Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 21 of 187
Found at i:5962381 original size:16 final size:16
Alignment explanation
Indices: 5962360--5962390 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5962350 ATTTAGTCAT
5962360 TTATCTAAATAAAATA
1 TTATCTAAATAAAATA
*
5962376 TTATCTAATTAAAAT
1 TTATCTAAATAAAAT
5962391 TTAAAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (16 bp):
TTATCTAAATAAAATA
Found at i:5963273 original size:20 final size:19
Alignment explanation
Indices: 5963231--5963270 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
5963221 TTGCCCTTTA
5963231 TTCC-TTTTTTTTAATATT
1 TTCCATTTTTTTTAATATT
5963249 TTCCATTTTTTCTTAGATATT
1 TTCCATTTTTT-TTA-ATATT
5963270 T
1 T
5963271 CCACATCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 6 0.32
20 3 0.16
21 6 0.32
ACGTcount: A:0.17, C:0.12, G:0.03, T:0.68
Consensus pattern (19 bp):
TTCCATTTTTTTTAATATT
Found at i:5964563 original size:10 final size:10
Alignment explanation
Indices: 5964550--5964582 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
5964540 AATCATTTAA
*
5964550 AAATTATTTT
1 AAATAATTTT
5964560 AAATAATTTT
1 AAATAATTTT
5964570 AAATAATTTT
1 AAATAATTTT
5964580 AAA
1 AAA
5964583 ATTGAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
AAATAATTTT
Found at i:5968533 original size:12 final size:12
Alignment explanation
Indices: 5968516--5968542 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
5968506 TATTTTTATT
5968516 AAAAATTATAAA
1 AAAAATTATAAA
5968528 AAAAATTATAAA
1 AAAAATTATAAA
5968540 AAA
1 AAA
5968543 TAAAATCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAAATTATAAA
Found at i:5968575 original size:10 final size:10
Alignment explanation
Indices: 5968560--5968584 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
5968550 AATAAAAGCT
5968560 ATAAATTTTA
1 ATAAATTTTA
5968570 ATAAATTTTA
1 ATAAATTTTA
5968580 ATAAA
1 ATAAA
5968585 AAAATTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
ATAAATTTTA
Found at i:5968648 original size:37 final size:39
Alignment explanation
Indices: 5968607--5968785 Score: 106
Period size: 38 Copynumber: 4.7 Consensus size: 39
5968597 TAAAATTTAT
5968607 TAAAAATTAG-AAAAAAATATAAAAATCGT-AAAAAATA
1 TAAAAATTAGTAAAAAAATATAAAAATCGTAAAAAAATA
* ***
5968644 TAAAAA-TGGTAAAATTTTATAAAAATCGTAAAAAAATA
1 TAAAAATTAGTAAAAAAATATAAAAATCGTAAAAAAATA
* * * * ***
5968682 TATAAAATATA-TAGAAACATAAAAAAAT-ATAAAAGTTTA
1 TA-AAAAT-TAGTAAAAAAATATAAAAATCGTAAAAAAATA
* *
5968721 T-AAAA-TAGTAAGAAAATTATACAAAAT-GTAAAGAAATA
1 TAAAAATTAGTAA-AAAAATATA-AAAATCGTAAAAAAATA
* * *
5968759 T-AAATTTCGAAAAAAAATTATAAAAAT
1 TAAAAATTAGTAAAAAAA-TATAAAAAT
5968786 TATGCACCAA
Statistics
Matches: 105, Mismatches: 27, Indels: 19
0.70 0.18 0.13
Matches are distributed among these distances:
35 2 0.02
36 4 0.04
37 32 0.30
38 34 0.32
39 20 0.19
40 12 0.11
41 1 0.01
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.26
Consensus pattern (39 bp):
TAAAAATTAGTAAAAAAATATAAAAATCGTAAAAAAATA
Found at i:5968664 original size:19 final size:18
Alignment explanation
Indices: 5968618--5968689 Score: 90
Period size: 18 Copynumber: 3.8 Consensus size: 18
5968608 AAAAATTAGA
5968618 AAAAAATATAAAAATCGT
1 AAAAAATATAAAAATCGT
*
5968636 AAAAAATATAAAAATGGT
1 AAAAAATATAAAAATCGT
**
5968654 AAAATTTTATAAAAATCGT
1 AAAA-AATATAAAAATCGT
5968673 AAAAAAATATATAAAAT
1 -AAAAAATATA-AAAAT
5968690 ATATAGAAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
18 21 0.47
19 15 0.33
20 9 0.20
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (18 bp):
AAAAAATATAAAAATCGT
Found at i:5968688 original size:10 final size:10
Alignment explanation
Indices: 5968593--5968725 Score: 55
Period size: 9 Copynumber: 13.8 Consensus size: 10
5968583 AAAAAATTAA
*
5968593 ATATTAAAAT
1 ATATAAAAAT
*
5968603 TTATTAAAAAT
1 ATA-TAAAAAT
* *
5968614 -TAGAAAAAA
1 ATATAAAAAT
5968623 ATATAAAAAT
1 ATATAAAAAT
**
5968633 -CGTAAAAA-
1 ATATAAAAAT
5968641 ATATAAAAAT
1 ATATAAAAAT
** *
5968651 -GGTAAAATT
1 ATATAAAAAT
*
5968660 TTATAAAAAT
1 ATATAAAAAT
* *
5968670 CGTAAAAAAAT
1 -ATATAAAAAT
5968681 ATAT-AAAAT
1 ATATAAAAAT
* *
5968690 ATATAGAAAC
1 ATATAAAAAT
5968700 ATA-AAAAA-
1 ATATAAAAAT
*
5968708 ATATAAAAGT
1 ATATAAAAAT
*
5968718 TTATAAAA
1 ATATAAAA
5968726 TAGTAAGAAA
Statistics
Matches: 89, Mismatches: 25, Indels: 18
0.67 0.19 0.14
Matches are distributed among these distances:
8 3 0.03
9 40 0.45
10 32 0.36
11 14 0.16
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (10 bp):
ATATAAAAAT
Found at i:5968707 original size:58 final size:53
Alignment explanation
Indices: 5968591--5968762 Score: 134
Period size: 58 Copynumber: 3.0 Consensus size: 53
5968581 TAAAAAAATT
5968591 AAATATTAAAA-TTTATTAAAAATTAG-AAAAAAATATAAAAATCGTAA-AAAATATAA
1 AAATA-TAAAAGTTTA-T-AAAA-TAGTAAAAAAATATAAAAAT-GTAAGAAAATA-AA
* * * *
5968647 AAATGGTAAAATTTTATAAAAATCGTAAAAAAATATATAAAATATATAGAAACATAAAA
1 AAAT-ATAAAAGTTTAT-AAAATAGTAAAAAAATATA-AAAATGTA-AGAAA-AT-AAA
*
5968706 AAATATAAAAGTTTATAAAATAGTAAGAAAATTATACAAAATGTAAAGAAATATAAA
1 AAATATAAAAGTTTATAAAATAGTAA-AAAAATATA-AAAATGT-AAGAAA-ATAAA
5968763 TTTCGAAAAA
Statistics
Matches: 96, Mismatches: 10, Indels: 19
0.77 0.08 0.15
Matches are distributed among these distances:
55 2 0.02
56 28 0.29
57 22 0.23
58 34 0.35
59 9 0.09
60 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.27
Consensus pattern (53 bp):
AAATATAAAAGTTTATAAAATAGTAAAAAAATATAAAAATGTAAGAAAATAAA
Found at i:5968994 original size:19 final size:20
Alignment explanation
Indices: 5968970--5969023 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 20
5968960 TTTATAAAAA
5968970 ATATTTTAATAAATTTT-TT
1 ATATTTTAATAAATTTTATT
*
5968989 ATATTTT-AT-ATTTTTATT
1 ATATTTTAATAAATTTTATT
* *
5969007 AAAATTTAATAAATTTT
1 ATATTTTAATAAATTTT
5969024 CTAAAATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
17 5 0.18
18 9 0.32
19 9 0.32
20 5 0.18
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
ATATTTTAATAAATTTTATT
Found at i:5968995 original size:33 final size:30
Alignment explanation
Indices: 5968917--5968998 Score: 96
Period size: 30 Copynumber: 2.6 Consensus size: 30
5968907 AAGGGTCATT
*
5968917 AATTTTTTATGATTTT-TATAAAAATTTAA
1 AATTTTTTATGATTTTATAAAAAAATTTAA
5968946 AATTTATTTATGATTTTATAAAAAATATTTTAATA
1 AATTT-TTTATGATTTTATAAAAAA-A-TTT-A-A
5968981 AATTTTTTAT-ATTTTATA
1 AATTTTTTATGATTTTATA
5968999 TTTTTATTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
29 5 0.11
30 11 0.24
31 6 0.13
32 1 0.02
33 11 0.24
34 6 0.13
35 6 0.13
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (30 bp):
AATTTTTTATGATTTTATAAAAAAATTTAA
Found at i:5971877 original size:115 final size:115
Alignment explanation
Indices: 5971664--5971877 Score: 313
Period size: 115 Copynumber: 1.9 Consensus size: 115
5971654 CTCCTTCCAG
* * * **
5971664 TCCACTGTGTCTCATTGCTTCGATCCACTCTACTGTACTTCAGAGAGATATGAGTTGTAGCTTCA
1 TCCACTATGTCTCATTGCTTCAATCCACTCTACTGCACTTCAGAGAGATATGACCTGTAGCTTCA
* * *
5971729 ATCTTTTTCGCAGCAACTTCAAGGGGACGAGATTCATGGTTTTAGTCTAC
66 ATCTTCTTCGCAGCAACTTCAAGGAGACAAGATTCATGGTTTTAGTCTAC
* *
5971779 TCCACTATGTCTCGTTGCTTCAATGCACTCTACTGCACTTCAGAGAGATATGACCTGTAGCTTCA
1 TCCACTATGTCTCATTGCTTCAATCCACTCTACTGCACTTCAGAGAGATATGACCTGTAGCTTCA
*
5971844 ATCTTCTTCGCAGCAACTTC-AGAGAGATAAGATT
66 ATCTTCTTCGCAGCAACTTCAAG-GAGACAAGATT
5971878 GGTTTAACCT
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
114 2 0.02
115 85 0.98
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (115 bp):
TCCACTATGTCTCATTGCTTCAATCCACTCTACTGCACTTCAGAGAGATATGACCTGTAGCTTCA
ATCTTCTTCGCAGCAACTTCAAGGAGACAAGATTCATGGTTTTAGTCTAC
Found at i:5972102 original size:50 final size:50
Alignment explanation
Indices: 5971968--5972723 Score: 611
Period size: 50 Copynumber: 15.2 Consensus size: 50
5971958 ATGTAATTTA
*
5971968 TAGCTTCAATCTGTTCCACTGCAACT-TCAGGGAAATAAGATT---CG-T-
1 TAGCTTCAATCTGTTCCACTGC-ACTGTCAGGGAAGTAAGATTCGCCGTTG
** * ** * * * *
5972013 TATTTTCAATCTATTTAACTACAATGTC-GGGAAGCAAGATTCGCCATTG
1 TAGCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTAAGATTCGCCGTTG
* * *
5972062 TAGCTTCAATCTGTTCCATTGCACTGTCAGGGAAGTAAGATTCGCTGTCG
1 TAGCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTAAGATTCGCCGTTG
** * * ** * *
5972112 TAGCTTCAATCTGTTTAACTGCAATGTCGGGGAAACAAAATTGGCCGTTG
1 TAGCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTAAGATTCGCCGTTG
* * * *
5972162 TAGCTTCAATCTGTTCCACTGCACCG-CTAGGGAAGTAAGATTTGCTGTCG
1 TAGCTTCAATCTGTTCCACTGCACTGTC-AGGGAAGTAAGATTCGCCGTTG
** * * *
5972212 TAGCTTCAATCTGTTTAACTGCAATGTC-GCGGAAGTAAGATTCACCGTTT
1 TAGCTTCAATCTGTTCCACTGCACTGTCAG-GGAAGTAAGATTCGCCGTTG
* * * **
5972262 TAGCTTCAATTTGTTCCACTGCACTGCCAGGGAAGTAAGATTCGCTGTCA
1 TAGCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTAAGATTCGCCGTTG
* ** * * * * * *
5972312 TAGCTTCAATCTATTTAACTGTAATGTCGGGGATGCAAGATTTGCCGTTG
1 TAGCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTAAGATTCGCCGTTG
* * * * *
5972362 TAGCTTCAATCTGTTCCACTTCACCG-CGAAGGAAGTAACATTCGCTGTCT-
1 TAGCTTCAATCTGTTCCACTGCACTGTC-AGGGAAGTAAGATTCGCCGT-TG
* ** * * *
5972412 TAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTG
1 TAGCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTAAGATTCGCCGTTG
* * * *
5972462 TAGCTTCAATCTGTTCCACTGCACCG-CTAGGGAAGTAAGATTTGCTGTCG
1 TAGCTTCAATCTGTTCCACTGCACTGTC-AGGGAAGTAAGATTCGCCGTTG
** * * *
5972512 TAGCTTCAATCTGTTTAACTGCAATGTC-GCGGAAGTAAGATTCACCGTTT
1 TAGCTTCAATCTGTTCCACTGCACTGTCAG-GGAAGTAAGATTCGCCGTTG
* * * **
5972562 TAGCTTCAATTTGTTCCACTGCACTGCCAGGGAAGTAAGATTCGCTGTCA
1 TAGCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTAAGATTCGCCGTTG
* ** * * * * * *
5972612 TAGCTTCAATCTATTTAACTGTAATGTCGGGGATGCAAGATTTGCCGTTG
1 TAGCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTAAGATTCGCCGTTG
* * * *
5972662 TAGCTTCAATCTGTTCCACTGCACCGCCATGGAAGTAAGATTCGCTGTTG
1 TAGCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTAAGATTCGCCGTTG
*
5972712 TAGCTTTAATCT
1 TAGCTTCAATCT
5972724 ATTTAATTGT
Statistics
Matches: 535, Mismatches: 157, Indels: 33
0.74 0.22 0.05
Matches are distributed among these distances:
44 13 0.02
45 18 0.03
47 1 0.00
48 1 0.00
49 26 0.05
50 470 0.88
51 6 0.01
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (50 bp):
TAGCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTAAGATTCGCCGTTG
Found at i:5972504 original size:300 final size:299
Alignment explanation
Indices: 5971968--5972729 Score: 1227
Period size: 300 Copynumber: 2.6 Consensus size: 299
5971958 ATGTAATTTA
* * * *
5971968 TAGCTTCAATCTGTTCCACTGCAACT-TCAGGGAAATAAGATTCG-T-T-AT--TTTCAATCTAT
1 TAGCTTCAATTTGTTCCACTGC-ACTGCCAGGGAAGTAAGATTCGCTGTCATAGCTTCAATCTAT
** * * * *
5972027 TTAACTACAATGTC-GGGAAGCAAGATTCGCCATTGTAGCTTCAATCTGTTCCA-TTGCACTGTC
65 TTAACTGTAATGTCGGGGATGCAAGATTTGCCGTTGTAGCTTCAATCTGTTCCACTT-CACCG-C
* * * *
5972090 AGGGAAGTAAGATTCGCTGTCGTAGCTTCAATCTGTTTAACTGCAATGTCGGGGAAACAAAATTG
128 AAGGAAGTAAGATTCGCTGTCTTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAACAAAATTC
5972155 GCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCTAGGGAAGTAAGATTTGCTGTCGTAGCTTCA
193 GCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCTAGGGAAGTAAGATTTGCTGTCGTAGCTTCA
5972220 ATCTGTTTAACTGCAATGTCGCGGAAGTAAGATTCACCGTTT
258 ATCTGTTTAACTGCAATGTCGCGGAAGTAAGATTCACCGTTT
5972262 TAGCTTCAATTTGTTCCACTGCACTGCCAGGGAAGTAAGATTCGCTGTCATAGCTTCAATCTATT
1 TAGCTTCAATTTGTTCCACTGCACTGCCAGGGAAGTAAGATTCGCTGTCATAGCTTCAATCTATT
5972327 TAACTGTAATGTCGGGGATGCAAGATTTGCCGTTGTAGCTTCAATCTGTTCCACTTCACCGCGAA
66 TAACTGTAATGTCGGGGATGCAAGATTTGCCGTTGTAGCTTCAATCTGTTCCACTTCACCGC-AA
* * *
5972392 GGAAGTAACATTCGCTGTCTTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGC
130 GGAAGTAAGATTCGCTGTCTTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAACAAAATTCGC
5972457 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCTAGGGAAGTAAGATTTGCTGTCGTAGCTTCAAT
195 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCTAGGGAAGTAAGATTTGCTGTCGTAGCTTCAAT
5972522 CTGTTTAACTGCAATGTCGCGGAAGTAAGATTCACCGTTT
260 CTGTTTAACTGCAATGTCGCGGAAGTAAGATTCACCGTTT
5972562 TAGCTTCAATTTGTTCCACTGCACTGCCAGGGAAGTAAGATTCGCTGTCATAGCTTCAATCTATT
1 TAGCTTCAATTTGTTCCACTGCACTGCCAGGGAAGTAAGATTCGCTGTCATAGCTTCAATCTATT
* *
5972627 TAACTGTAATGTCGGGGATGCAAGATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAT
66 TAACTGTAATGTCGGGGATGCAAGATTTGCCGTTGTAGCTTCAATCTGTTCCACTTCACCG-CAA
*
5972692 GGAAGTAAGATTCGCTGT-TGTAGCTTTAATCTATTTAA
130 GGAAGTAAGATTCGCTGTCT-TAGCTTCAATCTATTTAA
5972730 TTGTAATGCC
Statistics
Matches: 436, Mismatches: 21, Indels: 16
0.92 0.04 0.03
Matches are distributed among these distances:
293 3 0.01
294 37 0.08
295 1 0.00
296 1 0.00
297 2 0.00
299 24 0.06
300 365 0.84
301 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (299 bp):
TAGCTTCAATTTGTTCCACTGCACTGCCAGGGAAGTAAGATTCGCTGTCATAGCTTCAATCTATT
TAACTGTAATGTCGGGGATGCAAGATTTGCCGTTGTAGCTTCAATCTGTTCCACTTCACCGCAAG
GAAGTAAGATTCGCTGTCTTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAACAAAATTCGCC
GTTGTAGCTTCAATCTGTTCCACTGCACCGCTAGGGAAGTAAGATTTGCTGTCGTAGCTTCAATC
TGTTTAACTGCAATGTCGCGGAAGTAAGATTCACCGTTT
Found at i:5972737 original size:100 final size:100
Alignment explanation
Indices: 5971968--5972729 Score: 1041
Period size: 100 Copynumber: 7.7 Consensus size: 100
5971958 ATGTAATTTA
* ** * **
5971968 TAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATT--C-GT--TATTTTCAATCTATT
1 TAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTCGTAGCTTCAATCTATT
* *
5972028 TAACTACAATGTC-GGGAAGCAAGATTCGCCATTG
66 TAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTG
* * * *
5972062 TAGCTTCAATCTGTTCCATTGCACTGTCAGGGAAGTAAGATTCGCTGTCGTAGCTTCAATCTGTT
1 TAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTCGTAGCTTCAATCTATT
* * *
5972127 TAACTGCAATGTCGGGGAAACAAAATTGGCCGTTG
66 TAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTG
* * *
5972162 TAGCTTCAATCTGTTCCACTGCACCGCTAGGGAAGTAAGATTTGCTGTCGTAGCTTCAATCTGTT
1 TAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTCGTAGCTTCAATCTATT
* * * *
5972227 TAACTGCAATGTCGCGGAAGTAAGATTCACCGTTT
66 TAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTG
* * *
5972262 TAGCTTCAATTTGTTCCACTGCACTGCCAGGGAAGTAAGATTCGCTGTCATAGCTTCAATCTATT
1 TAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTCGTAGCTTCAATCTATT
* * *
5972327 TAACTGTAATGTCGGGGATGCAAGATTTGCCGTTG
66 TAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTG
* * * * *
5972362 TAGCTTCAATCTGTTCCACTTCACCGCGAAGGAAGTAACATTCGCTGTCTTAGCTTCAATCTATT
1 TAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTCGTAGCTTCAATCTATT
5972427 TAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTG
66 TAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTG
* * *
5972462 TAGCTTCAATCTGTTCCACTGCACCGCTAGGGAAGTAAGATTTGCTGTCGTAGCTTCAATCTGTT
1 TAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTCGTAGCTTCAATCTATT
* * * *
5972527 TAACTGCAATGTCGCGGAAGTAAGATTCACCGTTT
66 TAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTG
* * *
5972562 TAGCTTCAATTTGTTCCACTGCACTGCCAGGGAAGTAAGATTCGCTGTCATAGCTTCAATCTATT
1 TAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTCGTAGCTTCAATCTATT
* * *
5972627 TAACTGTAATGTCGGGGATGCAAGATTTGCCGTTG
66 TAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTG
* * *
5972662 TAGCTTCAATCTGTTCCACTGCACCGCCATGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTATT
1 TAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTCGTAGCTTCAATCTATT
5972727 TAA
66 TAA
5972730 TTGTAATGCC
Statistics
Matches: 584, Mismatches: 78, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
94 37 0.06
96 1 0.00
97 2 0.00
99 24 0.04
100 520 0.89
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (100 bp):
TAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTCGTAGCTTCAATCTATT
TAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTG
Found at i:5974544 original size:14 final size:14
Alignment explanation
Indices: 5974527--5974556 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
5974517 TTTCCTTTTC
5974527 TTTTTTGAAATATA
1 TTTTTTGAAATATA
5974541 TTTTTTGAAATATA
1 TTTTTTGAAATATA
5974555 TT
1 TT
5974557 ACGGTCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (14 bp):
TTTTTTGAAATATA
Found at i:5975249 original size:21 final size:21
Alignment explanation
Indices: 5975167--5975251 Score: 62
Period size: 21 Copynumber: 4.0 Consensus size: 21
5975157 AAGCCCGAAG
* * *
5975167 GCTGAACAGAAGCTCATGAGA
1 GCTGAACAGAAACCCATAAGA
* *
5975188 GCTAAACAGAAACCCATAAGG
1 GCTGAACAGAAACCCATAAGA
* ** * * *
5975209 GTTGAATGGAAGCTCGTAAGA
1 GCTGAACAGAAACCCATAAGA
*
5975230 GCTGAACGGAAACCCATAAGA
1 GCTGAACAGAAACCCATAAGA
5975251 G
1 G
5975252 TTAAACATAA
Statistics
Matches: 46, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.40, C:0.19, G:0.27, T:0.14
Consensus pattern (21 bp):
GCTGAACAGAAACCCATAAGA
Found at i:5975264 original size:42 final size:41
Alignment explanation
Indices: 5975171--5975306 Score: 128
Period size: 42 Copynumber: 3.2 Consensus size: 41
5975161 CCGAAGGCTG
* * * * *
5975171 AACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAGGGTTG
1 AACAGAAGCTC-TAAGAGCTGAACGGAAACCCATAAGAGTTA
**
5975213 AATGGAAGCTCGTAAGAGCTGAACGGAAACCCATAAGAGTTA
1 AACAGAAGCTC-TAAGAGCTGAACGGAAACCCATAAGAGTTA
* * * * *
5975255 AACATAAGCTCAATAGAGTTGAACGGAAACTCATATGAGTTA
1 AACAGAAGCTCTA-AGAGCTGAACGGAAACCCATAAGAGTTA
*
5975297 AACAGGAGCT
1 AACAGAAGCT
5975307 TGTGAGAGCT
Statistics
Matches: 76, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
41 1 0.01
42 75 0.99
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.18
Consensus pattern (41 bp):
AACAGAAGCTCTAAGAGCTGAACGGAAACCCATAAGAGTTA
Found at i:5975274 original size:21 final size:20
Alignment explanation
Indices: 5975238--5975301 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
5975228 GAGCTGAACG
*
5975238 GAAACCCATAAGAGTTAAACA
1 GAAACTCAT-AGAGTTAAACA
* * * *
5975259 TAAGCTCAATAGAGTTGAACG
1 GAAACTC-ATAGAGTTAAACA
5975280 GAAACTCATATGAGTTAAACA
1 GAAACTCATA-GAGTTAAACA
5975301 G
1 G
5975302 GAGCTTGTGA
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
20 3 0.09
21 27 0.84
22 2 0.06
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.20
Consensus pattern (20 bp):
GAAACTCATAGAGTTAAACA
Found at i:5980494 original size:3 final size:3
Alignment explanation
Indices: 5980486--5980523 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
5980476 CACTCTGTTA
*
5980486 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAT TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
5980524 TTTTCTATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.37
Consensus pattern (3 bp):
TAC
Found at i:5984823 original size:37 final size:37
Alignment explanation
Indices: 5984766--5984870 Score: 160
Period size: 37 Copynumber: 2.9 Consensus size: 37
5984756 TATGATCACT
*
5984766 TATCACT-TGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTCTGTCTCTTGATCAGATAAGTGTAGCCACC
* * *
5984801 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTCTGTCTCTTGATCAGATAAGTGTAGCCACC
5984838 TATCACTCTGTCTCTTGATCAGATAAGTGTAGC
1 TATCACTCTGTCTCTTGATCAGATAAGTGTAGC
5984871 TAAAGCTATC
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
35 7 0.11
36 3 0.05
37 53 0.84
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (37 bp):
TATCACTCTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:5984901 original size:46 final size:46
Alignment explanation
Indices: 5984834--5985004 Score: 225
Period size: 46 Copynumber: 3.6 Consensus size: 46
5984824 TAAGTGTAGC
* * **
5984834 CACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
5984880 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
5984926 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
5984978 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
5985005 AGTACTCAAA
Statistics
Matches: 111, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
46 67 0.60
48 1 0.01
50 1 0.01
52 42 0.38
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:5984953 original size:52 final size:52
Alignment explanation
Indices: 5984877--5984990 Score: 176
Period size: 52 Copynumber: 2.2 Consensus size: 52
5984867 TAGCTAAAGC
* *
5984877 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTT-TCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
5984930 TATCACTTTCCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTT-CACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
5984982 TATCACTTT
1 TATCACTTT
5984991 GTCACTTGAT
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
52 46 0.81
53 11 0.19
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (52 bp):
TATCACTTTCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:5991286 original size:18 final size:18
Alignment explanation
Indices: 5991265--5991311 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
5991255 ATTTTTCTCA
5991265 TTTTTTATTAAAA-ATAAT
1 TTTTTTATTAAAACAT-AT
5991283 TTTTTCCT-TTAAAACATAT
1 TTTTT--TATTAAAACATAT
5991302 TTTTTTATTA
1 TTTTTTATTA
5991312 TTTGTAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
17 1 0.04
18 8 0.32
19 13 0.52
20 3 0.12
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTTTATTAAAACATAT
Found at i:5991779 original size:29 final size:28
Alignment explanation
Indices: 5991747--5991804 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
5991737 ATAATTTAAT
*
5991747 AATTATGAAAAATT-ATCAAAATTAAAAAA
1 AATTAT-AAAAATTCAT-AAAAATAAAAAA
*
5991776 AATTATAAAAGTTCATAAAAATAAAAAA
1 AATTATAAAAATTCATAAAAATAAAAAA
5991804 A
1 A
5991805 TAACATGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.26
Consensus pattern (28 bp):
AATTATAAAAATTCATAAAAATAAAAAA
Found at i:5992627 original size:2 final size:2
Alignment explanation
Indices: 5992620--5992646 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5992610 ACATAAGAAG
5992620 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
5992647 GGACATTCTT
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:5996005 original size:19 final size:18
Alignment explanation
Indices: 5995957--5996006 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
5995947 CCTTTCATGA
5995957 TTTTTTTATTTGCTTATT
1 TTTTTTTATTTGCTTATT
* * *
5995975 TATTTATTATTTTCTTGTT
1 T-TTTTTTATTTGCTTATT
5995994 TTTTTTTAATTTG
1 TTTTTTT-ATTTG
5996007 TATGGTTCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.14, C:0.04, G:0.06, T:0.76
Consensus pattern (18 bp):
TTTTTTTATTTGCTTATT
Found at i:5996389 original size:26 final size:26
Alignment explanation
Indices: 5996342--5996396 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
5996332 CCATTATCGA
* *
5996342 TATTATTATAAAATTGATATTATTAT
1 TATTATTATAAAATTGACATTACTAT
*
5996368 TATTATTATAATAGTTG-CATTACTAT
1 TATTATTATAA-AATTGACATTACTAT
5996394 TAT
1 TAT
5996397 CATTTCATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (26 bp):
TATTATTATAAAATTGACATTACTAT
Found at i:6000231 original size:16 final size:17
Alignment explanation
Indices: 6000198--6000236 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
6000188 TTATATCTTC
*
6000198 TTTAGAATTTTAAATTT
1 TTTAAAATTTTAAATTT
6000215 TTTAAAATTTT-AATTT
1 TTTAAAATTTTAAATTT
6000231 TTTAAA
1 TTTAAA
6000237 TAAATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TTTAAAATTTTAAATTT
Found at i:6000261 original size:29 final size:27
Alignment explanation
Indices: 6000229--6000283 Score: 65
Period size: 29 Copynumber: 2.0 Consensus size: 27
6000219 AAATTTTAAT
*
6000229 TTTTTAAATAAATTTTTATGAAAATTTGG
1 TTTTTAAATAAATGTTT-TG-AAATTTGG
**
6000258 TTTTTTTATAAATGTTTTGAAATTTG
1 TTTTTAAATAAATGTTTTGAAATTTG
6000284 AATTGATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 7 0.30
28 2 0.09
29 14 0.61
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (27 bp):
TTTTTAAATAAATGTTTTGAAATTTGG
Found at i:6000458 original size:8 final size:9
Alignment explanation
Indices: 6000437--6000461 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6000427 GAGTTTATTC
6000437 AAAAAATCG
1 AAAAAATCG
6000446 AAAAAATCG
1 AAAAAATCG
6000455 AAAAAAT
1 AAAAAAT
6000462 TAATTTGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.72, C:0.08, G:0.08, T:0.12
Consensus pattern (9 bp):
AAAAAATCG
Found at i:6000660 original size:21 final size:21
Alignment explanation
Indices: 6000636--6000676 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6000626 AATAATTAAA
6000636 TCTCTATATATGTGGTTAAGT
1 TCTCTATATATGTGGTTAAGT
* * *
6000657 TCTCTGTTTATGTGTTTAAG
1 TCTCTATATATGTGGTTAAG
6000677 ATCAGGGGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.51
Consensus pattern (21 bp):
TCTCTATATATGTGGTTAAGT
Found at i:6008091 original size:18 final size:19
Alignment explanation
Indices: 6008068--6008105 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
6008058 TATTTTTTAA
6008068 AAATATGATAATAA-ATTT
1 AAATATGATAATAATATTT
* *
6008086 AAATATTATATTAATATTT
1 AAATATGATAATAATATTT
6008105 A
1 A
6008106 TGTTAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
AAATATGATAATAATATTT
Found at i:6008140 original size:25 final size:24
Alignment explanation
Indices: 6008098--6008151 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
6008088 ATATTATATT
* *
6008098 AATATTTATGTTAATATTAAATAA
1 AATAATTATATTAATATTAAATAA
*
6008122 ATATAATTATATTATTATTAAATAA
1 A-ATAATTATATTAATATTAAATAA
6008147 AATAA
1 AATAA
6008152 AAATCCCCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
AATAATTATATTAATATTAAATAA
Found at i:6010206 original size:32 final size:32
Alignment explanation
Indices: 6010170--6010254 Score: 152
Period size: 32 Copynumber: 2.7 Consensus size: 32
6010160 GAGTTTCCTA
* *
6010170 TTAATGAAACGCTGAGTTTTACAATCAATCTG
1 TTAATAAAATGCTGAGTTTTACAATCAATCTG
6010202 TTAATAAAATGCTGAGTTTTACAATCAATCTG
1 TTAATAAAATGCTGAGTTTTACAATCAATCTG
6010234 TTAATAAAATGCTGAGTTTTA
1 TTAATAAAATGCTGAGTTTTA
6010255 TTATCAGCCT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (32 bp):
TTAATAAAATGCTGAGTTTTACAATCAATCTG
Found at i:6017265 original size:43 final size:43
Alignment explanation
Indices: 6017205--6017316 Score: 161
Period size: 43 Copynumber: 2.6 Consensus size: 43
6017195 TGTCTCAGAC
* ** *
6017205 ATGGTCTTACATGGAAATCTCGTATCGATGCCAATAGCCCAACT
1 ATGGTCTTACA-CGAAATCTCAAATCAATGCCAATAGCCCAACT
*
6017249 ATGGTCTTACACGAAATCTCAAATCAATGCCAATAGCCCAGCT
1 ATGGTCTTACACGAAATCTCAAATCAATGCCAATAGCCCAACT
*
6017292 ATGGTCTTACACAAAATCTCAAATC
1 ATGGTCTTACACGAAATCTCAAATC
6017317 GATATTGGAA
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
43 51 0.82
44 11 0.18
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCTCAAATCAATGCCAATAGCCCAACT
Found at i:6022380 original size:14 final size:13
Alignment explanation
Indices: 6022338--6022371 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
6022328 ATTATTTCTT
6022338 TTTGAAACAAAAA
1 TTTGAAACAAAAA
6022351 TTTGAAACAAAAA
1 TTTGAAACAAAAA
6022364 TTTGAAAC
1 TTTGAAAC
6022372 CCAAAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.26
Consensus pattern (13 bp):
TTTGAAACAAAAA
Found at i:6023501 original size:22 final size:22
Alignment explanation
Indices: 6023455--6023501 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
6023445 GACCCATACA
**
6023455 GCCACACCTACACCAGCGTACG
1 GCCACACCTACACCAGCACACG
*
6023477 GCCACACCTACACCAGCACATG
1 GCCACACCTACACCAGCACACG
6023499 GCC
1 GCC
6023502 GTGTCTTGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.28, C:0.47, G:0.17, T:0.09
Consensus pattern (22 bp):
GCCACACCTACACCAGCACACG
Found at i:6025863 original size:25 final size:25
Alignment explanation
Indices: 6025826--6025879 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
6025816 AAGGGAATTT
6025826 TTAT-TTTACTTAATA-ATAATATAA
1 TTATATTTACTTAATATA-AATATAA
*
6025850 TTATATTTATTTAATATAAATATAA
1 TTATATTTACTTAATATAAATATAA
*
6025875 ATATA
1 TTATA
6025880 AATATAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 4 0.15
25 21 0.81
26 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
TTATATTTACTTAATATAAATATAA
Found at i:6025898 original size:6 final size:6
Alignment explanation
Indices: 6025862--6025886 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6025852 ATATTTATTT
6025862 AATATA AATATA AATATA AATATA A
1 AATATA AATATA AATATA AATATA A
6025887 TATTTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATATA
Found at i:6030212 original size:20 final size:22
Alignment explanation
Indices: 6030163--6030213 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
6030153 TCAAATCATG
6030163 TGGGCGTGTGCCACCTTCCACA
1 TGGGCGTGTGCCACCTTCCACA
* **
6030185 CGAACGTGTGCC-CC-TCCACA
1 TGGGCGTGTGCCACCTTCCACA
6030205 TGGGCGTGT
1 TGGGCGTGT
6030214 TCAACCCTCA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
20 12 0.52
21 2 0.09
22 9 0.39
ACGTcount: A:0.14, C:0.35, G:0.29, T:0.22
Consensus pattern (22 bp):
TGGGCGTGTGCCACCTTCCACA
Found at i:6036620 original size:15 final size:15
Alignment explanation
Indices: 6036600--6036637 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
6036590 AGTTAATTGA
6036600 TAATTAAAGCTTAA-T
1 TAATTAAAG-TTAAGT
6036615 TAATTAAAGTTAAGT
1 TAATTAAAGTTAAGT
6036630 TAATTAAA
1 TAATTAAA
6036638 CTAGTTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (15 bp):
TAATTAAAGTTAAGT
Found at i:6042503 original size:24 final size:23
Alignment explanation
Indices: 6042475--6042522 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
6042465 ATGGTTCAGG
6042475 TAAATATATAAAACTTTAAAAAAA
1 TAAATATATAAAA-TTTAAAAAAA
* *
6042499 TAAATATTTAAAATTTAATAAAA
1 TAAATATATAAAATTTAAAAAAA
6042522 T
1 T
6042523 TACAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
TAAATATATAAAATTTAAAAAAA
Found at i:6048615 original size:9 final size:9
Alignment explanation
Indices: 6048601--6048637 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
6048591 TATTGTTTAA
*
6048601 TATTCGATT
1 TATTCGAAT
6048610 TATTCGAAT
1 TATTCGAAT
*
6048619 TATTCGAGT
1 TATTCGAAT
6048628 TATTCGAAT
1 TATTCGAAT
6048637 T
1 T
6048638 TGAAAAGCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:6048624 original size:18 final size:18
Alignment explanation
Indices: 6048601--6048637 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
6048591 TATTGTTTAA
*
6048601 TATTCGATTTATTCGAAT
1 TATTCGAGTTATTCGAAT
6048619 TATTCGAGTTATTCGAAT
1 TATTCGAGTTATTCGAAT
6048637 T
1 T
6048638 TGAAAAGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.49
Consensus pattern (18 bp):
TATTCGAGTTATTCGAAT
Found at i:6054528 original size:4 final size:4
Alignment explanation
Indices: 6054521--6054545 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
6054511 ATGGTGGGTA
6054521 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
6054546 TTCTTCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:6059231 original size:19 final size:20
Alignment explanation
Indices: 6059209--6059247 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6059199 ATTTTAAAGT
6059209 TTTTAAGTT-GGTATCGATA
1 TTTTAAGTTGGGTATCGATA
*
6059228 TTTTATGTTGGGTATCGATA
1 TTTTAAGTTGGGTATCGATA
6059248 CCTTATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.49
Consensus pattern (20 bp):
TTTTAAGTTGGGTATCGATA
Found at i:6068696 original size:187 final size:187
Alignment explanation
Indices: 6068381--6070256 Score: 3322
Period size: 187 Copynumber: 10.0 Consensus size: 187
6068371 TAATGCATCC
* * * * *
6068381 CTTAATGGGTTAGGATGTGTGCTTATGCAAAAAGAAAAGGTTGTGGTGTATGCATCTCGCCAGAT
1 CTTAATGGGCTAGGGTGTGTGCTTATGCAAAGAGAAAAGGTTATGGTGTATGCATCTCACCAGAT
6068446 CAAGCCGCATTAAAATAATTATCCAACTCAAGACTTAAAGCTTGCAGTGGTAGTGTTGGTGCTAA
66 CAAGCCGCATTAAAATAATTATCCAACTCAAGACTTAAAGCTTGCAGTGGTAGTGTTGGTGCTAA
6068511 AAATCTAGAGACACTACTTTTATGGGAGAAGGGTCATGTGTTTTTAGACCATAAGAG
131 AAATCTAGAGACACTACTTTTATGGGAGAAGGGTCATGTGTTTTTAGACCATAAGAG
* * *
6068568 CTTAATGGGCTAGGGTGTGTGCTTATGCAAAGAGAAAAGGTTGTGGTTTATGCATCTCGCCAGAT
1 CTTAATGGGCTAGGGTGTGTGCTTATGCAAAGAGAAAAGGTTATGGTGTATGCATCTCACCAGAT
6068633 CAAGCCGCATTAAAATAATTATCCAACTCAAGACTTAAAGCTTGCAGTGGTAGTGTTGGTGCTAA
66 CAAGCCGCATTAAAATAATTATCCAACTCAAGACTTAAAGCTTGCAGTGGTAGTGTTGGTGCTAA
6068698 AAATCTAGAGACACTACTTTTATGGGAGAAGGGTCATGTGTTTTTAGACCATAAGAG
131 AAATCTAGAGACACTACTTTTATGGGAGAAGGGTCATGTGTTTTTAGACCATAAGAG
6068755 CTTAATGGGCTAGGGTGTGTGCTTATGCAAAGAGAAAAGGTTATGGTGTATGCATCTCACCAGAT
1 CTTAATGGGCTAGGGTGTGTGCTTATGCAAAGAGAAAAGGTTATGGTGTATGCATCTCACCAGAT
6068820 CAAGCCGCATTAAAATAATTATCCAACTCAAGACTTAAAGCTTGCAGTGGTAGTGTTGGTGCTAA
66 CAAGCCGCATTAAAATAATTATCCAACTCAAGACTTAAAGCTTGCAGTGGTAGTGTTGGTGCTAA
6068885 AAATCTAGAGACACTACTTTTATGGGAGAAGGGTCATGTGTTTTTAGACCATAAGAG
131 AAATCTAGAGACACTACTTTTATGGGAGAAGGGTCATGTGTTTTTAGACCATAAGAG
6068942 CTTAATGGGCTAGGGTGTGTGCTTATGCAAAGAGAAAAGGTTATGGTGTATGCATCTCACCAGAT
1 CTTAATGGGCTAGGGTGTGTGCTTATGCAAAGAGAAAAGGTTATGGTGTATGCATCTCACCAGAT
6069007 CAAGCCGCATTAAAATAATTATCCAACTCAAGACTTAAAGCTTGCAGTGGTAGTGTTGGTGCTAA
66 CAAGCCGCATTAAAATAATTATCCAACTCAAGACTTAAAGCTTGCAGTGGTAGTGTTGGTGCTAA
6069072 AAATCTAGAGACACTACTTTTATGGGAGAAGGGTCATGTGTTTTTAGACCATAAGAG
131 AAATCTAGAGACACTACTTTTATGGGAGAAGGGTCATGTGTTTTTAGACCATAAGAG
6069129 CTTAATGGGCTAGGGTGTGTGCTTATGCAAAGAGAAAAGGTTATGGTGTATGCATCTCACCAGAT
1 CTTAATGGGCTAGGGTGTGTGCTTATGCAAAGAGAAAAGGTTATGGTGTATGCATCTCACCAGAT
6069194 CAAGCCGCATTAAAATAATTATCCAACTCAAGACTTAAAGCTTGCAGTGGTAGTGTTGGTGCTAA
66 CAAGCCGCATTAAAATAATTATCCAACTCAAGACTTAAAGCTTGCAGTGGTAGTGTTGGTGCTAA
6069259 AAATCTAGAGACACTACTTTTATGGGAGAAGGGTCATGTGTTTTTAGACCATAAGAG
131 AAATCTAGAGACACTACTTTTATGGGAGAAGGGTCATGTGTTTTTAGACCATAAGAG
6069316 CTTAATGGGCTAGGGTGTGTGCTTATGCAAAGAGAAAAGGTTATGGTGTATGCATCTCACCAGAT
1 CTTAATGGGCTAGGGTGTGTGCTTATGCAAAGAGAAAAGGTTATGGTGTATGCATCTCACCAGAT
6069381 CAAGCCGCATTAAAATAATTATCCAACTCAAGACTTAAAGCTTGCAGTGGTAGTGTTGGTGCTAA
66 CAAGCCGCATTAAAATAATTATCCAACTCAAGACTTAAAGCTTGCAGTGGTAGTGTTGGTGCTAA
*
6069446 AAATCTAGAGACACTACTTTTATGGGAGAAGGGTCATGTGTTTTTAGACCATAAAAG
131 AAATCTAGAGACACTACTTTTATGGGAGAAGGGTCATGTGTTTTTAGACCATAAGAG
* * * * *
6069503 CTTAATGGGCTAGGGTGTATACTTATGCAAAGAGAAAAGGTTGTGGTGTATACATCTCGCCAGAT
1 CTTAATGGGCTAGGGTGTGTGCTTATGCAAAGAGAAAAGGTTATGGTGTATGCATCTCACCAGAT
*
6069568 CAAGCCGCATTAAAATAATTATCCAACTCAAGACATAAAGCTTGCAGTGGTAGTGTTGGTGCTAA
66 CAAGCCGCATTAAAATAATTATCCAACTCAAGACTTAAAGCTTGCAGTGGTAGTGTTGGTGCTAA
6069633 AAATCTAGAGACACTACTTTTATGGGAGAAGGGTCATGTGTTTTTAGACCATAAGAG
131 AAATCTAGAGACACTACTTTTATGGGAGAAGGGTCATGTGTTTTTAGACCATAAGAG
6069690 CTTAATGGGCTAGGGTGTGTGCTTATGCAAAGAGAAAAGGTTATGGTGTATGCATCTCACCAGAT
1 CTTAATGGGCTAGGGTGTGTGCTTATGCAAAGAGAAAAGGTTATGGTGTATGCATCTCACCAGAT
6069755 CAAGCCGCATTAAAATAATTATCCAACTCAAGACTTAAAGCTTGCAGTGGTAGTGTTGGTGCTAA
66 CAAGCCGCATTAAAATAATTATCCAACTCAAGACTTAAAGCTTGCAGTGGTAGTGTTGGTGCTAA
6069820 AAATCTAGAGACACTACTTTTATGGGAGAAGGGTCATGTGTTTTTAGACCATAAGAG
131 AAATCTAGAGACACTACTTTTATGGGAGAAGGGTCATGTGTTTTTAGACCATAAGAG
* * * * *
6069877 CTTAATGGGCTAGGGTGTATACTTATGCAAAGAGAAAAGGTTGTGGTGTATACATCTCGCCAGAT
1 CTTAATGGGCTAGGGTGTGTGCTTATGCAAAGAGAAAAGGTTATGGTGTATGCATCTCACCAGAT
* *
6069942 CAAGCCGCATTAAAATAATTATCCAACTCAAGACATAAAGCTTTCAGTGGTAGTGTTGGTGCTAA
66 CAAGCCGCATTAAAATAATTATCCAACTCAAGACTTAAAGCTTGCAGTGGTAGTGTTGGTGCTAA
* * *
6070007 AGATCTAGAGACACTACCTTTATGGGGAGAAGTGTCATGTGTTTTTAGACCATAAGAG
131 AAATCTAGAGACACTACTTTTAT-GGGAGAAGGGTCATGTGTTTTTAGACCATAAGAG
* * ** * * * *
6070065 CTTAATGGGCTAGGGTGTGTGCTTATTCAAAGAGAAAAGGTTGTGGCCTATACATCTCGCTAGCT
1 CTTAATGGGCTAGGGTGTGTGCTTATGCAAAGAGAAAAGGTTATGGTGTATGCATCTCACCAGAT
* * ** **
6070130 CAAGCCACATTAAAAGAATTATCCAACTCAAGACTTAAAGC-TGCAACGGTAGTGTTGGCACTAA
66 CAAGCCGCATTAAAATAATTATCCAACTCAAGACTTAAAGCTTGCAGTGGTAGTGTTGGTGCTAA
* * * * * *
6070194 AGATCTAAAGACACTACCTTTATAGGGAGAAGTGTCGTGTGTTTTCAGACCATAAGAG
131 AAATCTAGAGACACTACTTTTAT-GGGAGAAGGGTCATGTGTTTTTAGACCATAAGAG
6070252 CTTAA
1 CTTAA
6070257 GGTATCTAAT
Statistics
Matches: 1638, Mismatches: 50, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
187 1509 0.92
188 129 0.08
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (187 bp):
CTTAATGGGCTAGGGTGTGTGCTTATGCAAAGAGAAAAGGTTATGGTGTATGCATCTCACCAGAT
CAAGCCGCATTAAAATAATTATCCAACTCAAGACTTAAAGCTTGCAGTGGTAGTGTTGGTGCTAA
AAATCTAGAGACACTACTTTTATGGGAGAAGGGTCATGTGTTTTTAGACCATAAGAG
Found at i:6078569 original size:19 final size:19
Alignment explanation
Indices: 6078547--6078586 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6078537 ATTAATTTTG
* *
6078547 ATCAAGTAAATTTAAATTA
1 ATCAAATAAATTAAAATTA
*
6078566 ATCAAATCAATTAAAATTA
1 ATCAAATAAATTAAAATTA
6078585 AT
1 AT
6078587 ATGATATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.35
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:6079080 original size:12 final size:12
Alignment explanation
Indices: 6079063--6079113 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
6079053 TTTTAATAAT
6079063 ATTTAATATTAA
1 ATTTAATATTAA
*
6079075 ATTTAAT-CTAA
1 ATTTAATATTAA
*
6079086 TATTTATTAGATTAA
1 -ATTTA--ATATTAA
6079101 ATTTAATATTAA
1 ATTTAATATTAA
6079113 A
1 A
6079114 ATGATTAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
11 3 0.10
12 19 0.61
14 6 0.19
15 3 0.10
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:6079093 original size:21 final size:21
Alignment explanation
Indices: 6079069--6079110 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6079059 TAATATTTAA
*
6079069 TATTAAATTTAATCTAATATT
1 TATTAAATTAAATCTAATATT
* *
6079090 TATTAGATTAAATTTAATATT
1 TATTAAATTAAATCTAATATT
6079111 AAAATGATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
TATTAAATTAAATCTAATATT
Found at i:6082084 original size:45 final size:46
Alignment explanation
Indices: 6082020--6082112 Score: 136
Period size: 46 Copynumber: 2.0 Consensus size: 46
6082010 CATAATTCTT
* * *
6082020 TTAAACCAAACATAAACT-A-ACAGGTCATAGAAACTTATCCTCCTC
1 TTAAACCAAACACAAACTAAGACA-GCCATAAAAACTTATCCTCCTC
6082065 TTAAACCAAACACAAACTAAGACAGCCATAAAAACTTATCCTCCTC
1 TTAAACCAAACACAAACTAAGACAGCCATAAAAACTTATCCTCCTC
6082111 TT
1 TT
6082113 CACATGTAGC
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
45 17 0.40
46 23 0.53
47 3 0.07
ACGTcount: A:0.43, C:0.28, G:0.05, T:0.24
Consensus pattern (46 bp):
TTAAACCAAACACAAACTAAGACAGCCATAAAAACTTATCCTCCTC
Found at i:6084911 original size:3 final size:3
Alignment explanation
Indices: 6084903--6084943 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
6084893 GCAAATGCAA
*
6084903 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG GAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
6084944 ATGAAATGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6096875 original size:96 final size:96
Alignment explanation
Indices: 6096711--6096902 Score: 330
Period size: 96 Copynumber: 2.0 Consensus size: 96
6096701 GACTTGTTCG
* * **
6096711 ATTACTCACCTTCCAAAGATCAAGTCTGATCATAGACCCCTTCTCCTCTCCCATTTCCTGGAGGT
1 ATTACTCACCTTCCAAAGATCAAGTCTGATCATAGACCACTTCTCATCTCCCATTTCCCAGAGGT
6096776 TACCTTGTCTAGAGGTCGTCCCTTTCGGTTT
66 TACCTTGTCTAGAGGTCGTCCCTTTCGGTTT
* *
6096807 ATTACTTACCTTCCAAAGATCAAGTCTGATCATAGACCACTTCTCATCTCCCTTTTCCCAGAGGT
1 ATTACTCACCTTCCAAAGATCAAGTCTGATCATAGACCACTTCTCATCTCCCATTTCCCAGAGGT
6096872 TACCTTGTCTAGAGGTCGTCCCTTTCGGTTT
66 TACCTTGTCTAGAGGTCGTCCCTTTCGGTTT
6096903 TTGGTTGGGT
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 90 1.00
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.35
Consensus pattern (96 bp):
ATTACTCACCTTCCAAAGATCAAGTCTGATCATAGACCACTTCTCATCTCCCATTTCCCAGAGGT
TACCTTGTCTAGAGGTCGTCCCTTTCGGTTT
Found at i:6117167 original size:192 final size:192
Alignment explanation
Indices: 6116835--6117222 Score: 602
Period size: 192 Copynumber: 2.0 Consensus size: 192
6116825 TAGTTGAAAT
*
6116835 AAACTTTTACAATTCAAGAATGACAAGGAAGGTCGTTTGGTTGAAAAATGGGAACGAAAAGGATC
1 AAACTTTTACAATTCAAGAATGACAAGGAAGATCGTTTGGTTGAAAAATGGGAACGAAAAGGATC
* **
6116900 CATCAATCCGAAAATACAGGTGCTAATTCGGTCTAGAGTTTATTGCTATAAATATCATAAACTGA
66 CATCAATCCAAAAATACAAATGCTAATTCGGTCTAGAGTTTATTGCTATAAATATCATAAACTGA
* * * * *
6116965 GTCTATTTTCAAAATTTTTATTTTCCGCAGTGCAAGAAAACCATTTTCGAATCGGATTTTTAC
131 GTCAATTTTCAAAA-TTTTATTTTCCGAAGAGCAAGAAAACCATTTTCAAATCGAATTTTTAC
* *
6117028 AAACTTTTACAATTCAAGAAT-AGTAAGGAAGATCGTTTGGTTGAAAAATGGGAA-GACAAGGAT
1 AAACTTTTACAATTCAAGAATGA-CAAGGAAGATCGTTTGGTTGAAAAATGGGAACGAAAAGGAT
* *
6117091 TCGTCAATCCAAAAATACAAATGCTAATTCGGTCTAGAGTTTATTGCTATAAATATCATAAA-TC
65 CCATCAATCCAAAAATACAAATGCTAATTCGGTCTAGAGTTTATTGCTATAAATATCATAAACT-
*
6117155 GAGTCAATTTTCAAAATTTTATTTTTCGAAGAGCAAGAAAACCATTTTCAAATCGAATTTTTAC
129 GAGTCAATTTTCAAAATTTTATTTTCCGAAGAGCAAGAAAACCATTTTCAAATCGAATTTTTAC
6117219 AAAC
1 AAAC
6117223 AATTCACAAT
Statistics
Matches: 179, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
191 48 0.27
192 81 0.45
193 50 0.28
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.31
Consensus pattern (192 bp):
AAACTTTTACAATTCAAGAATGACAAGGAAGATCGTTTGGTTGAAAAATGGGAACGAAAAGGATC
CATCAATCCAAAAATACAAATGCTAATTCGGTCTAGAGTTTATTGCTATAAATATCATAAACTGA
GTCAATTTTCAAAATTTTATTTTCCGAAGAGCAAGAAAACCATTTTCAAATCGAATTTTTAC
Found at i:6119315 original size:21 final size:21
Alignment explanation
Indices: 6119282--6119333 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
6119272 AAGTATATGA
* *
6119282 AGAGCGCAGATGC-GCTAATAC
1 AGAGAGCACATGCAGCTAA-AC
6119303 AGAGAGCACATGCATGCTAAAC
1 AGAGAGCACATGCA-GCTAAAC
*
6119325 AAAGAGCAC
1 AGAGAGCAC
6119334 TTACGTGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 11 0.42
22 10 0.38
23 5 0.19
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.12
Consensus pattern (21 bp):
AGAGAGCACATGCAGCTAAAC
Found at i:6121758 original size:17 final size:18
Alignment explanation
Indices: 6121736--6121779 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
6121726 TAAGGGGAAT
*
6121736 AAAAATAAATAAAT-AAC
1 AAAAATAAAGAAATAAAC
*
6121753 AAAAATAAAGAAATAAAG
1 AAAAATAAAGAAATAAAC
6121771 AAAAATAAA
1 AAAAATAAA
6121780 CAAACGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.14
Consensus pattern (18 bp):
AAAAATAAAGAAATAAAC
Found at i:6123015 original size:45 final size:45
Alignment explanation
Indices: 6122936--6123151 Score: 247
Period size: 45 Copynumber: 4.8 Consensus size: 45
6122926 TTGGCTTGAA
* * *
6122936 AAATGAATAAGACCATAGTTGAAAGGCACCATGGCACTATCCCAG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATGCCAG
* * * *
6122981 AAATGAATAAGACCATAGGTGAAGGACACTATGGCACTATACGAG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATGCCAG
* * * *
6123026 AAATGAATAAGACTATAGTTGAAAAACACTATGGCAAC-ATGACGG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGC-ACTATGCCAG
**
6123071 AAATGAATAAGACCATAGTTGAAAGACACTATGGCA-TCATGTTAG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACT-ATGCCAG
* * * *
6123116 AAATAAATAAGACCATGGCTGAAAGACGCTATGGCA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCA
6123152 TCTTGAACAA
Statistics
Matches: 145, Mismatches: 23, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
44 1 0.01
45 142 0.98
46 2 0.01
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.19
Consensus pattern (45 bp):
AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATGCCAG
Found at i:6123282 original size:11 final size:11
Alignment explanation
Indices: 6123246--6123292 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
6123236 AATTGTTAAT
6123246 TATGAACATTA
1 TATGAACATTA
* *
6123257 TATG-ATATGTT
1 TATGAACAT-TA
6123268 TATGAACATTA
1 TATGAACATTA
6123279 TATGAACATTA
1 TATGAACATTA
6123290 TAT
1 TAT
6123293 ATATGCAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
10 3 0.10
11 24 0.80
12 3 0.10
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (11 bp):
TATGAACATTA
Found at i:6128500 original size:30 final size:31
Alignment explanation
Indices: 6128461--6128520 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
6128451 GGAGGTGGAA
*
6128461 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
6128492 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
6128521 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:6128691 original size:29 final size:30
Alignment explanation
Indices: 6128631--6128691 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
6128621 GGAGGGGAGG
* ***
6128631 GGAGTAAAAGTTTTGGGGGAAAAGCGGGAA
1 GGAGTAAAAGTTTTGGAGGAAAAGCAAAAA
*
6128661 GGAGTAAAAGTTTT-GAGGAAAAGTAAAAA
1 GGAGTAAAAGTTTTGGAGGAAAAGCAAAAA
6128690 GG
1 GG
6128692 TTTAGGAGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.43, C:0.02, G:0.38, T:0.18
Consensus pattern (30 bp):
GGAGTAAAAGTTTTGGAGGAAAAGCAAAAA
Found at i:6128751 original size:9 final size:9
Alignment explanation
Indices: 6128733--6128769 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
6128723 TATAGCTTGA
6128733 TATTCGAAT
1 TATTCGAAT
*
6128742 TATTCAAAT
1 TATTCGAAT
*
6128751 TATTCGAGT
1 TATTCGAAT
6128760 TATTCGAAT
1 TATTCGAAT
6128769 T
1 T
6128770 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:6130099 original size:20 final size:20
Alignment explanation
Indices: 6130057--6130111 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
6130047 GTAGATTATG
*
6130057 ATTTGAATTGTCTATTATAAT
1 ATTTGAATTG-ATATTATAAT
6130078 ATTTGAATTGATATTA-ATAT
1 ATTTGAATTGATATTATA-AT
*
6130098 ATTTTAA-TGATATT
1 ATTTGAATTGATATT
6130112 CAACAATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 8 0.26
20 13 0.42
21 10 0.32
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (20 bp):
ATTTGAATTGATATTATAAT
Found at i:6131364 original size:29 final size:30
Alignment explanation
Indices: 6131331--6131398 Score: 102
Period size: 31 Copynumber: 2.3 Consensus size: 30
6131321 TCAAACTTTT
6131331 ATGTATAAAATTGCACA-AAATCAAAGTTC
1 ATGTATAAAATTGCACATAAATCAAAGTTC
* *
6131360 ATGTATATAATTGCATATTAAATCAAAGTTC
1 ATGTATAAAATTGCACA-TAAATCAAAGTTC
6131391 ATGTATAA
1 ATGTATAA
6131399 TTTTGGGATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 15 0.44
31 19 0.56
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (30 bp):
ATGTATAAAATTGCACATAAATCAAAGTTC
Found at i:6133413 original size:19 final size:19
Alignment explanation
Indices: 6133373--6133417 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
6133363 ATTCGTCACC
*
6133373 TTTTTTTTTCAATGATTCA
1 TTTTTTTTTCAACGATTCA
*
6133392 TTTTTTTTTCAAACGGTT-A
1 TTTTTTTTTC-AACGATTCA
6133411 TTTTTTT
1 TTTTTTT
6133418 ATATAGACCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.18, C:0.09, G:0.07, T:0.67
Consensus pattern (19 bp):
TTTTTTTTTCAACGATTCA
Found at i:6133687 original size:3 final size:3
Alignment explanation
Indices: 6133679--6133743 Score: 51
Period size: 3 Copynumber: 21.0 Consensus size: 3
6133669 GGTAAGAAAA
* * *
6133679 TAT TAT TAT TAT TAT TAT TAT T-T TAAT TAA TAT AAT TAT TAAGT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT T-A-T TAT
* *
6133726 TAA TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT
6133744 AATTTTTTAT
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
2 2 0.04
3 41 0.85
4 3 0.06
5 2 0.04
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:6139382 original size:16 final size:16
Alignment explanation
Indices: 6139348--6139388 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
6139338 GGGATTCGGG
*
6139348 AAAAGAAAA-TAAATT
1 AAAATAAAATTAAATT
*
6139363 AAAATAAAATTAATTT
1 AAAATAAAATTAAATT
6139379 AAAATAAAAT
1 AAAATAAAAT
6139389 ATATATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (16 bp):
AAAATAAAATTAAATT
Found at i:6144602 original size:6 final size:6
Alignment explanation
Indices: 6144591--6144946 Score: 712
Period size: 6 Copynumber: 59.3 Consensus size: 6
6144581 AAAGGATATG
6144591 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT
6144639 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT
6144687 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT
6144735 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT
6144783 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT
6144831 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT
6144879 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT
6144927 ATAATT ATAATT ATAATT AT
1 ATAATT ATAATT ATAATT AT
6144947 CATATCCTTT
Statistics
Matches: 350, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 350 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATAATT
Found at i:6145065 original size:18 final size:18
Alignment explanation
Indices: 6145016--6145070 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
6145006 AATTAGCACA
*
6145016 ATTTTTAACTA-ATAATT
1 ATTTTTAAATATATAATT
**
6145033 ATAAATTAAAT-TATAATT
1 AT-TTTTAAATATATAATT
6145051 ATTTTTAAATATATAATT
1 ATTTTTAAATATATAATT
6145069 AT
1 AT
6145071 CACAAATTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
17 8 0.27
18 22 0.73
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTTTAAATATATAATT
Found at i:6145118 original size:40 final size:43
Alignment explanation
Indices: 6145037--6145123 Score: 117
Period size: 40 Copynumber: 2.1 Consensus size: 43
6145027 ATAATTATAA
6145037 ATTAAATTATAATTATTTTTAAATATATAATTATCACAAATTCT
1 ATTAAATTATAA-TATTTTTAAATATATAATTATCACAAATTCT
* * *
6145081 ATTAAATTAT-A-ATTTTT-AATGTATAATTATCATAAATTTT
1 ATTAAATTATAATATTTTTAAATATATAATTATCACAAATTCT
6145121 ATT
1 ATT
6145124 TTACTTTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
40 23 0.57
41 6 0.15
43 1 0.03
44 10 0.25
ACGTcount: A:0.44, C:0.05, G:0.01, T:0.51
Consensus pattern (43 bp):
ATTAAATTATAATATTTTTAAATATATAATTATCACAAATTCT
Found at i:6145216 original size:7 final size:7
Alignment explanation
Indices: 6145204--6145231 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
6145194 TGTGTTTTTA
6145204 TATAGAT
1 TATAGAT
6145211 TATAGAT
1 TATAGAT
6145218 TATAGAT
1 TATAGAT
6145225 TATAGAT
1 TATAGAT
6145232 AATTATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (7 bp):
TATAGAT
Found at i:6145881 original size:28 final size:28
Alignment explanation
Indices: 6145841--6145898 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
6145831 CTAAAATGTT
**
6145841 ATTTTTTTATTTATTAAAATATTAT-AAA
1 ATTTTTTTATTTACCAAAATA-TATCAAA
6145869 ATTTTTTTATTTACCAAAATATATCAAA
1 ATTTTTTTATTTACCAAAATATATCAAA
6145897 AT
1 AT
6145899 AAAAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 3 0.11
28 24 0.89
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (28 bp):
ATTTTTTTATTTACCAAAATATATCAAA
Found at i:6145984 original size:27 final size:26
Alignment explanation
Indices: 6145954--6146013 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 26
6145944 GGCCAATCAC
6145954 ATTGGCGGCACCAAAGGTGCCAAAGT-G
1 ATTGGCGG-ACCAAAGGTGCCAAA-TAG
*
6145981 ATTGGCCTGACCAAAGGTGCCAAATAG
1 ATTGG-CGGACCAAAGGTGCCAAATAG
6146008 ATTGGC
1 ATTGGC
6146014 CTGACCGGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 2 0.07
27 26 0.87
28 2 0.07
ACGTcount: A:0.30, C:0.22, G:0.30, T:0.18
Consensus pattern (26 bp):
ATTGGCGGACCAAAGGTGCCAAATAG
Found at i:6146014 original size:27 final size:27
Alignment explanation
Indices: 6145963--6146019 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
6145953 CATTGGCGGC
6145963 ACCAAAGGTGCCAAAGTGATTGGCCTG
1 ACCAAAGGTGCCAAAGTGATTGGCCTG
6145990 ACCAAAGGTGCCAAA-TAGATTGGCCTG
1 ACCAAAGGTGCCAAAGT-GATTGGCCTG
6146017 ACC
1 ACC
6146020 GGACTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.32, C:0.25, G:0.26, T:0.18
Consensus pattern (27 bp):
ACCAAAGGTGCCAAAGTGATTGGCCTG
Found at i:6146467 original size:19 final size:19
Alignment explanation
Indices: 6146443--6146505 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
6146433 AAGCAATAGT
6146443 TTATTAAAGTAAAATAGAG
1 TTATTAAAGTAAAATAGAG
*** ** * *
6146462 TTATTACTTTTTAATAAAC
1 TTATTAAAGTAAAATAGAG
6146481 TTATTAAAGTAAAATAGAG
1 TTATTAAAGTAAAATAGAG
6146500 TTATTA
1 TTATTA
6146506 CTTAATTAGA
Statistics
Matches: 30, Mismatches: 14, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (19 bp):
TTATTAAAGTAAAATAGAG
Found at i:6146652 original size:99 final size:99
Alignment explanation
Indices: 6146481--6146848 Score: 727
Period size: 99 Copynumber: 3.7 Consensus size: 99
6146471 TTTAATAAAC
*
6146481 TTATTAAAGTAAAATAGAGTTATTACTTAATTAGAATTCTAAGTATCTTAATTATCACTTAACTA
1 TTATTAAAGTAAAATAGATTTATTACTTAATTAGAATTCTAAGTATCTTAATTATCACTTAACTA
6146546 ATATTATAAATTTTGGTAATTTGATGAGAATAGT
66 ATATTATAAATTTTGGTAATTTGATGAGAATAGT
6146580 TTATTAAAGTAAAATAGATTTATTACTTAATTAGAATTCTAAGTATCTTAATTATCACTTAACTA
1 TTATTAAAGTAAAATAGATTTATTACTTAATTAGAATTCTAAGTATCTTAATTATCACTTAACTA
6146645 ATATTATAAATTTTGGTAATTTGATGAGAATAGT
66 ATATTATAAATTTTGGTAATTTGATGAGAATAGT
6146679 TTATTAAAGTAAAATAGATTTATTACTTAATTAGAATTCTAAGTATCTTAATTATCACTTAACTA
1 TTATTAAAGTAAAATAGATTTATTACTTAATTAGAATTCTAAGTATCTTAATTATCACTTAACTA
6146744 ATATTATAAATTTTGGTAATTTGATGAGAATAGT
66 ATATTATAAATTTTGGTAATTTGATGAGAATAGT
6146778 TTATTAAAGTAAAATAGATTTATTACTTAATTAGAATTCTAAGTATCTTAATTATCACTTAACTA
1 TTATTAAAGTAAAATAGATTTATTACTTAATTAGAATTCTAAGTATCTTAATTATCACTTAACTA
6146843 ATATTA
66 ATATTA
6146849 GATTTAATTA
Statistics
Matches: 268, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 268 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.43
Consensus pattern (99 bp):
TTATTAAAGTAAAATAGATTTATTACTTAATTAGAATTCTAAGTATCTTAATTATCACTTAACTA
ATATTATAAATTTTGGTAATTTGATGAGAATAGT
Found at i:6147462 original size:27 final size:27
Alignment explanation
Indices: 6147379--6147465 Score: 131
Period size: 27 Copynumber: 3.2 Consensus size: 27
6147369 GTCCGGTCAG
* *
6147379 GCCAATCTCTTTGGCACCTTTGGT-TAG
1 GCCAATCACTTTGGCACCTTTGGTGT-C
*
6147406 GCCAATCACTTTGGCACCTTTGGTGCC
1 GCCAATCACTTTGGCACCTTTGGTGTC
6147433 GCCAATCACTTTGGCACCTTTGGTGTC
1 GCCAATCACTTTGGCACCTTTGGTGTC
6147460 GCCAAT
1 GCCAAT
6147466 GTGATTGGCT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.16, C:0.30, G:0.22, T:0.32
Consensus pattern (27 bp):
GCCAATCACTTTGGCACCTTTGGTGTC
Found at i:6147573 original size:27 final size:27
Alignment explanation
Indices: 6147519--6147582 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
6147509 TTTTTTTGGT
***
6147519 ATATTTTGGTAAATAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAGGGATA
6147546 ATATTTTGGTAAATAAAAAAAGGGATA
1 ATATTTTGGTAAATAAAAAAAGGGATA
*
6147573 ACATTTTGGT
1 ATATTTTGGT
6147583 TTTTTTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.47, C:0.02, G:0.14, T:0.38
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGGGATA
Found at i:6152387 original size:27 final size:27
Alignment explanation
Indices: 6152356--6152411 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
6152346 AGAAACCTTG
6152356 AATTTGGTAGCATCAAGGAAACAAGAC
1 AATTTGGTAGCATCAAGGAAACAAGAC
6152383 AATTTGGTAGCATCAAGGAAACAAGAC
1 AATTTGGTAGCATCAAGGAAACAAGAC
6152410 AA
1 AA
6152412 GAAATGTCGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.18
Consensus pattern (27 bp):
AATTTGGTAGCATCAAGGAAACAAGAC
Found at i:6154398 original size:22 final size:22
Alignment explanation
Indices: 6154371--6154439 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 22
6154361 TCTCTGATTA
*
6154371 TTAGCACATTAGTGCTCTCCGT
1 TTAGCACATTAGTGCTCTCTGT
* *
6154393 TTAGCATATTTGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
* * *
6154415 ATAGCACTTTAATGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
6154437 TTA
1 TTA
6154440 ATAGTGCATA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCTGT
Found at i:6158398 original size:27 final size:27
Alignment explanation
Indices: 6158367--6158420 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
6158357 TTAGTTATGA
6158367 AAGTAAACTACAAAATTAATCATTAAT
1 AAGTAAACTACAAAATTAATCATTAAT
* *
6158394 AAGTAAACTATAAAATTAATCTTTAAT
1 AAGTAAACTACAAAATTAATCATTAAT
6158421 TCAATAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (27 bp):
AAGTAAACTACAAAATTAATCATTAAT
Found at i:6163085 original size:21 final size:21
Alignment explanation
Indices: 6163061--6163146 Score: 75
Period size: 21 Copynumber: 4.1 Consensus size: 21
6163051 TAATAAGTTA
*
6163061 TATGCTAAGAATGATCTGTAT
1 TATGCTAAGTATGATCTGTAT
* **
6163082 TATGTTAAGTATGATCCATAT
1 TATGCTAAGTATGATCTGTAT
* * *
6163103 TATGTTAAGTATAATATGTTAT
1 TATGCTAAGTATGATCTG-TAT
* *
6163125 T-TGCTAAGTATGGTCTGAAT
1 TATGCTAAGTATGATCTGTAT
6163145 TA
1 TA
6163147 GGTATATAAA
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
20 3 0.06
21 43 0.86
22 4 0.08
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (21 bp):
TATGCTAAGTATGATCTGTAT
Found at i:6171418 original size:20 final size:20
Alignment explanation
Indices: 6171393--6171576 Score: 108
Period size: 20 Copynumber: 9.2 Consensus size: 20
6171383 GAAGTATAAA
6171393 CAGGGGCACGTATGTGCAAT
1 CAGGGGCACGTATGTGCAAT
* ** * *
6171413 CAGGGGTAC-TAAAATACAAA
1 CAGGGGCACGT-ATGTGCAAT
6171433 CAGGGGCACGTATGTGCAAT
1 CAGGGGCACGTATGTGCAAT
* * * *
6171453 CAGGGGTACCG-AAGTACAAA
1 CAGGGGCA-CGTATGTGCAAT
*
6171473 CAGAGGCACGTATGTGCAAT
1 CAGGGGCACGTATGTGCAAT
* * * * *
6171493 CAGGAGTACCG-AAGTTCAAA
1 CAGGGGCA-CGTATGTGCAAT
*
6171513 CAGGGGCATGTATGTGCAAT
1 CAGGGGCACGTATGTGCAAT
* * *
6171533 CAGGGGTACCG-AAGTTCAAAT
1 CAGGGGCA-CGTATGTGC-AAT
*
6171554 -AGGGGCACGTATGTACAAT
1 CAGGGGCACGTATGTGCAAT
6171573 CAGG
1 CAGG
6171577 TAAAATTAAC
Statistics
Matches: 116, Mismatches: 38, Indels: 20
0.67 0.22 0.11
Matches are distributed among these distances:
19 9 0.08
20 98 0.84
21 9 0.08
ACGTcount: A:0.33, C:0.18, G:0.30, T:0.18
Consensus pattern (20 bp):
CAGGGGCACGTATGTGCAAT
Found at i:6171445 original size:40 final size:40
Alignment explanation
Indices: 6171382--6171576 Score: 291
Period size: 40 Copynumber: 4.9 Consensus size: 40
6171372 TTGAAATTAT
*
6171382 CGAAGTATAAACAGGGGCACGTATGTGCAATCAGGGGTAC
1 CGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTAC
** *
6171422 TAAAATACAAACAGGGGCACGTATGTGCAATCAGGGGTAC
1 CGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTAC
* *
6171462 CGAAGTACAAACAGAGGCACGTATGTGCAATCAGGAGTAC
1 CGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTAC
* *
6171502 CGAAGTTCAAACAGGGGCATGTATGTGCAATCAGGGGTAC
1 CGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTAC
* * *
6171542 CGAAGTTCAAATAGGGGCACGTATGTACAATCAGG
1 CGAAGTACAAACAGGGGCACGTATGTGCAATCAGG
6171577 TAAAATTAAC
Statistics
Matches: 139, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.18
Consensus pattern (40 bp):
CGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTAC
Found at i:6176837 original size:21 final size:21
Alignment explanation
Indices: 6176788--6176839 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
6176778 AGTTATAAGC
6176788 TAAGTATGATCTATATTATGG
1 TAAGTATGATCTATATTATGG
* * **
6176809 TAACTATGATCTGTATTATTT
1 TAAGTATGATCTATATTATGG
6176830 TAAGTATGAT
1 TAAGTATGAT
6176840 ATGTTATTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.46
Consensus pattern (21 bp):
TAAGTATGATCTATATTATGG
Found at i:6177735 original size:12 final size:12
Alignment explanation
Indices: 6177718--6177742 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6177708 ATTTCTAGAT
6177718 TTTCAAAGTGAA
1 TTTCAAAGTGAA
6177730 TTTCAAAGTGAA
1 TTTCAAAGTGAA
6177742 T
1 T
6177743 CATGGTAACT
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:0.08, G:0.16, T:0.36
Consensus pattern (12 bp):
TTTCAAAGTGAA
Found at i:6194534 original size:29 final size:29
Alignment explanation
Indices: 6194502--6194557 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
6194492 GAGACATCCT
*
6194502 TTTAACATAAACAACCACAAAGGCTTTAA
1 TTTAACAGAAACAACCACAAAGGCTTTAA
* *
6194531 TTTAATAGAAACAACCACAAATGCTTT
1 TTTAACAGAAACAACCACAAAGGCTTT
6194558 TAACAAAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.27
Consensus pattern (29 bp):
TTTAACAGAAACAACCACAAAGGCTTTAA
Found at i:6201542 original size:44 final size:44
Alignment explanation
Indices: 6201494--6201583 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
6201484 TAAAGTCCAC
*
6201494 TTGATGTATTTGAAACTAGACTCAATTACCTTTCTACCATAAAA
1 TTGATGTATTTGAAACTAGACTCAAATACCTTTCTACCATAAAA
*
6201538 TTGATGTATTTGAAACTAGACTTAAATACCTTTCTACCATAAAA
1 TTGATGTATTTGAAACTAGACTCAAATACCTTTCTACCATAAAA
6201582 TT
1 TT
6201584 TTCAAAATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.38
Consensus pattern (44 bp):
TTGATGTATTTGAAACTAGACTCAAATACCTTTCTACCATAAAA
Found at i:6221152 original size:26 final size:26
Alignment explanation
Indices: 6221103--6221163 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
6221093 TTAGCCATTT
**
6221103 TTTTAATTTTTTTTATCTTGTTTTTA
1 TTTTAATTTTTTTTATCTAATTTTTA
*
6221129 TTTTAATTTTTATTT-TCTAATTTTTC
1 TTTTAATTTTT-TTTATCTAATTTTTA
6221155 TTTT-ATTTT
1 TTTTAATTTT
6221164 CTTCTGTCAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.16
26 23 0.74
27 3 0.10
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (26 bp):
TTTTAATTTTTTTTATCTAATTTTTA
Found at i:6226752 original size:17 final size:17
Alignment explanation
Indices: 6226718--6226796 Score: 68
Period size: 18 Copynumber: 4.4 Consensus size: 17
6226708 ATTTTATTTG
* *
6226718 TTTTCTTTTTAATCTTA
1 TTTTCTTTTTATTTTTA
*
6226735 TTTTCTTTTTATGTTTA
1 TTTTCTTTTTATTTTTA
* *
6226752 TGTTTATTTCTATTTTTA
1 T-TTTCTTTTTATTTTTA
*
6226770 GTTGTTTTGTTTTATTTTTA
1 -TT-TTCT-TTTTATTTTTA
6226790 TTTTCTT
1 TTTTCTT
6226797 GTACTTATTT
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
17 16 0.33
18 17 0.35
19 6 0.12
20 10 0.20
ACGTcount: A:0.13, C:0.06, G:0.06, T:0.75
Consensus pattern (17 bp):
TTTTCTTTTTATTTTTA
Found at i:6233179 original size:26 final size:24
Alignment explanation
Indices: 6233128--6233175 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
6233118 GAAATAAATT
*
6233128 ATATATATAAATATATTTAAAAGA
1 ATATATATAAACATATTTAAAAGA
6233152 ATATATATAAACATATTTAAAAGA
1 ATATATATAAACATATTTAAAAGA
6233176 GAATTTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (24 bp):
ATATATATAAACATATTTAAAAGA
Found at i:6233465 original size:25 final size:25
Alignment explanation
Indices: 6233419--6233498 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
6233409 CAATAAATCT
* * *
6233419 AAATAATCATAGACGATAAATTTTA
1 AAATAATAATACATGATAAATTTTA
*
6233444 AAATAATAATACATGATGAA-TTTA
1 AAATAATAATACATGATAAATTTTA
* * *
6233468 AATAAAAAAATACATGATAAATTTAA
1 AA-ATAATAATACATGATAAATTTTA
6233494 AAATA
1 AAATA
6233499 TGTTTATCAT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
24 6 0.14
25 33 0.75
26 5 0.11
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.30
Consensus pattern (25 bp):
AAATAATAATACATGATAAATTTTA
Found at i:6246704 original size:51 final size:51
Alignment explanation
Indices: 6246625--6246724 Score: 173
Period size: 51 Copynumber: 2.0 Consensus size: 51
6246615 ATCTACTCCA
*
6246625 CTTTAGCTTTAATCTATTCCACTGCAATGCTAGGGAAACAAGATTCGCTAC
1 CTTTAGCTTTAATCTATTCCACTACAATGCTAGGGAAACAAGATTCGCTAC
* *
6246676 CTTTAGCTTTAATCTGTTCCACTACAATGCTAGGGAAATAAGATTCGCT
1 CTTTAGCTTTAATCTATTCCACTACAATGCTAGGGAAACAAGATTCGCT
6246725 GCTTTCAGTC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (51 bp):
CTTTAGCTTTAATCTATTCCACTACAATGCTAGGGAAACAAGATTCGCTAC
Found at i:6249026 original size:11 final size:11
Alignment explanation
Indices: 6249012--6249050 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
6249002 TTGGCATCTC
6249012 CTTTTTCTTTT
1 CTTTTTCTTTT
*
6249023 CTTTTTCCTTCT
1 CTTTTT-CTTTT
6249035 CTTTTTCTTTT
1 CTTTTTCTTTT
6249046 CTTTT
1 CTTTT
6249051 CTCATCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (11 bp):
CTTTTTCTTTT
Found at i:6252149 original size:19 final size:20
Alignment explanation
Indices: 6252125--6252171 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
6252115 TGGTGGACTT
* *
6252125 TAATGCATATG-ATGTAATG
1 TAATGCAAATGTATGAAATG
6252144 TAATGCAAATGTATGAAATG
1 TAATGCAAATGTATGAAATG
6252164 T-ATGCAAA
1 TAATGCAAA
6252172 AAGAGACGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.32
Consensus pattern (20 bp):
TAATGCAAATGTATGAAATG
Found at i:6252651 original size:16 final size:16
Alignment explanation
Indices: 6252627--6252661 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6252617 TTCTATGATG
*
6252627 AAATACCATGCAGTCA
1 AAATACCATGCAATCA
*
6252643 AAATGCCATGCAATCA
1 AAATACCATGCAATCA
6252659 AAA
1 AAA
6252662 CAAAACACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.23, G:0.11, T:0.17
Consensus pattern (16 bp):
AAATACCATGCAATCA
Found at i:6256662 original size:27 final size:25
Alignment explanation
Indices: 6256591--6256670 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
6256581 TTATTAGGAT
* *
6256591 TACCGATTTATGGCTTATGAGAGCA
1 TACCGATTTATAGCTCATGAGAGCA
*
6256616 TACTGATTTATAGCTCATGAGAGCA
1 TACCGATTTATAGCTCATGAGAGCA
*
6256641 TACCGATCTT-TAGCTCA-AATGAGCA
1 TACCGAT-TTATAGCTCATGA-GAGCA
6256666 TACCG
1 TACCG
6256671 GTTCACAGCT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
24 1 0.02
25 45 0.94
26 2 0.04
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (25 bp):
TACCGATTTATAGCTCATGAGAGCA
Found at i:6256664 original size:25 final size:25
Alignment explanation
Indices: 6256591--6256693 Score: 84
Period size: 25 Copynumber: 4.1 Consensus size: 25
6256581 TTATTAGGAT
* * *
6256591 TACCGATTTATGGCTTATGAGAGCA
1 TACCGATTTATAGCTCATAAGAGCA
* *
6256616 TACTGATTTATAGCTCATGAGAGCA
1 TACCGATTTATAGCTCATAAGAGCA
6256641 TACCGATCTT-TAGCTCA-AATGAGCA
1 TACCGAT-TTATAGCTCATAA-GAGCA
* * * * *
6256666 TACCGGTTCACAGCTCGTATGAGCA
1 TACCGATTTATAGCTCATAAGAGCA
6256691 TAC
1 TAC
6256694 ATGAACATGA
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
24 2 0.03
25 59 0.92
26 3 0.05
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (25 bp):
TACCGATTTATAGCTCATAAGAGCA
Found at i:6258983 original size:38 final size:38
Alignment explanation
Indices: 6258932--6259008 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
6258922 AATTCTAAAG
*
6258932 ACACGGAATAAGTAAGTCATCAATCCCTAAAATGGACT
1 ACACGGAATAAGTAAGTCATCAATCCCTAAAATAGACT
6258970 ACACGGAATAAGTAAGTCATCAATCCCTAAAATAGACT
1 ACACGGAATAAGTAAGTCATCAATCCCTAAAATAGACT
6259008 A
1 A
6259009 TGTAATGTAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.21
Consensus pattern (38 bp):
ACACGGAATAAGTAAGTCATCAATCCCTAAAATAGACT
Found at i:6284243 original size:14 final size:14
Alignment explanation
Indices: 6284224--6284255 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
6284214 TATTTCATTG
*
6284224 AAAATGGTTTTTGA
1 AAAATGATTTTTGA
6284238 AAAATGATTTTTGA
1 AAAATGATTTTTGA
6284252 AAAA
1 AAAA
6284256 CTAACTTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.38
Consensus pattern (14 bp):
AAAATGATTTTTGA
Found at i:6287025 original size:21 final size:21
Alignment explanation
Indices: 6286984--6287028 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6286974 TGTAACAAAA
**
6286984 TTTTAATTTAACATATTTAAT
1 TTTTAATTTAACATAAATAAT
*
6287005 TTTTAATTTAACTTAAATAAT
1 TTTTAATTTAACATAAATAAT
6287026 TTT
1 TTT
6287029 ACGACTCGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTTAATTTAACATAAATAAT
Found at i:6290848 original size:40 final size:39
Alignment explanation
Indices: 6290804--6290890 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 39
6290794 AATCGAACAC
6290804 TAGCGGCGCATATACAAAAACACCGCTAA-AGATCAAGAAT
1 TAGCGGCGCATATACAAAAACACCGCTAATA-AT-AAGAAT
* ** * *
6290844 TAGCGGCGCATTTAGGAAAACGCCGCTAATAATAAGCAT
1 TAGCGGCGCATATACAAAAACACCGCTAATAATAAGAAT
6290883 TAGCGGCG
1 TAGCGGCG
6290891 ATTTATGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
39 13 0.32
40 27 0.66
41 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (39 bp):
TAGCGGCGCATATACAAAAACACCGCTAATAATAAGAAT
Found at i:6291128 original size:113 final size:113
Alignment explanation
Indices: 6290898--6291101 Score: 275
Period size: 113 Copynumber: 1.8 Consensus size: 113
6290888 GCGATTTATG
6290898 AAAAGCGCCGCAAAAAACATAAGGCCAACGACGCCGTTTACTGAGTTTTTGGACCTGTAGCAGCG
1 AAAAGCGCCGCAAAAAACATAAGGCCAACGACGCCGTTTACTGAGTTTTTGGACCTGTAGCAGCG
* * *
6290963 TTTTTAGAAAAACGCCGCTAATGCTCGGGAGACTTAATGACGATTTCTA
66 TTTTTAGAAAAACGCCGCTAATGCTC-GCAGACTTAACGACGATTTCAA
* * * * ** * *
6291012 AAAAGTGCCGCAAAAAACCTAAGGCCAACGACGTCGTTT-CTGCGTTTTTGTCCCTGTTGCGGCG
1 AAAAGCGCCGCAAAAAACATAAGGCCAACGACGCCGTTTACTGAGTTTTTGGACCTGTAGCAGCG
* *
6291076 TTTTTTGAAAAGCGCCGCTAATGCTC
66 TTTTTAGAAAAACGCCGCTAATGCTC
6291102 CTGCCTTTAG
Statistics
Matches: 80, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
113 44 0.55
114 36 0.45
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (113 bp):
AAAAGCGCCGCAAAAAACATAAGGCCAACGACGCCGTTTACTGAGTTTTTGGACCTGTAGCAGCG
TTTTTAGAAAAACGCCGCTAATGCTCGCAGACTTAACGACGATTTCAA
Found at i:6291174 original size:41 final size:40
Alignment explanation
Indices: 6291070--6291175 Score: 140
Period size: 41 Copynumber: 2.6 Consensus size: 40
6291060 TGTCCCTGTT
*
6291070 GCGGCGTTTTTTGAAAAGCGCCGCTAATGCTCCTGCCTTTA
1 GCGGCG-TTTTTGAAAAGCGCCGCTAATGATCCTGCCTTTA
* * * *
6291111 GCGGCGTTTTTCAAAAAACGCCGCTAATGATCTTGTCTTTA
1 GCGGCGTTTTT-GAAAAGCGCCGCTAATGATCCTGCCTTTA
6291152 GCGGCGTTTTCTGAAAAGCGCCGC
1 GCGGCGTTTT-TGAAAAGCGCCGC
6291176 AAAAAAACCT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
40 5 0.09
41 50 0.89
42 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.30
Consensus pattern (40 bp):
GCGGCGTTTTTGAAAAGCGCCGCTAATGATCCTGCCTTTA
Found at i:6292189 original size:20 final size:20
Alignment explanation
Indices: 6292164--6292261 Score: 65
Period size: 20 Copynumber: 4.8 Consensus size: 20
6292154 GGGATTTTTG
*
6292164 GTTTTTGAGTTTGGGGTTTA
1 GTTTTTGAGTTTAGGGTTTA
* *
6292184 GTTTTTGGGGTTAGGGTTT-
1 GTTTTTGAGTTTAGGGTTTA
* *
6292203 GTGGTTTGGGGTTT-GGGATTTA
1 GT--TTTTGAGTTTAGGG-TTTA
*
6292225 GGTTTTTGAGTTTATGGTTTA
1 -GTTTTTGAGTTTAGGGTTTA
* * *
6292246 GTGTTCGAGGTTAGGG
1 GTTTTTGAGTTTAGGG
6292262 GTTTGGAAAT
Statistics
Matches: 60, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
19 2 0.03
20 31 0.52
21 23 0.38
22 2 0.03
23 2 0.03
ACGTcount: A:0.10, C:0.01, G:0.40, T:0.49
Consensus pattern (20 bp):
GTTTTTGAGTTTAGGGTTTA
Found at i:6293322 original size:18 final size:19
Alignment explanation
Indices: 6293301--6293343 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
6293291 CTCTCATATC
6293301 CCCCAAATCCCTAA-AATT
1 CCCCAAATCCCTAACAATT
* *
6293319 CCCCTAATCCCTAACAGTT
1 CCCCAAATCCCTAACAATT
6293338 CCCCAA
1 CCCCAA
6293344 CATAGTCCAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.33, C:0.44, G:0.02, T:0.21
Consensus pattern (19 bp):
CCCCAAATCCCTAACAATT
Found at i:6295901 original size:56 final size:56
Alignment explanation
Indices: 6295814--6295943 Score: 197
Period size: 56 Copynumber: 2.3 Consensus size: 56
6295804 TAAAATTTCT
* * *
6295814 TAACTTATATAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTACA
1 TAACTTATATAATATT-ACATAACTTATATAATATTAAGATAAAATATCGAATTACA
* *
6295871 TAATTTATATAATATTACATAACTTATATAATGTTAAGATAAAATATCGAATTACA
1 TAACTTATATAATATTACATAACTTATATAATATTAAGATAAAATATCGAATTACA
*
6295927 TAACTTATACAATATTA
1 TAACTTATATAATATTA
6295944 AGATAAAATT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
56 51 0.77
57 15 0.23
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (56 bp):
TAACTTATATAATATTACATAACTTATATAATATTAAGATAAAATATCGAATTACA
Found at i:6295934 original size:37 final size:37
Alignment explanation
Indices: 6295884--6295984 Score: 175
Period size: 37 Copynumber: 2.7 Consensus size: 37
6295874 TTTATATAAT
*
6295884 ATTACATAACTTATATAATGTTAAGATAAAATATCGA
1 ATTACATAACTTATATAATATTAAGATAAAATATCGA
* *
6295921 ATTACATAACTTATACAATATTAAGATAAAATTTCGA
1 ATTACATAACTTATATAATATTAAGATAAAATATCGA
6295958 ATTACATAACTTATATAATATTAAGAT
1 ATTACATAACTTATATAATATTAAGAT
6295985 TACTTTTATA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.37
Consensus pattern (37 bp):
ATTACATAACTTATATAATATTAAGATAAAATATCGA
Found at i:6296010 original size:57 final size:57
Alignment explanation
Indices: 6295929--6296093 Score: 269
Period size: 57 Copynumber: 2.9 Consensus size: 57
6295919 GAATTACATA
* *
6295929 ACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
1 ACTTATATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATATTAAGATT
* *
6295986 ACTTTTATAATATTAAGATCAAATTTCGAATTACATAGCTTATATAATATTAAGATT
1 ACTTATATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATATTAAGATT
* *
6296043 ACTTATATAATATTAAGATCAAATTTCTAATTACATAACTTACATAA-ATTA
1 ACTTATATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATATTA
6296094 CATAACTTAC
Statistics
Matches: 100, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
56 4 0.04
57 96 0.96
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (57 bp):
ACTTATATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATATTAAGATT
Found at i:6296087 original size:9 final size:9
Alignment explanation
Indices: 6296073--6296247 Score: 180
Period size: 9 Copynumber: 19.9 Consensus size: 9
6296063 AAATTTCTAA
6296073 TTACATAAC
1 TTACATAAC
*
6296082 TTACATAAA
1 TTACATAAC
6296091 TTACATAAC
1 TTACATAAC
6296100 TTACATAAC
1 TTACATAAC
*
6296109 TTACATAAA
1 TTACATAAC
*
6296118 TTAAATAAC
1 TTACATAAC
*
6296127 TTGCATAAC
1 TTACATAAC
*
6296136 TTAAATAAC
1 TTACATAAC
6296145 TTACATAA-
1 TTACATAAC
6296153 -TACATAACC
1 TTACATAA-C
*
6296162 TT-CCTAAC
1 TTACATAAC
* *
6296170 TTACATTAT
1 TTACATAAC
*
6296179 TTAGATAA-
1 TTACATAAC
*
6296187 -TACATAGC
1 TTACATAAC
*
6296195 CTACATAAC
1 TTACATAAC
6296204 TTACATAAC
1 TTACATAAC
*
6296213 TTACATAAA
1 TTACATAAC
*
6296222 TTAAATAAC
1 TTACATAAC
*
6296231 TTCCATAAC
1 TTACATAAC
6296240 TTACATAA
1 TTACATAA
6296248 ATTTATTGAT
Statistics
Matches: 134, Mismatches: 26, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
7 12 0.09
8 3 0.02
9 118 0.88
10 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.34
Consensus pattern (9 bp):
TTACATAAC
Found at i:6296116 original size:150 final size:150
Alignment explanation
Indices: 6295814--6296098 Score: 403
Period size: 150 Copynumber: 1.9 Consensus size: 150
6295804 TAAAATTTCT
* *
6295814 TAACTTATATAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTACATAATTTAT
1 TAACTTATATAATATTAAGATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTAT
* *
6295879 ATAATATTACATAACTTATATAATGTTAAGATAAAATATCGAATTACATAACTTATACAATATTA
66 ATAATATTACATAACTTATATAATATTAAGATAAAATATCGAATTACATAACTTACACAATATTA
* *
6295944 AGATAAAATTTCGAATTACA
131 ACATAAAATTACGAATTACA
* * * *
6295964 TAACTTATATAATATTAAGATTACTTTTATAATATTAAGATCAAATTTCGAATTACATAGCTTAT
1 TAACTTATATAATATTAAGATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTAT
* * * * * *
6296029 ATAATATTAAGATTACTTATATAATATTAAGATCAAATTTCTAATTACATAACTTACATAA-ATT
66 ATAATATT-ACATAACTTATATAATATTAAGATAAAATATCGAATTACATAACTTACACAATATT
6296093 -ACATAA
130 AACATAA
6296099 CTTACATAAC
Statistics
Matches: 119, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
149 5 0.04
150 70 0.59
151 44 0.37
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.40
Consensus pattern (150 bp):
TAACTTATATAATATTAAGATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTAT
ATAATATTACATAACTTATATAATATTAAGATAAAATATCGAATTACATAACTTACACAATATTA
ACATAAAATTACGAATTACA
Found at i:6299947 original size:29 final size:29
Alignment explanation
Indices: 6299905--6299960 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
6299895 CGATTATTAT
* *
6299905 TTGATGGTCGTCACCATCCCCTTTCATTG
1 TTGACGGTCATCACCATCCCCTTTCATTG
*
6299934 TTGACGGTCATCACCATCCCGTTTCAT
1 TTGACGGTCATCACCATCCCCTTTCAT
6299961 AATTTGATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (29 bp):
TTGACGGTCATCACCATCCCCTTTCATTG
Found at i:6299989 original size:30 final size:30
Alignment explanation
Indices: 6299949--6300020 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
6299939 GGTCATCACC
* * *
6299949 ATCCCGTTTCATAATTTGATACCCGAAGTT
1 ATCCCTTTTCATAATTCGATACCCGAAGCT
* * *
6299979 ATCCCTTTTCACAATTCGATAGCTGAAGCT
1 ATCCCTTTTCATAATTCGATACCCGAAGCT
6300009 ATCCCTTTTCAT
1 ATCCCTTTTCAT
6300021 TGTTCAATGG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.25, C:0.26, G:0.11, T:0.38
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATACCCGAAGCT
Found at i:6300043 original size:30 final size:29
Alignment explanation
Indices: 6300009--6300079 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
6299999 AGCTGAAGCT
*
6300009 ATCCCTTTTCATTGTTCAATGGTCGTCACC
1 ATCCCTTTTCATTATT-AATGGTCGTCACC
* *
6300039 ATCCCTTTTAATTATTGATGGTCGTCACC
1 ATCCCTTTTCATTATTAATGGTCGTCACC
6300068 ATCCCTTTTCAT
1 ATCCCTTTTCAT
6300080 AATTTGATAG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 23 0.62
30 14 0.38
ACGTcount: A:0.18, C:0.28, G:0.11, T:0.42
Consensus pattern (29 bp):
ATCCCTTTTCATTATTAATGGTCGTCACC
Found at i:6300120 original size:31 final size:31
Alignment explanation
Indices: 6300068--6300142 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
6300058 GGTCGTCACC
6300068 ATCCCTTTTCA-TAATTTGATAGCC-AAGGCT
1 ATCCCTTTTCATTAATTTGATAGCCGAA-GCT
**
6300098 ATCCCTTTTCATTGTTTTGATAGCCGAAGCT
1 ATCCCTTTTCATTAATTTGATAGCCGAAGCT
6300129 ATCCCTTTTCATTA
1 ATCCCTTTTCATTA
6300143 GCCGATGATC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
30 11 0.28
31 27 0.68
32 2 0.05
ACGTcount: A:0.23, C:0.24, G:0.12, T:0.41
Consensus pattern (31 bp):
ATCCCTTTTCATTAATTTGATAGCCGAAGCT
Found at i:6306763 original size:30 final size:30
Alignment explanation
Indices: 6306728--6306796 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
6306718 TTGTCCCAAC
6306728 CCTTTTCATAGCTCGATAGTC-GAAGCTA-T
1 CCTTTTCATAGCTCGATA-TCAGAAGCTATT
*
6306757 CACTTTTCAAAGCTCGATATCAGAAGCTATT
1 C-CTTTTCATAGCTCGATATCAGAAGCTATT
6306788 CCTTTTCAT
1 CCTTTTCAT
6306797 TATTTGATGG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 3 0.09
30 30 0.86
31 2 0.06
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (30 bp):
CCTTTTCATAGCTCGATATCAGAAGCTATT
Found at i:6317988 original size:32 final size:32
Alignment explanation
Indices: 6317947--6318010 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
6317937 GTTTGGAGTG
6317947 TTACATAAACCTCAGTCTCTTTCATTCATGCA
1 TTACATAAACCTCAGTCTCTTTCATTCATGCA
6317979 TTACATAAACCTCAGTCTCTTTCATTCATGCA
1 TTACATAAACCTCAGTCTCTTTCATTCATGCA
6318011 CGAACACTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.38
Consensus pattern (32 bp):
TTACATAAACCTCAGTCTCTTTCATTCATGCA
Found at i:6319127 original size:26 final size:26
Alignment explanation
Indices: 6319069--6319119 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
6319059 GTTTTGTTGG
6319069 TGATTGTGAACAATGAAGAAGAATTA
1 TGATTGTGAACAATGAAGAAGAATTA
* *
6319095 TGATTGTGAATAGTGAAGAAGAATT
1 TGATTGTGAACAATGAAGAAGAATT
6319120 GATTTTGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.25, T:0.29
Consensus pattern (26 bp):
TGATTGTGAACAATGAAGAAGAATTA
Found at i:6319819 original size:66 final size:66
Alignment explanation
Indices: 6319712--6319842 Score: 181
Period size: 66 Copynumber: 2.0 Consensus size: 66
6319702 TTATTGCATT
* * * * *
6319712 AATGTCGCTGCATGAGTTAATCCCAGATTGCATCCAAAATTGTCGCCACGCCTAACAGTTATCCG
1 AATGTCACTGCATGAATTAATCCCAGACTGCATCCAAAATTGTCGCCACACCTAACAGCTATCCG
6319777 C
66 C
* * * *
6319778 AATGTCACTGCATGAATTAATTCCAGACTGCGTCCAGAATTGTCGCCACACCTGACAGCTATCCG
1 AATGTCACTGCATGAATTAATCCCAGACTGCATCCAAAATTGTCGCCACACCTAACAGCTATCCG
6319843 GATAAGAACC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.25
Consensus pattern (66 bp):
AATGTCACTGCATGAATTAATCCCAGACTGCATCCAAAATTGTCGCCACACCTAACAGCTATCCG
C
Found at i:6321318 original size:22 final size:22
Alignment explanation
Indices: 6321276--6321318 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
6321266 CTTTGTCACA
*
6321276 ACAAGAAGAAAGCCACGTCATG
1 ACAAGAAGAAAGCCACATCATG
*
6321298 ACAAGAAGAAAGCCATATCAT
1 ACAAGAAGAAAGCCACATCAT
6321319 AACTTGGCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.21, G:0.19, T:0.12
Consensus pattern (22 bp):
ACAAGAAGAAAGCCACATCATG
Done.