Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 29 of 120
Found at i:7670848 original size:17 final size:16
Alignment explanation
Indices: 7670826--7670857 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
7670816 AAAAAGAAGG
7670826 AGAGAAAGAAACGAAAC
1 AGAGAAAGAAA-GAAAC
7670843 AGAGAAAGAAAGAAA
1 AGAGAAAGAAAGAAA
7670858 GGAAAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.69, C:0.06, G:0.25, T:0.00
Consensus pattern (16 bp):
AGAGAAAGAAAGAAAC
Found at i:7670852 original size:4 final size:4
Alignment explanation
Indices: 7670795--7670881 Score: 70
Period size: 4 Copynumber: 21.2 Consensus size: 4
7670785 TAAAATAATT
* * * *
7670795 AAGA AAGA GAA-A AAGA ATGA GAA-A AAGA AGGA GAGA AAGA AACGA AACA
1 AAGA AAGA -AAGA AAGA AAGA -AAGA AAGA AAGA AAGA AAGA AA-GA AAGA
* *
7670844 GAGA AAGA AAGA AAGGA AAGA AAAA AAGA AAGA AAGA A
1 AAGA AAGA AAGA AA-GA AAGA AAGA AAGA AAGA AAGA A
7670882 GGAGAAAAGT
Statistics
Matches: 65, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
3 4 0.06
4 50 0.77
5 11 0.17
ACGTcount: A:0.70, C:0.02, G:0.26, T:0.01
Consensus pattern (4 bp):
AAGA
Found at i:7670856 original size:25 final size:25
Alignment explanation
Indices: 7670795--7670881 Score: 81
Period size: 25 Copynumber: 3.5 Consensus size: 25
7670785 TAAAATAATT
* *
7670795 AAGAAAGAGAA-AAA-GAATGAGAAA
1 AAGAAAGA-AAGAAAGGAAAGAAAAA
* * *
7670819 AAGAAGGAGAGAAA-GAAACGAAACA
1 AAGAAAGAAAGAAAGGAAA-GAAAAA
*
7670844 GAGAAAGAAAGAAAGGAAAGAAAAA
1 AAGAAAGAAAGAAAGGAAAGAAAAA
7670869 AAGAAAGAAAGAA
1 AAGAAAGAAAGAA
7670882 GGAGAAAAGT
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
23 1 0.02
24 13 0.26
25 32 0.64
26 4 0.08
ACGTcount: A:0.70, C:0.02, G:0.26, T:0.01
Consensus pattern (25 bp):
AAGAAAGAAAGAAAGGAAAGAAAAA
Found at i:7670889 original size:21 final size:21
Alignment explanation
Indices: 7670828--7670879 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
7670818 AAAGAAGGAG
* * * *
7670828 AGAAAGAAACGAAACAGAGAA
1 AGAAAGAAAGGAAAGAAAAAA
7670849 AGAAAGAAAGGAAAGAAAAAA
1 AGAAAGAAAGGAAAGAAAAAA
7670870 AGAAAGAAAG
1 AGAAAGAAAG
7670880 AAGGAGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.71, C:0.04, G:0.25, T:0.00
Consensus pattern (21 bp):
AGAAAGAAAGGAAAGAAAAAA
Found at i:7671790 original size:41 final size:41
Alignment explanation
Indices: 7671739--7671852 Score: 123
Period size: 37 Copynumber: 2.9 Consensus size: 41
7671729 CTTCGAGTCA
*
7671739 ATGAGACACTGGGTGTCAATTTATTACTTCGGATTAA-TTCG
1 ATGAGACACTGGGTGTCAATTTATTACTTCGGATTAAGCT-G
* *
7671780 ATGACG-CACTGGGTGCCAATTTATT-C--C-GATTTAGCTG
1 ATGA-GACACTGGGTGTCAATTTATTACTTCGGATTAAGCTG
* *
7671817 ATGAGACACTGGGTTTCAATTTATTACTTCGAATTA
1 ATGAGACACTGGGTGTCAATTTATTACTTCGGATTA
7671853 TCTGATGTGG
Statistics
Matches: 59, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
36 1 0.02
37 27 0.46
38 3 0.05
40 2 0.03
41 25 0.42
42 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (41 bp):
ATGAGACACTGGGTGTCAATTTATTACTTCGGATTAAGCTG
Found at i:7672061 original size:21 final size:22
Alignment explanation
Indices: 7672036--7672078 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7672026 AGCTATTTGT
*
7672036 ATAGCAAGT-ATGAGATTTGAA
1 ATAGCAAGTGATGAGAATTGAA
7672057 ATAGCAAGTGATGAGAATTGAA
1 ATAGCAAGTGATGAGAATTGAA
7672079 TATGTTATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.44, C:0.05, G:0.26, T:0.26
Consensus pattern (22 bp):
ATAGCAAGTGATGAGAATTGAA
Found at i:7674558 original size:2 final size:2
Alignment explanation
Indices: 7674551--7674582 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7674541 ATGAGGCCAA
7674551 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7674583 TCAAGCTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7676009 original size:43 final size:43
Alignment explanation
Indices: 7675948--7676062 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
7675938 AATGCCAACA
* * *
7675948 TCCCAAACGTGGTCTTACATGTAATCACATA-CCGATACC-ACTG
1 TCCCAGACGTGGTCTTACACGTAAACACA-AGCCGATACCGAC-G
* *
7675991 TCCCAGACAG-GGTCTTACACGTAAACACAAGTCGATGCCGACG
1 TCCCAGAC-GTGGTCTTACACGTAAACACAAGCCGATACCGACG
**
7676034 TCCCAGACGTGGTCTTACACCAAAACACA
1 TCCCAGACGTGGTCTTACACGTAAACACA
7676063 TATCGGAGTC
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
42 2 0.03
43 56 0.92
44 3 0.05
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.20
Consensus pattern (43 bp):
TCCCAGACGTGGTCTTACACGTAAACACAAGCCGATACCGACG
Found at i:7683540 original size:43 final size:43
Alignment explanation
Indices: 7683473--7683601 Score: 163
Period size: 43 Copynumber: 3.0 Consensus size: 43
7683463 AGCTCGTACA
* * * * *
7683473 ATGCCAACGTCCCAAACGTAGTCTTACATGTAATCACATATCG
1 ATGCCGACGTCCCAGACGTGGTCTTACACGTAAACACATATCG
*
7683516 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAACACAGATCG
1 ATGCCGAC-GTCCCAGAC-GTGGTCTTACACGTAAACACATATCG
*
7683559 ATGCCGACGTCCCAGACGTGGTCTTACACGAAAACACATATCG
1 ATGCCGACGTCCCAGACGTGGTCTTACACGTAAACACATATCG
7683602 GAGTCATATG
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
42 3 0.04
43 69 0.92
44 3 0.04
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (43 bp):
ATGCCGACGTCCCAGACGTGGTCTTACACGTAAACACATATCG
Found at i:7689858 original size:23 final size:23
Alignment explanation
Indices: 7689831--7689876 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
7689821 ATTCATACTT
7689831 ATTTTCTGAAAT-TATAAATAAAC
1 ATTTT-TGAAATATATAAATAAAC
**
7689854 ATTTTTTTAATATATAAATAAAC
1 ATTTTTGAAATATATAAATAAAC
7689877 TCATAATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (23 bp):
ATTTTTGAAATATATAAATAAAC
Found at i:7694400 original size:18 final size:18
Alignment explanation
Indices: 7694374--7694409 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7694364 GGTGCTGGTA
*
7694374 GGGATTGTAATGAGGGTG
1 GGGAGTGTAATGAGGGTG
7694392 GGGAGTGTAATGAGGGTG
1 GGGAGTGTAATGAGGGTG
7694410 AAGGTGTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.53, T:0.25
Consensus pattern (18 bp):
GGGAGTGTAATGAGGGTG
Found at i:7701323 original size:18 final size:18
Alignment explanation
Indices: 7701248--7701343 Score: 58
Period size: 20 Copynumber: 5.2 Consensus size: 18
7701238 AATAAATGAC
*
7701248 TTTATATAATTTTTAT-AT
1 TTTAT-TAATATTTATAAT
*
7701266 TTTA-TAAT-TTTACAA-
1 TTTATTAATATTTATAAT
*
7701281 TTTATTAAAATTTACTATAAAT
1 TTTATTAATA-TT--TAT-AAT
7701303 TTTA-TAATATTTATAAGT
1 TTTATTAATATTTATAA-T
*
7701321 TTTAATTAATTTTTATAAT
1 TTT-ATTAATATTTATAAT
7701340 TTTA
1 TTTA
7701344 CATAAAATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 22
0.70 0.06 0.25
Matches are distributed among these distances:
15 8 0.13
16 8 0.13
17 2 0.03
18 14 0.23
19 5 0.08
20 15 0.24
21 6 0.10
22 4 0.06
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.58
Consensus pattern (18 bp):
TTTATTAATATTTATAAT
Found at i:7701324 original size:9 final size:8
Alignment explanation
Indices: 7701252--7701343 Score: 60
Period size: 8 Copynumber: 10.2 Consensus size: 8
7701242 AATGACTTTA
7701252 TATAATTT
1 TATAATTT
7701260 T-TATATTT
1 TATA-ATTT
7701268 TATAATTT
1 TATAATTT
*
7701276 TACAATTTAT
1 TATAA-TT-T
*
7701286 TAAAATTT
1 TATAATTT
7701294 ACTATAAATTT
1 --TAT-AATTT
7701305 TATAATATT
1 TATAAT-TT
7701314 TATAAGTTT
1 TATAA-TTT
7701323 TAATTAATTTT
1 T-A-TAA-TTT
7701334 TATAATTT
1 TATAATTT
7701342 TA
1 TA
7701344 CATAAAATTT
Statistics
Matches: 69, Mismatches: 4, Indels: 22
0.73 0.04 0.23
Matches are distributed among these distances:
7 2 0.03
8 23 0.33
9 22 0.32
10 10 0.14
11 12 0.17
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.58
Consensus pattern (8 bp):
TATAATTT
Found at i:7701354 original size:20 final size:20
Alignment explanation
Indices: 7701281--7701355 Score: 57
Period size: 20 Copynumber: 3.8 Consensus size: 20
7701271 AATTTTACAA
* *
7701281 TTTATTAAAATTTACTATAAAT
1 TTTAATAAAATTT--TATAAGT
*
7701303 TTT-ATAATA-TTTATAAGT
1 TTTAATAAAATTTTATAAGT
* *
7701321 TTTAATTAATTTTTATAA-T
1 TTTAATAAAATTTTATAAGT
7701340 TTTACATAAAATTTTA
1 TTTA-ATAAAATTTTA
7701356 AACATGTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
18 9 0.21
19 8 0.19
20 18 0.43
21 4 0.10
22 3 0.07
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (20 bp):
TTTAATAAAATTTTATAAGT
Found at i:7701496 original size:9 final size:9
Alignment explanation
Indices: 7701464--7701578 Score: 58
Period size: 9 Copynumber: 12.2 Consensus size: 9
7701454 AGTTCATATA
7701464 AATTTTTACT
1 AATTTTTA-T
7701474 -ATTTTTAGT
1 AATTTTTA-T
*
7701483 CATTTTTAT
1 AATTTTTAT
*
7701492 AATTTTCAT
1 AATTTTTAT
7701501 --TTTTTAAT
1 AATTTTT-AT
**
7701509 AAACTTTAT
1 AATTTTTAT
*
7701518 AAGTTTATAT
1 AA-TTTTTAT
* *
7701528 AACATTTTAA
1 AA-TTTTTAT
7701538 AATTTTTAAT
1 AATTTTT-AT
7701548 ATATATTTTA-
1 A-AT-TTTTAT
7701558 AATTTTTTAT
1 AA-TTTTTAT
7701568 AATTTTTAT
1 AATTTTTAT
7701577 AA
1 AA
7701579 GAAAAATAAA
Statistics
Matches: 80, Mismatches: 15, Indels: 21
0.69 0.13 0.18
Matches are distributed among these distances:
7 4 0.05
8 2 0.03
9 39 0.49
10 28 0.35
11 3 0.04
12 4 0.05
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (9 bp):
AATTTTTAT
Found at i:7701545 original size:21 final size:22
Alignment explanation
Indices: 7701521--7701568 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
7701511 ACTTTATAAG
7701521 TTTATATA-ACATTTTAAAATT
1 TTTATATATACATTTTAAAATT
* *
7701542 TTTA-ATATATATTTTAAATTT
1 TTTATATATACATTTTAAAATT
7701563 TTTATA
1 TTTATA
7701569 ATTTTTATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 3 0.13
21 19 0.83
22 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTATATATACATTTTAAAATT
Found at i:7705651 original size:21 final size:21
Alignment explanation
Indices: 7705611--7705651 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7705601 AACCTTCACA
* *
7705611 AAGTAAGTTTTTATTTTTATG
1 AAGTAAGTTTTTACTATTATG
*
7705632 AAGTAATTTTTTACTATTAT
1 AAGTAAGTTTTTACTATTAT
7705652 TTTCGCATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.56
Consensus pattern (21 bp):
AAGTAAGTTTTTACTATTATG
Found at i:7709959 original size:3 final size:3
Alignment explanation
Indices: 7709951--7709991 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
7709941 TAATTATCAC
7709951 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
7709992 ATAAAAAGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:7712833 original size:3 final size:3
Alignment explanation
Indices: 7712827--7712856 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
7712817 TTGGAAGCTT
7712827 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7712857 ATGTTTGCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7713756 original size:2 final size:2
Alignment explanation
Indices: 7713749--7713786 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
7713739 ATTGGGTTGG
7713749 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7713787 GAACTGATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7714165 original size:16 final size:17
Alignment explanation
Indices: 7714134--7714166 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7714124 GTAAATGAAC
7714134 TTTTTCGGACTGTTTAA
1 TTTTTCGGACTGTTTAA
*
7714151 TTTTTGGGACT-TTTAA
1 TTTTTCGGACTGTTTAA
7714167 ATCTCCGTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.18, C:0.09, G:0.18, T:0.55
Consensus pattern (17 bp):
TTTTTCGGACTGTTTAA
Found at i:7716411 original size:27 final size:27
Alignment explanation
Indices: 7716352--7716411 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
7716342 AACCCACCTT
* * *
7716352 TAGTGCAG-TTTCATTCTTTCAATACC
1 TAGTACAGTTTTCATTCATTCAATACA
*
7716378 TAGTACAGTTTTCGTTCATTCAATACA
1 TAGTACAGTTTTCATTCATTCAATACA
*
7716405 TATTACA
1 TAGTACA
7716412 TTAAATTCAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (27 bp):
TAGTACAGTTTTCATTCATTCAATACA
Found at i:7720924 original size:26 final size:26
Alignment explanation
Indices: 7720885--7720976 Score: 78
Period size: 26 Copynumber: 3.5 Consensus size: 26
7720875 ATACAAAAGA
* * *
7720885 ATTCTTTTATTACTCAATACATTTTC
1 ATTCTTTCAATACTCAGTACATTTTC
** * *
7720911 ATTCTTTCAATACTTGGTGCAGTTTC
1 ATTCTTTCAATACTCAGTACATTTTC
7720937 ATTCTTTCAATAC-CTAGTACAGTTTTC
1 ATTCTTTCAATACTC-AGTACA-TTTTC
* *
7720964 GTTCATTCAATAC
1 ATTCTTTCAATAC
7720977 ATATTACATT
Statistics
Matches: 51, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
26 36 0.71
27 15 0.29
ACGTcount: A:0.25, C:0.21, G:0.08, T:0.47
Consensus pattern (26 bp):
ATTCTTTCAATACTCAGTACATTTTC
Found at i:7720972 original size:27 final size:27
Alignment explanation
Indices: 7720902--7720976 Score: 91
Period size: 26 Copynumber: 2.9 Consensus size: 27
7720892 TATTACTCAA
* *
7720902 TACA-TTTTCATTCTTTCAATACTTGG
1 TACAGTTTTCATTCTTTCAATACCTAG
*
7720928 TGCAG-TTTCATTCTTTCAATACCTAG
1 TACAGTTTTCATTCTTTCAATACCTAG
* *
7720954 TACAGTTTTCGTTCATTCAATAC
1 TACAGTTTTCATTCTTTCAATAC
7720977 ATATTACATT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
26 26 0.63
27 15 0.37
ACGTcount: A:0.24, C:0.21, G:0.09, T:0.45
Consensus pattern (27 bp):
TACAGTTTTCATTCTTTCAATACCTAG
Found at i:7723786 original size:16 final size:18
Alignment explanation
Indices: 7723748--7723787 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
7723738 ATATGTTTAG
*
7723748 ATAATTATTATTAAAATC
1 ATAATTAATATTAAAATC
7723766 A-AATTAATA-TAAAAT-
1 ATAATTAATATTAAAATC
7723781 ATAATTA
1 ATAATTA
7723788 TAATTAATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
15 1 0.05
16 11 0.55
17 7 0.35
18 1 0.05
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAATTAATATTAAAATC
Found at i:7726366 original size:2 final size:2
Alignment explanation
Indices: 7726359--7726397 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
7726349 AGAAGTAGCT
7726359 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7726398 AAGAGGCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7726616 original size:2 final size:2
Alignment explanation
Indices: 7726609--7726638 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7726599 ATGTGATGTC
7726609 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
7726639 TTCTTTACCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:7731617 original size:14 final size:15
Alignment explanation
Indices: 7731593--7731627 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
7731583 TATATATATT
7731593 ACCATATAAATACTA
1 ACCATATAAATACTA
7731608 ACCATA-AAATACTA
1 ACCATATAAATACTA
7731622 ATCCAT
1 A-CCAT
7731628 GATTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:7732351 original size:41 final size:41
Alignment explanation
Indices: 7732306--7732449 Score: 146
Period size: 41 Copynumber: 3.5 Consensus size: 41
7732296 TTGTATAAAA
* *
7732306 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCG-ATTCATTT
1 CACCGGCATAAAGCCTGCTAGACACAAAGCCCGAATT-AATT
* * * *
7732347 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGAATTAATT
1 CACCGGCATAAAGCCTGCTAGACACAAAGCCCGAATTAATT
* * * ** *
7732388 CACCGGCATCAAGCCTGCTAGACATAAAGTCTAAAATAATT
1 CACCGGCATAAAGCCTGCTAGACACAAAGCCCGAATTAATT
* *
7732429 CATCGGCATCAAGCCTGCTAG
1 CACCGGCATAAAGCCTGCTAG
7732450 GCATTAAGCC
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
41 88 0.97
42 3 0.03
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (41 bp):
CACCGGCATAAAGCCTGCTAGACACAAAGCCCGAATTAATT
Found at i:7732697 original size:64 final size:64
Alignment explanation
Indices: 7732579--7732823 Score: 367
Period size: 64 Copynumber: 3.9 Consensus size: 64
7732569 GCAAACAAAC
* *
7732579 ATTCGAACCACATATG--TAT-AATTTACA-ACATTAAAATTCAGCTCAAAGAA-TTTGTAACCT
1 ATTCGAACCACATATGTATATAAAATT-CATACATT-AAATACAGCTC-AAGAACTTTGTAACCT
7732639 AT
63 AT
*
7732641 ATTCGAACCACATATGTA-AGTAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
1 ATTCGAACCACATATGTATA-TAAAATTCATACATTAAATACAGCTCAAGAACTTTGTAACCTAT
*
7732705 ATTTGAACCACATATGTATATAAAATTCATACATTAAATACAGCTCAAGAACTTTGTAACCTAT
1 ATTCGAACCACATATGTATATAAAATTCATACATTAAATACAGCTCAAGAACTTTGTAACCTAT
*
7732769 ATTTGAACCACATATGTATATAAAATTCATACATTAAATACAGCTCAAGAACTTT
1 ATTCGAACCACATATGTATATAAAATTCATACATTAAATACAGCTCAAGAACTTT
7732824 AAATATATAT
Statistics
Matches: 173, Mismatches: 3, Indels: 12
0.92 0.02 0.06
Matches are distributed among these distances:
62 16 0.09
63 6 0.03
64 141 0.82
65 10 0.06
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (64 bp):
ATTCGAACCACATATGTATATAAAATTCATACATTAAATACAGCTCAAGAACTTTGTAACCTAT
Found at i:7736051 original size:12 final size:13
Alignment explanation
Indices: 7736029--7736053 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7736019 TTTTCTTTGT
7736029 GCTATTTTTTTTC
1 GCTATTTTTTTTC
7736042 GCTATTTTTTTT
1 GCTATTTTTTTT
7736054 GTTGTTCTTT
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:0.08, C:0.12, G:0.08, T:0.72
Consensus pattern (13 bp):
GCTATTTTTTTTC
Found at i:7745745 original size:10 final size:10
Alignment explanation
Indices: 7745730--7745765 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
7745720 AAAGTGCTCT
7745730 TTTATTATAA
1 TTTATTATAA
7745740 TTTATTATAA
1 TTTATTATAA
7745750 TTT-TTAT-A
1 TTTATTATAA
7745758 TTTATTAT
1 TTTATTAT
7745766 TTATTTGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 4 0.16
9 8 0.32
10 13 0.52
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTATTATAA
Found at i:7745899 original size:24 final size:23
Alignment explanation
Indices: 7745867--7745917 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
7745857 TATATATATA
7745867 TATTTAAAAACTGTTTTA-TATGT
1 TATTTAAAAACTGTTTTATTAT-T
*
7745890 TATTTAAAAACTTTTTTATTATT
1 TATTTAAAAACTGTTTTATTATT
7745913 TATTT
1 TATTT
7745918 TGAATTGTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 23 0.88
24 3 0.12
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (23 bp):
TATTTAAAAACTGTTTTATTATT
Found at i:7750702 original size:25 final size:25
Alignment explanation
Indices: 7750648--7750714 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 25
7750638 TTGTTTTTTG
*
7750648 ATATATTTTGGTAAATAAAAAATAT
1 ATATATTTTGGTAAATAAAAAAAAT
7750673 ATATATTTTGGTAAATAAAAAAAAGTT
1 ATATATTTTGGTAAATAAAAAAAA--T
*
7750700 ATAACATTTTGGTAA
1 AT-ATATTTTGGTAA
7750715 TTTTTTATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
25 23 0.62
27 3 0.08
28 11 0.30
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.39
Consensus pattern (25 bp):
ATATATTTTGGTAAATAAAAAAAAT
Found at i:7755349 original size:18 final size:18
Alignment explanation
Indices: 7755326--7755370 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
7755316 ATCCCAATGA
*
7755326 TCGCCACCACCTTCTTCT
1 TCGCCACCACATTCTTCT
*
7755344 TCGCCAGCACATTCTTCT
1 TCGCCACCACATTCTTCT
*
7755362 TCACCACCA
1 TCGCCACCA
7755371 ACCATGTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.18, C:0.47, G:0.07, T:0.29
Consensus pattern (18 bp):
TCGCCACCACATTCTTCT
Found at i:7755974 original size:15 final size:12
Alignment explanation
Indices: 7755937--7755967 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
7755927 AAAAAATTTT
*
7755937 ATACTCAAAATA
1 ATACACAAAATA
7755949 ATACACAAAATA
1 ATACACAAAATA
7755961 ATACACA
1 ATACACA
7755968 CTAAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.61, C:0.19, G:0.00, T:0.19
Consensus pattern (12 bp):
ATACACAAAATA
Found at i:7756099 original size:3 final size:3
Alignment explanation
Indices: 7756091--7756140 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
7756081 TCTTAATACT
7756091 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
7756139 AA
1 AA
7756141 TAATAGTAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:7756145 original size:3 final size:3
Alignment explanation
Indices: 7756139--7756212 Score: 121
Period size: 3 Copynumber: 24.3 Consensus size: 3
7756129 CAACAACAAC
*
7756139 AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
7756187 AAT AAT AAT AAT AAT ACT AACT AAT A
1 AAT AAT AAT AAT AAT AAT AA-T AAT A
7756213 CTATTATTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
3 63 0.95
4 3 0.05
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7756282 original size:19 final size:21
Alignment explanation
Indices: 7756258--7756296 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
7756248 ACTAAAACAA
*
7756258 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
7756277 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
7756297 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:7756361 original size:10 final size:11
Alignment explanation
Indices: 7756321--7756360 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
7756311 AAAAAAATAC
7756321 CTTCTTTTTCT
1 CTTCTTTTTCT
*
7756332 CCTCTTTTTCT
1 CTTCTTTTTCT
7756343 C-TCTTTTTCT
1 CTTCTTTTTCT
7756353 CTTCTTTT
1 CTTCTTTT
7756361 CCGCAGTAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 10 0.37
11 17 0.63
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (11 bp):
CTTCTTTTTCT
Found at i:7756472 original size:27 final size:27
Alignment explanation
Indices: 7756434--7756535 Score: 141
Period size: 27 Copynumber: 3.8 Consensus size: 27
7756424 AATACGAGTA
*
7756434 GTGCTGCCAATGGCATTGGCACCATTG
1 GTGCCGCCAATGGCATTGGCACCATTG
7756461 GTGCCGCCAATGGCATTGGCACCATTG
1 GTGCCGCCAATGGCATTGGCACCATTG
** *
7756488 GTGCCGCCAATGGTTTTGGCACCTTTG
1 GTGCCGCCAATGGCATTGGCACCATTG
* **
7756515 GTGCCGCTAATCCCATTGGCA
1 GTGCCGCCAATGGCATTGGCA
7756536 TGACCAGTGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.26
Consensus pattern (27 bp):
GTGCCGCCAATGGCATTGGCACCATTG
Found at i:7756631 original size:27 final size:28
Alignment explanation
Indices: 7756595--7756662 Score: 104
Period size: 27 Copynumber: 2.5 Consensus size: 28
7756585 ATTTTTTTTG
7756595 ATATATTTTGGTAAAT-AAAAAAATTAT
1 ATATATTTTGGTAAATAAAAAAAATTAT
*
7756622 ATATTTTTTGGTAAATAAAAAAAATTAT
1 ATATATTTTGGTAAATAAAAAAAATTAT
*
7756650 A-ACATTTTGGTAA
1 ATATATTTTGGTAA
7756663 TTTTTTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 25 0.68
28 12 0.32
ACGTcount: A:0.49, C:0.01, G:0.09, T:0.41
Consensus pattern (28 bp):
ATATATTTTGGTAAATAAAAAAAATTAT
Found at i:7759864 original size:16 final size:18
Alignment explanation
Indices: 7759833--7759865 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7759823 TATTTTTAAA
7759833 ATTATAAAATATAAAATC
1 ATTATAAAATATAAAATC
7759851 ATTA-AAAATA-AAAAT
1 ATTATAAAATATAAAAT
7759866 TCAAAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (18 bp):
ATTATAAAATATAAAATC
Found at i:7760068 original size:19 final size:21
Alignment explanation
Indices: 7760044--7760083 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
7760034 AAAATTGTTT
7760044 TTATATATAT-ATT-TTAAAA
1 TTATATATATAATTATTAAAA
7760063 TTATATATATAATTATTAAAA
1 TTATATATATAATTATTAAAA
7760084 ATACACTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 3 0.16
21 6 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTATATATATAATTATTAAAA
Found at i:7761200 original size:16 final size:18
Alignment explanation
Indices: 7761164--7761203 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
7761154 GAAACATTTA
*
7761164 TTTTAATGTTTTTAGTAT
1 TTTTAATGTTATTAGTAT
7761182 TTTTAATG-TATTA-TAT
1 TTTTAATGTTATTAGTAT
7761198 TTTTAA
1 TTTTAA
7761204 AAGAAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.43
17 4 0.19
18 8 0.38
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (18 bp):
TTTTAATGTTATTAGTAT
Found at i:7768048 original size:17 final size:16
Alignment explanation
Indices: 7768026--7768064 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
7768016 AAAAATGAAC
7768026 TTTTAAATATTTTTAGT
1 TTTTAAATATTTTTA-T
*
7768043 TTTTAAATTTTTTTAT
1 TTTTAAATATTTTTAT
7768059 TTTTAA
1 TTTTAA
7768065 TTTTTAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTTAAATATTTTTAT
Found at i:7768054 original size:16 final size:15
Alignment explanation
Indices: 7768026--7768069 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 15
7768016 AAAAATGAAC
7768026 TTTTAAATATTTTTAGT
1 TTTTAAAT-TTTTTA-T
7768043 TTTTAAATTTTTTTAT
1 TTTTAAA-TTTTTTAT
7768059 TTTT-AATTTTT
1 TTTTAAATTTTT
7768070 AAGAAGTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 2 0.08
16 5 0.19
17 13 0.50
18 1 0.04
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTTAAATTTTTTAT
Found at i:7775652 original size:6 final size:6
Alignment explanation
Indices: 7775641--7775669 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
7775631 ATATATTTAA
7775641 AATTAT AATTAT AATTAT AATTAT -ATTAT
1 AATTAT AATTAT AATTAT AATTAT AATTAT
7775670 TCATTGCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
AATTAT
Found at i:7777467 original size:29 final size:30
Alignment explanation
Indices: 7777433--7777507 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 30
7777423 ACACTCGTTC
7777433 CTATTTTAGTCAC-CCATTTAGAAAAATTGT
1 CTATTTTAGTCACTCCA-TTAGAAAAATTGT
* *
7777463 -TATTTTAGTCACTTCCATTAGATAAGTTGT
1 CTATTTTAGTCAC-TCCATTAGAAAAATTGT
*
7777493 CAATTTTAGTCACTC
1 CTATTTTAGTCACTC
7777508 TACTGTTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
29 12 0.31
30 13 0.33
31 14 0.36
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (30 bp):
CTATTTTAGTCACTCCATTAGAAAAATTGT
Found at i:7779121 original size:16 final size:16
Alignment explanation
Indices: 7779100--7779133 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
7779090 AATAAATTAC
7779100 TAAAAAT-TTATAAAAA
1 TAAAAATATT-TAAAAA
7779116 TAAAAATATTTAAAAA
1 TAAAAATATTTAAAAA
7779132 TA
1 TA
7779134 GAGAAAACTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
TAAAAATATTTAAAAA
Found at i:7780970 original size:75 final size:75
Alignment explanation
Indices: 7780870--7781129 Score: 276
Period size: 75 Copynumber: 3.5 Consensus size: 75
7780860 TCACCCAGCA
* * * * * * *
7780870 CTAGTTAGAT-AACAGACAATTATAATGATGTGCCCAACACTAGTCACATAAACTGATGAAAGTT
1 CTAGTCAGATAAACCGACAAATATAATGGTGTGCCCTACACTAGTCAGATAAACTGACGAAAGTT
* * *
7780934 ATGCCTAGTG
66 ACGCCAAGCG
* *
7780944 CTAGTCAGATAAACCGACAAATATAATGGTGTGCCCTGCACTAGTCAGATAAATTGACGAAAGTT
1 CTAGTCAGATAAACCGACAAATATAATGGTGTGCCCTACACTAGTCAGATAAACTGACGAAAGTT
*
7781009 GCGCCAAGCG
66 ACGCCAAGCG
* *
7781019 CTAGTC-GAATAAACCGACAAATATAATGGTGTGCCCTACACTAGCCAGATAAACTAACG-AAGA
1 CTAGTCAG-ATAAACCGACAAATATAATGGTGTGCCCTACACTAGTCAGATAAACTGACGAAAG-
* *
7781082 TTGA-GCCCAGCA
64 TT-ACGCCAAGCG
* * *
7781094 CTAGTCGGATAAACCGACAGATATAGAGGGTGTGCC
1 CTAGTCAGATAAACCGACAAATATA-ATGGTGTGCC
7781130 TAGCACTGGT
Statistics
Matches: 158, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
74 13 0.08
75 135 0.85
76 10 0.06
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (75 bp):
CTAGTCAGATAAACCGACAAATATAATGGTGTGCCCTACACTAGTCAGATAAACTGACGAAAGTT
ACGCCAAGCG
Found at i:7785423 original size:16 final size:16
Alignment explanation
Indices: 7785402--7785456 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
7785392 ATAAAAGTTT
7785402 GAGGGAAAGTAAATAG
1 GAGGGAAAGTAAATAG
*
7785418 GAGGG--AGTATAATTTTG
1 GAGGGAAAGTA-AA--TAG
7785435 GAGGGAAAGTAAATAG
1 GAGGGAAAGTAAATAG
7785451 GAGGGA
1 GAGGGA
7785457 GTATAATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 4 0.12
15 2 0.06
16 13 0.41
17 7 0.22
18 2 0.06
19 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.40, T:0.18
Consensus pattern (16 bp):
GAGGGAAAGTAAATAG
Found at i:7785439 original size:17 final size:17
Alignment explanation
Indices: 7785417--7785473 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
7785407 AAAGTAAATA
7785417 GGAGGGAGTATAATTTT
1 GGAGGGAGTATAATTTT
*
7785434 GGAGGGAAAGTA-AA--TA
1 GGAGGG--AGTATAATTTT
7785450 GGAGGGAGTATAATTTT
1 GGAGGGAGTATAATTTT
7785467 GGAGGGA
1 GGAGGGA
7785474 AAATATTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 4 0.12
15 2 0.06
16 7 0.21
17 14 0.42
18 2 0.06
19 4 0.12
ACGTcount: A:0.35, C:0.00, G:0.40, T:0.25
Consensus pattern (17 bp):
GGAGGGAGTATAATTTT
Found at i:7785440 original size:33 final size:33
Alignment explanation
Indices: 7785402--7785475 Score: 148
Period size: 33 Copynumber: 2.2 Consensus size: 33
7785392 ATAAAAGTTT
7785402 GAGGGAAAGTAAATAGGAGGGAGTATAATTTTG
1 GAGGGAAAGTAAATAGGAGGGAGTATAATTTTG
7785435 GAGGGAAAGTAAATAGGAGGGAGTATAATTTTG
1 GAGGGAAAGTAAATAGGAGGGAGTATAATTTTG
7785468 GAGGGAAA
1 GAGGGAAA
7785476 ATATTAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.41, C:0.00, G:0.38, T:0.22
Consensus pattern (33 bp):
GAGGGAAAGTAAATAGGAGGGAGTATAATTTTG
Found at i:7785814 original size:9 final size:9
Alignment explanation
Indices: 7785800--7785836 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
7785790 TATAGTTAGA
7785800 TATTCGAAT
1 TATTCGAAT
7785809 TATTCGAAT
1 TATTCGAAT
*
7785818 TATTCGAGT
1 TATTCGAAT
7785827 TATTCGAAT
1 TATTCGAAT
7785836 T
1 T
7785837 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:7785906 original size:9 final size:9
Alignment explanation
Indices: 7785889--7785919 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7785879 TTGAGTTGAT
7785889 TCGAATAAC
1 TCGAATAAC
*
7785898 TCGATTAAC
1 TCGAATAAC
7785907 TCGAATAAC
1 TCGAATAAC
7785916 TCGA
1 TCGA
7785920 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:7789583 original size:15 final size:13
Alignment explanation
Indices: 7789545--7789599 Score: 56
Period size: 13 Copynumber: 4.0 Consensus size: 13
7789535 GAACTTTGTA
*
7789545 TGTGCGAACCCCTA
1 TGTGCGAA-CCCTT
*
7789559 AGTGCGAACCCTACT
1 TGTGCGAACCCT--T
*
7789574 TGTGCAAACCCTT
1 TGTGCGAACCCTT
7789587 TGTGCGAACCCTT
1 TGTGCGAACCCTT
7789600 AGGTGTGAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
13 17 0.50
14 7 0.21
15 10 0.29
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.25
Consensus pattern (13 bp):
TGTGCGAACCCTT
Found at i:7789626 original size:42 final size:41
Alignment explanation
Indices: 7789545--7789628 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 41
7789535 GAACTTTGTA
7789545 TGTGCGAACCCCTAAGTGCGAACCCTACTTGTGCAAACCCTT
1 TGTGCGAACCCCTAAGTGCGAACCCTACTTGTG-AAACCCTT
* * * *
7789587 TGTGCGAACCCTTAGGTGTGAACCCTACCTATGTGAACCCCT
1 TGTGCGAACCCCTAAGTGCGAACCCTA-CT-TGTGAAACCCT
7789629 GAGTGTGCGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 24 0.67
43 8 0.22
44 4 0.11
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.25
Consensus pattern (41 bp):
TGTGCGAACCCCTAAGTGCGAACCCTACTTGTGAAACCCTT
Found at i:7797292 original size:14 final size:15
Alignment explanation
Indices: 7797275--7797307 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
7797265 ATGTTTTTCA
7797275 AAAAATGATTT-CTG
1 AAAAATGATTTACTG
7797289 AAAAATGATTTACTG
1 AAAAATGATTTACTG
7797304 AAAA
1 AAAA
7797308 TATTTTCTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.30
Consensus pattern (15 bp):
AAAAATGATTTACTG
Found at i:7799886 original size:4 final size:4
Alignment explanation
Indices: 7799877--7799901 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
7799867 AAAGAGAAGA
7799877 AGAT AGAT AGAT AGAT AGAT AGAT A
1 AGAT AGAT AGAT AGAT AGAT AGAT A
7799902 ACAAAAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
AGAT
Found at i:7807115 original size:21 final size:21
Alignment explanation
Indices: 7807077--7807116 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7807067 CTGAATATGC
**
7807077 GAACAGAAGCTCGTAAGAGCT
1 GAACAGAAGCTCAAAAGAGCT
7807098 GAACAGAAGCTCAAAAGAG
1 GAACAGAAGCTCAAAAGAG
7807117 TTGATCTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.17, G:0.28, T:0.10
Consensus pattern (21 bp):
GAACAGAAGCTCAAAAGAGCT
Found at i:7809670 original size:2 final size:2
Alignment explanation
Indices: 7809663--7809699 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
7809653 CAACAATAGA
7809663 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7809700 ATACCAATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7814110 original size:123 final size:131
Alignment explanation
Indices: 7813943--7814208 Score: 386
Period size: 134 Copynumber: 2.1 Consensus size: 131
7813933 ATTTATGACT
* *
7813943 AATTTGAGTAACACATCAACATCGTGACGT-AAAAA-AAC-TA-ATATATATATATAT-T-ATAA
1 AATTTGAGTAACACATCAACATCGTCACCTAAAAAATAACATATATATATATATATATATAATAA
7814002 GCTATAT-TACTAAGCAAAGAAACATTCCAACATGAAATCC-TATATTTATGACAAATAGACATC
66 GCTATATATACTAAGCAAAGAAACATTCCAACATGAAATCCTTATATTTATGACAAATAGACATC
7814065 C
131 C
*
7814066 AATTTGAGTAACACATCAACATCGTCACCTAAGAAAATTAATATATATATATATATATATATAAT
1 AATTTGAGTAACACATCAACATCGTCACCTAA-AAAA-TAACATATATATATATATATATATAAT
** * *
7814131 AAGCTATATACTACTAATTAAAGAAACATTCCAACATGACATCCTTATATTTATGGCAAATAGAC
64 AAGCTATATA-TACTAAGCAAAGAAACATTCCAACATGAAATCCTTATATTTATGACAAATAGAC
7814196 ATCC
128 ATCC
7814200 AATTTGAGT
1 AATTTGAGT
7814209 GACGTAAGAA
Statistics
Matches: 125, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
123 28 0.22
124 1 0.01
125 4 0.03
127 2 0.02
128 2 0.02
129 14 0.11
130 1 0.01
131 11 0.09
133 30 0.24
134 32 0.26
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.30
Consensus pattern (131 bp):
AATTTGAGTAACACATCAACATCGTCACCTAAAAAATAACATATATATATATATATATATAATAA
GCTATATATACTAAGCAAAGAAACATTCCAACATGAAATCCTTATATTTATGACAAATAGACATC
C
Found at i:7817855 original size:27 final size:27
Alignment explanation
Indices: 7817816--7817870 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
7817806 ATTACCATTC
7817816 ATAATAACCGAGTACGAAATCGAACTA
1 ATAATAACCGAGTACGAAATCGAACTA
**
7817843 ATAATAATTGAGTACGAAATCGAACTA
1 ATAATAACCGAGTACGAAATCGAACTA
7817870 A
1 A
7817871 CACAATGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.22
Consensus pattern (27 bp):
ATAATAACCGAGTACGAAATCGAACTA
Found at i:7821438 original size:3 final size:3
Alignment explanation
Indices: 7821430--7821506 Score: 97
Period size: 3 Copynumber: 26.3 Consensus size: 3
7821420 TTACACTGTT
* * *
7821430 TTA TTA TTA TTA TTTA TTA -TG TTA -TA CTA TT- CTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7821473 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
7821507 AATATAACGT
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
2 4 0.06
3 58 0.89
4 3 0.05
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:7823379 original size:30 final size:31
Alignment explanation
Indices: 7823340--7823404 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
7823330 ATTCCTTTAA
*
7823340 ATGTGTACATTT-AAATCAAACTAAAGTTTC
1 ATGTATACATTTAAAATCAAACTAAAGTTTC
* * *
7823370 ATGTATACATTTAAAATGAAATTAAAGTTTT
1 ATGTATACATTTAAAATCAAACTAAAGTTTC
7823401 ATGT
1 ATGT
7823405 GTATAACTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 11 0.37
31 19 0.63
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.40
Consensus pattern (31 bp):
ATGTATACATTTAAAATCAAACTAAAGTTTC
Found at i:7824316 original size:30 final size:31
Alignment explanation
Indices: 7824277--7824336 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
7824267 GGAGGTGGGA
7824277 TGGGAAGGGAATAAAAATTTTAGGAGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGAGAAAAG
* * *
7824308 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGAGAAAA
7824337 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.37, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGAGAAAAG
Found at i:7824564 original size:9 final size:9
Alignment explanation
Indices: 7824550--7824586 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
7824540 TATAGTTTGA
7824550 TATTCGAAT
1 TATTCGAAT
7824559 TATTCGAAT
1 TATTCGAAT
*
7824568 TATTCGAGT
1 TATTCGAAT
7824577 TATTCGAAT
1 TATTCGAAT
7824586 T
1 T
7824587 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:7836948 original size:14 final size:14
Alignment explanation
Indices: 7836929--7836964 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
7836919 TATTCAGTAA
7836929 TATTATTAATCTAT
1 TATTATTAATCTAT
*
7836943 TATTATTAATTTAT
1 TATTATTAATCTAT
7836957 TATTATTA
1 TATTATTA
7836965 TCACCGCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTATTAATCTAT
Found at i:7850168 original size:36 final size:38
Alignment explanation
Indices: 7850126--7850204 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 38
7850116 GAGGATTAAA
7850126 ATTCTGCAACAGTCA-A-GATTTTCCTCAACCAAAAAT
1 ATTCTGCAACAGTCAGAGGATTTTCCTCAACCAAAAAT
*
7850162 ATTCTGCAACAGTCAGAGGATTTTCCTCAACCGAAAAT
1 ATTCTGCAACAGTCAGAGGATTTTCCTCAACCAAAAAT
7850200 ATTCT
1 ATTCT
7850205 AGAAAACAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
36 15 0.38
37 1 0.03
38 24 0.60
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.29
Consensus pattern (38 bp):
ATTCTGCAACAGTCAGAGGATTTTCCTCAACCAAAAAT
Found at i:7852232 original size:36 final size:37
Alignment explanation
Indices: 7852147--7852234 Score: 97
Period size: 36 Copynumber: 2.4 Consensus size: 37
7852137 CTGGCCTCTG
* *
7852147 CTAGATTATGTCATGCAAGCGAATATGACAGACCTCC
1 CTAGATTATGCCATGCAAGCGAATATGACAGACCTAC
* * * * * *
7852184 CTGGATTGTGCCATGTAGGC-AATCTGGCAGACCTAC
1 CTAGATTATGCCATGCAAGCGAATATGACAGACCTAC
7852220 CTAGATTATGCCATG
1 CTAGATTATGCCATG
7852235 GCCATGGACT
Statistics
Matches: 41, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
36 26 0.63
37 15 0.37
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (37 bp):
CTAGATTATGCCATGCAAGCGAATATGACAGACCTAC
Found at i:7852319 original size:22 final size:22
Alignment explanation
Indices: 7852288--7852336 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
7852278 CCGCAAAATC
* *
7852288 TCATATTACCTTTAAAGGGCTT
1 TCATACTACCTGTAAAGGGCTT
7852310 TCATACTACCTGTAAAGGGCTT
1 TCATACTACCTGTAAAGGGCTT
7852332 TCATA
1 TCATA
7852337 TCCATAAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (22 bp):
TCATACTACCTGTAAAGGGCTT
Found at i:7855120 original size:19 final size:20
Alignment explanation
Indices: 7855104--7855144 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
7855094 AAAAAATTTC
*
7855104 AAAATAATTTTAAAATTTTA
1 AAAATAATATTAAAATTTTA
7855124 AAAATAATATT--AATTTTA
1 AAAATAATATTAAAATTTTA
7855142 AAA
1 AAA
7855145 CTCAATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
20 10 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAATAATATTAAAATTTTA
Found at i:7856353 original size:115 final size:116
Alignment explanation
Indices: 7856189--7856540 Score: 561
Period size: 115 Copynumber: 3.1 Consensus size: 116
7856179 CACATTCAGA
* * * *
7856189 AAACTTCAAATAAAAAAGTATGATAATCTAAACCAGAACCAATCTGGATATGAAAATATTAAATC
1 AAACTTCAAATAAAAAATTATGATAATCTAAACCAGACCCAGTCCGGATATGAAAATATTAAATC
* * *
7856254 CCAAAAATTCTAAACACGGAAGCGCCTAAGCATAACAAATCCAAATCCAAG
66 CCAAAAATTCTAAACACGAAAGCACCTAAGCTTAACAAATCCAAATCCAAG
*
7856305 AAACTTCAAAT-AAATATTATGATAA-CTTAAACCAGACCCAGTCCGGATATG-AAATAATTAAA
1 AAACTTCAAATAAAAAATTATGATAATC-TAAACCAGACCCAGTCCGGATATGAAAAT-ATTAAA
7856367 TCCCAAAAATTCTAAACACGAAAGCACCTAAGCTTAACAAATCCAAATCCAAG
64 TCCCAAAAATTCTAAACACGAAAGCACCTAAGCTTAACAAATCCAAATCCAAG
*
7856420 AAACTTCAAATAAAAAATT-TGATAATCTAAACCAGACCCAGT-CGGATATGAAAAAATTAAATC
1 AAACTTCAAATAAAAAATTATGATAATCTAAACCAGACCCAGTCCGGATATGAAAATATTAAATC
*
7856483 CCAAAAATTCTAAACACGAAAGCACCTAAGCTTAACAAATCCAAATCCAAT
66 CCAAAAATTCTAAACACGAAAGCACCTAAGCTTAACAAATCCAAATCCAAG
7856534 AAACTTC
1 AAACTTC
7856541 CAGAATCAAT
Statistics
Matches: 220, Mismatches: 11, Indels: 12
0.91 0.05 0.05
Matches are distributed among these distances:
114 78 0.35
115 124 0.56
116 18 0.08
ACGTcount: A:0.49, C:0.21, G:0.09, T:0.21
Consensus pattern (116 bp):
AAACTTCAAATAAAAAATTATGATAATCTAAACCAGACCCAGTCCGGATATGAAAATATTAAATC
CCAAAAATTCTAAACACGAAAGCACCTAAGCTTAACAAATCCAAATCCAAG
Found at i:7857618 original size:23 final size:20
Alignment explanation
Indices: 7857587--7857640 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 20
7857577 CTTTTAAGGC
7857587 TTTCTTTTATCTTTCATTTTTCCT
1 TTTC-TTTATCTTT--TTTTT-CT
7857611 TTTCTTTAT-TTTTTTTTCT
1 TTTCTTTATCTTTTTTTTCT
7857630 TTT-TTT-TCTTT
1 TTTCTTTATCTTT
7857641 AATATTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 1 0.03
18 6 0.21
19 5 0.17
20 5 0.17
22 3 0.10
23 5 0.17
24 4 0.14
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTCTTTATCTTTTTTTTCT
Found at i:7857648 original size:23 final size:24
Alignment explanation
Indices: 7857610--7857654 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
7857600 TCATTTTTCC
* *
7857610 TTTTCTTT-ATTTTTTTTTCTTTT
1 TTTTCTTTAATATTTTTATCTTTT
7857633 TTTTCTTTAATATTTTTATCTT
1 TTTTCTTTAATATTTTTATCTT
7857655 ATTAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTTCTTTAATATTTTTATCTTTT
Found at i:7860685 original size:22 final size:22
Alignment explanation
Indices: 7860641--7860703 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
7860631 TGTTTCCTTG
* *
7860641 TATAATTACATAATGA-TA-TA
1 TATAATTACATATTTATTATTA
*
7860661 TATAAATTATATATTT-TTATTA
1 TAT-AATTACATATTTATTATTA
7860683 TATAATTACATATTTATTATT
1 TATAATTACATATTTATTATT
7860704 TTATTTATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 3 0.09
21 22 0.63
22 10 0.29
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (22 bp):
TATAATTACATATTTATTATTA
Found at i:7860952 original size:19 final size:19
Alignment explanation
Indices: 7860919--7860958 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
7860909 ACTAAAAATA
* *
7860919 TAATATATTTTATAAGTAT
1 TAATATATATAATAAGTAT
*
7860938 TAATATATATAATAATTAT
1 TAATATATATAATAAGTAT
7860957 TA
1 TA
7860959 TATTATAGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (19 bp):
TAATATATATAATAAGTAT
Found at i:7862629 original size:13 final size:13
Alignment explanation
Indices: 7862611--7862649 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
7862601 GAGCCCACCC
7862611 ATATTAATTTTTT
1 ATATTAATTTTTT
*
7862624 ATATTATTATTTTT
1 ATATTAAT-TTTTT
7862638 ATA-TAATTTTTT
1 ATATTAATTTTTT
7862650 TAAAATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 5 0.22
13 10 0.43
14 8 0.35
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATATTAATTTTTT
Found at i:7862638 original size:14 final size:13
Alignment explanation
Indices: 7862618--7862651 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
7862608 CCCATATTAA
*
7862618 TTTTTTATATTAT
1 TTTTTTATATAAT
7862631 TATTTTTATATAAT
1 T-TTTTTATATAAT
7862645 TTTTTTA
1 TTTTTTA
7862652 AAATATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTTATATAAT
Found at i:7863327 original size:24 final size:24
Alignment explanation
Indices: 7863300--7863356 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
7863290 AAACCTAATT
7863300 CTAATCAAA-GTCAAATATATTATG
1 CTAAT-AAATGTCAAATATATTATG
* *
7863324 CTAATAAATGTTAAATATATTATA
1 CTAATAAATGTCAAATATATTATG
*
7863348 CTCATAAAT
1 CTAATAAAT
7863357 ACTAAATCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 3 0.10
24 26 0.90
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (24 bp):
CTAATAAATGTCAAATATATTATG
Found at i:7863362 original size:24 final size:24
Alignment explanation
Indices: 7863312--7863363 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
7863302 AATCAAAGTC
* **
7863312 AAATATATTATGCTAATAAATGTT
1 AAATATATTATACTAATAAATACT
*
7863336 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
7863360 AAAT
1 AAAT
7863364 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:7866093 original size:24 final size:24
Alignment explanation
Indices: 7866044--7866095 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
7866034 AATCAAAGTC
* **
7866044 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAACACT
*
7866068 AAATATATTATACTTATAAACACT
1 AAATATATTATACTAATAAACACT
7866092 AAAT
1 AAAT
7866096 CTTCGAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAACACT
Found at i:7868609 original size:19 final size:19
Alignment explanation
Indices: 7868585--7868621 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
7868575 TTGAAATTTC
*
7868585 TCCAATTTTCGATTTCAAG
1 TCCAATTTTCGAGTTCAAG
7868604 TCCAATTTTCGAGTTCAA
1 TCCAATTTTCGAGTTCAA
7868622 TTACCAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.41
Consensus pattern (19 bp):
TCCAATTTTCGAGTTCAAG
Found at i:7870225 original size:67 final size:67
Alignment explanation
Indices: 7870108--7870368 Score: 285
Period size: 67 Copynumber: 3.9 Consensus size: 67
7870098 GACTATCCCG
* * * * *
7870108 TGTTT-ACTGTCCTGGCAGACTACACTAGTTGCCAAATCTGAGCTATGGTCTTACACCGTAATCC
1 TGTTTAAC-GTCCTGGTAGACTACACTGGTTGCCATAGCTGAGCTATGGTCTTACACCTTAATCC
7870172 CCA
65 CCA
* ** * * **
7870175 TATTTAATATCCTGGTAGACTACACTGGTTGTCATAGCTGAGTTGGGGTCTTACACCTTAATCCT
1 TGTTTAACGTCCTGGTAGACTACACTGGTTGCCATAGCTGAGCTATGGTCTTACACCTTAATCC-
*
7870240 CAA
65 CCA
** * * *
7870243 TGTTTAGGGTCCTAGTAGACTACACTGGTTGCCATAGCCGAGCTATGG-CTTACCCCTTAATCCC
1 TGTTTAACGTCCTGGTAGACTACACTGGTTGCCATAGCTGAGCTATGGTCTTACACCTTAATCCC
7870307 CA
66 CA
* * *
7870309 TGTTTAACGTCCTGGTAGACTGCACTGATTGTCATAG-TCGAGCTATGGTCTTACACCTTA
1 TGTTTAACGTCCTGGTAGACTACACTGGTTGCCATAGCT-GAGCTATGGTCTTACACCTTA
7870369 TAACCTCTTT
Statistics
Matches: 157, Mismatches: 33, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
66 42 0.27
67 74 0.47
68 41 0.26
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (67 bp):
TGTTTAACGTCCTGGTAGACTACACTGGTTGCCATAGCTGAGCTATGGTCTTACACCTTAATCCC
CA
Found at i:7870359 original size:134 final size:135
Alignment explanation
Indices: 7870124--7870368 Score: 341
Period size: 134 Copynumber: 1.8 Consensus size: 135
7870114 CTGTCCTGGC
* * *
7870124 AGACTACACTAGTTGCCAAATCTGAGCTATGGTCTTACACCGTAATCCCCATATTTAATATCCTG
1 AGACTACACTAGTTGCCAAAGCCGAGCTATGGTCTTACACCGTAATCCCCATATTTAACATCCTG
* * *
7870189 GTAGACTACACTGGTTGTCATAGCTGAGTTGGGGTCTTACACCTTAATCCTCAATGTTTAGGGTC
66 GTAGACTACACTGATTGTCATAGCTGAGCTAGGGTCTTACACCTTAATCCTCAATGTTTAGGGTC
7870254 CTAGT
131 CTAGT
* * * * * *
7870259 AGACTACACTGGTTGCCATAGCCGAGCTATGG-CTTACCCCTTAATCCCCATGTTTAACGTCCTG
1 AGACTACACTAGTTGCCAAAGCCGAGCTATGGTCTTACACCGTAATCCCCATATTTAACATCCTG
* *
7870323 GTAGACTGCACTGATTGTCATAG-TCGAGCTATGGTCTTACACCTTA
66 GTAGACTACACTGATTGTCATAGCT-GAGCTAGGGTCTTACACCTTA
7870369 TAACCTCTTT
Statistics
Matches: 95, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
133 1 0.01
134 66 0.69
135 28 0.29
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (135 bp):
AGACTACACTAGTTGCCAAAGCCGAGCTATGGTCTTACACCGTAATCCCCATATTTAACATCCTG
GTAGACTACACTGATTGTCATAGCTGAGCTAGGGTCTTACACCTTAATCCTCAATGTTTAGGGTC
CTAGT
Found at i:7876082 original size:21 final size:21
Alignment explanation
Indices: 7876058--7876101 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
7876048 AAAAAAAAGA
7876058 TTAAAAAATCTTTATTCTAGG
1 TTAAAAAATCTTTATTCTAGG
*
7876079 TTAAAAAATCTTTATTCTGGG
1 TTAAAAAATCTTTATTCTAGG
7876100 TT
1 TT
7876102 TTCGTTGAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.45
Consensus pattern (21 bp):
TTAAAAAATCTTTATTCTAGG
Found at i:7876923 original size:10 final size:10
Alignment explanation
Indices: 7876910--7876955 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
7876900 GAAAAGAATG
7876910 GAAAATAAAA
1 GAAAATAAAA
*
7876920 GAAAAAAAAA
1 GAAAATAAAA
7876930 GAAAATTAAAA
1 GAAAA-TAAAA
*
7876941 GAACATAAAA
1 GAAAATAAAA
7876951 GAAAA
1 GAAAA
7876956 GAATTAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
10 23 0.74
11 8 0.26
ACGTcount: A:0.78, C:0.02, G:0.11, T:0.09
Consensus pattern (10 bp):
GAAAATAAAA
Found at i:7876939 original size:21 final size:20
Alignment explanation
Indices: 7876910--7876955 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
7876900 GAAAAGAATG
7876910 GAAAATAAAAGAAAAAAAAA
1 GAAAATAAAAGAAAAAAAAA
* *
7876930 GAAAATTAAAAGAACATAAAA
1 GAAAA-TAAAAGAAAAAAAAA
7876951 GAAAA
1 GAAAA
7876956 GAATTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.78, C:0.02, G:0.11, T:0.09
Consensus pattern (20 bp):
GAAAATAAAAGAAAAAAAAA
Found at i:7877670 original size:3 final size:3
Alignment explanation
Indices: 7877664--7877720 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
7877654 ATTGAAAACT
7877664 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7877712 TTA TTA TTA
1 TTA TTA TTA
7877721 AGGTAAACTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7879565 original size:26 final size:26
Alignment explanation
Indices: 7879524--7879662 Score: 170
Period size: 26 Copynumber: 5.3 Consensus size: 26
7879514 TATTTTCTTG
* *
7879524 AAATTTTACCAAGGGTAAAATCGTCA
1 AAATTTTACCAGGGGTAAAATTGTCA
*** * *
7879550 AAATTTTATTGGGGGTAAAATCGTGA
1 AAATTTTACCAGGGGTAAAATTGTCA
*
7879576 AAATTTTACCAGGGGTAAAATTATCA
1 AAATTTTACCAGGGGTAAAATTGTCA
* *
7879602 AAATTTTACTAGTGGTAAAATTGTCA
1 AAATTTTACCAGGGGTAAAATTGTCA
*
7879628 GAATTTTACCAGGGGTAAAATTGTCA
1 AAATTTTACCAGGGGTAAAATTGTCA
*
7879654 AAAATTTAC
1 AAATTTTAC
7879663 TAAAGGTAAG
Statistics
Matches: 94, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 94 1.00
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (26 bp):
AAATTTTACCAGGGGTAAAATTGTCA
Found at i:7879603 original size:52 final size:52
Alignment explanation
Indices: 7879524--7879664 Score: 192
Period size: 52 Copynumber: 2.7 Consensus size: 52
7879514 TATTTTCTTG
* * * * *
7879524 AAATTTTACCAAGGGTAAAATCGTCAAAATTTTATTGGGGGTAAAATCGTGA
1 AAATTTTACCAGGGGTAAAATTGTCAAAATTTTACTAGGGGTAAAATCGTCA
* * *
7879576 AAATTTTACCAGGGGTAAAATTATCAAAATTTTACTAGTGGTAAAATTGTCA
1 AAATTTTACCAGGGGTAAAATTGTCAAAATTTTACTAGGGGTAAAATCGTCA
* *
7879628 GAATTTTACCAGGGGTAAAATTGTCAAAAATTTACTA
1 AAATTTTACCAGGGGTAAAATTGTCAAAATTTTACTA
7879665 AAGGTAAGAT
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 78 1.00
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.33
Consensus pattern (52 bp):
AAATTTTACCAGGGGTAAAATTGTCAAAATTTTACTAGGGGTAAAATCGTCA
Found at i:7888103 original size:49 final size:48
Alignment explanation
Indices: 7888040--7888135 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 48
7888030 ACATATGGAA
7888040 ATTCATAATCATGTATATATCAATACAAAACATATACACTCAAAATTT
1 ATTCATAATCATGTATATATCAATACAAAACATATACACTCAAAATTT
*
7888088 ATTCACTATTCATGTATATATCAATACAAAACATATACACTCAAAATT
1 ATTCA-TAATCATGTATATATCAATACAAAACATATACACTCAAAATT
7888136 GAATCACACG
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 5 0.11
49 41 0.89
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (48 bp):
ATTCATAATCATGTATATATCAATACAAAACATATACACTCAAAATTT
Found at i:7891504 original size:20 final size:20
Alignment explanation
Indices: 7891476--7891569 Score: 93
Period size: 20 Copynumber: 4.7 Consensus size: 20
7891466 AATGCTATAT
* *
7891476 AGAGGCACCGTAGTACAAAC
1 AGAGACACCGAAGTACAAAC
*
7891496 AGAGACACCGAAGTGA-AATC
1 AGAGACACCGAAGT-ACAAAC
*
7891516 AGAGACACCGAAGTGCAAAC
1 AGAGACACCGAAGTACAAAC
* * *
7891536 AGAGAAACCAAAGTGA-AATC
1 AGAGACACCGAAGT-ACAAAC
7891556 AGAGACACCGAAGT
1 AGAGACACCGAAGT
7891570 GCAATCTCAT
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
20 59 0.98
21 1 0.02
ACGTcount: A:0.46, C:0.21, G:0.24, T:0.09
Consensus pattern (20 bp):
AGAGACACCGAAGTACAAAC
Found at i:7891535 original size:40 final size:40
Alignment explanation
Indices: 7891476--7891573 Score: 151
Period size: 40 Copynumber: 2.5 Consensus size: 40
7891466 AATGCTATAT
* * * * *
7891476 AGAGGCACCGTAGTACAAACAGAGACACCGAAGTGAAATC
1 AGAGACACCGAAGTGCAAACAGAGAAACCAAAGTGAAATC
7891516 AGAGACACCGAAGTGCAAACAGAGAAACCAAAGTGAAATC
1 AGAGACACCGAAGTGCAAACAGAGAAACCAAAGTGAAATC
7891556 AGAGACACCGAAGTGCAA
1 AGAGACACCGAAGTGCAA
7891574 TCTCATACAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.46, C:0.21, G:0.24, T:0.08
Consensus pattern (40 bp):
AGAGACACCGAAGTGCAAACAGAGAAACCAAAGTGAAATC
Found at i:7891570 original size:20 final size:20
Alignment explanation
Indices: 7891495--7891575 Score: 119
Period size: 20 Copynumber: 4.0 Consensus size: 20
7891485 GTAGTACAAA
7891495 CAGAGACACCGAAGTGAAAT
1 CAGAGACACCGAAGTGAAAT
7891515 CAGAGACACCGAAGTGCAAA-
1 CAGAGACACCGAAGTG-AAAT
* *
7891535 CAGAGAAACCAAAGTGAAAT
1 CAGAGACACCGAAGTGAAAT
*
7891555 CAGAGACACCGAAGTGCAAT
1 CAGAGACACCGAAGTGAAAT
7891575 C
1 C
7891576 TCATACAAGT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
19 3 0.06
20 48 0.89
21 3 0.06
ACGTcount: A:0.46, C:0.22, G:0.23, T:0.09
Consensus pattern (20 bp):
CAGAGACACCGAAGTGAAAT
Found at i:7893387 original size:30 final size:31
Alignment explanation
Indices: 7893351--7893414 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
7893341 TATATATATA
*
7893351 TTTATTTTTA-TTTTTTAATTTTAAAATACT
1 TTTATTTTTATTTTTTTAATTTTAAAATAAT
*
7893381 TTTATTTTTATTTTTTTATTTTTAAAATAAT
1 TTTATTTTTATTTTTTTAATTTTAAAATAAT
7893412 TTT
1 TTT
7893415 TTAATGTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 10 0.32
31 21 0.68
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (31 bp):
TTTATTTTTATTTTTTTAATTTTAAAATAAT
Found at i:7899202 original size:17 final size:17
Alignment explanation
Indices: 7899167--7899206 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
7899157 TTGATTTATT
*
7899167 ATTTTTTTAAATTACTA
1 ATTTTTTTAAAATACTA
7899184 ATTTATTTTAAAATA-TA
1 ATTT-TTTTAAAATACTA
7899201 ATTTTT
1 ATTTTT
7899207 AAAAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 2 0.10
17 10 0.48
18 9 0.43
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTTTTAAAATACTA
Found at i:7905299 original size:27 final size:24
Alignment explanation
Indices: 7905241--7905301 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 24
7905231 AATACAGTAT
*
7905241 TTAA-AATAATTTAATATAAAACA
1 TTAATAATAATTTAATATAAAAAA
7905264 TTAAT--TAATTTAATATAAAATAA
1 TTAATAATAATTTAATATAAAA-AA
7905287 TTATATTAATAATTT
1 TTA-A-TAATAATTT
7905302 TATTAAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
22 15 0.48
23 8 0.26
24 1 0.03
25 1 0.03
27 6 0.19
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
TTAATAATAATTTAATATAAAAAA
Found at i:7905607 original size:23 final size:23
Alignment explanation
Indices: 7905579--7905630 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 23
7905569 CAATTTAATT
7905579 AAATAA-ATTATTAAAAATATATA
1 AAATAATATTATTAAAAATAT-TA
*
7905602 AAATAAATATTATTTAAAATATTA
1 AAAT-AATATTATTAAAAATATTA
7905626 AAATA
1 AAATA
7905631 TTAAAAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 5 0.19
24 8 0.31
25 13 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
AAATAATATTATTAAAAATATTA
Found at i:7905625 original size:34 final size:34
Alignment explanation
Indices: 7905582--7905646 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
7905572 TTTAATTAAA
*
7905582 TAAATTATTAAAA-ATATATAAAATA-AATATTATT
1 TAAAATATTAAAATAT-TA-AAAATAGAATATTATT
7905616 TAAAATATTAAAATATTAAAAATAGAATATT
1 TAAAATATTAAAATATTAAAAATAGAATATT
7905647 TTAGTTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 6 0.21
34 20 0.71
35 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (34 bp):
TAAAATATTAAAATATTAAAAATAGAATATTATT
Found at i:7910927 original size:7 final size:7
Alignment explanation
Indices: 7910890--7910926 Score: 65
Period size: 7 Copynumber: 5.1 Consensus size: 7
7910880 ATCTTTTATC
7910890 TTTAATT
1 TTTAATT
7910897 TTTAATT
1 TTTAATT
7910904 TTTAATT
1 TTTAATT
7910911 TTTAATT
1 TTTAATT
7910918 TTATAATT
1 TT-TAATT
7910926 T
1 T
7910927 AAAAATATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 23 0.79
8 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTAATT
Found at i:7911318 original size:117 final size:117
Alignment explanation
Indices: 7911181--7911407 Score: 314
Period size: 117 Copynumber: 1.9 Consensus size: 117
7911171 ACTAGAATTT
* * * * *
7911181 CTATCACACGCGTATATGTGTGGAAACCA-AAGATTTAGAATATAAATATGT-GTTTAACAATAA
1 CTATCACACCCATATATGTGTGGAAACCACAA-ATTTAGAACACAAATATGTACTTTAA-AATAA
* *
7911244 CATACAATAAACAATGAAATGTATGGTTTGAAACTAATTAATCATAAAGAAATC
64 CATACAATAAACAATGAAACGTATGGTTTGAAACTAATTAATAATAAAGAAATC
* * * *
7911298 CTATCACACCCATATGTGTGTGGAAACCACAAATTTAGAACACAAATGTTTACTTTAAAATCACA
1 CTATCACACCCATATATGTGTGGAAACCACAAATTTAGAACACAAATATGTACTTTAAAATAACA
*
7911363 TACAATAAATAATGAAACGTATGGTTTGAAACTAATTAATAATAA
66 TACAATAAACAATGAAACGTATGGTTTGAAACTAATTAATAATAA
7911408 TGATGAAATA
Statistics
Matches: 96, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
117 89 0.93
118 7 0.07
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (117 bp):
CTATCACACCCATATATGTGTGGAAACCACAAATTTAGAACACAAATATGTACTTTAAAATAACA
TACAATAAACAATGAAACGTATGGTTTGAAACTAATTAATAATAAAGAAATC
Found at i:7913472 original size:22 final size:23
Alignment explanation
Indices: 7913438--7913480 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
7913428 AAAAAAAAAA
*
7913438 AATGTATAAATACATATACGTAT
1 AATGTATAAATACATAAACGTAT
7913461 AATGTA-AAATACATAAACGT
1 AATGTATAAATACATAAACGT
7913481 TAAAACAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.30
Consensus pattern (23 bp):
AATGTATAAATACATAAACGTAT
Found at i:7913882 original size:3 final size:3
Alignment explanation
Indices: 7913874--7913907 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
7913864 AGTAATTCCT
7913874 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
7913908 CATATAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:7916679 original size:23 final size:24
Alignment explanation
Indices: 7916644--7916694 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 24
7916634 ATAATTTTTC
*
7916644 TTTTTTATT-TAT-TTA-TTTA-A
1 TTTTTCATTATATATTATTTTAGA
7916664 TTTTTCATTATATATTATTTTAGA
1 TTTTTCATTATATATTATTTTAGA
7916688 TTTTTCA
1 TTTTTCA
7916695 AAATTATCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 8 0.31
21 3 0.12
22 3 0.12
23 4 0.15
24 8 0.31
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (24 bp):
TTTTTCATTATATATTATTTTAGA
Found at i:7917409 original size:6 final size:6
Alignment explanation
Indices: 7917394--7917422 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
7917384 ACTTGATTTG
7917394 AAAAAT -AAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
7917423 CTGTAATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:7917653 original size:19 final size:18
Alignment explanation
Indices: 7917607--7917647 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
7917597 TAGAAATTCC
*
7917607 AAAATT-TATATTTTTAA
1 AAAATTATAAATTTTTAA
7917624 AAAATTATAAATTTTTAA
1 AAAATTATAAATTTTTAA
7917642 AAAATT
1 AAAATT
7917648 TCTAAAGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AAAATTATAAATTTTTAA
Found at i:7917691 original size:7 final size:8
Alignment explanation
Indices: 7917670--7917695 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
7917660 ATAAAGAAAG
7917670 TTAAAAAT
1 TTAAAAAT
7917678 TTAAAAAT
1 TTAAAAAT
7917686 TTAAAAAT
1 TTAAAAAT
7917694 TT
1 TT
7917696 TCTAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
TTAAAAAT
Found at i:7919845 original size:48 final size:48
Alignment explanation
Indices: 7919774--7919870 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
7919764 CAGGATGACG
7919774 TGTCTACAGATGTTAATACTTTTATTAACTACAACAAGGAATGGATTA
1 TGTCTACAGATGTTAATACTTTTATTAACTACAACAAGGAATGGATTA
7919822 TGTCTACAGATGTTAATACTTTTATTAACTACAACAAGGAATGGATTA
1 TGTCTACAGATGTTAATACTTTTATTAACTACAACAAGGAATGGATTA
7919870 T
1 T
7919871 TGATTCTAGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36
Consensus pattern (48 bp):
TGTCTACAGATGTTAATACTTTTATTAACTACAACAAGGAATGGATTA
Found at i:7923547 original size:10 final size:10
Alignment explanation
Indices: 7923532--7923561 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
7923522 ATGCAAAATT
7923532 AAGAAAGAAA
1 AAGAAAGAAA
*
7923542 AAGAAAGAGA
1 AAGAAAGAAA
7923552 AAGAAAGAAA
1 AAGAAAGAAA
7923562 TAGAGAAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (10 bp):
AAGAAAGAAA
Found at i:7923554 original size:16 final size:16
Alignment explanation
Indices: 7923533--7923576 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
7923523 TGCAAAATTA
7923533 AGAAAGAAA-AAGAAAG
1 AGAAAGAAAGAA-AAAG
*
7923549 AGAAAGAAAGAAATAG
1 AGAAAGAAAGAAAAAG
*
7923565 AGAAAGGAAGAA
1 AGAAAGAAAGAA
7923577 CACACACGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 23 0.92
17 2 0.08
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.02
Consensus pattern (16 bp):
AGAAAGAAAGAAAAAG
Found at i:7924052 original size:13 final size:13
Alignment explanation
Indices: 7924010--7924052 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
7924000 AAATATTCAA
7924010 TGTGAAATTGAAT
1 TGTGAAATTGAAT
* *
7924023 TGTGTATATTCAA-
1 TGTG-AAATTGAAT
7924036 TGTGAAATTGAAT
1 TGTGAAATTGAAT
7924049 TGTG
1 TGTG
7924053 TTGTATTGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
12 6 0.25
13 12 0.50
14 6 0.25
ACGTcount: A:0.33, C:0.02, G:0.23, T:0.42
Consensus pattern (13 bp):
TGTGAAATTGAAT
Found at i:7924064 original size:26 final size:26
Alignment explanation
Indices: 7924002--7924053 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
7923992 AAAAATTGAA
7924002 ATATTCAATGTGAAATTGAATTGTGT
1 ATATTCAATGTGAAATTGAATTGTGT
7924028 ATATTCAATGTGAAATTGAATTGTGT
1 ATATTCAATGTGAAATTGAATTGTGT
7924054 TGTATTGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.19, T:0.42
Consensus pattern (26 bp):
ATATTCAATGTGAAATTGAATTGTGT
Found at i:7926426 original size:18 final size:18
Alignment explanation
Indices: 7926403--7926437 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7926393 ACTTTGTTTT
*
7926403 TATTTTTTATTTTATTTG
1 TATTTTTTAATTTATTTG
7926421 TATTTTTTAATTTATTT
1 TATTTTTTAATTTATTT
7926438 AACTCTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (18 bp):
TATTTTTTAATTTATTTG
Found at i:7946061 original size:74 final size:74
Alignment explanation
Indices: 7945963--7946123 Score: 180
Period size: 74 Copynumber: 2.2 Consensus size: 74
7945953 TGGGATAGGT
* * * * * * *
7945963 AACCAGGCACTATTGTTTACGATTAACTCAGACGAGCAATTTATA-CTTATCGTGTAGGTTTTAC
1 AACCAGGCACTATTATTCACGATTAACTCAGACGAGAAAATGATATC-TATCATGTAGGTTTAAC
*
7946027 CCAATCGGGA
65 CCAAACGGGA
* * *
7946037 AACCAGGCACTATTATTCATGATTAGCTCAGATGAGAAAATGATATCTATCATGTAGGTTTAACC
1 AACCAGGCACTATTATTCACGATTAACTCAGACGAGAAAATGATATCTATCATGTAGGTTTAACC
* *
7946102 TAAACGGGT
66 CAAACGGGA
*
7946111 AACTAGGCACTAT
1 AACCAGGCACTAT
7946124 CATTTTCACT
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
74 71 0.99
75 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (74 bp):
AACCAGGCACTATTATTCACGATTAACTCAGACGAGAAAATGATATCTATCATGTAGGTTTAACC
CAAACGGGA
Found at i:7951406 original size:3 final size:3
Alignment explanation
Indices: 7951398--7951422 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7951388 CTCTTAGCTT
7951398 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
7951423 AGATTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:7958929 original size:332 final size:332
Alignment explanation
Indices: 7958323--7958939 Score: 977
Period size: 332 Copynumber: 1.9 Consensus size: 332
7958313 ATTGCCTGGA
*
7958323 CAAAAATAGTCTCAGCATCCTTGGGCATCACGTCAACTTTTGTCACGCCACACAATATCTATGGT
1 CAAAAATAGTCTCAGCATCCTTGGGCATCACGTCAACTTGTGTCACGCCACACAATATCTATGGT
* *
7958388 GCGACACAACATGTATTTTCTTCATTGTGTCATTCATTTTGTGCTTTGACGTCCTAGGAAGATTA
66 GCGACACAACATGTATTTTCTTCATTGTGTCATTCATTTCGTGCTTTGACATCCTAGGAAGATTA
** * * *
7958453 CATGTCACTCATTCCTTGCTTCCACATCAATTGGGTCTTTAATTTTTTATTCTACACACTCAATT
131 CACATCACTCATTCCTTGCTTCCACATCAATTGGCTCTTTAATTCTTTATCCTACACACTCAATT
* * *
7958518 AAACATATTAATACTACCAAAAGCTCGTGTCGGTATAATGGGTCACAACACTTATAAAATATGTT
196 AAACATATTAATACTACCAAAAGCTCATCTCGGCATAATGGGTCACAACACTTATAAAATATGTT
* *
7958583 AAAAATCACTTATTTTTCTAATATTTAATCATAAGGCCTAAATATCGAAAAATGTAATATAAAAT
261 AAAAAGCACTTATTTTACTAATATTTAATCATAAGGCCTAAATATCGAAAAATGTAATATAAAAT
7958648 GCAATAT
326 GCAATAT
* *
7958655 CAAAAATAGTCTTAGCATCCTTGGGCATCATGTCAACTTGTGTCACGCCACACAATATCTATGGT
1 CAAAAATAGTCTCAGCATCCTTGGGCATCACGTCAACTTGTGTCACGCCACACAATATCTATGGT
* *
7958720 GTGACACAACATGTATTTTCTTCCTTGTGTCATTCATTTCGTGCTTTGACATCCTAGGAA-ACTT
66 GCGACACAACATGTATTTTCTTCATTGTGTCATTCATTTCGTGCTTTGACATCCTAGGAAGA-TT
* * *
7958784 GCACATCACTCGTTCCTTGCTTCCACATCAATTAGGCT-TTTAATTCTTTATCCTATACACTCAA
130 ACACATCACTCATTCCTTGCTTCCACATCAATT-GGCTCTTTAATTCTTTATCCTACACACTCAA
* * * * *
7958848 TTAAACATATTAGTACTACCTAAGGCTCATCTCGGCCTAATGGGTCACAACACTTATAAAATGTG
194 TTAAACATATTAATACTACCAAAAGCTCATCTCGGCATAATGGGTCACAACACTTATAAAATATG
7958913 TTAAAAAGCACTTATTTTACTAATATT
259 TTAAAAAGCACTTATTTTACTAATATT
7958940 ATACACTTTT
Statistics
Matches: 258, Mismatches: 25, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
331 1 0.00
332 254 0.98
333 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (332 bp):
CAAAAATAGTCTCAGCATCCTTGGGCATCACGTCAACTTGTGTCACGCCACACAATATCTATGGT
GCGACACAACATGTATTTTCTTCATTGTGTCATTCATTTCGTGCTTTGACATCCTAGGAAGATTA
CACATCACTCATTCCTTGCTTCCACATCAATTGGCTCTTTAATTCTTTATCCTACACACTCAATT
AAACATATTAATACTACCAAAAGCTCATCTCGGCATAATGGGTCACAACACTTATAAAATATGTT
AAAAAGCACTTATTTTACTAATATTTAATCATAAGGCCTAAATATCGAAAAATGTAATATAAAAT
GCAATAT
Found at i:7963369 original size:44 final size:44
Alignment explanation
Indices: 7963306--7963394 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
7963296 AACTTCAGGG
* *
7963306 TAGTGGCTTCAATCTGCTCCACTACAAATTTAGGGAAATAAGAT
1 TAGTGACTTCAATCTGCTCCACTACAAATTTAAGGAAATAAGAT
* *
7963350 TAGTGACTTCAATCTGCTCCACTACAACTTTAAGGAGATAAGAT
1 TAGTGACTTCAATCTGCTCCACTACAAATTTAAGGAAATAAGAT
7963394 T
1 T
7963395 TGTCATAATG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (44 bp):
TAGTGACTTCAATCTGCTCCACTACAAATTTAAGGAAATAAGAT
Found at i:7963815 original size:5 final size:5
Alignment explanation
Indices: 7963805--7963836 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
7963795 CTTCCTTCTT
7963805 TTTTC TTTTC TTTT- TTTTC -TTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
7963837 TTTATTCTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 8 0.32
5 17 0.68
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTC
Done.