Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 418 of 438
Found at i:129620695 original size:15 final size:15
Alignment explanation
Indices: 129620671--129620700 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
129620661 TATGGTATTG
*
129620671 AATTGCATTGAATTA
1 AATTGAATTGAATTA
129620686 AATTGAATTGAATTA
1 AATTGAATTGAATTA
129620701 TGAATATATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.03, G:0.13, T:0.40
Consensus pattern (15 bp):
AATTGAATTGAATTA
Found at i:129622391 original size:31 final size:30
Alignment explanation
Indices: 129622334--129622395 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 30
129622324 TTTTAATTCC
*
129622334 TATACTTTTCAAATTGGTTAATTTTAGTCCT
1 TATACTTTTCAAATT-GTTAAATTTAGTCCT
129622365 TATACTTTTCAAAATT-TTAAAATTTAGTCCT
1 TATACTTTTC-AAATTGTT-AAATTTAGTCCT
129622396 AACCCAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 2 0.07
31 21 0.75
32 5 0.18
ACGTcount: A:0.31, C:0.13, G:0.06, T:0.50
Consensus pattern (30 bp):
TATACTTTTCAAATTGTTAAATTTAGTCCT
Found at i:129623689 original size:30 final size:30
Alignment explanation
Indices: 129623601--129623689 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
129623591 TTTATTTCTG
* * *
129623601 TATAAATTAAA-TGTTAAGGGCTTATTTGAA
1 TATAAATTAAAGT-TTAAAGGATTATTTGGA
*
129623631 TATAAATTAAAGGTT-AAGGATTTATTTGGA
1 TATAAATTAAAGTTTAAAGGA-TTATTTGGA
*
129623661 TATCAATTAAAGTTTAAAGGATTATTTGG
1 TATAAATTAAAGTTTAAAGGATTATTTGG
129623690 GTGTAATAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
29 3 0.06
30 42 0.84
31 5 0.10
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.40
Consensus pattern (30 bp):
TATAAATTAAAGTTTAAAGGATTATTTGGA
Found at i:129624099 original size:21 final size:23
Alignment explanation
Indices: 129624074--129624124 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
129624064 TAATATGATT
*
129624074 AAATT-TTTTAATTAAT-TAAAA
1 AAATTATTATAATTAATATAAAA
*
129624095 AAATTATTATATTTAATGATAAAA
1 AAATTATTATAATTAAT-ATAAAA
129624119 AAATTA
1 AAATTA
129624125 ATGGGTTAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.20
22 9 0.36
24 11 0.44
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
AAATTATTATAATTAATATAAAA
Found at i:129633779 original size:25 final size:26
Alignment explanation
Indices: 129633723--129633879 Score: 261
Period size: 25 Copynumber: 6.2 Consensus size: 26
129633713 ACATGAATTC
*
129633723 TTATCATGAAACATTTACCTAA-C-A
1 TTATCATGGAACATTTACCTAACCTA
*
129633747 TTATCATGAAACATTTACCTAACC-A
1 TTATCATGGAACATTTACCTAACCTA
129633772 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
129633798 TTATCAT-GAACATTTACCTAACC-A
1 TTATCATGGAACATTTACCTAACCTA
129633822 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
129633848 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
129633874 TTATCA
1 TTATCA
129633880 ATTTGTATCA
Statistics
Matches: 128, Mismatches: 1, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
24 30 0.23
25 57 0.45
26 41 0.32
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:129639638 original size:26 final size:26
Alignment explanation
Indices: 129639602--129639737 Score: 245
Period size: 26 Copynumber: 5.2 Consensus size: 26
129639592 CATGAAATTC
*
129639602 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
129639628 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
129639654 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
129639680 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
129639706 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
129639732 TTATCA
1 TTATCA
129639738 ATTTGTATCA
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 108 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:129645433 original size:26 final size:26
Alignment explanation
Indices: 129645397--129645532 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
129645387 CATGATATTC
129645397 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
129645423 TTATCATGAAACATTTACCTAATCCG
1 TTATCATGAAACATTTACCTAACCCA
* *
129645449 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
129645475 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
129645501 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
129645527 TTATCA
1 TTATCA
129645533 ATTTGTATCA
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 100 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:129649035 original size:35 final size:35
Alignment explanation
Indices: 129648985--129649141 Score: 197
Period size: 35 Copynumber: 4.5 Consensus size: 35
129648975 ACAGTGTTAC
* * *
129648985 CTGGTGTGCTAGATGGTACTGACTCTTATGAGCAT
1 CTGGTGTGCTGGATGGTACTGGCTCTTAGGAGCAT
* *
129649020 CTGGTGTGTTGGATGGTACTGGCTTTTAGGAGCAT
1 CTGGTGTGCTGGATGGTACTGGCTCTTAGGAGCAT
* **
129649055 CTAGTGTGCTAAATGGTACTGGCTCTTAGGAGCAT
1 CTGGTGTGCTGGATGGTACTGGCTCTTAGGAGCAT
* *
129649090 CTAGTGTGCTGGATGGTACTGGCTCTTATGAGCAT
1 CTGGTGTGCTGGATGGTACTGGCTCTTAGGAGCAT
* * *
129649125 ATGCTGTGTTGGATGGT
1 CTGGTGTGCTGGATGGT
129649142 TAACCGTGTA
Statistics
Matches: 105, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 105 1.00
ACGTcount: A:0.18, C:0.15, G:0.32, T:0.35
Consensus pattern (35 bp):
CTGGTGTGCTGGATGGTACTGGCTCTTAGGAGCAT
Found at i:129658557 original size:17 final size:17
Alignment explanation
Indices: 129658523--129658648 Score: 65
Period size: 18 Copynumber: 6.8 Consensus size: 17
129658513 ATACTTAATT
* *
129658523 TTTTTAATATGTTCAAA
1 TTTTTAATATATTTAAA
129658540 TTTTTAATATATTTAAA
1 TTTTTAATATATTTAAA
* *
129658557 TATATTAAATATATTAAAA
1 T-T-TTTAATATATTTAAA
* *
129658576 TTTTAAATTTGGTTATACTTAATA
1 TTTTTAA------TATATTTAA-A
129658600 TTTTTAATATATTTAAA
1 TTTTTAATATATTTAAA
*
129658617 TTTTTTAA-ATTTTTTAAAA
1 -TTTTTAATA-TATTT-AAA
*
129658636 TTTTAAATATATT
1 TTTTTAATATATT
129658649 AAGAAAATAT
Statistics
Matches: 85, Mismatches: 11, Indels: 25
0.70 0.09 0.21
Matches are distributed among these distances:
17 23 0.27
18 30 0.35
19 18 0.21
23 7 0.08
24 7 0.08
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
TTTTTAATATATTTAAA
Found at i:129658574 original size:77 final size:78
Alignment explanation
Indices: 129658480--129658650 Score: 258
Period size: 77 Copynumber: 2.2 Consensus size: 78
129658470 ATTTAAAAAT
* *
129658480 TATATTAAATATATTAAAATTTTAAAATTGGTTATACTTAATTTTTTTAATATGTTCAAA-TTTT
1 TATATTAAATATATTAAAATTTTAAAATTGGTTATACTTAATATTTTTAATATATTCAAATTTTT
129658544 T-AATATATTTAAA
66 TAAAT-TATTTAAA
* *
129658557 TATATTAAATATATTAAAATTTTAAATTTGGTTATACTTAATATTTTTAATATATTTAAATTTTT
1 TATATTAAATATATTAAAATTTTAAAATTGGTTATACTTAATATTTTTAATATATTCAAATTTTT
*
129658622 TAAATTTTTTAAA
66 TAAATTATTTAAA
*
129658635 -ATTTTAAATATATTAA
1 TATATTAAATATATTAA
129658651 GAAAATATTT
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
77 71 0.83
78 12 0.14
79 3 0.03
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (78 bp):
TATATTAAATATATTAAAATTTTAAAATTGGTTATACTTAATATTTTTAATATATTCAAATTTTT
TAAATTATTTAAA
Found at i:129658650 original size:9 final size:9
Alignment explanation
Indices: 129658539--129658650 Score: 67
Period size: 9 Copynumber: 12.8 Consensus size: 9
129658529 ATATGTTCAA
*
129658539 ATTTTTAAT
1 ATTTTAAAT
129658548 ATATTTAAAT
1 AT-TTTAAAT
*
129658558 ATATTAAAT
1 ATTTTAAAT
*
129658567 ATATTAAA-
1 ATTTTAAAT
129658575 ATTTTAAAT
1 ATTTTAAAT
129658584 -TTGGTT--AT
1 ATT--TTAAAT
*
129658592 A-CTT-AAT
1 ATTTTAAAT
*
129658599 ATTTTTAAT
1 ATTTTAAAT
129658608 ATATTTAAAT
1 AT-TTTAAAT
*
129658618 TTTTTAAAT
1 ATTTTAAAT
*
129658627 TTTTTAAA-
1 ATTTTAAAT
129658635 ATTTTAAAT
1 ATTTTAAAT
*
129658644 ATATTAA
1 ATTTTAA
129658651 GAAAATATTT
Statistics
Matches: 84, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
6 2 0.02
7 3 0.04
8 20 0.24
9 42 0.50
10 17 0.20
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (9 bp):
ATTTTAAAT
Found at i:129658650 original size:17 final size:17
Alignment explanation
Indices: 129658523--129658650 Score: 67
Period size: 17 Copynumber: 6.9 Consensus size: 17
129658513 ATACTTAATT
* * *
129658523 TTTTTAATATGTTCAAA
1 TTTTAAATATATTAAAA
*
129658540 TTTTTAATATATTTAAATA
1 TTTTAAATATA-TTAAA-A
*
129658559 TATTAAATATATTAAAA
1 TTTTAAATATATTAAAA
*
129658576 TTTTAAATTTGGTTATACTTAATA
1 TTTTAAA------TATA-TTAAAA
* *
129658600 TTTTTAATATATTTAAATT
1 TTTTAAATATA-TTAAA-A
* *
129658619 TTTTAAATTTTTTAAAA
1 TTTTAAATATATTAAAA
129658636 TTTTAAATATATTAA
1 TTTTAAATATATTAA
129658651 GAAAATATTT
Statistics
Matches: 85, Mismatches: 16, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
17 30 0.35
18 22 0.26
19 18 0.21
23 4 0.05
24 11 0.13
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
TTTTAAATATATTAAAA
Found at i:129659472 original size:15 final size:14
Alignment explanation
Indices: 129659452--129659509 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 14
129659442 AATTTTATAG
129659452 TAATATATAATATTA
1 TAATATA-AATATTA
129659467 TAATATAAATATTAAA
1 TAATATAAATATT--A
*
129659483 AAATATTAAATTATTA
1 TAATA-TAAA-TATTA
129659499 -AATATAAATAT
1 TAATATAAATAT
129659510 AGTAGGAGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
13 3 0.08
14 10 0.26
15 11 0.29
16 6 0.16
17 4 0.11
18 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATATAAATATTA
Found at i:129659474 original size:38 final size:38
Alignment explanation
Indices: 129659406--129659481 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 38
129659396 TTTATTTTAT
* *
129659406 TTTTATATATTATATAATTTATGATGTATAAAAATTAA
1 TTTTATATAATATATAATTTATGATATATAAAAATTAA
*
129659444 TTTTATAGTAATATATAATATTAT-A-ATATAAATATTAA
1 TTTTATA-TAATATATAAT-TTATGATATATAAAAATTAA
129659482 AAAATATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 18 0.55
39 11 0.33
40 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (38 bp):
TTTTATATAATATATAATTTATGATATATAAAAATTAA
Found at i:129663327 original size:18 final size:20
Alignment explanation
Indices: 129663304--129663343 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
129663294 TAGGTTTTGC
*
129663304 TTCTTT-TTT-TTTTTCTTT
1 TTCTTTCTTTATTTCTCTTT
129663322 TTCTTTCTTTATTTCTCTTT
1 TTCTTTCTTTATTTCTCTTT
129663342 TT
1 TT
129663344 TTACTTCTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 3 0.16
20 10 0.53
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (20 bp):
TTCTTTCTTTATTTCTCTTT
Found at i:129664849 original size:53 final size:54
Alignment explanation
Indices: 129664769--129664878 Score: 213
Period size: 54 Copynumber: 2.1 Consensus size: 54
129664759 TTATGGTCGG
129664769 ATCCGGCATGCCACATCAAAAAAGT-AAAAAAATTTCCATTCTAAGTCCAGAAA
1 ATCCGGCATGCCACATCAAAAAAGTAAAAAAAATTTCCATTCTAAGTCCAGAAA
129664822 ATCCGGCATGCCACATCAAAAAAGTAAAAAAAATTTCCATTCTAAGTCCAGAAA
1 ATCCGGCATGCCACATCAAAAAAGTAAAAAAAATTTCCATTCTAAGTCCAGAAA
129664876 ATC
1 ATC
129664879 GTACTTGATG
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 25 0.45
54 31 0.55
ACGTcount: A:0.45, C:0.23, G:0.11, T:0.21
Consensus pattern (54 bp):
ATCCGGCATGCCACATCAAAAAAGTAAAAAAAATTTCCATTCTAAGTCCAGAAA
Found at i:129665933 original size:25 final size:27
Alignment explanation
Indices: 129665896--129665948 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
129665886 TCAAACATGC
129665896 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
129665922 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
129665948 A
1 A
129665949 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:129667484 original size:26 final size:26
Alignment explanation
Indices: 129667443--129667553 Score: 197
Period size: 26 Copynumber: 4.3 Consensus size: 26
129667433 ACATTTAATC
129667443 ATTATCATGGAACATTTACCTAACCT
1 ATTATCATGGAACATTTACCTAACCT
*
129667469 ATTATCAT-GAAGCATTTACCTAACCC
1 ATTATCATGGAA-CATTTACCTAACCT
129667495 ATTATCATGGAACATTTACCTAACCT
1 ATTATCATGGAACATTTACCTAACCT
129667521 ATTATCATGGAACATTTACCTAACCT
1 ATTATCATGGAACATTTACCTAACCT
129667547 ATTATCA
1 ATTATCA
129667554 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
25 3 0.04
26 75 0.93
27 3 0.04
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.34
Consensus pattern (26 bp):
ATTATCATGGAACATTTACCTAACCT
Found at i:129681888 original size:21 final size:22
Alignment explanation
Indices: 129681855--129681896 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
129681845 AGATAAAGCA
129681855 AGGGAAATAGAAGGAAAAGAGG
1 AGGGAAATAGAAGGAAAAGAGG
* *
129681877 AGGG-AATCGAAGGGAAAGAG
1 AGGGAAATAGAAGGAAAAGAG
129681897 ATCAAAAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.50, C:0.02, G:0.43, T:0.05
Consensus pattern (22 bp):
AGGGAAATAGAAGGAAAAGAGG
Found at i:129683501 original size:20 final size:20
Alignment explanation
Indices: 129683476--129683513 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
129683466 GAGAATGATT
129683476 CTATAAATAATGTTGAAATC
1 CTATAAATAATGTTGAAATC
129683496 CTATAAATAATGTTGAAA
1 CTATAAATAATGTTGAAA
129683514 CTCTGTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (20 bp):
CTATAAATAATGTTGAAATC
Found at i:129685975 original size:26 final size:28
Alignment explanation
Indices: 129685946--129686001 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 28
129685936 TTTTTACAAC
129685946 TTCAATGTTAAT-AAACATAT-TATTTA
1 TTCAATGTTAATAAAACATATATATTTA
* * *
129685972 TTCAGTTTTAATAAAATATATATATTTA
1 TTCAATGTTAATAAAACATATATATTTA
129686000 TT
1 TT
129686002 TGGGTAACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 10 0.40
27 7 0.28
28 8 0.32
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.50
Consensus pattern (28 bp):
TTCAATGTTAATAAAACATATATATTTA
Found at i:129686790 original size:88 final size:89
Alignment explanation
Indices: 129686640--129686819 Score: 292
Period size: 88 Copynumber: 2.0 Consensus size: 89
129686630 GCTTAATTCT
* * *
129686640 TAAATAATTCATCATCTTTCTATGTGTTCCAAAACATAATTAGAACTTGCATGACTTCTAATGAC
1 TAAATAATTCATCATCTTTCTATGTATTCCAAAACATAATTAGAACCTGCATGACTTATAATGAC
129686705 GA-TTTCCCCCCGC-AGTTCCTAAG
66 GACTTTCCCCCC-CAAGTTCCTAAG
*
129686728 TAAATAATTCATCATCTTTCTATGTATTTCAAAACATAATTAGAACCTGCATGACTTATAATGAC
1 TAAATAATTCATCATCTTTCTATGTATTCCAAAACATAATTAGAACCTGCATGACTTATAATGAC
129686793 GACTTTTCCCCCCCAAGTTCCTAAG
66 GAC-TTTCCCCCCCAAGTTCCTAAG
129686818 TA
1 TA
129686820 TGTTTATTTG
Statistics
Matches: 85, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
88 63 0.74
89 1 0.01
90 21 0.25
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.34
Consensus pattern (89 bp):
TAAATAATTCATCATCTTTCTATGTATTCCAAAACATAATTAGAACCTGCATGACTTATAATGAC
GACTTTCCCCCCCAAGTTCCTAAG
Found at i:129691302 original size:19 final size:19
Alignment explanation
Indices: 129691274--129691311 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
129691264 TAAGCTCCTC
*
129691274 GTGCTTTTTTGAAATCCAT
1 GTGCTCTTTTGAAATCCAT
129691293 GTGCTCTTTTGAAATCCAT
1 GTGCTCTTTTGAAATCCAT
129691312 AAAGTATGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.18, G:0.16, T:0.45
Consensus pattern (19 bp):
GTGCTCTTTTGAAATCCAT
Found at i:129695612 original size:4 final size:4
Alignment explanation
Indices: 129695605--129695639 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
129695595 TATACATACA
129695605 TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
129695640 AAACTCCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:129697016 original size:23 final size:21
Alignment explanation
Indices: 129696984--129697028 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
129696974 ACAGTTTATA
*
129696984 ATATGGTTGTATATCATGTATGT
1 ATATGATTGTATAT-AT-TATGT
*
129697007 ATATGATTGTTTATATTATGT
1 ATATGATTGTATATATTATGT
129697028 A
1 A
129697029 ACTGATGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 2 0.10
23 12 0.60
ACGTcount: A:0.29, C:0.02, G:0.18, T:0.51
Consensus pattern (21 bp):
ATATGATTGTATATATTATGT
Found at i:129699158 original size:33 final size:33
Alignment explanation
Indices: 129699120--129699216 Score: 158
Period size: 33 Copynumber: 2.9 Consensus size: 33
129699110 GACTGAGTGG
*
129699120 GAGTGTTTGGTTGCTGGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
*
129699153 GAGTGTTTTGCTGCTGGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
* *
129699186 GGGTGTTTTGTTGCTAGACAGGAGCTGGAAT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAAT
129699217 ATCAAGAAGA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.19, C:0.10, G:0.40, T:0.31
Consensus pattern (33 bp):
GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
Found at i:129704898 original size:17 final size:18
Alignment explanation
Indices: 129704876--129704911 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
129704866 GATATGATAC
*
129704876 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
129704893 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
129704911 T
1 T
129704912 CAGGAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:129705237 original size:18 final size:19
Alignment explanation
Indices: 129705177--129705251 Score: 98
Period size: 19 Copynumber: 3.9 Consensus size: 19
129705167 AAATTAAATC
* *
129705177 TCTAAGATTACAAAATCATG
1 TCTAAGATTGC-ATATCATG
*
129705197 TCTACGATTGCATATCATG
1 TCTAAGATTGCATATCATG
*
129705216 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATG
129705234 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
129705252 TGAAGATTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
18 17 0.35
19 23 0.47
20 9 0.18
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (19 bp):
TCTAAGATTGCATATCATG
Found at i:129705407 original size:21 final size:20
Alignment explanation
Indices: 129705369--129705408 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
129705359 CTTGGACTTC
**
129705369 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
129705389 TTTTTCTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
129705409 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.05, G:0.12, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:129705656 original size:45 final size:45
Alignment explanation
Indices: 129705601--129705800 Score: 251
Period size: 45 Copynumber: 4.5 Consensus size: 45
129705591 AGAAGGCGAT
* *
129705601 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAAAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAAAGACGCCAA
* *
129705646 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAAAGACGCCAA
* * * * *
129705691 ATCTGCT-TCTTCAATCTGCTCCTCATCTAATACAAAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAAAGACGCCAA
* * *
129705735 ATCTGTTATC-TCTAATTTGCTCCCCGTCTAATACAAAGATGCCAA
1 ATCTGTTATCTTC-GATCTGCTCCCCGTCTAATACAAAGACGCCAA
* *
129705780 ATCTGTCATCTTGGATCTGCT
1 ATCTGTTATCTTCGATCTGCT
129705801 TTGATGTAAA
Statistics
Matches: 133, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
44 39 0.29
45 93 0.70
46 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAAAGACGCCAA
Found at i:129705725 original size:89 final size:90
Alignment explanation
Indices: 129705601--129705784 Score: 255
Period size: 89 Copynumber: 2.1 Consensus size: 90
129705591 AGAAGGCGAT
** * *
129705601 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAAAGACGCCAAATCTGTTATCT-TCGATCTG
1 ATCTGCTATCTTCAATCTGCTCCCCATCTAATACAAAGACGCCAAATCTGTTATCTCT-AATCTG
*
129705665 CTCCCCGTCTAATACAGAGACACCAA
65 CTCCCCGTCTAATACAAAGACACCAA
* * *
129705691 ATCTGCT-TCTTCAATCTGCTCCTCATCTAATACAAAGATGCCAAATCTGTTATCTCTAATTTGC
1 ATCTGCTATCTTCAATCTGCTCCCCATCTAATACAAAGACGCCAAATCTGTTATCTCTAATCTGC
**
129705755 TCCCCGTCTAATACAAAGATGCCAA
66 TCCCCGTCTAATACAAAGACACCAA
129705780 ATCTG
1 ATCTG
129705785 TCATCTTGGA
Statistics
Matches: 83, Mismatches: 10, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
89 75 0.90
90 8 0.10
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.31
Consensus pattern (90 bp):
ATCTGCTATCTTCAATCTGCTCCCCATCTAATACAAAGACGCCAAATCTGTTATCTCTAATCTGC
TCCCCGTCTAATACAAAGACACCAA
Found at i:129706040 original size:78 final size:78
Alignment explanation
Indices: 129705814--129706107 Score: 457
Period size: 78 Copynumber: 3.8 Consensus size: 78
129705804 ATGTAAACAC
* * *
129705814 ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTTCCTGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
129705879 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* *
129705892 ATGAAGGTCCA-ATCTGTTA-GTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
129705955 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* *
129705969 ATAAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
129706034 TGGATCTACTTCA
66 TGGATCTGCTTCA
* * **
129706047 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
129706108 TGTTTCTTTG
Statistics
Matches: 199, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
76 2 0.01
77 69 0.35
78 126 0.63
79 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:129715931 original size:21 final size:21
Alignment explanation
Indices: 129715907--129715949 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
129715897 GACATATTGG
129715907 TGAAATAAAATCAAAGATTTT
1 TGAAATAAAATCAAAGATTTT
129715928 TGAAATAAAATCAAAGATTTT
1 TGAAATAAAATCAAAGATTTT
129715949 T
1 T
129715950 TTTAGGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (21 bp):
TGAAATAAAATCAAAGATTTT
Found at i:129716043 original size:21 final size:20
Alignment explanation
Indices: 129715976--129716044 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
129715966 TATAATGATT
129715976 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATT-A
* **
129715997 ATTAGTATAATTATTA-ATTA
1 ATTATTATGGTT-TTATATTA
*
129716017 A-CATTATGGTTTTATATTA
1 ATTATTATGGTTTTATATTA
129716036 GATTATTAT
1 -ATTATTAT
129716045 TATTAGCATT
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.28
20 3 0.08
21 17 0.47
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.09, T:0.54
Consensus pattern (20 bp):
ATTATTATGGTTTTATATTA
Found at i:129716057 original size:15 final size:14
Alignment explanation
Indices: 129716031--129716061 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
129716021 TATGGTTTTA
129716031 TATTAGATTATTAT
1 TATTAGATTATTAT
129716045 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
129716060 TA
1 TA
129716062 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:129724376 original size:17 final size:17
Alignment explanation
Indices: 129724354--129724386 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
129724344 GATATGATAC
129724354 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
129724371 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
129724387 AATCCGGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:129724387 original size:18 final size:17
Alignment explanation
Indices: 129724354--129724387 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
129724344 GATATGATAC
*
129724354 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
129724371 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
129724388 ATCCGGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:129724719 original size:18 final size:19
Alignment explanation
Indices: 129724679--129724724 Score: 76
Period size: 18 Copynumber: 2.5 Consensus size: 19
129724669 AATCATATCT
*
129724679 TCTAAGATTGCATATCATG
1 TCTAAGATTGCATATCATA
129724698 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
129724716 TCTAAGATT
1 TCTAAGATT
129724725 ACATGTCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:129726547 original size:26 final size:26
Alignment explanation
Indices: 129726518--129726571 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
129726508 AGAAGTCTGC
*
129726518 ATGTATGTTTTGATCCTACTAACCCA
1 ATGTATGTTTCGATCCTACTAACCCA
129726544 ATGTATGTTTCGATCCTACTAACCCA
1 ATGTATGTTTCGATCCTACTAACCCA
129726570 AT
1 AT
129726572 CCCATATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (26 bp):
ATGTATGTTTCGATCCTACTAACCCA
Found at i:129728604 original size:13 final size:13
Alignment explanation
Indices: 129728553--129728605 Score: 72
Period size: 13 Copynumber: 4.1 Consensus size: 13
129728543 AGTTTGGCAA
*
129728553 TGCTTTTGAAAAA
1 TGCTTTTGAAAAG
129728566 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
129728579 TGC-TGTGAAAAAG
1 TGCTTTTG-AAAAG
129728592 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
129728605 T
1 T
129728606 TTGGTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
12 3 0.09
13 29 0.83
14 3 0.09
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:129730008 original size:17 final size:18
Alignment explanation
Indices: 129729988--129730021 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
129729978 TTTTAAGTGA
129729988 TTTTAACT-TTTAAAATG
1 TTTTAACTATTTAAAATG
*
129730005 TTTTAATTATTTAAAAT
1 TTTTAACTATTTAAAAT
129730022 TATATTACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTTAACTATTTAAAATG
Found at i:129730227 original size:31 final size:29
Alignment explanation
Indices: 129730192--129730251 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 29
129730182 CTCAAAATTT
* *
129730192 TACATAAACTTTGATTTAATGTACAATTATA
1 TACATAAACTTTAATTT--GGTACAATTATA
*
129730223 TACATGAACTTTAATTTGGTACAATTATA
1 TACATAAACTTTAATTTGGTACAATTATA
129730252 CATGCGAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 11 0.42
31 15 0.58
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (29 bp):
TACATAAACTTTAATTTGGTACAATTATA
Found at i:129730371 original size:29 final size:28
Alignment explanation
Indices: 129730355--129730423 Score: 102
Period size: 29 Copynumber: 2.4 Consensus size: 28
129730345 TTTTATAGTG
129730355 AATAAATATAATTATTTATATAAATAAT
1 AATAAATATAATTATTTATATAAATAAT
*
129730383 ATATAAATATAATTATTTATGTAAATAAT
1 A-ATAAATATAATTATTTATATAAATAAT
*
129730412 ATATAAACATAA
1 A-ATAAATATAA
129730424 AATGATGTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 1 0.03
29 37 0.97
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (28 bp):
AATAAATATAATTATTTATATAAATAAT
Found at i:129730383 original size:25 final size:25
Alignment explanation
Indices: 129730316--129730412 Score: 72
Period size: 29 Copynumber: 3.7 Consensus size: 25
129730306 TAATCATACA
* *
129730316 TATTTAAATAAATAA-ATATATCAATT
1 TATTTATATAAATAATAAATAT-AA-T
* *
129730342 TATTTTTAT-AGTGAATAAATATAAT
1 TATTTATATAAAT-AATAAATATAAT
129730367 TATTTATATAAATAATATATAAATATAAT
1 TATTTATAT--A-AATA-ATAAATATAAT
*
129730396 TATTTATGTAAATAATA
1 TATTTATATAAATAATA
129730413 TATAAACATA
Statistics
Matches: 57, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
25 14 0.25
26 15 0.26
27 6 0.11
28 1 0.02
29 21 0.37
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (25 bp):
TATTTATATAAATAATAAATATAAT
Found at i:129731356 original size:108 final size:107
Alignment explanation
Indices: 129731099--129731357 Score: 362
Period size: 108 Copynumber: 2.4 Consensus size: 107
129731089 ATAATTAATA
* * *
129731099 TTGTTAATTACTCTGTTAAAGTTTTTGATATGTTTTTTT-AA-AATGATATTTTAAGTTAGAATA
1 TTGTTAATTACTCTGATAAAATTTTTGA-ATGTTTTTTTAAACAATGATATGTTAAGTTAGAATA
*
129731162 AGTTTTAAATAATAAAATTTCTAACAAAATTGTATTAAAATTT
65 AGTTTTAAATAATAAAATTTATAACAAAATTGTATTAAAATTT
** **** *
129731205 TTGTTAATTAC-CTTGATAAAATTTTTGTTTAGTTTAACAAAACAATGATATGTTAAGTTGGAAT
1 TTGTTAATTACTC-TGATAAAATTTTTGAAT-GTTTTTTTAAACAATGATATGTTAAGTTAGAAT
129731269 AAGTTTTAAATAATAAAATTTATAACAAAATTGTATTAAAATTT
64 AAGTTTTAAATAATAAAATTTATAACAAAATTGTATTAAAATTT
129731313 TTGTTAATTACTCTGATAAAATTTTTGAAGTGTTTTTTTAAACAA
1 TTGTTAATTACTCTGATAAAATTTTTGAA-TGTTTTTTTAAACAA
129731358 AATATTAGTT
Statistics
Matches: 130, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
105 2 0.02
106 27 0.21
107 2 0.02
108 97 0.75
109 2 0.02
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (107 bp):
TTGTTAATTACTCTGATAAAATTTTTGAATGTTTTTTTAAACAATGATATGTTAAGTTAGAATAA
GTTTTAAATAATAAAATTTATAACAAAATTGTATTAAAATTT
Found at i:129731702 original size:33 final size:33
Alignment explanation
Indices: 129731660--129731725 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
129731650 GGAAATGTGC
*
129731660 AGGGTGTTGTGCTTGCCTGTCAGGCATGACTAG
1 AGGGTGTTGTGCTTGCCTGTCAGGCACGACTAG
129731693 AGGGTGTTGTGCTTGCCTGTCAGGCACGACTAG
1 AGGGTGTTGTGCTTGCCTGTCAGGCACGACTAG
129731726 TCGTGCCTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.15, C:0.20, G:0.36, T:0.29
Consensus pattern (33 bp):
AGGGTGTTGTGCTTGCCTGTCAGGCACGACTAG
Found at i:129732047 original size:3 final size:3
Alignment explanation
Indices: 129732041--129732065 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
129732031 TTCTTCGTTC
129732041 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
129732066 TAATAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:129736556 original size:2 final size:2
Alignment explanation
Indices: 129736508--129736544 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
129736498 AGGGGAGTTT
129736508 TA TA -A TA TA 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 TA TA TA TA TA
129736545 AAAGAATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:129736694 original size:18 final size:20
Alignment explanation
Indices: 129736673--129736715 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
129736663 TTAGTGTTGC
129736673 AATAATAA-TT-ATTTAAAA
1 AATAATAATTTGATTTAAAA
129736691 AAT-ATAATTTTGATTTAAAA
1 AATAATAA-TTTGATTTAAAA
129736711 AATAA
1 AATAA
129736716 AAAATAGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.19
18 3 0.14
19 2 0.10
20 11 0.52
21 1 0.05
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
AATAATAATTTGATTTAAAA
Found at i:129737237 original size:20 final size:20
Alignment explanation
Indices: 129737212--129737252 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
129737202 TTATATCAAT
* *
129737212 AAAATTAGCACATTTTTTTA
1 AAAATTAACACAATTTTTTA
*
129737232 AAAATTAACATAATTTTTTA
1 AAAATTAACACAATTTTTTA
129737252 A
1 A
129737253 GTCAAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.44
Consensus pattern (20 bp):
AAAATTAACACAATTTTTTA
Found at i:129739558 original size:124 final size:125
Alignment explanation
Indices: 129739398--129739674 Score: 486
Period size: 125 Copynumber: 2.2 Consensus size: 125
129739388 CTATGTACCT
* *
129739398 CACACGGCTAAGACACACGCCCGTGCCTCTTCTCGTGTGCTCAATTCTGAGCATTCTGTTTCTC-
1 CACACGGCTGAGACACACGCCCGTGTCTCTTCTCGTGTGCTCAATTCTGAGCATTCTGTTTCTCA
*
129739462 ATTTTAAGATGCAGGGGACACACAG-TCAGACTACACGCCCATGTACATGACCGTATGTCA
66 ATTTTAAGATGCAGGGGACACACAGCT-AGACTACACGCCCATGTACATGACCGTATATCA
* *
129739522 CACATGGCTGAGACACACGCCTGTGTCTCTTCTCGTGTGCTCAATTCTGAGCATTCTGTTTCTCA
1 CACACGGCTGAGACACACGCCCGTGTCTCTTCTCGTGTGCTCAATTCTGAGCATTCTGTTTCTCA
129739587 ATTTTAAGATGCAGGGGACACACAGCTAGACTACACGCCCATGTACATGACCGTATATCA
66 ATTTTAAGATGCAGGGGACACACAGCTAGACTACACGCCCATGTACATGACCGTATATCA
129739647 CACACGGCTGAGACACACGCCCGTGTCT
1 CACACGGCTGAGACACACGCCCGTGTCT
129739675 TTACCCATGT
Statistics
Matches: 144, Mismatches: 7, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
124 60 0.42
125 83 0.58
126 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.26
Consensus pattern (125 bp):
CACACGGCTGAGACACACGCCCGTGTCTCTTCTCGTGTGCTCAATTCTGAGCATTCTGTTTCTCA
ATTTTAAGATGCAGGGGACACACAGCTAGACTACACGCCCATGTACATGACCGTATATCA
Found at i:129740518 original size:105 final size:101
Alignment explanation
Indices: 129740408--129740604 Score: 236
Period size: 105 Copynumber: 1.9 Consensus size: 101
129740398 ACACTCGTAG
* * * *
129740408 TGCCATAACCCAGTTATGGTCTTATT-ATT-AGGATGTCATAGCCCAGCTATGGTCTTACACTTA
1 TGCCATAACCCAGTTATGGT-TTATTCATTGA-AATGCCATAGCCCAACTATGGTATTACA-TT-
* *
129740471 TACACATACTGCCATGGTCCAACTATGGTCTTATGTTCACGA
62 TA-A-ATACTGCCATGATCCAACCATGGTCTTATGTTCACGA
* *
129740513 TGCCATAACCTAGTTATGGTTTTTTCATTGAAATGCCATAGCCCAACTATGGTATTACATTTAAA
1 TGCCATAACCCAGTTATGGTTTATTCATTGAAATGCCATAGCCCAACTATGGTATTACATTTAAA
* *
129740578 TATTGTCATGATCCAACCATGGTCTTA
66 TACTGCCATGATCCAACCATGGTCTTA
129740605 CTCCTCAATT
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
101 24 0.30
102 1 0.01
103 2 0.03
104 6 0.08
105 46 0.57
106 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (101 bp):
TGCCATAACCCAGTTATGGTTTATTCATTGAAATGCCATAGCCCAACTATGGTATTACATTTAAA
TACTGCCATGATCCAACCATGGTCTTATGTTCACGA
Found at i:129742981 original size:19 final size:19
Alignment explanation
Indices: 129742957--129742993 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
129742947 TCAAAGAACA
*
129742957 ATGCAAATTAAGCTATCAT
1 ATGCAAATCAAGCTATCAT
*
129742976 ATGCAAATCATGCTATCA
1 ATGCAAATCAAGCTATCA
129742994 ATTACTTCAT
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:0.41, C:0.19, G:0.11, T:0.30
Consensus pattern (19 bp):
ATGCAAATCAAGCTATCAT
Found at i:129753822 original size:28 final size:28
Alignment explanation
Indices: 129753769--129753824 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
129753759 TGAATGAATA
*
129753769 TTTTTAATTAATAAATAGTATGAAATAAT
1 TTTTTAATTAATAAATA-TATAAAATAAT
129753798 TTTTTAATTTAATAAAT-TATAAAATAA
1 TTTTTAA-TTAATAAATATATAAAATAA
129753825 AATATTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 9 0.36
29 7 0.28
30 9 0.36
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (28 bp):
TTTTTAATTAATAAATATATAAAATAAT
Found at i:129754290 original size:2 final size:2
Alignment explanation
Indices: 129754278--129754320 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
129754268 ACTTCTTAAT
129754278 TA TA T- TA TA TA TA 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 TA TA TA TA TA TA TA
129754319 TA
1 TA
129754321 GAACATTTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:129758216 original size:21 final size:21
Alignment explanation
Indices: 129758191--129758234 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
129758181 ATAAAAGGGT
129758191 AAAT-ATAACAAGAAGAT-ATAA
1 AAATAATAA-AAGAA-ATAATAA
129758212 AAATAATAAAAGAAATAATAA
1 AAATAATAAAAGAAATAATAA
129758233 AA
1 AA
129758235 CTACAAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 2 0.10
21 15 0.71
22 4 0.19
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (21 bp):
AAATAATAAAAGAAATAATAA
Found at i:129761736 original size:42 final size:42
Alignment explanation
Indices: 129761676--129761758 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
129761666 ATAAGTTTTT
* * *
129761676 GTTTAACCCTAATAGGTTTTCGTTTAGCTCTTTTGAGCTTCA
1 GTTTAACCCTAATAGGTTTCCATTTAGCTCTTATGAGCTTCA
* * *
129761718 GTTTAACCTTTATGGGTTTCCATTTAGCTCTTATGAGCTTC
1 GTTTAACCCTAATAGGTTTCCATTTAGCTCTTATGAGCTTC
129761759 CGCTCAACTC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.18, C:0.19, G:0.17, T:0.46
Consensus pattern (42 bp):
GTTTAACCCTAATAGGTTTCCATTTAGCTCTTATGAGCTTCA
Found at i:129761759 original size:21 final size:22
Alignment explanation
Indices: 129761697--129761759 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 22
129761687 ATAGGTTTTC
*
129761697 GTTTAGCTCTTTTGAGCTT-CA
1 GTTTAGCTCTTATGAGCTTCCA
* * *
129761718 GTTTAAC-CTTTATGGGTTTCCA
1 GTTTAGCTC-TTATGAGCTTCCA
129761740 -TTTAGCTCTTATGAGCTTCC
1 GTTTAGCTCTTATGAGCTTCC
129761760 GCTCAACTCT
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
20 1 0.03
21 28 0.88
22 3 0.09
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.46
Consensus pattern (22 bp):
GTTTAGCTCTTATGAGCTTCCA
Found at i:129761773 original size:42 final size:42
Alignment explanation
Indices: 129761698--129761779 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
129761688 TAGGTTTTCG
* * *
129761698 TTTAGCTCTTTTGAGCTTCAGTTTAACCTTTATGGGTTTCCA
1 TTTAGCTCTTATGAGCTTCAGCTCAACCTTTATGGGTTTCCA
*
129761740 TTTAGCTCTTATGAGCTTCCGCTCAA-CTCTTATGGGTTTC
1 TTTAGCTCTTATGAGCTTCAGCTCAACCT-TTATGGGTTTC
129761780 TGTTTAACAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.06
42 33 0.94
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (42 bp):
TTTAGCTCTTATGAGCTTCAGCTCAACCTTTATGGGTTTCCA
Found at i:129763479 original size:48 final size:48
Alignment explanation
Indices: 129763408--129763505 Score: 171
Period size: 48 Copynumber: 2.0 Consensus size: 48
129763398 ATTTCTATCT
*
129763408 AAACATCAAGTAAATTTAACA-TTTCTTGCCATGAATCAAACTCAAACC
1 AAACATCAAGTAAATTTAACATTTTC-TGCAATGAATCAAACTCAAACC
129763456 AAACATCAAGTAAATTTAACATTTTCTGCAATGAATCAAACTCAAACC
1 AAACATCAAGTAAATTTAACATTTTCTGCAATGAATCAAACTCAAACC
129763504 AA
1 AA
129763506 GTCATTTCAA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
48 44 0.92
49 4 0.08
ACGTcount: A:0.46, C:0.21, G:0.06, T:0.27
Consensus pattern (48 bp):
AAACATCAAGTAAATTTAACATTTTCTGCAATGAATCAAACTCAAACC
Found at i:129774428 original size:42 final size:45
Alignment explanation
Indices: 129774367--129774579 Score: 237
Period size: 48 Copynumber: 4.7 Consensus size: 45
129774357 CTTCGTTTTC
*
129774367 TCGATGCCATAGTTCAACTATGGTCTTACAC-AT-C-T-TCACATAA
1 TCGATGCCATAG-CCAACTATGGTCTTACACGATACATATCACAT-A
129774410 T-GATGCCATAGCCCAACTATGGTCTTACAC-AT--AT-TCACATA
1 TCGATGCCATAG-CCAACTATGGTCTTACACGATACATATCACATA
129774451 TCGATGCCATAGCCAACTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCAACTATGGTCTTACACG--AT-ACATATCACATA
* * *
129774499 ACGATGCCATAAGCCAGCTATGGTCTTATACGGATCACATATCACATA
1 TCGATGCCAT-AGCCAACTATGGTCTTACAC-GAT-ACATATCACATA
129774547 TCGATGCCATAGCCCAACTATGGTCTTACACGA
1 TCGATGCCATAG-CCAACTATGGTCTTACACGA
129774580 ATCAAATATC
Statistics
Matches: 150, Mismatches: 8, Indels: 20
0.84 0.04 0.11
Matches are distributed among these distances:
41 20 0.13
42 46 0.31
43 1 0.01
44 2 0.01
47 6 0.04
48 56 0.37
49 18 0.12
50 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (45 bp):
TCGATGCCATAGCCAACTATGGTCTTACACGATACATATCACATA
Found at i:129774479 original size:41 final size:43
Alignment explanation
Indices: 129774367--129774577 Score: 216
Period size: 42 Copynumber: 4.7 Consensus size: 43
129774357 CTTCGTTTTC
** *
129774367 TCGATGCCATAGTTCAACTATGGTCTTACACATCT-TCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATATCACAT-A
129774410 T-GATGCCATAGCCCAACTATGGTCTTACACATAT-TCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATATCACATA
129774451 TCGATGCCATAG-CCAACTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC---AT---ATATCACATA
* * *
129774499 ACGATGCCATAAG-CCAGCTATGGTCTTATACGGATCACATATCACATA
1 TCGATGCCAT-AGCCCAACTATGGTC-T-TAC--A-CATATATCACATA
129774547 TCGATGCCATAGCCCAACTATGGTCTTACAC
1 TCGATGCCATAGCCCAACTATGGTCTTACAC
129774578 GAATCAAATA
Statistics
Matches: 145, Mismatches: 8, Indels: 30
0.79 0.04 0.16
Matches are distributed among these distances:
41 20 0.14
42 46 0.32
43 2 0.01
44 3 0.02
46 3 0.02
47 5 0.03
48 46 0.32
49 13 0.09
50 1 0.01
51 4 0.03
53 1 0.01
54 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (43 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATATCACATA
Found at i:129774498 original size:48 final size:47
Alignment explanation
Indices: 129774437--129774694 Score: 261
Period size: 48 Copynumber: 5.3 Consensus size: 47
129774427 TATGGTCTTA
*
129774437 CACATATTCACATATCGATGCCATAGCCAACTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCAACTATGGTCTTATACG-AAT
* * *
129774486 CACATATCACATAACGATGCCATAAGCCAGCTATGGTCTTATACGGAT
1 CACATATCACATATCGATGCCAT-AGCCAACTATGGTCTTATACGAAT
*
129774534 CACATATCACATATCGATGCCATAGCCCAACTATGGTCTTACACGAAT
1 CACATATCACATATCGATGCCATAG-CCAACTATGGTCTTATACGAAT
* * * * *
129774582 CAAATATCTCA-CT-GATGCCATATCCCAGA-TATGGTCTTATACGGAAG
1 CACATATCACATATCGATGCCATA-GCCA-ACTATGGTCTTATAC-GAAT
* *
129774629 CACATAATCACATCTCTCTGATGCCATAGCCCAGCTATGGTCTTATACGGAAAT
1 CACAT-ATCACA--TATC-GATGCCATAG-CCAACTATGGTCTTATAC-G-AAT
129774683 CACATATCACAT
1 CACATATCACAT
129774695 GTTGCTATGG
Statistics
Matches: 176, Mismatches: 19, Indels: 26
0.80 0.09 0.12
Matches are distributed among these distances:
46 24 0.14
47 11 0.06
48 73 0.41
49 25 0.14
51 3 0.02
53 33 0.19
54 7 0.04
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.27
Consensus pattern (47 bp):
CACATATCACATATCGATGCCATAGCCAACTATGGTCTTATACGAAT
Found at i:129774650 original size:53 final size:53
Alignment explanation
Indices: 129774587--129774694 Score: 164
Period size: 53 Copynumber: 2.0 Consensus size: 53
129774577 CGAATCAAAT
*
129774587 ATCTCACTGATGCCATATCCCAGATATGGTCTTATACGG-AAGCACATAATCAC
1 ATCTCACTGATGCCATAGCCCAGATATGGTCTTATACGGAAAGCACAT-ATCAC
* * *
129774640 ATCTCTCTGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACATATCAC
1 ATCTCACTGATGCCATAGCCCAGATATGGTCTTATACGGAAAGCACATATCAC
129774693 AT
1 AT
129774695 GTTGCTATGG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
53 43 0.86
54 7 0.14
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.28
Consensus pattern (53 bp):
ATCTCACTGATGCCATAGCCCAGATATGGTCTTATACGGAAAGCACATATCAC
Found at i:129777732 original size:23 final size:23
Alignment explanation
Indices: 129777702--129777747 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
129777692 ATCAATTCAT
129777702 AAAAAAAATCATTTTTCTCTCTA
1 AAAAAAAATCATTTTTCTCTCTA
129777725 AAAAAAAATCATTTTTCTCTCTA
1 AAAAAAAATCATTTTTCTCTCTA
129777748 TCTTATTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAAAAAATCATTTTTCTCTCTA
Found at i:129778670 original size:17 final size:17
Alignment explanation
Indices: 129778613--129778671 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
129778603 GCACTTTTAC
*
129778613 TACAACACGCATGTTAA
1 TACAACTCGCATGTTAA
** * *
129778630 CGCAACTCGCATATTGA
1 TACAACTCGCATGTTAA
* *
129778647 TATAACTCGCATGTCAA
1 TACAACTCGCATGTTAA
129778664 TACAACTC
1 TACAACTC
129778672 ACAGATTTAC
Statistics
Matches: 30, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (17 bp):
TACAACTCGCATGTTAA
Found at i:129778846 original size:17 final size:17
Alignment explanation
Indices: 129778823--129778966 Score: 135
Period size: 17 Copynumber: 8.5 Consensus size: 17
129778813 AGCCAGCTCT
*
129778823 CATATAAACACAACTCA
1 CATATAAACACAACTCG
* * * **
129778840 TATATAAACATAGCTAA
1 CATATAAACACAACTCG
*
129778857 CATATAAACACAACTTG
1 CATATAAACACAACTCG
*
129778874 CATATAAACACAGCTCG
1 CATATAAACACAACTCG
*
129778891 CATATAAACACAAGTCG
1 CATATAAACACAACTCG
* *
129778908 CATATAAACATAGCTCG
1 CATATAAACACAACTCG
* * *
129778925 CATTTAAACAAAACTAG
1 CATATAAACACAACTCG
* *
129778942 CATATAAACATAGCTCG
1 CATATAAACACAACTCG
*
129778959 TATATAAA
1 CATATAAA
129778967 TATAGCTTGC
Statistics
Matches: 102, Mismatches: 25, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 102 1.00
ACGTcount: A:0.48, C:0.22, G:0.08, T:0.23
Consensus pattern (17 bp):
CATATAAACACAACTCG
Found at i:129778861 original size:34 final size:34
Alignment explanation
Indices: 129778817--129779002 Score: 185
Period size: 34 Copynumber: 5.5 Consensus size: 34
129778807 TGACAAAGCC
* *
129778817 AGCTCTCATATAAACACAACTCATATATAAACAT
1 AGCTCGCATATAAACACAACTCACATATAAACAT
** ** *
129778851 AGCTAACATATAAACACAACTTGCATATAAACAC
1 AGCTCGCATATAAACACAACTCACATATAAACAT
* *
129778885 AGCTCGCATATAAACACAAGTCGCATATAAACAT
1 AGCTCGCATATAAACACAACTCACATATAAACAT
* *
129778919 AGCTCGCATTTAAACAAAACT-AGCATATAAACAT
1 AGCTCGCATATAAACACAACTCA-CATATAAACAT
* * * * ** *
129778953 AGCTCGTATATAAATATAGCTTGCTTATAAACAT
1 AGCTCGCATATAAACACAACTCACATATAAACAT
*
129778987 AGCTCACATATAAACA
1 AGCTCGCATATAAACA
129779003 TATATATATA
Statistics
Matches: 125, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
34 125 1.00
ACGTcount: A:0.46, C:0.22, G:0.08, T:0.25
Consensus pattern (34 bp):
AGCTCGCATATAAACACAACTCACATATAAACAT
Found at i:129778889 original size:68 final size:67
Alignment explanation
Indices: 129778816--129779002 Score: 207
Period size: 68 Copynumber: 2.7 Consensus size: 67
129778806 TTGACAAAGC
* * *
129778816 CAGCTCTCATATAAACACAACTCATATATAAACATAGCTAACATATAAACACAACTTGCATATAA
1 CAGCTCTCATATAAACACAACTC-TATATAAACATAGCTCACATATAAACAAAACTAGCATATAA
129778881 ACA
65 ACA
* * * * *
129778884 CAGCTCGCATATAAACACAAGTCGCATATAAACATAGCTCGCATTTAAACAAAACTAGCATATAA
1 CAGCTCTCATATAAACACAACTC-TATATAAACATAGCTCACATATAAACAAAACTAGCATATAA
129778949 ACA
65 ACA
* * * *
129778952 TAGCTCGT-ATATAAATATAGCTTGCT-TATAAACATAGCTCACATATAAACA
1 CAGCTC-TCATATAAACACAAC-T-CTATATAAACATAGCTCACATATAAACA
129779003 TATATATATA
Statistics
Matches: 98, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
68 96 0.98
69 1 0.01
70 1 0.01
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.25
Consensus pattern (67 bp):
CAGCTCTCATATAAACACAACTCTATATAAACATAGCTCACATATAAACAAAACTAGCATATAAA
CA
Found at i:129778899 original size:51 final size:51
Alignment explanation
Indices: 129778823--129779004 Score: 188
Period size: 51 Copynumber: 3.6 Consensus size: 51
129778813 AGCCAGCTCT
* ** * *
129778823 CATATAAACACAACTCATATATAAACATAGCTAACATATAAACACAACTTG
1 CATATAAACACAACTCACATATAAACATAGCTCGCATATAAACATAGCTTG
* * * *
129778874 CATATAAACACAGCTCGCATATAAACACAAG-TCGCATATAAACATAGCTCG
1 CATATAAACACAACTCACATATAAACA-TAGCTCGCATATAAACATAGCTTG
* * * *
129778925 CATTTAAACAAAACT-AGCATATAAACATAGCTCGTATATAAATATAGCTTG
1 CATATAAACACAACTCA-CATATAAACATAGCTCGCATATAAACATAGCTTG
* * *
129778976 CTTATAAACATAGCTCACATATAAACATA
1 CATATAAACACAACTCACATATAAACATA
129779005 TATATATATA
Statistics
Matches: 106, Mismatches: 21, Indels: 8
0.79 0.16 0.06
Matches are distributed among these distances:
50 2 0.02
51 101 0.95
52 3 0.03
ACGTcount: A:0.47, C:0.21, G:0.08, T:0.25
Consensus pattern (51 bp):
CATATAAACACAACTCACATATAAACATAGCTCGCATATAAACATAGCTTG
Found at i:129778971 original size:17 final size:18
Alignment explanation
Indices: 129778840--129779004 Score: 125
Period size: 17 Copynumber: 9.7 Consensus size: 18
129778830 ACACAACTCA
**
129778840 TATATAAACATAGCTAAC
1 TATATAAACATAGCTCGC
* * *
129778858 -ATATAAACACAACTTGC
1 TATATAAACATAGCTCGC
*
129778875 -ATATAAACACAGCTCGC
1 TATATAAACATAGCTCGC
*
129778892 -ATATAAACACAAG-TCGC
1 TATATAAACA-TAGCTCGC
129778909 -ATATAAACATAGCTCGC
1 TATATAAACATAGCTCGC
* * * *
129778926 -ATTTAAACAAAACTAGC
1 TATATAAACATAGCTCGC
129778943 -ATATAAACATAGCTCG-
1 TATATAAACATAGCTCGC
* *
129778959 TATATAAATATAGCTTGC
1 TATATAAACATAGCTCGC
*
129778977 T-TATAAACATAGCTCAC
1 TATATAAACATAGCTCGC
129778994 -ATATAAACATA
1 TATATAAACATA
129779005 TATATATATA
Statistics
Matches: 121, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
16 2 0.02
17 116 0.96
18 3 0.02
ACGTcount: A:0.46, C:0.20, G:0.08, T:0.25
Consensus pattern (18 bp):
TATATAAACATAGCTCGC
Found at i:129790127 original size:31 final size:29
Alignment explanation
Indices: 129790089--129790154 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 29
129790079 TTAACAGAAT
*
129790089 AATTAATTTACTTT-TTATTTTAACGTATAAA
1 AATTAATTTA-TTTATT-TTTTAAC-TAAAAA
*
129790120 AATTAATTTATTTATTTTTTTACTAAAAA
1 AATTAATTTATTTATTTTTTAACTAAAAA
129790149 AATTAA
1 AATTAA
129790155 AATGTAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 11 0.34
30 9 0.28
31 12 0.38
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52
Consensus pattern (29 bp):
AATTAATTTATTTATTTTTTAACTAAAAA
Found at i:129793586 original size:17 final size:18
Alignment explanation
Indices: 129793554--129793591 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
129793544 TTAATTTAGA
129793554 TAAATTAATTTTTC-AAT
1 TAAATTAATTTTTCAAAT
129793571 TAAA-TAATTTTCTCAAAT
1 TAAATTAATTTT-TCAAAT
129793589 TAA
1 TAA
129793592 TTCTAATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 6 0.32
18 6 0.32
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAATTAATTTTTCAAAT
Found at i:129801698 original size:16 final size:16
Alignment explanation
Indices: 129801652--129801752 Score: 71
Period size: 16 Copynumber: 6.0 Consensus size: 16
129801642 TGAATTTATT
*
129801652 TATATATAAATTCAAAA
1 TATATTTAAATT-AAAA
129801669 -ATATTTAAATATTAAAA
1 TATATTT-AA-ATTAAAA
* *
129801686 TATATATAAATT-AAT
1 TATATTTAAATTAAAA
**
129801701 TATATGGAATATTAATAA
1 TATATTTAA-ATTAA-AA
129801719 TTATAATTTAAATTAAAA
1 -TAT-ATTTAAATTAAAA
*
129801737 AATATTTAAATTAAAA
1 TATATTTAAATTAAAA
129801753 GTTGAGTTAA
Statistics
Matches: 67, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
15 9 0.13
16 24 0.36
17 11 0.16
18 11 0.16
19 8 0.12
20 4 0.06
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (16 bp):
TATATTTAAATTAAAA
Found at i:129803829 original size:19 final size:20
Alignment explanation
Indices: 129803805--129803845 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
129803795 TATGTTTACT
*
129803805 AAAATTTCTAAC-TTATACC
1 AAAATTTCTAACACTATACC
129803824 AAAATTTCTAACACTATACC
1 AAAATTTCTAACACTATACC
129803844 AA
1 AA
129803846 TACTTTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAATTTCTAACACTATACC
Found at i:129811291 original size:3 final size:3
Alignment explanation
Indices: 129811285--129811321 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
129811275 TATTAGACTT
129811285 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
129811322 CATTTTCCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:129814128 original size:31 final size:31
Alignment explanation
Indices: 129814093--129814154 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
129814083 TAGTAGAATA
*
129814093 AGGGGTTTTGGAGGTCACTTTTAGAAGTATG
1 AGGGGTTTTGGAGGTCACTCTTAGAAGTATG
129814124 AGGGGTTTTGGAGGTCACTCTTAGAAGTATG
1 AGGGGTTTTGGAGGTCACTCTTAGAAGTATG
129814155 TGGTTTGATC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.08, G:0.35, T:0.34
Consensus pattern (31 bp):
AGGGGTTTTGGAGGTCACTCTTAGAAGTATG
Found at i:129814415 original size:31 final size:31
Alignment explanation
Indices: 129814380--129814444 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
129814370 ATATAGTAGA
129814380 ATGAGAGGTTTTGGAGGTCACTCTTAGAAGT
1 ATGAGAGGTTTTGGAGGTCACTCTTAGAAGT
*
129814411 ATGAGGGGTTTTGGAGGTCACTCTTAGAAGT
1 ATGAGAGGTTTTGGAGGTCACTCTTAGAAGT
129814442 ATG
1 ATG
129814445 TGGTTTGATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.25, C:0.09, G:0.34, T:0.32
Consensus pattern (31 bp):
ATGAGAGGTTTTGGAGGTCACTCTTAGAAGT
Found at i:129814457 original size:290 final size:290
Alignment explanation
Indices: 129813937--129814512 Score: 1089
Period size: 290 Copynumber: 2.0 Consensus size: 290
129813927 CTAAGATAAT
129813937 GGTGAACAAAATAAAGGGTTTCTTTGGGGATATCATTACTAAACAACAGAGTGCCTTTGTGCCTA
1 GGTGAACAAAATAAAGGGTTTCTTTGGGGATATCATTACTAAACAACAGAGTGCCTTTGTGCCTA
129814002 AAAGAAAAATCCTCAAATTGAAGAAAAAAGGGAAAATATCTGAAGTTGTTTTAAAGCTAAACATG
66 AAAGAAAAATCCTCAAATTGAAGAAAAAAGGGAAAATATCTGAAGTTGTTTTAAAGCTAAACATG
* *
129814067 AATAAAGAAAACGATATAGTAGAATAAGGGGTTTTGGAGGTCACTTTTAGAAGTATGAGGGGTTT
131 AATAAAGAAAACGATATAGTAGAATAAGAGGTTTTGGAGGTCACTCTTAGAAGTATGAGGGGTTT
129814132 TGGAGGTCACTCTTAGAAGTATGTGGTTTGATCAGATTTGGGTGGGGTGAATAATGGAATGTGTA
196 TGGAGGTCACTCTTAGAAGTATGTGGTTTGATCAGATTTGGGTGGGGTGAATAATGGAATGTGTA
129814197 AATACAGTTTCCTACACTTTTATCATTAAC
261 AATACAGTTTCCTACACTTTTATCATTAAC
* *
129814227 GGTGAACAAAATAAAGGGTTTTTTTGGGGATATCATTACTAAACAACATAGTGCCTTTGTGCCTA
1 GGTGAACAAAATAAAGGGTTTCTTTGGGGATATCATTACTAAACAACAGAGTGCCTTTGTGCCTA
* *
129814292 AAAGAAAAATCCTCAAATTGAAGAAAAAAGGGAAAATATCTGAAGTTGTTTTGAAGTTAAACATG
66 AAAGAAAAATCCTCAAATTGAAGAAAAAAGGGAAAATATCTGAAGTTGTTTTAAAGCTAAACATG
*
129814357 AATAAAGAAAACGATATAGTAGAATGAGAGGTTTTGGAGGTCACTCTTAGAAGTATGAGGGGTTT
131 AATAAAGAAAACGATATAGTAGAATAAGAGGTTTTGGAGGTCACTCTTAGAAGTATGAGGGGTTT
129814422 TGGAGGTCACTCTTAGAAGTATGTGGTTTGATCAGATTTGGGTGGGGTGAATAATGGAATGTGTA
196 TGGAGGTCACTCTTAGAAGTATGTGGTTTGATCAGATTTGGGTGGGGTGAATAATGGAATGTGTA
129814487 AATACAGTTTCCTACACTTTTATCAT
261 AATACAGTTTCCTACACTTTTATCAT
129814513 CAATGGTAAG
Statistics
Matches: 279, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
290 279 1.00
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (290 bp):
GGTGAACAAAATAAAGGGTTTCTTTGGGGATATCATTACTAAACAACAGAGTGCCTTTGTGCCTA
AAAGAAAAATCCTCAAATTGAAGAAAAAAGGGAAAATATCTGAAGTTGTTTTAAAGCTAAACATG
AATAAAGAAAACGATATAGTAGAATAAGAGGTTTTGGAGGTCACTCTTAGAAGTATGAGGGGTTT
TGGAGGTCACTCTTAGAAGTATGTGGTTTGATCAGATTTGGGTGGGGTGAATAATGGAATGTGTA
AATACAGTTTCCTACACTTTTATCATTAAC
Found at i:129819826 original size:28 final size:28
Alignment explanation
Indices: 129819794--129819861 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
129819784 ATTATAAGAT
** *
129819794 TTTTTTTTATTTTTTTGGGCTTTGTTGTC
1 TTTTTTTT-TTTTTGGGGGCTTTGGTGTC
*
129819823 TTTTTTTTTTTTTGGGGGTTTTGGTGTC
1 TTTTTTTTTTTTTGGGGGCTTTGGTGTC
*
129819851 TATTTTTTTTT
1 TTTTTTTTTTT
129819862 AGCTTTAGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 26 0.76
29 8 0.24
ACGTcount: A:0.03, C:0.04, G:0.19, T:0.74
Consensus pattern (28 bp):
TTTTTTTTTTTTTGGGGGCTTTGGTGTC
Found at i:129823283 original size:19 final size:19
Alignment explanation
Indices: 129823252--129823294 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
129823242 GCGTAAACAG
129823252 TTAA-TTAAATTAT-TTAAT
1 TTAATTTAAATTATATT-AT
*
129823270 TTAATTTAATTTATATTAT
1 TTAATTTAAATTATATTAT
129823289 TTAATT
1 TTAATT
129823295 ATATTGTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 16 0.73
20 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTAATTTAAATTATATTAT
Found at i:129823290 original size:14 final size:13
Alignment explanation
Indices: 129823252--129823299 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
129823242 GCGTAAACAG
*
129823252 TTAATTAAATTAT
1 TTAATTATATTAT
129823265 TTAATT-TA--AT
1 TTAATTATATTAT
129823275 TTAATTTATATTAT
1 TTAA-TTATATTAT
129823289 TTAATTATATT
1 TTAATTATATT
129823300 GTACATTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
10 6 0.20
11 2 0.07
12 3 0.10
13 13 0.43
14 6 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTAATTATATTAT
Found at i:129827977 original size:40 final size:42
Alignment explanation
Indices: 129827903--129827982 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 42
129827893 CAAGGGTTTT
* * *
129827903 CACACGGCCAAGCATACGCCCGTGTCCCTGGCCCGAGTCCCA
1 CACACGGCCAAGCACACGCCCGTGTCCATCGCCCGAGTCCCA
* *
129827945 CACACGGCCTAG-ACACGCCCGTGT-CATCGCCCGTGTCC
1 CACACGGCCAAGCACACGCCCGTGTCCATCGCCCGAGTCC
129827983 AAAAACCCAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
40 11 0.33
41 11 0.33
42 11 0.33
ACGTcount: A:0.17, C:0.45, G:0.24, T:0.14
Consensus pattern (42 bp):
CACACGGCCAAGCACACGCCCGTGTCCATCGCCCGAGTCCCA
Found at i:129832942 original size:16 final size:16
Alignment explanation
Indices: 129832923--129832959 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
129832913 AAATTTGGTT
*
129832923 CATAAATATATATATA
1 CATAAATATATATAAA
*
129832939 CATATATATATATAAA
1 CATAAATATATATAAA
129832955 CATAA
1 CATAA
129832960 CCATTCAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (16 bp):
CATAAATATATATAAA
Found at i:129838095 original size:2 final size:2
Alignment explanation
Indices: 129838088--129838113 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
129838078 GAAAAGTTCA
129838088 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
129838114 CTTAAGAGGG
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:129839772 original size:15 final size:16
Alignment explanation
Indices: 129839752--129839789 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
129839742 GTAACTTCAG
129839752 ACAATTATGTAC-CAT
1 ACAATTATGTACACAT
*
129839767 ACAATTATTTACACAT
1 ACAATTATGTACACAT
*
129839783 TCAATTA
1 ACAATTA
129839790 AGTGAATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.42, C:0.18, G:0.03, T:0.37
Consensus pattern (16 bp):
ACAATTATGTACACAT
Found at i:129842807 original size:27 final size:27
Alignment explanation
Indices: 129842765--129842818 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
129842755 CGAAATTATG
*
129842765 GTGCAAAGCAATTAGCTTACTATTCAT
1 GTGCAAAGCAACTAGCTTACTATTCAT
*
129842792 GTGCAAAGCAACTAGCTTATTATTCAT
1 GTGCAAAGCAACTAGCTTACTATTCAT
129842819 AGTAGATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (27 bp):
GTGCAAAGCAACTAGCTTACTATTCAT
Found at i:129843429 original size:16 final size:16
Alignment explanation
Indices: 129843410--129843443 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
129843400 TTAATTGGGA
129843410 AATTTAATAATTTTTT
1 AATTTAATAATTTTTT
**
129843426 AATTTTTTAATTTTTT
1 AATTTAATAATTTTTT
129843442 AA
1 AA
129843444 AATTAATTTA
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
AATTTAATAATTTTTT
Found at i:129843440 original size:9 final size:8
Alignment explanation
Indices: 129843417--129843443 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
129843407 GGAAATTTAA
129843417 TAATTTTT
1 TAATTTTT
129843425 TAATTTTT
1 TAATTTTT
129843433 TAATTTTT
1 TAATTTTT
129843441 TAA
1 TAA
129843444 AATTAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
TAATTTTT
Found at i:129847662 original size:12 final size:12
Alignment explanation
Indices: 129847645--129847669 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
129847635 AGGATATGAC
129847645 TAAAGCTAAAGA
1 TAAAGCTAAAGA
129847657 TAAAGCTAAAGA
1 TAAAGCTAAAGA
129847669 T
1 T
129847670 GAAGACTTTG
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:0.56, C:0.08, G:0.16, T:0.20
Consensus pattern (12 bp):
TAAAGCTAAAGA
Found at i:129847976 original size:16 final size:16
Alignment explanation
Indices: 129847957--129847990 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
129847947 AAGCTGAATG
*
129847957 AAATGTGAGCTCATCA
1 AAATGCGAGCTCATCA
*
129847973 AAATGCGATCTCATCA
1 AAATGCGAGCTCATCA
129847989 AA
1 AA
129847991 GTACAAGCTT
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:0.41, C:0.21, G:0.15, T:0.24
Consensus pattern (16 bp):
AAATGCGAGCTCATCA
Found at i:129848553 original size:21 final size:21
Alignment explanation
Indices: 129848522--129848578 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
129848512 TGTAACCACT
*
129848522 TTGAATTGATTGTTTTGTTGA
1 TTGAATCGATTGTTTTGTTGA
* * *
129848543 TTGACTCGATTCTTTTGTTGT
1 TTGAATCGATTGTTTTGTTGA
*
129848564 TTGAATCCATTGTTT
1 TTGAATCGATTGTTT
129848579 ATTGTTTGAC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.16, C:0.09, G:0.19, T:0.56
Consensus pattern (21 bp):
TTGAATCGATTGTTTTGTTGA
Found at i:129848614 original size:20 final size:20
Alignment explanation
Indices: 129848577--129848625 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
129848567 AATCCATTGT
* *
129848577 TTATTGTTTGACTTAATTCA
1 TTATTGTTTGAATAAATTCA
*
129848597 TTATTGTTTGAATAAATTCT
1 TTATTGTTTGAATAAATTCA
*
129848617 TTGTTGTTT
1 TTATTGTTT
129848626 AGCTCAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.06, G:0.12, T:0.59
Consensus pattern (20 bp):
TTATTGTTTGAATAAATTCA
Found at i:129849937 original size:19 final size:19
Alignment explanation
Indices: 129849913--129849949 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
129849903 ATTTTTAGGA
*
129849913 TCCACACAGCCTGGGCATT
1 TCCACACAACCTGGGCATT
129849932 TCCACACAACCTGGGCAT
1 TCCACACAACCTGGGCAT
129849950 ACGCCCGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.38, G:0.19, T:0.19
Consensus pattern (19 bp):
TCCACACAACCTGGGCATT
Found at i:129857795 original size:46 final size:46
Alignment explanation
Indices: 129857743--129857856 Score: 201
Period size: 46 Copynumber: 2.5 Consensus size: 46
129857733 AGAATAGAAA
129857743 TGAGCCATGTAAGTCCATATTAGAAATATGACTTTAGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTAGAAATATGACTTTAGAGACAGGAT
* *
129857789 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTAGAAATATGACTTTAGAGACAGGAT
*
129857835 TGAGCCATGTAAGTCTATATTA
1 TGAGCCATGTAAGTCCATATTA
129857857 TATATGGCAT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 65 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (46 bp):
TGAGCCATGTAAGTCCATATTAGAAATATGACTTTAGAGACAGGAT
Found at i:129857888 original size:44 final size:45
Alignment explanation
Indices: 129857745--129857915 Score: 164
Period size: 46 Copynumber: 3.8 Consensus size: 45
129857735 AATAGAAATG
* * * * *
129857745 AGCCATGTAAGTCCATATTAGAAATATGACTTTAGAGACAGGATTG
1 AGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGAATA
* * *
129857791 AGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGATTG
1 AGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGAATA
* * *
129857837 AGCCATGTAAGTCTATATT-ATATATGGCATTGGAGACATGAATA
1 AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAATA
** * * *
129857881 ATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
129857916 CAGGATATTG
Statistics
Matches: 108, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
44 34 0.31
45 1 0.01
46 73 0.68
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (45 bp):
AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAATA
Found at i:129867036 original size:50 final size:48
Alignment explanation
Indices: 129866832--129867051 Score: 165
Period size: 46 Copynumber: 4.6 Consensus size: 48
129866822 GGCCACATTA
* ***
129866832 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA--
1 TGAGAGC-AGTGTAAGACCATGTCTGGGACAT-GCATCAGCACCAAGATG
* * * *
129866880 AGAGAGCTAGTGTAAGA-CATGTCTAGGACATGCATCAAC-CTCGAGATG
1 TGAGAGC-AGTGTAAGACCATGTCTGGGACATGCATCAGCAC-CAAGATG
* * *
129866928 T-A-AGCCAGTGTAAGA-CATGTCTAGGACATGCATCGGCTA-CAAAATG
1 TGAGAG-CAGTGTAAGACCATGTCTGGGACATGCATCAGC-ACCAAGATG
* * *
129866974 T--G-TCAGTATAAGACCATGTCTGGGACATGACATCAGCACCAATATG
1 TGAGAGCAGTGTAAGACCATGTCTGGGACATG-CATCAGCACCAAGATG
129867020 TGAGAGTCAGTGTAAGACCATGTCTGGGACAT
1 TGAGAG-CAGTGTAAGACCATGTCTGGGACAT
129867052 AACATTGACT
Statistics
Matches: 140, Mismatches: 18, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
44 9 0.06
45 15 0.11
46 60 0.43
47 15 0.11
48 17 0.12
50 24 0.17
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (48 bp):
TGAGAGCAGTGTAAGACCATGTCTGGGACATGCATCAGCACCAAGATG
Found at i:129875470 original size:19 final size:18
Alignment explanation
Indices: 129875446--129875492 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
129875436 TTATAAAATT
129875446 AAAATTATTAAGCAT-TTAC
1 AAAATTATTAA--ATATTAC
*
129875465 AAAATTAATAAATATTAC
1 AAAATTATTAAATATTAC
129875483 AATAATTATT
1 AA-AATTATT
129875493 TTTATATCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 2 0.08
18 6 0.25
19 16 0.67
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.38
Consensus pattern (18 bp):
AAAATTATTAAATATTAC
Found at i:129880929 original size:10 final size:10
Alignment explanation
Indices: 129880909--129880953 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
129880899 TCTCAACAAA
129880909 AATTACAAAAT
1 AATT-CAAAAT
129880920 AATTCAAAAT
1 AATTCAAAAT
*
129880930 AATT-ATAAAA
1 AATTCA-AAAT
129880940 AATTCAAAAT
1 AATTCAAAAT
129880950 AATT
1 AATT
129880954 TTTAAATTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 1 0.03
10 24 0.80
11 5 0.17
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (10 bp):
AATTCAAAAT
Found at i:129880978 original size:19 final size:19
Alignment explanation
Indices: 129880920--129880979 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
129880910 ATTACAAAAT
* *
129880920 AATTCAAAATAATTATAAAA
1 AATTCAAAA-AAATATATAA
* * *
129880940 AATTCAAAATAATTTTTAA
1 AATTCAAAAAAATATATAA
*
129880959 ATTTCAAAAAAATATATAA
1 AATTCAAAAAAATATATAA
129880978 AA
1 AA
129880980 AGTTAAAATT
Statistics
Matches: 30, Mismatches: 10, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
19 21 0.70
20 9 0.30
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
AATTCAAAAAAATATATAA
Found at i:129884697 original size:11 final size:12
Alignment explanation
Indices: 129884673--129884709 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
129884663 CAGCAACTCA
129884673 ATTTT-ATAACT
1 ATTTTGATAACT
129884684 ATTTTGATAA-T
1 ATTTTGATAACT
*
129884695 ATTTTGATTACT
1 ATTTTGATAACT
129884707 ATT
1 ATT
129884710 ATTCCACACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 15 0.65
12 8 0.35
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (12 bp):
ATTTTGATAACT
Found at i:129885871 original size:16 final size:16
Alignment explanation
Indices: 129885850--129885891 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
129885840 ATGTCATCTA
*
129885850 GCTCGCCACTCCGCTT
1 GCTCGCCACCCCGCTT
129885866 GCTCGCCACCCCGCTT
1 GCTCGCCACCCCGCTT
129885882 GCTCGCCACC
1 GCTCGCCACC
129885892 TTCCCTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.07, C:0.55, G:0.19, T:0.19
Consensus pattern (16 bp):
GCTCGCCACCCCGCTT
Found at i:129887850 original size:12 final size:12
Alignment explanation
Indices: 129887833--129887866 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
129887823 CTGGCCGCCC
129887833 ATATTAATTTTT
1 ATATTAATTTTT
*
129887845 ATATTATTTTTT
1 ATATTAATTTTT
129887857 ATA-TAATTTT
1 ATATTAATTTT
129887867 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:129887887 original size:17 final size:19
Alignment explanation
Indices: 129887867--129887907 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
129887857 ATATAATTTT
*
129887867 AAAATATA-T-AATACATC
1 AAAATATATTAAAAACATC
129887884 AAAA-ATATTAAAAACATC
1 AAAATATATTAAAAACATC
129887902 AAAATA
1 AAAATA
129887908 AATATTTCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.15
17 5 0.25
18 11 0.55
19 1 0.05
ACGTcount: A:0.66, C:0.10, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAATATATTAAAAACATC
Found at i:129888316 original size:54 final size:54
Alignment explanation
Indices: 129888234--129888739 Score: 295
Period size: 54 Copynumber: 9.4 Consensus size: 54
129888224 ACGGGCTTGT
** *
129888234 CGATTTAAGATCGCAGCCTTATACTTACAAGATTTTTCGAATTTTGCAACTCGC
1 CGATTTAAGATTACAGCCTTATACTTACAAGATTTTTCGAATCTTGCAACTCGC
* * *
129888288 CGATTTAAGATTACAGTCTTATACTTACAAGATTTTTCGAATCTTGTAGCTCGC
1 CGATTTAAGATTACAGCCTTATACTTACAAGATTTTTCGAATCTTGCAACTCGC
* * ** * * * *
129888342 CGATTTAATATTTA-AGCCTTATATTTACAAGATTTTTTTAATCTTTCAGCTTGT
1 CGATTTAAGA-TTACAGCCTTATACTTACAAGATTTTTCGAATCTTGCAACTCGC
* ** * * * * ** * *
129888396 TGATTTAAGATCGCACCCTTATATTTACAGGATTTTTCAAATCTTG-AGGTTTGT
1 CGATTTAAGATTACAGCCTTATACTTACAAGATTTTTCGAATCTTGCA-ACTCGC
* * * * * *
129888450 CAATTTAAGATTGCAACCTTATACTTACAAGACTTTTT-AAATCTTCCAGCTCGC
1 CGATTTAAGATTACAGCCTTATACTTACAAGA-TTTTTCGAATCTTGCAACTCGC
** * * *** *
129888504 AAATTTAAGATCACAGCCTTATACTTATAAGA-TTTTCTGAATCTTGCGGTTAGC
1 CGATTTAAGATTACAGCCTTATACTTACAAGATTTTTC-GAATCTTGCAACTCGC
* * ** * * * ** **
129888558 TGATTTAATATCGCAACCTTATACTTACAATA-TTTTCTAAGATTGCGGCTCGC
1 CGATTTAAGATTACAGCCTTATACTTACAAGATTTTTCGAATCTTGCAACTCGC
* * * * * * * * * * *
129888611 CAATTTAATATCATAGCCTTATACCTACAGGATTTTTCAAATCTTGCGATTTGT
1 CGATTTAAGATTACAGCCTTATACTTACAAGATTTTTCGAATCTTGCAACTCGC
* * * * * ** *
129888665 AGATTTAAGATCACAACCTTATACTTATAAGATTTTTTGAATCTTGCTGCTCAC
1 CGATTTAAGATTACAGCCTTATACTTACAAGATTTTTCGAATCTTGCAACTCGC
*
129888719 CGATTTAAAATCT-CAGCCTTA
1 CGATTTAAGAT-TACAGCCTTA
129888740 GGGTCGTTTG
Statistics
Matches: 351, Mismatches: 92, Indels: 18
0.76 0.20 0.04
Matches are distributed among these distances:
52 4 0.01
53 37 0.11
54 301 0.86
55 9 0.03
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (54 bp):
CGATTTAAGATTACAGCCTTATACTTACAAGATTTTTCGAATCTTGCAACTCGC
Found at i:129888418 original size:162 final size:161
Alignment explanation
Indices: 129888228--129888711 Score: 456
Period size: 162 Copynumber: 3.0 Consensus size: 161
129888218 TGAGAAACGG
* * * * * *
129888228 GCTTGTCGATTTAAGATCGCAGCCTTATACTTACAAGATTTTTCGAATTTTGCAACTCGCCGATT
1 GCTTGTTGATTTAAGATCGCAACCTTATACTTACAAGATTTTTCAAATATTGCAGCTCGCCAATT
* * * ** * *
129888293 TAAGATTACAGTCTTATACTTACAAGATTTTTCGAATCTTGTAGCTCGCCGATTTAATATTTA-A
66 TAAGATTACAGCCTTATACTTACAAGATTTTTCAAATCTTGCAGCTCGCAAATTTAAGA-TCACA
* * * *
129888357 GCCTTATATTTACAAGATTTTTTTAATCTTTC
130 GCCTTATACTTACAAGATTTTCTGAATCTTGC
* * * * * * *
129888389 AGCTTGTTGATTTAAGATCGCACCCTTATATTTACAGGATTTTTCAAATCTTG-AGGTTTGTCAA
1 -GCTTGTTGATTTAAGATCGCAACCTTATACTTACAAGATTTTTCAAATATTGCA-GCTCGCCAA
* * *
129888453 TTTAAGATTGCAACCTTATACTTACAAGACTTTTT-AAATCTTCCAGCTCGCAAATTTAAGATCA
64 TTTAAGATTACAGCCTTATACTTACAAGA-TTTTTCAAATCTTGCAGCTCGCAAATTTAAGATCA
*
129888517 CAGCCTTATACTTATAAGATTTTCTGAATCTTGC
128 CAGCCTTATACTTACAAGATTTTCTGAATCTTGC
* * * * * * *
129888551 GGTTAGCTGATTTAATATCGCAACCTTATACTTACAATA-TTTTCTAAGATTGCGGCTCGCCAAT
1 GCTT-GTTGATTTAAGATCGCAACCTTATACTTACAAGATTTTTCAAATATTGCAGCTCGCCAAT
* * * * * * * * *
129888615 TTAATATCATAGCCTTATACCTACAGGATTTTTCAAATCTTGC-GATTTGTAGATTTAAGATCAC
65 TTAAGATTACAGCCTTATACTTACAAGATTTTTCAAATCTTGCAG-CTCGCAAATTTAAGATCAC
* * *
129888679 AACCTTATACTTATAAGATTTTTTGAATCTTGC
129 AGCCTTATACTTACAAGATTTTCTGAATCTTGC
129888712 TGCTCACCGA
Statistics
Matches: 261, Mismatches: 54, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
160 6 0.02
161 98 0.38
162 152 0.58
163 5 0.02
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (161 bp):
GCTTGTTGATTTAAGATCGCAACCTTATACTTACAAGATTTTTCAAATATTGCAGCTCGCCAATT
TAAGATTACAGCCTTATACTTACAAGATTTTTCAAATCTTGCAGCTCGCAAATTTAAGATCACAG
CCTTATACTTACAAGATTTTCTGAATCTTGC
Found at i:129888656 original size:107 final size:106
Alignment explanation
Indices: 129888230--129888701 Score: 369
Period size: 108 Copynumber: 4.4 Consensus size: 106
129888220 AGAAACGGGC
* * ** * * **
129888230 TTGTCGATTTAAGATCGCAGCCTTATACTTACAAGATTTTTCGAATTTTGCAACTCGCCGATTTA
1 TTGTAGATTTAAGATCGCAACCTTATACTTACAAGATTTTT--AAACTTCCAGCTCGCAAATTTA
* * * * ** *
129888295 AGATTACAGTCTTATACTTACAAGATTTTTCGAATCTTGTAGC
64 AGATCACAGCCTTATACTTACAGGATTTTTCAAATCTTGCGGT
* ** * ** * * * * ***
129888338 TCGCCGATTTAATAT-TTAAGCCTTATATTTACAAGATTTTTTTAATCTTTCAGCTTGTTGATTT
1 TTGTAGATTTAAGATCGCAA-CCTTATACTTACAAGA--TTTTTAAACTTCCAGCTCGCAAATTT
* * * *
129888402 AAGATCGCACCCTTATATTTACAGGATTTTTCAAATCTTGAGGT
63 AAGATCACAGCCTTATACTTACAGGATTTTTCAAATCTTGCGGT
*
129888446 TTGTCA-ATTTAAGATTGCAACCTTATACTTACAAGACTTTTTAAATCTTCCAGCTCGCAAATTT
1 TTGT-AGATTTAAGATCGCAACCTTATACTTACAAGA-TTTTTAAA-CTTCCAGCTCGCAAATTT
* * *
129888510 AAGATCACAGCCTTATACTTATAAGA-TTTTCTGAATCTTGCGGT
63 AAGATCACAGCCTTATACTTACAGGATTTTTC-AAATCTTGCGGT
* * * * * *
129888554 TAGCT-GATTTAATATCGCAACCTTATACTTACAATATTTTCTAAGA-TTGCGGCTCGCCAATTT
1 TTG-TAGATTTAAGATCGCAACCTTATACTTACAAGATTTT-TAA-ACTTCCAGCTCGCAAATTT
* * * *
129888617 AATATCATAGCCTTATACCTACAGGATTTTTCAAATCTTGCGAT
63 AAGATCACAGCCTTATACTTACAGGATTTTTCAAATCTTGCGGT
* *
129888661 TTGTAGATTTAAGATCACAACCTTATACTTATAAGATTTTT
1 TTGTAGATTTAAGATCGCAACCTTATACTTACAAGATTTTT
129888702 TGAATCTTGC
Statistics
Matches: 288, Mismatches: 63, Indels: 28
0.76 0.17 0.07
Matches are distributed among these distances:
106 2 0.01
107 95 0.33
108 182 0.63
109 4 0.01
110 5 0.02
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (106 bp):
TTGTAGATTTAAGATCGCAACCTTATACTTACAAGATTTTTAAACTTCCAGCTCGCAAATTTAAG
ATCACAGCCTTATACTTACAGGATTTTTCAAATCTTGCGGT
Found at i:129891416 original size:10 final size:10
Alignment explanation
Indices: 129891384--129891429 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
129891374 TTAAATTCTA
129891384 AAAGATAAAT
1 AAAGATAAAT
129891394 ACAA-ATAAAT
1 A-AAGATAAAT
* *
129891404 AAAGATGATT
1 AAAGATAAAT
129891414 AAAGATAAAT
1 AAAGATAAAT
129891424 AAAGAT
1 AAAGAT
129891430 CAAAGCTAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 2 0.07
10 26 0.87
11 2 0.07
ACGTcount: A:0.65, C:0.02, G:0.11, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:129892041 original size:23 final size:23
Alignment explanation
Indices: 129892010--129892059 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
129892000 TTGTTCGCAT
* *
129892010 TTTTTACAATACAATTTGAAGTA
1 TTTTCACAATACAACTTGAAGTA
* *
129892033 TTTTCACAATACAGCTTGTAGTA
1 TTTTCACAATACAACTTGAAGTA
129892056 TTTT
1 TTTT
129892060 GTAGTACCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (23 bp):
TTTTCACAATACAACTTGAAGTA
Found at i:129892615 original size:32 final size:32
Alignment explanation
Indices: 129892571--129892641 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 32
129892561 TTTTTAGACG
* ** *
129892571 TTGATTAGTACAAATTCTTGAAAAAATTGGGA
1 TTGATTAATACAAACCCTTGAAAAAATTAGGA
129892603 TTGATTAATACAAACCCTTGAAAAAATTAGGA
1 TTGATTAATACAAACCCTTGAAAAAATTAGGA
129892635 TTGATTA
1 TTGATTA
129892642 GAAATTTAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.34
Consensus pattern (32 bp):
TTGATTAATACAAACCCTTGAAAAAATTAGGA
Found at i:129893097 original size:5 final size:5
Alignment explanation
Indices: 129893087--129893114 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
129893077 TTGTGTGTTC
129893087 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
129893115 TCACAAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:129893146 original size:28 final size:28
Alignment explanation
Indices: 129893106--129893161 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
129893096 TTTTATTTTA
129893106 TTTTATTTTTCACAAATTGGTATCCGAG
1 TTTTATTTTTCACAAATTGGTATCCGAG
129893134 TTTTATTTTTCACAAATTGGTATCCGAG
1 TTTTATTTTTCACAAATTGGTATCCGAG
129893162 CTTCCGGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.46
Consensus pattern (28 bp):
TTTTATTTTTCACAAATTGGTATCCGAG
Found at i:129898075 original size:16 final size:16
Alignment explanation
Indices: 129898054--129898091 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
129898044 TCAAAACAAC
*
129898054 TCAAAC-CAGAAATGAT
1 TCAAACACA-AAATAAT
129898070 TCAAACACAAAATAAT
1 TCAAACACAAAATAAT
129898086 TCAAAC
1 TCAAAC
129898092 TTATAATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.55, C:0.21, G:0.05, T:0.18
Consensus pattern (16 bp):
TCAAACACAAAATAAT
Found at i:129902908 original size:2 final size:2
Alignment explanation
Indices: 129902901--129902936 Score: 63
Period size: 2 Copynumber: 17.5 Consensus size: 2
129902891 ATCGGGCATG
129902901 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
129902937 TAGTACATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:129905260 original size:22 final size:22
Alignment explanation
Indices: 129905215--129905292 Score: 61
Period size: 22 Copynumber: 3.6 Consensus size: 22
129905205 TTTACTATTG
* * *
129905215 TTTTGTTGTTA-TTTGTTGCCA
1 TTTTGATGTTATTTTGTTACTA
129905236 TTTTGATGTTATTTTGTTACTA
1 TTTTGATGTTATTTTGTTACTA
* * **
129905258 TTTT-ACTATTATATTACTACTA
1 TTTTGA-TGTTATTTTGTTACTA
*
129905280 TTTTGTTGTTATT
1 TTTTGATGTTATT
129905293 GTTTGAATAT
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
21 11 0.25
22 33 0.75
ACGTcount: A:0.18, C:0.08, G:0.12, T:0.63
Consensus pattern (22 bp):
TTTTGATGTTATTTTGTTACTA
Found at i:129906439 original size:24 final size:24
Alignment explanation
Indices: 129906394--129906440 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
129906384 ATACTCGTTT
*
129906394 TTTCATTTTGATATTATTTTTTTG
1 TTTCATTTTGATATTATATTTTTG
129906418 TTTCATTTTGATATT-TGATTTTT
1 TTTCATTTTGATATTAT-ATTTTT
129906441 ACATTGTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.17, C:0.04, G:0.09, T:0.70
Consensus pattern (24 bp):
TTTCATTTTGATATTATATTTTTG
Found at i:129906610 original size:25 final size:26
Alignment explanation
Indices: 129906581--129906629 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
129906571 CAAAATTATT
129906581 AAAAATATTAAAAA-TTGT-AAAATGA
1 AAAAATA-TAAAAATTTGTGAAAATGA
129906606 AAAAATATAAAAATTTGTGAAAAT
1 AAAAATATAAAAATTTGTGAAAAT
129906630 CATTAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 6 0.27
25 11 0.50
26 5 0.23
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (26 bp):
AAAAATATAAAAATTTGTGAAAATGA
Found at i:129906649 original size:8 final size:9
Alignment explanation
Indices: 129906572--129906655 Score: 52
Period size: 9 Copynumber: 9.3 Consensus size: 9
129906562 TTGACCTGTC
*
129906572 AAAATTATT
1 AAAAATATT
129906581 AAAAATATT
1 AAAAATATT
129906590 AAAAAT-TGT
1 AAAAATAT-T
129906599 -AAAATGA--
1 AAAAAT-ATT
129906606 AAAAATA-T
1 AAAAATATT
*
129906614 AAAAATTTGT
1 AAAAATAT-T
*
129906624 GAAAATCATT
1 AAAAAT-ATT
*
129906634 AAAAAAATTT
1 AAAAATA-TT
129906644 AAAAATATT
1 AAAAATATT
129906653 AAA
1 AAA
129906656 GATTGCAAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 18
0.70 0.08 0.21
Matches are distributed among these distances:
7 1 0.02
8 17 0.29
9 21 0.36
10 19 0.32
11 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (9 bp):
AAAAATATT
Found at i:129907008 original size:18 final size:18
Alignment explanation
Indices: 129906955--129907018 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 18
129906945 AGTTTTACAA
129906955 TTTTAATATT-TTTAA-AT
1 TTTTAA-ATTATTTAATAT
* * *
129906972 TTTTTAATGATTTCCATAT
1 TTTTAAATTATTT-AATAT
129906991 TTTTAAATTATTTAATAT
1 TTTTAAATTATTTAATAT
129907009 TTTCTAAATT
1 TTT-TAAATT
129907019 TAAAAATTAC
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
16 2 0.05
17 8 0.22
18 8 0.22
19 19 0.51
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTTAAATTATTTAATAT
Found at i:129907012 original size:27 final size:27
Alignment explanation
Indices: 129906960--129907010 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
129906950 TACAATTTTA
*
129906960 ATATTTTTAAATTTTTTAATGATTTCC
1 ATATTTTTAAATTATTTAATGATTTCC
129906987 ATATTTTTAAATTATTTAAT-ATTT
1 ATATTTTTAAATTATTTAATGATTT
129907011 TCTAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (27 bp):
ATATTTTTAAATTATTTAATGATTTCC
Done.