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 255 of 259
Found at i:80042601 original size:30 final size:30
Alignment explanation
Indices: 80042567--80042772 Score: 195
Period size: 30 Copynumber: 6.9 Consensus size: 30
80042557 ACCTCTCTTG
* *
80042567 CCAATCCCACCACCAAGGCCTCCACCTTTT
1 CCAATCCCACCACCAAGCCCTCCACCCTTT
* * * *
80042597 CCAATCCCGCCGCCAAGGCCTCCACCCTTG
1 CCAATCCCACCACCAAGCCCTCCACCCTTT
*
80042627 CCAATCCCACCACCAAGACCC-CCACCCTTG
1 CCAATCCCACCACCAAG-CCCTCCACCCTTT
* * *
80042657 CCAATGCCACCACCAAGTCCACCACCCTTT
1 CCAATCCCACCACCAAGCCCTCCACCCTTT
* * *
80042687 CCAATGCCACCACCAAGTCCACCA-CCTTT
1 CCAATCCCACCACCAAGCCCTCCACCCTTT
* * *
80042716 ACCAATTCCACCACCAAACCCTCC-CCCTGCT
1 -CCAATCCCACCACCAAGCCCTCCACCCT-TT
*
80042747 CC-ACCTCCACCACCAAGCCCTCCACC
1 CCAATC-CCACCACCAAGCCCTCCACC
80042773 AGCTCCACCT
Statistics
Matches: 151, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
29 8 0.05
30 138 0.91
31 5 0.03
ACGTcount: A:0.24, C:0.54, G:0.07, T:0.15
Consensus pattern (30 bp):
CCAATCCCACCACCAAGCCCTCCACCCTTT
Found at i:80042619 original size:72 final size:72
Alignment explanation
Indices: 80042474--80042619 Score: 157
Period size: 72 Copynumber: 2.0 Consensus size: 72
80042464 TCCAATACCA
* * * * * * * *
80042474 CCTCCAAGTCCACCACCCTTTCCAATTCCGCCTCCAAGTCCACCTCCTTTTCCTATTCCACCACC
1 CCTCCAAGTCCACCACCCTTGCCAATCCCACCACCAAGGCCACCACCTTTTCCAATCCCACCACC
* *
80042539 ATGTCCT
66 AAGGCCT
* * * * *
80042546 CCTCCAAGTCCACCTCTCTTGCCAATCCCACCACCAAGGCCTCCACCTTTTCCAATCCCGCCGCC
1 CCTCCAAGTCCACCACCCTTGCCAATCCCACCACCAAGGCCACCACCTTTTCCAATCCCACCACC
80042611 AAGGCCT
66 AAGGCCT
80042618 CC
1 CC
80042620 ACCCTTGCCA
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
72 59 1.00
ACGTcount: A:0.18, C:0.50, G:0.08, T:0.23
Consensus pattern (72 bp):
CCTCCAAGTCCACCACCCTTGCCAATCCCACCACCAAGGCCACCACCTTTTCCAATCCCACCACC
AAGGCCT
Found at i:80042757 original size:90 final size:90
Alignment explanation
Indices: 80042563--80042772 Score: 230
Period size: 90 Copynumber: 2.3 Consensus size: 90
80042553 GTCCACCTCT
* * * * * * *
80042563 CTTGCCAATCCCACCACCAAGGCCTCCACCTTTTCCAATCCCGCCGCCAAGGCCTCCACCCTTGC
1 CTTGCCAATGCCACCACCAAGCCCTCCACCCTTTCCAATCCCACCACCAAGGCCACCACCCTTAC
80042628 CAATCCCACCACCAAGACCCCCACC
66 CAATCCCACCACCAAGACCCCCACC
* * * * *
80042653 CTTGCCAATGCCACCACCAAGTCCACCACCCTTTCCAATGCCACCACCAAGTCCACCACCTTTAC
1 CTTGCCAATGCCACCACCAAGCCCTCCACCCTTTCCAATCCCACCACCAAGGCCACCACCCTTAC
*
80042718 CAATTCCACCACCAA-ACCCTCC-CC
66 CAATCCCACCACCAAGACCC-CCACC
*
80042742 C-TGCTCCACCT-CCACCACCAAGCCCTCCACC
1 CTTG--CCA-ATGCCACCACCAAGCCCTCCACC
80042773 AGCTCCACCT
Statistics
Matches: 101, Mismatches: 15, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
88 2 0.02
89 7 0.07
90 91 0.90
91 1 0.01
ACGTcount: A:0.24, C:0.53, G:0.08, T:0.15
Consensus pattern (90 bp):
CTTGCCAATGCCACCACCAAGCCCTCCACCCTTTCCAATCCCACCACCAAGGCCACCACCCTTAC
CAATCCCACCACCAAGACCCCCACC
Found at i:80042778 original size:30 final size:30
Alignment explanation
Indices: 80042722--80042822 Score: 112
Period size: 30 Copynumber: 3.4 Consensus size: 30
80042712 CTTTACCAAT
* * *
80042722 TCCACCACCAAACCCTCCCCCTGCTCCACC
1 TCCACCACCAAGCCCTCCACCAGCTCCACC
80042752 TCCACCACCAAGCCCTCCACCAGCTCCACC
1 TCCACCACCAAGCCCTCCACCAGCTCCACC
* * * * * *
80042782 TCCACCTCCAAGTCCACCACCACCCCCAGC
1 TCCACCACCAAGCCCTCCACCAGCTCCACC
*
80042812 TCCACCTCCAA
1 TCCACCACCAA
80042823 AACCAGCTCC
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.23, C:0.60, G:0.05, T:0.12
Consensus pattern (30 bp):
TCCACCACCAAGCCCTCCACCAGCTCCACC
Found at i:80042786 original size:6 final size:6
Alignment explanation
Indices: 80042775--80042880 Score: 50
Period size: 6 Copynumber: 17.2 Consensus size: 6
80042765 CCTCCACCAG
* * * * * *
80042775 CTCCAC CTCCAC CTCCAA GTCCAC CACCAC CCCCAG CTCCAC CTCCAA
1 CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC
** * * * * * **
80042823 AACCAG CTCCAC CTCCAG CACCAC CACCAA AACCAC CTCCAAGAC CTCCAC
1 CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCC---AC CTCCAC
80042874 CTCCAC C
1 CTCCAC C
80042881 AAAACCACCC
Statistics
Matches: 73, Mismatches: 24, Indels: 6
0.71 0.23 0.06
Matches are distributed among these distances:
6 67 0.92
9 6 0.08
ACGTcount: A:0.27, C:0.58, G:0.05, T:0.10
Consensus pattern (6 bp):
CTCCAC
Found at i:80042835 original size:30 final size:30
Alignment explanation
Indices: 80042781--80042863 Score: 103
Period size: 30 Copynumber: 2.8 Consensus size: 30
80042771 CCAGCTCCAC
** *
80042781 CTCCACCTCCAAGTCCACCACCACCCCCAG
1 CTCCACCTCCAAAACCACCTCCACCCCCAG
* *
80042811 CTCCACCTCCAAAACCAGCTCCACCTCCAG
1 CTCCACCTCCAAAACCACCTCCACCCCCAG
* *
80042841 CACCACCACCAAAACCACCTCCA
1 CTCCACCTCCAAAACCACCTCCA
80042864 AGACCTCCAC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.29, C:0.57, G:0.05, T:0.10
Consensus pattern (30 bp):
CTCCACCTCCAAAACCACCTCCACCCCCAG
Found at i:80042845 original size:18 final size:18
Alignment explanation
Indices: 80042768--80042845 Score: 86
Period size: 18 Copynumber: 4.3 Consensus size: 18
80042758 ACCAAGCCCT
80042768 CCACCAGCTCCACCTCCA
1 CCACCAGCTCCACCTCCA
* *
80042786 CCTCCAAG-TCCACCACCA
1 CCACC-AGCTCCACCTCCA
*
80042804 CCCCCAGCTCCACCTCCA
1 CCACCAGCTCCACCTCCA
**
80042822 AAACCAGCTCCACCTCCA
1 CCACCAGCTCCACCTCCA
*
80042840 GCACCA
1 CCACCA
80042846 CCACCAAAAC
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
17 2 0.04
18 45 0.92
19 2 0.04
ACGTcount: A:0.26, C:0.58, G:0.06, T:0.10
Consensus pattern (18 bp):
CCACCAGCTCCACCTCCA
Found at i:80042859 original size:15 final size:15
Alignment explanation
Indices: 80042841--80042910 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
80042831 CCACCTCCAG
*
80042841 CACCACCACCAAAAC
1 CACCTCCACCAAAAC
** ***
80042856 CACCTCCAAGACCTC
1 CACCTCCACCAAAAC
80042871 CACCTCCACCAAAAC
1 CACCTCCACCAAAAC
*
80042886 CACCCCCACCACCAAACC
1 CACCTCCACCA--AAA-C
80042904 CACCTCC
1 CACCTCC
80042911 CTTAGTCAAA
Statistics
Matches: 39, Mismatches: 13, Indels: 3
0.71 0.24 0.05
Matches are distributed among these distances:
15 29 0.74
17 3 0.08
18 7 0.18
ACGTcount: A:0.34, C:0.59, G:0.01, T:0.06
Consensus pattern (15 bp):
CACCTCCACCAAAAC
Found at i:80050351 original size:15 final size:15
Alignment explanation
Indices: 80050331--80050363 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
80050321 TTTCCTCTTG
*
80050331 TTTTTCTCTCTTTTC
1 TTTTTCCCTCTTTTC
80050346 TTTTTCCCTCTTTTC
1 TTTTTCCCTCTTTTC
80050361 TTT
1 TTT
80050364 CGCCTGCCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTCCCTCTTTTC
Found at i:80054960 original size:6 final size:6
Alignment explanation
Indices: 80054949--80054982 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
80054939 GTACGAGAAT
80054949 GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG GGGA
1 GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG GGGA
80054983 TCTGTTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GGGAAG
Found at i:80063435 original size:19 final size:18
Alignment explanation
Indices: 80063396--80063438 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
80063386 TCAGCTATAT
**
80063396 ATATATATTAATAATTTA
1 ATATATATTAATAATAAA
80063414 ATATATACTTAATAATAAA
1 ATATATA-TTAATAATAAA
80063433 ATATAT
1 ATATAT
80063439 TTTATGTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATATTAATAATAAA
Found at i:80064341 original size:30 final size:28
Alignment explanation
Indices: 80064283--80064342 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
80064273 AATTAATAGT
* *
80064283 TTTAGGTGTCAAAATGAGAAAAAGAAAG
1 TTTAGGTGTCAAAATGACAAAAAAAAAG
*
80064311 TTTAGGTGTCAAATTGAAACAAAAAAAAAG
1 TTTAGGTGTCAAAATG--ACAAAAAAAAAG
80064341 TT
1 TT
80064343 CAAGGGCCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 15 0.56
30 12 0.44
ACGTcount: A:0.50, C:0.05, G:0.20, T:0.25
Consensus pattern (28 bp):
TTTAGGTGTCAAAATGACAAAAAAAAAG
Found at i:80067958 original size:20 final size:20
Alignment explanation
Indices: 80067935--80067972 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
80067925 TAAAAAATAT
*
80067935 ATTTTATAATTAAATTTAAA
1 ATTTTAAAATTAAATTTAAA
*
80067955 ATTTTAAAATTAATTTTA
1 ATTTTAAAATTAAATTTA
80067973 TTATCATTTA
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTTAAAATTAAATTTAAA
Found at i:80068440 original size:20 final size:20
Alignment explanation
Indices: 80068415--80068477 Score: 65
Period size: 25 Copynumber: 3.0 Consensus size: 20
80068405 GATGCTTGTG
80068415 TCATTTTGAGATAATAAATT
1 TCATTTTGAGATAATAAATT
*
80068435 TCATTTGCTTATGATAATATAAATT
1 TCATTT--TGA-GAT-A-ATAAATT
80068460 TCA-TTTGAGATAATAAAT
1 TCATTTTGAGATAATAAAT
80068478 ATATATCTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
19 6 0.17
20 7 0.19
21 3 0.08
22 4 0.11
23 3 0.08
24 3 0.08
25 10 0.28
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (20 bp):
TCATTTTGAGATAATAAATT
Found at i:80072974 original size:30 final size:31
Alignment explanation
Indices: 80072940--80073004 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
80072930 AACAACTCTG
*
80072940 TGACTT-AATAAAAACTTTTGAATAGTTCAA
1 TGACTTGAATAAAAACTTTTGAATAATTCAA
* ** *
80072970 TGACTTGAATGAAATTTTTTGAATAATTTAA
1 TGACTTGAATAAAAACTTTTGAATAATTCAA
80073001 TGAC
1 TGAC
80073005 CAAATTGTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 6 0.21
31 23 0.79
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (31 bp):
TGACTTGAATAAAAACTTTTGAATAATTCAA
Found at i:80074483 original size:32 final size:31
Alignment explanation
Indices: 80074447--80074517 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 31
80074437 TATTGAGAAT
*
80074447 TTATAAATATATAAATTAAAACTTTATAAA-AA
1 TTATAAATATATAAA-GAAAA-TTTATAAATAA
* *
80074479 TTATACAATATATATAGGAAATTTATAAATAA
1 TTATA-AATATATAAAGAAAATTTATAAATAA
80074511 TTATAAA
1 TTATAAA
80074518 AATCTATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
31 10 0.29
32 15 0.44
33 9 0.26
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (31 bp):
TTATAAATATATAAAGAAAATTTATAAATAA
Found at i:80074525 original size:20 final size:18
Alignment explanation
Indices: 80074447--80074527 Score: 55
Period size: 20 Copynumber: 4.4 Consensus size: 18
80074437 TATTGAGAAT
80074447 TTATAAATA-TAT--AAA
1 TTATAAATATTATAAAAA
80074462 TTA-AAACT-TTATAAAAA
1 TTATAAA-TATTATAAAAA
*
80074479 TTATACAATATATATAGGAAAT
1 TTATA-AATAT-TATA--AAAA
80074501 TTATAAATAATTATAAAAA
1 TTATAAAT-ATTATAAAAA
80074520 TCTATAAA
1 T-TATAAA
80074528 CCAAAAAGGT
Statistics
Matches: 52, Mismatches: 2, Indels: 19
0.71 0.03 0.26
Matches are distributed among these distances:
14 3 0.06
15 7 0.13
17 6 0.12
18 2 0.04
19 7 0.13
20 10 0.19
21 7 0.13
22 10 0.19
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (18 bp):
TTATAAATATTATAAAAA
Found at i:80074782 original size:19 final size:19
Alignment explanation
Indices: 80074760--80074810 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
80074750 TTTCCACGTG
80074760 AATTTTTATTTTTATT-TA
1 AATTTTTATTTTTATTGTA
*
80074778 TAATTTTTATATTTTGTTGTA
1 -AATTTTTAT-TTTTATTGTA
*
80074799 ATTTTTTATTTT
1 AATTTTTATTTT
80074811 ATATAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 12 0.43
20 14 0.50
21 2 0.07
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.73
Consensus pattern (19 bp):
AATTTTTATTTTTATTGTA
Found at i:80074785 original size:20 final size:18
Alignment explanation
Indices: 80074760--80074810 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
80074750 TTTCCACGTG
*
80074760 AATTTTTATTTTTATTTAT
1 AATTTTTATTTTT-GTTAT
*
80074779 AATTTTTATATTTTGTTGT
1 AATTTTTAT-TTTTGTTAT
80074798 AATTTTTTATTTT
1 AA-TTTTTATTTT
80074811 ATATAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.73
Consensus pattern (18 bp):
AATTTTTATTTTTGTTAT
Found at i:80075596 original size:23 final size:24
Alignment explanation
Indices: 80075570--80075617 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
80075560 TAGAATTTAG
80075570 ATATGAC-TTATCACTTTAAAATT
1 ATATGACTTTATCACTTTAAAATT
* *
80075593 ATATTACTTTATCACTTTGAAATT
1 ATATGACTTTATCACTTTAAAATT
80075617 A
1 A
80075618 AAATTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.46
Consensus pattern (24 bp):
ATATGACTTTATCACTTTAAAATT
Found at i:80077931 original size:25 final size:24
Alignment explanation
Indices: 80077885--80077932 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
80077875 AAATGTTATG
*
80077885 AAATAAATAAAAGAGAGTAAAAAT
1 AAATAAATAAAAGAGAGCAAAAAT
80077909 AAATAAA-AAATAGGAGAGCAAAAA
1 AAATAAATAAA-A-GAGAGCAAAAA
80077933 AGTAAGTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 3 0.14
24 8 0.38
25 10 0.48
ACGTcount: A:0.71, C:0.02, G:0.15, T:0.12
Consensus pattern (24 bp):
AAATAAATAAAAGAGAGCAAAAAT
Found at i:80082619 original size:13 final size:12
Alignment explanation
Indices: 80082595--80082620 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
80082585 ATGGAAATTT
80082595 ATCTTTTTAAAA
1 ATCTTTTTAAAA
80082607 ATCTTTTTAAAA
1 ATCTTTTTAAAA
80082619 AT
1 AT
80082621 GCTGAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (12 bp):
ATCTTTTTAAAA
Found at i:80084514 original size:6 final size:6
Alignment explanation
Indices: 80084503--80084534 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
80084493 TACAATACAT
80084503 TATGTA TATG-- TATGTA TATGTA TATGTA TATG
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATG
80084535 GCCTTGATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 4 0.17
6 20 0.83
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (6 bp):
TATGTA
Found at i:80095253 original size:16 final size:17
Alignment explanation
Indices: 80095220--80095269 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
80095210 TCGAGCCATA
80095220 TTAAATTTCAAATCATT
1 TTAAATTTCAAATCATT
*
80095237 TTAAATTT-AAATTATT
1 TTAAATTTCAAATCATT
* *
80095253 TT-AAGTTCGAATCATT
1 TTAAATTTCAAATCATT
80095269 T
1 T
80095270 CAATTTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 4 0.14
16 16 0.57
17 8 0.29
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.50
Consensus pattern (17 bp):
TTAAATTTCAAATCATT
Found at i:80095360 original size:17 final size:16
Alignment explanation
Indices: 80095318--80095348 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
80095308 AATTACGATG
*
80095318 AATTAAAATTTTAAAA
1 AATTCAAATTTTAAAA
80095334 AATTCAAATTTTAAA
1 AATTCAAATTTTAAA
80095349 TCATTTCAAA
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:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTCAAATTTTAAAA
Found at i:80096852 original size:21 final size:21
Alignment explanation
Indices: 80096811--80096853 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
80096801 AAGTTAGAAC
* *
80096811 AAAATTATCATTTATTATTTA
1 AAAAATATCATTTAATATTTA
*
80096832 AAAAATATCATTTAATGTTTA
1 AAAAATATCATTTAATATTTA
80096853 A
1 A
80096854 TAGAGTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (21 bp):
AAAAATATCATTTAATATTTA
Found at i:80097040 original size:28 final size:29
Alignment explanation
Indices: 80096991--80097047 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
80096981 TGTAAATATT
80096991 TTTAATAATAAAAAACTAAA-TTAATTTA
1 TTTAATAATAAAAAACTAAATTTAATTTA
**
80097019 TTTAATAATAAACATTCT-AATTTAATTTA
1 TTTAATAATAAA-AAACTAAATTTAATTTA
80097048 ATTTTCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (29 bp):
TTTAATAATAAAAAACTAAATTTAATTTA
Found at i:80098341 original size:13 final size:14
Alignment explanation
Indices: 80098302--80098341 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
80098292 ACATTAACTT
80098302 AATA-AAATATTTA
1 AATATAAATATTTA
80098315 AATATAAATA-TTA
1 AATATAAATATTTA
80098328 AAT-TAAATATTTA
1 AATATAAATATTTA
80098341 A
1 A
80098342 CACAATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.24
13 14 0.56
14 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAAATATTTA
Found at i:80106149 original size:29 final size:28
Alignment explanation
Indices: 80106083--80106151 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
80106073 TTTTTATTGG
* *
80106083 TCAC-CAATTATGAAAAGTTACAAAATG
1 TCACTCAACTATGAAAAGTTACAAAATA
* * *
80106110 TTAATCTAACTATGAAAAGTTAGAAAATAA
1 TCACTC-AACTATGAAAAGTTACAAAAT-A
80106140 TCACTCAACTAT
1 TCACTCAACTAT
80106152 TCAATTTAGT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
27 2 0.06
28 1 0.03
29 25 0.78
30 4 0.12
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.29
Consensus pattern (28 bp):
TCACTCAACTATGAAAAGTTACAAAATA
Found at i:80111595 original size:21 final size:23
Alignment explanation
Indices: 80111553--80111595 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
80111543 TATAATATAA
*
80111553 ATATGATAAAATAATTTATTAAT
1 ATATGATAAAATAAATTATTAAT
*
80111576 ATATGA-AATATAAATT-TTAA
1 ATATGATAAAATAAATTATTAA
80111596 ATGCTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 8 0.44
23 6 0.33
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (23 bp):
ATATGATAAAATAAATTATTAAT
Found at i:80119805 original size:5 final size:5
Alignment explanation
Indices: 80119795--80119828 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
80119785 GATCATAATG
80119795 ATATA ATATA ATATA ATATA ATATA ATATA ATAT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATAT
80119829 TATTTAAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:80120334 original size:15 final size:16
Alignment explanation
Indices: 80120308--80120337 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
80120298 ATATATATAT
80120308 ATTAATTTTTAATTTA
1 ATTAATTTTTAATTTA
80120324 ATTAA-TTTTAATTT
1 ATTAATTTTTAATTT
80120338 TTATATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTAATTTTTAATTTA
Found at i:80120347 original size:15 final size:15
Alignment explanation
Indices: 80120307--80120347 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
80120297 CATATATATA
80120307 TATTAATTTTTAATT
1 TATTAATTTTTAATT
80120322 TAATTAA-TTTTAATT
1 T-ATTAATTTTTAATT
80120337 T-TTATATTTTT
1 TATTA-ATTTTT
80120348 TAAAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 3 0.13
14 1 0.04
15 14 0.61
16 5 0.22
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTAATTTTTAATT
Found at i:80122537 original size:16 final size:17
Alignment explanation
Indices: 80122518--80122550 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
80122508 GCTTCCTCAT
80122518 TTTAAATTT-ATTTTTA
1 TTTAAATTTAATTTTTA
80122534 TTTAAATTTAATTTTTA
1 TTTAAATTTAATTTTTA
80122551 GAAAAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTAAATTTAATTTTTA
Found at i:80125608 original size:24 final size:24
Alignment explanation
Indices: 80125581--80125631 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
80125571 TCGAAGTAAT
*
80125581 TAACCTTATTCACAAAGGAGTTCG
1 TAACCTCATTCACAAAGGAGTTCG
*
80125605 TAACCTCATTCACGAAGGAGTTCG
1 TAACCTCATTCACAAAGGAGTTCG
80125629 TAA
1 TAA
80125632 ATGTTCTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (24 bp):
TAACCTCATTCACAAAGGAGTTCG
Found at i:80127809 original size:101 final size:99
Alignment explanation
Indices: 80127613--80127809 Score: 232
Period size: 101 Copynumber: 2.0 Consensus size: 99
80127603 AATATATTTA
* * * * *
80127613 AACTAAGTTAATAAACACATTTAATAATATTGATTAAAAAAATTGTCGAATTTTGACTTTCTTTT
1 AACTAAATTAATAAACACATTTAATAATAGTGATTAAAAAAATTGTCAAAATTTGACTTTCTTTC
*
80127678 CAAAACAAACCCACTAAACATTTTTCATCTGCAC
66 CAAAACAAACCCACAAAACATTTTTCATCTGCAC
* * * *
80127712 AACTAAATTGATAAATATATTTAATAATAGTGATTAAAAAATAATTGTTAAAATTTGACTTTCTT
1 AACTAAATTAATAAACACATTTAATAATAGTGATT-AAAAA-AATTGTCAAAATTTGACTTTCTT
** * * * *
80127777 TCCGGAACAAGCTCACAAAATATTTTTTATCTG
64 TCCAAAACAAACCCACAAAACATTTTTCATCTG
80127810 TATCAAACAA
Statistics
Matches: 80, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
99 30 0.38
100 5 0.06
101 45 0.56
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.37
Consensus pattern (99 bp):
AACTAAATTAATAAACACATTTAATAATAGTGATTAAAAAAATTGTCAAAATTTGACTTTCTTTC
CAAAACAAACCCACAAAACATTTTTCATCTGCAC
Found at i:80128557 original size:46 final size:47
Alignment explanation
Indices: 80128489--80128586 Score: 189
Period size: 46 Copynumber: 2.1 Consensus size: 47
80128479 AACTCGTGCT
80128489 TTTATATATATTATAGATTAATTAAGATTACAATTATGATTTATAAA
1 TTTATATATATTATAGATTAATTAAGATTACAATTATGATTTATAAA
80128536 TTTAT-TATATTATAGATTAATTAAGATTACAATTATGATTTATAAA
1 TTTATATATATTATAGATTAATTAAGATTACAATTATGATTTATAAA
80128582 TTTAT
1 TTTAT
80128587 CTCAAATAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 46 0.90
47 5 0.10
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (47 bp):
TTTATATATATTATAGATTAATTAAGATTACAATTATGATTTATAAA
Found at i:80128558 original size:16 final size:16
Alignment explanation
Indices: 80128495--80128558 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 16
80128485 TGCTTTTATA
80128495 TATATTATAGATTAAT
1 TATATTATAGATTAAT
* *
80128511 TAAGATTACA-ATT-AT
1 T-ATATTATAGATTAAT
* * *
80128526 GAT-TTATAAATTTAT
1 TATATTATAGATTAAT
80128541 TATATTATAGATTAAT
1 TATATTATAGATTAAT
80128557 TA
1 TA
80128559 AGATTACAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
13 4 0.11
14 4 0.11
15 6 0.17
16 16 0.44
17 6 0.17
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (16 bp):
TATATTATAGATTAAT
Found at i:80134074 original size:31 final size:30
Alignment explanation
Indices: 80134039--80134098 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 30
80134029 ATTTTTTTGA
*
80134039 TTAAATTTGACTT-TCAACATTTTAAAAAGAG
1 TTAAATTT-A-TTATCAACATTTCAAAAAGAG
80134070 TTAAATTTATTCATCAACATTTCAAAAAG
1 TTAAATTTATT-ATCAACATTTCAAAAAG
80134099 TATCAAGTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 2 0.08
30 1 0.04
31 23 0.88
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (30 bp):
TTAAATTTATTATCAACATTTCAAAAAGAG
Found at i:80142657 original size:16 final size:16
Alignment explanation
Indices: 80142638--80142671 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
80142628 AGAGGGATTA
80142638 TACTGAAGTAAAAGGG
1 TACTGAAGTAAAAGGG
80142654 TACTGAAGTAAAAGGG
1 TACTGAAGTAAAAGGG
80142670 TA
1 TA
80142672 ATAAAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.29, T:0.21
Consensus pattern (16 bp):
TACTGAAGTAAAAGGG
Found at i:80147704 original size:16 final size:16
Alignment explanation
Indices: 80147683--80147713 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
80147673 TAACATTACT
80147683 TTTATTTTTATTTTTG
1 TTTATTTTTATTTTTG
*
80147699 TTTATTTTTGTTTTT
1 TTTATTTTTATTTTT
80147714 TTCTGCCATG
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:0.10, C:0.00, G:0.06, T:0.84
Consensus pattern (16 bp):
TTTATTTTTATTTTTG
Found at i:80149437 original size:17 final size:16
Alignment explanation
Indices: 80149387--80149429 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
80149377 TGAATATTTT
* *
80149387 TTTTTTAAATTCATAGA
1 TTTTTTAAAATAATA-A
80149404 TATTTTTAAAATAATAA
1 T-TTTTTAAAATAATAA
80149421 TTTTTTAAA
1 TTTTTTAAA
80149430 GTAAATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 8 0.35
17 3 0.13
18 12 0.52
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (16 bp):
TTTTTTAAAATAATAA
Found at i:80152204 original size:21 final size:21
Alignment explanation
Indices: 80152176--80152222 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
80152166 GATAAATTTT
*
80152176 AATTTTTTTAAATTTT-TAAA
1 AATTTTTTTTAATTTTATAAA
*
80152196 TATTTTTTTTAATTTTATAAA
1 AATTTTTTTTAATTTTATAAA
80152217 AATTTT
1 AATTTT
80152223 AAAAAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
AATTTTTTTTAATTTTATAAA
Found at i:80152339 original size:13 final size:13
Alignment explanation
Indices: 80152321--80152349 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
80152311 TTTAATTAAT
80152321 TCAAATTTAAAAC
1 TCAAATTTAAAAC
80152334 TCAAATTTAAAAC
1 TCAAATTTAAAAC
80152347 TCA
1 TCA
80152350 GAATCTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (13 bp):
TCAAATTTAAAAC
Found at i:80155565 original size:21 final size:21
Alignment explanation
Indices: 80155541--80155580 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
80155531 TTCGGTGAAA
*
80155541 TTAAAATGAAGAAATTAAATG
1 TTAAAAAGAAGAAATTAAATG
*
80155562 TTAAAAAGATGAAATTAAA
1 TTAAAAAGAAGAAATTAAA
80155581 AAAATATAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (21 bp):
TTAAAAAGAAGAAATTAAATG
Found at i:80157060 original size:11 final size:11
Alignment explanation
Indices: 80157046--80157100 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
80157036 ATAATTAATT
80157046 AATTAATTAAA
1 AATTAATTAAA
*
80157057 AATTCATTAAA
1 AATTAATTAAA
80157068 AATT--TTAAA
1 AATTAATTAAA
*
80157077 AATAAATATAAA
1 AATTAAT-TAAA
*
80157089 CAATTTATTAAA
1 -AATTAATTAAA
80157101 TCGGTTCAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
9 8 0.22
11 15 0.42
12 8 0.22
13 5 0.14
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (11 bp):
AATTAATTAAA
Found at i:80165343 original size:105 final size:104
Alignment explanation
Indices: 80165152--80165596 Score: 479
Period size: 105 Copynumber: 4.2 Consensus size: 104
80165142 ATTATACGTG
* * *
80165152 AGGCTCGATGCCTTGCTTTCTCA-TCATGTCAACAATAACTTCAGG-TTTAGAAACCA-T-CCTG
1 AGGCTCAATGCCTTGCTTTCTCATTC-TGCCAACAATATCTTC-GGCTTTAGAAACCATTCCCT-
* *
80165213 TCCTTGC-AGAGCACATCAATCAATGTATTATATGTGACAACATT
63 T-CTTGCAAGAG--CATCAATCAATATACTATATGTGACAACATT
* *
80165257 AGGCTCAATGCCTTGCTTTGTCATTCTGCCAACAATACCTTCGGCTTTAGAAACCATTCCCTTCT
1 AGGCTCAATGCCTTGCTTTCTCATTCTGCCAACAATATCTTCGGCTTTAGAAACCATTCCCTTCT
* * * *
80165322 TGCAGAGAGCATCGATGAATGTACTATATGTGACAACATC
66 TGCA-AGAGCATCAATCAATATACTATATGTGACAACATT
* * * * * *
80165362 AAGCTTAATGCCTTGCTTTGTCATTGTGCCAACGATATCTTCAGCTTTAGAAACCATTCCCTTCT
1 AGGCTCAATGCCTTGCTTTCTCATTCTGCCAACAATATCTTCGGCTTTAGAAACCATTCCCTTCT
*
80165427 TGCAA-AGCAGGTCAATCAATATACTATACGTGACAACATT
66 TGCAAGAGCA--TCAATCAATATACTATATGTGACAACATT
* * * ** * *
80165467 AGGCTCAACGCCTTGCTTTTTCATTGTGCCAAGGATATCTTTGGCTTTAGAAACCACTCCCTTCT
1 AGGCTCAATGCCTTGCTTTCTCATTCTGCCAACAATATCTTCGGCTTTAGAAACCATTCCCTTCT
* * * **
80165532 TGCAAAATGCATCGATCAATATAGTATATGTGATGACATT
66 TGCAAGA-GCATCAATCAATATACTATATGTGACAACATT
*
80165572 AGGCTTAATGCCTTGCTTTCTCATT
1 AGGCTCAATGCCTTGCTTTCTCATT
80165597 TCGAAGAAGA
Statistics
Matches: 295, Mismatches: 35, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
103 4 0.01
104 3 0.01
105 273 0.93
106 5 0.02
107 10 0.03
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (104 bp):
AGGCTCAATGCCTTGCTTTCTCATTCTGCCAACAATATCTTCGGCTTTAGAAACCATTCCCTTCT
TGCAAGAGCATCAATCAATATACTATATGTGACAACATT
Found at i:80165462 original size:210 final size:210
Alignment explanation
Indices: 80165159--80165596 Score: 567
Period size: 210 Copynumber: 2.1 Consensus size: 210
80165149 GTGAGGCTCG
* * * *
80165159 ATGCCTTGCTTTCTCATCATGTCAACAATAACTTCAGGTTTAGAAACCATCCTGTCCTTGCAGAG
1 ATGCCTTGCTTTCTCATTATGCCAACAATAACTTCAGCTTTAGAAACCATCCTGTCCTTGCAAAG
* * * *
80165224 CACATCAATCAATGTATTATATGTGACAACATTAGGCTCAATGCCTTGCTTTGTCATTCTGCCAA
66 CACATCAATCAATATACTATACGTGACAACATTAGGCTCAACGCCTTGCTTTGTCATTCTGCCAA
* * * *
80165289 CAATACCTTCGGCTTTAGAAACCATTCCCTTCTTGCAGAGA-GCATCGATGAATGTACTATATGT
131 CAATACCTTCGGCTTTAGAAACCACTCCCTTCTTGCA-AAATGCATCGATCAATATACTATATGT
80165353 GACAACATCAAGCTTA
195 GACAACATCAAGCTTA
* * * *
80165369 ATGCCTTGCTTTGTCATTGTGCCAACGATATCTTCAGCTTTAGAAACCATTCCCT-T-CTTGCAA
1 ATGCCTTGCTTTCTCATTATGCCAACAATAACTTCAGCTTTAGAAACCA-T-CCTGTCCTTGCAA
** * *
80165432 AGCAGGTCAATCAATATACTATACGTGACAACATTAGGCTCAACGCCTTGCTTTTTCATTGTGCC
64 AGCACATCAATCAATATACTATACGTGACAACATTAGGCTCAACGCCTTGCTTTGTCATTCTGCC
** * * *
80165497 AAGGATATCTTTGGCTTTAGAAACCACTCCCTTCTTGCAAAATGCATCGATCAATATAGTATATG
129 AACAATACCTTCGGCTTTAGAAACCACTCCCTTCTTGCAAAATGCATCGATCAATATACTATATG
** * *
80165562 TGATGACATTAGGCTTA
194 TGACAACATCAAGCTTA
80165579 ATGCCTTGCTTTCTCATT
1 ATGCCTTGCTTTCTCATT
80165597 TCGAAGAAGA
Statistics
Matches: 195, Mismatches: 30, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
209 2 0.01
210 188 0.96
211 2 0.01
212 3 0.02
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.33
Consensus pattern (210 bp):
ATGCCTTGCTTTCTCATTATGCCAACAATAACTTCAGCTTTAGAAACCATCCTGTCCTTGCAAAG
CACATCAATCAATATACTATACGTGACAACATTAGGCTCAACGCCTTGCTTTGTCATTCTGCCAA
CAATACCTTCGGCTTTAGAAACCACTCCCTTCTTGCAAAATGCATCGATCAATATACTATATGTG
ACAACATCAAGCTTA
Found at i:80173162 original size:46 final size:48
Alignment explanation
Indices: 80173090--80173192 Score: 138
Period size: 46 Copynumber: 2.2 Consensus size: 48
80173080 GACAGGATAG
* * * *
80173090 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
*
80173136 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
*
80173184 GACATGAAT
1 GACAGGAAT
80173193 AATTCATGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
46 27 0.55
47 1 0.02
48 21 0.43
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
Found at i:80193951 original size:27 final size:29
Alignment explanation
Indices: 80193893--80193956 Score: 80
Period size: 27 Copynumber: 2.3 Consensus size: 29
80193883 CAATTAGACT
* *
80193893 TTAAATTTTCAAACAAATAAGTTAAAATA
1 TTAAATTTTCAAACAAATAAGTAAAAAGA
80193922 TTAAATTCTT-AAA-AAAT-AGTAAAAAGA
1 TTAAATT-TTCAAACAAATAAGTAAAAAGA
80193949 TTAAATTT
1 TTAAATTT
80193957 CTAAAGTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 1 0.03
27 15 0.47
28 4 0.12
29 10 0.31
30 2 0.06
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (29 bp):
TTAAATTTTCAAACAAATAAGTAAAAAGA
Found at i:80198322 original size:32 final size:31
Alignment explanation
Indices: 80198268--80198327 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 31
80198258 TTTTTTGTGT
*
80198268 TTAATTTAAAATTTTTGGTTTATTTAATATTA
1 TTAATTTAAAATTTTTAGTTTA-TTAATATTA
** *
80198300 TTAATTTCGAATTTTTATTTTATTAATA
1 TTAATTTAAAATTTTTAGTTTATTAATA
80198328 GAATAAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 6 0.25
32 18 0.75
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (31 bp):
TTAATTTAAAATTTTTAGTTTATTAATATTA
Found at i:80204761 original size:14 final size:14
Alignment explanation
Indices: 80204742--80204769 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
80204732 TAGTGTAACT
80204742 TTTGTTGATGTACA
1 TTTGTTGATGTACA
80204756 TTTGTTGATGTACA
1 TTTGTTGATGTACA
80204770 AAGACAGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.50
Consensus pattern (14 bp):
TTTGTTGATGTACA
Found at i:80211025 original size:23 final size:23
Alignment explanation
Indices: 80210998--80211068 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 23
80210988 GCAAAAACAG
80210998 ATTTAAATAATAAAATATTTTAA
1 ATTTAAATAATAAAATATTTTAA
* * *
80211021 ATTTAATTATTAAAATATTTAAA
1 ATTTAAATAATAAAATATTTTAA
* *
80211044 AATTAATATAA-AATTATATTTTAA
1 ATTTAA-ATAATAA-AATATTTTAA
80211068 A
1 A
80211069 CAATGAAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
23 27 0.71
24 11 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
ATTTAAATAATAAAATATTTTAA
Found at i:80212706 original size:13 final size:12
Alignment explanation
Indices: 80212659--80212706 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 12
80212649 TTTTTACTAC
*
80212659 TTAAAAATATAC
1 TTAAAAATATAT
80212671 TT-AAAATAT-T
1 TTAAAAATATAT
80212681 TT--AAATATAT
1 TTAAAAATATAT
80212691 TTAAAAATAGTAT
1 TTAAAAATA-TAT
80212704 TTA
1 TTA
80212707 TTCATTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
9 6 0.19
10 5 0.16
11 7 0.23
12 7 0.23
13 6 0.19
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (12 bp):
TTAAAAATATAT
Found at i:80220656 original size:81 final size:81
Alignment explanation
Indices: 80220562--80220720 Score: 221
Period size: 81 Copynumber: 2.0 Consensus size: 81
80220552 CAAGAGCTTC
* ** *
80220562 AAATTTTGCAAGTACAAGTTAAATCATTGCGTAAAAGACTTAAATATTCAATTTAATAATTCAGT
1 AAATTTTGCAAGTACAAGTCAAATCACCGCGTAAAAGACTTAAATAGTCAATTTAATAATTCAGT
80220627 ATCTTTT-CCAAATCTA
66 AT-TTTTCCCAAATCTA
** * * *
80220643 AAATTTTGCAAGTACAAGTCAAATCACCGTTTAAAAGACTTCAATAGTCAATTTAATATTTTAGT
1 AAATTTTGCAAGTACAAGTCAAATCACCGCGTAAAAGACTTAAATAGTCAATTTAATAATTCAGT
80220708 ATTTTTCCCAAAT
66 ATTTTTCCCAAAT
80220721 TTAATTCATG
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
80 4 0.06
81 64 0.94
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (81 bp):
AAATTTTGCAAGTACAAGTCAAATCACCGCGTAAAAGACTTAAATAGTCAATTTAATAATTCAGT
ATTTTTCCCAAATCTA
Found at i:80228143 original size:59 final size:59
Alignment explanation
Indices: 80228029--80228143 Score: 135
Period size: 59 Copynumber: 1.9 Consensus size: 59
80228019 ATTAAGAATT
* ** * *
80228029 TTATTAAATTATATTTAATAATAATTATGTTAAAATATGGTTAAAATATTTATTATTTA
1 TTATTAAATTATATTTAATAATAATTATATTAAAATATGAATAAAATAATAATTATTTA
* *
80228088 TTATTAAATTATTTTTAATAATAATCT-TATTAAAAT-TTAATAACAATAATAATTAT
1 TTATTAAATTATATTTAATAATAAT-TATATTAAAATATGAATAA-AATAATAATTAT
80228144 CTATCTAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
58 4 0.09
59 42 0.89
60 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.50
Consensus pattern (59 bp):
TTATTAAATTATATTTAATAATAATTATATTAAAATATGAATAAAATAATAATTATTTA
Found at i:80230414 original size:35 final size:35
Alignment explanation
Indices: 80230372--80230443 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
80230362 ATAATGAAAG
80230372 ATGAACGTTATGAAGTTTATAGTATTGCAAATTCA
1 ATGAACGTTATGAAGTTTATAGTATTGCAAATTCA
80230407 ATGAACGTTATGAAGTTTATAGTATTGCAAATTCA
1 ATGAACGTTATGAAGTTTATAGTATTGCAAATTCA
80230442 AT
1 AT
80230444 CTTTTTTGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (35 bp):
ATGAACGTTATGAAGTTTATAGTATTGCAAATTCA
Found at i:80239828 original size:15 final size:15
Alignment explanation
Indices: 80239808--80239839 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
80239798 GTCCATTTTG
80239808 AGGTTAATATGAATC
1 AGGTTAATATGAATC
80239823 AGGTTAATATGAATC
1 AGGTTAATATGAATC
80239838 AG
1 AG
80239840 CTTTTCATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (15 bp):
AGGTTAATATGAATC
Found at i:80240437 original size:13 final size:13
Alignment explanation
Indices: 80240421--80240447 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
80240411 AGGAGTTAGA
80240421 ATAATTCAATAGG
1 ATAATTCAATAGG
80240434 ATAATTCAATAGG
1 ATAATTCAATAGG
80240447 A
1 A
80240448 GAACATAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (13 bp):
ATAATTCAATAGG
Found at i:80248739 original size:59 final size:60
Alignment explanation
Indices: 80248633--80248751 Score: 222
Period size: 59 Copynumber: 2.0 Consensus size: 60
80248623 GCCAAATGGA
*
80248633 AAAGCAAGAGATGAGCTTGAAATGGGAACTTACAAATGGTGGCGGCACTACCAGAACAAC
1 AAAGCAAGAGATGAGCTTAAAATGGGAACTTACAAATGGTGGCGGCACTACCAGAACAAC
80248693 AAAGCAAGAGATGAGCTTAAAAT-GGAACTTACAAATGGTGGCGGCACTACCAGAACAAC
1 AAAGCAAGAGATGAGCTTAAAATGGGAACTTACAAATGGTGGCGGCACTACCAGAACAAC
80248752 TTAATTTATA
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
59 36 0.62
60 22 0.38
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.15
Consensus pattern (60 bp):
AAAGCAAGAGATGAGCTTAAAATGGGAACTTACAAATGGTGGCGGCACTACCAGAACAAC
Found at i:80248795 original size:42 final size:42
Alignment explanation
Indices: 80248748--80248832 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
80248738 ACTACCAGAA
* *
80248748 CAACTTAATTTATATATAATTTGTGTAAATAAGCAATATCAC
1 CAACTTAATTGACATATAATTTGTGTAAATAAGCAATATCAC
* *
80248790 CAACTTAATTGACGTATAATTTGTGTAAGTAAGCAATATCAC
1 CAACTTAATTGACATATAATTTGTGTAAATAAGCAATATCAC
80248832 C
1 C
80248833 TTTATTGGCT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (42 bp):
CAACTTAATTGACATATAATTTGTGTAAATAAGCAATATCAC
Found at i:80250658 original size:25 final size:26
Alignment explanation
Indices: 80250630--80250685 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 26
80250620 TGAATTTATT
*
80250630 TTGTATAAAT-TTTACATGCTTGAAG
1 TTGTATAAATGTATACATGCTTGAAG
* * *
80250655 TTGTTTCAATGGTATGCATGCTTGAAG
1 TTGTATAAAT-GTATACATGCTTGAAG
80250682 TTGT
1 TTGT
80250686 TTCAATGGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 8 0.32
27 17 0.68
ACGTcount: A:0.25, C:0.09, G:0.21, T:0.45
Consensus pattern (26 bp):
TTGTATAAATGTATACATGCTTGAAG
Found at i:80250674 original size:27 final size:27
Alignment explanation
Indices: 80250644--80250699 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
80250634 ATAAATTTTA
80250644 CATGCTTGAAGTTGTTTCAATGGTATG
1 CATGCTTGAAGTTGTTTCAATGGTATG
80250671 CATGCTTGAAGTTGTTTCAATGGTATG
1 CATGCTTGAAGTTGTTTCAATGGTATG
80250698 CA
1 CA
80250700 CAAATTAAAT
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:0.23, C:0.12, G:0.25, T:0.39
Consensus pattern (27 bp):
CATGCTTGAAGTTGTTTCAATGGTATG
Found at i:80252865 original size:83 final size:83
Alignment explanation
Indices: 80252726--80252883 Score: 266
Period size: 83 Copynumber: 1.9 Consensus size: 83
80252716 GCCCCCCACT
80252726 CCCTAAAATGAAAAATTGCAGCTTTAGACTCTCCAAAATTCATAAAATCCTAAGTTAATATATGG
1 CCCTAAAATGAAAAATTGCAGCTTTAGACTCTCCAAAATTCATAAAATCCTAAGTTAATATATGG
80252791 TAAA-ATTATAGTTTGCCC
66 -AAAGATTATAGTTTGCCC
* *
80252809 CCCTAAAATGAAAAATTGCAGCTTTAGAC-CATTCAAAATTCATAATATCCTAAGTTAATATATG
1 CCCTAAAATGAAAAATTGCAGCTTTAGACTC-TCCAAAATTCATAAAATCCTAAGTTAATATATG
80252873 GAAAGATTATA
65 GAAAGATTATA
80252884 CCCCAAATGC
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
82 4 0.06
83 67 0.94
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (83 bp):
CCCTAAAATGAAAAATTGCAGCTTTAGACTCTCCAAAATTCATAAAATCCTAAGTTAATATATGG
AAAGATTATAGTTTGCCC
Found at i:80254784 original size:62 final size:62
Alignment explanation
Indices: 80254662--80254784 Score: 160
Period size: 62 Copynumber: 2.0 Consensus size: 62
80254652 ATCATATATG
** * * * *
80254662 CTTGATACAATAACTACTTATAATCCCTTCTAGTCCCATAAATAAATATATATATGTTTTTT
1 CTTGATACAATAACTACCCATAATCCCCTCTAGCCCCATAAATAAAAATATATATCTTTTTT
80254724 CTTGATACAATAACTACCCATAATCCCCTCTCA-CCCCATAAATAAAAATATA-ATACTTTTT
1 CTTGATACAATAACTACCCATAATCCCCTCT-AGCCCCATAAATAAAAATATATAT-CTTTTT
80254785 AAGACATTCG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
61 2 0.04
62 50 0.94
63 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.37
Consensus pattern (62 bp):
CTTGATACAATAACTACCCATAATCCCCTCTAGCCCCATAAATAAAAATATATATCTTTTTT
Found at i:80266090 original size:195 final size:195
Alignment explanation
Indices: 80265728--80266131 Score: 512
Period size: 195 Copynumber: 2.0 Consensus size: 195
80265718 AGCTAAAAAC
* ***
80265728 AATCAAAGTCCCACCTGCATCTTTAAACTCCAAATGGGGAAATTTTTTAAAAAAATACCTTTACT
1 AATCGAAGTCCCACCTGCATCTTTAAACTCCAAATGGGGAAAAAATTT-AAAAAATACCTTTACT
* *
80265793 TATACTTAAGAACTAGGAATTCAAAATTCAAAAATCAACATATACAATAAATTAATGAAGAAAGG
65 TATACTTAAGAACTACGAATTCAAAATTC----A-CAACATATACAATAAATTAATAAAGAAAGG
*
80265858 AAGAAAAACCCAGAAATTCAATCACAAAAAAAGAGCTAAAA-AGGCATCAAAACTAAAATAATAA
125 AAGAAAAACCCAGAAACTCAATCACAAAAAAAGAGCTAAAAGA-GCATCAAAA-T-AAA-AATAA
80265922 TAACTGGATT
186 TAACTGGATT
* * * *
80265932 AATCGAAGTTCCACCTGCATCTTTAAACTCCAAATGGGGAAAAAATTT-AAAGATCCCTTTATTT
1 AATCGAAGTCCCACCTGCATCTTTAAACTCCAAATGGGGAAAAAATTTAAAAAATACCTTTACTT
* * * * *
80265996 CTACTTAATAACTACGAATTCAAAA-TC-CAACATATACAATAATTTGATAAAGAAATGAAG-AA
66 ATACTTAAGAACTACGAATTCAAAATTCACAACATATACAATAAATTAATAAAGAAAGGAAGAAA
* *
80266058 AACCCAGAAACTCAATCACAAAAAAGAGAGCTAAAAGAGCATCAAAATTAAAATGATAACTGGAT
131 AACCCAGAAACTCAATCACAAAAAA-AGAGCTAAAAGAGCATCAAAATAAAAATAATAACTGGAT
80266123 T
195 T
80266124 AATCGAAG
1 AATCGAAG
80266132 ATCAAAGAAA
Statistics
Matches: 180, Mismatches: 18, Indels: 16
0.84 0.08 0.07
Matches are distributed among these distances:
192 22 0.12
193 2 0.01
194 27 0.15
195 48 0.27
196 1 0.01
201 2 0.01
202 35 0.19
204 43 0.24
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.24
Consensus pattern (195 bp):
AATCGAAGTCCCACCTGCATCTTTAAACTCCAAATGGGGAAAAAATTTAAAAAATACCTTTACTT
ATACTTAAGAACTACGAATTCAAAATTCACAACATATACAATAAATTAATAAAGAAAGGAAGAAA
AACCCAGAAACTCAATCACAAAAAAAGAGCTAAAAGAGCATCAAAATAAAAATAATAACTGGATT
Found at i:80267035 original size:31 final size:34
Alignment explanation
Indices: 80266995--80267060 Score: 102
Period size: 31 Copynumber: 2.0 Consensus size: 34
80266985 CTATTAATCT
80266995 AATGACTTAAATAAAAAAA-TTT-AAATAA-TTC
1 AATGACTTAAATAAAAAAACTTTCAAATAACTTC
*
80267026 AATGGCTTAAATAAAAAAACTTTCAAATAACTTC
1 AATGACTTAAATAAAAAAACTTTCAAATAACTTC
80267060 A
1 A
80267061 TCATCATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
31 18 0.58
32 3 0.10
33 6 0.19
34 4 0.13
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.30
Consensus pattern (34 bp):
AATGACTTAAATAAAAAAACTTTCAAATAACTTC
Found at i:80267829 original size:17 final size:19
Alignment explanation
Indices: 80267793--80267833 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
80267783 AAGACTATAA
*
80267793 ATAAGAATTAATATATATT
1 ATAAAAATTAATATATATT
80267812 ATAAAAATT-ATA-ATATT
1 ATAAAAATTAATATATATT
80267829 A-AAAA
1 ATAAAA
80267834 TCAAATTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 4 0.19
17 6 0.29
18 3 0.14
19 8 0.38
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
ATAAAAATTAATATATATT
Found at i:80273217 original size:21 final size:21
Alignment explanation
Indices: 80273190--80273246 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
80273180 CCGCTATTTC
* *
80273190 TAATCTCACCGCTATAGT-AT
1 TAATCTCACCACTACAGTAAT
80273210 TCAATCTCACCACTACAGTAAT
1 T-AATCTCACCACTACAGTAAT
80273232 TAATCTCACCACTAC
1 TAATCTCACCACTAC
80273247 CATTGTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 1 0.03
21 29 0.88
22 3 0.09
ACGTcount: A:0.33, C:0.32, G:0.05, T:0.30
Consensus pattern (21 bp):
TAATCTCACCACTACAGTAAT
Found at i:80274070 original size:31 final size:31
Alignment explanation
Indices: 80274035--80274095 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
80274025 ATGAGTCAAC
*
80274035 TAAAAGGAATGTTGCCAAACTTGGTCACTCA
1 TAAAAGGAATGTTGCCAAACTTGATCACTCA
80274066 TAAAAGGAATGTTGCCAAACTTGATCACTC
1 TAAAAGGAATGTTGCCAAACTTGATCACTC
80274096 GATTCTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (31 bp):
TAAAAGGAATGTTGCCAAACTTGATCACTCA
Found at i:80279137 original size:87 final size:86
Alignment explanation
Indices: 80279036--80279194 Score: 264
Period size: 87 Copynumber: 1.8 Consensus size: 86
80279026 AATTGATAGT
* *
80279036 TTTTATATTGAAATCTATACTATTAAAAATCAAAATGATGGTTTTTATTTTTTAAATTTTATGTG
1 TTTTATATTGAAATCTAGACTATTAAAAATCAAAATGATGGTTTTTA-TTTTTAAATTTAATGTG
80279101 CAATTAATTTTGAAGTTTGAAG
65 CAATTAATTTTGAAGTTTGAAG
* * *
80279123 TTTTATATTGAAATCTAGACTATTAAAAATCAAATTGATGGTTTTTATTTTTAAATTTAATTTGT
1 TTTTATATTGAAATCTAGACTATTAAAAATCAAAATGATGGTTTTTATTTTTAAATTTAATGTGC
80279188 AATTAAT
66 AATTAAT
80279195 ATCGATTTAA
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
86 22 0.33
87 45 0.67
ACGTcount: A:0.36, C:0.04, G:0.10, T:0.49
Consensus pattern (86 bp):
TTTTATATTGAAATCTAGACTATTAAAAATCAAAATGATGGTTTTTATTTTTAAATTTAATGTGC
AATTAATTTTGAAGTTTGAAG
Found at i:80288184 original size:19 final size:20
Alignment explanation
Indices: 80288162--80288206 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
80288152 GTATCTTTCG
*
80288162 AATATCAAAGTCAAAC-TTA
1 AATATCAAAATCAAACATTA
*
80288181 AATAT-AAAATTAAACATTA
1 AATATCAAAATCAAACATTA
80288200 AA-ATCAA
1 AATATCAA
80288207 GTCCAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.60, C:0.11, G:0.02, T:0.27
Consensus pattern (20 bp):
AATATCAAAATCAAACATTA
Found at i:80296782 original size:20 final size:21
Alignment explanation
Indices: 80296757--80296799 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
80296747 TTTAAGCTTA
80296757 AATTCAA-TTCAATATTTTTC
1 AATTCAATTTCAATATTTTTC
*
80296777 AATTCAATTTCAATTTTTTTC
1 AATTCAATTTCAATATTTTTC
80296798 AA
1 AA
80296800 ATAAAACACA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (21 bp):
AATTCAATTTCAATATTTTTC
Found at i:80299243 original size:20 final size:20
Alignment explanation
Indices: 80299218--80299259 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
80299208 TTATATGAAA
80299218 TTTGCACTTTTTTTCTTATG
1 TTTGCACTTTTTTTCTTATG
80299238 TTTGCACTTTTTTTCTTATG
1 TTTGCACTTTTTTTCTTATG
80299258 TT
1 TT
80299260 CTTCTTCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.10, C:0.14, G:0.10, T:0.67
Consensus pattern (20 bp):
TTTGCACTTTTTTTCTTATG
Found at i:80302060 original size:6 final size:6
Alignment explanation
Indices: 80302047--80302076 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
80302037 AAAATAAAAA
80302047 TAAT-T TAATAT TAATAT TAATAT TAATAT T
1 TAATAT TAATAT TAATAT TAATAT TAATAT T
80302077 TTATAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
TAATAT
Found at i:80303757 original size:13 final size:13
Alignment explanation
Indices: 80303739--80303765 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
80303729 AAAATAAATT
80303739 AAAATTTTAATAA
1 AAAATTTTAATAA
80303752 AAAATTTTAATAA
1 AAAATTTTAATAA
80303765 A
1 A
80303766 CTAAAAGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AAAATTTTAATAA
Found at i:80315704 original size:282 final size:271
Alignment explanation
Indices: 80315171--80316273 Score: 1175
Period size: 282 Copynumber: 4.0 Consensus size: 271
80315161 AAATCCCAAA
* * * *
80315171 AGTATAATTGGTGCATAACAATATAGATTAGCAGTCAGGTCAGCAATTTAAACCCT-AATAAAA-
1 AGTATAACTGGTGCATAACAAAATAAATTAGCAGTCAGGTTAGCAATTTAAACCCTCAA-AAAAT
* * * *
80315234 AAACTAA-TAAAGGTCAATTTTTTTTCACAATCTTCGATCCCTCATTC-A--AACAAATCTCCCA
65 AAACTAAGT-AA--TC---CTTTTTTCACATTCTTCGATCCCTCATTCAACCAACCAATCTCCTA
* * *
80315295 AACCACAAAACTAATAAATCCCCATTAAAAAAGTACCAAAAAAAAAA-TACTTCGAACTTAAACA
124 AACC-CAAAACTAATAAA-ACCCATTAAACAAGTA-CAAAAAAAAAATTACTTCGAACTTAAAAA
* * * *
80315359 CTTAAAAAAAATCAAATTAGAACCATTAAAAGAACAAACTTTAAAGCAAAATACCTTGAGGGTCT
186 CTAAAAAAAAATCAAATTAGAACCATTAAAAGAACAAACATTAAAGCAAAATACCTCGAGGGCCT
* *
80315424 GATTGGAGTAGTAGATGGAGG
251 GATTGGAGGAGTAGATGAAGG
* * * * *
80315445 AGTGTAACTGATGCATAGCAAAATAAATTAACAGTCAGGTTAACAATTTAAACCCTAGCAAAAAA
1 AGTATAACTGGTGCATAACAAAATAAATTAGCAGTCAGGTTAGCAATTTAAACCCT--C-AAAAA
80315510 ATAAATCGTATAGGTAAATCCTTTTTTCACATTCTTCGATCCCTCATTCAACGCAACCAATCTCC
63 ATAAA-C-TA-A-GT-AATCCTTTTTTCACATTCTTCGATCCCTCATTCAAC-CAACCAATCTCC
* **
80315575 TAAACCCCAAACTAATAAAACCCATTAAACAAGTACAAAAAAAAAATTACTTTTAACTTAAAAAC
122 TAAACCCAAAACTAATAAAACCCATTAAACAAGTACAAAAAAAAAATTACTTCGAACTTAAAAAC
* *
80315640 TGAAAAAAAAAATCAAATTAGAACCATTAAAAGAACAAACATTTAAGCAAAATACCTCGAGGGTC
187 T--AAAAAAAAATCAAATTAGAACCATTAAAAGAACAAACATTAAAGCAAAATACCTCGAGGGCC
*
80315705 TGATTGGAGGAGTGGATGAAGG
250 TGATTGGAGGAGTAGATGAAGG
80315727 AGTATAACTGGTGCATAACAAAATAAATTAGCAGTCAGGTTAGCAATTTAAA-CC-C------T-
1 AGTATAACTGGTGCATAACAAAATAAATTAGCAGTCAGGTTAGCAATTTAAACCCTCAAAAAATA
* * *
80315783 AA-TAA-T--T-CTTTTATTCATATTCTTCGATCCCTCATTC-A--AACCAATCTCCTACACCCC
66 AACTAAGTAATCCTTTT-TTCACATTCTTCGATCCCTCATTCAACCAACCAATCTCCTAAACCCA
*
80315840 AAACTAATAAAAGCCCATTAAACAAGTAC-AAAAAAAAATTACTTTGAACTTAAAAGTTAAAACA
130 AAACTAATAAAA-CCCATTAAACAAGTACAAAAAAAAAATTACTTCGAAC-------TTAAAA-A
*
80315904 CTAAAAAAAAAATCAAATTAGAACCATTAAAAGAACAAACATTAAAGCAAAATACCTGGAGGGCC
186 CT-AAAAAAAAATCAAATTAGAACCATTAAAAGAACAAACATTAAAGCAAAATACCTCGAGGGCC
*
80315969 TGATTGGAGGACTAGATGAAGG
250 TGATTGGAGGAGTAGATGAAGG
*
80315991 AGTATAACTGGTGCATAACAAAATAAACTAGCAGTCAGGTTAGCAATTTAAACCCT-AATAAAA-
1 AGTATAACTGGTGCATAACAAAATAAATTAGCAGTCAGGTTAGCAATTTAAACCCTCAA-AAAAT
* *
80316054 AAACCATAAAAGTCAATCCTTTTTTTTACACATTCTTCTATCCCTCATTCAAAACAACCAATCTC
65 AAA-C-T--AAGT-AATCC--TTTTTT-CACATTCTTCGATCCCTCATTC-AACCAACCAATCTC
* *
80316119 CTAAACCCCAAACTAATAAAAACCCATTAAAGAAGTACAAAAGAAAAACATTACTTCGAACTTAA
121 CTAAACCCAAAACTAAT-AAAACCCATTAAACAAGTACAAAA-AAAAA-ATTACTTCGAACTTAA
* ** * * * *
80316184 ACAC-CGAAAAAAATTAAATTAGAACCGTTAAAAGAACAAGCATTAAAGCAAAATACCTCGAGCG
183 AAACTAAAAAAAAATCAAATTAGAACCATTAAAAGAACAAACATTAAAGCAAAATACCTCGAGGG
80316248 CCTGATTGGAGGAG-AGGATGAAGG
248 CCTGATTGGAGGAGTA-GATGAAGG
80316272 AG
1 AG
80316274 GAGGAGGGCG
Statistics
Matches: 716, Mismatches: 54, Indels: 111
0.81 0.06 0.13
Matches are distributed among these distances:
257 49 0.07
258 16 0.02
260 6 0.01
261 24 0.03
264 138 0.19
265 5 0.01
266 1 0.00
267 2 0.00
270 2 0.00
271 1 0.00
272 2 0.00
274 47 0.07
275 1 0.00
277 6 0.01
278 34 0.05
279 13 0.02
280 33 0.05
281 94 0.13
282 140 0.20
283 8 0.01
284 29 0.04
286 1 0.00
288 41 0.06
289 7 0.01
290 5 0.01
291 11 0.02
ACGTcount: A:0.45, C:0.19, G:0.12, T:0.24
Consensus pattern (271 bp):
AGTATAACTGGTGCATAACAAAATAAATTAGCAGTCAGGTTAGCAATTTAAACCCTCAAAAAATA
AACTAAGTAATCCTTTTTTCACATTCTTCGATCCCTCATTCAACCAACCAATCTCCTAAACCCAA
AACTAATAAAACCCATTAAACAAGTACAAAAAAAAAATTACTTCGAACTTAAAAACTAAAAAAAA
ATCAAATTAGAACCATTAAAAGAACAAACATTAAAGCAAAATACCTCGAGGGCCTGATTGGAGGA
GTAGATGAAGG
Found at i:80316007 original size:264 final size:258
Alignment explanation
Indices: 80315530--80316273 Score: 901
Period size: 264 Copynumber: 2.8 Consensus size: 258
80315520 TAGGTAAATC
80315530 CTTTTTTCACATTCTTCGATCCCTCATTCAACGCAACCAATCTCCTAAACCCCAAACTAATAAAA
1 CTTTTTTCACATTCTTCGATCCCTCATTCAA--CAACCAATCTCCTAAACCCCAAACTAATAAAA
80315595 CCCATTAAACAAGTACAAAAAAAAAATTACTTTTAACTTAAAAACTGAAAAAAAAAATCAAATTA
64 CCCATTAAACAAGTACAAAAAAAAAATTACTTTTAACTTAAAAACTGAAAAAAAAAATCAAATTA
* * * *
80315660 GAACCATTAAAAGAACAAACATTTAAGCAAAATACCTCGAGGGTCTGATTGGAGGAGTGGATGAA
129 GAACCATTAAAAGAACAAACATTAAAGCAAAATACCTCGAGGGCCTGATTGGAGGACTAGATGAA
*
80315725 GGAGTATAACTGGTGCATAACAAAATAAATTAGCAGTCAGGTTAGCAATTTAAACCCTAATAATT
194 GGAGTATAACTGGTGCATAACAAAATAAACTAGCAGTCAGGTTAGCAATTTAAACCCTAATAATT
* *
80315790 CTTTTATTCATATTCTTCGATCCCTCATTC-A-AACCAATCTCCTACACCCCAAACTAATAAAAG
1 CTTTT-TTCACATTCTTCGATCCCTCATTCAACAACCAATCTCCTAAACCCCAAACTAATAAAA-
*
80315853 CCCATTAAACAAGTAC-AAAAAAAAATTACTTTGAACTTAAAAGTTAAAACACT-AAAAAAAAAA
64 CCCATTAAACAAGTACAAAAAAAAAATTAC-TT----TT--AACTTAAAA-ACTGAAAAAAAAAA
*
80315916 TCAAATTAGAACCATTAAAAGAACAAACATTAAAGCAAAATACCTGGAGGGCCTGATTGGAGGAC
121 TCAAATTAGAACCATTAAAAGAACAAACATTAAAGCAAAATACCTCGAGGGCCTGATTGGAGGAC
80315981 TAGATGAAGGAGTATAACTGGTGCATAACAAAATAAACTAGCAGTCAGGTTAGCAATTTAAACCC
186 TAGATGAAGGAGTATAACTGGTGCATAACAAAATAAACTAGCAGTCAGGTTAGCAATTTAAACCC
80316046 TAATAAAAAAACCATAAAAGTCAAT
251 ---T------A--AT--AA-T---T
*
80316071 CCTTTTTTTTACACATTCTTCTATCCCTCATTCAAAACAACCAATCTCCTAAACCCCAAACTAAT
1 -C--TTTTTT-CACATTCTTCGATCCCTCATTC--AACAACCAATCTCCTAAACCCCAAACTAAT
* ** * *
80316136 AAAAACCCATTAAAGAAGTACAAAAGAAAAACATTACTTCGAACTTAAACACCG---AAAAAAAT
60 -AAAACCCATTAAACAAGTACAAAA-AAAAA-ATTACTTTTAACTTAAAAACTGAAAAAAAAAAT
* * * * *
80316198 TAAATTAGAACCGTTAAAAGAACAAGCATTAAAGCAAAATACCTCGAGCGCCTGATTGGAGGA-G
122 CAAATTAGAACCATTAAAAGAACAAACATTAAAGCAAAATACCTCGAGGGCCTGATTGGAGGACT
80316262 AGGATGAAGGAG
187 A-GATGAAGGAG
80316274 GAGGAGGGCG
Statistics
Matches: 419, Mismatches: 24, Indels: 61
0.83 0.05 0.12
Matches are distributed among these distances:
257 43 0.10
258 18 0.04
260 6 0.01
261 23 0.05
262 2 0.00
264 142 0.34
265 3 0.01
267 1 0.00
273 1 0.00
275 2 0.00
277 2 0.00
278 1 0.00
280 1 0.00
281 77 0.18
282 1 0.00
283 4 0.01
284 31 0.07
287 1 0.00
288 41 0.10
289 7 0.02
290 7 0.02
291 5 0.01
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.24
Consensus pattern (258 bp):
CTTTTTTCACATTCTTCGATCCCTCATTCAACAACCAATCTCCTAAACCCCAAACTAATAAAACC
CATTAAACAAGTACAAAAAAAAAATTACTTTTAACTTAAAAACTGAAAAAAAAAATCAAATTAGA
ACCATTAAAAGAACAAACATTAAAGCAAAATACCTCGAGGGCCTGATTGGAGGACTAGATGAAGG
AGTATAACTGGTGCATAACAAAATAAACTAGCAGTCAGGTTAGCAATTTAAACCCTAATAATT
Found at i:80316271 original size:545 final size:535
Alignment explanation
Indices: 80315264--80316273 Score: 1427
Period size: 546 Copynumber: 1.9 Consensus size: 535
80315254 TTTTTCACAA
*
80315264 TCTTCGATCCCTCATTCAAACAAATCTCCCAAACCACAAAACTAATAAATCCCCATTAAAAAAGT
1 TCTTCGATCCCTCATTCAAACAAATCTCCCAAACCACAAAACTAATAAAACCCCATTAAAAAAGT
*
80315329 ACCAAAAAAAAAATACTTCGAACTTAAACACTTAAAAAAAATCAAATTAGAACCATTAAAAGAAC
66 ACCAAAAAAAAAATACTTCGAACTTAAACACTAAAAAAAAATCAAATTAGAACCATTAAAAGAAC
* * * * * * *
80315394 AAACTTTAAAGCAAAATACCTTGAGGGTCTGATTGGAGTAGTAGATGGAGGAGTGTAACTGATGC
131 AAACATTAAAGCAAAATACCTGGAGGGCCTGATTGGAGGACTAGATGAAGGAGTATAACTGATGC
* * * * * *
80315459 ATAGCAAAATAAATTAACAGTCAGGTTAACAATTTAAACCCTAGCAAAAAAATAAATCGTATAGG
196 ATAACAAAATAAACTAACAGTCAGGTTAACAATTTAAACCCTA--AAAAAAATAAACCATAAAAG
**
80315524 TAAATCCTTTTTTCACATTCTTCGATCCCTCATTCAACGCAACCAATCTCCTAAACCCCAAACTA
259 TAAATCCTTTTTTCACATTCTTCGATCCCTCATTCAAAACAACCAATCTCCTAAACCCCAAACTA
** *
80315589 ATAAAACCCATTAAACAAGTACAAAAAAAAAATTACTTTTAACTTAAAAACTGAAAAAAAAAATC
324 ATAAAACCCATTAAACAAGTACAAAAAAAAAATTACTTCGAACTTAAAAACCG--AAAAAAAATC
* * * *
80315654 AAATTAGAACCATTAAAAGAACAAACATTTAAGCAAAATACCTCGAGGGTCTGATTGGAGGAGTG
387 AAATTAGAACCATTAAAAGAACAAACATTAAAGCAAAATACCTCGAGCGCCTGATTGGAGGAGAG
80315719 GATGAAGGAGTATAACTGGTGCATAACAAAATAAATTAGCAGTCAGGTTAGCAATTTAAACCCTA
452 GATGAAGGAGTATAACTGGTGCATAACAAAATAAATTAGCAGTCAGGTTAGCAATTTAAACCCTA
80315784 ATAATTCTTTTATTCATAT
517 ATAATTCTTTTATTCATAT
* * * * * *
80315803 TCTTCGATCCCTCATTCAAACCAATCTCCTACACC-CCAAACTAATAAAAGCCCATTAAACAAGT
1 TCTTCGATCCCTCATTCAAACAAATCTCCCAAACCACAAAACTAATAAAACCCCATTAAAAAAGT
* *
80315867 A-CAAAAAAAAATTACTTTGAACTTAAAAGTTAAAACACTAAAAAAAAAATCAAATTAGAACCAT
66 ACCAAAAAAAAAATACTTCGAAC-------TT-AAACACT-AAAAAAAAATCAAATTAGAACCAT
80315931 TAAAAGAACAAACATTAAAGCAAAATACCTGGAGGGCCTGATTGGAGGACTAGATGAAGGAGTAT
122 TAAAAGAACAAACATTAAAGCAAAATACCTGGAGGGCCTGATTGGAGGACTAGATGAAGGAGTAT
* * * *
80315996 AACTGGTGCATAACAAAATAAACTAGCAGTCAGGTTAGCAATTTAAACCCT-AATAAAA-AAACC
187 AACTGATGCATAACAAAATAAACTAACAGTCAGGTTAACAATTTAAACCCTAAAAAAAATAAACC
* *
80316059 ATAAAAGTCAATCCTTTTTTTTACACATTCTTCTATCCCTCATTCAAAACAACCAATCTCCTAAA
252 ATAAAAGTAAATCC--TTTTTT-CACATTCTTCGATCCCTCATTCAAAACAACCAATCTCCTAAA
* *
80316124 CCCCAAACTAATAAAAACCCATTAAAGAAGTACAAAAGAAAAACATTACTTCGAACTTAAACACC
314 CCCCAAACTAAT-AAAACCCATTAAACAAGTACAAAA-AAAAA-ATTACTTCGAACTTAAAAACC
* * *
80316189 G-AAAAAAATTAAATTAGAACCGTTAAAAGAACAAGCATTAAAGCAAAATACCTCGAGCGCCTGA
376 GAAAAAAAATCAAATTAGAACCATTAAAAGAACAAACATTAAAGCAAAATACCTCGAGCGCCTGA
80316253 TTGGAGGAGAGGATGAAGGAG
441 TTGGAGGAGAGGATGAAGGAG
80316274 GAGGAGGGCG
Statistics
Matches: 413, Mismatches: 43, Indels: 24
0.86 0.09 0.05
Matches are distributed among these distances:
537 19 0.05
538 26 0.06
539 32 0.08
542 14 0.03
543 6 0.01
544 8 0.02
545 135 0.33
546 150 0.36
547 5 0.01
548 18 0.04
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (535 bp):
TCTTCGATCCCTCATTCAAACAAATCTCCCAAACCACAAAACTAATAAAACCCCATTAAAAAAGT
ACCAAAAAAAAAATACTTCGAACTTAAACACTAAAAAAAAATCAAATTAGAACCATTAAAAGAAC
AAACATTAAAGCAAAATACCTGGAGGGCCTGATTGGAGGACTAGATGAAGGAGTATAACTGATGC
ATAACAAAATAAACTAACAGTCAGGTTAACAATTTAAACCCTAAAAAAAATAAACCATAAAAGTA
AATCCTTTTTTCACATTCTTCGATCCCTCATTCAAAACAACCAATCTCCTAAACCCCAAACTAAT
AAAACCCATTAAACAAGTACAAAAAAAAAATTACTTCGAACTTAAAAACCGAAAAAAAATCAAAT
TAGAACCATTAAAAGAACAAACATTAAAGCAAAATACCTCGAGCGCCTGATTGGAGGAGAGGATG
AAGGAGTATAACTGGTGCATAACAAAATAAATTAGCAGTCAGGTTAGCAATTTAAACCCTAATAA
TTCTTTTATTCATAT
Found at i:80321419 original size:24 final size:23
Alignment explanation
Indices: 80321384--80321436 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
80321374 TGTTTTGTTA
*
80321384 AAAT-TGGGTTAAATTTTTTTTG
1 AAATATGGTTTAAATTTTTTTTG
*
80321406 AATATATGGTTTAATTTTTTTTTG
1 AA-ATATGGTTTAAATTTTTTTTG
80321430 AAATATG
1 AAATATG
80321437 AGTGTGTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 2 0.07
23 7 0.26
24 18 0.67
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (23 bp):
AAATATGGTTTAAATTTTTTTTG
Found at i:80322279 original size:5 final size:5
Alignment explanation
Indices: 80322252--80322299 Score: 69
Period size: 5 Copynumber: 9.0 Consensus size: 5
80322242 ACGTTTAATG
80322252 TAAAA TAAACA TAAACA TAAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAA-A TAAA-A T-AAAA TAAAA TAAAA TAAAA TAAAA TAAAA
80322300 ACAAAACAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
5 28 0.68
6 10 0.24
7 3 0.07
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:80329130 original size:31 final size:31
Alignment explanation
Indices: 80329094--80329155 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
80329084 TTACAAAACG
80329094 GTCACTAAACTACT-AGAAAGTTTTCATTTAA
1 GTCACTAAACTACTCA-AAAGTTTTCATTTAA
* * *
80329125 GTCACTGAACTATTCAAAAGTTTTTATTTAA
1 GTCACTAAACTACTCAAAAGTTTTCATTTAA
80329156 ATCTTTGAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.39
Consensus pattern (31 bp):
GTCACTAAACTACTCAAAAGTTTTCATTTAA
Found at i:80330537 original size:16 final size:17
Alignment explanation
Indices: 80330516--80330553 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
80330506 TATTTAATTT
80330516 TTTAAAAT-TAAAAAAA
1 TTTAAAATATAAAAAAA
80330532 TTTAAAATATAAAAAAA
1 TTTAAAATATAAAAAAA
*
80330549 ATTAA
1 TTTAA
80330554 TTTTTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TTTAAAATATAAAAAAA
Found at i:80330625 original size:15 final size:16
Alignment explanation
Indices: 80330607--80330648 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
80330597 TATATATATT
80330607 TAAATTATAAAAAT-A
1 TAAATTATAAAAATAA
80330622 TAAATTATTAAAAATAA
1 TAAATTA-TAAAAATAA
80330639 TAAAATTATA
1 T-AAATTATA
80330649 TTTTAACTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.29
16 7 0.29
17 4 0.17
18 6 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TAAATTATAAAAATAA
Found at i:80335953 original size:23 final size:23
Alignment explanation
Indices: 80335926--80335969 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
80335916 TCGCCACTTC
80335926 TTTCAGTAGAAATTTCATTTTGA
1 TTTCAGTAGAAATTTCATTTTGA
80335949 TTTCAGTAGAAATTTCATTTT
1 TTTCAGTAGAAATTTCATTTT
80335970 CTTTTTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.50
Consensus pattern (23 bp):
TTTCAGTAGAAATTTCATTTTGA
Found at i:80352966 original size:22 final size:21
Alignment explanation
Indices: 80352937--80352984 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 21
80352927 TACAATTCGT
80352937 GCACAAAGGCTCGTAACCAAA
1 GCACAAAGGCTCGTAACCAAA
80352958 GTCACAAAGGCTCGTAACCAAA
1 G-CACAAAGGCTCGTAACCAAA
80352980 GCACA
1 GCACA
80352985 TAGAATAGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 5 0.19
22 21 0.81
ACGTcount: A:0.42, C:0.29, G:0.19, T:0.10
Consensus pattern (21 bp):
GCACAAAGGCTCGTAACCAAA
Found at i:80358421 original size:138 final size:136
Alignment explanation
Indices: 80358040--80358507 Score: 477
Period size: 138 Copynumber: 3.4 Consensus size: 136
80358030 TTAATATTTG
* *
80358040 TGATTGATTACC-GATTAGG-GTGATTAATGTCTATGTTACAAGACTCCGGTTTGTTTTTCTTTC
1 TGATTGATTACCAG-TT-GGAGTGATTAATGTCTATGTTACTAGACTCGGGTTTGTTTTTCTTTC
* * * *
80358103 AAAAAAGT-C--GTCATAGCCGAACCTCATAGTTTAGGGAATAGGGTGCTACACTTGAAAACCTA
64 AAAAAAGTACATGTCATAGCCGAACCTCATAGTTTTGGGACTA-GGTGTTACACTTGTAAACCTA
*
80358165 CGGAATTGG
128 CGGAATTGA
* * * * * * * *
80358174 TGATTGATTA-CAGTTTGAGTAATCAATATTTGCGATTGATTAC-ACAATTCGGGTTTGCTTTTC
1 TGATTGATTACCAGTTGGAGTGAT-TA-ATGT-CTA-TG-TTACTA-GACTCGGGTTTGTTTTTC
* * *
80358237 TTTCAAAAAAGTTATATGTCATAGCCGAACCTCATAGTTTTCGGACTAGAGTGTTACACTTGTGA
60 TTTCAAAAAAG-TACATGTCATAGCCGAACCTCATAGTTTTGGGACTAG-GTGTTACACTTGTAA
80358302 ACCTACGGAATTGA
123 ACCTACGGAATTGA
* * **
80358316 TGATTGATTACCAGTTGG-GATGATTAATGTCTGTGTTACTTGACTCGGGTTTGTTTTTCTTTTG
1 TGATTGATTACCAGTTGGAG-TGATTAATGTCTATGTTACTAGACTCGGGTTTGTTTTTCTTTCA
* * * *
80358380 AAAAGGATACATGTCATAGCGGAACCTCGTAGTTTTGGGACTAGG-GTTACACTTGTAAAACTAC
65 AAAAAG-TACATGTCATAGCCGAACCTCATAGTTTTGGGACTAGGTGTTACACTTGTAAACCTAC
*
80358444 AGAATTGA
129 GGAATTGA
* * *
80358452 TGATTGATTACCAATTGGAGTGATTAATGTCTATGCTACTCAGACTCGGATTTGTT
1 TGATTGATTACCAGTTGGAGTGATTAATGTCTATGTTACT-AGACTCGGGTTTGTT
80358508 CTCTCTACTG
Statistics
Matches: 273, Mismatches: 43, Indels: 33
0.78 0.12 0.09
Matches are distributed among these distances:
132 1 0.00
133 7 0.03
134 12 0.04
135 3 0.01
136 61 0.22
137 18 0.07
138 89 0.33
139 3 0.01
140 1 0.00
141 4 0.01
142 65 0.24
143 9 0.03
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (136 bp):
TGATTGATTACCAGTTGGAGTGATTAATGTCTATGTTACTAGACTCGGGTTTGTTTTTCTTTCAA
AAAAGTACATGTCATAGCCGAACCTCATAGTTTTGGGACTAGGTGTTACACTTGTAAACCTACGG
AATTGA
Found at i:80373602 original size:33 final size:33
Alignment explanation
Indices: 80373560--80373683 Score: 221
Period size: 33 Copynumber: 3.8 Consensus size: 33
80373550 TTTCTTCTTG
* *
80373560 ACATTCCAGCTACTGTCCAGAAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
80373593 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
80373626 ACATTCCAGCTCCCGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
80373659 ACATTCCAGCTCCTGTCCAGCAACC
1 ACATTCCAGCTCCTGTCCAGCAACC
80373684 TGAAACAGAG
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 87 1.00
ACGTcount: A:0.31, C:0.42, G:0.10, T:0.18
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:80376490 original size:25 final size:25
Alignment explanation
Indices: 80376456--80376505 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
80376446 GGAGCAAAAA
80376456 ATACATGATCTCGTCAAGAGACAAG
1 ATACATGATCTCGTCAAGAGACAAG
80376481 ATACATGATCTCGTCAAGAGACAAG
1 ATACATGATCTCGTCAAGAGACAAG
80376506 TTCTCTAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (25 bp):
ATACATGATCTCGTCAAGAGACAAG
Found at i:80385016 original size:24 final size:24
Alignment explanation
Indices: 80384986--80385032 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
80384976 TTGAAATTTT
* *
80384986 TAATATAATTATAATTTAAAAAAA
1 TAATATAAATAAAATTTAAAAAAA
80385010 TAATATAAATAAAATTTAAAAAA
1 TAATATAAATAAAATTTAAAAAA
80385033 CCATCATATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (24 bp):
TAATATAAATAAAATTTAAAAAAA
Found at i:80396958 original size:47 final size:46
Alignment explanation
Indices: 80396849--80396951 Score: 127
Period size: 47 Copynumber: 2.2 Consensus size: 46
80396839 CCGGGATAAG
* * *
80396849 CACATAGTGCTTCATCGGAATAAATTCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCAGAACAAATCCGGAACTTTAACA-TATAGTA
* *
80396896 CACAAAGTACTTCATCAGAACAAATCCGGAACTTTAACA-ATAGTCGA
1 CACATAGTGCTTCATCAGAACAAATCCGGAACTTTAACATATAGT--A
80396943 CACATAGTG
1 CACATAGTG
80396952 TCTCATCGAC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
45 5 0.11
47 42 0.89
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (46 bp):
CACATAGTGCTTCATCAGAACAAATCCGGAACTTTAACATATAGTA
Found at i:80397732 original size:4 final size:4
Alignment explanation
Indices: 80397723--80397763 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
80397713 CCCTTTTCTA
80397723 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
80397764 CACCTTTGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:80405221 original size:35 final size:35
Alignment explanation
Indices: 80405171--80405266 Score: 111
Period size: 35 Copynumber: 2.7 Consensus size: 35
80405161 CATAGGTAAG
* * *
80405171 TACATGTAAGCTTATATTGAACTTGTATAATCGGT
1 TACATGTGAGCTTATATTGAATTTGTATAATCGAT
* * * *
80405206 TGCATGTGAGGTTATATTGAATTTGAATATTCGAT
1 TACATGTGAGCTTATATTGAATTTGTATAATCGAT
* *
80405241 TACAAGTGAGTTTATATTGAATTTGT
1 TACATGTGAGCTTATATTGAATTTGT
80405267 GTATTTGGTC
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (35 bp):
TACATGTGAGCTTATATTGAATTTGTATAATCGAT
Found at i:80412126 original size:29 final size:28
Alignment explanation
Indices: 80412094--80412159 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
80412084 ACAATTGAAC
*
80412094 TTAAATTTTAAAATAAAAAAACTAAATT
1 TTAAATTTAAAAATAAAAAAACTAAATT
** * *
80412122 ATTAAAAATAAAAATACATAAACTAAATT
1 -TTAAATTTAAAAATAAAAAAACTAAATT
80412151 TTAAATTTA
1 TTAAATTTA
80412160 TGAAAAATAG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
28 7 0.23
29 23 0.77
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.35
Consensus pattern (28 bp):
TTAAATTTAAAAATAAAAAAACTAAATT
Found at i:80415852 original size:18 final size:18
Alignment explanation
Indices: 80415810--80415846 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
80415800 GTAAAAAAAT
80415810 ATAATTT-TATTATTTTA
1 ATAATTTATATTATTTTA
*
80415827 ATAATTTATATTTTTTTA
1 ATAATTTATATTATTTTA
80415845 AT
1 AT
80415847 TTTTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
ATAATTTATATTATTTTA
Found at i:80419805 original size:3 final size:3
Alignment explanation
Indices: 80419797--80419824 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
80419787 TGTTAAACGT
80419797 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
80419825 TTATCCAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:80443444 original size:35 final size:35
Alignment explanation
Indices: 80443394--80443489 Score: 111
Period size: 35 Copynumber: 2.7 Consensus size: 35
80443384 CATAGGTAAG
* * *
80443394 TACATGTAAGCTTATATTGAACTTGTATAATCGGT
1 TACATGTGAGCTTATATTGAATTTGTATAATCGAT
* * * *
80443429 TGCATGTGAGGTTATATTGAATTTGAATATTCGAT
1 TACATGTGAGCTTATATTGAATTTGTATAATCGAT
* *
80443464 TACAAGTGAGTTTATATTGAATTTGT
1 TACATGTGAGCTTATATTGAATTTGT
80443490 GTATTTGGTC
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (35 bp):
TACATGTGAGCTTATATTGAATTTGTATAATCGAT
Found at i:80450356 original size:29 final size:28
Alignment explanation
Indices: 80450324--80450389 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
80450314 ACAATTGAAC
*
80450324 TTAAATTTTAAAATAAAAAAACTAAATT
1 TTAAATTTAAAAATAAAAAAACTAAATT
** * *
80450352 ATTAAAAATAAAAATACATAAACTAAATT
1 -TTAAATTTAAAAATAAAAAAACTAAATT
80450381 TTAAATTTA
1 TTAAATTTA
80450390 TGAAAAATAG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
28 7 0.23
29 23 0.77
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.35
Consensus pattern (28 bp):
TTAAATTTAAAAATAAAAAAACTAAATT
Found at i:80454079 original size:17 final size:17
Alignment explanation
Indices: 80454057--80454089 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
80454047 GTAAAAAAAT
80454057 ATAATTT-TATTATTTTA
1 ATAATTTATATT-TTTTA
80454074 ATAATTTATATTTTTT
1 ATAATTTATATTTTTT
80454090 TTAATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATAATTTATATTTTTTA
Found at i:80458079 original size:3 final size:3
Alignment explanation
Indices: 80458071--80458098 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
80458061 TGTTAAACGT
80458071 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
80458099 TTATCCAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:80466430 original size:16 final size:16
Alignment explanation
Indices: 80466409--80466439 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
80466399 ATTTGGATAG
80466409 TTATTTTAGATTTAAA
1 TTATTTTAGATTTAAA
*
80466425 TTATTTTAGGTTTAA
1 TTATTTTAGATTTAA
80466440 GTGATTAAAA
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:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (16 bp):
TTATTTTAGATTTAAA
Found at i:80471175 original size:24 final size:24
Alignment explanation
Indices: 80471139--80471189 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
80471129 TCTTTTAAAT
80471139 TTTTAGGAATTTTAAGAATATA-TA
1 TTTTAGGAATTTTAAGAAT-TAGTA
*
80471163 TTTTA-GAATTTTTAGGAATTAGTA
1 TTTTAGGAA-TTTTAAGAATTAGTA
80471187 TTT
1 TTT
80471190 CTAAAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (24 bp):
TTTTAGGAATTTTAAGAATTAGTA
Found at i:80475970 original size:87 final size:87
Alignment explanation
Indices: 80475868--80476041 Score: 348
Period size: 87 Copynumber: 2.0 Consensus size: 87
80475858 TCGAGCTTTT
80475868 TCATAAATACCAATAAAAAGAGAGAAACAATGCTTTTGAAACAATAATAAATATTTAATACCAAC
1 TCATAAATACCAATAAAAAGAGAGAAACAATGCTTTTGAAACAATAATAAATATTTAATACCAAC
80475933 AATTTGATGCAAATATTTTTAA
66 AATTTGATGCAAATATTTTTAA
80475955 TCATAAATACCAATAAAAAGAGAGAAACAATGCTTTTGAAACAATAATAAATATTTAATACCAAC
1 TCATAAATACCAATAAAAAGAGAGAAACAATGCTTTTGAAACAATAATAAATATTTAATACCAAC
80476020 AATTTGATGCAAATATTTTTAA
66 AATTTGATGCAAATATTTTTAA
80476042 AATTTTTATA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.30
Consensus pattern (87 bp):
TCATAAATACCAATAAAAAGAGAGAAACAATGCTTTTGAAACAATAATAAATATTTAATACCAAC
AATTTGATGCAAATATTTTTAA
Found at i:80477800 original size:16 final size:16
Alignment explanation
Indices: 80477779--80477826 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
80477769 TCAAATAATG
80477779 ATTTAAACTTAAAATA
1 ATTTAAACTTAAAATA
80477795 ATTTAAA-TTCAAAATA
1 ATTTAAACTT-AAAATA
* *
80477811 ATTTAAGCTCAAAATA
1 ATTTAAACTTAAAATA
80477827 TTAAATATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 2 0.07
16 25 0.89
17 1 0.04
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.35
Consensus pattern (16 bp):
ATTTAAACTTAAAATA
Found at i:80488578 original size:26 final size:29
Alignment explanation
Indices: 80488523--80488580 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 29
80488513 CAAAAAATGC
*
80488523 AATGACTAAAATTGACTAAATTAAAGTAT
1 AATGACTAAAATTGAATAAATTAAAGTAT
*
80488552 AATGACT-AAATT-AATAATTTAAA-TAT
1 AATGACTAAAATTGAATAAATTAAAGTAT
80488578 AAT
1 AAT
80488581 TCAATGACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 6 0.22
27 9 0.33
28 5 0.19
29 7 0.26
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.34
Consensus pattern (29 bp):
AATGACTAAAATTGAATAAATTAAAGTAT
Found at i:80489216 original size:25 final size:22
Alignment explanation
Indices: 80489172--80489230 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
80489162 GAACCAAAAT
*
80489172 TTAATTATAATTTTTTTATAGA
1 TTAATTATAATTTTCTTATAGA
80489194 TTAATATATAAGTTTATCTTAT--A
1 TTAAT-TATAA-TTT-TCTTATAGA
80489217 TTAATTTATAATTT
1 TTAA-TTATAATTT
80489231 CATTTTTAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
22 8 0.25
23 15 0.47
24 4 0.12
25 5 0.16
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (22 bp):
TTAATTATAATTTTCTTATAGA
Found at i:80490251 original size:15 final size:15
Alignment explanation
Indices: 80490217--80490254 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
80490207 ATTTAGTTTC
* *
80490217 TATATTTTAATTTAA
1 TATATTTTTATGTAA
80490232 T-TATTTTTATGTAA
1 TATATTTTTATGTAA
80490246 TATATTTTT
1 TATATTTTT
80490255 TTCAATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (15 bp):
TATATTTTTATGTAA
Found at i:80490917 original size:107 final size:106
Alignment explanation
Indices: 80490713--80490928 Score: 261
Period size: 107 Copynumber: 2.0 Consensus size: 106
80490703 CATGCATGAA
* * ** * * *
80490713 AAATTTTAAATTAATCCGATATCTTTATATGAAACAAATTTGGCGTGCAAACTCTATATGAGTAG
1 AAATTTTAAATTAATCCAATATCTCTATATGAAACAAATTTAACGTACAAACTCTATATGAATAA
* *
80490778 CATACAAAATATGACGGCTAAATCATTAAAATATTAATGGT
66 AATACAAAATATGACGGCTAAATCATTAAAATATTAATAGT
* * *
80490819 AAATTTTCGAATTGATCCAATATCTCTATATGAAACAAATTTAACGTACATACTCTATATGAATA
1 AAATTTT-AAATTAATCCAATATCTCTATATGAAACAAATTTAACGTACAAACTCTATATGAATA
** * * * *
80490884 AAATATGAAATCTGATGGTTAAATTATTAAAATATTAATAGT
65 AAATACAAAATATGACGGCTAAATCATTAAAATATTAATAGT
80490926 AAA
1 AAA
80490929 AAAATAAAAA
Statistics
Matches: 91, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
106 7 0.08
107 84 0.92
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (106 bp):
AAATTTTAAATTAATCCAATATCTCTATATGAAACAAATTTAACGTACAAACTCTATATGAATAA
AATACAAAATATGACGGCTAAATCATTAAAATATTAATAGT
Found at i:80491817 original size:24 final size:24
Alignment explanation
Indices: 80491790--80491836 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
80491780 CACCAGCACT
* *
80491790 AGCTCTTCCACCTGCACCTCCTCC
1 AGCTCCTCCACCTACACCTCCTCC
*
80491814 AGCTCCTCCACCTACGCCTCCTC
1 AGCTCCTCCACCTACACCTCCTC
80491837 TAGCACCACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.13, C:0.55, G:0.09, T:0.23
Consensus pattern (24 bp):
AGCTCCTCCACCTACACCTCCTCC
Found at i:80491848 original size:24 final size:24
Alignment explanation
Indices: 80491797--80491874 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
80491787 ACTAGCTCTT
* * *
80491797 CCACCTGCACCTCCTCCAGCTCCT
1 CCACCTACACCTCCTCCAGCACCA
* *
80491821 CCACCTACGCCTCCTCTAGCACCA
1 CCACCTACACCTCCTCCAGCACCA
*
80491845 CCACC-AC-CACTACCACCAGCACCA
1 CCACCTACAC-CT-CCTCCAGCACCA
*
80491869 GCACCT
1 CCACCT
80491875 CTACTAGCTC
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
22 1 0.02
23 4 0.09
24 38 0.88
ACGTcount: A:0.22, C:0.56, G:0.08, T:0.14
Consensus pattern (24 bp):
CCACCTACACCTCCTCCAGCACCA
Found at i:80494190 original size:21 final size:21
Alignment explanation
Indices: 80494166--80494205 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
80494156 CCACCGAATC
*
80494166 CACCACCTCCACCTCCACCTA
1 CACCACCTCCAACTCCACCTA
*
80494187 CACCTCCTCCAACTCCACC
1 CACCACCTCCAACTCCACC
80494206 ACCCGCACCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.62, G:0.00, T:0.15
Consensus pattern (21 bp):
CACCACCTCCAACTCCACCTA
Found at i:80494207 original size:24 final size:24
Alignment explanation
Indices: 80494180--80494268 Score: 61
Period size: 24 Copynumber: 3.5 Consensus size: 24
80494170 ACCTCCACCT
80494180 CCACCTACACCTCCTCCAACTCCA
1 CCACCTACACCTCCTCCAACTCCA
** * * *
80494204 CCACCCGCACCGCCTCCAATTCCT
1 CCACCTACACCTCCTCCAACTCCA
*
80494228 CCTCCTCCACCAGCTCCTCCTCCAACTCCA
1 CCACCT--A-CA---CCTCCTCCAACTCCA
*
80494258 CCACCTGCACC
1 CCACCTACACC
80494269 ACCCCCACCA
Statistics
Matches: 46, Mismatches: 13, Indels: 12
0.65 0.18 0.17
Matches are distributed among these distances:
24 25 0.54
27 4 0.09
30 17 0.37
ACGTcount: A:0.19, C:0.60, G:0.04, T:0.17
Consensus pattern (24 bp):
CCACCTACACCTCCTCCAACTCCA
Found at i:80494215 original size:54 final size:54
Alignment explanation
Indices: 80494147--80494268 Score: 140
Period size: 54 Copynumber: 2.3 Consensus size: 54
80494137 TCCACCAGCA
*
80494147 CCACCACCAC-CACCGAATCCACCACCTCCACCTCCACCTA-CACCTCCTCCAACT
1 CCACCACC-CGCACCGAATCCAACACCTCCACCTCCACC-AGCACCTCCTCCAACT
** ** * *
80494201 CCACCACCCGCACCGCCTCCAATTCCTCCTCCTCCACCAGCTCCTCCTCCAACT
1 CCACCACCCGCACCGAATCCAACACCTCCACCTCCACCAGCACCTCCTCCAACT
*
80494255 CCACCACCTGCACC
1 CCACCACCCGCACC
80494269 ACCCCCACCA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
53 2 0.03
54 56 0.97
ACGTcount: A:0.21, C:0.60, G:0.04, T:0.15
Consensus pattern (54 bp):
CCACCACCCGCACCGAATCCAACACCTCCACCTCCACCAGCACCTCCTCCAACT
Found at i:80494290 original size:42 final size:43
Alignment explanation
Indices: 80494234--80494334 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 43
80494224 TCCTCCTCCT
* *
80494234 CCACC-AGCTCCTCCTCCAACTCCACCACCTGCACCACCCCCA
1 CCACCAAGCTCCTCCTCCAACACCACCACCTGCACCACCACCA
* * * *
80494276 CCACCAAGC-CCTCCTCCAAGACCGCCACCTGCTCCAGCACCA
1 CCACCAAGCTCCTCCTCCAACACCACCACCTGCACCACCACCA
*
80494318 CCACC-AGCTCCACCTCC
1 CCACCAAGCTCCTCCTCC
80494335 TAAACCGGCA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 3 0.06
42 44 0.88
43 3 0.06
ACGTcount: A:0.22, C:0.59, G:0.08, T:0.11
Consensus pattern (43 bp):
CCACCAAGCTCCTCCTCCAACACCACCACCTGCACCACCACCA
Found at i:80494369 original size:24 final size:24
Alignment explanation
Indices: 80494342--80494575 Score: 142
Period size: 24 Copynumber: 9.5 Consensus size: 24
80494332 TCCTAAACCG
*
80494342 GCACCGCCACCAAGCCCTCCTCCA
1 GCACCACCACCAAGCCCTCCTCCA
* *
80494366 GCACCCCCACCTCCACCGGCTCCTCCTCCTA
1 GCA---CCACCACCA--AGC-CCTCCTCC-A
*
80494397 -AACCACCACCAAGCCCTCCTCCA
1 GCACCACCACCAAGCCCTCCTCCA
*
80494420 GCACCACCACC-A--CCTCCTAAACCG
1 GCACCACCACCAAGCCCTCCT---CCA
* *
80494444 GCACCCCCGCCAAGCCCTCCTCCA
1 GCACCACCACCAAGCCCTCCTCCA
*
80494468 GCACCACCACCTAATCCAC-CC-CCA
1 GCACCACCACC-AAGCC-CTCCTCCA
* * * *
80494492 CCGCCGCCACCAAGCCCTCCTCCT
1 GCACCACCACCAAGCCCTCCTCCA
* *
80494516 GCACCCCCACC-AGCTCCACCTCCTA
1 GCACCACCACCAAGC-CCTCCTCC-A
*
80494541 -AACCACCACCAAGCCCTCCTCCA
1 GCACCACCACCAAGCCCTCCTCCA
*
80494564 GCACCAGCACCA
1 GCACCACCACCA
80494576 CCACCAAAAC
Statistics
Matches: 159, Mismatches: 29, Indels: 44
0.69 0.12 0.19
Matches are distributed among these distances:
21 6 0.04
22 1 0.01
23 12 0.08
24 94 0.59
25 12 0.08
26 1 0.01
27 21 0.13
29 2 0.01
30 9 0.06
31 1 0.01
ACGTcount: A:0.23, C:0.59, G:0.09, T:0.10
Consensus pattern (24 bp):
GCACCACCACCAAGCCCTCCTCCA
Found at i:80494406 original size:30 final size:30
Alignment explanation
Indices: 80494313--80494407 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 30
80494303 CCTGCTCCAG
* **
80494313 CACCACCACCAGCTCCACCTCCTAAACCGG
1 CACCACCACCAGCTCCTCCTCCTAAACCAC
* * *
80494343 CACCGCCACCAAGC-CCTCCTCC-AGCACCCC
1 CACCACCACC-AGCTCCTCCTCCTA-AACCAC
* *
80494373 CACCTCCACCGGCTCCTCCTCCTAAACCAC
1 CACCACCACCAGCTCCTCCTCCTAAACCAC
80494403 CACCA
1 CACCA
80494408 AGCCCTCCTC
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
29 3 0.06
30 44 0.86
31 4 0.08
ACGTcount: A:0.23, C:0.58, G:0.08, T:0.11
Consensus pattern (30 bp):
CACCACCACCAGCTCCTCCTCCTAAACCAC
Found at i:80494414 original size:21 final size:21
Alignment explanation
Indices: 80494390--80494442 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
80494380 ACCGGCTCCT
*
80494390 CCTCCTAAACCACCACCAAGC-
1 CCTCCTAAACCACCACC-ACCA
** *
80494411 CCTCCTCCAGCACCACCACCA
1 CCTCCTAAACCACCACCACCA
80494432 CCTCCTAAACC
1 CCTCCTAAACC
80494443 GGCACCCCCG
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.28, C:0.57, G:0.04, T:0.11
Consensus pattern (21 bp):
CCTCCTAAACCACCACCACCA
Found at i:80494457 original size:48 final size:48
Alignment explanation
Indices: 80494327--80494586 Score: 168
Period size: 48 Copynumber: 5.3 Consensus size: 48
80494317 ACCACCAGCT
* *
80494327 CCACCTCCTAAACCGGCACCGCCACCAAGCCCTCCTCCAGCACCCCCACCT
1 CCACCTCCTAAACCGGCACCACCACCAAGCCCTCCTCCAGCA---CCACCA
*** ***
80494378 CCACCGGCTCCTCCTCCTAAACCACCACCAAGCCCTCCTCCAGCACCACCA
1 CCA-C--CTCCTAAACCGGCACCACCACCAAGCCCTCCTCCAGCACCACCA
* *
80494429 CCACCTCCTAAACCGGCACCCCCGCCAAGCCCTCCTCCAGCACCACCA
1 CCACCTCCTAAACCGGCACCACCACCAAGCCCTCCTCCAGCACCACCA
* *** * * *
80494477 CCTAATCCACCCCCACC-G--CCGCCACCAAGCCCTCCTCCTGCACCCCCA
1 CC--A-CCTCCTAAACCGGCACCACCACCAAGCCCTCCTCCAGCACCACCA
* ** *** *
80494525 CCAGCTCC-ACCTCCTAAACCACCACCAAGCCCTCCTCCAGCACCAGCA
1 CCACCTCCTA-AACCGGCACCACCACCAAGCCCTCCTCCAGCACCACCA
* *
80494573 CCACCACCAAAACC
1 CCACCTCCTAAACC
80494587 ACCACCCAAA
Statistics
Matches: 161, Mismatches: 37, Indels: 25
0.72 0.17 0.11
Matches are distributed among these distances:
45 6 0.04
46 1 0.01
48 100 0.62
49 1 0.01
50 3 0.02
51 18 0.11
52 1 0.01
54 31 0.19
ACGTcount: A:0.24, C:0.58, G:0.08, T:0.10
Consensus pattern (48 bp):
CCACCTCCTAAACCGGCACCACCACCAAGCCCTCCTCCAGCACCACCA
Found at i:80506063 original size:23 final size:21
Alignment explanation
Indices: 80506010--80506064 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 21
80506000 ATATTTTAAA
80506010 AAAATTTAAATATAATTTTAT
1 AAAATTTAAATATAATTTTAT
* * *
80506031 CATATATTAATTTATAATTTTTAT
1 AAAAT-TTAA-ATATAA-TTTTAT
80506055 AAAATTTAAA
1 AAAATTTAAA
80506065 ATGAAATTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 5
0.69 0.17 0.14
Matches are distributed among these distances:
21 3 0.12
22 4 0.16
23 9 0.36
24 9 0.36
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
AAAATTTAAATATAATTTTAT
Found at i:80506945 original size:18 final size:19
Alignment explanation
Indices: 80506909--80506948 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
80506899 GAGGCTCAAT
*
80506909 ATAAAAAAATTATATTTTA
1 ATAAAAAAATTATAATTTA
*
80506928 ATAAAAAATTTA-AATTTA
1 ATAAAAAAATTATAATTTA
80506946 ATA
1 ATA
80506949 TCAACTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAAAAAAATTATAATTTA
Done.