Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 166 of 290
Found at i:56962463 original size:39 final size:39
Alignment explanation
Indices: 56962419--56962812 Score: 752
Period size: 39 Copynumber: 10.1 Consensus size: 39
56962409 AATTATATTA
* *
56962419 CCAGCACAAAGCCTGCGGGACTTTAGCTCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
56962458 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
56962497 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
56962536 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
56962575 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
56962614 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
56962653 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
56962692 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
56962731 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
56962770 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
56962809 CCAG
1 CCAG
56962813 TGTCTTGCTT
Statistics
Matches: 350, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 350 1.00
ACGTcount: A:0.23, C:0.31, G:0.25, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:56970018 original size:74 final size:74
Alignment explanation
Indices: 56969897--56970043 Score: 233
Period size: 74 Copynumber: 2.0 Consensus size: 74
56969887 GTTTGGGTAT
*
56969897 CGCTCTTTCATCGAGCTCTCGGTCTCCCAAGTAGCTTCCTCGATCCCGTGTTTGAGCCATAACAC
1 CGCTCTTTCATAGAGCTCTCGGTCTCCCAAGTAGCTTCCTCGATCCCGTGTTTGAGCCATAACAC
56969962 CTTTACTAG
66 CTTTACTAG
* * *
56969971 CGCTCTTTCATAGAGTTCTCGGGT-TCCCAAGTAGCTTCTTCTATCCCGTGTTTGAGCCATAACA
1 CGCTCTTTCATAGAGCTCTC-GGTCTCCCAAGTAGCTTCCTCGATCCCGTGTTTGAGCCATAACA
*
56970035 CTTTTACTA
65 CCTTTACTA
56970044 AAGGAACCTT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
74 64 0.96
75 3 0.04
ACGTcount: A:0.18, C:0.31, G:0.17, T:0.34
Consensus pattern (74 bp):
CGCTCTTTCATAGAGCTCTCGGTCTCCCAAGTAGCTTCCTCGATCCCGTGTTTGAGCCATAACAC
CTTTACTAG
Found at i:56976141 original size:40 final size:40
Alignment explanation
Indices: 56976096--56976194 Score: 146
Period size: 40 Copynumber: 2.5 Consensus size: 40
56976086 GGATATAGCT
*
56976096 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACATAGCCCGGATT-GAGTA
* * *
56976136 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACATAGCCCGGATTGAGTA
56976176 ACTCGCACAAATGCCTTCG
1 ACTCGCACAAATGCCTTCG
56976195 NNNNNNNNNN
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
40 51 0.96
41 2 0.04
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACATAGCCCGGATTGAGTA
Found at i:56977572 original size:15 final size:16
Alignment explanation
Indices: 56977554--56977583 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56977544 TTGTGCCTTA
56977554 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
56977569 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
56977584 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:56981210 original size:13 final size:13
Alignment explanation
Indices: 56981192--56981216 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56981182 TATGGTCTAG
56981192 GATTTCATGAAAT
1 GATTTCATGAAAT
56981205 GATTTCATGAAA
1 GATTTCATGAAA
56981217 ATTTTGTTTG
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:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
GATTTCATGAAAT
Found at i:56985130 original size:27 final size:27
Alignment explanation
Indices: 56985099--56985276 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
56985089 TAAATTGTAC
56985099 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
56985126 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56985152 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
56985180 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
56985208 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56985235 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
56985262 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56985277 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:56985213 original size:82 final size:81
Alignment explanation
Indices: 56985100--56985255 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
56985090 AAATTGTACA
* *
56985100 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
56985164 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
56985181 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
56985246 TGCGAGTTGA
65 TGCGAATTGA
56985256 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:56985267 original size:82 final size:81
Alignment explanation
Indices: 56985096--56985276 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
56985086 GATTAAATTG
* *
56985096 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
56985161 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
56985177 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
56985241 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
56985259 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
56985277 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:56995042 original size:6 final size:6
Alignment explanation
Indices: 56995031--56995187 Score: 121
Period size: 6 Copynumber: 25.8 Consensus size: 6
56995021 AACCAAAATG
*
56995031 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
56995079 AGTAA-C AGAATC AGAATT AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
56995128 AGTATT AGTAA-C AGAATC AGAATC AGAATT AGAATTAC ATG-A-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAA-T-C A-GAATC AGAATC
56995177 AGAATC AGAAT
1 AGAATC AGAAT
56995188 GTGAATGCAA
Statistics
Matches: 121, Mismatches: 14, Indels: 32
0.72 0.08 0.19
Matches are distributed among these distances:
4 1 0.01
5 11 0.09
6 97 0.80
7 7 0.06
8 4 0.03
9 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (6 bp):
AGAATC
Found at i:56995046 original size:30 final size:29
Alignment explanation
Indices: 56995010--56995187 Score: 150
Period size: 30 Copynumber: 6.1 Consensus size: 29
56995000 AAGAAACATT
* * *
56995010 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAGAATCAGAATCAGA
*
56995040 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
*
56995070 ATCA-ATATTAGTAACAGAATCAGAATTAGA
1 ATCAGA-ATT-GTAACAGAATCAGAATCAGA
***
56995100 ATCAGAA-T-TAGGTG-A-CAGAATCAGA
1 ATCAGAATTGTAACAGAATCAGAATCAGA
*
56995125 ATCAGTATTAGTAACAGAATCAGAATCAGA
1 ATCAGAATT-GTAACAGAATCAGAATCAGA
* * *
56995155 ATTAGAATTACATGACAGAATCAGAATCAGA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
56995186 AT
1 AT
56995188 GTGAATGCAA
Statistics
Matches: 119, Mismatches: 19, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
25 15 0.13
26 2 0.02
27 3 0.03
28 3 0.03
29 3 0.03
30 69 0.58
31 24 0.20
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.21
Consensus pattern (29 bp):
ATCAGAATTGTAACAGAATCAGAATCAGA
Found at i:56995174 original size:49 final size:53
Alignment explanation
Indices: 56995031--56995184 Score: 184
Period size: 55 Copynumber: 2.8 Consensus size: 53
56995021 AACCAAAATG
** * *
56995031 AGAATCAGAATCAGAATCAGTAACAG-AATCAGAATCAGAATCAATATTAGTAAC
1 AGAATCAGAATCAGAATCAG-AATTGTGA-CAGAATCAGAATCAGTATTAGTAAC
*
56995085 AGAATCAGAATTAGAATCAGAATTAGGTGACAGAATCAGAATCAGTATTAGTAAC
1 AGAATCAGAATCAGAATCAGAATT--GTGACAGAATCAGAATCAGTATTAGTAAC
* *
56995140 AGAATCAGAATCAGAATTAGAATTACATGACAGAATCAGAATCAG
1 AGAATCAGAATCAGAATCAGAATT--GTGACAGAATCAGAATCAG
56995185 AATGTGAATG
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
53 2 0.02
54 19 0.22
55 66 0.75
56 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (53 bp):
AGAATCAGAATCAGAATCAGAATTGTGACAGAATCAGAATCAGTATTAGTAAC
Found at i:56995342 original size:27 final size:26
Alignment explanation
Indices: 56995305--56995370 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
56995295 AGCATGGCTG
*
56995305 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
56995331 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
56995358 CCAGAATCAGATA
1 CCAGAA-CAGATA
56995371 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:56995375 original size:27 final size:27
Alignment explanation
Indices: 56995305--56995378 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
56995295 AGCATGGCTG
* *
56995305 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
56995331 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
56995358 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
56995379 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:56995385 original size:27 final size:27
Alignment explanation
Indices: 56995329--56995386 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
56995319 GTGACAGAGT
* * *
56995329 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
56995356 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
56995383 CACC
1 CACC
56995387 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:56995754 original size:27 final size:26
Alignment explanation
Indices: 56995689--56995771 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
56995679 TCGATCGGTC
* ** *
56995689 AACAGATATTGTGACAGAGTAACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
56995715 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
56995742 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
56995769 AAC
1 AAC
56995772 GCTTCCTCCG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.16
27 42 0.84
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:56996000 original size:27 final size:27
Alignment explanation
Indices: 56995970--56996165 Score: 205
Period size: 27 Copynumber: 7.3 Consensus size: 27
56995960 GGGGCAAAAT
* * * *
56995970 GGTAATTTTACCCCATAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
56995997 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
56996024 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
56996051 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
56996078 TGTAATTCTATCCTATAAAGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
56996105 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
***
56996132 AAAAATTCTACCCTAC-AGAGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
*
56996159 AGTAATT
1 GGTAATT
56996166 TCACAATCAA
Statistics
Matches: 142, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 1 0.01
27 141 0.99
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:56996074 original size:81 final size:81
Alignment explanation
Indices: 56995988--56996165 Score: 230
Period size: 81 Copynumber: 2.2 Consensus size: 81
56995978 TACCCCATAA
* * * * * *
56995988 GGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGA
1 GGGTATTTCAGTAATTCTACCCTACAAAGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAA
*
56996053 TAATTCTACCCTACAG
66 AAATTCTACCCTACAG
** * * * *
56996069 GGGTATTTTTGTAATTCTATCCTATAAAGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAA
1 GGGTATTTCAGTAATTCTACCCTACAAAGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAA
56996134 AAATTCTACCCTACAG
66 AAATTCTACCCTACAG
*
56996150 AGGTATTTCAGTAATT
1 GGGTATTTCAGTAATT
56996166 TCACAATCAA
Statistics
Matches: 82, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.37
Consensus pattern (81 bp):
GGGTATTTCAGTAATTCTACCCTACAAAGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAA
AAATTCTACCCTACAG
Found at i:56996206 original size:27 final size:27
Alignment explanation
Indices: 56996170--56996713 Score: 605
Period size: 27 Copynumber: 20.2 Consensus size: 27
56996160 GTAATTTCAC
*
56996170 AATCAAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * * *
56996197 AATCGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
** * * *
56996224 AA-CTGAGATTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * * *
56996251 AATCAAGGGTAAAACGGTGATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
56996278 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
**
56996305 AATCGAGGGTAAAACAATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
56996332 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
56996359 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
56996386 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
56996413 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
56996440 AA-CTGAGGGTAAAACGATAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * *
56996467 AA-CTAAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* ** * *
56996494 AATCGAGGATAAAATAGT-ATTTTAGA
1 AATCGAGGGTAAAACGGTAATTCTATA
56996520 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
56996547 AATTGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
56996574 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
56996601 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
56996628 AATTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
56996655 AATCAAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * * *
56996682 AATTGAGGGTAGAACGGTAATTGTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
56996709 AATCG
1 AATCG
56996714 GGAGTACTTT
Statistics
Matches: 434, Mismatches: 74, Indels: 18
0.83 0.14 0.03
Matches are distributed among these distances:
26 23 0.05
27 407 0.94
28 4 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:56998745 original size:6 final size:6
Alignment explanation
Indices: 56998729--56999000 Score: 226
Period size: 6 Copynumber: 44.8 Consensus size: 6
56998719 AACCAAAATG
* *
56998729 AGAATC GGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
56998777 AGTAA-C AGAATC AGAATC AGAATC AGAATT AGGAGA-C AGAATT AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC A-GA-ATC AGAATC AGAATC
*
56998826 AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC AGAATC
* * *
56998874 AGAATC AGAATC AGAATT AG-GTGAC AGAATT AGAATC AGAATC AGTAA-C
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AG-AATC
* * *
56998923 AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATT
1 AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
56998971 AGAATTAC ATG-A-C AGAATC AGAATC AGAAT
1 AGAA-T-C A-GAATC AGAATC AGAATC AGAAT
56999001 GGGAATGCAA
Statistics
Matches: 217, Mismatches: 22, Indels: 54
0.74 0.08 0.18
Matches are distributed among these distances:
4 1 0.00
5 19 0.09
6 175 0.81
7 15 0.07
8 6 0.03
9 1 0.00
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:56998763 original size:30 final size:30
Alignment explanation
Indices: 56998729--56999000 Score: 293
Period size: 30 Copynumber: 9.4 Consensus size: 30
56998719 AACCAAAATG
*
56998729 AGAATCGGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATCAGTAACAGAATC
*
56998759 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATCAGTAACAGAATC
**
56998789 AGAATCAGAATCAGAAT---TAGGAG-A-C
1 AGAATCAGAATCAGAATCAGTAACAGAATC
*
56998814 AGAATTAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATCAGTAACAGAATC
*
56998844 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATCAGTAACAGAATC
*
56998874 AGAATCAGAATCAGAATTAGGT----G-A-C
1 AGAATCAGAATCAGAATCA-GTAACAGAATC
*
56998899 AGAATTAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATCAGTAACAGAATC
* *
56998929 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATCAGTAACAGAATC
* *
56998959 AGAATCAGAATTAGAATTACA-TGACAGAATC
1 AGAATCAGAATCAGAA-T-CAGTAACAGAATC
56998990 AGAATCAGAAT
1 AGAATCAGAAT
56999001 GGGAATGCAA
Statistics
Matches: 206, Mismatches: 18, Indels: 35
0.80 0.07 0.14
Matches are distributed among these distances:
24 2 0.01
25 35 0.17
26 2 0.01
27 5 0.02
28 5 0.02
29 4 0.02
30 127 0.62
31 25 0.12
32 1 0.00
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATCAGTAACAGAATC
Found at i:56998831 original size:85 final size:85
Alignment explanation
Indices: 56998736--56999000 Score: 469
Period size: 85 Copynumber: 3.1 Consensus size: 85
56998726 ATGAGAATCG
56998736 GAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATC
1 GAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATC
56998801 AGAATTAGGAGACAGAATTA
66 AGAATTAGGAGACAGAATTA
56998821 GAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATC
1 GAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATC
*
56998886 AGAATTAGGTGACAGAATTA
66 AGAATTAGGAGACAGAATTA
* *
56998906 GAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATT
1 GAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATC
* *
56998971 AGAATTA-CATGACAGAATCA
66 AGAATTAGGA-GACAGAATTA
56998991 GAATCAGAAT
1 GAATCAGAAT
56999001 GGGAATGCAA
Statistics
Matches: 173, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
85 173 1.00
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (85 bp):
GAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATC
AGAATTAGGAGACAGAATTA
Found at i:56999166 original size:27 final size:27
Alignment explanation
Indices: 56999118--56999191 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
56999108 AGCATGGCTG
** * *
56999118 CCAGAA-CAGATACCGTGACAGAGTCA
1 CCAGAATCAGATAATGTGGCAGAGCCA
*
56999144 CCA-AATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
56999171 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
56999192 AACCCACCTA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 2 0.05
26 3 0.08
27 32 0.80
28 3 0.08
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:56999198 original size:27 final size:27
Alignment explanation
Indices: 56999142--56999199 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
56999132 GTGACAGAGT
* * *
56999142 CACCAAATACAGATATTGTGGCAGAGC
1 CACCAAATACAGATAATGTGGCAAACC
56999169 CACCAGAAT-CAGATAATGTGGCAAACC
1 CACCA-AATACAGATAATGTGGCAAACC
56999196 CACC
1 CACC
56999200 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 24 0.89
28 3 0.11
ACGTcount: A:0.38, C:0.28, G:0.19, T:0.16
Consensus pattern (27 bp):
CACCAAATACAGATAATGTGGCAAACC
Found at i:56999566 original size:27 final size:27
Alignment explanation
Indices: 56999503--56999581 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
56999493 TGATCGATCA
* *
56999503 ACAGATATTGTGACAGAG-CACCAAAT
1 ACAGATATTGTGGCAGAGCCACCAGAT
56999529 ACAGATATTGTGGCAGAGCCACCAGA-
1 ACAGATATTGTGGCAGAGCCACCAGAT
* *
56999555 GCAGATATTTGTGGCATAGCCACCAGA
1 ACAGATA-TTGTGGCAGAGCCACCAGA
56999582 ACGCTTCCTC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
26 23 0.49
27 24 0.51
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
ACAGATATTGTGGCAGAGCCACCAGAT
Found at i:56999801 original size:27 final size:27
Alignment explanation
Indices: 56999771--56999912 Score: 194
Period size: 27 Copynumber: 5.3 Consensus size: 27
56999761 GGGGCAAAAT
* * * *
56999771 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
56999798 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
56999825 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
56999852 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
56999879 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
56999906 AGTAATT
1 GGTAATT
56999913 TCACAATCAA
Statistics
Matches: 100, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 100 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:56999981 original size:27 final size:27
Alignment explanation
Indices: 56999951--57000514 Score: 629
Period size: 27 Copynumber: 20.9 Consensus size: 27
56999941 ATAAATTTTT
* * *
56999951 GGTAAAACGATAATTTTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTATAAATC-GAG
* ** *
56999978 GGTAAACCAATAATTCTATAAATCAAG
1 GGTAAAACGGTAATTCTATAAATCGAG
* * *
57000005 GGTAAAACGGTGATTTTACAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
** *
57000032 GGTAAAACGACAATTCTGTAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
**
57000059 GGTAAAATAGTAATTCTATAAA-CTGAG
1 GGTAAAACGGTAATTCTATAAATC-GAG
* *
57000086 GGTAAAACGGTAATTCTGTAAATC-AA
1 GGTAAAACGGTAATTCTATAAATCGAG
** *
57000112 GGTAAAATAGTAATTCTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTATAAATC-GAG
* **
57000139 GGTAAAACGGTAATTCTGTAAATTAAG
1 GGTAAAACGGTAATTCTATAAATCGAG
* **
57000166 GGTAAAACGGTAATTTTACCAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
57000193 GGTAAAACGGTAATTCTATAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
*
57000220 GGTAAAACAGTAATTCTATAAA-CTGAG
1 GGTAAAACGGTAATTCTATAAATC-GAG
57000247 GGTAAAACGGTAATTCTATAAA-CTGAG
1 GGTAAAACGGTAATTCTATAAATC-GAG
57000274 GGTAAAACGGTAATTCTATAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
* ** * *
57000301 GATAAAATAGTAATTTTACAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
57000328 GGTAAAACGGTAATTCTATAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
* *
57000355 GGTAAAACAGTAATTCTATAAATTGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
* * *
57000382 GGTAAAACGATAATTCTGTAAATCAAG
1 GGTAAAACGGTAATTCTATAAATCGAG
*
57000409 GGTAAAACGGTAATTCTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTATAAATC-GAG
*
57000436 GGTAAAACGGTAATTCTGTAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
* * *
57000463 GGTAAGACGGTAATTCTGTAAATTGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
* *
57000490 GGTAAAACGGTAATTTTGTAAATCG
1 GGTAAAACGGTAATTCTATAAATCG
57000515 GGAGTACTTT
Statistics
Matches: 458, Mismatches: 69, Indels: 20
0.84 0.13 0.04
Matches are distributed among these distances:
25 1 0.00
26 24 0.05
27 429 0.94
28 4 0.01
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.27
Consensus pattern (27 bp):
GGTAAAACGGTAATTCTATAAATCGAG
Found at i:57002686 original size:43 final size:43
Alignment explanation
Indices: 57002598--57002851 Score: 287
Period size: 43 Copynumber: 5.9 Consensus size: 43
57002588 TTGAAGCTAC
*
57002598 TATACTAGCACACACAGTGCATCATCAGATAAAACCAAAGAAAA
1 TATACTAGCACACACAGTGCATCATCGGAT-AAACCAAAGAAAA
* * * * * *
57002642 TATACTGGCAGACATAGTGTATCATCGGATATACCAAAGCAAA
1 TATACTAGCACACACAGTGCATCATCGGATAAACCAAAGAAAA
* * *
57002685 TATACTAGCACACACAGTGTATCATCAGATATACCAAAGAAAA
1 TATACTAGCACACACAGTGCATCATCGGATAAACCAAAGAAAA
* * *
57002728 TATA-TTG-ACACACTAGTGCATCATCGGATAAACTAAAAAAAA
1 TATACTAGCACACAC-AGTGCATCATCGGATAAACCAAAGAAAA
* * * * * * *
57002770 TATACTGGCACACGCAATGCATCATCGGATATATCGAAGCAAA
1 TATACTAGCACACACAGTGCATCATCGGATAAACCAAAGAAAA
*
57002813 TATATTAGCACACACAGTGCATCATCGGATAAACCAAAG
1 TATACTAGCACACACAGTGCATCATCGGATAAACCAAAG
57002852 TATAACCTAT
Statistics
Matches: 173, Mismatches: 34, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
41 6 0.03
42 29 0.17
43 108 0.62
44 30 0.17
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (43 bp):
TATACTAGCACACACAGTGCATCATCGGATAAACCAAAGAAAA
Found at i:57002774 original size:85 final size:85
Alignment explanation
Indices: 57002598--57002850 Score: 310
Period size: 85 Copynumber: 2.9 Consensus size: 85
57002588 TTGAAGCTAC
* * * * *
57002598 TATACTAGCACACACAGTGCATCATCAGATAAAACCAAAGAAAATATACTGGCAGACATAGTGTA
1 TATACTAGCACACACAGTGCATCATCAGAT-ATACCAAAGAAAATATATTGACACAC-TAGTGCA
* **
57002663 TCATCGGATATACCAAAGCAAA
64 TCATCGGATAAACCAAAAAAAA
*
57002685 TATACTAGCACACACAGTGTATCATCAGATATACCAAAGAAAATATATTGACACACTAGTGCATC
1 TATACTAGCACACACAGTGCATCATCAGATATACCAAAGAAAATATATTGACACACTAGTGCATC
*
57002750 ATCGGATAAACTAAAAAAAA
66 ATCGGATAAACCAAAAAAAA
* * * * * * *
57002770 TATACTGGCACACGCAATGCATCATCGGATATATCGAAGCAAATATATTAGCACACAC-AGTGCA
1 TATACTAGCACACACAGTGCATCATCAGATATACCAAAGAAAATATATT-G-ACACACTAGTGCA
57002834 TCATCGGATAAACCAAA
64 TCATCGGATAAACCAAA
57002851 GTATAACCTA
Statistics
Matches: 145, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
85 65 0.45
86 45 0.31
87 35 0.24
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.21
Consensus pattern (85 bp):
TATACTAGCACACACAGTGCATCATCAGATATACCAAAGAAAATATATTGACACACTAGTGCATC
ATCGGATAAACCAAAAAAAA
Found at i:57002794 original size:128 final size:128
Alignment explanation
Indices: 57002607--57002851 Score: 348
Period size: 128 Copynumber: 1.9 Consensus size: 128
57002597 CTATACTAGC
* * * * *
57002607 ACACACAGTGCATCATCAGATAAAACCAAAGAAAATATACTGGCAGACATAGTGTATCATCGGAT
1 ACACACAGTGCATCATCAGATAAAACCAAAAAAAATATACTGGCACACACAATGCATCATCGGAT
* *
57002672 ATACCAAAGCAAATATACTAGCACACACAGTGTATCATCAGATATACCAAAGAAAATATATTG
66 ATACCAAAGCAAATATACTAGCACACACAGTGCATCATCAGATAAACCAAAGAAAATATATTG
* * *
57002735 ACACACTAGTGCATCATCGGAT-AAACTAAAAAAAATATACTGGCACACGCAATGCATCATCGGA
1 ACACAC-AGTGCATCATCAGATAAAACCAAAAAAAATATACTGGCACACACAATGCATCATCGGA
* * * *
57002799 TATATCGAAGCAAATATATTAGCACACACAGTGCATCATCGGATAAACCAAAG
65 TATACCAAAGCAAATATACTAGCACACACAGTGCATCATCAGATAAACCAAAG
57002852 TATAACCTAT
Statistics
Matches: 102, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
128 88 0.86
129 14 0.14
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.20
Consensus pattern (128 bp):
ACACACAGTGCATCATCAGATAAAACCAAAAAAAATATACTGGCACACACAATGCATCATCGGAT
ATACCAAAGCAAATATACTAGCACACACAGTGCATCATCAGATAAACCAAAGAAAATATATTG
Found at i:57008844 original size:40 final size:40
Alignment explanation
Indices: 57008789--57008940 Score: 207
Period size: 40 Copynumber: 3.8 Consensus size: 40
57008779 ATAACCACAA
* * * * *
57008789 GCACAATTGCTTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
57008829 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
57008869 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
57008909 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
57008941 CATTCAAATG
Statistics
Matches: 101, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
39 1 0.01
40 96 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:57027542 original size:40 final size:40
Alignment explanation
Indices: 57027451--57027660 Score: 269
Period size: 40 Copynumber: 5.3 Consensus size: 40
57027441 TCCTCGTTCA
* * * ** *
57027451 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
57027490 AATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * *
57027530 ATTGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
57027570 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* ** * *
57027610 AATGCCTTCGGGACTTAACCCGGCTTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
57027650 AAGGCCTTCGG
1 AATGCCTTCGG
57027661 ATCTTAGTCC
Statistics
Matches: 151, Mismatches: 19, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 33 0.22
40 118 0.78
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:57027674 original size:80 final size:79
Alignment explanation
Indices: 57027451--57027660 Score: 321
Period size: 80 Copynumber: 2.6 Consensus size: 79
57027441 TCCTCGTTCA
* * * * *
57027451 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACGTAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGCTTTAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
57027516 TAACAACTCGCACG
66 TAACAACTCGCACG
* *
57027530 ATTGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGCTTTAGTAACTCGCAC-AATGCCTTCGGGACTTAACCCGGAT
57027595 TTAACAACTCGCACG
65 TTAACAACTCGCACG
* *
57027610 AATGCCTTCGGGACTTAACCCGGCTTTAGTATCTCGCACAAAGGCCTTCGG
1 AATGCCTTCGGGACTTAACCCGGCTTTAGTAACTCGCAC-AATGCCTTCGG
57027661 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 33 0.28
80 85 0.72
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGCTTTAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
TAACAACTCGCACG
Found at i:57027697 original size:80 final size:80
Alignment explanation
Indices: 57027454--57027706 Score: 253
Period size: 80 Copynumber: 3.2 Consensus size: 80
57027444 TCGTTCAAAT
* * * * * * * *
57027454 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACGTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* **
57027518 ACAACTCGCACGATT
66 ACAACTAGCACGAAA
* * *
57027533 GCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
57027598 ACAACTCGCACGAAT
66 ACAACTAGCACGAAA
* * **
57027613 GCCTTCGGGACTTAACCCGGCTTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATAT
1 GCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATAT
*
57027677 ATTC-ACTTAGCAC-AAA
65 A-ACAAC-TAGCACGAAA
*
57027693 GCCTTCGGAACTTA
1 GCCTTCGGGACTTA
57027707 GCCAGGACAG
Statistics
Matches: 152, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
79 34 0.22
80 112 0.74
81 6 0.04
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
ACAACTAGCACGAAA
Found at i:57027697 original size:120 final size:118
Alignment explanation
Indices: 57027449--57027706 Score: 257
Period size: 120 Copynumber: 2.2 Consensus size: 118
57027439 GCTCCTCGTT
* * * **
57027449 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACGTAACCCGGA
1 CAAA-GCCTTCGGGACTTAACCCGGATTTAACAACTCACACAATGCCTTCGGGACGTAACCCGGA
* ** * * *
57027514 TTTAACAACTCGCACGATTGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCA
65 TTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCA
* * *
57027568 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 C-AAAGCCTTCGGGACTTAACCCGGATTTAACAACTCACAC-AATGCCTTCGGGACGTAACCCGG
* ** * ** * *
57027633 CTTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
64 ATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATAATAAC-TAGCA
*
57027689 CAAAGCCTTCGGAACTTA
1 CAAAGCCTTCGGGACTTA
57027707 GCCAGGACAG
Statistics
Matches: 111, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
119 34 0.31
120 72 0.65
121 5 0.05
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (118 bp):
CAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCACACAATGCCTTCGGGACGTAACCCGGAT
TTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCA
Found at i:57027722 original size:41 final size:41
Alignment explanation
Indices: 57027645--57027722 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
57027635 TTAGTATCTC
* * *
57027645 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGAACTTAGTCCGGACACATTCACTTA
57027686 GCACAAA-GCCTTCGGAACTTAG-CCAGGACAGCATTCA
1 GCACAAAGGCCTTCGGAACTTAGTCC-GGACA-CATTCA
57027723 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 2 0.06
40 18 0.56
41 12 0.38
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGAACTTAGTCCGGACACATTCACTTA
Found at i:57032445 original size:5 final size:5
Alignment explanation
Indices: 57032435--57032530 Score: 72
Period size: 5 Copynumber: 18.2 Consensus size: 5
57032425 TGAATCCTCC
*
57032435 TATTT TATTT TA-TT TATTCT TATTTT TATTT T-CTT TATTT T-TTT TATTTT
1 TATTT TATTT TATTT TATT-T TA-TTT TATTT TATTT TATTT TATTT TA-TTT
* *
57032485 TCTTT TGATTTT TATTT TCATTT AAATTT TATTAT TATTT TATTT T
1 TATTT T-A-TTT TATTT T-ATTT -TATTT TATT-T TATTT TATTT T
57032531 GAAAGACATA
Statistics
Matches: 74, Mismatches: 6, Indels: 22
0.73 0.06 0.22
Matches are distributed among these distances:
4 11 0.15
5 33 0.45
6 24 0.32
7 6 0.08
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (5 bp):
TATTT
Found at i:57032464 original size:12 final size:11
Alignment explanation
Indices: 57032437--57032530 Score: 75
Period size: 12 Copynumber: 8.3 Consensus size: 11
57032427 AATCCTCCTA
57032437 TTTTATTTTA-
1 TTTTATTTTAT
57032447 -TTTATTCTTAT
1 TTTTATT-TTAT
*
57032458 TTTTATTTTCTT
1 TTTTATTTT-AT
*
57032470 TATTTTTTTTAT
1 T-TTTATTTTAT
*
57032482 TTTTCTTTTGAT
1 TTTTATTTT-AT
57032494 TTTTATTTTCAT
1 TTTTATTTT-AT
**
57032506 TTAAATTTTAT
1 TTTTATTTTAT
*
57032517 TATTATTTTAT
1 TTTTATTTTAT
57032528 TTT
1 TTT
57032531 GAAAGACATA
Statistics
Matches: 66, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
9 6 0.09
10 3 0.05
11 21 0.32
12 29 0.44
13 7 0.11
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:57032472 original size:30 final size:30
Alignment explanation
Indices: 57032438--57032496 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
57032428 ATCCTCCTAT
*
57032438 TTTATTTTATTTATTCTTATTTTTATTTTC
1 TTTATTTTATTTATTCTTATTTTGATTTTC
* * *
57032468 TTTATTTTTTTTATTTTTCTTTTGATTTT
1 TTTATTTTATTTATTCTTATTTTGATTTT
57032497 TATTTTCATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.80
Consensus pattern (30 bp):
TTTATTTTATTTATTCTTATTTTGATTTTC
Found at i:57032480 original size:18 final size:18
Alignment explanation
Indices: 57032437--57032530 Score: 66
Period size: 18 Copynumber: 5.0 Consensus size: 18
57032427 AATCCTCCTA
*
57032437 TTTTATTTTATTTATTCTTAT
1 TTTTATTTTCTTTA-T-TT-T
57032458 TTTTATTTTCTTTATTTT
1 TTTTATTTTCTTTATTTT
**
57032476 TTTTATTTTTCTTT-TGAT
1 TTTTA-TTTTCTTTATTTT
*
57032494 TTTTATTTTCATTTAAATTT
1 TTTTATTTTC-TTT-ATTTT
* *
57032514 TATTATTAT-TTTATTTT
1 TTTTATTTTCTTTATTTT
57032531 GAAAGACATA
Statistics
Matches: 60, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
17 9 0.15
18 19 0.32
19 10 0.17
20 9 0.15
21 13 0.22
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (18 bp):
TTTTATTTTCTTTATTTT
Found at i:57032485 original size:9 final size:9
Alignment explanation
Indices: 57032437--57032485 Score: 53
Period size: 9 Copynumber: 5.1 Consensus size: 9
57032427 AATCCTCCTA
57032437 TTTTATTTT
1 TTTTATTTT
*
57032446 ATTTATTCTTAT
1 TTTTA-T-TT-T
57032458 TTTTATTTT
1 TTTTATTTT
*
57032467 CTTTATTTT
1 TTTTATTTT
57032476 TTTTATTTT
1 TTTTATTTT
57032485 T
1 T
57032486 CTTTTGATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 22 0.67
10 3 0.09
11 3 0.09
12 5 0.15
ACGTcount: A:0.14, C:0.04, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTATTTT
Found at i:57032497 original size:7 final size:6
Alignment explanation
Indices: 57032447--57032530 Score: 59
Period size: 6 Copynumber: 14.3 Consensus size: 6
57032437 TTTTATTTTA
* * *
57032447 TTTATT CTTATT TTTATT TTCT-TT ATTT-TT TTTATT TTTCTT TTGATT
1 TTTATT TTTATT TTTATT TT-TATT -TTTATT TTTATT TTTATT TTTATT
* * * *
57032495 TTTATT TTCA-T TTAAAT TTTATT ATTA-T TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT
57032531 GAAAGACATA
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
5 11 0.18
6 47 0.77
7 3 0.05
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:57032503 original size:17 final size:16
Alignment explanation
Indices: 57032437--57032530 Score: 66
Period size: 17 Copynumber: 5.6 Consensus size: 16
57032427 AATCCTCCTA
57032437 TTTTA-TTTTATTTAT-
1 TTTTATTTTTATTT-TC
*
57032452 TCTTATTTTTATTTTC
1 TTTTATTTTTATTTTC
*
57032468 TTTATTTTTTTTATTTTTC
1 -TT-TTATTTTTA-TTTTC
57032487 TTTTGATTTTTATTTTC
1 TTTT-ATTTTTATTTTC
* * *
57032504 ATTTAAATTTTATTATTA
1 -TTTTATTTTTATT-TTC
57032522 TTTTATTTT
1 TTTTATTTT
57032531 GAAAGACATA
Statistics
Matches: 62, Mismatches: 9, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
15 5 0.08
16 8 0.13
17 23 0.37
18 21 0.34
19 5 0.08
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (16 bp):
TTTTATTTTTATTTTC
Found at i:57036954 original size:21 final size:21
Alignment explanation
Indices: 57036916--57036955 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
57036906 TGCTTCTTTG
* *
57036916 AAAATTTTTAAGTTTTTGGAA
1 AAAATTTGTAAGTGTTTGGAA
*
57036937 AAAATTTGTATGTGTTTGG
1 AAAATTTGTAAGTGTTTGG
57036956 TTTAGTCCCG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (21 bp):
AAAATTTGTAAGTGTTTGGAA
Found at i:57040003 original size:49 final size:49
Alignment explanation
Indices: 57039943--57040070 Score: 179
Period size: 49 Copynumber: 2.6 Consensus size: 49
57039933 ACATCAAAGT
*
57039943 CGATGCCATGTCCTAGACAGGTCTTACACTAACT-TTCATATATCGAG-GC
1 CGATGCCATGTCCTAGACAGGTCTTACACTAACTCTT-ATACATC-AGTGC
* * *
57039992 CGATGCCATGTCCTAGACAGGTCTTACACTAGCTCTTATCCATCAGTGT
1 CGATGCCATGTCCTAGACAGGTCTTACACTAACTCTTATACATCAGTGC
*
57040041 CGATGCCATCTCCTAGACAGGTCTTACACT
1 CGATGCCATGTCCTAGACAGGTCTTACACT
57040071 GACACACAAC
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
48 2 0.03
49 68 0.94
50 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (49 bp):
CGATGCCATGTCCTAGACAGGTCTTACACTAACTCTTATACATCAGTGC
Found at i:57050414 original size:42 final size:42
Alignment explanation
Indices: 57050375--57050467 Score: 177
Period size: 42 Copynumber: 2.2 Consensus size: 42
57050365 GTGGCCTAGA
57050375 CACACGGGCGTGTCTAATGCCATGTATGGCACACGGCCTATT
1 CACACGGGCGTGTCTAATGCCATGTATGGCACACGGCCTATT
*
57050417 CACACGGGCGTGTCTAATGCCGTGTATGGCACACGGCCTATT
1 CACACGGGCGTGTCTAATGCCATGTATGGCACACGGCCTATT
57050459 CACACGGGC
1 CACACGGGC
57050468 ATGTGACCTG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.20, C:0.30, G:0.28, T:0.22
Consensus pattern (42 bp):
CACACGGGCGTGTCTAATGCCATGTATGGCACACGGCCTATT
Found at i:57057558 original size:166 final size:166
Alignment explanation
Indices: 57057284--57057614 Score: 644
Period size: 166 Copynumber: 2.0 Consensus size: 166
57057274 AGTTTTGTAT
*
57057284 CTCCAGTTATAAACAATTTAGCGACTACTGCTCAGGAAAACAGCTCGTAGTGAATATGTTATTTT
1 CTCCAGTTATAAACAATTTAGCGACTACTGCTCAGGAAAACAGCTCGTAGTGAATATGTGATTTT
*
57057349 GTTGTAAACATTAATGAAAATTTGCCAATGAGTTATTTATTGATTATTATAATGCTTACTATAAT
66 GTTGTAAACATTAATGAAAATTTGCCAATGAGTTATTTATTGATTATTATAAAGCTTACTATAAT
57057414 CTATGTGTGTGAAAGTCAAATCAATATATATATTAG
131 CTATGTGTGTGAAAGTCAAATCAATATATATATTAG
57057450 CTCCAGTTATAAACAATTTAGCGACTACTGCTCAGGAAAACAGCTCGTAGTGAATATGTGATTTT
1 CTCCAGTTATAAACAATTTAGCGACTACTGCTCAGGAAAACAGCTCGTAGTGAATATGTGATTTT
57057515 GTTGTAAACATTAATGAAAATTTGCCAATGAGTTATTTATTGATTATTATAAAGCTTACTATAAT
66 GTTGTAAACATTAATGAAAATTTGCCAATGAGTTATTTATTGATTATTATAAAGCTTACTATAAT
57057580 CTATGTGTGTGAAAGTCAAATCAATATATATATTA
131 CTATGTGTGTGAAAGTCAAATCAATATATATATTA
57057615 TTCTGAAAGT
Statistics
Matches: 163, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
166 163 1.00
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (166 bp):
CTCCAGTTATAAACAATTTAGCGACTACTGCTCAGGAAAACAGCTCGTAGTGAATATGTGATTTT
GTTGTAAACATTAATGAAAATTTGCCAATGAGTTATTTATTGATTATTATAAAGCTTACTATAAT
CTATGTGTGTGAAAGTCAAATCAATATATATATTAG
Found at i:57058032 original size:27 final size:27
Alignment explanation
Indices: 57058001--57058178 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
57057991 TAAATTGTAC
57058001 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
57058028 TGCACTAAGTATGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57058054 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
57058082 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
57058110 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57058137 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
57058164 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57058179 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:57058115 original size:82 final size:81
Alignment explanation
Indices: 57058002--57058157 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
57057992 AAATTGTACA
* *
57058002 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTATGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTATGCGAAATGAATACGTA-GCACTAAGTG
57058066 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
57058083 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTATGCGAAATGAATACGTAGCACTAAGTG
*
57058148 TGCGAGTTGA
65 TGCGAATTGA
57058158 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTATGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:57058169 original size:82 final size:81
Alignment explanation
Indices: 57057998--57058178 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
57057988 GATTAAATTG
* *
57057998 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTATGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTATGCGAAATGAATACGATGCACTAA
57058063 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
57058079 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTATGCGAAATGAATACGAT-GCACT
* **
57058143 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
57058161 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
57058179 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTATGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:57059816 original size:16 final size:17
Alignment explanation
Indices: 57059783--57059815 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
57059773 CAATAGTAGC
57059783 CTGCGAGACCCAGAAAA
1 CTGCGAGACCCAGAAAA
57059800 CTGC-AGACCTCAGAAA
1 CTGCGAGACC-CAGAAA
57059816 CATTCTTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.39, C:0.30, G:0.21, T:0.09
Consensus pattern (17 bp):
CTGCGAGACCCAGAAAA
Found at i:57068676 original size:79 final size:78
Alignment explanation
Indices: 57068574--57068789 Score: 244
Period size: 79 Copynumber: 2.7 Consensus size: 78
57068564 GCTCCTCATT
*
57068574 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
*
57068639 ATTTAGTAAT-TCGCA
64 AATTAGT-ATCTCGCA
* *
57068654 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCCGG
57068717 AATTAGTATCTCGCA
64 AATTAGTATCTCGCA
* * * * *
57068732 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTA
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTA
57068790 GCCTGGACAT
Statistics
Matches: 118, Mismatches: 10, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
77 2 0.02
78 45 0.38
79 50 0.42
80 20 0.17
81 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGGAA
TTAGTATCTCGCA
Found at i:57068692 original size:39 final size:40
Alignment explanation
Indices: 57068574--57068792 Score: 258
Period size: 39 Copynumber: 5.5 Consensus size: 40
57068564 GCTCCTCATT
* *
57068574 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATTCGCA
* *
57068614 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATTCGCA
57068654 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAAT-TCGCA
57068693 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAAT-TCGCA
* * *
57068732 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-AATTCGCA
57068773 C-AA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
57068793 TGGACATCAT
Statistics
Matches: 163, Mismatches: 8, Indels: 17
0.87 0.04 0.09
Matches are distributed among these distances:
38 4 0.02
39 82 0.50
40 66 0.40
41 10 0.06
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATTCGCA
Found at i:57071107 original size:72 final size:73
Alignment explanation
Indices: 57071021--57071165 Score: 256
Period size: 74 Copynumber: 2.0 Consensus size: 73
57071011 ACCCAATTTT
57071021 GGGCTATTACAA-CTCCCCCCCTTTAGAGATTTTCGACCTCGAAAATCTTACCGGAGTGAGGTTT
1 GGGCTATTACAACCTCCCCCCCTTTAGAGATTTTCGACCTCGAAAATCTTACCGGAGTGAGGTTT
57071085 AGCATCTG
66 AGCATCTG
*
57071093 GGGCTATTACAACTCTCCCCCCCTTTAGAGATTTTCGTCCTCGAAAATCTTACCGGAGTGAGGTT
1 GGGCTATTACAAC-CTCCCCCCCTTTAGAGATTTTCGACCTCGAAAATCTTACCGGAGTGAGGTT
*
57071158 TAGTATCT
65 TAGCATCT
57071166 TTCTCATAAT
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
72 12 0.17
74 57 0.83
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (73 bp):
GGGCTATTACAACCTCCCCCCCTTTAGAGATTTTCGACCTCGAAAATCTTACCGGAGTGAGGTTT
AGCATCTG
Found at i:57075046 original size:281 final size:281
Alignment explanation
Indices: 57074543--57075103 Score: 1077
Period size: 281 Copynumber: 2.0 Consensus size: 281
57074533 TCATCAAATC
57074543 CATAAATACCGCAGGCGCATTAGTGAGCCCAAACGGCATCACTAAGAACTCGTAGTGACCATATC
1 CATAAATACCGCAGGCGCATTAGTGAGCCCAAACGGCATCACTAAGAACTCGTAGTGACCATATC
*
57074608 TCGTCCTGAAGGCAGTTTTGGGTATGTCCGATTCTCGAATTCGCAACTGATAATAGCCCGATCTC
66 TCGTCCTGAAGGCAGTTTTGGGTATGTCCGAATCTCGAATTCGCAACTGATAATAGCCCGATCTC
57074673 AAATCTATTTTTGAGAACACTGAGGCTCCCTTCAGTTGGTCGAACAAATCATCGATACGCGGTAA
131 AAATCTATTTTTGAGAACACTGAGGCTCCCTTCAGTTGGTCGAACAAATCATCGATACGCGGTAA
57074738 TGGATATTTGTTCTTTATTGTCACTTTATTCAGCTGACGATAGTCAATGCACAACCTCATGGTTC
196 TGGATATTTGTTCTTTATTGTCACTTTATTCAGCTGACGATAGTCAATGCACAACCTCATGGTTC
57074803 CGTCCTTCTTTTTCACGAACT
261 CGTCCTTCTTTTTCACGAACT
* * *
57074824 CATAAATACCGCAGGGGCATTAGTGAGTCCAAACGGCATCACTAAGAATTCGTAGTGACCATATC
1 CATAAATACCGCAGGCGCATTAGTGAGCCCAAACGGCATCACTAAGAACTCGTAGTGACCATATC
*
57074889 TCGTTCTGAAGGCAGTTTTGGGTATGTCCGAATCTCGAATTCGCAACTGATAATAGCCCGATCTC
66 TCGTCCTGAAGGCAGTTTTGGGTATGTCCGAATCTCGAATTCGCAACTGATAATAGCCCGATCTC
57074954 AAATCTATTTTTGAGAACACTGAGGCTCCCTTCAGTTGGTCGAACAAATCATCGATACGCGGTAA
131 AAATCTATTTTTGAGAACACTGAGGCTCCCTTCAGTTGGTCGAACAAATCATCGATACGCGGTAA
57075019 TGGATATTTGTTCTTTATTGTCACTTTATTCAGCTGACGATAGTCAATGCACAACCTCATGGTTC
196 TGGATATTTGTTCTTTATTGTCACTTTATTCAGCTGACGATAGTCAATGCACAACCTCATGGTTC
57075084 CGTCCTTCTTTTTCACGAAC
261 CGTCCTTCTTTTTCACGAAC
57075104 AATACTAGTG
Statistics
Matches: 275, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
281 275 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (281 bp):
CATAAATACCGCAGGCGCATTAGTGAGCCCAAACGGCATCACTAAGAACTCGTAGTGACCATATC
TCGTCCTGAAGGCAGTTTTGGGTATGTCCGAATCTCGAATTCGCAACTGATAATAGCCCGATCTC
AAATCTATTTTTGAGAACACTGAGGCTCCCTTCAGTTGGTCGAACAAATCATCGATACGCGGTAA
TGGATATTTGTTCTTTATTGTCACTTTATTCAGCTGACGATAGTCAATGCACAACCTCATGGTTC
CGTCCTTCTTTTTCACGAACT
Found at i:57083241 original size:37 final size:37
Alignment explanation
Indices: 57083180--57083258 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
57083170 TTATTACGAA
* * *
57083180 GTCTTACCCAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
* *
57083217 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
57083254 GTCTT
1 GTCTT
57083259 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:57083647 original size:49 final size:49
Alignment explanation
Indices: 57083392--57084453 Score: 1805
Period size: 49 Copynumber: 21.9 Consensus size: 49
57083382 CACATTTATG
* * * * * * * *
57083392 CACTTTCACATCCATTACGTTGGCCACTCGGCCCTGTCACATAT--ATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
57083439 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT--ATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
* * *
57083486 CACTTTCACATTCATCACATCGGCTATTAGACCTTATCACACAT--ATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
*
57083533 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTA-T-CACATATACATA
57083584 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
57083633 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
57083682 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
57083731 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
57083780 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
57083829 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
57083878 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
57083927 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
57083976 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
57084025 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
*
57084074 CACTTTCACATTCATCGCATCGGCCATTAGGCCTTATCACATAT--ATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
57084121 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT--ATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
*
57084168 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATAT--ATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
* * *
57084215 CACTTTCACATTCATCACATCGGCTATTAGACCTTATCACACAT--ATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
*
57084262 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTA-T-CACATATACATA
57084313 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
*
57084362 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATTAC--ATACATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
57084409 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
57084454 TACACTCTCT
Statistics
Matches: 975, Mismatches: 30, Indels: 18
0.95 0.03 0.02
Matches are distributed among these distances:
47 335 0.34
48 2 0.00
49 558 0.57
50 2 0.00
51 78 0.08
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.31
Consensus pattern (49 bp):
CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
Found at i:57088570 original size:46 final size:46
Alignment explanation
Indices: 57088520--57088695 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
57088510 TGGTTGAGCA
57088520 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57088566 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
57088611 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57088659 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57088696 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:57088676 original size:93 final size:93
Alignment explanation
Indices: 57088517--57088688 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
57088507 GGATGGTTGA
* *
57088517 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
57088582 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
57088610 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
57088675 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
57088689 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:57107911 original size:6 final size:6
Alignment explanation
Indices: 57107868--57107939 Score: 51
Period size: 6 Copynumber: 12.2 Consensus size: 6
57107858 GAATAAAAAA
* * * *
57107868 TTATTT TT-CTT TTATTC TTATTC TTATTT TCTATTT TT-TATT TTATCT
1 TTATTT TTATTT TTATTT TTATTT TTATTT T-TATTT TTAT-TT TTATTT
* *
57107916 TTATTT CTA-TT TTAATT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT T
57107940 AGTAGGTTGT
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
5 9 0.17
6 36 0.69
7 7 0.13
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (6 bp):
TTATTT
Found at i:57107916 original size:24 final size:23
Alignment explanation
Indices: 57107877--57107940 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 23
57107867 ATTATTTTTC
57107877 TTTTATTCTTAT-TCTTATTTTCTATT
1 TTTTATT-TTATCT-TTA-TTTCTA-T
57107903 TTTTATTTTATCTTTATTTCTAT
1 TTTTATTTTATCTTTATTTCTAT
*
57107926 TTTAATTTTAT-TTTA
1 TTTTATTTTATCTTTA
57107941 GTAGGTTGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
22 4 0.11
23 11 0.31
24 6 0.17
25 7 0.19
26 8 0.22
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTATTTTATCTTTATTTCTAT
Found at i:57107920 original size:11 final size:10
Alignment explanation
Indices: 57107872--57107940 Score: 59
Period size: 11 Copynumber: 6.5 Consensus size: 10
57107862 AAAAAATTAT
*
57107872 TTTTCTTTTA
1 TTTTATTTTA
57107882 TTCTTATTCTTA
1 TT-TTATT-TTA
* *
57107894 TTTTCTATT-
1 TTTTATTTTA
57107903 TTTTATTTTA
1 TTTTATTTTA
57107913 TCTTTATTTCTA
1 T-TTTATTT-TA
57107925 TTTTAATTTTA
1 TTTT-ATTTTA
57107936 TTTTA
1 TTTTA
57107941 GTAGGTTGTA
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
9 7 0.15
10 6 0.12
11 23 0.48
12 12 0.25
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:57107928 original size:17 final size:17
Alignment explanation
Indices: 57107906--57107938 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
57107896 TTCTATTTTT
57107906 TATTTT-ATCTTTATTTC
1 TATTTTAAT-TTTATTTC
57107923 TATTTTAATTTTATTT
1 TATTTTAATTTTATTT
57107939 TAGTAGGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
TATTTTAATTTTATTTC
Found at i:57109895 original size:19 final size:19
Alignment explanation
Indices: 57109867--57109905 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
57109857 CTAAACTGCA
*
57109867 AACTTTTAGAACTTTTGTC
1 AACTTGTAGAACTTTTGTC
57109886 AACTTGTAGAACTTTTGTC
1 AACTTGTAGAACTTTTGTC
57109905 A
1 A
57109906 CACCTAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (19 bp):
AACTTGTAGAACTTTTGTC
Found at i:57110861 original size:27 final size:27
Alignment explanation
Indices: 57110837--57111043 Score: 229
Period size: 27 Copynumber: 7.7 Consensus size: 27
57110827 TTAGTTTACC
*
57110837 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
57110864 AAATTACCAAAATATCCC-TAGTTTGTA
1 AAATTACCAAAATA-CCCTTGGTTTATA
*
57110891 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
57110918 AAATTACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
*
57110945 AAATTACCAAAATA-CCTCTGGTTTGTA
1 AAATTACCAAAATACCCT-TGGTTTATA
* * * *
57110972 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* * * *
57110999 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCTTGGTTTATA
**
57111026 AAATTACTGAAATACCCT
1 AAATTACCAAAATACCCT
57111044 CGACCTGTAA
Statistics
Matches: 156, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
26 6 0.04
27 145 0.93
28 5 0.03
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTATA
Found at i:57110910 original size:54 final size:53
Alignment explanation
Indices: 57110837--57111043 Score: 281
Period size: 54 Copynumber: 3.8 Consensus size: 53
57110827 TTAGTTTACC
*
57110837 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATATCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATA-CCCTAGTTTGTA
*
57110891 AAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCC-TAGTTTGTA
* *
57110945 AAATTACCAAAATA-CCTCTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCT-TGGTTTATAAAATTACCAAAATA-CCCTAGTTTGTA
* * * * **
57110999 AAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATACCCT
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCT
57111044 CGACCTGTAA
Statistics
Matches: 138, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
53 10 0.07
54 123 0.89
55 5 0.04
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.32
Consensus pattern (53 bp):
AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTAGTTTGTA
Found at i:57110969 original size:81 final size:79
Alignment explanation
Indices: 57110828--57111043 Score: 263
Period size: 81 Copynumber: 2.7 Consensus size: 79
57110818 TAGAATACTT
** **
57110828 TAGTTTACCAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATATCCCTAGTTTGTAAA
1 TAGTTTATAAAATTACCAAAATACCCTT-GTTTGTAAAATTACCAAAATA-CCCTAGTTTGTAAA
*
57110893 ATTA-CTAAAATACCCT
64 ATTATC-AAAATACCCC
* *
57110909 TGGTTTATAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCTCTGGTTTGTAAA
1 TAGTTTATAAAATTACCAAAATACCCTT-GTTTGTAAAATTACCAAAATACC-CTAGTTTGTAAA
57110974 ATTATCAAAATACCCC
64 ATTATCAAAATACCCC
* * * **
57110990 TAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATACCCT
1 TAGTTTATAAAATTACCAAAATACCCTTG-TTTGTAAAATTACCAAAATACCCT
57111044 CGACCTGTAA
Statistics
Matches: 118, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
80 5 0.04
81 112 0.95
82 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.33
Consensus pattern (79 bp):
TAGTTTATAAAATTACCAAAATACCCTTGTTTGTAAAATTACCAAAATACCCTAGTTTGTAAAAT
TATCAAAATACCCC
Found at i:57111053 original size:81 final size:81
Alignment explanation
Indices: 57110837--57111090 Score: 234
Period size: 81 Copynumber: 3.1 Consensus size: 81
57110827 TTAGTTTACC
** **
57110837 AAATTACCAAAATACCCTTG-GTTTACAAAATTACCAAAATATCC-CT-AGTTTGTAAAATTA-C
1 AAATTACCAAAATACCC-TGAGTTTGTAAAATTACCAAAATA-CCTCTGA-CCTGTAAAATTATC
* *
57110898 TAAAATACCCTTGGTTTATA
63 -AAAATACCCTTAGTTTGTA
* ***
57110918 AAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCTCTGGTTTGTAAAATTATCAAA
1 AAATTACCAAAATACCCTGAGTTTGTAAAATTACCAAAATACCTCTGACCTGTAAAATTATCAAA
*
57110983 ATACCCCTAGTTTGTA
66 ATACCCTTAGTTTGTA
* ** **
57110999 AAATTACCAAAATACCCCTGA-TTTGTGAAATTACTGAAATACC-CTCGACCTGTAAAATTATTG
1 AAATTACCAAAATA-CCCTGAGTTTGTAAAATTACCAAAATACCTCT-GACCTGTAAAATTATCA
* *
57111062 AAATA-CCTTCGACTTGTA
64 AAATACCCTTAG-TTTGTA
57111080 AAATTACCAAA
1 AAATTACCAAA
57111091 GTACGCTTGA
Statistics
Matches: 147, Mismatches: 19, Indels: 14
0.82 0.11 0.08
Matches are distributed among these distances:
80 9 0.06
81 132 0.90
82 6 0.04
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (81 bp):
AAATTACCAAAATACCCTGAGTTTGTAAAATTACCAAAATACCTCTGACCTGTAAAATTATCAAA
ATACCCTTAGTTTGTA
Found at i:57111056 original size:27 final size:27
Alignment explanation
Indices: 57110886--57111086 Score: 115
Period size: 27 Copynumber: 7.4 Consensus size: 27
57110876 TATCCCTAGT
* * **
57110886 TTGTAAAATTACTAAAATACCCTTGGT
1 TTGTAAAATTACTGAAATACCCTCGAC
* ** * *
57110913 TTATAAAATTACCAAAATACCCT-TAGT
1 TTGTAAAATTACTGAAATACCCTCGA-C
** **
57110940 TTGTAAAATTACCAAAATA-CCTCTGGT
1 TTGTAAAATTACTGAAATACCCTC-GAC
* * *
57110967 TTGTAAAATTA-TCAAAATACCC-CTAGT
1 TTGTAAAATTACT-GAAATACCCTCGA-C
** *
57110994 TTGTAAAATTACCAAAATACCC-CTGAT
1 TTGTAAAATTACTGAAATACCCTC-GAC
*
57111021 TTGTGAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTACTGAAATACCCTCGAC
* * *
57111048 CTGTAAAATTATTGAAATACCTTCGAC
1 TTGTAAAATTACTGAAATACCCTCGAC
57111075 TTGTAAAATTAC
1 TTGTAAAATTAC
57111087 CAAAGTACGC
Statistics
Matches: 143, Mismatches: 22, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
26 3 0.02
27 136 0.95
28 4 0.03
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.33
Consensus pattern (27 bp):
TTGTAAAATTACTGAAATACCCTCGAC
Found at i:57111198 original size:27 final size:27
Alignment explanation
Indices: 57111142--57111271 Score: 156
Period size: 27 Copynumber: 4.9 Consensus size: 27
57111132 CAAAATTACC
*
57111142 GAAATACCCTTGTAGGGTAGAAATAC-
1 GAAATACCCCTGTAGGGTAGAAATACT
57111168 GAAATACCCCTGTAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAAATACT
* *
57111195 GAAATACCCCTGTAGGGTAGAATTATT
1 GAAATACCCCTGTAGGGTAGAAATACT
* * * *
57111222 GAAATACTCCTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAAATACT
* * *
57111249 GAGATACCCTTGTGGGGTA-AAAT
1 GAAATACCCCTGTAGGGTAGAAAT
57111272 TACCATTTTA
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 28 0.31
27 62 0.69
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAAATACT
Found at i:57111256 original size:54 final size:53
Alignment explanation
Indices: 57111135--57111274 Score: 181
Period size: 54 Copynumber: 2.6 Consensus size: 53
57111125 CAATTTACAA
* *
57111135 AATTACCGAAATACCCTTGTAGGGTAGAAATACGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACGAAATACCCCTGTAAGGTAG
* * * * *
57111188 AAATACTGAAATACCCCTGTAGGGTAGAATTATTGAAATACTCCTGTAAGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTA-CGAAATACCCCTGTAAGGTAG
* * *
57111242 AATTACCGAGATACCCTTGTGGGGTAAAATTAC
1 AATTACCGAAATACCCTTGTAGGGTAGAATTAC
57111275 CATTTTACCC
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
53 28 0.39
54 44 0.61
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (53 bp):
AATTACCGAAATACCCTTGTAGGGTAGAATTACGAAATACCCCTGTAAGGTAG
Found at i:57111564 original size:27 final size:26
Alignment explanation
Indices: 57111520--57111571 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
57111510 CTCACTGCAA
*
57111520 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
57111547 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
57111572 GCAGCCTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:57112896 original size:48 final size:46
Alignment explanation
Indices: 57112785--57112904 Score: 132
Period size: 48 Copynumber: 2.6 Consensus size: 46
57112775 GACAGGACAG
* * *
57112785 GACAAAAATGAGCCATGTAAGTCCATATCAGATATATGACTTTGGA
1 GACAAGAATAAGCCATGTAAGTCCATATCAGATATATGACATTGGA
* * * *
57112831 GACAAGAATGAGCCATGTAAGCCCATATTAGATATATATGGCATTGGA
1 GACAAGAATAAGCCATGTAAGTCCATATCAG--ATATATGACATTGGA
* **
57112879 GACAGGAATAATTCATGTAAGTCCAT
1 GACAAGAATAAGCCATGTAAGTCCAT
57112905 GTCGAAGACA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
46 28 0.45
48 34 0.55
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (46 bp):
GACAAGAATAAGCCATGTAAGTCCATATCAGATATATGACATTGGA
Found at i:57114253 original size:27 final size:26
Alignment explanation
Indices: 57114201--57114259 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
57114191 CCACATATAT
*
57114201 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
57114227 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
57114254 ATATCT
1 ATATCT
57114260 AGCAGCCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:57115918 original size:48 final size:49
Alignment explanation
Indices: 57115799--57115931 Score: 139
Period size: 48 Copynumber: 2.8 Consensus size: 49
57115789 TCTTATATCG
* * * ** *
57115799 ATGCCATGTCCTAGA-CATGGTCTTACACGAAATCAGATATCGATACCA
1 ATGCCATATCCCAGATCATGGTCTTACATGGGATCACATATCGATACCA
* * * *
57115847 ATGCCATATTCCAGAT-ATAGTCTTACATGGGATCACATATTGATGCCA
1 ATGCCATATCCCAGATCATGGTCTTACATGGGATCACATATCGATACCA
57115895 ATGCCAGT-TCCCA-ATCATGGTCTTACATGGGATCACA
1 ATGCCA-TATCCCAGATCATGGTCTTACATGGGATCACA
57115932 CCAAACCCTA
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
47 2 0.03
48 67 0.96
49 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (49 bp):
ATGCCATATCCCAGATCATGGTCTTACATGGGATCACATATCGATACCA
Found at i:57118132 original size:72 final size:72
Alignment explanation
Indices: 57118010--57118155 Score: 274
Period size: 72 Copynumber: 2.0 Consensus size: 72
57118000 TAAGCCATAG
*
57118010 CAATTAGACACCTTTATCAAATAGAATACAACTTTTGCATTTTACGCGATTTAGTCCTTTTCTCA
1 CAATTAGACACCTTTATCAAATAGAATACAACTTTTGCATTTTACACGATTTAGTCCTTTTCTCA
57118075 AATTAAC
66 AATTAAC
*
57118082 CAATTAGACACCTTTATCAAATAGAATACAACTTTTTCATTTTACACGATTTAGTCCTTTTCTCA
1 CAATTAGACACCTTTATCAAATAGAATACAACTTTTGCATTTTACACGATTTAGTCCTTTTCTCA
57118147 AATTAAC
66 AATTAAC
57118154 CA
1 CA
57118156 CTTAAACGAT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (72 bp):
CAATTAGACACCTTTATCAAATAGAATACAACTTTTGCATTTTACACGATTTAGTCCTTTTCTCA
AATTAAC
Found at i:57119822 original size:49 final size:50
Alignment explanation
Indices: 57119697--57120091 Score: 379
Period size: 49 Copynumber: 7.9 Consensus size: 50
57119687 TCTATTTTGA
* * * *
57119697 GGTCGCATGTGT-GTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAA-TGT
* * **
57119747 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAAT-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAATGT
* * * *
57119796 GGTCCCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAA-TGT
* * **
57119847 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAAT-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAATGT
* * * *
57119896 GGTCCCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAA-TGT
* * *** ** *
57119947 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TTAATGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAATGT
* * * *
57119996 GGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTA-CC-AGACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAATG-T
** * * *
57120045 GGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAA
57120092 CTTCGGCTAC
Statistics
Matches: 276, Mismatches: 61, Indels: 15
0.78 0.17 0.04
Matches are distributed among these distances:
48 3 0.01
49 152 0.55
50 15 0.05
51 106 0.38
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAATGT
Found at i:57119882 original size:100 final size:100
Alignment explanation
Indices: 57119697--57120077 Score: 565
Period size: 100 Copynumber: 3.8 Consensus size: 100
57119687 TCTATTTTGA
*
57119697 GGTCGCATGTGT-GTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCCCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
57119761 TACTAAGTGCAGGCTACTACGTGTACTGGATAATT
66 TACTAAGTGCAGGCTACTACGTGTACTGGATAATT
57119796 GGTCCCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCCCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
57119861 TACTAAGTGCAGGCTACTACGTGTACTGGATAATT
66 TACTAAGTGCAGGCTACTACGTGTACTGGATAATT
57119896 GGTCCCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCCCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
** ** *
57119961 TACTAAGTGCAGGCTACTACGTGTA-TTAATGGTGA
66 TACTAAGTGCAGGCTACTACGTGTACTGGATAAT-T
* * * * * * * ** *
57119996 GGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTA-CC--AGACTGTTGGTTGCATGTGTA
1 GGTCCCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTG-TGATCACGTGTGTA
57120058 GTACTAAGTGCAGGCTACTA
65 GTACTAAGTGCAGGCTACTA
57120078 TGCGTACCAG
Statistics
Matches: 263, Mismatches: 16, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
97 5 0.02
98 30 0.11
99 17 0.06
100 211 0.80
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (100 bp):
GGTCCCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGTACTGGATAATT
Found at i:57136244 original size:44 final size:44
Alignment explanation
Indices: 57136177--57136263 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
57136167 TAAACGTTAG
* *
57136177 AATAAGCATGAAACCTTAGCAATAGGTAATAATTACTGAAATAA
1 AATAAGCATGAAACCTTAACAATAGGTAATAATTACTAAAATAA
57136221 AATAAGCATGAAACCTTAACAATAGGTAATAATTACTAAAATA
1 AATAAGCATGAAACCTTAACAATAGGTAATAATTACTAAAATA
57136264 CCCTTATGCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.52, C:0.11, G:0.11, T:0.25
Consensus pattern (44 bp):
AATAAGCATGAAACCTTAACAATAGGTAATAATTACTAAAATAA
Found at i:57136563 original size:27 final size:26
Alignment explanation
Indices: 57136511--57136570 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
57136501 CCACATATAT
*
57136511 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
57136537 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
57136564 ATATCTG
1 ATATCTG
57136571 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:57159856 original size:40 final size:40
Alignment explanation
Indices: 57159762--57159946 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
57159752 TATTCGAATG
* *
57159762 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTTACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
57159803 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
57159843 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
57159883 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
57159923 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
57159947 CTTGCGCAAG
Statistics
Matches: 119, Mismatches: 20, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
39 1 0.01
40 89 0.75
41 28 0.24
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:57159937 original size:80 final size:80
Alignment explanation
Indices: 57159764--57159946 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 80
57159754 TTCGAATGAT
* *
57159764 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTTACTATAACCGGACTAAGATCCGAAGGCAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGTTACTAT-ACCGGACTAAGATCCGAAGGCAT
* * *
57159829 TCGTGCGAGTTGCTAT
65 TCATGCGAGTTGCCAC
*
57159845 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTA-TAT-CCGGGCTAAG-TCCCGAAGGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-G-TTACTATACCGGACTAAGAT-CCGAAGGC
* *
57159907 ATTTATGCTAG-TGACCAC
63 ATTCATGCGAGTTG-CCAC
57159925 ATCCGGGCTAAGACCCGAAGGC
1 ATCCGGGCTAAGACCCGAAGGC
57159947 CTTGCGCAAG
Statistics
Matches: 90, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
79 3 0.03
80 49 0.54
81 31 0.34
82 4 0.04
83 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGTTACTATACCGGACTAAGATCCGAAGGCATT
CATGCGAGTTGCCAC
Found at i:57163396 original size:25 final size:25
Alignment explanation
Indices: 57163353--57163423 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 25
57163343 TATGCTCATA
*
57163353 CGAGCTATA-AATGGTAAGCTCCTC
1 CGAGCTAAATAATGGTAAGCTCCTC
*
57163377 CGAGCTGAATAATGGTAAGCTCCTC
1 CGAGCTAAATAATGGTAAGCTCCTC
57163402 CGAGCTAAATAATGGTAAGCTC
1 CGAGCTAAATAATGGTAAGCTC
57163424 ATACAAGCTG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
24 7 0.16
25 36 0.84
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (25 bp):
CGAGCTAAATAATGGTAAGCTCCTC
Found at i:57163432 original size:25 final size:25
Alignment explanation
Indices: 57163346--57163462 Score: 112
Period size: 25 Copynumber: 4.7 Consensus size: 25
57163336 GTACATGTAT
*
57163346 GCTCATACGAGCTATA-AATGGTAA
1 GCTCATACGAGCTAAATAATGGTAA
* * *
57163370 GCTCCTCCGAGCTGAATAATGGTAA
1 GCTCATACGAGCTAAATAATGGTAA
* *
57163395 GCTCCTCCGAGCTAAATAATGGTAA
1 GCTCATACGAGCTAAATAATGGTAA
* * *
57163420 GCTCATACAAGCTGAGT-ATCGGTAA
1 GCTCATACGAGCTAAATAAT-GGTAA
*
57163445 GCTCATAAGAGCTGAAAT
1 GCTCATACGAGCT-AAAT
57163463 CAGTAACCTT
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
24 14 0.18
25 60 0.79
26 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (25 bp):
GCTCATACGAGCTAAATAATGGTAA
Found at i:57163457 original size:50 final size:50
Alignment explanation
Indices: 57163346--57163462 Score: 130
Period size: 50 Copynumber: 2.3 Consensus size: 50
57163336 GTACATGTAT
* * * *
57163346 GCTCATACGAGCTATA-AATGGTAAGCTCCTCCGAGCTGAATAATGGTAA
1 GCTCATACGAGCTAAATAATGGTAAGCTCATACAAGCTGAATAATGGTAA
* * *
57163395 GCTCCTCCGAGCTAAATAATGGTAAGCTCATACAAGCTGAGT-ATCGGTAA
1 GCTCATACGAGCTAAATAATGGTAAGCTCATACAAGCTGAATAAT-GGTAA
*
57163445 GCTCATAAGAGCTGAAAT
1 GCTCATACGAGCT-AAAT
57163463 CAGTAACCTT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
49 15 0.27
50 36 0.65
51 4 0.07
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (50 bp):
GCTCATACGAGCTAAATAATGGTAAGCTCATACAAGCTGAATAATGGTAA
Found at i:57175673 original size:42 final size:42
Alignment explanation
Indices: 57175613--57175698 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
57175603 TTAAAAACTA
*
57175613 TAAATTTAAATCCGTAAAATTTTCCTGAAACTAGACTCATAT
1 TAAATTTAAATCCATAAAATTTTCCTGAAACTAGACTCATAT
57175655 TAAATTTAAATCCATAAAATTTTCCTGAAACTAGACTCATAT
1 TAAATTTAAATCCATAAAATTTTCCTGAAACTAGACTCATAT
57175697 TA
1 TA
57175699 CTTCTTACTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.36
Consensus pattern (42 bp):
TAAATTTAAATCCATAAAATTTTCCTGAAACTAGACTCATAT
Found at i:57182707 original size:38 final size:38
Alignment explanation
Indices: 57182664--57182794 Score: 127
Period size: 38 Copynumber: 3.2 Consensus size: 38
57182654 TTTCAAATTA
*
57182664 ACATGTATAACCATGGCATATCCACTTAGCACCACATT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACATT
* * *
57182702 ACATGTTTAACCGTGGTATATCCATTTAGCACCACATTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACA-T--T
* *
57182743 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACATT
57182787 ACATGTAT
1 ACATGTAT
57182795 CAATATGTGT
Statistics
Matches: 74, Mismatches: 10, Indels: 18
0.73 0.10 0.18
Matches are distributed among these distances:
38 33 0.45
39 1 0.01
40 4 0.05
41 2 0.03
42 1 0.01
43 1 0.01
44 2 0.03
45 3 0.04
46 1 0.01
47 26 0.35
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACATT
Found at i:57182763 original size:47 final size:48
Alignment explanation
Indices: 57182709--57182813 Score: 149
Period size: 47 Copynumber: 2.2 Consensus size: 48
57182699 ATTACATGTT
*
57182709 TAACCGTGGTATATCCATTTAGCACCACATTA-ATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACATTACATGAATCAATATATG
* * * *
57182756 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACATTACATGAATCAATATATG
*
57182804 TAATCGTGGT
1 TAACCGTGGT
57182814 TGTAACACCC
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
47 29 0.58
48 21 0.42
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.31
Consensus pattern (48 bp):
TAACCGTGGTATATCCACTTAGCACCACATTACATGAATCAATATATG
Found at i:57191380 original size:48 final size:48
Alignment explanation
Indices: 57191270--57191600 Score: 461
Period size: 48 Copynumber: 7.0 Consensus size: 48
57191260 GCACCACGTT
* *
57191270 ATATGTTTAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCA
1 ATATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCA
* * * *
57191317 ATATATGTAACCGTGGCATATCCAATTAGCACCATGTTACATGTATCA
1 ATATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCA
* *
57191365 ATATGTGTAATCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCA
1 ATATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCA
* * * *
57191412 ATATATGTAACCGTGGCATATCCAATTAGCACCATGTTACATGTATCA
1 ATATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCA
* *
57191460 ATATGTGTAATCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCA
1 ATATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCA
* * * *
57191507 ATATATGTAACCGTGGCATATCCAATTAGCACCATGTTACATGTATCA
1 ATATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCA
* *
57191555 ATATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACACGTAT
1 ATATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
57191601 AATCGTGGTA
Statistics
Matches: 245, Mismatches: 36, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
47 116 0.47
48 129 0.53
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (48 bp):
ATATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCA
Found at i:57191433 original size:95 final size:95
Alignment explanation
Indices: 57191270--57191593 Score: 630
Period size: 95 Copynumber: 3.4 Consensus size: 95
57191260 GCACCACGTT
* *
57191270 ATATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCA
1 ATATGTGTAATCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCA
57191335 TATCCAATTAGCACCATGTTACATGTATCA
66 TATCCAATTAGCACCATGTTACATGTATCA
57191365 ATATGTGTAATCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCA
1 ATATGTGTAATCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCA
57191430 TATCCAATTAGCACCATGTTACATGTATCA
66 TATCCAATTAGCACCATGTTACATGTATCA
57191460 ATATGTGTAATCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCA
1 ATATGTGTAATCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCA
57191525 TATCCAATTAGCACCATGTTACATGTATCA
66 TATCCAATTAGCACCATGTTACATGTATCA
57191555 ATATGTGTAATCGTGGTATATCCACTTAGCACCACGTTA
1 ATATGTGTAATCGTGGTATATCCACTTAGCACCACGTTA
57191594 CACGTATAAT
Statistics
Matches: 227, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 227 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (95 bp):
ATATGTGTAATCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCA
TATCCAATTAGCACCATGTTACATGTATCA
Found at i:57196287 original size:21 final size:21
Alignment explanation
Indices: 57196261--57196305 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
57196251 AAATGAATGT
*
57196261 TAACATTTTGATTTTGTCCGG
1 TAACATTTTGATTTTGTCAGG
57196282 TAACATTTTGATTTTGTCAGG
1 TAACATTTTGATTTTGTCAGG
57196303 TAA
1 TAA
57196306 TGCCTTTAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.11, G:0.18, T:0.47
Consensus pattern (21 bp):
TAACATTTTGATTTTGTCAGG
Found at i:57202442 original size:30 final size:29
Alignment explanation
Indices: 57202406--57202473 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 29
57202396 ATGTCCTGCG
*
57202406 GCCGTGTCCTTCACACGGCCAAGACACAC
1 GCCGTGTCCTTCACACAGCCAAGACACAC
**
57202435 AGCCGTGTCCTTCACACAGCTGAGACACAC
1 -GCCGTGTCCTTCACACAGCCAAGACACAC
57202465 GACCGTGTC
1 G-CCGTGTC
57202474 TCTGCCCGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 1 0.03
30 33 0.97
ACGTcount: A:0.24, C:0.38, G:0.22, T:0.16
Consensus pattern (29 bp):
GCCGTGTCCTTCACACAGCCAAGACACAC
Found at i:57203682 original size:48 final size:48
Alignment explanation
Indices: 57203601--57203742 Score: 178
Period size: 48 Copynumber: 3.0 Consensus size: 48
57203591 TAGTAGAATA
* * *
57203601 CCAATGCCATATCCCGAATATGG-CTTACATGGGATCACATATCGATG
1 CCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCGATG
* ** *
57203648 CCAATGCCATGTCCCAAACATGGTCTTACGTGGGATCGTAGATCGATG
1 CCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCGATG
* * * *
57203696 CCAATGTCATGTCCCAGACATGGTTTTACATGGGATCTCATATCGAT
1 CCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCGAT
57203743 ACCGATAGCC
Statistics
Matches: 80, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
47 20 0.25
48 60 0.75
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (48 bp):
CCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCGATG
Found at i:57207739 original size:17 final size:17
Alignment explanation
Indices: 57207717--57207777 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
57207707 ACTACAAAAC
57207717 ATTTATATTATTAATAT
1 ATTTATATTATTAATAT
* *
57207734 ATTTATAATT-GTAATAA
1 ATTTAT-ATTATTAATAT
*
57207751 ATATT-TATTATTAAAAT
1 AT-TTATATTATTAATAT
*
57207768 ATTAATATTA
1 ATTTATATTA
57207778 AATATTTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
16 4 0.12
17 25 0.74
18 5 0.15
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
ATTTATATTATTAATAT
Found at i:57211813 original size:27 final size:27
Alignment explanation
Indices: 57211779--57211848 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
57211769 ATTGTTCTCT
**
57211779 TCAGATTTCTTGTCATTCTCATTTGAA
1 TCAGATTTCTTGTCATTCTCATCCGAA
*
57211806 TCAGATTTCTTGTCAGTCTCATCCGAA
1 TCAGATTTCTTGTCATTCTCATCCGAA
57211833 TCAGATTTCTTGTCAT
1 TCAGATTTCTTGTCAT
57211849 CAGAATTCTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.44
Consensus pattern (27 bp):
TCAGATTTCTTGTCATTCTCATCCGAA
Found at i:57215469 original size:25 final size:25
Alignment explanation
Indices: 57215441--57215488 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
57215431 AATAACGGGT
57215441 AGCTCCGAAGAGCCATAAATCAGGA
1 AGCTCCGAAGAGCCATAAATCAGGA
* * * *
57215466 AGCTCTGGATAGCCATATATCAG
1 AGCTCCGAAGAGCCATAAATCAG
57215489 AAAGTTTAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (25 bp):
AGCTCCGAAGAGCCATAAATCAGGA
Found at i:57217614 original size:30 final size:30
Alignment explanation
Indices: 57217580--57217648 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
57217570 ACATATCTGA
57217580 ATCACTTAATGTGTAATACGAGTTCAATTT
1 ATCACTTAATGTGTAATACGAGTTCAATTT
*
57217610 ATCACTTAATGTGTAATACGCGTTCAATTT
1 ATCACTTAATGTGTAATACGAGTTCAATTT
57217640 ATCATCTTA
1 ATCA-CTTA
57217649 GCATAGGATC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 33 0.89
31 4 0.11
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.41
Consensus pattern (30 bp):
ATCACTTAATGTGTAATACGAGTTCAATTT
Found at i:57224866 original size:43 final size:42
Alignment explanation
Indices: 57224788--57224891 Score: 113
Period size: 43 Copynumber: 2.5 Consensus size: 42
57224778 TAACGAGATG
* * *
57224788 TGATTATGTGTAAGACCAT-GTCTGGGACATTGGCATCATTATA
1 TGATTACGTGTAAGACCATAGTCTGGGACATCGGCATC--CATA
**
57224831 TGATTACGTGTAAGACCATAGT-TGGGTTATCGGCATCCATA
1 TGATTACGTGTAAGACCATAGTCTGGGACATCGGCATCCATA
* *
57224872 TGATAACATGTAAGACCATA
1 TGATTACGTGTAAGACCATA
57224892 TCTAGGATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
41 21 0.40
43 30 0.57
44 2 0.04
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (42 bp):
TGATTACGTGTAAGACCATAGTCTGGGACATCGGCATCCATA
Found at i:57229588 original size:27 final size:27
Alignment explanation
Indices: 57229464--57229587 Score: 158
Period size: 27 Copynumber: 4.6 Consensus size: 27
57229454 AAAGTACCTC
* *
57229464 CGATTTACATAATTACCGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
*
57229491 CGACTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
57229518 CGATTTACAGAAGTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * **
57229545 TGATTTATAGAATTACTTTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
57229572 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
57229588 TAAAATACCC
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 83 1.00
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:57229677 original size:54 final size:53
Alignment explanation
Indices: 57229580--57229758 Score: 225
Period size: 54 Copynumber: 3.3 Consensus size: 53
57229570 CTCGATTTAC
* * *
57229580 AAAATTACTAAAATACCCTAGTCTGTAAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACTAAAATACCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGT
* *
57229633 AAAATTA-TAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACTA-AAATACCCT-AGTTTGTAAAATTACCAAAATACCCTTAGTTTGT
* * * * *
57229687 AAAATTACCAAAATACCACTAGTTTGTGAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACTAAAATACC-CTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGT
*
57229741 AAAATTACCAAAATACCC
1 AAAATTACTAAAATACCC
57229759 CTGATTTACA
Statistics
Matches: 110, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
52 2 0.02
53 17 0.15
54 88 0.80
55 3 0.03
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (53 bp):
AAAATTACTAAAATACCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGT
Found at i:57229712 original size:81 final size:81
Alignment explanation
Indices: 57229566--57229760 Score: 277
Period size: 81 Copynumber: 2.4 Consensus size: 81
57229556 ATTACTTTTT
* ** * * *
57229566 TACCCTCGATTTACAAAATTACTAAAATA-CCCTAGTCTGTAAAATTACTAAAATACCCTTGGTT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCCTTAGTT
*
57229630 TGTAAAATTATAGAAA
66 TGTAAAATTACAGAAA
*
57229646 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCAC-TAGT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACC-CTTAGT
* *
57229710 TTGTGAAATTACCGAAA
65 TTGTAAAATTACAGAAA
57229727 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
57229761 GATTTACAAA
Statistics
Matches: 103, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
80 25 0.24
81 77 0.75
82 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (81 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCCTTAGTT
TGTAAAATTACAGAAA
Found at i:57229765 original size:27 final size:26
Alignment explanation
Indices: 57229580--57229765 Score: 187
Period size: 27 Copynumber: 6.9 Consensus size: 26
57229570 CTCGATTTAC
* *
57229580 AAAATTACTAAAATA-CCCTAGTCTGT
1 AAAATTACCAAAATACCCCTA-TTTGT
* * *
57229606 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCCT-ATTTGT
* *
57229633 AAAATTA-TAGAAATACCCTCAATTTGT
1 AAAATTACCA-AAATACCC-CTATTTGT
57229660 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTA-TTTGT
*
57229687 AAAATTACCAAAATACCACTAGTTTGT
1 AAAATTACCAAAATACCCCTA-TTTGT
* * *
57229714 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCC-CTATTTGT
57229741 AAAATTACCAAAATACCCCTGATTT
1 AAAATTACCAAAATACCCCT-ATTT
57229766 ACAAAGTTAT
Statistics
Matches: 136, Mismatches: 16, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
26 20 0.15
27 113 0.83
28 3 0.02
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.31
Consensus pattern (26 bp):
AAAATTACCAAAATACCCCTATTTGT
Found at i:57229781 original size:27 final size:27
Alignment explanation
Indices: 57229751--57229840 Score: 94
Period size: 27 Copynumber: 3.3 Consensus size: 27
57229741 AAAATTACCA
* *
57229751 AAATACCCCTGATTTACAAAGTTATAG
1 AAATACCCTTGATTTACAAAATTATAG
57229778 AAATACCCTTGACTTT-CTAAAAATTATAG
1 AAATACCCTTGA-TTTAC--AAAATTATAG
* *
57229807 AAATACCTTTGGTTTACAAAATTACT-G
1 AAATACCCTTGATTTACAAAATTA-TAG
57229834 AAATACC
1 AAATACC
57229841 TTGGTTTGTA
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
27 27 0.50
28 7 0.13
29 20 0.37
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATACCCTTGATTTACAAAATTATAG
Found at i:57229781 original size:54 final size:54
Alignment explanation
Indices: 57229566--57229786 Score: 147
Period size: 54 Copynumber: 4.1 Consensus size: 54
57229556 ATTACTTTTT
* ** * *
57229566 TACCCTCGATTTACAAAATTACTAAAATACC-CTAGTCTGTA-AAATTACTA-AAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCACTAGTTTG-ACAAATTAC-AGAAA
*** * *
57229619 TACCCTTGGTTTGTAAAATTA-TAGAAATACC-CTCAATTTGTA-AAATTACCA-AAA
1 TACCCTCAATTTGTAAAATTACCA-AAATACCACT-AGTTTG-ACAAATTA-CAGAAA
* ** *
57229673 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTAGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCACTAGTTTGACAAATTACAGAAA
* *
57229727 TACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTT-ACAAAGTTATAGAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCACTAG-TTTGACAAA-TTACAGAAA
57229781 TACCCT
1 TACCCT
57229787 TGACTTTCTA
Statistics
Matches: 139, Mismatches: 18, Indels: 21
0.78 0.10 0.12
Matches are distributed among these distances:
52 2 0.01
53 31 0.22
54 101 0.73
55 5 0.04
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCACTAGTTTGACAAATTACAGAAA
Found at i:57229841 original size:27 final size:26
Alignment explanation
Indices: 57229763--57229847 Score: 84
Period size: 29 Copynumber: 3.1 Consensus size: 26
57229753 ATACCCCTGA
* *
57229763 TTTACAAAGTTATAGAAATACCCTTGAC
1 TTTACAAAATTATAGAAATA-CCTTG-G
57229791 TTT-CTAAAAATTATAGAAATACCTTTGG
1 TTTAC--AAAATTATAGAAATACC-TTGG
57229819 TTTACAAAATTACT-GAAATACCTTGG
1 TTTACAAAATTA-TAGAAATACCTTGG
57229845 TTT
1 TTT
57229848 GTAGGTTTAC
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
26 7 0.14
27 16 0.32
28 9 0.18
29 18 0.36
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (26 bp):
TTTACAAAATTATAGAAATACCTTGG
Found at i:57229931 original size:27 final size:27
Alignment explanation
Indices: 57229901--57229992 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
57229891 ACCCCTATTA
*
57229901 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
57229928 GGTAAAGTGACCGTAAAGTCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
57229955 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
57229982 GGTAAAATGAC
1 GGTAAAATGAC
57229993 GAATATGCCC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 57 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:57231246 original size:9 final size:9
Alignment explanation
Indices: 57231234--57231290 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
57231224 TTTGATAAAC
57231234 ATGATATGT
1 ATGATATGT
*
57231243 ATGATATGCAC
1 ATGATATG--T
*
57231254 ATGACATGT
1 ATGATATGT
*
57231263 ATGATATGCAC
1 ATGATATG--T
57231274 ATGATATGT
1 ATGATATGT
57231283 ATGATATG
1 ATGATATG
57231291 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:57231257 original size:20 final size:20
Alignment explanation
Indices: 57231232--57231302 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
57231222 ATTTTGATAA
57231232 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
57231252 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
57231272 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
57231292 ACATGAGATGT
1 ACATGATATGT
57231303 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:57231279 original size:11 final size:11
Alignment explanation
Indices: 57231243--57231297 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
57231233 CATGATATGT
57231243 ATGATATGCAC
1 ATGATATGCAC
* *
57231254 ATGACATG--T
1 ATGATATGCAC
57231263 ATGATATGCAC
1 ATGATATGCAC
*
57231274 ATGATATG--T
1 ATGATATGCAC
57231283 ATGATATGCAC
1 ATGATATGCAC
57231294 ATGA
1 ATGA
57231298 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:57231430 original size:25 final size:24
Alignment explanation
Indices: 57231349--57231517 Score: 202
Period size: 25 Copynumber: 7.0 Consensus size: 24
57231339 AGGAAGTGGA
57231349 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
57231372 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
57231395 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
* *
57231420 GAAGGGCTTATGCCCTAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
* *
57231445 AAAAGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTATAT
* *
57231469 AAAGGGCTTTTGCCCTAGTTACTA-
1 AAAGGGCTTATGCCCCAGTTA-TAT
*
57231493 AAAGAGGC-TAGGCCTCCAGTTATAT
1 AAAG-GGCTTATGCC-CCAGTTATAT
57231518 GATAAAGCAG
Statistics
Matches: 128, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
23 45 0.35
24 29 0.23
25 54 0.42
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATAT
Found at i:57231501 original size:49 final size:47
Alignment explanation
Indices: 57231348--57231517 Score: 209
Period size: 49 Copynumber: 3.5 Consensus size: 47
57231338 GAGGAAGTGG
*
57231348 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCTAGTTAT
* *
57231394 TAAAGGGCTTATGCCCCAGTTATGATGAAGGGCTTATGCCCTAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT-ATAAAGGGCTTATGCCCTAGTTAT
* * *
57231442 GATAAAAGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCTAGTTACT
1 -A-AAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCTAGTTA-T
*
57231492 AAAAGAGGC-TAGGCCTCCAGTTATAT
1 AAAAG-GGCTTATGCC-CCAGTTATAT
57231518 GATAAAGCAG
Statistics
Matches: 106, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
46 22 0.21
48 29 0.27
49 33 0.31
50 22 0.21
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCTAGTTAT
Found at i:57231747 original size:31 final size:31
Alignment explanation
Indices: 57231711--57231774 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
57231701 CGTTTACAGT
*
57231711 AAAGGCTTCGGCCTAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
57231742 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
57231773 AA
1 AA
57231775 TATGAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:57231773 original size:7 final size:7
Alignment explanation
Indices: 57231761--57231788 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
57231751 GGCCCAGTGT
57231761 TATGAAA
1 TATGAAA
57231768 TATGAAA
1 TATGAAA
57231775 TATGAAA
1 TATGAAA
57231782 TATGAAA
1 TATGAAA
57231789 AGTGCTATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (7 bp):
TATGAAA
Found at i:57233249 original size:43 final size:42
Alignment explanation
Indices: 57233094--57233249 Score: 152
Period size: 43 Copynumber: 3.6 Consensus size: 42
57233084 TGTGTTTTCG
* * *
57233094 TGTAAGACCACATCTGGGACGTTGGGATCAACTTATGATTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCAAATT-TGA-TTACA
* * * ** *
57233138 TGTAAGACCATGTCTGGGACATTAGCATCGTATTTGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCAAATTTGATTACA
** *
57233180 TGTAAGACCTTGTCTGAGACAG-TGGCATCAAAATTTGATTACA
1 TGTAAGACCACGTCTGGGAC-GTTGGCATC-AAATTTGATTACA
*
57233223 TGTATGACCACGTCTGGGACGTTGGCA
1 TGTAAGACCACGTCTGGGACGTTGGCA
57233250 CTGTACGAGC
Statistics
Matches: 89, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
42 29 0.33
43 34 0.38
44 26 0.29
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCAAATTTGATTACA
Found at i:57246075 original size:41 final size:41
Alignment explanation
Indices: 57246018--57246100 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
57246008 ACCGAATATC
57246018 ACAAAAGCTAAAATCCCGAAGGTTCATATTGTCTATGCCGA
1 ACAAAAGCTAAAATCCCGAAGGTTCATATTGTCTATGCCGA
* *
57246059 ACAAAAGCTGAAATCCCGAAGGTTCATATTGTCTGTGCCGA
1 ACAAAAGCTAAAATCCCGAAGGTTCATATTGTCTATGCCGA
57246100 A
1 A
57246101 TTCTCCTAGC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (41 bp):
ACAAAAGCTAAAATCCCGAAGGTTCATATTGTCTATGCCGA
Found at i:57254041 original size:47 final size:47
Alignment explanation
Indices: 57253964--57254094 Score: 163
Period size: 47 Copynumber: 2.8 Consensus size: 47
57253954 GTGCGAATAA
* * * *
57253964 TACCTTGATTTGGCTACGGGCTATGATATAGGTATTTTGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTATTTTAAGAGAACT
* * * * *
57254011 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCTAAGATAACT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTATTTTAAGAGAACT
* *
57254058 TACCTTGATTAGGCTACGGGCCATGATGTAGGTATTT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTATTT
57254095 ATCGATTGTG
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.35
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGATATAGGTATTTTAAGAGAACT
Found at i:57265676 original size:55 final size:55
Alignment explanation
Indices: 57265552--57265746 Score: 227
Period size: 54 Copynumber: 3.6 Consensus size: 55
57265542 TTGGTAAGAT
* * *
57265552 AAGGATATCATGTAAGACCATGCCAAGTCATGGCATTGATAAGTTCTATAAGG-A
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCA
* * * * *
57265606 AAGGAAATCATGTAAGACCATGTCAAGACATGACATTCATGAGTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGCA
* * * *
57265662 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAACGC-
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCA
* *
57265714 AAGGATACCACGTAAGACCATGTCAAGACATGG
1 AAGGATACCATGTAAGACCATGCCAAGACATGG
57265747 TAATGGTAAG
Statistics
Matches: 119, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
52 4 0.03
53 30 0.25
54 40 0.34
55 40 0.34
56 5 0.04
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.22
Consensus pattern (55 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCA
Found at i:57266828 original size:30 final size:30
Alignment explanation
Indices: 57266792--57266851 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
57266782 TTCCCGAGCC
*
57266792 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
57266822 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
57266852 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:57267328 original size:46 final size:46
Alignment explanation
Indices: 57267278--57267453 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
57267268 TGGTTGAGCA
*
57267278 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
57267324 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
57267371 TCCGAAATCGTTGAGTTGAGTCCGAATTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
57267417 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57267454 GCGGGTAACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.58
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:57267434 original size:93 final size:93
Alignment explanation
Indices: 57267275--57267446 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
57267265 GGATGGTTGA
* * * * *
57267275 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAAATCGTTGAGTTGAGTCCGAATTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
57267340 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
57267368 GCATCCGAAATCGTTGAGTTGAGTCCGAATTCACTCATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAAATCGTTGAGTTGAGTCCGAATTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
57267433 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
57267447 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAAATCGTTGAGTTGAGTCCGAATTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:57270714 original size:40 final size:40
Alignment explanation
Indices: 57270620--57270844 Score: 149
Period size: 40 Copynumber: 5.6 Consensus size: 40
57270610 TATTCGAATG
* *
57270620 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCC-GGCTAAGAT-CCGAAGGCATTTGTGCGAGGTGACT
* * *
57270661 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGG-CTAAGATCCGAAGGCATTTGTGCGAGGTGACT
* * * *
57270701 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCTA-GCGATT
1 ATATCC-GGCTAAGATCCGAAGGCATTTGTGCGAGGTGACT
* * * * *
57270741 ATATCTGGGCTAA-AACTCGAAGGCATTTGTGCTA-GCGATT
1 ATATC-CGGCTAAGATC-CGAAGGCATTTGTGCGAGGTGACT
* * *
57270781 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTA-GTGACC
1 ATATCC-GGCTAAGAT-CCGAAGGCATTTGTGCGAGGTGACT
* *
57270821 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCC-GGCTAAGATCCGAAGGC
57270845 CTTGTGCAAG
Statistics
Matches: 152, Mismatches: 22, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
39 3 0.02
40 117 0.77
41 31 0.20
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGCTAAGATCCGAAGGCATTTGTGCGAGGTGACT
Done.