Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 423 of 433
Found at i:129752416 original size:18 final size:18
Alignment explanation
Indices: 129752390--129752424 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
129752380 TTGAAACAAA
*
129752390 TTTTATAAATTTTTTAAT
1 TTTTATAAAATTTTTAAT
*
129752408 TTTTTTAAAATTTTTAA
1 TTTTATAAAATTTTTAA
129752425 CAATTTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTATAAAATTTTTAAT
Found at i:129757036 original size:13 final size:14
Alignment explanation
Indices: 129757020--129757048 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
129757010 TTTTTTTTTT
129757020 AATTTT-CTGGGAA
1 AATTTTACTGGGAA
129757033 AATTTTACTGGGAA
1 AATTTTACTGGGAA
129757047 AA
1 AA
129757049 GTTAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (14 bp):
AATTTTACTGGGAA
Found at i:129758795 original size:31 final size:31
Alignment explanation
Indices: 129758757--129758819 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
129758747 ATCATAGTGG
* ** *
129758757 CTTAAATAAAAACTTTTGAATAGTTCACTGA
1 CTTAAATAAAAACATCCGAATAGTTCAATGA
129758788 CTTAAATAAAAACATCCGAATAGTTCAATGA
1 CTTAAATAAAAACATCCGAATAGTTCAATGA
129758819 C
1 C
129758820 CAATTTGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.30
Consensus pattern (31 bp):
CTTAAATAAAAACATCCGAATAGTTCAATGA
Found at i:129760260 original size:2 final size:2
Alignment explanation
Indices: 129760255--129760287 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
129760245 TTTTTATTCA
*
129760255 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
129760288 CACCTAATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:129765636 original size:2 final size:2
Alignment explanation
Indices: 129765631--129765662 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
129765621 TAAAAAAAAA
129765631 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
129765663 TTATTAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:129778757 original size:2 final size:2
Alignment explanation
Indices: 129778750--129778786 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
129778740 GAGCCGCAAC
*
129778750 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
129778787 CGTATTTTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:129778791 original size:10 final size:10
Alignment explanation
Indices: 129778750--129778791 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
129778740 GAGCCGCAAC
*
129778750 ATATATATAT
1 ATATATATGT
*
129778760 ATATATATAT
1 ATATATATGT
129778770 ATATATATGT
1 ATATATATGT
*
129778780 ATATATACGT
1 ATATATATGT
129778790 AT
1 AT
129778792 TTTGGTTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (10 bp):
ATATATATGT
Found at i:129780107 original size:19 final size:22
Alignment explanation
Indices: 129780079--129780123 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 22
129780069 ATATGATACT
*
129780079 TCTTTTAAAA-AAAA-T-AATG
1 TCTTTAAAAAGAAAAGTAAATG
129780098 TCTTTAAAAAGAAAAGTAAATG
1 TCTTTAAAAAGAAAAGTAAATG
129780120 TCTT
1 TCTT
129780124 AAGCATGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 9 0.41
20 4 0.18
21 1 0.05
22 8 0.36
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.36
Consensus pattern (22 bp):
TCTTTAAAAAGAAAAGTAAATG
Found at i:129793369 original size:28 final size:28
Alignment explanation
Indices: 129793294--129793374 Score: 68
Period size: 24 Copynumber: 3.1 Consensus size: 28
129793284 TTATTAAAAA
129793294 AATA-AAAAATAAATATTTT-TA-TT-T
1 AATATAAAAATAAATATTTTATATTTAT
* * * *
129793318 AAT-TTATAATTAAT-TTTAAT-TTTAT
1 AATATAAAAATAAATATTTTATATTTAT
*
129793343 AATATAAAAATAAATATTTTATATTTAA
1 AATATAAAAATAAATATTTTATATTTAT
129793371 AATA
1 AATA
129793375 ATGAATGCAA
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
23 3 0.07
24 13 0.32
25 4 0.10
26 8 0.20
27 5 0.12
28 8 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
AATATAAAAATAAATATTTTATATTTAT
Found at i:129797259 original size:58 final size:58
Alignment explanation
Indices: 129797195--129797310 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
129797185 GTGGAAGGAA
129797195 ATTTTAGGGAAGAGGATGGTAAGGATGAAATTCGGAAACAGGAGTCAATGAGCATGTG
1 ATTTTAGGGAAGAGGATGGTAAGGATGAAATTCGGAAACAGGAGTCAATGAGCATGTG
*
129797253 ATTTTAGGGAAGAGGATGGTAAGGATGAAATTCGGAAACGGGAGTCAATGAGCATGTG
1 ATTTTAGGGAAGAGGATGGTAAGGATGAAATTCGGAAACAGGAGTCAATGAGCATGTG
129797311 TGATTTGGCC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.35, C:0.07, G:0.35, T:0.22
Consensus pattern (58 bp):
ATTTTAGGGAAGAGGATGGTAAGGATGAAATTCGGAAACAGGAGTCAATGAGCATGTG
Found at i:129800719 original size:31 final size:29
Alignment explanation
Indices: 129800679--129800753 Score: 71
Period size: 31 Copynumber: 2.5 Consensus size: 29
129800669 TCTTGAATTT
* *
129800679 TTTAGAAAATTTTAATTAAACTCACTAAAGTA
1 TTTA-AAAATTTTAATTAAACACAC-AAA-AA
*
129800711 TTTAAAAATTCTT-ATTAATCACACAAAAA
1 TTTAAAAATT-TTAATTAAACACACAAAAA
*
129800740 TTTTAAAATTTTAA
1 TTTAAAAATTTTAA
129800754 CTAGACCATC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
28 2 0.05
29 11 0.30
30 3 0.08
31 15 0.41
32 6 0.16
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.40
Consensus pattern (29 bp):
TTTAAAAATTTTAATTAAACACACAAAAA
Found at i:129802049 original size:37 final size:37
Alignment explanation
Indices: 129802008--129802080 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
129801998 ACACATAATA
*
129802008 GTCCCACATTTATGCATCTCATTATTTCCCTTTGAAT
1 GTCCCACATGTATGCATCTCATTATTTCCCTTTGAAT
*
129802045 GTCCCACATGTATGCATCTCATTATTTCCTTTTGAA
1 GTCCCACATGTATGCATCTCATTATTTCCCTTTGAA
129802081 AACTTGGACC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.22, C:0.26, G:0.10, T:0.42
Consensus pattern (37 bp):
GTCCCACATGTATGCATCTCATTATTTCCCTTTGAAT
Found at i:129805260 original size:16 final size:16
Alignment explanation
Indices: 129805239--129805278 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
129805229 GTAAATATAT
129805239 TTGGGCCTTATTGGGC
1 TTGGGCCTTATTGGGC
*
129805255 TTGGGCCTTGTTGGGC
1 TTGGGCCTTATTGGGC
129805271 TTGGGCCT
1 TTGGGCCT
129805279 ATTAAGTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.03, C:0.20, G:0.40, T:0.38
Consensus pattern (16 bp):
TTGGGCCTTATTGGGC
Found at i:129807533 original size:26 final size:28
Alignment explanation
Indices: 129807504--129807556 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 28
129807494 TGCCAATTCC
129807504 TAAAACAAAATTC-AAAATAA-TCAAAA
1 TAAAACAAAATTCAAAAATAATTCAAAA
***
129807530 TAAATGTAAATTCAAAAATAATTCAAA
1 TAAAACAAAATTCAAAAATAATTCAAA
129807557 TTTCAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 10 0.45
27 7 0.32
28 5 0.23
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.25
Consensus pattern (28 bp):
TAAAACAAAATTCAAAAATAATTCAAAA
Found at i:129818958 original size:6 final size:6
Alignment explanation
Indices: 129818947--129818977 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
129818937 TATTGGGCTA
*
129818947 TGTTAG TGTTAG TGTTAG TGTTAA TGTTAG T
1 TGTTAG TGTTAG TGTTAG TGTTAG TGTTAG T
129818978 TGTAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (6 bp):
TGTTAG
Found at i:129824326 original size:47 final size:47
Alignment explanation
Indices: 129824287--129824418 Score: 239
Period size: 47 Copynumber: 2.8 Consensus size: 47
129824277 TGTCGACTAC
129824287 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
1 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
129824334 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
1 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
* *
129824381 TGTTAAAGTTCCGGATTTGTTCC-ATGAAGCACTATGTG
1 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTG
129824419 CTTATCCCGG
Statistics
Matches: 83, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
46 13 0.16
47 70 0.84
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (47 bp):
TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
Found at i:129831629 original size:47 final size:47
Alignment explanation
Indices: 129831565--129831675 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
129831555 GACATTGAGT
*
129831565 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
129831612 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
129831659 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
129831676 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:129833571 original size:23 final size:23
Alignment explanation
Indices: 129833545--129833596 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
129833535 ATTAGTTGAA
* *
129833545 GTTATCGTTTATTCATGGATGAG
1 GTTATCGTTTATTCATGCATAAG
129833568 GTTATCGTTTATTCATGCATAAG
1 GTTATCGTTTATTCATGCATAAG
129833591 GTTATC
1 GTTATC
129833597 TTTTCTTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.23, C:0.12, G:0.21, T:0.44
Consensus pattern (23 bp):
GTTATCGTTTATTCATGCATAAG
Found at i:129833638 original size:18 final size:19
Alignment explanation
Indices: 129833610--129833645 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
129833600 TCTTAAGTTA
129833610 CAATGTATAATTATAAATT
1 CAATGTATAATTATAAATT
*
129833629 CAAT-TATAATTGTAAAT
1 CAATGTATAATTATAAAT
129833646 ATAAATAATA
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:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (19 bp):
CAATGTATAATTATAAATT
Found at i:129834506 original size:79 final size:79
Alignment explanation
Indices: 129834297--129834805 Score: 517
Period size: 79 Copynumber: 6.5 Consensus size: 79
129834287 ATTGACTCAT
* * * * * *
129834297 ACCACTCATTTAAGATTTTTTTTGAATAATCTCATGATAGGTT-TTATCATATTTGTTCTTTTTG
1 ACCACCCATTCAAGATTTTTTTTGAACAATCTCATTAAAGGTTCTGATCATATTTGTTCTTTTTG
* *
129834361 ACACAATGTCTATA
66 ACACAATGCCTAGA
* * * * * * *
129834375 ACTATCCGTTTAAGA-TTTTTTTGAACAATCTCATTATAGGTTCTGATTATATTTATTCTTTTTG
1 ACCACCCATTCAAGATTTTTTTTGAACAATCTCATTAAAGGTTCTGATCATATTTGTTCTTTTTG
**
129834439 ACACAATATCTAGA
66 ACACAATGCCTAGA
* * *
129834453 ACCACCCATTCAAGTTTTTTTTTGAACAATTTCATTAAAGCTTCTGATCATATTTGTTCTTTTTG
1 ACCACCCATTCAAGATTTTTTTTGAACAATCTCATTAAAGGTTCTGATCATATTTGTTCTTTTTG
*
129834518 ACATAATGCCTAGA
66 ACACAATGCCTAGA
* * * *
129834532 ACCACCCATTCAAGAAATTTTTTTT-AACAATCTCATTATAGGTTTTGATCATATCTGCTC-TTT
1 ACCACCCATTCAAG--ATTTTTTTTGAACAATCTCATTAAAGGTTCTGATCATATTTGTTCTTTT
*
129834595 TGACACAATACCTAGA
64 TGACACAATGCCTAGA
* * * * **
129834611 ACCACCCATTCAAGATTTTTTTTTAACAATCTAATTATAA-GTTTTGATCATATCTACTCTTTTT
1 ACCACCCATTCAAGATTTTTTTTGAACAATCTCATTA-AAGGTTCTGATCATATTTGTTCTTTTT
*
129834675 GACACAATGCCTGGA
65 GACACAATGCCTAGA
* * * * * **
129834690 ATCACCGATTCAAGATTTTTTTTTAACAATCTCCTTATAA-GTTCTAATCATATTTGTAATTTTT
1 ACCACCCATTCAAGATTTTTTTTGAACAATCTCATTA-AAGGTTCTGATCATATTTGTTCTTTTT
* *
129834754 AACACAATGTCTAGA
65 GACACAATGCCTAGA
* * * * *
129834769 ACAACCCATTTAAGATTTTCTTCGAACAACCTCATTA
1 ACCACCCATTCAAGATTTTTTTTGAACAATCTCATTA
129834806 TCAATTTTAA
Statistics
Matches: 363, Mismatches: 61, Indels: 13
0.83 0.14 0.03
Matches are distributed among these distances:
77 34 0.09
78 81 0.22
79 211 0.58
80 29 0.08
81 8 0.02
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.42
Consensus pattern (79 bp):
ACCACCCATTCAAGATTTTTTTTGAACAATCTCATTAAAGGTTCTGATCATATTTGTTCTTTTTG
ACACAATGCCTAGA
Found at i:129834703 original size:237 final size:237
Alignment explanation
Indices: 129834311--129834783 Score: 585
Period size: 237 Copynumber: 2.0 Consensus size: 237
129834301 CTCATTTAAG
* * * ** *
129834311 ATTTTTTTTGAATAATCTCATGATAGGTTTTATCATATTTGTTCTTTTTGACACAATGTCTATAA
1 ATTTTTTTTGAACAATCTCATGATAGGTTTTATCATATCTGCTCTTTTTGACACAATACCTAGAA
* * * * * * * * *
129834376 CTATCCGTTTAAGATTTTTTTGAACAATCTCATTATAGGTTCTGATTATATTTATTCTTTTTGAC
66 CCACCCATTCAAGATTTTTTTGAACAATCTAATTATAAGTTCTGATCATATCTACTCTTTTTGAC
* * *
129834441 ACAATATCTAGAACCACCCATTCAAG-TTTTTTTTTGAACAATTTCATTA-AAGCTTCTGATCAT
131 ACAATACCTAGAACCACCCATTCAAGATTTTTTTTT-AACAATCTCATTATAAG-TTCTAATCAT
** * * *
129834504 ATTTGTTCTTTTTGACATAATGCCTAGAACCACCCATTCAAGAA
194 ATTTGTAATTTTTAACACAATGCCTAGAACAACCCATTCAAGAA
*
129834548 ATTTTTTTT-AACAATCTCATTATAGGTTTTGATCATATCTGCTC-TTTTGACACAATACCTAGA
1 ATTTTTTTTGAACAATCTCATGATAGGTTTT-ATCATATCTGCTCTTTTTGACACAATACCTAGA
* *
129834611 ACCACCCATTCAAGATTTTTTTTTAACAATCTAATTATAAGTTTTGATCATATCTACTCTTTTTG
65 ACCACCCATTCAAGA-TTTTTTTGAACAATCTAATTATAAGTTCTGATCATATCTACTCTTTTTG
* * * * *
129834676 ACACAATGCCTGGAATCACCGATTCAAGATTTTTTTTTAACAATCTCCTTATAAGTTCTAATCAT
129 ACACAATACCTAGAACCACCCATTCAAGATTTTTTTTTAACAATCTCATTATAAGTTCTAATCAT
* *
129834741 ATTTGTAATTTTTAACACAATGTCTAGAACAACCCATTTAAGA
194 ATTTGTAATTTTTAACACAATGCCTAGAACAACCCATTCAAGA
129834784 TTTTCTTCGA
Statistics
Matches: 199, Mismatches: 33, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
236 46 0.23
237 141 0.71
238 12 0.06
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.43
Consensus pattern (237 bp):
ATTTTTTTTGAACAATCTCATGATAGGTTTTATCATATCTGCTCTTTTTGACACAATACCTAGAA
CCACCCATTCAAGATTTTTTTGAACAATCTAATTATAAGTTCTGATCATATCTACTCTTTTTGAC
ACAATACCTAGAACCACCCATTCAAGATTTTTTTTTAACAATCTCATTATAAGTTCTAATCATAT
TTGTAATTTTTAACACAATGCCTAGAACAACCCATTCAAGAA
Found at i:129835516 original size:17 final size:17
Alignment explanation
Indices: 129835496--129835528 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
129835486 TCAAAAGGAG
129835496 TTTGAGGGAAAAAAAGC
1 TTTGAGGGAAAAAAAGC
*
129835513 TTTGAGGGAAATAAAG
1 TTTGAGGGAAAAAAAG
129835529 AAGGATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.30, T:0.21
Consensus pattern (17 bp):
TTTGAGGGAAAAAAAGC
Found at i:129836865 original size:40 final size:40
Alignment explanation
Indices: 129836821--129836898 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
129836811 ATATAAGAAG
129836821 AACCTAATTAACATACCAAAATAATGAAAAATACAATATT
1 AACCTAATTAACATACCAAAATAATGAAAAATACAATATT
* * *
129836861 AACCTAATTAACATACTAAAATAATGATAAATGCAATA
1 AACCTAATTAACATACCAAAATAATGAAAAATACAATA
129836899 ATGCAAGCCA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.56, C:0.14, G:0.04, T:0.26
Consensus pattern (40 bp):
AACCTAATTAACATACCAAAATAATGAAAAATACAATATT
Found at i:129837738 original size:2 final size:2
Alignment explanation
Indices: 129837733--129837769 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
129837723 TGCGTGTGTG
* *
129837733 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
129837770 TTCTGGCTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (2 bp):
TA
Found at i:129837844 original size:18 final size:18
Alignment explanation
Indices: 129837811--129837850 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
129837801 GATATTTAAT
** *
129837811 TTTATTTTATTTTTCATG
1 TTTATTTTATGATTCATA
129837829 TTTATTTTATGATTCATA
1 TTTATTTTATGATTCATA
129837847 TTTA
1 TTTA
129837851 AGATTCGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTATTTTATGATTCATA
Found at i:129838873 original size:143 final size:143
Alignment explanation
Indices: 129838688--129838984 Score: 585
Period size: 143 Copynumber: 2.1 Consensus size: 143
129838678 TGAAAAATAT
129838688 AAGAACTTAAAATGATTAAATTGAATAACATGGACTAACTAGTAATTGAACTTAAACAAACAGAT
1 AAGAA-TTAAAATGATTAAATTGAATAACATGGACTAACTAGTAATTGAACTTAAACAAACAGAT
129838753 TTAATTGTTACTGTTTGGGTTACACCAAAATTGACCAGTTCAAAAGTTACAGGGACTAAAATTGA
65 TTAATTGTTACTGTTTGGGTTACACCAAAATTGACCAGTTCAAAAGTTACAGGGACTAAAATTGA
129838818 TCAAATAAAAGTAC
130 TCAAATAAAAGTAC
129838832 AAGAATTAAAATGATTAAATTGAATAACATGGACTAACTAGTAATTGAACTTAAACAAACAGATT
1 AAGAATTAAAATGATTAAATTGAATAACATGGACTAACTAGTAATTGAACTTAAACAAACAGATT
129838897 TAATTGTTACTGTTTGGGTTACACCAAAATTGACCAGTTCAAAAGTTACAGGGACTAAAATTGAT
66 TAATTGTTACTGTTTGGGTTACACCAAAATTGACCAGTTCAAAAGTTACAGGGACTAAAATTGAT
129838962 CAAATAAAAGTAC
131 CAAATAAAAGTAC
129838975 AAGAATTAAA
1 AAGAATTAAA
129838985 TCCACAACTT
Statistics
Matches: 153, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
143 148 0.97
144 5 0.03
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.28
Consensus pattern (143 bp):
AAGAATTAAAATGATTAAATTGAATAACATGGACTAACTAGTAATTGAACTTAAACAAACAGATT
TAATTGTTACTGTTTGGGTTACACCAAAATTGACCAGTTCAAAAGTTACAGGGACTAAAATTGAT
CAAATAAAAGTAC
Found at i:129839210 original size:20 final size:20
Alignment explanation
Indices: 129839182--129839226 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
129839172 CGACCTACCG
*
129839182 GATTGTCCAACCAGGTTAGT
1 GATTCTCCAACCAGGTTAGT
129839202 GATTCTCCAACCAGGTTAGT
1 GATTCTCCAACCAGGTTAGT
129839222 GATTC
1 GATTC
129839227 GGGTCAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (20 bp):
GATTCTCCAACCAGGTTAGT
Found at i:129839866 original size:18 final size:18
Alignment explanation
Indices: 129839839--129839907 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
129839829 CTTTAAAATC
*
129839839 TTTTTAAAAATTTTATAA
1 TTTTTTAAAATTTTATAA
* *
129839857 TTTTTTAAAAATATATAA
1 TTTTTTAAAATTTTATAA
* ** *
129839875 ATTTTGGAATTTTTATAAA
1 TTTTTTAAAATTTTAT-AA
*
129839894 TATTTTAAAATTTT
1 TTTTTTAAAATTTT
129839908 GAAAGTTATT
Statistics
Matches: 36, Mismatches: 14, Indels: 1
0.71 0.27 0.02
Matches are distributed among these distances:
18 25 0.69
19 11 0.31
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (18 bp):
TTTTTTAAAATTTTATAA
Found at i:129839877 original size:19 final size:18
Alignment explanation
Indices: 129839834--129839879 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
129839824 ATATTCTTTA
*
129839834 AAATCTTTTTAAAAATTTT
1 AAAT-TTTTTAAAAATTAT
129839853 ATAATTTTTTAAAAATATAT
1 A-AATTTTTTAAAAAT-TAT
129839873 AAATTTT
1 AAATTTT
129839880 GGAATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
AAATTTTTTAAAAATTAT
Found at i:129848844 original size:22 final size:22
Alignment explanation
Indices: 129848818--129848873 Score: 112
Period size: 22 Copynumber: 2.5 Consensus size: 22
129848808 CCCACCATTT
129848818 GAAACTATTGGTGACTGATAGA
1 GAAACTATTGGTGACTGATAGA
129848840 GAAACTATTGGTGACTGATAGA
1 GAAACTATTGGTGACTGATAGA
129848862 GAAACTATTGGT
1 GAAACTATTGGT
129848874 ATCTATAGCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.36, C:0.09, G:0.27, T:0.29
Consensus pattern (22 bp):
GAAACTATTGGTGACTGATAGA
Found at i:129853786 original size:30 final size:30
Alignment explanation
Indices: 129853752--129853813 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
129853742 ATTTAAAGAG
129853752 ATAATTTACATAATCTTAAAATGTCACGTC
1 ATAATTTACATAATCTTAAAATGTCACGTC
129853782 ATAATTTACATAATCTTAAAATGTCACGTC
1 ATAATTTACATAATCTTAAAATGTCACGTC
129853812 AT
1 AT
129853814 TGTATTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.06, T:0.37
Consensus pattern (30 bp):
ATAATTTACATAATCTTAAAATGTCACGTC
Found at i:129855593 original size:47 final size:47
Alignment explanation
Indices: 129855534--129855628 Score: 163
Period size: 47 Copynumber: 2.0 Consensus size: 47
129855524 ATTATGAAAG
* *
129855534 AAAAACTCATATTATTAAATTAAAATTAAATTAACAATAAAACATAA
1 AAAAACTAATATTATTAAATTAAAATAAAATTAACAATAAAACATAA
*
129855581 AAAAACTAATATTATTAAATTAAAATAAAATTAATAATAAAACATAA
1 AAAAACTAATATTATTAAATTAAAATAAAATTAACAATAAAACATAA
129855628 A
1 A
129855629 TTACTCAGAC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.29
Consensus pattern (47 bp):
AAAAACTAATATTATTAAATTAAAATAAAATTAACAATAAAACATAA
Found at i:129859371 original size:174 final size:174
Alignment explanation
Indices: 129859081--129859535 Score: 687
Period size: 174 Copynumber: 2.6 Consensus size: 174
129859071 TACTTTTACC
* *
129859081 GGATTACACATTC-AGTTTTCAAGTTCTATGAGCTCACATACATGGAGTATACTAGTATTAACAA
1 GGATTACACA-TCAAGTTTTCAAGTTCTATGAGCTCATAGACATGGAGTATACTAGTATTAACAA
** * * * * *
129859145 GCTTATATTTACCATTTTGAAACGATACAATTTCGTTTCCATCGAGAAAACAATGACAAGGAGGT
65 GCTTACCTTCACCATTTCGAAACGATACAATTTCATTTCCATCAAGAAAACAATGACAACGAGGT
* *
129859210 TATTGCAACCAAATTTAGTACTGATTCGAGCACTTAATGAATTAA
130 AATTGCAACCAAATTTAGTACTGATTAGAGCACTTAATGAATTAA
* * *
129859255 GGATTACACATCAAGTTTTCATGTTCTATGAGCTCATAGACATGGAGTATACTGGTATCAACAAG
1 GGATTACACATCAAGTTTTCAAGTTCTATGAGCTCATAGACATGGAGTATACTAGTATTAACAAG
* *
129859320 CTTACCTTCACCATTTCGAAACAAAACAATTTCATTTCCATCAAGAAAACAATGACAACGAGGTA
66 CTTACCTTCACCATTTCGAAACGATACAATTTCATTTCCATCAAGAAAACAATGACAACGAGGTA
129859385 ATTGCAACCAAATTTAGTACTGATTAGAGCACTTAATGAATTAA
131 ATTGCAACCAAATTTAGTACTGATTAGAGCACTTAATGAATTAA
* * * * * *
129859429 GGATCACGCATTAAGTTTTCAAGTTCCATGAGCTCCTAGACATGGAATATACTAGTATTAACAAG
1 GGATTACACATCAAGTTTTCAAGTTCTATGAGCTCATAGACATGGAGTATACTAGTATTAACAAG
*
129859494 CTTACCTTCACCATTTCGAATCGATACAATTTCATTTCCATC
66 CTTACCTTCACCATTTCGAAACGATACAATTTCATTTCCATC
129859536 TGAAAATAAC
Statistics
Matches: 252, Mismatches: 28, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
173 2 0.01
174 250 0.99
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (174 bp):
GGATTACACATCAAGTTTTCAAGTTCTATGAGCTCATAGACATGGAGTATACTAGTATTAACAAG
CTTACCTTCACCATTTCGAAACGATACAATTTCATTTCCATCAAGAAAACAATGACAACGAGGTA
ATTGCAACCAAATTTAGTACTGATTAGAGCACTTAATGAATTAA
Found at i:129860463 original size:12 final size:12
Alignment explanation
Indices: 129860446--129860470 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
129860436 TAGAAACTTA
129860446 AATAATAAAAGG
1 AATAATAAAAGG
129860458 AATAATAAAAGG
1 AATAATAAAAGG
129860470 A
1 A
129860471 TACGATTTGA
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:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (12 bp):
AATAATAAAAGG
Found at i:129862606 original size:9 final size:9
Alignment explanation
Indices: 129862585--129862621 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
129862575 GTCCATGTAT
129862585 AATTCATAAA
1 AATTCA-AAA
129862595 AATTCAAAA
1 AATTCAAAA
*
129862604 AATTTAAAA
1 AATTCAAAA
129862613 AATTCAAAA
1 AATTCAAAA
129862622 TTAGAAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 19 0.76
10 6 0.24
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (9 bp):
AATTCAAAA
Found at i:129865830 original size:54 final size:54
Alignment explanation
Indices: 129865772--129865876 Score: 133
Period size: 54 Copynumber: 1.9 Consensus size: 54
129865762 TTGGTTTTTC
*
129865772 GTAATGACCCCATCAGAAGTAG-AGGTTGATTCCCTTCTAGAAATTC-GATTTATG
1 GTAATGACCCCATCAG-AGGAGAAGGTTGATTCCCTTCTAG-AATTCTGATTTATG
* * * *
129865826 GTAATGATCCTATCAGAGGCGAAGGTTGATTCCTTTCTAGAATTCTGATTT
1 GTAATGACCCCATCAGAGGAGAAGGTTGATTCCCTTCTAGAATTCTGATTT
129865877 CGAGCAATCA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
53 8 0.18
54 36 0.82
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (54 bp):
GTAATGACCCCATCAGAGGAGAAGGTTGATTCCCTTCTAGAATTCTGATTTATG
Found at i:129865890 original size:54 final size:53
Alignment explanation
Indices: 129865794--129865921 Score: 143
Period size: 54 Copynumber: 2.4 Consensus size: 53
129865784 TCAGAAGTAG
* * *
129865794 AGGTTGATTCCCTTCTAGAAATTCGATTTATGGTAATGATCCTATCAGAG-GCGA
1 AGGTTGATTCCCTTCTAG-AATTCGATTTACGGCAATCATCCTA-CAGAGAGCGA
* * * *
129865848 AGGTTGATTCCTTTCTAGAATTCTGATTT-CGAGCAATCATCCTACCGGGAGTGA
1 AGGTTGATTCCCTTCTAGAATTC-GATTTACG-GCAATCATCCTACAGAGAGCGA
129865902 AGGTTGATTCCCTTCTAGAA
1 AGGTTGATTCCCTTCTAGAA
129865922 ATTTGATCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
53 9 0.14
54 54 0.86
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.34
Consensus pattern (53 bp):
AGGTTGATTCCCTTCTAGAATTCGATTTACGGCAATCATCCTACAGAGAGCGA
Found at i:129867225 original size:30 final size:27
Alignment explanation
Indices: 129867166--129867225 Score: 66
Period size: 30 Copynumber: 2.1 Consensus size: 27
129867156 TCAATTAGTT
* * *
129867166 TCCCTATTATTAAATAGATCAATTTAG
1 TCCCTATTATTAAAAAGATCAAATAAG
129867193 TCCCTATACTATTAAAAAGAATCAAATAAG
1 TCCCTAT--TATTAAAAAG-ATCAAATAAG
129867223 TCC
1 TCC
129867226 AAACTGTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 7 0.26
29 9 0.33
30 11 0.41
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (27 bp):
TCCCTATTATTAAAAAGATCAAATAAG
Found at i:129870046 original size:43 final size:42
Alignment explanation
Indices: 129869942--129870052 Score: 172
Period size: 41 Copynumber: 2.7 Consensus size: 42
129869932 AATTCGTAAT
*
129869942 AAAATGC-AAAATAAGCTAAGAACTAACTTCAAAATTAAATA
1 AAAATGCAAAAATAAGCTAAGAACAAACTTCAAAATTAAATA
*
129869983 AAAATG-AAAAATAAGCTAAGAACAAACTTCAGAAATTGAATA
1 AAAATGCAAAAATAAGCTAAGAACAAACTTCA-AAATTAAATA
*
129870025 AAAATGCAAAAATAAGCTAAGAAAAAAC
1 AAAATGCAAAAATAAGCTAAGAACAAAC
129870053 AAGAAATTAA
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
41 29 0.45
42 15 0.23
43 20 0.31
ACGTcount: A:0.61, C:0.11, G:0.10, T:0.18
Consensus pattern (42 bp):
AAAATGCAAAAATAAGCTAAGAACAAACTTCAAAATTAAATA
Found at i:129877091 original size:189 final size:189
Alignment explanation
Indices: 129876662--129877779 Score: 1552
Period size: 189 Copynumber: 5.9 Consensus size: 189
129876652 AAATATAGCC
* *
129876662 TATGAGCACAGCTAACTTCTAATTTTATATATGAACTAAAACAACTTCAAATTCTTAAAACAAGA
1 TATGGGCATAGCTAACTTCTAATTTTATATATGAACTAAAACAACTTCAAATTCTTAAAACAAGA
*
129876727 GTAAAAAGATTGATCAAATTATCCACAATTATCAAATCAAAATTAATAAACAAAAACAGAAAGAA
66 GTAAAAAAATTGATCAAATTATCCACAATTATCAAATCAAAATTAATAAACAAAAAC----AGAA
* * * **
129876792 AGAAAGAAAGAAAGATAACATTTGTTCTTGGATTTCAGATGATGCAGAAAGGAATTTCTTTATA
127 AGAAAGAAAGAAAGATAACATTTGTTCTTGGATTTCAGCTAATACA-AAAAAAATTTCTTTATA
* *
129876856 TATGGGCATAGCTAACTTCTAA-TTTATATATGAACGAAAACAATTTCAAATTCTTAAAACAAGA
1 TATGGGCATAGCTAACTTCTAATTTTATATATGAACTAAAACAACTTCAAATTCTTAAAACAAGA
*
129876920 GTAAAAAAATTGATCAAATTATCCACAATTATCAAATAAAAATTAATAAACAAAAACAGAAAGAA
66 GTAAAAAAATTGATCAAATTATCCACAATTATCAAATCAAAATTAATAAACAAAAACAGAAAGAA
129876985 AGAAAGAAAGATAACATTTGTTCTTGGATTTCAGCTAATACAAAAAAGAATTTCTTTATA
131 AGAAAGAAAGATAACATTTGTTCTTGGATTTCAGCTAATACAAAAAA-AATTTCTTTATA
* * *
129877045 TATGGGCGTAGCTAACTTCTAA-TTTATATATGAACGAAAACAATTTCAAATTCTTAAAACAAGA
1 TATGGGCATAGCTAACTTCTAATTTTATATATGAACTAAAACAACTTCAAATTCTTAAAACAAGA
129877109 GTAAAAAAATTGATCAAATTATCCACAATTATCAAATCAAAATTAATAAACAAAAAC----AGAA
66 GTAAAAAAATTGATCAAATTATCCACAATTATCAAATCAAAATTAATAAACAAAAACAGAAAGAA
* *
129877170 AGAAAGAAAGATACCATTTGTTCTTGGATTTCAGCTAATA-GAAAAAAATTTCTTTACACATGGC
131 AGAAAGAAAGATAACATTTGTTCTTGGATTTCAGCTAATACAAAAAAAATTTCTTT----AT---
*
129877234 C
189 A
* *
129877235 TATGAGCACAGCTAACTTCTAATTTTATATATGAACTAAAACAACTTCAAATTCTTAAAACAAGA
1 TATGGGCATAGCTAACTTCTAATTTTATATATGAACTAAAACAACTTCAAATTCTTAAAACAAGA
* *
129877300 GTTAAAAAATTGATCAAATTATCCACAATTATCAAATCAAAACTAATAAACAAAAAC----AGAA
66 GTAAAAAAATTGATCAAATTATCCACAATTATCAAATCAAAATTAATAAACAAAAACAGAAAGAA
* * * * * *
129877361 AG--A-AAATATATCATTTGTTCTTGAATTTCAGCTAATAGAAAAAAAAATTCTTTACA
131 AGAAAGAAAGATAACATTTGTTCTTGGATTTCAGCTAATACAAAAAAAATTTCTTTATA
* *
129877417 TAAGGGCGTAGCTAACTTCTAATTTTATATATGAACTAAAACAACTTCAAATTCTTAAAACAAGA
1 TATGGGCATAGCTAACTTCTAATTTTATATATGAACTAAAACAACTTCAAATTCTTAAAACAAGA
*
129877482 GTAAAAAAATTTGATCAAATTATCCACAATTATCAAATCAAAATTAACAAA-AAAAACAGAAAGA
66 GTAAAAAAA-TTGATCAAATTATCCACAATTATCAAATCAAAATTAATAAACAAAAACAGAAAGA
* * *
129877546 AAGAAAGAAAGA-AACCATTTGTTCTTGGATTTCAGCTAATAGAAAAAAAAATT-ATTATA
130 AAGAAAGAAAGATAA-CATTTGTTCTTGGATTTCAGCTAATACAAAAAAAATTTCTTTATA
129877605 TA-GGGCATAGCTAACTTCTAATATATATATATATATATATGAACTAAAACAACTTCAAATTCTT
1 TATGGGCATAGCTAACTTC-----TA-AT-T-T-TATATATGAACTAAAACAACTTCAAATTCTT
* * *
129877669 AAAACAAGAGTAAAAAGATTGATCAAATTATCCATAATTATCAAATAAAAATTAATAAACAAAAA
57 AAAACAAGAGTAAAAAAATTGATCAAATTATCCACAATTATCAAATCAAAATTAATAAACAAAAA
* *
129877734 CAGAAAGAAAGAAAGAAAGATACCATTTGTTCTTGAATTTCAGCTA
122 CAGAAAGAAAGAAAGAAAGATAACATTTGTTCTTGGATTTCAGCTA
129877780 GTTGATGAAT
Statistics
Matches: 845, Mismatches: 49, Indels: 58
0.89 0.05 0.06
Matches are distributed among these distances:
182 75 0.09
183 48 0.06
184 5 0.01
185 44 0.05
186 6 0.01
187 17 0.02
188 42 0.05
189 233 0.28
190 19 0.02
191 101 0.12
192 2 0.00
193 97 0.11
194 21 0.02
195 39 0.05
196 95 0.11
197 1 0.00
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (189 bp):
TATGGGCATAGCTAACTTCTAATTTTATATATGAACTAAAACAACTTCAAATTCTTAAAACAAGA
GTAAAAAAATTGATCAAATTATCCACAATTATCAAATCAAAATTAATAAACAAAAACAGAAAGAA
AGAAAGAAAGATAACATTTGTTCTTGGATTTCAGCTAATACAAAAAAAATTTCTTTATA
Found at i:129877745 original size:573 final size:565
Alignment explanation
Indices: 129876631--129877779 Score: 1699
Period size: 573 Copynumber: 2.0 Consensus size: 565
129876621 TTTAACAAAT
* *
129876631 CTAATATAAAAAAAATTCTTTAAATATAGCCTATGAGCACAGCTAACTTCTAATTTTATATATGA
1 CTAATAGAAAAAAAATTCTTTAAACATAGCCTATGAGCACAGCTAACTTCTAATTTTATATATGA
129876696 ACTAAAACAACTTCAAATTCTTAAAACAAGAGTAAAAAGATTGATCAAATTATCCACAATTATCA
66 ACTAAAACAACTTCAAATTCTTAAAACAAGAGTAAAAAGATTGATCAAATTATCCACAATTATCA
* *
129876761 AATCAAAATTAATAAACAAAAACAGAAAGAAAGAAAGAAAGAAAGATAACATTTGTTCTTGGATT
131 AATCAAAACTAATAAACAAAAAC-------AAGAAAG-AAGAAAGATAACATTTGTTCTTGAATT
* ** * * *
129876826 TCAGATGATGCAGAAAGGAATTTCTTTATATATGGGCATAGCTAACTTCTAATTTATATATGAAC
188 TCAGATAATGCAGAAAAAAAATTCTTTACATAAGGGCATAGCTAACTTCTAATTTATATATGAAC
*
129876891 GAAAACAATTTCAAATTCTTAAAACAAGAGTAAAAAAATTGATCAAATTATCCACAATTATCAAA
253 GAAAACAACTTCAAATTCTTAAAACAAGAGTAAAAAAATTGATCAAATTATCCACAATTATCAAA
*
129876956 TAAAAATTAATAAACAAAAACAGAAAGAAAGAAAGAAAGATAACATTTGTTCTTGGATTTCAGCT
318 TAAAAATTAACAAACAAAAACAGAAAGAAAGAAAGAAAGATAACATTTGTTCTTGGATTTCAGCT
* * *
129877021 AATACAAAAAAGAATTTCTTTATATATGGGCGTAGCTAACTTCTAATTTATATATGAACGAAAAC
383 AATACAAAAAAGAAATTCATTATATATGGGCATAGCTAACTTCTAATTTATATATGAACGAAAAC
* *
129877086 AATTTCAAATTCTTAAAACAAGAGTAAAAAAATTGATCAAATTATCCACAATTATCAAATCAAAA
448 AACTTCAAATTCTTAAAACAAGAGTAAAAAAATTGATCAAATTATCCACAATTATCAAATAAAAA
*
129877151 TTAATAAACAAAAACAGAAAGAAAGAAAGATACCATTTGTTCTTGGATTTCAG
513 TTAATAAACAAAAACAGAAAGAAAGAAAGATACCATTTGTTCTTGAATTTCAG
* * *
129877204 CTAATAGAAAAAAATTTCTTTACACATGGCCTATGAGCACAGCTAACTTCTAATTTTATATATGA
1 CTAATAGAAAAAAAATTCTTTAAACATAGCCTATGAGCACAGCTAACTTCTAATTTTATATATGA
129877269 ACTAAAACAACTTCAAATTCTTAAAACAAGAGTTAAAAA-ATTGATCAAATTATCCACAATTATC
66 ACTAAAACAACTTCAAATTCTTAAAACAAGAG-TAAAAAGATTGATCAAATTATCCACAATTATC
* * *
129877333 AAATCAAAACTAATAAACAAAAAC-AGAAAG-A-AAATATATCATTTGTTCTTGAATTTCAGCTA
130 AAATCAAAACTAATAAACAAAAACAAGAAAGAAGAAAGATAACATTTGTTCTTGAATTTCAGATA
* *
129877395 AT--AGAAAAAAAAATTCTTTACATAAGGGCGTAGCTAACTTCTAATTTTATATATGAACTAAAA
195 ATGCAG-AAAAAAAATTCTTTACATAAGGGCATAGCTAACTTCTAA-TTTATATATGAACGAAAA
*
129877458 CAACTTCAAATTCTTAAAACAAGAGTAAAAAAATTTGATCAAATTATCCACAATTATCAAATCAA
258 CAACTTCAAATTCTTAAAACAAGAGTAAAAAAA-TTGATCAAATTATCCACAATTATCAAATAAA
129877523 AATTAACAAA-AAAAACAGAAAGAAAGAAAGAAAGA-AACCATTTGTTCTTGGATTTCAGCTAAT
322 AATTAACAAACAAAAACAGAAAGAAAGAAAGAAAGATAA-CATTTGTTCTTGGATTTCAGCTAAT
*
129877586 AGAAAAAA-AAATT-ATTATATA-GGGCATAGCTAACTTCTAATATATATATATATATATATGAA
386 ACAAAAAAGAAATTCATTATATATGGGCATAGCTAACTTC-------TA-AT-T-TATATATGAA
* * *
129877648 CTAAAACAACTTCAAATTCTTAAAACAAGAGTAAAAAGATTGATCAAATTATCCATAATTATCAA
441 CGAAAACAACTTCAAATTCTTAAAACAAGAGTAAAAAAATTGATCAAATTATCCACAATTATCAA
129877713 ATAAAAATTAATAAACAAAAACAGAAAGAAAGAAAGAAAGATACCATTTGTTCTTGAATTTCAG
506 ATAAAAATTAATAAACAAAAAC----AGAAAGAAAGAAAGATACCATTTGTTCTTGAATTTCAG
129877777 CTA
1 CTA
129877780 GTTGATGAAT
Statistics
Matches: 526, Mismatches: 31, Indels: 38
0.88 0.05 0.06
Matches are distributed among these distances:
559 15 0.03
560 9 0.02
561 39 0.07
562 134 0.25
563 40 0.08
565 6 0.01
566 2 0.00
567 2 0.00
568 1 0.00
569 92 0.17
573 180 0.34
574 6 0.01
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (565 bp):
CTAATAGAAAAAAAATTCTTTAAACATAGCCTATGAGCACAGCTAACTTCTAATTTTATATATGA
ACTAAAACAACTTCAAATTCTTAAAACAAGAGTAAAAAGATTGATCAAATTATCCACAATTATCA
AATCAAAACTAATAAACAAAAACAAGAAAGAAGAAAGATAACATTTGTTCTTGAATTTCAGATAA
TGCAGAAAAAAAATTCTTTACATAAGGGCATAGCTAACTTCTAATTTATATATGAACGAAAACAA
CTTCAAATTCTTAAAACAAGAGTAAAAAAATTGATCAAATTATCCACAATTATCAAATAAAAATT
AACAAACAAAAACAGAAAGAAAGAAAGAAAGATAACATTTGTTCTTGGATTTCAGCTAATACAAA
AAAGAAATTCATTATATATGGGCATAGCTAACTTCTAATTTATATATGAACGAAAACAACTTCAA
ATTCTTAAAACAAGAGTAAAAAAATTGATCAAATTATCCACAATTATCAAATAAAAATTAATAAA
CAAAAACAGAAAGAAAGAAAGATACCATTTGTTCTTGAATTTCAG
Found at i:129878394 original size:39 final size:37
Alignment explanation
Indices: 129878321--129878415 Score: 106
Period size: 39 Copynumber: 2.6 Consensus size: 37
129878311 CAGCCTGTTT
* * *
129878321 TATATATT-TATAA-ATATAATATATTAAGTTATTTA
1 TATATATTATATAATTTATAACATATAAAGTTATTTA
129878356 TATATATTATATAATTTATAACATATAAAAGTTAATTTA
1 TATATATTATATAATTTATAACATAT-AAAGTT-ATTTA
*
129878395 TAGATA-TATATAATGTTATAA
1 TATATATTATATAAT-TTATAA
129878416 TGTAAATATT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
35 8 0.16
36 5 0.10
37 9 0.18
38 13 0.25
39 16 0.31
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TATATATTATATAATTTATAACATATAAAGTTATTTA
Found at i:129878402 original size:43 final size:42
Alignment explanation
Indices: 129878320--129878405 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 42
129878310 CCAGCCTGTT
**
129878320 TTATATATTTATAAATATAATATATTAAGTTATTTATATATA
1 TTATATATTTATAAATATAATATATTAAGTTATAGATATATA
*
129878362 TTATATAATTTATAACATATAA-A-AGTTAATTTATAGATATATA
1 TTATAT-ATTTATAA-ATATAATATA-TTAAGTTATAGATATATA
129878405 T
1 T
129878406 AATGTTATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
42 7 0.18
43 25 0.66
44 6 0.16
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (42 bp):
TTATATATTTATAAATATAATATATTAAGTTATAGATATATA
Found at i:129884197 original size:30 final size:30
Alignment explanation
Indices: 129884163--129884223 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
129884153 CAAGTTTCAA
*
129884163 CATAATAAAGGATTAAAACAATAATTAGAC
1 CATAATAAAGGACTAAAACAATAATTAGAC
129884193 CATAATAAAGGACTAAAACAATAATTAGAC
1 CATAATAAAGGACTAAAACAATAATTAGAC
129884223 C
1 C
129884224 TGGAATTTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.56, C:0.13, G:0.10, T:0.21
Consensus pattern (30 bp):
CATAATAAAGGACTAAAACAATAATTAGAC
Found at i:129890022 original size:13 final size:13
Alignment explanation
Indices: 129890004--129890030 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
129889994 TACTTTTACC
129890004 TTAATTTTGTCTA
1 TTAATTTTGTCTA
129890017 TTAATTTTGTCTA
1 TTAATTTTGTCTA
129890030 T
1 T
129890031 CAAAGTACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.63
Consensus pattern (13 bp):
TTAATTTTGTCTA
Found at i:129893244 original size:99 final size:101
Alignment explanation
Indices: 129893127--129893307 Score: 262
Period size: 99 Copynumber: 1.8 Consensus size: 101
129893117 TGAATCATAC
*
129893127 TAGAATCTACATCAAAATTCCAAAAACCCA-TACAAAATTAACACTAT-CCAGATGCCC-AAATC
1 TAGAATCTACATCAAAATTCCAAAAACCCACCACAAAATTAACACT-TCCCAGATGCCCAAAATC
129893189 AATAGTCCATTTGAATCAATAAAAATAACAGCCATGT
65 AATAGTCCATTTGAATCAATAAAAATAACAGCCATGT
* * * *
129893226 TAGAATCTACATTC-AAATTTCAAAAATCGACCGCAAAATTAACACTTCCCAGATGCCCAAAATC
1 TAGAATCTACA-TCAAAATTCCAAAAACCCACCACAAAATTAACACTTCCCAGATGCCCAAAATC
*
129893290 ACTAGTCCATTTGAATCA
65 AATAGTCCATTTGAATCA
129893308 TACTAGAAAC
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
99 25 0.35
100 25 0.35
101 22 0.31
ACGTcount: A:0.44, C:0.24, G:0.08, T:0.24
Consensus pattern (101 bp):
TAGAATCTACATCAAAATTCCAAAAACCCACCACAAAATTAACACTTCCCAGATGCCCAAAATCA
ATAGTCCATTTGAATCAATAAAAATAACAGCCATGT
Found at i:129893365 original size:184 final size:183
Alignment explanation
Indices: 129893043--129893373 Score: 511
Period size: 184 Copynumber: 1.8 Consensus size: 183
129893033 AGTTTCACGC
* * *
129893043 TAGAATCTAGATTGAAATTTAAAAAATCCATCGCAAAATTAACACTTCCCAGATGCCCAAATCAA
1 TAGAATCTACATTCAAATTTAAAAAATCCACCGCAAAATTAACACTTCCCAGATGCCCAAATCAA
* * *
129893108 TAGTCCGTTTGAATCATACTAGAATCTACATCAAAATTCCAAAAACCCATACAAAATTAACACTA
66 TAGTCCATTTGAATCATACTAGAAACTACATCAAAATTCCAAAAACCCACACAAAATTAACACTA
*
129893173 TCCAGATGCCCAAATCAATAGTCCATTTGAATCAATAAAAATAACAGCCATGT
131 CCCAGATGCCCAAATCAATAGTCCATTTGAATCAATAAAAATAACAGCCATGT
* *
129893226 TAGAATCTACATTCAAATTTCAAAAATCGACCGCAAAATTAACACTTCCCAGATGCCCAAAATCA
1 TAGAATCTACATTCAAATTTAAAAAATCCACCGCAAAATTAACACTTCCCAGATGCCC-AAATCA
* * * * *
129893291 CTAGTCCATTTGAATCATACTAGAAACTACATCCAAATTTCAATAATCCC-CGCAAAATTAACAC
65 ATAGTCCATTTGAATCATACTAGAAACTACATCAAAATTCCAA-AAACCCACACAAAATTAACAC
129893355 TACCCAGATGCCCAAATCA
129 TACCCAGATGCCCAAATCA
129893374 CTAAATTTAC
Statistics
Matches: 132, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
183 53 0.40
184 74 0.56
185 5 0.04
ACGTcount: A:0.43, C:0.25, G:0.08, T:0.24
Consensus pattern (183 bp):
TAGAATCTACATTCAAATTTAAAAAATCCACCGCAAAATTAACACTTCCCAGATGCCCAAATCAA
TAGTCCATTTGAATCATACTAGAAACTACATCAAAATTCCAAAAACCCACACAAAATTAACACTA
CCCAGATGCCCAAATCAATAGTCCATTTGAATCAATAAAAATAACAGCCATGT
Found at i:129902231 original size:95 final size:94
Alignment explanation
Indices: 129901934--129902470 Score: 429
Period size: 95 Copynumber: 5.7 Consensus size: 94
129901924 ATCATTGATA
* * * * **
129901934 TTTTCTTTTGGTAATATTTTTTTTCCTGGGACGAGAAAATTAGGGAAAAAATTTCGAAAATCAAC
1 TTTTCTTTTAGTAATA-TTTTTCT-CTGAGACGGGAAAATTAGGGGGAAAA--TCGAAAATCAAC
* * * *
129901999 AGATTTCTGGATCTAGAGGTTTTTTTTTCTTCATGT
62 AAATTTCT-GAGCTAG-GGTATTTTTTT-TTCCTGT
* * * * *
129902035 TTTTCTTTTAGTAATTTTTTTGTCTAAGACGGAAAAATTAGGGGGAAAAATCGAAAATCAACAGA
1 TTTTCTTTTAGTAATATTTTTCTCTGAGACGGGAAAATTAGGGGG-AAAATCGAAAATCAACAAA
* * *
129902100 TTTCTG-G--A---T-CTATTTTTT-ATGT
65 TTTCTGAGCTAGGGTATTTTTTTTTCCTGT
*
129902122 TTTTCTTTTAGTAATATTTTTCTCTAAGACGGGAAAATTAGGGGGGAAAATCGAAAATCAACAAA
1 TTTTCTTTTAGTAATATTTTTCTCTGAGACGGGAAAATTA-GGGGGAAAATCGAAAATCAACAAA
129902187 TTTCTGCAGCTAGGGTATTTTTTTTTCCTGT
65 TTTCTG-AGCTAGGGTATTTTTTTTTCCTGT
* * * *
129902218 TTTTC-TTTGGTAATATTTTTTCTCTGAGACGGGAAAATTA-GGGGAAAATTTGAAACTTAACAA
1 TTTTCTTTTAGTAATA-TTTTTCTCTGAGACGGGAAAATTAGGGGGAAAA-TCGAAAATCAACAA
* *** * *
129902281 ATTTATG-GCTTTCG-A-TTCTTTTCCCTGTTGT
64 ATTTCTGAGCTAGGGTATTTTTTTTTCC---TGT
* * * * *
129902312 TTTTCTTTTAGTAATATTTTTCTCTGAGACGGGAAGATAAGGGGGAAAATTGGAAATTAACAAAT
1 TTTTCTTTTAGTAATATTTTTCTCTGAGACGGGAAAATTAGGGGGAAAATCGAAAATCAACAAAT
* * *
129902377 TTCTGGATCTAGGAT-TTTTTTTTTTCTGTT
66 TTCT-GAGCTAGGGTATTTTTTTTTCCTG-T
* * * **
129902407 GTTTTCTTTTAGCAATA-TTTTCTCTTAGACGAGAAAATTAGGGAAAAAATCGAAAATCAACAAA
1 -TTTTCTTTTAGTAATATTTTTCTCTGAGACGGGAAAATTAGGGGGAAAATCGAAAATCAACAAA
129902471 ATAATCGATG
Statistics
Matches: 358, Mismatches: 54, Indels: 54
0.77 0.12 0.12
Matches are distributed among these distances:
87 65 0.18
88 7 0.02
89 6 0.02
90 1 0.00
91 9 0.03
92 1 0.00
93 4 0.01
94 59 0.16
95 90 0.25
96 48 0.13
97 8 0.02
98 20 0.06
99 16 0.04
100 10 0.03
101 14 0.04
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (94 bp):
TTTTCTTTTAGTAATATTTTTCTCTGAGACGGGAAAATTAGGGGGAAAATCGAAAATCAACAAAT
TTCTGAGCTAGGGTATTTTTTTTTCCTGT
Found at i:129937685 original size:23 final size:23
Alignment explanation
Indices: 129937651--129937704 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
129937641 CAACGTGACT
*
129937651 CATTTGAACGCCTATCAGAACAC
1 CATTTGATCGCCTATCAGAACAC
129937674 CATTTGATCGCCTATCAGAACAC
1 CATTTGATCGCCTATCAGAACAC
129937697 CATTTGAT
1 CATTTGAT
129937705 GGATATTGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (23 bp):
CATTTGATCGCCTATCAGAACAC
Found at i:129940265 original size:42 final size:46
Alignment explanation
Indices: 129940204--129940335 Score: 137
Period size: 49 Copynumber: 2.8 Consensus size: 46
129940194 TCGTTTACTC
** * *
129940204 GATGTCATAGTTCAACTATGGTCTTACAC-AT-C-T-TCATATATA
1 GATGTCATAGCCCAGCTATGGTCTTACACAATACATATCACATATA
*
129940246 GATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATATC
1 GATGTCATAGCCCAGCTATGGTCTTACAC--AAT-ACATATCACATATA
*
129940295 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATC
1 GATGTCATAGCCCAGCTATGGTCTTACAC-AAT-ACATATC
129940336 TCACTGATGC
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
42 26 0.34
45 2 0.03
47 1 0.01
48 12 0.16
49 35 0.46
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (46 bp):
GATGTCATAGCCCAGCTATGGTCTTACACAATACATATCACATATA
Found at i:129940304 original size:49 final size:48
Alignment explanation
Indices: 129940246--129940413 Score: 175
Period size: 47 Copynumber: 3.5 Consensus size: 48
129940236 TTCATATATA
*
129940246 GATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATATC
1 GATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACA-ATC
* *
129940295 GATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATATCTCACT-
1 GATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACAATC
* ** * * * *
129940341 GATGCCATATCCCAAATATGGTCTTATACAGT-AGCATATATCAC-ACC
1 GATGCCATAGCCCAGCTATGGTCTTACAC-GTAATCACATATCACAATC
*
129940388 GATGCCATATCCCA-CATATGGTCTTA
1 GATGCCATAGCCCAGC-TATGGTCTTA
129940414 TACGGAAATC
Statistics
Matches: 102, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
46 25 0.25
47 35 0.34
48 13 0.13
49 29 0.28
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.28
Consensus pattern (48 bp):
GATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACAATC
Found at i:129940470 original size:31 final size:31
Alignment explanation
Indices: 129940435--129940583 Score: 217
Period size: 31 Copynumber: 4.8 Consensus size: 31
129940425 CTTGTCATTT
*
129940435 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
129940466 GTAGCCGGAGCTACCATTTTTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
129940497 GTAGTCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
129940528 GCAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
129940559 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
129940584 TGTCATTTGT
Statistics
Matches: 105, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 105 1.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:129940661 original size:50 final size:51
Alignment explanation
Indices: 129940559--129940687 Score: 206
Period size: 50 Copynumber: 2.5 Consensus size: 51
129940549 CACTGATCAG
* * * *
129940559 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
*
129940610 GTAGCCGAAGCTATTACTTATCACTT-TCACTTATCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
129940660 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
129940688 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
50 47 0.66
51 24 0.34
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
Found at i:129946584 original size:50 final size:51
Alignment explanation
Indices: 129946507--129946635 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
129946497 GACCATGACA
*
129946507 ACAAGTGATAAGTGATAGCTTCGGCTACATTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
129946558 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
129946608 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
129946636 CTGATCAGTG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:129946649 original size:31 final size:31
Alignment explanation
Indices: 129946611--129946790 Score: 263
Period size: 31 Copynumber: 5.8 Consensus size: 31
129946601 ACAAATGACA
*
129946611 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
129946642 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
129946673 AGTGAAAAGTGGTAG-TTCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
*
129946704 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * *
129946735 AATGAAAAATGGTAGCTGCGGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
129946766 AGTGAATAGTGGTAGCTTCAGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
129946791 AAGTGACAAG
Statistics
Matches: 135, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
30 3 0.02
31 130 0.96
32 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:129946885 original size:47 final size:46
Alignment explanation
Indices: 129946815--129946938 Score: 167
Period size: 47 Copynumber: 2.7 Consensus size: 46
129946805 AAGTGATTTT
* *
129946815 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
129946861 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
129946908 CGTGTAAGACCATAGCTGGGCTATGGCATCG
1 CGTATAAGACCATATCTGGGATATGGCATCG
129946939 ATATATGAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 27 0.40
47 41 0.60
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:129947021 original size:42 final size:42
Alignment explanation
Indices: 129946909--129947006 Score: 153
Period size: 42 Copynumber: 2.3 Consensus size: 42
129946899 TATGTGATTC
*
129946909 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGAT
* *
129946951 GTGTAAGACCATAGCTGGGCTACGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAAGAT
129946993 GTGTAAGACCATAG
1 GTGTAAGACCATAG
129947007 TTGAACAATG
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
41 1 0.02
42 51 0.98
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.27
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGAT
Found at i:129948625 original size:29 final size:30
Alignment explanation
Indices: 129948574--129948639 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
129948564 GTTAGCAAAT
* *
129948574 AATTAATTTTTAAAATTTTAAAAAATATAAA
1 AATTATTTTTTAAAA-TATAAAAAATATAAA
** *
129948605 AATTATTTTTTAAAA-ATAAAACTTATTAA
1 AATTATTTTTTAAAATATAAAAAATATAAA
129948634 AATTAT
1 AATTAT
129948640 AAAAATATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 16 0.53
31 14 0.47
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (30 bp):
AATTATTTTTTAAAATATAAAAAATATAAA
Found at i:129948933 original size:2 final size:2
Alignment explanation
Indices: 129948926--129949000 Score: 71
Period size: 2 Copynumber: 38.0 Consensus size: 2
129948916 TTAATTTTAA
* * * * *
129948926 TC TC TC TC TC TC TT TC TC TC TC CC TC TC CC TC TC TC -C CC CC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * *
129948967 TC TC TC TC TC TC CC TC TC CC TC TC CC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
129949001 CCCCTTATAA
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
1 1 0.02
2 58 0.98
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (2 bp):
TC
Found at i:129948984 original size:37 final size:38
Alignment explanation
Indices: 129948929--129949005 Score: 129
Period size: 37 Copynumber: 2.1 Consensus size: 38
129948919 ATTTTAATCT
* *
129948929 CTCTCTCTCTTTCTCTCTCCCTCTCCCTCTCTC-CCCC
1 CTCTCTCTCTCTCCCTCTCCCTCTCCCTCTCTCTCCCC
129948966 CTCTCTCTCTCTCCCTCTCCCTCTCCCTCTCTCTCCCC
1 CTCTCTCTCTCTCCCTCTCCCTCTCCCTCTCTCTCCCC
129949004 CT
1 CT
129949006 TATAACAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
37 31 0.84
38 6 0.16
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (38 bp):
CTCTCTCTCTCTCCCTCTCCCTCTCCCTCTCTCTCCCC
Found at i:129950218 original size:59 final size:60
Alignment explanation
Indices: 129950109--129950229 Score: 190
Period size: 59 Copynumber: 2.0 Consensus size: 60
129950099 TTCTACAGTT
*
129950109 TACACTAATAATTAAGTCTAGGATCATCTAGAAGCTATCAATCATTGTTATGCAATGCCG
1 TACACTAATAATTAAGTCTAGGATCATCTAGAAGCAATCAATCATTGTTATGCAATGCCG
* * * *
129950169 TACACTAATAATTACGTTTAGGAT-ATCTGGAAGCAATCAATCATTGTTATGCAATGGCG
1 TACACTAATAATTAAGTCTAGGATCATCTAGAAGCAATCAATCATTGTTATGCAATGCCG
129950228 TA
1 TA
129950230 GTTAAAGTAC
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
59 34 0.61
60 22 0.39
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (60 bp):
TACACTAATAATTAAGTCTAGGATCATCTAGAAGCAATCAATCATTGTTATGCAATGCCG
Found at i:129950427 original size:2 final size:2
Alignment explanation
Indices: 129950420--129950449 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
129950410 TGTTATGGTA
129950420 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
129950450 GAAAAAAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:129951239 original size:28 final size:28
Alignment explanation
Indices: 129951175--129951239 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
129951165 TTTTCTTTTC
*
129951175 ACTTCAATAATTGAAATAATGATTACAT
1 ACTTCAATTATTGAAATAATGATTACAT
*
129951203 ACTTCAATTATTGAAATTATGATTACAT
1 ACTTCAATTATTGAAATAATGATTACAT
129951231 ACTTCAATT
1 ACTTCAATT
129951240 TAGCCAACAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (28 bp):
ACTTCAATTATTGAAATAATGATTACAT
Found at i:129955313 original size:18 final size:18
Alignment explanation
Indices: 129955290--129955341 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
129955280 ATTTCATCAC
*
129955290 ATGTTTTAGAAAAATAGA
1 ATGTTTTAGAAAAATAAA
129955308 ATGTTTTAGAAAAATAAA
1 ATGTTTTAGAAAAATAAA
129955326 ATGTTTTAGAAAAATA
1 ATGTTTTAGAAAAATA
129955342 TATCACATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.35
Consensus pattern (18 bp):
ATGTTTTAGAAAAATAAA
Found at i:129967303 original size:21 final size:21
Alignment explanation
Indices: 129967278--129967320 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
129967268 ATTGCCTGCA
*
129967278 AAAAAACAAAAAAAAATGAAC
1 AAAAAACAAAAAAAAATAAAC
* *
129967299 AAAAATCAAAACAAAATAAAC
1 AAAAAACAAAAAAAAATAAAC
129967320 A
1 A
129967321 TATAAAATCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.79, C:0.12, G:0.02, T:0.07
Consensus pattern (21 bp):
AAAAAACAAAAAAAAATAAAC
Found at i:129973350 original size:40 final size:40
Alignment explanation
Indices: 129973295--129973390 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
129973285 ACATATGAAC
* ** *
129973295 TTGAATTACTGATTTTTGTTAATTTATTACATTTAAATTA
1 TTGAATTATTGATTTTTGCAAATTTATTACATATAAATTA
* * * *
129973335 TTGAACTATTGATTTTTGCAAATTTTTTATATATAAATTT
1 TTGAATTATTGATTTTTGCAAATTTATTACATATAAATTA
*
129973375 TTGAATTGTTGATTTT
1 TTGAATTATTGATTTT
129973391 CAAATCAATG
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.56
Consensus pattern (40 bp):
TTGAATTATTGATTTTTGCAAATTTATTACATATAAATTA
Found at i:129976719 original size:2 final size:2
Alignment explanation
Indices: 129976712--129976743 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
129976702 GGTGGCAATC
129976712 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
129976744 ATTATAATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:129976747 original size:6 final size:6
Alignment explanation
Indices: 129976733--129976766 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
129976723 TATATATATA
*
129976733 TATATAT TATAAT TATAAT CATAAT TATAAT TAT
1 TATA-AT TATAAT TATAAT TATAAT TATAAT TAT
129976767 TTGGGGACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 21 0.84
7 4 0.16
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (6 bp):
TATAAT
Found at i:129977835 original size:3 final size:3
Alignment explanation
Indices: 129977827--129977854 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
129977817 CAGACCATAT
129977827 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
129977855 ATACTAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:129983413 original size:16 final size:16
Alignment explanation
Indices: 129983392--129983425 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
129983382 AGCATTGGTG
129983392 AACTTTAA-AAAAGAAA
1 AACTTTAACAAAA-AAA
129983408 AACTTTAACAAAAAAA
1 AACTTTAACAAAAAAA
129983424 AA
1 AA
129983426 TTGAAGAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.71, C:0.09, G:0.03, T:0.18
Consensus pattern (16 bp):
AACTTTAACAAAAAAA
Found at i:129983590 original size:28 final size:28
Alignment explanation
Indices: 129983559--129983628 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
129983549 TTTTTTCTTG
129983559 CATTTAATG-TCTTAATGTCTTTTCCCTA
1 CATTTAATGCT-TTAATGTCTTTTCCCTA
* *
129983587 CATTTAATGCTTTAATGTCTTTTTCCTG
1 CATTTAATGCTTTAATGTCTTTTCCCTA
129983615 CATTTAAT-CTTTAA
1 CATTTAATGCTTTAA
129983629 AACCATAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
27 6 0.15
28 32 0.82
29 1 0.03
ACGTcount: A:0.23, C:0.19, G:0.07, T:0.51
Consensus pattern (28 bp):
CATTTAATGCTTTAATGTCTTTTCCCTA
Found at i:129984947 original size:31 final size:31
Alignment explanation
Indices: 129984883--129984947 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
129984873 AAACCCTAAC
* * * *
129984883 GTTCAAGTTCGAGTGTGGGAACAATTACTAA
1 GTTCAAGTTCCAGTATGGAAACAATTACCAA
**
129984914 GTTCAAGTTCCAGTATGGAAATGATTACCAA
1 GTTCAAGTTCCAGTATGGAAACAATTACCAA
129984945 GTT
1 GTT
129984948 AAAGGATTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (31 bp):
GTTCAAGTTCCAGTATGGAAACAATTACCAA
Found at i:129985624 original size:12 final size:12
Alignment explanation
Indices: 129985596--129985628 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
129985586 TATTTTTTCT
129985596 TTAAAAATAAGA
1 TTAAAAATAAGA
*
129985608 -GAAAAATAAGA
1 TTAAAAATAAGA
129985619 TTAAAAATAA
1 TTAAAAATAA
129985629 TGCCAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (12 bp):
TTAAAAATAAGA
Found at i:129987125 original size:22 final size:22
Alignment explanation
Indices: 129987053--129987128 Score: 68
Period size: 23 Copynumber: 3.4 Consensus size: 22
129987043 ATTTTGGGCC
129987053 AAACCCAAAACCCAATA-ATCT-
1 AAACCCAAAACCCAATACA-CTA
* *
129987074 AAACTCAATAACCCCAA-ACCCTTA
1 AAACCCAA-AA-CCCAATACAC-TA
129987098 CAAACCCAAAACCCAATACACTA
1 -AAACCCAAAACCCAATACACTA
129987121 AAACCCAA
1 AAACCCAA
129987129 CTAACCTACC
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
21 7 0.16
22 12 0.27
23 13 0.30
24 5 0.11
25 7 0.16
ACGTcount: A:0.51, C:0.37, G:0.00, T:0.12
Consensus pattern (22 bp):
AAACCCAAAACCCAATACACTA
Found at i:129988844 original size:23 final size:22
Alignment explanation
Indices: 129988812--129988857 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
129988802 ATAAGTTTTA
129988812 ATTATTATATTTT-ATATATATT
1 ATTATTATATTTTAATAT-TATT
129988834 ATTATGTATATTTTAATATTATT
1 ATTAT-TATATTTTAATATTATT
129988857 A
1 A
129988858 GGTATCTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
ATTATTATATTTTAATATTATT
Found at i:129989154 original size:2 final size:2
Alignment explanation
Indices: 129989147--129989188 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
129989137 TACTATTTAA
* * *
129989147 AT AT AT AT AT AT AT AT AT AC AT AT TT AT AT AT -T AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
129989188 A
1 A
129989189 CTCTTAATTA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:129990908 original size:16 final size:16
Alignment explanation
Indices: 129990883--129990920 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
129990873 ATTTATGTGA
*
129990883 ATATAATATA-TTTTT
1 ATATATTATACTTTTT
129990898 CATATATTATACTTTTT
1 -ATATATTATACTTTTT
129990915 ATATAT
1 ATATAT
129990921 AATAATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (16 bp):
ATATATTATACTTTTT
Found at i:129991457 original size:12 final size:12
Alignment explanation
Indices: 129991440--129991473 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
129991430 ATATATTGAG
129991440 AAATAAATATAT
1 AAATAAATATAT
*
129991452 ATATAAATATAT
1 AAATAAATATAT
129991464 AAATAAATAT
1 AAATAAATAT
129991474 TCAAAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AAATAAATATAT
Found at i:129991618 original size:22 final size:22
Alignment explanation
Indices: 129991590--129991635 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
129991580 ATTTAAAGAG
129991590 ATCATGATTCATGAAATGGTAA
1 ATCATGATTCATGAAATGGTAA
129991612 ATCATGATTCATGAAATGGTAA
1 ATCATGATTCATGAAATGGTAA
129991634 AT
1 AT
129991636 TGATCTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (22 bp):
ATCATGATTCATGAAATGGTAA
Found at i:129992582 original size:58 final size:55
Alignment explanation
Indices: 129992518--129992652 Score: 139
Period size: 58 Copynumber: 2.4 Consensus size: 55
129992508 TTAGATTAAA
* *
129992518 AAAAAAAAGTTCAAGTCC-CAATGC-AGAAACACTTATCAAGTTCAGGGCCCAACTT
1 AAAAAAAAGTT-AAGGCCTCAAT-CTAGAAACAATTATCAAGTTCAGGGCCCAACTT
* * * *
129992573 GGATAAAAAAAGTTTAGGCCTCAATCTAGGAACAATTGTCAAGTTCAGGGCCTAACTT
1 --A-AAAAAAAGTTAAGGCCTCAATCTAGAAACAATTATCAAGTTCAGGGCCCAACTT
* *
129992631 AAAAAAAAGTTTAGGCCCCAAT
1 AAAAAAAAGTTAAGGCCTCAAT
129992653 ATAAAAAAGT
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
55 20 0.29
56 1 0.01
57 6 0.09
58 41 0.60
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (55 bp):
AAAAAAAAGTTAAGGCCTCAATCTAGAAACAATTATCAAGTTCAGGGCCCAACTT
Found at i:129997200 original size:2 final size:2
Alignment explanation
Indices: 129997193--129997224 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
129997183 TTTCATAGAC
129997193 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
129997225 TAGGGTTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:129998742 original size:31 final size:31
Alignment explanation
Indices: 129998694--129998807 Score: 118
Period size: 31 Copynumber: 3.9 Consensus size: 31
129998684 CACCCTGCTG
129998694 ATTTGG-GACATGACACATGCCCATTTAATAA
1 ATTTGGAG-CATGACACATGCCCATTTAATAA
* *
129998725 ATTTGGAGCATGGCACATGCCCATTTAACAA
1 ATTTGGAGCATGACACATGCCCATTTAATAA
* * *
129998756 A---GTA-TAT-A-A-ATGCACATTTAATAA
1 ATTTGGAGCATGACACATGCCCATTTAATAA
129998780 ATTTGGAGCATGACACATGCCCATTTAA
1 ATTTGGAGCATGACACATGCCCATTTAA
129998808 CAAAGTATAT
Statistics
Matches: 65, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
24 14 0.22
25 1 0.02
27 4 0.06
28 4 0.06
29 1 0.02
30 1 0.02
31 39 0.60
32 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (31 bp):
ATTTGGAGCATGACACATGCCCATTTAATAA
Found at i:129998775 original size:55 final size:55
Alignment explanation
Indices: 129998710--129998819 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
129998700 GACATGACAC
* *
129998710 ATGCCCATTTAATAAATTTGGAGCATGGCACATGCCCATTTAACAAAGTATATAA
1 ATGCACATTTAATAAATTTGGAGCATGACACATGCCCATTTAACAAAGTATATAA
129998765 ATGCACATTTAATAAATTTGGAGCATGACACATGCCCATTTAACAAAGTATATAA
1 ATGCACATTTAATAAATTTGGAGCATGACACATGCCCATTTAACAAAGTATATAA
129998820 TATTTATTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (55 bp):
ATGCACATTTAATAAATTTGGAGCATGACACATGCCCATTTAACAAAGTATATAA
Found at i:130001142 original size:15 final size:16
Alignment explanation
Indices: 130001117--130001154 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
130001107 TGTAATTCAC
130001117 CAAAAAA-AAAA-AAA
1 CAAAAAAGAAAAGAAA
130001131 CAAAAAAGAAAAGAAA
1 CAAAAAAGAAAAGAAA
130001147 -AAAAAAGA
1 CAAAAAAGA
130001155 GAGAAAAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.32
15 12 0.55
16 3 0.14
ACGTcount: A:0.87, C:0.05, G:0.08, T:0.00
Consensus pattern (16 bp):
CAAAAAAGAAAAGAAA
Found at i:130001147 original size:19 final size:19
Alignment explanation
Indices: 130001119--130001162 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
130001109 TAATTCACCA
* *
130001119 AAAAAAAAAAAACAAAAAAG
1 AAAAGAAAAAAA-AAGAAAG
*
130001139 AAAAGAAAAAAAAAGAGAG
1 AAAAGAAAAAAAAAGAAAG
130001158 AAAAG
1 AAAAG
130001163 GATGTGATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAAAAAAGAAAG
Found at i:130003100 original size:51 final size:51
Alignment explanation
Indices: 130003045--130003143 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
130003035 ATTCTATATA
* **
130003045 AATGTTACGGGATAAAATTATTAAATCAAGATTAGTTTGATAGAATGTGAG
1 AATGTTACGGGATAAAATTATTAAATCAAGACTAAATTGATAGAATGTGAG
** * * *
130003096 AATGTTGTGGGCTAAATTTGTTAAATCAAGACTAAATTGATAGAATGT
1 AATGTTACGGGATAAAATTATTAAATCAAGACTAAATTGATAGAATGT
130003144 ATGAATTTTG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.34
Consensus pattern (51 bp):
AATGTTACGGGATAAAATTATTAAATCAAGACTAAATTGATAGAATGTGAG
Found at i:130003159 original size:51 final size:51
Alignment explanation
Indices: 130003065--130003169 Score: 149
Period size: 51 Copynumber: 2.1 Consensus size: 51
130003055 GATAAAATTA
* ** *
130003065 TTAAATCAAGATTAGTTTGATAGAATGTGAGAATGTTGTGGGCTAAATTTG
1 TTAAATCAAGACTAAATTGATAGAATGTGAGAATGTTGAGGGCTAAATTTG
*
130003116 TTAAATCAAGACTAAATTGATAGAATGT-ATGAATTTTGAGGGCTAAATTTG
1 TTAAATCAAGACTAAATTGATAGAATGTGA-GAATGTTGAGGGCTAAATTTG
130003167 TTA
1 TTA
130003170 TTATGCTAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
50 1 0.02
51 47 0.98
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.37
Consensus pattern (51 bp):
TTAAATCAAGACTAAATTGATAGAATGTGAGAATGTTGAGGGCTAAATTTG
Found at i:130004136 original size:110 final size:110
Alignment explanation
Indices: 130003939--130004139 Score: 339
Period size: 110 Copynumber: 1.8 Consensus size: 110
130003929 TTAGACTTGT
*
130003939 AAAGACGAAAATACCATTATATTAATATTATATTCTTTATTAAAAGAATACTTTTAAGTAATTTC
1 AAAGACGAAAATACCATTATATTAATATTAAATTCTTTATTAAAAGAATACTTTTAAGTAATTTC
* * *
130004004 TTAATTGAGTTAGTATTCAAGCTTTGAGTTCATATAAAAATAATA
66 TTAACTAAGTTAATATTCAAGCTTTGAGTTCATATAAAAATAATA
* *
130004049 AAAGATGAAAATACCATTATATTAATATTAAATTCTTTATTAAAAGAATATTTTTAAGTAATTTC
1 AAAGACGAAAATACCATTATATTAATATTAAATTCTTTATTAAAAGAATACTTTTAAGTAATTTC
*
130004114 TTAACTAAGTTAATATTTAAGCTTTG
66 TTAACTAAGTTAATATTCAAGCTTTG
130004140 GAACTAAAGC
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
110 84 1.00
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.41
Consensus pattern (110 bp):
AAAGACGAAAATACCATTATATTAATATTAAATTCTTTATTAAAAGAATACTTTTAAGTAATTTC
TTAACTAAGTTAATATTCAAGCTTTGAGTTCATATAAAAATAATA
Found at i:130014073 original size:21 final size:21
Alignment explanation
Indices: 130014027--130014073 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
130014017 AGGTATACAT
*
130014027 ATGTCCATGCATCTCATTTTC
1 ATGTTCATGCATCTCATTTTC
*
130014048 ATGTTCATGTATCTCATTTTC
1 ATGTTCATGCATCTCATTTTC
*
130014069 TTGTT
1 ATGTT
130014074 TTTGTCTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.21, G:0.11, T:0.51
Consensus pattern (21 bp):
ATGTTCATGCATCTCATTTTC
Found at i:130014761 original size:232 final size:225
Alignment explanation
Indices: 130014308--130014764 Score: 729
Period size: 226 Copynumber: 2.0 Consensus size: 225
130014298 CCGGTAACTG
130014308 CCACTAGACATCAGGGTGAAGGTTAGCCTGGCCGTTTATCTGGTTTTAGTTCATTCAGTGTTAAA
1 CCACTAGACATCAGGGTGAAGGTTAGCCTGGCCGTTTATCTGGTTTTAGTTCATTCAGTGTTAAA
* * *
130014373 AAAACAGGAGATGAATAATGTGTATCTGCTTTATTTGAGAAGATATGCATTAGATGCATGCAGTT
66 AAAACAGGAGATGAATAATGTGTACCTGCTTTATTTGAGAAGACATGCATGAGATGCATGCAGTT
130014438 TTGGCCTTGGTTTACTTCATGTATATCATACATTCATGGATCTTTTATTATCTTTTCAGGACCAA
131 TTGGCCTTGGTTTACTTCATGTATATCATACATTCATGGATCTTTTATTATCTTTTCAGGACCAA
130014503 GTGAATCAATTGAGCCACCACCAGTCAACA
196 GTGAATCAATTGAGCCACCACCAGTCAACA
* * * *
130014533 CCACTGGACATCATGGTGAAGGTTAGCTTGGCCTTTTATCTGGTTTTAGTTCATTCAGTGTTAAA
1 CCACTAGACATCAGGGTGAAGGTTAGCCTGGCCGTTTATCTGGTTTTAGTTCATTCAGTGTTAAA
*
130014598 AGAAACAGGAGATGAATACTGTGTACCTGCTTTATTTGAGAAGACATGCATGAGATGCATGCAGT
66 A-AAACAGGAGATGAATAATGTGTACCTGCTTTATTTGAGAAGACATGCATGAGATGCATGCAGT
130014663 GTTT-GCCTTGGTTTACTTCATGTATATGTATATCATACATTCATGGA-CTTTTTATTATCTTTT
130 -TTTGGCCTTGGTTTACTTC------ATGTATATCATACATTCATGGATC-TTTTATTATCTTTT
* *
130014726 CAGGACCAAGTGAATTAATTGAGCCGCCACCAGTCAACA
187 CAGGACCAAGTGAATCAATTGAGCCACCACCAGTCAACA
130014765 TATTGCATAT
Statistics
Matches: 213, Mismatches: 10, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
225 62 0.29
226 74 0.35
227 3 0.01
231 1 0.00
232 73 0.34
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (225 bp):
CCACTAGACATCAGGGTGAAGGTTAGCCTGGCCGTTTATCTGGTTTTAGTTCATTCAGTGTTAAA
AAAACAGGAGATGAATAATGTGTACCTGCTTTATTTGAGAAGACATGCATGAGATGCATGCAGTT
TTGGCCTTGGTTTACTTCATGTATATCATACATTCATGGATCTTTTATTATCTTTTCAGGACCAA
GTGAATCAATTGAGCCACCACCAGTCAACA
Found at i:130021440 original size:29 final size:29
Alignment explanation
Indices: 130021408--130021467 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
130021398 ATTGGTCAAG
130021408 TCAGTTTTCTTATGTTAAAGTCAATTAAT
1 TCAGTTTTCTTATGTTAAAGTCAATTAAT
130021437 TCAGTTTTCTTATGTTAAAGTCAATTAAT
1 TCAGTTTTCTTATGTTAAAGTCAATTAAT
130021466 TC
1 TC
130021468 GGTTCGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (29 bp):
TCAGTTTTCTTATGTTAAAGTCAATTAAT
Found at i:130022402 original size:2 final size:2
Alignment explanation
Indices: 130022395--130022428 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
130022385 AGAAACAAAG
130022395 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
130022429 TATTTTGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:130029190 original size:17 final size:17
Alignment explanation
Indices: 130029168--130029201 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
130029158 TATATTAAGA
130029168 ACTATAGCGAAAGTAGC
1 ACTATAGCGAAAGTAGC
130029185 ACTATAGCGAAAGTAGC
1 ACTATAGCGAAAGTAGC
130029202 GTACTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.18
Consensus pattern (17 bp):
ACTATAGCGAAAGTAGC
Found at i:130030002 original size:6 final size:6
Alignment explanation
Indices: 130029993--130030031 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
130029983 TATATATGAA
*
130029993 ATTTTG ATTTTA ATTTTG ATTTTG ATTTTG ATTTTG ATT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATT
130030032 CAATCGTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.67
Consensus pattern (6 bp):
ATTTTG
Found at i:130030193 original size:31 final size:31
Alignment explanation
Indices: 130030122--130030206 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 31
130030112 TGAAATTTGA
* * *
130030122 ATTAAATTAAAATTTTATGTATAAAATCGCAC
1 ATTAAATTAAAA-TTCATGTATAATATCACAC
*
130030154 A--AAATTAAAATTCATGTATAATATTACAC
1 ATTAAATTAAAATTCATGTATAATATCACAC
* *
130030183 ATTAAATTAAAGTTCATATATAAT
1 ATTAAATTAAAATTCATGTATAAT
130030207 TTTAAAATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
29 16 0.36
30 9 0.20
31 19 0.42
32 1 0.02
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (31 bp):
ATTAAATTAAAATTCATGTATAATATCACAC
Found at i:130030700 original size:18 final size:19
Alignment explanation
Indices: 130030677--130030718 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
130030667 ATTCTATACT
* *
130030677 ATAAAACATTA-AAAATTA
1 ATAAAAAATTAGAAAATAA
130030695 ATAAAAAATTAGAAAATAA
1 ATAAAAAATTAGAAAATAA
130030714 ATAAA
1 ATAAA
130030719 TGCTTGTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (19 bp):
ATAAAAAATTAGAAAATAA
Found at i:130034204 original size:2 final size:2
Alignment explanation
Indices: 130034199--130034224 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
130034189 ACACACACAC
130034199 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
130034225 GTATCTAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:130036675 original size:55 final size:55
Alignment explanation
Indices: 130036559--130036666 Score: 139
Period size: 55 Copynumber: 2.0 Consensus size: 55
130036549 TTTAATTCCA
*
130036559 AATTATTAATATCTTTTTTATCACCTAATTATCAAAAATTATAAAATGATCATTC
1 AATTATTAATATCTTTTTTATCACCTAATTATCAAAAATTACAAAATGATCATTC
* * * *
130036614 AATTATTAGTAT-TTTTTGTGTCA-CTCAATTATGAAAAGTTACAAAATGATCAT
1 AATTATTAATATCTTTTT-TATCACCT-AATTATCAAAAATTACAAAATGATCAT
130036667 CTGATTATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
54 7 0.15
55 39 0.85
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (55 bp):
AATTATTAATATCTTTTTTATCACCTAATTATCAAAAATTACAAAATGATCATTC
Found at i:130038377 original size:6 final size:6
Alignment explanation
Indices: 130038366--130038442 Score: 55
Period size: 6 Copynumber: 12.5 Consensus size: 6
130038356 ATTGAGCTGT
* * * * * *
130038366 TATGTA TATGTA TATGTA TATGGA CATGGA TATGGA TATGGA TATGGA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
* **
130038414 TATGGATA TACGTA TACATA TATGTA TAT
1 TAT-G-TA TATGTA TATGTA TATGTA TAT
130038443 ATGCCTATGT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
6 56 0.92
7 2 0.03
8 3 0.05
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (6 bp):
TATGTA
Found at i:130038383 original size:12 final size:12
Alignment explanation
Indices: 130038366--130038422 Score: 69
Period size: 12 Copynumber: 4.8 Consensus size: 12
130038356 ATTGAGCTGT
*
130038366 TATGTATATGTA
1 TATGTATATGGA
130038378 TATGTATATGGA
1 TATGTATATGGA
* *
130038390 CATGGATATGGA
1 TATGTATATGGA
*
130038402 TATGGATATGGA
1 TATGTATATGGA
*
130038414 TATGGATAT
1 TATGTATAT
130038423 ACGTATACAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.33, C:0.02, G:0.26, T:0.39
Consensus pattern (12 bp):
TATGTATATGGA
Found at i:130038398 original size:18 final size:18
Alignment explanation
Indices: 130038377--130038422 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
130038367 ATGTATATGT
*
130038377 ATATGTATATGGACATGG
1 ATATGGATATGGACATGG
*
130038395 ATATGGATATGGATATGG
1 ATATGGATATGGACATGG
130038413 ATATGGATAT
1 ATATGGATAT
130038423 ACGTATACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.35, C:0.02, G:0.28, T:0.35
Consensus pattern (18 bp):
ATATGGATATGGACATGG
Found at i:130045822 original size:28 final size:27
Alignment explanation
Indices: 130045788--130045845 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 27
130045778 GTATTCTCGT
130045788 AAAAAAATATCATTTAAACTCTTTTTCA
1 AAAAAAATATCATTTAAACTCTTTTT-A
130045816 AAAAAAATATCATTTAAACTCTTTTTA
1 AAAAAAATATCATTTAAACTCTTTTTA
130045843 AAA
1 AAA
130045846 GGTGGATGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 4 0.13
28 26 0.87
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (27 bp):
AAAAAAATATCATTTAAACTCTTTTTA
Found at i:130046181 original size:34 final size:34
Alignment explanation
Indices: 130046143--130046223 Score: 137
Period size: 34 Copynumber: 2.4 Consensus size: 34
130046133 AACCAAAAAA
130046143 AAAAATTAA-GTACTAATGAGAGAAATATAAACTT
1 AAAAATTAACG-ACTAATGAGAGAAATATAAACTT
*
130046177 AAAAATTAACGACTAATGAGAGAAATATAGACTT
1 AAAAATTAACGACTAATGAGAGAAATATAAACTT
130046211 AAAAATTAACGAC
1 AAAAATTAACGAC
130046224 CAAAAGCTTG
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
34 44 0.98
35 1 0.02
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.23
Consensus pattern (34 bp):
AAAAATTAACGACTAATGAGAGAAATATAAACTT
Found at i:130050811 original size:15 final size:15
Alignment explanation
Indices: 130050791--130050840 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
130050781 TTCAGAGTCT
*
130050791 TCATCTCTCTCAACA
1 TCATCTCTTTCAACA
* *
130050806 TCATCTCTTTCCACC
1 TCATCTCTTTCAACA
*
130050821 TCATCTCTTTCAACT
1 TCATCTCTTTCAACA
130050836 TCATC
1 TCATC
130050841 AGCATCTTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (15 bp):
TCATCTCTTTCAACA
Found at i:130062681 original size:154 final size:145
Alignment explanation
Indices: 130062332--130063062 Score: 853
Period size: 144 Copynumber: 5.0 Consensus size: 145
130062322 TATAATACAA
* * *
130062332 CTAAGCAATTAGTAAATTGTGTTATGAAAGACAAAAAAAAAAAAGGG-TCTTTAACGTTGATTGG
1 CTAAGTAATTAGTAAATTGTGTCATGAAAGACAAAAAAAAAAAAGGGTTC-TTAACGCTGATTGG
* * * * * * * * * * *
130062396 ATGGTTGAAGTTAGATAAAAAGGTATCTGATAGGGTGTGTTTTCTTTGTTAACAAATGCACTTTT
65 GTGGTTGACGTTAGACAAAAACGTATTTGGTAAGGCGTGCTTTCCTAGTTAACAAATGCACTTTT
* *
130062461 TAATTTAAATTTACA-
130 TAAATTAAATTTATAG
* * * *
130062476 CTAAGTAATCAGTAAATTGTGTCAAGAAAGAC--AAAAAAAAAAGGATCCTTAACGCTGATTGGG
1 CTAAGTAATTAGTAAATTGTGTCATGAAAGACAAAAAAAAAAAAGGGTTCTTAACGCTGATTGGG
* ** * *
130062539 TGGTTGACGTTAGACAAAAATGTATTTGGTATTGTGTGCTTTCCTAGTTAACAAATACACTTTTT
66 TGGTTGACGTTAGACAAAAACGTATTTGGTAAGGCGTGCTTTCCTAGTTAACAAATGCACTTTTT
130062604 AAATTAAATTTATAG
131 AAATTAAATTTATAG
130062619 CTAAGTAATTAGTAAATTGTGTCATGAAAGACAAAAAAAAAAACAAAAAACCAGGGTTCTTAACG
1 CTAAGTAATTAGTAAATTGTGTCATGAAAGAC------AAAAA-AAAAAA--AGGGTTCTTAACG
* * * * * *
130062684 TTGATTAGGTGGTTGACGTTAGACAAAAACGTATCTGGTAAGGCATACTTTCCTAATTAACAAAT
57 CTGATTGGGTGGTTGACGTTAGACAAAAACGTATTTGGTAAGGCGTGCTTTCCTAGTTAACAAAT
130062749 GCACTTTTTAAATTAAATTTATAG
122 GCACTTTTTAAATTAAATTTATAG
* **
130062773 CTAAGTAATTAGTAAATTGGGTCATGAAAGAC-AAAAAAAATTAGGG-TCTTCAACGCTGATTGG
1 CTAAGTAATTAGTAAATTGTGTCATGAAAGACAAAAAAAAAAAAGGGTTCTT-AACGCTGATTGG
* * *
130062836 GTGGTTGACGTTAGGCAAAAATGTATTTGGTAAGGCGTGCTTTCCTAATTAACAAATGCACTTTT
65 GTGGTTGACGTTAGACAAAAACGTATTTGGTAAGGCGTGCTTTCCTAGTTAACAAATGCACTTTT
*
130062901 AAAATTAAATTTATAG
130 TAAATTAAATTTATAG
* * * * *
130062917 CTAAGTAATTAGTAAATTGTGTTATGAAAGACAAAAAAAAAAGAATCAAGGTCCTCAACGCTGAC
1 CTAAGTAATTAGTAAATTGTGTCATGAAAGAC-AAAAAAAAA-AA--AGGGTTCTTAACGCTGAT
* ** **
130062982 TGAGTGGCGGACGTTAGACAAAAACGTATTTGGTAAGGCGTGCTTTCCTAGTTAACAAATATACT
62 TGGGTGGTTGACGTTAGACAAAAACGTATTTGGTAAGGCGTGCTTTCCTAGTTAACAAATGCACT
130063047 TTTTAAATTAAATTTA
127 TTTTAAATTAAATTTA
130063063 CATAAAATAT
Statistics
Matches: 503, Mismatches: 64, Indels: 35
0.84 0.11 0.06
Matches are distributed among these distances:
142 91 0.18
143 35 0.07
144 147 0.29
146 12 0.02
147 4 0.01
149 83 0.17
150 2 0.00
151 3 0.01
152 6 0.01
154 120 0.24
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (145 bp):
CTAAGTAATTAGTAAATTGTGTCATGAAAGACAAAAAAAAAAAAGGGTTCTTAACGCTGATTGGG
TGGTTGACGTTAGACAAAAACGTATTTGGTAAGGCGTGCTTTCCTAGTTAACAAATGCACTTTTT
AAATTAAATTTATAG
Found at i:130062890 original size:298 final size:289
Alignment explanation
Indices: 130062332--130063064 Score: 954
Period size: 298 Copynumber: 2.5 Consensus size: 289
130062322 TATAATACAA
*
130062332 CTAAGCAATTAGTAAATTGTGTTATGAAAGAC--AAAAAAAAAAA-AGGG-TCTTTAACGTTGAT
1 CTAAGTAATTAGTAAATTGTGTTATGAAAGACAAAAAAAAAAAAACAGGGTTC-TTAACGTTGAT
* * * * * * * * *
130062393 TGGATGGTTGAAGTTAGATAAAAAGGTATCTGATAGGGTGTGTTTTCTTTGTTAACAAATGCACT
65 TGG-TGGTTGACGTTAGACAAAAACGTATCTGGTAAGGCGTGCTTTCCTAGTTAACAAATGCACT
* *
130062458 TTTTAATTTAAATTTACACTAAGTAATCAGTAAATTGTGTCAAGAAAGACAAAAAAAAAAGGATC
129 TTTTAAATTAAATTTACACTAAGTAATCAGTAAATTGGGTCAAGAAAGACAAAAAAAAAAGGATC
** * *
130062523 CTTAACGCTGATTGGGTGGTTGACGTTAGACAAAAATGTATTTGGTATTGTGTGCTTTCCTAGTT
194 CTTAACGCTGATTGGGTGGTTGACGTTAGACAAAAATGTATTTGGTAAGGCGTGCTTTCCTAATT
*
130062588 AACAAATACACTTTTTAAATTAAATTTATAG
259 AACAAATACACTTTTAAAATTAAATTTATAG
*
130062619 CTAAGTAATTAGTAAATTGTGTCATGAAAGACAAAAAAAAAAACAAAAAACCAGGGTTCTTAACG
1 CTAAGTAATTAGTAAATTGTGTTATGAAAGAC----AAAAAAA-AAAAAA-CAGGGTTCTTAACG
* * *
130062684 TTGATTAGGTGGTTGACGTTAGACAAAAACGTATCTGGTAAGGCATACTTTCCTAATTAACAAAT
60 TTGATT-GGTGGTTGACGTTAGACAAAAACGTATCTGGTAAGGCGTGCTTTCCTAGTTAACAAAT
* * *
130062749 GCACTTTTTAAATTAAATTTATAGCTAAGTAATTAGTAAATTGGGTCATGAAAGACAAAAAAAAT
124 GCACTTTTTAAATTAAATTTACA-CTAAGTAATCAGTAAATTGGGTCAAGAAAGACAAAAAAAA-
* * *
130062814 TAGGGT-CTTCAACGCTGATTGGGTGGTTGACGTTAGGCAAAAATGTATTTGGTAAGGCGTGCTT
187 AAGGATCCTT-AACGCTGATTGGGTGGTTGACGTTAGACAAAAATGTATTTGGTAAGGCGTGCTT
*
130062878 TCCTAATTAACAAATGCACTTTTAAAATTAAATTTATAG
251 TCCTAATTAACAAATACACTTTTAAAATTAAATTTATAG
* * * * * *
130062917 CTAAGTAATTAGTAAATTGTGTTATGAAAGACAAAAAAAAAAGAATCAAGGTCCTCAACGCTGAC
1 CTAAGTAATTAGTAAATTGTGTTATGAAAGACAAAAAAAAAA-AAACAGGGTTCTTAACGTTGAT
** * **
130062982 TGAGTGGCGGACGTTAGACAAAAACGTATTTGGTAAGGCGTGCTTTCCTAGTTAACAAATATACT
65 TG-GTGGTTGACGTTAGACAAAAACGTATCTGGTAAGGCGTGCTTTCCTAGTTAACAAATGCACT
130063047 TTTTAAATTAAATTTACA
129 TTTTAAATTAAATTTACA
130063065 TAAAATATAT
Statistics
Matches: 386, Mismatches: 44, Indels: 26
0.85 0.10 0.06
Matches are distributed among these distances:
287 30 0.08
292 1 0.00
293 94 0.24
294 15 0.04
296 81 0.21
297 44 0.11
298 121 0.31
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (289 bp):
CTAAGTAATTAGTAAATTGTGTTATGAAAGACAAAAAAAAAAAAACAGGGTTCTTAACGTTGATT
GGTGGTTGACGTTAGACAAAAACGTATCTGGTAAGGCGTGCTTTCCTAGTTAACAAATGCACTTT
TTAAATTAAATTTACACTAAGTAATCAGTAAATTGGGTCAAGAAAGACAAAAAAAAAAGGATCCT
TAACGCTGATTGGGTGGTTGACGTTAGACAAAAATGTATTTGGTAAGGCGTGCTTTCCTAATTAA
CAAATACACTTTTAAAATTAAATTTATAG
Found at i:130066075 original size:31 final size:31
Alignment explanation
Indices: 130066038--130066102 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
130066028 TAATCATAAG
130066038 TGATGAATATTTTCTTTCTCCTTTCTAGTCA
1 TGATGAATATTTTCTTTCTCCTTTCTAGTCA
130066069 TGATGAATATTTTCTTTCTCCTTTCTAGTCA
1 TGATGAATATTTTCTTTCTCCTTTCTAGTCA
130066100 TGA
1 TGA
130066103 CTTTTAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.20, C:0.18, G:0.11, T:0.51
Consensus pattern (31 bp):
TGATGAATATTTTCTTTCTCCTTTCTAGTCA
Found at i:130069107 original size:15 final size:15
Alignment explanation
Indices: 130069089--130069129 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
130069079 TGATGAAGTT
130069089 GAAAGAGATGAGGTG
1 GAAAGAGATGAGGTG
* *
130069104 GAAAGAGATGATGTT
1 GAAAGAGATGAGGTG
130069119 GAAAGAGATGA
1 GAAAGAGATGA
130069130 AGACTCTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.39, T:0.17
Consensus pattern (15 bp):
GAAAGAGATGAGGTG
Found at i:130073205 original size:23 final size:22
Alignment explanation
Indices: 130073178--130073223 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
130073168 AATTTTAAAA
*
130073178 ATATATT-TTTTATATTAATATTT
1 ATATATTCTTATA-ATTAA-ATTT
130073201 ATATATTCTTATAATTAAATTT
1 ATATATTCTTATAATTAAATTT
130073223 A
1 A
130073224 AAATTATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.24
23 12 0.57
24 4 0.19
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
ATATATTCTTATAATTAAATTT
Found at i:130075061 original size:21 final size:22
Alignment explanation
Indices: 130075037--130075085 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 22
130075027 CTTTAGTTCT
130075037 ATTTTGATC-ATTTAATTA-TTA
1 ATTTT-ATCAATTTAATTACTTA
*
130075058 ATTTTTTCAATTTAATTACTTA
1 ATTTTATCAATTTAATTACTTA
130075080 ACTTTT
1 A-TTTT
130075086 TGAAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 2 0.08
21 14 0.58
22 4 0.17
23 4 0.17
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (22 bp):
ATTTTATCAATTTAATTACTTA
Found at i:130075080 original size:22 final size:21
Alignment explanation
Indices: 130075046--130075086 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
130075036 TATTTTGATC
*
130075046 ATTTAATTATTAATTTTTTCA
1 ATTTAATTATTAACTTTTTCA
130075067 ATTTAATTACTTAACTTTTT
1 ATTTAATTA-TTAACTTTTT
130075087 GAAATAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTAATTATTAACTTTTTCA
Found at i:130075945 original size:185 final size:185
Alignment explanation
Indices: 130075560--130076022 Score: 621
Period size: 185 Copynumber: 2.5 Consensus size: 185
130075550 TGGATGATTG
* * * **
130075560 CTTGTTGAAGAAGTTTTTATGGGTGTTTAGATTTTGACGATGATGCGGTGGTTTAGTGTTTGTAT
1 CTTGTTGAAGAAG-CTTTATGGGTGTTTAGATTTTGATGAGGATGCAATGGTTTAG-GTTTGTAT
** * * *
130075625 CAAGATAATAAAGGATAAATGCCATGATTGTTAAAAAGGATAACTCTGAACCTTGAACATGAACT
64 CAAGATAATAAAGGATAAACACCATGACTGTTAAAAAGGATAACTCTGAACCTTGAAAATGAACC
* * *
130075690 ATAAAACGAACATGGACTTGATGTAAAAAGAATCAATACTAGGCAACTAAACAATTA
129 ATAAAACGAACATGGACTCGATGTAAAAAAAATCAATACTAGGCAACCAAACAATTA
*
130075747 CTTATTGAAGAAGCTTTATGGGTGTTTAGATTTTGATGAGGATGCAATGGTTTA-GTTTGTATCA
1 CTTGTTGAAGAAGCTTTATGGGTGTTTAGATTTTGATGAGGATGCAATGGTTTAGGTTTGTATCA
* * * *
130075811 AGATAATAAACGATAAACACCATGACTGTTGAGAATGATAAC-CTCGAACC-TGAAAATGAACCA
66 AGATAATAAAGGATAAACACCATGACTGTTAAAAAGGATAACTCT-GAACCTTGAAAATGAACCA
* *
130075874 TAAAACTG-ACATGGACTCGATTGTAAAAAAAAATCAATACTTGGCAACCGAACAATTA
130 TAAAAC-GAACATGGACTCGA-TGT-AAAAAAAATCAATACTAGGCAACCAAACAATTA
* *
130075932 CTTGTTGAAGAAGCTTTATGGGTGTATAGATTTTGATG-GTAATGCAATGGTTTAGTGTTTGTAT
1 CTTGTTGAAGAAGCTTTATGGGTGTTTAGATTTTGATGAG-GATGCAATGGTTTAG-GTTTGTAT
130075996 CAAGATAATAAAGGATAAACACCATGA
64 CAAGATAATAAAGGATAAACACCATGA
130076023 TTACTGAAGA
Statistics
Matches: 245, Mismatches: 24, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
183 30 0.12
184 55 0.22
185 78 0.32
186 36 0.15
187 46 0.19
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.31
Consensus pattern (185 bp):
CTTGTTGAAGAAGCTTTATGGGTGTTTAGATTTTGATGAGGATGCAATGGTTTAGGTTTGTATCA
AGATAATAAAGGATAAACACCATGACTGTTAAAAAGGATAACTCTGAACCTTGAAAATGAACCAT
AAAACGAACATGGACTCGATGTAAAAAAAATCAATACTAGGCAACCAAACAATTA
Found at i:130077512 original size:42 final size:42
Alignment explanation
Indices: 130077464--130077547 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
130077454 CATGAATTTT
130077464 GATTTTGTGCATTTTATGTACATAAAACTTGAATTGTGATTC
1 GATTTTGTGCATTTTATGTACATAAAACTTGAATTGTGATTC
130077506 GATTTTGTGCATTTTATGTACATAAAACTTGAATTGTGATTC
1 GATTTTGTGCATTTTATGTACATAAAACTTGAATTGTGATTC
130077548 ATATGTCTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.45
Consensus pattern (42 bp):
GATTTTGTGCATTTTATGTACATAAAACTTGAATTGTGATTC
Found at i:130078797 original size:22 final size:22
Alignment explanation
Indices: 130078758--130078801 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
130078748 GTTTTTTATA
*
130078758 TTTCAATTTGGTATTTGAGTTT
1 TTTCAATTTGGTACTTGAGTTT
130078780 TTTCAATTTGAG-ACTTGAGTTT
1 TTTCAATTTG-GTACTTGAGTTT
130078802 CTTTTGTCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.20, C:0.07, G:0.18, T:0.55
Consensus pattern (22 bp):
TTTCAATTTGGTACTTGAGTTT
Found at i:130087287 original size:16 final size:15
Alignment explanation
Indices: 130087267--130087334 Score: 82
Period size: 16 Copynumber: 4.3 Consensus size: 15
130087257 GAGAGGAATG
130087267 GAATAGAGCTGTAAT
1 GAATAGAGCTGTAAT
*
130087282 GTAATAGAGTTGTAAT
1 G-AATAGAGCTGTAAT
130087298 GAAATAGAGCTGTAAT
1 G-AATAGAGCTGTAAT
* *
130087314 AGAATAAACCTGTAAT
1 -GAATAGAGCTGTAAT
130087330 GAATA
1 GAATA
130087335 ATTCAGTTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
15 6 0.13
16 39 0.85
17 1 0.02
ACGTcount: A:0.44, C:0.06, G:0.22, T:0.28
Consensus pattern (15 bp):
GAATAGAGCTGTAAT
Found at i:130087550 original size:26 final size:26
Alignment explanation
Indices: 130087495--130087550 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
130087485 TTTTAAATTT
* * * *
130087495 TAATAAAATTATTATTAAATATAATT
1 TAATAAAAATAATAATAAATATAATA
130087521 TAATAAAAATAATAATAAATAATAA-A
1 TAATAAAAATAATAATAAAT-ATAATA
130087547 TAAT
1 TAAT
130087551 TTAATCATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
TAATAAAAATAATAATAAATATAATA
Found at i:130089493 original size:15 final size:15
Alignment explanation
Indices: 130089473--130089501 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
130089463 TTTAAGACAA
130089473 CATAAATACTTACAG
1 CATAAATACTTACAG
130089488 CATAAATACTTACA
1 CATAAATACTTACA
130089502 TTTTAATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.28
Consensus pattern (15 bp):
CATAAATACTTACAG
Found at i:130094062 original size:17 final size:20
Alignment explanation
Indices: 130094022--130094064 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
130094012 TGAATTGGAA
*
130094022 TGAAATTGTGATATTGAATG
1 TGAAATTATGATATTGAATG
130094042 TGAAATTAT-ATA-TGAAT-
1 TGAAATTATGATATTGAATG
130094059 TGAAAT
1 TGAAAT
130094065 AAAATGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 6 0.27
18 5 0.23
19 3 0.14
20 8 0.36
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.40
Consensus pattern (20 bp):
TGAAATTATGATATTGAATG
Found at i:130100592 original size:20 final size:20
Alignment explanation
Indices: 130100546--130100592 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
130100536 ATTTTAATAA
*
130100546 AATATT-TATTAAAATTATT
1 AATATTGTAATAAAATTATT
*
130100565 -ATACTTGTAATAATATTATT
1 AATA-TTGTAATAAAATTATT
130100585 AATATTGT
1 AATATTGT
130100593 TATACTTGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 3 0.13
19 2 0.09
20 15 0.65
21 3 0.13
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (20 bp):
AATATTGTAATAAAATTATT
Found at i:130112504 original size:29 final size:29
Alignment explanation
Indices: 130112471--130112602 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
130112461 CCTCCGAACT
** * * *
130112471 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
130112500 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
130112529 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
130112558 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
130112587 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
130112603 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Done.