGGGG
1 GAAATTGAGAGGATTTTGGAAGGAAATTAAGATAGGATTTGTTCGTGAAAAAAAGGGGTGGGGGG
31665821 T
66 T
31665822 TTTATAGTTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
68 19 0.30
69 44 0.70
ACGTcount: A:0.35, C:0.01, G:0.37, T:0.27
Consensus pattern (68 bp):
GAAATTGAGAGGATTTTGGAAGGAAATTAAGATAGGATTTGTTCGTGAAAAAAAGGGGTGGGGGG
TAT
Found at i:31672071 original size:29 final size:30
Alignment explanation
Indices: 31672027--31672087 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 30
31672017 AGTCACTTAC
31672027 AAATTGGAAGAATACTTGAAAACATTAAAG
1 AAATTGGAAGAATACTTGAAAACATTAAAG
* *
31672057 AAATT-GAAGAGTACTTTAAAACATTAAAG
1 AAATTGGAAGAATACTTGAAAACATTAAAG
31672086 AA
1 AA
31672088 TCTTAGGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 24 0.83
30 5 0.17
ACGTcount: A:0.54, C:0.07, G:0.15, T:0.25
Consensus pattern (30 bp):
AAATTGGAAGAATACTTGAAAACATTAAAG
Found at i:31678585 original size:35 final size:35
Alignment explanation
Indices: 31678538--31678607 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
31678528 ATCCCCCCAA
*
31678538 TCCCCAATCCCCTTTCTCTTTTTCTATCGTGACGC
1 TCCCCAACCCCCTTTCTCTTTTTCTATCGTGACGC
31678573 TCCCCAACCCCCTTTCTCTTTTTCTATCGTGACGC
1 TCCCCAACCCCCTTTCTCTTTTTCTATCGTGACGC
31678608 AGAGAGCCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.11, C:0.41, G:0.09, T:0.39
Consensus pattern (35 bp):
TCCCCAACCCCCTTTCTCTTTTTCTATCGTGACGC
Found at i:31679728 original size:20 final size:20
Alignment explanation
Indices: 31679703--31679740 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
31679693 GGTGGGTTAC
31679703 AGATTTCCATTTACCATTTT
1 AGATTTCCATTTACCATTTT
*
31679723 AGATTTCCATTTATCATT
1 AGATTTCCATTTACCATT
31679741 AACGAGAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.18, G:0.05, T:0.50
Consensus pattern (20 bp):
AGATTTCCATTTACCATTTT
Found at i:31690474 original size:34 final size:34
Alignment explanation
Indices: 31690431--31690499 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
31690421 ACATGTTATG
* *
31690431 ACATCAATCCTTTAGCCTAGATTCTTTCTTGTAA
1 ACATCAATCCTGTAGCCTAGATTCTCTCTTGTAA
31690465 ACATCAATCCTGTAGCCTAGATTCTCTCTTGTAA
1 ACATCAATCCTGTAGCCTAGATTCTCTCTTGTAA
31690499 A
1 A
31690500 TTTAGTTTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.38
Consensus pattern (34 bp):
ACATCAATCCTGTAGCCTAGATTCTCTCTTGTAA
Found at i:31692143 original size:23 final size:23
Alignment explanation
Indices: 31692116--31692168 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
31692106 AGTGTTATTG
31692116 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
31692139 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
31692162 ATCAGTG
1 ATCAGTG
31692169 TGGCACTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:31692340 original size:38 final size:37
Alignment explanation
Indices: 31692298--31692370 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
31692288 ATGTGTGGAA
* *
31692298 TTGAATTGAATATTGACTTGAAAA-TGGAAAAGTGAATT
1 TTGAATTGAATAGTGA-TT-AAAAGTGAAAAAGTGAATT
31692336 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
31692371 ATTATGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.45, C:0.01, G:0.22, T:0.32
Consensus pattern (37 bp):
TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAATT
Found at i:31707810 original size:13 final size:13
Alignment explanation
Indices: 31707792--31707839 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
31707782 ATCTCCATAA
* *
31707792 AACCATTTAGTTT
1 AACCATTTCGTAT
*
31707805 AACCATTTCGTAC
1 AACCATTTCGTAT
31707818 AACCATTTCGTAT
1 AACCATTTCGTAT
31707831 AACCATTTC
1 AACCATTTC
31707840 ATTTTACACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (13 bp):
AACCATTTCGTAT
Found at i:31709462 original size:45 final size:43
Alignment explanation
Indices: 31709385--31709513 Score: 125
Period size: 45 Copynumber: 2.9 Consensus size: 43
31709375 TGTGTACCAG
* * * * *
31709385 GTATCATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCTATCGG
1 GTATCATTGATTAT-AAGGT-GTTGCTATGTGCTGATTCCACCGA
*
31709430 GT-TCTATTGATTATGAAGGTGATTGCTATGTGCTGTTTCCACCGA
1 GTATC-ATTGATTAT-AAGGTG-TTGCTATGTGCTGATTCCACCGA
* *
31709475 GTATCATTGACTATAAGGGTGGTGCTATGTGCTGATTCC
1 GTATCATTGATTATAA-GGTGTTGCTATGTGCTGATTCC
31709514 GAAGTGTTCA
Statistics
Matches: 70, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
44 21 0.30
45 47 0.67
46 2 0.03
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.40
Consensus pattern (43 bp):
GTATCATTGATTATAAGGTGTTGCTATGTGCTGATTCCACCGA
Found at i:31711319 original size:255 final size:255
Alignment explanation
Indices: 31710868--31711377 Score: 993
Period size: 255 Copynumber: 2.0 Consensus size: 255
31710858 TTGTGACTAT
31710868 GGTTGAACGATATGCTTATGTCTTGTGTGATATGCATAGGAAACGGGTGTGGAAAGGTAATGAAA
1 GGTTGAACGATATGCTTATGTCTTGTGTGATATGCATAGGAAACGGGTGTGGAAAGGTAATGAAA
*
31710933 TAGTAAGTTCATATTTGAAGTGAAAAATGACGAAAAAGGGGATGATGAGTTGAATTGATGTTGTT
66 TAGTAAGTTCATATTTGAAGTGAAAAATGACGAAAAAGGGGATGATGAGTTGAATTGATGGTGTT
31710998 ATTTAAGATAAAGTTATATTTTCATTACAAAATTTAGAATTTCATAAATGTGTTAATGAATGGTA
131 ATTTAAGATAAAGTTATATTTTCATTACAAAATTTAGAATTTCATAAATGTGTTAATGAATGGTA
31711063 TAATGAAAAAACGTTGAGTTAAATGGTAAATACGTATTAGTATTGAACTTACTAATATTG
196 TAATGAAAAAACGTTGAGTTAAATGGTAAATACGTATTAGTATTGAACTTACTAATATTG
31711123 GGTTGAACGATATGCTTATGTCTTGTGTGATATGCATAGGAAACGGGTGTGGAAAGGTAATGAAA
1 GGTTGAACGATATGCTTATGTCTTGTGTGATATGCATAGGAAACGGGTGTGGAAAGGTAATGAAA
*
31711188 TAGTAAGTTCATATTTGAAGTGAAAAATGACGAAAAAGGGGATGATGAGTTGAGTTGATGGTGTT
66 TAGTAAGTTCATATTTGAAGTGAAAAATGACGAAAAAGGGGATGATGAGTTGAATTGATGGTGTT
*
31711253 ATTTGAGATAAAGTTATATTTTCATTACAAAATTTAGAATTTCATAAATGTGTTAATGAATGGTA
131 ATTTAAGATAAAGTTATATTTTCATTACAAAATTTAGAATTTCATAAATGTGTTAATGAATGGTA
31711318 TAATGAAAAAACGTTGAGTTAAATGGTAAATACGTATTAGTATTGAACTTACTAATATTG
196 TAATGAAAAAACGTTGAGTTAAATGGTAAATACGTATTAGTATTGAACTTACTAATATTG
31711378 AATTGTACGT
Statistics
Matches: 252, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
255 252 1.00
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.34
Consensus pattern (255 bp):
GGTTGAACGATATGCTTATGTCTTGTGTGATATGCATAGGAAACGGGTGTGGAAAGGTAATGAAA
TAGTAAGTTCATATTTGAAGTGAAAAATGACGAAAAAGGGGATGATGAGTTGAATTGATGGTGTT
ATTTAAGATAAAGTTATATTTTCATTACAAAATTTAGAATTTCATAAATGTGTTAATGAATGGTA
TAATGAAAAAACGTTGAGTTAAATGGTAAATACGTATTAGTATTGAACTTACTAATATTG
Found at i:31716244 original size:14 final size:15
Alignment explanation
Indices: 31716218--31716248 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
31716208 TGGAAGGATA
31716218 AAATTATAAATAATG
1 AAATTATAAATAATG
31716233 AAATTA-AAATAATG
1 AAATTATAAATAATG
31716247 AA
1 AA
31716249 TAATAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (15 bp):
AAATTATAAATAATG
Found at i:31717091 original size:40 final size:40
Alignment explanation
Indices: 31717011--31717227 Score: 211
Period size: 40 Copynumber: 5.5 Consensus size: 40
31717001 TATATGAATT
* **
31717011 TACTTCAGTA-CCCTGAATGCACATACGTGCCCCTACTTG
1 TACTTCGGTACCCCTGAATGCACATACGTGCCCCTGTTTG
* * * * *
31717050 TACTTCGGTACCCTTTAATGCACATGCATGCCTCTGTTTG
1 TACTTCGGTACCCCTGAATGCACATACGTGCCCCTGTTTG
* * * *
31717090 TACTTCGATACCCCTGAATGCACATACGTTCCACTATTTG
1 TACTTCGGTACCCCTGAATGCACATACGTGCCCCTGTTTG
** * *
31717130 TACTTTAGTACCCCTGAATGCAAATACGTACCCCTGTTTG
1 TACTTCGGTACCCCTGAATGCACATACGTGCCCCTGTTTG
* * * * **
31717170 TACTTTGATACCCCTAAATGCACATATGTGCCATTGTTTG
1 TACTTCGGTACCCCTGAATGCACATACGTGCCCCTGTTTG
* *
31717210 TACTTTGGTACCTCTGAA
1 TACTTCGGTACCCCTGAA
31717228 AACATTATAA
Statistics
Matches: 143, Mismatches: 34, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
39 9 0.06
40 134 0.94
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (40 bp):
TACTTCGGTACCCCTGAATGCACATACGTGCCCCTGTTTG
Found at i:31722518 original size:6 final size:6
Alignment explanation
Indices: 31722503--31722542 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
31722493 TTAAAATATT
* *
31722503 TATGTA TATGTG TATGTA TATGTA AATGTA TATGTA TATG
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATG
31722543 CATGTCTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (6 bp):
TATGTA
Found at i:31723936 original size:3 final size:3
Alignment explanation
Indices: 31723928--31723988 Score: 77
Period size: 3 Copynumber: 20.0 Consensus size: 3
31723918 TAAGAAACAT
* *
31723928 AGA AGA AGA AGA AGA AGA AAA AGA TAGA AGA AGA AGA AGA AGA AAA
1 AGA AGA AGA AGA AGA AGA AGA AGA -AGA AGA AGA AGA AGA AGA AGA
* *
31723974 AGA AAA AAA AGA AGA
1 AGA AGA AGA AGA AGA
31723989 GGATGAGGCG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:31723960 original size:25 final size:25
Alignment explanation
Indices: 31723926--31723976 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
31723916 AATAAGAAAC
31723926 ATAGAAGAAGAAGAAGAAGAAAAAG
1 ATAGAAGAAGAAGAAGAAGAAAAAG
31723951 ATAGAAGAAGAAGAAGAAGAAAAAG
1 ATAGAAGAAGAAGAAGAAGAAAAAG
31723976 A
1 A
31723977 AAAAAAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.04
Consensus pattern (25 bp):
ATAGAAGAAGAAGAAGAAGAAAAAG
Found at i:31726215 original size:19 final size:19
Alignment explanation
Indices: 31726185--31726221 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
31726175 CAAATTAATA
31726185 AAAAAATGAAAGAACTAAAT
1 AAAAAATGAAAGAA-TAAAT
31726205 AAAAAAT-AAAGAATAAA
1 AAAAAATGAAAGAATAAA
31726222 AGGTACATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 6 0.35
20 7 0.41
ACGTcount: A:0.76, C:0.03, G:0.08, T:0.14
Consensus pattern (19 bp):
AAAAAATGAAAGAATAAAT
Found at i:31726381 original size:3 final size:3
Alignment explanation
Indices: 31726373--31726400 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
31726363 ACTTATATAT
31726373 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
31726401 AAGTAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:31728121 original size:44 final size:44
Alignment explanation
Indices: 31728070--31728612 Score: 164
Period size: 44 Copynumber: 12.5 Consensus size: 44
31728060 AATTTGCTCT
* ** *
31728070 CTGCAACTTCAGATAGATAAGATC-TGTGGTTTTAATCAGCTCCA
1 CTGCAACTTCAGAGAGATAAGATCAT-CAGCTTTAATCAGCTCCA
* *
31728114 CTGCAACTTCA-AGGAGATAGGATCATCAGCTTTAATCTGCTCCA
1 CTGCAACTTCAGA-GAGATAAGATCATCAGCTTTAATCAGCTCCA
* ** * * * *
31728158 CTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTACCT-CA
1 CTGCAACTTCAGAGAGATAAGA-TCATCAGCTTTAATC-AGCTCCA
* * *
31728203 CTGCAACTTCAG-GAGGATAAGA-C--CTGCTTACTTAGTCTGCTCCA
1 CTGCAACTTCAGAGA-GATAAGATCATCAGC-T--TTAATCAGCTCCA
* * *** * *
31728247 CTGCAACTTCAGGGAGATAAGA-C-T-AGATGCGATCTGCT-CT
1 CTGCAACTTCAGAGAGATAAGATCATCAGCTTTAATCAGCTCCA
* * *
31728287 CTACAACTTCAGAGAGATAAGATC--CAAGATTTTAATCCGCTCCA
1 CTGCAACTTCAGAGAGATAAGATCATC-AG-CTTTAATCAGCTCCA
* * * * * *
31728331 CTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTCCA
1 CTGCAACTTCAGAGAGATAAGATCATCAGCTTTAATCAGCTCCA
** * * * * * * *
31728375 CTATAACTTCA-AGGAGATAAGGT-TTGCCATCTTCAGTCTGCTTCA
1 CTGCAACTTCAGA-GAGATAAGATCAT--CAGCTTTAATCAGCTCCA
* * * *
31728420 CTGCAACTTCAG-GAGGATAAG-GC--CTGCTTACTTAGTCTGCTCCA
1 CTGCAACTTCAGAGA-GATAAGATCATCAGC-T--TTAATCAGCTCCA
* * *** * *
31728464 CTGCAACTTCAGGGAGATAAGA-C-T-AGATGCGATCTGCT-CT
1 CTGCAACTTCAGAGAGATAAGATCATCAGCTTTAATCAGCTCCA
* * *
31728504 CTGCAGCTTCAGAGAGATAAGATC--CAAGATTTTAATCCGCTCCA
1 CTGCAACTTCAGAGAGATAAGATCATC-AG-CTTTAATCAGCTCCA
* * * * * *
31728548 TTGCAACTTCAGAGAGATAGGATTATCGGCTTTAACCTGCTCCA
1 CTGCAACTTCAGAGAGATAAGATCATCAGCTTTAATCAGCTCCA
* * *
31728592 CAGTAACTTCAGGGAGATAAG
1 CTGCAACTTCAGAGAGATAAG
31728613 GTTTTCCATC
Statistics
Matches: 371, Mismatches: 90, Indels: 76
0.69 0.17 0.14
Matches are distributed among these distances:
40 42 0.11
41 18 0.05
42 6 0.02
43 21 0.06
44 215 0.58
45 65 0.18
46 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (44 bp):
CTGCAACTTCAGAGAGATAAGATCATCAGCTTTAATCAGCTCCA
Found at i:31728406 original size:217 final size:217
Alignment explanation
Indices: 31728026--31728649 Score: 998
Period size: 217 Copynumber: 2.9 Consensus size: 217
31728016 TTCGATCCAT
* * * *
31728026 TCCACTGCAACATCAGGGAGATAAGACTAGATGCAATTTGCTCTCTGCAACTTCAGATAGATAAG
1 TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
*** * * * * * *
31728091 ATCTGTGGTTTTAATCAGCTCCACTGCAACTTCAAGGAGATAGGATCATCAGCTTTAATCTGCTC
66 ATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTC
** * * *
31728156 CACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTACCTCACTGCAACTTCAGGAGGAT
131 CACTATAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGAT
31728221 AAGACCTGCTTACTTAGTCTGC
196 AAGACCTGCTTACTTAGTCTGC
*
31728243 TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAG
1 TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
31728308 ATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTC
66 ATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTC
* *
31728373 CACTATAACTTCAAGGAGATAAGGTTTGCCATCTTCAGTCTGCTTCACTGCAACTTCAGGAGGAT
131 CACTATAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGAT
*
31728438 AAGGCCTGCTTACTTAGTCTGC
196 AAGACCTGCTTACTTAGTCTGC
*
31728460 TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAGCTTCAGAGAGATAAG
1 TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
* *
31728525 ATCCAAGATTTTAATCCGCTCCATTGCAACTTCAGAGAGATAGGATTATCGGCTTTAACCTGCTC
66 ATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTC
*
31728590 CAC-AGTAACTTCAGGGAGATAAGGTTTTCCATCTTCAGTCTGCCTCACTGCAACTTCAGG
131 CACTA-TAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGG
31728650 GCAACTTCAG
Statistics
Matches: 377, Mismatches: 29, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
216 1 0.00
217 376 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (217 bp):
TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
ATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTC
CACTATAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGAT
AAGACCTGCTTACTTAGTCTGC
Found at i:31728760 original size:401 final size:401
Alignment explanation
Indices: 31728249--31728978 Score: 1309
Period size: 401 Copynumber: 1.8 Consensus size: 401
31728239 CTGCTCCACT
31728249 GCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCCAA
1 GCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCCAA
* *
31728314 GATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTCCACTAT
66 GATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTCCACTAC
** *
31728379 AACTTCAAGGAGATAAGGTTTGCCATCTTCAGTCTGCTTCACTGCAACTTCAGGAGGATAAGGCC
131 AACTTCAAGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACC
31728444 TGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCA
196 TGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCA
* * *
31728509 GCTTCAGAGAGATAAGATCCAAGATTTTAATCCGCTCCATTGCAACTTC-AGAGAGATAGGATTA
261 ACTTCAGAGAGATAAGATCCAAGATTTTAATCCGCTCCACTACAACTTCAAG-GAGATAGGATTA
31728573 TCGGCTTTAACCTGCTCCACAGTAACTTCAGGGAGATAAGGTTTTCCATCTTCAGTCTGCCTCAC
325 TCGGCTTTAACCTGCTCCACAGTAACTTCAGGGAGATAAGGTTTTCCATCTTCAGTCTGCCTCAC
31728638 TGCAACTTCAGG
390 TGCAACTTCAGG
*
31728650 GCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAA
1 GCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCCAA
* * *
31728715 GATTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTATCGGCTTTAACCTGCTTCACTGC
66 GATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTCCACTAC
*
31728780 AACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACC
131 AACTTCAAGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACC
*
31728845 TGTTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCA
196 TGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCA
*
31728910 ACTTCAGAGAGATAAGATCCAAGATTTTAATCCGCTCCACTACAACTTTAAGGAGATAGGATTAT
261 ACTTCAGAGAGATAAGATCCAAGATTTTAATCCGCTCCACTACAACTTCAAGGAGATAGGATTAT
31728975 CGGC
326 CGGC
31728979 CACCGATCCG
Statistics
Matches: 313, Mismatches: 15, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
401 311 0.99
402 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (401 bp):
GCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCCAA
GATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTCCACTAC
AACTTCAAGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACC
TGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCA
ACTTCAGAGAGATAAGATCCAAGATTTTAATCCGCTCCACTACAACTTCAAGGAGATAGGATTAT
CGGCTTTAACCTGCTCCACAGTAACTTCAGGGAGATAAGGTTTTCCATCTTCAGTCTGCCTCACT
GCAACTTCAGG
Found at i:31728786 original size:184 final size:184
Alignment explanation
Indices: 31728466--31728833 Score: 646
Period size: 184 Copynumber: 2.0 Consensus size: 184
31728456 CTGCTCCACT
*
31728466 GCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAGCTTCAGAGAGATAAGATCCAA
1 GCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAA
* * *
31728531 GATTTTAATCCGCTCCATTGCAACTTCAGAGAGATAGGATTATCGGCTTTAACCTGCTCCACAGT
66 GATTTTAATCCGCTCCACTACAACTTCAGAGAGATAGGATTATCGGCTTTAACCTGCTCCACAGC
* *
31728596 AACTTCAGGGAGATAAGGTTTTCCATCTTCAGTCTGCCTCACTGCAACTTCAGG
131 AACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGG
31728650 GCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAA
1 GCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAA
* * * *
31728715 GATTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTATCGGCTTTAACCTGCTTCACTGC
66 GATTTTAATCCGCTCCACTACAACTTCAGAGAGATAGGATTATCGGCTTTAACCTGCTCCACAGC
31728780 AACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGG
131 AACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGG
31728834 AGGATAAGAC
Statistics
Matches: 174, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
184 174 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (184 bp):
GCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAA
GATTTTAATCCGCTCCACTACAACTTCAGAGAGATAGGATTATCGGCTTTAACCTGCTCCACAGC
AACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGG
Found at i:31728828 original size:45 final size:44
Alignment explanation
Indices: 31728774--31728887 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 44
31728764 TAACCTGCTT
***
31728774 CACTGCAACTTCAGGGAGATAAGGTTTGCCAT-CTTCAGTCTGCCC
1 CACTGCAACTTCAGGGAGATAAGACCTG-CATACTT-AGTCTGCCC
** *
31728819 CACTGCAACTTCA-GGAGGATAAGACCTGTTTACTTAGTCTGCTC
1 CACTGCAACTTCAGGGA-GATAAGACCTGCATACTTAGTCTGCCC
31728863 CACTGCAACTTCAGGGAGATAAGAC
1 CACTGCAACTTCAGGGAGATAAGAC
31728888 TAGATGCGAT
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
44 33 0.55
45 27 0.45
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (44 bp):
CACTGCAACTTCAGGGAGATAAGACCTGCATACTTAGTCTGCCC
Found at i:31741061 original size:24 final size:23
Alignment explanation
Indices: 31741018--31741067 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 23
31741008 TATATATATG
31741018 CATATATAAATAAAAAATAATTA
1 CATATATAAATAAAAAATAATTA
*
31741041 CATATATATATAAAAAAATAATTA
1 CATATATAAAT-AAAAAATAATTA
31741065 CAT
1 CAT
31741068 TATCAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 10 0.40
24 15 0.60
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (23 bp):
CATATATAAATAAAAAATAATTA
Found at i:31752828 original size:27 final size:28
Alignment explanation
Indices: 31752778--31752831 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
31752768 CAATTATATC
31752778 GCATTATTTGTTATTCGGCAGTTTTACT
1 GCATTATTTGTTATTCGGCAGTTTTACT
**
31752806 GCATTA-TTGTTATTCGGTGGTTTTAC
1 GCATTATTTGTTATTCGGCAGTTTTAC
31752832 CACTTCGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.17, C:0.13, G:0.20, T:0.50
Consensus pattern (28 bp):
GCATTATTTGTTATTCGGCAGTTTTACT
Found at i:31760289 original size:14 final size:15
Alignment explanation
Indices: 31760264--31760292 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
31760254 TATCTTTAAA
31760264 TGTGATTGTATGTAT
1 TGTGATTGTATGTAT
31760279 TGTGA-TGTATGTAT
1 TGTGATTGTATGTAT
31760293 GAAAATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.52
Consensus pattern (15 bp):
TGTGATTGTATGTAT
Found at i:31764755 original size:76 final size:76
Alignment explanation
Indices: 31764623--31764764 Score: 214
Period size: 76 Copynumber: 1.9 Consensus size: 76
31764613 TTCGGCAGCC
* * *
31764623 ACAATTAACTTCAGCTGGACACCATTTAAGACATCATTAAATTCGATAGTAGCAAGACAAATTAA
1 ACAATTAAATTCAGCTGGACACCATTTAAGACATCATTAAATTCGACAGCAGCAAGACAAATTAA
31764688 ATGATGTAATG
66 ATGATGTAATG
* * *
31764699 ACAATTAAATTCAGCTGGACACCATTTAAGACATCATTAAATTTGGCAGCCA-CAAGACACATTA
1 ACAATTAAATTCAGCTGGACACCATTTAAGACATCATTAAATTCGACAG-CAGCAAGACAAATTA
31764763 AA
65 AA
31764765 GTGGCTCTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
76 58 0.98
77 1 0.02
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.26
Consensus pattern (76 bp):
ACAATTAAATTCAGCTGGACACCATTTAAGACATCATTAAATTCGACAGCAGCAAGACAAATTAA
ATGATGTAATG
Found at i:31766915 original size:24 final size:24
Alignment explanation
Indices: 31766871--31766925 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
31766861 GCCTGTGTCT
* * *
31766871 GCATTTGTATCTGAATCTGAATAC
1 GCATCTGTATCTGAATATGAACAC
*
31766895 GCATCTGTATCTGATTATGAACAC
1 GCATCTGTATCTGAATATGAACAC
*
31766919 ACATCTG
1 GCATCTG
31766926 ACTCTGTATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (24 bp):
GCATCTGTATCTGAATATGAACAC
Found at i:31766992 original size:15 final size:16
Alignment explanation
Indices: 31766963--31766992 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31766953 CTTGATGATA
31766963 ATTTATGAGTATAATT
1 ATTTATGAGTATAATT
31766979 ATTTATGA-TATAAT
1 ATTTATGAGTATAAT
31766993 GTTGTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (16 bp):
ATTTATGAGTATAATT
Found at i:31787662 original size:9 final size:10
Alignment explanation
Indices: 31787635--31787659 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
31787625 CGCCTTTTTC
31787635 TTCTTTCTTT
1 TTCTTTCTTT
31787645 TTCTTTCTTT
1 TTCTTTCTTT
31787655 TTCTT
1 TTCTT
31787660 CTTCAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
TTCTTTCTTT
Found at i:31788861 original size:56 final size:56
Alignment explanation
Indices: 31788801--31788972 Score: 192
Period size: 56 Copynumber: 3.1 Consensus size: 56
31788791 TTCAATAGTA
31788801 TTTTTAATAAATAAATTTAATTGAATAGAATATTTTTATATTTTTAATTCAAATGG
1 TTTTTAATAAATAAATTTAATTGAATAGAATATTTTTATATTTTTAATTCAAATGG
* * ** * * * *
31788857 TTTTTATTTAATTGAATATTTTTTTGAAT--AA-ATTATTA-ATTGTTTTATTCAAAAGTA
1 TTTTTA-ATAAAT-AA-ATTTAATTGAATAGAATATTTTTATATT-TTTAATTCAAATG-G
31788914 TTTTTAATAAATAAATTTAATTGAATAGAATA-TTTTATATTTTTAATTCAAATGG
1 TTTTTAATAAATAAATTTAATTGAATAGAATATTTTTATATTTTTAATTCAAATGG
31788969 TTTT
1 TTTT
31788973 CATTTAATTG
Statistics
Matches: 91, Mismatches: 16, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
54 10 0.11
55 9 0.10
56 44 0.48
57 16 0.18
58 2 0.02
59 10 0.11
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (56 bp):
TTTTTAATAAATAAATTTAATTGAATAGAATATTTTTATATTTTTAATTCAAATGG
Found at i:31788992 original size:113 final size:113
Alignment explanation
Indices: 31788773--31789002 Score: 435
Period size: 113 Copynumber: 2.0 Consensus size: 113
31788763 ATCTAACAAA
*
31788773 AAATTATTAATTGTTTTATTCAATAGTATTTTTAATAAATAAATTTAATTGAATAGAATATTTTT
1 AAATTATTAATTGTTTTATTCAAAAGTATTTTTAATAAATAAATTTAATTGAATAGAATATTTTT
*
31788838 ATATTTTTAATTCAAATGGTTTTTATTTAATTGAATATTTTTTTGAAT
66 ATATTTTTAATTCAAATGGTTTTCATTTAATTGAATATTTTTTTGAAT
31788886 AAATTATTAATTGTTTTATTCAAAAGTATTTTTAATAAATAAATTTAATTGAATAGAATA-TTTT
1 AAATTATTAATTGTTTTATTCAAAAGTATTTTTAATAAATAAATTTAATTGAATAGAATATTTTT
31788950 ATATTTTTAATTCAAATGGTTTTCATTTAATTGAATATTTTTTTGAAT
66 ATATTTTTAATTCAAATGGTTTTCATTTAATTGAATATTTTTTTGAAT
31788998 AAATT
1 AAATT
31789003 GAACAAAATT
Statistics
Matches: 115, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
112 56 0.49
113 59 0.51
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (113 bp):
AAATTATTAATTGTTTTATTCAAAAGTATTTTTAATAAATAAATTTAATTGAATAGAATATTTTT
ATATTTTTAATTCAAATGGTTTTCATTTAATTGAATATTTTTTTGAAT
Found at i:31790541 original size:26 final size:26
Alignment explanation
Indices: 31790444--31790792 Score: 208
Period size: 26 Copynumber: 13.8 Consensus size: 26
31790434 TATTGTTTAT
* *
31790444 TTATTTATTTTAAAATCTTTTCATATA
1 TTATTTATTTTAAACTATTTT-ATATA
*
31790471 TTACTTAATTTT-AACTATTTTAT-TA
1 TTA-TTTATTTTAAACTATTTTATATA
* * *
31790496 TTACTTATTTT-AAGTTTTTTCATATA
1 TTATTTATTTTAAACTATTTT-ATATA
31790522 TTA-TTATTTTAAACTATTTTATACT-
1 TTATTTATTTTAAACTATTTTATA-TA
* * * *
31790547 TTATTAATTTTAAATTGTTTTATATG
1 TTATTTATTTTAAACTATTTTATATA
* * * *
31790573 GTATTCATTTCAAACTGTTTTAT-T-
1 TTATTTATTTTAAACTATTTTATATA
* *
31790597 GTATATTATTTTAAACTATTATATATA
1 TTAT-TTATTTTAAACTATTTTATATA
* **
31790624 TTATTTATTTTAAATTGCTTTATATA
1 TTATTTATTTTAAACTATTTTATATA
** *
31790650 -TA--TA-TTCCAACTATTTTATATT
1 TTATTTATTTTAAACTATTTTATATA
** *
31790672 TTATTTATGATAAGA-T-TTTT-CATA
1 TTATTTATTTTAA-ACTATTTTATATA
** * * *
31790696 TGGTTTATTTTGAACCATTTTGTATA
1 TTATTTATTTTAAACTATTTTATATA
** * *
31790722 TTATTTATTTTAAAAAAATTCATATA
1 TTATTTATTTTAAACTATTTTATATA
31790748 TTATTTATTTTAAAC-ATTTT-TATA
1 TTATTTATTTTAAACTATTTTATATA
* *
31790772 TTATTTACTTTAAATTATTTT
1 TTATTTATTTTAAACTATTTT
31790793 TTACATATTA
Statistics
Matches: 246, Mismatches: 57, Indels: 40
0.72 0.17 0.12
Matches are distributed among these distances:
22 12 0.05
23 5 0.02
24 44 0.18
25 57 0.23
26 107 0.43
27 14 0.06
28 7 0.03
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (26 bp):
TTATTTATTTTAAACTATTTTATATA
Found at i:31790557 original size:51 final size:49
Alignment explanation
Indices: 31790439--31790637 Score: 165
Period size: 51 Copynumber: 3.9 Consensus size: 49
31790429 AAATTTATTG
*
31790439 TTTA-TTTATTTATTTTAAAATCTTTTCATATATTACTTAATTTT-AACTAT
1 TTTATTTTA-TTATTTT-AAATTTTTTCATATATTA-TTAATTTTAAACTAT
*
31790489 TTTATTATTACTTATTTTAAGTTTTTTCATATATTATT-ATTTTAAACTAT
1 TTTATT-TTA-TTATTTTAAATTTTTTCATATATTATTAATTTTAAACTAT
** * * *
31790539 TTTATACTTTATTAATTTTAAATTGTTTT-ATATGGTATTCATTTCAAACTGT
1 TTTAT--TTTATT-ATTTTAAATT-TTTTCATATATTATTAATTTTAAACTAT
* * *
31790591 TTTATTGTATATTATTTTAAACTATTAT-ATATATTATTTATTTTAAA
1 TTTATT-T-TATTATTTTAAA-TTTTTTCATATATTATTAATTTTAAA
31790638 TTGCTTTATA
Statistics
Matches: 124, Mismatches: 14, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
49 5 0.04
50 20 0.16
51 64 0.52
52 35 0.28
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (49 bp):
TTTATTTTATTATTTTAAATTTTTTCATATATTATTAATTTTAAACTAT
Found at i:31790792 original size:24 final size:24
Alignment explanation
Indices: 31790711--31790785 Score: 78
Period size: 24 Copynumber: 3.0 Consensus size: 24
31790701 TATTTTGAAC
*
31790711 CATTTTGTATATTATTTATTTTAAAAA
1 CATTTT-TATATTATTTACTTT--AAA
* ** *
31790738 AATTCATATATTATTTATTTTAAA
1 CATTTTTATATTATTTACTTTAAA
31790762 CATTTTTATATTATTTACTTTAAA
1 CATTTTTATATTATTTACTTTAAA
31790786 TTATTTTTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
24 23 0.56
26 15 0.37
27 3 0.07
ACGTcount: A:0.37, C:0.05, G:0.01, T:0.56
Consensus pattern (24 bp):
CATTTTTATATTATTTACTTTAAA
Found at i:31792181 original size:27 final size:27
Alignment explanation
Indices: 31792151--31792240 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
31792141 GTTTATTTAT
31792151 TTATTTTAAAATCTTTTCATATATTAC
1 TTATTTTAAAATCTTTTCATATATTAC
* *
31792178 TTATTTTAAACTGTTTT-AT-TATTAC
1 TTATTTTAAAATCTTTTCATATATTAC
**
31792203 TTATTTTAAGTTTCTTTTTCATATATTA-
1 TTATTTTAA-AATC-TTTTCATATATTAC
31792231 TTATTTTAAA
1 TTATTTTAAA
31792241 CTATTTTATA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
25 15 0.28
26 3 0.06
27 19 0.36
28 11 0.21
29 5 0.09
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (27 bp):
TTATTTTAAAATCTTTTCATATATTAC
Found at i:31792262 original size:26 final size:25
Alignment explanation
Indices: 31792151--31792382 Score: 145
Period size: 26 Copynumber: 9.1 Consensus size: 25
31792141 GTTTATTTAT
* *
31792151 TTATTTTAAAATCTTTTCATATATTA
1 TTATTTTAAACTATTTT-ATATATTA
*
31792177 CTTATTTTAAACTGTTTTAT-TATTA
1 -TTATTTTAAACTATTTTATATATTA
*
31792202 CTTATTTTAAGTTTCT-TTTTCATATATTA
1 -TTATTTTAA---ACTATTTT-ATATATTA
31792231 TTATTTTAAACTATTTTATACT-TTA
1 TTATTTTAAACTATTTTATA-TATTA
* * **
31792256 TTAATTTTAAATTGTTTTATATGGTA
1 TT-ATTTTAAACTATTTTATATATTA
* * *
31792282 TTCATTTCAAACTGTTTTAT-TGTATA
1 TT-ATTTTAAACTATTTTATATAT-TA
*
31792308 TTATTTTAAACTATTATATATATTA
1 TTATTTTAAACTATTTTATATATTA
* **
31792333 TTTATTTTAAATTGCTTTATATA-TA
1 -TTATTTTAAACTATTTTATATATTA
** *
31792358 -T-TTTCGAACTATTTTATATTTTA
1 TTATTTTAAACTATTTTATATATTA
31792381 TT
1 TT
31792383 TATGATAAGT
Statistics
Matches: 166, Mismatches: 25, Indels: 31
0.75 0.11 0.14
Matches are distributed among these distances:
22 13 0.08
23 3 0.02
24 1 0.01
25 46 0.28
26 66 0.40
27 19 0.11
28 13 0.08
29 5 0.03
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (25 bp):
TTATTTTAAACTATTTTATATATTA
Found at i:31794893 original size:25 final size:25
Alignment explanation
Indices: 31794857--31794910 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
31794847 AATAAATTAG
31794857 CATGCATGCTTCCTTGAATGCCGTT
1 CATGCATGCTTCCTTGAATGCCGTT
* * * *
31794882 CATGCATTCTTCTTTTAATGCTGTT
1 CATGCATGCTTCCTTGAATGCCGTT
31794907 CATG
1 CATG
31794911 TACCTGCACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.43
Consensus pattern (25 bp):
CATGCATGCTTCCTTGAATGCCGTT
Found at i:31796027 original size:12 final size:11
Alignment explanation
Indices: 31796010--31796039 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
31796000 TATCTTGACC
31796010 TTTTCTTTTCAT
1 TTTTCTTTTC-T
31796022 TTTTCTTTTCT
1 TTTTCTTTTCT
31796033 TTTTCTT
1 TTTTCTT
31796040 GGTGCCACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:31797292 original size:24 final size:24
Alignment explanation
Indices: 31797253--31797302 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
31797243 TGTCTTCATT
* * *
31797253 TGTATCTGAATCTGAATACGCATC
1 TGTATCTGAATATGAACACACATC
*
31797277 TGTATCTGATTATGAACACACATC
1 TGTATCTGAATATGAACACACATC
31797301 TG
1 TG
31797303 ACTCTGTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (24 bp):
TGTATCTGAATATGAACACACATC
Found at i:31798330 original size:23 final size:24
Alignment explanation
Indices: 31798281--31798330 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
31798271 TAAGAAACTC
* *
31798281 TTTACTTTAGTTACTTTAGTTATA
1 TTTACTTTAGTTACTTTAGTAAAA
31798305 TTTACTTTAG-TACTTTAGTAAAA
1 TTTACTTTAGTTACTTTAGTAAAA
31798328 TTT
1 TTT
31798331 TTGAGTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (24 bp):
TTTACTTTAGTTACTTTAGTAAAA
Found at i:31801388 original size:22 final size:22
Alignment explanation
Indices: 31801307--31801389 Score: 69
Period size: 22 Copynumber: 3.8 Consensus size: 22
31801297 TATGACATTT
*
31801307 TGATATG-ATATATGATAAGCTC
1 TGATATGTA-ATATGATATGCTC
** * * *
31801329 AAATATGTTACATGATATGCTT
1 TGATATGTAATATGATATGCTC
* * *
31801351 TGATTTGTTATGTGATATGCTC
1 TGATATGTAATATGATATGCTC
31801373 TGATATGTAATATGATA
1 TGATATGTAATATGATA
31801390 CGAAATTTTG
Statistics
Matches: 45, Mismatches: 15, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (22 bp):
TGATATGTAATATGATATGCTC
Found at i:31805343 original size:31 final size:31
Alignment explanation
Indices: 31805305--31805412 Score: 111
Period size: 31 Copynumber: 3.6 Consensus size: 31
31805295 TTAATATAAC
*
31805305 ATTTGGTACCTAAACTTTACACTTTTTCTTA
1 ATTTGGTACCTAAACTTTACACTTTTTCCTA
31805336 ATTTGGTACCTAAAC--T---CTTTTTGGCCTA
1 ATTTGGTACCTAAACTTTACACTTTTT--CCTA
* * *
31805364 ATTTGGTACATGAACTTGACA-TTTTATCCTA
1 ATTTGGTACCTAAACTTTACACTTTT-TCCTA
31805395 ATTTGGTACCTAAACTTT
1 ATTTGGTACCTAAACTTT
31805413 TTTTTAGCCC
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
26 6 0.10
28 16 0.26
29 1 0.02
31 34 0.55
32 4 0.06
33 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.44
Consensus pattern (31 bp):
ATTTGGTACCTAAACTTTACACTTTTTCCTA
Found at i:31805397 original size:59 final size:60
Alignment explanation
Indices: 31805305--31805469 Score: 192
Period size: 59 Copynumber: 2.8 Consensus size: 60
31805295 TTAATATAAC
* * * * *
31805305 ATTTGGTACCTAAACTTTACACTTTTTCTTAATTTGGTACCTAAAC-TCTTTTTGGCCTA
1 ATTTGGTACATGAACTTGACACTTTTTCTTAATTTGGTACCTAAACTTCTTTTTAGCCCA
* *
31805364 ATTTGGTACATGAACTTGACA-TTTTATCCTAATTTGGTACCTAAACTTTTTTTTAGCCCA
1 ATTTGGTACATGAACTTGACACTTTT-TCTTAATTTGGTACCTAAACTTCTTTTTAGCCCA
* * *
31805424 ATTTGGTA-ACTGAACTAGACATTTTTTTATTAATTTGGTACCTAAA
1 ATTTGGTACA-TGAACTTGACA-CTTTTTCTTAATTTGGTACCTAAA
31805470 TTTATTAAAT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
58 4 0.04
59 38 0.42
60 28 0.31
61 17 0.19
62 4 0.04
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (60 bp):
ATTTGGTACATGAACTTGACACTTTTTCTTAATTTGGTACCTAAACTTCTTTTTAGCCCA
Found at i:31805445 original size:60 final size:60
Alignment explanation
Indices: 31805334--31805469 Score: 177
Period size: 60 Copynumber: 2.3 Consensus size: 60
31805324 CACTTTTTCT
* * * *
31805334 TAATTTGGTACCTAAACTCTTTTTGGCCTAATTTGGTACATGAACTTGACA-TTTTATCC
1 TAATTTGGTACCTAAACTCTTTTTAGCCCAATTTGGTACATGAACTAGACATTTTTATAC
* * *
31805393 TAATTTGGTACCTAAACTTTTTTTTAGCCCAATTTGGTA-ACTGAACTAGACATTTTTTTAT
1 TAATTTGGTACCTAAAC-TCTTTTTAGCCCAATTTGGTACA-TGAACTAGACATTTTTATAC
31805454 TAATTTGGTACCTAAA
1 TAATTTGGTACCTAAA
31805470 TTTATTAAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
59 18 0.27
60 28 0.42
61 21 0.31
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.43
Consensus pattern (60 bp):
TAATTTGGTACCTAAACTCTTTTTAGCCCAATTTGGTACATGAACTAGACATTTTTATAC
Found at i:31807438 original size:19 final size:18
Alignment explanation
Indices: 31807403--31807439 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
31807393 AATGAAGACT
31807403 TTGCATAAAAAGAAAAAA
1 TTGCATAAAAAGAAAAAA
*
31807421 TTGCATAAAAAGACAAAA
1 TTGCATAAAAAGAAAAAA
31807439 T
1 T
31807440 ACCAATTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.08, G:0.11, T:0.19
Consensus pattern (18 bp):
TTGCATAAAAAGAAAAAA
Found at i:31812810 original size:56 final size:55
Alignment explanation
Indices: 31812750--31812857 Score: 137
Period size: 56 Copynumber: 1.9 Consensus size: 55
31812740 TTTAATCATG
* * * *
31812750 CCTATCTGATAGGCGCGAATCAATATTTTATGTA-AATTTTTTTTCATTTAATTGCA
1 CCTATCTAACAGGCACGAATCAAT-TTTT-TGTATAAATTTTTTTCATTTAATTGCA
*
31812806 CCTATCTAACAGGCACGAATCAATTTTTTGTATTAAATTTTTTTCGTTTAAT
1 CCTATCTAACAGGCACGAATCAATTTTTTGTA-TAAATTTTTTTCATTTAAT
31812858 AAAATATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
54 4 0.09
55 4 0.09
56 37 0.82
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (55 bp):
CCTATCTAACAGGCACGAATCAATTTTTTGTATAAATTTTTTTCATTTAATTGCA
Found at i:31812972 original size:27 final size:27
Alignment explanation
Indices: 31812942--31813056 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 27
31812932 GATAGGCGTT
* * *
31812942 ACTAGTTGAGCCTATCTCAGAGGTGCG
1 ACTAGTTCAGCCTATCTCACAGGCGCG
*
31812969 ACTAGTTGAGCCTATCTCACAGGCGCG
1 ACTAGTTCAGCCTATCTCACAGGCGCG
*
31812996 GCTAGTTCAGCCTATCTCACAGGCGCG
1 ACTAGTTCAGCCTATCTCACAGGCGCG
* * *
31813023 GCTAGTTCAGCCTATCTGACAGGCGTG
1 ACTAGTTCAGCCTATCTCACAGGCGCG
*
31813050 AGTAGTT
1 ACTAGTT
31813057 GTGCCTAACT
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.25
Consensus pattern (27 bp):
ACTAGTTCAGCCTATCTCACAGGCGCG
Found at i:31813062 original size:27 final size:27
Alignment explanation
Indices: 31812944--31813073 Score: 138
Period size: 27 Copynumber: 4.8 Consensus size: 27
31812934 TAGGCGTTAC
* * *
31812944 TAGTTGAGCCTATCTCAGAGGTGCGAC
1 TAGTTGAGCCTATCTCACAGGCGCGAG
31812971 TAGTTGAGCCTATCTCACAGGCGCG-G
1 TAGTTGAGCCTATCTCACAGGCGCGAG
*
31812997 CTAGTTCAGCCTATCTCACAGGCGCG-G
1 -TAGTTGAGCCTATCTCACAGGCGCGAG
* * *
31813024 CTAGTTCAGCCTATCTGACAGGCGTGAG
1 -TAGTTGAGCCTATCTCACAGGCGCGAG
* * *
31813052 TAGTTGTGCCTAACTCAAAGGC
1 TAGTTGAGCCTATCTCACAGGC
31813074 ACGAATGGTG
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
27 89 0.99
28 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.25
Consensus pattern (27 bp):
TAGTTGAGCCTATCTCACAGGCGCGAG
Found at i:31813063 original size:54 final size:54
Alignment explanation
Indices: 31812926--31813073 Score: 154
Period size: 54 Copynumber: 2.7 Consensus size: 54
31812916 CAGGTTGCGG
* * * * * * *
31812926 CTATTTGATAGGCGTTACTAGTTGAGCCTATCTCAGAGGTGCGACTAGTTGAGC
1 CTATCTGACAGGCGTGAGTAGTTGAGCCTATCTCAAAGGCGCGACTAGTTCAGC
* * * * *
31812980 CTATCTCACAGGCGCG-GCTAGTTCAGCCTATCTCACAGGCGCGGCTAGTTCAGC
1 CTATCTGACAGGCGTGAG-TAGTTGAGCCTATCTCAAAGGCGCGACTAGTTCAGC
* *
31813034 CTATCTGACAGGCGTGAGTAGTTGTGCCTAACTCAAAGGC
1 CTATCTGACAGGCGTGAGTAGTTGAGCCTATCTCAAAGGC
31813074 ACGAATGGTG
Statistics
Matches: 75, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
54 74 0.99
55 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.26
Consensus pattern (54 bp):
CTATCTGACAGGCGTGAGTAGTTGAGCCTATCTCAAAGGCGCGACTAGTTCAGC
Found at i:31816596 original size:33 final size:33
Alignment explanation
Indices: 31816559--31816622 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
31816549 ATACGGGTCG
* *
31816559 GAAGGGGCAGAGTGCTAAGGTGGATACGAGCCA
1 GAAGGAGCAGAGTACTAAGGTGGATACGAGCCA
** *
31816592 GAAGGAGTGGAGTACTGAGGTGGATACGAGC
1 GAAGGAGCAGAGTACTAAGGTGGATACGAGC
31816623 TAGGATGACT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.30, C:0.12, G:0.44, T:0.14
Consensus pattern (33 bp):
GAAGGAGCAGAGTACTAAGGTGGATACGAGCCA
Found at i:31816636 original size:33 final size:33
Alignment explanation
Indices: 31816576--31816647 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
31816566 CAGAGTGCTA
*
31816576 AGGTGGATACGAGCCAGAAGGAGTGGAGTACTG
1 AGGTGGATACGAGCCAGAAGGACTGGAGTACTG
* * *
31816609 AGGTGGATACGAGCTAGGATGACTGGAGTACTG
1 AGGTGGATACGAGCCAGAAGGACTGGAGTACTG
31816642 AGGTGG
1 AGGTGG
31816648 TAGTGGGCTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.28, C:0.11, G:0.43, T:0.18
Consensus pattern (33 bp):
AGGTGGATACGAGCCAGAAGGACTGGAGTACTG
Found at i:31820680 original size:22 final size:20
Alignment explanation
Indices: 31820655--31820695 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
31820645 TTTAATCAAC
*
31820655 ATTTTAATAAATCAATAAAAAA
1 ATTTAAATAAAT-AA-AAAAAA
31820677 ATTTAAATAAATAAAAAAA
1 ATTTAAATAAATAAAAAAA
31820696 TAAAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 11 0.61
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
ATTTAAATAAATAAAAAAAA
Found at i:31820689 original size:18 final size:18
Alignment explanation
Indices: 31820662--31820696 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
31820652 AACATTTTAA
*
31820662 TAAATCAATAAAAAAATT
1 TAAATAAATAAAAAAATT
31820680 TAAATAAATAAAAAAAT
1 TAAATAAATAAAAAAAT
31820697 AAAATAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
TAAATAAATAAAAAAATT
Found at i:31820706 original size:18 final size:18
Alignment explanation
Indices: 31820663--31820704 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
31820653 ACATTTTAAT
* *
31820663 AAATCAATAAAAAAATTT
1 AAATAAATAAAAAAATTA
31820681 AAATAAATAAAAAAA-TA
1 AAATAAATAAAAAAATTA
31820698 AAATAAA
1 AAATAAA
31820705 ATTACATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.21
Consensus pattern (18 bp):
AAATAAATAAAAAAATTA
Found at i:31821202 original size:21 final size:21
Alignment explanation
Indices: 31821176--31821216 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
31821166 TTAAATTTCA
31821176 AATATAATATTGAAGTCTTAT
1 AATATAATATTGAAGTCTTAT
31821197 AATATAATATTGAAGTCTTA
1 AATATAATATTGAAGTCTTA
31821217 CAAATTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (21 bp):
AATATAATATTGAAGTCTTAT
Found at i:31821496 original size:8 final size:8
Alignment explanation
Indices: 31821479--31821559 Score: 57
Period size: 8 Copynumber: 10.4 Consensus size: 8
31821469 AATACATTAC
31821479 CTTT-TTT
1 CTTTCTTT
31821486 CTTTCTTT
1 CTTTCTTT
31821494 CTTTCTTT
1 CTTTCTTT
31821502 C-TTC-TT
1 CTTTCTTT
31821508 C-TTCTCTT
1 CTTTCT-TT
31821516 C-TTC-TT
1 CTTTCTTT
*
31821522 CTTTTTTT
1 CTTTCTTT
31821530 CTTCTCCTTT
1 CTT-T-CTTT
*
31821540 CTCTCTTTT
1 CTTTC-TTT
*
31821549 CTTTCTGT
1 CTTTCTTT
31821557 CTT
1 CTT
31821560 CCGGTGGTGA
Statistics
Matches: 61, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
6 9 0.15
7 9 0.15
8 29 0.48
9 9 0.15
10 5 0.08
ACGTcount: A:0.00, C:0.28, G:0.01, T:0.70
Consensus pattern (8 bp):
CTTTCTTT
Found at i:31821506 original size:11 final size:11
Alignment explanation
Indices: 31821479--31821559 Score: 58
Period size: 11 Copynumber: 6.9 Consensus size: 11
31821469 AATACATTAC
*
31821479 CTTTTTTCTTT
1 CTTTCTTCTTT
31821490 CTTTCTTTCTTT
1 CTTTC-TTCTTT
31821502 C-TTCTTCTTCT
1 CTTTCTTCTT-T
31821513 CTTCTTCTTCTTT
1 C-T-TTCTTCTTT
* *
31821526 TTTTCTTC-TC
1 CTTTCTTCTTT
31821536 CTTTCTCTCTTTT
1 CTTTCT-TC-TTT
31821549 CTTTCTGTCTT
1 CTTTCT-TCTT
31821560 CCGGTGGTGA
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
10 11 0.20
11 17 0.30
12 10 0.18
13 10 0.18
14 8 0.14
ACGTcount: A:0.00, C:0.28, G:0.01, T:0.70
Consensus pattern (11 bp):
CTTTCTTCTTT
Found at i:31821517 original size:14 final size:13
Alignment explanation
Indices: 31821484--31821560 Score: 74
Period size: 13 Copynumber: 6.0 Consensus size: 13
31821474 ATTACCTTTT
31821484 TTCTTTC-T-TTC
1 TTCTTTCTTCTTC
31821495 TTTCTTTCTTCTTC
1 -TTCTTTCTTCTTC
31821509 TTCTCTTCTTCTTC
1 TTCT-TTCTTCTTC
31821523 TT-TTT-TTCTTC
1 TTCTTTCTTCTTC
*
31821534 TCCTTTCTCTCTT-
1 TTCTTTCT-TCTTC
31821547 TTCTTTCTGTCTTC
1 TTCTTTCT-TCTTC
31821561 CGGTGGTGAA
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
11 7 0.13
12 12 0.22
13 18 0.33
14 18 0.33
ACGTcount: A:0.00, C:0.30, G:0.01, T:0.69
Consensus pattern (13 bp):
TTCTTTCTTCTTC
Found at i:31821611 original size:20 final size:20
Alignment explanation
Indices: 31821586--31821629 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
31821576 TTTTTCTTCC
* *
31821586 CATTGAAGGGACAGCAGCAG
1 CATTGAAGGGACAACAACAG
31821606 CATTGAAGGGACAACAACAG
1 CATTGAAGGGACAACAACAG
31821626 CATT
1 CATT
31821630 AATGGTTGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.39, C:0.20, G:0.27, T:0.14
Consensus pattern (20 bp):
CATTGAAGGGACAACAACAG
Found at i:31823728 original size:79 final size:78
Alignment explanation
Indices: 31823626--31823848 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
31823616 GCTCCTCGTT
* *
31823626 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
31823691 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
31823706 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
31823769 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
31823784 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
31823847 GA
63 GA
31823849 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:31823743 original size:39 final size:40
Alignment explanation
Indices: 31823626--31823848 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
31823616 GCTCCTCGTT
* *
31823626 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
31823666 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
31823706 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
31823745 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
31823784 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
31823825 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31823849 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:31831741 original size:79 final size:81
Alignment explanation
Indices: 31831639--31831823 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
31831629 GCTCCTCGTT
* *
31831639 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
31831702 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
31831719 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
31831783 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
31831799 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31831824 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:31831823 original size:40 final size:40
Alignment explanation
Indices: 31831639--31831823 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
31831629 GCTCCTCGTT
* *
31831639 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
31831679 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
31831719 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
31831758 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
31831799 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31831824 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:31833790 original size:23 final size:23
Alignment explanation
Indices: 31833754--31833801 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
31833744 TTTGGCGGTA
*
31833754 TCAAAGCTTAGGTTATTTAACAC
1 TCAAACCTTAGGTTATTTAACAC
*
31833777 TCAAACCTTTGGTTATTTAACAC
1 TCAAACCTTAGGTTATTTAACAC
31833800 TC
1 TC
31833802 GGACCGAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (23 bp):
TCAAACCTTAGGTTATTTAACAC
Found at i:31849236 original size:16 final size:16
Alignment explanation
Indices: 31849215--31849246 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
31849205 CCTTTCATGC
31849215 CCCAAAATTCTTAGTT
1 CCCAAAATTCTTAGTT
31849231 CCCAAAATTCTTAGTT
1 CCCAAAATTCTTAGTT
31849247 TTAGTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (16 bp):
CCCAAAATTCTTAGTT
Found at i:31849574 original size:28 final size:28
Alignment explanation
Indices: 31849534--31849594 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
31849524 CCTTTTTGGC
*
31849534 TTCTTGTTCCTTAGGTTGCCATTTCAAT
1 TTCTTGTTCCTTAGGCTGCCATTTCAAT
* * *
31849562 TTCTTGTTCCTTATGCTGTCGTTTCAAT
1 TTCTTGTTCCTTAGGCTGCCATTTCAAT
31849590 TTCTT
1 TTCTT
31849595 TCCTTTTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.11, C:0.21, G:0.13, T:0.54
Consensus pattern (28 bp):
TTCTTGTTCCTTAGGCTGCCATTTCAAT
Found at i:31859964 original size:5 final size:6
Alignment explanation
Indices: 31859954--31860009 Score: 51
Period size: 6 Copynumber: 8.8 Consensus size: 6
31859944 TTAGTTTAGC
* *
31859954 ATTTTT ATTTTA ATTTTA ATTTTA TGTTTTTA A-TTTA ATTTTTA CATTTTA
1 ATTTTA ATTTTA ATTTTA ATTTTA --ATTTTA ATTTTA A-TTTTA -ATTTTA
31860005 ATTTT
1 ATTTT
31860010 TCTTTTGTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
5 5 0.12
6 22 0.52
7 9 0.21
8 6 0.14
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (6 bp):
ATTTTA
Found at i:31860004 original size:14 final size:13
Alignment explanation
Indices: 31859954--31860010 Score: 66
Period size: 14 Copynumber: 4.5 Consensus size: 13
31859944 TTAGTTTAGC
31859954 ATTTTT-ATTTTA
1 ATTTTTAATTTTA
31859966 A-TTTTAATTTTA
1 ATTTTTAATTTTA
*
31859978 TGTTTTTAA-TTTA
1 -ATTTTTAATTTTA
31859991 ATTTTTACATTTTA
1 ATTTTTA-ATTTTA
31860005 ATTTTT
1 ATTTTT
31860011 CTTTTGTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
11 4 0.11
12 13 0.34
13 5 0.13
14 16 0.42
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (13 bp):
ATTTTTAATTTTA
Found at i:31862785 original size:17 final size:17
Alignment explanation
Indices: 31862763--31862805 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
31862753 CACGGCCTAG
*
31862763 CCACATGGTCATGTGGT
1 CCACATGGTCATGTGGC
* **
31862780 CCACATAGTTGTGTGGC
1 CCACATGGTCATGTGGC
31862797 CCACATGGT
1 CCACATGGT
31862806 TTGACTCATG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.28
Consensus pattern (17 bp):
CCACATGGTCATGTGGC
Found at i:31862987 original size:16 final size:16
Alignment explanation
Indices: 31862963--31863007 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
31862953 ATTTCTTACT
*
31862963 TTTACTTTTACTTTTA
1 TTTATTTTTACTTTTA
31862979 TTTATTTTTACTTTTTA
1 TTTATTTTTAC-TTTTA
*
31862996 TTT-TTTTGACTT
1 TTTATTTTTACTT
31863008 ATATGTTTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 2 0.08
16 16 0.62
17 8 0.31
ACGTcount: A:0.16, C:0.09, G:0.02, T:0.73
Consensus pattern (16 bp):
TTTATTTTTACTTTTA
Found at i:31866246 original size:75 final size:75
Alignment explanation
Indices: 31866095--31866258 Score: 206
Period size: 75 Copynumber: 2.2 Consensus size: 75
31866085 ACTTAGATTT
* * * * *
31866095 CCCGACAACGATGACCTACCACCTTAGATTGCAAGGCAAAGATGGTTTATCGAATGAAATTTGTC
1 CCCGACAATGATGACCTACCACCTAAGATTGCAA-GCAAAGATGGTTTATCGAATCAAATCTATC
*
31866160 ATCCTGAGTTG
65 ATCCCGAGTTG
* *
31866171 CCCGAAAATGATGACCTACCA-CTAAGGATTGCCAA-CAATGATGGTTTATCGAATCAAATCTAT
1 CCCGACAATGATGACCTACCACCTAA-GATTG-CAAGCAAAGATGGTTTATCGAATCAAATCTAT
*
31866234 CATCCCGGGTTG
64 CATCCCGAGTTG
31866246 CCCGACAATGATG
1 CCCGACAATGATG
31866259 GTTCACAAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
75 49 0.64
76 24 0.32
77 3 0.04
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (75 bp):
CCCGACAATGATGACCTACCACCTAAGATTGCAAGCAAAGATGGTTTATCGAATCAAATCTATCA
TCCCGAGTTG
Found at i:31866804 original size:14 final size:14
Alignment explanation
Indices: 31866716--31866807 Score: 103
Period size: 14 Copynumber: 6.4 Consensus size: 14
31866706 ATACACTATA
31866716 AGCTCGCACATTAGGT
1 AGCTCGCACA--AGGT
*
31866732 AGCTCGTACAAGAGT
1 AGCTCGCACAAG-GT
* *
31866747 AACTCGCACAAGGA
1 AGCTCGCACAAGGT
31866761 AGCTCGCACAAGGT
1 AGCTCGCACAAGGT
*
31866775 AGTTCGCACAAGGT
1 AGCTCGCACAAGGT
* *
31866789 AGCTCACACAAAGT
1 AGCTCGCACAAGGT
31866803 AGCTC
1 AGCTC
31866808 CAACAATGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
14 44 0.68
15 12 0.18
16 9 0.14
ACGTcount: A:0.33, C:0.26, G:0.24, T:0.17
Consensus pattern (14 bp):
AGCTCGCACAAGGT
Found at i:31867381 original size:27 final size:29
Alignment explanation
Indices: 31867336--31867399 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 29
31867326 ACCTTTTCCC
* *
31867336 CTTTTTTCTCTCTATTTTTTATTGTCTTT
1 CTTTTTTCTCTCTACTTTTGATTGTCTTT
* *
31867365 CTTTTTTCTCT-T-CTTTTGCTTTTCTTT
1 CTTTTTTCTCTCTACTTTTGATTGTCTTT
31867392 CATTTTTT
1 C-TTTTTT
31867400 TCCTTTCTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 12 0.40
28 7 0.23
29 11 0.37
ACGTcount: A:0.05, C:0.19, G:0.03, T:0.73
Consensus pattern (29 bp):
CTTTTTTCTCTCTACTTTTGATTGTCTTT
Found at i:31867405 original size:19 final size:19
Alignment explanation
Indices: 31867365--31867423 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 19
31867355 TATTGTCTTT
* * *
31867365 CTTTT-TTCTCTTCTTTTG
1 CTTTTCTTCTATTTTTTTC
31867383 CTTTTCTT-TCATTTTTTTC
1 CTTTTCTTCT-ATTTTTTTC
31867402 C-TTTCTTCTATTTTTCTTC
1 CTTTTCTTCTATTTTT-TTC
31867421 CTT
1 CTT
31867424 GATCTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
18 18 0.55
19 14 0.42
20 1 0.03
ACGTcount: A:0.03, C:0.24, G:0.02, T:0.71
Consensus pattern (19 bp):
CTTTTCTTCTATTTTTTTC
Found at i:31867467 original size:22 final size:21
Alignment explanation
Indices: 31867442--31867485 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
31867432 TTTTCCTTTT
*
31867442 TGCTTCCAATTTTCAGCAACCA
1 TGCTGCCAATTTTCAGC-ACCA
*
31867464 TGCTGCCAATTTTTAGCACCA
1 TGCTGCCAATTTTCAGCACCA
31867485 T
1 T
31867486 AATCTCTCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (21 bp):
TGCTGCCAATTTTCAGCACCA
Found at i:31882768 original size:79 final size:78
Alignment explanation
Indices: 31882666--31882888 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
31882656 GCTCCTCGTT
* *
31882666 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
31882731 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
31882746 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
31882810 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
31882824 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
31882887 GA
63 GA
31882889 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 45 0.36
79 60 0.48
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:31882783 original size:39 final size:40
Alignment explanation
Indices: 31882666--31882888 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
31882656 GCTCCTCGTT
* *
31882666 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
31882706 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
31882746 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
31882785 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
31882824 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
31882865 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31882889 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:31894817 original size:28 final size:28
Alignment explanation
Indices: 31894747--31894809 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
31894737 GGAAAGAGTG
* * *
31894747 TGTGGGCCTTAGCTCAATACAGCAATAA
1 TGTGAGCCTTAGCCCAATACAGCAACAA
*
31894775 TGTGAGCCTTAGCCCAATACAGTAACAA
1 TGTGAGCCTTAGCCCAATACAGCAACAA
31894803 TGT-AGCC
1 TGTGAGCC
31894810 CTTTGCCCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 4 0.13
28 27 0.87
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (28 bp):
TGTGAGCCTTAGCCCAATACAGCAACAA
Found at i:31894998 original size:26 final size:26
Alignment explanation
Indices: 31894976--31895040 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
31894966 AGTAAAGCTA
31894976 CCAGTAACAGTATCGCAACAAAGTTG
1 CCAGTAACAGTATCGCAACAAAGTTG
* * * *
31895002 CTAGCAACAGTATCGCAGCAATGTTG
1 CCAGTAACAGTATCGCAACAAAGTTG
31895028 CCAGTAACAGTAT
1 CCAGTAACAGTAT
31895041 ACTTCCTCCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (26 bp):
CCAGTAACAGTATCGCAACAAAGTTG
Found at i:31895207 original size:27 final size:26
Alignment explanation
Indices: 31895185--31895381 Score: 104
Period size: 27 Copynumber: 7.4 Consensus size: 26
31895175 AGGGGTATAA
31895185 TAGTCATTTTACCTTATGAGGGTATT
1 TAGTCATTTTACCTTATGAGGGTATT
* *
31895211 TCGGTCATTTCACCCTT-TGA-GGTATTT
1 T-AGTCATTTTA-CCTTATGAGGGTA-TT
*
31895238 TAGTCATTTTACCCTATGA-GGTAATT
1 TAGTCATTTTACCTTATGAGGGT-ATT
* *
31895264 TGGTCATTTCT-CC-CATCGAGGGTATT
1 TAGTCATTT-TACCTTAT-GAGGGTATT
* * * *
31895290 TCGGTTATTTCACCCTT-TGGGGGTATT
1 T-AGTCATTTTA-CCTTATGAGGGTATT
* *
31895317 TCAGTCATTTTACCCTGT-AGGAGTATT
1 T-AGTCATTTTACCTTATGAGG-GTATT
*
31895344 TCAGTCATTTTACC-TATCGGGGGTATT
1 T-AGTCATTTTACCTTAT-GAGGGTATT
*
31895371 TCAATCATTTT
1 T-AGTCATTTT
31895382 CCCATAAATC
Statistics
Matches: 136, Mismatches: 19, Indels: 31
0.73 0.10 0.17
Matches are distributed among these distances:
25 5 0.04
26 44 0.32
27 78 0.57
28 9 0.07
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.43
Consensus pattern (26 bp):
TAGTCATTTTACCTTATGAGGGTATT
Found at i:31895242 original size:53 final size:54
Alignment explanation
Indices: 31895186--31895372 Score: 179
Period size: 53 Copynumber: 3.5 Consensus size: 54
31895176 GGGGTATAAT
*
31895186 AGTCATTTTACCTTATGAGGGTATTTCGGTCATTTCACCCTTTGA-GGTATTTT
1 AGTCATTTTACCTTATGAGGGTATTTCGGTCATTTCACCCTTTGAGGGTATTTC
* * * *
31895239 AGTCATTTTACCCTATGA-GGTAATTT-GGTCATTTCTCCCATCGAGGGTATTTC
1 AGTCATTTTACCTTATGAGGGT-ATTTCGGTCATTTCACCCTTTGAGGGTATTTC
* * * * * * *
31895292 GGTTATTTCACCCTT-TGGGGGTATTTCAGTCATTTTACCCTGT-AGGAGTATTTC
1 AGTCATTTTA-CCTTATGAGGGTATTTCGGTCATTTCACCCTTTGAGG-GTATTTC
*
31895346 AGTCATTTTACC-TATCGGGGGTATTTC
1 AGTCATTTTACCTTAT-GAGGGTATTTC
31895373 AATCATTTTC
Statistics
Matches: 107, Mismatches: 19, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
52 19 0.18
53 47 0.44
54 41 0.38
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (54 bp):
AGTCATTTTACCTTATGAGGGTATTTCGGTCATTTCACCCTTTGAGGGTATTTC
Found at i:31895243 original size:26 final size:26
Alignment explanation
Indices: 31895186--31895353 Score: 126
Period size: 27 Copynumber: 6.3 Consensus size: 26
31895176 GGGGTATAAT
*
31895186 AGTCATTTTA-CCTTATGAGGGTATTTC
1 AGTCATTTCACCCTT-TGA-GGTATTTC
* *
31895213 GGTCATTTCACCCTTTGAGGTATTTT
1 AGTCATTTCACCCTTTGAGGTATTTC
* *
31895239 AGTCATTTTACCCTATGAGGTAATTT-
1 AGTCATTTCACCCTTTGAGGT-ATTTC
* * * *
31895265 GGTCATTTCTCCCATCGAGGGTATTTC
1 AGTCATTTCACCCTTTGA-GGTATTTC
* * *
31895292 GGTTATTTCACCCTTTGGGGGTATTTC
1 AGTCATTTCACCCTTT-GAGGTATTTC
* *
31895319 AGTCATTTTACCCTGT-AGGAGTATTTC
1 AGTCATTTCACCCTTTGA-G-GTATTTC
31895346 AGTCATTT
1 AGTCATTT
31895354 TACCTATCGG
Statistics
Matches: 112, Mismatches: 22, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
26 42 0.38
27 65 0.58
28 5 0.04
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.43
Consensus pattern (26 bp):
AGTCATTTCACCCTTTGAGGTATTTC
Found at i:31899729 original size:21 final size:20
Alignment explanation
Indices: 31899697--31899738 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
31899687 TTTAACTAAA
31899697 TTAATTCGCTAACACCAAATT
1 TTAATTCGCTAAC-CCAAATT
*
31899718 TTAATTTC-CTAACCTAAATT
1 TTAA-TTCGCTAACCCAAATT
31899738 T
1 T
31899739 ATTAATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 7 0.37
21 9 0.47
22 3 0.16
ACGTcount: A:0.36, C:0.21, G:0.02, T:0.40
Consensus pattern (20 bp):
TTAATTCGCTAACCCAAATT
Found at i:31899763 original size:19 final size:19
Alignment explanation
Indices: 31899735--31899780 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
31899725 CCTAACCTAA
31899735 ATTT-ATTAATTCT-AATTT
1 ATTTAATTAATTCTGAA-TT
*
31899753 TTTTAATTAATTCTGAATT
1 ATTTAATTAATTCTGAATT
31899772 ATTTAATTA
1 ATTTAATTA
31899781 TCTAACCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 3 0.12
19 19 0.79
20 2 0.08
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (19 bp):
ATTTAATTAATTCTGAATT
Found at i:31902503 original size:76 final size:76
Alignment explanation
Indices: 31902344--31902511 Score: 219
Period size: 76 Copynumber: 2.2 Consensus size: 76
31902334 CCGAATTTCC
* * * * * *
31902344 AGACAACGATGGTTTATCGAATCAAATCTTTCATCCTGGGTTGCCCAGAAATGATAGCCTACCAC
1 AGACAATGATGGTTCATCGAATCAAATATGTCATCCTGGGTTGCCAAGAAATGATAACCTACCAC
**
31902409 ATCGAATTGCT
66 ATCGAATCACT
* *
31902420 CGACAATGATGGTTCATCGAATCAAATATGTCATCCTGGGTTGCCAAGCAATGATAACCTACCAC
1 AGACAATGATGGTTCATCGAATCAAATATGTCATCCTGGGTTGCCAAGAAATGATAACCTACCAC
* *
31902485 CTCGGATCACT
66 ATCGAATCACT
*
31902496 AGGCAATGATGGTTCA
1 AGACAATGATGGTTCA
31902512 CAAAATAATA
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
76 78 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (76 bp):
AGACAATGATGGTTCATCGAATCAAATATGTCATCCTGGGTTGCCAAGAAATGATAACCTACCAC
ATCGAATCACT
Found at i:31903823 original size:290 final size:290
Alignment explanation
Indices: 31903341--31903876 Score: 984
Period size: 290 Copynumber: 1.8 Consensus size: 290
31903331 TTTGAGCGTT
* * *
31903341 TTAAAGAACCCTTGGTCGGCCACCTTGGAGAGCCATCAGCAAAAGAGCAAAGCAAAGGAATGAAT
1 TTAAAGAACCCTTGGCCGGCCACCTTGGAGAGCCATCAGCAAAAGAGCAAAGCAAAGGAACGAAG
* * *
31903406 TAGCCTTGTTAGTCAGAGTATTGGGTGACCGCCATTCTGAATTGGGTTTAATCTTTCTTTTCATT
66 GAGCCTCGTCAGTCAGAGTATTGGGTGACCGCCATTCTGAATTGGGTTTAATCTTTCTTTTCATT
31903471 AATTTAATATAAAGATGTTTGCTATGTGTTCTTTGTTCTTGTTTACAACAATGATAGCTTAATTT
131 AATTTAATATAAAGATGTTTGCTATGTGTTCTTTGTTCTTGTTTACAACAATGATAGCTTAATTT
31903536 TATTTAAGTTAGGATGATTATTTTGATTAAATAATATTTATTTGATTAATGTCCCCTTCATCATC
196 TATTTAAGTTAGGATGATTATTTTGATTAAATAATATTTATTTGATTAATGTCCCCTTCATCATC
31903601 CTTGTATAAGAATTTTAGCAATTAAGCCTA
261 CTTGTATAAGAATTTTAGCAATTAAGCCTA
*
31903631 TTAAAGAACCCTTGGCCGGCCACCTTGGAGAGCCATCAGCAAAGGAGCAAAGCAAA-GAAGCGAA
1 TTAAAGAACCCTTGGCCGGCCACCTTGGAGAGCCATCAGCAAAAGAGCAAAGCAAAGGAA-CGAA
*
31903695 GGAGCCTCGTCAGTCAGAGTCTTGGGTGACCGCCATTCTGAATTGGGTTTAATCTTTCTTTTCAT
65 GGAGCCTCGTCAGTCAGAGTATTGGGTGACCGCCATTCTGAATTGGGTTTAATCTTTCTTTTCAT
31903760 TAATTTAATATAAAGATGTTTGCTATGTGTTCTTTGTTCTTGTTTACAACAATGATAGCTTAATT
130 TAATTTAATATAAAGATGTTTGCTATGTGTTCTTTGTTCTTGTTTACAACAATGATAGCTTAATT
31903825 TTATTTAAGTTAGGATGATTATTTTGATTAAATAATATTTATTTGATTAATG
195 TTATTTAAGTTAGGATGATTATTTTGATTAAATAATATTTATTTGATTAATG
31903877 ATTATAATGT
Statistics
Matches: 237, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
289 3 0.01
290 234 0.99
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (290 bp):
TTAAAGAACCCTTGGCCGGCCACCTTGGAGAGCCATCAGCAAAAGAGCAAAGCAAAGGAACGAAG
GAGCCTCGTCAGTCAGAGTATTGGGTGACCGCCATTCTGAATTGGGTTTAATCTTTCTTTTCATT
AATTTAATATAAAGATGTTTGCTATGTGTTCTTTGTTCTTGTTTACAACAATGATAGCTTAATTT
TATTTAAGTTAGGATGATTATTTTGATTAAATAATATTTATTTGATTAATGTCCCCTTCATCATC
CTTGTATAAGAATTTTAGCAATTAAGCCTA
Found at i:31904203 original size:70 final size:70
Alignment explanation
Indices: 31904108--31904247 Score: 237
Period size: 70 Copynumber: 2.0 Consensus size: 70
31904098 TAGATTTGTG
*
31904108 TGATTAAATTGATTTAAACCTAACACGTCCCTATTACCTCACACGAATGCTAAGAAATCCTTAGT
1 TGATTAAATTGATTTAAACCTAACACGTCCCTATTACCTCACACGAATGCTAAGAAACCCTTAGT
31904173 AAATA
66 AAATA
* *
31904178 TGATTAAATTG-TTTCAAGCCTAACACGTCCCTGTTACCTCACACGAATGCTAAGAAACCCTTAG
1 TGATTAAATTGATTT-AAACCTAACACGTCCCTATTACCTCACACGAATGCTAAGAAACCCTTAG
31904242 TAAATA
65 TAAATA
31904248 AGGATCAATA
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
69 3 0.05
70 63 0.95
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.29
Consensus pattern (70 bp):
TGATTAAATTGATTTAAACCTAACACGTCCCTATTACCTCACACGAATGCTAAGAAACCCTTAGT
AAATA
Found at i:31906925 original size:15 final size:16
Alignment explanation
Indices: 31906901--31906939 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
31906891 TCATTCAATG
*
31906901 AATATCTTTTT-CATA
1 AATATTTTTTTACATA
31906916 AATATTTTTTTACATA
1 AATATTTTTTTACATA
*
31906932 AAGATTTT
1 AATATTTT
31906940 AGTTTTACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.54
Consensus pattern (16 bp):
AATATTTTTTTACATA
Found at i:31907521 original size:19 final size:19
Alignment explanation
Indices: 31907480--31907520 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
31907470 TTTTGAGCAA
*
31907480 TTTAATTTTTTTATCTTCT
1 TTTAATTTCTTTATCTTCT
*
31907499 TTTAACTTTCTTTATTTTCT
1 TTTAA-TTTCTTTATCTTCT
31907519 TT
1 TT
31907521 ATTTTTCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTAATTTCTTTATCTTCT
Found at i:31909567 original size:21 final size:21
Alignment explanation
Indices: 31909541--31909594 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
31909531 CAGCGGTGGA
*
31909541 GGTGAGATTAGTTACTGTAGC
1 GGTGAGATTAGATACTGTAGC
*
31909562 GGTGAGATTGGATACTGTAGC
1 GGTGAGATTAGATACTGTAGC
*
31909583 AGTGAGATTAGA
1 GGTGAGATTAGA
31909595 AACAATGGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.28, C:0.07, G:0.35, T:0.30
Consensus pattern (21 bp):
GGTGAGATTAGATACTGTAGC
Found at i:31929260 original size:14 final size:15
Alignment explanation
Indices: 31929241--31929273 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
31929231 AAGGTTAAAG
31929241 AAAAA-CACTTTTCA
1 AAAAACCACTTTTCA
*
31929255 AAAAACCATTTTTCA
1 AAAAACCACTTTTCA
31929270 AAAA
1 AAAA
31929274 TAAACTAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAAACCACTTTTCA
Found at i:31942202 original size:13 final size:13
Alignment explanation
Indices: 31942186--31942210 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31942176 AAATTTTTAA
31942186 CTTTTCAAAAGTG
1 CTTTTCAAAAGTG
31942199 CTTTTCAAAAGT
1 CTTTTCAAAAGT
31942211 ACTTCTGAAA
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:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (13 bp):
CTTTTCAAAAGTG
Found at i:31942707 original size:13 final size:13
Alignment explanation
Indices: 31942691--31942754 Score: 85
Period size: 13 Copynumber: 4.9 Consensus size: 13
31942681 TTTAAACCAA
*
31942691 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
*
31942704 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
*
31942717 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
31942730 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
31942743 ACTTTTCAAAAG
1 ACTTTTCAAAAG
31942755 TAATGAAGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
12 4 0.09
13 36 0.82
14 4 0.09
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:31944633 original size:9 final size:9
Alignment explanation
Indices: 31944619--31944701 Score: 103
Period size: 9 Copynumber: 9.2 Consensus size: 9
31944609 AGTGGATCAT
*
31944619 ATGATGCTG
1 ATGATGATG
*
31944628 ATGATGCTG
1 ATGATGATG
31944637 ATGATGATG
1 ATGATGATG
31944646 ATGATGATG
1 ATGATGATG
31944655 ATGATGATG
1 ATGATGATG
* **
31944664 AGGATGCGG
1 ATGATGATG
*
31944673 ATGAGGATG
1 ATGATGATG
31944682 ATGATGATG
1 ATGATGATG
*
31944691 ATAATGATG
1 ATGATGATG
31944700 AT
1 AT
31944702 ACCAATAATG
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 64 1.00
ACGTcount: A:0.31, C:0.04, G:0.35, T:0.30
Consensus pattern (9 bp):
ATGATGATG
Found at i:31944638 original size:6 final size:6
Alignment explanation
Indices: 31944619--31944701 Score: 103
Period size: 6 Copynumber: 13.8 Consensus size: 6
31944609 AGTGGATCAT
* * *
31944619 ATGATG CTGATG ATGCTG ATGATG ATGATG ATGATG ATGATG ATGAGG
1 ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG
** * *
31944667 ATGCGG ATGAGG ATGATG ATGATG ATAATG ATGAT
1 ATGATG ATGATG ATGATG ATGATG ATGATG ATGAT
31944702 ACCAATAATG
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 67 1.00
ACGTcount: A:0.31, C:0.04, G:0.35, T:0.30
Consensus pattern (6 bp):
ATGATG
Found at i:31945480 original size:52 final size:53
Alignment explanation
Indices: 31945374--31945484 Score: 197
Period size: 52 Copynumber: 2.1 Consensus size: 53
31945364 GGAAACTGAA
31945374 AAATTTCTCACCTTTCGCATTTAGTATGAATCTAACATGTTTAAGCTGCAATT
1 AAATTTCTCACCTTTCGCATTTAGTATGAATCTAACATGTTTAAGCTGCAATT
* *
31945427 AAATTTCTCACCTTTTGTATTTAGTATG-ATCTAACATGTTTAAGCTGCAATT
1 AAATTTCTCACCTTTCGCATTTAGTATGAATCTAACATGTTTAAGCTGCAATT
31945479 AAATTT
1 AAATTT
31945485 GTAGTTTGTT
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 30 0.54
53 26 0.46
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (53 bp):
AAATTTCTCACCTTTCGCATTTAGTATGAATCTAACATGTTTAAGCTGCAATT
Found at i:31958384 original size:27 final size:27
Alignment explanation
Indices: 31958353--31958440 Score: 95
Period size: 27 Copynumber: 3.3 Consensus size: 27
31958343 CACGACTTTT
*
31958353 ATTTCTTAGATCACCACAAAGGCTTCC
1 ATTTCTTAGATTACCACAAAGGCTTCC
* * * *
31958380 ATTTCTTAAATTTCCACAAAAGCTTTC
1 ATTTCTTAGATTACCACAAAGGCTTCC
* * **
31958407 ATTTCTTGGATTGCCACAAAGATTTCC
1 ATTTCTTAGATTACCACAAAGGCTTCC
31958434 ATTTCTT
1 ATTTCTT
31958441 TTTGCATGTT
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
ATTTCTTAGATTACCACAAAGGCTTCC
Found at i:31961678 original size:25 final size:25
Alignment explanation
Indices: 31961619--31961707 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
31961609 ATTCATGTAT
* * * *
31961619 GCTCATATGAGCTGTA-AATGGTAA
1 GCTCATGTGAGCTGAATAACGGAAA
* *
31961643 GCTCCTCTGAGCTGAATAACGGAAA
1 GCTCATGTGAGCTGAATAACGGAAA
*
31961668 GCTCATGTGAGTTGAATAAC-GAGAA
1 GCTCATGTGAGCTGAATAACGGA-AA
*
31961693 GCTCATGCGAGCTGA
1 GCTCATGTGAGCTGA
31961708 GTATCAGGAA
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
24 15 0.28
25 38 0.72
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (25 bp):
GCTCATGTGAGCTGAATAACGGAAA
Found at i:31969543 original size:47 final size:47
Alignment explanation
Indices: 31969486--31969838 Score: 589
Period size: 47 Copynumber: 7.4 Consensus size: 47
31969476 ATTGATGTAC
* * * * *
31969486 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
31969533 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
31969582 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
31969629 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
31969678 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
31969725 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* * *
31969772 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
31969819 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
31969839 TCCCGAAGGG
Statistics
Matches: 293, Mismatches: 9, Indels: 8
0.95 0.03 0.03
Matches are distributed among these distances:
47 203 0.69
49 90 0.31
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
Found at i:31969654 original size:96 final size:96
Alignment explanation
Indices: 31969486--31969838 Score: 606
Period size: 96 Copynumber: 3.7 Consensus size: 96
31969476 ATTGATGTAC
* * *
31969486 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGA
31969551 TAAGGCCTAATGGCCGATGTGATGAATGTGA
66 TAAGGCCTAATGGCCGATGTGATGAATGTGA
* *
31969582 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGA
31969647 TAAGGCCTAATGGCCGATGTGATGAATGTGA
66 TAAGGCCTAATGGCCGATGTGATGAATGTGA
* *
31969678 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGA
31969741 TAAGGCCTAATGGCCGATGTGATGAATGTGA
66 TAAGGCCTAATGGCCGATGTGATGAATGTGA
*
31969772 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGA
31969835 TAAG
66 TAAG
31969839 TCCCGAAGGG
Statistics
Matches: 247, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
94 101 0.41
95 1 0.00
96 145 0.59
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGA
TAAGGCCTAATGGCCGATGTGATGAATGTGA
Found at i:31977138 original size:55 final size:52
Alignment explanation
Indices: 31977005--31977140 Score: 159
Period size: 50 Copynumber: 2.6 Consensus size: 52
31976995 CTCATGTCGG
* * * *
31977005 TGCCCATGCCATGTACCAGACATGGTCTTACGGGGGACCTCTCATCTCGATA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACGGGAGACCTCTCATCTCAATA
* * * *
31977057 --CTAACGCCATGTCCCAGACATAGTCTTACGTGAGACCTCTCATAACTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACGGGAGACCTCTCAT--CTCAAT-A
31977110 TGCCAATGCCATGTCCCAGACATGGTCTTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC
31977141 ATAGGGTCTC
Statistics
Matches: 68, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
50 36 0.53
52 5 0.07
53 1 0.01
55 26 0.38
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (52 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACGGGAGACCTCTCATCTCAATA
Found at i:31983068 original size:26 final size:27
Alignment explanation
Indices: 31983038--31983093 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
31983028 ATGAAAATTA
31983038 TACAAATCACATAAATA-T-AATTCAAT
1 TACAAA-CACATAAATACTCAATTCAAT
* *
31983064 TAC-AACATATAAATACTCAATTTAAT
1 TACAAACACATAAATACTCAATTCAAT
31983090 TACA
1 TACA
31983094 CAAACTTACC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
24 9 0.36
25 3 0.12
26 13 0.52
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (27 bp):
TACAAACACATAAATACTCAATTCAAT
Found at i:31984941 original size:29 final size:29
Alignment explanation
Indices: 31984900--31985242 Score: 126
Period size: 29 Copynumber: 11.8 Consensus size: 29
31984890 CGATGGTCAT
* * *
31984900 AACCGTCCTTTTTCATATTCGATCGTCGA
1 AACCATCCCTTTTCATATTCGATAGTCGA
* * *
31984929 AACCATCCCTTTTCGTAGTT-GATGGTCGT
1 AACCATCCCTTTTCATA-TTCGATAGTCGA
* * * *
31984958 CATCATCCCTTTTCAT-TATCAATAGCCG-
1 AACCATCCCTTTTCATAT-TCGATAGTCGA
* * * *
31984986 AACCTATCCCTTTTCACATTTGATGGTCGT
1 AACC-ATCCCTTTTCATATTCGATAGTCGA
* ** *
31985016 CACCATCCCTTTTTGT-TGTCGATTGTC-A
1 AACCATCCCTTTTCATAT-TCGATAGTCGA
* * * *
31985044 TCACCGTCCCATTTCATAATCGATAG-CTGA
1 -AACCATCCCTTTTCATATTCGATAGTC-GA
* * * * * *
31985074 AGCTATCCCTTTTCACATTTGATGGTCGT
1 AACCATCCCTTTTCATATTCGATAGTCGA
* * * *
31985103 CACCATCCCTTTTCGT-TGTCGATGGTCGT
1 AACCATCCCTTTTCATAT-TCGATAGTCGA
* * * * *
31985132 CACCATCGCATTTCATAATCGATAGCCGA
1 AACCATCCCTTTTCATATTCGATAGTCGA
* * * * *
31985161 AGCTATTCCTTTTCATATTTGATAGCCGA
1 AACCATCCCTTTTCATATTCGATAGTCGA
* * *
31985190 AGCTATCCCTTTTCATATTCGATA-ACTGA
1 AACCATCCCTTTTCATATTCGATAGTC-GA
* * *
31985219 AGCTATCCCTTTTCATATTTGATA
1 AACCATCCCTTTTCATATTCGATA
31985243 ACCAAAGCTA
Statistics
Matches: 233, Mismatches: 66, Indels: 30
0.71 0.20 0.09
Matches are distributed among these distances:
27 1 0.00
28 7 0.03
29 217 0.93
30 8 0.03
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.38
Consensus pattern (29 bp):
AACCATCCCTTTTCATATTCGATAGTCGA
Found at i:31985059 original size:87 final size:87
Alignment explanation
Indices: 31984930--31985183 Score: 373
Period size: 87 Copynumber: 2.9 Consensus size: 87
31984920 GATCGTCGAA
* * * * * * *
31984930 ACCATCCCTTTTCGTAGTTGATGGTCGTCATCATCCCTTTTCATTATCAATAGCCGAACCTATCC
1 ACCATCCCTTTTCGTTGTCGATGGTCGTCACCATCCCATTTCATAATCGATAGCCGAAGCTATCC
31984995 CTTTTCACATTTGATGGTCGTC
66 CTTTTCACATTTGATGGTCGTC
* * * * *
31985017 ACCATCCCTTTTTGTTGTCGATTGTCATCACCGTCCCATTTCATAATCGATAGCTGAAGCTATCC
1 ACCATCCCTTTTCGTTGTCGATGGTCGTCACCATCCCATTTCATAATCGATAGCCGAAGCTATCC
31985082 CTTTTCACATTTGATGGTCGTC
66 CTTTTCACATTTGATGGTCGTC
* *
31985104 ACCATCCCTTTTCGTTGTCGATGGTCGTCACCATCGCATTTCATAATCGATAGCCGAAGCTATTC
1 ACCATCCCTTTTCGTTGTCGATGGTCGTCACCATCCCATTTCATAATCGATAGCCGAAGCTATCC
*
31985169 CTTTTCATATTTGAT
66 CTTTTCACATTTGAT
31985184 AGCCGAAGCT
Statistics
Matches: 147, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 147 1.00
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.38
Consensus pattern (87 bp):
ACCATCCCTTTTCGTTGTCGATGGTCGTCACCATCCCATTTCATAATCGATAGCCGAAGCTATCC
CTTTTCACATTTGATGGTCGTC
Done.