Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 146 of 297
Found at i:50363089 original size:4 final size:5
Alignment explanation
Indices: 50363070--50363109 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
50363060 ATTAAAAATC
50363070 TTATT TTATT TT-TAT TTATT TTATT TTATT TTGATT TTAT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TT-ATT TTAT
50363110 ATTAAATTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 1 0.03
5 25 0.78
6 6 0.19
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:50363090 original size:15 final size:14
Alignment explanation
Indices: 50363070--50363100 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
50363060 ATTAAAAATC
50363070 TTATTTTATTTTTAT
1 TTATTTTA-TTTTAT
50363085 TTATTTTATTTTAT
1 TTATTTTATTTTAT
50363099 TT
1 TT
50363101 TGATTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTATTTTATTTTAT
Found at i:50364334 original size:21 final size:21
Alignment explanation
Indices: 50364279--50364327 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
50364269 AAGTGTAAAA
* *
50364279 AATAAAA-AAATTTAATAATT
1 AATAAAAGAAATATAAAAATT
*
50364299 TATAAAAGAAATATAAAAATT
1 AATAAAAGAAATATAAAAATT
50364320 AATAAAAG
1 AATAAAAG
50364328 GCATATATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (21 bp):
AATAAAAGAAATATAAAAATT
Found at i:50365921 original size:44 final size:44
Alignment explanation
Indices: 50365858--50365944 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
50365848 ATACCAGTAT
50365858 TATTGATTCTGAATTTGTTCGACTGAATATGAACCACTGCTTCA
1 TATTGATTCTGAATTTGTTCGACTGAATATGAACCACTGCTTCA
50365902 TATTGATTCTGAATTTGTTCGACTGAATATGAACCACTGCTTC
1 TATTGATTCTGAATTTGTTCGACTGAATATGAACCACTGCTTC
50365945 TGTGAGTNAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.39
Consensus pattern (44 bp):
TATTGATTCTGAATTTGTTCGACTGAATATGAACCACTGCTTCA
Found at i:50367053 original size:27 final size:29
Alignment explanation
Indices: 50367004--50367069 Score: 100
Period size: 28 Copynumber: 2.3 Consensus size: 29
50366994 GGTAGTACAC
50367004 AAAATTAAATATTTTTAACAAAAAA-ATT
1 AAAATTAAATATTTTTAACAAAAAATATT
* *
50367032 ATAATTAAAT-TTTTTAACAAAAAATGTT
1 AAAATTAAATATTTTTAACAAAAAATATT
50367060 AAAATTAAAT
1 AAAATTAAAT
50367070 GACCTGAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 14 0.41
28 20 0.59
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.38
Consensus pattern (29 bp):
AAAATTAAATATTTTTAACAAAAAATATT
Found at i:50378910 original size:30 final size:29
Alignment explanation
Indices: 50378874--50378933 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 29
50378864 CTGCGCCGGG
*
50378874 TTGACTCGGACGCATACACACCTTGGCAA
1 TTGACTCAGACGCATACACACCTTGGCAA
50378903 NTTGACTCAGACGCATACACACCTTGGCAA
1 -TTGACTCAGACGCATACACACCTTGGCAA
50378933 T
1 T
50378934 ATCTTTGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 1 0.03
30 28 0.97
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.22
Consensus pattern (29 bp):
TTGACTCAGACGCATACACACCTTGGCAA
Found at i:50379804 original size:67 final size:66
Alignment explanation
Indices: 50379696--50379829 Score: 225
Period size: 67 Copynumber: 2.0 Consensus size: 66
50379686 TTTGGTGGAT
50379696 ATTTTAGCTTTTCATCTAACGAATTTAGTGATATTAATAAATAAGGTGGATTGATGGAAGCTTCA
1 ATTTTAGCTTTTCATCTAAC-AATTTAGTGATATTAATAAATAAGGTGGATTGATGGAAGCTTCA
50379761 CC
65 CC
*
50379763 ATTTTAGCTTTTCAATTTGAA-AATTTAGTGATATTAATAAATAAGGTGGATTGATGGAAGCTTC
1 ATTTTAGCTTTTC-ATCT-AACAATTTAGTGATATTAATAAATAAGGTGGATTGATGGAAGCTTC
50379827 ACC
64 ACC
50379830 GTTGTATCTT
Statistics
Matches: 64, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
67 59 0.92
68 3 0.05
69 2 0.03
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (66 bp):
ATTTTAGCTTTTCATCTAACAATTTAGTGATATTAATAAATAAGGTGGATTGATGGAAGCTTCAC
C
Found at i:50379913 original size:22 final size:23
Alignment explanation
Indices: 50379888--50379930 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
50379878 AAAAAGTTAC
50379888 AAAATATTAATT-AAATTATTTT
1 AAAATATTAATTAAAATTATTTT
* *
50379910 AAAATTTTTATTAAAATTATT
1 AAAATATTAATTAAAATTATT
50379931 AACAGATGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AAAATATTAATTAAAATTATTTT
Found at i:50380558 original size:30 final size:31
Alignment explanation
Indices: 50380506--50380563 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
50380496 GGTCACTGAA
*
50380506 CTATTTAAAAGTTTTCATTTAAGTCATTAAG
1 CTATTCAAAAGTTTTCATTTAAGTCATTAAG
50380537 CTATTCAAAAGTTTT-ATTTAAGTCATT
1 CTATTCAAAAGTTTTCATTTAAGTCATT
50380564 GGTCTGTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.47
Consensus pattern (31 bp):
CTATTCAAAAGTTTTCATTTAAGTCATTAAG
Found at i:50384272 original size:22 final size:22
Alignment explanation
Indices: 50384242--50384285 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
50384232 AGCAGTAGGG
*
50384242 GAAATAGTGACAAGTGCAAAAC
1 GAAAGAGTGACAAGTGCAAAAC
50384264 GAAAGAGTGACAAGTGCAAAAC
1 GAAAGAGTGACAAGTGCAAAAC
50384286 TCAATTACGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.50, C:0.14, G:0.25, T:0.11
Consensus pattern (22 bp):
GAAAGAGTGACAAGTGCAAAAC
Found at i:50384802 original size:21 final size:23
Alignment explanation
Indices: 50384776--50384823 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
50384766 AGTCCATGGT
50384776 CAAGCTT-GGTC-TAGGGAAAGA
1 CAAGCTTGGGTCTTAGGGAAAGA
**
50384797 CAAGCTTGGGTCTTCNGGAAAGA
1 CAAGCTTGGGTCTTAGGGAAAGA
50384820 CAAG
1 CAAG
50384824 TTTGAGTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 7 0.30
22 4 0.17
23 12 0.52
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.19
Consensus pattern (23 bp):
CAAGCTTGGGTCTTAGGGAAAGA
Found at i:50389612 original size:47 final size:47
Alignment explanation
Indices: 50389558--50389649 Score: 148
Period size: 47 Copynumber: 2.0 Consensus size: 47
50389548 ATTAAATTAA
* * * *
50389558 CCATTATTAGTAGGTTTGGTTTCATTTAAGTCATGCATATATATACG
1 CCATTATTAGCAGGTTTAGCTTCATTTAAGTCACGCATATATATACG
50389605 CCATTATTAGCAGGTTTAGCTTCATTTAAGTCACGCATATATATA
1 CCATTATTAGCAGGTTTAGCTTCATTTAAGTCACGCATATATATA
50389650 TTAATGCATA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.40
Consensus pattern (47 bp):
CCATTATTAGCAGGTTTAGCTTCATTTAAGTCACGCATATATATACG
Found at i:50389724 original size:57 final size:53
Alignment explanation
Indices: 50389618--50389765 Score: 167
Period size: 52 Copynumber: 2.7 Consensus size: 53
50389608 TTATTAGCAG
* *
50389618 GTTTAGCTTCATTTAAGTCA--CGCATATATATATTAATGCATATATATATTGTTTTAT
1 GTTTAGCTTCATTTAAGTCATGCACATATATATATTAATGCA-ATATATA-----TTAC
* *
50389675 GTTTAGCTTCATTTAAGTTATGCACATATATATATTAATGC-ATATATATTCC
1 GTTTAGCTTCATTTAAGTCATGCACATATATATATTAATGCAATATATATTAC
*
50389727 GTTTAGCTTCATTTAAGTCATGCATATATATTATATTAA
1 GTTTAGCTTCATTTAAGTCATGCACATATA-TATATTAA
50389766 ATATAAAAAC
Statistics
Matches: 82, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
52 30 0.37
53 8 0.10
57 26 0.32
59 18 0.22
ACGTcount: A:0.32, C:0.11, G:0.10, T:0.46
Consensus pattern (53 bp):
GTTTAGCTTCATTTAAGTCATGCACATATATATATTAATGCAATATATATTAC
Found at i:50390589 original size:22 final size:22
Alignment explanation
Indices: 50390555--50390610 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
50390545 TTACTCAATT
**
50390555 ATAAGTTTCGTTAATATATTCG
1 ATAAGTTAAGTTAATATATTCG
* **
50390577 ATAAGTTAAGTTAGTATATTTT
1 ATAAGTTAAGTTAATATATTCG
50390599 ATAAG-TAAGTTA
1 ATAAGTTAAGTTA
50390611 CTCCATTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 7 0.24
22 22 0.76
ACGTcount: A:0.38, C:0.04, G:0.14, T:0.45
Consensus pattern (22 bp):
ATAAGTTAAGTTAATATATTCG
Found at i:50393579 original size:22 final size:21
Alignment explanation
Indices: 50393536--50393577 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
50393526 CATGTAATTA
*
50393536 TTTAGTAGTAAATTATATTTG
1 TTTAGTAGTAAATAATATTTG
50393557 TTTATGTAGTTAAATAATATT
1 TTTA-GTAG-TAAATAATATT
50393578 GTACTTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 4 0.22
23 10 0.56
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (21 bp):
TTTAGTAGTAAATAATATTTG
Found at i:50400078 original size:22 final size:22
Alignment explanation
Indices: 50400030--50400100 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
50400020 CGGTGGTTGA
* *
50400030 CGATGGTCGGTGGT-G-ACTTA
1 CGATGGTCGGTAGTGGAACTTG
50400050 CGATGGTCGGTAGTGGAACTTG
1 CGATGGTCGGTAGTGGAACTTG
* * * *
50400072 CGGTGGTTGGTGGTGGAATTTG
1 CGATGGTCGGTAGTGGAACTTG
50400094 CGATGGT
1 CGATGGT
50400101 AAGATAACTG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 13 0.31
21 1 0.02
22 28 0.67
ACGTcount: A:0.14, C:0.11, G:0.44, T:0.31
Consensus pattern (22 bp):
CGATGGTCGGTAGTGGAACTTG
Found at i:50404507 original size:48 final size:48
Alignment explanation
Indices: 50404449--50404543 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
50404439 CACATAGTAA
* *
50404449 GATGCCAATGCCATATCCCAGATATGGTCTTACATAGGATCACATATT
1 GATGCCAATGCCATATCCCAGACATGGTCTTAAATAGGATCACATATT
* *
50404497 GATGCCAATGCCATGTCCCAGACATGGTCTTAAATGGGATCACATAT
1 GATGCCAATGCCATATCCCAGACATGGTCTTAAATAGGATCACATAT
50404544 GGTCTTACTG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAGACATGGTCTTAAATAGGATCACATATT
Found at i:50404557 original size:21 final size:22
Alignment explanation
Indices: 50404520--50404564 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
50404510 TGTCCCAGAC
50404520 ATGGTCTTAAATGGGATCACAT
1 ATGGTCTTAAATGGGATCACAT
*
50404542 ATGGTCTT-ACTGGGATCACAT
1 ATGGTCTTAAATGGGATCACAT
50404563 AT
1 AT
50404565 CGATGCCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (22 bp):
ATGGTCTTAAATGGGATCACAT
Found at i:50404582 original size:69 final size:70
Alignment explanation
Indices: 50404470--50404608 Score: 235
Period size: 69 Copynumber: 2.0 Consensus size: 70
50404460 CATATCCCAG
* *
50404470 ATATGGTCTTACATAGGATCACATATTGATGCCAATGCCATGTCCCAGACATGGTCTTAAATGGG
1 ATATGGTCTTACATAGGATCACATATCGATGCCAATGCCATGTCCCAGACATAGTCTTAAATGGG
50404535 ATCAC
66 ATCAC
* *
50404540 ATATGGTCTTAC-TGGGATCACATATCGATGCCAATGCCATGTCCCAGACATAGTCTTACATGGG
1 ATATGGTCTTACATAGGATCACATATCGATGCCAATGCCATGTCCCAGACATAGTCTTAAATGGG
50404604 ATCAC
66 ATCAC
50404609 GTATCGATGC
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
69 53 0.82
70 12 0.18
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (70 bp):
ATATGGTCTTACATAGGATCACATATCGATGCCAATGCCATGTCCCAGACATAGTCTTAAATGGG
ATCAC
Found at i:50404596 original size:117 final size:117
Alignment explanation
Indices: 50404449--50404660 Score: 352
Period size: 117 Copynumber: 1.8 Consensus size: 117
50404439 CACATAGTAA
* * *
50404449 GATGCCAATGCCATATCCCAGATATGGTCTTACATAGGATCACATATTGATGCCAATGCCATGTC
1 GATGCCAATGCCATATCCCAGACATAGTCTTACATAGGATCACATATCGATGCCAATGCCATGTC
50404514 CCAGACATGGTCTTAAATGGGATCACATATGGTCTTACTGGGATCACATATC
66 CCAGACATGGTCTTAAATGGGATCACATATGGTCTTACTGGGATCACATATC
* * * *
50404566 GATGCCAATGCCATGTCCCAGACATAGTCTTACATGGGATCACGTATCGATGCCAATGTCATGTC
1 GATGCCAATGCCATATCCCAGACATAGTCTTACATAGGATCACATATCGATGCCAATGCCATGTC
*
50404631 CCAGACATGGTCTTACATGGGATCACATAT
66 CCAGACATGGTCTTAAATGGGATCACATAT
50404661 CAATGCCAAT
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
117 87 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (117 bp):
GATGCCAATGCCATATCCCAGACATAGTCTTACATAGGATCACATATCGATGCCAATGCCATGTC
CCAGACATGGTCTTAAATGGGATCACATATGGTCTTACTGGGATCACATATC
Found at i:50404614 original size:48 final size:48
Alignment explanation
Indices: 50404542--50404708 Score: 282
Period size: 48 Copynumber: 3.5 Consensus size: 48
50404532 GGGATCACAT
*
50404542 ATGGTCTTAC-TGGGATCACATATCGATGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGATCACATATCGATGCCAATGTCATGTCCCAGAC
* *
50404589 ATAGTCTTACATGGGATCACGTATCGATGCCAATGTCATGTCCCAGAC
1 ATGGTCTTACATGGGATCACATATCGATGCCAATGTCATGTCCCAGAC
* *
50404637 ATGGTCTTACATGGGATCACATATCAATGCCAATGTCATGTTCCAGAC
1 ATGGTCTTACATGGGATCACATATCGATGCCAATGTCATGTCCCAGAC
50404685 ATGGTCTTACATGGGATCACATAT
1 ATGGTCTTACATGGGATCACATAT
50404709 AACTCTAATG
Statistics
Matches: 112, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
47 9 0.08
48 103 0.92
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (48 bp):
ATGGTCTTACATGGGATCACATATCGATGCCAATGTCATGTCCCAGAC
Found at i:50410967 original size:48 final size:48
Alignment explanation
Indices: 50410898--50411037 Score: 235
Period size: 48 Copynumber: 2.9 Consensus size: 48
50410888 TAGGGTTATG
* *
50410898 TGTGATCCCATGTAAGACCATGTCTGGGGCATGGCATTGGCATTGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* *
50410946 TGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTAGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
*
50410994 AGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
50411038 TTACTATGTG
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 85 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:50413182 original size:18 final size:18
Alignment explanation
Indices: 50413155--50413190 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
50413145 TAAATATCTC
*
50413155 GGTCGGACTACTCTTCAT
1 GGTCGAACTACTCTTCAT
50413173 GGTCGAACTACTCTTCAT
1 GGTCGAACTACTCTTCAT
50413191 TGTTGGACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.33
Consensus pattern (18 bp):
GGTCGAACTACTCTTCAT
Found at i:50420124 original size:3 final size:3
Alignment explanation
Indices: 50420116--50420275 Score: 114
Period size: 3 Copynumber: 53.3 Consensus size: 3
50420106 TCTAAAAAGA
* * *
50420116 AAT AAT AAT AAT AAT -AG AAT AAT AAT -AG AAT AAAG AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* * * *
50420160 ACATT AAT AAT AAT AAT AAT AGT AGT AA- AGAC AAT AAT AAT AAG AAT
1 A-A-T AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
* * * * * *
50420207 GAT AAT AAT AAT ACT ACT ACT AAT AAT AAT AGT AAT AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
50420255 AAT AGAT -TT AAT AAT AA- AAT A
1 AAT A-AT AAT AAT AAT AAT AAT A
50420276 GCCAAAATGA
Statistics
Matches: 126, Mismatches: 21, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
2 6 0.05
3 111 0.88
4 7 0.06
5 2 0.02
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:50424506 original size:73 final size:74
Alignment explanation
Indices: 50424415--50424562 Score: 262
Period size: 73 Copynumber: 2.0 Consensus size: 74
50424405 TCCCCTTAGC
* * *
50424415 ATCTAAGGTACATGCATGCTCATTTGTTTGGCTCAACTTCACCTATCTTCCATTTTTCATTAAAA
1 ATCTAAGGCACATGCATGCTCATTTGTTTGGCTCAACTTCACATATCTTCCATTTTTCATCAAAA
50424480 GAACATGAA
66 GAACATGAA
50424489 ATCTAA-GCACATGCATGCTCATTTGTTTGGCTCAACTTCACATATCTTCCATTTTTCATCAAAA
1 ATCTAAGGCACATGCATGCTCATTTGTTTGGCTCAACTTCACATATCTTCCATTTTTCATCAAAA
50424553 GAACATGAA
66 GAACATGAA
50424562 A
1 A
50424563 CAACAACCAT
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
73 65 0.92
74 6 0.08
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.35
Consensus pattern (74 bp):
ATCTAAGGCACATGCATGCTCATTTGTTTGGCTCAACTTCACATATCTTCCATTTTTCATCAAAA
GAACATGAA
Found at i:50424919 original size:26 final size:26
Alignment explanation
Indices: 50424883--50424990 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
50424873 TGAAATTCCA
50424883 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
50424909 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
50424935 ATCATGAAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
50424961 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
50424987 ATCA
1 ATCA
50424991 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:50426353 original size:6 final size:6
Alignment explanation
Indices: 50426343--50426375 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
50426333 TATCTTATTT
*
50426343 TTCTAT TTCTAG TTCTAG TTCTAG TTCTAG TTC
1 TTCTAG TTCTAG TTCTAG TTCTAG TTCTAG TTC
50426376 ATAGCCTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.18, G:0.12, T:0.55
Consensus pattern (6 bp):
TTCTAG
Found at i:50432777 original size:14 final size:14
Alignment explanation
Indices: 50432758--50432784 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50432748 GCTTTTAGTT
50432758 TAATTTTTCTTTTC
1 TAATTTTTCTTTTC
50432772 TAATTTTTCTTTT
1 TAATTTTTCTTTT
50432785 GTTTGGTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.11, G:0.00, T:0.74
Consensus pattern (14 bp):
TAATTTTTCTTTTC
Found at i:50436885 original size:30 final size:30
Alignment explanation
Indices: 50436851--50436911 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
50436841 TCCTTAACTC
50436851 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
50436881 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
50436911 A
1 A
50436912 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:50439051 original size:46 final size:46
Alignment explanation
Indices: 50438999--50439113 Score: 169
Period size: 46 Copynumber: 2.5 Consensus size: 46
50438989 TGATGTCATA
* * *
50438999 GTATCTTTCAACTATAGTCTTATTCATTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGTTGCCATG
* *
50439045 GTATCTTTCAACCATGGTCGTGTTCATTTCATGTCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATG
50439091 GTATCTTTCAACCATGGTCTTAT
1 GTATCTTTCAACCATGGTCTTAT
50439114 AAAAAGTTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 4 0.07
46 57 0.93
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATG
Found at i:50439319 original size:46 final size:46
Alignment explanation
Indices: 50439249--50439541 Score: 457
Period size: 46 Copynumber: 6.4 Consensus size: 46
50439239 CCTTTCTAAT
*
50439249 TTTCATATCATGTTGCCATAGTATCTTTCAACCATGGTCTTATTCA
1 TTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA
* *
50439295 TTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA
1 TTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA
*
50439341 TTTCATATCATGTTGCCATAGTATCTTTCAACCATGGTCTTATTCA
1 TTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA
* *
50439387 TTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA
1 TTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA
**
50439433 TTTTC-TATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 -TTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA
* *
50439479 TTTCATATCATGATGCCATGGTATCTTTCAACCATGATCTTA--CA
1 TTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA
*
50439523 TTTAATATCATGTTGCCAT
1 TTTCATATCATGTTGCCAT
50439542 TGTAACAGCC
Statistics
Matches: 228, Mismatches: 17, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
44 19 0.08
45 4 0.02
46 201 0.88
47 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.42
Consensus pattern (46 bp):
TTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA
Found at i:50439390 original size:21 final size:21
Alignment explanation
Indices: 50439320--50439391 Score: 65
Period size: 21 Copynumber: 3.2 Consensus size: 21
50439310 CCATGGTATC
50439320 TTTCAACCATGGTCTTATTCA
1 TTTCAACCATGGTCTTATTCA
* * *
50439341 TTTCATATCATGTTGCCATAGTATC-
1 TTTCA-ACCATG--GTCTTA-T-TCA
50439366 TTTCAACCATGGTCTTATTCA
1 TTTCAACCATGGTCTTATTCA
50439387 TTTCA
1 TTTCA
50439392 TGTCACGTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
20 2 0.05
21 11 0.28
22 9 0.23
24 9 0.23
25 6 0.15
26 2 0.05
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.44
Consensus pattern (21 bp):
TTTCAACCATGGTCTTATTCA
Found at i:50442184 original size:8 final size:8
Alignment explanation
Indices: 50442171--50442202 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
50442161 CTAGATCGGC
50442171 AAAAGCCG
1 AAAAGCCG
50442179 AAAAGCCG
1 AAAAGCCG
*
50442187 AAAAGCTG
1 AAAAGCCG
50442195 AAAAGCCG
1 AAAAGCCG
50442203 GCATTTGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.50, C:0.22, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:50444796 original size:21 final size:19
Alignment explanation
Indices: 50444758--50444797 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
50444748 CCCCTATTCT
*
50444758 AACTTTTAAAAATCATTAA
1 AACTTTTAAAAATAATTAA
50444777 AACTTTTACAAAACTAATTAA
1 AACTTTTA-AAAA-TAATTAA
50444798 GAAATATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (19 bp):
AACTTTTAAAAATAATTAA
Found at i:50453159 original size:259 final size:259
Alignment explanation
Indices: 50452700--50453217 Score: 955
Period size: 259 Copynumber: 2.0 Consensus size: 259
50452690 CAGAGAATAC
* * **
50452700 TCGAAGACGGCCATCGGAATCAGCTTGGAAGCAGGATCTACTTCAAGACTGGAAACCTCCATTCA
1 TCGAAGACAGCCATCGGAATCAGCTCGGAAGCAGGATCTACTTCAAGACTAAAAACCTCCATTCA
50452765 ATTTCATTAGAAGTTCTTTGGGTTTCTTTATGTTTCGTTGTTTTCCCAATTTTGAGATGTTGTCC
66 ATTTCATTAGAAGTTCTTTGGGTTTCTTTATGTTTCGTTGTTTTCCCAATTTTGAGATGTTGTCC
* *
50452830 CCCATCGTTATGAACTGAACTCCCTAAGTACCTAAGGGAGATGAAACCTAAGACAGATCTTATTA
131 CCCATCGTTATGAACTAAACTCCCTAAGTACCTAAAGGAGATGAAACCTAAGACAGATCTTATTA
*
50452895 TTATTTGAATTATATGATAAGTACTTGTTCTTACTCTTAATTATGTGTTCTTAATTCTTGCTTT
196 TTATTTGAATTATATGATAAATACTTGTTCTTACTCTTAATTATGTGTTCTTAATTCTTGCTTT
50452959 TCGAAGACAGCCATCGGAATCAGCTCGGAAGCAGGATCTACTTCAAGACTAAAAACCTCCATTCA
1 TCGAAGACAGCCATCGGAATCAGCTCGGAAGCAGGATCTACTTCAAGACTAAAAACCTCCATTCA
*
50453024 ATTTCATTAGAAGTTCTTTGGGTTTCTTTATGTTTCGTTGTTTTCCTAATTTTGAGATGTTGTCC
66 ATTTCATTAGAAGTTCTTTGGGTTTCTTTATGTTTCGTTGTTTTCCCAATTTTGAGATGTTGTCC
*
50453089 CCTATCGTTATGAACTAAACTCCCTAAGTACCTAAAGGAGATGAAACCTAAGACAGATCTTATTA
131 CCCATCGTTATGAACTAAACTCCCTAAGTACCTAAAGGAGATGAAACCTAAGACAGATCTTATTA
50453154 TTATTTGAATTATATGATAAATACTTGTTCTTACTCTTAATTATGTGTTCTTAATTCTTGCTTT
196 TTATTTGAATTATATGATAAATACTTGTTCTTACTCTTAATTATGTGTTCTTAATTCTTGCTTT
50453218 AATATTTCAG
Statistics
Matches: 250, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
259 250 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.38
Consensus pattern (259 bp):
TCGAAGACAGCCATCGGAATCAGCTCGGAAGCAGGATCTACTTCAAGACTAAAAACCTCCATTCA
ATTTCATTAGAAGTTCTTTGGGTTTCTTTATGTTTCGTTGTTTTCCCAATTTTGAGATGTTGTCC
CCCATCGTTATGAACTAAACTCCCTAAGTACCTAAAGGAGATGAAACCTAAGACAGATCTTATTA
TTATTTGAATTATATGATAAATACTTGTTCTTACTCTTAATTATGTGTTCTTAATTCTTGCTTT
Found at i:50457544 original size:10 final size:10
Alignment explanation
Indices: 50457525--50457557 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
50457515 AATATATTTT
50457525 AAAA-ATTCA
1 AAAACATTCA
50457534 AAAACATTCA
1 AAAACATTCA
50457544 AAAACATTCA
1 AAAACATTCA
50457554 AAAA
1 AAAA
50457558 AAATTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.17
10 19 0.83
ACGTcount: A:0.67, C:0.15, G:0.00, T:0.18
Consensus pattern (10 bp):
AAAACATTCA
Found at i:50457567 original size:20 final size:18
Alignment explanation
Indices: 50457522--50457570 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
50457512 AAAAATATAT
*
50457522 TTTAAAAATTCAAAAACA
1 TTTAAAAATTCAAAAAAA
*
50457540 TTCAAAAACATTCAAAAAAAA
1 TT-TAAAA-ATTC-AAAAAAA
50457561 TTTAAAAATT
1 TTTAAAAATT
50457571 TATCCATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 2 0.08
19 7 0.28
20 8 0.32
21 8 0.32
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (18 bp):
TTTAAAAATTCAAAAAAA
Found at i:50460714 original size:31 final size:30
Alignment explanation
Indices: 50460654--50460729 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
50460644 GTAGATTTAG
* *
50460654 TCCTTATACTTT-AATTTGATCAATTTTAA
1 TCCTTATATTTTCAATTTGATCAATGTTAA
* *
50460683 TCCTTATAGTTTTCAATTTGGTTAATGTTAA
1 TCCTTATA-TTTTCAATTTGATCAATGTTAA
*
50460714 TCCTTGTACTTTTCAA
1 TCCTTATA-TTTTCAA
50460730 AATTTGAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 8 0.21
30 3 0.08
31 28 0.72
ACGTcount: A:0.26, C:0.14, G:0.08, T:0.51
Consensus pattern (30 bp):
TCCTTATATTTTCAATTTGATCAATGTTAA
Found at i:50463991 original size:18 final size:18
Alignment explanation
Indices: 50463970--50464004 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50463960 TAATATTATA
50463970 AAATAAAATAATTATTTC
1 AAATAAAATAATTATTTC
* *
50463988 AAATATAATTATTATTT
1 AAATAAAATAATTATTT
50464005 TTATATGTAA
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:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATAAAATAATTATTTC
Found at i:50467285 original size:8 final size:8
Alignment explanation
Indices: 50467272--50467306 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
50467262 TTTTAAAGAT
50467272 TTTTTTAA
1 TTTTTTAA
50467280 TTTTTTAA
1 TTTTTTAA
50467288 TAATTTTTAA
1 T--TTTTTAA
50467298 TTTTTTAA
1 TTTTTTAA
50467306 T
1 T
50467307 AGTTTTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 17 0.68
10 8 0.32
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (8 bp):
TTTTTTAA
Found at i:50467294 original size:18 final size:18
Alignment explanation
Indices: 50467273--50467317 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
50467263 TTTAAAGATT
50467273 TTTTTAATTTTTTAATAA
1 TTTTTAATTTTTTAATAA
*
50467291 TTTTTAATTTTTTAATAG
1 TTTTTAATTTTTTAATAA
50467309 TTTTATAAT
1 TTTT-TAAT
50467318 ATTTGAAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTTAATTTTTTAATAA
Found at i:50467312 original size:11 final size:10
Alignment explanation
Indices: 50467247--50467321 Score: 57
Period size: 11 Copynumber: 7.5 Consensus size: 10
50467237 CTTGGACATG
*
50467247 TATTTTTCAA
1 TATTTTTTAA
50467257 TAATTTTTTAAA
1 T-ATTTTTT-AA
* *
50467269 GATTTTTTTA
1 TATTTTTTAA
50467279 -ATTTTTTAA
1 TATTTTTTAA
*
50467288 TAATTTTT-A
1 TATTTTTTAA
50467297 -ATTTTTTAA
1 TATTTTTTAA
*
50467306 TAGTTTTATAA
1 TA-TTTTTTAA
50467317 TATTT
1 TATTT
50467322 GAAACCACAT
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
8 6 0.12
9 10 0.19
10 12 0.23
11 22 0.42
12 2 0.04
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (10 bp):
TATTTTTTAA
Found at i:50468450 original size:23 final size:23
Alignment explanation
Indices: 50468416--50468487 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 23
50468406 TATTTTAACT
50468416 TTTTAAAA-TTTATAATTATATA
1 TTTTAAAATTTTATAATTATATA
** *
50468438 TTTTAAAATTTTATAAAAATTTA
1 TTTTAAAATTTTATAATTATATA
*
50468461 TTTTTTAAATTTATATATATTATATA
1 -TTTTAAAATTT-TATA-ATTATATA
50468487 T
1 T
50468488 GATATTTTAC
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
22 8 0.21
23 11 0.28
24 10 0.26
25 5 0.13
26 5 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTTAAAATTTTATAATTATATA
Found at i:50477254 original size:26 final size:26
Alignment explanation
Indices: 50477225--50477277 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
50477215 TTTACAATTT
50477225 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTA-GAGATAAATTGACCGAAA
* * *
50477251 TACCCTTAGAGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
50477277 T
1 T
50477278 GAATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:50479154 original size:9 final size:9
Alignment explanation
Indices: 50479140--50479215 Score: 59
Period size: 9 Copynumber: 8.4 Consensus size: 9
50479130 TAAACAATAT
50479140 TTTTTATAA
1 TTTTTATAA
*
50479149 TTTTTATAC
1 TTTTTATAA
50479158 TTTTTAATAA
1 TTTTT-ATAA
* *
50479168 TTTTAATAC
1 TTTTTATAA
50479177 TTTTT-T-A
1 TTTTTATAA
*
50479184 TTTTTAAATA
1 TTTTTATA-A
*
50479194 TTTTTTTGAA
1 TTTTTAT-AA
50479204 TTTTTA-AA
1 TTTTTATAA
50479212 TTTT
1 TTTT
50479216 AAAAAATTAA
Statistics
Matches: 52, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
7 5 0.10
8 7 0.13
9 20 0.38
10 19 0.37
11 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (9 bp):
TTTTTATAA
Found at i:50479161 original size:19 final size:19
Alignment explanation
Indices: 50479135--50479184 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
50479125 AAACTTAAAC
50479135 AATA-TTTTTTATAATTTT
1 AATACTTTTTTATAATTTT
* *
50479153 TATACTTTTTAATAATTTT
1 AATACTTTTTTATAATTTT
50479172 AATACTTTTTTAT
1 AATACTTTTTTAT
50479185 TTTTAAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 3 0.11
19 24 0.89
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (19 bp):
AATACTTTTTTATAATTTT
Found at i:50479180 original size:28 final size:26
Alignment explanation
Indices: 50479135--50479190 Score: 67
Period size: 28 Copynumber: 2.1 Consensus size: 26
50479125 AAACTTAAAC
* *
50479135 AATATTTTTTATAATTTTTATACTTTTT
1 AATAATTTTAATAATTTTT-TA-TTTTT
*
50479163 AATAATTTTAATACTTTTTTATTTTT
1 AATAATTTTAATAATTTTTTATTTTT
50479189 AA
1 AA
50479191 ATATTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 7 0.28
27 2 0.08
28 16 0.64
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (26 bp):
AATAATTTTAATAATTTTTTATTTTT
Found at i:50485070 original size:2 final size:2
Alignment explanation
Indices: 50485063--50485095 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
50485053 CTGTTTCTTT
*
50485063 TC TC TC TC TC -C CC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
50485096 GGGATTGGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (2 bp):
TC
Found at i:50488491 original size:28 final size:29
Alignment explanation
Indices: 50488450--50488508 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
50488440 AGTAAAAAAC
*
50488450 TTAATAAATAATAGAAATAAAAGAT-GAAA
1 TTAATAAAGAATAGAAATAAAAG-TGGAAA
* *
50488479 TTAA-AAAGAATAGCATTAAAAGTGGAAA
1 TTAATAAAGAATAGAAATAAAAGTGGAAA
50488507 TT
1 TT
50488509 TATTGAGAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 1 0.04
28 21 0.81
29 4 0.15
ACGTcount: A:0.59, C:0.02, G:0.14, T:0.25
Consensus pattern (29 bp):
TTAATAAAGAATAGAAATAAAAGTGGAAA
Found at i:50492885 original size:2 final size:2
Alignment explanation
Indices: 50492880--50492906 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
50492870 ATTAAAAATT
50492880 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
50492907 TAAGTCCCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50493105 original size:33 final size:34
Alignment explanation
Indices: 50493045--50493111 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 34
50493035 AATATATGAT
* **
50493045 AAAATTATACTTTAATCCTTCCCAAAT-ATGAAA
1 AAAATTATACTTTAACCCTTCAAAAATAATGAAA
50493078 AAAATTATA-TTTAACCCCTTCAAAAATAATGAAA
1 AAAATTATACTTTAA-CCCTTCAAAAATAATGAAA
50493112 TTATAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 5 0.17
33 18 0.62
34 6 0.21
ACGTcount: A:0.49, C:0.16, G:0.03, T:0.31
Consensus pattern (34 bp):
AAAATTATACTTTAACCCTTCAAAAATAATGAAA
Found at i:50494110 original size:3 final size:3
Alignment explanation
Indices: 50494104--50494132 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
50494094 AAATATACAC
50494104 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
50494133 TTGAAATACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:50494339 original size:281 final size:282
Alignment explanation
Indices: 50493975--50494505 Score: 672
Period size: 290 Copynumber: 1.9 Consensus size: 282
50493965 ATAATGATGA
* * *
50493975 TAATGATAATAATACTAGCAATAATAATGAAATACAAAAAAAAAGCAAATATAATAATAATGTTA
1 TAATAATAATAATAATAGCAATAATAATGAAATACAAAAAAAAAGCAAATATAATAATAATATTA
*
50494040 AAATAAAGTAATT-AAA-AATA-G-T-AT-TATATATA-A-ATATATA-TACGTATATAATAAAA
66 AAATAAAGTAATTAAAATAATACGATAATATATATATATATATATATAGTACATATATAATAAAA
50494096 ATATACACTAATAATAATAATAATAATAATAATAATATTGAAATAC-AAAAAGCAAACGTAATAT
131 ATATACAC---TAATAATAATAATAATAATAATAATATTGAAATACAAAAAAGC--A---AATAT
* *
50494160 AATAAAAATATTAAAATAAAGTAATTAAAAAATAATACTATGTATAAATATA-AATACATATACA
188 AATAAAAATATTAAAATAAAGTAATAAAAAAATAATA-TATATATAAATATATAATACATATACA
50494224 TATATAATAAAAAATATACTAATATTAGTAG
252 TATATAATAAAAAATATACTAATATTAGTAG
* * * * * *
50494255 TAATAATAATAATAATAGTAATAATATTGAAATATAAAAAGCAAA-TATAATATCATAATAATAT
1 TAATAATAATAATAATAGCAATAATAATGAAATACAAAAA-AAAAGCA-AATATAATAATAATAT
50494319 TAAAATAAAGTAATTAAAAATAATACTGTATATAAATATATATATATATATATATATGTACATAT
64 TAAAATAAAGTAATT-AAAATAATAC-G---AT-AATATATATATATATATATATA-GTACATAT
* *
50494384 ATAATAAAAATATACACTAATAATAATGATAATAGTAATAATATTGAAATACAAAAAAGCAAATA
122 ATAATAAAAATATACACTAATAATAATAATAATAATAATAATATTGAAATACAAAAAAGCAAATA
* *
50494449 TAATAAAAATATTAAAATAAAGTAATAAAAAAATACTATATATATACATATATAATA
187 TAATAAAAATATTAAAATAAAGTAATAAAAAAATAATATATATATAAATATATAATA
50494506 AAAATATACA
Statistics
Matches: 215, Mismatches: 16, Indels: 30
0.82 0.06 0.11
Matches are distributed among these distances:
280 36 0.17
281 32 0.15
283 3 0.01
284 4 0.02
286 1 0.00
289 12 0.06
290 45 0.21
292 2 0.01
293 9 0.04
294 34 0.16
295 14 0.07
297 23 0.11
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.31
Consensus pattern (282 bp):
TAATAATAATAATAATAGCAATAATAATGAAATACAAAAAAAAAGCAAATATAATAATAATATTA
AAATAAAGTAATTAAAATAATACGATAATATATATATATATATATATAGTACATATATAATAAAA
ATATACACTAATAATAATAATAATAATAATAATATTGAAATACAAAAAAGCAAATATAATAAAAA
TATTAAAATAAAGTAATAAAAAAATAATATATATATAAATATATAATACATATACATATATAATA
AAAAATATACTAATATTAGTAG
Found at i:50494359 original size:2 final size:2
Alignment explanation
Indices: 50494347--50494386 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
50494337 AATAATACTG
* * *
50494347 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TG TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
50494387 ATAAAAATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:50494531 original size:3 final size:3
Alignment explanation
Indices: 50494448--50494584 Score: 59
Period size: 3 Copynumber: 45.0 Consensus size: 3
50494438 AAAAGCAAAT
* * * * *
50494448 ATA ATA AAA ATA TTA A-A ATA A-A GTA ATA A-A AAA ATA CTA TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* *
50494491 TATA CATA TATA ATA AAA AT- ATA CACTA ATA TTA ATA ATA ATA ATA
1 -ATA -ATA -ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA ATA
* * * * * *
50494537 GTG ATA ATA GTG ATA ATA TTA ATA ATA TTA GA-A ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
50494582 ATA
1 ATA
50494585 TTTAATAAAG
Statistics
Matches: 98, Mismatches: 27, Indels: 18
0.69 0.19 0.13
Matches are distributed among these distances:
2 8 0.08
3 74 0.76
4 14 0.14
5 2 0.02
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:50494926 original size:136 final size:136
Alignment explanation
Indices: 50494682--50494929 Score: 397
Period size: 136 Copynumber: 1.8 Consensus size: 136
50494672 AANGCCGGTG
* * * * * *
50494682 GAGCAGTTATGGTGCGACAGGATAGGGGGCAAAGGCGGCTCCTAGGGTTTCTGTTTTCTGTTTTA
1 GAGCAGGTATGGTGCAACAGGACAGGGGACAAAGGCGACTCCTAAGGTTTCTGTTTTCTGTTTTA
50494747 GTTTTTGGGCTAGGTCTTTGTTGTTTGGGCTGCTAGGTTGGTTTAGTAGGGCATGGCCGGTGGAG
66 GTTTTTGGGCTAGGTCTTTGTTGTTTGGGCTGCTAGGTTGGTTTAGTAGGGCATGGCCGGTGGAG
50494812 CAGGTA
131 CAGGTA
* * * *
50494818 GAGCAGGTATGGTGTAACGGGACAGGGGACAGAGGCGACTCCTAAGGTTTCTGTTTTTTGTTTTA
1 GAGCAGGTATGGTGCAACAGGACAGGGGACAAAGGCGACTCCTAAGGTTTCTGTTTTCTGTTTTA
*
50494883 GTTTTTGGGCTAGGTCTTTGTTGTTTGGGCTGTTAGGTTGGTTTAGT
66 GTTTTTGGGCTAGGTCTTTGTTGTTTGGGCTGCTAGGTTGGTTTAGT
50494930 TTGTTTCTGA
Statistics
Matches: 101, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
136 101 1.00
ACGTcount: A:0.15, C:0.12, G:0.37, T:0.36
Consensus pattern (136 bp):
GAGCAGGTATGGTGCAACAGGACAGGGGACAAAGGCGACTCCTAAGGTTTCTGTTTTCTGTTTTA
GTTTTTGGGCTAGGTCTTTGTTGTTTGGGCTGCTAGGTTGGTTTAGTAGGGCATGGCCGGTGGAG
CAGGTA
Found at i:50495646 original size:56 final size:56
Alignment explanation
Indices: 50495555--50495668 Score: 147
Period size: 56 Copynumber: 2.0 Consensus size: 56
50495545 GTGTGACCTG
* **
50495555 AGGCTCTACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAAACAGAAACTAAA
1 AGGCTCAACTCACCTCTCACAATATGAGTCAATTTTTTTGAAAAACAGAAACTAAA
* * *** *
50495611 AGGCTCAACTCACTTCTCGCAATATGAGTCAATTTTTTTGGCGAATAGAAACTAAA
1 AGGCTCAACTCACCTCTCACAATATGAGTCAATTTTTTTGAAAAACAGAAACTAAA
50495667 AG
1 AG
50495669 TACCTCAGTG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (56 bp):
AGGCTCAACTCACCTCTCACAATATGAGTCAATTTTTTTGAAAAACAGAAACTAAA
Found at i:50495880 original size:90 final size:88
Alignment explanation
Indices: 50495727--50495906 Score: 261
Period size: 90 Copynumber: 2.0 Consensus size: 88
50495717 TGATTTTGTG
* * * *
50495727 AAACATAAATTGAAGATACCTCAGCGTGTGACCCAAGGGTCAACTCACCTCTCGCAATATGAGTT
1 AAACAAAAATTGAAAATACCTCAGCATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTT
*
50495792 GATTTTTTGAAAAGTAGAAATTAAA
66 GA-TTTTTGAAAAATAGAAA-TAAA
* * * *
50495817 AAACAAAAATTGAAAATATCTCGGCATGTGGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAACAAAAATTGAAAATACCTCAGCATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTT
50495882 GATTTTTGAAAAATAGAAATAAA
66 GATTTTTGAAAAATAGAAATAAA
50495905 AA
1 AA
50495907 TATCAGGATA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
88 6 0.07
89 16 0.20
90 59 0.73
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (88 bp):
AAACAAAAATTGAAAATACCTCAGCATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAATAGAAATAAA
Found at i:50499199 original size:46 final size:46
Alignment explanation
Indices: 50499132--50499301 Score: 173
Period size: 46 Copynumber: 3.7 Consensus size: 46
50499122 TGTAACCCGC
50499132 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCCTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCCTTCGCAT
* * ** *
50499178 CCATAAGTAAACTCGGACTCAACTCAACGAGCTTGGATGCC-GAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCCTTCGCAT
* *** * * *
50499224 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCCTTCGCAT
* *
50499271 CCATAAGTGAACTCGAACTCAACCCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
50499302 TTCAGATGCT
Statistics
Matches: 96, Mismatches: 23, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
45 1 0.01
46 61 0.64
47 31 0.32
48 3 0.03
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCCTTCGCAT
Found at i:50499310 original size:93 final size:93
Alignment explanation
Indices: 50499140--50499310 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
50499130 GCCCATAAGT
* * * *
50499140 GAACTCGGACTCAACTCAACGAGCTCGGGCCTTCGCATCCATAAGTAAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGAACTCAACCCAA
*
50499205 CGAGCTTGGATGCCGAGTTACATCTCTC
66 CGAGCTTAGATGCCGAGTTACATCTCTC
* *
50499233 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACCCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGAACTCAACCCAA
50499298 CGAG-TTCAGATGC
66 CGAGCTT-AGATGC
50499311 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGAACTCAACCCAA
CGAGCTTAGATGCCGAGTTACATCTCTC
Found at i:50524146 original size:177 final size:178
Alignment explanation
Indices: 50523715--50524416 Score: 924
Period size: 177 Copynumber: 4.0 Consensus size: 178
50523705 AGATAAGGTC
* * * ** * *
50523715 TAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATTTTCGGCCTACTCCCTTACTACCT
1 TAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTGCTACCT
* * * * *
50523780 TAGGAAGATAAGGCTGGTGGCTAAAATCTACTCCCCTGCTGCCTCGGAAAGATAAGATTCGCCGT
66 CAGAAAGATAAGGCTGGTGGCTAAAATCTACTCCCCTGCTACCTCGGGAAGATAAGATTCGCCAT
* * *
50523845 CTTCAATCTGCTCCACTACTATTTTAGGGAGATAAGATCTACAATCTT
131 CTTCGATCTGCTCCACTACTATCTTAGGGAGATAAGATCTATAATCTT
* ** * * * *
50523893 TAATCTACTTCCTTAATACCACAGGAAGATAAAACTATAATCTTCAACCTGCTCTCTTGCTACCT
1 TAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTGCTACCT
* * * * *
50523958 CAGAGAGATAAGGCTGATGACTAAAATCTGCTCCCCTGCTACCTTGGGAAGATAAGATTCGCCAT
66 CAGAAAGATAAGGCTGGTGGCTAAAATCTACTCCCCTGCTACCTCGGGAAGATAAGATTCGCCAT
* * *
50524023 CTTCGATCTGCTCCACTACT-GCTTAAGGAGATAAGATCTATGATCTT
131 CTTCGATCTGCTCCACTACTATCTTAGGGAGATAAGATCTATAATCTT
* ** *
50524070 CAGTCTTTTTCTTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTGCTACCT
1 TAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTGCTACCT
* * * *
50524135 CAGAAAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACTTCAGGAAGATAAGATTTGCCAT
66 CAGAAAGATAAGGCTGGTGGCTAAAATCTACTCCCCTGCTACCTCGGGAAGATAAGATTCGCCAT
* *
50524200 CTTCGATCTACTTCACTACT-TCTTAGGGAGATAAGATCTATAATCTT
131 CTTCGATCTGCTCCACTACTATCTTAGGGAGATAAGATCTATAATCTT
* * **
50524247 TAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTACAATCTTCAACCTGTTCTCTTGCTACCT
1 TAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTGCTACCT
* *
50524312 CA-AAGAGATAAGGCTGGTGGCTAAAATCTATTCCCCTGCTACCTCGGGAAGATAAGATTCACCA
66 CAGAA-AGATAAGGCTGGTGGCTAAAATCTACTCCCCTGCTACCTCGGGAAGATAAGATTCGCCA
* * * *
50524376 TCTTCGATCTGCTCCATTACTACCTCATGGAGATAAGATCT
130 TCTTCGATCTGCTCCACTACTATCTTAGGGAGATAAGATCT
50524417 GCGAATTCAC
Statistics
Matches: 450, Mismatches: 72, Indels: 4
0.86 0.14 0.01
Matches are distributed among these distances:
176 2 0.00
177 307 0.68
178 141 0.31
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (178 bp):
TAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTGCTACCT
CAGAAAGATAAGGCTGGTGGCTAAAATCTACTCCCCTGCTACCTCGGGAAGATAAGATTCGCCAT
CTTCGATCTGCTCCACTACTATCTTAGGGAGATAAGATCTATAATCTT
Found at i:50524307 original size:44 final size:45
Alignment explanation
Indices: 50523868--50524311 Score: 123
Period size: 44 Copynumber: 10.0 Consensus size: 45
50523858 CACTACTATT
* * * * **
50523868 TTAGGGAGATAAGATCTACAATCTTTAATCTACTTCCTTAATACC
1 TTAGGAAGATAAGATCTACAATCTTCAACCTGCTTCCTTGCTACC
** * *
50523913 ACAGGAAGATAA-AACTATAATCTTCAACCTGC-TCTCTTGCTACC
1 TTAGGAAGATAAGATCTACAATCTTCAACCTGCTTC-CTTGCTACC
* * ** ** * * *
50523957 TCA-GAGAGATAAG-GCTGATGA-CTAAAATCTGCTCCCCTGCTACC
1 TTAGGA-AGATAAGATCT-ACAATCTTCAACCTGCTTCCTTGCTACC
* * * * * *
50524001 TTGGGAAGATAAGAT-TCGCCATCTTCGATCTGC-TCC--ACTACTGC
1 TTAGGAAGATAAGATCT-ACAATCTTCAACCTGCTTCCTTGCTAC--C
** ** ** *
50524045 TTAAGG-AGATAAGATCTATGATCTTCAGTCTTTTTCTTTGCTACC
1 TT-AGGAAGATAAGATCTACAATCTTCAACCTGCTTCCTTGCTACC
* *
50524090 TCAGGAAGATAAGA-CTACAATCTTCAACCTAC-TCTCTTGCTACC
1 TTAGGAAGATAAGATCTACAATCTTCAACCTGCTTC-CTTGCTACC
* * * ***** ** * * *
50524134 TCAGAAAGATAAG-GCTGGTGGCTAAAATCTGCTCCCCTGCTA-C
1 TTAGGAAGATAAGATCTACAATCTTCAACCTGCTTCCTTGCTACC
* * * * * * * *
50524177 TTCAGGAAGATAAGATTTGCCATCTTCGATCTACTTCAC-TACT-TC
1 TT-AGGAAGATAAGATCTACAATCTTCAACCTGCTTC-CTTGCTACC
* * * **
50524222 TTAGGGAGATAAGATCTATAATCTTTAGTCTGCTTCCTTGCTACC
1 TTAGGAAGATAAGATCTACAATCTTCAACCTGCTTCCTTGCTACC
50524267 TTAGGAAGATAAGA-CTACAATCTTCAACCTG-TTCTCTTGCTACC
1 TTAGGAAGATAAGATCTACAATCTTCAACCTGCTTC-CTTGCTACC
50524311 T
1 T
50524312 CAAAGAGATA
Statistics
Matches: 283, Mismatches: 90, Indels: 53
0.66 0.21 0.12
Matches are distributed among these distances:
42 4 0.01
43 12 0.04
44 192 0.68
45 70 0.25
46 1 0.00
47 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (45 bp):
TTAGGAAGATAAGATCTACAATCTTCAACCTGCTTCCTTGCTACC
Found at i:50527318 original size:126 final size:126
Alignment explanation
Indices: 50527071--50527338 Score: 409
Period size: 125 Copynumber: 2.1 Consensus size: 126
50527061 TGCCAAGCAT
* *
50527071 GAACTACTGTAGAAAAAGAGCATTCACATAGGAGCTTTTTTCAGAAATTTTGTTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCATTCACATAGGAGCTTTTTTCAGAAAATTTGCTGACATTGCATC
* *
50527136 CTGCTTGAAGCATTTTTGATACTATTTATTTAGAAACGTCTTCTCAAAATTATTTTTTCAA
66 CTGCTTGAAGCATTTTTGACACTATTTATTCAGAAACGTCTTCTCAAAATTATTTTTTCAA
50527197 GAACTACTGTAGAAAAAGAGCA-TC-CATATGAGAGCTTTTTTCA-AAAATTTGACTGACATTGC
1 GAACTACTGTAGAAAAAGAGCATTCACATA-G-GAGCTTTTTTCAGAAAATTTG-CTGACATTGC
* * *
50527259 AT-CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAATGTCTTCTCAAAATTATTTTTTCAG
63 ATCCTGCTTGAAGCATTTTTGACACTATTTATTCAGAAACGTCTTCTCAAAATTATTTTTTCAA
*
50527322 GAACTACTATAGAAAAA
1 GAACTACTGTAGAAAAA
50527339 CCATAAATCC
Statistics
Matches: 131, Mismatches: 8, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
124 4 0.03
125 82 0.63
126 45 0.34
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCATTCACATAGGAGCTTTTTTCAGAAAATTTGCTGACATTGCATC
CTGCTTGAAGCATTTTTGACACTATTTATTCAGAAACGTCTTCTCAAAATTATTTTTTCAA
Found at i:50527855 original size:41 final size:41
Alignment explanation
Indices: 50527810--50527891 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
50527800 TTTTAAACTC
50527810 GTGTTATCTCTTTTAGCTTTTAAATTTGTATTATTTATCAA
1 GTGTTATCTCTTTTAGCTTTTAAATTTGTATTATTTATCAA
*
50527851 GTGTTATCTCTTTTAGTTTTTAAATTTGTATTATTTATCAA
1 GTGTTATCTCTTTTAGCTTTTAAATTTGTATTATTTATCAA
50527892 ATCATATTAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.24, C:0.09, G:0.10, T:0.57
Consensus pattern (41 bp):
GTGTTATCTCTTTTAGCTTTTAAATTTGTATTATTTATCAA
Found at i:50528000 original size:22 final size:21
Alignment explanation
Indices: 50527975--50528016 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
50527965 ATTTATACAT
50527975 TATTTATT-AATTTTTTAGAATA
1 TATTT-TTAAATTTTTT-GAATA
50527997 TATTTTTAAATTTTTTGAAT
1 TATTTTTAAATTTTTTGAAT
50528017 TTTTAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (21 bp):
TATTTTTAAATTTTTTGAATA
Found at i:50528010 original size:21 final size:22
Alignment explanation
Indices: 50527975--50528016 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
50527965 ATTTATACAT
*
50527975 TATTTATTAATTTTTTAGAATA
1 TATTTATTAAATTTTTAGAATA
*
50527997 TATTT-TTAAATTTTTTGAAT
1 TATTTATTAAATTTTTAGAAT
50528017 TTTTAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (22 bp):
TATTTATTAAATTTTTAGAATA
Found at i:50528384 original size:15 final size:15
Alignment explanation
Indices: 50528364--50528393 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
50528354 TTTAATCATT
50528364 TATAAATTATAAAAA
1 TATAAATTATAAAAA
50528379 TATAAATTATAAAAA
1 TATAAATTATAAAAA
50528394 ATTATAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TATAAATTATAAAAA
Found at i:50534389 original size:109 final size:109
Alignment explanation
Indices: 50534198--50534563 Score: 723
Period size: 109 Copynumber: 3.4 Consensus size: 109
50534188 TAGTAGCTGA
*
50534198 TGTTTTCTTAAGAATATACTGCTCCTATTTATTATCATAAGGTCCTGCTCTAATTTATATATCTA
1 TGTTTTCTCAAGAATATACTGCTCCTATTTATTATCATAAGGTCCTGCTCTAATTTATATATCTA
50534263 TATATTTGCTATTTGGAGTTGTATTCATTCTGTCATTGCAATGG
66 TATATTTGCTATTTGGAGTTGTATTCATTCTGTCATTGCAATGG
50534307 TGTTTTCTCAAGAATATACTGCTCCTATTTATTATCATAAGGTCCTGCTCTAATTTATATATCTA
1 TGTTTTCTCAAGAATATACTGCTCCTATTTATTATCATAAGGTCCTGCTCTAATTTATATATCTA
50534372 TATATTTGCTATTTGGAGTTGTATTCATTCTGTCATTGCAATGG
66 TATATTTGCTATTTGGAGTTGTATTCATTCTGTCATTGCAATGG
50534416 TGTTTTCTCAAGAATATACTGCTCCTATTTATTATCATAAGGTCCTGCTCTAATTTATATATCTA
1 TGTTTTCTCAAGAATATACTGCTCCTATTTATTATCATAAGGTCCTGCTCTAATTTATATATCTA
50534481 TATATTTGCTATTTGGAGTTGTATTCATTCTGTCATTGCAATGG
66 TATATTTGCTATTTGGAGTTGTATTCATTCTGTCATTGCAATGG
50534525 TGTTTTCTCAAGAATATACTGCTCCTATTTATTATCATA
1 TGTTTTCTCAAGAATATACTGCTCCTATTTATTATCATA
50534564 GGGAAAGTTC
Statistics
Matches: 256, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 256 1.00
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.46
Consensus pattern (109 bp):
TGTTTTCTCAAGAATATACTGCTCCTATTTATTATCATAAGGTCCTGCTCTAATTTATATATCTA
TATATTTGCTATTTGGAGTTGTATTCATTCTGTCATTGCAATGG
Found at i:50539021 original size:17 final size:17
Alignment explanation
Indices: 50539001--50539033 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
50538991 ATTAAGAATG
*
50539001 TTATTAATTTATATTTT
1 TTATTAAATTATATTTT
50539018 TTATTAAATTATATTT
1 TTATTAAATTATATTT
50539034 AATAATAATT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTAAATTATATTTT
Found at i:50539044 original size:55 final size:57
Alignment explanation
Indices: 50538975--50539111 Score: 160
Period size: 58 Copynumber: 2.4 Consensus size: 57
50538965 ATTTTTTTAA
*
50538975 TTCATATAATAATTATATTAAGA-AT-GTT-ATTAATTTA-TATTTTTTATTAAATTATAT
1 TTCA-ATAATAATTATATTAAAATATGGTTAATT-ATTTATTA-TTTTTATTAAATTAT-T
*
50539032 TT-AATAATAATTATGTTAAAATATGGTTAAATTATTTATTATTTTTATTAAATTATT
1 TTCAATAATAATTATATTAAAATATGGTT-AATTATTTATTATTTTTATTAAATTATT
50539089 TTCAATAATAATCT-TATTAAAAT
1 TTCAATAATAAT-TATATTAAAAT
50539112 TTAATAACAA
Statistics
Matches: 70, Mismatches: 3, Indels: 13
0.81 0.03 0.15
Matches are distributed among these distances:
55 16 0.23
56 3 0.04
57 8 0.11
58 37 0.53
59 6 0.09
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (57 bp):
TTCAATAATAATTATATTAAAATATGGTTAATTATTTATTATTTTTATTAAATTATT
Found at i:50539296 original size:45 final size:44
Alignment explanation
Indices: 50539206--50539296 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 44
50539196 TACAACGTCG
**
50539206 TTCCATTCAACCAAACACAAGAATACTATTACATTTCTATTCCA
1 TTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTCCA
*** *
50539250 TTCCATTCAACCAAACAGTTGATTACTGATTACAGCTCTATTCCA
1 TTCCATTCAACCAAACACAAGAATACT-ATTACAGCTCTATTCCA
50539295 TT
1 TT
50539297 ACAACTCTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 23 0.57
45 17 0.43
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.34
Consensus pattern (44 bp):
TTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTCCA
Found at i:50539299 original size:16 final size:16
Alignment explanation
Indices: 50539278--50539344 Score: 100
Period size: 16 Copynumber: 4.2 Consensus size: 16
50539268 TTGATTACTG
50539278 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
50539294 ATTACAACTCTATTCT
1 ATTACAGCTCTATTCC
*
50539310 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
50539326 ATTACAGC-CTATTCC
1 ATTACAGCTCTATTCC
50539341 ATTA
1 ATTA
50539345 TAGTGAACCA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
15 10 0.22
16 36 0.78
ACGTcount: A:0.30, C:0.27, G:0.04, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:50539592 original size:17 final size:18
Alignment explanation
Indices: 50539572--50539605 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
50539562 ATTTTTTAGA
50539572 AAAT-AATTTTTTTGTTC
1 AAATAAATTTTTTTGTTC
50539589 AAATAAATTTTTTTGTT
1 AAATAAATTTTTTTGTT
50539606 TAAGTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (18 bp):
AAATAAATTTTTTTGTTC
Found at i:50541586 original size:16 final size:18
Alignment explanation
Indices: 50541547--50541580 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50541537 TAAGTTTATA
50541547 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
50541564 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
50541581 AATTTAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:50543658 original size:17 final size:17
Alignment explanation
Indices: 50543636--50543672 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
50543626 ACCGATCCAC
50543636 TTTGAATGGAGAGGATT
1 TTTGAATGGAGAGGATT
50543653 TTTGAATGGAGAGGATT
1 TTTGAATGGAGAGGATT
50543670 TTT
1 TTT
50543673 TTTCTTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.32, T:0.41
Consensus pattern (17 bp):
TTTGAATGGAGAGGATT
Found at i:50544592 original size:31 final size:29
Alignment explanation
Indices: 50544528--50544596 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
50544518 GCTACAACGT
* * *
50544528 AAGTGACTAAAATGTAACATTTTAAACAT
1 AAGTGACTAAAATGTAACATGTCAAACAA
*
50544557 AAGTGACTAAAATGTAACCTGAGTCAAACAA
1 AAGTGACTAAAATGTAACAT--GTCAAACAA
50544588 AAGTGACTA
1 AAGTGACTA
50544597 TTTTAATAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 19 0.56
31 15 0.44
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.25
Consensus pattern (29 bp):
AAGTGACTAAAATGTAACATGTCAAACAA
Found at i:50545954 original size:32 final size:32
Alignment explanation
Indices: 50545917--50545979 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
50545907 TAATAAATTT
* *
50545917 ATAAATTGATTACTTGAATTTAATAACTCATG
1 ATAAATTAATTAATTGAATTTAATAACTCATG
* * *
50545949 ATAAATTAATTAATTTAATTTGATAATTCAT
1 ATAAATTAATTAATTGAATTTAATAACTCAT
50545980 ACCAATTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.44
Consensus pattern (32 bp):
ATAAATTAATTAATTGAATTTAATAACTCATG
Found at i:50552423 original size:9 final size:9
Alignment explanation
Indices: 50552405--50552441 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
50552395 TATAGTTTGA
*
50552405 TATTCAAAT
1 TATTCGAAT
50552414 TATTCGAAT
1 TATTCGAAT
*
50552423 TATTCGAGT
1 TATTCGAAT
50552432 TATTCGAAT
1 TATTCGAAT
50552441 T
1 T
50552442 CAAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:50553721 original size:10 final size:10
Alignment explanation
Indices: 50553702--50553761 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
50553692 TTAAATTCTC
50553702 AAAGATAAAT
1 AAAGATAAAT
50553712 ACAA-ATAAAT
1 A-AAGATAAAT
*
50553722 AAAGATAATT
1 AAAGATAAAT
50553732 AAAGATAAAT
1 AAAGATAAAT
50553742 AAAGATAAAT
1 AAAGATAAAT
50553752 GAAA-ATAAAT
1 -AAAGATAAAT
50553762 CCTAAAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:50556866 original size:14 final size:14
Alignment explanation
Indices: 50556847--50556876 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
50556837 ATATCACGTA
50556847 AAATTATAAATAAG
1 AAATTATAAATAAG
50556861 AAATTATAAATAAG
1 AAATTATAAATAAG
50556875 AA
1 AA
50556877 TTAAAAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (14 bp):
AAATTATAAATAAG
Found at i:50558327 original size:18 final size:17
Alignment explanation
Indices: 50558296--50558337 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
50558286 AACCCAAAAT
50558296 AAAAAATAAAAAAAAGA
1 AAAAAATAAAAAAAAGA
*
50558313 AAAAAATGAAGAAAAAGA
1 AAAAAAT-AAAAAAAAGA
50558331 AAAAAAT
1 AAAAAAT
50558338 CTAATCTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (17 bp):
AAAAAATAAAAAAAAGA
Found at i:50559165 original size:13 final size:13
Alignment explanation
Indices: 50559147--50559171 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50559137 ATACTTTATG
50559147 TATTTTTTATTTT
1 TATTTTTTATTTT
50559160 TATTTTTTATTT
1 TATTTTTTATTT
50559172 ATTTTACGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:50559524 original size:19 final size:19
Alignment explanation
Indices: 50559497--50559534 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
50559487 TTGAGATTGC
*
50559497 CAACTTATTTGCTTGAAAT
1 CAACCTATTTGCTTGAAAT
50559516 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCTTGAAAT
50559535 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (19 bp):
CAACCTATTTGCTTGAAAT
Found at i:50561434 original size:5 final size:6
Alignment explanation
Indices: 50561421--50561461 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
50561411 ATAATTTAAT
*
50561421 AAATAA AAATAA AAATTTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
50561462 AAACATATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:50561449 original size:20 final size:21
Alignment explanation
Indices: 50561413--50561456 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
50561403 AATTACAAAT
50561413 AATTTAATAAATAAAAATAAA
1 AATTTAATAAATAAAAATAAA
*
50561434 AATTTAA-AACTAAAAATAAA
1 AATTTAATAAATAAAAATAAA
50561454 AAT
1 AAT
50561457 AAAAAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AATTTAATAAATAAAAATAAA
Found at i:50561462 original size:20 final size:20
Alignment explanation
Indices: 50561424--50561462 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
50561414 ATTTAATAAA
**
50561424 TAAAAATAAAAATTTAAAAC
1 TAAAAATAAAAATAAAAAAC
50561444 TAAAAATAAAAATAAAAAA
1 TAAAAATAAAAATAAAAAA
50561463 AACATATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:50561497 original size:9 final size:9
Alignment explanation
Indices: 50561483--50561532 Score: 66
Period size: 9 Copynumber: 5.6 Consensus size: 9
50561473 TTTATACAAA
50561483 TAATTCGGT
1 TAATTCGGT
*
50561492 TAATTCGGA
1 TAATTCGGT
50561501 TAATTCGAG-
1 TAATTCG-GT
*
50561510 TAATTTGGT
1 TAATTCGGT
50561519 TAATTCGGT
1 TAATTCGGT
50561528 TAATT
1 TAATT
50561533 TTATACTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
8 1 0.03
9 34 0.94
10 1 0.03
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:50563603 original size:26 final size:27
Alignment explanation
Indices: 50563547--50563612 Score: 116
Period size: 26 Copynumber: 2.5 Consensus size: 27
50563537 GGCGTTCCAG
50563547 AGGCGGCACCGGTCACGCCTTCCCTAT
1 AGGCGGCACCGGTCACGCCTTCCCTAT
*
50563574 AGGCGGCATCGGTCACGCC-TCCCTAT
1 AGGCGGCACCGGTCACGCCTTCCCTAT
50563600 AGGCGGCACCGGT
1 AGGCGGCACCGGT
50563613 GCTGCTGCCA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
26 19 0.51
27 18 0.49
ACGTcount: A:0.15, C:0.38, G:0.30, T:0.17
Consensus pattern (27 bp):
AGGCGGCACCGGTCACGCCTTCCCTAT
Found at i:50564184 original size:30 final size:31
Alignment explanation
Indices: 50564124--50564183 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
50564114 TTGTGTGTAT
*
50564124 TGTTATTTTAAAAGTCGGTATAATTTTTTTA
1 TGTTATTTTAAAAGTCGATATAATTTTTTTA
*
50564155 TGTTATTTTAAAAGTTGATATAATTTTTT
1 TGTTATTTTAAAAGTCGATATAATTTTTT
50564184 AACTCATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.57
Consensus pattern (31 bp):
TGTTATTTTAAAAGTCGATATAATTTTTTTA
Found at i:50568100 original size:15 final size:15
Alignment explanation
Indices: 50568080--50568108 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
50568070 ATGTATAAGT
50568080 GTAACTTTAGTCATG
1 GTAACTTTAGTCATG
50568095 GTAACTTTAGTCAT
1 GTAACTTTAGTCAT
50568109 TACTTGAGAA
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:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (15 bp):
GTAACTTTAGTCATG
Found at i:50569625 original size:32 final size:32
Alignment explanation
Indices: 50569559--50569626 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 32
50569549 TTTTTGTTAA
*
50569559 TGTTGGATTCTAAAATTTTAGTTTATTATATT
1 TGTTGGATTCTAAAATTTTAGTTTATGATATT
*
50569591 TGTTGGATTCTGAAATTATTATGTTT-TGAT-TT
1 TGTTGGATTCTAAAATT-TTA-GTTTATGATATT
50569623 TGTT
1 TGTT
50569627 AGATATTGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 22 0.69
33 6 0.19
34 4 0.12
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (32 bp):
TGTTGGATTCTAAAATTTTAGTTTATGATATT
Found at i:50569638 original size:27 final size:27
Alignment explanation
Indices: 50569622--50569694 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 27
50569612 TGTTTTGATT
50569622 TTGTTAGATATTGATTATGTTTCAAGC
1 TTGTTAGATATTGATTATGTTTCAAGC
*
50569649 TTGTTAGATATTGAGTTTATTATGTTTTAAGC
1 TTGTTAGATATT--G---ATTATGTTTCAAGC
*
50569681 TTGTTGGATATTGA
1 TTGTTAGATATTGA
50569695 AATGATTGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
27 13 0.33
29 1 0.03
30 1 0.03
32 24 0.62
ACGTcount: A:0.25, C:0.04, G:0.21, T:0.51
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTCAAGC
Found at i:50570713 original size:22 final size:22
Alignment explanation
Indices: 50570645--50570733 Score: 92
Period size: 22 Copynumber: 4.0 Consensus size: 22
50570635 GATACTTTTA
50570645 ATGTGGTGTAATATTAGTTATGC
1 ATGTGGTGTAATATTAGTTAT-C
** *
50570668 ACT-TGG-ACAATATTGTTGTTATC
1 A-TGTGGTGTAATA-T-TAGTTATC
50570691 ATGTGGTGTAATATTAGTTATC
1 ATGTGGTGTAATATTAGTTATC
*
50570713 ATATGGTGTAATATTAGTTAT
1 ATGTGGTGTAATATTAGTTAT
50570734 GCACTTGGAT
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
22 32 0.59
23 11 0.20
24 11 0.20
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (22 bp):
ATGTGGTGTAATATTAGTTATC
Found at i:50571173 original size:14 final size:14
Alignment explanation
Indices: 50571154--50571220 Score: 62
Period size: 14 Copynumber: 4.7 Consensus size: 14
50571144 CCAGAAAAGT
50571154 AAATCATTTTCCAG
1 AAATCATTTTCCAG
* *
50571168 AAATCATTTTTCAAA
1 AAATCA-TTTTCCAG
* **
50571183 AAATTATTTTTTAG
1 AAATCATTTTCCAG
*
50571197 AAATTATTTTCCAG
1 AAATCATTTTCCAG
*
50571211 AAAACATTTT
1 AAATCATTTT
50571221 ACCTGCAAAC
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
14 31 0.74
15 11 0.26
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.43
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:50576990 original size:24 final size:24
Alignment explanation
Indices: 50576935--50576982 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
50576925 TCCTTTCCTC
50576935 TTAATTATACACTTGAACAATATT
1 TTAATTATACACTTGAACAATATT
50576959 TTAATTATACACTTGAACAATATT
1 TTAATTATACACTTGAACAATATT
50576983 GTTGTTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (24 bp):
TTAATTATACACTTGAACAATATT
Found at i:50589603 original size:28 final size:28
Alignment explanation
Indices: 50589571--50589654 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
50589561 AACTTCGATC
50589571 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
50589599 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
50589621 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
50589649 ACGTGT
1 ACGTGT
50589655 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:50589644 original size:50 final size:49
Alignment explanation
Indices: 50589523--50589712 Score: 245
Period size: 50 Copynumber: 3.8 Consensus size: 49
50589513 TGAGGTCGCA
* * * *
50589523 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCACG
* **
50589574 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* * *
50589624 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* *
50589673 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
50589713 CTTTGGCTAT
Statistics
Matches: 122, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
49 42 0.34
50 46 0.38
51 34 0.28
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:50590665 original size:60 final size:60
Alignment explanation
Indices: 50590572--50590691 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
50590562 TTATTATTAA
*
50590572 TTCATGTGAGCTTACTAAGCATAAAGCTTACCCCCTCCTTTCCATTTCTTTTAGTGTTGT
1 TTCATGTGAGCTTACTAAGCATAAAGCTTACCCCCTACTTTCCATTTCTTTTAGTGTTGT
50590632 TTCATGTGAGCTTACTAAGCATAAAGCTTACCCCCTACTTTCCATTTCTTTTAGTGTTGT
1 TTCATGTGAGCTTACTAAGCATAAAGCTTACCCCCTACTTTCCATTTCTTTTAGTGTTGT
50590692 CAGGTTAAGG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (60 bp):
TTCATGTGAGCTTACTAAGCATAAAGCTTACCCCCTACTTTCCATTTCTTTTAGTGTTGT
Found at i:50592525 original size:15 final size:16
Alignment explanation
Indices: 50592507--50592540 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
50592497 TCTGGTATCA
50592507 TGGATTTCTTTATT-T
1 TGGATTTCTTTATTCT
50592522 TGGATTTCTTTATTCT
1 TGGATTTCTTTATTCT
50592538 TGG
1 TGG
50592541 CTTCTCTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.12, C:0.09, G:0.18, T:0.62
Consensus pattern (16 bp):
TGGATTTCTTTATTCT
Found at i:50595444 original size:49 final size:48
Alignment explanation
Indices: 50595320--50595500 Score: 218
Period size: 49 Copynumber: 3.7 Consensus size: 48
50595310 CTATTGTGAG
* * *
50595320 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCGATAACTTC
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCGATAA-TTA
* **
50595370 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA
1 G-TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-GATAATTA
* * * *
50595420 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACTGGATAATTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCGATAATTA
*
50595469 GTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTA
50595501 TGCATACCAG
Statistics
Matches: 115, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
49 71 0.62
50 7 0.06
51 37 0.32
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (48 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGATAATTA
Found at i:50601422 original size:78 final size:76
Alignment explanation
Indices: 50601293--50601443 Score: 232
Period size: 78 Copynumber: 2.0 Consensus size: 76
50601283 CAATATAAGA
* * *
50601293 AGAATATCAGAATAGAGGGAGAGAAGCAAAATTGCCCTGAATATTTGGATGAGATCCTTGGAGTA
1 AGAATATCAGAAGAGAGGAAGAGAAGCAAAACTGCCCTGAATATTTGGAT--GATCCTTGGAGTA
50601358 GCGAGAGCAAAGC
64 GCGAGAGCAAAGC
50601371 AGAATATCAGAAGAGAGGAAGAGAAG-AGAAACTGCCCTGAATATTTGGATGATCCTTGGAGTAG
1 AGAATATCAGAAGAGAGGAAGAGAAGCA-AAACTGCCCTGAATATTTGGATGATCCTTGGAGTAG
*
50601435 CTAGAGCAA
65 CGAGAGCAA
50601444 GAATTGTAGA
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
76 22 0.32
77 1 0.01
78 45 0.66
ACGTcount: A:0.39, C:0.13, G:0.29, T:0.19
Consensus pattern (76 bp):
AGAATATCAGAAGAGAGGAAGAGAAGCAAAACTGCCCTGAATATTTGGATGATCCTTGGAGTAGC
GAGAGCAAAGC
Found at i:50603296 original size:9 final size:9
Alignment explanation
Indices: 50603282--50603329 Score: 55
Period size: 9 Copynumber: 5.2 Consensus size: 9
50603272 AACAAATAAT
50603282 AAATAAAGA
1 AAATAAAGA
50603291 AAATAAA-A
1 AAATAAAGA
50603299 ACTAATCAAAG-
1 A--AAT-AAAGA
50603310 AAATAAAGA
1 AAATAAAGA
50603319 AAATAAAGA
1 AAATAAAGA
50603328 AA
1 AA
50603330 TGAATAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
8 6 0.18
9 21 0.62
10 3 0.09
11 4 0.12
ACGTcount: A:0.75, C:0.04, G:0.08, T:0.12
Consensus pattern (9 bp):
AAATAAAGA
Found at i:50603345 original size:32 final size:30
Alignment explanation
Indices: 50603276--50603348 Score: 89
Period size: 28 Copynumber: 2.5 Consensus size: 30
50603266 AAAGAGAACA
*
50603276 AATAAT-AAATAAAGAAAATAAAAACTAAT
1 AATAATGAAATAAAGAAAATAAAAAATAAT
*
50603305 CA-AA-GAAATAAAGAAAATAAAGAAATGAAT
1 AATAATGAAATAAAGAAAATAAA-AAAT-AAT
50603335 AATAATGAAATAAA
1 AATAATGAAATAAA
50603349 ATAAAAGAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
28 18 0.50
29 4 0.11
30 4 0.11
31 2 0.06
32 8 0.22
ACGTcount: A:0.71, C:0.03, G:0.08, T:0.18
Consensus pattern (30 bp):
AATAATGAAATAAAGAAAATAAAAAATAAT
Found at i:50608689 original size:17 final size:21
Alignment explanation
Indices: 50608647--50608689 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
50608637 GATTGGAAAA
50608647 TGAAATATACTTGTTTTGGCT
1 TGAAATATACTTGTTTTGGCT
50608668 TGAAATA-A-TTG-TTTGG-T
1 TGAAATATACTTGTTTTGGCT
50608685 TGAAA
1 TGAAA
50608690 ATTTTTAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.27
18 5 0.23
19 3 0.14
20 1 0.05
21 7 0.32
ACGTcount: A:0.30, C:0.05, G:0.21, T:0.44
Consensus pattern (21 bp):
TGAAATATACTTGTTTTGGCT
Found at i:50608691 original size:18 final size:20
Alignment explanation
Indices: 50608647--50608691 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
50608637 GATTGGAAAA
*
50608647 TGAAATATACTTGTTTTGGCT
1 TGAAA-ATAATTGTTTTGGCT
50608668 TG-AAATAATTG-TTTGG-T
1 TGAAAATAATTGTTTTGGCT
50608685 TGAAAAT
1 TGAAAAT
50608692 TTTTAAGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 3 0.14
18 9 0.41
19 6 0.27
20 2 0.09
21 2 0.09
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.44
Consensus pattern (20 bp):
TGAAAATAATTGTTTTGGCT
Found at i:50613009 original size:7 final size:7
Alignment explanation
Indices: 50612990--50613019 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
50612980 AAATAAATAA
50612990 ATTATATT
1 ATTATA-T
50612998 ATTATAT
1 ATTATAT
50613005 ATTATAT
1 ATTATAT
50613012 ATTATAT
1 ATTATAT
50613019 A
1 A
50613020 AATTGAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 16 0.73
8 6 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTATAT
Found at i:50614044 original size:13 final size:13
Alignment explanation
Indices: 50614026--50614050 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50614016 GGTTTGTTTA
50614026 TTAAACTAATTAT
1 TTAAACTAATTAT
50614039 TTAAACTAATTA
1 TTAAACTAATTA
50614051 ACTAATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:50615609 original size:41 final size:39
Alignment explanation
Indices: 50615563--50615674 Score: 104
Period size: 37 Copynumber: 2.8 Consensus size: 39
50615553 TTGACCACGA
*
50615563 GTCGATGAGACACTGGGTGTCAAACTATTACTTCGGGTAAA-
1 GTCGATGAGACACTGGGTGTC-AACTATTACTTC--GAAAAG
* ** **
50615604 TTCGATGAGGTACTGGGTACCAAC--TTACTTCGAAAAG
1 GTCGATGAGACACTGGGTGTCAACTATTACTTCGAAAAG
*
50615641 GCCGATGAGACACTGGGTGTCAACTTATTACTTC
1 GTCGATGAGACACTGGGTGTCAAC-TATTACTTC
50615675 AAATTATCCG
Statistics
Matches: 55, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
36 4 0.07
37 18 0.33
38 7 0.13
40 10 0.18
41 16 0.29
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (39 bp):
GTCGATGAGACACTGGGTGTCAACTATTACTTCGAAAAG
Found at i:50616325 original size:30 final size:31
Alignment explanation
Indices: 50616291--50616351 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
50616281 ATATGTGAAC
50616291 ATATG-TTCATGTTTAAAACAACTAAGTGAT
1 ATATGTTTCATGTTTAAAACAACTAAGTGAT
*
50616321 ATATGTTTCATGTTTAAAACAATTAAGTGAT
1 ATATGTTTCATGTTTAAAACAACTAAGTGAT
50616352 GTGTTTTGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 5 0.17
31 24 0.83
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.39
Consensus pattern (31 bp):
ATATGTTTCATGTTTAAAACAACTAAGTGAT
Found at i:50619477 original size:17 final size:17
Alignment explanation
Indices: 50619455--50619488 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
50619445 TCCATTTGGC
50619455 TCTTCATCAAGTACACT
1 TCTTCATCAAGTACACT
50619472 TCTTCATCAAGTACACT
1 TCTTCATCAAGTACACT
50619489 GGATTAATCA
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:0.29, C:0.29, G:0.06, T:0.35
Consensus pattern (17 bp):
TCTTCATCAAGTACACT
Found at i:50620020 original size:36 final size:37
Alignment explanation
Indices: 50619980--50620066 Score: 101
Period size: 36 Copynumber: 2.4 Consensus size: 37
50619970 TCCAAAGTTT
* * *
50619980 TATGTAAGTTATGATATG-ATAT-ATAT-ATTTATGTAT
1 TATGTAAGTTATGATAAGTA-ATGATATGATATATAT-T
50620016 TATGTAAGTTATG-TAAGTAATGATATGATATATATT
1 TATGTAAGTTATGATAAGTAATGATATGATATATATT
50620052 TATGTAAGTTATGAT
1 TATGTAAGTTATGAT
50620067 CCAAAGTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
35 5 0.11
36 32 0.73
37 7 0.16
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (37 bp):
TATGTAAGTTATGATAAGTAATGATATGATATATATT
Found at i:50623309 original size:11 final size:11
Alignment explanation
Indices: 50623289--50623318 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
50623279 TTGTGTGTTC
50623289 TTTA-TTTTAT
1 TTTATTTTTAT
50623299 TTTATTTTTAT
1 TTTATTTTTAT
50623310 TTTATTTTT
1 TTTATTTTT
50623319 TTCACAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.21
11 15 0.79
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:50627743 original size:13 final size:14
Alignment explanation
Indices: 50627725--50627753 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
50627715 TTGTGTGTTC
50627725 TTTATTTTA-TTTT
1 TTTATTTTACTTTT
50627738 TTTATTTTACTTTT
1 TTTATTTTACTTTT
50627752 TT
1 TT
50627754 CACAGACAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTATTTTACTTTT
Found at i:50635289 original size:19 final size:20
Alignment explanation
Indices: 50635254--50635297 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
50635244 ATTAGATTTA
50635254 AAAAAAATTGATAAATAAAT
1 AAAAAAATTGATAAATAAAT
*
50635274 AAAAACATTGAT-AATAAAT
1 AAAAAAATTGATAAATAAAT
50635293 AAAAA
1 AAAAA
50635298 TGAAATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAAAAATTGATAAATAAAT
Found at i:50636185 original size:7 final size:7
Alignment explanation
Indices: 50636172--50636234 Score: 90
Period size: 7 Copynumber: 8.6 Consensus size: 7
50636162 AATCTTCAAA
50636172 AAAAATT
1 AAAAATT
*
50636179 GAAAATT
1 AAAAATT
50636186 AAAAATT
1 AAAAATT
50636193 AAAAATT
1 AAAAATT
50636200 AAAAAATT
1 -AAAAATT
50636208 AAAAATT
1 AAAAATT
50636215 AAAAACTT
1 AAAAA-TT
50636223 AAAAACTT
1 AAAAA-TT
50636231 AAAA
1 AAAA
50636235 TTTTAATATT
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
7 31 0.60
8 21 0.40
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (7 bp):
AAAAATT
Found at i:50636204 original size:15 final size:15
Alignment explanation
Indices: 50636171--50636234 Score: 94
Period size: 15 Copynumber: 4.3 Consensus size: 15
50636161 AAATCTTCAA
*
50636171 AAAAAATTGAAAATT
1 AAAAAATTAAAAATT
50636186 -AAAAATTAAAAATT
1 AAAAAATTAAAAATT
50636200 AAAAAATTAAAAATT
1 AAAAAATTAAAAATT
*
50636215 AAAAACTTAAAAACTT
1 AAAAAATTAAAAA-TT
50636231 AAAA
1 AAAA
50636235 TTTTAATATT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
14 13 0.29
15 26 0.58
16 6 0.13
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (15 bp):
AAAAAATTAAAAATT
Found at i:50636309 original size:24 final size:25
Alignment explanation
Indices: 50636268--50636314 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
50636258 CATATTTCAA
* * *
50636268 TTAAAAAGATCAATATT-CAAAATT
1 TTAAAAAAATAAAAATTCCAAAATT
50636292 TTAAAAAAATAAAAATTCCAAAA
1 TTAAAAAAATAAAAATTCCAAAA
50636315 AATATAATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.28
Consensus pattern (25 bp):
TTAAAAAAATAAAAATTCCAAAATT
Found at i:50639160 original size:25 final size:26
Alignment explanation
Indices: 50639128--50639182 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
50639118 TTATTAAATT
*
50639128 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
50639153 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
50639178 A-ATAT
1 ATATAT
50639183 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:50639408 original size:45 final size:44
Alignment explanation
Indices: 50639320--50639412 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 44
50639310 TTACACCTCT
*
50639320 ATTACATTCAACCAAATACAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAATACAGTTTTACTATTACACCTCTATTCC
* *
50639364 ATTACATTCAACC-AA-ACAGTTGATTTGCTATTATACCTCTATTCC
1 ATTACATTCAACCAAATACAG-T--TTTACTATTACACCTCTATTCC
50639409 ATTA
1 ATTA
50639413 TACCTCTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
42 4 0.09
43 3 0.07
44 13 0.30
45 23 0.53
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (44 bp):
ATTACATTCAACCAAATACAGTTTTACTATTACACCTCTATTCC
Found at i:50639435 original size:16 final size:16
Alignment explanation
Indices: 50639416--50639446 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50639406 TCCATTATAC
*
50639416 CTCTAATCTAATACAT
1 CTCTAATCCAATACAT
50639432 CTCTAATCCAATACA
1 CTCTAATCCAATACA
50639447 GCGAACCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.29, G:0.00, T:0.32
Consensus pattern (16 bp):
CTCTAATCCAATACAT
Done.