Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 81 of 121
Found at i:13857357 original size:17 final size:17
Alignment explanation
Indices: 13857332--13857373 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
13857322 CGCTGCTAGA
13857332 AAAAG-AAAGA-AAAAGC
1 AAAAGAAAAGAGAAAA-C
*
13857348 AAAAGAAAAGAGAAAAT
1 AAAAGAAAAGAGAAAAC
13857365 AAAAGAAAA
1 AAAAGAAAA
13857374 TAAATAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 5 0.22
17 14 0.61
18 4 0.17
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (17 bp):
AAAAGAAAAGAGAAAAC
Found at i:13857380 original size:4 final size:4
Alignment explanation
Indices: 13857371--13857397 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
13857361 AAATAAAAGA
13857371 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
13857398 AATAATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:13857898 original size:14 final size:13
Alignment explanation
Indices: 13857864--13857888 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13857854 TTGTTTGATG
13857864 TTAATTTTTTTTA
1 TTAATTTTTTTTA
13857877 TTAATTTTTTTT
1 TTAATTTTTTTT
13857889 TTTAGGTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTAATTTTTTTTA
Found at i:13864219 original size:96 final size:96
Alignment explanation
Indices: 13864071--13864262 Score: 341
Period size: 96 Copynumber: 2.0 Consensus size: 96
13864061 TTTTTGAAGG
13864071 TTGTATGGTAATTTAGATAAAGTAATACATCTAATAAAACGAAAAGGAACAGTAGTTCTTAGTAT
1 TTGTATGGTAATTTAGATAAAGTAATACATCTAATAAAACGAAAAGGAACAGTAGTTCTTAGTAT
13864136 TATTCATTGCTGTTTATAATCTCTAAAGATT
66 TATTCATTGCTGTTTATAATCTCTAAAGATT
* * *
13864167 TTGTATGGTAATTTAGATAAAGTAATACATCTAATGAAAA-TAAAGGGAACAGTAGTTCTTATTA
1 TTGTATGGTAATTTAGATAAAGTAATACATCTAAT-AAAACGAAAAGGAACAGTAGTTCTTAGTA
13864231 TTATTCATTGCTGTTTATAATCTCTAAAGATT
65 TTATTCATTGCTGTTTATAATCTCTAAAGATT
13864263 ATGTCTACTG
Statistics
Matches: 92, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
96 88 0.96
97 4 0.04
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.39
Consensus pattern (96 bp):
TTGTATGGTAATTTAGATAAAGTAATACATCTAATAAAACGAAAAGGAACAGTAGTTCTTAGTAT
TATTCATTGCTGTTTATAATCTCTAAAGATT
Found at i:13864293 original size:17 final size:17
Alignment explanation
Indices: 13864271--13864306 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
13864261 TTATGTCTAC
13864271 TGGTTCTAGCTAAGTTA
1 TGGTTCTAGCTAAGTTA
13864288 TGGTTCTAGCTAAGTTA
1 TGGTTCTAGCTAAGTTA
13864305 TG
1 TG
13864307 TCTTGTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.25, T:0.42
Consensus pattern (17 bp):
TGGTTCTAGCTAAGTTA
Found at i:13873189 original size:16 final size:16
Alignment explanation
Indices: 13873168--13873211 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
13873158 AATTTTAATT
13873168 TAAATATAAAATTTTA
1 TAAATATAAAATTTTA
13873184 TAAATATTAAAA-TTTA
1 TAAATA-TAAAATTTTA
*
13873200 -AAATTTAAAATT
1 TAAATATAAAATT
13873212 ATTAGATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 5 0.20
15 5 0.20
16 10 0.40
17 5 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TAAATATAAAATTTTA
Found at i:13873200 original size:7 final size:7
Alignment explanation
Indices: 13873164--13873211 Score: 53
Period size: 7 Copynumber: 6.6 Consensus size: 7
13873154 TAAAAATTTT
13873164 AATTT-A
1 AATTTAA
*
13873170 AATATAA
1 AATTTAA
13873177 AATTTTATA
1 AA-TTTA-A
13873186 AATATTAA
1 AAT-TTAA
13873194 AATTTAA
1 AATTTAA
13873201 AATTTAA
1 AATTTAA
13873208 AATT
1 AATT
13873212 ATTAGATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
6 4 0.11
7 18 0.50
8 8 0.22
9 6 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTTAA
Found at i:13873206 original size:23 final size:24
Alignment explanation
Indices: 13873169--13873215 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
13873159 ATTTTAATTT
13873169 AAATATAAAATTTTATAAA-TATTA
1 AAATATAAAATTTTA-AAATTATTA
*
13873193 AAATTTAAAA-TTTAAAATTATTA
1 AAATATAAAATTTTAAAATTATTA
13873216 GATATTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 3 0.14
23 9 0.43
24 9 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
AAATATAAAATTTTAAAATTATTA
Found at i:13873221 original size:30 final size:30
Alignment explanation
Indices: 13873164--13873247 Score: 75
Period size: 30 Copynumber: 2.9 Consensus size: 30
13873154 TAAAAATTTT
*
13873164 AATTTAAATATAAAATTTTATAAATATTAA
1 AATTTAAATATAAAATTATATAAATATTAA
* * *
13873194 AATTTAAAATTTAAAATTAT-TAGATATTAT
1 AATTT-AAATATAAAATTATATAAATATTAA
** *
13873224 TTTTTAAA-A-ATAATTATATAAATA
1 AATTTAAATATAAAATTATATAAATA
13873248 AAAAATAAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
27 7 0.16
28 5 0.12
29 3 0.07
30 16 0.37
31 12 0.28
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (30 bp):
AATTTAAATATAAAATTATATAAATATTAA
Found at i:13875412 original size:17 final size:18
Alignment explanation
Indices: 13875387--13875420 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13875377 AGTCTTCAGC
*
13875387 TCTATTCTTTC-TCTTCT
1 TCTAATCTTTCTTCTTCT
13875404 TCTAATCTTTCTTCTTC
1 TCTAATCTTTCTTCTTC
13875421 CACTACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.09, C:0.29, G:0.00, T:0.62
Consensus pattern (18 bp):
TCTAATCTTTCTTCTTCT
Found at i:13876816 original size:14 final size:15
Alignment explanation
Indices: 13876785--13876828 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
13876775 CATGAATAAT
*
13876785 AAATAAATTATAACC
1 AAATAAATTATAAAC
13876800 AAATAAATT-TAAAC
1 AAATAAATTATAAAC
**
13876814 AAACGAATTATAAAC
1 AAATAAATTATAAAC
13876829 GAACACAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.61, C:0.11, G:0.02, T:0.25
Consensus pattern (15 bp):
AAATAAATTATAAAC
Found at i:13878332 original size:5 final size:5
Alignment explanation
Indices: 13878322--13878380 Score: 55
Period size: 5 Copynumber: 10.8 Consensus size: 5
13878312 ATTTTGGGTA
* *
13878322 TTTAT TTTAT TTTAT TATAA TTTATT TATTAT TTTAT TTATAT TTATAT
1 TTTAT TTTAT TTTAT TTTAT TTTA-T T-TTAT TTTAT TT-TAT TT-TAT
13878371 TTTAT ATTTA
1 TTTAT -TTTA
13878381 ATATATTCAT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
5 25 0.54
6 18 0.39
7 3 0.07
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (5 bp):
TTTAT
Found at i:13878356 original size:22 final size:22
Alignment explanation
Indices: 13878320--13878386 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 22
13878310 TCATTTTGGG
13878320 TATTTA-TTTTATTTTATTATA
1 TATTTATTTTTATTTTATTATA
13878341 -ATTTATTTATTATTTTATT-TA
1 TATTTATTT-TTATTTTATTATA
*
13878362 TATTTATATTTTATATTTAATATA
1 TATTTAT-TTTTAT-TTTATTATA
13878386 T
1 T
13878387 TCATGTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
20 5 0.13
21 4 0.10
22 20 0.51
23 7 0.18
24 3 0.08
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (22 bp):
TATTTATTTTTATTTTATTATA
Found at i:13878378 original size:27 final size:27
Alignment explanation
Indices: 13878323--13878377 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
13878313 TTTTGGGTAT
*
13878323 TTATTTTATTTTATTATAATTTATTTA
1 TTATTTTATTTTATTATAATTTATATA
*
13878350 TTATTTTATTTATATTTATATTTTATAT
1 TTATTTTATTT-TA-TTATAATTTATAT
13878378 TTAATATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 11 0.46
28 2 0.08
29 11 0.46
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (27 bp):
TTATTTTATTTTATTATAATTTATATA
Found at i:13878380 original size:13 final size:12
Alignment explanation
Indices: 13878324--13878380 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
13878314 TTTGGGTATT
13878324 TATTT-TATTT-
1 TATTTATATTTA
*
13878334 TA-TTATAATT-
1 TATTTATATTTA
13878344 TATTTATTATTT-
1 TATTTA-TATTTA
13878356 TATTTATATTTA
1 TATTTATATTTA
13878368 TATTTTATATTTA
1 TA-TTTATATTTA
13878381 ATATATTCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
9 2 0.05
10 8 0.20
11 8 0.20
12 12 0.30
13 10 0.25
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TATTTATATTTA
Found at i:13881305 original size:19 final size:19
Alignment explanation
Indices: 13881283--13881342 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
13881273 TATAAACCTT
13881283 AAACCTTAAACCTTA-GATC
1 AAACCTTAAACCTTACG-TC
** *
13881302 AAACCCCAAACCTAACGTC
1 AAACCTTAAACCTTACGTC
* *
13881321 AAACCTTGAACCTTAAGTC
1 AAACCTTAAACCTTACGTC
13881340 AAA
1 AAA
13881343 TCCCAAACCC
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
19 31 0.97
20 1 0.03
ACGTcount: A:0.43, C:0.30, G:0.07, T:0.20
Consensus pattern (19 bp):
AAACCTTAAACCTTACGTC
Found at i:13881325 original size:38 final size:38
Alignment explanation
Indices: 13881283--13881361 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 38
13881273 TATAAACCTT
13881283 AAACCTTAAACCTT-AGATCAAACCCCAAA-CCTAACGTC
1 AAACCTTAAACCTTAAG-TCAAACCCCAAACCCTAA-GTC
* *
13881321 AAACCTTGAACCTTAAGTCAAATCCCAAACCCTAAGTC
1 AAACCTTAAACCTTAAGTCAAACCCCAAACCCTAAGTC
13881359 AAA
1 AAA
13881362 TCAAAATAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
38 30 0.81
39 7 0.19
ACGTcount: A:0.43, C:0.32, G:0.06, T:0.19
Consensus pattern (38 bp):
AAACCTTAAACCTTAAGTCAAACCCCAAACCCTAAGTC
Found at i:13881351 original size:19 final size:19
Alignment explanation
Indices: 13881290--13881363 Score: 64
Period size: 19 Copynumber: 3.9 Consensus size: 19
13881280 CTTAAACCTT
*
13881290 AAACCTT-AGATCAAACCCC
1 AAACCTTAAG-TCAAATCCC
*
13881309 AAACC-TAACGTCAAA-CCTT
1 AAACCTTAA-GTCAAATCC-C
*
13881328 GAACCTTAAGTCAAATCCC
1 AAACCTTAAGTCAAATCCC
*
13881347 AAACCCTAAGTCAAATC
1 AAACCTTAAGTCAAATC
13881364 AAAATAGGTC
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
18 3 0.07
19 36 0.80
20 6 0.13
ACGTcount: A:0.42, C:0.32, G:0.07, T:0.19
Consensus pattern (19 bp):
AAACCTTAAGTCAAATCCC
Found at i:13881432 original size:19 final size:19
Alignment explanation
Indices: 13881408--13881444 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13881398 AAACTCTAGG
* *
13881408 TTAAACCCTAAATCAAACT
1 TTAAACACTAAACCAAACT
13881427 TTAAACACTAAACCAAAC
1 TTAAACACTAAACCAAAC
13881445 CCTAACCCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (19 bp):
TTAAACACTAAACCAAACT
Found at i:13881535 original size:18 final size:18
Alignment explanation
Indices: 13881468--13881561 Score: 82
Period size: 19 Copynumber: 5.0 Consensus size: 18
13881458 AAACACCAAA
* *
13881468 CCAAACCCTAAGTTAAACC
1 CCAAA-CCTAGGTCAAACC
*
13881487 TCAAACCTTAGGTCAAACC
1 CCAAACC-TAGGTCAAACC
**
13881506 TTAAACCCTAGGTCAAACC
1 CCAAA-CCTAGGTCAAACC
*
13881525 CTC-ATCCTAGGTCAAACC
1 C-CAAACCTAGGTCAAACC
13881543 CCAAACCTTAGGTCAAACC
1 CCAAACC-TAGGTCAAACC
13881562 TTAAACCTAA
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
17 1 0.02
18 19 0.31
19 40 0.65
20 2 0.03
ACGTcount: A:0.36, C:0.35, G:0.10, T:0.19
Consensus pattern (18 bp):
CCAAACCTAGGTCAAACC
Found at i:13881549 original size:37 final size:39
Alignment explanation
Indices: 13881468--13881569 Score: 113
Period size: 37 Copynumber: 2.7 Consensus size: 39
13881458 AAACACCAAA
* *
13881468 CCAAACCCTAAGTTAAA-CCTCAAACCTTAGGTCAAACC
1 CCAAACCCTAGGTCAAACCCTCAAACCTTAGGTCAAACC
** *
13881506 TTAAACCCTAGGTCAAACCCTC-ATCC-TAGGTCAAACC
1 CCAAACCCTAGGTCAAACCCTCAAACCTTAGGTCAAACC
* *
13881543 CCAAACCTTAGGTCAAA-CCTTAAACCT
1 CCAAACCCTAGGTCAAACCCTCAAACCT
13881570 AAACCAAACC
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
36 3 0.06
37 28 0.55
38 16 0.31
39 4 0.08
ACGTcount: A:0.36, C:0.34, G:0.09, T:0.21
Consensus pattern (39 bp):
CCAAACCCTAGGTCAAACCCTCAAACCTTAGGTCAAACC
Found at i:13881569 original size:19 final size:19
Alignment explanation
Indices: 13881482--13881569 Score: 106
Period size: 19 Copynumber: 4.7 Consensus size: 19
13881472 ACCCTAAGTT
*
13881482 AAACCTCAAACCTTAGGTC
1 AAACCTTAAACCTTAGGTC
*
13881501 AAACCTTAAACCCTAGGTC
1 AAACCTTAAACCTTAGGTC
* * *
13881520 AAACCCTCATCC-TAGGTC
1 AAACCTTAAACCTTAGGTC
**
13881538 AAACCCCAAACCTTAGGTC
1 AAACCTTAAACCTTAGGTC
13881557 AAACCTTAAACCT
1 AAACCTTAAACCT
13881570 AAACCAAACC
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
18 15 0.26
19 43 0.74
ACGTcount: A:0.36, C:0.34, G:0.09, T:0.20
Consensus pattern (19 bp):
AAACCTTAAACCTTAGGTC
Found at i:13881579 original size:18 final size:18
Alignment explanation
Indices: 13881556--13881621 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
13881546 AACCTTAGGT
13881556 CAAACCTTAAACCTAAAC
1 CAAACCTTAAACCTAAAC
*
13881574 CAAACCCTAATA-CTAAAC
1 CAAACCTTAA-ACCTAAAC
***
13881592 CAAATGGTAAACCCTAAAC
1 CAAACCTTAAA-CCTAAAC
13881611 CAAACCCTTAA
1 CAAA-CCTTAA
13881622 GTTTAAATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
17 1 0.03
18 22 0.59
19 11 0.30
20 3 0.08
ACGTcount: A:0.48, C:0.32, G:0.03, T:0.17
Consensus pattern (18 bp):
CAAACCTTAAACCTAAAC
Found at i:13881682 original size:43 final size:42
Alignment explanation
Indices: 13881599--13881697 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 42
13881589 AACCAAATGG
* ** *
13881599 TAAACCCTAAACCAAACCCTTAAGTTTAAATTAAACCAAAAC
1 TAAACCCTAAACCAAACCCTAAAACTAAAATTAAACCAAAAC
13881641 TAAACCCTAAATCCAAACCCTAAAACTAAAACTTAAA-CAAAACC
1 TAAACCCTAAA-CCAAACCCTAAAACTAAAA-TTAAACCAAAA-C
*
13881685 TTGAACCCTAAAC
1 -TAAACCCTAAAC
13881698 TTAAACTAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
42 11 0.23
43 20 0.42
44 7 0.15
45 10 0.21
ACGTcount: A:0.51, C:0.28, G:0.02, T:0.19
Consensus pattern (42 bp):
TAAACCCTAAACCAAACCCTAAAACTAAAATTAAACCAAAAC
Found at i:13881717 original size:26 final size:25
Alignment explanation
Indices: 13881669--13881718 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
13881659 CCTAAAACTA
**
13881669 AAACTTAAACAAAACCTTGAACCCT
1 AAACTTAAACAAAACCTAAAACCCT
13881694 AAACTTAAACTAAAACCTAAAACCC
1 AAACTTAAAC-AAAACCTAAAACCC
13881719 AACCTAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.52, C:0.28, G:0.02, T:0.18
Consensus pattern (25 bp):
AAACTTAAACAAAACCTAAAACCCT
Found at i:13881739 original size:13 final size:12
Alignment explanation
Indices: 13881707--13881740 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
13881697 CTTAAACTAA
13881707 AACCTAAAACCC
1 AACCTAAAACCC
*
13881719 AACCTAAAACCT
1 AACCTAAAACCC
13881731 AACCCTAAAA
1 AA-CCTAAAA
13881741 TTGAAACCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 13 0.65
13 7 0.35
ACGTcount: A:0.53, C:0.35, G:0.00, T:0.12
Consensus pattern (12 bp):
AACCTAAAACCC
Found at i:13882813 original size:13 final size:13
Alignment explanation
Indices: 13882795--13882819 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13882785 AAGAATTGAC
13882795 ATATTCATTCTCG
1 ATATTCATTCTCG
13882808 ATATTCATTCTC
1 ATATTCATTCTC
13882820 AAGTTTGAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.04, T:0.48
Consensus pattern (13 bp):
ATATTCATTCTCG
Found at i:13882870 original size:16 final size:16
Alignment explanation
Indices: 13882845--13882875 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13882835 ATATATATAT
*
13882845 ACACATAGAGAGAGAC
1 ACACAAAGAGAGAGAC
13882861 ACACAAAGAGAGAGA
1 ACACAAAGAGAGAGA
13882876 GACCCTTCAA
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:0.55, C:0.16, G:0.26, T:0.03
Consensus pattern (16 bp):
ACACAAAGAGAGAGAC
Found at i:13882933 original size:13 final size:13
Alignment explanation
Indices: 13882915--13882939 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13882905 AAGAATTGAC
13882915 ATATTCATTCTCG
1 ATATTCATTCTCG
13882928 ATATTCATTCTC
1 ATATTCATTCTC
13882940 AAGTTTGAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.04, T:0.48
Consensus pattern (13 bp):
ATATTCATTCTCG
Found at i:13882982 original size:14 final size:14
Alignment explanation
Indices: 13882963--13883019 Score: 51
Period size: 14 Copynumber: 4.1 Consensus size: 14
13882953 ATATATATAT
13882963 ACACACAGAGAGAG
1 ACACACAGAGAGAG
*
13882977 ACACACAAAGAGAG
1 ACACACAGAGAGAG
* * *
13882991 AGAGAGAGAGAGAG
1 ACACACAGAGAGAG
* * *
13883005 AGAGAGAGAGAGAG
1 ACACACAGAGAGAG
13883019 A
1 A
13883020 GAGAGAGTGG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 38 1.00
ACGTcount: A:0.53, C:0.11, G:0.37, T:0.00
Consensus pattern (14 bp):
ACACACAGAGAGAG
Found at i:13882988 original size:16 final size:16
Alignment explanation
Indices: 13882963--13882993 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13882953 ATATATATAT
*
13882963 ACACACAGAGAGAGAC
1 ACACAAAGAGAGAGAC
13882979 ACACAAAGAGAGAGA
1 ACACAAAGAGAGAGA
13882994 GAGAGAGAGA
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:0.55, C:0.19, G:0.26, T:0.00
Consensus pattern (16 bp):
ACACAAAGAGAGAGAC
Found at i:13882990 original size:2 final size:2
Alignment explanation
Indices: 13882985--13883026 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
13882975 AGACACACAA
13882985 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13883027 TGGTAAGGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13882997 original size:120 final size:120
Alignment explanation
Indices: 13882757--13882995 Score: 455
Period size: 120 Copynumber: 2.0 Consensus size: 120
13882747 TAAAAATACC
13882757 ACCCTTCAAATATATGAAAATACTTAAAAAGAATTGACATATTCATTCTCGATATTCATTCTCAA
1 ACCCTTCAAATATATGAAAATACTTAAAAAGAATTGACATATTCATTCTCGATATTCATTCTCAA
*
13882822 GTTTGAGTAATATATATATATATACACATAGAGAGAGACACACAAAGAGAGAGAG
66 GTTTGAGTAATATATATATATATACACACAGAGAGAGACACACAAAGAGAGAGAG
13882877 ACCCTTCAAATATATGAAAATACTTAAAAAGAATTGACATATTCATTCTCGATATTCATTCTCAA
1 ACCCTTCAAATATATGAAAATACTTAAAAAGAATTGACATATTCATTCTCGATATTCATTCTCAA
13882942 GTTTGAGT-A-ATATATATATATACACACAGAGAGAGACACACAAAGAGAGAGAG
66 GTTTGAGTAATATATATATATATACACACAGAGAGAGACACACAAAGAGAGAGAG
13882995 A
1 A
13882996 GAGAGAGAGA
Statistics
Matches: 118, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
118 44 0.37
119 1 0.01
120 73 0.62
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (120 bp):
ACCCTTCAAATATATGAAAATACTTAAAAAGAATTGACATATTCATTCTCGATATTCATTCTCAA
GTTTGAGTAATATATATATATATACACACAGAGAGAGACACACAAAGAGAGAGAG
Found at i:13887955 original size:28 final size:28
Alignment explanation
Indices: 13887924--13887978 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
13887914 GTCACATCAT
13887924 TTTTATCATTATTAATTTATATAAAAAA
1 TTTTATCATTATTAATTTATATAAAAAA
*
13887952 TTTTATTATTATTAATTTATATAAAAA
1 TTTTATCATTATTAATTTATATAAAAA
13887979 TTAATGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (28 bp):
TTTTATCATTATTAATTTATATAAAAAA
Found at i:13889783 original size:2 final size:2
Alignment explanation
Indices: 13889776--13889808 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
13889766 CTTTGTGACA
13889776 AT AT 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 AT AT A
13889809 ATCAGCCAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13890853 original size:30 final size:30
Alignment explanation
Indices: 13890817--13890873 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
13890807 AATGCAATGC
13890817 AATTCAATAAAATACAATAATCAAATACAA
1 AATTCAATAAAATACAATAATCAAATACAA
*
13890847 AATTCAATAAAATACAATAATTAAATA
1 AATTCAATAAAATACAATAATCAAATA
13890874 ATCACAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (30 bp):
AATTCAATAAAATACAATAATCAAATACAA
Found at i:13890872 original size:13 final size:13
Alignment explanation
Indices: 13890822--13890873 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 13
13890812 AATGCAATTC
13890822 AATAAAATACAAT
1 AATAAAATACAAT
*
13890835 AATCAAATACAAAATT
1 AATAAAATAC--AA-T
13890851 CAATAAAATACAAT
1 -AATAAAATACAAT
*
13890865 AATTAAATA
1 AATAAAATA
13890874 ATCACAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
13 17 0.53
14 1 0.03
15 4 0.12
16 1 0.03
17 9 0.28
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.25
Consensus pattern (13 bp):
AATAAAATACAAT
Found at i:13890873 original size:18 final size:17
Alignment explanation
Indices: 13890839--13890874 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
13890829 TACAATAATC
*
13890839 AAATACAAAATTCAATA
1 AAATACAAAATTAAATA
13890856 AAATACAATAATTAAATA
1 AAATACAA-AATTAAATA
13890874 A
1 A
13890875 TCACAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATACAAAATTAAATA
Found at i:13892156 original size:44 final size:44
Alignment explanation
Indices: 13892108--13892381 Score: 197
Period size: 44 Copynumber: 6.2 Consensus size: 44
13892098 AAGTTTAATG
*
13892108 ACTTTTGAAAAATATAAAAAGTTTC-CGTCAACAGAGGCTCAACA
1 ACTTTTGAAAAATATAAAAAGGTTCAC-TCAACAGAGGCTCAACA
* * * * *
13892152 ACTTTTAAAAAATAT-ATAAGGTTCATCTCATCAAAGGCTCAAAA
1 ACTTTTGAAAAATATAAAAAGGTTCA-CTCAACAGAGGCTCAACA
* * * * *
13892196 ATTTTTGAAAAATAT--AAAGGCTCATCTCAATAAAAGCTCAACA
1 ACTTTTGAAAAATATAAAAAGGTTCA-CTCAACAGAGGCTCAACA
* * * *
13892239 ACTTTTGAAAAATATAAAAA-GTTCATCTTATCAGAGTCTCAATA
1 ACTTTTGAAAAATATAAAAAGGTTCA-CTCAACAGAGGCTCAACA
** *
13892283 ACTTTAAAAAAATATATAAAAGGTTCATCTTAACAGAGGCTTC-A-A
1 ACTTTTGAAAAATATA-AAAAGGTTCA-CTCAACAGAGGC-TCAACA
* * * * *
13892328 ACTTTTGATAAATAT-AAAATGCTCAACTCAATAAAGGCTCAACA
1 ACTTTTGAAAAATATAAAAAGGTTC-ACTCAACAGAGGCTCAACA
13892372 A-TATTTGAAA
1 ACT-TTTGAAA
13892382 TGAGTTAAAA
Statistics
Matches: 183, Mismatches: 36, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
42 2 0.01
43 61 0.33
44 80 0.44
45 21 0.11
46 17 0.09
47 2 0.01
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.29
Consensus pattern (44 bp):
ACTTTTGAAAAATATAAAAAGGTTCACTCAACAGAGGCTCAACA
Found at i:13892341 original size:45 final size:45
Alignment explanation
Indices: 13892059--13892343 Score: 171
Period size: 44 Copynumber: 6.5 Consensus size: 45
13892049 AAATAGAGAT
* * * * *
13892059 TCAACAACTTTT-AAAA-ATAT-AAAAGACTCATCTTATCAGAAGT
1 TCAATAACTTTTGAAAATATATAAAAAG-TTCATCTTAACAGAGGC
* * *
13892102 TTAATGACTTTTGAAAA-ATATAAAAAGTT--TCCGTCAACAGAGGC
1 TCAATAACTTTTGAAAATATATAAAAAGTTCAT-C-TTAACAGAGGC
* * * * * * *
13892146 TCAACAACTTTT-AAAAAATATATAAGGTTCATCTCATCAAAGGC
1 TCAATAACTTTTGAAAATATATAAAAAGTTCATCTTAACAGAGGC
* * * * * * * *
13892190 TCAAAAATTTTTGAAAA-ATAT-AAAGGCTCATCTCAATAAAAGC
1 TCAATAACTTTTGAAAATATATAAAAAGTTCATCTTAACAGAGGC
* * *
13892233 TCAACAACTTTTGAAAA-ATATAAAAAGTTCATCTTATCAGAGTC
1 TCAATAACTTTTGAAAATATATAAAAAGTTCATCTTAACAGAGGC
** *
13892277 TCAATAACTTTAAAAAAATATATAAAAGGTTCATCTTAACAGAGGC
1 TCAATAACTTT-TGAAAATATATAAAAAGTTCATCTTAACAGAGGC
13892323 TTC-A-AACTTTTGATAAATATA
1 -TCAATAACTTTTGA-AAATATA
13892344 AAATGCTCAA
Statistics
Matches: 189, Mismatches: 40, Indels: 24
0.75 0.16 0.09
Matches are distributed among these distances:
42 1 0.01
43 50 0.26
44 83 0.44
45 27 0.14
46 26 0.14
47 2 0.01
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.31
Consensus pattern (45 bp):
TCAATAACTTTTGAAAATATATAAAAAGTTCATCTTAACAGAGGC
Found at i:13892939 original size:21 final size:21
Alignment explanation
Indices: 13892869--13892939 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
13892859 TAAATCTTCT
* * *
13892869 AGATTCGCATTAAAGATTCAA
1 AGATTCACATTTAAGATTTAA
** * *
13892890 AGGCTCACATTTGAAAATCTTAG
1 AGATTCACATTT-AAGAT-TTAA
13892913 AGATTCACATTTAAGATTTAA
1 AGATTCACATTTAAGATTTAA
13892934 AGATTC
1 AGATTC
13892940 TCAATCAAAA
Statistics
Matches: 37, Mismatches: 11, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
21 17 0.46
22 8 0.22
23 12 0.32
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (21 bp):
AGATTCACATTTAAGATTTAA
Found at i:13893315 original size:22 final size:22
Alignment explanation
Indices: 13893266--13893431 Score: 109
Period size: 22 Copynumber: 7.5 Consensus size: 22
13893256 TAAGATTATA
* * *
13893266 CCTAAAAGTTTTACAAATCATA
1 CCTAAAGGTCTTACAAATCATG
13893288 CCTAAAGGTCTTACAAATCATG
1 CCTAAAGGTCTTACAAATCATG
* * *
13893310 CTTAAAGGTCTTGAC-GATTATG
1 CCTAAAGGTCTT-ACAAATCATG
* * * *
13893332 CCTAAAGATTTTAAAAATTATG
1 CCTAAAGGTCTTACAAATCATG
*
13893354 CCTGAAGGTCTTACAAATCATG
1 CCTAAAGGTCTTACAAATCATG
** * ****
13893376 CCCGAAGATCTTGGGGATCATG
1 CCTAAAGGTCTTACAAATCATG
* * *
13893398 CTTAAGGGTGTTACAAATCATG
1 CCTAAAGGTCTTACAAATCATG
* *
13893420 CCCAGAGGTCTT
1 CCTAAAGGTCTT
13893432 GAGGTTATGC
Statistics
Matches: 105, Mismatches: 37, Indels: 4
0.72 0.25 0.03
Matches are distributed among these distances:
21 1 0.01
22 102 0.97
23 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (22 bp):
CCTAAAGGTCTTACAAATCATG
Found at i:13893329 original size:66 final size:66
Alignment explanation
Indices: 13893192--13893377 Score: 194
Period size: 66 Copynumber: 2.8 Consensus size: 66
13893182 AGTTTTTTTT
* * * * *** * * * *
13893192 AGATTATACCTAGAGGTTTTACAAATCATATCTAGAGGTCTTGGGAATTATGCCTATAGGTTTTT
1 AGATTATACCTAAAAGTTTTACAAATCATACCTAAAGGTCTTACAAATCATGCCTAAAGGTCTTG
13893257 A
66 A
*
13893258 AGATTATACCTAAAAGTTTTACAAATCATACCTAAAGGTCTTACAAATCATGCTTAAAGGTCTTG
1 AGATTATACCTAAAAGTTTTACAAATCATACCTAAAGGTCTTACAAATCATGCCTAAAGGTCTTG
13893323 A
66 A
* * * * * *
13893324 CGATTATGCCT-AAAGATTTTAAAAATTATGCCTGAAGGTCTTACAAATCATGCC
1 AGATTATACCTAAAAG-TTTTACAAATCATACCTAAAGGTCTTACAAATCATGCC
13893378 CGAAGATCTT
Statistics
Matches: 100, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
65 4 0.04
66 96 0.96
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
Consensus pattern (66 bp):
AGATTATACCTAAAAGTTTTACAAATCATACCTAAAGGTCTTACAAATCATGCCTAAAGGTCTTG
A
Found at i:13893352 original size:88 final size:88
Alignment explanation
Indices: 13893197--13893374 Score: 207
Period size: 88 Copynumber: 2.0 Consensus size: 88
13893187 TTTTTAGATT
* * * * * * * *
13893197 ATACCTAGAGGTTTTACAAATCATATCTAGAGGTCTTGGGAATTATGCCTATAGGTTTTTAAGAT
1 ATACCTAAAGGTCTTACAAATCATATCTAAAGGTCTTGCGAATTATGCCTAAAGATTTTAAAAAT
*
13893262 TATACCTAAAAGTTTTACAAATC
66 TATACCTAAAAGTCTTACAAATC
*
13893285 ATACCTAAAGGTCTTACAAATCAT-GCTTAAAGGTCTTGACG-ATTATGCCTAAAGATTTTAAAA
1 ATACCTAAAGGTCTTACAAATCATATC-TAAAGGTCTTG-CGAATTATGCCTAAAGATTTTAAAA
* * *
13893348 ATTATGCCTGAAGGTCTTACAAATC
64 ATTATACCTAAAAGTCTTACAAATC
13893373 AT
1 AT
13893375 GCCCGAAGAT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
87 1 0.01
88 73 0.97
89 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Consensus pattern (88 bp):
ATACCTAAAGGTCTTACAAATCATATCTAAAGGTCTTGCGAATTATGCCTAAAGATTTTAAAAAT
TATACCTAAAAGTCTTACAAATC
Found at i:13893421 original size:66 final size:66
Alignment explanation
Indices: 13893276--13893431 Score: 159
Period size: 66 Copynumber: 2.4 Consensus size: 66
13893266 CCTAAAAGTT
* ** * *
13893276 TTACAAATCATACCTAAAGGTCTTACAAATCATGCTTAAAGGTCTTGACGATTATGCCTAAAGAT
1 TTACAAATCATGCCTAAAGGTCTTACAAATCATGCCCAAAGATCTTGACGATCATGCCTAAAGAT
*
13893341 T
66 G
* * * * ** * * *
13893342 TTAAAAATTATGCCTGAAGGTCTTACAAATCATGCCCGAAGATCTTGGGGATCATGCTTAAGGGT
1 TTACAAATCATGCCTAAAGGTCTTACAAATCATGCCCAAAGATCTTGACGATCATGCCTAAAGAT
13893407 G
66 G
* *
13893408 TTACAAATCATGCCCAGAGGTCTT
1 TTACAAATCATGCCTAAAGGTCTT
13893432 GAGGTTATGC
Statistics
Matches: 70, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
66 70 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (66 bp):
TTACAAATCATGCCTAAAGGTCTTACAAATCATGCCCAAAGATCTTGACGATCATGCCTAAAGAT
G
Found at i:13898507 original size:22 final size:22
Alignment explanation
Indices: 13898473--13898515 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
13898463 TCCTATTCAA
13898473 ACAAATAGATAAAACAT-AAAAT
1 ACAAATAGAT-AAACATGAAAAT
13898495 ACAAATTAG-TAAACATGAAAA
1 ACAAA-TAGATAAACATGAAAA
13898516 AATAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 6 0.32
22 10 0.53
23 3 0.16
ACGTcount: A:0.65, C:0.09, G:0.07, T:0.19
Consensus pattern (22 bp):
ACAAATAGATAAACATGAAAAT
Found at i:13899153 original size:13 final size:13
Alignment explanation
Indices: 13899121--13899146 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13899111 CAATATAATT
13899121 CAATCAAATACAA
1 CAATCAAATACAA
13899134 CAATCAAATACAA
1 CAATCAAATACAA
13899147 AATTCAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (13 bp):
CAATCAAATACAA
Found at i:13899153 original size:30 final size:30
Alignment explanation
Indices: 13899117--13899173 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
13899107 AATTCAATAT
*
13899117 AATTCAATCAAATACAACAATCAAATACAA
1 AATTCAATAAAATACAACAATCAAATACAA
*
13899147 AATTCAATAAAATACAATAATCAAATA
1 AATTCAATAAAATACAACAATCAAATA
13899174 ATCACAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.61, C:0.16, G:0.00, T:0.23
Consensus pattern (30 bp):
AATTCAATAAAATACAACAATCAAATACAA
Found at i:13899154 original size:17 final size:17
Alignment explanation
Indices: 13899117--13899163 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
13899107 AATTCAATAT
13899117 AATTCAATCAAATAC--
1 AATTCAATCAAATACAA
13899132 AA--CAATCAAATACAA
1 AATTCAATCAAATACAA
*
13899147 AATTCAATAAAATACAA
1 AATTCAATCAAATACAA
13899164 TAATCAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 11 0.41
15 4 0.15
17 12 0.44
ACGTcount: A:0.62, C:0.17, G:0.00, T:0.21
Consensus pattern (17 bp):
AATTCAATCAAATACAA
Found at i:13899172 original size:13 final size:13
Alignment explanation
Indices: 13899122--13899173 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 13
13899112 AATATAATTC
*
13899122 AATCAAATACAAC
1 AATCAAATACAAT
13899135 AATCAAATACAAAATT
1 AATCAAATAC--AA-T
*
13899151 CAATAAAATACAAT
1 -AATCAAATACAAT
13899165 AATCAAATA
1 AATCAAATA
13899174 ATCACAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
13 18 0.56
14 1 0.03
15 4 0.12
17 9 0.28
ACGTcount: A:0.63, C:0.15, G:0.00, T:0.21
Consensus pattern (13 bp):
AATCAAATACAAT
Found at i:13902941 original size:141 final size:141
Alignment explanation
Indices: 13902701--13903070 Score: 437
Period size: 141 Copynumber: 2.6 Consensus size: 141
13902691 AAAATACCCT
* ** *
13902701 TATTAAAAATTATAATTTATTTTATTAAATTTTTTTTAAAAATAGTTC-TAATAAAATTTATTAA
1 TATT-AAAATTTTAATTTATTTTATT-AATAATATTTAAAAATA-TTCTTAATAAAATTTATTAA
13902765 TTTAAATTATTTTTTATTATTA-AGCTCTTACTGAGACACAATCAAACTAAATGATAAAAGCGAT
63 TTTAAATTA-TTTTTATTATTAGAGCTCTTACTGAGACACAATCAAACTAAATGATAAAAGCGAT
13902829 CAACCAAAATA-TCTC
127 CAACCAAAATACT-TC
* *
13902844 TATTAAAATTTTAATTTATTTTATTAATAATATTTAAAAATATTCTTCATAAAATTTCATAAATT
1 TATTAAAATTTTAATTTATTTTATTAATAATATTTAAAAATATTCTTAATAAAATTT-ATTAATT
* * * * * **
13902909 TAAATTATATTTATTATTAGA-CT-TCTATTGAGACACGATCAAACTAAGTGGTAAAAGTTATCA
65 TAAATTATTTTTATTATTAGAGCTCT-TACTGAGACACAATCAAACTAAATGATAAAAGCGATCA
13902972 ACCAAAATACTTC
129 ACCAAAATACTTC
** * * * *
13902985 TATTAAAAAATTAATTTA-TTTATTAAGAATATTTTAAAATATCCTTAATACAATTTTATTAATT
1 TATTAAAATTTTAATTTATTTTATTAATAATATTTAAAAATATTCTTAATA-AAATTTATTAATT
* *
13903049 TAAATAATTTTTTTTATTAGAG
65 TAAATTATTTTTATTATTAGAG
13903071 TGAGACACAA
Statistics
Matches: 196, Mismatches: 24, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
140 56 0.29
141 101 0.52
142 35 0.18
143 4 0.02
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.44
Consensus pattern (141 bp):
TATTAAAATTTTAATTTATTTTATTAATAATATTTAAAAATATTCTTAATAAAATTTATTAATTT
AAATTATTTTTATTATTAGAGCTCTTACTGAGACACAATCAAACTAAATGATAAAAGCGATCAAC
CAAAATACTTC
Found at i:13904235 original size:3 final size:3
Alignment explanation
Indices: 13904227--13904257 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
13904217 TGCTTGAGAT
13904227 TTC TTC TTC TTC TTC TTC TT- TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
13904258 TTTTAGTGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:13907448 original size:206 final size:203
Alignment explanation
Indices: 13907070--13907449 Score: 498
Period size: 206 Copynumber: 1.8 Consensus size: 203
13907060 AATTTAATCA
* *
13907070 TATTGAAAATTTTCTATAAATATTCCAATACGCTGGTAATATTTTAAAAAATCTTCTCACCTAGA
1 TATTGAAAATTTTCTATAAATACTCCAATACGCTGGTAATATTTAAAAAAATCTTCTCACCTAGA
* * * * *
13907135 GATTTCTTAAAGCATCTCTACTCGAATACTTTTAGAATCTCATCATTGGATTAAATTTTTTTCTT
66 GATTTCGTAAAGCATCACTACTCGAATACCTTTAGAATCTCATCATCGGATAAAATTTTTTTCTT
* * * *
13907200 CCTATTTTATTACTTATATTTTTAATATATTCATCAATTTTTATTTATTATTCTTAAAAAAGAAA
131 CATATTTTATCACTTATATTATTAATAAATT-AT-AATTTTTATTTATTATTCTTAAAAAAGAAA
13907265 ATCTTTACTG
194 ATCTTTACTG
* *
13907275 TATTGAAAAATTTTTTATAAATACTCCAATACGCTGGTAGTATTTAAAAAAATCTTCTCACCTAG
1 TATTG-AAAATTTTCTATAAATACTCCAATACGCTGGTAATATTTAAAAAAATCTTCTCACCTAG
* *
13907340 AGATTTCGT-AGGCATCACTACTCGGAATACCTTTA-AATCTCATCGTCGGATAAAAATTTTCTT
65 AGATTTCGTAAAGCATCACTACTC-GAATACCTTTAGAATCTCATCATCGGAT-AAAATTTT-TT
* *
13907403 TCTTTCATTTTTTATCACTTTAGTATTATTATTAAATT-T-ATTTTTAT
127 TC-TTCATATTTTATCAC-TTA-TATTATTAATAAATTATAATTTTTAT
13907450 ATAATTGTTT
Statistics
Matches: 151, Mismatches: 17, Indels: 13
0.83 0.09 0.07
Matches are distributed among these distances:
205 31 0.21
206 88 0.58
207 4 0.03
208 13 0.09
209 3 0.02
210 12 0.08
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.45
Consensus pattern (203 bp):
TATTGAAAATTTTCTATAAATACTCCAATACGCTGGTAATATTTAAAAAAATCTTCTCACCTAGA
GATTTCGTAAAGCATCACTACTCGAATACCTTTAGAATCTCATCATCGGATAAAATTTTTTTCTT
CATATTTTATCACTTATATTATTAATAAATTATAATTTTTATTTATTATTCTTAAAAAAGAAAAT
CTTTACTG
Found at i:13907677 original size:14 final size:15
Alignment explanation
Indices: 13907658--13907715 Score: 75
Period size: 14 Copynumber: 3.9 Consensus size: 15
13907648 AGTACCGGTT
13907658 CGGTTCGG-TCTGGG
1 CGGTTCGGTTCTGGG
* *
13907672 CGGTTCGGTTCCGGTT
1 CGGTTCGGTTCTGG-G
13907688 CGGTTCGG-TCTGGG
1 CGGTTCGGTTCTGGG
13907702 CGGTTCGGTTCTGG
1 CGGTTCGGTTCTGG
13907716 TCCAGTCAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
14 16 0.43
15 13 0.35
16 8 0.22
ACGTcount: A:0.00, C:0.22, G:0.45, T:0.33
Consensus pattern (15 bp):
CGGTTCGGTTCTGGG
Found at i:13907677 original size:19 final size:19
Alignment explanation
Indices: 13907653--13907717 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 19
13907643 GGTCCAGTAC
13907653 CGGTTCGGTTCGGTCTGGG
1 CGGTTCGGTTCGGTCTGGG
13907672 CGGTTCGG-T---TC----
1 CGGTTCGGTTCGGTCTGGG
13907683 CGGTTCGGTTCGGTCTGGG
1 CGGTTCGGTTCGGTCTGGG
13907702 CGGTTCGGTTCTGGTC
1 CGGTTCGGTTC-GGTC
13907718 CAGTCAGACC
Statistics
Matches: 37, Mismatches: 0, Indels: 17
0.69 0.00 0.31
Matches are distributed among these distances:
11 8 0.22
12 1 0.03
15 4 0.11
18 1 0.03
19 19 0.51
20 4 0.11
ACGTcount: A:0.00, C:0.23, G:0.43, T:0.34
Consensus pattern (19 bp):
CGGTTCGGTTCGGTCTGGG
Found at i:13907706 original size:30 final size:30
Alignment explanation
Indices: 13907623--13907712 Score: 144
Period size: 30 Copynumber: 3.0 Consensus size: 30
13907613 TTTGGTTCGA
* * * *
13907623 CGGTTCGGTTCGGTCTGGACGGTCCAGTAC
1 CGGTTCGGTTCGGTCTGGGCGGTTCGGTTC
13907653 CGGTTCGGTTCGGTCTGGGCGGTTCGGTTC
1 CGGTTCGGTTCGGTCTGGGCGGTTCGGTTC
13907683 CGGTTCGGTTCGGTCTGGGCGGTTCGGTTC
1 CGGTTCGGTTCGGTCTGGGCGGTTCGGTTC
13907713 TGGTCCAGTC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.03, C:0.24, G:0.41, T:0.31
Consensus pattern (30 bp):
CGGTTCGGTTCGGTCTGGGCGGTTCGGTTC
Found at i:13908530 original size:12 final size:11
Alignment explanation
Indices: 13908513--13908562 Score: 55
Period size: 12 Copynumber: 4.4 Consensus size: 11
13908503 TGTAGGGTGA
13908513 CTGGTCGGGAGG
1 CTGGTCGGG-GG
13908525 CTGGTCGGGGG
1 CTGGTCGGGGG
* *
13908536 CTGGTAGGGTAG
1 CTGGTCGGG-GG
*
13908548 TTGGTCGGGGG
1 CTGGTCGGGGG
13908559 CTGG
1 CTGG
13908563 CGACAGCGGC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
11 14 0.45
12 17 0.55
ACGTcount: A:0.06, C:0.14, G:0.58, T:0.22
Consensus pattern (11 bp):
CTGGTCGGGGG
Found at i:13908637 original size:21 final size:22
Alignment explanation
Indices: 13908599--13908646 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
13908589 GACTTCTATC
13908599 TTATTCTGTTTCTTTTGTTTGT
1 TTATTCTGTTTCTTTTGTTTGT
*
13908621 TTATTTTGTTT-TTTTGTTTGT
1 TTATTCTGTTTCTTTTGTTTGT
13908642 TTATT
1 TTATT
13908647 AATAAAATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.06, C:0.04, G:0.12, T:0.77
Consensus pattern (22 bp):
TTATTCTGTTTCTTTTGTTTGT
Found at i:13908782 original size:12 final size:12
Alignment explanation
Indices: 13908765--13908795 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
13908755 AGATCGTGAA
13908765 TTTTTTTATTTT
1 TTTTTTTATTTT
13908777 TTTTTTTATTTT
1 TTTTTTTATTTT
*
13908789 TGTTTTT
1 TTTTTTT
13908796 GGAAAAGCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.00, G:0.03, T:0.90
Consensus pattern (12 bp):
TTTTTTTATTTT
Found at i:13913576 original size:60 final size:57
Alignment explanation
Indices: 13913442--13913843 Score: 497
Period size: 59 Copynumber: 6.7 Consensus size: 57
13913432 TTTTTTGTAG
13913442 GGAAAATTGATACTTTCAACTTTTCCCTAAAAA-TTTTTTTTGGAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATTTTTTTTTGGAAATTT--ATTTCT-AA
** *
13913501 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCCTTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAA--TTTTTTTTTGGAAATTTATTTCTAA
*
13913561 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGGAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTT-CCC-AAAA-ATTTTTTTTTGGAAATTT--ATTTCT-AA
*
13913623 GGAAAATTGATACTTTCAACTTTTCCCTCAAAAACCCTTTTTTTT-GAAATTTATTTTCTAA
1 GGAAAATTGATACTTTCAACTTTT-CC-CAAAAA--TTTTTTTTTGGAAATTTA-TTTCTAA
* *
13913684 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAATTTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAATTTTTTTTTGGAAATTTATTTCTAA
*
13913742 GGAAAATTGATACTTTCAACTTTTTCCCTAAAAATATTTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAAC-TTTTCCC-AAAAATTTTTTTTTGGAAATTTATTTCTAA
13913801 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAAT-TTTTTTTT
13913844 TAGAATTTTT
Statistics
Matches: 310, Mismatches: 13, Indels: 40
0.85 0.04 0.11
Matches are distributed among these distances:
58 51 0.16
59 98 0.32
60 52 0.17
61 41 0.13
62 59 0.19
63 9 0.03
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAATTTTTTTTTGGAAATTTATTTCTAA
Found at i:13913973 original size:27 final size:26
Alignment explanation
Indices: 13913921--13913988 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 26
13913911 AACCTAATCT
13913921 AATAAATAAAAATTAAAATAAACAAAGA
1 AATAAAT-AAAA-TAAAATAAACAAAGA
13913949 AATAAATAAAATAAAA-AAATTCAAAGA
1 AATAAATAAAATAAAATAAA--CAAAGA
13913976 AA-AAA-AAAA-AAAA
1 AATAAATAAAATAAAA
13913989 GCGGCTCGGG
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
24 4 0.11
25 7 0.18
26 8 0.21
27 12 0.32
28 7 0.18
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (26 bp):
AATAAATAAAATAAAATAAACAAAGA
Found at i:13915245 original size:1 final size:1
Alignment explanation
Indices: 13915239--13915343 Score: 129
Period size: 1 Copynumber: 105.0 Consensus size: 1
13915229 CAACTCAACA
** * * * * *
13915239 TTTTTTTTTGGTTTTTTTTTTTTTTTTTGTTTTTTTTGTTTTTTTTGTTTTTTGTTTTTTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
13915304 TTTTTTTTTGTTTTTTTTTTGTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
13915344 ACCAAAGCTC
Statistics
Matches: 88, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 88 1.00
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (1 bp):
T
Found at i:13915565 original size:121 final size:123
Alignment explanation
Indices: 13915350--13915878 Score: 930
Period size: 121 Copynumber: 4.3 Consensus size: 123
13915340 TTTTACCAAA
13915350 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
13915415 GACTTTGG-AAAGTAAATTGCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATT
65 GACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
13915472 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG
13915537 ACTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
66 ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
*
13915594 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG
13915657 AACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
66 -ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
* *
13915715 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
13915780 GACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
65 GACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
13915839 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTG-AAAAGTAAAT
13915879 ACTCCTAGAC
Statistics
Matches: 393, Mismatches: 4, Indels: 19
0.94 0.01 0.05
Matches are distributed among these distances:
120 9 0.02
121 153 0.39
122 137 0.35
123 20 0.05
124 74 0.19
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.23
Consensus pattern (123 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG
ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
Found at i:13915884 original size:40 final size:39
Alignment explanation
Indices: 13915350--13915878 Score: 799
Period size: 41 Copynumber: 13.0 Consensus size: 39
13915340 TTTTACCAAA
13915350 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGAC-TTTGAAAAGTAAATT
* *
13915392 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGG--CAACGACTTTGAAAAGTAAATT
13915433 GCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATT
13915472 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGACTTTGAAAAGTAAATT
*
13915513 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAA-TAAATT
1 GCTCCTCTAAACAGAGG--CAACGACTTT-GAAAAGTAAATT
13915554 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATT
13915594 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGACTTTGAAAAGTAAATT
13915635 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATT
13915675 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATT
*
13915715 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG--CAACGACTTT-GAAAAGTAAATT
13915757 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGACTTT-GAAAAGTAAATT
13915799 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATT
13915839 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCAACG-ACTTTG-AAAAGTAAAT
13915879 ACTCCTAGAC
Statistics
Matches: 460, Mismatches: 8, Indels: 39
0.91 0.02 0.08
Matches are distributed among these distances:
39 51 0.11
40 149 0.32
41 155 0.34
42 103 0.22
43 1 0.00
44 1 0.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.23
Consensus pattern (39 bp):
GCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATT
Found at i:13917140 original size:24 final size:24
Alignment explanation
Indices: 13917108--13917159 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
13917098 TTTTTTTTCA
13917108 TTTTCTCATTTTTTCCTTCTTTTT
1 TTTTCTCATTTTTTCCTTCTTTTT
* *
13917132 TTTTCTCATTTTTTCTTTTTTTTT
1 TTTTCTCATTTTTTCCTTCTTTTT
13917156 TTTT
1 TTTT
13917160 TTTTCTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (24 bp):
TTTTCTCATTTTTTCCTTCTTTTT
Found at i:13917141 original size:32 final size:28
Alignment explanation
Indices: 13917097--13917165 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 28
13917087 AATTTGAATC
13917097 TTTTTTTT-TCATTTTCTCATTTTTTCCTTCT
1 TTTTTTTTCTCATTTTCTC-TTTTTT--TT-T
*
13917128 TTTTTTTTCTCATTTTTTCTTTTTTTTT
1 TTTTTTTTCTCATTTTCTCTTTTTTTTT
13917156 TTTTTTTTCT
1 TTTTTTTTCT
13917166 TTTTTTTCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
28 11 0.31
29 2 0.06
31 14 0.39
32 9 0.25
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.81
Consensus pattern (28 bp):
TTTTTTTTCTCATTTTCTCTTTTTTTTT
Found at i:13917153 original size:10 final size:10
Alignment explanation
Indices: 13917124--13917172 Score: 66
Period size: 10 Copynumber: 5.1 Consensus size: 10
13917114 CATTTTTTCC
13917124 TTCTTTTTTT
1 TTCTTTTTTT
**
13917134 TTCTCATTTT
1 TTCTTTTTTT
13917144 TTC-TTTTTT
1 TTCTTTTTTT
13917153 TT-TTTTTTT
1 TTCTTTTTTT
13917162 TTCTTTTTTT
1 TTCTTTTTTT
13917172 T
1 T
13917173 CATCATCTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 14 0.42
10 19 0.58
ACGTcount: A:0.02, C:0.10, G:0.00, T:0.88
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:13921101 original size:59 final size:58
Alignment explanation
Indices: 13921027--13921436 Score: 540
Period size: 59 Copynumber: 6.9 Consensus size: 58
13921017 TTTTTTGTAG
*
13921027 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTT--ATTTCT-AA
***
13921086 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTG-AAATTTATTTCTAA
* * *
13921145 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGAAATTTTCATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTTTGAAA-TTT-ATTTCTAA
* *
13921207 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT-GAAATTTATTTCTAA
* *
13921266 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTGAAA-TTT-ATTTCTAA
*
13921327 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTGAAATTTATTTCTAA
13921386 GGAAAATTGATACTTTCAACTTTTCTCC-AAAAATATTTTTTTTTGAAATTT
1 GGAAAATTGATACTTTCAACTTTTC-CCTAAAAATA-TTTTTTTTGAAATTT
13921437 TTTATTTTTA
Statistics
Matches: 318, Mismatches: 19, Indels: 28
0.87 0.05 0.08
Matches are distributed among these distances:
58 3 0.01
59 160 0.50
60 40 0.13
61 74 0.23
62 41 0.13
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTAA
Found at i:13921344 original size:120 final size:119
Alignment explanation
Indices: 13921027--13921446 Score: 648
Period size: 120 Copynumber: 3.5 Consensus size: 119
13921017 TTTTTTGTAG
* * * *
13921027 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTGGAAATTTCGATTTTCAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTTTAAGGAA
*** *
13921090 AATTGATACTTTCAACTTTT-CCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAA
66 AATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTG-AAATTTATTTCTGA
* * *
13921145 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGAAATTTTCATTTTTAAGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTTGAAATTTTGATTTTTAAGGA
13921210 AAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCGAAATTTATTTCTGA
65 AAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT-GAAATTTATTTCTGA
13921266 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTTTAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTTTAAGGAA
13921331 AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTGA
66 AATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTGAAATTTATTTCTGA
* *
13921386 GGAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTTTGAAATTTTTTATTTTTA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAA-TTTTGATTTTTA
13921447 TTTAAAGAAA
Statistics
Matches: 279, Mismatches: 16, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
118 33 0.12
120 121 0.43
121 121 0.43
122 4 0.01
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (119 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTTTAAGGAA
AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTGA
Found at i:13921550 original size:28 final size:26
Alignment explanation
Indices: 13921505--13921574 Score: 72
Period size: 28 Copynumber: 2.7 Consensus size: 26
13921495 AACCTAATCT
*
13921505 AATAAATAAAAATTAAAATAAACAAAGA
1 AATAAATAAAAA-AAAAAT-AACAAAGA
**
13921533 AATAAATAAAATAAAAAATTTCAAAGA
1 AATAAATAAAA-AAAAAATAACAAAGA
13921560 AA-AAA-AAAAAAAAAA
1 AATAAATAAAAAAAAAA
13921575 GCGGCTCGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
24 6 0.16
25 4 0.11
26 3 0.08
27 8 0.21
28 16 0.42
29 1 0.03
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.16
Consensus pattern (26 bp):
AATAAATAAAAAAAAAATAACAAAGA
Found at i:13921911 original size:20 final size:20
Alignment explanation
Indices: 13921886--13921923 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
13921876 GAACACCGGT
13921886 GCCGGAATCTGGAAATTTTC
1 GCCGGAATCTGGAAATTTTC
13921906 GCCGGAATCTGGAAATTT
1 GCCGGAATCTGGAAATTT
13921924 CACCGGAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (20 bp):
GCCGGAATCTGGAAATTTTC
Found at i:13921929 original size:19 final size:20
Alignment explanation
Indices: 13921887--13921931 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
13921877 AACACCGGTG
*
13921887 CCGGAATCTGGAAATTTTCG
1 CCGGAATCTGGAAATTTTCA
13921907 CCGGAATCTGGAAA-TTTCA
1 CCGGAATCTGGAAATTTTCA
13921926 CCGGAA
1 CCGGAA
13921932 GTTGGCCGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (20 bp):
CCGGAATCTGGAAATTTTCA
Found at i:13922024 original size:31 final size:31
Alignment explanation
Indices: 13921986--13922054 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
13921976 TGGGCAGGTT
* ** * *
13921986 GCCGGAAACTTCAATGTTGGCCGGAATTTTC
1 GCCGGAAAATTCAAACTTCGCCGGAATATTC
*
13922017 GCCGGAAAATTCAAACTTCGTCGGAATATTC
1 GCCGGAAAATTCAAACTTCGCCGGAATATTC
13922048 GCCGGAA
1 GCCGGAA
13922055 TCTGGAAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (31 bp):
GCCGGAAAATTCAAACTTCGCCGGAATATTC
Found at i:13922547 original size:51 final size:50
Alignment explanation
Indices: 13922492--13922617 Score: 112
Period size: 55 Copynumber: 2.3 Consensus size: 50
13922482 TAAAAATACA
*
13922492 AAAATGAATAAAATAAAAAAGATAAA-AAATATATATATATACATA-AATAAT
1 AAAAT-AATAAAATAAAAAAAATAAATAAATA-A-ATATATACATATAATAAT
*
13922543 AAAATACACATAAATATTAACAAAAAATAAATAAATAAATATATACATATATTAAT
1 AAAAT--A-ATAAA-A-TAA-AAAAAATAAATAAATAAATATATACATATAATAAT
13922599 ACATAATAATAATAATAAA
1 A-A-AATAATAA-AATAAA
13922618 TAATACAATA
Statistics
Matches: 62, Mismatches: 3, Indels: 18
0.75 0.04 0.22
Matches are distributed among these distances:
51 5 0.08
52 1 0.02
53 6 0.10
54 4 0.06
55 19 0.31
56 18 0.29
57 6 0.10
58 3 0.05
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.27
Consensus pattern (50 bp):
AAAATAATAAAATAAAAAAAATAAATAAATAAATATATACATATAATAAT
Found at i:13931892 original size:64 final size:64
Alignment explanation
Indices: 13931791--13931982 Score: 339
Period size: 64 Copynumber: 3.0 Consensus size: 64
13931781 TCTTAGGTAT
13931791 TTTCTACAAGAAGGTAGACGAGGCTGTACCTAAGGTTGGTTTCTTAGGCTTATTACATGCTGGG
1 TTTCTACAAGAAGGTAGACGAGGCTGTACCTAAGGTTGGTTTCTTAGGCTTATTACATGCTGGG
* * *
13931855 TTTCTGCAAGAAGGTAGACGAGGTTGTACCTAAGGTTGGTTTCTTAGGCTTATTACATACTGGG
1 TTTCTACAAGAAGGTAGACGAGGCTGTACCTAAGGTTGGTTTCTTAGGCTTATTACATGCTGGG
* *
13931919 TTTCTACAAGAAGGTAGACGAGGCTGTACCTAAGGTTAGTTTCTTAAGCTTATTACATGCTGGG
1 TTTCTACAAGAAGGTAGACGAGGCTGTACCTAAGGTTGGTTTCTTAGGCTTATTACATGCTGGG
13931983 ATTGGATTGA
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 120 1.00
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.33
Consensus pattern (64 bp):
TTTCTACAAGAAGGTAGACGAGGCTGTACCTAAGGTTGGTTTCTTAGGCTTATTACATGCTGGG
Found at i:13933277 original size:17 final size:18
Alignment explanation
Indices: 13933255--13933288 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13933245 TTTTCTTATT
*
13933255 TATATT-ATTATTTTTAA
1 TATATTAATTAATTTTAA
13933272 TATATTAATTAATTTTA
1 TATATTAATTAATTTTA
13933289 TGTTATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATATTAATTAATTTTAA
Found at i:13934758 original size:18 final size:18
Alignment explanation
Indices: 13934737--13934783 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 18
13934727 TTCATATTAT
13934737 ATATTTTAAAAGTAATAC
1 ATATTTTAAAAGTAATAC
*
13934755 ATA-TTT--CA-TAATAC
1 ATATTTTAAAAGTAATAC
13934769 ATATTTTAAAAGTAA
1 ATATTTTAAAAGTAA
13934784 AAGTACTGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 8
0.70 0.06 0.24
Matches are distributed among these distances:
14 9 0.39
15 4 0.17
17 4 0.17
18 6 0.26
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.40
Consensus pattern (18 bp):
ATATTTTAAAAGTAATAC
Found at i:13934760 original size:32 final size:32
Alignment explanation
Indices: 13934723--13934783 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
13934713 TTAGTTATAT
* *
13934723 ATATTTCATATTATATATTTTAAAAGTAATAC
1 ATATTTCATAATACATATTTTAAAAGTAATAC
13934755 ATATTTCATAATACATATTTTAAAAGTAA
1 ATATTTCATAATACATATTTTAAAAGTAA
13934784 AAGTACTGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (32 bp):
ATATTTCATAATACATATTTTAAAAGTAATAC
Found at i:13935067 original size:29 final size:29
Alignment explanation
Indices: 13935034--13935096 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
13935024 CAAATTTGTC
13935034 ATTTTATCATT-ATTAAATTTTATCATTAT
1 ATTTTA-CATTCATTAAATTTTATCATTAT
* * *
13935063 ATTTTACTTTCATTAAATTTTGTTATTAT
1 ATTTTACATTCATTAAATTTTATCATTAT
13935092 ATTTT
1 ATTTT
13935097 CTATCAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 3 0.10
29 27 0.90
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (29 bp):
ATTTTACATTCATTAAATTTTATCATTAT
Found at i:13936258 original size:29 final size:28
Alignment explanation
Indices: 13936204--13936269 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
13936194 TTTTTTTTAT
* *
13936204 ATAAAATTAATTAAATGAAAATATAGTG
1 ATAAAATTAATGAAATGAAAATATAGTA
13936232 ATAAAATTCAATGAAATTGAAAA-ATAGTA
1 ATAAAATT-AATGAAA-TGAAAATATAGTA
*
13936261 ACAAAATTA
1 ATAAAATTA
13936270 TGGAAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 9 0.27
29 18 0.55
30 6 0.18
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.29
Consensus pattern (28 bp):
ATAAAATTAATGAAATGAAAATATAGTA
Found at i:13936505 original size:3 final size:3
Alignment explanation
Indices: 13936497--13936533 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
13936487 TCACCACTTT
13936497 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
13936534 GTAAATGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:13937590 original size:162 final size:162
Alignment explanation
Indices: 13937323--13937645 Score: 619
Period size: 162 Copynumber: 2.0 Consensus size: 162
13937313 CACTTTATAT
13937323 ACAGGCATGTACACATCAAAGGTGTACATAGTGAACAATTAAATTATGGGATTTCCATTATTATA
1 ACAGGCATGTACACATCAAAGGTGTACATAGTGAACAATTAAATTATGGGATTTCCATTATTATA
*
13937388 AATGTGCATATTTTGGATGAAATTGTAATAGAAAATGTAAGAAGTTGCTTAGCACAAGTAGATGA
66 AATGTGCATATTTTGGATGAAAATGTAATAGAAAATGTAAGAAGTTGCTTAGCACAAGTAGATGA
*
13937453 AATGTTTATTGGAATCAATACGACAATACCCA
131 AATATTTATTGGAATCAATACGACAATACCCA
13937485 ACAGGCATGTACACATCAAAGGTGTACATAGTGAACAATTAAATTATGGGATTTCCATTATTATA
1 ACAGGCATGTACACATCAAAGGTGTACATAGTGAACAATTAAATTATGGGATTTCCATTATTATA
*
13937550 AATGTGCATATTTTGGATGAAAATGTGATAGAAAATGTAAGAAGTTGCTTAGCACAAGTAGATGA
66 AATGTGCATATTTTGGATGAAAATGTAATAGAAAATGTAAGAAGTTGCTTAGCACAAGTAGATGA
13937615 AATATTTATTGGAATCAATACGACAATACCC
131 AATATTTATTGGAATCAATACGACAATACCC
13937646 TTTTTTTTTT
Statistics
Matches: 158, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
162 158 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.30
Consensus pattern (162 bp):
ACAGGCATGTACACATCAAAGGTGTACATAGTGAACAATTAAATTATGGGATTTCCATTATTATA
AATGTGCATATTTTGGATGAAAATGTAATAGAAAATGTAAGAAGTTGCTTAGCACAAGTAGATGA
AATATTTATTGGAATCAATACGACAATACCCA
Found at i:13939108 original size:21 final size:22
Alignment explanation
Indices: 13939074--13939118 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
13939064 TAAAATTTTT
* *
13939074 TTGTTTTATCATTT-TTATTAA
1 TTGTTTTATAATTTATTATAAA
*
13939095 TTGTTTTTTAATTTATTATAAA
1 TTGTTTTATAATTTATTATAAA
13939117 TT
1 TT
13939119 TATCTAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (22 bp):
TTGTTTTATAATTTATTATAAA
Found at i:13940279 original size:35 final size:38
Alignment explanation
Indices: 13940240--13940319 Score: 114
Period size: 36 Copynumber: 2.2 Consensus size: 38
13940230 AAGTTTGCAT
*
13940240 AATTTTTA-AATTTTTT-AAAAATATTTTAG-TTTTTA
1 AATTTTTATAATTTTTTAAAAAATATATTAGTTTTTTA
*
13940275 AA-TTTTATAATTTTTTAAAAAATATATTAGTTTTTTT
1 AATTTTTATAATTTTTTAAAAAATATATTAGTTTTTTA
13940312 AATTTTTA
1 AATTTTTA
13940320 GAATATTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
34 5 0.13
35 10 0.26
36 12 0.31
37 7 0.18
38 5 0.13
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (38 bp):
AATTTTTATAATTTTTTAAAAAATATATTAGTTTTTTA
Found at i:13942568 original size:14 final size:15
Alignment explanation
Indices: 13942540--13942569 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13942530 ATTAAACATT
13942540 AAAA-AAATACAAAA
1 AAAACAAATACAAAA
13942554 AAAACAAATACAAAA
1 AAAACAAATACAAAA
13942569 A
1 A
13942570 TACAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.83, C:0.10, G:0.00, T:0.07
Consensus pattern (15 bp):
AAAACAAATACAAAA
Found at i:13943881 original size:3 final size:3
Alignment explanation
Indices: 13943875--13943941 Score: 66
Period size: 3 Copynumber: 21.7 Consensus size: 3
13943865 AAAATTATTA
*
13943875 AAT AAT AAT AAT AAT AA- AATT AA- AAGTT AAT AAT AAT AACT AAA AAT
1 AAT AAT AAT AAT AAT AAT AA-T AAT AA--T AAT AAT AAT AA-T AAT AAT
*
13943922 AAT AAT ATT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
13943942 AATTTCATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
2 4 0.07
3 43 0.80
4 5 0.09
5 2 0.04
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13943893 original size:25 final size:24
Alignment explanation
Indices: 13943865--13943945 Score: 85
Period size: 25 Copynumber: 3.2 Consensus size: 24
13943855 TAGATGTTGG
13943865 AAAATTATTAAATAATAATAATAAT
1 AAAATTA-TAAATAATAATAATAAT
13943890 AAAATTA-AAAGTTAATAATAATAACT
1 AAAATTATAAA--TAATAATAATAA-T
* *
13943916 AAAAATA-ATAATATTAATAATAAT
1 AAAATTATA-AATAATAATAATAAT
13943940 AAAATT
1 AAAATT
13943946 TCATCAAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
23 3 0.06
24 6 0.12
25 30 0.61
26 8 0.16
27 2 0.04
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (24 bp):
AAAATTATAAATAATAATAATAAT
Found at i:13943907 original size:19 final size:19
Alignment explanation
Indices: 13943881--13943941 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
13943871 ATTAAATAAT
*
13943881 AATAATAATAA-AATTAAA
1 AATAATAATAATAACTAAA
*
13943899 AGTTAATAATAATAACTAAA
1 A-ATAATAATAATAACTAAA
* *
13943919 AATAATAATATTAA-TAAT
1 AATAATAATAATAACTAAA
13943937 AATAA
1 AATAA
13943942 AATTTCATCA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 9 0.25
19 20 0.56
20 7 0.19
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
AATAATAATAATAACTAAA
Found at i:13943927 original size:22 final size:22
Alignment explanation
Indices: 13943873--13943935 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
13943863 GGAAAATTAT
*
13943873 TAAATAATAATAATAATAA-AAT
1 TAAA-AATAATAATAATAATAAC
*
13943895 TAAAAGT--TAATAATAATAAC
1 TAAAAATAATAATAATAATAAC
*
13943915 TAAAAATAATAATATTAATAA
1 TAAAAATAATAATAATAATAA
13943936 TAATAAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 9 0.26
20 8 0.24
21 2 0.06
22 15 0.44
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (22 bp):
TAAAAATAATAATAATAATAAC
Found at i:13943932 original size:28 final size:25
Alignment explanation
Indices: 13943877--13943941 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 25
13943867 AATTATTAAA
* *
13943877 TAATAATAATAATAAAATTAAAAGT
1 TAATAATAATAATAAAAATAAAAAT
13943902 TAATAATAATAACTAAAAATAATAATAT
1 TAATAATAATAA-TAAAAATAA-AA-AT
13943930 TAATAATAATAA
1 TAATAATAATAA
13943942 AATTTCATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
25 12 0.34
26 8 0.23
27 2 0.06
28 13 0.37
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (25 bp):
TAATAATAATAATAAAAATAAAAAT
Found at i:13944108 original size:14 final size:14
Alignment explanation
Indices: 13944089--13944143 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
13944079 TAAATCCTTT
13944089 AAACCCTAAAATCG
1 AAACCCTAAAATCG
**
13944103 AAACCCTAAAAAATTTT
1 AAACCCT--AAAA-TCG
*
13944120 AAATCCTAAAATCG
1 AAACCCTAAAATCG
13944134 AAACCCTAAA
1 AAACCCTAAA
13944144 CACCTAAACC
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
14 17 0.53
15 4 0.12
16 4 0.12
17 7 0.22
ACGTcount: A:0.53, C:0.24, G:0.04, T:0.20
Consensus pattern (14 bp):
AAACCCTAAAATCG
Found at i:13944299 original size:14 final size:14
Alignment explanation
Indices: 13944259--13944306 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
13944249 AACCATAAAC
13944259 CCTAAAATTC-AAAT
1 CCTAAAA-TCAAAAT
13944273 CCTAAAA-CTAAAAT
1 CCTAAAATC-AAAAT
13944287 CCTAAAATCAAAAT
1 CCTAAAATCAAAAT
*
13944301 CTTAAA
1 CCTAAA
13944307 TCCTCTAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 1 0.03
14 28 0.93
15 1 0.03
ACGTcount: A:0.54, C:0.21, G:0.00, T:0.25
Consensus pattern (14 bp):
CCTAAAATCAAAAT
Found at i:13947265 original size:18 final size:18
Alignment explanation
Indices: 13947242--13947279 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
13947232 TGGTTAGAAG
13947242 GATGCTCTA-TGGTGGTTT
1 GATGCT-TAGTGGTGGTTT
*
13947260 GATGCTTAGTGGTTGTTT
1 GATGCTTAGTGGTGGTTT
13947278 GA
1 GA
13947280 GTTTGTGGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.13, C:0.08, G:0.34, T:0.45
Consensus pattern (18 bp):
GATGCTTAGTGGTGGTTT
Found at i:13948749 original size:41 final size:41
Alignment explanation
Indices: 13948704--13948996 Score: 202
Period size: 41 Copynumber: 7.2 Consensus size: 41
13948694 AATGTATTGA
* * *
13948704 GAAATCATTCAAAAATCTAAAATTTTGCCCAAAGGTCTTTG
1 GAAATCATTTAAAAATCTAAAATTTTACCTAAAGGTCTTTG
* * * ** * *
13948745 GAAATCATTTAGAAATCCAAGATTCCACCCAAAGATCTTTG
1 GAAATCATTTAAAAATCTAAAATTTTACCTAAAGGTCTTTG
* * * *
13948786 GAAATCAATTT-AAAATTTGAAATTTCACCTGAAGG-CTTTG
1 GAAATC-ATTTAAAAATCTAAAATTTTACCTAAAGGTCTTTG
* * * * * *
13948826 AAAATCTTTTGAAAATTTAAAATTTTGCTCGAAA-GTCTTTG
1 GAAATCATTTAAAAATCTAAAATTTTAC-CTAAAGGTCTTTG
* * * * ** *
13948867 AAAATCATTCAAAAATCTATAATTTTACTTGGAGGTCTTTT
1 GAAATCATTTAAAAATCTAAAATTTTACCTAAAGGTCTTTG
* ** * *
13948908 GCAATCATTTAAAAAT-TAGAGGTTTTACCTAGAGGTCTTGG
1 GAAATCATTTAAAAATCTA-AAATTTTACCTAAAGGTCTTTG
* *
13948949 GAAATCATTTAAAAATCTAAAATTTTGCTCGAAA-GTC-TTG
1 GAAATCATTTAAAAATCTAAAATTTTAC-CTAAAGGTCTTTG
13948989 GAAATCAT
1 GAAATCAT
13948997 GTACTCATTC
Statistics
Matches: 192, Mismatches: 52, Indels: 17
0.74 0.20 0.07
Matches are distributed among these distances:
39 3 0.02
40 38 0.20
41 142 0.74
42 9 0.05
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (41 bp):
GAAATCATTTAAAAATCTAAAATTTTACCTAAAGGTCTTTG
Found at i:13950865 original size:19 final size:19
Alignment explanation
Indices: 13950843--13950903 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
13950833 ACCATTCAAT
13950843 CTTTTTTTTATTATTTTTC
1 CTTTTTTTTATTATTTTTC
*
13950862 CTTTTGTTTATTTATTTATT-
1 CTTTTTTTTA-TTATTT-TTC
*
13950882 -TTTTTTTCTATT-CTTTTC
1 CTTTTTTT-TATTATTTTTC
13950900 CTTT
1 CTTT
13950904 GTAACTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
17 2 0.06
18 2 0.06
19 20 0.59
20 8 0.24
21 2 0.06
ACGTcount: A:0.10, C:0.11, G:0.02, T:0.77
Consensus pattern (19 bp):
CTTTTTTTTATTATTTTTC
Found at i:13952157 original size:17 final size:18
Alignment explanation
Indices: 13952131--13952175 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
13952121 ATAAAACATA
13952131 TTTTTCTTTTTT-TTTC-C
1 TTTTT-TTTTTTCTTTCTC
13952148 -TTTTTTTTTTCTTTCTC
1 TTTTTTTTTTTCTTTCTC
13952165 TTTTTTTTTTT
1 TTTTTTTTTTT
13952176 GTCAAGGCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 6 0.24
16 8 0.32
17 1 0.04
18 10 0.40
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (18 bp):
TTTTTTTTTTTCTTTCTC
Found at i:13952169 original size:18 final size:16
Alignment explanation
Indices: 13952131--13952175 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 16
13952121 ATAAAACATA
13952131 TTTTTCTTTTTTTTTCC
1 TTTTT-TTTTTTTTTCC
*
13952148 TTTTTTTTTTCTTTCTC
1 TTTTTTTTTTTTTTC-C
13952165 TTTTTTTTTTT
1 TTTTTTTTTTT
13952176 GTCAAGGCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 9 0.36
17 16 0.64
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTTTTTTTTTTCC
Found at i:13954980 original size:20 final size:19
Alignment explanation
Indices: 13954939--13954981 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
13954929 ATAATCTCAC
*
13954939 TTTATTTATTATTTTATAT
1 TTTATTTATTATATTATAT
13954958 TTTATATTATTATCATTAT-T
1 TTTAT-TTATTAT-ATTATAT
13954978 TTTA
1 TTTA
13954982 ACCCATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 12 0.57
21 4 0.19
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTATTTATTATATTATAT
Found at i:13955031 original size:4 final size:4
Alignment explanation
Indices: 13955015--13955075 Score: 52
Period size: 4 Copynumber: 15.0 Consensus size: 4
13955005 TCAATCATGC
* * **
13955015 ATAA ATTA ATAA ATAA ATAA A-AGC ATAA ATAA CCAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATA-A ATAA ATAA ATAA ATAA ATAA ATAA
*
13955063 ATACA AAAA ATAA
1 ATA-A ATAA ATAA
13955076 GCACTCAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
3 1 0.02
4 39 0.89
5 4 0.09
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.21
Consensus pattern (4 bp):
ATAA
Found at i:13956617 original size:141 final size:134
Alignment explanation
Indices: 13956459--13956733 Score: 415
Period size: 141 Copynumber: 2.0 Consensus size: 134
13956449 CTGAATAAGT
* *
13956459 TTAAATTGGACATACAGATACAATTCAAATCCATTTTGATCAATTCGGACAAAATAAAATTTTTA
1 TTAAATTAGACATACAGATACAATTCAAATCCATTTTGATCAATTCAGACAAAATAAAATTTTTA
* * *
13956524 TAGTTACTTTTCTTTTCACATTACTAAGAATCAAGAATATGACAAAGATTTAAAGACAACAATTT
66 CAG-----TTGCTTTTCA-A-TACTAAGAATCAAGAATATGACAAAGATTAAAAGACAACAATTT
* *
13956589 TTTTCGGACAA
124 TGTTCAGACAA
13956600 TTAAATTAGACATACAGATACAATTCAAATCCATTTTGATCAATTCAGACAAAATAAAATTTTTA
1 TTAAATTAGACATACAGATACAATTCAAATCCATTTTGATCAATTCAGACAAAATAAAATTTTTA
*
13956665 CAGTTGCTTTTCAATACTAAGAATCAAGAATATGGCAAAGATTAAAAGACAACAATTTTGTTCAG
66 CAGTTGCTTTTCAATACTAAGAATCAAGAATATGACAAAGATTAAAAGACAACAATTTTGTTCAG
13956730 ACAA
131 ACAA
13956734 GCATATGCTG
Statistics
Matches: 126, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
134 51 0.40
135 1 0.01
136 9 0.07
141 65 0.52
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (134 bp):
TTAAATTAGACATACAGATACAATTCAAATCCATTTTGATCAATTCAGACAAAATAAAATTTTTA
CAGTTGCTTTTCAATACTAAGAATCAAGAATATGACAAAGATTAAAAGACAACAATTTTGTTCAG
ACAA
Found at i:13957213 original size:41 final size:41
Alignment explanation
Indices: 13957168--13957277 Score: 130
Period size: 42 Copynumber: 2.6 Consensus size: 41
13957158 AAAATGTCTT
*
13957168 GGATATCACCACCAAAAAATGAAATTCAACCTTTAACACTC
1 GGATATCACCACGAAAAAATGAAATTCAACCTTTAACACTC
* * * **
13957209 GGATATCACCACTGAGAAAATGCAATTCCAGTTTTAACACTC
1 GGATATCACCAC-GAAAAAATGAAATTCAACCTTTAACACTC
* *
13957251 GAATATCACCATCGAAAAGATGAAATT
1 GGATATCACCA-CGAAAAAATGAAATT
13957278 TAGACTTTTA
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
41 12 0.21
42 44 0.77
43 1 0.02
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.24
Consensus pattern (41 bp):
GGATATCACCACGAAAAAATGAAATTCAACCTTTAACACTC
Found at i:13957383 original size:78 final size:77
Alignment explanation
Indices: 13957254--13957399 Score: 186
Period size: 78 Copynumber: 1.9 Consensus size: 77
13957244 AACACTCGAA
* * * * * * *
13957254 TATCACCATCGAAAAGATGAAATTTAGACTTTTAATACTCATATATGACCATCGAGTGATTTTGA
1 TATCACCATCGAAAAAATGAAATCTACACTTTTAATACTCAGATATCACCATCGAAT-ACTTTGA
13957319 AAACGAGTTCAGG
65 AAACGAGTTCAGG
**
13957332 TATCACCATCGAAGAAAATGAAATCTACA-TTTTAATACTTGGATATCACCATCGAATACTTTGA
1 TATCACCATCGAA-AAAATGAAATCTACACTTTTAATACTCAGATATCACCATCGAATACTTTGA
13957396 AAAC
65 AAAC
13957400 AATTTATTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
77 10 0.17
78 36 0.62
79 12 0.21
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (77 bp):
TATCACCATCGAAAAAATGAAATCTACACTTTTAATACTCAGATATCACCATCGAATACTTTGAA
AACGAGTTCAGG
Found at i:13959447 original size:300 final size:300
Alignment explanation
Indices: 13958904--13959500 Score: 846
Period size: 300 Copynumber: 2.0 Consensus size: 300
13958894 TTGCACTACT
13958904 TTAATAAGCCAAAAAGGTTTATCTAACAATGAAAATTATGTTGAAAAAAATTTTAGGCCCTAATT
1 TTAATAAGCCAAAAAGGTTTATCTAACAATGAAAATTATGTTGAAAAAAATTTTAGGCCCTAATT
*
13958969 GCATAGATCATCACCAAATTAGATAATGGCATGAACTAGGTAGTCTTAAGGTAATAAAAAATCAT
66 GCACAGATCATCACCAAATTAGATAATGGCATGAACTAGGTAGTCTTAAGGTAATAAAAAATCAT
* ***
13959034 ACTTTTCTGTCAATATGCCCCTTAAACGTGAAAATGGTGCGTTAGTGTATTTGTGGTTATTTGAA
131 ACTTTTCTGTCAATATACCCCTTAAACGTGAAAATGGTGCGTTAGTGTATTTGTAACTATTTGAA
* *
13959099 TGACTTTATGTTTGAAGCATAGCCTTGACACCTATCAAATCGCCAACATCTAGA-TAAGAAAAAA
196 TGACTTTATGTTTGAAGCATAGCCTTGACACCTATCAAATCACCAACATATAGATTAA-AAAAAA
13959163 AGCATCATATTTATCAAATTTTCAAGAAACTCAAAAGGAAC
260 AGCATCATATTTATCAAATTTTCAAGAAACTCAAAAGGAAC
* * **
13959204 TTAATAAGCCAACAAGGTTTATCTAATAATGAAAATTATGTTGAAAAAGTTTTTAGGTCCC-AAT
1 TTAATAAGCCAAAAAGGTTTATCTAACAATGAAAATTATGTTGAAAAAAATTTTAGG-CCCTAAT
* ** ***
13959268 TGCACAGATCATCACCGAATTAGATAATGGCATGAACTAGGTAGTCTTGGGGTAATAGGGAATCA
65 TGCACAGATCATCACCAAATTAGATAATGGCATGAACTAGGTAGTCTTAAGGTAATAAAAAATCA
* *
13959333 TGA-TCTTT-TGTTAATATACCCC-TAAACGTGAAAAATGGTGCATTTA-TGTATTTGTAACTAT
130 T-ACT-TTTCTGTCAATATACCCCTTAAACGTG-AAAATGGTGC-GTTAGTGTATTTGTAACTAT
* * * *
13959394 TTGAATGACTTTGTGTTTGAAGCATAGCCTTGATACTTATCAAATCACCAACATATAGATTTAAA
191 TTGAATGACTTTATGTTTGAAGCATAGCCTTGACACCTATCAAATCACCAACATATAGATTAAAA
* * * * *
13959459 AAAAAGTATCATATTTGTCTAATTTTTAAGAAACTTAAAAGG
256 AAAAAGCATCATATTTATCAAATTTTCAAGAAACTCAAAAGG
13959501 TTTTTCCAAA
Statistics
Matches: 263, Mismatches: 28, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
299 8 0.03
300 243 0.92
301 12 0.05
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (300 bp):
TTAATAAGCCAAAAAGGTTTATCTAACAATGAAAATTATGTTGAAAAAAATTTTAGGCCCTAATT
GCACAGATCATCACCAAATTAGATAATGGCATGAACTAGGTAGTCTTAAGGTAATAAAAAATCAT
ACTTTTCTGTCAATATACCCCTTAAACGTGAAAATGGTGCGTTAGTGTATTTGTAACTATTTGAA
TGACTTTATGTTTGAAGCATAGCCTTGACACCTATCAAATCACCAACATATAGATTAAAAAAAAA
GCATCATATTTATCAAATTTTCAAGAAACTCAAAAGGAAC
Found at i:13959648 original size:21 final size:21
Alignment explanation
Indices: 13959622--13959661 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13959612 TTATGACCAA
*
13959622 GTAGTAAGGATGGTAAACATT
1 GTAGTAAGGATGATAAACATT
*
13959643 GTAGTAAGGGTGATAAACA
1 GTAGTAAGGATGATAAACA
13959662 GGTTGAGGCT
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:0.40, C:0.05, G:0.30, T:0.25
Consensus pattern (21 bp):
GTAGTAAGGATGATAAACATT
Found at i:13961636 original size:82 final size:82
Alignment explanation
Indices: 13961499--13961666 Score: 221
Period size: 82 Copynumber: 2.0 Consensus size: 82
13961489 TTGCTCACAG
* * * *
13961499 TTGGGAAATAGTATGGGTTTGGGCCAATTCATAGAGCCTAGGCGAAGTTAGAAGGTCCTA-ACTT
1 TTGGGAAATAGTATAGGTTTAGGCCAATTCATAGAGCCTAGGCAAAGTTAGAAGGTCCTATA-TC
* *
13961563 TTCTACTTCTTTTCTTAC
65 TTCTAATTCCTTTCTTAC
* * ** *
13961581 TTGGGAAATAGTATAGGTTTAGGCCAATTTATGGAGTTTGGGCAAAGTTAGAAGGTCCTATATCT
1 TTGGGAAATAGTATAGGTTTAGGCCAATTCATAGAGCCTAGGCAAAGTTAGAAGGTCCTATATCT
13961646 TCTAATTCCTTTCTTAC
66 TCTAATTCCTTTCTTAC
13961663 TTGG
1 TTGG
13961667 TTTTTCTTGA
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
82 73 0.99
83 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (82 bp):
TTGGGAAATAGTATAGGTTTAGGCCAATTCATAGAGCCTAGGCAAAGTTAGAAGGTCCTATATCT
TCTAATTCCTTTCTTAC
Found at i:13966695 original size:14 final size:14
Alignment explanation
Indices: 13966664--13966730 Score: 52
Period size: 14 Copynumber: 4.9 Consensus size: 14
13966654 GGATGGATTT
*
13966664 TTTTATTTC-TTCC
1 TTTTATTTCTTTTC
13966677 TTTTTATTTCTTTTC
1 -TTTTATTTCTTTTC
*
13966692 TTTT-TTTC-ATTC
1 TTTTATTTCTTTTC
*
13966704 TTTTCATTTTTTTTC
1 TTTT-ATTTCTTTTC
*
13966719 TTTCA-TTCTTTT
1 TTTTATTTCTTTT
13966731 TCTACCTACT
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
12 7 0.16
13 10 0.23
14 17 0.40
15 9 0.21
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTATTTCTTTTC
Found at i:13966697 original size:17 final size:17
Alignment explanation
Indices: 13966661--13966716 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
13966651 ATTGGATGGA
13966661 TTTTTTTATTTC--TTC
1 TTTTTTTATTTCTTTTC
*
13966676 -CTTTTTATTTCTTTTC
1 TTTTTTTATTTCTTTTC
13966692 TTTTTTTCA-TTCTTTTC
1 TTTTTTT-ATTTCTTTTC
13966709 ATTTTTTT
1 -TTTTTTT
13966717 TCTTTCATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 10 0.29
16 3 0.09
17 13 0.38
18 8 0.24
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTTATTTCTTTTC
Found at i:13966707 original size:9 final size:9
Alignment explanation
Indices: 13966684--13966730 Score: 50
Period size: 8 Copynumber: 5.8 Consensus size: 9
13966674 TCCTTTTTAT
13966684 TTCTTTTC-
1 TTCTTTTCA
*
13966692 TTTTTTTCA
1 TTCTTTTCA
13966701 TTCTTTTCA
1 TTCTTTTCA
13966710 TT-TTTT--
1 TTCTTTTCA
13966716 TTC-TTTCA
1 TTCTTTTCA
13966724 TTCTTTT
1 TTCTTTT
13966731 TCTACCTACT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
6 5 0.16
8 14 0.44
9 13 0.41
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (9 bp):
TTCTTTTCA
Found at i:13966719 original size:32 final size:31
Alignment explanation
Indices: 13966661--13966721 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 31
13966651 ATTGGATGGA
*
13966661 TTTTTTTATTTCTTCCTTTTTATTTCTTTTC
1 TTTTTTTATTTCTTCATTTTTATTTCTTTTC
*
13966692 TTTTTTTCATTCTTTTCATTTTT-TTTCTTT
1 TTTTTTT-ATT-TCTTCATTTTTATTTCTTT
13966722 CATTCTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 7 0.27
32 10 0.38
33 9 0.35
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.79
Consensus pattern (31 bp):
TTTTTTTATTTCTTCATTTTTATTTCTTTTC
Found at i:13966722 original size:23 final size:22
Alignment explanation
Indices: 13966683--13966730 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 22
13966673 TTCCTTTTTA
13966683 TTTCTTTTCTTTTTTTCATTCT
1 TTTCTTTTCTTTTTTTCATTCT
13966705 TTTCATTTT-TTTTCTTTCATTCT
1 TTTC-TTTTCTTTT-TTTCATTCT
13966728 TTT
1 TTT
13966731 TCTACCTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTCTTTTCTTTTTTTCATTCT
Found at i:13968914 original size:20 final size:21
Alignment explanation
Indices: 13968871--13968914 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
13968861 TTATTATTTT
** *
13968871 ATTTTATTTAAAGATTAATCA
1 ATTTTATTTAAAGAAAAATAA
13968892 ATTTTATTT-AAGAAAAATAA
1 ATTTTATTTAAAGAAAAATAA
13968912 ATT
1 ATT
13968915 AGAACCTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (21 bp):
ATTTTATTTAAAGAAAAATAA
Found at i:13974871 original size:14 final size:15
Alignment explanation
Indices: 13974843--13974873 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
13974833 TCAGCACAAA
13974843 TAAAATATATATAAT
1 TAAAATATATATAAT
13974858 TAAAATAT-TATAAT
1 TAAAATATATATAAT
13974872 TA
1 TA
13974874 TATAAGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAAATATATATAAT
Found at i:13976419 original size:14 final size:15
Alignment explanation
Indices: 13976391--13976420 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13976381 TTAGTTCAAA
13976391 TAAAATATATATAAT
1 TAAAATATATATAAT
13976406 TAAAATAT-TATAAT
1 TAAAATATATATAAT
13976420 T
1 T
13976421 GTGAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TAAAATATATATAAT
Found at i:13976659 original size:84 final size:84
Alignment explanation
Indices: 13976566--13976735 Score: 340
Period size: 84 Copynumber: 2.0 Consensus size: 84
13976556 CTTAAATAAG
13976566 TATATAAACTATTAATACTAAAAATGAGCTTGAGCCAAATTTGACTCAACCTATGAATATCTCTA
1 TATATAAACTATTAATACTAAAAATGAGCTTGAGCCAAATTTGACTCAACCTATGAATATCTCTA
13976631 CTTCTATCTTGCTAAATCA
66 CTTCTATCTTGCTAAATCA
13976650 TATATAAACTATTAATACTAAAAATGAGCTTGAGCCAAATTTGACTCAACCTATGAATATCTCTA
1 TATATAAACTATTAATACTAAAAATGAGCTTGAGCCAAATTTGACTCAACCTATGAATATCTCTA
13976715 CTTCTATCTTGCTAAATCA
66 CTTCTATCTTGCTAAATCA
13976734 TA
1 TA
13976736 CTCATGTATA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 86 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (84 bp):
TATATAAACTATTAATACTAAAAATGAGCTTGAGCCAAATTTGACTCAACCTATGAATATCTCTA
CTTCTATCTTGCTAAATCA
Found at i:13980888 original size:11 final size:11
Alignment explanation
Indices: 13980869--13980903 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
13980859 CTTTCTCTAA
*
13980869 TCGAATGAACT
1 TCGATTGAACT
13980880 TCGATTGAACT
1 TCGATTGAACT
*
13980891 TCGGTTGAACT
1 TCGATTGAACT
13980902 TC
1 TC
13980904 AACCGAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (11 bp):
TCGATTGAACT
Found at i:13981432 original size:10 final size:10
Alignment explanation
Indices: 13981383--13981441 Score: 52
Period size: 10 Copynumber: 6.0 Consensus size: 10
13981373 CTATTATCTT
13981383 AAAATAAA-A
1 AAAATAAATA
13981392 TAAAATAAATA
1 -AAAATAAATA
13981403 AAAATAAA-A
1 AAAATAAATA
** *
13981412 ACCA-GAATA
1 AAAATAAATA
13981421 AAAATAAATAA
1 AAAATAAAT-A
13981432 AAAATAAATA
1 AAAATAAATA
13981442 GTTGGGCCTA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
8 2 0.05
9 6 0.15
10 20 0.51
11 11 0.28
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.17
Consensus pattern (10 bp):
AAAATAAATA
Found at i:13981726 original size:42 final size:43
Alignment explanation
Indices: 13981633--13982062 Score: 482
Period size: 44 Copynumber: 10.1 Consensus size: 43
13981623 AATAAACAAA
* * * *
13981633 GCTCTTCTAAACAGAGGC-TCAACGACTTT-GAAAAATAAAAT
1 GCTCCTCTAAACAGAGGCAACCACAACTTTGGAAAAATAAAAT
* *
13981674 GCTCCTCTAAACAGAGGC-ATCACAACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAACCACAACTTTGGAAAAATAAAAT
* * *
13981716 GCTCCCCTAAACAGAGGCAACCACAATTTTAGAAAAAATAAAAT
1 GCTCCTCTAAACAGAGGCAACCACAACTTT-GGAAAAATAAAAT
* * *
13981760 ACTCCTCTAAACAGAGACAACCACAACTTTGAAAAAAATAAAAT
1 GCTCCTCTAAACAGAGGCAACCACAACTTTG-GAAAAATAAAAT
* ** * *
13981804 GCTCCTCTAAATAGAGATAACCATAACTTTATGAAAAATAAAAT
1 GCTCCTCTAAACAGAGGCAACCACAACTTT-GGAAAAATAAAAT
* *
13981848 GCTCATCTAAACAGAGGCAACTACAACTTTAGGAAAAATAAAAT
1 GCTCCTCTAAACAGAGGCAACCACAACTTT-GGAAAAATAAAAT
* *
13981892 GCTCCTCTAAACAAAGGCAACCATAACTTTGG-AAAAT-AAAT
1 GCTCCTCTAAACAGAGGCAACCACAACTTTGGAAAAATAAAAT
* *
13981933 GCTCCTTTAAACAGAGGCAACCACAACTTTGG-AAAATAAATT
1 GCTCCTCTAAACAGAGGCAACCACAACTTTGGAAAAATAAAAT
* **
13981975 GCTCCTCTAAATAGAAACAACCACAACTTTGG-AAAATAAAATT
1 GCTCCTCTAAACAGAGGCAACCACAACTTTGGAAAAATAAAA-T
* * * *
13982018 ACTCCTCTAAATAGAGGCAA-CAGAACTTT-GAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAACCACAACTTTGGAAAAATAAAAT
13982059 GCTC
1 GCTC
13982063 TTGGACAATC
Statistics
Matches: 334, Mismatches: 47, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
41 67 0.20
42 88 0.26
43 30 0.09
44 149 0.45
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.23
Consensus pattern (43 bp):
GCTCCTCTAAACAGAGGCAACCACAACTTTGGAAAAATAAAAT
Found at i:13982226 original size:20 final size:20
Alignment explanation
Indices: 13982201--13982240 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
13982191 TTCACTGAAA
13982201 TTTGATTC-TCAAAATTTCAG
1 TTTGATTCGT-AAAATTTCAG
13982221 TTTGATTCGTAAAATTTCAG
1 TTTGATTCGTAAAATTTCAG
13982241 ATGTGCAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (20 bp):
TTTGATTCGTAAAATTTCAG
Found at i:13982966 original size:63 final size:63
Alignment explanation
Indices: 13982851--13982985 Score: 162
Period size: 63 Copynumber: 2.1 Consensus size: 63
13982841 TCAGAACATG
* * * * *
13982851 TTTCATCCACCATCACTAGGTCACTACTCATAGGTGTCTCAGTATTAGCCATTCCAAAATAAA
1 TTTCATCCACCATCACTAGGTCACCACTCATAGGTGTCTCAGCACTAACCATTCCAAAACAAA
** * * * *
13982914 TTTCATCGTCCATCACTAGGTCACCGCTCATAGGTTTTTCAGCCCTAACCATTCCAAAACAAA
1 TTTCATCCACCATCACTAGGTCACCACTCATAGGTGTCTCAGCACTAACCATTCCAAAACAAA
*
13982977 CTTCATCCA
1 TTTCATCCA
13982986 TTGATCCATA
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.30, C:0.30, G:0.10, T:0.30
Consensus pattern (63 bp):
TTTCATCCACCATCACTAGGTCACCACTCATAGGTGTCTCAGCACTAACCATTCCAAAACAAA
Found at i:13983685 original size:16 final size:17
Alignment explanation
Indices: 13983664--13983699 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
13983654 CTCCTTTCCA
13983664 TTTTTCTTTTTT-TTTT
1 TTTTTCTTTTTTCTTTT
13983680 TTTTTCTTTTTTCTTTT
1 TTTTTCTTTTTTCTTTT
13983697 TTT
1 TTT
13983700 CTCCTTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (17 bp):
TTTTTCTTTTTTCTTTT
Done.