Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 141 of 198
Found at i:44871588 original size:100 final size:100
Alignment explanation
Indices: 44871397--44871754 Score: 555
Period size: 100 Copynumber: 3.6 Consensus size: 100
44871387 ATCATATAGC
*
44871397 CTTACTTCCTTGAGCA--ACAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGAT
1 CTTACTTCCTT-AGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGAT
44871460 ATTGTAATTAAAAAGATT-AAAGCCACAACGGCGGAT
65 ATTGTAATTAAAAAGATTGAAA-CCACAACGGCGGAT
* * **
44871496 CTTACTTCCTTAGCAGTGTAGTGGAACAGATTGAAGCTACGACGGCAGATCTAATTTCCCTGATA
1 CTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATA
44871561 TTGTAATTAAAAAGATTGAAACCACAACGGCGGAT
66 TTGTAATTAAAAAGATTGAAACCACAACGGCGGAT
*
44871596 CTTACTTCCTTAGCAGTGCAGTGGAACAAATTGAAGCTACGAC-GCGGATCTGGTTTCCCTGATA
1 CTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATA
* * *
44871660 TTGCAATTAAGAAGATTGAAGCCACAACGGCGGAT
66 TTGTAATTAAAAAGATTGAAACCACAACGGCGGAT
* *
44871695 CTTACTTACCTGA-CGGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCC
1 CTTACTT-CCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCC
44871755 CAACATTGCA
Statistics
Matches: 238, Mismatches: 16, Indels: 9
0.90 0.06 0.03
Matches are distributed among these distances:
98 4 0.02
99 96 0.40
100 135 0.57
101 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.26
Consensus pattern (100 bp):
CTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATA
TTGTAATTAAAAAGATTGAAACCACAACGGCGGAT
Found at i:44871765 original size:50 final size:50
Alignment explanation
Indices: 44871414--44871775 Score: 246
Period size: 50 Copynumber: 7.3 Consensus size: 50
44871404 CCTTGAGCAA
* *
44871414 CAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTG
1 CAGTGGAACAGATTGAAGCTACGACGGCGGATCTGATTTCCCTGACATTG
* * ** * * * * * * * *
44871464 TAATTAAAAAGATTAAAGCCACAACGGCGGATCTTACTT-CCTTAGCAGTG
1 CAGTGGAACAGATTGAAGCTACGACGGCGGATCTGATTTCCCTGA-CATTG
* * * *
44871514 TAGTGGAACAGATTGAAGCTACGACGGCAGATCTAATTTCCCTGATATTG
1 CAGTGGAACAGATTGAAGCTACGACGGCGGATCTGATTTCCCTGACATTG
* * ** * * * * * * * *
44871564 TAATTAAAAAGATTGAAACCACAACGGCGGATCTTACTT-CCTTAGCAGTG
1 CAGTGGAACAGATTGAAGCTACGACGGCGGATCTGATTTCCCTGA-CATTG
* * *
44871614 CAGTGGAACAAATTGAAGCTACGAC-GCGGATCTGGTTTCCCTGATATTG
1 CAGTGGAACAGATTGAAGCTACGACGGCGGATCTGATTTCCCTGACATTG
* * * * * * * * **
44871663 CAAT-TAAGAAGATTGAAGCCACAACGGCGGATCTTACTTACCTGACGGTG
1 CAGTGGAA-CAGATTGAAGCTACGACGGCGGATCTGATTTCCCTGACATTG
* **
44871713 CAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCCAACATTG
1 CAGTGGAACAGATTGAAGCTACGACGGCGGATCTGATTTCCCTGACATTG
*
44871763 CAGTTGAACAGAT
1 CAGTGGAACAGAT
44871776 CGAATATTAC
Statistics
Matches: 223, Mismatches: 82, Indels: 14
0.70 0.26 0.04
Matches are distributed among these distances:
48 2 0.01
49 37 0.17
50 178 0.80
51 6 0.03
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.25
Consensus pattern (50 bp):
CAGTGGAACAGATTGAAGCTACGACGGCGGATCTGATTTCCCTGACATTG
Found at i:44873539 original size:15 final size:15
Alignment explanation
Indices: 44873521--44873572 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
44873511 ATTTAATTAT
44873521 TTATT-TATTATTATA
1 TTATTATATTATT-TA
*
44873536 TTA-TATCATTATGTA
1 TTATTAT-ATTATTTA
*
44873551 TTATTATATTATTTT
1 TTATTATATTATTTA
44873566 TTATTAT
1 TTATTAT
44873573 TGTCATTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 1 0.03
15 22 0.71
16 8 0.26
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TTATTATATTATTTA
Found at i:44873557 original size:18 final size:18
Alignment explanation
Indices: 44873534--44873573 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
44873524 TTTATTATTA
44873534 TATTATATCATTATGTAT
1 TATTATATCATTATGTAT
* * *
44873552 TATTATATTATTTTTTAT
1 TATTATATCATTATGTAT
44873570 TATT
1 TATT
44873574 GTCATTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (18 bp):
TATTATATCATTATGTAT
Found at i:44873584 original size:18 final size:18
Alignment explanation
Indices: 44873516--44873584 Score: 66
Period size: 19 Copynumber: 3.4 Consensus size: 18
44873506 TTACTATTTA
44873516 ATTATTTATTTATTATTAT
1 ATTATTT-TTTATTATTAT
44873535 ATTATATCATTATGTATTATTAT
1 ATTAT-T--TT-T-TATTATTAT
*
44873558 ATTATTTTTTATTATTGT
1 ATTATTTTTTATTATTAT
44873576 CATTATTTT
1 -ATTATTTT
44873585 ATTTGTACAT
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
18 8 0.19
19 14 0.33
20 3 0.07
21 1 0.02
22 3 0.07
23 14 0.33
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (18 bp):
ATTATTTTTTATTATTAT
Found at i:44873669 original size:2 final size:2
Alignment explanation
Indices: 44873662--44873695 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
44873652 TGTCTTTACA
44873662 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
44873696 GCATTTTATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44878575 original size:6 final size:7
Alignment explanation
Indices: 44878541--44878572 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
44878531 TGCAAATCGC
44878541 TTTTTAT
1 TTTTTAT
44878548 TTTTTAT
1 TTTTTAT
44878555 TTTTTAT
1 TTTTTAT
44878562 TTTTTAT
1 TTTTTAT
44878569 TTTT
1 TTTT
44878573 ATTAATCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:44879015 original size:17 final size:19
Alignment explanation
Indices: 44878977--44879020 Score: 65
Period size: 17 Copynumber: 2.4 Consensus size: 19
44878967 GGGCCACAAA
44878977 GCCCAAAACCAAATTCAGTG
1 GCCC-AAACCAAATTCAGTG
44878997 GCCCAAACCAAA-T-AGTG
1 GCCCAAACCAAATTCAGTG
44879014 GCCCAAA
1 GCCCAAA
44879021 ATTGATCCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.46
18 1 0.04
19 8 0.33
20 4 0.17
ACGTcount: A:0.41, C:0.32, G:0.16, T:0.11
Consensus pattern (19 bp):
GCCCAAACCAAATTCAGTG
Found at i:44880429 original size:46 final size:46
Alignment explanation
Indices: 44880377--44880469 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
44880367 ATTTCCATGT
44880377 TATCGTAATATTTATTATTGCATGATATATTTAAAGTAGCATATCA
1 TATCGTAATATTTATTATTGCATGATATATTTAAAGTAGCATATCA
44880423 TATCGTAATATTTATTATTGCATGATATATTTAAAGTAGCATATCA
1 TATCGTAATATTTATTATTGCATGATATATTTAAAGTAGCATATCA
44880469 T
1 T
44880470 TGCATTTTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.44
Consensus pattern (46 bp):
TATCGTAATATTTATTATTGCATGATATATTTAAAGTAGCATATCA
Found at i:44894198 original size:63 final size:63
Alignment explanation
Indices: 44894099--44894224 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
44894089 AATCTGAACT
44894099 CTTCCTCATCCTTTCTACGATACCCTAGGTAAAGAAATGGTTAAGTGGTATCCTAAATGCTAA
1 CTTCCTCATCCTTTCTACGATACCCTAGGTAAAGAAATGGTTAAGTGGTATCCTAAATGCTAA
* *
44894162 CTTCCTCGTCCTTTCTATGATACCCTAGGTAAAGAAATGGTTAAGTGGTATCCTAAATGCTAA
1 CTTCCTCATCCTTTCTACGATACCCTAGGTAAAGAAATGGTTAAGTGGTATCCTAAATGCTAA
44894225 AAGGGTCAAC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (63 bp):
CTTCCTCATCCTTTCTACGATACCCTAGGTAAAGAAATGGTTAAGTGGTATCCTAAATGCTAA
Found at i:44895960 original size:17 final size:17
Alignment explanation
Indices: 44895933--44895966 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44895923 AAAAAATGTG
44895933 TCAATTAATT-ATAATT
1 TCAATTAATTAATAATT
44895949 TCAATCTAATTAATAATT
1 TCAAT-TAATTAATAATT
44895967 AATTCTTTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 5 0.31
18 6 0.38
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (17 bp):
TCAATTAATTAATAATT
Found at i:44896380 original size:19 final size:18
Alignment explanation
Indices: 44896341--44896380 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
44896331 TTAAAGTAGT
* *
44896341 ATTAGGTAAAAATGATTA
1 ATTAGGTAAAAAGGATAA
44896359 ATTAGGTAAAAAGGACTAA
1 ATTAGGTAAAAAGGA-TAA
44896378 ATT
1 ATT
44896381 GTAAAAGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.50, C:0.03, G:0.17, T:0.30
Consensus pattern (18 bp):
ATTAGGTAAAAAGGATAA
Found at i:44896489 original size:36 final size:36
Alignment explanation
Indices: 44896440--44896513 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
44896430 ATTGAAATGC
44896440 AAATTAATGTACTTAGATGGTATTTATACCATATGA
1 AAATTAATGTACTTAGATGGTATTTATACCATATGA
*
44896476 AAATTAATTTACTTAGATGGTATTTATACCATATGA
1 AAATTAATGTACTTAGATGGTATTTATACCATATGA
44896512 AA
1 AA
44896514 GGTTAATGGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (36 bp):
AAATTAATGTACTTAGATGGTATTTATACCATATGA
Found at i:44898586 original size:23 final size:23
Alignment explanation
Indices: 44898555--44898630 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
44898545 AGTGTTATTG
44898555 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * * *
44898578 TTCAGTGGTAGCTACGGCTCCGT
1 ATCAGTGGTAGCTTCGGCTACAT
44898601 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
44898624 ATCAGTG
1 ATCAGTG
44898631 TGGCACTTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:44903574 original size:21 final size:21
Alignment explanation
Indices: 44903545--44903587 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
44903535 TTGATGTTTC
44903545 AAGCATTTACAATTTTTTTATT
1 AAGCATTTACAA-TTTTTTATT
**
44903567 AAGC-TTTATTATTTTTTATT
1 AAGCATTTACAATTTTTTATT
44903587 A
1 A
44903588 TAGAAATACC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 10 0.53
21 5 0.26
22 4 0.21
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (21 bp):
AAGCATTTACAATTTTTTATT
Found at i:44904954 original size:8 final size:8
Alignment explanation
Indices: 44904941--44904965 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
44904931 TATGCCCATC
44904941 TACCAAGA
1 TACCAAGA
44904949 TACCAAGA
1 TACCAAGA
44904957 TACCAAGA
1 TACCAAGA
44904965 T
1 T
44904966 GCCCGTCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.24, G:0.12, T:0.16
Consensus pattern (8 bp):
TACCAAGA
Found at i:44905879 original size:30 final size:31
Alignment explanation
Indices: 44905831--44905890 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
44905821 AAACATTTTA
* * *
44905831 TTTTCCCCCACAATTTTTATTTCC-TCCCAC
1 TTTTCCCCCAAAACTTTTATTCCCTTCCCAC
*
44905861 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTATTCCCTTCCCA
44905891 TCCCACCTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.18, C:0.38, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTATTCCCTTCCCAC
Found at i:44909285 original size:16 final size:16
Alignment explanation
Indices: 44909266--44909311 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
44909256 TAAGATGGAA
*
44909266 AGGGAGTAAAAGTTTT
1 AGGGAGTAAAAATTTT
**
44909282 AGGG-G-AAAAATTGG
1 AGGGAGTAAAAATTTT
44909296 AGGGAGTAAAAATTTT
1 AGGGAGTAAAAATTTT
44909312 TGAGGAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
14 10 0.43
15 2 0.09
16 11 0.48
ACGTcount: A:0.41, C:0.00, G:0.33, T:0.26
Consensus pattern (16 bp):
AGGGAGTAAAAATTTT
Found at i:44909546 original size:9 final size:9
Alignment explanation
Indices: 44909532--44909568 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
44909522 TATAGTTTAA
44909532 TATTCGAAT
1 TATTCGAAT
44909541 TATTCGAAT
1 TATTCGAAT
*
44909550 TATTCGAGT
1 TATTCGAAT
44909559 TATTCGAAT
1 TATTCGAAT
44909568 T
1 T
44909569 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:44929517 original size:69 final size:69
Alignment explanation
Indices: 44929405--44929633 Score: 307
Period size: 69 Copynumber: 3.3 Consensus size: 69
44929395 GAGAGTTTTT
* * * * * * * *
44929405 CTCTCGTTAATTGTCTTGGAGGTTGCGGCTCTTCGTCTACGAACCTTAATATTATAGTTAGGAGC
1 CTCTCGCTAACTGTTTTGGAGGTTGCGACTCTTCGCCTGCGAACCTTAATATTATAGCTGGGAGC
44929470 TTTG
66 TTTG
*
44929474 CTCTCGCTAACTATTTTGGAGGTTGCGACTCTTCGCCTGCGAACCTTAATATTATAGCTGGGAGC
1 CTCTCGCTAACTGTTTTGGAGGTTGCGACTCTTCGCCTGCGAACCTTAATATTATAGCTGGGAGC
44929539 TTTG
66 TTTG
* * * * * *
44929543 CTCTCGCTAACTGCTTTGGAGGTTG-TAGCTCTTCGCCTGTGAACCTTAATGTTACAACTGGGAG
1 CTCTCGCTAACTGTTTTGGAGGTTGCGA-CTCTTCGCCTGCGAACCTTAATATTATAGCTGGGAG
44929607 CTTTG
65 CTTTG
44929612 CTCTCGCTAACTGTTTTGGAGG
1 CTCTCGCTAACTGTTTTGGAGG
44929634 GTTCGGGTAA
Statistics
Matches: 142, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
68 1 0.01
69 141 0.99
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (69 bp):
CTCTCGCTAACTGTTTTGGAGGTTGCGACTCTTCGCCTGCGAACCTTAATATTATAGCTGGGAGC
TTTG
Found at i:44930018 original size:20 final size:19
Alignment explanation
Indices: 44929973--44930018 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
44929963 TTACCTAAGC
*
44929973 CCGGCCAAACTCGGTCCGT
1 CCGGCCAAACCCGGTCCGT
44929992 CCTGGCCAAACCCGGTCCGT
1 CC-GGCCAAACCCGGTCCGT
44930012 GCCGGCC
1 -CCGGCC
44930019 CATGATCACC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 2 0.08
20 20 0.83
21 2 0.08
ACGTcount: A:0.13, C:0.46, G:0.28, T:0.13
Consensus pattern (19 bp):
CCGGCCAAACCCGGTCCGT
Found at i:44936245 original size:25 final size:25
Alignment explanation
Indices: 44936207--44936254 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
44936197 CAAGCGAGCC
44936207 ATATCAAGAAGCTCACAAAGAGCAT
1 ATATCAAGAAGCTCACAAAGAGCAT
* * *
44936232 ATATCAGGACGCTCATAAAGAGC
1 ATATCAAGAAGCTCACAAAGAGC
44936255 TACGGTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.17
Consensus pattern (25 bp):
ATATCAAGAAGCTCACAAAGAGCAT
Found at i:44936353 original size:64 final size:64
Alignment explanation
Indices: 44936229--44936357 Score: 154
Period size: 64 Copynumber: 2.0 Consensus size: 64
44936219 TCACAAAGAG
* * * * * * *
44936229 CATATATCAGGACGCTCATAAAGAGCTACGGTATATCCGTATTATATGTAGGATTCATACCGAT
1 CATATAACAGGACGCTCACAAAGAGCTACGATATATCCGTAATACATGCAGGAGTCATACCGAT
*
44936293 CATATAACAGGACGCTCACAAAGAGCTGCGATATGA-CCGTAATACATGCAGG-GTCAATACCGA
1 CATATAACAGGACGCTCACAAAGAGCTACGATAT-ATCCGTAATACATGCAGGAGTC-ATACCGA
44936356 T
64 T
44936357 C
1 C
44936358 GAGATACTCG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
63 2 0.04
64 52 0.95
65 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (64 bp):
CATATAACAGGACGCTCACAAAGAGCTACGATATATCCGTAATACATGCAGGAGTCATACCGAT
Found at i:44956770 original size:37 final size:38
Alignment explanation
Indices: 44956723--44956820 Score: 112
Period size: 37 Copynumber: 2.7 Consensus size: 38
44956713 CTACAAAAGA
*
44956723 AATATTAAATTAAATTTAATATTAAGAAAATCACT-TT
1 AATATTAAATTAAATTAAATATTAAGAAAATCACTATT
* * ** * *
44956760 AATATTAAATT-AATAAAATACTATTAAAATGATTATT
1 AATATTAAATTAAATTAAATATTAAGAAAATCACTATT
44956797 AA-ATTAAATTAAATTAAATATTAA
1 AATATTAAATTAAATTAAATATTAA
44956821 ATCTATTAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
36 24 0.49
37 25 0.51
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (38 bp):
AATATTAAATTAAATTAAATATTAAGAAAATCACTATT
Found at i:44956774 original size:11 final size:11
Alignment explanation
Indices: 44956758--44956822 Score: 57
Period size: 11 Copynumber: 6.1 Consensus size: 11
44956748 GAAAATCACT
44956758 TTAATATTAAA
1 TTAATATTAAA
44956769 TTAATA--AAA
1 TTAATATTAAA
*
44956778 -TACTATTAAAA
1 TTAATATT-AAA
* *
44956789 TGATTATTAAA
1 TTAATATTAAA
44956800 TTAA-ATTAAA
1 TTAATATTAAA
44956810 TTAAATATTAAA
1 TT-AATATTAAA
44956822 T
1 T
44956823 CTATTAAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
8 4 0.09
9 3 0.07
10 8 0.19
11 16 0.37
12 12 0.28
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:44956777 original size:25 final size:26
Alignment explanation
Indices: 44956738--44956786 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
44956728 TAAATTAAAT
44956738 TTAATATTAAGAAAATCACT-TTAATA
1 TTAATATTAAGAAAAT-ACTATTAATA
*
44956764 TTAA-ATTAATAAAATACTATTAA
1 TTAATATTAAGAAAATACTATTAA
44956787 AATGATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 14 0.67
26 4 0.19
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (26 bp):
TTAATATTAAGAAAATACTATTAATA
Found at i:44967232 original size:38 final size:38
Alignment explanation
Indices: 44967187--44967265 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
44967177 AGCACAAGGC
44967187 TCTAAAAACAGTCTCGACTCTTTCAGGTACATGCACAA
1 TCTAAAAACAGTCTCGACTCTTTCAGGTACATGCACAA
44967225 TCTAAAAACAGTCTCGACTCTTTCAGGTACATGCACAA
1 TCTAAAAACAGTCTCGACTCTTTCAGGTACATGCACAA
44967263 TCT
1 TCT
44967266 TTATTATAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.28
Consensus pattern (38 bp):
TCTAAAAACAGTCTCGACTCTTTCAGGTACATGCACAA
Found at i:44967821 original size:15 final size:15
Alignment explanation
Indices: 44967798--44967866 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
44967788 CAGCAAAACC
*
44967798 GCCGGAGAAGGAGGA
1 GCCGAAGAAGGAGGA
*
44967813 GCCGAAGAAGGAAGA
1 GCCGAAGAAGGAGGA
* * *
44967828 ACCCAAGAAAGAGGA
1 GCCGAAGAAGGAGGA
*
44967843 GCCCAAGAAGGAGGA
1 GCCGAAGAAGGAGGA
44967858 GCCGAAGAA
1 GCCGAAGAA
44967867 AGAAGAACCC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.43, C:0.17, G:0.39, T:0.00
Consensus pattern (15 bp):
GCCGAAGAAGGAGGA
Found at i:44967880 original size:15 final size:15
Alignment explanation
Indices: 44967817--44967957 Score: 93
Period size: 15 Copynumber: 8.8 Consensus size: 15
44967807 GGAGGAGCCG
*
44967817 AAGAAGGAAGAACCC
1 AAGAAAGAAGAACCC
* *
44967832 AAGAAAGAGGAGCCC
1 AAGAAAGAAGAACCC
* * * *
44967847 AAGAAGGAGGAGCCG
1 AAGAAAGAAGAACCC
44967862 AAGAAAGAAGAACCC
1 AAGAAAGAAGAACCC
* *
44967877 AAGAAGGAAGAGGAGCCA
1 AAGAAAGAAGA--A-CCC
44967895 AAGAAAGAAGAACCC
1 AAGAAAGAAGAACCC
*
44967910 AAGAAGGAAGAGGAACCC
1 AAG-A--AAGAAGAACCC
* *
44967928 AAGAAGGAAGAGGAGCCA
1 AAGAAAGAAGA--A-CCC
44967946 AAGAAAGAAGAA
1 AAGAAAGAAGAA
44967958 GAGAAACAGC
Statistics
Matches: 99, Mismatches: 18, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
15 56 0.57
16 3 0.03
17 3 0.03
18 37 0.37
ACGTcount: A:0.53, C:0.15, G:0.32, T:0.00
Consensus pattern (15 bp):
AAGAAAGAAGAACCC
Found at i:44967887 original size:18 final size:18
Alignment explanation
Indices: 44967861--44967959 Score: 96
Period size: 18 Copynumber: 5.7 Consensus size: 18
44967851 AGGAGGAGCC
*
44967861 GAAGAAAGAAGAACCCAA
1 GAAGGAAGAAGAACCCAA
* *
44967879 GAAGGAAG-AGGAGCC-A
1 GAAGGAAGAAGAACCCAA
*
44967895 -AAGAAAGAAGAACCCAA
1 GAAGGAAGAAGAACCCAA
*
44967912 GAAGGAAGAGGAACCCAA
1 GAAGGAAGAAGAACCCAA
* * *
44967930 GAAGGAAGAGGAGCCAAA
1 GAAGGAAGAAGAACCCAA
*
44967948 GAAAGAAGAAGA
1 GAAGGAAGAAGA
44967960 GAAACAGCCA
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
15 6 0.09
16 6 0.09
17 6 0.09
18 48 0.73
ACGTcount: A:0.56, C:0.13, G:0.31, T:0.00
Consensus pattern (18 bp):
GAAGGAAGAAGAACCCAA
Found at i:44967899 original size:33 final size:33
Alignment explanation
Indices: 44967817--44967938 Score: 148
Period size: 33 Copynumber: 3.9 Consensus size: 33
44967807 GGAGGAGCCG
* *
44967817 AAGAAGGAAGA--A-CCCAAGAAAGAGGAGCCC
1 AAGAAGGAAGAGGAGCCCAAGAAAGAAGAACCC
*
44967847 AAGAA-G--GAGGAGCCGAAGAAAGAAGAACCC
1 AAGAAGGAAGAGGAGCCCAAGAAAGAAGAACCC
*
44967877 AAGAAGGAAGAGGAGCCAAAGAAAGAAGAACCC
1 AAGAAGGAAGAGGAGCCCAAGAAAGAAGAACCC
* *
44967910 AAGAAGGAAGAGGAACCCAAGAAGGAAGA
1 AAGAAGGAAGAGGAGCCCAAGAAAGAAGA
44967939 GGAGCCAAAG
Statistics
Matches: 79, Mismatches: 7, Indels: 9
0.83 0.07 0.09
Matches are distributed among these distances:
27 2 0.03
29 2 0.03
30 25 0.32
31 1 0.01
33 49 0.62
ACGTcount: A:0.52, C:0.16, G:0.32, T:0.00
Consensus pattern (33 bp):
AAGAAGGAAGAGGAGCCCAAGAAAGAAGAACCC
Found at i:44967941 original size:51 final size:51
Alignment explanation
Indices: 44967816--44967957 Score: 179
Period size: 51 Copynumber: 2.9 Consensus size: 51
44967806 AGGAGGAGCC
* * * * *
44967816 GAAGAAGGAAGAACCCAAG-A--AAGAGGAGCCCAAG-AAGGAGGAGCC--
1 GAAGAAAGAAGAACCCAAGAAGGAAGAGGAGCCAAAGAAAGAAGAACCCAA
44967861 GAAGAAAGAAGAACCCAAGAAGGAAGAGGAGCCAAAGAAAGAAGAACCCAA
1 GAAGAAAGAAGAACCCAAGAAGGAAGAGGAGCCAAAGAAAGAAGAACCCAA
* *
44967912 GAAGGAAGAGGAACCCAAGAAGGAAGAGGAGCCAAAGAAAGAAGAA
1 GAAGAAAGAAGAACCCAAGAAGGAAGAGGAGCCAAAGAAAGAAGAA
44967958 GAGAAACAGC
Statistics
Matches: 84, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
45 18 0.21
46 1 0.01
48 13 0.15
49 8 0.10
51 44 0.52
ACGTcount: A:0.53, C:0.15, G:0.32, T:0.00
Consensus pattern (51 bp):
GAAGAAAGAAGAACCCAAGAAGGAAGAGGAGCCAAAGAAAGAAGAACCCAA
Found at i:44976062 original size:23 final size:22
Alignment explanation
Indices: 44976010--44976062 Score: 52
Period size: 23 Copynumber: 2.4 Consensus size: 22
44976000 TCCTTGTCTT
* * *
44976010 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTCTCCAA
* *
44976032 CTTATTTTCTCTTCTTTCTCCAA
1 TTTCTTTTCT-TTCTTTCTCCAA
44976055 TTTCTTTT
1 TTTCTTTT
44976063 TCACTTTTCT
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.09, C:0.21, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTCTCCAA
Found at i:44976092 original size:18 final size:18
Alignment explanation
Indices: 44976055--44976093 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
44976045 CTTTCTCCAA
* * *
44976055 TTTCTTTTTCACTTTTCT
1 TTTCTGTTTCACATTCCT
44976073 TTTCTGTTTCACATTCCT
1 TTTCTGTTTCACATTCCT
44976091 TTT
1 TTT
44976094 TACTCTCAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTCTGTTTCACATTCCT
Found at i:44981961 original size:19 final size:19
Alignment explanation
Indices: 44981937--44981988 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
44981927 TCATATCTTT
44981937 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
*
44981956 TAAGATTACATATCATATC
1 TAAGATTGCATATCATATC
44981975 TAAGATTGCATATC
1 TAAGATTGCATATC
44981989 CTTGAAGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:44984582 original size:26 final size:26
Alignment explanation
Indices: 44984534--44984583 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
44984524 TTAAATAAAC
*
44984534 AGTTAATAGAATCAGTCGATCAAATT
1 AGTTAATAGAATCAGTAGATCAAATT
44984560 AGTTAATAGAATCAGTTAG-TCAAA
1 AGTTAATAGAATCAG-TAGATCAAA
44984584 CTAGCTACTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (26 bp):
AGTTAATAGAATCAGTAGATCAAATT
Found at i:44987418 original size:26 final size:26
Alignment explanation
Indices: 44987351--44987418 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
44987341 TGGCTTGTCA
44987351 ATTTAAGATCGTAGCCCGACTCGCTG
1 ATTTAAGATCGTAGCCCGACTCGCTG
** * *
44987377 ATTTAAGATCACAGCCCGATTTGCTG
1 ATTTAAGATCGTAGCCCGACTCGCTG
*
44987403 ATTTAAGATTGTAGCC
1 ATTTAAGATCGTAGCC
44987419 TAATACTTAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (26 bp):
ATTTAAGATCGTAGCCCGACTCGCTG
Found at i:44987463 original size:54 final size:54
Alignment explanation
Indices: 44987402--44987607 Score: 261
Period size: 54 Copynumber: 3.8 Consensus size: 54
44987392 CCGATTTGCT
* * * * *
44987402 GATTTAAGATTGTAGCCTAATACTTACAAGATTTTTCAAATCTTGTGGCTCGCC
1 GATTTAAGATCGCAGCCTTATACTTACAAGATTTTTCGAATCTTGTGGCTCGTC
* * *
44987456 GATTTAAGATCACAACCTTATACTTACAAGA-TTTTCTGAATCTTGTGGCTTGTC
1 GATTTAAGATCGCAGCCTTATACTTACAAGATTTTTC-GAATCTTGTGGCTCGTC
* * *
44987510 AATTTAAGATCGCAGCCTTATACTTACAAGATTTTTCGAATCTTGTGACTCATC
1 GATTTAAGATCGCAGCCTTATACTTACAAGATTTTTCGAATCTTGTGGCTCGTC
* * * *
44987564 GATTTAATATCGCAGCCTCATACTTAAAATATTTTTCGAATCTT
1 GATTTAAGATCGCAGCCTTATACTTACAAGATTTTTCGAATCTT
44987608 ACAATTTGCC
Statistics
Matches: 131, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 5 0.04
54 121 0.92
55 5 0.04
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (54 bp):
GATTTAAGATCGCAGCCTTATACTTACAAGATTTTTCGAATCTTGTGGCTCGTC
Found at i:44987623 original size:108 final size:107
Alignment explanation
Indices: 44987395--44987624 Score: 246
Period size: 108 Copynumber: 2.1 Consensus size: 107
44987385 TCACAGCCCG
* * * *
44987395 ATTTGCTGATTTAAGATTGTAGCCTAATACTTACAAGATTTTTCAAATCTTGTGGCTCGCCGATT
1 ATTTGCT-ATTTAAGATCGCAGCCTAATACTTACAAGATTTTTCAAATCTTGTGACTCACCGATT
* * ***
44987460 TAAGATCACAACCTTATACTTACAAGATTTTCTGAATCTTGTG
65 TAAGATCACAACCTCATACTTAAAAGATTTTCTGAATCTTACA
** * * * *
44987503 GCTTGTCAATTTAAGATCGCAGCCTTATACTTACAAGATTTTTCGAATCTTGTGACTCATCGATT
1 ATTTG-CTATTTAAGATCGCAGCCTAATACTTACAAGATTTTTCAAATCTTGTGACTCACCGATT
* * * *
44987568 TAATATCGCAGCCTCATACTTAAAATATTTT-TCGAATCTTACA
65 TAAGATCACAACCTCATACTTAAAAGATTTTCT-GAATCTTACA
44987611 ATTTGCCTATTTAA
1 ATTTG-CTATTTAA
44987625 TATTCAAGAT
Statistics
Matches: 97, Mismatches: 23, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
107 1 0.01
108 95 0.98
109 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (107 bp):
ATTTGCTATTTAAGATCGCAGCCTAATACTTACAAGATTTTTCAAATCTTGTGACTCACCGATTT
AAGATCACAACCTCATACTTAAAAGATTTTCTGAATCTTACA
Found at i:44987835 original size:22 final size:23
Alignment explanation
Indices: 44987810--44987893 Score: 71
Period size: 23 Copynumber: 3.7 Consensus size: 23
44987800 AATTGACGTA
* *
44987810 ATTTTTA-AGTACAGTTCGTAGT
1 ATTTTTACAGTACAGTCCGCAGT
**
44987832 ATTTTTACAGTGTAGTCCGCAGT
1 ATTTTTACAGTACAGTCCGCAGT
** * * *
44987855 ATTTTTACAACACTGTTCGCATT
1 ATTTTTACAGTACAGTCCGCAGT
*
44987878 ATTTTTACAATACAGT
1 ATTTTTACAGTACAGT
44987894 TTGAAATAAT
Statistics
Matches: 48, Mismatches: 13, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
22 7 0.15
23 41 0.85
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.43
Consensus pattern (23 bp):
ATTTTTACAGTACAGTCCGCAGT
Found at i:44987992 original size:23 final size:24
Alignment explanation
Indices: 44987966--44988020 Score: 87
Period size: 23 Copynumber: 2.4 Consensus size: 24
44987956 CATAACTCCT
44987966 TGAATTTTTGCTGTACAGCTCG-C
1 TGAATTTTTGCTGTACAGCTCGTC
*
44987989 TGAATTTTTGTTGTACAGCTCGTC
1 TGAATTTTTGCTGTACAGCTCGTC
44988013 T-AATTTTT
1 TGAATTTTT
44988021 CTATATACGC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 28 0.93
24 2 0.07
ACGTcount: A:0.18, C:0.16, G:0.18, T:0.47
Consensus pattern (24 bp):
TGAATTTTTGCTGTACAGCTCGTC
Found at i:44988361 original size:19 final size:20
Alignment explanation
Indices: 44988334--44988371 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
44988324 AGTATGTCAT
44988334 CTAGCTCGCCA-CTTCGCTC
1 CTAGCTCGCCATCTTCGCTC
*
44988353 CTAGTTCGCCATCTTCGCT
1 CTAGCTCGCCATCTTCGCT
44988372 AGCTTGCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.11, C:0.42, G:0.16, T:0.32
Consensus pattern (20 bp):
CTAGCTCGCCATCTTCGCTC
Found at i:44996401 original size:10 final size:9
Alignment explanation
Indices: 44996386--44996433 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
44996376 CCGTGTCAAT
44996386 ATTTTAAAAA
1 ATTTT-AAAA
44996396 ATTTTAAAA
1 ATTTTAAAA
*
44996405 ATCTT-AAA
1 ATTTTAAAA
44996413 ATTTTAAAA
1 ATTTTAAAA
*
44996422 ATGATTAAAA
1 AT-TTTAAAA
44996432 AT
1 AT
44996434 AACATCTAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 7 0.21
9 13 0.39
10 13 0.39
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:44996552 original size:10 final size:11
Alignment explanation
Indices: 44996522--44996577 Score: 55
Period size: 10 Copynumber: 5.3 Consensus size: 11
44996512 GAGCGATTTC
44996522 TTAAATAATTA
1 TTAAATAATTA
44996533 TTAAATAATT-
1 TTAAATAATTA
*
44996543 TTAAAAAATTA
1 TTAAATAATTA
*
44996554 TTTAAA-AGTTA
1 -TTAAATAATTA
*
44996565 TT-AAGAATTA
1 TTAAATAATTA
44996575 TTA
1 TTA
44996578 TAAATTAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 2 0.05
10 17 0.45
11 14 0.37
12 5 0.13
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.45
Consensus pattern (11 bp):
TTAAATAATTA
Found at i:45000885 original size:34 final size:36
Alignment explanation
Indices: 45000842--45000932 Score: 105
Period size: 40 Copynumber: 2.4 Consensus size: 36
45000832 AGAAAATAAG
*
45000842 TTTGGTTTTGTGTTTAGATATTCGAGTAATGGTTTTTGGT
1 TTTGGTTTTGTGTTTAGATATTCGACTAATGG---TT-GT
45000882 TTTGGTTTTGTGTTTAGATATTCGACTAATGG-T-T
1 TTTGGTTTTGTGTTTAGATATTCGACTAATGGTTGT
45000916 TTTGGTTGTTTGTGTTT
1 TTTGG-T-TTTGTGTTT
45000933 TTTTTTTGGA
Statistics
Matches: 48, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
34 6 0.12
35 1 0.02
36 10 0.21
40 31 0.65
ACGTcount: A:0.13, C:0.03, G:0.26, T:0.57
Consensus pattern (36 bp):
TTTGGTTTTGTGTTTAGATATTCGACTAATGGTTGT
Found at i:45000886 original size:40 final size:40
Alignment explanation
Indices: 45000842--45000922 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
45000832 AGAAAATAAG
*
45000842 TTTGGTTTTGTGTTTAGATATTCGAGTAATGGTTTTTGGT
1 TTTGGTTTTGTGTTTAGATATTCGACTAATGGTTTTTGGT
45000882 TTTGGTTTTGTGTTTAGATATTCGACTAATGGTTTTTGGT
1 TTTGGTTTTGTGTTTAGATATTCGACTAATGGTTTTTGGT
45000922 T
1 T
45000923 GTTTGTGTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.15, C:0.04, G:0.26, T:0.56
Consensus pattern (40 bp):
TTTGGTTTTGTGTTTAGATATTCGACTAATGGTTTTTGGT
Found at i:45004218 original size:27 final size:28
Alignment explanation
Indices: 45004179--45004250 Score: 103
Period size: 27 Copynumber: 2.6 Consensus size: 28
45004169 ATAAAAAATA
45004179 ACCAAAATATTATAAATTTTT-TTATTT
1 ACCAAAATATTATAAATTTTTATTATTT
*
45004206 ATCAAAATATTATAATTATTTTTATTATTT
1 ACCAAAATATTATAA--ATTTTTATTATTT
45004236 ACCAAAATA-TATAAA
1 ACCAAAATATTATAAA
45004251 AAAAAAACCT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
27 15 0.38
29 11 0.28
30 14 0.35
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.47
Consensus pattern (28 bp):
ACCAAAATATTATAAATTTTTATTATTT
Found at i:45004391 original size:27 final size:27
Alignment explanation
Indices: 45004298--45004398 Score: 98
Period size: 27 Copynumber: 3.7 Consensus size: 27
45004288 GCCTGATCAG
* * * *
45004298 GCCAATGGCATTGGTGGCACCAAAGGT
1 GCCAAAGGTATTGGCGGCACCAATGGT
***
45004325 GCCAAAACCATTGGCGGCACCAATGGT
1 GCCAAAGGTATTGGCGGCACCAATGGT
*
45004352 GCCAAAGGTATTGGCAGCACCAATGGT
1 GCCAAAGGTATTGGCGGCACCAATGGT
45004379 GCCATACA-G-ATTGGCGGCAC
1 GCCA-A-AGGTATTGGCGGCAC
45004399 TACTTGTGTT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
27 59 0.95
28 2 0.03
29 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.30, T:0.17
Consensus pattern (27 bp):
GCCAAAGGTATTGGCGGCACCAATGGT
Found at i:45004497 original size:11 final size:11
Alignment explanation
Indices: 45004481--45004520 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
45004471 GGTGTTGCGG
45004481 AAAAGAAGAGA
1 AAAAGAAGAGA
45004492 AAAAG-AGAGA
1 AAAAGAAGAGA
*
45004502 AAGAGAAGAGA
1 AAAAGAAGAGA
45004513 AAAAGAAG
1 AAAAGAAG
45004521 GTATTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
AAAAGAAGAGA
Found at i:45004510 original size:21 final size:20
Alignment explanation
Indices: 45004480--45004518 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
45004470 AGGTGTTGCG
45004480 GAAAAGAAGAGAAAAAGAGA
1 GAAAAGAAGAGAAAAAGAGA
45004500 GAAAGAGAAGAGAAAAAGA
1 GAAA-AGAAGAGAAAAAGA
45004519 AGGTATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (20 bp):
GAAAAGAAGAGAAAAAGAGA
Found at i:45012464 original size:27 final size:27
Alignment explanation
Indices: 45012422--45012477 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
45012412 TTAGCCACAT
*
45012422 ATTGGCGCCGCCTTTTTATTCCTCTCC
1 ATTGGCGCCGCCTTTTTATTCCCCTCC
* *
45012449 ATTGGTGCCGCTTTTTTATTCCCCTCC
1 ATTGGCGCCGCCTTTTTATTCCCCTCC
45012476 AT
1 AT
45012478 CACCCTCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.09, C:0.34, G:0.14, T:0.43
Consensus pattern (27 bp):
ATTGGCGCCGCCTTTTTATTCCCCTCC
Found at i:45013240 original size:3 final size:3
Alignment explanation
Indices: 45013232--45013323 Score: 54
Period size: 3 Copynumber: 32.3 Consensus size: 3
45013222 CTTCCTTCCC
* * *
45013232 TCT TCT TCT TCT TCT TCT T-T TTT TC- TCT TCT CCT T-T CCT T-T TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* * * *
45013276 T-T CCT TCT TTT TCT T-T T-T TCT TCT CCTT TCT TCCC TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC-T TCT T-CT TCT TCT TCT
45013320 TCT T
1 TCT T
45013324 TCTTTTTTTT
Statistics
Matches: 68, Mismatches: 13, Indels: 16
0.70 0.13 0.16
Matches are distributed among these distances:
2 12 0.18
3 52 0.76
4 4 0.06
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:45013283 original size:40 final size:41
Alignment explanation
Indices: 45013239--45013386 Score: 177
Period size: 42 Copynumber: 3.7 Consensus size: 41
45013229 CCCTCTTCTT
45013239 CTTCTTC-TTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
1 CTTCTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
**
45013279 CTTCTT-TTTC--TTTTT-TCTTCTCCTTT-CTTCCCTCTT-
1 CTTCTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCT-TTC
45013315 CTTCTTCTTTCTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
1 CTTCTTCTTTC--TTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
*
45013358 CTTCTTTCTTTCTTTTTTTC-CCTCTCCTT
1 CTTC-TTCTTTCTTTTTTTCTCTTCTCCTT
45013387 CTCCCCCCCC
Statistics
Matches: 92, Mismatches: 5, Indels: 21
0.78 0.04 0.18
Matches are distributed among these distances:
36 11 0.12
37 17 0.18
38 5 0.05
40 9 0.10
41 13 0.14
42 21 0.23
43 9 0.10
44 7 0.08
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (41 bp):
CTTCTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
Found at i:45013308 original size:47 final size:46
Alignment explanation
Indices: 45013257--45013376 Score: 130
Period size: 43 Copynumber: 2.7 Consensus size: 46
45013247 TCTTTTTTTC
* *
45013257 TCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTTTTCTTCTCCTT
1 TCTTCTCCTTTCCTTTTCTTTCTTTCTTTTT-TTTTCTCTTCTCCTT
45013304 TCTTC-CC--T-CTTCTTC-TTCTTTCTTTTTTTTTCTCTTCTCCTT
1 TCTTCTCCTTTCCTT-TTCTTTCTTTCTTTTTTTTTCTCTTCTCCTT
*
45013346 TCCTT-TTCTTTCC--TTCTTTCTTTCTTTTTTT
1 T-CTTCTCCTTTCCTTTTCTTTCTTTCTTTTTTT
45013377 CCCTCTCCTT
Statistics
Matches: 63, Mismatches: 3, Indels: 17
0.76 0.04 0.20
Matches are distributed among these distances:
42 15 0.24
43 21 0.33
44 18 0.29
45 1 0.02
46 3 0.05
47 5 0.08
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (46 bp):
TCTTCTCCTTTCCTTTTCTTTCTTTCTTTTTTTTTCTCTTCTCCTT
Found at i:45013334 original size:79 final size:79
Alignment explanation
Indices: 45013202--45013375 Score: 278
Period size: 79 Copynumber: 2.2 Consensus size: 79
45013192 AAAATATTAC
* *
45013202 CTTTTTTTTCTTTTCTTTTCCTTCCTTCCCTCTTCTTCTTCTTCTTCTTTTTTTCTCTTCTCCTT
1 CTTTTTCTT-TTTTCTTCTCCTTCCTTCCCTCTTCTTCTTCTTCTTCTTTTTTTCTCTTCTCCTT
45013267 TCCTTTTCTTTCCTT
65 TCCTTTTCTTTCCTT
*
45013282 CTTTTTCTTTTTTCTTCTCCTTTCTTCCCTCTTCTTCTTCTTTCTT-TTTTTTTCTCTTCTCCTT
1 CTTTTTCTTTTTTCTTCTCCTTCCTTCCCTCTTCTTCTTC-TTCTTCTTTTTTTCTCTTCTCCTT
45013346 TCCTTTTCTTTCCTT
65 TCCTTTTCTTTCCTT
45013361 CTTTCTTTCTTTTTT
1 C-TT-TTTCTTTTTT
45013376 TCCCTCTCCT
Statistics
Matches: 88, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
79 63 0.72
80 15 0.17
81 10 0.11
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (79 bp):
CTTTTTCTTTTTTCTTCTCCTTCCTTCCCTCTTCTTCTTCTTCTTCTTTTTTTCTCTTCTCCTTT
CCTTTTCTTTCCTT
Found at i:45013377 original size:8 final size:8
Alignment explanation
Indices: 45013271--45013377 Score: 50
Period size: 8 Copynumber: 13.5 Consensus size: 8
45013261 CTCCTTTCCT
45013271 TTTCTTTC
1 TTTCTTTC
*
45013279 CTTC-TT-
1 TTTCTTTC
45013285 TTTCTTT-
1 TTTCTTTC
45013292 TTTCTTCTCC
1 TTTCTT-T-C
*
45013302 TTTCTTCCC
1 TTTCTT-TC
45013311 TCTTC-TTC
1 T-TTCTTTC
45013319 -TTCTTTC
1 TTTCTTTC
45013326 TTT-TTT-
1 TTTCTTTC
45013332 TTTCTCTTC
1 TTTCT-TTC
*
45013341 -TCCTTTCC
1 TTTCTTT-C
45013349 TTTTCTTTC
1 -TTTCTTTC
*
45013358 CTTCTTTC
1 TTTCTTTC
*
45013366 TTTCTTTT
1 TTTCTTTC
45013374 TTTC
1 TTTC
45013378 CCTCTCCTTC
Statistics
Matches: 77, Mismatches: 9, Indels: 26
0.69 0.08 0.23
Matches are distributed among these distances:
6 9 0.12
7 19 0.25
8 30 0.39
9 4 0.05
10 15 0.19
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (8 bp):
TTTCTTTC
Found at i:45013496 original size:27 final size:27
Alignment explanation
Indices: 45013419--45013489 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
45013409 CCTATTATGG
* *
45013419 CATTGGTGCCGCCAATGGTTTTGGCAC
1 CATTGGTGCCGCCAATGGCTTTGGAAC
45013446 CATTGGTGCCGCCAATGGCTTTGGAAC
1 CATTGGTGCCGCCAATGGCTTTGGAAC
*
45013473 CTTTGGTGCCGCCAATG
1 CATTGGTGCCGCCAATG
45013490 CCATTGGCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.15, C:0.27, G:0.30, T:0.28
Consensus pattern (27 bp):
CATTGGTGCCGCCAATGGCTTTGGAAC
Found at i:45013608 original size:28 final size:29
Alignment explanation
Indices: 45013546--45013617 Score: 105
Period size: 28 Copynumber: 2.5 Consensus size: 29
45013536 AGGTTTTTTT
45013546 TTAT-ATATTTTGGTAAATAATGAAAATAA
1 TTATAATATTTTGGTAAATAA-GAAAATAA
45013575 TTATAATATTTTGGTAAATAA-AAAA-AA
1 TTATAATATTTTGGTAAATAAGAAAATAA
45013602 GTTATAATATTTTGGT
1 -TTATAATATTTTGGT
45013618 TATTTTTTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 4 0.10
30 16 0.39
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (29 bp):
TTATAATATTTTGGTAAATAAGAAAATAA
Found at i:45013806 original size:17 final size:17
Alignment explanation
Indices: 45013780--45013821 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
45013770 GCTTGACGAT
*
45013780 AAATAGTATAATGACAC
1 AAATAATATAATGACAC
45013797 AAATAATATAATGACAC
1 AAATAATATAATGACAC
45013814 ATAATAAT
1 A-AATAAT
45013822 CTCACAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.57, C:0.10, G:0.07, T:0.26
Consensus pattern (17 bp):
AAATAATATAATGACAC
Found at i:45015333 original size:6 final size:6
Alignment explanation
Indices: 45015317--45015347 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
45015307 AAAGGCAACA
45015317 AAGAGTG AAGATG AAGATG AAGATG AAGATG
1 AAGA-TG AAGATG AAGATG AAGATG AAGATG
45015348 CATTACAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.83
7 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.35, T:0.16
Consensus pattern (6 bp):
AAGATG
Found at i:45017663 original size:31 final size:31
Alignment explanation
Indices: 45017608--45017669 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
45017598 GTAAGGGTTA
* *
45017608 ATTTTATTTTTTAATATTATTTAATATTTTT
1 ATTTCATTTTTTAATATTAATTAATATTTTT
45017639 ATTTCATTTTTGTAAT-TTAATTAATATTTTT
1 ATTTCATTTTT-TAATATTAATTAATATTTTT
45017670 TATAATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 24 0.86
32 4 0.14
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (31 bp):
ATTTCATTTTTTAATATTAATTAATATTTTT
Found at i:45017680 original size:31 final size:31
Alignment explanation
Indices: 45017613--45017680 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
45017603 GGTTAATTTT
* * *
45017613 ATTTTTTAATATTATTTAATATTTTTATTTC
1 ATTTTTTAATATTAATTAATATTTTTATATA
45017644 ATTTTTGTAAT-TTAATTAATATTTTT-TATA
1 ATTTTT-TAATATTAATTAATATTTTTATATA
45017674 ATTTTTT
1 ATTTTTT
45017681 TATAACAGTC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 1 0.03
30 8 0.24
31 20 0.61
32 4 0.12
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (31 bp):
ATTTTTTAATATTAATTAATATTTTTATATA
Found at i:45021501 original size:37 final size:39
Alignment explanation
Indices: 45021451--45021556 Score: 117
Period size: 37 Copynumber: 2.7 Consensus size: 39
45021441 TTTAAAGTAA
45021451 TAAATTGACACCCAATGTCTCATCGACTAAACCG-A-AG
1 TAAATTGACACCCAATGTCTCATCGACTAAACCGAAGAG
* * * * *
45021488 TAAATTGGCACCCAATGCCTCATCAAATTAATCCGAAGTAG
1 TAAATTGACACCCAATGTCTCATC-GACTAAACCGAAG-AG
* *
45021529 TAAATTGAAACCCAGTGTCTCATCGACT
1 TAAATTGACACCCAATGTCTCATCGACT
45021557 CGAAGTTGAA
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
37 22 0.41
38 7 0.13
39 1 0.02
40 2 0.04
41 22 0.41
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (39 bp):
TAAATTGACACCCAATGTCTCATCGACTAAACCGAAGAG
Found at i:45022397 original size:8 final size:9
Alignment explanation
Indices: 45022381--45022442 Score: 56
Period size: 9 Copynumber: 6.7 Consensus size: 9
45022371 CTTGCATTTC
45022381 TTCTTTCTT
1 TTCTTTCTT
45022390 TT-TTTCTT
1 TTCTTTCTT
45022398 TTCTTTCTT
1 TTCTTTCTT
* *
45022407 TCCTTTCAGT
1 TTCTTTC-TT
45022417 TTCGTTT-TGT
1 TTC-TTTCT-T
45022427 TTCTTTCTT
1 TTCTTTCTT
45022436 TCTCTTT
1 T-TCTTT
45022443 TTATTTCATT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
8 8 0.19
9 19 0.44
10 13 0.30
11 3 0.07
ACGTcount: A:0.02, C:0.21, G:0.05, T:0.73
Consensus pattern (9 bp):
TTCTTTCTT
Found at i:45022539 original size:34 final size:35
Alignment explanation
Indices: 45022469--45022554 Score: 81
Period size: 37 Copynumber: 2.4 Consensus size: 35
45022459 TTATATTTAC
*
45022469 TTTATTATTATATTATATATATTTACTTAATTCTTAAGGT
1 TTTA-TATTATA--ATATATATTTACTTAA-TCTTAA-AT
*
45022509 TTTATATTATAATATATATTT-TTTAA-CTTAAAT
1 TTTATATTATAATATATATTTACTTAATCTTAAAT
45022542 TTTATA--ATAATAT
1 TTTATATTATAATAT
45022555 TAAACCTTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
31 7 0.16
33 7 0.16
34 5 0.11
36 4 0.09
37 10 0.23
39 7 0.16
40 4 0.09
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.57
Consensus pattern (35 bp):
TTTATATTATAATATATATTTACTTAATCTTAAAT
Found at i:45024506 original size:13 final size:13
Alignment explanation
Indices: 45024488--45024553 Score: 72
Period size: 13 Copynumber: 5.5 Consensus size: 13
45024478 TAGATTTTTC
45024488 CTAAATATTATCA
1 CTAAATATTATCA
45024501 CTAAATA--AT-A
1 CTAAATATTATCA
*
45024511 TTAAATATTATCA
1 CTAAATATTATCA
*
45024524 CTAAATA--AT-T
1 CTAAATATTATCA
45024534 CTAAATATTATCA
1 CTAAATATTATCA
45024547 CTAAATA
1 CTAAATA
45024554 ATACAAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
10 14 0.33
11 4 0.09
12 4 0.09
13 21 0.49
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:45024519 original size:23 final size:24
Alignment explanation
Indices: 45024488--45024556 Score: 124
Period size: 23 Copynumber: 3.0 Consensus size: 24
45024478 TAGATTTTTC
45024488 CTAAATATTATCACTAAATAATAT
1 CTAAATATTATCACTAAATAATAT
45024512 -TAAATATTATCACTAAATAAT-T
1 CTAAATATTATCACTAAATAATAT
45024534 CTAAATATTATCACTAAATAATA
1 CTAAATATTATCACTAAATAATA
45024557 CAAAATTTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
22 1 0.02
23 42 0.98
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.38
Consensus pattern (24 bp):
CTAAATATTATCACTAAATAATAT
Found at i:45024595 original size:18 final size:18
Alignment explanation
Indices: 45024572--45024620 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
45024562 TTTAAAAATC
*
45024572 AAATTTAAACTAGAGATT
1 AAATTTAAACTAAAGATT
*
45024590 AAATTTAAACTAAAGTTT
1 AAATTTAAACTAAAGATT
*
45024608 AAGTTTAAACTAA
1 AAATTTAAACTAA
45024621 TTACAGAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (18 bp):
AAATTTAAACTAAAGATT
Found at i:45026163 original size:5 final size:5
Alignment explanation
Indices: 45026153--45026186 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
45026143 AATTATTAAG
45026153 TATAT TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATA
45026187 ATGATAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:45026241 original size:24 final size:23
Alignment explanation
Indices: 45026208--45026273 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 23
45026198 AAGAATAAAT
45026208 AAAAAGAAAGAAAGAAACG-AAAC
1 AAAAAGAAAGAAAGAAA-GAAAAC
*
45026231 AAAAAGAAAAGAAAGAAAGAAAAT
1 AAAAAG-AAAGAAAGAAAGAAAAC
*
45026255 AAAAAGGAAAGAAATAAAG
1 AAAAA-GAAAGAAAGAAAG
45026274 GAGAAAACCA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
23 7 0.18
24 30 0.79
25 1 0.03
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (23 bp):
AAAAAGAAAGAAAGAAAGAAAAC
Found at i:45027606 original size:24 final size:24
Alignment explanation
Indices: 45027579--45027625 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
45027569 ATTGAAATGG
45027579 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
45027603 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
45027626 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:45036996 original size:32 final size:33
Alignment explanation
Indices: 45036960--45037022 Score: 87
Period size: 32 Copynumber: 1.9 Consensus size: 33
45036950 TGCTACATGT
45036960 TTAAA-TATTTTATTTTCT-TTCTTT-TTTTTACA
1 TTAAATTA-TTTATTTTCTATT-TTTGTTTTTACA
45036992 TTAAATTATTTATTTTCTATTTTTGTTTTTA
1 TTAAATTATTTATTTTCTATTTTTGTTTTTA
45037023 TTTTTTTCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
32 18 0.64
33 10 0.36
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (33 bp):
TTAAATTATTTATTTTCTATTTTTGTTTTTACA
Found at i:45038368 original size:18 final size:18
Alignment explanation
Indices: 45038345--45038381 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
45038335 ATACTAATCT
45038345 AATACTAATAGAATAGAA
1 AATACTAATAGAATAGAA
* *
45038363 AATACTGATATAATAGAA
1 AATACTAATAGAATAGAA
45038381 A
1 A
45038382 GAAAAGAGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.59, C:0.05, G:0.11, T:0.24
Consensus pattern (18 bp):
AATACTAATAGAATAGAA
Found at i:45044476 original size:43 final size:43
Alignment explanation
Indices: 45044400--45044489 Score: 110
Period size: 43 Copynumber: 2.1 Consensus size: 43
45044390 AAGATCATGC
*
45044400 TTGTAGTAAAGGCGCCGCTAAACATCATATTCTATAACGACGT
1 TTGTAGTAAAGGCGCCGCTAAACAACATATTCTATAACGACGT
* * * * *
45044443 TTGTAGTCAAA-GCGCCGGTAAAGAACATGTTCTATAGCGGCGT
1 TTGTAGT-AAAGGCGCCGCTAAACAACATATTCTATAACGACGT
45044486 TTGT
1 TTGT
45044490 GAGAAAACAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
43 37 0.93
44 3 0.08
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (43 bp):
TTGTAGTAAAGGCGCCGCTAAACAACATATTCTATAACGACGT
Found at i:45049863 original size:19 final size:20
Alignment explanation
Indices: 45049839--45049884 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
45049829 TAAATTCTGG
45049839 AATTTTT-ATAAA-TATTTTA
1 AATTTTTGA-AAATTATTTTA
*
45049858 AATTTTTGAAAATTATTTTG
1 AATTTTTGAAAATTATTTTA
45049878 AATTTTT
1 AATTTTT
45049885 TTATAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (20 bp):
AATTTTTGAAAATTATTTTA
Found at i:45050267 original size:8 final size:9
Alignment explanation
Indices: 45050249--45050363 Score: 51
Period size: 9 Copynumber: 12.6 Consensus size: 9
45050239 ATTATTTTAG
45050249 AAAATTTTT
1 AAAATTTTT
45050258 AAAA-TTTT
1 AAAATTTTT
**
45050266 AATTTTCTTT
1 AAAATT-TTT
*
45050276 ATATATTTTTT
1 A-A-AATTTTT
*
45050287 AGAATTTTT
1 AAAATTTTT
45050296 AAAA-TTTT
1 AAAATTTTT
*
45050304 ATAATTTTTCT
1 A-AAATTTT-T
* *
45050315 AAAA-ATAT
1 AAAATTTTT
45050323 AAAA--TTT
1 AAAATTTTT
*
45050330 GAAATTTTT
1 AAAATTTTT
45050339 ATAAATATTTT
1 A-AAAT-TTTT
*
45050350 AAAATTTTA
1 AAAATTTTT
45050359 AAAAT
1 AAAAT
45050364 AATTTTATTT
Statistics
Matches: 81, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
7 5 0.06
8 16 0.20
9 28 0.35
10 17 0.21
11 12 0.15
12 3 0.04
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (9 bp):
AAAATTTTT
Found at i:45050348 original size:19 final size:19
Alignment explanation
Indices: 45050320--45050364 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
45050310 TTTCTAAAAA
*
45050320 TATAAA-ATTTGAAATTTT
1 TATAAATATTTGAAAATTT
*
45050338 TATAAATATTTTAAAATTT
1 TATAAATATTTGAAAATTT
*
45050357 TAAAAATA
1 TATAAATA
45050365 ATTTTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
TATAAATATTTGAAAATTT
Found at i:45050356 original size:20 final size:20
Alignment explanation
Indices: 45050325--45050370 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
45050315 AAAAATATAA
* * *
45050325 AATTTGAAATTTTTATAAAT
1 AATTTTAAAATTTTAAAAAT
45050345 -ATTTTAAAATTTTAAAAAT
1 AATTTTAAAATTTTAAAAAT
45050364 AATTTTA
1 AATTTTA
45050371 TTTTATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
AATTTTAAAATTTTAAAAAT
Found at i:45050835 original size:21 final size:21
Alignment explanation
Indices: 45050796--45050849 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
45050786 TAATTAAATA
*
45050796 ATAAAATTATTTGATGTATA-
1 ATAATATTATTTGATGTATAG
45050816 ATAATTATTTATTT-ATGTATAG
1 ATAA-TA-TTATTTGATGTATAG
45050838 ATAATATTATTT
1 ATAATATTATTT
45050850 CAAGTAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 10 0.33
21 10 0.33
22 10 0.33
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (21 bp):
ATAATATTATTTGATGTATAG
Found at i:45052005 original size:12 final size:12
Alignment explanation
Indices: 45051988--45052012 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45051978 TAATTGGATG
45051988 TCCATTGATAAA
1 TCCATTGATAAA
45052000 TCCATTGATAAA
1 TCCATTGATAAA
45052012 T
1 T
45052013 AGATGTCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TCCATTGATAAA
Found at i:45054748 original size:11 final size:11
Alignment explanation
Indices: 45054729--45054817 Score: 51
Period size: 11 Copynumber: 8.3 Consensus size: 11
45054719 GCCCGGCCCT
*
45054729 TATTAAATATA
1 TATTTAATATA
45054740 TATTTAATATA
1 TATTTAATATA
45054751 TA--TAATATA
1 TATTTAATATA
*
45054760 TATTAAAT-TAA
1 TATTTAATAT-A
* *
45054771 AATTAAAATATA
1 TATT-TAATATA
*
45054783 TATTTGAT-TA
1 TATTTAATATA
* **
45054793 AAAATAATATA
1 TATTTAATATA
*
45054804 TATATAATATA
1 TATTTAATATA
45054815 TAT
1 TAT
45054818 AAATAGGGCC
Statistics
Matches: 60, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
9 9 0.15
10 7 0.12
11 35 0.58
12 8 0.13
13 1 0.02
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (11 bp):
TATTTAATATA
Found at i:45054784 original size:23 final size:23
Alignment explanation
Indices: 45054754--45054808 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
45054744 TAATATATAT
*
45054754 AATATATATTAAATTAAAATTAA
1 AATATATATTAAATTAAAAATAA
**
45054777 AATATATATTTGATTAAAAATAA
1 AATATATATTAAATTAAAAATAA
*
45054800 TATATATAT
1 AATATATAT
45054809 AATATATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
AATATATATTAAATTAAAAATAA
Found at i:45057203 original size:64 final size:66
Alignment explanation
Indices: 45057076--45057207 Score: 164
Period size: 64 Copynumber: 2.0 Consensus size: 66
45057066 ATTCTGAAGC
* * * **
45057076 TGTAGCTGGAGTTTATCATATTTTCTTATTGCCTCTGCTTCTCTCGCTGCTGCCTCTGTTTTAAG
1 TGTAGCTGGAGTTCATCATATTTTCTTATAGCCTCTGCTTCTCTCGATGCTGCCTCTACTTTAAG
45057141 T
66 T
*
45057142 TGTAGCTGGAGTTCATCAT-TTTT-TT-TGAGCCTCTGCTTCTCTTGATGCTGCCT-TCACTTTA
1 TGTAGCTGGAGTTCATCATATTTTCTTAT-AGCCTCTGCTTCTCTCGATGCTGCCTCT-ACTTTA
45057203 AGT
64 AGT
45057206 TG
1 TG
45057208 AGCAATTTGC
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
63 2 0.03
64 34 0.59
65 4 0.07
66 18 0.31
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.46
Consensus pattern (66 bp):
TGTAGCTGGAGTTCATCATATTTTCTTATAGCCTCTGCTTCTCTCGATGCTGCCTCTACTTTAAG
T
Found at i:45067414 original size:2 final size:2
Alignment explanation
Indices: 45067407--45067446 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
45067397 GTTTAACAAT
45067407 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
45067447 ATTTTTCTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:45068163 original size:278 final size:278
Alignment explanation
Indices: 45067666--45068224 Score: 1118
Period size: 278 Copynumber: 2.0 Consensus size: 278
45067656 CCAATTACAA
45067666 CCAAAATTTTAATTTTTGAATGATCTTGGTTGACAACATTCACTATCGCAGAGTTGAGTGTGTTT
1 CCAAAATTTTAATTTTTGAATGATCTTGGTTGACAACATTCACTATCGCAGAGTTGAGTGTGTTT
45067731 TATGTATTTTATATTATTCATTTGGAAATCGATTAGTGAGACGACATGAGCAATTGTAAGTGAAA
66 TATGTATTTTATATTATTCATTTGGAAATCGATTAGTGAGACGACATGAGCAATTGTAAGTGAAA
45067796 AAGTTTTAGTGAATATGAGATGTATGATTTTGAAATAAATTTCATGCATGTTTGCGATGATTTAT
131 AAGTTTTAGTGAATATGAGATGTATGATTTTGAAATAAATTTCATGCATGTTTGCGATGATTTAT
45067861 GAAAATTTTGCCAACACTAGCATTATATCAGGTTTGATATTTTAGATGTCAGTTTTATCCATACA
196 GAAAATTTTGCCAACACTAGCATTATATCAGGTTTGATATTTTAGATGTCAGTTTTATCCATACA
45067926 TTTGATTTATAATAAACT
261 TTTGATTTATAATAAACT
45067944 CCAAAATTTTAATTTTTGAATGATCTTGGTTGACAACATTCACTATCGCAGAGTTGAGTGTGTTT
1 CCAAAATTTTAATTTTTGAATGATCTTGGTTGACAACATTCACTATCGCAGAGTTGAGTGTGTTT
45068009 TATGTATTTTATATTATTCATTTGGAAATCGATTAGTGAGACGACATGAGCAATTGTAAGTGAAA
66 TATGTATTTTATATTATTCATTTGGAAATCGATTAGTGAGACGACATGAGCAATTGTAAGTGAAA
45068074 AAGTTTTAGTGAATATGAGATGTATGATTTTGAAATAAATTTCATGCATGTTTGCGATGATTTAT
131 AAGTTTTAGTGAATATGAGATGTATGATTTTGAAATAAATTTCATGCATGTTTGCGATGATTTAT
45068139 GAAAATTTTGCCAACACTAGCATTATATCAGGTTTGATATTTTAGATGTCAGTTTTATCCATACA
196 GAAAATTTTGCCAACACTAGCATTATATCAGGTTTGATATTTTAGATGTCAGTTTTATCCATACA
45068204 TTTGATTTATAATAAACT
261 TTTGATTTATAATAAACT
45068222 CCA
1 CCA
45068225 TGTATGTCTT
Statistics
Matches: 281, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
278 281 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.40
Consensus pattern (278 bp):
CCAAAATTTTAATTTTTGAATGATCTTGGTTGACAACATTCACTATCGCAGAGTTGAGTGTGTTT
TATGTATTTTATATTATTCATTTGGAAATCGATTAGTGAGACGACATGAGCAATTGTAAGTGAAA
AAGTTTTAGTGAATATGAGATGTATGATTTTGAAATAAATTTCATGCATGTTTGCGATGATTTAT
GAAAATTTTGCCAACACTAGCATTATATCAGGTTTGATATTTTAGATGTCAGTTTTATCCATACA
TTTGATTTATAATAAACT
Found at i:45070834 original size:16 final size:15
Alignment explanation
Indices: 45070809--45070839 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
45070799 TGATAGGTCT
45070809 CCGACGAGCTTTCAA
1 CCGACGAGCTTTCAA
45070824 CCGATCGAGCTTTCAA
1 CCGA-CGAGCTTTCAA
45070840 TAATCTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (15 bp):
CCGACGAGCTTTCAA
Found at i:45090654 original size:89 final size:89
Alignment explanation
Indices: 45090493--45090658 Score: 298
Period size: 88 Copynumber: 1.9 Consensus size: 89
45090483 CAGTACACTG
* *
45090493 GAGGTGATCAAATTCAGTTAAAAACTGGCAAATTTGCACTAATGACATTCCTCTGGAGTGAGGTT
1 GAGGTGATCAAATTCAGTTAAAAAATAGCAAATTTGCACTAATGACATTCCTCTGGAGTGAGGTT
45090558 GAGCAAGTCAACTTCAAAGACTCA
66 GAGCAAGTCAACTTCAAAGACTCA
45090582 GAGGTGAT-AAATTCAGTTAAAAAATAGCAAATTTGCACTAATGACATTCCTCTTGGAGTGAGGT
1 GAGGTGATCAAATTCAGTTAAAAAATAGCAAATTTGCACTAATGACATTCCTC-TGGAGTGAGGT
45090646 TGAGCAAGTCAAC
65 TGAGCAAGTCAAC
45090659 CATCATTACC
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
88 42 0.57
89 32 0.43
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.27
Consensus pattern (89 bp):
GAGGTGATCAAATTCAGTTAAAAAATAGCAAATTTGCACTAATGACATTCCTCTGGAGTGAGGTT
GAGCAAGTCAACTTCAAAGACTCA
Found at i:45106651 original size:31 final size:31
Alignment explanation
Indices: 45106616--45106675 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
45106606 CATATAATTT
*
45106616 AAATTGATAAATTTTAATCTCTGTACTTTTC
1 AAATTGATAAAATTTAATCTCTGTACTTTTC
* *
45106647 AAATTGGTAAAATTTAGTCTCTGTACTTT
1 AAATTGATAAAATTTAATCTCTGTACTTT
45106676 CCAAGTTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.47
Consensus pattern (31 bp):
AAATTGATAAAATTTAATCTCTGTACTTTTC
Found at i:45107223 original size:2 final size:2
Alignment explanation
Indices: 45107216--45107242 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
45107206 TAAATAAATG
45107216 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
45107243 TAGCTAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:45108338 original size:18 final size:18
Alignment explanation
Indices: 45108302--45108335 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45108292 AAATATTTAC
45108302 AAATATCAAATACTAAAT
1 AAATATCAAATACTAAAT
*
45108320 AAATTTCAAATA-TAAA
1 AAATATCAAATACTAAA
45108336 ATACTCATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATATCAAATACTAAAT
Found at i:45109952 original size:16 final size:16
Alignment explanation
Indices: 45109931--45109964 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45109921 TCAATATCCA
* *
45109931 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
45109947 ATTATCACATTTACAC
1 ATTATCACATTTACAC
45109963 AT
1 AT
45109965 ATATATTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:45111402 original size:153 final size:151
Alignment explanation
Indices: 45110834--45111631 Score: 969
Period size: 153 Copynumber: 5.3 Consensus size: 151
45110824 AACATGTTCG
* * * * * * *
45110834 TATTTCAGCCATTTGTTCGTATTTTTTTCTGGATTTTATTACTTT-AAAAAATATACTATTTTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTCCCGAATTTTATTACTTTAAAAAAATATACAATTTTCT
* * *
45110898 AATTTTATTATTTTACATTATTTTAATACACTATGTTTGAAATGTATTCATTTAGTATGTTTTTT
66 AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTT
**
45110963 ATTTAAATTTAAAAAAAAACCCT
131 AAATAAATTT--AAAAAAACCCT
* * * **
45110986 AATTTCGGCCCTTTATTCGTATTTTTTCCCAGGATTTTATTACTTTTAATAAAAATATATTATTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTCCC-GAATTTTATTAC-TTTAA-AAAAATATACAATTT
* * *
45111051 TCGT-ATTTTATTATTTTACATTA--TTAGTACATTATGTTTGAAATGTACTAATTTACTGTGTT
63 TC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTT
45111113 TTTTAAATAAATTTTTAAAAAAACCCT
127 TTTTAAATAAA--TTTAAAAAAACCCT
* *
45111140 TATTTTGGCCCTTTGTTCGTATTTTTTCCCCAGATTTTATTACTTT-AAAAAA-AT---A--TTC
1 TATTTCGGCCCTTTGTTCGTATTTTTTCCCGA-ATTTTATTACTTTAAAAAAATATACAATTTTC
* * * *
45111198 T-ATTTT-CTA-ATTACATTATTTTAGTGCATTATGTTTGAAATGTATCCATTTAGTGTGTTTTT
65 TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTT
*
45111260 TAAATAAATTTAAAAAAACTCT
130 TAAATAAATTTAAAAAAACCCT
* **
45111282 TATTTCGGCCCTTTGTTCGTATTTTTTCCCGAATTTTATTACTTTCAACAAAAGTATATTATTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTCCCGAATTTTATTACTTT-AA-AAAAATATACAATTTT
* * *
45111347 -TGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAATGTGTTT
64 CT-AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTT
45111411 TTTAAATAAATTTAGTAAAAAACCCT
128 TTTAAATAAATTTA--AAAAAACCCT
* * * * *
45111437 TATTTCGGCCCTTTGTTCGTATTTTTTTCTGGATTTTAATAATTTAAAAAAATATACAATTTTCT
1 TATTTCGGCCCTTTGTTCGTATTTTTTCCCGAATTTTATTACTTTAAAAAAATATACAATTTTCT
*
45111502 AATTTTATTATTTTACATTATTTTAGTACATTGTGTTTGAAATGTATTCATTTAGTGTGTTTTTT
66 AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTT
*
45111567 AAATAAATTAAAAAAAACCCT
131 AAATAAATTTAAAAAAACCCT
* * * *
45111588 TATTTTGGCCATTTGTTCGTATTTTTTCCGGTATTTTATTACTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTCCCGAATTTTATTACTT
45111632 ACAAATAAAA
Statistics
Matches: 561, Mismatches: 59, Indels: 53
0.83 0.09 0.08
Matches are distributed among these distances:
141 13 0.02
142 51 0.09
143 3 0.01
144 55 0.10
145 5 0.01
147 1 0.00
148 1 0.00
149 1 0.00
150 4 0.01
151 57 0.10
152 27 0.05
153 159 0.28
154 96 0.17
155 50 0.09
156 37 0.07
157 1 0.00
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.51
Consensus pattern (151 bp):
TATTTCGGCCCTTTGTTCGTATTTTTTCCCGAATTTTATTACTTTAAAAAAATATACAATTTTCT
AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTT
AAATAAATTTAAAAAAACCCT
Found at i:45111615 original size:306 final size:302
Alignment explanation
Indices: 45110834--45111631 Score: 1128
Period size: 306 Copynumber: 2.6 Consensus size: 302
45110824 AACATGTTCG
* * *
45110834 TATTTCAGCCATTTGTTCGTATTTTTTTCTGGATTTTATTACTTTAAAAAATATACTATTTTTTA
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCTGGATTTTATTACTTTAAAAAATATAC-ATTTTCTA
* * *
45110899 ATTTTATTATTTTACATTATTTTAATACACTATGTTTGAAATGTATTCATTTAGTATGTTTTTTA
65 ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTA
** * * *
45110964 TTTAAATTTAAAAAAAAACCCTAATTTCGGCCCTTTATTCGTATTTTTTCCCAGGATTTTATTAC
130 AATAAA-TT-AAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTCCC-GAATTTTATTAC
* *
45111029 TTTTAATAAAAATATATTATTTTCGTATTTTATTATTTTACATTATTAGTACATTATGTTTGAAA
192 TTTCAACAAAAATATATTATTTTCGTATTTTATTATTTTACATTATTAGTACATTATGTTTGAAA
* *
45111094 TGTACTAATTTACTGTGTTTTTTAAATAAATTTTTAAAAAAACCCT
257 TGTACTAATTTAATGTGTTTTTTAAATAAATTTGTAAAAAAACCCT
* * **
45111140 TATTTTGGCCCTTTGTTCGTATTTTTTCCCCAGATTTTATTACTTTAAAAAA-AT--A--TTCT-
1 TATTTCGGCCCTTTGTTCGTATTTTTT-TCTGGATTTTATTACTTTAAAAAATATACATTTTCTA
* * * *
45111199 ATTTT-CTA-ATTACATTATTTTAGTGCATTATGTTTGAAATGTATCCATTTAGTGTGTTTTTTA
65 ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTA
* *
45111262 AATAAATTTAAAAAAACTCTTATTTCGGCCCTTTGTTCGTATTTTTTCCCGAATTTTATTACTTT
130 AATAAATTAAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTCCCGAATTTTATTACTTT
* *
45111327 CAACAAAAGTATATTATTTTTGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
195 CAACAAAAATATATTATTTTCGTATTTTATTATTTTACATTA--TTAGTACATTATGTTTGAAAT
*
45111392 GTATTAATTTAATGTGTTTTTTAAATAAATTTAGT-AAAAAACCCT
258 GTACTAATTTAATGTGTTTTTTAAATAAATTT-GTAAAAAAACCCT
* *
45111437 TATTTCGGCCCTTTGTTCGTATTTTTTTCTGGATTTTAATAATTTAAAAAAATATACAATTTTCT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCTGGATTTTATTACTTT-AAAAAATATAC-ATTTTCT
*
45111502 AATTTTATTATTTTACATTATTTTAGTACATTGTGTTTGAAATGTATTCATTTAGTGTGTTTTTT
64 AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTT
* * * *
45111567 AAATAAATTAAAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTTCCGGTATTTTATTACTT
129 AAATAAATTAAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTCCCGAATTTTATTACTT
45111632 ACAAATAAAA
Statistics
Matches: 433, Mismatches: 45, Indels: 28
0.86 0.09 0.06
Matches are distributed among these distances:
295 52 0.12
296 51 0.12
297 95 0.22
298 56 0.13
299 2 0.00
300 5 0.01
301 4 0.01
303 5 0.01
304 5 0.01
305 2 0.00
306 135 0.31
307 21 0.05
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.51
Consensus pattern (302 bp):
TATTTCGGCCCTTTGTTCGTATTTTTTTCTGGATTTTATTACTTTAAAAAATATACATTTTCTAA
TTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAA
ATAAATTAAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTCCCGAATTTTATTACTTTC
AACAAAAATATATTATTTTCGTATTTTATTATTTTACATTATTAGTACATTATGTTTGAAATGTA
CTAATTTAATGTGTTTTTTAAATAAATTTGTAAAAAAACCCT
Found at i:45114243 original size:22 final size:22
Alignment explanation
Indices: 45114219--45114300 Score: 119
Period size: 22 Copynumber: 3.7 Consensus size: 22
45114209 GTTCTATAGC
**
45114219 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAAA
* * *
45114241 CATGAGGGTTTAGTTCGTTAAA
1 CATGAGAGCTTAGTACGTTAAA
45114263 CATGAGAGCTTAGTACGTTAAA
1 CATGAGAGCTTAGTACGTTAAA
45114285 CATGAGAGCTTAGTAC
1 CATGAGAGCTTAGTAC
45114301 ATTTATTCTT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAAA
Found at i:45131396 original size:16 final size:17
Alignment explanation
Indices: 45131370--45131402 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
45131360 TTATTTAGAT
*
45131370 ATTTTATAATTTATAAA
1 ATTTTATAATTAATAAA
45131387 ATTTTA-AATTAATAAA
1 ATTTTATAATTAATAAA
45131403 GTTAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTTTATAATTAATAAA
Found at i:45137537 original size:2 final size:2
Alignment explanation
Indices: 45137530--45137554 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
45137520 GATGATTGAA
45137530 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 A
45137555 AATTTTGTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45139656 original size:2 final size:2
Alignment explanation
Indices: 45139649--45139685 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
45139639 TAGACACGCG
* *
45139649 AT AT AT AT AT AT AT AT AT AT AT AT TT AT TT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
45139686 GAGTCCAAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:45141095 original size:4 final size:4
Alignment explanation
Indices: 45141086--45141111 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
45141076 GATTGAACAC
45141086 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
45141112 CGTAGTACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:45141731 original size:3 final size:3
Alignment explanation
Indices: 45141718--45141756 Score: 60
Period size: 3 Copynumber: 12.3 Consensus size: 3
45141708 ATTTTACTTC
45141718 TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CTAT T
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT T
45141757 TTCAGAACGG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 28 0.82
4 6 0.18
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:45146321 original size:24 final size:23
Alignment explanation
Indices: 45146277--45146321 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
45146267 GTTTTATGGC
*
45146277 TTTTAGGGTTTAGGGTGCAGGCT
1 TTTTAGGGTTTAGGGTCCAGGCT
45146300 TTTTAGGAG-TTAGGGGTCCAGG
1 TTTTAGG-GTTTA-GGGTCCAGG
45146322 AAAATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.16, C:0.09, G:0.40, T:0.36
Consensus pattern (23 bp):
TTTTAGGGTTTAGGGTCCAGGCT
Found at i:45147315 original size:28 final size:30
Alignment explanation
Indices: 45147282--45147338 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
45147272 TTGAAAATAT
45147282 TAAAAA-TTTTAAAATTAT-TTAAAAAAAA
1 TAAAAATTTTTAAAATTATCTTAAAAAAAA
*
45147310 TAAAAATTTTTAAAATTTTCTTAAAAAAA
1 TAAAAATTTTTAAAATTATCTTAAAAAAA
45147339 TGAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 6 0.23
29 11 0.42
30 9 0.35
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (30 bp):
TAAAAATTTTTAAAATTATCTTAAAAAAAA
Found at i:45147411 original size:22 final size:22
Alignment explanation
Indices: 45147381--45147422 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
45147371 ATTTGGAGAT
*
45147381 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
45147403 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
45147423 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:45147443 original size:52 final size:51
Alignment explanation
Indices: 45147372--45147515 Score: 135
Period size: 52 Copynumber: 2.9 Consensus size: 51
45147362 TTAATATGGA
* * *
45147372 TTTGGAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TTGAGAG
*
45147423 TTTGAGAGAATTTTGGAAGGAAATTGATAGAAATTTTGAAGGGAATTGAGA-
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
* * *
45147474 ----GA-AATTTTGAAAGG-AATTGAGAGAAATTTTGAAAGAAATTGA
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGA
45147516 TATTGAATTT
Statistics
Matches: 82, Mismatches: 8, Indels: 13
0.80 0.08 0.13
Matches are distributed among these distances:
44 25 0.30
45 11 0.13
46 2 0.02
51 4 0.05
52 31 0.38
53 9 0.11
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:45147449 original size:22 final size:22
Alignment explanation
Indices: 45147424--45147515 Score: 125
Period size: 22 Copynumber: 4.2 Consensus size: 22
45147414 ATTTGAGAGT
45147424 TTGAGAG-AATTTTGGAAGGAAA
1 TTGAGAGAAATTTT-GAAGGAAA
* *
45147446 TTGATAGAAATTTTGAAGGGAA
1 TTGAGAGAAATTTTGAAGGAAA
45147468 TTGAGAGAAATTTTGAAAGG-AA
1 TTGAGAGAAATTTTG-AAGGAAA
*
45147490 TTGAGAGAAATTTTGAAAGAAA
1 TTGAGAGAAATTTTGAAGGAAA
45147512 TTGA
1 TTGA
45147516 TATTGAATTT
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
21 3 0.05
22 50 0.79
23 10 0.16
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.29
Consensus pattern (22 bp):
TTGAGAGAAATTTTGAAGGAAA
Found at i:45147483 original size:12 final size:12
Alignment explanation
Indices: 45147446--45147513 Score: 54
Period size: 12 Copynumber: 6.0 Consensus size: 12
45147436 TGGAAGGAAA
*
45147446 TTGATAGAAATT
1 TTGAAAGAAATT
* *
45147458 TTGAAGGGAA--
1 TTGAAAGAAATT
*
45147468 TTGAGAGAAATT
1 TTGAAAGAAATT
*
45147480 TTGAAAGGAA--
1 TTGAAAGAAATT
*
45147490 TTGAGAGAAATT
1 TTGAAAGAAATT
45147502 TTGAAAGAAATT
1 TTGAAAGAAATT
45147514 GATATTGAAT
Statistics
Matches: 41, Mismatches: 11, Indels: 8
0.68 0.18 0.13
Matches are distributed among these distances:
10 15 0.37
12 26 0.63
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (12 bp):
TTGAAAGAAATT
Found at i:45149973 original size:2 final size:2
Alignment explanation
Indices: 45149966--45150006 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
45149956 AATTAAGGGG
45149966 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
45150007 GCTAATTGGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:45161697 original size:76 final size:76
Alignment explanation
Indices: 45161569--45161718 Score: 212
Period size: 76 Copynumber: 2.0 Consensus size: 76
45161559 CCCAGACTCG
* * * * *
45161569 GGTTTGATACTTTTGAAAACTTCAGTTTCTCTCTCGATGTCCATAGTTAATTCTCCCCGTCTTAC
1 GGTTTGACACATTTGAAAACTTCAGTTTCTCTCTCGATATCCATAGTCAATTCTCCCCGTCCTAC
45161634 GTCTATGGTCT
66 GTCTATGGTCT
* * *
45161645 GGTTTGACACATTTGAATACTTTAGTTTCTC-CTTCGATATCCATAGTCAATTCTCGCCGTCCTA
1 GGTTTGACACATTTGAAAACTTCAGTTTCTCTC-TCGATATCCATAGTCAATTCTCCCCGTCCTA
45161709 CGTCTATGGT
65 CGTCTATGGT
45161719 GGCCCTAGAT
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
75 1 0.02
76 64 0.98
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.41
Consensus pattern (76 bp):
GGTTTGACACATTTGAAAACTTCAGTTTCTCTCTCGATATCCATAGTCAATTCTCCCCGTCCTAC
GTCTATGGTCT
Found at i:45166304 original size:48 final size:47
Alignment explanation
Indices: 45166246--45166354 Score: 123
Period size: 47 Copynumber: 2.3 Consensus size: 47
45166236 TATCCCAGAT
* *
45166246 ATGGTCTTACA-TGGGATCACATATTG-GTGCCGATGCAATGTCCTAGAC
1 ATGGTCTTACACTGGCA-CACATATCGAGT--CGATGCAATGTCCTAGAC
* * *
45166294 ATGGTCTTACACTGGCACTCATCTCGAGTCGATGCCATGTCCTAGAC
1 ATGGTCTTACACTGGCACACATATCGAGTCGATGCAATGTCCTAGAC
*
45166341 ATGGTTTTACACTG
1 ATGGTCTTACACTG
45166355 ACTCTCCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
47 30 0.57
48 17 0.32
49 6 0.11
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (47 bp):
ATGGTCTTACACTGGCACACATATCGAGTCGATGCAATGTCCTAGAC
Found at i:45166334 original size:47 final size:48
Alignment explanation
Indices: 45166272--45166457 Score: 196
Period size: 49 Copynumber: 3.8 Consensus size: 48
45166262 TCACATATTG
* *
45166272 GTGCCGATGCAATGTCCTAGACATGGTCTTACACTGGCACTCATC-TC
1 GTGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCACTCCTCGTC
* * * * * *
45166319 GAGTCGATGCCATGTCCTAGACATGGTTTTACACTGACTCTCCTCTTTC
1 GTGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCACTCCTC-GTC
* * * * *
45166368 GTGCCGATGCCATTTCCCAAACATGGTCATACACTAGCACTCCTCGGTC
1 GTGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCACTCCTC-GTC
*
45166417 TGTGCCGATGCCATGT-CTCAGACATGGTCTTACATTGGCAC
1 -GTGCCGATGCCATGTCCT-AGACATGGTCTTACACTGGCAC
45166458 ACTCACTGCC
Statistics
Matches: 110, Mismatches: 25, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
47 38 0.35
49 40 0.36
50 32 0.29
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.29
Consensus pattern (48 bp):
GTGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCACTCCTCGTC
Found at i:45166394 original size:96 final size:98
Alignment explanation
Indices: 45166272--45166450 Score: 229
Period size: 96 Copynumber: 1.8 Consensus size: 98
45166262 TCACATATTG
* * * * *
45166272 GTGCCGATGCAATGTCCTAGACATGGTCTTACACTGGCACTCATC-TC-GAGTCGATGCCATGTC
1 GTGCCGATGCAATGTCCCAAACATGGTCATACACTAGCACTCATCGTCTGAGCCGATGCCATGTC
*
45166335 -CTAGACATGGTTTTACACTGACTCTCCTCTTTC
66 TC-AGACATGGTCTTACACTGACTCTCCTCTTTC
* * * *
45166368 GTGCCGATGCCATTTCCCAAACATGGTCATACACTAGCACTCCTCGGTCTGTGCCGATGCCATGT
1 GTGCCGATGCAATGTCCCAAACATGGTCATACACTAGCACTCATC-GTCTGAGCCGATGCCATGT
45166433 CTCAGACATGGTCTTACA
65 CTCAGACATGGTCTTACA
45166451 TTGGCACACT
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
96 38 0.55
98 2 0.03
99 28 0.41
100 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (98 bp):
GTGCCGATGCAATGTCCCAAACATGGTCATACACTAGCACTCATCGTCTGAGCCGATGCCATGTC
TCAGACATGGTCTTACACTGACTCTCCTCTTTC
Found at i:45171922 original size:45 final size:45
Alignment explanation
Indices: 45171790--45171933 Score: 137
Period size: 45 Copynumber: 3.2 Consensus size: 45
45171780 ATAGTACTCA
* * * ** * *
45171790 GTGAAATCAGCACATAGCAACCACCTTTATACTCAACGATACCGG
1 GTGAAATCAACACATAGCAATCACCTTTATAATCATTGATATCAG
* * *
45171835 GTGAATTCATCACATAGCAATCA-CTTATATAACCATTGATATCAG
1 GTGAAATCAACACATAGCAATCACCTT-TATAATCATTGATATCAG
** * *
45171880 GTGAAATCAACACATAGCAATCACCTTTATTTTCATTAATATCCG
1 GTGAAATCAACACATAGCAATCACCTTTATAATCATTGATATCAG
*
45171925 GTGGAATCA
1 GTGAAATCA
45171934 GTACATAACA
Statistics
Matches: 80, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
44 3 0.04
45 74 0.93
46 3 0.04
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (45 bp):
GTGAAATCAACACATAGCAATCACCTTTATAATCATTGATATCAG
Found at i:45173676 original size:23 final size:23
Alignment explanation
Indices: 45173643--45173686 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
45173633 TGAAGATTCA
*
45173643 TAATCTAAAAAGATTTTATTTTG
1 TAATCTAAAAAGATTTGATTTTG
*
45173666 TAATCTTAAAAGATTTGATTT
1 TAATCTAAAAAGATTTGATTT
45173687 GTAGATTGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.48
Consensus pattern (23 bp):
TAATCTAAAAAGATTTGATTTTG
Found at i:45174225 original size:23 final size:25
Alignment explanation
Indices: 45174161--45174226 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 25
45174151 AAAAATAAAA
45174161 ATTTACCAAAATATTATAACTTTTTTT
1 ATTTACCAAAATA-TATAAC-TTTTTT
45174188 ATTTACCAAAATATAT-AC-TTTTT
1 ATTTACCAAAATATATAACTTTTTT
45174211 ATTTACCAAAATATAT
1 ATTTACCAAAATATAT
45174227 CAAAAAAACC
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
23 21 0.54
25 2 0.05
26 3 0.08
27 13 0.33
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (25 bp):
ATTTACCAAAATATATAACTTTTTT
Found at i:45174387 original size:4 final size:4
Alignment explanation
Indices: 45174380--45174529 Score: 91
Period size: 4 Copynumber: 37.0 Consensus size: 4
45174370 AAAGGGGAGG
* * * *
45174380 GAAA GAAA GAAA GAAA GAGA GAAA GAAA GGAA GAAA GGAGAG GGAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA -GA-AA GAAA GAAA
* * *
45174430 G-AA -AAA GAAG GAAA GAAA GGGAAA G-GA GAAGA GAAA AAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA --GAAA GAAA GAA-A GAAA GAAA GAAA GAAA
45174478 G-AA G-AA G-AA GAAAA GGAAAA GAGAA GAAA -AAA GAAA GAAA -AAA
1 GAAA GAAA GAAA G-AAA -G-AAA GA-AA GAAA GAAA GAAA GAAA GAAA
45174521 GGAAA GAAA
1 -GAAA GAAA
45174530 AGGAAATGAG
Statistics
Matches: 117, Mismatches: 14, Indels: 30
0.73 0.09 0.19
Matches are distributed among these distances:
3 21 0.18
4 69 0.59
5 17 0.15
6 10 0.09
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:45174428 original size:38 final size:38
Alignment explanation
Indices: 45174386--45174555 Score: 140
Period size: 40 Copynumber: 4.4 Consensus size: 38
45174376 GAGGGAAAGA
* *
45174386 AAGAAAGAAAGAGAGAAAGAAAGGAAGAAAGGAGAGGG
1 AAGAAAGAAAGAAAGAAAGAAAGGAAGAAAGGAGAGAG
*
45174424 AAGAAAGAAAAAGAAGGAAAGAAAGG--GAAAGGAGA-AG
1 AAGAAAG--AAAGAAAGAAAGAAAGGAAGAAAGGAGAGAG
* * *
45174461 -AGAAAAAAAGAAAGAAAGAAGAAGAAGAAAAGGAAAAGAG
1 AAGAAAGAAAGAAAGAAAGAA-AGGAAG-AAAGG-AGAGAG
*
45174501 AAGAAA-AAAGAAAGAAA-AAAGGAAAGAAAAGGAAATGAG
1 AAGAAAGAAAGAAAGAAAGAAAGG-AAG-AAAGGAGA-GAG
45174540 AAGAGAA-AAA-AAAGAA
1 AAGA-AAGAAAGAAAGAA
45174556 GAAGAAGAGG
Statistics
Matches: 112, Mismatches: 8, Indels: 23
0.78 0.06 0.16
Matches are distributed among these distances:
34 13 0.12
35 2 0.02
36 5 0.04
37 2 0.02
38 26 0.23
39 26 0.23
40 33 0.29
41 5 0.04
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.01
Consensus pattern (38 bp):
AAGAAAGAAAGAAAGAAAGAAAGGAAGAAAGGAGAGAG
Found at i:45174470 original size:22 final size:21
Alignment explanation
Indices: 45174435--45174564 Score: 87
Period size: 21 Copynumber: 6.3 Consensus size: 21
45174425 AGAAAGAAAA
*
45174435 AGAAG-GAAAGAAAGGGAAAGG
1 AGAAGAGAAA-AAAAGGAAAGG
*
45174456 AGAAGAGAAAAAAA-GAAAGAA
1 AGAAGAGAAAAAAAGGAAAG-G
* *
45174477 AGAAGAAGAAGAAAAGGAAAAG
1 AGAAG-AGAAAAAAAGGAAAGG
*
45174499 AGAAGA-AAAAAGAAAGAAA--
1 AGAAGAGAAAAA-AAGGAAAGG
*
45174518 A-AAG-GAAAGAAAAGGAAATG
1 AGAAGAGAAA-AAAAGGAAAGG
* *
45174538 AGAAGAGAAAAAAAAG-AAGA
1 AGAAGAGAAAAAAAGGAAAGG
45174558 AGAAGAG
1 AGAAGAG
45174565 GGAAGGAAGG
Statistics
Matches: 87, Mismatches: 11, Indels: 23
0.72 0.09 0.19
Matches are distributed among these distances:
18 12 0.14
19 3 0.03
20 19 0.22
21 28 0.32
22 21 0.24
23 4 0.05
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (21 bp):
AGAAGAGAAAAAAAGGAAAGG
Found at i:45174472 original size:44 final size:44
Alignment explanation
Indices: 45174424--45174592 Score: 173
Period size: 43 Copynumber: 4.1 Consensus size: 44
45174414 AAGGAGAGGG
* *
45174424 AAGAAAGAAAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAAGAGAAGAGAAAAA
45174468 AAGAAAGAAAGAAGAA-G-AAGAAAAGGAAAAGAG-A-AG-AAAA
1 AAGAAAGAAA-AAGAAGGAAAGAAAAGGAAAAGAGAAGAGAAAAA
*
45174508 AAGAAAG-AAAA-AAGGAAAGAAAAGGAAATGAGAAGAGAAAAA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAAGAGAAGAGAAAAA
* * * *
45174550 AA-AGAAGAAGAAG-AGGGAAG-GAAGGAAAA-AAAAGA-AAAAA
1 AAGA-AAGAAAAAGAAGGAAAGAAAAGGAAAAGAGAAGAGAAAAA
45174590 AAG
1 AAG
45174593 GTAATTTTAT
Statistics
Matches: 107, Mismatches: 8, Indels: 23
0.78 0.06 0.17
Matches are distributed among these distances:
37 2 0.02
38 3 0.03
39 17 0.16
40 19 0.18
41 10 0.09
42 17 0.16
43 23 0.21
44 11 0.10
45 5 0.05
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (44 bp):
AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAAGAGAAGAGAAAAA
Found at i:45174476 original size:30 final size:29
Alignment explanation
Indices: 45174380--45174586 Score: 111
Period size: 30 Copynumber: 7.1 Consensus size: 29
45174370 AAAGGGGAGG
45174380 GAAAGAAA-GAAA-GA-AAGAGAGAAAGAAA
1 GAAAGAAAGGAAAGGAGAAGAGA-AAA-AAA
* *
45174408 GGAAGAAAGGAGAGG-GAAGAAAGAAAAAGAA
1 GAAAGAAAGGAAAGGAGAAG--AGAAAAA-AA
45174439 GGAAAGAAAGGGAAAGGAGAAGAGAAAAAAA
1 -GAAAGAAA-GGAAAGGAGAAGAGAAAAAAA
*
45174470 GAAAGAAA-G-AAGAAGAAGA-AAAGGAAAA
1 GAAAGAAAGGAAAGGAGAAGAGAAA--AAAA
*
45174498 GAGAAG-AA--AAA--AGAA-AGAAAAAAG
1 GA-AAGAAAGGAAAGGAGAAGAGAAAAAAA
*
45174522 GAAAGAAAAGGAAATGAGAAGAGAAAAAAAA
1 GAAAG-AAAGGAAAGGAGAAGAG-AAAAAAA
* *
45174553 GAAGAAGAAGAGGGAAGGA-AGGA-AAAAAAA
1 G-A-AAGAA-AGGAAAGGAGAAGAGAAAAAAA
45174583 GAAA
1 GAAA
45174587 AAAAAGGTAA
Statistics
Matches: 144, Mismatches: 10, Indels: 50
0.71 0.05 0.25
Matches are distributed among these distances:
23 3 0.02
24 5 0.03
25 3 0.02
26 10 0.07
27 12 0.08
28 20 0.14
29 11 0.08
30 23 0.16
31 14 0.10
32 23 0.16
33 16 0.11
34 4 0.03
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.00
Consensus pattern (29 bp):
GAAAGAAAGGAAAGGAGAAGAGAAAAAAA
Found at i:45174525 original size:82 final size:84
Alignment explanation
Indices: 45174381--45174589 Score: 243
Period size: 82 Copynumber: 2.5 Consensus size: 84
45174371 AAGGGGAGGG
* ***
45174381 AAAGAAAGAAAGAAAGAGAGAA-AGAAAGGAAGAAAGGAGAGGGAAGAAAGAAAAAGAAGGAAAG
1 AAAGAAAGAAAG-AAGAGAGAAGA-AAAGGAA-AAAGAAGAAAAAAGAAAGAAAAAGAAGGAAAG
*
45174445 AAAGGGAAAGGAGAAGAGAAAA
63 AAAAGGAAAGGAGAAGAGAAAA
45174467 AAAGAAAGAAAGAAGA-AGAAGAAAAGGAAAAGAGAAGAAAAAAGAAAG-AAAA-AAGGAAAGAA
1 AAAGAAAGAAAGAAGAGAGAAGAAAAGGAAAA-AGAAGAAAAAAGAAAGAAAAAGAAGGAAAGAA
*
45174529 AAGGAAATGAGAAGAGAAAA
65 AAGGAAAGGAGAAGAGAAAA
* * *
45174549 AAA-AGAAG-AAGAAGAGGGAAG-GAAGGAAAAAAAAGAAAAAA
1 AAAGA-AAGAAAGAAGAGAGAAGAAAAGGAAAAAGAAGAAAAAA
45174590 AAGGTAATTT
Statistics
Matches: 110, Mismatches: 9, Indels: 14
0.83 0.07 0.11
Matches are distributed among these distances:
80 10 0.09
81 16 0.15
82 38 0.35
83 6 0.05
84 23 0.21
85 5 0.05
86 12 0.11
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (84 bp):
AAAGAAAGAAAGAAGAGAGAAGAAAAGGAAAAAGAAGAAAAAAGAAAGAAAAAGAAGGAAAGAAA
AGGAAAGGAGAAGAGAAAA
Found at i:45174528 original size:39 final size:39
Alignment explanation
Indices: 45174424--45174555 Score: 149
Period size: 39 Copynumber: 3.2 Consensus size: 39
45174414 AAGGAGAGGG
* *
45174424 AAGAAAGAAAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAA
1 AAGAAAG-AAAA-AAGGAAAGAAAAGGAAAAGAG-A-AG-AAAA
* *
45174468 AAGAAAGAAAGAAGAAGAAGAAAAGGAAAAGAGAAGAAAA
1 AAGAAAGAAAAAAGGA-AAGAAAAGGAAAAGAGAAGAAAA
*
45174508 AAGAAAGAAAAAAGGAAAGAAAAGGAAATGAGAAGAGAAA
1 AAGAAAGAAAAAAGGAAAGAAAAGGAAAAGAGAAGA-AAA
45174548 AA-AAAGAA
1 AAGAAAGAA
45174556 GAAGAAGAGG
Statistics
Matches: 79, Mismatches: 7, Indels: 9
0.83 0.07 0.09
Matches are distributed among these distances:
39 25 0.32
40 23 0.29
41 2 0.03
42 5 0.06
43 17 0.22
44 7 0.09
ACGTcount: A:0.71, C:0.00, G:0.28, T:0.01
Consensus pattern (39 bp):
AAGAAAGAAAAAAGGAAAGAAAAGGAAAAGAGAAGAAAA
Done.