Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 202 of 332
Found at i:67276248 original size:27 final size:27
Alignment explanation
Indices: 67276218--67276395 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
67276208 ATATTGAGTC
* * * *
67276218 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
67276245 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
67276272 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
67276300 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
67276327 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
67276354 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
67276381 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
67276396 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:67276357 original size:82 final size:81
Alignment explanation
Indices: 67276239--67276394 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
67276229 TGCTATATAA
* *
67276239 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
67276304 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
67276321 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
67276385 CACTTAGTGC
65 CACTTAGTGC
67276395 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:67278508 original size:46 final size:46
Alignment explanation
Indices: 67278450--67278671 Score: 234
Period size: 46 Copynumber: 4.7 Consensus size: 46
67278440 ATTCGTGTGT
* *
67278450 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GATGA
* *
67278496 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGAGATGA
* ** * * * *
67278544 GGGTTAGAGTAAGACATGTCTGGGACATGCGTCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATG-A
*
67278591 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGA
* *
67278636 TAGTCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
67278672 ACTTGAGATT
Statistics
Matches: 147, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
45 1 0.01
46 73 0.50
47 46 0.31
48 26 0.18
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.22
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGA
Found at i:67278692 original size:47 final size:45
Alignment explanation
Indices: 67278447--67278694 Score: 214
Period size: 46 Copynumber: 5.3 Consensus size: 45
67278437 GTCATTCGTG
* *
67278447 TGTGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC-CACATTA
1 TGTGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTC-GA-GA
* * *
67278493 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
1 TGTGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TCGAGA
* * * * * *
67278541 CGAGGGTTAGAGTAAGACATGTCTGGGACATGCGTCGGCCTCGAGA
1 TGTGAGCTAGTGTAAGACATGTCTGGGACATGCATCGG-CTCGAGA
* * *
67278587 CGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGA
1 TGTGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCT-CGAGA
* *
67278633 TGAT-AG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGA
1 TG-TGAGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTCGAGA
* *
67278680 TTTTAGCTAGTGTAA
1 TGTGAGCTAGTGTAA
67278695 AATCGTGTCT
Statistics
Matches: 166, Mismatches: 24, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
45 2 0.01
46 75 0.45
47 58 0.35
48 30 0.18
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (45 bp):
TGTGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGA
Found at i:67278694 original size:93 final size:94
Alignment explanation
Indices: 67278458--67278679 Score: 240
Period size: 94 Copynumber: 2.4 Consensus size: 94
67278448 GTGAGCTAGT
* * * *
67278458 GTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATG-AGAGCCAGTGTAAGACCATGTCTGGG
1 GTAAGACATGTCTGGGACATGCATCGGACTCGA-GACGTA-AGCCAGTGTAAGACCATGTCTGGG
* * *
67278521 ACATGGCATCGGCATTGAGACGAGGGTTAGA
64 ACATGGCATCGGCATCGAGACGAGAGTCAGA
* *
67278552 GTAAGACATGTCTGGGACATGCGTCGGCCTCGAGACGTAAGCCAGTGTAAGA-CATGTCTGGGAC
1 GTAAGACATGTCTGGGACATGCATCGGACTCGAGACGTAAGCCAGTGTAAGACCATGTCTGGGAC
* * *
67278616 AT-GCATCGGC-TACGAGATGATAGTCAGT
66 ATGGCATCGGCAT-CGAGACGAGAGTCAGA
*
67278644 GTAAGACCATGTCTGGGACATGGCATC-GACTTGAGA
1 GTAAGA-CATGTCTGGGACAT-GCATCGGACTCGAGA
67278680 TTTTAGCTAG
Statistics
Matches: 110, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
91 1 0.01
92 24 0.22
93 35 0.32
94 48 0.44
95 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.22
Consensus pattern (94 bp):
GTAAGACATGTCTGGGACATGCATCGGACTCGAGACGTAAGCCAGTGTAAGACCATGTCTGGGAC
ATGGCATCGGCATCGAGACGAGAGTCAGA
Found at i:67282199 original size:19 final size:20
Alignment explanation
Indices: 67282162--67282199 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
67282152 AATTAGGATT
**
67282162 TTTTATAAAAAATTGTAAAC
1 TTTTATAAAAAATCATAAAC
67282182 TTTTAT-AAAAATCATAAA
1 TTTTATAAAAAATCATAAA
67282200 AAAATTAACG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (20 bp):
TTTTATAAAAAATCATAAAC
Found at i:67282421 original size:17 final size:19
Alignment explanation
Indices: 67282399--67282456 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 19
67282389 TTCTTACGAC
*
67282399 TTTATAAAATTTTA-TA-T
1 TTTATAAAATTTTACAATT
**
67282416 TTTATAATTTTTTACAATT
1 TTTATAAAATTTTACAATT
*
67282435 TTTATAAAATTTCACAATT
1 TTTATAAAATTTTACAATT
67282454 TTT
1 TTT
67282457 TATATATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
17 12 0.36
18 1 0.03
19 20 0.61
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTATAAAATTTTACAATT
Found at i:67282439 original size:19 final size:19
Alignment explanation
Indices: 67282415--67282496 Score: 69
Period size: 19 Copynumber: 4.3 Consensus size: 19
67282405 AAATTTTATA
67282415 TTTTATAATTTTTTACAAT
1 TTTTATAATTTTTTACAAT
** *
67282434 TTTTATAAAATTTCACAATT
1 TTTTATAATTTTTTACAA-T
**
67282454 TTTTATATATTTTTTATGA-
1 TTTTATA-ATTTTTTACAAT
*
67282473 TTTTAT-ATTTTTTTCTAAT
1 TTTTATAATTTTTTAC-AAT
67282492 TTTTA
1 TTTTA
67282497 ATATTTTAAT
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
17 7 0.15
18 1 0.02
19 26 0.54
20 8 0.17
21 6 0.12
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (19 bp):
TTTTATAATTTTTTACAAT
Found at i:67282503 original size:19 final size:19
Alignment explanation
Indices: 67282453--67282503 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
67282443 ATTTCACAAT
*
67282453 TTTTTATATATTTTTTATGA
1 TTTTTA-ATATTTTTTATAA
*
67282473 -TTTT-ATATTTTTTTCTAA
1 TTTTTAATA-TTTTTTATAA
67282491 TTTTTAATATTTT
1 TTTTTAATATTTT
67282504 AATTTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
17 3 0.12
18 8 0.31
19 12 0.46
20 3 0.12
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTTAATATTTTTTATAA
Found at i:67282519 original size:27 final size:27
Alignment explanation
Indices: 67282403--67282530 Score: 82
Period size: 29 Copynumber: 4.6 Consensus size: 27
67282393 TACGACTTTA
*
67282403 TAAAA-TTTT-ATATTTTATAATTTTT
1 TAAAATTTTTAATATTTTATATTTTTT
* * * * *
67282428 TACAATTTTTATAAAATTTCACAATTTTT
1 TA-AAATTTT-TAATATTTTATATTTTTT
* *
67282457 TATATATTTTTTATGATTTTATATTTTTT
1 TA-AAATTTTTAAT-ATTTTATATTTTTT
**
67282486 TCTAATTTTTAATATTTTA-ATTTTTAT
1 TAAAATTTTTAATATTTTATATTTTT-T
*
67282513 TAAAATTTAATAATATTT
1 TAAAATTT-TTAATATTT
67282531 ATAGCTTTTA
Statistics
Matches: 77, Mismatches: 19, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
25 2 0.03
26 8 0.10
27 16 0.21
28 19 0.25
29 32 0.42
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (27 bp):
TAAAATTTTTAATATTTTATATTTTTT
Found at i:67282788 original size:87 final size:89
Alignment explanation
Indices: 67282633--67282835 Score: 338
Period size: 87 Copynumber: 2.3 Consensus size: 89
67282623 GTTGATGGTC
*
67282633 TTTTTGATGCATTTTGAAAGTTTAAGTACCCAATTGAGTGAAAAAAAAAGTAGGGGCTTAATTGC
1 TTTTTGATGCATTTTGAAAGTTCAAG-ACCCAATTGAGTGAAAAAAAAAGTAGGGGCTTAATTGC
*
67282698 TTTTTTTTTAAAAGGTTTGAAGGCT
65 TTTTTTTTGAAAAGGTTTGAAGGCT
*
67282723 TTTTTGATGCATTTTGAAAGTTCAA-ACCCAATTGAG-GGAAAAAAAAGTAGGGGCTTAATTGCT
1 TTTTTGATGCATTTTGAAAGTTCAAGACCCAATTGAGTGAAAAAAAAAGTAGGGGCTTAATTGCT
*
67282786 TTTTTTTGAAAAGGTTTGAGGGCT
66 TTTTTTTGAAAAGGTTTGAAGGCT
*
67282810 TTTTTGATGTATTTTGAAAGTTCAAG
1 TTTTTGATGCATTTTGAAAGTTCAAG
67282836 TACAAAAAAA
Statistics
Matches: 107, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
87 72 0.67
88 11 0.10
90 24 0.22
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (89 bp):
TTTTTGATGCATTTTGAAAGTTCAAGACCCAATTGAGTGAAAAAAAAAGTAGGGGCTTAATTGCT
TTTTTTTGAAAAGGTTTGAAGGCT
Found at i:67282855 original size:87 final size:86
Alignment explanation
Indices: 67282675--67282857 Score: 249
Period size: 87 Copynumber: 2.1 Consensus size: 86
67282665 ATTGAGTGAA
*
67282675 AAAAAAAGTAGGGGCTTAATTGCTTTTTTTTTAAAAGGTTTGAAGGCTTTTTTGATGCATTTTGA
1 AAAAAAAGTAGGGGCTTAATTGCTTTTTTTTGAAAAGGTTTGAAGGCTTTTTTGATGCATTTTGA
** ***
67282740 AAGTTCAAACCCAATTGAGGG
66 AAGTTCAAACAAAAAAAAGGG
* *
67282761 AAAAAAAAGTAGGGGCTTAATTGCTTTTTTTTGAAAAGGTTTGAGGGCTTTTTTGATGTATTTTG
1 -AAAAAAAGTAGGGGCTTAATTGCTTTTTTTTGAAAAGGTTTGAAGGCTTTTTTGATGCATTTTG
*
67282826 AAAGTTCAAGTACAAAAAAAAGTGC
65 AAAGTTCAA--ACAAAAAAAAG-GG
67282851 AAAAAAA
1 AAAAAAA
67282858 TTTGAATGTT
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
87 70 0.83
89 13 0.15
90 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (86 bp):
AAAAAAAGTAGGGGCTTAATTGCTTTTTTTTGAAAAGGTTTGAAGGCTTTTTTGATGCATTTTGA
AAGTTCAAACAAAAAAAAGGG
Found at i:67284071 original size:10 final size:10
Alignment explanation
Indices: 67284058--67284130 Score: 51
Period size: 10 Copynumber: 7.3 Consensus size: 10
67284048 AAATTTTATA
67284058 TTTTATAATT
1 TTTTATAATT
**
67284068 TTTTACGA-T
1 TTTTATAATT
**
67284077 TTTTATAAAA
1 TTTTATAATT
*
67284087 TTTTACAATT
1 TTTTATAATT
67284097 TTTTAT-ATAT
1 TTTTATAAT-T
*
67284107 TTTTATGATTT
1 TTTTAT-AATT
*
67284118 TTTTCTAATT
1 TTTTATAATT
67284128 TTT
1 TTT
67284131 AATATTTAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
9 9 0.19
10 31 0.66
11 6 0.13
12 1 0.02
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (10 bp):
TTTTATAATT
Found at i:67284082 original size:19 final size:19
Alignment explanation
Indices: 67284004--67284119 Score: 73
Period size: 19 Copynumber: 6.2 Consensus size: 19
67283994 ATTTACAAAA
67284004 TTTAT-ATTTCTTTAC-ATT
1 TTTATAATTT-TTTACGATT
*
67284022 TTGTATAATTTTCTTACGA-C
1 TT-TATAATTTT-TTACGATT
** *
67284042 TTTATAAAATTTTA-TA-T
1 TTTATAATTTTTTACGATT
67284059 TTTATAATTTTTTACGATT
1 TTTATAATTTTTTACGATT
** *
67284078 TTTATAAAATTTTACAATT
1 TTTATAATTTTTTACGATT
*
67284097 TTT-TATATATTTTTATGATT
1 TTTATA-AT-TTTTTACGATT
67284117 TTT
1 TTT
67284120 TTCTAATTTT
Statistics
Matches: 75, Mismatches: 15, Indels: 14
0.72 0.14 0.13
Matches are distributed among these distances:
17 13 0.17
18 8 0.11
19 32 0.43
20 21 0.28
21 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTATAATTTTTTACGATT
Found at i:67284082 original size:36 final size:37
Alignment explanation
Indices: 67284014--67284119 Score: 117
Period size: 36 Copynumber: 2.8 Consensus size: 37
67284004 TTTATATTTC
* *
67284014 TTTACATTTTGTATAATTTTCTTACGA-CTTTATAAAAT
1 TTTACAATTT-TATAATTTT-TTACGATTTTTATAAAAT
*
67284052 TTTA-TATTTTATAATTTTTTACGATTTTTATAAAAT
1 TTTACAATTTTATAATTTTTTACGATTTTTATAAAAT
* *
67284088 TTTACAATTTTTTATATATTTTTATGATTTTT
1 TTTACAATTTTATA-AT-TTTTTACGATTTTT
67284120 TTCTAATTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
35 6 0.10
36 23 0.40
37 10 0.17
38 6 0.10
39 13 0.22
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (37 bp):
TTTACAATTTTATAATTTTTTACGATTTTTATAAAAT
Found at i:67284117 original size:20 final size:19
Alignment explanation
Indices: 67284058--67284131 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 19
67284048 AAATTTTATA
67284058 TTTTATAATTTTTTACGA-T
1 TTTTATAA-TTTTTACGATT
* *
67284077 TTTTATAAAATTTTACAATT
1 TTTTAT-AATTTTTACGATT
*
67284097 TTTTATATATTTTTATGATTT
1 TTTTATA-ATTTTTACGA-TT
*
67284118 TTTTCTAATTTTTA
1 TTTTATAATTTTTA
67284132 ATATTTAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
19 14 0.31
20 23 0.51
21 8 0.18
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTATAATTTTTACGATT
Found at i:67287307 original size:34 final size:34
Alignment explanation
Indices: 67287264--67287338 Score: 123
Period size: 34 Copynumber: 2.2 Consensus size: 34
67287254 TGGAAGAGTG
67287264 ACCAAAATACTAAATTTCGACAACAATAATAACT
1 ACCAAAATACTAAATTTCGACAACAATAATAACT
* *
67287298 ACCAAAATACTAAATTTTGATAACAATAATAACT
1 ACCAAAATACTAAATTTCGACAACAATAATAACT
*
67287332 ACAAAAA
1 ACCAAAA
67287339 AATTTAAACC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.56, C:0.17, G:0.03, T:0.24
Consensus pattern (34 bp):
ACCAAAATACTAAATTTCGACAACAATAATAACT
Found at i:67288001 original size:15 final size:15
Alignment explanation
Indices: 67287981--67288032 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
67287971 ACTACAAAAC
67287981 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
67287996 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
67288015 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
67288030 ATT
1 ATT
67288033 AATATAGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:67288084 original size:16 final size:16
Alignment explanation
Indices: 67288060--67288104 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 16
67288050 ATAATATGTG
*
67288060 AATAATATTATTTAAA
1 AATATTATTATTTAAA
67288076 AATATTATT-TTT-AA
1 AATATTATTATTTAAA
67288090 AAT-TTATTA-TTAAA
1 AATATTATTATTTAAA
67288104 A
1 A
67288105 TAAAATTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 7 0.27
14 8 0.31
15 3 0.12
16 8 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AATATTATTATTTAAA
Found at i:67288096 original size:13 final size:14
Alignment explanation
Indices: 67288063--67288106 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 14
67288053 ATATGTGAAT
*
67288063 AATATTATT-TAAA
1 AATATTATTATTAA
*
67288076 AATATTATTTTTAA
1 AATATTATTATTAA
67288090 AAT-TTATTATTAA
1 AATATTATTATTAA
67288103 AATA
1 AATA
67288107 AAATTGAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 21 0.78
14 6 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATATTATTATTAA
Found at i:67288153 original size:22 final size:22
Alignment explanation
Indices: 67288125--67288168 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
67288115 ATATTAAATC
67288125 ATTTATTAAAATAATAAATTAT
1 ATTTATTAAAATAATAAATTAT
* * *
67288147 ATTTATTATATTAATAATTTAT
1 ATTTATTAAAATAATAAATTAT
67288169 TATATGAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTATTAAAATAATAAATTAT
Found at i:67288168 original size:16 final size:16
Alignment explanation
Indices: 67288147--67288179 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
67288137 AATAAATTAT
*
67288147 ATTTATTATATTAATA
1 ATTTATTATATGAATA
67288163 ATTTATTATATGAATA
1 ATTTATTATATGAATA
67288179 A
1 A
67288180 ATATAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
ATTTATTATATGAATA
Found at i:67291357 original size:69 final size:71
Alignment explanation
Indices: 67291265--67291416 Score: 173
Period size: 69 Copynumber: 2.2 Consensus size: 71
67291255 GTCGTTTTAT
* * * *
67291265 AGGTTTAGCCCGAACGAGAAACCTTACATGTATA-TACAACCTTGGCCAAACTATCTGATATGTC
1 AGGTTTAGCCCGAACAAGAAACCTAACATGTACATTACAACCTTAGCCAAACTATCTGATATGTC
*
67291329 GAT-AA
66 AATAAA
* * * * * * *
67291334 AGGTTTAGCCCGTACAAGTAACCTAACTTGTACATTACAACTTTAGCCAAACTATTTGATGTGTT
1 AGGTTTAGCCCGAACAAGAAACCTAACATGTACATTACAACCTTAGCCAAACTATCTGATATGTC
67291399 AATAAA
66 AATAAA
*
67291405 AAGTTTAGCCCG
1 AGGTTTAGCCCG
67291417 GACGGGTAAC
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
69 28 0.41
70 27 0.40
71 13 0.19
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.29
Consensus pattern (71 bp):
AGGTTTAGCCCGAACAAGAAACCTAACATGTACATTACAACCTTAGCCAAACTATCTGATATGTC
AATAAA
Found at i:67294309 original size:13 final size:15
Alignment explanation
Indices: 67294291--67294327 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
67294281 CCGTGTGAGG
67294291 GACACGGGC-CAT-A
1 GACACGGGCACATGA
*
67294304 GACACGGGCATATGA
1 GACACGGGCACATGA
67294319 GACACGGGC
1 GACACGGGC
67294328 GTGTCCCTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.43
14 2 0.10
15 10 0.48
ACGTcount: A:0.30, C:0.27, G:0.35, T:0.08
Consensus pattern (15 bp):
GACACGGGCACATGA
Found at i:67300518 original size:31 final size:31
Alignment explanation
Indices: 67300483--67300541 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
67300473 TTTATGTTAC
* *
67300483 ATTTGCTGTTTTTGGTTGGATTTCATGCTAT
1 ATTTGCTGTTTTTGGTTAGATTTAATGCTAT
*
67300514 ATTTGTTGTTTTTGGTTAGATTTAATGC
1 ATTTGCTGTTTTTGGTTAGATTTAATGC
67300542 AGGAAGAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.15, C:0.07, G:0.22, T:0.56
Consensus pattern (31 bp):
ATTTGCTGTTTTTGGTTAGATTTAATGCTAT
Found at i:67302437 original size:16 final size:17
Alignment explanation
Indices: 67302411--67302442 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
67302401 ATCTGTGTTC
67302411 TTTTTATTTTATTTTAT
1 TTTTTATTTTATTTTAT
67302428 TTTTTA-TTTATTTTA
1 TTTTTATTTTATTTTA
67302443 ACAAATTGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTATTTTATTTTAT
Found at i:67308151 original size:20 final size:21
Alignment explanation
Indices: 67308101--67308155 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
67308091 AAAAATTACA
67308101 ATAAAAATTT-AAAATAATTT
1 ATAAAAATTTCAAAATAATTT
*
67308121 -TCTAAAA-TTCAAAAT-ATTT
1 AT-AAAAATTTCAAAATAATTT
67308140 ATAAAAATTTCAAAAT
1 ATAAAAATTTCAAAAT
67308156 TTATATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAAAAATTTCAAAATAATTT
Found at i:67308927 original size:14 final size:14
Alignment explanation
Indices: 67308908--67308936 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
67308898 TAGATAAATA
67308908 ATAATCTATATAAC
1 ATAATCTATATAAC
67308922 ATAATCTATATAAC
1 ATAATCTATATAAC
67308936 A
1 A
67308937 AAGTAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATCTATATAAC
Found at i:67314009 original size:62 final size:62
Alignment explanation
Indices: 67313932--67314057 Score: 182
Period size: 62 Copynumber: 2.0 Consensus size: 62
67313922 GAGCAATACT
* * *
67313932 TTCCTAGAATCTACTATTATTAATATGTGGTTCTTAT-GTCTAAATAATATATCTTCGAGTTC
1 TTCCTAGAATCTACTATTATTAATATATGATTCTT-TCGTCTAAATAATAGATCTTCGAGTTC
* **
67313994 TTCCTGGAATCTACTATTATTAATATATGATTCTTTCGTCTAAATTGTAGATCTTCGAGTTC
1 TTCCTAGAATCTACTATTATTAATATATGATTCTTTCGTCTAAATAATAGATCTTCGAGTTC
67314056 TT
1 TT
67314058 TTTAAAATAG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
61 1 0.02
62 56 0.98
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (62 bp):
TTCCTAGAATCTACTATTATTAATATATGATTCTTTCGTCTAAATAATAGATCTTCGAGTTC
Found at i:67316515 original size:51 final size:51
Alignment explanation
Indices: 67316443--67316578 Score: 175
Period size: 51 Copynumber: 2.7 Consensus size: 51
67316433 GCGGTTGAGC
* *
67316443 CCCCGGTGTGGAAGCAAAGATCCCACCGTGAAGCTGCCCAAGTGGTTGAAT
1 CCCCGGTGTGGAAGCATAGATCCCACCGTGAAACTGCCCAAGTGGTTGAAT
* * * *
67316494 CCCCGCTGTGGAAGCATAGATCCCACCGTGAAATTGGCCAAGTGGTTGAGT
1 CCCCGGTGTGGAAGCATAGATCCCACCGTGAAACTGCCCAAGTGGTTGAAT
* * *
67316545 CCCCGGAGTGAAAGCAT-GAATCCCACCCTGAAAC
1 CCCCGGTGTGGAAGCATAG-ATCCCACCGTGAAAC
67316579 CATCGTTGAG
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
50 1 0.01
51 72 0.99
ACGTcount: A:0.26, C:0.29, G:0.27, T:0.18
Consensus pattern (51 bp):
CCCCGGTGTGGAAGCATAGATCCCACCGTGAAACTGCCCAAGTGGTTGAAT
Found at i:67320927 original size:18 final size:19
Alignment explanation
Indices: 67320904--67320939 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
67320894 AATATAGAAA
*
67320904 CAAAATCTAAAAT-TTTTT
1 CAAAATATAAAATATTTTT
67320922 CAAAATATAAAATATTTT
1 CAAAATATAAAATATTTT
67320940 AACTAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (19 bp):
CAAAATATAAAATATTTTT
Found at i:67322000 original size:47 final size:48
Alignment explanation
Indices: 67321945--67322072 Score: 159
Period size: 47 Copynumber: 2.7 Consensus size: 48
67321935 CTCAATTGAT
* *
67321945 AAGTACCTATACCATGGCTCGTAGCCAAATCAAGGTAACTTATC-CCG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCACCG
* * * * *
67321992 GAGTACCTACACCATGGCCCGTAGCCAAATTAAGGTAACTCCTCACTG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCACCG
* * *
67322040 AAATACCTATACCATGCCCCGTAGTCAAATCAA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAA
67322073 AGGATCACTC
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
47 38 0.57
48 29 0.43
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.22
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCACCG
Found at i:67332006 original size:30 final size:30
Alignment explanation
Indices: 67331970--67332035 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
67331960 GTGTCCCAGC
*
67331970 CCGTGTAACTCACTAACTTGATACACACGG
1 CCGTGTAACTCACTAACTTGATACACACGA
* * *
67332000 CCGTGTAACTCTCTGACTTGATACACATGA
1 CCGTGTAACTCACTAACTTGATACACACGA
67332030 CCGTGT
1 CCGTGT
67332036 CGCAGACCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (30 bp):
CCGTGTAACTCACTAACTTGATACACACGA
Found at i:67335525 original size:22 final size:20
Alignment explanation
Indices: 67335483--67335525 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
67335473 ATTTTTCTGG
**
67335483 AAATTGTTGGTTGAGTTATT
1 AAATTGTTGGTTGAGAAATT
67335503 AAATTGTATGGTATGAGAAATT
1 AAATTGT-TGGT-TGAGAAATT
67335525 A
1 A
67335526 TTACTTTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 4 0.21
22 8 0.42
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AAATTGTTGGTTGAGAAATT
Found at i:67336433 original size:75 final size:74
Alignment explanation
Indices: 67336343--67336536 Score: 239
Period size: 75 Copynumber: 2.6 Consensus size: 74
67336333 GACTAGCATT
**
67336343 GGGCGCAATCTTTGTCGATTTATTTGACTAGTGCTGGGCACATCATTATACTTGTTGGTTTATTC
1 GGGCGCAA-CTTTGTCGATTTATTTGACTAGTGCTGGGCACATCATTATACTTGTTGGTTTACCC
67336408 GACTAGCGCC
65 GACTAGCGCC
* * * *
67336418 GGGTGCAACCTTTGTC-AGTTTATCTGACTAGTGCTAGGCACATCATTATATTTGTTGGTTTACC
1 GGGCGCAA-CTTTGTCGA-TTTATTTGACTAGTGCTGGGCACATCATTATACTTGTTGGTTTACC
* *
67336482 CGACTAGTGCT
64 CGACTAGCGCC
* *
67336493 GGGCACAACTTTCGTCGATTTGTTTGACTAGTGC-GGAGCACATC
1 GGGCGCAACTTT-GTCGATTTATTTGACTAGTGCTGG-GCACATC
67336537 TATTGTCGGA
Statistics
Matches: 101, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
74 6 0.06
75 94 0.93
76 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.36
Consensus pattern (74 bp):
GGGCGCAACTTTGTCGATTTATTTGACTAGTGCTGGGCACATCATTATACTTGTTGGTTTACCCG
ACTAGCGCC
Found at i:67339053 original size:17 final size:17
Alignment explanation
Indices: 67339009--67339060 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 17
67338999 TAAAAGTTAA
67339009 TTTAGAGGGAAAATAAAAAG
1 TTTAG-GGG-AAAT-AAAAG
*
67339029 TTTTGGGG-AATAAAAG
1 TTTAGGGGAAATAAAAG
67339045 TTTGAGGGGAAATAAA
1 TTT-AGGGGAAATAAA
67339061 TAGGGGAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 8 0.29
17 7 0.25
18 6 0.21
19 3 0.11
20 4 0.14
ACGTcount: A:0.46, C:0.00, G:0.29, T:0.25
Consensus pattern (17 bp):
TTTAGGGGAAATAAAAG
Found at i:67346828 original size:34 final size:34
Alignment explanation
Indices: 67346785--67346876 Score: 107
Period size: 35 Copynumber: 2.6 Consensus size: 34
67346775 AGCTTGTCTG
*
67346785 ACTAGTGCTGGGCACACAATTGTC-GGTTTATCCA
1 ACTAGTGCTGGGC-CACAATTATCTGGTTTATCCA
67346819 ACTAGTGCTGGG-CACAATTATCATTGGTTTATCCA
1 ACTAGTGCTGGGCCACAATTATC--TGGTTTATCCA
* *
67346854 ACTAGAGCTGAGCTCACAATTAT
1 ACTAGTGCTGGGC-CACAATTAT
67346877 TATCATCGGT
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
32 9 0.18
34 12 0.24
35 20 0.40
37 9 0.18
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (34 bp):
ACTAGTGCTGGGCCACAATTATCTGGTTTATCCA
Found at i:67346892 original size:40 final size:40
Alignment explanation
Indices: 67346807--67346973 Score: 133
Period size: 35 Copynumber: 4.4 Consensus size: 40
67346797 CACACAATTG
* *
67346807 TCGGTTTATCCAACTAGTGCTGGG--CAC-A--ATTATCA
1 TCGGTATATCCAACTAGAGCTGGGCTCACAATTATTATCA
* * *
67346842 TTGGTTTATCCAACTAGAGCTGAGCTCACAATTATTATCA
1 TCGGTATATCCAACTAGAGCTGGGCTCACAATTATTATCA
* * *
67346882 TCGGTATATCCTACTAGCAG-TGGGGT--CAA--A-TATCG
1 TCGGTATATCCAACTAG-AGCTGGGCTCACAATTATTATCA
* * *
67346917 TTGGTTTATCCATCTAGAGCTGGGCTCACAATTATTAT-A
1 TCGGTATATCCAACTAGAGCTGGGCTCACAATTATTATCA
67346956 GTCGGTATATCCAACTAG
1 -TCGGTATATCCAACTAG
67346974 CACTGGGTGC
Statistics
Matches: 101, Mismatches: 18, Indels: 21
0.72 0.13 0.15
Matches are distributed among these distances:
34 2 0.02
35 43 0.43
36 1 0.01
37 6 0.06
38 4 0.04
39 1 0.01
40 42 0.42
41 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (40 bp):
TCGGTATATCCAACTAGAGCTGGGCTCACAATTATTATCA
Found at i:67346921 original size:75 final size:75
Alignment explanation
Indices: 67346806--67347010 Score: 261
Period size: 75 Copynumber: 2.7 Consensus size: 75
67346796 GCACACAATT
* ** ** * *
67346806 GTCGGTTTATCCAACTAGTGCTGGGCACAATTATCATTGGTTTATCCAACTAGAGCTGAGCTCAC
1 GTCGGTATATCCAACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGAGCTCAC
67346871 AATTATTATCA
66 AATTATTAT-A
* * * *
67346882 -TCGGTATATCCTACTAGCAGTGGG-GTCAAATATCGTTGGTTTATCCATCTAGAGCTGGGCTCA
1 GTCGGTATATCCAACTAGCACTGGGTG-CAAATATCGTTGGTTTATCCAACTAGAGCTGAGCTCA
67346945 CAATTATTATA
65 CAATTATTATA
* *
67346956 GTCGGTATATCCAACTAGCACTGGGTGCAAAAATTGTTGGTTTATCCAACTAGAG
1 GTCGGTATATCCAACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAG
67347011 TTGGGCTCGC
Statistics
Matches: 111, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
74 1 0.01
75 109 0.98
76 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (75 bp):
GTCGGTATATCCAACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGAGCTCAC
AATTATTATA
Found at i:67351770 original size:16 final size:16
Alignment explanation
Indices: 67351737--67351770 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
67351727 AATTCTAACA
*
67351737 TGAGAAATAAATGAAT
1 TGAGAAATAAAAGAAT
*
67351753 TGAGAAATAAAAGCAT
1 TGAGAAATAAAAGAAT
67351769 TG
1 TG
67351771 CTTTAGCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.21, T:0.24
Consensus pattern (16 bp):
TGAGAAATAAAAGAAT
Found at i:67353218 original size:75 final size:75
Alignment explanation
Indices: 67353123--67353331 Score: 319
Period size: 75 Copynumber: 2.8 Consensus size: 75
67353113 ATTGTGGGTT
* * * *
67353123 TATCTGACTAGCATTGGGTGCAATTATCGTTGGTTTATCCAACTAGAGCTGAGCTCACAATTATT
1 TATCCGACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATT
*
67353188 ATCGTCGGTA
66 ATCGTCGATA
* * *
67353198 TATTCGACTAGCACTAGGTGCAAATATCGTTGGTTTATCCCACTAGAGCTGGGCTCACAATTATT
1 TATCCGACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATT
67353263 ATCGTCGATA
66 ATCGTCGATA
* * *
67353273 TATCCGACTAGCACTGGGTGCAAATATTGTTGGGTTATCCAACTAGAGTTGGGCTCACA
1 TATCCGACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACA
67353332 TTTAATACTT
Statistics
Matches: 120, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 120 1.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (75 bp):
TATCCGACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATT
ATCGTCGATA
Found at i:67353243 original size:35 final size:35
Alignment explanation
Indices: 67353119--67353318 Score: 98
Period size: 35 Copynumber: 5.4 Consensus size: 35
67353109 CACAATTGTG
* * * *
67353119 GGTTTATCTGACTAGCATTGGGTGCAATTATCGTT
1 GGTTTATCCGACTAGCACTAGGTGCAAATATCGTT
* * * *
67353154 GGTTTATCCAACTAG-AGCTGAGCTCACAATTATTATCGTC
1 GGTTTATCCGACTAGCA-CT-AGGT-GCAA--A-TATCGTT
* *
67353194 GGTATATTCGACTAGCACTAGGTGCAAATATCGTT
1 GGTTTATCCGACTAGCACTAGGTGCAAATATCGTT
* * * *
67353229 GGTTTATCCCACTAG-AGCTGGGCTCACAATTATTATCGTC
1 GGTTTATCCGACTAGCA-CTAGG-T-GCAA--A-TATCGTT
* * * *
67353269 GATATATCCGACTAGCACTGGGTGCAAATATTGTT
1 GGTTTATCCGACTAGCACTAGGTGCAAATATCGTT
* *
67353304 GGGTTATCCAACTAG
1 GGTTTATCCGACTAG
67353319 AGTTGGGCTC
Statistics
Matches: 121, Mismatches: 30, Indels: 28
0.68 0.17 0.16
Matches are distributed among these distances:
34 2 0.02
35 52 0.43
36 5 0.04
37 6 0.05
38 6 0.05
39 5 0.04
40 43 0.36
41 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (35 bp):
GGTTTATCCGACTAGCACTAGGTGCAAATATCGTT
Found at i:67353290 original size:40 final size:40
Alignment explanation
Indices: 67353145--67353283 Score: 128
Period size: 40 Copynumber: 3.6 Consensus size: 40
67353135 ATTGGGTGCA
* * * *
67353145 ATTATCGTTGGTTTATCCAACTAGAGCTGAGCTCACAATT
1 ATTATCGTCGGTATATCCGACTAGAGCTGGGCTCACAATT
* * *
67353185 ATTATCGTCGGTATATTCGACTAGCA-CTAGG-T-GCAA--
1 ATTATCGTCGGTATATCCGACTAG-AGCTGGGCTCACAATT
* * *
67353221 A-TATCGTTGGTTTATCCCACTAGAGCTGGGCTCACAATT
1 ATTATCGTCGGTATATCCGACTAGAGCTGGGCTCACAATT
*
67353260 ATTATCGTCGATATATCCGACTAG
1 ATTATCGTCGGTATATCCGACTAG
67353284 CACTGGGTGC
Statistics
Matches: 75, Mismatches: 17, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
34 1 0.01
35 22 0.29
36 2 0.03
37 3 0.04
38 3 0.04
39 2 0.03
40 41 0.55
41 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (40 bp):
ATTATCGTCGGTATATCCGACTAGAGCTGGGCTCACAATT
Found at i:67353357 original size:75 final size:74
Alignment explanation
Indices: 67353119--67353367 Score: 286
Period size: 75 Copynumber: 3.3 Consensus size: 74
67353109 CACAATTGTG
* * * *
67353119 GGTTTATCTGACTAGCATTGGGTGCAATTATCGTTGGTTTATCCAACTAGAGCTGAGCTCACAAT
1 GGTTAATC-GACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACAAT
67353184 TATTATCGTC
65 TATTATCGTC
* * *
67353194 GGTATATTCGACTAGCACTAGGTGCAAATATCGTTGGTTTATCCCACTAGAGCTGGGCTCACAAT
1 GGT-TAATCGACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACAAT
67353259 TATTATCGTC
65 TATTATCGTC
* * * * *
67353269 -GATATATCCGACTAGCACTGGGTGCAAATATTGTTGGGTTATCCAACTAGAGTTGGGCTCACAT
1 GGTTA-AT-CGACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACAA
* *
67353333 TTAATA-CTTTC
64 TTATTATC-GTC
**
67353344 GGTTAATCAGACTAGTGCTGGGTG
1 GGTTAATC-GACTAGCACTGGGTG
67353368 TAACCTTTTC
Statistics
Matches: 148, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
73 2 0.01
74 4 0.03
75 136 0.92
76 6 0.04
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (74 bp):
GGTTAATCGACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACAATT
ATTATCGTC
Found at i:67355384 original size:57 final size:57
Alignment explanation
Indices: 67355266--67355403 Score: 170
Period size: 57 Copynumber: 2.4 Consensus size: 57
67355256 TATAGCTAGG
* * *
67355266 ATTTAGCCTGGACTGGTAATCCTAATTGAGCTCTTCTGAGAATATGTTATAGAACAT
1 ATTTAGCCTGGACTGGTAATCCTAATTAAGCTCTTCTGAGAATATGTTAGAGAACAA
* * * ** *
67355323 ATTTAGCTTGGATTGGTAATCCTAATTAAGCTCTTGTGATCATATGTTGGAG-ACAAA
1 ATTTAGCCTGGACTGGTAATCCTAATTAAGCTCTTCTGAGAATATGTTAGAGAAC-AA
*
67355380 ATTTAGCCTGAACTGGTAATCCTA
1 ATTTAGCCTGGACTGGTAATCCTA
67355404 TTATATGATA
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
56 2 0.03
57 66 0.97
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.36
Consensus pattern (57 bp):
ATTTAGCCTGGACTGGTAATCCTAATTAAGCTCTTCTGAGAATATGTTAGAGAACAA
Found at i:67357623 original size:17 final size:18
Alignment explanation
Indices: 67357601--67357639 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
67357591 TGCAAAAAAC
*
67357601 AAAAAC-CTTAAACCCTA
1 AAAAACTCTAAAACCCTA
67357618 AAAAACTCTAAAACCCTA
1 AAAAACTCTAAAACCCTA
67357636 AAAA
1 AAAA
67357640 TAGTTGAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.59, C:0.26, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAAACTCTAAAACCCTA
Found at i:67358017 original size:18 final size:18
Alignment explanation
Indices: 67357994--67358028 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
67357984 TAGCAAATAA
*
67357994 TTTAAAATTTAAAATATT
1 TTTAAAATTAAAAATATT
67358012 TTTAAAATTAAAAATAT
1 TTTAAAATTAAAAATAT
67358029 CATAAATAAA
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTAAAATTAAAAATATT
Found at i:67359211 original size:13 final size:13
Alignment explanation
Indices: 67359193--67359253 Score: 86
Period size: 13 Copynumber: 4.7 Consensus size: 13
67359183 GTTAAATTTT
67359193 TCAAAAGCACTTC
1 TCAAAAGCACTTC
*
67359206 TCAAAAGCACTTT
1 TCAAAAGCACTTC
* * *
67359219 TCTACAGCACTTT
1 TCAAAAGCACTTC
67359232 TCAAAAGCACTTC
1 TCAAAAGCACTTC
67359245 TCAAAAGCA
1 TCAAAAGCA
67359254 TTGCCAAACT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.38, C:0.28, G:0.08, T:0.26
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:67359304 original size:34 final size:34
Alignment explanation
Indices: 67359261--67359331 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
67359251 GCATTGCCAA
67359261 ACTGGCCCTAAGACAACTACAACAATAAGGGTTG
1 ACTGGCCCTAAGACAACTACAACAATAAGGGTTG
*
67359295 ACTGGCCCTAAGACAACTATAACAATAAGGGTTG
1 ACTGGCCCTAAGACAACTACAACAATAAGGGTTG
67359329 ACT
1 ACT
67359332 AAGGAGCCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (34 bp):
ACTGGCCCTAAGACAACTACAACAATAAGGGTTG
Found at i:67359734 original size:14 final size:14
Alignment explanation
Indices: 67359698--67359736 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
67359688 TTATTTAACT
* *
67359698 GAAAATGACTTCTG
1 GAAAATGATTTCTA
67359712 GAAAATGATTTCTA
1 GAAAATGATTTCTA
67359726 GAAAATGATTT
1 GAAAATGATTT
67359737 ACTTTTCCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (14 bp):
GAAAATGATTTCTA
Found at i:67360212 original size:15 final size:15
Alignment explanation
Indices: 67360192--67360257 Score: 55
Period size: 14 Copynumber: 4.3 Consensus size: 15
67360182 ACTACAAAAC
67360192 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
67360207 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
67360226 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
*
67360241 A-TTAATATTAA-AT
1 ATTTATTATTAATAT
67360254 ATTT
1 ATTT
67360258 TCAATAATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 3 0.07
14 11 0.26
15 10 0.24
16 1 0.02
17 7 0.17
18 1 0.02
19 9 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:67360361 original size:22 final size:21
Alignment explanation
Indices: 67360317--67360371 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
67360307 TTAAAATAAA
*
67360317 ATTAAAAT-ATTAAATAATTT
1 ATTAAAATAATAAAATAATTT
67360337 ATTAAAATAATAAAATATATTT
1 ATTAAAATAATAAAATA-ATTT
* *
67360359 ATTATATTAATAA
1 ATTAAAATAATAA
67360372 TTTATTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 8 0.27
21 7 0.23
22 15 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTAAAATAATAAAATAATTT
Found at i:67360376 original size:16 final size:17
Alignment explanation
Indices: 67360350--67360381 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
67360340 AAAATAATAA
67360350 AATATATTTATTATATT
1 AATATATTTATTATATT
67360367 AATA-ATTTATTATAT
1 AATATATTTATTATAT
67360382 GACTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AATATATTTATTATATT
Found at i:67371884 original size:28 final size:28
Alignment explanation
Indices: 67371844--67371922 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
67371834 GCAATCAAAT
* * *
67371844 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
67371872 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
67371900 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
67371923 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:67374493 original size:20 final size:20
Alignment explanation
Indices: 67374468--67374508 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
67374458 TAATTAGAAG
67374468 TCATTCTTTATATGTACAGA
1 TCATTCTTTATATGTACAGA
67374488 TCATTCTTTATATGTACAGA
1 TCATTCTTTATATGTACAGA
67374508 T
1 T
67374509 TCCTTATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.46
Consensus pattern (20 bp):
TCATTCTTTATATGTACAGA
Found at i:67392470 original size:11 final size:11
Alignment explanation
Indices: 67392447--67392488 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
67392437 TATTTATATT
*
67392447 TTTTA-TTTCA
1 TTTTATTTTAA
67392457 TTTTATTTTAA
1 TTTTATTTTAA
67392468 TTTTATTTTAAA
1 TTTTATTTT-AA
67392480 TTTTTATTT
1 -TTTTATTT
67392489 AATAATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 2 0.07
13 8 0.29
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTATTTTAA
Found at i:67396841 original size:5 final size:5
Alignment explanation
Indices: 67396831--67396855 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
67396821 GATCGAAGAT
67396831 GAGTG GAGTG GAGTG GAGTG GAGTG
1 GAGTG GAGTG GAGTG GAGTG GAGTG
67396856 TGAGGGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.60, T:0.20
Consensus pattern (5 bp):
GAGTG
Found at i:67402369 original size:47 final size:47
Alignment explanation
Indices: 67402315--67402406 Score: 184
Period size: 47 Copynumber: 2.0 Consensus size: 47
67402305 ACAAGCCAAG
67402315 ACCATTCGAGGCTAGACTCAGACATGGTTGCTGACATAATTCTACTT
1 ACCATTCGAGGCTAGACTCAGACATGGTTGCTGACATAATTCTACTT
67402362 ACCATTCGAGGCTAGACTCAGACATGGTTGCTGACATAATTCTAC
1 ACCATTCGAGGCTAGACTCAGACATGGTTGCTGACATAATTCTAC
67402407 CTATAGTGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (47 bp):
ACCATTCGAGGCTAGACTCAGACATGGTTGCTGACATAATTCTACTT
Found at i:67407714 original size:15 final size:15
Alignment explanation
Indices: 67407696--67407740 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
67407686 TTTTTCTCTT
67407696 TATTATATATTATAA
1 TATTATATATTATAA
*
67407711 TATTA-ATTATTAAAA
1 TATTATA-TATTATAA
67407726 TATTAT-TATT-TAA
1 TATTATATATTATAA
67407739 TA
1 TA
67407741 AAAAAGGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 4 0.15
14 5 0.19
15 17 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTATATATTATAA
Found at i:67408030 original size:25 final size:24
Alignment explanation
Indices: 67407984--67408030 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
67407974 TTTTAAGCAA
67407984 TTTAATCTTTTTCTTTTATGTTCT
1 TTTAATCTTTTTCTTTTATGTTCT
67408008 TTTAACTCTATTTT-TTTTATGTT
1 TTTAA-TCT-TTTTCTTTTATGTT
67408031 TTCCATTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 5 0.24
25 12 0.57
26 4 0.19
ACGTcount: A:0.15, C:0.11, G:0.04, T:0.70
Consensus pattern (24 bp):
TTTAATCTTTTTCTTTTATGTTCT
Found at i:67415160 original size:28 final size:29
Alignment explanation
Indices: 67415129--67415197 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 29
67415119 ACTATTATAT
67415129 TTTATTACTGTT-ATTATTA-TATTTTTTA
1 TTTATTACT-TTCATTATTATTATTTTTTA
67415157 TTTATTAGCATTTCATTATTATTATTTTTTA
1 TTTATTA-C-TTTCATTATTATTATTTTTTA
* *
67415188 CTTAATACTT
1 TTTATTACTT
67415198 ATATATATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
28 7 0.20
29 5 0.14
30 9 0.26
31 14 0.40
ACGTcount: A:0.26, C:0.07, G:0.03, T:0.64
Consensus pattern (29 bp):
TTTATTACTTTCATTATTATTATTTTTTA
Found at i:67415161 original size:19 final size:20
Alignment explanation
Indices: 67415109--67415163 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 20
67415099 TTAATTTTAA
67415109 TATTATTTATACTATTATATTT
1 TATTATTTAT--TATTATATTT
67415131 TATTACTGTTATTATTATATTT
1 TATTA-T-TTATTATTATATTT
67415153 T-TTATTTATTA
1 TATTATTTATTA
67415164 GCATTTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
19 6 0.19
20 1 0.03
21 3 0.10
22 16 0.52
23 1 0.03
24 4 0.13
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (20 bp):
TATTATTTATTATTATATTT
Found at i:67415339 original size:26 final size:25
Alignment explanation
Indices: 67415301--67415568 Score: 153
Period size: 26 Copynumber: 10.6 Consensus size: 25
67415291 ATTATACTCC
* * *
67415301 ATATTACGCATATATATATTAATATT
1 ATATTATGTATATAT-TTTTAATATT
*
67415327 ATATTATGTATATATTTTTAATAACT
1 ATATTATGTATATATTTTTAAT-ATT
* * *
67415353 ATATTATGTATGTATTTTTAACACT
1 ATATTATGTATATATTTTTAATATT
* * * *
67415378 ATATTACGTACATACTTTTAATATC
1 ATATTATGTATATATTTTTAATATT
67415403 ATTATTATGTATATATTTTTAATA-T
1 A-TATTATGTATATATTTTTAATATT
*
67415428 ATA-TATGTGTATATTTATGTAGA-ATT
1 ATATTATGTATATATTT-T-TA-ATATT
* * *
67415454 AT-TAATAGT-TGTTTTTTCTAATATGTAT
1 ATATTAT-GTATATATTTT-TAATA--T-T
67415482 ATATTATGTATATA-TTTT--TA--
1 ATATTATGTATATATTTTTAATATT
* *
67415502 ATACTATGTATATACTTTTTAATACT
1 ATATTATGTATATA-TTTTTAATATT
*
67415528 ATTATTATGTTTATA-TTTTAATATAT
1 A-TATTATGTATATATTTTTAATAT-T
*
67415554 ATACGTATGTATATA
1 ATA-TTATGTATATA
67415569 GGTAACATTA
Statistics
Matches: 188, Mismatches: 31, Indels: 46
0.71 0.12 0.17
Matches are distributed among these distances:
20 13 0.07
22 4 0.02
23 12 0.06
24 6 0.03
25 48 0.26
26 77 0.41
27 15 0.08
28 8 0.04
29 5 0.03
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (25 bp):
ATATTATGTATATATTTTTAATATT
Found at i:67415381 original size:51 final size:50
Alignment explanation
Indices: 67415326--67415443 Score: 141
Period size: 51 Copynumber: 2.4 Consensus size: 50
67415316 ATATTAATAT
*
67415326 TATATTATGTATATATTTTTAATAAC-TATATTATGTATGTATTTTTAACA
1 TATATTATGTATATATTTTTAATAACAT-TATTATGTATATATTTTTAACA
* * * * *
67415376 CTATATTACGTACATACTTTTAATATCATTATTATGTATATATTTTTAATA
1 -TATATTATGTATATATTTTTAATAACATTATTATGTATATATTTTTAACA
*
67415427 TATA-TATGTGTATATTT
1 TATATTATGTATATATTT
67415444 ATGTAGAATT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
49 9 0.16
50 4 0.07
51 42 0.75
52 1 0.02
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (50 bp):
TATATTATGTATATATTTTTAATAACATTATTATGTATATATTTTTAACA
Found at i:67415491 original size:11 final size:11
Alignment explanation
Indices: 67415475--67415515 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
67415465 TTTTTTCTAA
67415475 TATGTATATAT
1 TATGTATATAT
67415486 TATGTATATAT
1 TATGTATATAT
* *
67415497 T-TTTA-ATAC
1 TATGTATATAT
67415506 TATGTATATA
1 TATGTATATA
67415516 CTTTTTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
9 4 0.16
10 6 0.24
11 15 0.60
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (11 bp):
TATGTATATAT
Found at i:67415511 original size:20 final size:21
Alignment explanation
Indices: 67415486--67415529 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
67415476 ATGTATATAT
67415486 TATGTATATA-TTTTTAATAC
1 TATGTATATACTTTTTAATAC
67415506 TATGTATATACTTTTTAATAC
1 TATGTATATACTTTTTAATAC
67415527 TAT
1 TAT
67415530 TATTATGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.55
Consensus pattern (21 bp):
TATGTATATACTTTTTAATAC
Found at i:67429294 original size:30 final size:30
Alignment explanation
Indices: 67429245--67429304 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
67429235 TGGCCTATTT
* *
67429245 TCCTAATTAAAATTAAAAATCGATCTAAAG
1 TCCTAATTAAAAATAAAAATCGACCTAAAG
*
67429275 TCCTAATTAAAAA-ATAAAATTGACCTAAAG
1 TCCTAATTAAAAATA-AAAATCGACCTAAAG
67429305 GCCTTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.52, C:0.13, G:0.07, T:0.28
Consensus pattern (30 bp):
TCCTAATTAAAAATAAAAATCGACCTAAAG
Found at i:67429712 original size:17 final size:17
Alignment explanation
Indices: 67429667--67429713 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
67429657 GAATTCACCA
* *
67429667 TTTGGCACACTCTAGGG
1 TTTGGCAGACTCTAAGG
*
67429684 TTTTGC-GAACTCTAAGG
1 TTTGGCAG-ACTCTAAGG
67429701 TTTGGCAGACTCT
1 TTTGGCAGACTCT
67429714 TCTGTAAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
17 23 0.96
18 1 0.04
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (17 bp):
TTTGGCAGACTCTAAGG
Found at i:67444319 original size:14 final size:14
Alignment explanation
Indices: 67444300--67444327 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
67444290 AAACTATGTG
67444300 TAAGTTTTCGTTTT
1 TAAGTTTTCGTTTT
67444314 TAAGTTTTCGTTTT
1 TAAGTTTTCGTTTT
67444328 AGTCACATAA
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:0.07, G:0.14, T:0.64
Consensus pattern (14 bp):
TAAGTTTTCGTTTT
Found at i:67459371 original size:39 final size:39
Alignment explanation
Indices: 67459313--67459435 Score: 149
Period size: 39 Copynumber: 3.2 Consensus size: 39
67459303 AACAATCAGT
* * *
67459313 TATTCAGTATAGTAATTTAGTCATTCAGTAACTATCAAA
1 TATTCAATACAGTAATTTAGTTATTCAGTAACTATCAAA
* * * * *
67459352 TATTCATTGCAGTAGTTTAGTTATTCAATATCTAT-AAA
1 TATTCAATACAGTAATTTAGTTATTCAGTAACTATCAAA
*
67459390 TTATTCAATACAGTAATTTAGTTATTCAGTAACTATCAAT
1 -TATTCAATACAGTAATTTAGTTATTCAGTAACTATCAAA
67459430 TATTCA
1 TATTCA
67459436 CTATAGTAGT
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
38 3 0.04
39 64 0.93
40 2 0.03
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (39 bp):
TATTCAATACAGTAATTTAGTTATTCAGTAACTATCAAA
Found at i:67460793 original size:40 final size:40
Alignment explanation
Indices: 67460726--67460903 Score: 252
Period size: 40 Copynumber: 4.5 Consensus size: 40
67460716 CGGATGATAA
* * * * *
67460726 CCGGACTAAGATCCGAAGGCATTTGTGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATAT
*
67460766 CCGGGCAAAGACCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATAT
*
67460806 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATAT
* *
67460846 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATAT
67460886 CC-GGCTAA-ATCCCGAAGG
1 CCGGGCTAAGA-CCCGAAGG
67460904 TACTTGGGTT
Statistics
Matches: 127, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 14 0.11
40 113 0.89
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:67465060 original size:36 final size:36
Alignment explanation
Indices: 67464899--67465063 Score: 165
Period size: 36 Copynumber: 4.5 Consensus size: 36
67464889 GAAAAGTGTG
*** * *
67464899 AAATGTAGGTATGGTATCATCCATACTGAGTTGT-G
1 AAATGTAGGTATGGTATTGCCCATACCGAGTTGTAA
* * *
67464934 ATATGTAGGTATGGTATTATCAAATCCATACTGAG-T-TAA
1 AAATGTAGGTATGGTATT-GC----CCATACCGAGTTGTAA
*
67464973 GAAATGTAGGTATGGCATTGCCCATACCGAGTTGTAA
1 -AAATGTAGGTATGGTATTGCCCATACCGAGTTGTAA
67465010 AAATGTAGGTATGGTATTGCCCATACCGAGTTGTAA
1 AAATGTAGGTATGGTATTGCCCATACCGAGTTGTAA
*
67465046 AAATATAGGTATGGTATT
1 AAATGTAGGTATGGTATT
67465064 TCAATGAGGA
Statistics
Matches: 110, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
35 25 0.23
36 53 0.48
37 3 0.03
38 1 0.01
39 2 0.02
40 26 0.24
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.33
Consensus pattern (36 bp):
AAATGTAGGTATGGTATTGCCCATACCGAGTTGTAA
Found at i:67466350 original size:19 final size:19
Alignment explanation
Indices: 67466326--67466365 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
67466316 TTTAACCCAA
67466326 AAATGGTAAATAAAACCAT
1 AAATGGTAAATAAAACCAT
67466345 AAATGGTAAATAAAACCAT
1 AAATGGTAAATAAAACCAT
67466364 AA
1 AA
67466366 GTTAATGACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (19 bp):
AAATGGTAAATAAAACCAT
Found at i:67468406 original size:11 final size:11
Alignment explanation
Indices: 67468382--67468416 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
67468372 CATCTTTATT
67468382 TTAACTTAATTTA
1 TTAA-TTAA-TTA
67468395 TTAATTAATTA
1 TTAATTAATTA
67468406 TTAATTAATTA
1 TTAATTAATTA
67468417 CCATTTTACC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 14 0.64
12 4 0.18
13 4 0.18
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (11 bp):
TTAATTAATTA
Found at i:67469938 original size:19 final size:21
Alignment explanation
Indices: 67469914--67469953 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
67469904 TCACTTATCT
67469914 AACTTTA-AGACAA-TTAAAA
1 AACTTTAGAGACAATTTAAAA
*
67469933 AACTTTAGAGAGAATTTAAAA
1 AACTTTAGAGACAATTTAAAA
67469954 TCATTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.55, C:0.07, G:0.10, T:0.28
Consensus pattern (21 bp):
AACTTTAGAGACAATTTAAAA
Found at i:67474435 original size:2 final size:2
Alignment explanation
Indices: 67474428--67474454 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
67474418 TTAGTTTCAT
67474428 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
67474455 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:67475024 original size:18 final size:18
Alignment explanation
Indices: 67475001--67475058 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
67474991 ATAACAATAA
67475001 AAAAATTATGAAAAAAAT
1 AAAAATTATGAAAAAAAT
**
67475019 AAAAATCCTG--AAAAAT
1 AAAAATTATGAAAAAAAT
67475035 AAAAA-TA-GAAATAAAAAT
1 AAAAATTATG-AA-AAAAAT
67475053 AAAAAT
1 AAAAAT
67475059 AAAAATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
14 1 0.03
16 11 0.35
18 19 0.61
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.19
Consensus pattern (18 bp):
AAAAATTATGAAAAAAAT
Found at i:67475038 original size:6 final size:6
Alignment explanation
Indices: 67475029--67475074 Score: 83
Period size: 6 Copynumber: 7.7 Consensus size: 6
67475019 AAAAATCCTG
*
67475029 AAAAAT AAAAAT AGAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
67475075 TGATTTGACA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:67476287 original size:26 final size:26
Alignment explanation
Indices: 67476258--67476365 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
67476248 TGATACAAAT
67476258 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
67476284 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
67476310 TGATAATGGGTTAGGTAAATGTCCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
67476336 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
67476362 TGAT
1 TGAT
67476366 GGGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:67497465 original size:21 final size:20
Alignment explanation
Indices: 67497424--67497483 Score: 77
Period size: 21 Copynumber: 3.0 Consensus size: 20
67497414 ACAATTAAAC
*
67497424 TTAATT-AAATAAATTAAGA
1 TTAATTAAAATAAAATAAGA
*
67497443 TTAATTAAAACTAAAATATGA
1 TTAATTAAAA-TAAAATAAGA
67497464 TTAATTAAAATATAAATAAG
1 TTAATTAAAATA-AAATAAG
67497484 GTTTATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 6 0.17
20 5 0.14
21 24 0.69
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (20 bp):
TTAATTAAAATAAAATAAGA
Found at i:67497754 original size:94 final size:96
Alignment explanation
Indices: 67497601--67497781 Score: 235
Period size: 94 Copynumber: 1.9 Consensus size: 96
67497591 TTGCGATTAT
* * ***
67497601 TTGGGTACTTGGACTTTCAAAATGCATAAAAAGGCCCTCAAACCTT-TTCAA-AAAAGAAGAAGC
1 TTGGGTACTTGAACTTTCAAAATGCATAAAAAGACCCTCAAACCTTAAAAAAGAAAAGAAGAAGC
67497664 AAATAAGCCCCTATTTTTATTTTGCACTCAA
66 AAATAAGCCCCTATTTTTATTTTGCACTCAA
*
67497695 TTGGGTACTTGAACTTTCAAAATG-ATCAAAAAGACCGTCAAA-CTTAAAAAAAGAAGAAGAAGA
1 TTGGGTACTTGAACTTTCAAAATGCAT-AAAAAGACCCTCAAACCTT-AAAAAAGAA-AAGAAGA
* *
67497758 AGCAATTAAGCCCCTGTTTTTATT
63 AGCAAATAAGCCCCTATTTTTATT
67497782 AAAAAATAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
93 5 0.07
94 36 0.49
95 2 0.03
96 2 0.03
97 29 0.39
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.28
Consensus pattern (96 bp):
TTGGGTACTTGAACTTTCAAAATGCATAAAAAGACCCTCAAACCTTAAAAAAGAAAAGAAGAAGC
AAATAAGCCCCTATTTTTATTTTGCACTCAA
Found at i:67497961 original size:28 final size:30
Alignment explanation
Indices: 67497910--67497975 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 30
67497900 AAAAAAAATT
67497910 AATTTTTAATAAAAGTTAAAATTT-TTA-A
1 AATTTTTAATAAAAGTTAAAATTTATTATA
* * **
67497938 AATTTTTATTAAAATTTATTATTTATTATA
1 AATTTTTAATAAAAGTTAAAATTTATTATA
67497968 ATATTTTT
1 A-ATTTTT
67497976 TCTAATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 20 0.65
29 3 0.10
30 2 0.06
31 6 0.19
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (30 bp):
AATTTTTAATAAAAGTTAAAATTTATTATA
Found at i:67499698 original size:46 final size:45
Alignment explanation
Indices: 67499647--67499862 Score: 227
Period size: 46 Copynumber: 4.7 Consensus size: 45
67499637 CACCTTGTAA
* *
67499647 CCGATGCATGTCTCAGACATGTTTTACATTGGCTTACGTCTCGAGG
1 CCGATGCATGTCCCAGACATGTTTTACACTGGCTT-CGTCTCGAGG
* *
67499693 CCGATGCATGTCTCAGACATGTTTTACATTGGCTTACGTCTCGAGG
1 CCGATGCATGTCCCAGACATGTTTTACACTGGCTT-CGTCTCGAGG
* * * * * *
67499739 CCGATGCATGTCCCAAACATGTCTTACACTAGCACTCGTCTCAATG
1 CCGATGCATGTCCCAGACATGTTTTACACTGGC-TTCGTCTCGAGG
* * * *
67499785 CCGATGCCATGTCCCAAACATGGTTTTACACTGGCTCTCATAAT-GCGG
1 CCGATG-CATGTCCCAGACAT-GTTTTACACTGGCT-TCGT-CTCGAGG
*
67499833 CCGATGCATGTCCCAGACATGTCTTACACT
1 CCGATGCATGTCCCAGACATGTTTTACACT
67499863 AGCTCACAAT
Statistics
Matches: 147, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
46 97 0.66
47 28 0.19
48 21 0.14
49 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTTTTACACTGGCTTCGTCTCGAGG
Found at i:67512633 original size:46 final size:46
Alignment explanation
Indices: 67512585--67512812 Score: 296
Period size: 46 Copynumber: 5.0 Consensus size: 46
67512575 GCTCTCTGAT
* * * *
67512585 ATGAAATGCGTAAGACTATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
67512631 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
67512677 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
67512723 ATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
67512769 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
67512813 TCAAAGATAA
Statistics
Matches: 158, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
45 1 0.01
46 157 0.99
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:67512744 original size:92 final size:92
Alignment explanation
Indices: 67512595--67512807 Score: 327
Period size: 92 Copynumber: 2.3 Consensus size: 92
67512585 ATGAAATGCG
* * *
67512595 TAAGACTATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGTGTAAGACCATGGTTGAAAAA
* *
67512660 TACCATGGCAACATGACGGGAAATGAA
66 TACCATGGCAACATGACAGAAAATGAA
* *
67512687 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGTGTAAGACCATGGTTGAAAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGTGTAAGACCATGGTTGAAAAA
*
67512752 TACCATGGCAACATGACAGAAAATGAG
66 TACCATGGCAACATGACAGAAAATGAA
* * *
67512779 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
67512808 TCATGTCAAA
Statistics
Matches: 110, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 110 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGTGTAAGACCATGGTTGAAAAA
TACCATGGCAACATGACAGAAAATGAA
Found at i:67513114 original size:16 final size:17
Alignment explanation
Indices: 67513093--67513125 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
67513083 ATGATGGTGC
67513093 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
67513109 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
67513126 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:67522138 original size:42 final size:42
Alignment explanation
Indices: 67522079--67522163 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
67522069 ATGGCATACT
67522079 TAGACAACCAATGCATCCACAATCAAGGTTAAAACATGTCAA
1 TAGACAACCAATGCATCCACAATCAAGGTTAAAACATGTCAA
67522121 TAGACAACCAATGCATCCACAATCAAGGTTAAAACATGTCAA
1 TAGACAACCAATGCATCCACAATCAAGGTTAAAACATGTCAA
67522163 T
1 T
67522164 GCAATTCCAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.45, C:0.24, G:0.12, T:0.20
Consensus pattern (42 bp):
TAGACAACCAATGCATCCACAATCAAGGTTAAAACATGTCAA
Found at i:67527903 original size:19 final size:19
Alignment explanation
Indices: 67527879--67527938 Score: 102
Period size: 19 Copynumber: 3.2 Consensus size: 19
67527869 GATTTGACTT
67527879 AAGGCTCTAGACGTTCGGA
1 AAGGCTCTAGACGTTCGGA
67527898 AAGGCTCTAGACGTTCGGA
1 AAGGCTCTAGACGTTCGGA
* *
67527917 AAGGCTCTAGACATTCTGA
1 AAGGCTCTAGACGTTCGGA
67527936 AAG
1 AAG
67527939 AAACTTAGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (19 bp):
AAGGCTCTAGACGTTCGGA
Found at i:67529827 original size:154 final size:154
Alignment explanation
Indices: 67529547--67529855 Score: 618
Period size: 154 Copynumber: 2.0 Consensus size: 154
67529537 AGAAACTTGG
67529547 AATCTAAAACAACCTGAAAAGCAAATGAATGCAAGTTAGATAAAAAAAATAAAGAAAACAATTAA
1 AATCTAAAACAACCTGAAAAGCAAATGAATGCAAGTTAGATAAAAAAAATAAAGAAAACAATTAA
67529612 AAATAAATAATCAATATGAATAAAATAGAATAATGAGATCAAATATTAGAATAATAAAGAAGAAA
66 AAATAAATAATCAATATGAATAAAATAGAATAATGAGATCAAATATTAGAATAATAAAGAAGAAA
67529677 AGAAATAAGATAGATGGAAAATAT
131 AGAAATAAGATAGATGGAAAATAT
67529701 AATCTAAAACAACCTGAAAAGCAAATGAATGCAAGTTAGATAAAAAAAATAAAGAAAACAATTAA
1 AATCTAAAACAACCTGAAAAGCAAATGAATGCAAGTTAGATAAAAAAAATAAAGAAAACAATTAA
67529766 AAATAAATAATCAATATGAATAAAATAGAATAATGAGATCAAATATTAGAATAATAAAGAAGAAA
66 AAATAAATAATCAATATGAATAAAATAGAATAATGAGATCAAATATTAGAATAATAAAGAAGAAA
67529831 AGAAATAAGATAGATGGAAAATAT
131 AGAAATAAGATAGATGGAAAATAT
67529855 A
1 A
67529856 GAACATGGCA
Statistics
Matches: 155, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
154 155 1.00
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.20
Consensus pattern (154 bp):
AATCTAAAACAACCTGAAAAGCAAATGAATGCAAGTTAGATAAAAAAAATAAAGAAAACAATTAA
AAATAAATAATCAATATGAATAAAATAGAATAATGAGATCAAATATTAGAATAATAAAGAAGAAA
AGAAATAAGATAGATGGAAAATAT
Found at i:67537607 original size:20 final size:18
Alignment explanation
Indices: 67537576--67537612 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
67537566 TATAAATTAC
67537576 AAAAAATATAAAAATATG
1 AAAAAATATAAAAATATG
67537594 AAAAAATATTTAAAAATAT
1 AAAAAATA--TAAAAATAT
67537613 AGAATCTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (18 bp):
AAAAAATATAAAAATATG
Found at i:67537877 original size:13 final size:12
Alignment explanation
Indices: 67537850--67537886 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
67537840 TTTAAAATAA
*
67537850 TTTTTACAATTT
1 TTTTTATAATTT
*
67537862 TTTTCATAATTT
1 TTTTTATAATTT
67537874 TTTTTATAATTT
1 TTTTTATAATTT
67537886 T
1 T
67537887 ACTTTTTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTTATAATTT
Found at i:67537936 original size:15 final size:15
Alignment explanation
Indices: 67537916--67537950 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
67537906 AATTTTAATA
67537916 TTCTTCCATTTCTTC
1 TTCTTCCATTTCTTC
**
67537931 TTCTTCTTTTTCTTC
1 TTCTTCCATTTCTTC
67537946 TTCTT
1 TTCTT
67537951 ATTTACAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.69
Consensus pattern (15 bp):
TTCTTCCATTTCTTC
Found at i:67539009 original size:17 final size:17
Alignment explanation
Indices: 67538987--67539053 Score: 80
Period size: 17 Copynumber: 3.7 Consensus size: 17
67538977 TGCAAAATCG
67538987 GATAAGTTTGTGTTTAT
1 GATAAGTTTGTGTTTAT
* *
67539004 GATAAGTTTGTAAACTTATAG
1 GATAAGTTTGT---GTT-TAT
67539025 GATAAGTTTGTGTTTAT
1 GATAAGTTTGTGTTTAT
67539042 GATAAGTTTGTG
1 GATAAGTTTGTG
67539054 CTTGAGAGTC
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
17 25 0.60
18 2 0.05
20 2 0.05
21 13 0.31
ACGTcount: A:0.28, C:0.01, G:0.24, T:0.46
Consensus pattern (17 bp):
GATAAGTTTGTGTTTAT
Found at i:67542426 original size:23 final size:24
Alignment explanation
Indices: 67542377--67542435 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
67542367 TCAGATGGTA
**
67542377 AGAGCTTACTGTTTGCAGCTCGTT
1 AGAGCTTACTGTTTGCAGCTCAAT
67542401 AGAGCTTA-TCGTTT-CAGCTCAAT
1 AGAGCTTACT-GTTTGCAGCTCAAT
67542424 AGAGCTTACTGT
1 AGAGCTTACTGT
67542436 CCATCAGCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 18 0.58
24 13 0.42
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (24 bp):
AGAGCTTACTGTTTGCAGCTCAAT
Found at i:67542638 original size:20 final size:20
Alignment explanation
Indices: 67542615--67542772 Score: 124
Period size: 20 Copynumber: 8.0 Consensus size: 20
67542605 GTTCATACGG
67542615 ATGAATTACTGTTTATATGA
1 ATGAATTACTGTTTATATGA
* * * *
67542635 ATGAAGTACTATTTATACGG
1 ATGAATTACTGTTTATATGA
*
67542655 ATGAATTACTATTTATATGA
1 ATGAATTACTGTTTATATGA
* ** * * *
67542675 ACGAAGAACTGTTTTTACGG
1 ATGAATTACTGTTTATATGA
* *
67542695 ATGGATTACTGTTTATATGG
1 ATGAATTACTGTTTATATGA
* * *
67542715 ATGAAGTACTGTTTATACGG
1 ATGAATTACTGTTTATATGA
67542735 AT-AAGTTACTG-TTAT-TGA
1 ATGAA-TTACTGTTTATATGA
* *
67542753 ATGAATTATTATTTATATGA
1 ATGAATTACTGTTTATATGA
67542773 TTGAGAGTGA
Statistics
Matches: 106, Mismatches: 28, Indels: 8
0.75 0.20 0.06
Matches are distributed among these distances:
18 7 0.07
19 12 0.11
20 87 0.82
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.41
Consensus pattern (20 bp):
ATGAATTACTGTTTATATGA
Found at i:67542664 original size:40 final size:40
Alignment explanation
Indices: 67542609--67542769 Score: 202
Period size: 40 Copynumber: 4.1 Consensus size: 40
67542599 CTATGTGTTC
67542609 ATACGGATGAATTACTGTTTATATGAATGAAGTACTATTT
1 ATACGGATGAATTACTGTTTATATGAATGAAGTACTATTT
* * * *
67542649 ATACGGATGAATTACTATTTATATGAACGAAGAACTGTTT
1 ATACGGATGAATTACTGTTTATATGAATGAAGTACTATTT
* * * *
67542689 TTACGGATGGATTACTGTTTATATGGATGAAGTACTGTTT
1 ATACGGATGAATTACTGTTTATATGAATGAAGTACTATTT
* *
67542729 ATACGGAT-AAGTTACTG-TTAT-TGAATGAATTATTATTT
1 ATACGGATGAA-TTACTGTTTATATGAATGAAGTACTATTT
67542767 ATA
1 ATA
67542770 TGATTGAGAG
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
38 16 0.15
39 5 0.05
40 83 0.80
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (40 bp):
ATACGGATGAATTACTGTTTATATGAATGAAGTACTATTT
Found at i:67542749 original size:19 final size:21
Alignment explanation
Indices: 67542604--67542747 Score: 131
Period size: 20 Copynumber: 7.2 Consensus size: 21
67542594 AAAAGCTATG
*
67542604 TGTTCATACGGATGAA-TTAC
1 TGTTTATACGGATGAAGTTAC
* *
67542624 TGTTTATATGAATGAAG-TAC
1 TGTTTATACGGATGAAGTTAC
*
67542644 TATTTATACGGATGAA-TTAC
1 TGTTTATACGGATGAAGTTAC
* * * * *
67542664 TATTTATATGAACGAAG-AAC
1 TGTTTATACGGATGAAGTTAC
* *
67542684 TGTTTTTACGGATGGA-TTAC
1 TGTTTATACGGATGAAGTTAC
*
67542704 TGTTTATATGGATGAAG-TAC
1 TGTTTATACGGATGAAGTTAC
67542724 TGTTTATACGGAT-AAGTTAC
1 TGTTTATACGGATGAAGTTAC
67542744 TGTT
1 TGTT
67542748 ATTGAATGAA
Statistics
Matches: 97, Mismatches: 21, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
19 3 0.03
20 94 0.97
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (21 bp):
TGTTTATACGGATGAAGTTAC
Found at i:67547476 original size:43 final size:43
Alignment explanation
Indices: 67547414--67547592 Score: 304
Period size: 43 Copynumber: 4.2 Consensus size: 43
67547404 GGTTAAATCC
67547414 AGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCT
1 AGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCT
* * * *
67547457 AGCAGGCTTAGTGCCGGTGATGTATATTTGGGCCTTCGTGCCT
1 AGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCT
* *
67547500 AGCAGGTTTCGTGCTGGTGATGTGTATTCGGGCCTTCATGCCT
1 AGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCT
67547543 AGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCT
1 AGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCT
67547586 AGCAGGC
1 AGCAGGC
67547593 GTAATACCGG
Statistics
Matches: 124, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 124 1.00
ACGTcount: A:0.12, C:0.22, G:0.34, T:0.32
Consensus pattern (43 bp):
AGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCT
Found at i:67548035 original size:43 final size:45
Alignment explanation
Indices: 67547922--67548048 Score: 129
Period size: 45 Copynumber: 2.9 Consensus size: 45
67547912 TTGACTTGAT
* * * **
67547922 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAACAGGCTATAATGCCGGTGAGATAC
*
67547967 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGT-A-A-AC
1 TATTCGGGCCTTCGAGCCTAACAGGCTATAATGCCGGTGAGATAC
* *
67548009 TGATATCTGGCC-TCGAGCCTAACAGGCGA-AATGCCGGTGA
1 T-AT-TCGGGCCTTCGAGCCTAACAGGCTATAATGCCGGTGA
67548049 TTTGAGAAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
42 12 0.17
43 19 0.26
44 7 0.10
45 34 0.47
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (45 bp):
TATTCGGGCCTTCGAGCCTAACAGGCTATAATGCCGGTGAGATAC
Found at i:67548890 original size:46 final size:46
Alignment explanation
Indices: 67548820--67549178 Score: 526
Period size: 46 Copynumber: 7.8 Consensus size: 46
67548810 GGTGTTACAA
* * * * * *
67548820 TGCCATAGTATCTTTTAACTATGGTCTTACTCGTTCTCTATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCATGT
** *
67548866 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCCT-TCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT--TCTATCATGT
** * *
67548913 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCATGT
*
67548959 TGTCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCATGT
67549005 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCATGT
67549051 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCATGT
*
67549097 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCATGT
67549143 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT
67549179 CATTTCAGAA
Statistics
Matches: 292, Mismatches: 16, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
44 1 0.00
45 1 0.00
46 245 0.84
47 43 0.15
48 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCATGT
Found at i:67551178 original size:14 final size:14
Alignment explanation
Indices: 67551116--67551180 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
67551106 GTATCATAGA
* *
67551116 AGGGTACTTGTAGG
1 AGGGTACTCGTAAG
67551130 AGGGTACTCTCGTAAG
1 AGGGTA--CTCGTAAG
* *
67551146 AGGGTA-TCAT-GG
1 AGGGTACTCGTAAG
67551158 AAGGGTACTCGTAAG
1 -AGGGTACTCGTAAG
67551173 AGGGTACT
1 AGGGTACT
67551181 GTGTCTTGAT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
12 1 0.03
13 9 0.22
14 17 0.43
15 1 0.03
16 12 0.30
ACGTcount: A:0.26, C:0.12, G:0.37, T:0.25
Consensus pattern (14 bp):
AGGGTACTCGTAAG
Found at i:67551305 original size:35 final size:36
Alignment explanation
Indices: 67551238--67551305 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 36
67551228 TGGTCCTACT
* *
67551238 CCCACATAAGGGGGAAGGCTTACAGGATATCTTGGC
1 CCCACACAAGGGGGAAGGCTTAAAGGATATCTTGGC
*
67551274 CCCACACACGGGGG-AGGCTTAAAGAGA-ATCTT
1 CCCACACAAGGGGGAAGGCTTAAAG-GATATCTT
67551306 ACTCTACACA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
35 14 0.50
36 14 0.50
ACGTcount: A:0.29, C:0.24, G:0.29, T:0.18
Consensus pattern (36 bp):
CCCACACAAGGGGGAAGGCTTAAAGGATATCTTGGC
Found at i:67553652 original size:27 final size:27
Alignment explanation
Indices: 67553600--67553689 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
67553590 GTGACAGAGT
67553600 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
67553629 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
67553656 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
67553684 CACCAG
1 CACCAG
67553690 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:67553842 original size:28 final size:28
Alignment explanation
Indices: 67553795--67553887 Score: 132
Period size: 28 Copynumber: 3.3 Consensus size: 28
67553785 AAATTAACTC
* * *
67553795 TAGGAGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
67553823 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
* * *
67553851 TAAGGGTATAATTGTAATTTTTCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
67553879 TAGGGGTAT
1 TAGGGGTAT
67553888 TCTAGTACAT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.37
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:67554150 original size:8 final size:8
Alignment explanation
Indices: 67554134--67554165 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
67554124 CCCAAAATAC
67554134 CGGCTTTT
1 CGGCTTTT
*
67554142 CGGCATTT
1 CGGCTTTT
67554150 CGGCTTTT
1 CGGCTTTT
67554158 CGGCTTTT
1 CGGCTTTT
67554166 ACCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:67561420 original size:55 final size:56
Alignment explanation
Indices: 67561355--67561469 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
67561345 AGCATGGCTG
* *
67561355 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
67561411 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
67561466 CCAG
1 CCAG
67561470 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:67561432 original size:27 final size:27
Alignment explanation
Indices: 67561380--67561469 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
67561370 GTGACAGAGT
67561380 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
67561409 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
67561436 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
67561464 CACCAG
1 CACCAG
67561470 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:67561621 original size:27 final size:27
Alignment explanation
Indices: 67561578--67561634 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
67561568 TTAACCCTAG
*
67561578 GGGTATAAAGGTCATTTTGCATACATA
1 GGGTATAAAGGTAATTTTGCATACATA
*
67561605 GGGTATAATGGTAATTTTGCATACATA
1 GGGTATAAAGGTAATTTTGCATACATA
67561632 GGG
1 GGG
67561635 GTATTCTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.33
Consensus pattern (27 bp):
GGGTATAAAGGTAATTTTGCATACATA
Found at i:67562718 original size:5 final size:5
Alignment explanation
Indices: 67562708--67562739 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
67562698 GATGGTGAAA
*
67562708 AAAAG AAAAG AAAAG AAAAG AAAGG AAAAG AA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA
67562740 GGAAGAATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:67562741 original size:9 final size:10
Alignment explanation
Indices: 67562704--67562743 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
67562694 GATAGATGGT
67562704 GAAAA-AAA-
1 GAAAAGAAAG
*
67562712 GAAAAGAAAA
1 GAAAAGAAAG
67562722 GAAAAGAAAG
1 GAAAAGAAAG
67562732 GAAAAG-AAG
1 GAAAAGAAAG
67562741 GAA
1 GAA
67562744 GAATGGTCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 5 0.17
9 9 0.31
10 15 0.52
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (10 bp):
GAAAAGAAAG
Found at i:67564249 original size:24 final size:24
Alignment explanation
Indices: 67564175--67564257 Score: 71
Period size: 24 Copynumber: 3.4 Consensus size: 24
67564165 TTTAAAGGTC
* *
67564175 CGCACACATAGTGCTCT-TACTCATT
1 CGCACACATAGTGCTATGTAATC--T
* * *
67564200 CGCACACATAGTGCCACGT-TTCCT
1 CGCACACATAGTGCTATGTAAT-CT
67564224 CGCACACATAGTGCTATGTAATCT
1 CGCACACATAGTGCTATGTAATCT
*
67564248 CGTACACATA
1 CGCACACATA
67564258 ATGCCACCTA
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
24 29 0.62
25 16 0.34
26 2 0.04
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.28
Consensus pattern (24 bp):
CGCACACATAGTGCTATGTAATCT
Found at i:67565597 original size:17 final size:19
Alignment explanation
Indices: 67565568--67565611 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 19
67565558 TTCTCTCTCC
67565568 TTCATTTTCTTCTT-TT-A
1 TTCATTTTCTTCTTATTAA
67565585 TTCATCTTT-TTCTTATTAA
1 TTCAT-TTTCTTCTTATTAA
67565604 TTCATTTT
1 TTCATTTT
67565612 ATTTAGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 10 0.42
18 8 0.33
19 6 0.25
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (19 bp):
TTCATTTTCTTCTTATTAA
Found at i:67583050 original size:41 final size:41
Alignment explanation
Indices: 67583002--67583081 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
67582992 AAGGTGTTAG
* *
67583002 AAATGTTGTCAAATATTTCATGTCTTATTTTATATCCTAAA
1 AAATGTTGTCAAATATCTCATGTCTTACTTTATATCCTAAA
*
67583043 AAATGTTGTCAAATATCTCATGTCTTACTTTGTATCCTA
1 AAATGTTGTCAAATATCTCATGTCTTACTTTATATCCTA
67583082 GAAAGTCTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.31, C:0.15, G:0.09, T:0.45
Consensus pattern (41 bp):
AAATGTTGTCAAATATCTCATGTCTTACTTTATATCCTAAA
Found at i:67585676 original size:434 final size:432
Alignment explanation
Indices: 67584870--67585735 Score: 1660
Period size: 434 Copynumber: 2.0 Consensus size: 432
67584860 TATGTATCAA
67584870 TCATTCCATCACCTACAACCATTTCAAAACATTTCAAATTCATCTACTATATATATATTCATATA
1 TCATTCCATCACCTACAACCATTTCAAAACATTTCAAATTCATCTACTATATATATATTCATATA
*
67584935 TTTTTCCTCTTCCTCCTTTTAATTTCACATCCTTTATGTATATATTTGTTAGAATCTTTAGCTTT
66 TTTTTCCTCTTCCTCCTTTCAATTTCACATCCTTTATGTATATATTTGTTAGAATCTTTAGCTTT
*
67585000 TAGTATATAACATGCTTATATGTAATATTATCTAAAATTTCACTATTTACTTATATGTTCATATC
131 TAGTATATAACATGCTTATATGTAATATTATCTAAAATTCCACTATTTACTTATATGTTCATATC
*
67585065 AAAGTTGTCTACTTGAGTCATAGTCACTAAATTATTTATATTTTGAGCTACAGAATTTTAAATCA
196 AAAGTTGTCTACTTGAGTCATAGTCACTAAATTATTTATATCTTGAGCTACAGAATTTTAAATCA
67585130 AGATCCGCTTGATGTTTTTGAAACTAGACTCAAATATATTTTACCATAAAAATTTCAAAATTTAT
261 AGATCCGCTTGATGTTTTTGAAACTAGACTCAAATATATTTTACCATAAAAATTTCAAAATTTAT
67585195 AATTTAGCTAATAAATACAGTAAAATCTTCAATTTTATCCCTATTCTTCTGTTTGACAGCTTTCA
326 AATTTAGCTAATAAATACAGTAAAATCTTCAATTTTATCCCTATTCTTCTGTTTGACAGCTTTCA
67585260 CCTTTTTTTACTAAAAATTAATTATCTCTTAATACAGGGTTT
391 CCTTTTTTTACTAAAAATTAATTATCTCTTAATACAGGGTTT
67585302 TCATTCCATCACCTACAACCATTTCAAAACATTTCAAATTCATCTACTATATATATATATTCATA
1 TCATTCCATCACCTACAACCATTTCAAAACATTTCAAATTCATCTAC--TATATATATATTCATA
*
67585367 TATTTTTCCTCTTCCTCCTTTCCATTTCACATCCTTTATGTATATATTTGTTAGAATCTTTAGCT
64 TATTTTTCCTCTTCCTCCTTTCAATTTCACATCCTTTATGTATATATTTGTTAGAATCTTTAGCT
67585432 TTTAGTATATAACATGCTTATATGTAATATTATCTAAAATTCCACTATTTACTTATATGTTCATA
129 TTTAGTATATAACATGCTTATATGTAATATTATCTAAAATTCCACTATTTACTTATATGTTCATA
*
67585497 TCAAAGTTGTCTACTTGAGTTATAGTCACTAAATTATTTATATCTTGAGCTACAGAATTTTAAAT
194 TCAAAGTTGTCTACTTGAGTCATAGTCACTAAATTATTTATATCTTGAGCTACAGAATTTTAAAT
*
67585562 CAAGATCCGCTTGATGTTTTTGAAACTAGACTCAAATATATTTTATCATAAAAATTTCAAAATTT
259 CAAGATCCGCTTGATGTTTTTGAAACTAGACTCAAATATATTTTACCATAAAAATTTCAAAATTT
67585627 ATAATTTAGCTAATAAATACAGTAAAATCTTCAATTTTATCCCTATTCTTCTGTTTGACAGCTTT
324 ATAATTTAGCTAATAAATACAGTAAAATCTTCAATTTTATCCCTATTCTTCTGTTTGACAGCTTT
67585692 CACCTTTTTTTACTAAAAATTAATTATCTCTTAATACAGGGTTT
389 CACCTTTTTTTACTAAAAATTAATTATCTCTTAATACAGGGTTT
67585736 AGATGATGTT
Statistics
Matches: 426, Mismatches: 6, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
432 47 0.11
434 379 0.89
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (432 bp):
TCATTCCATCACCTACAACCATTTCAAAACATTTCAAATTCATCTACTATATATATATTCATATA
TTTTTCCTCTTCCTCCTTTCAATTTCACATCCTTTATGTATATATTTGTTAGAATCTTTAGCTTT
TAGTATATAACATGCTTATATGTAATATTATCTAAAATTCCACTATTTACTTATATGTTCATATC
AAAGTTGTCTACTTGAGTCATAGTCACTAAATTATTTATATCTTGAGCTACAGAATTTTAAATCA
AGATCCGCTTGATGTTTTTGAAACTAGACTCAAATATATTTTACCATAAAAATTTCAAAATTTAT
AATTTAGCTAATAAATACAGTAAAATCTTCAATTTTATCCCTATTCTTCTGTTTGACAGCTTTCA
CCTTTTTTTACTAAAAATTAATTATCTCTTAATACAGGGTTT
Found at i:67586510 original size:7 final size:7
Alignment explanation
Indices: 67586498--67586526 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
67586488 GCATCCTTTC
67586498 TCTTTTT
1 TCTTTTT
67586505 TCTTTTT
1 TCTTTTT
67586512 TCTTTTT
1 TCTTTTT
67586519 T-TTTTT
1 TCTTTTT
67586525 TC
1 TC
67586527 ATCTTCCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TCTTTTT
Found at i:67586519 original size:16 final size:15
Alignment explanation
Indices: 67586494--67586531 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
67586484 GGGAGCATCC
*
67586494 TTTCTCTTTTTTCTT
1 TTTCTCTTTTTTTTT
67586509 TTT-TCTTTTTTTTT
1 TTTCTCTTTTTTTTT
67586523 TTTCATCTT
1 TTTC-TCTT
67586532 CCTCTCCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 13 0.65
15 3 0.15
16 4 0.20
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTCTCTTTTTTTTT
Found at i:67587669 original size:19 final size:19
Alignment explanation
Indices: 67587641--67587679 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
67587631 TTTTAAATTC
67587641 ATTTAAGTAGATAAATCTT
1 ATTTAAGTAGATAAATCTT
*
67587660 ATTTAGGTAGATAAATCTT
1 ATTTAAGTAGATAAATCTT
67587679 A
1 A
67587680 GAATAAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (19 bp):
ATTTAAGTAGATAAATCTT
Found at i:67591249 original size:3 final size:3
Alignment explanation
Indices: 67591241--67591280 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
67591231 AATTATGCAA
67591241 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
67591281 TGGAATAAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:67591670 original size:2 final size:2
Alignment explanation
Indices: 67591663--67591690 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
67591653 TAGTGACATT
67591663 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
67591691 ATTTTCTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:67592400 original size:27 final size:27
Alignment explanation
Indices: 67592356--67592408 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 27
67592346 AAGAATTAAG
* *
67592356 TTTTTTTATTAAATATAAATTTATTTAC
1 TTTTTATATTAAATAT-AACTTATTTAC
*
67592384 TTTTTATATTATA-ATAACTTATTTA
1 TTTTTATATTAAATATAACTTATTTA
67592409 TTATTAACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 9 0.41
27 2 0.09
28 11 0.50
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTTTATATTAAATATAACTTATTTAC
Done.