Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007801.1 Hibiscus syriacus cultivar Beakdansim tig00110118_pilon, whole genome shotgun sequence
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: 951604
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:1900 original size:13 final size:13
Alignment explanation
Indices: 1884--1929 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
1874 CAATGAACGC
*
1884 CATAAATGCGCGT
1 CATAAATGCGTGT
*
1897 CATAAATGTGTGT
1 CATAAATGCGTGT
1910 CATAAATGCGTGT
1 CATAAATGCGTGT
1923 CATAAAT
1 CATAAAT
1930 TTATGACGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (13 bp):
CATAAATGCGTGT
Found at i:1904 original size:26 final size:26
Alignment explanation
Indices: 1875--1929 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
1865 AATGACGCTC
1875 AATGAACGCCATAAATGCGCGTCATA
1 AATGAACGCCATAAATGCGCGTCATA
*** * *
1901 AATGTGTGTCATAAATGCGTGTCATA
1 AATGAACGCCATAAATGCGCGTCATA
1927 AAT
1 AAT
1930 TTATGACGCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.27
Consensus pattern (26 bp):
AATGAACGCCATAAATGCGCGTCATA
Found at i:2679 original size:35 final size:36
Alignment explanation
Indices: 2639--2708 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
2629 TTTCGGGATT
*
2639 TGCTA-TTTTGGCAAAATTCGAATAAATACGATTTG
1 TGCTATTTTTGGCAAAATTCGAATAAAGACGATTTG
2674 TGCTATTTTTGGCAAAATTCGAATAAAGACGATTT
1 TGCTATTTTTGGCAAAATTCGAATAAAGACGATTT
2709 TTTTTGCTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 5 0.15
36 28 0.85
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.37
Consensus pattern (36 bp):
TGCTATTTTTGGCAAAATTCGAATAAAGACGATTTG
Found at i:10076 original size:2 final size:2
Alignment explanation
Indices: 10069--10102 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10059 TAATTAAATC
10069 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10103 TGTTTCCATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12848 original size:3 final size:3
Alignment explanation
Indices: 12840--12918 Score: 158
Period size: 3 Copynumber: 26.3 Consensus size: 3
12830 ATAGTTTGTC
12840 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA
12888 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA G
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA G
12919 ATAAGTGTCA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:13133 original size:12 final size:13
Alignment explanation
Indices: 13118--13146 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
13108 CTATTATAAA
13118 ATTGATTT-ATCG
1 ATTGATTTGATCG
13130 ATTGATTTGATCG
1 ATTGATTTGATCG
13143 ATTG
1 ATTG
13147 TCAGTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (13 bp):
ATTGATTTGATCG
Found at i:15371 original size:24 final size:24
Alignment explanation
Indices: 15326--15374 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
15316 TGGTGGTTGA
*
15326 TTTAATGGTTGTTTAAACTTTATT
1 TTTAATGGTTATTTAAACTTTATT
*
15350 TTTAATGGTATATTT-AAGTTTATT
1 TTTAATGGT-TATTTAAACTTTATT
15374 T
1 T
15375 GGTTCTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.27, C:0.02, G:0.12, T:0.59
Consensus pattern (24 bp):
TTTAATGGTTATTTAAACTTTATT
Found at i:21549 original size:24 final size:24
Alignment explanation
Indices: 21522--21581 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 24
21512 CTCCCAAATT
*
21522 TTTAACTTTTTTCTTTTCTCTTTC-
1 TTTAACTTTTTT-TTTCCTCTTTCA
* *
21546 TTTATTCATTTTTTTTCCTCTTTCA
1 TTTA-ACTTTTTTTTTCCTCTTTCA
21571 TGTTAACTTTT
1 T-TTAACTTTT
21582 ACTTTTTCTC
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
24 14 0.50
25 11 0.39
26 3 0.11
ACGTcount: A:0.12, C:0.18, G:0.02, T:0.68
Consensus pattern (24 bp):
TTTAACTTTTTTTTTCCTCTTTCA
Found at i:24896 original size:24 final size:24
Alignment explanation
Indices: 24867--24916 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
24857 TGGTGGTTGA
*
24867 TTTAATGGT-TGTTTAAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
24891 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
24915 TT
1 TT
24917 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:30659 original size:22 final size:21
Alignment explanation
Indices: 30634--30675 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
30624 TTTGATCAAA
*
30634 TATTTTTAATATATATTATTTT
1 TATTTTTAAAATATA-TATTTT
30656 TATTTTTAAAATATATATTT
1 TATTTTTAAAATATATATTT
30676 AAATTAAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTTTTAAAATATATATTTT
Found at i:37733 original size:22 final size:22
Alignment explanation
Indices: 37708--37771 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 22
37698 GATACAGAAT
*
37708 CAACATTCAGACGAATTCCAAA
1 CAACATTCACACGAATTCCAAA
* * **
37730 CAACATTTACACCAATTCCAGG
1 CAACATTCACACGAATTCCAAA
* *
37752 CAGCATTCATACGAA-TCCAA
1 CAACATTCACACGAATTCCAA
37772 TCAATGGTAA
Statistics
Matches: 32, Mismatches: 10, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
21 4 0.12
22 28 0.88
ACGTcount: A:0.41, C:0.30, G:0.09, T:0.20
Consensus pattern (22 bp):
CAACATTCACACGAATTCCAAA
Found at i:49406 original size:15 final size:15
Alignment explanation
Indices: 49384--49427 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
49374 AAATAAATAA
*
49384 CATAATGCATTCAGT
1 CATAATGCATACAGT
* *
49399 CCTAATGCATACGGT
1 CATAATGCATACAGT
49414 CATAATGCATACAG
1 CATAATGCATACAG
49428 AAAACAGGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (15 bp):
CATAATGCATACAGT
Found at i:49461 original size:18 final size:18
Alignment explanation
Indices: 49430--49464 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
49420 GCATACAGAA
* *
49430 AACAGGAAATAAATAAAT
1 AACAGAAAACAAATAAAT
49448 AACAGAAAACAAATAAA
1 AACAGAAAACAAATAAA
49465 AATAGAAACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.09, G:0.09, T:0.11
Consensus pattern (18 bp):
AACAGAAAACAAATAAAT
Found at i:49471 original size:17 final size:17
Alignment explanation
Indices: 49441--49499 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 17
49431 ACAGGAAATA
49441 AATAAATAACAGAAAACA-
1 AATAAA-AA-AGAAAACAT
*
49459 AATAAAAATAGAAACTATAT
1 AATAAAAA-AGAAA--ACAT
49479 AATAAAAAAGAAAACAT
1 AATAAAAAAGAAAACAT
49496 AATA
1 AATA
49500 CATATAGTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
17 14 0.40
18 6 0.17
19 7 0.20
20 8 0.23
ACGTcount: A:0.71, C:0.07, G:0.05, T:0.17
Consensus pattern (17 bp):
AATAAAAAAGAAAACAT
Found at i:49559 original size:7 final size:7
Alignment explanation
Indices: 49547--49647 Score: 53
Period size: 7 Copynumber: 13.0 Consensus size: 7
49537 TACAGAAAAC
49547 AAATAAA
1 AAATAAA
49554 AAATAAA
1 AAATAAA
*
49561 ACATAAA
1 AAATAAA
*
49568 ATACATATA
1 A-A-ATAAA
49577 AAATAAA
1 AAATAAA
49584 AAA-AACA
1 AAATAA-A
49591 AAA-AAA
1 AAATAAA
49597 ACATATAAA
1 A-A-ATAAA
*
49606 ACATAAA
1 AAATAAA
49613 ACAATTAGCAAA
1 A-AA-T---AAA
49625 AAATAAA
1 AAATAAA
49632 TAAATAAA
1 -AAATAAA
49640 TAAATAAA
1 -AAATAAA
49648 TAGTGGTTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 23
0.72 0.06 0.22
Matches are distributed among these distances:
6 4 0.05
7 37 0.49
8 18 0.24
9 10 0.13
10 1 0.01
11 2 0.03
12 4 0.05
ACGTcount: A:0.75, C:0.07, G:0.01, T:0.17
Consensus pattern (7 bp):
AAATAAA
Found at i:49573 original size:9 final size:9
Alignment explanation
Indices: 49558--49613 Score: 58
Period size: 9 Copynumber: 6.2 Consensus size: 9
49548 AATAAAAAAT
49558 AAAACATAA
1 AAAACATAA
* *
49567 AATACATAT
1 AAAACATAA
* *
49576 AAAATAAAA
1 AAAACATAA
*
49585 AAAACAAAA
1 AAAACATAA
*
49594 AAAACATAT
1 AAAACATAA
49603 AAAACATAA
1 AAAACATAA
49612 AA
1 AA
49614 CAATTAGCAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (9 bp):
AAAACATAA
Found at i:49588 original size:27 final size:28
Alignment explanation
Indices: 49553--49606 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
49543 AAACAAATAA
* *
49553 AAAATAAAACATAAAATACATATAAAAT
1 AAAATAAAACAAAAAAAACATATAAAAT
49581 AAAA-AAAACAAAAAAAACATATAAAA
1 AAAATAAAACAAAAAAAACATATAAAA
49607 CATAAAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (28 bp):
AAAATAAAACAAAAAAAACATATAAAAT
Found at i:49613 original size:27 final size:25
Alignment explanation
Indices: 49542--49616 Score: 78
Period size: 27 Copynumber: 2.9 Consensus size: 25
49532 AGTCATACAG
* * *
49542 AAAACAAATAAAAAATAAAACATAA
1 AAAACATATAAAAAAAAAAACAAAA
*
49567 AATACATATAAAATAAAAAAAACAAAA
1 AAAACATAT-AAA-AAAAAAAACAAAA
* *
49594 AAAACATATAAAACATAAAACAA
1 AAAACATATAAAAAAAAAAACAA
49617 TTAGCAAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
25 16 0.39
26 6 0.15
27 19 0.46
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.13
Consensus pattern (25 bp):
AAAACATATAAAAAAAAAAACAAAA
Found at i:49634 original size:4 final size:4
Alignment explanation
Indices: 49625--49649 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
49615 AATTAGCAAA
49625 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
49650 GTGGTTTTTT
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:50599 original size:165 final size:164
Alignment explanation
Indices: 50329--50790 Score: 610
Period size: 165 Copynumber: 2.8 Consensus size: 164
50319 TGGGAAACTG
** * *
50329 AAGAAGGGGAA-GGGGATGAAAAGTGGGATTTGGGATTTAGGGTTACAAGAATAAGATGAATAAT
1 AAGAAGGGGAAGGGGGATGAAAAGTGGGATTTGGGATTTAGGGTTA-GGGAAGAAGATGAATAGT
** *
50393 GCTTTGATTTTA-GGGTTTAGATCTTGAAAAATAGATTGGGGAAAAGTGCTTGGTGTTTATAAGG
65 GCTTTGA-TTTAGGGGTTTAGATCTTGAAAAATAGATTGGGGAAAAGTATTTGGTGTTTGTAAGG
* *
50457 ATCAAAGAGAAGAAGAAGAGGAAGAGTCTCGGTT-A
129 ATCAAACAGAAGAAGAAGAGGAAGAGTATCGGTTGA
*
50492 AAGAAGGGGAAGGGGGATGAATAGTGGGATTTGGGATTTAGGGTTAGGGTTAAGAAGATGAATAG
1 AAGAAGGGGAAGGGGGATGAAAAGTGGGATTTGGGATTTAGGGTTAGGG--AAGAAGATGAATAG
* * * *
50557 TGCTTTGATTTGGGGGTTTAGATCTTGAAAAACAAATTGGGGAAAAGTATTTGTTGTTTGTAAGG
64 TGCTTTGATTTAGGGGTTTAGATCTTGAAAAATAGATTGGGGAAAAGTATTTGGTGTTTGTAAGG
**
50622 ATCAAACAGAAGGGGAAGAGGAAGAGTATCGGTTGA
129 ATCAAACAGAAGAAGAAGAGGAAGAGTATCGGTTGA
* * ** * * *
50658 AA-AATGGGAAGGGGGATGAACAGTGGGATTTTAGATTTATGGTTAGGGAAGAAGATTAACAGTG
1 AAGAAGGGGAAGGGGGATGAAAAGTGGGATTTGGGATTTAGGGTTAGGGAAGAAGATGAATAGTG
* * *
50722 CTTCGATTTAGGGGTTTTGATCTTGAAAAATAGA-TCGGGAAAAGTATTTGGTGTTTGTAAGGAT
66 CTTTGATTTAGGGGTTTAGATCTTGAAAAATAGATTGGGGAAAAGTATTTGGTGTTTGTAAGGAT
*
50786 TAAAC
131 CAAAC
50791 GAGGAACAGG
Statistics
Matches: 263, Mismatches: 31, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
162 32 0.12
163 55 0.21
164 36 0.14
165 137 0.52
166 3 0.01
ACGTcount: A:0.34, C:0.04, G:0.33, T:0.28
Consensus pattern (164 bp):
AAGAAGGGGAAGGGGGATGAAAAGTGGGATTTGGGATTTAGGGTTAGGGAAGAAGATGAATAGTG
CTTTGATTTAGGGGTTTAGATCTTGAAAAATAGATTGGGGAAAAGTATTTGGTGTTTGTAAGGAT
CAAACAGAAGAAGAAGAGGAAGAGTATCGGTTGA
Found at i:51418 original size:23 final size:24
Alignment explanation
Indices: 51392--51444 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
51382 TTTAATATTA
51392 TTTTAATA-ATTTATATGATATAG
1 TTTTAATAGATTTATATGATATAG
* * *
51415 TTTT-ATAGTTTTATATTATGTAG
1 TTTTAATAGATTTATATGATATAG
51438 -TTTAATA
1 TTTTAATA
51445 TAGGTTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (24 bp):
TTTTAATAGATTTATATGATATAG
Found at i:51495 original size:8 final size:8
Alignment explanation
Indices: 51482--51590 Score: 71
Period size: 8 Copynumber: 13.5 Consensus size: 8
51472 ATATACTTTA
51482 TATAGTTT
1 TATAGTTT
51490 TATAGTTT
1 TATAGTTT
*
51498 TATAG-TA
1 TATAGTTT
51505 TATAGTTT
1 TATAGTTT
*
51513 TACAGTTT
1 TATAGTTT
*
51521 TATA-TTA
1 TATAGTTT
*
51528 TGTAGTTT
1 TATAGTTT
51536 AATATAGTTT
1 --TATAGTTT
* *
51546 AATAATTT
1 TATAGTTT
51554 ATATAGTTT
1 -TATAGTTT
* *
51563 AATA-TTA
1 TATAGTTT
*
51570 TATAGTTA
1 TATAGTTT
*
51578 TATTACTTT
1 TA-TAGTTT
51587 TATA
1 TATA
51591 TTATGTAGTT
Statistics
Matches: 77, Mismatches: 17, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
7 16 0.21
8 42 0.55
9 12 0.16
10 7 0.09
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (8 bp):
TATAGTTT
Found at i:51506 original size:23 final size:23
Alignment explanation
Indices: 51480--51590 Score: 89
Period size: 23 Copynumber: 4.6 Consensus size: 23
51470 TTATATACTT
51480 TATATAGTTTTATAGTTTTATAG
1 TATATAGTTTTATAGTTTTATAG
* *
51503 TATATAGTTTTACAGTTTTATAT
1 TATATAGTTTTATAGTTTTATAG
* * *
51526 TATGTAGTTTAATATAGTTTAATAATT
1 TATATAGTTT--TATAGTTTTAT-A-G
* *
51553 TATATAGTTTAATA-TTATATAG
1 TATATAGTTTTATAGTTTTATAG
*
51575 TTATATTACTTTTATA
1 -TATA-TAGTTTTATA
51591 TTATGTAGTT
Statistics
Matches: 70, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
23 35 0.50
24 12 0.17
25 12 0.17
26 1 0.01
27 10 0.14
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (23 bp):
TATATAGTTTTATAGTTTTATAG
Found at i:51520 original size:95 final size:96
Alignment explanation
Indices: 51353--51549 Score: 294
Period size: 95 Copynumber: 2.1 Consensus size: 96
51343 AATTTATTAC
*
51353 TTAATACTTATATTTAATTATTTATATAGTTTAATATTATTTTAATAATTTATATGATATAGTTT
1 TTAATACTTATATTTAATTATTTATATACTTTAATATTATTTTAATAATTTATATGATATAGTTT
*
51418 TATAGTTTTATATTATGTAGTTTAATATAGG
66 TACAGTTTTATATTATGTAGTTTAATATAGG
* *
51449 TTAATACTTCTATTTAATTATTTATATACTTT-ATA-TAGTTTT-ATAGTTT-TATAGTATATAG
1 TTAATACTTATATTTAATTATTTATATACTTTAATATTA-TTTTAATAATTTATAT-G-ATATAG
*
51510 TTTTACAGTTTTATATTATGTAGTTTAATATAGT
63 TTTTACAGTTTTATATTATGTAGTTTAATATAGG
51544 TTAATA
1 TTAATA
51550 ATTTATATAG
Statistics
Matches: 93, Mismatches: 5, Indels: 7
0.89 0.05 0.07
Matches are distributed among these distances:
93 3 0.03
94 9 0.10
95 51 0.55
96 30 0.32
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (96 bp):
TTAATACTTATATTTAATTATTTATATACTTTAATATTATTTTAATAATTTATATGATATAGTTT
TACAGTTTTATATTATGTAGTTTAATATAGG
Found at i:51540 original size:15 final size:14
Alignment explanation
Indices: 51479--51602 Score: 57
Period size: 15 Copynumber: 8.9 Consensus size: 14
51469 TTTATATACT
51479 TTATATAGTTTTATA
1 TTATATAG-TTTATA
* *
51494 GTTTTATAGTATATA
1 -TTATATAGTTTATA
* *
51509 GTTTTACAGTTTTATA
1 -TTATATAG-TTTATA
*
51525 TTATGTAG-TT-TA
1 TTATATAGTTTATA
51537 --ATATAGTTTAATAA
1 TTATATAGTTT-AT-A
51551 TTTATATAGTTTAATA
1 -TTATATAGTTT-ATA
51567 TTATATAG-TTATA
1 TTATATAGTTTATA
*
51580 TTA-CT--TTTATA
1 TTATATAGTTTATA
*
51591 TTATGTAGTTTA
1 TTATATAGTTTA
51603 ATATAAAATT
Statistics
Matches: 86, Mismatches: 10, Indels: 26
0.70 0.08 0.21
Matches are distributed among these distances:
10 5 0.06
11 10 0.12
12 4 0.05
13 9 0.10
14 7 0.08
15 26 0.30
16 13 0.15
17 12 0.14
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.56
Consensus pattern (14 bp):
TTATATAGTTTATA
Found at i:51545 original size:10 final size:10
Alignment explanation
Indices: 51530--51567 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
51520 TTATATTATG
51530 TAGTTTAATA
1 TAGTTTAATA
51540 TAGTTTAATA
1 TAGTTTAATA
51550 -A-TTT-ATA
1 TAGTTTAATA
51557 TAGTTTAATA
1 TAGTTTAATA
51567 T
1 T
51568 TATATAGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
7 3 0.12
8 4 0.16
9 4 0.16
10 14 0.56
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (10 bp):
TAGTTTAATA
Found at i:51582 original size:13 final size:15
Alignment explanation
Indices: 51537--51576 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 15
51527 ATGTAGTTTA
51537 ATATAGTTTAATAATTT
1 ATATAGTTTAAT-A-TT
51554 ATATAGTTTAATATT
1 ATATAGTTTAATATT
51569 ATATAGTT
1 ATATAGTT
51577 ATATTACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 10 0.43
16 1 0.04
17 12 0.52
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
ATATAGTTTAATATT
Found at i:53994 original size:14 final size:14
Alignment explanation
Indices: 53960--53996 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
53950 TTTAAATTTT
53960 TATTTAAAATTATA
1 TATTTAAAATTATA
* *
53974 AAATTAAAATTATA
1 TATTTAAAATTATA
53988 TATTTAAAA
1 TATTTAAAA
53997 AACATGAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TATTTAAAATTATA
Found at i:55058 original size:3 final size:3
Alignment explanation
Indices: 55050--55103 Score: 81
Period size: 3 Copynumber: 17.7 Consensus size: 3
55040 TGTATGATTT
* *
55050 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTAA TAA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
55096 TTA TTA TT
1 TTA TTA TT
55104 TACATTTCAG
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 46 0.96
4 2 0.04
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:55323 original size:22 final size:22
Alignment explanation
Indices: 55298--55342 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
55288 GCAGCCCACG
* *
55298 ACCATCCCTATGGTGAGTCACC
1 ACCATACCTATGGTGACTCACC
*
55320 ACCATAGCTATGGTGACTCACC
1 ACCATACCTATGGTGACTCACC
55342 A
1 A
55343 AGATGAGCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.22
Consensus pattern (22 bp):
ACCATACCTATGGTGACTCACC
Found at i:56385 original size:25 final size:27
Alignment explanation
Indices: 56325--56388 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 27
56315 ATACTATAGT
56325 TTTAATT-TTATTTATTTTAGTCACTA
1 TTTAATTATTATTTATTTTAGTCACTA
* *
56351 TTTAGTTATTATTTAATTTTA-T-A-TG
1 TTTAATTATTATTT-ATTTTAGTCACTA
56376 TTTAATTATTATT
1 TTTAATTATTATT
56389 ATTATTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
25 13 0.39
26 7 0.21
27 7 0.21
28 6 0.18
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (27 bp):
TTTAATTATTATTTATTTTAGTCACTA
Found at i:56388 original size:3 final size:3
Alignment explanation
Indices: 56380--56424 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
56370 TATATGTTTA
56380 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
56425 TAGTCATATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:56687 original size:15 final size:15
Alignment explanation
Indices: 56669--56698 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56659 TTTAGAGAAA
56669 TATTTTATTAATATT
1 TATTTTATTAATATT
*
56684 TATTTTTTTAATATT
1 TATTTTATTAATATT
56699 AAGAAATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTTATTAATATT
Found at i:57271 original size:27 final size:25
Alignment explanation
Indices: 57241--57296 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 25
57231 AATTCTTTCT
*
57241 TTTTAAAATTTTTATATATACTTATTA
1 TTTTAAAATATTTATATATA--TATTA
* *
57268 TTTTCAAATATTTATATGTATATTA
1 TTTTAAAATATTTATATATATATTA
57293 TTTT
1 TTTT
57297 TTTATTAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 9 0.35
27 17 0.65
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.61
Consensus pattern (25 bp):
TTTTAAAATATTTATATATATATTA
Found at i:57298 original size:27 final size:26
Alignment explanation
Indices: 57240--57298 Score: 66
Period size: 29 Copynumber: 2.2 Consensus size: 26
57230 TAATTCTTTC
*
57240 TTTTTAAAATTTTTATATATACTTAT
1 TTTTTAAAATTTATATATATACTTAT
*
57266 TATTTTCAAATATTTATATGTATA-TTAT
1 T-TTTT-AAA-ATTTATATATATACTTAT
57294 TTTTT
1 TTTTT
57299 TATTAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
26 1 0.04
27 8 0.29
28 8 0.29
29 11 0.39
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTTTAAAATTTATATATATACTTAT
Found at i:57316 original size:17 final size:17
Alignment explanation
Indices: 57287--57319 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
57277 ATTTATATGT
57287 ATATTATTTTTTTATTA
1 ATATTATTTTTTTATTA
57304 ATATT-TTTATTTTATT
1 ATATTATTT-TTTTATT
57320 TTCAAGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
ATATTATTTTTTTATTA
Found at i:58211 original size:36 final size:36
Alignment explanation
Indices: 58160--58231 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
58150 GAGCTATGCA
* * *
58160 CACAAAGATCTTGTTATATTAATACCAAAAGTATTC
1 CACAAAGATCCTGTTAGATTAATACCAAAAGCATTC
**
58196 CACAAAGATCCTGTTAGATTGGTACCAAAAGCATTC
1 CACAAAGATCCTGTTAGATTAATACCAAAAGCATTC
58232 TACGGCAAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.29
Consensus pattern (36 bp):
CACAAAGATCCTGTTAGATTAATACCAAAAGCATTC
Found at i:58860 original size:21 final size:21
Alignment explanation
Indices: 58835--58879 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
58825 GAGTAACACC
58835 TTTTCATACATGCATTTGCAT
1 TTTTCATACATGCATTTGCAT
** *
58856 TTTTCATATTTGCATTTTCAT
1 TTTTCATACATGCATTTGCAT
58877 TTT
1 TTT
58880 GCATTTTTTT
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:0.20, C:0.16, G:0.07, T:0.58
Consensus pattern (21 bp):
TTTTCATACATGCATTTGCAT
Found at i:58886 original size:7 final size:7
Alignment explanation
Indices: 58845--58886 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
58835 TTTTCATACA
58845 TGCA-TT
1 TGCATTT
58851 TGCATTT
1 TGCATTT
*
58858 TTCATATT
1 TGCAT-TT
58866 TGCATTT
1 TGCATTT
58873 T-CATTT
1 TGCATTT
58879 TGCATTT
1 TGCATTT
58886 T
1 T
58887 TTTTTTTTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 10 0.32
7 15 0.48
8 6 0.19
ACGTcount: A:0.17, C:0.14, G:0.10, T:0.60
Consensus pattern (7 bp):
TGCATTT
Found at i:62837 original size:5 final size:5
Alignment explanation
Indices: 62827--62855 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
62817 GGATGGCAAT
62827 GGGTC GGGTC GGGTC GGGTC GGGTC GGGT
1 GGGTC GGGTC GGGTC GGGTC GGGTC GGGT
62856 TTTTGGGCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.62, T:0.21
Consensus pattern (5 bp):
GGGTC
Found at i:67258 original size:54 final size:54
Alignment explanation
Indices: 67148--67359 Score: 327
Period size: 54 Copynumber: 3.9 Consensus size: 54
67138 CTGACCAGAA
* * * * * *
67148 ATCTGTGCAGAAGCAACATGAAAGGATAAATGTGTTGTCAAATGTTTTACGAAC
1 ATCTGAGCAGAAACCACAGGAAAAGATGAATGTGTTGTCAAATGTTTTACGAAC
*
67202 ATCT-ATGCCGAAACCACAGGAAAAGATGAATGTGTTGTCAAATGTTTTACGAAC
1 ATCTGA-GCAGAAACCACAGGAAAAGATGAATGTGTTGTCAAATGTTTTACGAAC
*
67256 ATCTGAGCAGAAACTACAGGAAAAGATGAATGTGTTGTCAAATGTTTTACGAAC
1 ATCTGAGCAGAAACCACAGGAAAAGATGAATGTGTTGTCAAATGTTTTACGAAC
*
67310 ATCTGAGCAGAAGCCACAGGAAAAGATGAATGTGTTGTCAAATGTTTTAC
1 ATCTGAGCAGAAACCACAGGAAAAGATGAATGTGTTGTCAAATGTTTTAC
67360 AAACCAGTGA
Statistics
Matches: 145, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
54 144 0.99
55 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.26
Consensus pattern (54 bp):
ATCTGAGCAGAAACCACAGGAAAAGATGAATGTGTTGTCAAATGTTTTACGAAC
Found at i:68326 original size:112 final size:112
Alignment explanation
Indices: 68157--68913 Score: 1108
Period size: 112 Copynumber: 6.7 Consensus size: 112
68147 ATTCCTAGAT
68157 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
*
68222 TCAACCTTTTGCTCGAATTCATCACTCGATGGATCAGCATTGTCGGA
66 TCAACCTTTTGCTCGAATTCATCACTCGATGGATCAGCATTGCCGGA
68269 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
* * * * *
68334 TCAACCTTTTTCTCGAATTCATCATTCGATGGATCAACATTCCCAGA
66 TCAACCTTTTGCTCGAATTCATCACTCGATGGATCAGCATTGCCGGA
* *
68381 TAGAGTTCATAATGAGAATAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTG
1 -AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
68445 TTCAACCTTTTGCTCGAATTCATCACTCGATGGATCAGCATTGCCGGA
65 TTCAACCTTTTGCTCGAATTCATCACTCGATGGATCAGCATTGCCGGA
* * * *
68493 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGACGTTCAAAATTAGAAGAACTTAT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
68558 TCAACCTTTTGCTCGAATTCATCACTCGATGGATCAGCATTGCCGGA
66 TCAACCTTTTGCTCGAATTCATCACTCGATGGATCAGCATTGCCGGA
*
68605 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAATGAGAAGAACTTGT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
* *
68670 TCAACCTTTTGCTCGAATTCATCACTCGATGGATCAACATTGCCAGGT
66 TCAACCTTTTGCTCGAATTCATCACTCGATGGATCAGCATTGCC-GGA
* *
68718 AGAGTTCATAATGAGAAGAAATCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGATGAACTTGT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
** *** * * *
68782 TCAACCTTTTGCTTC-ACTCCATTTACAGAAAGAGATAGAGCAGCAGAGCCATTTCCAGGT
66 TCAACCTTTTGC-TCGA----A-TT-CATCACTCGAT-G-G-ATC--AG-CATTGCC-GGA
*
68842 AGAGTTCATAATGAGAAGAACTCATCTGAAG-AGGATGAAGAAGTTCATAATGAGAAGAACTTGT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
68906 TCAACCTT
66 TCAACCTT
68914 AATTTAATTC
Statistics
Matches: 589, Mismatches: 40, Indels: 20
0.91 0.06 0.03
Matches are distributed among these distances:
111 29 0.05
112 404 0.69
113 63 0.11
116 1 0.00
117 2 0.00
118 6 0.01
119 1 0.00
120 1 0.00
121 2 0.00
123 1 0.00
124 79 0.13
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (112 bp):
AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
TCAACCTTTTGCTCGAATTCATCACTCGATGGATCAGCATTGCCGGA
Found at i:69296 original size:3 final size:3
Alignment explanation
Indices: 69275--69382 Score: 157
Period size: 3 Copynumber: 36.0 Consensus size: 3
69265 TGTATCATTT
* *
69275 TTA TTA ATA TTA TTT TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
*
69321 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TG TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
69366 TT- TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
69383 AATAATAAAT
Statistics
Matches: 95, Mismatches: 6, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
2 3 0.03
3 86 0.91
4 6 0.06
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:69673 original size:22 final size:22
Alignment explanation
Indices: 69648--69692 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
69638 GCAACCCACG
* *
69648 ACCATCCCTATGGTGAGTCACC
1 ACCATACCTATGGTGACTCACC
*
69670 ACCATAGCTATGGTGACTCACC
1 ACCATACCTATGGTGACTCACC
69692 A
1 A
69693 AGATGAGCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.22
Consensus pattern (22 bp):
ACCATACCTATGGTGACTCACC
Found at i:69706 original size:35 final size:35
Alignment explanation
Indices: 69661--69736 Score: 143
Period size: 35 Copynumber: 2.2 Consensus size: 35
69651 ATCCCTATGG
*
69661 TGAGTCACCACCATAGCTATGGTGACTCACCAAGA
1 TGAGCCACCACCATAGCTATGGTGACTCACCAAGA
69696 TGAGCCACCACCATAGCTATGGTGACTCACCAAGA
1 TGAGCCACCACCATAGCTATGGTGACTCACCAAGA
69731 TGAGCC
1 TGAGCC
69737 TTATTCCCCG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.18
Consensus pattern (35 bp):
TGAGCCACCACCATAGCTATGGTGACTCACCAAGA
Found at i:70626 original size:9 final size:9
Alignment explanation
Indices: 70608--70636 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
70598 AATATCTTAT
70608 TTAT-AAAA
1 TTATAAAAA
70616 TTATAAAAA
1 TTATAAAAA
70625 TTATAAAAA
1 TTATAAAAA
70634 TTA
1 TTA
70637 ATATATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.20
9 16 0.80
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
TTATAAAAA
Found at i:70638 original size:146 final size:148
Alignment explanation
Indices: 70371--70646 Score: 339
Period size: 146 Copynumber: 1.9 Consensus size: 148
70361 TTTTAATATT
* * * *
70371 TATTTATTTATTTATTAATATTAAAGAAAAGGGTTGTCTTAAAGCAACTAGAAATCCTTTTCTGA
1 TATTTATTTATTTATTAATATTAAAGAAAAGGGATGTCTTAAAGCAACTAGAAATCATTTTATAA
* * **
70436 TATTCTTAAATAAATAAATATCCTATTTTTATAAATTATATATTAATTTATTTTAAT-TATTTTT
66 TATTCTTAAATAAATAAATATCCTATTTATATAAATTATATATAAATTTAAATTAATATATTTTT
70500 AGAGAAATGTTTTATTAA
131 AGAGAAATGTTTTATTAA
* * * * *
70518 TATTTATTTATTTTTTAATATT-AAGAAATGGGATGTCTTAAAGTACCTAGAAGTCATTTTATAA
1 TATTTATTTATTTATTAATATTAAAGAAAAGGGATGTCTTAAAGCAACTAGAAATCATTTTATAA
* *
70582 TATT-TCTAAGTAAATAAATATCTTATTTATA-AAATTATA-A-AAATTATAAAAATTAATATAT
66 TATTCT-TAAATAAATAAATATCCTATTTATATAAATTATATATAAATT-T--AAATTAATATAT
70643 TTTT
127 TTTT
70647 TCTTAAAATT
Statistics
Matches: 109, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
143 4 0.04
144 2 0.02
145 9 0.08
146 66 0.61
147 28 0.26
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (148 bp):
TATTTATTTATTTATTAATATTAAAGAAAAGGGATGTCTTAAAGCAACTAGAAATCATTTTATAA
TATTCTTAAATAAATAAATATCCTATTTATATAAATTATATATAAATTTAAATTAATATATTTTT
AGAGAAATGTTTTATTAA
Found at i:71306 original size:22 final size:23
Alignment explanation
Indices: 71281--71324 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
71271 AGTTATCAAA
71281 ATATGACTTTT-AAGATTTTAAG
1 ATATGACTTTTCAAGATTTTAAG
* * *
71303 ATATTATTTTTCAATATTTTAA
1 ATATGACTTTTCAAGATTTTAA
71325 ATTTTAAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (23 bp):
ATATGACTTTTCAAGATTTTAAG
Found at i:72367 original size:16 final size:17
Alignment explanation
Indices: 72335--72368 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
72325 ATTTTCAAGT
72335 AAGCAAATCAATGATGA
1 AAGCAAATCAATGATGA
*
72352 AAGCAAA-CAATTATGA
1 AAGCAAATCAATGATGA
72368 A
1 A
72369 TCATTGACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.56, C:0.12, G:0.15, T:0.18
Consensus pattern (17 bp):
AAGCAAATCAATGATGA
Found at i:73206 original size:24 final size:24
Alignment explanation
Indices: 73179--73228 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
73169 TTCTTATAAT
*
73179 CATTCCA-AATTATTAAAAGAATTA
1 CATTCCAGAA-TATTAAAAAAATTA
73203 CATTCCAGAATATTAAAAAAATTA
1 CATTCCAGAATATTAAAAAAATTA
73227 CA
1 CA
73229 ATGCAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.52, C:0.14, G:0.04, T:0.30
Consensus pattern (24 bp):
CATTCCAGAATATTAAAAAAATTA
Found at i:82487 original size:30 final size:30
Alignment explanation
Indices: 82428--82487 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
82418 AGATGTTATA
* *
82428 TTTTATGTTAAAATTTATTTTTATATTAAT
1 TTTTATATTAAAATTTATTTATATATTAAT
*
82458 TTTTATATTAATATTTATGTTATAT-TTAAT
1 TTTTATATTAAAATTTAT-TTATATATTAAT
82488 GATATATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (30 bp):
TTTTATATTAAAATTTATTTATATATTAAT
Found at i:83542 original size:20 final size:20
Alignment explanation
Indices: 83513--83624 Score: 69
Period size: 20 Copynumber: 6.0 Consensus size: 20
83503 AATAACAGAA
* * *
83513 TAAAATTGATTCTATCTAAT
1 TAAAACTGATCCTATATAAT
83533 TAAAACTGATCCTATATAA-
1 TAAAACTGATCCTATATAAT
* **
83552 T--AACT-AACAGA-ATAA-
1 TAAAACTGATCCTATATAAT
* *
83567 -AA-ACTGATTCTATCTAAT
1 TAAAACTGATCCTATATAAT
* *
83585 TAAAACTGATCATATCTAAT
1 TAAAACTGATCCTATATAAT
*
83605 TAAAACTGATCCTATCTAAT
1 TAAAACTGATCCTATATAAT
83625 AACTAACAGA
Statistics
Matches: 71, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
15 7 0.10
16 5 0.07
17 7 0.10
19 3 0.04
20 49 0.69
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (20 bp):
TAAAACTGATCCTATATAAT
Found at i:83583 original size:52 final size:51
Alignment explanation
Indices: 83505--83604 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 51
83495 ATAAAATTAA
* *
83505 TAACAGAATAAAATTGATTCTATCTAATTAAAACTGATCCTATATAATAAC
1 TAACAGAATAAAACTGATTCTATCTAATTAAAACTGATCATATATAATAAC
*
83556 TAACAGAATAAAAACTGATTCTATCTAATTAAAACTGATCATATCTAAT
1 TAACAGAAT-AAAACTGATTCTATCTAATTAAAACTGATCATATATAAT
83605 TAAAACTGAT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
51 9 0.20
52 36 0.80
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (51 bp):
TAACAGAATAAAACTGATTCTATCTAATTAAAACTGATCATATATAATAAC
Found at i:88244 original size:20 final size:20
Alignment explanation
Indices: 88219--88278 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
88209 AGCAACAAAA
*
88219 TAAAACTGATTCTATCTAAT
1 TAAAACTGATCCTATCTAAT
88239 TAAAACTGATCCTATCTAAT
1 TAAAACTGATCCTATCTAAT
*
88259 TAAAACCGATCCTATCTAAT
1 TAAAACTGATCCTATCTAAT
88279 AACTAAAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.40, C:0.20, G:0.05, T:0.35
Consensus pattern (20 bp):
TAAAACTGATCCTATCTAAT
Found at i:91421 original size:23 final size:23
Alignment explanation
Indices: 91373--91417 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
91363 TATTTTTAAA
* *
91373 AAATAAAAAATATTTTAAATTAT
1 AAATAAAAAATATATTAAAGTAT
*
91396 AAATAAAAAA-ATATTCAAGTAT
1 AAATAAAAAATATATTAAAGTAT
91418 TAAAAAATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
AAATAAAAAATATATTAAAGTAT
Found at i:91496 original size:17 final size:17
Alignment explanation
Indices: 91415--91496 Score: 57
Period size: 16 Copynumber: 5.1 Consensus size: 17
91405 AATATTCAAG
*
91415 TATTAAAAA-A-TTAAA
1 TATTAAAAATACTAAAA
91430 TA-TAAAAATACTAAAAA
1 TATTAAAAATACT-AAAA
* *
91447 AATT-AAATTACTAAAA
1 TATTAAAAATACTAAAA
* * * *
91463 CATTGAACATAAT-AAA
1 TATTAAAAATACTAAAA
91479 TATTAAAAATACTAAAA
1 TATTAAAAATACTAAAA
91496 T
1 T
91497 TATTTACAAT
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
14 6 0.12
15 3 0.06
16 20 0.40
17 20 0.40
18 1 0.02
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.29
Consensus pattern (17 bp):
TATTAAAAATACTAAAA
Found at i:102686 original size:3 final size:3
Alignment explanation
Indices: 102680--102747 Score: 91
Period size: 3 Copynumber: 22.0 Consensus size: 3
102670 ATTATTTTTT
* *
102680 TAA TAA TAA TAA TATA TATA TAA TAA TTA TAA TAA TAA TAA TTA TAA
1 TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
102727 TAA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
102748 AATGGGTAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
3 51 0.88
4 7 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:103104 original size:124 final size:120
Alignment explanation
Indices: 102898--103177 Score: 363
Period size: 124 Copynumber: 2.3 Consensus size: 120
102888 CTTCTCTTTT
* * * *
102898 TTCAGATGAGTTCTTCTCATTATGAACTTTTCGCTGG---GGATGATGTTGACATATTTCCTTCT
1 TTCAGATGAGTTCTTCTCATTATGAAC-TTTCTCTGGAAAGGATGATGCTAACATATCTCCTTCT
* * *
102960 GTGATAGAGTCATTCAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTTTCTCC
65 GTGATAGAATCATGCAAAAGGTTGAATAAGCTCTTATCATTATGAA---CTT-TTTCTCC
* *
103020 TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGATGCTAATC-TATCTGCTTCT
1 TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGATGATGCTAA-CATATCTCCTTCT
* * *
103084 GTGATAGAATTATGCAAAAGGTTGAATAAGCTCTTATCATTGTGAACTTTTTCTTC
65 GTGATAGAATCATGCAAAAGGTTGAATAAGCTCTTATCATTATGAACTTTTTCTCC
103140 TTCAGATGAGTTCTTCTCATTATGAAC-TTCTCTGGAAA
1 TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAA
103178 AACTGATCCA
Statistics
Matches: 142, Mismatches: 12, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
119 11 0.08
120 33 0.23
121 11 0.08
122 27 0.19
124 59 0.42
125 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (120 bp):
TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGATGATGCTAACATATCTCCTTCTG
TGATAGAATCATGCAAAAGGTTGAATAAGCTCTTATCATTATGAACTTTTTCTCC
Found at i:103272 original size:85 final size:85
Alignment explanation
Indices: 103183--103345 Score: 308
Period size: 85 Copynumber: 1.9 Consensus size: 85
103173 GGAAAAACTG
103183 ATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
1 ATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
103248 CTTCTTCAGATGAAAAGATA
66 CTTCTTCAGATGAAAAGATA
* *
103268 ATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTC
1 ATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
103333 CTTCTTCAGATGA
66 CTTCTTCAGATGA
103346 TGAGTTTTTC
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 76 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.36
Consensus pattern (85 bp):
ATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
CTTCTTCAGATGAAAAGATA
Found at i:103467 original size:40 final size:40
Alignment explanation
Indices: 103423--103526 Score: 165
Period size: 40 Copynumber: 2.6 Consensus size: 40
103413 GTTGAACAAA
103423 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAG
* *
103463 TTCTTCTCATTATGAAC-TCTACCTTCCTTCTTCAGATGAG
1 TTCTTCTCATTATGAACTTCT-TCTTCCTTCTTCAAATGAG
*
103503 TTCTTCTCATTATGAACTTTTTCT
1 TTCTTCTCATTATGAACTTCTTCT
103527 GGAAAAGCTG
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
39 3 0.05
40 53 0.91
41 2 0.03
ACGTcount: A:0.19, C:0.25, G:0.08, T:0.48
Consensus pattern (40 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAG
Found at i:103584 original size:269 final size:269
Alignment explanation
Indices: 103259--103750 Score: 806
Period size: 269 Copynumber: 1.8 Consensus size: 269
103249 TTCTTCAGAT
* *
103259 GAAAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
1 GAAAAGATAATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* * * * *
103324 TTCTTCTTCCTTCTTCAGATGATGAGTTTTTCTCATTATGAACTCTACA-TGGCAAGGTTAATCC
66 TTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAACTC-AAATTGGAAAAGCTAATCC
103388 ATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTC
130 ATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTC
103453 TTCAAATGAGTTCTTCTCATTATGAACTCTACCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
195 TTCAAATGAGTTCTTCTCATTATGAACTCTACCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
103518 ACTTTTTCTG
260 ACTTTTTCTG
* *
103528 GAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
1 GAAAAGATAATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
103593 TTCTTCTTCCTTCTTCAGGTGATGAGTTCTTCTCATTATGAACTCAAATTGGAAAAGCTAATCCA
66 TTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAACTCAAATTGGAAAAGCTAATCCA
** * * * * *
103658 TCATGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTTTTCTTCCTTCT
131 TCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCT
*
103723 TCAGATGAGTTCTTCTCATTATGAACTC
196 TCAAATGAGTTCTTCTCATTATGAACTC
103751 AAACTGGAAA
Statistics
Matches: 204, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
268 2 0.01
269 202 0.99
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.38
Consensus pattern (269 bp):
GAAAAGATAATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
TTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAACTCAAATTGGAAAAGCTAATCCA
TCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCT
TCAAATGAGTTCTTCTCATTATGAACTCTACCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
CTTTTTCTG
Found at i:103588 original size:153 final size:155
Alignment explanation
Indices: 103307--103637 Score: 463
Period size: 153 Copynumber: 2.1 Consensus size: 155
103297 GTTGAACAAA
* * *
103307 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGATGAGTTTTTCTCATTATGAACTCTAC
1 TTCTTCTCATTATGAA-CTCTCCTTCCTTCTTCA-ATGATGAGTTCTTCTCATTATGAACTCTAC
* * *
103372 ATGGCAAGGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATG
64 ATGGAAAAGCTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATG
103437 AACTTCTTCTTCCTTCTTCA-AATGAG
129 AACTTCTTCTTCCTTCTTCAGAATGAG
* *
103463 TTCTTCTCATTATGAACTCTACCTTCCTTCTTC-A-GATGAGTTCTTCTCATTATGAACTTTTTC
1 TTCTTCTCATTATGAACTCT-CCTTCCTTCTTCAATGATGAGTTCTTCTCATTATGAAC-TCTAC
* * * *
103526 -TGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATG
64 ATGGAAAAGCTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATG
*
103590 AACTTCTTCTTCCTTCTTCAGGTGATGAG
129 AACTTCTTCTTCCTTCTTCA-G-AATGAG
103619 TTCTTCTCATTATGAACTC
1 TTCTTCTCATTATGAACTC
103638 AAATTGGAAA
Statistics
Matches: 157, Mismatches: 13, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
153 99 0.63
154 4 0.03
155 3 0.02
156 51 0.32
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (155 bp):
TTCTTCTCATTATGAACTCTCCTTCCTTCTTCAATGATGAGTTCTTCTCATTATGAACTCTACAT
GGAAAAGCTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAA
CTTCTTCTTCCTTCTTCAGAATGAG
Found at i:103887 original size:113 final size:113
Alignment explanation
Indices: 103463--103870 Score: 611
Period size: 113 Copynumber: 3.6 Consensus size: 113
103453 TTCAAATGAG
* * ****
103463 TTCTTCTCATTATGAA-CTCTACCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCT
1 TTCTTCTCATTATGAATTTCT-TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAAACT
*
103527 GGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAA
65 GGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
*
103576 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGGTGATGAGTTCTTCTCATTATGAACTCAAA
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA---GATGAGTTCTTCTCATTATGAACTCAAA
* * *
103641 TTGGAAAAGCTAATCCATCATGTGATGGATTTGAGCAAAAGGTTGAACAAA
63 CTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
*
103692 TTCTTCTCATTATGAATTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAAACTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAAACTG
* * * *
103757 GAAAAGTTGATTCATCAAGTGATGGATTTGAGCAAAAGGTTGGATAAA
66 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
* *
103805 TTCTTCTCATTATGAATTTCTTCTTCATTCTTTAGATGAGTTCTTCTCATTATGAACTCAAACTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAAACTG
103870 G
66 G
103871 TAATGTTGAT
Statistics
Matches: 269, Mismatches: 22, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
113 163 0.61
114 3 0.01
116 103 0.38
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (113 bp):
TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAAACTG
GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
Found at i:104826 original size:92 final size:92
Alignment explanation
Indices: 104682--105246 Score: 1051
Period size: 92 Copynumber: 6.1 Consensus size: 92
104672 CTTATTTCTA
* *
104682 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTCTATGGTTCATACCAAACCAGATCAGA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGA
*
104747 TAACTCAAAGAACACTTCTAGAAGATG
66 TAACTCAAAGAACACTTCCAGAAGATG
*
104774 CTATGAGCACATTCATCTTCTAAATTCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGA
104839 TAACTCAAAGAACACTTCCAGAAGATG
66 TAACTCAAAGAACACTTCCAGAAGATG
104866 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGA
*
104931 TAACTCAAAGAACATTTCCAGAAGATG
66 TAACTCAAAGAACACTTCCAGAAGATG
104958 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGA
*
105023 TAACTTAAAGAACACTTCCAGAAGATG
66 TAACTCAAAGAACACTTCCAGAAGATG
105050 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGA
*
105115 TATCTCAAAGAACACTTCCAGAAGATG
66 TAACTCAAAGAACACTTCCAGAAGATG
105142 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGA
105207 TAACTCAAAGAACACTTCCAGAAGATG
66 TAACTCAAAGAACACTTCCAGAAGATG
105234 CTATTG-GCACATT
1 CTA-TGAGCACATT
105247 GCACTTGTTC
Statistics
Matches: 461, Mismatches: 11, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
92 459 1.00
93 2 0.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (92 bp):
CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGA
TAACTCAAAGAACACTTCCAGAAGATG
Found at i:113935 original size:15 final size:15
Alignment explanation
Indices: 113912--113943 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
113902 TGAAATGAAT
113912 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
113927 AATGCATGTATGCAA
1 AATGAATGTATGCAA
113942 AA
1 AA
113944 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:118715 original size:3 final size:3
Alignment explanation
Indices: 118709--118776 Score: 82
Period size: 3 Copynumber: 22.0 Consensus size: 3
118699 ATTATTTTTT
* *
118709 TAA TAA TAA TAA TATA TATA TAA TAA TTA TAA TAA TAA TAA TTA TAA
1 TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
118756 TTA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
118777 AATGGATAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
3 49 0.88
4 7 0.12
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:121674 original size:20 final size:19
Alignment explanation
Indices: 121635--121676 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
121625 TTTCTTCGAT
121635 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
121654 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
121674 ATT
1 ATT
121677 TATAAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:121862 original size:3 final size:3
Alignment explanation
Indices: 121854--121883 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
121844 TTTATGGCTA
*
121854 AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
121884 TAAAAGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:123281 original size:18 final size:18
Alignment explanation
Indices: 123260--123348 Score: 74
Period size: 18 Copynumber: 4.7 Consensus size: 18
123250 TTGGGCCTGT
* *
123260 AATAATATTTATTAATAA
1 AATAATATTAAATAATAA
*
123278 AATAATAATAATAATAATAA
1 AATAAT-ATTA-AATAATAA
*
123298 TAATAATAATAAAT-ATAA
1 -AATAATATTAAATAATAA
123316 TAATAATA-TAAATAATATA
1 -AATAATATTAAATAATA-A
123335 AATAATATTCAAAT
1 AATAATATT-AAAT
123349 GAAAAAAATG
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
17 5 0.08
18 28 0.47
19 7 0.12
20 13 0.22
21 6 0.10
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (18 bp):
AATAATATTAAATAATAA
Found at i:123284 original size:3 final size:3
Alignment explanation
Indices: 123272--123341 Score: 85
Period size: 3 Copynumber: 23.7 Consensus size: 3
123262 TAATATTTAT
123272 TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -ATA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
123316 TAA TAA T-A TAAA TAA T-A TAAA TAA TA
1 TAA TAA TAA T-AA TAA TAA T-AA TAA TA
123342 TTCAAATGAA
Statistics
Matches: 60, Mismatches: 0, Indels: 14
0.81 0.00 0.19
Matches are distributed among these distances:
2 7 0.12
3 48 0.80
4 5 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:124210 original size:114 final size:113
Alignment explanation
Indices: 123736--124683 Score: 1379
Period size: 113 Copynumber: 8.4 Consensus size: 113
123726 CTTCATATGA
* * * * *
123736 ATTATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGACGAATTTAAGCAAAAGGTTGAACAAA
1 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAG
*
123801 TTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTC
66 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * ** * ** * * ** * * * *
123849 ATTATAAACTCTAACTGGCACTGTTGATCCACCGGGTGATGAATTTAAGCAAAAAGTTGAACAAA
1 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAG
*
123914 TTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTC
66 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* ** * ** * ** * * *
123962 ATTATGAACTCTAACTGGCACTGCTGATCCACCGGGTGATGAATTTAAGCAAAAAGTTGAACAAG
1 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAG
* *
124027 TTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTC
66 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
124075 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAG
1 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAG
*
124140 TTCTTCTCATTATGAATTTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
66 TTCTTCTCATTATGAA-TTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
124189 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAG
1 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAG
* *
124254 CTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
66 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
124302 ATTATGAACTTTCTCTGGAAAAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAA
1 ATTATGAACTTTCTCTGG-AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAA
*
124367 GTTCTTCTTATTATGAA-----T-TT-CTTCTTCAGATGAGTTCTTCTC
65 GTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
124409 ATTATAAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAG
1 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAG
* *
124474 CTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
66 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
124522 ATTATGAACTTTCTCTGGAAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAA
1 ATTATGAACTTTCTCTGG-AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAA
* *
124587 GTTCTTCTTATTATGAATTTATTCTTCCTTCTTCAGATGAGTTCTTCTC
65 GTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
124636 ATTATGAACTTTTTCTGGAAAAGTTGATCCATCAAGTGATGGATTTGA
1 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
124684 ATCTTTGCTA
Statistics
Matches: 777, Mismatches: 48, Indels: 20
0.92 0.06 0.02
Matches are distributed among these distances:
106 60 0.08
107 39 0.05
108 2 0.00
109 1 0.00
111 1 0.00
112 2 0.00
113 396 0.51
114 276 0.36
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (113 bp):
ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAG
TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
Found at i:124443 original size:220 final size:222
Alignment explanation
Indices: 123736--124683 Score: 1344
Period size: 220 Copynumber: 4.2 Consensus size: 222
123726 CTTCATATGA
* * * * *
123736 ATTATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGACGAATTTAAGCAAAAGGTTGAACAAA
1 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAG
* * * * * **
123801 TTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATAAACTCTAACTG
66 CTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* ** * * ** * * *
123866 GCACTGTTGATCCACCGGGTGATGAATTTAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAAT
131 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAA-
123931 TTCTTCTTTCTTCTTCAGATGAGTTCTTCTC
195 TTCTTC---CTTCTTCAGATGAGTTCTTCTC
* ** * ** * ** * * *
123962 ATTATGAACTCTAACTGGCACTGCTGATCCACCGGGTGATGAATTTAAGCAAAAAGTTGAACAAG
1 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAG
* *
124027 TTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
66 CTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
124092 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAAT
131 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAA-
124157 TTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
195 ----TTCTTCCTTCTTCAGATGAGTTCTTCTC
124189 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAG
1 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAG
124254 CTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
66 CTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * *
124319 GAAAAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTTATTATGAA
131 G-AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAA
124384 -T-TT-CTTCTTCAGATGAGTTCTTCTC
195 TTCTTCCTTCTTCAGATGAGTTCTTCTC
*
124409 ATTATAAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAG
1 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAG
124474 CTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
66 CTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
124539 GAAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTTATTATGAA
131 G-AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAGTTCTTCTCATTATG-A
124604 TTTATTCTTCCTTCTTCAGATGAGTTCTTCTC
194 ---ATTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
124636 ATTATGAACTTTTTCTGGAAAAGTTGATCCATCAAGTGATGGATTTGA
1 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
124684 ATCTTTGCTA
Statistics
Matches: 660, Mismatches: 50, Indels: 23
0.90 0.07 0.03
Matches are distributed among these distances:
220 213 0.32
221 3 0.00
222 1 0.00
224 1 0.00
225 1 0.00
226 168 0.25
227 206 0.31
228 60 0.09
230 7 0.01
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (222 bp):
ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAG
CTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAAT
TCTTCCTTCTTCAGATGAGTTCTTCTC
Found at i:126237 original size:19 final size:20
Alignment explanation
Indices: 126213--126257 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
126203 ACCCTTTTTT
126213 TTTTTTCTTCTTCTTC-TTC
1 TTTTTTCTTCTTCTTCTTTC
* *
126232 TTTTTTCTTTTTTTTCTTTC
1 TTTTTTCTTCTTCTTCTTTC
126252 TTTTTT
1 TTTTTT
126258 TTCATCCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTTTCTTCTTCTTCTTTC
Found at i:126260 original size:9 final size:9
Alignment explanation
Indices: 126207--126256 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
126197 AACTTGACCC
126207 TTTT-TTTT
1 TTTTCTTTT
*
126215 TTTTCTTCT
1 TTTTCTTTT
*
126224 TCTTCTTCTT
1 TTTTCTT-TT
126234 TTTTCTTTT
1 TTTTCTTTT
126243 TTTTCTTTCT
1 TTTTCTTT-T
126253 TTTT
1 TTTT
126257 TTTCATCCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
8 4 0.11
9 19 0.54
10 12 0.34
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:133520 original size:15 final size:15
Alignment explanation
Indices: 133497--133528 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
133487 TGCAATGAAT
133497 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
133512 AATGCATGTATGCAA
1 AATGAATGTATGCAA
133527 AA
1 AA
133529 GGTATTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:136599 original size:548 final size:547
Alignment explanation
Indices: 135520--136616 Score: 2167
Period size: 548 Copynumber: 2.0 Consensus size: 547
135510 GGAAGATGAC
135520 CATACCATACATACCCAGAGCAAAGAGATCGAATCGTACTTTAGTTGGTCCAAGCAATGCCTTCA
1 CATACCATACATACCCAGAGCAAAGAGATCGAATCGTACTTTAGTTGGTCCAAGCAATGCCTTCA
135585 CTTTCGCCCTTTTGTTTTGTACGGGATACCACCCATTCCTCTCGTACTCCGGCAACTTTTGCTAA
66 CTTTCGCCCTTTTGTTTTGTACGGGATACCACCCATTCCTCTCGTACTCCGGCAACTTTTGCTAA
135650 TTTAACTCGAAAAGGTTGAGTTTTAATTGACCTTGAATAAATTCGATTCTCCAAAGCCCCTTCTA
131 TTTAACTCGAAAAGGTTGAGTTTTAATTGACCTTGAATAAATTCGATTCTCCAAAGCCCCTTCTA
135715 TATGTAGCAAAGTTGTGTACTCTTCAATAGTAGGAACCAGGTCCTCCTTATTGAGAGTGAAGCAA
196 TATGTAGCAAAGTTGTGTACTCTTCAATAGTAGGAACCAGGTCCTCCTTATTGAGAGTGAAGCAA
135780 TTGTACCTGGATTCCAGAATTGAATTAGGGCTCGAAGTAAGTCATCATCAACTTTGACATAGAGC
261 TTGTACCTGGATTCCAGAATTGAATTAGGGCTCGAAGTAAGTCATCATCAACTTTGACATAGAGC
135845 AAATATGGGATGTCTCCGTAAGTCTGATAAAACTTCAACTTTTTGTTTGAGTCCCAACTCTCCCA
326 AAATATGGGATGTCTCCGTAAGTCTGATAAAACTTCAACTTTTTGTTTGAGTCCCAACTCTCCCA
135910 AATGCTTCGCAAATCTTGCATATCATTTCTTTTTAGCGAAACTGGAGCATAACTGGCTAACTCAA
391 AATGCTTCGCAAATCTTGCATATCATTTCTTTTTAGCGAAACTGGAGCATAACTGGCTAACTCAA
*
135975 ATACATAGTCATCCTGCAGACTGTCTCCCCCTTGTCTTTGTAAATCCTCAGCCCACTGTCTTACT
456 ATACATAGTCATCCTGCAGACTGTCTCCCCCTTGTCTTTGTAAATCCTCAACCCACTGTCTTACT
136040 TCTGAGTTTAGAACTATTTGATTTGAA
521 TCTGAGTTTAGAACTATTTGATTTGAA
*
136067 CATACCATACATACCCAGAGCAAAGAGATCGAATCGTACTTTAGTTGGTCCAAGCAATGCCTTCG
1 CATACCATACATACCCAGAGCAAAGAGATCGAATCGTACTTTAGTTGGTCCAAGCAATGCCTTCA
136132 CTTTCGCCCTTTTGTTTTGTACGGGATACCACCCATTCCTCTCGTACTCCGGCAACTTTTGCTAA
66 CTTTCGCCCTTTTGTTTTGTACGGGATACCACCCATTCCTCTCGTACTCCGGCAACTTTTGCTAA
136197 TTTAACTCGAAAAGGTTGAGTTTTAATTGACCTTGAATAAATTCGATTCTCCAAAGCCCCTTCTA
131 TTTAACTCGAAAAGGTTGAGTTTTAATTGACCTTGAATAAATTCGATTCTCCAAAGCCCCTTCTA
136262 TATGTAGCAAAGTTGTGTACTCTTCAATAGTAGGAACCAGGTCCTCCTTATTGAGAGTGAAGCAA
196 TATGTAGCAAAGTTGTGTACTCTTCAATAGTAGGAACCAGGTCCTCCTTATTGAGAGTGAAGCAA
136327 TTGTACCCTGGATTCCAGAATTGAATTAGGGCTCGAAGTAAGTCATCATCAACTTTGACATAGAG
261 TTGTA-CCTGGATTCCAGAATTGAATTAGGGCTCGAAGTAAGTCATCATCAACTTTGACATAGAG
136392 CAAATATGGGATGTCTCCGTAAGTCTGATAAAACTTCAACTTTTTGTTTGAGTCCCAACTCTCCC
325 CAAATATGGGATGTCTCCGTAAGTCTGATAAAACTTCAACTTTTTGTTTGAGTCCCAACTCTCCC
136457 AAATGCTTCGCAAATCTTGCATATCATTTCTTTTTAGCGAAACTGGAGCATAACTGGCTAACTCA
390 AAATGCTTCGCAAATCTTGCATATCATTTCTTTTTAGCGAAACTGGAGCATAACTGGCTAACTCA
136522 AATACATAGTCATCCTGCAGACTGTCTCCCCCTTGTCTTTGTAAATCCTCAACCCACTGTCTTAC
455 AATACATAGTCATCCTGCAGACTGTCTCCCCCTTGTCTTTGTAAATCCTCAACCCACTGTCTTAC
136587 TTCTGAGTTTAGAACTATTTGATTTGAA
520 TTCTGAGTTTAGAACTATTTGATTTGAA
136615 CA
1 CA
136617 CTTTTTATCC
Statistics
Matches: 547, Mismatches: 2, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
547 264 0.48
548 283 0.52
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (547 bp):
CATACCATACATACCCAGAGCAAAGAGATCGAATCGTACTTTAGTTGGTCCAAGCAATGCCTTCA
CTTTCGCCCTTTTGTTTTGTACGGGATACCACCCATTCCTCTCGTACTCCGGCAACTTTTGCTAA
TTTAACTCGAAAAGGTTGAGTTTTAATTGACCTTGAATAAATTCGATTCTCCAAAGCCCCTTCTA
TATGTAGCAAAGTTGTGTACTCTTCAATAGTAGGAACCAGGTCCTCCTTATTGAGAGTGAAGCAA
TTGTACCTGGATTCCAGAATTGAATTAGGGCTCGAAGTAAGTCATCATCAACTTTGACATAGAGC
AAATATGGGATGTCTCCGTAAGTCTGATAAAACTTCAACTTTTTGTTTGAGTCCCAACTCTCCCA
AATGCTTCGCAAATCTTGCATATCATTTCTTTTTAGCGAAACTGGAGCATAACTGGCTAACTCAA
ATACATAGTCATCCTGCAGACTGTCTCCCCCTTGTCTTTGTAAATCCTCAACCCACTGTCTTACT
TCTGAGTTTAGAACTATTTGATTTGAA
Found at i:137308 original size:21 final size:20
Alignment explanation
Indices: 137277--137341 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 20
137267 ATAAATAATG
137277 AAAAT-AAAATACTTGAAAAT
1 AAAATAAAAATA-TTGAAAAT
*
137297 AAAATAAAAATATTAAAAAAT
1 AAAATAAAAATATT-GAAAAT
* *
137318 AATATATAAATATTATGAAAAT
1 AAAATAAAAATA-T-TGAAAAT
137340 AA
1 AA
137342 TAAGTATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
20 7 0.19
21 21 0.57
22 8 0.22
23 1 0.03
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.28
Consensus pattern (20 bp):
AAAATAAAAATATTGAAAAT
Found at i:137988 original size:20 final size:19
Alignment explanation
Indices: 137949--137990 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
137939 TTTCTTCGAT
137949 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
137968 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
137988 ATT
1 ATT
137991 TATAAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:138176 original size:3 final size:3
Alignment explanation
Indices: 138168--138197 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
138158 TTTATGTCTA
*
138168 AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
138198 TAAAAGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:139587 original size:3 final size:3
Alignment explanation
Indices: 139581--139647 Score: 75
Period size: 3 Copynumber: 22.7 Consensus size: 3
139571 TAATATTTAT
* * * *
139581 TAA TAA TAA -AA TAA TAA AAA TAA TTA TTA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
139628 TAA TAA TAA T-A TAAA TAA TA
1 TAA TAA TAA TAA T-AA TAA TA
139648 TTCAAATGAA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
2 4 0.07
3 49 0.89
4 2 0.04
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:141508 original size:17 final size:17
Alignment explanation
Indices: 141485--141532 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
141475 TCCTTCACCT
141485 TACTATTTCTTTTATTA
1 TACTATTTCTTTTATTA
* * *
141502 TATTATTTCTCTTATTG
1 TACTATTTCTTTTATTA
141519 TACTATTTCTTTTA
1 TACTATTTCTTTTA
141533 CTAATTCTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.21, C:0.12, G:0.02, T:0.65
Consensus pattern (17 bp):
TACTATTTCTTTTATTA
Found at i:141853 original size:36 final size:36
Alignment explanation
Indices: 141799--141889 Score: 137
Period size: 36 Copynumber: 2.5 Consensus size: 36
141789 AATTGTATGG
* * *
141799 CACATTTAGTGCCTTGTGATTGCACCATAGGTGCGA
1 CACATTCAATGCCTTGTGATTGCACCATAGGAGCGA
* *
141835 CACATTCAATGCCCTGTGATTGCACCATAGGAGTGA
1 CACATTCAATGCCTTGTGATTGCACCATAGGAGCGA
141871 CACATTCAATGCCTTGTGA
1 CACATTCAATGCCTTGTGA
141890 ATGTATATCT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (36 bp):
CACATTCAATGCCTTGTGATTGCACCATAGGAGCGA
Found at i:147564 original size:24 final size:24
Alignment explanation
Indices: 147522--147572 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
147512 GGTTCGCTGG
* *
147522 AATCTTTTGGAATGTGAAATTTGA
1 AATCTTTTGGAATGGGAAATGTGA
147546 AATCTTTTGGAA-GAGGAAATGTGA
1 AATCTTTTGGAATG-GGAAATGTGA
147570 AAT
1 AAT
147573 TTGACCATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (24 bp):
AATCTTTTGGAATGGGAAATGTGA
Found at i:147686 original size:33 final size:32
Alignment explanation
Indices: 147606--147685 Score: 115
Period size: 32 Copynumber: 2.5 Consensus size: 32
147596 CTTTTGGTAT
*
147606 TCGGGTCGGATTTTTTAAAAAAAAATTCAGGT
1 TCGGGTCGGATTTTTTAAAAAAAAATTCAGGA
* * *
147638 TTGGGTCGGGTTTTTTAAAAAAAAATTCGGGA
1 TCGGGTCGGATTTTTTAAAAAAAAATTCAGGA
*
147670 TCGGGTTGGATTTTTT
1 TCGGGTCGGATTTTTT
147686 TTTTTTAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.28, C:0.07, G:0.26, T:0.39
Consensus pattern (32 bp):
TCGGGTCGGATTTTTTAAAAAAAAATTCAGGA
Found at i:147738 original size:32 final size:33
Alignment explanation
Indices: 147702--147774 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 33
147692 AAAATTCGGG
*
147702 TTCGGGTAAGGTCGG-GTTTTTTAAGTTTGATA
1 TTCGGGTAAGGTCGGAGTTTTTTAAGTGTGATA
** *
147734 TTCGGGTTGGGTCGGATTTTTTTTAAGTGTGATA
1 TTCGGGTAAGGTCGGA-GTTTTTTAAGTGTGATA
147768 TTCGGGT
1 TTCGGGT
147775 CGGGTTTAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 13 0.37
34 22 0.63
ACGTcount: A:0.15, C:0.07, G:0.33, T:0.45
Consensus pattern (33 bp):
TTCGGGTAAGGTCGGAGTTTTTTAAGTGTGATA
Found at i:147790 original size:34 final size:32
Alignment explanation
Indices: 147715--147792 Score: 84
Period size: 34 Copynumber: 2.3 Consensus size: 32
147705 GGGTAAGGTC
* * *
147715 GGGTTTTTTAAGTTTGATATTCGGGTTGGGTC
1 GGGTTTTTTAAGTGTGATATTCGGGTCGGGTA
*
147747 GGATTTTTTTTAAGTGTGATATTCGGGTCGGGTTTA
1 GG--GTTTTTTAAGTGTGATATTCGGGTCGGG--TA
147783 GGGTTTTTTA
1 GGGTTTTTTA
147793 TCACTGTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
32 2 0.05
34 32 0.86
36 3 0.08
ACGTcount: A:0.14, C:0.05, G:0.32, T:0.49
Consensus pattern (32 bp):
GGGTTTTTTAAGTGTGATATTCGGGTCGGGTA
Found at i:152530 original size:21 final size:21
Alignment explanation
Indices: 152501--152547 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
152491 ATTCTGACTA
152501 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
152522 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
152543 TCGCA
1 TCGCA
152548 ATGCAAATAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:152568 original size:20 final size:20
Alignment explanation
Indices: 152543--152668 Score: 209
Period size: 20 Copynumber: 6.3 Consensus size: 20
152533 TTTTCCTAAT
*
152543 TCGCAATGCAAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
152563 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
152583 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
152603 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
152623 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
152643 TCGCAATGCGAAT-CTGTAAA
1 TCGCAATGCGAATAC-GTAAA
152663 TCGCAA
1 TCGCAA
152669 CGAGACTCTG
Statistics
Matches: 100, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
19 1 0.01
20 99 0.99
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:153555 original size:24 final size:24
Alignment explanation
Indices: 153504--153557 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
153494 GTATTCGAAA
*
153504 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
153528 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
153552 TTTGAT
1 TTTGAT
153558 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:154467 original size:20 final size:20
Alignment explanation
Indices: 154444--154530 Score: 95
Period size: 20 Copynumber: 4.4 Consensus size: 20
154434 CTGAAACTTT
154444 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
154464 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
** * **
154484 CTATCGCAACGCGAATTTGA
1 AAATCGCAACACGAAAATGA
** *
154504 CTATCGCAACGCG-AAATGA
1 AAATCGCAACACGAAAATGA
154523 AAATCGCA
1 AAATCGCA
154531 TTGCGATTCT
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
19 10 0.17
20 48 0.83
ACGTcount: A:0.45, C:0.23, G:0.17, T:0.15
Consensus pattern (20 bp):
AAATCGCAACACGAAAATGA
Found at i:154570 original size:20 final size:20
Alignment explanation
Indices: 154545--154591 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
154535 GATTCTCTCG
154545 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
154565 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
154585 TTGCGAT
1 TTGCGAT
154592 TCACTCGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:155187 original size:20 final size:20
Alignment explanation
Indices: 155162--155212 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
155152 GCTATGTAAA
155162 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
155182 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
155202 TCGCATTGCGA
1 TCGCATTGCGA
155213 ATTAGGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:155233 original size:21 final size:21
Alignment explanation
Indices: 155209--155254 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
155199 TATTCGCATT
155209 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
155230 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
155251 GCGA
1 GCGA
155255 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:161446 original size:43 final size:44
Alignment explanation
Indices: 161362--161447 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
161352 GTCGAGGGTT
* *
161362 CTATGTGGTCATTTGGGACAATTATGTGGCACTTCGATGCAAAC
1 CTATATGGTCATTCGGGACAATTATGTGGCACTTCGATGCAAAC
*
161406 CTATATGGTCATTCGGGACAATT-TGTGGCACTTCGGTGCAAA
1 CTATATGGTCATTCGGGACAATTATGTGGCACTTCGATGCAAA
161448 TTATGAGCTG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 18 0.46
44 21 0.54
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (44 bp):
CTATATGGTCATTCGGGACAATTATGTGGCACTTCGATGCAAAC
Found at i:166653 original size:21 final size:21
Alignment explanation
Indices: 166627--166677 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
166617 ATAAAGTGGG
*
166627 AGAAGATGCCTGGGAAAGTGA
1 AGAAGATACCTGGGAAAGTGA
*
166648 AGAAGATACTTGGGAAAGTGA
1 AGAAGATACCTGGGAAAGTGA
166669 AGAAGATAC
1 AGAAGATAC
166678 GAGGAAGCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.43, C:0.08, G:0.33, T:0.16
Consensus pattern (21 bp):
AGAAGATACCTGGGAAAGTGA
Found at i:167554 original size:22 final size:22
Alignment explanation
Indices: 167529--167574 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
167519 AAGAGTAGTA
167529 CGGTATTAGTTGAGTTAGGTAT
1 CGGTATTAGTTGAGTTAGGTAT
167551 CGGTATTAGTTGAGTTAGGTAT
1 CGGTATTAGTTGAGTTAGGTAT
167573 CG
1 CG
167575 ATACCGACTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.07, G:0.33, T:0.39
Consensus pattern (22 bp):
CGGTATTAGTTGAGTTAGGTAT
Found at i:167694 original size:20 final size:19
Alignment explanation
Indices: 167653--167695 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
167643 GTCAAAATGA
* **
167653 TATCGGTACCAAAGGGGGG
1 TATCGATACCAAAGGGAAG
167672 TATCGATACCAAAAGGGAAG
1 TATCGATACC-AAAGGGAAG
167692 TATC
1 TATC
167696 AGTACTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.19
Consensus pattern (19 bp):
TATCGATACCAAAGGGAAG
Found at i:168304 original size:22 final size:23
Alignment explanation
Indices: 168270--168320 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 23
168260 TCGGAACAAT
168270 TATGTGACACTTCGGTGCAAACC
1 TATGTGACACTTCGGTGCAAACC
168293 TATGTG-CACTTCGGTGCAAACC
1 TATGTGACACTTCGGTGCAAACC
*
168315 AATGTG
1 TATGTG
168321 GTCCTACGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (23 bp):
TATGTGACACTTCGGTGCAAACC
Found at i:174010 original size:20 final size:19
Alignment explanation
Indices: 173968--174010 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
173958 ATTTTGAACT
* *
173968 TAAAATATAAAAATCTATA
1 TAAAAAATAAAAATCGATA
173987 TAAAAAATAAAAATCGATA
1 TAAAAAATAAAAATCGATA
174006 CTAAA
1 -TAAA
174011 TCGATACAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.26
Consensus pattern (19 bp):
TAAAAAATAAAAATCGATA
Found at i:178285 original size:39 final size:39
Alignment explanation
Indices: 178204--178287 Score: 98
Period size: 39 Copynumber: 2.2 Consensus size: 39
178194 GACCTTACTA
* * * * *
178204 CTTACCGTAGGCTCCTCAGTTTTGTACTCAGGGTAAGTC
1 CTTACCGTAGGCTCCTCAGCTTTGTACACAAGATAAGAC
*
178243 CTTATCGTAGGCTCCTC-GACTTTGTACACAAGATAAGAC
1 CTTACCGTAGGCTCCTCAG-CTTTGTACACAAGATAAGAC
178282 CTTACC
1 CTTACC
178288 ACCGGTGTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
38 1 0.03
39 36 0.97
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (39 bp):
CTTACCGTAGGCTCCTCAGCTTTGTACACAAGATAAGAC
Found at i:179176 original size:24 final size:22
Alignment explanation
Indices: 179136--179212 Score: 67
Period size: 24 Copynumber: 3.6 Consensus size: 22
179126 ATGCAATTAA
179136 TGCATCGATGCA---TAAGGAG
1 TGCATCGATGCACTGTAAGGAG
179155 TGCATCGATGCACATGTTAAGG-G
1 TGCATCGATGCAC-TG-TAAGGAG
* *
179178 ATGCATCGATACACTGT-A-GAA
1 -TGCATCGATGCACTGTAAGGAG
179199 TGCATCGATGCACT
1 TGCATCGATGCACT
179213 TCAAGGGAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
19 12 0.25
20 14 0.29
21 1 0.02
22 1 0.02
23 3 0.06
24 17 0.35
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (22 bp):
TGCATCGATGCACTGTAAGGAG
Found at i:180072 original size:58 final size:58
Alignment explanation
Indices: 180009--180124 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
179999 GATATATGGG
* *
180009 TTGTATGATGGAAATCTACGTAGTCATATTAGAAAGTTATAGGTACTATATGAATTGA
1 TTGTATGATGGAAATCTACGTAGTCATATTAGAAAATTATAGGTACTATACGAATTGA
180067 TTGTATGATGGAAATCTACGTAGTCATATTAGAAAATTATAGGTACTATACGAATTGA
1 TTGTATGATGGAAATCTACGTAGTCATATTAGAAAATTATAGGTACTATACGAATTGA
180125 ACTAGGTAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (58 bp):
TTGTATGATGGAAATCTACGTAGTCATATTAGAAAATTATAGGTACTATACGAATTGA
Found at i:180359 original size:2 final size:2
Alignment explanation
Indices: 180352--180380 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
180342 AGGAAAAATG
180352 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
180381 AGATGATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:180909 original size:23 final size:23
Alignment explanation
Indices: 180860--180909 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
180850 GGAACTTCAG
* *
180860 TGCATTTCTACGCGGCACTACGG
1 TGCAATTCTACGCGGCACTACGA
* *
180883 TGCAATTCTACGTGGCACTTCGA
1 TGCAATTCTACGCGGCACTACGA
180906 TGCA
1 TGCA
180910 TTTATGCGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.28
Consensus pattern (23 bp):
TGCAATTCTACGCGGCACTACGA
Found at i:188425 original size:39 final size:39
Alignment explanation
Indices: 188371--188570 Score: 199
Period size: 39 Copynumber: 5.1 Consensus size: 39
188361 GACCTTACTA
* *
188371 CTTACCGTAGGCTCCTCGGCTTTGTGCTCATGGTAAGTC
1 CTTACCGCAGGCTCCTCTGCTTTGTGCTCATGGTAAGTC
* * *
188410 CTTACCACAGGCTCCTCAGTTTTGTGCTCATGGTAAGTC
1 CTTACCGCAGGCTCCTCTGCTTTGTGCTCATGGTAAGTC
** * *
188449 CTTATTGTAGGCTCCTCTGCTTTGT--TCATAGGATAAGAC
1 CTTACCGCAGGCTCCTCTGCTTTGTGCTCAT-GG-TAAGTC
* * *
188488 CTTACCGCATGCTCCTCTGCTTTGTGCACA-GGATAAGGC
1 CTTACCGCAGGCTCCTCTGCTTTGTGCTCATGG-TAAGTC
* * * * *
188527 CTTATCGCAGGCTCCTTTGCTTTGTGCACAGGGTAAGCC
1 CTTACCGCAGGCTCCTCTGCTTTGTGCTCATGGTAAGTC
188566 CTTAC
1 CTTAC
188571 TGGGTGTACA
Statistics
Matches: 134, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
37 4 0.03
38 2 0.01
39 124 0.93
40 2 0.01
41 2 0.01
ACGTcount: A:0.17, C:0.28, G:0.23, T:0.33
Consensus pattern (39 bp):
CTTACCGCAGGCTCCTCTGCTTTGTGCTCATGGTAAGTC
Found at i:188871 original size:11 final size:11
Alignment explanation
Indices: 188839--188873 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
188829 TCTATATGCC
188839 TTTGTTATACT
1 TTTGTTATACT
188850 TTTG-TACTACT
1 TTTGTTA-TACT
188861 TTTGTTATACT
1 TTTGTTATACT
188872 TT
1 TT
188874 GGTGATACGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 2 0.09
11 18 0.82
12 2 0.09
ACGTcount: A:0.17, C:0.11, G:0.09, T:0.63
Consensus pattern (11 bp):
TTTGTTATACT
Found at i:188961 original size:2 final size:2
Alignment explanation
Indices: 188954--188993 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
188944 CGGTTTTCTG
188954 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
188994 TATCGAATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:195992 original size:3 final size:3
Alignment explanation
Indices: 195984--196078 Score: 190
Period size: 3 Copynumber: 31.7 Consensus size: 3
195974 ATGTGATTTT
195984 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
196032 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
196079 CTGTTGGGAC
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 92 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:196548 original size:90 final size:89
Alignment explanation
Indices: 196396--196568 Score: 283
Period size: 90 Copynumber: 1.9 Consensus size: 89
196386 ACACACCCTT
196396 TTATAGCCAAGTTAACCTAATCATATTAGGGTTTTATTATTTCAAATTAATAAAATCTATATTTA
1 TTATAGCCAAGTTAACCTAATCATATTAGGGTTTTATTATTTCAAATTAATAAAATCTATATTTA
* *
196461 ATTAATTGGAATTTAATAATCCTA
66 ATTAATTGAAATTAAATAATCCTA
* * * *
196485 TTATATCCAAGTTACCCTAATCATATTGGGGATTTTATTATTTCAAATTAATTAAATCTATATTT
1 TTATAGCCAAGTTAACCTAATCATATTAGGG-TTTTATTATTTCAAATTAATAAAATCTATATTT
196550 AATTAATTGAAATTAAATA
65 AATTAATTGAAATTAAATA
196569 TTCGGGATTA
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 28 0.36
90 49 0.64
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (89 bp):
TTATAGCCAAGTTAACCTAATCATATTAGGGTTTTATTATTTCAAATTAATAAAATCTATATTTA
ATTAATTGAAATTAAATAATCCTA
Found at i:200636 original size:23 final size:23
Alignment explanation
Indices: 200593--200638 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
200583 ATATTCATTT
*
200593 TACATAACTTAGAAAGAAAAAAA
1 TACATAACTTACAAAGAAAAAAA
* *
200616 TACATAAC-TACAAATATAAAAA
1 TACATAACTTACAAAGAAAAAAA
200638 T
1 T
200639 TTTCACTACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.63, C:0.11, G:0.04, T:0.22
Consensus pattern (23 bp):
TACATAACTTACAAAGAAAAAAA
Found at i:200915 original size:41 final size:41
Alignment explanation
Indices: 200793--201053 Score: 207
Period size: 41 Copynumber: 6.4 Consensus size: 41
200783 AGAGTAGTAA
* * *
200793 TTTAGCGGCGTTTTTATACAAACGCCGCAATAG-TTCAT-C
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCATAC
** * * * * *
200832 CATAGTGGCGTTTTT-TCAACAAACGTCACAACAGAGT-AGTAC
1 TTTAGTGGCGTTTTTAT--ACAAACGCCGCTATAGACTCA-TAC
*
200874 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCATAC
* * * * *
200915 TTTAGTGGTG-TTTT-TACAAACGCCGCTATACACTTAAAT
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCATAC
* *
200954 TTTAGTGGCGTTTGTGT-TA-AAACGCCGCTAAAGACTCGTAC
1 TTTAGTGGCGTTT-T-TATACAAACGCCGCTATAGACTCATAC
** * *
200995 TTTAGTGGTATTTATATACAAATGCCGCTATAGA-TGCATAC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACT-CATAC
201036 TTTAGTGGCGTTTTTATA
1 TTTAGTGGCGTTTTTATA
201054 AATTTTAAGT
Statistics
Matches: 172, Mismatches: 37, Indels: 24
0.74 0.16 0.10
Matches are distributed among these distances:
38 1 0.01
39 42 0.24
40 23 0.13
41 88 0.51
42 17 0.10
43 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (41 bp):
TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCATAC
Found at i:200977 original size:80 final size:82
Alignment explanation
Indices: 200874--201053 Score: 235
Period size: 80 Copynumber: 2.2 Consensus size: 82
200864 AGAGTAGTAC
* *
200874 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGTGTTT-T-TACAAACG
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGTGGTATTTATATACAAACG
200937 CCGCTATACACTTAAAT
66 CCGCTATACACTTAAAT
200954 TTTAGTGGCGTTTGTGT-TA-AAACGCCGCTAAAGACTCGTACTTTAGTGGTATTTATATACAAA
1 TTTAGTGGCGTTT-T-TATACAAACGCCGCTAAAGACTCGTACTTTAGTGGTATTTATATACAAA
* * * * *
201017 TGCCGCTATAGA-TGCATAC
64 CGCCGCTATACACT-TAAAT
201036 TTTAGTGGCGTTTTTATA
1 TTTAGTGGCGTTTTTATA
201054 AATTTTAAGT
Statistics
Matches: 87, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
80 47 0.54
81 8 0.09
82 32 0.37
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.37
Consensus pattern (82 bp):
TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGTGGTATTTATATACAAACG
CCGCTATACACTTAAAT
Found at i:201421 original size:73 final size:73
Alignment explanation
Indices: 201298--201443 Score: 240
Period size: 73 Copynumber: 2.0 Consensus size: 73
201288 AGCATATTTC
201298 GCCATCTTCTTTGGCTGATAAATCTCAGATTTGGCAACAGCTGATATCTCTTTTAAGAAGGCAAG
1 GCCATCTTCTTTGGCTGATAAATCTCAGATTTGGCAACAGCTGATATCTCTTTTAAGAAGGCAAG
201363 TTTTGTGG
66 TTTTGTGG
* * * *
201371 GCCATCTTCTTTGGCTGATAAATCTCATATTTGGCAACATG-TGCTCTCTCTTTTAAGCAGGCAA
1 GCCATCTTCTTTGGCTGATAAATCTCAGATTTGGCAACA-GCTGATATCTCTTTTAAGAAGGCAA
201435 GTTTTGTGG
65 GTTTTGTGG
201444 TTCAAATGAG
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
73 67 0.99
74 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (73 bp):
GCCATCTTCTTTGGCTGATAAATCTCAGATTTGGCAACAGCTGATATCTCTTTTAAGAAGGCAAG
TTTTGTGG
Found at i:203927 original size:43 final size:43
Alignment explanation
Indices: 203846--204128 Score: 218
Period size: 43 Copynumber: 6.7 Consensus size: 43
203836 TATCATGAGC
203846 CCTTTTGCGGCGTTTGTAT-CAAAAACGCCGCTATAGATATGA
1 CCTTTTGCGGCGTTTGTATCCAAAAACGCCGCTATAGATATGA
* * * *
203888 CCTTTTGCGACGTGTGTATCCAAGAACGCTGCTATAGATATGA
1 CCTTTTGCGGCGTTTGTATCCAAAAACGCCGCTATAGATATGA
* * *
203931 CTTTTTGCGGCGTTTGTATCCAAAAACGCCGTTATAGATTTGA
1 CCTTTTGCGGCGTTTGTATCCAAAAACGCCGCTATAGATATGA
* * * ** * * * *
203974 ACTTTTACGGCATTT-TCCCCAAAAACACCGTTATAGATCTAA
1 CCTTTTGCGGCGTTTGTATCCAAAAACGCCGCTATAGATATGA
* * * * *** * * *
204016 CCTTTT-AGACATTT-TTTTTGAAAACGCCGTTATAGATCTCAA
1 CCTTTTGCGGCGTTTGTATCCAAAAACGCCGCTATAGATAT-GA
* * * *
204058 CCTTTTGCGGCGTTT-TTTCCAAAAATGCCACTATAGATCTCGA
1 CCTTTTGCGGCGTTTGTATCCAAAAACGCCGCTATAGATAT-GA
* *
204101 CCTTTTGTGGTGTTTG-ATCCAAAAACGC
1 CCTTTTGCGGCGTTTGTATCCAAAAACGC
204129 TACGATAGAT
Statistics
Matches: 194, Mismatches: 43, Indels: 7
0.80 0.18 0.03
Matches are distributed among these distances:
41 25 0.13
42 52 0.27
43 117 0.60
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (43 bp):
CCTTTTGCGGCGTTTGTATCCAAAAACGCCGCTATAGATATGA
Found at i:204009 original size:85 final size:85
Alignment explanation
Indices: 203848--204011 Score: 195
Period size: 85 Copynumber: 1.9 Consensus size: 85
203838 TCATGAGCCC
* * * * *
203848 TTTTGCGGCGTTTGTATCAAAAACGCCGCTATAGATATGACCTTTTGCGACGTGTGTATCCAAGA
1 TTTTGCGGCGTTTGTATCAAAAACGCCGCTATAGATATGAACTTTTACGACATGTGTACCCAAAA
* *
203913 ACGCTGCTATAGATATGACT
66 ACACCGCTATAGATATGACT
* * * * *
203933 TTTTGCGGCGTTTGTATCCAAAAACGCCGTTATAGATTTGAACTTTTACGGCAT-TTTCCCCAAA
1 TTTTGCGGCGTTTGTAT-CAAAAACGCCGCTATAGATATGAACTTTTACGACATGTGTACCCAAA
*
203997 AACACCGTTATAGAT
65 AACACCGCTATAGAT
204012 CTAACCTTTT
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
85 35 0.54
86 30 0.46
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (85 bp):
TTTTGCGGCGTTTGTATCAAAAACGCCGCTATAGATATGAACTTTTACGACATGTGTACCCAAAA
ACACCGCTATAGATATGACT
Found at i:204021 original size:42 final size:43
Alignment explanation
Indices: 203949--204106 Score: 160
Period size: 42 Copynumber: 3.7 Consensus size: 43
203939 GGCGTTTGTA
* * *
203949 TCCAAAAACGCCGTTATAGATTTGAA-CTTTTACGGCATTTTC
1 TCCAAAAACGCCGTTATAGATCTCAACCTTTTACGGCATTTTT
* * *
203991 CCCAAAAACACCGTTATAGATCT-AACCTTTTA-GACATTTTT
1 TCCAAAAACGCCGTTATAGATCTCAACCTTTTACGGCATTTTT
*** * *
204032 TTTGAAAACGCCGTTATAGATCTCAACCTTTTGCGGCGTTTTT
1 TCCAAAAACGCCGTTATAGATCTCAACCTTTTACGGCATTTTT
* ** *
204075 TCCAAAAATGCCACTATAGATCTCGACCTTTT
1 TCCAAAAACGCCGTTATAGATCTCAACCTTTT
204107 GTGGTGTTTG
Statistics
Matches: 93, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
41 27 0.29
42 34 0.37
43 32 0.34
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.35
Consensus pattern (43 bp):
TCCAAAAACGCCGTTATAGATCTCAACCTTTTACGGCATTTTT
Found at i:205065 original size:22 final size:22
Alignment explanation
Indices: 205029--205071 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
205019 TATTTCAAAT
*
205029 AATTTAAAGTTTGTTACGGTGC
1 AATTTAAAGTGTGTTACGGTGC
* *
205051 AATTTATAGTGTGTTGCGGTG
1 AATTTAAAGTGTGTTACGGTG
205072 TTACGTAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.07, G:0.28, T:0.42
Consensus pattern (22 bp):
AATTTAAAGTGTGTTACGGTGC
Found at i:206169 original size:20 final size:19
Alignment explanation
Indices: 206130--206171 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
206120 TTTCCTTGAT
206130 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
206149 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
206169 ATT
1 ATT
206172 TATAAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:206257 original size:120 final size:118
Alignment explanation
Indices: 206039--206259 Score: 266
Period size: 120 Copynumber: 1.9 Consensus size: 118
206029 AATATATATT
* * * * *
206039 AATTTATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAGGACTTCTAGGT
1 AATTAATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACATCCAAGT
* *
206104 GCCTTAAGACAGCTCTTTTCCTTGATATTAAAAAATAAATAAATAATTAAAAC
66 GCCTTAAGACAGCTCATTTCCTTAATATTAAAAAATAAATAAATAATTAAAAC
** *
206157 AATTAATATATAATTTATAAAATATGATATTTATTTATTTAAAAATATTAGAAAATGGACATCCA
1 AATTAATATAT-ATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAA-GGACATCCA
* ** * *
206222 ATTGTTTTAAGACTGC-CATTT-CTTAATATTGAAAAATA
63 AGTGCCTTAAGACAGCTCATTTCCTTAATATTAAAAAATA
206260 TTAAAACAGG
Statistics
Matches: 85, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
118 10 0.12
119 21 0.25
120 36 0.42
121 18 0.21
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (118 bp):
AATTAATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACATCCAAGT
GCCTTAAGACAGCTCATTTCCTTAATATTAAAAAATAAATAAATAATTAAAAC
Found at i:207287 original size:3 final size:3
Alignment explanation
Indices: 207270--207331 Score: 90
Period size: 3 Copynumber: 20.0 Consensus size: 3
207260 TTTGGGCCTG
207270 TAA TAA -AA TTAA TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
207316 TAA TAA TAAA TAA TAA
1 TAA TAA T-AA TAA TAA
207332 AAAACCAAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
2 2 0.04
3 45 0.82
4 8 0.15
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Done.