Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 147 of 259
Found at i:48058428 original size:29 final size:28
Alignment explanation
Indices: 48058395--48058501 Score: 108
Period size: 30 Copynumber: 3.7 Consensus size: 28
48058385 TTACATTTTG
*
48058395 TATAATTTTCTTAGGATTTTATAAAATTT
1 TATAATTTTTTTA-GATTTTATAAAATTT
* *
48058424 TATAAATTTTTTTATATTTCTAT-ATATTT
1 TAT-AATTTTTTTAGATTT-TATAAAATTT
* *
48058453 TTTAATTTTTTTACGATTTTTGTAAAATTT
1 TATAATTTTTTTA-GA-TTTTATAAAATTT
*
48058483 TATAATTTTTTTATATTTT
1 TATAATTTTTTTAGATTTT
48058502 TTTACGATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
28 14 0.22
29 18 0.28
30 32 0.50
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.64
Consensus pattern (28 bp):
TATAATTTTTTTAGATTTTATAAAATTT
Found at i:48058434 original size:10 final size:10
Alignment explanation
Indices: 48058411--48058516 Score: 56
Period size: 10 Copynumber: 10.7 Consensus size: 10
48058401 TTTCTTAGGA
*
48058411 TTTTATAAAA
1 TTTTATAAAT
48058421 TTTTATAAAT
1 TTTTATAAAT
* *
48058431 TTTTTTATAT
1 TTTTATAAAT
* *
48058441 TTCTATATAT
1 TTTTATAAAT
48058451 TTTT-T-AAT
1 TTTTATAAAT
* *
48058459 TTTTTTACGAT
1 TTTTATA-AAT
* *
48058470 TTTTGTAAAA
1 TTTTATAAAT
48058480 TTTTAT-AAT
1 TTTTATAAAT
* *
48058489 TTTTTTATAT
1 TTTTATAAAT
* *
48058499 TTTTTTACGAT
1 TTTTATA-AAT
48058510 TTTTATA
1 TTTTATA
48058517 TTTTTTTCTA
Statistics
Matches: 74, Mismatches: 17, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
8 6 0.08
9 9 0.12
10 43 0.58
11 16 0.22
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (10 bp):
TTTTATAAAT
Found at i:48058442 original size:19 final size:19
Alignment explanation
Indices: 48058410--48058501 Score: 71
Period size: 19 Copynumber: 4.8 Consensus size: 19
48058400 TTTTCTTAGG
* *
48058410 ATTTTATAAAATTTTATAA
1 ATTTTTTAATATTTTATAA
* *
48058429 ATTTTTTTATATTTCTATAT
1 ATTTTTTAATATTT-TATAA
* *
48058449 ATTTTTTAAT-TTTTTTACG
1 ATTTTTTAATATTTTATA-A
*
48058468 ATTTTTGTAAAATTTTAT-A
1 ATTTTT-TAATATTTTATAA
*
48058487 ATTTTTTTATATTTT
1 ATTTTTTAATATTTT
48058502 TTTACGATTT
Statistics
Matches: 57, Mismatches: 12, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
18 10 0.18
19 26 0.46
20 16 0.28
21 5 0.09
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
ATTTTTTAATATTTTATAA
Found at i:48058502 original size:19 final size:19
Alignment explanation
Indices: 48058421--48058616 Score: 82
Period size: 18 Copynumber: 10.3 Consensus size: 19
48058411 TTTTATAAAA
48058421 TTTTATAAATTTTTTTATAT
1 TTTTAT-AATTTTTTTATAT
* * *
48058441 TTCTATATATTTTTTAATTT
1 TTTTATA-ATTTTTTTATAT
** * * *
48058461 TTTTACGATTTTTGTAAAA
1 TTTTATAATTTTTTTATAT
48058480 TTTTATAATTTTTTTATAT
1 TTTTATAATTTTTTTATAT
* * *
48058499 TTTTTTACGATTTTTATATTT
1 TTTTATA--ATTTTTTTATAT
* *
48058520 TTTTCTAA-TTTTTAATAT
1 TTTTATAATTTTTTTATAT
* * * *
48058538 TTTAAT-ATTTTATTAAAA
1 TTTTATAATTTTTTTATAT
* *
48058556 TTTAATAA--TATTTATAT
1 TTTTATAATTTTTTTATAT
*
48058573 CTTTTAT--TGTTTTTA-ATT
1 -TTTTATAATTTTTTTATA-T
*
48058591 TTTTATAATGTTTTTTCTAAT
1 TTTTATAAT-TTTTTTAT-AT
48058612 TTTTA
1 TTTTA
48058617 ATAAAAGCAT
Statistics
Matches: 125, Mismatches: 37, Indels: 27
0.66 0.20 0.14
Matches are distributed among these distances:
17 13 0.10
18 34 0.27
19 31 0.25
20 24 0.19
21 22 0.18
22 1 0.01
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTTATAATTTTTTTATAT
Found at i:48058503 original size:30 final size:29
Alignment explanation
Indices: 48058411--48058541 Score: 115
Period size: 29 Copynumber: 4.5 Consensus size: 29
48058401 TTTCTTAGGA
48058411 TTTTATAAAATTTTATAAATTTTTTTATAT
1 TTTTATAAAATTTTAT-AATTTTTTTATAT
* * * *
48058441 TTCTAT-ATATTTTTTAATTTTTTTACGAT
1 TTTTATAAAATTTTATAATTTTTTTA-TAT
*
48058470 TTTTGTAAAATTTTATAATTTTTTTATAT
1 TTTTATAAAATTTTATAATTTTTTTATAT
* ** * *
48058499 TTTTTTACGATTTT-TATATTTTTTTCTAA
1 TTTTATAAAATTTTATA-ATTTTTTTATAT
*
48058528 TTTT-TAATATTTTA
1 TTTTATAAAATTTTA
48058542 ATATTTTATT
Statistics
Matches: 81, Mismatches: 16, Indels: 9
0.76 0.15 0.08
Matches are distributed among these distances:
28 19 0.23
29 40 0.49
30 22 0.27
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.66
Consensus pattern (29 bp):
TTTTATAAAATTTTATAATTTTTTTATAT
Found at i:48058513 original size:58 final size:58
Alignment explanation
Indices: 48058374--48058523 Score: 187
Period size: 58 Copynumber: 2.5 Consensus size: 58
48058364 AATTACAAAA
* *
48058374 TTTATATTTCTTTACATTTTGTATAATTTTCTTAGGATTTTATAAAATTTTATAAATTTT
1 TTTATATTTCTTTACATTTT-T-TAATTTTTTTACGATTTTATAAAATTTTATAAATTTT
* * *
48058434 TTTATATTTCTATATATTTTTTAATTTTTTTACGATTTTTGTAAAATTTTAT-AATTTT
1 TTTATATTTCTTTACATTTTTTAATTTTTTTACGA-TTTTATAAAATTTTATAAATTTT
*
48058492 TTTATATTTTTTTACGA-TTTTTATATTTTTTT
1 TTTATATTTCTTTAC-ATTTTTTA-ATTTTTTT
48058524 CTAATTTTTA
Statistics
Matches: 79, Mismatches: 8, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
58 36 0.46
59 25 0.32
60 18 0.23
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (58 bp):
TTTATATTTCTTTACATTTTTTAATTTTTTTACGATTTTATAAAATTTTATAAATTTT
Found at i:48058522 original size:10 final size:10
Alignment explanation
Indices: 48058429--48058540 Score: 72
Period size: 10 Copynumber: 11.5 Consensus size: 10
48058419 AATTTTATAA
48058429 ATTTTTTTAT
1 ATTTTTTTAT
* *
48058439 ATTTCTATAT
1 ATTTTTTTAT
48058449 A-TTTTTTA-
1 ATTTTTTTAT
*
48058457 ATTTTTTTACG
1 ATTTTTTTA-T
* *
48058468 ATTTTTGTAA
1 ATTTTTTTAT
* *
48058478 AATTTTATA-
1 ATTTTTTTAT
48058487 ATTTTTTTAT
1 ATTTTTTTAT
*
48058497 ATTTTTTTACG
1 ATTTTTTTA-T
48058508 A--TTTTTAT
1 ATTTTTTTAT
*
48058516 ATTTTTTTCT
1 ATTTTTTTAT
* *
48058526 AATTTTTAAT
1 ATTTTTTTAT
48058536 ATTTT
1 ATTTT
48058541 AATATTTTAT
Statistics
Matches: 78, Mismatches: 17, Indels: 14
0.72 0.16 0.13
Matches are distributed among these distances:
8 2 0.03
9 25 0.32
10 42 0.54
11 9 0.12
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.69
Consensus pattern (10 bp):
ATTTTTTTAT
Found at i:48058529 original size:40 final size:40
Alignment explanation
Indices: 48058440--48058540 Score: 116
Period size: 40 Copynumber: 2.5 Consensus size: 40
48058430 TTTTTTTATA
*
48058440 TTTCTATATATTTTTTA-ATTTTTTTACGATTTTTGTAAAAT
1 TTTCTA-AT-TTTTTTATATTTTTTTACGATTTTTATAAAAT
* ***
48058481 TTTATAATTTTTTTATATTTTTTTACGATTTTTATATTTT
1 TTTCTAATTTTTTTATATTTTTTTACGATTTTTATAAAAT
*
48058521 TTTCTAA-TTTTTAATATTTT
1 TTTCTAATTTTTTTATATTTT
48058541 AATATTTTAT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 19 0.37
40 28 0.54
41 5 0.10
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.68
Consensus pattern (40 bp):
TTTCTAATTTTTTTATATTTTTTTACGATTTTTATAAAAT
Found at i:48062454 original size:22 final size:23
Alignment explanation
Indices: 48062410--48062454 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
48062400 ATTTCGAGTT
* *
48062410 TTTTTACCCGTATTTTAACTATA
1 TTTTTACCCGTATTATAAATATA
48062433 TTTTTACCCGTA-TATAAATATA
1 TTTTTACCCGTATTATAAATATA
48062455 AATATTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.31, C:0.16, G:0.04, T:0.49
Consensus pattern (23 bp):
TTTTTACCCGTATTATAAATATA
Found at i:48062834 original size:15 final size:15
Alignment explanation
Indices: 48062814--48062861 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
48062804 TGATAAACTA
*
48062814 AAAAAATTAAGTGTT
1 AAAAAATTAAGTATT
*
48062829 AAAAAATTAAATATT
1 AAAAAATTAAGTATT
*
48062844 AAAAAATTAAGTACT
1 AAAAAATTAAGTATT
48062859 AAA
1 AAA
48062862 TTAAAGTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.29
Consensus pattern (15 bp):
AAAAAATTAAGTATT
Found at i:48064238 original size:34 final size:34
Alignment explanation
Indices: 48064195--48064266 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
48064185 ATGTCCCAGA
48064195 CATGGTCTTACACTGACACATCTCGTAGCCGATG
1 CATGGTCTTACACTGACACATCTCGTAGCCGATG
*
48064229 CATGGTCTTACACTGACACATCTCGTAGCTGATG
1 CATGGTCTTACACTGACACATCTCGTAGCCGATG
48064263 CATG
1 CATG
48064267 TCCCAGACAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (34 bp):
CATGGTCTTACACTGACACATCTCGTAGCCGATG
Found at i:48071431 original size:35 final size:34
Alignment explanation
Indices: 48071385--48071484 Score: 137
Period size: 35 Copynumber: 2.9 Consensus size: 34
48071375 TACTCTCTCT
48071385 TTGGTGTGTTTCGATTGGACTAGCTCTTATGAGCA
1 TTGGTGTGTTTCG-TTGGACTAGCTCTTATGAGCA
*
48071420 TTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGTA
1 TTGGTGTGTTTC-GTTGGACTAGCTCTTATGAGCA
* * *
48071455 TTGGCGTGTTACTGTTAGACTAGCTCTTAT
1 TTGGTGTGTTTC-GTTGGACTAGCTCTTAT
48071485 AAGTATTTGA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
35 58 0.98
36 1 0.02
ACGTcount: A:0.16, C:0.14, G:0.28, T:0.42
Consensus pattern (34 bp):
TTGGTGTGTTTCGTTGGACTAGCTCTTATGAGCA
Found at i:48071637 original size:36 final size:36
Alignment explanation
Indices: 48071596--48071670 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
48071586 GAAAGAATAT
* * *
48071596 TTGTGAAATGTTATTGAATTTGATGTTCAGTTTAGA
1 TTGTGAAATGTTATTGAATGTAATGTTCAGATTAGA
48071632 TTGTGAAATGTTATTGAATGTAATGTTCAGATTAGA
1 TTGTGAAATGTTATTGAATGTAATGTTCAGATTAGA
48071668 TTG
1 TTG
48071671 AACGAGGGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.29, C:0.03, G:0.23, T:0.45
Consensus pattern (36 bp):
TTGTGAAATGTTATTGAATGTAATGTTCAGATTAGA
Found at i:48071856 original size:35 final size:35
Alignment explanation
Indices: 48071810--48071907 Score: 162
Period size: 35 Copynumber: 2.8 Consensus size: 35
48071800 TACTCTCTCT
48071810 TTGGTGTGTTTCGATTGGACTAGCTCTTATGAGTA
1 TTGGTGTGTTTCGATTGGACTAGCTCTTATGAGTA
*
48071845 TTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGTA
1 TTGGTGTGTTTCGATTGGACTAGCTCTTATGAGTA
*
48071880 TTGGTGTGTTAC-AGTTGGACTAGCTCTT
1 TTGGTGTGTTTCGA-TTGGACTAGCTCTT
48071908 GTAAGCATTT
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
35 59 1.00
ACGTcount: A:0.15, C:0.12, G:0.30, T:0.43
Consensus pattern (35 bp):
TTGGTGTGTTTCGATTGGACTAGCTCTTATGAGTA
Found at i:48074570 original size:17 final size:18
Alignment explanation
Indices: 48074548--48074581 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
48074538 TATGCTTCAA
48074548 TTGTTTGTG-AATTGTGT
1 TTGTTTGTGAAATTGTGT
48074565 TTGTTTGTGAAATTGTG
1 TTGTTTGTGAAATTGTG
48074582 AACCTAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (18 bp):
TTGTTTGTGAAATTGTGT
Found at i:48079803 original size:19 final size:21
Alignment explanation
Indices: 48079779--48079818 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
48079769 AAGAAACGGC
48079779 TCTCATGCT-AA-TCTCTCAA
1 TCTCATGCTCAATTCTCTCAA
*
48079798 TCTCATGTTCAATTCTCTCAA
1 TCTCATGCTCAATTCTCTCAA
48079819 ACCAAAACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 2 0.11
21 8 0.44
ACGTcount: A:0.25, C:0.30, G:0.05, T:0.40
Consensus pattern (21 bp):
TCTCATGCTCAATTCTCTCAA
Found at i:48096484 original size:43 final size:43
Alignment explanation
Indices: 48096423--48096588 Score: 167
Period size: 43 Copynumber: 3.9 Consensus size: 43
48096413 ATTACCGAGA
* * *
48096423 TGTGATTACATGTAAGACCGTGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* * *
48096466 TGTGATTACGTGTAAGACCATGTTTGGGACATTGGCATCGTTAT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCG-TAT
* * * * *
48096510 T-CGATTTCGTGTAAGACCCTATCTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* * *
48096551 AAGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 -TGTGATTACATGTAAGACCATATCTGGGACATTGGCAT
48096589 TGTACGAGCT
Statistics
Matches: 103, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
41 2 0.02
42 6 0.06
43 91 0.88
44 4 0.04
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
Found at i:48098956 original size:17 final size:19
Alignment explanation
Indices: 48098927--48098961 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
48098917 ATTCTTACAT
48098927 TTATTTGAAACCT-TCCAC
1 TTATTTGAAACCTATCCAC
48098945 TTATTT-AAACCTATCCA
1 TTATTTGAAACCTATCCA
48098962 TTCACTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.26, G:0.03, T:0.40
Consensus pattern (19 bp):
TTATTTGAAACCTATCCAC
Found at i:48105782 original size:49 final size:49
Alignment explanation
Indices: 48105720--48105845 Score: 146
Period size: 49 Copynumber: 2.6 Consensus size: 49
48105710 TATTGTGTGT
* * *
48105720 CAGTGTAATACCTGTTTGGGACATGGCATCGACACT-GATAGATGAGAGC
1 CAGTGTAAGACCTGTTTGGGACATGGCATCGAC-CTCGATAGAAGAAAGC
* * * *
48105769 CAGTGTAAGACCTGTTTGGGACACGACATCGACCTCGATATAAGAAATC
1 CAGTGTAAGACCTGTTTGGGACATGGCATCGACCTCGATAGAAGAAAGC
* *
48105818 CAGTGTAAGACCATGTCTGGGATATGGC
1 CAGTGTAAGACC-TGTTTGGGACATGGC
48105846 GTCGGCATCT
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
48 2 0.03
49 51 0.80
50 11 0.17
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTTTGGGACATGGCATCGACCTCGATAGAAGAAAGC
Found at i:48112637 original size:16 final size:16
Alignment explanation
Indices: 48112581--48112642 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 16
48112571 TCTTCACCAA
48112581 AAGTTTTAGAAATAGT
1 AAGTTTTAGAAATAGT
*
48112597 AAGGGTTTT-GAAGAT-TT
1 AA--GTTTTAGAA-ATAGT
*
48112614 AAAATTTTAGAAATAGT
1 -AAGTTTTAGAAATAGT
48112631 AAGTTTTAGAAA
1 AAGTTTTAGAAA
48112643 GTTTTAGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
16 19 0.53
17 8 0.22
18 9 0.25
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.37
Consensus pattern (16 bp):
AAGTTTTAGAAATAGT
Found at i:48113556 original size:49 final size:49
Alignment explanation
Indices: 48113497--48113622 Score: 173
Period size: 49 Copynumber: 2.6 Consensus size: 49
48113487 TATTGTGTGT
*
48113497 CAGTGTAAGACCTGTTTGGGACATGGCATCGACAC-CGATAGATGAAAGC
1 CAGTGTAAGACCTGTTTGGGACATGGCATCGAC-CTCGATAGAAGAAAGC
* * *
48113546 CAGTGTAAGACCTGTTTGGGACATGACATCGACCTCGATATAAGAAATC
1 CAGTGTAAGACCTGTTTGGGACATGGCATCGACCTCGATAGAAGAAAGC
* *
48113595 CAGTGTAAGACCATGTCTGGGATATGGC
1 CAGTGTAAGACC-TGTTTGGGACATGGC
48113623 GTCGGCATCT
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
48 1 0.01
49 55 0.81
50 12 0.18
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCTGTTTGGGACATGGCATCGACCTCGATAGAAGAAAGC
Found at i:48116858 original size:43 final size:43
Alignment explanation
Indices: 48116746--48116869 Score: 142
Period size: 43 Copynumber: 2.9 Consensus size: 43
48116736 TACCGAGATA
*
48116746 TGATTACGAGTAAGACCATGTCTGGGACATTGGCATTGTATTG
1 TGATTACGAGTAAGACCATGTCTGGGACATTGGCATCGTATTG
* * * * *
48116789 TGGTTACGCGTAAAACTATGTTTGGGACATTGGCATCGTTATT-
1 TGATTACGAGTAAGACCATGTCTGGGACATTGGCATCG-TATTG
* * * *
48116832 TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG
1 TGATTACGAGTAAGACCATGTCTGGGACATTGGCATCG
48116870 ATAAGTGATA
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
43 62 0.94
44 4 0.06
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (43 bp):
TGATTACGAGTAAGACCATGTCTGGGACATTGGCATCGTATTG
Found at i:48124130 original size:42 final size:42
Alignment explanation
Indices: 48124071--48124192 Score: 163
Period size: 43 Copynumber: 2.9 Consensus size: 42
48124061 TAGGGTTAGT
*
48124071 TGAGATTACATGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATTACATGTAAGACCATATCTGGGATATGGCATCAATA
* * * * *
48124113 TGAGATTTCATGTAAGACCATAGCTGGGCTCTTGGAATCAATA
1 TGAGATTACATGTAAGACCATATCTGGGAT-ATGGCATCAATA
* *
48124156 TGAGATCACATGTAAGATCATATCTGGGATATGGCAT
1 TGAGATTACATGTAAGACCATATCTGGGATATGGCAT
48124193 TGGTATGGTA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
42 32 0.48
43 34 0.52
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.30
Consensus pattern (42 bp):
TGAGATTACATGTAAGACCATATCTGGGATATGGCATCAATA
Found at i:48124306 original size:20 final size:20
Alignment explanation
Indices: 48124278--48124315 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48124268 CAATGTTATA
48124278 GTTGGGAAAGACTATGGTAT
1 GTTGGGAAAGACTATGGTAT
* *
48124298 GTTGTGAAAGATTATGGT
1 GTTGGGAAAGACTATGGT
48124316 GATTTGCAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.34, T:0.34
Consensus pattern (20 bp):
GTTGGGAAAGACTATGGTAT
Found at i:48125327 original size:21 final size:22
Alignment explanation
Indices: 48125301--48125341 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
48125291 TGCTAGACAT
*
48125301 AGGGGC-ACATACCCGTGTGGG
1 AGGGGCAACACACCCGTGTGGG
48125322 AGGGGCAACACACCCGTGTG
1 AGGGGCAACACACCCGTGTG
48125342 ACCAATTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.22, C:0.27, G:0.39, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACACCCGTGTGGG
Found at i:48128337 original size:19 final size:19
Alignment explanation
Indices: 48128315--48128376 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
48128305 ATTTTTTAAT
48128315 TATTGAATGATTTTAGCTC
1 TATTGAATGATTTTAGCTC
* *
48128334 TATTTGCATCTG-TTTCA-CTC
1 TA-TTG-A-ATGATTTTAGCTC
*
48128354 TATTGAATGATTTTTGCTC
1 TATTGAATGATTTTAGCTC
48128373 TATT
1 TATT
48128377 TTCCTTCTCC
Statistics
Matches: 33, Mismatches: 5, Indels: 10
0.69 0.10 0.21
Matches are distributed among these distances:
17 2 0.06
18 4 0.12
19 12 0.36
20 8 0.24
21 5 0.15
22 2 0.06
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.52
Consensus pattern (19 bp):
TATTGAATGATTTTAGCTC
Found at i:48128768 original size:17 final size:17
Alignment explanation
Indices: 48128746--48128786 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
48128736 AATTTCCCAA
*
48128746 AGTAATAATGTAATATT
1 AGTAATAATATAATATT
48128763 AGTAATAATATAATATT
1 AGTAATAATATAATATT
48128780 AGTAATA
1 AGTAATA
48128787 GAGAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (17 bp):
AGTAATAATATAATATT
Found at i:48129200 original size:91 final size:91
Alignment explanation
Indices: 48129097--48129441 Score: 512
Period size: 91 Copynumber: 3.7 Consensus size: 91
48129087 TTAATTTATG
* *
48129097 TTGTACTATTATATTAATTTAGGCTTCAATTAATTAACTTTAAAGTTTAAACTGTGGTTTAACAG
1 TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTGTAGTTTAACAG
*
48129162 ACATTTTTTTTGTTTAATTTATGCTA
66 ACTTTTTTTTTGTTTAATTTATGCTA
* *
48129188 TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTGTAGTCTAA-GG
1 TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTGTAGTTTAACAG
48129252 TAACTTTTTTTTTTGTTTAATTTATGCTGTTGTA
66 --AC-TTTTTTTTTGTTTAATTTATGC-----TA
* * *
48129286 CTTGTACTATTATATTAATTTAGGCTCCAATTAACTAACTTTAAAGTTTAAACGGTAGCTTAACA
1 -TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTGTAGTTTAACA
48129351 GACTTTTTTTTTGTTTAATTTATGCTA
65 GACTTTTTTTTTGTTTAATTTATGCTA
* *
48129378 TTGTACTATTATATTAATTTAGACTTCAATTAACTAACTTTAAAGTTTAAAATGTAGTTTAACA
1 TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTGTAGTTTAACA
48129442 TACTATTATA
Statistics
Matches: 229, Mismatches: 15, Indels: 20
0.87 0.06 0.08
Matches are distributed among these distances:
90 1 0.00
91 118 0.52
92 4 0.02
93 21 0.09
97 22 0.10
98 4 0.02
99 58 0.25
100 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.11, T:0.48
Consensus pattern (91 bp):
TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTGTAGTTTAACAG
ACTTTTTTTTTGTTTAATTTATGCTA
Found at i:48135452 original size:40 final size:39
Alignment explanation
Indices: 48135265--48135445 Score: 188
Period size: 40 Copynumber: 4.6 Consensus size: 39
48135255 ATGATGTCCA
* * * *
48135265 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AACCG
* * *
48135305 GACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTAATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-ACCG
* *
48135345 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA-CCG
*
48135384 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AACCG
*
48135424 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
48135446 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 15, Indels: 14
0.80 0.10 0.09
Matches are distributed among these distances:
39 33 0.28
40 77 0.65
41 9 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAACCG
Found at i:48135467 original size:79 final size:79
Alignment explanation
Indices: 48135314--48135478 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
48135304 GGACTAAGAT
* * **
48135314 CCGAAGGCATTTGTGTGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
* *
48135379 ATCTGGGTTAAGTC
66 ATCTCGGTTAAATC
* *
48135393 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
48135456 TATATC-CGGTTAAATT
63 TAAATCTCGGTTAAATC
48135472 CCGAAGG
1 CCGAAGG
48135479 TACGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.66
80 23 0.32
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCTCGGTTAAATC
Found at i:48139761 original size:42 final size:43
Alignment explanation
Indices: 48139682--48139783 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 43
48139672 TCCCGGATGT
* * * *
48139682 GGTCCTACATGTAATTCAGTATCGATGCCTCTGTCCCAGACAA
1 GGTCTTACATGTAAATCAGTATCGATCCCTATGTCCCAGACAA
*
48139725 GGTCTTACATG-AAATCAG-ATACGATCCCTATGTCCCAGACAT
1 GGTCTTACATGTAAATCAGTAT-CGATCCCTATGTCCCAGACAA
* *
48139767 GGTATTACACGTAAATC
1 GGTCTTACATGTAAATC
48139784 TCAAATTGAG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.04
42 33 0.66
43 15 0.30
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
GGTCTTACATGTAAATCAGTATCGATCCCTATGTCCCAGACAA
Found at i:48140118 original size:22 final size:22
Alignment explanation
Indices: 48140093--48140136 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
48140083 ATCTAATACA
48140093 ATTCAAATTCA-ACAATTCAATC
1 ATTC-AATTCATACAATTCAATC
* *
48140115 ATTCATTTCATTCAATTCAATC
1 ATTCAATTCATACAATTCAATC
48140137 CATATACACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATTCAATTCATACAATTCAATC
Found at i:48150789 original size:49 final size:49
Alignment explanation
Indices: 48150736--48150833 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
48150726 TAAAGAAAAA
*
48150736 GTGAAAGTGATTCGTGATTGCTTAAAAGCTACTTTCGGTAGACAGAAAT
1 GTGAAAGTGATTCGTGATTGCTTAAAAGCTACTTTCGATAGACAGAAAT
*
48150785 GTGAAAGTGATTCGTGATTGCTTAAAAGCTACTTTCGATAGATAGAAAT
1 GTGAAAGTGATTCGTGATTGCTTAAAAGCTACTTTCGATAGACAGAAAT
48150834 CATACACAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (49 bp):
GTGAAAGTGATTCGTGATTGCTTAAAAGCTACTTTCGATAGACAGAAAT
Found at i:48152936 original size:36 final size:36
Alignment explanation
Indices: 48152896--48152971 Score: 152
Period size: 36 Copynumber: 2.1 Consensus size: 36
48152886 ATGACATTTA
48152896 TGTTAATTTACTTTATGTTAAATCTATGTTAAAGTG
1 TGTTAATTTACTTTATGTTAAATCTATGTTAAAGTG
48152932 TGTTAATTTACTTTATGTTAAATCTATGTTAAAGTG
1 TGTTAATTTACTTTATGTTAAATCTATGTTAAAGTG
48152968 TGTT
1 TGTT
48152972 TGACGCATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.51
Consensus pattern (36 bp):
TGTTAATTTACTTTATGTTAAATCTATGTTAAAGTG
Found at i:48154653 original size:23 final size:23
Alignment explanation
Indices: 48154627--48154685 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
48154617 AGTACTTTTG
* * *
48154627 TACTTCTGTTATTAGTACTTCGA
1 TACTTCTATTACTAGCACTTCGA
*
48154650 TACTTCTATTACTAGCACTTCGG
1 TACTTCTATTACTAGCACTTCGA
* *
48154673 TGCTTTTATTACT
1 TACTTCTATTACT
48154686 GGCATTTTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.47
Consensus pattern (23 bp):
TACTTCTATTACTAGCACTTCGA
Found at i:48159679 original size:99 final size:99
Alignment explanation
Indices: 48159508--48159703 Score: 356
Period size: 99 Copynumber: 2.0 Consensus size: 99
48159498 CACGTGTCGT
* *
48159508 GCGTGGCCTTCACTTGCTGCCTCTGTGTTTTTTCCGACGCTAACGCTGTGCTCTCTGCTCCCTTC
1 GCGTGGCCTTCACCTGCTGCCTCTGTGTTTTTTCCGACGCCAACGCTGTGCTCTCTGCTCCCTTC
48159573 CAGTCATTCTCTTCTAAGTGGAGGTGTTTTTTTG
66 CAGTCATTCTCTTCTAAGTGGAGGTGTTTTTTTG
* *
48159607 GCGTGGCCTTCACCTGCTGCCTCTGTGTTTTTTCCGACGCCAGCGTTGTGCTCTCTGCTCCCTTC
1 GCGTGGCCTTCACCTGCTGCCTCTGTGTTTTTTCCGACGCCAACGCTGTGCTCTCTGCTCCCTTC
48159672 CAGTCATTCTCTTCTAAGTGGAGGTGTTTTTT
66 CAGTCATTCTCTTCTAAGTGGAGGTGTTTTTT
48159704 GGCTAAATTT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 93 1.00
ACGTcount: A:0.09, C:0.29, G:0.22, T:0.40
Consensus pattern (99 bp):
GCGTGGCCTTCACCTGCTGCCTCTGTGTTTTTTCCGACGCCAACGCTGTGCTCTCTGCTCCCTTC
CAGTCATTCTCTTCTAAGTGGAGGTGTTTTTTTG
Found at i:48160432 original size:16 final size:16
Alignment explanation
Indices: 48160411--48160460 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
48160401 ATATTTAGTC
48160411 ATATAATAAATTATTA
1 ATATAATAAATTATTA
48160427 ATATAAT---TTATTA
1 ATATAATAAATTATTA
* *
48160440 TTTTAATAAATTATTTA
1 ATATAATAAATTA-TTA
48160457 ATAT
1 ATAT
48160461 TTAAATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 11 0.42
16 10 0.38
17 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:48160436 original size:29 final size:30
Alignment explanation
Indices: 48160403--48160460 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
48160393 CATTATTTAT
48160403 ATTTAGTCA-TATAATAAATTA-TTAATATA
1 ATTTA-TCATTATAATAAATTATTTAATATA
* *
48160432 ATTTATTATTTTAATAAATTATTTAATAT
1 ATTTATCATTATAATAAATTATTTAATAT
48160461 TTAAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 16 0.64
30 7 0.28
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (30 bp):
ATTTATCATTATAATAAATTATTTAATATA
Found at i:48160564 original size:15 final size:15
Alignment explanation
Indices: 48160544--48160600 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
48160534 ATTCAATATT
48160544 AATATTTTAATAATA
1 AATATTTTAATAATA
*
48160559 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
48160578 AATATATTAATAATA
1 AATATTTTAATAATA
*
48160593 AATGTTTT
1 AATATTTT
48160601 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:48177524 original size:28 final size:28
Alignment explanation
Indices: 48177470--48177561 Score: 91
Period size: 27 Copynumber: 3.4 Consensus size: 28
48177460 TAAGCATGTG
** *
48177470 TTTAAATTTT-CAAGTG-TATCCTTTAT
1 TTTAAATTTTGCTGGTGTTATCATTTAT
48177496 TTTAAATTTTGCTGGTGTTATCATTTAT
1 TTTAAATTTTGCTGGTGTTATCATTTAT
* * * * *
48177524 TTTGAA-TTTGCTGTTGTTGTCGTTTTT
1 TTTAAATTTTGCTGGTGTTATCATTTAT
48177551 TTTAAATTTTG
1 TTTAAATTTTG
48177562 TTGTTTGTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 10 0.19
27 26 0.48
28 18 0.33
ACGTcount: A:0.20, C:0.08, G:0.14, T:0.59
Consensus pattern (28 bp):
TTTAAATTTTGCTGGTGTTATCATTTAT
Found at i:48184844 original size:4 final size:4
Alignment explanation
Indices: 48184837--48184866 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
48184827 GAAAGCCTCT
*
48184837 TTTA TTTA TTCA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
48184867 CTTTTGCAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:48192639 original size:17 final size:18
Alignment explanation
Indices: 48192617--48192651 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
48192607 AGTTATCAGT
48192617 TTTTATT-TTTGTTTTTG
1 TTTTATTCTTTGTTTTTG
*
48192634 TTTTATTCTTTTTTTTTG
1 TTTTATTCTTTGTTTTTG
48192652 AAATTTCGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.06, C:0.03, G:0.09, T:0.83
Consensus pattern (18 bp):
TTTTATTCTTTGTTTTTG
Found at i:48199313 original size:14 final size:15
Alignment explanation
Indices: 48199286--48199314 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
48199276 CTGCGAGCAT
48199286 CCACATAGCTTGCTC
1 CCACATAGCTTGCTC
48199301 CCACATA-CTTGCTC
1 CCACATAGCTTGCTC
48199315 TAGAAGGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.21, C:0.41, G:0.10, T:0.28
Consensus pattern (15 bp):
CCACATAGCTTGCTC
Found at i:48201294 original size:17 final size:17
Alignment explanation
Indices: 48201244--48201296 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
48201234 CAACATAATG
*
48201244 GGCCCACATGCCCGTGT
1 GGCCTACATGCCCGTGT
* *
48201261 AGGCATACATGCTCGTGT
1 -GGCCTACATGCCCGTGT
*
48201279 GGCCTACATACCCGTGT
1 GGCCTACATGCCCGTGT
48201296 G
1 G
48201297 AGCCCACACG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
17 15 0.52
18 14 0.48
ACGTcount: A:0.17, C:0.32, G:0.28, T:0.23
Consensus pattern (17 bp):
GGCCTACATGCCCGTGT
Found at i:48202854 original size:21 final size:21
Alignment explanation
Indices: 48202815--48202854 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
48202805 ATTACATGTT
**
48202815 TATATTTTTATTATTTAATAA
1 TATATTTTTATTACGTAATAA
*
48202836 TATATTTTTATTCCGTAAT
1 TATATTTTTATTACGTAAT
48202855 TATTATAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (21 bp):
TATATTTTTATTACGTAATAA
Found at i:48205921 original size:23 final size:25
Alignment explanation
Indices: 48205872--48205930 Score: 77
Period size: 23 Copynumber: 2.4 Consensus size: 25
48205862 TTCTGTTTTT
* *
48205872 TTATTTGTTTTTCTTTATTTGTGTA
1 TTATTTGTTTTTCTTAATTTATGTA
*
48205897 TTATTCGTTTTT-TTAATTTAT-TA
1 TTATTTGTTTTTCTTAATTTATGTA
48205920 TTATTTGTTTT
1 TTATTTGTTTT
48205931 ATAATATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 12 0.40
24 7 0.23
25 11 0.37
ACGTcount: A:0.15, C:0.03, G:0.08, T:0.73
Consensus pattern (25 bp):
TTATTTGTTTTTCTTAATTTATGTA
Found at i:48205977 original size:28 final size:27
Alignment explanation
Indices: 48205946--48206006 Score: 63
Period size: 28 Copynumber: 2.2 Consensus size: 27
48205936 ATTTTAAATG
*
48205946 TTTTAT-AATATTTGTTTATTCAATATTT
1 TTTTATGAAAATTTGTTT-TTCAAT-TTT
*
48205974 TTTT-TGAAAATTTGTTTTTTAATTTT
1 TTTTATGAAAATTTGTTTTTCAATTTT
48206000 TTATTAT
1 TT-TTAT
48206007 TTGTTTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
26 5 0.18
27 8 0.29
28 15 0.54
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (27 bp):
TTTTATGAAAATTTGTTTTTCAATTTT
Found at i:48205999 original size:22 final size:21
Alignment explanation
Indices: 48205974--48206031 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
48205964 TTCAATATTT
*
48205974 TTTTTGAAAATTTGTTTTTTAA
1 TTTTT-AAAATTTGTTTTATAA
**
48205996 TTTTTTATTATTTGTTTTATAA
1 -TTTTTAAAATTTGTTTTATAA
48206018 TATTTTAAATATTT
1 T-TTTTAAA-ATTT
48206032 TATAATATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
21 1 0.04
22 18 0.64
23 9 0.32
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTTTAAAATTTGTTTTATAA
Found at i:48206021 original size:14 final size:14
Alignment explanation
Indices: 48205921--48206022 Score: 51
Period size: 14 Copynumber: 7.4 Consensus size: 14
48205911 AATTTATTAT
48205921 TATTTGTTTTATAA
1 TATTTGTTTTATAA
48205935 TATTTTAAATGTTTTATAA
1 TA--TT---TGTTTTATAA
48205954 TATTTG-TTTATTCAA
1 TATTTGTTTTA-T-AA
48205969 TATTT-TTTT-TGAA
1 TATTTGTTTTAT-AA
*
48205982 AATTTGTTTT-T--
1 TATTTGTTTTATAA
*
48205993 TAATT-TTTTAT--
1 TATTTGTTTTATAA
48206004 TATTTGTTTTATAA
1 TATTTGTTTTATAA
48206018 TATTT
1 TATTT
48206023 TAAATATTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 26
0.69 0.05 0.26
Matches are distributed among these distances:
10 4 0.06
11 8 0.11
12 6 0.09
13 11 0.16
14 15 0.21
15 10 0.14
16 2 0.03
17 2 0.03
19 12 0.17
ACGTcount: A:0.27, C:0.01, G:0.06, T:0.66
Consensus pattern (14 bp):
TATTTGTTTTATAA
Found at i:48206028 original size:9 final size:10
Alignment explanation
Indices: 48206010--48206041 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
48206000 TTATTATTTG
48206010 TTTTATAATA
1 TTTTATAATA
48206020 TTTTA-AATA
1 TTTTATAATA
48206029 TTTTATAATA
1 TTTTATAATA
48206039 TTT
1 TTT
48206042 GTTTATTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTATAATA
Found at i:48206059 original size:83 final size:83
Alignment explanation
Indices: 48205905--48206060 Score: 269
Period size: 83 Copynumber: 1.9 Consensus size: 83
48205895 TATTATTCGT
*
48205905 TTTTTTAATTTATTATTATTTGTTTTATAATATTTTAAATGTTTTATAATATTTGTTTATTCAAT
1 TTTTTTAATTTATTATTATTTGTTTTATAATATTTTAAATATTTTATAATATTTGTTTATTCAAT
*
48205970 ATTTTTTTTGAAAATTTG
66 AGTTTTTTTGAAAATTTG
*
48205988 TTTTTTAATTTTTTATTATTTGTTTTATAATATTTTAAATATTTTATAATATTTGTTTATTCAA-
1 TTTTTTAATTTATTATTATTTGTTTTATAATATTTTAAATATTTTATAATATTTGTTTATTCAAT
48206052 ACGTTTTTT
66 A-GTTTTTT
48206061 AATTATATTT
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
82 1 0.01
83 68 0.99
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (83 bp):
TTTTTTAATTTATTATTATTTGTTTTATAATATTTTAAATATTTTATAATATTTGTTTATTCAAT
AGTTTTTTTGAAAATTTG
Found at i:48212588 original size:15 final size:14
Alignment explanation
Indices: 48212563--48212592 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
48212553 AATTATTCAA
48212563 AAAATATATTTTAT
1 AAAATATATTTTAT
48212577 AAAATATAATTTTAT
1 AAAATAT-ATTTTAT
48212592 A
1 A
48212593 TTTCAAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AAAATATATTTTAT
Found at i:48213411 original size:23 final size:23
Alignment explanation
Indices: 48213381--48213432 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
48213371 AAAATATTAT
* *
48213381 AAAACAAATAATAAATAAATAGA
1 AAAACAAATAATAAACAAATAAA
48213404 AAAACAAATAATAAACAAATAAA
1 AAAACAAATAATAAACAAATAAA
48213427 AAAACA
1 AAAACA
48213433 GAAAAAAGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.77, C:0.08, G:0.02, T:0.13
Consensus pattern (23 bp):
AAAACAAATAATAAACAAATAAA
Found at i:48213419 original size:11 final size:11
Alignment explanation
Indices: 48213382--48213425 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
48213372 AAATATTATA
48213382 AAACAAATAAT
1 AAACAAATAAT
* *
48213393 AAATAAATAGAA
1 AAACAAATA-AT
48213405 AAACAAATAAT
1 AAACAAATAAT
48213416 AAACAAATAA
1 AAACAAATAA
48213426 AAAAACAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.75, C:0.07, G:0.02, T:0.16
Consensus pattern (11 bp):
AAACAAATAAT
Found at i:48216208 original size:18 final size:18
Alignment explanation
Indices: 48216187--48216257 Score: 52
Period size: 19 Copynumber: 3.6 Consensus size: 18
48216177 AGTGTTTAGG
48216187 TTTAGGGTTTTATTTATT
1 TTTAGGGTTTTATTTATT
*
48216205 TTTAGGTGTTTATTAATTATAGGT
1 TTTAGG-G-TT-TT-ATT-TA-TT
*
48216229 TGTAGGGTTTTATTTAATT
1 TTTAGGGTTTTATTT-ATT
*
48216248 TCTAGGGTTT
1 TTTAGGGTTT
48216258 AGGGGTTCTG
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
18 6 0.14
19 12 0.29
20 6 0.14
21 4 0.10
22 5 0.12
23 3 0.07
24 6 0.14
ACGTcount: A:0.20, C:0.01, G:0.21, T:0.58
Consensus pattern (18 bp):
TTTAGGGTTTTATTTATT
Found at i:48229251 original size:3 final size:3
Alignment explanation
Indices: 48229243--48229274 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
48229233 AATTCTTTTG
48229243 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
48229275 CTGGGGGGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:48236993 original size:23 final size:22
Alignment explanation
Indices: 48236942--48236993 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
48236932 TAAAGATTTT
*
48236942 ATAATAAT-AGAAATAATTAAA
1 ATAATAATGTGAAATAATTAAA
*
48236963 ATATTAATGTGAAACTAATT-AA
1 ATAATAATGTGAAA-TAATTAAA
48236985 ATACATAAT
1 ATA-ATAAT
48236994 CGAGAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 7 0.28
22 9 0.36
23 9 0.36
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.33
Consensus pattern (22 bp):
ATAATAATGTGAAATAATTAAA
Found at i:48237902 original size:78 final size:78
Alignment explanation
Indices: 48237794--48237985 Score: 289
Period size: 78 Copynumber: 2.5 Consensus size: 78
48237784 TATAGTATTG
* *
48237794 TTTGGACGC-TT-TCACTTAAGATTGTCATATAAGTTGTTTAAGAATATCATATAAGCTATGATA
1 TTTGGACGCTTTATCACTTAAGATTGCCATATAAGCTGTTTAAGAATATCATATAAGCTATGATA
48237857 GTTTGTAGCGTCA
66 GTTTGTAGCGTCA
* *
48237870 TTTGGACGCTTTATCACTTCAGATTGCCATATAAGCTGTTTAAGAATGTCATATAAGCTATGATA
1 TTTGGACGCTTTATCACTTAAGATTGCCATATAAGCTGTTTAAGAATATCATATAAGCTATGATA
*
48237935 GTTTGTAGCGTCT
66 GTTTGTAGCGTCA
* * * *
48237948 TTTGGACTCTTTATCAATTGAGATTACCATATAAGCTG
1 TTTGGACGCTTTATCACTTAAGATTGCCATATAAGCTG
48237986 CGTTAATTTA
Statistics
Matches: 105, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
76 9 0.09
77 2 0.02
78 94 0.90
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (78 bp):
TTTGGACGCTTTATCACTTAAGATTGCCATATAAGCTGTTTAAGAATATCATATAAGCTATGATA
GTTTGTAGCGTCA
Found at i:48238275 original size:21 final size:20
Alignment explanation
Indices: 48238250--48238293 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
48238240 AGTCTACCTT
*
48238250 AAAATAAATGGAGAAGGGAGA
1 AAAATAAAGGGAGAA-GGAGA
*
48238271 AAAATAGAGGGAGAAGGAGA
1 AAAATAAAGGGAGAAGGAGA
48238291 AAA
1 AAA
48238294 GAATGGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.59, C:0.00, G:0.34, T:0.07
Consensus pattern (20 bp):
AAAATAAAGGGAGAAGGAGA
Found at i:48257323 original size:12 final size:12
Alignment explanation
Indices: 48257306--48257342 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
48257296 AGCCACACAC
48257306 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
48257318 CCGTGTGCTAAG
1 CCGTGTGCTAGG
48257330 CCGTGTGCTAGG
1 CCGTGTGCTAGG
48257342 C
1 C
48257343 TGTGCAACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.11, C:0.27, G:0.38, T:0.24
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:48264337 original size:66 final size:65
Alignment explanation
Indices: 48264198--48264341 Score: 164
Period size: 66 Copynumber: 2.2 Consensus size: 65
48264188 CCCGTGTGCC
* * * * * *
48264198 AGGCCATGTGAAAACTGTAGGATATACTGACTTGTGCCACATGGCCAAGCCCTACGCCCATGTGT
1 AGGCCGTGTGAAAACTATAGGATATACTAACTTGTGCCACACGACCAAGCCCCACGCCCA-GTGT
48264263 T
65 T
* * *
48264264 AGGCCGTGTGAAAACTATAGGGTATACTAACTTGTGCTACACGACCAAGCCCCATGCCC-GTGAT
1 AGGCCGTGTGAAAACTATAGGATATACTAACTTGTGCCACACGACCAAGCCCCACGCCCAGTG-T
48264328 CT
65 -T
*
48264330 AGTCCGTGTGAA
1 AGGCCGTGTGAA
48264342 GCTACTGACT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
64 3 0.05
65 1 0.02
66 62 0.94
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (65 bp):
AGGCCGTGTGAAAACTATAGGATATACTAACTTGTGCCACACGACCAAGCCCCACGCCCAGTGTT
Found at i:48268493 original size:48 final size:46
Alignment explanation
Indices: 48268381--48268512 Score: 149
Period size: 48 Copynumber: 2.8 Consensus size: 46
48268371 TCACCCACCA
* * * * * *
48268381 AACACAACCAATCATAGCCTACAAACACAACC-ATATGTACCCTGCG
1 AACACAACCAAT-ATACCCTCCAAACACAACCAATATATAACATCCG
* *
48268427 GACACAACCAAATTTACCCTCCAAACACAACCATATATATAACATCCG
1 AACACAACC-AATATACCCTCCAAACACAACCA-ATATATAACATCCG
48268475 AACACAACCAAGTATACCCTCCAAACACAACCAATATA
1 AACACAACCAA-TATACCCTCCAAACACAACCAATATA
48268513 CTCTTCAACA
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
46 24 0.33
47 10 0.14
48 38 0.53
ACGTcount: A:0.45, C:0.34, G:0.05, T:0.16
Consensus pattern (46 bp):
AACACAACCAATATACCCTCCAAACACAACCAATATATAACATCCG
Found at i:48268508 original size:23 final size:22
Alignment explanation
Indices: 48268373--48268513 Score: 120
Period size: 23 Copynumber: 6.1 Consensus size: 22
48268363 TAAAGCTATC
*
48268373 ACCCACCAAACACAACCAATCAT
1 ACCCTCCAAACACAACCAAT-AT
* * *
48268396 AGCCTACAAACACAACCATATGT
1 ACCCTCCAAACACAACCA-ATAT
* ** *
48268419 ACCCTGCGGACACAACCAAATTT
1 ACCCTCCAAACACAACC-AATAT
48268442 ACCCTCCAAACACAACCATATATAT
1 ACCCTCCAAACACAACC--A-ATAT
* * *
48268467 AACATCCGAACACAACCAAGTAT
1 ACCCTCCAAACACAACCAA-TAT
48268490 ACCCTCCAAACACAACCAATAT
1 ACCCTCCAAACACAACCAATAT
48268512 AC
1 AC
48268514 TCTTCAACAT
Statistics
Matches: 93, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
22 6 0.06
23 66 0.71
24 4 0.04
25 17 0.18
ACGTcount: A:0.44, C:0.36, G:0.05, T:0.15
Consensus pattern (22 bp):
ACCCTCCAAACACAACCAATAT
Found at i:48273230 original size:12 final size:12
Alignment explanation
Indices: 48273213--48273240 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
48273203 GTCTTGCATA
48273213 TAATGAAAATTT
1 TAATGAAAATTT
48273225 TAATGAAAATTT
1 TAATGAAAATTT
48273237 TAAT
1 TAAT
48273241 TACCTACCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (12 bp):
TAATGAAAATTT
Found at i:48274750 original size:28 final size:28
Alignment explanation
Indices: 48274719--48274775 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
48274709 TATACATATA
*
48274719 TATATATGAGAAAAGCATAGGCTTACTT
1 TATATAGGAGAAAAGCATAGGCTTACTT
*
48274747 TATATAGGAGAAAAGTATAGGCTTACTT
1 TATATAGGAGAAAAGCATAGGCTTACTT
48274775 T
1 T
48274776 TAGTATTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (28 bp):
TATATAGGAGAAAAGCATAGGCTTACTT
Found at i:48285854 original size:70 final size:66
Alignment explanation
Indices: 48285765--48285895 Score: 165
Period size: 70 Copynumber: 1.9 Consensus size: 66
48285755 TAAGAAAAGG
**
48285765 CAAAACTACGTCATTTTGATAAATATTTATCTTTATTAAACTTAAAAGTCAAAAACATTATATTA
1 CAAAACTACGTCATTTTGATAAATATTTA-C-CCATTAAA-TTAAAAG-CAAAAACATTATATTA
48285830 AAATA
62 AAATA
* * *
48285835 CAAAACTACGTTC-TTTTGATAAATGTTTACCCATTAAATTAAAAGCAAAACCTTTATATTA
1 CAAAACTACG-TCATTTTGATAAATATTTACCCATTAAATTAAAAGCAAAAACATTATATTA
48285896 TTTATGTAGT
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
66 14 0.25
67 7 0.13
68 6 0.11
69 1 0.02
70 25 0.45
71 2 0.04
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (66 bp):
CAAAACTACGTCATTTTGATAAATATTTACCCATTAAATTAAAAGCAAAAACATTATATTAAAAT
A
Found at i:48292315 original size:43 final size:42
Alignment explanation
Indices: 48292228--48292332 Score: 131
Period size: 43 Copynumber: 2.5 Consensus size: 42
48292218 AAGGTTACTA
* * * *
48292228 AGATTATGTGTAAGACCATATCTGAGATATGGCATCGATACG
1 AGATTACGTGTAAGACCATAACTAAGATATGACATCGATACG
*
48292270 AGACTT-CGTGTAAGACCATAACTAAGCTATTGACATCGATACG
1 AGA-TTACGTGTAAGACCATAACTAAGATA-TGACATCGATACG
*
48292313 AGATTACATGTAAGACCATA
1 AGATTACGTGTAAGACCATA
48292333 TCTGGGATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
42 24 0.44
43 30 0.56
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (42 bp):
AGATTACGTGTAAGACCATAACTAAGATATGACATCGATACG
Found at i:48299980 original size:45 final size:45
Alignment explanation
Indices: 48299896--48300011 Score: 144
Period size: 45 Copynumber: 2.6 Consensus size: 45
48299886 CCGAGTTGTG
* * *
48299896 TTTTTGTGTAAGACCACGTCTGGGAAGTTGTCATTGATATATGTA
1 TTTTCGTGTAAGACCACGTCTGGGACGTTGTCATCGATATATGTA
* *
48299941 TTTTCGTGTAAGACCACGTCTAGGACGTTGGT-ATCGATATATGTG
1 TTTTCGTGTAAGACCACGTCTGGGACGTT-GTCATCGATATATGTA
* * *
48299986 GTTACGTGTAAGACCATGTCTGGGAC
1 TTTTCGTGTAAGACCACGTCTGGGAC
48300012 ATCGGCATCG
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 59 0.97
46 2 0.03
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (45 bp):
TTTTCGTGTAAGACCACGTCTGGGACGTTGTCATCGATATATGTA
Found at i:48300051 original size:41 final size:43
Alignment explanation
Indices: 48299992--48300095 Score: 133
Period size: 41 Copynumber: 2.5 Consensus size: 43
48299982 TGTGGTTACG
** *
48299992 TGTAAGACCATGTCTGGGACA-TCGGCATCG-TATTCGAT-TCA
1 TGTAAGACCATGTCTGGGACAGT-GGCATCGATATGAGATAACA
* *
48300033 TGTAAGACCCTGTTTGGGACAGTGGCATCGATATGAGATAACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGATATGAGATAACA
48300076 TGTAAGACCATGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
48300096 GTTGGTATTG
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
41 26 0.49
42 7 0.13
43 20 0.38
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGATATGAGATAACA
Found at i:48307915 original size:45 final size:45
Alignment explanation
Indices: 48307855--48307972 Score: 164
Period size: 45 Copynumber: 2.6 Consensus size: 45
48307845 TTCCAATTTA
* * * *
48307855 TGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGATATATG
1 TGTTTTCGTGTAAGACCATGTCTGGGACATTGGCATCAATATATG
* *
48307900 TGTTTTCGTGTAAGACCATGTCTAGGACATTGGCATCAATATGTG
1 TGTTTTCGTGTAAGACCATGTCTGGGACATTGGCATCAATATATG
* *
48307945 TGGTTACGTGTAAGACCATGTCTGGGAC
1 TGTTTTCGTGTAAGACCATGTCTGGGAC
48307973 CTCGACATCG
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (45 bp):
TGTTTTCGTGTAAGACCATGTCTGGGACATTGGCATCAATATATG
Found at i:48308857 original size:26 final size:26
Alignment explanation
Indices: 48308828--48308884 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
48308818 GTCTTGATAT
*
48308828 ATATATATATAGGTGTGAGGTGTTTG
1 ATATATATATAGGTGTAAGGTGTTTG
48308854 ATATATATATAGGTGTAAGGTGTTTG
1 ATATATATATAGGTGTAAGGTGTTTG
48308880 ATATA
1 ATATA
48308885 AGATGTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (26 bp):
ATATATATATAGGTGTAAGGTGTTTG
Found at i:48315891 original size:16 final size:17
Alignment explanation
Indices: 48315860--48315892 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
48315850 TTCATAAGTA
48315860 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
48315877 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
48315893 GTTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:48316238 original size:46 final size:47
Alignment explanation
Indices: 48316173--48316496 Score: 448
Period size: 46 Copynumber: 7.1 Consensus size: 47
48316163 TTATCTTTGA
* * * * * *
48316173 CATGATGCCATAGTGTCTTTCAACTATGATCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
**
48316219 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
**
48316265 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
* **
48316311 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
*
48316357 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
*
48316403 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
*
48316449 CATGTTGCCATGGT-TCTTTCAACCATGGTCTTACACA-TTTCATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
48316494 CAT
1 CAT
48316497 AGAGCTCACT
Statistics
Matches: 260, Mismatches: 16, Indels: 5
0.93 0.06 0.02
Matches are distributed among these distances:
45 39 0.15
46 221 0.85
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
Found at i:48318348 original size:11 final size:11
Alignment explanation
Indices: 48318332--48318379 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
48318322 CTTTATATAC
48318332 TAATAAAATAA
1 TAATAAAATAA
*
48318343 TAATAAAATATCT
1 TAATAAAATA--A
* *
48318356 TATTAAAATAT
1 TAATAAAATAA
48318367 TAATAAAATAA
1 TAATAAAATAA
48318378 TA
1 TA
48318380 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:48318682 original size:30 final size:31
Alignment explanation
Indices: 48318614--48318672 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
48318604 CACCCTTAAA
** *
48318614 ATATTTACACTATTAGTCCTTTAAATTTTTC
1 ATATTTACACTATTAACCCTTCAAATTTTTC
48318645 ATATTTACACT-TTAACCCTTCAAATTTT
1 ATATTTACACTATTAACCCTTCAAATTTT
48318673 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.31, C:0.19, G:0.02, T:0.49
Consensus pattern (31 bp):
ATATTTACACTATTAACCCTTCAAATTTTTC
Found at i:48323848 original size:93 final size:93
Alignment explanation
Indices: 48323736--48323908 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
48323726 CGCCCATAAG
** * *
48323736 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATTCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
48323801 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* *
48323829 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
48323894 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
48323909 CAAATATCCC
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:48323851 original size:47 final size:47
Alignment explanation
Indices: 48323729--48323908 Score: 190
Period size: 46 Copynumber: 3.9 Consensus size: 47
48323719 TGTAACCCGC
* * * *
48323729 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTG-TTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGCAT
* * * *
48323775 TCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG---CAT
* * *
48323825 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGCAT
*
48323868 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC
48323909 CAAATATCCC
Statistics
Matches: 111, Mismatches: 15, Indels: 15
0.79 0.11 0.11
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 31 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (47 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGCAT
Found at i:48331970 original size:27 final size:26
Alignment explanation
Indices: 48331942--48332135 Score: 244
Period size: 27 Copynumber: 7.2 Consensus size: 26
48331932 AGGTAAATCA
* * *
48331942 GTCATTTTACCTTATAGGGGTATTACA
1 GTCATTTTACCCTAT-GGGGTATTTCG
**
48331969 GTCATTTTACCCTATGGTGGTATTTTA
1 GTCATTTTACCCTATGG-GGTATTTCG
48331996 GTCATTTTACCCTATGTGGGTATTTCG
1 GTCATTTTACCCTATG-GGGTATTTCG
*
48332023 GTCATTTTACCCAATGAGGGTATTTCG
1 GTCATTTTACCCTATG-GGGTATTTCG
* *
48332050 GTCATTTTACCCTATAAGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGTATTTCG
48332077 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
48332104 GTCGTTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
48332131 GTCAT
1 GTCAT
48332136 CATTTCGGCC
Statistics
Matches: 148, Mismatches: 16, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
26 2 0.01
27 145 0.98
28 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGTATTTCG
Found at i:48332081 original size:81 final size:81
Alignment explanation
Indices: 48331942--48332135 Score: 284
Period size: 81 Copynumber: 2.4 Consensus size: 81
48331932 AGGTAAATCA
* * * *
48331942 GTCATTTTACCTTATAGGGGTATTACAGTCATTTTACCCTATGGTGGTATTTTAGTCATTTTACC
1 GTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATAGTGGTATTTTAGTCATTTTACC
*
48332007 CTATGTGGGTATTTCG
66 CTATGGGGGTATTTCG
* *
48332023 GTCATTTTACCCAAT-GAGGGTATTTCGGTCATTTTACCCTATAAG-GGTATTTTGGTCATTTTA
1 GTCATTTTACCCTATAG-GGGTATTTCGGTCATTTTACCCTAT-AGTGGTATTTTAGTCATTTTA
48332086 CCCTATGGGGGTATTTCG
64 CCCTATGGGGGTATTTCG
*
48332104 GTCGTTTTACCCTATAGGGGTATTTCGGTCAT
1 GTCATTTTACCCTATAGGGGTATTTCGGTCAT
48332136 CATTTCGGCC
Statistics
Matches: 101, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
80 1 0.01
81 98 0.97
82 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (81 bp):
GTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATAGTGGTATTTTAGTCATTTTACC
CTATGGGGGTATTTCG
Found at i:48343071 original size:48 final size:47
Alignment explanation
Indices: 48342999--48343278 Score: 219
Period size: 48 Copynumber: 5.9 Consensus size: 47
48342989 GACATTTGGG
* * *
48342999 TGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCA
1 TGATATGAGAGCCAGTGTAAGACCATGT-TGGGACATGGCATCGGCCA
* * * *
48343047 CGATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACTA
1 TGATATGAGAGCCAGTGTAAGACCATG-TTGGGACATGGCATCGGCCA
* * **
48343095 TGTTGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTAG-CA
1 TGATATGAGAGCCAGTGTAAGACCATGT-TGGGACATGGCATCGGCCA
* * * * *
48343142 TTGATATGTGCGCTAGTGTAAGACCATGTTCGGGACATGGCATCGACAA
1 -TGATATGAGAGCCAGTGTAAGACCATGTT-GGGACATGGCATCGGCCA
* ** * * *
48343191 TGAGACAAGAG---GTGTAAAACCATGTCTGAGACATTGCATCGGCC-
1 TGATATGAGAGCCAGTGTAAGACCATGT-TGGGACATGGCATCGGCCA
* * * *
48343235 TCGACATGTGAGCCAATGTAAGACCATGTTTGGAACATGGCATC
1 T-GATATGAGAGCCAGTGTAAGACCATG-TTGGGACATGGCATC
48343279 TACAAGCCAA
Statistics
Matches: 178, Mismatches: 43, Indels: 22
0.73 0.18 0.09
Matches are distributed among these distances:
44 1 0.01
45 32 0.18
46 1 0.01
47 3 0.02
48 138 0.78
49 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (47 bp):
TGATATGAGAGCCAGTGTAAGACCATGTTGGGACATGGCATCGGCCA
Found at i:48343180 original size:96 final size:96
Alignment explanation
Indices: 48343009--48343278 Score: 282
Period size: 96 Copynumber: 2.8 Consensus size: 96
48342999 TGATATGTGT
*
48343009 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACGATATGAGAGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCCACGATATGAGAGCCAGTGTAAGACCATG
*
48343074 TTTGGAACATGGCATCGACTATGTTGTGAGA
66 TTCGGAACATGGCATCGACTATGTTGTGAGA
* * * * * *
48343105 GCCAGTGTAAGACCATGTCTGGGACATGGCATTAG-CATTGATATGTGCGCTAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCCA-CGATATGAGAGCCAGTGTAAGACCAT
* * * **
48343169 GTTCGGGACATGGCATCGACAATG-AGACA-A
65 GTTCGGAACATGGCATCGACTATGTTGTGAGA
* * * * * * *
48343199 G--AGGTGTAAAACCATGTCT-GAGACATTGCATCGGCCTCGACATGTGAGCCAATGTAAGACCA
1 GCCA-GTGTAAGACCATGTCTAG-GACATGGCATCAGCCACGATATGAGAGCCAGTGTAAGACCA
*
48343261 TGTTTGGAACATGGCATC
64 TGTTCGGAACATGGCATC
48343279 TACAAGCCAA
Statistics
Matches: 145, Mismatches: 25, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
92 2 0.01
93 61 0.42
94 3 0.02
95 4 0.03
96 75 0.52
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (96 bp):
GCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCCACGATATGAGAGCCAGTGTAAGACCATG
TTCGGAACATGGCATCGACTATGTTGTGAGA
Found at i:48343296 original size:38 final size:38
Alignment explanation
Indices: 48343245--48343321 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
48343235 TCGACATGTG
48343245 AGCCAATGTAAGACCATGTTTGGAACATGGCATCTACA
1 AGCCAATGTAAGACCATGTTTGGAACATGGCATCTACA
48343283 AGCCAATGTAAGACCATGTTTGGAACATGGCATCTACA
1 AGCCAATGTAAGACCATGTTTGGAACATGGCATCTACA
48343321 A
1 A
48343322 TTCACCCTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (38 bp):
AGCCAATGTAAGACCATGTTTGGAACATGGCATCTACA
Found at i:48354557 original size:5 final size:5
Alignment explanation
Indices: 48354547--48354571 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
48354537 ACTCAAAGGG
48354547 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
48354572 TGTAAAAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:48358573 original size:31 final size:33
Alignment explanation
Indices: 48358532--48358593 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 33
48358522 TAAACTTAAA
* *
48358532 TAAATATTAAAAATTATATTACTTT-TTATAGT
1 TAAATATTAAAAATAATATTAATTTATTATAGT
*
48358564 TAAAT-TTAAATATAATATTAATTTATTATA
1 TAAATATTAAAAATAATATTAATTTATTATA
48358594 AAAATTGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (33 bp):
TAAATATTAAAAATAATATTAATTTATTATAGT
Found at i:48360277 original size:19 final size:18
Alignment explanation
Indices: 48360252--48360316 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 18
48360242 ATTAATTAAT
48360252 TTTTAAAATTTTTAAAAA
1 TTTTAAAATTTTTAAAAA
*
48360270 TATTTAAAAATATTTTTATAAA
1 T-TTT--AAA-ATTTTTAAAAA
48360292 TTTTAATAA-TTTTAAATAA
1 TTTTAA-AATTTTTAAA-AA
48360311 TTTTAA
1 TTTTAA
48360317 TTTTCAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
18 7 0.18
19 14 0.36
20 1 0.03
21 6 0.15
22 11 0.28
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTTTAAAATTTTTAAAAA
Found at i:48360315 original size:10 final size:9
Alignment explanation
Indices: 48360252--48360316 Score: 58
Period size: 9 Copynumber: 6.7 Consensus size: 9
48360242 ATTAATTAAT
*
48360252 TTTTAAAAT
1 TTTTAAAAA
48360261 TTTTAAAAA
1 TTTTAAAAA
48360270 TATTTAAAAATA
1 T-TTT-AAAA-A
*
48360282 TTTTTATAAA
1 -TTTTAAAAA
*
48360292 TTTTAATAA
1 TTTTAAAAA
48360301 TTTTAAATAA
1 TTTTAAA-AA
48360311 TTTTAA
1 TTTTAA
48360317 TTTTCAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
9 22 0.48
10 12 0.26
11 7 0.15
12 4 0.09
13 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:48360725 original size:46 final size:46
Alignment explanation
Indices: 48360658--48360758 Score: 202
Period size: 46 Copynumber: 2.2 Consensus size: 46
48360648 TCAAAAAAAA
48360658 CAAAACTATGTCGTTTTAATAAATGTTTGCCCATTAAGTTAAAAGG
1 CAAAACTATGTCGTTTTAATAAATGTTTGCCCATTAAGTTAAAAGG
48360704 CAAAACTATGTCGTTTTAATAAATGTTTGCCCATTAAGTTAAAAGG
1 CAAAACTATGTCGTTTTAATAAATGTTTGCCCATTAAGTTAAAAGG
48360750 CAAAACTAT
1 CAAAACTAT
48360759 TATATTGTTC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (46 bp):
CAAAACTATGTCGTTTTAATAAATGTTTGCCCATTAAGTTAAAAGG
Found at i:48364049 original size:48 final size:47
Alignment explanation
Indices: 48363936--48364049 Score: 140
Period size: 48 Copynumber: 2.4 Consensus size: 47
48363926 GTCACAGTAA
* *
48363936 TGCAGATAAACTACCACATAATCAAATTGTGGACAAGCCATCACTTT
1 TGCAGATAAACTACCACATAATAAAATTGTGGACAAGCCACCACTTT
* * ** *
48363983 TGCATATATACTGTCACATAATAAAATTTGTGGATAAGCCACCACTTT
1 TGCAGATAAACTACCACATAATAAAA-TTGTGGACAAGCCACCACTTT
48364031 T-CTAGATAAACTACCACAT
1 TGC-AGATAAACTACCACAT
48364050 TCTTCCACCT
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
47 22 0.41
48 32 0.59
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (47 bp):
TGCAGATAAACTACCACATAATAAAATTGTGGACAAGCCACCACTTT
Found at i:48364119 original size:18 final size:18
Alignment explanation
Indices: 48364096--48364130 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
48364086 ATATGACCAC
*
48364096 AAAATCACTTTTTACTTA
1 AAAATCACTTTTCACTTA
48364114 AAAATCACTTTTCACTT
1 AAAATCACTTTTCACTT
48364131 TGGCATGTGA
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:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATCACTTTTCACTTA
Found at i:48368405 original size:25 final size:27
Alignment explanation
Indices: 48368368--48368420 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
48368358 TCAAACATGC
48368368 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
48368394 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
48368420 A
1 A
48368421 AAACTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:48369938 original size:26 final size:26
Alignment explanation
Indices: 48369908--48369963 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
48369898 TGAAATGCCC
*
48369908 ATCATGGAACATTTACGTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
48369934 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
48369960 ATCA
1 ATCA
48369964 ATTTTTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:48377778 original size:56 final size:57
Alignment explanation
Indices: 48377613--48377779 Score: 189
Period size: 56 Copynumber: 3.0 Consensus size: 57
48377603 CTTACATGTT
* ** * * *
48377613 ATCACATATCAATGCC-ACTGTCCTAAACAGGGTTTTACTCGCACACAA-ATAT-TAGA
1 ATCACATATCGATGCCAAC-GTATTAAACATGGTCTTACTCGCACA-AATATATCGAGA
* * *
48377669 ATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCACACACATGTATCGA-A
1 ATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACAAATATATCGAGA
**
48377725 ATCACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACAAATATATCGA
1 ATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACAAATATATCGA
48377780 TCCCATAGTC
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
55 1 0.01
56 90 0.96
57 3 0.03
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (57 bp):
ATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACAAATATATCGAGA
Found at i:48379355 original size:30 final size:30
Alignment explanation
Indices: 48379319--48379385 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
48379309 TCACTAATAA
* * *
48379319 AATATGTGAAAAGTGAATAATTAGAATTAT
1 AATATGTGAAAAGTAAATAACTAGAATCAT
*
48379349 AATATGTGAAAAGTAAATAGCTAGAATCAT
1 AATATGTGAAAAGTAAATAACTAGAATCAT
*
48379379 AACATGT
1 AATATGT
48379386 TTCCTGTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.49, C:0.04, G:0.16, T:0.30
Consensus pattern (30 bp):
AATATGTGAAAAGTAAATAACTAGAATCAT
Found at i:48381415 original size:22 final size:22
Alignment explanation
Indices: 48381383--48381432 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
48381373 TCCAAAATTA
48381383 GGCACAACTACACAACTCATAT
1 GGCACAACTACACAACTCATAT
*
48381405 GGCACACCTACACAACTCATAT
1 GGCACAACTACACAACTCATAT
48381427 GGCACA
1 GGCACA
48381433 TTACATATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.38, C:0.34, G:0.12, T:0.16
Consensus pattern (22 bp):
GGCACAACTACACAACTCATAT
Found at i:48393610 original size:21 final size:21
Alignment explanation
Indices: 48393584--48393633 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
48393574 GCCACACGGG
*
48393584 CGTGTGATAACTGGGCTAGGC
1 CGTGTGATAACTGGGCCAGGC
*
48393605 CGTGTGATAACTGGGCCAGGT
1 CGTGTGATAACTGGGCCAGGC
48393626 CGTGTGAT
1 CGTGTGAT
48393634 CCACACGGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.38, T:0.26
Consensus pattern (21 bp):
CGTGTGATAACTGGGCCAGGC
Found at i:48397675 original size:3 final size:3
Alignment explanation
Indices: 48397667--48397727 Score: 60
Period size: 3 Copynumber: 21.7 Consensus size: 3
48397657 ATTATAAGTA
* *
48397667 AAT AAT AAT AAT AAT AATT ACT AA- AAT -AT AAT AAT AAT AAT -CT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
48397710 AAT -AT AAT AAT -AT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
48397728 AAGAATAAAG
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
2 9 0.19
3 37 0.77
4 2 0.04
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:48397718 original size:13 final size:13
Alignment explanation
Indices: 48397654--48397726 Score: 62
Period size: 13 Copynumber: 5.5 Consensus size: 13
48397644 TATGTTTACT
*
48397654 TATATTATAAGTAA
1 TATAATATAA-TAA
48397668 -ATAATAATAATAA
1 TATAAT-ATAATAA
*
48397681 TA-ATTACTAA-AA
1 TATAATA-TAATAA
48397693 TATAATAATAATAA
1 TATAAT-ATAATAA
*
48397707 TCTAATATAATAA
1 TATAATATAATAA
48397720 TATAATA
1 TATAATA
48397727 AAAGAATAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
12 5 0.10
13 30 0.62
14 13 0.27
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (13 bp):
TATAATATAATAA
Found at i:48397720 original size:8 final size:8
Alignment explanation
Indices: 48397659--48397727 Score: 61
Period size: 8 Copynumber: 8.0 Consensus size: 8
48397649 TTACTTATAT
48397659 TATAAGTAA
1 TATAA-TAA
48397668 -ATAATAA
1 TATAATAA
48397675 TAATAATAA
1 T-ATAATAA
48397684 TTACTAA-AA
1 -TA-TAATAA
48397693 TATAATAA
1 TATAATAA
48397701 TAATAATCTAA
1 T-ATAA--TAA
48397712 TATAATAA
1 TATAATAA
48397720 TATAATAA
1 TATAATAA
48397728 AAGAATAAAG
Statistics
Matches: 52, Mismatches: 0, Indels: 17
0.75 0.00 0.25
Matches are distributed among these distances:
7 6 0.12
8 20 0.38
9 14 0.27
10 8 0.15
11 4 0.08
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (8 bp):
TATAATAA
Found at i:48406383 original size:20 final size:19
Alignment explanation
Indices: 48406325--48406383 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 19
48406315 ACTTGTTTTA
*
48406325 AAACAATTTTAAGTTGATTG
1 AAAC-ATTTTAACTTGATTG
**
48406345 AAA-ATATTTAACTCAATTG
1 AAACAT-TTTAACTTGATTG
48406364 AAACCATTTTAACTTGATTG
1 AAA-CATTTTAACTTGATTG
48406384 TATTATTTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 2 0.06
19 13 0.42
20 14 0.45
21 2 0.06
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (19 bp):
AAACATTTTAACTTGATTG
Found at i:48407039 original size:23 final size:23
Alignment explanation
Indices: 48407011--48407104 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
48407001 ATGTGTGTAT
* *
48407011 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
48407034 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
48407057 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
48407080 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
48407103 CT
1 CT
48407105 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:48411544 original size:23 final size:23
Alignment explanation
Indices: 48411516--48411609 Score: 125
Period size: 23 Copynumber: 4.1 Consensus size: 23
48411506 ATGTGTGTAT
* *
48411516 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
48411539 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
48411562 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
*
48411585 CTTTTCATATTCAAATCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
48411608 CT
1 CT
48411610 CTTCTAACTT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.23, C:0.26, G:0.03, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:48420065 original size:49 final size:49
Alignment explanation
Indices: 48420012--48420186 Score: 235
Period size: 49 Copynumber: 3.5 Consensus size: 49
48420002 CTGGTACGCA
* *
48420012 TAGTAGCCTGCATTTAGTACTACACATGGGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * * * *
48420061 TAGTAGCCTGCACTTAGTACTACACA-CCTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGC-GA-CCAA-TTATCCGGTACACG
* *
48420112 TAGTAGCCTGCACTTAGTACTACACATGCGACTAATAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
48420161 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
48420187 CGTGACCTCA
Statistics
Matches: 109, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
49 63 0.58
50 6 0.06
51 39 0.36
52 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:48420153 original size:100 final size:100
Alignment explanation
Indices: 48419999--48420187 Score: 333
Period size: 100 Copynumber: 1.9 Consensus size: 100
48419989 TAGCTAAAGC
* * * *
48419999 TATCTGGTACGCATAGTAGCCTGCATTTAGTACTACACATGGGACCAATTATCCGGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAG
48420064 TAGCCTGCACTTAGTACTACACACCTGATCGAAGT
66 TAGCCTGCACTTAGTACTACACACCTGATCGAAGT
*
48420099 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTAATAATCCGGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAG
48420164 TAGCCTGCACTTAGTACTACACAC
66 TAGCCTGCACTTAGTACTACACAC
48420188 GTGACCTCAC
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (100 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAG
TAGCCTGCACTTAGTACTACACACCTGATCGAAGT
Found at i:48428135 original size:24 final size:24
Alignment explanation
Indices: 48428050--48428137 Score: 76
Period size: 24 Copynumber: 3.6 Consensus size: 24
48428040 TTTCATTTCT
48428050 TTATTATTAA-ATTAATTACTT-TTA
1 TTATTATTAATATT-ATT-CTTATTA
* *
48428074 ATATTATTTAATATTATT-ATATTTA
1 TTATTA-TTAATATTATTCTTA-TTA
*
48428099 CTT-TTATTTATATTATTCTTATTA
1 -TTATTATTAATATTATTCTTATTA
48428123 TTATTATTAATATTA
1 TTATTATTAATATTA
48428138 CTATATGTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
23 3 0.06
24 29 0.57
25 15 0.29
26 4 0.08
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (24 bp):
TTATTATTAATATTATTCTTATTA
Found at i:48428170 original size:21 final size:23
Alignment explanation
Indices: 48428151--48428205 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
48428141 TATGTTTTAT
48428151 TATATATGTATATATCTTTAATA
1 TATATATGTATATATCTTTAATA
* *
48428174 TATATATGTATATATATGT-ATA
1 TATATATGTATATATCTTTAATA
*
48428196 TATTTATGTA
1 TATATATGTA
48428206 GTATTATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 12 0.41
23 17 0.59
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (23 bp):
TATATATGTATATATCTTTAATA
Found at i:48428187 original size:10 final size:10
Alignment explanation
Indices: 48428172--48428198 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
48428162 ATATCTTTAA
48428172 TATATATATG
1 TATATATATG
48428182 TATATATATG
1 TATATATATG
48428192 TATATAT
1 TATATAT
48428199 TTATGTAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (10 bp):
TATATATATG
Found at i:48428365 original size:14 final size:13
Alignment explanation
Indices: 48428304--48428412 Score: 61
Period size: 14 Copynumber: 8.2 Consensus size: 13
48428294 TATATTACGT
48428304 ATATATATCTTTTAA
1 ATATATAT-TTTT-A
48428319 ATATTATATTTTT-
1 ATA-TATATTTTTA
**
48428332 ATATATA-TCAT-
1 ATATATATTTTTA
*
48428343 GTATATATTTTTA
1 ATATATATTTTTA
48428356 ATACTATATTATTT-
1 ATA-TATATT-TTTA
48428370 ATATATATTTTTA
1 ATATATATTTTTA
48428383 CATAT-TATCTTATGT-
1 -ATATATAT-TT-T-TA
48428398 ATATAT-TTTTTA
1 ATATATATTTTTA
48428410 ATA
1 ATA
48428413 ACTGTATTAT
Statistics
Matches: 76, Mismatches: 6, Indels: 27
0.70 0.06 0.25
Matches are distributed among these distances:
11 9 0.12
12 13 0.17
13 16 0.21
14 20 0.26
15 12 0.16
16 6 0.08
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.58
Consensus pattern (13 bp):
ATATATATTTTTA
Found at i:48428372 original size:25 final size:25
Alignment explanation
Indices: 48428323--48428516 Score: 134
Period size: 27 Copynumber: 7.8 Consensus size: 25
48428313 TTTTAAATAT
*
48428323 TATATTTTT-ATA-TATATCATGTA
1 TATATTTTTAATACTATATTATGTA
*
48428346 TATATTTTTAATACTATATTATTTATA
1 TATATTTTTAATACTATATTA--TGTA
* *
48428373 TATATTTTTACATATTATCTTATGTA
1 TATATTTTTA-ATACTATATTATGTA
*
48428399 TATATTTTTTAATAACTGTATTATGTA
1 TATA-TTTTTAAT-ACTATATTATGTA
* * ** *
48428426 TGTGTTTTTAACGCTGTATTATGTA
1 TATATTTTTAATACTATATTATGTA
*
48428451 CATATTTTTAATAC-----TATGTA
1 TATATTTTTAATACTATATTATGTA
* * *
48428471 TATACTTTTTATTCCTATTATTACGTA
1 TATA-TTTTTAATACTA-TATTATGTA
48428498 TATA-TTTTAATACGTATAT
1 TATATTTTTAATAC-TATAT
48428517 GTAAATAAGT
Statistics
Matches: 133, Mismatches: 23, Indels: 28
0.72 0.12 0.15
Matches are distributed among these distances:
20 9 0.07
21 8 0.06
23 9 0.07
24 3 0.02
25 37 0.28
26 18 0.14
27 40 0.30
28 9 0.07
ACGTcount: A:0.31, C:0.07, G:0.06, T:0.55
Consensus pattern (25 bp):
TATATTTTTAATACTATATTATGTA
Found at i:48428400 original size:28 final size:27
Alignment explanation
Indices: 48428323--48428467 Score: 110
Period size: 25 Copynumber: 5.6 Consensus size: 27
48428313 TTTTAAATAT
*
48428323 TATATTTTT-ATA-TATATCATG--TA
1 TATATTTTTAATACTATATTATGTATA
*
48428346 TATATTTTTAATACTATATTATTTATA
1 TATATTTTTAATACTATATTATGTATA
* *
48428373 TATATTTTTACATATTATCTTATGTATA
1 TATATTTTTA-ATACTATATTATGTATA
*
48428401 TAT-TTTTTAATAACTGTATTATG--TA
1 TATATTTTTAAT-ACTATATTATGTATA
* * ** *
48428426 TGTGTTTTTAACGCTGTATTATG--TA
1 TATATTTTTAATACTATATTATGTATA
*
48428451 CATATTTTTAATACTAT
1 TATATTTTTAATACTAT
48428468 GTATATACTT
Statistics
Matches: 98, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
23 9 0.09
24 3 0.03
25 34 0.35
26 9 0.09
27 26 0.27
28 17 0.17
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (27 bp):
TATATTTTTAATACTATATTATGTATA
Found at i:48428401 original size:66 final size:66
Alignment explanation
Indices: 48428269--48428403 Score: 166
Period size: 66 Copynumber: 2.0 Consensus size: 66
48428259 AATTTAATAC
* * *
48428269 TATATTATGTATACATTTTTTTATATATATTACGTATATATATCTTTTAAATATTATATTTTTAT
1 TATATCATGTATACATTTTTTAATATATATTACGTATATATATCTTTTAAATATTATATTTGTAT
48428334 A
66 A
* ** * *
48428335 TATATCATGTATATA-TTTTTAATACTATATTATTTATATATAT-TTTTACATATTATCTTATGT
1 TATATCATGTATACATTTTTTAATA-TATATTACGTATATATATCTTTTAAATATTATATT-TGT
48428398 ATA
64 ATA
48428401 TAT
1 TAT
48428404 TTTTTAATAA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
65 22 0.37
66 37 0.63
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (66 bp):
TATATCATGTATACATTTTTTAATATATATTACGTATATATATCTTTTAAATATTATATTTGTAT
A
Found at i:48428897 original size:48 final size:48
Alignment explanation
Indices: 48428836--48429076 Score: 329
Period size: 48 Copynumber: 5.0 Consensus size: 48
48428826 ATAGCTCTCG
*
48428836 TAACAATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACA
1 TAACAAGGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACA
*** * * * *
48428884 TATTTAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA
1 TAACAAGGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACA
*
48428932 TAACAATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACA
1 TAACAAGGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACA
*** * * * *
48428980 TATTGAGGCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCA
1 TAACAAGGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACA
*
48429028 TAACAATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACA
1 TAACAAGGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACA
48429076 T
1 T
48429077 GTACCCTAAC
Statistics
Matches: 161, Mismatches: 32, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 161 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (48 bp):
TAACAAGGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACA
Found at i:48428968 original size:96 final size:96
Alignment explanation
Indices: 48428799--48429076 Score: 484
Period size: 96 Copynumber: 2.9 Consensus size: 96
48428789 TAAGATGCTA
* ** * *
48428799 ATGCTATGTCCCAGACATAATCTTACAATAGCTCTCGTAACAATGCCGATGCCATGTTCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAACA
*
48428864 TGGTCTTACACTGGCTCACATATTTAGGCCG
66 TGGTCTTACACTGGCTCACATATTGAGGCCG
48428895 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAACA
*
48428960 TGGTCTTACACTGGCTCACATATTGAGGCTG
66 TGGTCTTACACTGGCTCACATATTGAGGCCG
*
48428991 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAACA
48429056 TGGTCTTACACTGGCTCACAT
66 TGGTCTTACACTGGCTCACAT
48429077 GTACCCTAAC
Statistics
Matches: 174, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 174 1.00
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAACA
TGGTCTTACACTGGCTCACATATTGAGGCCG
Found at i:48431289 original size:13 final size:13
Alignment explanation
Indices: 48431271--48431302 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
48431261 AGTTAAAATA
48431271 TTTATTCTTTCCT
1 TTTATTCTTTCCT
*
48431284 TTTATTCTTTTCT
1 TTTATTCTTTCCT
48431297 TTTATT
1 TTTATT
48431303 GAACACTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTATTCTTTCCT
Found at i:48432670 original size:35 final size:35
Alignment explanation
Indices: 48432616--48432686 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 35
48432606 TTTTACTCGG
*
48432616 TCGAGTTATTTATTCAAACTCAAATATCATCAGAA
1 TCGAGTTATTCATTCAAACTCAAATATCATCAGAA
*
48432651 TCGAGTTATTCA-TCTAAACTCAAATATCATCGGAA
1 TCGAGTTATTCATTC-AAACTCAAATATCATCAGAA
48432686 T
1 T
48432687 AATTTATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 2 0.06
35 31 0.94
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (35 bp):
TCGAGTTATTCATTCAAACTCAAATATCATCAGAA
Found at i:48435977 original size:3 final size:3
Alignment explanation
Indices: 48435969--48436002 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
48435959 CAAATTGCAA
48435969 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
48436003 GTATTGCATT
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):
AAT
Found at i:48441367 original size:19 final size:19
Alignment explanation
Indices: 48441310--48441368 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
48441300 AAGTTAATGA
48441310 AATTTTAAAAATTAAA-AAT
1 AATTTTAAAAA-TAAATAAT
*
48441329 AATTAT-AAAATAAGAATAAT
1 AATTTTAAAAAT-A-AATAAT
*
48441349 TATTTTAAAAATAAATAAT
1 AATTTTAAAAATAAATAAT
48441368 A
1 A
48441369 TAAAAATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
17 1 0.03
18 5 0.16
19 13 0.41
20 8 0.25
21 5 0.16
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
AATTTTAAAAATAAATAAT
Found at i:48442095 original size:21 final size:22
Alignment explanation
Indices: 48442071--48442115 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
48442061 TTTAATATCA
48442071 TTAA-AAAATTTACAT-AATTTC
1 TTAATAAAA-TTACATAAATTTC
48442092 TTAATAAAATTACATAAATTTC
1 TTAATAAAATTACATAAATTTC
48442114 TT
1 TT
48442116 CAAATTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (22 bp):
TTAATAAAATTACATAAATTTC
Found at i:48444002 original size:262 final size:262
Alignment explanation
Indices: 48443557--48444305 Score: 907
Period size: 266 Copynumber: 2.8 Consensus size: 262
48443547 TTAATCACAC
* * *
48443557 CTGTGAAATTAAGTATTGATAAGTTCTTGAGGTTAAATGTTGTGCAAGCATGATTTATAGTCCAA
1 CTGTGAAATTACGTATTGATAACTTCTTGAGGCTAAATGTTGTGCAAGCATGATTTATAGTCCAA
* *
48443622 GACATACGTGCCTCCACATTGATCATCACAAATC--TTCTAATCTTTTTTTACCAGTTGTTGTTG
66 GACATACGTGCCTTCACATTGATCATTACAAATCTTTTCTAATCTTTTTTTACCAGTTGTTGTTG
* * *
48443685 CTCTAGAAGGGTAATGATTCTTTATACTTTATGCGGTGTATTTACGTATTTGCCCTTAACATAAT
131 CTCTAGAAGGGTAATGATTCCTAATACTTTATGCGGTGTATTTATGTATTTGCCCTTAACATAAT
* * * * *
48443750 ACTAAGGAACCTCCCTTTACTTTTCACAGGTTCAATCGAAATTTGAAGG-AAGAACGT-A-A-TT
196 ACTAAGGAACCTCCCTTTGCTTTTCACACGTTCAACCAAAATTTG-AGGTAA-AAAGTAATACTT
48443811 ATAA
259 ATAA
* * * *
48443815 TTGTGAAATTTCGTATTGGTAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCCAA
1 CTGTGAAATTACGTATTGATAACTTCTTGAGGCTAAATGTTGTGCAAGCATGATTTATAGTCCAA
* * * * * *
48443880 GATATACGTTCCTTTATATTGGTCATTACAAATCTTATTCTAATCTTTTTTTTTCCAGTTGTTGT
66 GACATACGTGCCTTCACATTGATCATTACAAATCTT-TTCTAATC-TTTTTTTACCAGTTGTTGT
* * * *
48443945 TGCTCTAGAAGGGTAATGATTCGTCATAATTTATGCGATGTATTTATGTATTTGCCCTTAACATA
129 TGCTCTAGAAGGGTAATGATTCCTAATACTTTATGCGGTGTATTTATGTATTTGCCCTTAACATA
* * **
48444010 ATATTGAGGAAACCTCGTTTTGCTTTTCACACGTTCAACCAAAATTTGAGGTAAAAAGTACATAC
194 ATACTAAGG-AACCTCCCTTTGCTTTTCACACGTTCAACCAAAATTTGAGGTAAAAAGTA-ATAC
* *
48444075 TTTTAC
257 TTATAA
* * * *
48444081 CGGTGAAATTACATATTGATAACTTTGTTGAGACTAAATGTTGTGCAAGCATGATTTATAGTCCA
1 CTGTGAAATTACGTATTGATAAC-TTCTTGAGGCTAAATGTTGTGCAAGCATGATTTATAGTCCA
* * * * * * *
48444146 GGACATAAGTGCCTTCACGTTGATCATTATAAATCTTGTTCTAATCTTTTTTTGCTAGTTGTTCT
65 AGACATACGTGCCTTCACATTGATCATTACAAATCTT-TTCTAATCTTTTTTTACCAGTTGTTGT
* * * * * * *
48444211 TACTCCAGAAGGGTAATGATTCCTAATCCTTTATGAGGTATATTTATGTATTTTCCCTTTACATA
129 TGCTCTAGAAGGGTAATGATTCCTAATACTTTATGCGGTGTATTTATGTATTTGCCCTTAACATA
*
48444276 ATACTGAGGGAACCTCCCTTTGCTTTTCAC
194 ATACT-AAGGAACCTCCCTTTGCTTTTCAC
48444306 GTCTTCAACT
Statistics
Matches: 411, Mismatches: 68, Indels: 16
0.83 0.14 0.03
Matches are distributed among these distances:
258 85 0.21
261 8 0.02
262 92 0.22
263 34 0.08
264 1 0.00
265 1 0.00
266 114 0.28
267 76 0.18
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.39
Consensus pattern (262 bp):
CTGTGAAATTACGTATTGATAACTTCTTGAGGCTAAATGTTGTGCAAGCATGATTTATAGTCCAA
GACATACGTGCCTTCACATTGATCATTACAAATCTTTTCTAATCTTTTTTTACCAGTTGTTGTTG
CTCTAGAAGGGTAATGATTCCTAATACTTTATGCGGTGTATTTATGTATTTGCCCTTAACATAAT
ACTAAGGAACCTCCCTTTGCTTTTCACACGTTCAACCAAAATTTGAGGTAAAAAGTAATACTTAT
AA
Found at i:48444379 original size:7 final size:7
Alignment explanation
Indices: 48444363--48444393 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
48444353 ACCTTAATCT
48444363 TAAA-CC
1 TAAACCC
48444369 TAAACCC
1 TAAACCC
48444376 TAAACCC
1 TAAACCC
48444383 TAAACCC
1 TAAACCC
48444390 TAAA
1 TAAA
48444394 TCATAATACT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:48447682 original size:24 final size:23
Alignment explanation
Indices: 48447643--48447701 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 23
48447633 ATTGAAATAG
48447643 GAAAGAATAAAAATAAATCA-TA
1 GAAAGAATAAAAATAAATCATTA
48447665 TGAAAGAATTAAAAATAAATCATTA
1 -GAAAGAA-TAAAAATAAATCATTA
*
48447690 GAAAGAAGAAAA
1 GAAAGAATAAAA
48447702 TGATTTCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
23 11 0.33
24 20 0.61
25 2 0.06
ACGTcount: A:0.66, C:0.03, G:0.12, T:0.19
Consensus pattern (23 bp):
GAAAGAATAAAAATAAATCATTA
Done.