Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 84 of 226
Found at i:30025248 original size:41 final size:43
Alignment explanation
Indices: 30025164--30025250 Score: 133
Period size: 43 Copynumber: 2.1 Consensus size: 43
30025154 TTTTTTTTTT
*
30025164 TAATTTGATACTCGAATTTGACATTTTTTCTTAATTTGGTACC
1 TAATTTGATACTCGAATTTGACATTTTTTCTTAATTTGATACC
* *
30025207 TAATTTGATACTTGAATTTGA-TTTTTTTC-TAATTTGATACC
1 TAATTTGATACTCGAATTTGACATTTTTTCTTAATTTGATACC
30025248 TAA
1 TAA
30025251 ACTTTTTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 14 0.34
42 7 0.17
43 20 0.49
ACGTcount: A:0.28, C:0.11, G:0.10, T:0.51
Consensus pattern (43 bp):
TAATTTGATACTCGAATTTGACATTTTTTCTTAATTTGATACC
Found at i:30026284 original size:18 final size:17
Alignment explanation
Indices: 30026254--30026313 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
30026244 AGGCACTAAC
30026254 AATAAAAATAATATTTT
1 AATAAAAATAATATTTT
*
30026271 AATAAAAATGAATAAATTT
1 AATAAAAAT-AAT-ATTTT
*
30026290 -A-AAAAACAATATTTT
1 AATAAAAATAATATTTT
30026305 AATATAAAA
1 AATA-AAAA
30026314 ATAAGTGAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
15 4 0.11
16 4 0.11
17 15 0.43
18 8 0.23
19 4 0.11
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
AATAAAAATAATATTTT
Found at i:30030537 original size:18 final size:19
Alignment explanation
Indices: 30030514--30030558 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
30030504 AAATGTACTA
30030514 ATTAATTT-TTTGGACCAC
1 ATTAATTTCTTTGGACCAC
30030532 ATTAATTTCTTTGGACCAC
1 ATTAATTTCTTTGGACCAC
30030551 ATTAATTT
1 ATTAATTT
30030559 AAGATATTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 8 0.31
19 18 0.69
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.47
Consensus pattern (19 bp):
ATTAATTTCTTTGGACCAC
Found at i:30035439 original size:24 final size:24
Alignment explanation
Indices: 30035396--30035441 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
30035386 AAATACTTTA
*
30035396 AAAATATTTTTTATTTTTTATTTT
1 AAAATATTTTTTATTGTTTATTTT
30035420 AAAATATTTTTT-TGTGTTTATT
1 AAAATATTTTTTAT-TGTTTATT
30035442 AAAAATCGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (24 bp):
AAAATATTTTTTATTGTTTATTTT
Found at i:30038361 original size:22 final size:22
Alignment explanation
Indices: 30038329--30038377 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
30038319 ATTTTTTATG
*
30038329 TTATTTGTGAAACTTATTTATTT
1 TTATTTGTGAAACTT-GTTATTT
*
30038352 TTATTT-TGAACCTTGTTATTT
1 TTATTTGTGAAACTTGTTATTT
30038373 TTATT
1 TTATT
30038378 ATTTTGATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 11 0.46
22 7 0.29
23 6 0.25
ACGTcount: A:0.22, C:0.06, G:0.08, T:0.63
Consensus pattern (22 bp):
TTATTTGTGAAACTTGTTATTT
Found at i:30038443 original size:21 final size:20
Alignment explanation
Indices: 30038409--30038448 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
30038399 CGACATTGTA
*
30038409 ATTTTTTTATCTTCTTATTT
1 ATTTTTTTAACTTCTTATTT
30038429 ATTTTGTTTAACTTCTTATT
1 ATTTT-TTTAACTTCTTATT
30038449 AGTCTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.17, C:0.10, G:0.03, T:0.70
Consensus pattern (20 bp):
ATTTTTTTAACTTCTTATTT
Found at i:30039888 original size:24 final size:24
Alignment explanation
Indices: 30039860--30039911 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
30039850 TTAGTAAGTC
* *
30039860 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
30039884 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
30039908 AAAT
1 AAAT
30039912 CTTCTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:30041834 original size:24 final size:24
Alignment explanation
Indices: 30041806--30041858 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
30041796 ATTAGTAAGT
*
30041806 TAAATAAACTATGCTAATAAATAC
1 TAAATAAACTATACTAATAAATAC
* *
30041830 TAAATATATTATACTAATAAATAC
1 TAAATAAACTATACTAATAAATAC
30041854 TAAAT
1 TAAAT
30041859 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (24 bp):
TAAATAAACTATACTAATAAATAC
Found at i:30042326 original size:12 final size:12
Alignment explanation
Indices: 30042311--30042335 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30042301 AAAAACACCA
30042311 TTGAAGCAGATT
1 TTGAAGCAGATT
30042323 TTGAAGCAGATT
1 TTGAAGCAGATT
30042335 T
1 T
30042336 CTATCATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (12 bp):
TTGAAGCAGATT
Found at i:30046353 original size:39 final size:42
Alignment explanation
Indices: 30046310--30046404 Score: 106
Period size: 45 Copynumber: 2.3 Consensus size: 42
30046300 GTGGATATGA
* *
30046310 TATTTCAAAT-GT-T-TTTATATGTGAAATATTTCAATTAAT
1 TATTTCAAATAGTATGTTTACATGTGAAATATTTCAAATAAT
*
30046349 TATTTCAAATATCATTATGTTTACATGTGAAATATTTCAAATAAT
1 TATTTC-AA-AT-AGTATGTTTACATGTGAAATATTTCAAATAAT
*
30046394 TATTTTAAATA
1 TATTTCAAATA
30046405 CACATACAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
39 6 0.13
40 2 0.04
41 2 0.04
42 1 0.02
43 3 0.07
44 3 0.07
45 29 0.63
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (42 bp):
TATTTCAAATAGTATGTTTACATGTGAAATATTTCAAATAAT
Found at i:30048133 original size:41 final size:41
Alignment explanation
Indices: 30048073--30048152 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
30048063 GCATGTGTAC
*
30048073 ATAATTTTGTATAAGATTCTGAATTTGTTTGAGTTTTTTTA
1 ATAATTTTGTAAAAGATTCTGAATTTGTTTGAGTTTTTTTA
*
30048114 ATAATTTTGTAAAATATTCTGAATTTGTTTGAGTTTTTT
1 ATAATTTTGTAAAAGATTCTGAATTTGTTTGAGTTTTTT
30048153 CTTTGAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.28, C:0.03, G:0.14, T:0.56
Consensus pattern (41 bp):
ATAATTTTGTAAAAGATTCTGAATTTGTTTGAGTTTTTTTA
Found at i:30051366 original size:2 final size:2
Alignment explanation
Indices: 30051359--30051390 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
30051349 TCTTATAAAA
*
30051359 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30051391 TCATCTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:30051805 original size:22 final size:21
Alignment explanation
Indices: 30051777--30051818 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
30051767 TTTTAAATTT
*
30051777 AAAAACATCACGAAAAGATGTG
1 AAAAACATCAC-AAAAAATGTG
30051799 AAAAACATCACAAAAAATGT
1 AAAAACATCACAAAAAATGT
30051819 TTTAATTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.60, C:0.14, G:0.12, T:0.14
Consensus pattern (21 bp):
AAAAACATCACAAAAAATGTG
Found at i:30051899 original size:61 final size:60
Alignment explanation
Indices: 30051773--30051910 Score: 165
Period size: 62 Copynumber: 2.3 Consensus size: 60
30051763 ATTTTTTTAA
* *
30051773 ATTTAAAAACATCACGAAAAGATGTGAAAAACATCACAAAAAATGTTTTAATTTGGTAAG
1 ATTTAAAAACATCACGAAAAAATGTGAAAAAAATCACAAAAAATGTTTTAATTTGGTAAG
* * *
30051833 ATTTAAAAA-ATCACTAAAAAATGTGAAAAAAAAAATCACCAAAAATGTTTT-GTTTGGTACA-
1 ATTTAAAAACATCACGAAAAAATGTG---AAAAAAATCACAAAAAATGTTTTAATTTGGTA-AG
*
30051894 TTTTAAAAACATCACGA
1 ATTTAAAAACATCACGA
30051911 TATATCTTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
59 14 0.21
60 9 0.14
61 15 0.23
62 28 0.42
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.28
Consensus pattern (60 bp):
ATTTAAAAACATCACGAAAAAATGTGAAAAAAATCACAAAAAATGTTTTAATTTGGTAAG
Found at i:30052262 original size:11 final size:11
Alignment explanation
Indices: 30052246--30052278 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
30052236 TTGGATTTTC
30052246 ACAATTTTTAA
1 ACAATTTTTAA
30052257 ACAA-TTTTAA
1 ACAATTTTTAA
30052267 AGCAATTTTTAA
1 A-CAATTTTTAA
30052279 TCATTTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 7 0.35
11 7 0.35
12 6 0.30
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.42
Consensus pattern (11 bp):
ACAATTTTTAA
Found at i:30052378 original size:19 final size:19
Alignment explanation
Indices: 30052351--30052400 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
30052341 ACTTTAGAAC
* *
30052351 TTTTAATATTTTATAATAA
1 TTTTTATATTTTAAAATAA
30052370 TTTTTATATTTTTAAAATAA
1 TTTTTATA-TTTTAAAATAA
* *
30052390 ATTTTAAATTT
1 TTTTTATATTT
30052401 CCTAAATATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTATATTTTAAAATAA
Found at i:30052382 original size:20 final size:20
Alignment explanation
Indices: 30052359--30052400 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
30052349 ACTTTTAATA
* * *
30052359 TTTTATAATAATTTTTATAT
1 TTTTAAAATAAATTTTAAAT
30052379 TTTTAAAATAAATTTTAAAT
1 TTTTAAAATAAATTTTAAAT
30052399 TT
1 TT
30052401 CCTAAATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTAAAATAAATTTTAAAT
Found at i:30052406 original size:21 final size:20
Alignment explanation
Indices: 30052351--30052406 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
30052341 ACTTTAGAAC
* *
30052351 TTTTAATATTT-TATAATAAT
1 TTTTAA-ATTTCTAAAATAAA
* *
30052371 TTTTATATTTTTAAAATAAA
1 TTTTAAATTTCTAAAATAAA
30052391 TTTTAAATTTCCTAAA
1 TTTTAAATTT-CTAAA
30052407 TATTCTTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 4 0.14
20 21 0.72
21 4 0.14
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTAAATTTCTAAAATAAA
Found at i:30057799 original size:13 final size:14
Alignment explanation
Indices: 30057766--30057817 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
30057756 AATAATTAAT
*
30057766 TAAACATAAAAGAAA
1 TAAA-ATAAAGGAAA
30057781 TAAAATAAAGGAAA
1 TAAAATAAAGGAAA
* *
30057795 T-AAATAAAGTAAGT
1 TAAAATAAAGGAA-A
30057809 TAAAATAAA
1 TAAAATAAA
30057818 AAAGGAAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 10 0.31
14 11 0.34
15 11 0.34
ACGTcount: A:0.69, C:0.02, G:0.10, T:0.19
Consensus pattern (14 bp):
TAAAATAAAGGAAA
Found at i:30062413 original size:14 final size:14
Alignment explanation
Indices: 30062394--30062421 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30062384 GAGCTTATGA
30062394 GTTTTGGTTATAGG
1 GTTTTGGTTATAGG
30062408 GTTTTGGTTATAGG
1 GTTTTGGTTATAGG
30062422 CAAATGATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (14 bp):
GTTTTGGTTATAGG
Found at i:30062574 original size:24 final size:25
Alignment explanation
Indices: 30062547--30062594 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
30062537 AGAGGAAAGT
30062547 TTAAAGAACATAAAA-GAAAAAAAA
1 TTAAAGAACATAAAATGAAAAAAAA
** *
30062571 TTAAATTACTTAAAATGAAAAAAA
1 TTAAAGAACATAAAATGAAAAAAA
30062595 TATGGGGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.21
Consensus pattern (25 bp):
TTAAAGAACATAAAATGAAAAAAAA
Found at i:30067819 original size:17 final size:17
Alignment explanation
Indices: 30067797--30067833 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
30067787 TTAAAAATAA
30067797 ATAAAATCTGATATTTT
1 ATAAAATCTGATATTTT
* *
30067814 ATAAAATTTTATATTTT
1 ATAAAATCTGATATTTT
30067831 ATA
1 ATA
30067834 CATTTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (17 bp):
ATAAAATCTGATATTTT
Found at i:30067840 original size:17 final size:18
Alignment explanation
Indices: 30067807--30067851 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
30067797 ATAAAATCTG
30067807 ATATTTTATAAA-ATTTT
1 ATATTTTATAAATATTTT
* *
30067824 ATATTTTATACATTTTTT
1 ATATTTTATAAATATTTT
30067842 ATAGTTTTAT
1 ATA-TTTTAT
30067852 TTTATATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 11 0.46
18 7 0.29
19 6 0.25
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (18 bp):
ATATTTTATAAATATTTT
Found at i:30068012 original size:27 final size:27
Alignment explanation
Indices: 30067982--30068033 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 27
30067972 ATATGTTTTA
30067982 ATTTCAT-AATAATATAAAAA-ATATAAT
1 ATTTCATGAA-AAT-TAAAAATATATAAT
*
30068009 ATTTTATGAAAATTAAAAATATATA
1 ATTTCATGAAAATTAAAAATATATA
30068034 CAAGTACTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
26 6 0.27
27 14 0.64
28 2 0.09
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (27 bp):
ATTTCATGAAAATTAAAAATATATAAT
Found at i:30068145 original size:25 final size:23
Alignment explanation
Indices: 30068115--30068163 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
30068105 TATTTTTAAT
30068115 ATTTTTACAAATTTATATATATTTA
1 ATTTTT-CAAATTT-TATATATTTA
* *
30068140 ATTTTTTATATTTTATATATTTA
1 ATTTTTCAAATTTTATATATTTA
30068163 A
1 A
30068164 AATATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 11 0.50
24 5 0.23
25 6 0.27
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTTTTCAAATTTTATATATTTA
Found at i:30069552 original size:9 final size:9
Alignment explanation
Indices: 30069538--30069568 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
30069528 GTTAAACGAA
30069538 TCGAGTTAT
1 TCGAGTTAT
*
30069547 TCGAGTTAA
1 TCGAGTTAT
30069556 TCGAGTTAT
1 TCGAGTTAT
30069565 TCGA
1 TCGA
30069569 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:30069639 original size:9 final size:9
Alignment explanation
Indices: 30069625--30069658 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
30069615 GTTTTCGAAT
30069625 TCGAATAAC
1 TCGAATAAC
30069634 TCGAATAAC
1 TCGAATAAC
*
30069643 TCGAATAAT
1 TCGAATAAC
30069652 TCGAATA
1 TCGAATA
30069659 TCAAACTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:30070665 original size:5 final size:5
Alignment explanation
Indices: 30070655--30070680 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
30070645 CTCGAAAATT
30070655 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
30070681 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:30074569 original size:16 final size:16
Alignment explanation
Indices: 30074548--30074581 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
30074538 AAAAGAGAGA
30074548 TGTGATTGGCTGTATT
1 TGTGATTGGCTGTATT
30074564 TGTGATTGGCTGTATT
1 TGTGATTGGCTGTATT
30074580 TG
1 TG
30074582 GGTGATCGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.06, G:0.32, T:0.50
Consensus pattern (16 bp):
TGTGATTGGCTGTATT
Found at i:30075172 original size:18 final size:21
Alignment explanation
Indices: 30075131--30075172 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
30075121 CTTCCCAAAA
30075131 ATTATTGCGCAGGAACCTATT
1 ATTATTGCGCAGGAACCTATT
*
30075152 ATTATTGCGCAGGAACATATT
1 ATTATTGCGCAGGAACCTATT
30075173 GGCTTTATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (21 bp):
ATTATTGCGCAGGAACCTATT
Found at i:30075780 original size:51 final size:51
Alignment explanation
Indices: 30075699--30075801 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
30075689 ATCATAAAAG
** *
30075699 ATATTCTGGATTTGTTCTGTGGTTTTTGTGGGCATCTTATTAATGCAAGGA
1 ATATTCTGGATCGGTTCTGTGGTTTCTGTGGGCATCTTATTAATGCAAGGA
30075750 ATATTCTGGATCGGTTCTGTGGTTTCTGTGGGCATCTTATTAATGCAAGGA
1 ATATTCTGGATCGGTTCTGTGGTTTCTGTGGGCATCTTATTAATGCAAGGA
30075801 A
1 A
30075802 GACCAACATT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.20, C:0.12, G:0.26, T:0.42
Consensus pattern (51 bp):
ATATTCTGGATCGGTTCTGTGGTTTCTGTGGGCATCTTATTAATGCAAGGA
Found at i:30076262 original size:32 final size:32
Alignment explanation
Indices: 30076221--30076289 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
30076211 AGACTTCATG
30076221 ATCAAAACATATCCTTTCTTTTGAAGCTAGGT
1 ATCAAAACATATCCTTTCTTTTGAAGCTAGGT
*
30076253 ATCAAAACATATCCTTTCTTTTGAAGCTGGGT
1 ATCAAAACATATCCTTTCTTTTGAAGCTAGGT
*
30076285 TTCAA
1 ATCAA
30076290 CATTGTTTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (32 bp):
ATCAAAACATATCCTTTCTTTTGAAGCTAGGT
Found at i:30078625 original size:64 final size:64
Alignment explanation
Indices: 30078498--30078625 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
30078488 AGCTTACGAG
*
30078498 GCCTTAAAAATAGTTTAGAAACAATCAAAGACCAATTCGAAACAAATCAAAAAGTTTAGGAAAA
1 GCCTTAAAAATAGTTTAGAAACAATCAAAGACCAATTCGAAACAAATCAAAAAGTTAAGGAAAA
* * *
30078562 GCCTTAAAAATAGTTTAGAAACAATCAGAGACCAATTCGAAACAAATCAAAAGGTTAATGAAAA
1 GCCTTAAAAATAGTTTAGAAACAATCAAAGACCAATTCGAAACAAATCAAAAAGTTAAGGAAAA
30078626 ATTTGAAAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.52, C:0.14, G:0.13, T:0.20
Consensus pattern (64 bp):
GCCTTAAAAATAGTTTAGAAACAATCAAAGACCAATTCGAAACAAATCAAAAAGTTAAGGAAAA
Found at i:30081581 original size:43 final size:43
Alignment explanation
Indices: 30081527--30081648 Score: 144
Period size: 43 Copynumber: 2.8 Consensus size: 43
30081517 CTCTTACAAA
*
30081527 GCCAACGTCCCAGACGTGGTCTTACATGCAAACACATA-TCGAT
1 GCCAACGTCCCAGACGTGGTCTTACACGCAAACACA-AGTCGAT
* * *
30081570 GCC-ACTGTCCCAGACAG-GGTCTTACACGTAAACACAAGTTGTT
1 GCCAAC-GTCCCAGAC-GTGGTCTTACACGCAAACACAAGTCGAT
30081613 GCCAACGTCCCAGACGTGGTCTTACACG-ATAACACA
1 GCCAACGTCCCAGACGTGGTCTTACACGCA-AACACA
30081649 TACCGAAAAT
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
42 5 0.07
43 61 0.88
44 3 0.04
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (43 bp):
GCCAACGTCCCAGACGTGGTCTTACACGCAAACACAAGTCGAT
Found at i:30083474 original size:9 final size:9
Alignment explanation
Indices: 30083457--30083522 Score: 78
Period size: 9 Copynumber: 7.3 Consensus size: 9
30083447 TGGCTAAAAC
*
30083457 TTACTCGAA
1 TTACCCGAA
30083466 TTACCCGAA
1 TTACCCGAA
*
30083475 TTAACCGAA
1 TTACCCGAA
**
30083484 TTAATCGAA
1 TTACCCGAA
*
30083493 TTAACCGAA
1 TTACCCGAA
*
30083502 TTACCCAAA
1 TTACCCGAA
30083511 TTACCCGAA
1 TTACCCGAA
30083520 TTA
1 TTA
30083523 TATTAATCGA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.27
Consensus pattern (9 bp):
TTACCCGAA
Found at i:30083485 original size:18 final size:18
Alignment explanation
Indices: 30083462--30083522 Score: 86
Period size: 18 Copynumber: 3.4 Consensus size: 18
30083452 AAAACTTACT
30083462 CGAATTACCCGAATTAAC
1 CGAATTACCCGAATTAAC
**
30083480 CGAATTAATCGAATTAAC
1 CGAATTACCCGAATTAAC
* *
30083498 CGAATTACCCAAATTACC
1 CGAATTACCCGAATTAAC
30083516 CGAATTA
1 CGAATTA
30083523 TATTAATCGA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.41, C:0.25, G:0.10, T:0.25
Consensus pattern (18 bp):
CGAATTACCCGAATTAAC
Found at i:30083608 original size:21 final size:21
Alignment explanation
Indices: 30083584--30083625 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
30083574 AATTAACACA
30083584 TAAATTATTTGTAATTTTTAT
1 TAAATTATTTGTAATTTTTAT
30083605 TAAATTATTTGTAATTTTTAT
1 TAAATTATTTGTAATTTTTAT
30083626 GATTGGGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (21 bp):
TAAATTATTTGTAATTTTTAT
Found at i:30087006 original size:13 final size:13
Alignment explanation
Indices: 30086985--30087014 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
30086975 CATGAGGATG
*
30086985 AAATGCAGTGCTA
1 AAATACAGTGCTA
30086998 AAATACAGTGCTA
1 AAATACAGTGCTA
30087011 AAAT
1 AAAT
30087015 GCAACCGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (13 bp):
AAATACAGTGCTA
Found at i:30088817 original size:40 final size:40
Alignment explanation
Indices: 30088773--30088853 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
30088763 TGTTAACTCT
30088773 TGCAACTGAGCTTTCCACTCTTTCAACTCTGTAGGAGTCA
1 TGCAACTGAGCTTTCCACTCTTTCAACTCTGTAGGAGTCA
30088813 TGCAACTGAGCTTTCCACTCTTTCAACTCTGTAGGAGTCA
1 TGCAACTGAGCTTTCCACTCTTTCAACTCTGTAGGAGTCA
30088853 T
1 T
30088854 TCTGTATGGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.33
Consensus pattern (40 bp):
TGCAACTGAGCTTTCCACTCTTTCAACTCTGTAGGAGTCA
Found at i:30094031 original size:20 final size:20
Alignment explanation
Indices: 30094006--30094048 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
30093996 ATAACTTAAA
30094006 AATGGTATATTTACCATTTG
1 AATGGTATATTTACCATTTG
30094026 AATGGTATATTTACCATTTG
1 AATGGTATATTTACCATTTG
30094046 AAT
1 AAT
30094049 CCCTTACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (20 bp):
AATGGTATATTTACCATTTG
Found at i:30103212 original size:22 final size:24
Alignment explanation
Indices: 30103187--30103239 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 24
30103177 GTTGAATTGG
*
30103187 TTTAATTAAATTTTTAA-AATTT-
1 TTTAATTAAAATTTTAATAATTTA
*
30103209 TTTAA-TAAAATTTTAATTATTTA
1 TTTAATTAAAATTTTAATAATTTA
30103232 TTTAATTA
1 TTTAATTA
30103240 TTGTTGGTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 10 0.38
22 9 0.35
23 5 0.19
24 2 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTAATTAAAATTTTAATAATTTA
Found at i:30111578 original size:18 final size:18
Alignment explanation
Indices: 30111551--30111585 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30111541 AGTTTTACAA
*
30111551 ATTTTTAAAATTCTTATG
1 ATTTTCAAAATTCTTATG
*
30111569 ATTTTCAAAATTTTTAT
1 ATTTTCAAAATTCTTAT
30111586 TTTTTAATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (18 bp):
ATTTTCAAAATTCTTATG
Found at i:30111669 original size:20 final size:20
Alignment explanation
Indices: 30111632--30111695 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
30111622 ATTTTTTATA
* * *
30111632 TTTTAAAATTATTATAATTT
1 TTTTACAATTTTTATAATAT
*
30111652 TTTTACAATTTTTGTAATAT
1 TTTTACAATTTTTATAATAT
* *
30111672 TTTAACAATTTTT-TAAAAT
1 TTTTACAATTTTTATAATAT
30111691 TTTTA
1 TTTTA
30111696 ACAGCTTAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 9 0.24
20 28 0.76
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTTACAATTTTTATAATAT
Found at i:30117009 original size:25 final size:26
Alignment explanation
Indices: 30116975--30117036 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
30116965 AATGAATTTC
*
30116975 TCAAAATTTTAAC-AGGGTAAAATCG
1 TCAAAATTTTAACGAGGGTAAAACCG
* *
30117000 TCAAAATTTTACCGAGGGTAAGACCG
1 TCAAAATTTTAACGAGGGTAAAACCG
30117026 TCAAAATTTTA
1 TCAAAATTTTA
30117037 TCAAATGGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 12 0.36
26 21 0.64
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (26 bp):
TCAAAATTTTAACGAGGGTAAAACCG
Found at i:30120195 original size:31 final size:32
Alignment explanation
Indices: 30120145--30120212 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 32
30120135 TCTTAGATAA
*
30120145 TCTTTAAAGAGTTTTTATTAGGATTCAATTAC
1 TCTTGAAAGAGTTTTTATTAGGATTCAATTAC
30120177 TCTTGAAAGAG-TTTTATTAGGATTCAATTAC
1 TCTTGAAAGAGTTTTTATTAGGATTCAATTAC
30120208 TCTTG
1 TCTTG
30120213 TAATTTGCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 25 0.71
32 10 0.29
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (32 bp):
TCTTGAAAGAGTTTTTATTAGGATTCAATTAC
Found at i:30127199 original size:32 final size:31
Alignment explanation
Indices: 30127154--30127249 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
30127144 CTTAGATAAT
30127154 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
30127185 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
30127217 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
30127248 TT
1 TT
30127250 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:30131076 original size:69 final size:68
Alignment explanation
Indices: 30130836--30131076 Score: 223
Period size: 69 Copynumber: 3.4 Consensus size: 68
30130826 GCAAAAGAGT
* * * * *
30130836 TTGCGCCCAGCGCTAGTCGGATAAACCGGCAAATGTATGGCCAACACTAGTCAGATAAATTGAC-
1 TTGCGCCCAGCGCTAGTCGGATAAACC-GAAAATGTGTGCCCAGCACTAGTCAGATAAACTGACG
30130900 AGAAG
65 A-AAG
* * * ** *
30130905 TTGCGCCCAGCGCTAGTCAGATAAACCGACGAATAATTAGTGAGCCCAGCTCTAGTTGGGTAAAC
1 TTGCGCCCAGCGCTAGTCGGATAAA-C--CGAA-AA-T-GTGTGCCCAGCACTAGTCAGATAAAC
* * * *
30130970 TAATGATAT
60 TGACGAAAG
*
30130979 TTGCGCCTAGCGCTAGTCGGATAAACCGAAGAATGTGTGCCCAGCACTAGTCAGATAAACTGACG
1 TTGCGCCCAGCGCTAGTCGGATAAACCGAA-AATGTGTGCCCAGCACTAGTCAGATAAACTGACG
30131044 AAAG
65 AAAG
* * *
30131048 TTGCGTCCAGCGCTAGCCGGATGAACCGA
1 TTGCGCCCAGCGCTAGTCGGATAAACCGA
30131077 CAATATCAAT
Statistics
Matches: 134, Mismatches: 31, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
69 75 0.56
70 2 0.01
71 8 0.06
72 3 0.02
73 2 0.01
74 43 0.32
75 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (68 bp):
TTGCGCCCAGCGCTAGTCGGATAAACCGAAAATGTGTGCCCAGCACTAGTCAGATAAACTGACGA
AAG
Found at i:30132990 original size:19 final size:18
Alignment explanation
Indices: 30132940--30132993 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
30132930 TATAAAAAAT
30132940 AATATTTATTTTAATTATAA
1 AATATTTA-TTT-ATTATAA
*
30132960 AATATATAATTTATTATAAA
1 AATAT-TTATTTATTAT-AA
30132980 AATATTTATTTATT
1 AATATTTATTTATT
30132994 TTTAACATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 13 0.43
20 15 0.50
21 2 0.07
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AATATTTATTTATTATAA
Found at i:30133266 original size:27 final size:27
Alignment explanation
Indices: 30133214--30133267 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
30133204 AAATTAGATT
* *
30133214 TTTATTTTTTAAATTTATCCAATTATA
1 TTTATTTTATAAATTTATCAAATTATA
*
30133241 TTTATTTTATAGATTTA-CAAATT-TA
1 TTTATTTTATAAATTTATCAAATTATA
30133266 TT
1 TT
30133268 AATCAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.17
26 5 0.21
27 15 0.62
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (27 bp):
TTTATTTTATAAATTTATCAAATTATA
Found at i:30140891 original size:63 final size:63
Alignment explanation
Indices: 30140790--30140915 Score: 216
Period size: 63 Copynumber: 2.0 Consensus size: 63
30140780 TCCCTTTGGT
* * *
30140790 TATGCACTAGTTGATGGTCTGAGAGTGAATCGATCATATAAGTTGGGTAGAATCTGTCTAAAA
1 TATGCACTAGTTGATGGTCTGAGAGTCAATCGACCATATAAGTTGGGTAGAATCTGACTAAAA
*
30140853 TATGCACTAGTTGATGGTCTGAGAGTCAATCGACCATATACGTTGGGTAGAATCTGACTAAAA
1 TATGCACTAGTTGATGGTCTGAGAGTCAATCGACCATATAAGTTGGGTAGAATCTGACTAAAA
30140916 CAGAAAGGAC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (63 bp):
TATGCACTAGTTGATGGTCTGAGAGTCAATCGACCATATAAGTTGGGTAGAATCTGACTAAAA
Found at i:30141842 original size:20 final size:20
Alignment explanation
Indices: 30141817--30141860 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
30141807 GAAGTTGAAT
30141817 AGGCTAGCTATAGCAGTAAA
1 AGGCTAGCTATAGCAGTAAA
*
30141837 AGGCTAGCTATAGCTGTAAA
1 AGGCTAGCTATAGCAGTAAA
30141857 AGGC
1 AGGC
30141861 AAGTTTAGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.20
Consensus pattern (20 bp):
AGGCTAGCTATAGCAGTAAA
Found at i:30141871 original size:19 final size:20
Alignment explanation
Indices: 30141817--30141872 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
30141807 GAAGTTGAAT
* *
30141817 AGGCTAGCTATAGCAGTAAA
1 AGGCAAGCTATAGCTGTAAA
*
30141837 AGGCTAGCTATAGCTGTAAA
1 AGGCAAGCTATAGCTGTAAA
*
30141857 AGGCAAG-TTTAGCTGT
1 AGGCAAGCTATAGCTGT
30141873 CCTTTGCAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 8 0.24
20 25 0.76
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (20 bp):
AGGCAAGCTATAGCTGTAAA
Found at i:30148484 original size:16 final size:18
Alignment explanation
Indices: 30148463--30148495 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30148453 TTAAACACAA
30148463 AATTAA-AC-AAATTTAC
1 AATTAACACTAAATTTAC
30148479 AATTAACACTAAATTTA
1 AATTAACACTAAATTTA
30148496 ATCTATTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (18 bp):
AATTAACACTAAATTTAC
Found at i:30154432 original size:124 final size:124
Alignment explanation
Indices: 30153949--30154425 Score: 742
Period size: 124 Copynumber: 3.8 Consensus size: 124
30153939 GCTCACAATT
* *
30153949 TGGCAACATGCCTCTCATTCAACTCACTATAGGAGGTGAGTTGATCAATCATTCGTTCTTGAATG
1 TGGCAACATGCCTCTCATTCAACTCACTGTAGGAGGTGAGTTGATCAATCATTCATTCTTGAATG
* *
30154014 CTTGTGGGAATAGCCTTAGGGCCTGAGCCAATGGGCACTCCTTGAGACTGCTCGTAATC
66 CTTGTGGGAATAGCCTTAGGGCCTGAGCTAATGGGCACTCCTTGAGATTGCTCGTAATC
* ** * *
30154073 TGGCAACATTCCTCTCATTTGACTCACTGTAGGAGGTGAGTTTATCAATCATTCATTCATGAATG
1 TGGCAACATGCCTCTCATTCAACTCACTGTAGGAGGTGAGTTGATCAATCATTCATTCTTGAATG
* *
30154138 CTTGTGGGAATAGCCTTAGGGCCTGAGCTAATGGGCACTTCTTGAGATTGCTCCTAATC
66 CTTGTGGGAATAGCCTTAGGGCCTGAGCTAATGGGCACTCCTTGAGATTGCTCGTAATC
30154197 TGGCAACATGCCTCTCATTCAACTCACTGTAGGAGGTGAGTTGATCAATCATTCATTCTTGAATG
1 TGGCAACATGCCTCTCATTCAACTCACTGTAGGAGGTGAGTTGATCAATCATTCATTCTTGAATG
* * *
30154262 CTTGTGGGAATAGCCTTGGGGCCTGAGCTAGTGGGCACTCCTTGAGTTTGCTCGTAATC
66 CTTGTGGGAATAGCCTTAGGGCCTGAGCTAATGGGCACTCCTTGAGATTGCTCGTAATC
* * * *
30154321 TGGAAACATGCCTCTCATTCGAA-TCACTTTAGGAGGTGAGTTGATCAATCAATCATTCTTAAAT
1 TGGCAACATGCCTCTCATTC-AACTCACTGTAGGAGGTGAGTTGATCAATCATTCATTCTTGAAT
* *
30154385 GCTTGTAGGAATAGCCTTGGGGCCTGAAGC-AATGGGCACTC
65 GCTTGTGGGAATAGCCTTAGGGCCTG-AGCTAATGGGCACTC
30154426 TCTGAGTCTG
Statistics
Matches: 324, Mismatches: 27, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
124 319 0.98
125 5 0.02
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (124 bp):
TGGCAACATGCCTCTCATTCAACTCACTGTAGGAGGTGAGTTGATCAATCATTCATTCTTGAATG
CTTGTGGGAATAGCCTTAGGGCCTGAGCTAATGGGCACTCCTTGAGATTGCTCGTAATC
Found at i:30162528 original size:25 final size:25
Alignment explanation
Indices: 30162494--30162542 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
30162484 ACTAAGCTTA
30162494 TGACATTGGTAACGGTTTGTACTTT
1 TGACATTGGTAACGGTTTGTACTTT
*
30162519 TGACATTGGTAATGGTTTGTACTT
1 TGACATTGGTAACGGTTTGTACTT
30162543 ATTCTATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.20, C:0.10, G:0.24, T:0.45
Consensus pattern (25 bp):
TGACATTGGTAACGGTTTGTACTTT
Found at i:30165472 original size:28 final size:28
Alignment explanation
Indices: 30165432--30165488 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
30165422 GGCAAAAAGT
30165432 TGTCACTTCCTAATTAACACACATTCTA
1 TGTCACTTCCTAATTAACACACATTCTA
*
30165460 TGTCACTTCCTAATTAACACACGTTCTA
1 TGTCACTTCCTAATTAACACACATTCTA
30165488 T
1 T
30165489 CTAAATATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.28, G:0.05, T:0.37
Consensus pattern (28 bp):
TGTCACTTCCTAATTAACACACATTCTA
Found at i:30168757 original size:18 final size:17
Alignment explanation
Indices: 30168708--30168760 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
30168698 ACAATAAGAA
30168708 AACGTTTTGAAATTGAAT
1 AACGTTTTGAAA-TGAAT
*
30168726 AACGATTTGTAAATGAAT
1 AACGTTTTG-AAATGAAT
*
30168744 AAGGTTTTTGAAATGAA
1 AACG-TTTTGAAATGAA
30168761 CGACACAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 23 0.77
19 7 0.23
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.36
Consensus pattern (17 bp):
AACGTTTTGAAATGAAT
Found at i:30177254 original size:2 final size:2
Alignment explanation
Indices: 30177247--30177272 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
30177237 TTTATACCAA
30177247 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
30177273 CAATTTCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30186803 original size:27 final size:27
Alignment explanation
Indices: 30186709--30186801 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
30186699 AGACCCCAAA
* *
30186709 ATAGGGTAAAATAACCAAAATACCCCC
1 ATAGGGTAAAATAATCAAAATACCCCT
30186736 ATAGGGTAAAATAATCAAAATACCCCT
1 ATAGGGTAAAATAATCAAAATACCCCT
* * * *
30186763 ATAAGGTAGAATGATCGAAATACCCCT
1 ATAGGGTAAAATAATCAAAATACCCCT
30186790 ATAGGGTAAAAT
1 ATAGGGTAAAAT
30186802 GACTGTTATA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.46, C:0.18, G:0.15, T:0.20
Consensus pattern (27 bp):
ATAGGGTAAAATAATCAAAATACCCCT
Found at i:30186812 original size:27 final size:27
Alignment explanation
Indices: 30186755--30186837 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 27
30186745 AATAATCAAA
* * **
30186755 ATACCCCTATAAGGTAGAATGA-TCGAA
1 ATACCCCTATAGGGTAAAATGACT-GTT
30186782 ATACCCCTATAGGGTAAAATGACTGTT
1 ATACCCCTATAGGGTAAAATGACTGTT
*
30186809 ATA-CCCT-TAGGAGATGAAATGACTGTT
1 ATACCCCTATAGG-G-TAAAATGACTGTT
30186836 AT
1 AT
30186838 GGCCTTCTGT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
25 4 0.08
26 5 0.10
27 38 0.79
28 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (27 bp):
ATACCCCTATAGGGTAAAATGACTGTT
Found at i:30188387 original size:104 final size:105
Alignment explanation
Indices: 30188202--30188422 Score: 358
Period size: 105 Copynumber: 2.1 Consensus size: 105
30188192 TGTATATAAA
** *
30188202 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTTATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
*
30188267 TGAAATGTGAAA-GGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTAAAAGGGGGGTTGCTATGTGCTGATTCCCCCG
*
30188306 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATC
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTT-ATGGGTGGTGCTAAGTGCG-TGATCCACCATATC
30188370 TTTGAAATG-AAAAGGGGGGTTGCTATGTGCTGATTCCCCCG
64 TTTGAAATGTAAAAGGGGGGTTGCTATGTGCTGATTCCCCCG
30188411 AGGGGTTGCTAA
1 AGGGGTTGCTAA
30188423 AACGACGTTA
Statistics
Matches: 109, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
104 31 0.28
105 77 0.71
106 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTTATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTAAAAGGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:30195417 original size:105 final size:104
Alignment explanation
Indices: 30195231--30195567 Score: 563
Period size: 105 Copynumber: 3.2 Consensus size: 104
30195221 TGTATATAAA
** * *
30195231 AGGGGTTGCTGTGTGCTGATTCCCCGATTT-ATGGGTGGTGCTATGTGCG-TGATCCACCATATC
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATC
*
30195294 TTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
30195335 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
30195400 TTGAAATGAAAAGGGGGGTTGCTATGTGCTGATTCCCCCG
66 TTGAAATGAAAA-GGGGGTTGCTATGTGCTGATTCCCCCG
30195440 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
*
30195504 TTGAAATAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
30195543 AGGGGTTGCTATGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
30195568 CGAGGGGTTG
Statistics
Matches: 223, Mismatches: 7, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
103 51 0.23
104 79 0.35
105 92 0.41
106 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
TTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:30195554 original size:27 final size:27
Alignment explanation
Indices: 30195517--30195594 Score: 147
Period size: 27 Copynumber: 2.9 Consensus size: 27
30195507 AAATAAAAAG
30195517 GGGGTTGCTATGTGCTGATTCCCCCGA
1 GGGGTTGCTATGTGCTGATTCCCCCGA
30195544 GGGGTTGCTATGTGCTGATTCCCCCGA
1 GGGGTTGCTATGTGCTGATTCCCCCGA
*
30195571 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTATGTGCTGATTCCCC
30195595 GATTCAGTGG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.12, C:0.26, G:0.33, T:0.29
Consensus pattern (27 bp):
GGGGTTGCTATGTGCTGATTCCCCCGA
Found at i:30199903 original size:225 final size:222
Alignment explanation
Indices: 30199514--30199930 Score: 656
Period size: 225 Copynumber: 1.9 Consensus size: 222
30199504 ATGGGGTAAG
* *
30199514 CATATAAAAATCTTAGTAAGTTCATAGCTATTAAAAAAACTTACCTTATCTTTCATTTAAATACA
1 CATATAAAAATCTTAGTAAGTTCATAGCTATTAAAAAAACTTACATTATCTTTCATTTAAATAAA
* ** *
30199579 TTAAGCTACCATATTGTTGGCATAGTTTGGCTAGACATGGCAATTCAGAACATTAACTAGGTGAG
66 TTAAGCTAACATATTGTTGGCATAGTTTCACTAGACATGGCAATTCACAACATTAACTAGGTGAG
* *
30199644 TATTAACTTGTAAATAAAATATATGACACCACAAACACATATCATTCCAATTGATCGTGCCTCGA
131 TATTAACTTGTAAATAAAACATATGACACCACAAACACATACCA-TCCAATTGATCGTGCCTCGA
30199709 TGTGCATGCATTGGGGCTTGTAAATCTA
195 TGTGCATGCATTGGGGCTTGTAAATCTA
*
30199737 CATAT-AAAATGCTTAGTAAGTTCATAGGTATTAAACAAAAACTTACATTATCTTTCATTTAAAT
1 CATATAAAAAT-CTTAGTAAGTTCATAGCTATT-AA-AAAAACTTACATTATCTTTCATTTAAAT
*
30199801 AAATTAAGCTAACATATTGTTGGCATAGTTTCACTAGACATGGCAATTCACAATATTAACTAGGT
63 AAATTAAGCTAACATATTGTTGGCATAGTTTCACTAGACATGGCAATTCACAACATTAACTAGGT
* * * * *
30199866 GTGTATTAAGTTGTAAATAAAACATATGTCACCACAAACACATACCATGCTATTGATCGTGCCTC
128 GAGTATTAACTTGTAAATAAAACATATGACACCACAAACACATACCATCCAATTGATCGTGCCTC
30199931 AACTTGTATC
Statistics
Matches: 176, Mismatches: 15, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
222 5 0.03
223 25 0.14
224 18 0.10
225 128 0.73
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (222 bp):
CATATAAAAATCTTAGTAAGTTCATAGCTATTAAAAAAACTTACATTATCTTTCATTTAAATAAA
TTAAGCTAACATATTGTTGGCATAGTTTCACTAGACATGGCAATTCACAACATTAACTAGGTGAG
TATTAACTTGTAAATAAAACATATGACACCACAAACACATACCATCCAATTGATCGTGCCTCGAT
GTGCATGCATTGGGGCTTGTAAATCTA
Found at i:30201341 original size:25 final size:25
Alignment explanation
Indices: 30201308--30201355 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
30201298 TTTGTGATAT
*
30201308 GTTTGATT-ATTTTAATATTTATTA
1 GTTTGATTAATTATAATATTTATTA
*
30201332 GTTTAGATTAATTATAATTTTTAT
1 GTTT-GATTAATTATAATATTTAT
30201356 GAACTTACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 4 0.20
26 12 0.60
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.60
Consensus pattern (25 bp):
GTTTGATTAATTATAATATTTATTA
Found at i:30228591 original size:14 final size:14
Alignment explanation
Indices: 30228556--30228591 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
30228546 TTCATGTTAT
*
30228556 AATTTTTTTATAAA
1 AATTTATTTATAAA
30228570 ATATTTATTTATAAA
1 A-ATTTATTTATAAA
30228585 AATTTAT
1 AATTTAT
30228592 GGTTAAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AATTTATTTATAAA
Found at i:30236921 original size:82 final size:81
Alignment explanation
Indices: 30236827--30236995 Score: 223
Period size: 82 Copynumber: 2.1 Consensus size: 81
30236817 GTGTATAACA
* * * * *
30236827 GTCATTTTACCCTATGGGGGTATTTCAATCATTCTACCTTATGGGGGTATTTA-AGTCATTTTAT
1 GTCATTCTACCCTATGGAGGTATTTCAATCATTCTACCCTATGGGGGTATTTAGA-TCATTCTAC
30236891 CCTATGGAGGGTATTTCG
65 CCTATGG-GGGTATTTCG
** * *
30236909 GTCATTCTACCCTATGGAGGTATTTCGGTTATTCTACCCTATGGGGGTATTTCGATCATTCTACC
1 GTCATTCTACCCTATGGAGGTATTTCAATCATTCTACCCTATGGGGGTATTTAGATCATTCTACC
30236974 CTATGGGGGTATTTCG
66 CTATGGGGGTATTTCG
*
30236990 ATCATT
1 GTCATT
30236996 TTATTGACCT
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
81 15 0.20
82 60 0.79
83 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (81 bp):
GTCATTCTACCCTATGGAGGTATTTCAATCATTCTACCCTATGGGGGTATTTAGATCATTCTACC
CTATGGGGGTATTTCG
Found at i:30236989 original size:27 final size:27
Alignment explanation
Indices: 30236828--30236995 Score: 221
Period size: 27 Copynumber: 6.2 Consensus size: 27
30236818 TGTATAACAG
* *
30236828 TCATTTTACCCTATGGGGGTATTTCAA
1 TCATTCTACCCTATGGGGGTATTTCGA
* *
30236855 TCATTCTACCTTATGGGGGTATTT-AA
1 TCATTCTACCCTATGGGGGTATTTCGA
* * *
30236881 GTCATTTTATCCTATGGAGGGTATTTCGG
1 -TCATTCTACCCTATGG-GGGTATTTCGA
* *
30236910 TCATTCTACCCTATGGAGGTATTTCGG
1 TCATTCTACCCTATGGGGGTATTTCGA
*
30236937 TTATTCTACCCTATGGGGGTATTTCGA
1 TCATTCTACCCTATGGGGGTATTTCGA
30236964 TCATTCTACCCTATGGGGGTATTTCGA
1 TCATTCTACCCTATGGGGGTATTTCGA
30236991 TCATT
1 TCATT
30236996 TTATTGACCT
Statistics
Matches: 124, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
26 2 0.02
27 100 0.81
28 22 0.18
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.40
Consensus pattern (27 bp):
TCATTCTACCCTATGGGGGTATTTCGA
Found at i:30237660 original size:24 final size:25
Alignment explanation
Indices: 30237624--30237670 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
30237614 CCTAAATCCT
*
30237624 AATATTCTCTCCTCAAATCTCTCCA
1 AATATCCTCTCCTCAAATCTCTCCA
*
30237649 AATATCCT-TCCTCAATTCTCTC
1 AATATCCTCTCCTCAAATCTCTC
30237671 TATGACCAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.26, C:0.36, G:0.00, T:0.38
Consensus pattern (25 bp):
AATATCCTCTCCTCAAATCTCTCCA
Found at i:30240498 original size:50 final size:50
Alignment explanation
Indices: 30240422--30240563 Score: 185
Period size: 50 Copynumber: 2.8 Consensus size: 50
30240412 AAATGGGTAA
* *
30240422 AGAGGTCCCATGTAAGACCATGTCTGGGAAATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATATCTGGGAAATGGCATTGGCACCGAGATG
** * * *
30240472 AGAGGTCCCCCGTAAGACCATATCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATATCTGGGAAATGGCATTGGCACCGAGATG
** * *
30240522 AGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATATCTGGGAAATGGCATTGGCA
30240564 GCACAAAAAA
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 78 1.00
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATATCTGGGAAATGGCATTGGCACCGAGATG
Found at i:30245378 original size:16 final size:17
Alignment explanation
Indices: 30245359--30245409 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
30245349 CAACACGATA
*
30245359 TGACCCAAA-TCAAAAT
1 TGACACAAACTCAAAAT
*
30245375 TGACACAAACTCAAATT
1 TGACACAAACTCAAAAT
** *
30245392 TGACTTAAATTCAAAAT
1 TGACACAAACTCAAAAT
30245409 T
1 T
30245410 AATCCAACTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
16 8 0.29
17 20 0.71
ACGTcount: A:0.47, C:0.20, G:0.06, T:0.27
Consensus pattern (17 bp):
TGACACAAACTCAAAAT
Found at i:30257242 original size:3 final size:3
Alignment explanation
Indices: 30257234--30257274 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
30257224 ATATCTCCAC
30257234 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
30257275 GTTTTTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:30257409 original size:2 final size:2
Alignment explanation
Indices: 30257402--30257456 Score: 60
Period size: 2 Copynumber: 28.0 Consensus size: 2
30257392 TAGTATAACT
* *
30257402 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA AA AA T- TCA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
*
30257443 TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA
30257457 CGTTTAGCTC
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
1 2 0.04
2 43 0.93
3 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:30257527 original size:27 final size:25
Alignment explanation
Indices: 30257471--30257527 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 25
30257461 TAGCTCCAAA
* * *
30257471 ATTTTTCATAATAATATCTTGTATT
1 ATTTTCCATAATAATATATTGAATT
*
30257496 TTTTTCCATACATATATATATTGAATT
1 ATTTTCCATA-ATA-ATATATTGAATT
30257523 ATTTT
1 ATTTT
30257528 ATGCACAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 8 0.32
26 3 0.12
27 14 0.56
ACGTcount: A:0.32, C:0.09, G:0.04, T:0.56
Consensus pattern (25 bp):
ATTTTCCATAATAATATATTGAATT
Found at i:30259255 original size:21 final size:21
Alignment explanation
Indices: 30259224--30259273 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
30259214 ATATATTTCA
30259224 AAAATATTTTATAAAAATATAT
1 AAAAT-TTTTATAAAAATATAT
30259246 AAAATTTTTATAAAAATATAT
1 AAAATTTTTATAAAAATATAT
*
30259267 CAAATTT
1 AAAATTT
30259274 AAAAAGCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 22 0.81
22 5 0.19
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAATTTTTATAAAAATATAT
Found at i:30263593 original size:74 final size:74
Alignment explanation
Indices: 30263415--30263608 Score: 187
Period size: 74 Copynumber: 2.6 Consensus size: 74
30263405 TAGCTCTTCC
* * * **
30263415 GAGCCATATAA-CGAGAAGCTCATGTGAG-CAATGTAACGGGGAGCTCATAAGAGCCATAATCGG
1 GAGCCAT-TAATCGAGAAGCTCATGAGAGCCAA-ATAACGGGAAGCTCATAAGAGCCATAAAAGG
*
30263478 AAAGCTCCAGA
64 AAAGCTCAAGA
* * * * * * *
30263489 GAGCCATTAATCGAAAAGCTC-CGAAAAGCCAAATATCGGGAAGCTCATACGATCCATAAAAGGG
1 GAGCCATTAATCGAGAAGCTCATG-AGAGCCAAATAACGGGAAGCTCATAAGAGCCATAAAAGGA
30263553 AAGCTCAAGA
65 AAGCTCAAGA
* * * *
30263563 GAGCCATTATTCGGGAAGCTCATGAGAGCCATATAACGGGATGCTC
1 GAGCCATTAATCGAGAAGCTCATGAGAGCCAAATAACGGGAAGCTC
30263609 GTGAGAGCTA
Statistics
Matches: 95, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
73 4 0.04
74 87 0.92
75 4 0.04
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (74 bp):
GAGCCATTAATCGAGAAGCTCATGAGAGCCAAATAACGGGAAGCTCATAAGAGCCATAAAAGGAA
AGCTCAAGA
Found at i:30263602 original size:25 final size:25
Alignment explanation
Indices: 30263382--30263616 Score: 135
Period size: 25 Copynumber: 9.5 Consensus size: 25
30263372 ATTCAAGAAC
* *
30263382 GCTCATGTGAG-CATATAAACGGGTA
1 GCTCATGAGAGCCATAT-AACGGGAA
* ** *
30263407 GCTCTTCCGAGCCATATAACGAGAA
1 GCTCATGAGAGCCATATAACGGGAA
* * * *
30263432 GCTCATGTGAGCAATGTAACGGGGA
1 GCTCATGAGAGCCATATAACGGGAA
* * *
30263457 GCTCATAAGAGCCATA-ATCGGAAA
1 GCTCATGAGAGCCATATAACGGGAA
**
30263481 GCTCCA-GAGAGCCAT-TAATCGAAAA
1 GCT-CATGAGAGCCATATAA-CGGGAA
* * * *
30263506 GCTC-CGAAAAGCCAAATATCGGGAA
1 GCTCATG-AGAGCCATATAACGGGAA
* *
30263531 GCTCAT-ACGATCCATA-AAAGGGAA
1 GCTCATGA-GAGCCATATAACGGGAA
* *
30263555 GCTCAAGAGAGCCAT-TATTCGGGAA
1 GCTCATGAGAGCCATATA-ACGGGAA
*
30263580 GCTCATGAGAGCCATATAACGGGAT
1 GCTCATGAGAGCCATATAACGGGAA
*
30263605 GCTCGTGAGAGC
1 GCTCATGAGAGC
30263617 TAATTAACGG
Statistics
Matches: 156, Mismatches: 41, Indels: 26
0.70 0.18 0.12
Matches are distributed among these distances:
24 38 0.24
25 109 0.70
26 9 0.06
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.18
Consensus pattern (25 bp):
GCTCATGAGAGCCATATAACGGGAA
Found at i:30265253 original size:13 final size:14
Alignment explanation
Indices: 30265235--30265278 Score: 65
Period size: 13 Copynumber: 3.3 Consensus size: 14
30265225 ATGTCCATTT
30265235 CAGATACAGATA-A
1 CAGATACAGATATA
*
30265248 CAGATACATATATA
1 CAGATACAGATATA
30265262 CAGAT-CAGATATA
1 CAGATACAGATATA
30265275 CAGA
1 CAGA
30265279 ATCCTACCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 22 0.79
14 6 0.21
ACGTcount: A:0.50, C:0.16, G:0.14, T:0.20
Consensus pattern (14 bp):
CAGATACAGATATA
Found at i:30272392 original size:24 final size:24
Alignment explanation
Indices: 30272360--30272492 Score: 99
Period size: 24 Copynumber: 5.4 Consensus size: 24
30272350 CCATGTAACA
*
30272360 GGAAGCTCATAAGAGTCATAATCG
1 GGAAGCTCATAAGAGCCATAATCG
**
30272384 GGAAGCTCATGCGAGCCA-ATATCG
1 GGAAGCTCATAAGAGCCATA-ATCG
* * *
30272408 AGAAGCTCATGAGAGAGCCTTTAATTG
1 GGAAGCTCAT-A-AGAGCC-ATAATCG
* * *
30272435 GGACGCTCCA-AAAAGCCAAATATCG
1 GGAAGCT-CATAAGAGCCATA-ATCG
* *
30272460 GGAAGCTCATACGAGCCATAAACG
1 GGAAGCTCATAAGAGCCATAATCG
30272484 GGAAGCTCA
1 GGAAGCTCA
30272493 AGAGAACCAT
Statistics
Matches: 82, Mismatches: 19, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
23 1 0.01
24 43 0.52
25 21 0.26
26 6 0.07
27 8 0.10
28 3 0.04
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.17
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAATCG
Found at i:30272502 original size:24 final size:25
Alignment explanation
Indices: 30272336--30272516 Score: 88
Period size: 24 Copynumber: 7.3 Consensus size: 25
30272326 CATATAATAA
** * *
30272336 GAAGCTCATGTGAGCCATGTAACAG
1 GAAGCTCATACGAGCCATATAACGG
* * *
30272361 GAAGCTCATAAGAGTCATA-ATCGG
1 GAAGCTCATACGAGCCATATAACGG
* * *
30272385 GAAGCTCATGCGAGCCA-ATATCGA
1 GAAGCTCATACGAGCCATATAACGG
* * *
30272409 GAAGCTCATGAGAGAGCC-TTTAATTGG
1 GAAGCTCAT-A-CGAGCCATATAA-CGG
* ** * *
30272436 GACGCTCCA-AAAAGCCAAATATCGG
1 GAAGCT-CATACGAGCCATATAACGG
30272461 GAAGCTCATACGAGCCATA-AACGG
1 GAAGCTCATACGAGCCATATAACGG
30272485 GAAGCTCA-A-GAGAACCATATAACGG
1 GAAGCTCATACGAG--CCATATAACGG
*
30272510 GATGCTC
1 GAAGCTC
30272517 GTGAGAGCTA
Statistics
Matches: 117, Mismatches: 28, Indels: 22
0.70 0.17 0.13
Matches are distributed among these distances:
22 3 0.03
23 2 0.02
24 49 0.42
25 45 0.38
26 10 0.09
27 6 0.05
28 2 0.02
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (25 bp):
GAAGCTCATACGAGCCATATAACGG
Found at i:30272532 original size:25 final size:25
Alignment explanation
Indices: 30272504--30272566 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
30272494 GAGAACCATA
*
30272504 TAACGGGATGCTCGTGAGAGCTAAT
1 TAACGGGACGCTCGTGAGAGCTAAT
* *
30272529 TAACGGGACGCTCTTGCGAGCTAAT
1 TAACGGGACGCTCGTGAGAGCTAAT
*
30272554 TAACAGGACGCTC
1 TAACGGGACGCTC
30272567 TTACATGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (25 bp):
TAACGGGACGCTCGTGAGAGCTAAT
Found at i:30274682 original size:17 final size:18
Alignment explanation
Indices: 30274652--30274693 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
30274642 TCGAAATTCA
*
30274652 TCAAATTAACTAATTT-TC
1 TCAAA-TAAATAATTTATC
30274670 TCAAATAAATAATTTATC
1 TCAAATAAATAATTTATC
30274688 -CAAATA
1 TCAAATA
30274694 TTTTAAGCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (18 bp):
TCAAATAAATAATTTATC
Found at i:30277431 original size:34 final size:34
Alignment explanation
Indices: 30277388--30277461 Score: 139
Period size: 34 Copynumber: 2.2 Consensus size: 34
30277378 ACTAAGAACG
*
30277388 AAATAAAAACGTAAGAATAATTTTTGTCTCCCTA
1 AAATAAAAACGTAAGAATAATTTTTGCCTCCCTA
30277422 AAATAAAAACGTAAGAATAATTTTTGCCTCCCTA
1 AAATAAAAACGTAAGAATAATTTTTGCCTCCCTA
30277456 AAATAA
1 AAATAA
30277462 GTGAAAACTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.47, C:0.15, G:0.08, T:0.30
Consensus pattern (34 bp):
AAATAAAAACGTAAGAATAATTTTTGCCTCCCTA
Found at i:30278607 original size:9 final size:9
Alignment explanation
Indices: 30278582--30278648 Score: 98
Period size: 9 Copynumber: 7.4 Consensus size: 9
30278572 GTAGTGATTC
*
30278582 AATTCGGGT
1 AATTCGGTT
*
30278591 AATCCGGTT
1 AATTCGGTT
30278600 AATTCGGTT
1 AATTCGGTT
30278609 AATTCGGTT
1 AATTCGGTT
*
30278618 AATTCGGGT
1 AATTCGGTT
*
30278627 AATTCAGTT
1 AATTCGGTT
30278636 AATTCGGTT
1 AATTCGGTT
30278645 AATT
1 AATT
30278649 TTTAACCAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.40
Consensus pattern (9 bp):
AATTCGGTT
Found at i:30279022 original size:16 final size:16
Alignment explanation
Indices: 30279001--30279036 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
30278991 ACAAATTGAA
30279001 ATTTTA-TTTTCATTTT
1 ATTTTATTTTTCA-TTT
30279017 ATTTTATTTTTCATTT
1 ATTTTATTTTTCATTT
30279033 ATTT
1 ATTT
30279037 GAAAATCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (16 bp):
ATTTTATTTTTCATTT
Found at i:30281491 original size:20 final size:20
Alignment explanation
Indices: 30281466--30281505 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
30281456 AAAAAAAAGA
*
30281466 AAAAAGTTATATAGATATAT
1 AAAAAGGTATATAGATATAT
* *
30281486 AAAAAGGTATTTATATATAT
1 AAAAAGGTATATAGATATAT
30281506 TAAATAAGTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.38
Consensus pattern (20 bp):
AAAAAGGTATATAGATATAT
Found at i:30281577 original size:3 final size:3
Alignment explanation
Indices: 30281569--30281647 Score: 83
Period size: 3 Copynumber: 26.3 Consensus size: 3
30281559 AAACTATCAT
* * *
30281569 ATA ATA ATA AT- ATG ATAA ATA AAA ATA AT- ATAA ATA AAA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA AT-A ATA ATA ATA ATA
30281614 GA-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
30281648 ATGATAATAC
Statistics
Matches: 65, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
2 5 0.08
3 55 0.85
4 5 0.08
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:30282432 original size:20 final size:20
Alignment explanation
Indices: 30282407--30282444 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
30282397 TGTTTTCGGA
30282407 TTAAAAAAGA-AAAATAAACT
1 TTAAAAAA-ACAAAATAAACT
30282427 TTAAAAAAACAAAATAAA
1 TTAAAAAAACAAAATAAA
30282445 ATAAAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (20 bp):
TTAAAAAAACAAAATAAACT
Found at i:30283506 original size:50 final size:50
Alignment explanation
Indices: 30283403--30283891 Score: 353
Period size: 50 Copynumber: 9.8 Consensus size: 50
30283393 TGTAATTTTA
* * * * * *
30283403 GGAAGTAAGATTCG-TCGTCGTGGCTTCAATCTATT-TACTTGCAATGTCGG
1 GGAAGTAAGATCCGCT-GTTGTAGCTTCAATCTGTTCCAC-TGCAATGTCTG
* * * * * * *
30283453 GGAAATGAGATTCACTGTCGTAGCTTCAATCTGTTCCACTGCATTGCCTG
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGTCTG
* ** * * ** * * * *
30283503 GGAAGTAAGATTCGCCATTATGGCTTCAATCT-TTTGAGTTACGATGTCGG
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCA-CTGCAATGTCTG
** * * * ** * * * *
30283553 GGAAGCGAGATTCACCGTCATAGCTTTAATCTGTTCCGCTGC-ATCGCCTA
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAAT-GTCTG
* * ** * *
30283603 GGAAGTAAGATCCACTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAG
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGTCTG
** *
30283653 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTACTCCACTGCAACG-CTAG
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGTCT-G
* * ** * *
30283703 GAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAG
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGTCTG
* *
30283753 GGAAGTGAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACG-CTAG
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGTCT-G
* ** * *
30283803 GAAAGTAAGATCCGCTGTTGTAGCTTCAATCT-TTTAATTGCAATGTCAG
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGTCTG
*
30283852 GGAAGTAAGATCCGATGTTGTAGCTTCAATCTGTTCCACT
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACT
30283892 ACAACGCTAG
Statistics
Matches: 337, Mismatches: 91, Indels: 22
0.75 0.20 0.05
Matches are distributed among these distances:
49 47 0.14
50 282 0.84
51 8 0.02
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (50 bp):
GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGTCTG
Found at i:30283529 original size:100 final size:99
Alignment explanation
Indices: 30283403--30283902 Score: 567
Period size: 100 Copynumber: 5.0 Consensus size: 99
30283393 TGTAATTTTA
* * * * * * *
30283403 GGAAGTAAGATTCG-TCGTCGTGGCTTCAATCTATTTACTTGCAATGTCGGGGAAATGAGATTCA
1 GGAAGTAAGATCCGCT-GTTGTAGCTTCAATCT-TTTAATTGCAATGTCAGGGAAGTGAGATCCA
* **
30283467 CTGTCGTAGCTTCAATCTGTTCCACTGCATTGCCT-G
64 CTGTTGTAGCTTCAATCTGTTCCACTGCAACG-CTAG
* ** * * * * * * * *
30283503 GGAAGTAAGATTCGCCATTATGGCTTCAATCTTTTGAGTTACGATGTCGGGGAAGCGAGATTCAC
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTT-AATTGCAATGTCAGGGAAGTGAGATCCAC
* ** * * *
30283568 CGTCATAGCTTTAATCTGTTCCGCTGCATCGCCTA-
65 TGTTGTAGCTTCAATCTGTTCCACTGCAACG-CTAG
* * *
30283603 GGAAGTAAGATCCACTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGC
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATC-TTTTAATTGCAATGTCAGGGAAGTGAGATCCAC
**
30283668 TGTTGTAGCTTCAATCTACTCCACTGCAACGCTAG
65 TGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAG
* *
30283703 GAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTGAGATCCGC
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATC-TTTTAATTGCAATGTCAGGGAAGTGAGATCCAC
30283768 TGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAG
65 TGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAG
* *
30283803 GAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTAATTGCAATGTCAGGGAAGTAAGATCCGA-
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTAATTGCAATGTCAGGGAAGTGAGATCC-AC
*
30283867 TGTTGTAGCTTCAATCTGTTCCACTACAACGCTAG
65 TGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAG
30283902 G
1 G
30283903 TAANNNNNNN
Statistics
Matches: 350, Mismatches: 44, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
99 71 0.20
100 275 0.79
101 4 0.01
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (99 bp):
GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTAATTGCAATGTCAGGGAAGTGAGATCCACT
GTTGTAGCTTCAATCTGTTCCACTGCAACGCTAG
Found at i:30285833 original size:14 final size:14
Alignment explanation
Indices: 30285807--30285845 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
30285797 CTCCTTTTTC
*
30285807 TTTTTC-TTCTCTT
1 TTTTTCTTTTTCTT
30285820 TTTTTCTTTTTCTT
1 TTTTTCTTTTTCTT
30285834 TTTTTCTATTTT
1 TTTTTCT-TTTT
30285846 GACTTTGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.26
14 13 0.57
15 4 0.17
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTCTTTTTCTT
Found at i:30285865 original size:21 final size:20
Alignment explanation
Indices: 30285832--30285886 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
30285822 TTTCTTTTTC
30285832 TTTTTTTCTATTTTGACTTTGA
1 TTTTTTTC-ATTTTGA-TTTGA
* * *
30285854 TTTTTTTGATTTTTATTTTA
1 TTTTTTTCATTTTGATTTGA
30285874 TTTTTTTCATTTT
1 TTTTTTTCATTTT
30285887 TTAATTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 16 0.55
21 6 0.21
22 7 0.24
ACGTcount: A:0.13, C:0.05, G:0.05, T:0.76
Consensus pattern (20 bp):
TTTTTTTCATTTTGATTTGA
Found at i:30285893 original size:17 final size:16
Alignment explanation
Indices: 30285869--30285922 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
30285859 TTGATTTTTA
30285869 TTTTATTTTTTTCATT
1 TTTTATTTTTTTCATT
*
30285885 TTTTAATTTTTTTGATT
1 TTTT-ATTTTTTTCATT
* *
30285902 TTTTTTTATTTTTTATT
1 TTTTATT-TTTTTCATT
30285919 TTTT
1 TTTT
30285923 TTCTAGTCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
16 6 0.18
17 27 0.82
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.83
Consensus pattern (16 bp):
TTTTATTTTTTTCATT
Found at i:30285924 original size:9 final size:9
Alignment explanation
Indices: 30285853--30285924 Score: 67
Period size: 9 Copynumber: 8.0 Consensus size: 9
30285843 TTTGACTTTG
*
30285853 ATTTTTTTG
1 ATTTTTTTT
30285862 ATTTTTATTTT
1 A-TTTT-TTTT
*
30285873 ATTTTTTTC
1 ATTTTTTTT
*
30285882 A-TTTTTTA
1 ATTTTTTTT
*
30285890 ATTTTTTTG
1 ATTTTTTTT
30285899 ATTTTTTTT
1 ATTTTTTTT
*
30285908 -TATTTTTT
1 ATTTTTTTT
30285916 ATTTTTTTT
1 ATTTTTTTT
30285925 CTAGTCTGAA
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
8 14 0.27
9 26 0.50
10 8 0.15
11 4 0.08
ACGTcount: A:0.14, C:0.01, G:0.03, T:0.82
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:30285924 original size:37 final size:37
Alignment explanation
Indices: 30285853--30285922 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
30285843 TTTGACTTTG
30285853 ATTTTTTTGATTTTTATTTTATTTTTTTCATTTTTTA
1 ATTTTTTTGATTTTTATTTTATTTTTTTCATTTTTTA
30285890 ATTTTTTTGATTTTT-TTTTA-TTTTTT-ATTTTTT
1 ATTTTTTTGATTTTTATTTTATTTTTTTCATTTTTT
30285923 TTCTAGTCTG
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
34 7 0.21
35 6 0.18
36 5 0.15
37 15 0.45
ACGTcount: A:0.14, C:0.01, G:0.03, T:0.81
Consensus pattern (37 bp):
ATTTTTTTGATTTTTATTTTATTTTTTTCATTTTTTA
Found at i:30289868 original size:20 final size:20
Alignment explanation
Indices: 30289845--30289884 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
30289835 ATTCATAAAA
*
30289845 AAAAAGTTATATAGATATAT
1 AAAAAGGTATATAGATATAT
* *
30289865 AAAAAGGTATTTATATATAT
1 AAAAAGGTATATAGATATAT
30289885 TAAATAAGTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.38
Consensus pattern (20 bp):
AAAAAGGTATATAGATATAT
Found at i:30289955 original size:3 final size:3
Alignment explanation
Indices: 30289947--30290025 Score: 92
Period size: 3 Copynumber: 26.3 Consensus size: 3
30289937 AAACTATCAT
* *
30289947 ATA ATA ATA AT- ATG ATAA ATA AAA ATA ATA GA-A ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA -ATA ATA ATA ATA ATA
30289992 GA-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
30290026 ATGATAATAC
Statistics
Matches: 67, Mismatches: 3, Indels: 12
0.82 0.04 0.15
Matches are distributed among these distances:
2 4 0.06
3 59 0.88
4 4 0.06
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:30289976 original size:9 final size:9
Alignment explanation
Indices: 30289964--30290071 Score: 60
Period size: 9 Copynumber: 11.8 Consensus size: 9
30289954 TAATATGATA
30289964 AATAAAAAT
1 AATAAAAAT
*
30289973 AATAGAAAT
1 AATAAAAAT
30289982 AAT---AAT
1 AATAAAAAT
*
30289988 AATAGAAAT
1 AATAAAAAT
*
30289997 AATAATAAT
1 AATAAAAAT
*
30290006 AATAATAAT
1 AATAAAAAT
*
30290015 AATAATAAT
1 AATAAAAAT
* *
30290024 AAATGATAAT
1 -AATAAAAAT
*
30290034 ACATTAAAAT
1 A-ATAAAAAT
30290044 AATGAAGAAAAT
1 AAT--A-AAAAT
*
30290056 AATGAAAAT
1 AATAAAAAT
*
30290065 ACTAAAA
1 AATAAAA
30290072 TGGGACTAAA
Statistics
Matches: 81, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
6 6 0.07
9 52 0.64
10 15 0.19
12 8 0.10
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.26
Consensus pattern (9 bp):
AATAAAAAT
Found at i:30290806 original size:20 final size:20
Alignment explanation
Indices: 30290781--30290832 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
30290771 TGTTTTTGAA
30290781 TTAAAAAAGA-AAAATAAACT
1 TTAAAAAA-ATAAAATAAACT
30290801 TTAAAAAAATAAAATAAA--
1 TTAAAAAAATAAAATAAACT
*
30290819 ATAAAAAAATAAAA
1 TTAAAAAAATAAAA
30290833 ACAGTAAGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 13 0.43
19 1 0.03
20 16 0.53
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (20 bp):
TTAAAAAAATAAAATAAACT
Found at i:30292063 original size:39 final size:40
Alignment explanation
Indices: 30291997--30292139 Score: 147
Period size: 39 Copynumber: 3.6 Consensus size: 40
30291987 GGAGAGGGAA
*
30291997 AGAAGAAGAAAGAAAGAAAGAAAAAGAAGGAAAGGAAAGG
1 AGAAGAAGAAAGAAAGAAAGAAAAAGAAGGAAAGAAAAGG
*
30292037 AGAAGAAGAAA-AAAGAAAGAAAAAGAAGGAAAGAAAAGT
1 AGAAGAAGAAAGAAAGAAAGAAAAAGAAGGAAAGAAAAGG
* *
30292076 A-AAGGAGAAGAGAAA-AAA-AAACAAGAA-G-AAGAAGAGGGG
1 AGAAGAAGAA-AGAAAGAAAGAAA-AAGAAGGAAAGAA-A-AGG
30292115 AGGAAGGAA-AAAGAAAGAAAGAAAA
1 A-GAA-GAAGAAAGAAAGAAAGAAAA
30292140 GGTAATTTTT
Statistics
Matches: 87, Mismatches: 6, Indels: 19
0.78 0.05 0.17
Matches are distributed among these distances:
37 5 0.06
38 12 0.14
39 38 0.44
40 19 0.22
41 8 0.09
42 5 0.06
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.01
Consensus pattern (40 bp):
AGAAGAAGAAAGAAAGAAAGAAAAAGAAGGAAAGAAAAGG
Found at i:30292258 original size:27 final size:28
Alignment explanation
Indices: 30292226--30292279 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
30292216 TTTTATTATG
* * *
30292226 TTATTTAGCAT-ATAAATTTTATGAAAT
1 TTATTTAACATGACAAAATTTATGAAAT
30292253 TTATTTAACATGACAAAATTTATGAAA
1 TTATTTAACATGACAAAATTTATGAAA
30292280 AAATTCATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (28 bp):
TTATTTAACATGACAAAATTTATGAAAT
Found at i:30295149 original size:11 final size:11
Alignment explanation
Indices: 30295133--30295159 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
30295123 TTTATAACTT
30295133 AATTTGGATAC
1 AATTTGGATAC
30295144 AATTTGGATAC
1 AATTTGGATAC
30295155 AATTT
1 AATTT
30295160 AAGCATAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (11 bp):
AATTTGGATAC
Found at i:30297801 original size:9 final size:9
Alignment explanation
Indices: 30297787--30297817 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
30297777 ATGAAAACCA
30297787 TAATAATAT
1 TAATAATAT
30297796 TAATAATAT
1 TAATAATAT
*
30297805 TAATAATAA
1 TAATAATAT
30297814 TAAT
1 TAAT
30297818 TTTATACTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
TAATAATAT
Found at i:30297968 original size:3 final size:3
Alignment explanation
Indices: 30297960--30298008 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
30297950 CCCTAAAAAT
30297960 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
30298007 TA
1 TA
30298009 CTAACTAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:30298274 original size:27 final size:27
Alignment explanation
Indices: 30298235--30298323 Score: 133
Period size: 27 Copynumber: 3.3 Consensus size: 27
30298225 AACACAACTA
*
30298235 GTGCCGCCAATGGGAATGGCACCATCG
1 GTGCCGCCCATGGGAATGGCACCATCG
* *
30298262 GTGCCTCCCATGGGAACGGCACCATCG
1 GTGCCGCCCATGGGAATGGCACCATCG
* *
30298289 GTGCCGCCCATGGGAATGGCACCTTTG
1 GTGCCGCCCATGGGAATGGCACCATCG
30298316 GTGCCGCC
1 GTGCCGCC
30298324 AATTAGATAC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.17, C:0.34, G:0.33, T:0.17
Consensus pattern (27 bp):
GTGCCGCCCATGGGAATGGCACCATCG
Found at i:30316336 original size:45 final size:45
Alignment explanation
Indices: 30316243--30316338 Score: 113
Period size: 45 Copynumber: 2.1 Consensus size: 45
30316233 TAACCTTTGG
* ** **
30316243 TATCCGGTGAAATCAGCACATAGCAATCACCTTTATTTTCATTAA
1 TATCCGGTGAAATCAGCACATAGCAATCACCTATATTGCCAACAA
* *
30316288 TATCCGGTGGAATCAGCACATAGC-ATCCACCTATATTGCCAACGA
1 TATCCGGTGAAATCAGCACATAGCAAT-CACCTATATTGCCAACAA
30316333 TATCCG
1 TATCCG
30316339 ATCCATTCCG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 2 0.05
45 41 0.95
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (45 bp):
TATCCGGTGAAATCAGCACATAGCAATCACCTATATTGCCAACAA
Found at i:30317827 original size:28 final size:28
Alignment explanation
Indices: 30317787--30317940 Score: 236
Period size: 28 Copynumber: 5.5 Consensus size: 28
30317777 TGACTTTCGA
* *
30317787 CACTAAGTGTGCGAATTTAATTGTGAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
30317815 CACTAAGTGTGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
30317843 CACTAAGTGTGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
*
30317871 CACTAAGTGTGCGAGTTTAATGGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * * **
30317899 CACTAAGTGTGTGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
30317927 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
30317941 ACTTATTAAA
Statistics
Matches: 116, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 116 1.00
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.32
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:30318751 original size:23 final size:23
Alignment explanation
Indices: 30318721--30319114 Score: 300
Period size: 23 Copynumber: 17.0 Consensus size: 23
30318711 TGGTGAATAA
* *
30318721 ATGCTGTCTAATTTTGCATATAC
1 ATGCTGTCCAATTTTGTATATAC
* *
30318744 ATGCTGTCAAATTTTGTGTATA-
1 ATGCTGTCCAATTTTGTATATAC
* * **
30318766 AGTGCTGTCCAAATTGGTATATGT
1 A-TGCTGTCCAATTTTGTATATAC
* *
30318790 ATGCTGCCCAATTTTGGTGA-ATAA
1 ATGCTGTCCAATTTT-GT-ATATAC
*
30318814 ATGCTGTCCAATTTTGCATATAC
1 ATGCTGTCCAATTTTGTATATAC
* *
30318837 ATGCTGTCAAATTTTGTGTATA-
1 ATGCTGTCCAATTTTGTATATAC
* **
30318859 AGTGCTGTCCAAATTTGTATATGT
1 A-TGCTGTCCAATTTTGTATATAC
* *
30318883 ATGCTGCCCAATTTTGGTGA-ATAA
1 ATGCTGTCCAATTTT-GT-ATATAC
*
30318907 ATGCTGTCCAATTTTGCATATAC
1 ATGCTGTCCAATTTTGTATATAC
* *
30318930 ATGCTGTCAAATTTTGTGTATA-
1 ATGCTGTCCAATTTTGTATATAC
* * **
30318952 AGTGCTGTCCAAATTGGTATATGT
1 A-TGCTGTCCAATTTTGTATATAC
*
30318976 ATGCTGTCCAATTTTGGTGA-ATAA
1 ATGCTGTCCAATTTT-GT-ATATAC
*
30319000 ATGCTGTCCAATTTTGCATATAC
1 ATGCTGTCCAATTTTGTATATAC
*
30319023 ATGCTGT-CAGATTTTGTGTATA-
1 ATGCTGTCCA-ATTTTGTATATAC
* * * **
30319045 AGTACTGTCCAAATTGGTATATGT
1 A-TGCTGTCCAATTTTGTATATAC
* * *
30319069 ATGCTGCCCAATTTTGGTGTATAA
1 ATGCTGTCCAATTTT-GTATATAC
30319093 ATGCTGTCCAATTTTGTATATA
1 ATGCTGTCCAATTTTGTATATA
30319115 TATATATATA
Statistics
Matches: 291, Mismatches: 60, Indels: 40
0.74 0.15 0.10
Matches are distributed among these distances:
22 9 0.03
23 199 0.68
24 80 0.27
25 3 0.01
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (23 bp):
ATGCTGTCCAATTTTGTATATAC
Found at i:30318795 original size:93 final size:93
Alignment explanation
Indices: 30318689--30319114 Score: 766
Period size: 93 Copynumber: 4.6 Consensus size: 93
30318679 GCCCAATTTG
* *
30318689 TGGTA-AT-TATGCTGCCTAATTTTGGTGAATAAATGCTGTCTAATTTTGCATATACATGCTGTC
1 TGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTC
30318752 AAATTTTGTGTATAAGTGCTGTCCAAAT
66 AAATTTTGTGTATAAGTGCTGTCCAAAT
30318780 TGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTC
1 TGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTC
30318845 AAATTTTGTGTATAAGTGCTGTCCAAAT
66 AAATTTTGTGTATAAGTGCTGTCCAAAT
*
30318873 TTGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTC
1 TGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTC
30318938 AAATTTTGTGTATAAGTGCTGTCCAAAT
66 AAATTTTGTGTATAAGTGCTGTCCAAAT
*
30318966 TGGTATATGTATGCTGTCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTC
1 TGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTC
* *
30319031 AGATTTTGTGTATAAGTACTGTCCAAAT
66 AAATTTTGTGTATAAGTGCTGTCCAAAT
* *
30319059 TGGTATATGTATGCTGCCCAATTTTGGTGTATAAATGCTGTCCAATTTTGTATATA
1 TGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATA
30319115 TATATATATA
Statistics
Matches: 323, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
91 5 0.02
92 2 0.01
93 316 0.98
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (93 bp):
TGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTC
AAATTTTGTGTATAAGTGCTGTCCAAAT
Found at i:30319116 original size:2 final size:2
Alignment explanation
Indices: 30319109--30319145 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
30319099 TCCAATTTTG
30319109 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30319146 GCTGCTCAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:30319717 original size:47 final size:48
Alignment explanation
Indices: 30319607--30319840 Score: 237
Period size: 50 Copynumber: 4.8 Consensus size: 48
30319597 TAGGACGCCA
* *
30319607 ATGCCATATCCCAGATATGGTCTTACA-TGGGATCACAT-ATCG--GTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACT--GA-CAC-TCATCGTCGTGCCG
* *
30319655 ATGCTATGTCCCAGACATGGTCTTACACTGACACTCATC-TCGAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACTCATCGTCGTGCCG
* * *
30319702 ATGTCATGTCCCAGACATGGTCTTACACTGACTCTCCTCTGTCCGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACTCATC-GT-CGTGCCG
* *
30319752 ATGCCATGTCCCAGACATGGTCTTACACT-AGCACTCCTCGGCCTGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-CACTCATC-GTC-GTGCCG
*
30319802 ATGCCATGTCCCAGACATGGTATTACACTGGCACACTCA
1 ATGCCATGTCCCAGACATGGTCTTACACT-G-ACACTCA
30319841 CTGCCATGGT
Statistics
Matches: 159, Mismatches: 15, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
45 1 0.01
46 6 0.04
47 42 0.26
48 24 0.15
49 4 0.03
50 76 0.48
52 5 0.03
53 1 0.01
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACACTCATCGTCGTGCCG
Found at i:30319773 original size:50 final size:49
Alignment explanation
Indices: 30319649--30319831 Score: 255
Period size: 50 Copynumber: 3.7 Consensus size: 49
30319639 TCACATATCG
* *
30319649 GTGCCGATGCTATGTCCCAGACATGGTCTTACACTGACACTCATC-T-C
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCGTCC
* * *
30319696 GAGCCGATGTCATGTCCCAGACATGGTCTTACACTGACTCTCCTCTGTCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTC-GTCC
*
30319746 GTGCCGATGCCATGTCCCAGACATGGTCTTACACT-AGCACTCCTCGGCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACTCCTCGTCC
*
30319795 TGTGCCGATGCCATGTCCCAGACATGGTATTACACTG
1 -GTGCCGATGCCATGTCCCAGACATGGTCTTACACTG
30319832 GCACACTCAC
Statistics
Matches: 120, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
47 40 0.33
49 5 0.04
50 75 0.62
ACGTcount: A:0.20, C:0.33, G:0.21, T:0.26
Consensus pattern (49 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCGTCC
Found at i:30319779 original size:97 final size:99
Alignment explanation
Indices: 30319649--30319831 Score: 273
Period size: 97 Copynumber: 1.9 Consensus size: 99
30319639 TCACATATCG
* * *
30319649 GTGCCGATGCTATGTCCCAGACATGGTCTTACACT-GACACTCATC-TC-GAGCCGATGTCATGT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CACTCATCGCCTGAGCCGATGCCATGT
*
30319711 CCCAGACATGGTCTTACACTGACTCTCCTCTGTCC
65 CCCAGACATGGTATTACACTGACTCTCCTCTGTCC
* *
30319746 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGGCCTGTGCCGATGCCATGT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATC-GCCTGAGCCGATGCCATGT
30319811 CCCAGACATGGTATTACACTG
65 CCCAGACATGGTATTACACTG
30319832 GCACACTCAC
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
97 41 0.54
98 1 0.01
99 1 0.01
100 33 0.43
ACGTcount: A:0.20, C:0.33, G:0.21, T:0.26
Consensus pattern (99 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCGCCTGAGCCGATGCCATGTC
CCAGACATGGTATTACACTGACTCTCCTCTGTCC
Found at i:30323301 original size:19 final size:19
Alignment explanation
Indices: 30323279--30323315 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30323269 ATTTTTTTTA
* *
30323279 AAAATCATTAAAATCCAAC
1 AAAATCATAAAAAGCCAAC
30323298 AAAATCATAAAAAGCCAA
1 AAAATCATAAAAAGCCAA
30323316 AAACAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.19, G:0.03, T:0.16
Consensus pattern (19 bp):
AAAATCATAAAAAGCCAAC
Found at i:30323577 original size:20 final size:19
Alignment explanation
Indices: 30323548--30323599 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
30323538 TTTTCCTTTT
*
30323548 TTTTTGTATTTTTATGAAAA
1 TTTTTATATTTTTA-GAAAA
*
30323568 TTTTTATATTTTTAGGAAA
1 TTTTTATATTTTTAGAAAA
*
30323587 -TTTTAAATTTTTA
1 TTTTTATATTTTTA
30323600 CACGTGACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 12 0.41
19 4 0.14
20 13 0.45
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (19 bp):
TTTTTATATTTTTAGAAAA
Found at i:30323596 original size:18 final size:20
Alignment explanation
Indices: 30323555--30323599 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
30323545 TTTTTTTTGT
*
30323555 ATTTTTATGAAAATTTTTAT
1 ATTTTTATGAAAATTTTTAA
*
30323575 ATTTTTA-GGAAA-TTTTAA
1 ATTTTTATGAAAATTTTTAA
30323593 ATTTTTA
1 ATTTTTA
30323600 CACGTGACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 12 0.52
19 4 0.17
20 7 0.30
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (20 bp):
ATTTTTATGAAAATTTTTAA
Found at i:30326376 original size:29 final size:30
Alignment explanation
Indices: 30326343--30326416 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 30
30326333 TTTGGTTTTT
30326343 TTAT-AAAATAATATTAAAAAATTA-ATTAA
1 TTATAAAAATAATATTAAAAAA-TAGATTAA
* *
30326372 TTATAAAAATAGTA-TGAAAAATAGATTAA
1 TTATAAAAATAATATTAAAAAATAGATTAA
*
30326401 TTATGAAAATAA-ATTA
1 TTATAAAAATAATATTA
30326417 TGTTTTACTA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
28 3 0.08
29 26 0.70
30 8 0.22
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (30 bp):
TTATAAAAATAATATTAAAAAATAGATTAA
Found at i:30332652 original size:6 final size:6
Alignment explanation
Indices: 30332641--30332668 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
30332631 TCCATAGGTA
30332641 GTTGTG GTTGTG GTTGTG GTTGTG GTTG
1 GTTGTG GTTGTG GTTGTG GTTGTG GTTG
30332669 AAGCTCTCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (6 bp):
GTTGTG
Found at i:30335479 original size:23 final size:24
Alignment explanation
Indices: 30335453--30335497 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
30335443 TAAAATTTAA
30335453 ATTTATTATTATAT-TTTTAAAAT
1 ATTTATTATTATATATTTTAAAAT
* *
30335476 ATTTTTTTTTATATATTTTAAA
1 ATTTATTATTATATATTTTAAA
30335498 TTTTTTACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (24 bp):
ATTTATTATTATATATTTTAAAAT
Found at i:30335498 original size:23 final size:22
Alignment explanation
Indices: 30335461--30335503 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
30335451 AAATTTATTA
30335461 TTATATTTTTAAAATATTTTTTT
1 TTATATTTTTAAAAT-TTTTTTT
30335484 TTATATATTTT-AAATTTTTT
1 TTATAT-TTTTAAAATTTTTT
30335504 ACATTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 10 0.53
24 4 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (22 bp):
TTATATTTTTAAAATTTTTTTT
Done.