Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01009644.1 Kokia drynarioides strain JFW-HI SEQ_124362, 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: 362035
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 10 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:4620 original size:30 final size:30
Alignment explanation
Indices: 4585--4724 Score: 169
Period size: 30 Copynumber: 4.7 Consensus size: 30
4575 AAAAATTCAA
*
4585 GGGTCAAAATGTAATTTTTGGAAAGTTTAG
1 GGGTCAAAATGTGATTTTTGGAAAGTTTAG
* *
4615 TGGTCAAAATGTGATTTTAGGAAAGTTTAG
1 GGGTCAAAATGTGATTTTTGGAAAGTTTAG
*
4645 GGGTCAAAATGTGA-TTTTGGGAAGTTT-G
1 GGGTCAAAATGTGATTTTTGGAAAGTTTAG
* * *
4673 GGAGCCAAAATATGATTTTGGGAAAGTTT-G
1 GG-GTCAAAATGTGATTTTTGGAAAGTTTAG
*
4703 AGGGTCAAAATGTAATTTTTGG
1 -GGGTCAAAATGTGATTTTTGG
4725 GTAAAATACG
Statistics
Matches: 93, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.03
29 21 0.23
30 67 0.72
31 2 0.02
ACGTcount: A:0.31, C:0.04, G:0.29, T:0.35
Consensus pattern (30 bp):
GGGTCAAAATGTGATTTTTGGAAAGTTTAG
Found at i:4624 original size:60 final size:59
Alignment explanation
Indices: 4560--4724 Score: 181
Period size: 59 Copynumber: 2.8 Consensus size: 59
4550 ATTTGGGGTT
* * * * * *
4560 AAAATATAATTTTGTAAAAATTCAAGGGTCAAAATGTAATTTTTGGAAAGTTTAGTG-GTC
1 AAAATATGATTTTG-GAAAGTTTAAGGGTCAAAATGTAATTTTTGGAAAGTTT-GGGAGCC
* * * *
4620 AAAATGTGATTTTAGGAAAGTTTAGGGGTCAAAATGTGA-TTTTGGGAAGTTTGGGAGCC
1 AAAATATGATTTT-GGAAAGTTTAAGGGTCAAAATGTAATTTTTGGAAAGTTTGGGAGCC
*
4679 AAAATATGATTTTGGGAAAGTTTGAGGGTCAAAATGTAATTTTTGG
1 AAAATATGATTTT-GGAAAGTTTAAGGGTCAAAATGTAATTTTTGG
4725 GTAAAATACG
Statistics
Matches: 87, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
58 2 0.02
59 48 0.55
60 36 0.41
61 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.35
Consensus pattern (59 bp):
AAAATATGATTTTGGAAAGTTTAAGGGTCAAAATGTAATTTTTGGAAAGTTTGGGAGCC
Found at i:20950 original size:19 final size:19
Alignment explanation
Indices: 20926--20990 Score: 51
Period size: 22 Copynumber: 3.3 Consensus size: 19
20916 GGGGGTATCC
* *
20926 TTAAAATGCATAATGTTTT
1 TTAAAATGAATAATGTATT
*
20945 TTAAAAGGAAGAATAATGTATT
1 TT-AAA--ATGAATAATGTATT
* *
20967 TTAAAATGGATAATG-GTT
1 TTAAAATGAATAATGTATT
20985 TTAAAA
1 TTAAAA
20991 GATCATACCC
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
18 8 0.22
19 10 0.27
20 3 0.08
21 3 0.08
22 13 0.35
ACGTcount: A:0.45, C:0.02, G:0.15, T:0.38
Consensus pattern (19 bp):
TTAAAATGAATAATGTATT
Found at i:25957 original size:15 final size:15
Alignment explanation
Indices: 25939--26006 Score: 55
Period size: 15 Copynumber: 4.5 Consensus size: 15
25929 GTATGGAAGA
25939 TGCGAGCACTCATGT
1 TGCGAGCACTCATGT
* ** * *
25954 TGCGAACACAAAAGC
1 TGCGAGCACTCATGT
* *
25969 TGTGAGCACTGATGT
1 TGCGAGCACTCATGT
**
25984 TGCGAGCACTCGCGT
1 TGCGAGCACTCATGT
25999 TGCGAGCA
1 TGCGAGCA
26007 TGGACAAAAG
Statistics
Matches: 38, Mismatches: 15, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.21
Consensus pattern (15 bp):
TGCGAGCACTCATGT
Found at i:27429 original size:20 final size:20
Alignment explanation
Indices: 27404--27447 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
27394 CAGTTCAGAA
27404 ATAGTTACAGAT-TTCTACTG
1 ATAGTT-CAGATGTTCTACTG
*
27424 ATAGTTGAGATGGTTCTACTG
1 ATAGTTCAGAT-GTTCTACTG
27445 ATA
1 ATA
27448 CAAGAGTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 4 0.19
20 6 0.29
21 11 0.52
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (20 bp):
ATAGTTCAGATGTTCTACTG
Found at i:28192 original size:42 final size:42
Alignment explanation
Indices: 28130--28476 Score: 321
Period size: 42 Copynumber: 8.2 Consensus size: 42
28120 AGTCAAAAGC
*
28130 CTTCCTTTAAACATAATCTCATGCTCATCCCGAATCATGAGT
1 CTTCCTTTAAACATAATCTCATGCTCATCCCGAATCACGAGT
* * * **
28172 CTTCCTTTAAACATATTCTCATGGTCTTTTC-AAGTCACGAGT
1 CTTCCTTTAAACATAATCTCATGCTCATCCCGAA-TCACGAGT
* * *
28214 TTTCCTTTTAAACATAATCTCTTGCTCATCCAC-AGA-CATGAGT
1 CTTCC-TTTAAACATAATCTCATGCTCATCC-CGA-ATCACGAGT
* *
28257 CTTCCTTTAAACATAATCTCATTCTCATCCCG-AGCAACGAGT
1 CTTCCTTTAAACATAATCTCATGCTCATCCCGAATC-ACGAGT
* * ** *
28299 CTTCCTTTAAACATATTCTCATGCTCTTTTCGAGTCACGAGT
1 CTTCCTTTAAACATAATCTCATGCTCATCCCGAATCACGAGT
* * *
28341 CTTCCTTTTAAATATAATCTCATGCCCATCCCGAGA-CATGAGT
1 CTTCC-TTTAAACATAATCTCATGCTCATCCCGA-ATCACGAGT
* * * *
28384 CTTCCTTTAAACATAATATAATGCTCATCCC-AAGTCACAAAT
1 CTTCCTTTAAACATAATCTCATGCTCATCCCGAA-TCACGAGT
* * * *
28426 CTTCCTTTAAACATATTCTCATGCTTATCTCGAGA-CATGAGT
1 CTTCCTTTAAACATAATCTCATGCTCATCCCGA-ATCACGAGT
28468 CTTCCTTTA
1 CTTCCTTTA
28477 TTCTTCAAGG
Statistics
Matches: 243, Mismatches: 48, Indels: 28
0.76 0.15 0.09
Matches are distributed among these distances:
40 2 0.01
41 5 0.02
42 168 0.69
43 64 0.26
44 3 0.01
45 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.36
Consensus pattern (42 bp):
CTTCCTTTAAACATAATCTCATGCTCATCCCGAATCACGAGT
Found at i:28233 original size:85 final size:82
Alignment explanation
Indices: 28130--28476 Score: 345
Period size: 85 Copynumber: 4.1 Consensus size: 82
28120 AGTCAAAAGC
* *
28130 CTTCCTTTAAACATAATCTCATGCTCATCCCGAATCATGAGTCTTCCTTTAAACATATTCTCATG
1 CTTCCTTTAAACATAATCTCATGCTCATCCC-AATCACGAGTCTTCCTTTAAACATAATCTCATG
* * ** *
28195 GTCTTTTCAAGTCACGAGT
65 CTCATCCCGAG-CACGAGT
* * *
28214 TTTCCTTTTAAACATAATCTCTTGCTCATCCACAGA-CATGAGTCTTCCTTTAAACATAATCTCA
1 CTTCC-TTTAAACATAATCTCATGCTCATCC-CA-ATCACGAGTCTTCCTTTAAACATAATCTCA
*
28278 TTCTCATCCCGAGCAACGAGT
63 TGCTCATCCCGAGC-ACGAGT
* * * * * *
28299 CTTCCTTTAAACATATTCTCATGCTCTTTTCGAGTCACGAGTCTTCCTTTTAAATATAATCTCAT
1 CTTCCTTTAAACATAATCTCATGCTC-ATCCCAATCACGAGTCTTCC-TTTAAACATAATCTCAT
* *
28364 GCCCATCCCGAGACATGAGT
64 GCTCATCCCGAG-CACGAGT
* * * * *
28384 CTTCCTTTAAACATAATATAATGCTCATCCCAAGTCACAAATCTTCCTTTAAACATATTCTCATG
1 CTTCCTTTAAACATAATCTCATGCTCATCCCAA-TCACGAGTCTTCCTTTAAACATAATCTCATG
* * *
28449 CTTATCTCGAGACATGAGT
65 CTCATCCCGAG-CACGAGT
28468 CTTCCTTTA
1 CTTCCTTTA
28477 TTCTTCAAGG
Statistics
Matches: 219, Mismatches: 35, Indels: 18
0.81 0.13 0.07
Matches are distributed among these distances:
84 80 0.37
85 136 0.62
86 3 0.01
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.36
Consensus pattern (82 bp):
CTTCCTTTAAACATAATCTCATGCTCATCCCAATCACGAGTCTTCCTTTAAACATAATCTCATGC
TCATCCCGAGCACGAGT
Found at i:28358 original size:127 final size:126
Alignment explanation
Indices: 28130--28475 Score: 480
Period size: 127 Copynumber: 2.7 Consensus size: 126
28120 AGTCAAAAGC
* *
28130 CTTCCTTTAAACATAATCTCATGCTCATCCCGAATCATGAGTCTTCCTTTAAACATATTCTCATG
1 CTTCCTTTAAACATAATCTCATGCTCATCCCG-AGCACGAGTCTTCCTTTAAACATATTCTCATG
* * * * *
28195 GTCTTTTCAAGTCACGAGTTTTCCTTTTAAACATAATCTCTTGCTCATCCAC-AGACATGAGT
65 CTCTTTTCGAGTCACGAGTCTTCCTTTTAAACATAATCTCATGCCCATCC-CGAGACATGAGT
*
28257 CTTCCTTTAAACATAATCTCATTCTCATCCCGAGCAACGAGTCTTCCTTTAAACATATTCTCATG
1 CTTCCTTTAAACATAATCTCATGCTCATCCCGAGC-ACGAGTCTTCCTTTAAACATATTCTCATG
*
28322 CTCTTTTCGAGTCACGAGTCTTCCTTTTAAATATAATCTCATGCCCATCCCGAGACATGAGT
65 CTCTTTTCGAGTCACGAGTCTTCCTTTTAAACATAATCTCATGCCCATCCCGAGACATGAGT
* * * * *
28384 CTTCCTTTAAACATAATATAATGCTCATCCCAAGTCACAAATCTTCCTTTAAACATATTCTCATG
1 CTTCCTTTAAACATAATCTCATGCTCATCCCGAG-CACGAGTCTTCCTTTAAACATATTCTCATG
* * *
28449 CT-TATCTCGAGACATGAGTCTTCCTTT
65 CTCT-TTTCGAGTCACGAGTCTTCCTTT
28476 ATTCTTCAAG
Statistics
Matches: 197, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
126 4 0.02
127 192 0.97
128 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.36
Consensus pattern (126 bp):
CTTCCTTTAAACATAATCTCATGCTCATCCCGAGCACGAGTCTTCCTTTAAACATATTCTCATGC
TCTTTTCGAGTCACGAGTCTTCCTTTTAAACATAATCTCATGCCCATCCCGAGACATGAGT
Found at i:43790 original size:39 final size:39
Alignment explanation
Indices: 43733--43811 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
43723 TTTGCAATTT
*
43733 ACCATTGTATCATGCTCAGTTAGTCAATCCATACCCATA
1 ACCATTGTATCATACTCAGTTAGTCAATCCATACCCATA
*
43772 ACCATTGTATCATACTCAGTTAGTCAATCCATACTCATA
1 ACCATTGTATCATACTCAGTTAGTCAATCCATACCCATA
43811 A
1 A
43812 TCACATCGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.33, C:0.27, G:0.09, T:0.32
Consensus pattern (39 bp):
ACCATTGTATCATACTCAGTTAGTCAATCCATACCCATA
Found at i:46495 original size:42 final size:42
Alignment explanation
Indices: 46386--46693 Score: 339
Period size: 42 Copynumber: 7.3 Consensus size: 42
46376 CTGAGTCAAA
* *
46386 AGTCTTCCTTTAAACATAATCTCATGCTCATTCTGAGTCACG
1 AGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGTCACG
* * * * *
46428 GGTCTTCTTTTTAAACATAATCTCATGCTCATCCCAAGACATG
1 AGTCTTC-CTTTAAACATAATCTCATGCTCATCCCGAGTCACG
*
46471 AGTCTTCTTTTAAACATAATCTCATGCTCATCCCGAGTCACG
1 AGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGTCACG
* * ***
46513 AGTCTTCCTTTAAACATATTCTCATGCTCTTTTTGAGTCACG
1 AGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGTCACG
* **
46555 AGTCTTCCTTTCAAACATAATCTCATGCTCATCCCGAGACATT
1 AGTCTTCCTTT-AAACATAATCTCATGCTCATCCCGAGTCACG
* * * * *
46598 AGTCTTCCTTTAAAAATAATCTTATACTCAT-CTGAAGTCACA
1 AGTCTTCCTTTAAACATAATCTCATGCTCATCCCG-AGTCACG
* * * * * *
46640 AGTCTTCCTTTAAATATATTCTTATGTTCATCCCGAGACATG
1 AGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGTCACG
46682 AGTCTTCCTTTA
1 AGTCTTCCTTTA
46694 TACGTCAAGT
Statistics
Matches: 222, Mismatches: 40, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
41 2 0.01
42 149 0.67
43 71 0.32
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (42 bp):
AGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGTCACG
Found at i:46571 original size:85 final size:83
Alignment explanation
Indices: 46376--46693 Score: 339
Period size: 85 Copynumber: 3.8 Consensus size: 83
46366 CATATAACAA
* * * * * *
46376 CTGAGTCAAAAGTCTTCCTTTAAACATAATCTCATGCTCATTCTGAGTCACGGGTCTTCTTTTTA
1 CTGAGTCACAAGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGACACGAGTCTTC-CTTTA
*
46441 AACATAATCTCATGCTCATC
65 AACATAATCTCATGCTC-TT
** * ** * *
46461 CCAAGACATGAGTCTTCTTTTAAACATAATCTCATGCTCATCCCGAGTCACGAGTCTTCCTTTAA
1 CTGAGTCACAAGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGACACGAGTCTTCCTTTAA
*
46526 ACATATTCTCATGCTCTTT
66 ACATAATCTCATGCTC-TT
* * **
46545 TTGAGTCACGAGTCTTCCTTTCAAACATAATCTCATGCTCATCCCGAGACATTAGTCTTCCTTTA
1 CTGAGTCACAAGTCTTCCTTT-AAACATAATCTCATGCTCATCCCGAGACACGAGTCTTCCTTTA
* * * *
46610 AAAATAATCTTATACTCAT
65 AACATAATCTCATGCTCTT
* * * * *
46629 CTGAAGTCACAAGTCTTCCTTTAAATATATTCTTATGTTCATCCCGAGACATGAGTCTTCCTTTA
1 CTG-AGTCACAAGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGACACGAGTCTTCCTTTA
46694 TACGTCAAGT
Statistics
Matches: 197, Mismatches: 34, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
84 77 0.39
85 120 0.61
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.36
Consensus pattern (83 bp):
CTGAGTCACAAGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGACACGAGTCTTCCTTTAA
ACATAATCTCATGCTCTT
Found at i:46604 original size:127 final size:127
Alignment explanation
Indices: 46379--46692 Score: 414
Period size: 127 Copynumber: 2.5 Consensus size: 127
46369 ATAACAACTG
* * * * *
46379 AGTCAAAAGTCTTCCTTTAAACATAATCTCATGCTCATTCTGAGTCACGGGTCTTCTTTTTAAAC
1 AGTCACAAGTCTTCCTTTAAACATATTCTCATGCTCATTCTGAGTCACGAGTCTTCCTTTCAAAC
* * *
46444 ATAATCTCATGCTCATCCCAAGACATGAGTCTTCTTTTAAACATAATCTCATGCTCATCCCG-
66 ATAATCTCATGCTCATCCCAAGACATGAGTCTTCCTTTAAAAATAATCTCATACTCAT-CCGA
* * *
46506 AGTCACGAGTCTTCCTTTAAACATATTCTCATGCTCTTTTTGAGTCACGAGTCTTCCTTTCAAAC
1 AGTCACAAGTCTTCCTTTAAACATATTCTCATGCTCATTCTGAGTCACGAGTCTTCCTTTCAAAC
* * * *
46571 ATAATCTCATGCTCATCCCGAGACATTAGTCTTCCTTTAAAAATAATCTTATACTCATCTGA
66 ATAATCTCATGCTCATCCCAAGACATGAGTCTTCCTTTAAAAATAATCTCATACTCATCCGA
* * * * * * *
46633 AGTCACAAGTCTTCCTTTAAATATATTCTTATGTTCATCCCGAGACATGAGTCTTCCTTT
1 AGTCACAAGTCTTCCTTTAAACATATTCTCATGCTCATTCTGAGTCACGAGTCTTCCTTT
46693 ATACGTCAAG
Statistics
Matches: 161, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
126 2 0.01
127 159 0.99
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (127 bp):
AGTCACAAGTCTTCCTTTAAACATATTCTCATGCTCATTCTGAGTCACGAGTCTTCCTTTCAAAC
ATAATCTCATGCTCATCCCAAGACATGAGTCTTCCTTTAAAAATAATCTCATACTCATCCGA
Found at i:51189 original size:31 final size:30
Alignment explanation
Indices: 51150--51207 Score: 98
Period size: 31 Copynumber: 1.9 Consensus size: 30
51140 TATTTTTGTG
*
51150 AGATCTATATGCATGATGGATACCTTTGAA
1 AGATCTATACGCATGATGGATACCTTTGAA
51180 AGATACTATACGCATGATGGATACCTTT
1 AGAT-CTATACGCATGATGGATACCTTT
51208 TTAAGGAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (30 bp):
AGATCTATACGCATGATGGATACCTTTGAA
Found at i:52415 original size:15 final size:15
Alignment explanation
Indices: 52387--52441 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
52377 GCATGGACCT
52387 TGCGAGCA-TAGAAGA
1 TGCGAGCACT-GAAGA
*
52402 TGCGAGCACTGAAGC
1 TGCGAGCACTGAAGA
* * *
52417 TGCGATCACTGATGT
1 TGCGAGCACTGAAGA
52432 TGCGAGCACT
1 TGCGAGCACT
52442 CACATTACGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
15 33 0.97
16 1 0.03
ACGTcount: A:0.27, C:0.22, G:0.31, T:0.20
Consensus pattern (15 bp):
TGCGAGCACTGAAGA
Found at i:53326 original size:22 final size:23
Alignment explanation
Indices: 53275--53326 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
53265 CTCCGCGCCC
*
53275 AAATT-AATCAAAAAATATAAAT
1 AAATTAAATCAAAAAATACAAAT
*
53297 ACAA-TAAAT-AAAAAATCCAAAT
1 A-AATTAAATCAAAAAATACAAAT
53319 AAATTAAA
1 AAATTAAA
53327 ACCCAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 2 0.08
22 18 0.72
23 5 0.20
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (23 bp):
AAATTAAATCAAAAAATACAAAT
Found at i:53345 original size:17 final size:17
Alignment explanation
Indices: 53324--53366 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
53314 CAAATAAATT
53324 AAAACCCAAATT-ACAC
1 AAAACCCAAATTAACAC
53340 ACAAA-CCAAATTAACAC
1 A-AAACCCAAATTAACAC
53357 TAAAACCCAA
1 -AAAACCCAA
53367 TCTAAGGCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 8 0.35
17 10 0.43
18 5 0.22
ACGTcount: A:0.58, C:0.30, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAACCCAAATTAACAC
Found at i:57590 original size:21 final size:21
Alignment explanation
Indices: 57540--57590 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
57530 CGATGACCAG
57540 TACCTCTACTAAAGACAGTAC
1 TACCTCTACTAAAGACAGTAC
* * * *
57561 TGCCCCTACTGGAAG-CAGTTC
1 TACCTCTACT-AAAGACAGTAC
57582 TACCTCTAC
1 TACCTCTAC
57591 CAGTACCTCG
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.27, C:0.33, G:0.14, T:0.25
Consensus pattern (21 bp):
TACCTCTACTAAAGACAGTAC
Found at i:61912 original size:13 final size:13
Alignment explanation
Indices: 61894--61918 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61884 TTTCATATAC
61894 TTATTTATTTGTA
1 TTATTTATTTGTA
61907 TTATTTATTTGT
1 TTATTTATTTGT
61919 TTTGGGCATT
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:0.08, T:0.72
Consensus pattern (13 bp):
TTATTTATTTGTA
Found at i:64667 original size:23 final size:22
Alignment explanation
Indices: 64619--64667 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
64609 AATCAACGCC
**
64619 CATTTGCATGCATTTCATCATT
1 CATTTGCATGCATTTCATCACG
*
64641 CATTTGCATTGCATTTCATTACG
1 CATTTGCA-TGCATTTCATCACG
64664 CATT
1 CATT
64668 AAATTTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.22, C:0.22, G:0.10, T:0.45
Consensus pattern (22 bp):
CATTTGCATGCATTTCATCACG
Found at i:67450 original size:101 final size:100
Alignment explanation
Indices: 67319--67692 Score: 424
Period size: 101 Copynumber: 3.8 Consensus size: 100
67309 TAAAATAAGT
* * *
67319 AATCTCAATCTCCTTGAGGTTACAATGGAATGGAGTGAAG-TTACAACACCAAATCCTATACCCC
1 AATCTCAATCTCCCTGAGGTTACAGTGGAATAGAGTGAAGCTT-CAACACCAAATCCTATACCCC
67383 TAAAGTTGTAGTAGGTC-AGATTAAAGTTACAAAAGCA
65 TAAAGTTGTAGTAGGTCGA-ATTAAAGTTACAAAA-CA
* * *
67420 TATCTCAATCTCCTTGAGGTTACAGTGGAATAGAGTGAAGCTTCAACA-CAAATCCTATATCCCT
1 AATCTCAATCTCCCTGAGGTTACAGTGGAATAGAGTGAAGCTTCAACACCAAATCCTATACCCCT
* * *
67484 GAAGTTGTAGT-GAATCGAATTAAA-ATA-AGAAACA
66 AAAGTTGTAGTAG-GTCGAATTAAAGTTACA-AAACA
** * * *
67518 GGTCTCAATCTCCCTGAAGTTATAGTGGAATAGAGTGAAG-TT--ACAACCAAATCTTATACCCC
1 AATCTCAATCTCCCTGAGGTTACAGTGGAATAGAGTGAAGCTTCAAC-ACCAAATCCTATACCCC
** *
67580 TAAAGTTACAGTAGGTCGAAATAAAGTTACAAAATCA
65 TAAAGTTGTAGTAGGTCGAATTAAAGTTACAAAA-CA
* * * * *
67617 AATCTTAATCTCCCTAAGGTTACAGTGGAATAGAGTGAAGCTTTAACACCAAATCTTATATCCCT
1 AATCTCAATCTCCCTGAGGTTACAGTGGAATAGAGTGAAGCTTCAACACCAAATCCTATACCCCT
67682 AAAGTTGTAGT
66 AAAGTTGTAGT
67693 TCGAATTAAA
Statistics
Matches: 231, Mismatches: 29, Indels: 26
0.81 0.10 0.09
Matches are distributed among these distances:
95 2 0.01
96 1 0.00
97 33 0.14
98 44 0.19
99 43 0.19
100 35 0.15
101 69 0.30
102 4 0.02
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (100 bp):
AATCTCAATCTCCCTGAGGTTACAGTGGAATAGAGTGAAGCTTCAACACCAAATCCTATACCCCT
AAAGTTGTAGTAGGTCGAATTAAAGTTACAAAACA
Found at i:67607 original size:197 final size:195
Alignment explanation
Indices: 67271--67704 Score: 565
Period size: 197 Copynumber: 2.2 Consensus size: 195
67261 CTAATGAAAT
** * * * *
67271 ACCAAATCCTATATCCCTGAAGTTACAATAGATTGAATTAAAATAAGTAATCTCAATCTCCTTGA
1 ACCAAATCCTATATCCCTGAAGTTGTAGTA-ATCGAATTAAAATAAGAAATCTCAATCTCCCTGA
* * **
67336 GGTTACAATGGAATGGAGTGAAGTTACAACACCAAATCCTATACCCCTAAAGTTGTAGTAGGTCA
65 AGTTACAATGGAATAGAGTGAAGTTACAACACCAAATCCTATACCCCTAAAGTTACAGTAGGTCA
* * * *
67401 GATTAAAGTTACAAAAGCATATCTCAATCTCCTTGAGGTTACAGTGGAATAGAGTGAAGCTTCAA
130 GAATAAAGTTACAAAAGCAAATCTCAATCTCCCTAAGGTTACAGTGGAATAGAGTGAAGCTTCAA
67466 C
195 C
67467 A-CAAATCCTATATCCCTGAAGTTGTAGTGAATCGAATTAAAATAAGAAACAGGTCTCAATCTCC
1 ACCAAATCCTATATCCCTGAAGTTGTAGT-AATCGAATTAAAATAAG-AA-A--TCTCAATCTCC
* * *
67531 CTGAAGTTATAGTGGAATAGAGTGAAGTTAC-A-ACCAAATCTTATACCCCTAAAGTTACAGTAG
61 CTGAAGTTACAATGGAATAGAGTGAAGTTACAACACCAAATCCTATACCCCTAAAGTTACAGTAG
* *
67594 GTC-GAAATAAAGTTACAAAATCAAATCTTAATCTCCCTAAGGTTACAGTGGAATAGAGTGAAGC
126 GTCAG-AATAAAGTTACAAAAGCAAATCTCAATCTCCCTAAGGTTACAGTGGAATAGAGTGAAGC
*
67658 TTTAAC
190 TTCAAC
* *
67664 ACCAAATCTTATATCCCTAAAGTTGTAGT--TCGAATTAAAAT
1 ACCAAATCCTATATCCCTGAAGTTGTAGTAATCGAATTAAAAT
67705 TGTAACACCT
Statistics
Matches: 209, Mismatches: 22, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
195 51 0.24
196 4 0.02
197 91 0.44
198 26 0.12
199 37 0.18
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (195 bp):
ACCAAATCCTATATCCCTGAAGTTGTAGTAATCGAATTAAAATAAGAAATCTCAATCTCCCTGAA
GTTACAATGGAATAGAGTGAAGTTACAACACCAAATCCTATACCCCTAAAGTTACAGTAGGTCAG
AATAAAGTTACAAAAGCAAATCTCAATCTCCCTAAGGTTACAGTGGAATAGAGTGAAGCTTCAAC
Found at i:69291 original size:90 final size:90
Alignment explanation
Indices: 69109--69279 Score: 252
Period size: 90 Copynumber: 1.9 Consensus size: 90
69099 ACGAGCTATT
* *
69109 GAGGACTCGCAACATATGCGGTACCTCAGCCATCGACACATTATCTATGCATATAACTATTCCCT
1 GAGGACTCGCAACATATGCAGTACCTCAGCCATCGACACAGTATCTATGCATATAACTATTCCCT
*
69174 AATGATGCTACTCACACAAGCTGTC
66 AACGATGCTACTCACACAAGCTGTC
* * * * * *
69199 GAGGACTCGTAACATATGCAGTACCTCAGCCATCGATACGGTATCTATGCATATAATTGTTCCTT
1 GAGGACTCGCAACATATGCAGTACCTCAGCCATCGACACAGTATCTATGCATATAACTATTCCCT
*
69264 AACGATGCTGCTCACA
66 AACGATGCTACTCACA
69280 TGAGTTGTCG
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
90 71 1.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (90 bp):
GAGGACTCGCAACATATGCAGTACCTCAGCCATCGACACAGTATCTATGCATATAACTATTCCCT
AACGATGCTACTCACACAAGCTGTC
Found at i:73779 original size:201 final size:199
Alignment explanation
Indices: 73412--73966 Score: 788
Period size: 201 Copynumber: 2.8 Consensus size: 199
73402 GGGTTGTTAC
* * * *
73412 AGTTACAATACCAAATCCTATACCCTTGAAGTTGCAGTAGATCAGATTAAAGTTATAAAAGCATA
1 AGTTACAACACCAAATCCTATACCCTTGAAGTTGCAGTGGGTCAGATTAAAGTTACAAAAGCATA
* * *
73477 TCTCAATTTCCCTGAGGTTATAGTGGAATGGAGTGAAGCTTCAACACCAAGTCCTATATCCTTGA
66 TCTCAATTTCCTTGAGGTTATAGTGGAATGGAGTGAAGCTTTAACACCAAGTCCTATATCCATGA
73542 AGTTGAAGTGGATCAGATTAAAATACGTAACGGACCTCAA-TCTCCCTAAAGTTGCAGTGGAATG
131 AGTTGAA-TGGATCAGATTAAAATACGTAACGGACCT-AATTCTCCCTAAAGTTGCAGTGGAATG
*
73606 GAGTGA
194 GAGCGA
* * * * *
73612 AGTTACAACACCAAATCTTATACCCCTGAAATTGCAATGGGTCAGATTAAAGTTAGAAAAGCATA
1 AGTTACAACACCAAATCCTATACCCTTGAAGTTGCAGTGGGTCAGATTAAAGTTACAAAAGCATA
* * *
73677 TCTCAATCTCTTTGAGGTTATAGTGGAAATGGAGTGAAGCTTTAACACCAAGTCTTATATCCATG
66 TCTCAATTTCCTTGAGGTTATAGTGG-AATGGAGTGAAGCTTTAACACCAAGTCCTATATCCATG
* *
73742 AAGTTGTAATGGATCAGATTAAAATAGGTAACGGACCTAATTCTCCCTGAAGTTGCAGTGGAATG
130 AAGTTG-AATGGATCAGATTAAAATACGTAACGGACCTAATTCTCCCTAAAGTTGCAGTGGAATG
73807 GAGCGA
194 GAGCGA
** * *
73813 AGTTACAACATTAAATCCTATACCCTTGAAGTTGCAGTGGGTCAGATTAAAGTTACAAAAGTAGA
1 AGTTACAACACCAAATCCTATACCCTTGAAGTTGCAGTGGGTCAGATTAAAGTTACAAAAGCATA
* * * * *
73878 TCTCAATTTCCTTAAGGTTACATTGGAATGGAGTGAAGCTTTAACACCAAATCCTATATCCCTGA
66 TCTCAATTTCCTTGAGGTTATAGTGGAATGGAGTGAAGCTTTAACACCAAGTCCTATATCCATGA
* *
73943 AGTTGCAGTGGATCGGATTTAAAA
131 AGTTG-AATGGATCAGA-TTAAAA
73967 CTACAATAGC
Statistics
Matches: 314, Mismatches: 37, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
200 132 0.42
201 180 0.57
202 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (199 bp):
AGTTACAACACCAAATCCTATACCCTTGAAGTTGCAGTGGGTCAGATTAAAGTTACAAAAGCATA
TCTCAATTTCCTTGAGGTTATAGTGGAATGGAGTGAAGCTTTAACACCAAGTCCTATATCCATGA
AGTTGAATGGATCAGATTAAAATACGTAACGGACCTAATTCTCCCTAAAGTTGCAGTGGAATGGA
GCGA
Found at i:74313 original size:16 final size:16
Alignment explanation
Indices: 74292--74325 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
74282 ATATAAATAC
74292 AATAAATAAAAAACCA
1 AATAAATAAAAAACCA
* *
74308 AATAAATTAAAACCCA
1 AATAAATAAAAAACCA
74324 AA
1 AA
74326 CCCAAATTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.15, G:0.00, T:0.15
Consensus pattern (16 bp):
AATAAATAAAAAACCA
Found at i:74657 original size:17 final size:18
Alignment explanation
Indices: 74635--74668 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
74625 AGTTCTATCA
74635 ATACAAGGCA-ACTACTG
1 ATACAAGGCATACTACTG
*
74652 ATACAAGTCATACTACT
1 ATACAAGGCATACTACT
74669 ACCGATACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.24
Consensus pattern (18 bp):
ATACAAGGCATACTACTG
Found at i:74958 original size:116 final size:116
Alignment explanation
Indices: 74701--74959 Score: 392
Period size: 116 Copynumber: 2.2 Consensus size: 116
74691 AGCTGAGAAG
* * * * *
74701 TCCTACCCTGTAACTTCTACCAATACAAGTATTTAAACTATCGATACCTCAATGTACAGAACTAC
1 TCCTACCCTG-CACTTCTACCGATACAAGCATTTAAACTATCGATACCTCAATATAAAGAACTAC
* *
74766 TGATACCCATTATACAACTACCGAAACAACTCAAGTCAAAGAACAACCTCTC
65 CGATACCCATTATACAACTACCAAAACAACTCAAGTCAAAGAACAACCTCTC
** *
74818 TTTTACCCTTCACTTCTACCGATACAAGCATTTAAACTATCGATACCTCAATATAAAGAACTACC
1 TCCTACCCTGCACTTCTACCGATACAAGCATTTAAACTATCGATACCTCAATATAAAGAACTACC
* *
74883 GATACCTATTATAGAACTACCAAAACAACTCAAGTCAAAGAACAACCTCTC
66 GATACCCATTATACAACTACCAAAACAACTCAAGTCAAAGAACAACCTCTC
*
74934 TCCTACCCTGCACTTCTACTGATACA
1 TCCTACCCTGCACTTCTACCGATACA
74960 CAATCATGAG
Statistics
Matches: 126, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
116 119 0.94
117 7 0.06
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.26
Consensus pattern (116 bp):
TCCTACCCTGCACTTCTACCGATACAAGCATTTAAACTATCGATACCTCAATATAAAGAACTACC
GATACCCATTATACAACTACCAAAACAACTCAAGTCAAAGAACAACCTCTC
Found at i:77517 original size:4 final size:4
Alignment explanation
Indices: 77508--77589 Score: 51
Period size: 4 Copynumber: 19.5 Consensus size: 4
77498 TTTCATATGC
* * **
77508 TTAT TTAT TTGT ATTAT TTAT TTAT TTAGG GCAT TTAAT TTGCAT TTAT
1 TTAT TTAT TTAT -TTAT TTAT TTAT TTA-T TTAT TT-AT TT--AT TTAT
*
77557 TTA- TTAT GTTGT TTAT TTAT TTAT TTA- TTAT TT
1 TTAT TTAT -TTAT TTAT TTAT TTAT TTAT TTAT TT
77590 TTGCCCATCA
Statistics
Matches: 60, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
3 6 0.10
4 39 0.65
5 11 0.18
6 4 0.07
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.66
Consensus pattern (4 bp):
TTAT
Found at i:79663 original size:17 final size:18
Alignment explanation
Indices: 79641--79675 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
79631 GACATGTGAC
79641 AAAAAA-TTATAAAAAAT
1 AAAAAATTTATAAAAAAT
*
79658 AAAAAATTTATTAAAAAT
1 AAAAAATTTATAAAAAAT
79676 TAGATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAAAATTTATAAAAAAT
Found at i:79982 original size:20 final size:20
Alignment explanation
Indices: 79919--79982 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
79909 TAGTACGATA
*
79919 ATTTTTATAATTTTTTTACG
1 ATTTTTATAATTTTCTTACG
*
79939 AATTTTAT-A-TTTCTTTAC-
1 ATTTTTATAATTTTC-TTACG
*
79957 ATTTTTTATAATTTTCATACG
1 A-TTTTTATAATTTTCTTACG
79978 ATTTT
1 ATTTT
79983 GAAAACTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
18 4 0.11
19 11 0.31
20 15 0.43
21 5 0.14
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.62
Consensus pattern (20 bp):
ATTTTTATAATTTTCTTACG
Found at i:82329 original size:15 final size:16
Alignment explanation
Indices: 82309--82360 Score: 65
Period size: 15 Copynumber: 3.4 Consensus size: 16
82299 CCATTCCATC
82309 GATATCCCTA-TCGAG
1 GATATCCCTATTCGAG
*
82324 GATAT-CCTATTCTAAG
1 GATATCCCTATTC-GAG
82340 GATATCCCTATTCGA-
1 GATATCCCTATTCGAG
82355 GATATC
1 GATATC
82361 TCGCTCTAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 4 0.12
15 13 0.41
16 8 0.25
17 7 0.22
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (16 bp):
GATATCCCTATTCGAG
Found at i:82637 original size:14 final size:14
Alignment explanation
Indices: 82583--82654 Score: 54
Period size: 14 Copynumber: 5.1 Consensus size: 14
82573 AACACGTCAT
* *
82583 CGATAATGCCTCAT
1 CGATAATGCCTGAC
* *
82597 CGATAACGCATGAC
1 CGATAATGCCTGAC
** * *
82611 CGGCAACGCCTGAT
1 CGATAATGCCTGAC
*
82625 CGATAATGTCTGAC
1 CGATAATGCCTGAC
*
82639 CGGTAATGCCTGAC
1 CGATAATGCCTGAC
82653 CG
1 CG
82655 GATGAAAGAA
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 43 1.00
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (14 bp):
CGATAATGCCTGAC
Found at i:82649 original size:28 final size:28
Alignment explanation
Indices: 82586--82651 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
82576 ACGTCATCGA
*
82586 TAATGCCTCATCGATAACGCATGACCGG
1 TAATGCCTGATCGATAACGCATGACCGG
* * *
82614 CAACGCCTGATCGATAATGTC-TGACCGG
1 TAATGCCTGATCGATAACG-CATGACCGG
82642 TAATGCCTGA
1 TAATGCCTGA
82652 CCGGATGAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
28 30 0.97
29 1 0.03
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (28 bp):
TAATGCCTGATCGATAACGCATGACCGG
Found at i:84771 original size:51 final size:51
Alignment explanation
Indices: 84710--84847 Score: 158
Period size: 50 Copynumber: 2.7 Consensus size: 51
84700 TGCATGACTT
*
84710 GATTTAATGATGCAAACTTTAACTAACATGGGAGTTACATAATGCATGAT-AG
1 GATTT-ATGATGCAAACTTTAACTAACATGAGAGTTACATAATGCATG-TCAG
* * * *
84762 GATTTATGATGCATA-TTTAACTAACATGTA-AGATACTTAATGCATGTCAT
1 GATTTATGATGCAAACTTTAACTAACATG-AGAGTTACATAATGCATGTCAG
*
84812 TATTTATGATGCAAAC-TTAACTAATCATGAGAGTTA
1 GATTTATGATGCAAACTTTAACTAA-CATGAGAGTTA
84848 ATGGATGTCA
Statistics
Matches: 73, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
49 1 0.01
50 50 0.68
51 17 0.23
52 5 0.07
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.35
Consensus pattern (51 bp):
GATTTATGATGCAAACTTTAACTAACATGAGAGTTACATAATGCATGTCAG
Found at i:84803 original size:50 final size:50
Alignment explanation
Indices: 84693--84840 Score: 156
Period size: 50 Copynumber: 2.9 Consensus size: 50
84683 ACTAATGGAT
* * *
84693 TACTAAATGCATGACT-TGATTTAATGATGCAAACTTTAACTAACATGGGAGT
1 TACTTAATGCATGA-TATGATTT-ATGATGCAAA-TTTAACTAACATGGAAGA
* * * *
84745 TACATAATGCATGATAGGATTTATGATGCATATTTAACTAACATGTAAGA
1 TACTTAATGCATGATATGATTTATGATGCAAATTTAACTAACATGGAAGA
* *
84795 TACTTAATGCATG-TCATTATTTATGATGCAAACTTAACTAATCATG
1 TACTTAATGCATGAT-ATGATTTATGATGCAAATTTAACTAA-CATG
84841 AGAGTTAATG
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
49 1 0.01
50 49 0.60
51 14 0.17
52 17 0.21
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (50 bp):
TACTTAATGCATGATATGATTTATGATGCAAATTTAACTAACATGGAAGA
Found at i:85062 original size:17 final size:17
Alignment explanation
Indices: 85042--85074 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
85032 AAAACACTTA
85042 TTAAACTAAAA-TAAAAC
1 TTAAA-TAAAATTAAAAC
85059 TTAAATAAAATTAAAA
1 TTAAATAAAATTAAAA
85075 AGTCCTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (17 bp):
TTAAATAAAATTAAAAC
Found at i:87220 original size:13 final size:13
Alignment explanation
Indices: 87202--87226 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87192 TTTTTTTTAA
87202 TTTTTAATTAATG
1 TTTTTAATTAATG
87215 TTTTTAATTAAT
1 TTTTTAATTAAT
87227 AAATATATTG
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:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:88519 original size:16 final size:16
Alignment explanation
Indices: 88498--88528 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
88488 CCTGTTATTT
88498 CAACATTTTTAATAAA
1 CAACATTTTTAATAAA
88514 CAACATTTTTAATAA
1 CAACATTTTTAATAA
88529 TGCTTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (16 bp):
CAACATTTTTAATAAA
Found at i:94800 original size:19 final size:18
Alignment explanation
Indices: 94701--94807 Score: 67
Period size: 18 Copynumber: 5.8 Consensus size: 18
94691 ATATAAAAAA
*
94701 ATAAAAATTATTAAATTTT
1 ATAAAAATT-GTAAATTTT
* *
94720 A-AAAAATATATAAAATTT
1 ATAAAAAT-TGTAAATTTT
**
94738 ATTAAAAATTAG-ATTTTTT
1 A-TAAAAATT-GTAAATTTT
* **
94757 ATAAAAATCGTAAAAATT
1 ATAAAAATTGTAAATTTT
94775 ATAAAAAATTGTAAACTTTT
1 AT-AAAAATTGTAAA-TTTT
94795 ATAAAAATT-TAAA
1 ATAAAAATTGTAAA
94808 AAAATTTATA
Statistics
Matches: 67, Mismatches: 14, Indels: 15
0.70 0.15 0.16
Matches are distributed among these distances:
17 1 0.01
18 30 0.45
19 26 0.39
20 10 0.15
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (18 bp):
ATAAAAATTGTAAATTTT
Found at i:95720 original size:20 final size:20
Alignment explanation
Indices: 95678--95748 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
95668 AGTTTAGGGT
* * *
95678 TTTAGGTTTGAA-TTTAAGT
1 TTTAGGTTTAAAGCTTAAGG
*
95697 TTTAGGGTTTAAAGGTT-AGG
1 TTTA-GGTTTAAAGCTTAAGG
95717 TTTA-GTTTAAAAGCTTAAGG
1 TTTAGGTTT-AAAGCTTAAGG
95737 TTTAAGGTTTAA
1 TTT-AGGTTTAA
95749 GGTGTTACAG
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
18 4 0.10
19 10 0.24
20 19 0.45
21 5 0.12
22 4 0.10
ACGTcount: A:0.30, C:0.01, G:0.24, T:0.45
Consensus pattern (20 bp):
TTTAGGTTTAAAGCTTAAGG
Found at i:98346 original size:31 final size:31
Alignment explanation
Indices: 98308--98409 Score: 118
Period size: 31 Copynumber: 3.3 Consensus size: 31
98298 TATCCCTGTC
* *
98308 GAGGATATCCCATTTTAAGGATATCTCAATTT
1 GAGGATATCCCATTCT-AGGATATCCCAATTT
**
98340 GA-GATATCCCGCTCTAGGTATATCCCAA-TT
1 GAGGATATCCCATTCTAGG-ATATCCCAATTT
*
98370 GAGGACATCCCATTCTAGAGATATCCCAATTT
1 GAGGATATCCCATTCTAG-GATATCCCAATTT
98402 GAGGATAT
1 GAGGATAT
98410 TAGGGCTTAG
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
30 7 0.12
31 39 0.67
32 12 0.21
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (31 bp):
GAGGATATCCCATTCTAGGATATCCCAATTT
Found at i:98408 original size:16 final size:16
Alignment explanation
Indices: 98308--98409 Score: 79
Period size: 16 Copynumber: 6.5 Consensus size: 16
98298 TATCCCTGTC
*
98308 GAGGATATCCCATTTT
1 GAGGATATCCCAATTT
* *
98324 AAGGATATCTCAATTT
1 GAGGATATCCCAATTT
** *
98340 GA-GATATCCCGCTCT
1 GAGGATATCCCAATTT
98355 -AGGTATATCCCAA-TT
1 GAGG-ATATCCCAATTT
*
98370 GAGGACATCCC-ATTCT
1 GAGGATATCCCAATT-T
98386 -AGAGATATCCCAATTT
1 GAG-GATATCCCAATTT
98402 GAGGATAT
1 GAGGATAT
98410 TAGGGCTTAG
Statistics
Matches: 65, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
14 2 0.03
15 20 0.31
16 38 0.58
17 5 0.08
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (16 bp):
GAGGATATCCCAATTT
Found at i:98466 original size:22 final size:22
Alignment explanation
Indices: 98441--98517 Score: 102
Period size: 22 Copynumber: 3.5 Consensus size: 22
98431 CAATTTTGGG
98441 TTTTAAGGTTTAGGGATTATGA
1 TTTTAAGGTTTAGGGATTATGA
* * *
98463 TTTTAAGGTTTGGGGTTTAAG-
1 TTTTAAGGTTTAGGGATTATGA
*
98484 TTTTATGGTTTAGGGATTATGA
1 TTTTAAGGTTTAGGGATTATGA
*
98506 TCTTAAGGTTTA
1 TTTTAAGGTTTA
98518 AGATTTAGGG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 17 0.38
22 28 0.62
ACGTcount: A:0.23, C:0.01, G:0.27, T:0.48
Consensus pattern (22 bp):
TTTTAAGGTTTAGGGATTATGA
Found at i:98630 original size:28 final size:28
Alignment explanation
Indices: 98599--98655 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
98589 ATGCCTGACT
98599 GATAACATTTGACAGATAACGCCTCATC
1 GATAACATTTGACAGATAACGCCTCATC
** * * *
98627 GATAATGTTTGACCGGTAACGCCTGATC
1 GATAACATTTGACAGATAACGCCTCATC
98655 G
1 G
98656 GTTATACCTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (28 bp):
GATAACATTTGACAGATAACGCCTCATC
Found at i:99387 original size:20 final size:20
Alignment explanation
Indices: 99362--99401 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
99352 AAGCAAAAGA
99362 GAAGAAAAAGAAAAGAAATT
1 GAAGAAAAAGAAAAGAAATT
* *
99382 GAAGAAGAAGAAGAGAAATT
1 GAAGAAAAAGAAAAGAAATT
99402 TTACTAGAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.25, T:0.10
Consensus pattern (20 bp):
GAAGAAAAAGAAAAGAAATT
Found at i:102423 original size:35 final size:35
Alignment explanation
Indices: 102383--102464 Score: 112
Period size: 35 Copynumber: 2.3 Consensus size: 35
102373 GAATTTGATG
*
102383 TCGATTTTTATTGTGATTTTTTATTTAGGGTT-TAT
1 TCGATTTTTATTGTGATTTTTGATTTAGGGTTAT-T
* *
102418 TCGATTTTGATTTTGATTTTTGATTTAGGGTTATT
1 TCGATTTTTATTGTGATTTTTGATTTAGGGTTATT
*
102453 TCAATTTTTATT
1 TCGATTTTTATT
102465 AGATTTTAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
35 40 0.98
36 1 0.02
ACGTcount: A:0.18, C:0.04, G:0.16, T:0.62
Consensus pattern (35 bp):
TCGATTTTTATTGTGATTTTTGATTTAGGGTTATT
Found at i:103782 original size:30 final size:29
Alignment explanation
Indices: 103746--103935 Score: 103
Period size: 30 Copynumber: 6.6 Consensus size: 29
103736 ACCCCTAAAA
*
103746 TTTCCAAAATTCTAAAATTT-ACCCTTGAAC
1 TTTCCAAAATTC--AAATTTAACCCTCGAAC
103776 TTTCCAAAAATTCAAATTTAACCCTCGAAC
1 TTTCC-AAAATTCAAATTTAACCCTCGAAC
* * *
103806 TTT--ACAA---AAA-TT-CCCCT-AAAC
1 TTTCCAAAATTCAAATTTAACCCTCGAAC
** ** *
103827 TTTCCAAAAATTTGAATTTGTCCCTTGAAC
1 TTTCC-AAAATTCAAATTTAACCCTCGAAC
** *
103857 TTTCCAAAAATTTGAATTTAACCC-CTAAAC
1 TTTCC-AAAATTCAAATTTAACCCTC-GAAC
* *
103887 TTTCCAAAAATTCAAATTTAACCCGCAAAC
1 TTTCC-AAAATTCAAATTTAACCCTCGAAC
*
103917 TTTCCAAAAATTTAAATTT
1 TTTCC-AAAATTCAAATTT
103936 TGACTCGATT
Statistics
Matches: 132, Mismatches: 15, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
21 6 0.05
22 4 0.03
23 2 0.02
24 6 0.05
27 5 0.04
28 2 0.02
29 10 0.08
30 89 0.67
31 8 0.06
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.34
Consensus pattern (29 bp):
TTTCCAAAATTCAAATTTAACCCTCGAAC
Found at i:103875 original size:81 final size:81
Alignment explanation
Indices: 103737--103899 Score: 215
Period size: 81 Copynumber: 2.0 Consensus size: 81
103727 TATGTTTTGA
103737 CCCCTAAAATTTCCAAAATTCTAAAATTTACCCTTGAACTTTCCAAAAATTCAAATTTAA-CCCT
1 CCCCTAAAATTTCCAAAATTCTAAAATTTACCCTTGAACTTTCCAAAAATTCAAATTTAACCCCT
*
103801 CGAACTTTACAAAAATT
66 -AAACTTTACAAAAATT
* * * **
103818 CCCCTAAACTTTCCAAAAATT-T-GAATTTGTCCCTTGAACTTTCCAAAAATTTGAATTTAACCC
1 CCCCTAAAATTTCC-AAAATTCTAAAATTT-ACCCTTGAACTTTCCAAAAATTCAAATTTAACCC
*
103881 CTAAACTTTCCAAAAATT
64 CTAAACTTTACAAAAATT
103899 C
1 C
103900 AAATTTAACC
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
80 5 0.07
81 57 0.79
82 10 0.14
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.33
Consensus pattern (81 bp):
CCCCTAAAATTTCCAAAATTCTAAAATTTACCCTTGAACTTTCCAAAAATTCAAATTTAACCCCT
AAACTTTACAAAAATT
Found at i:103918 original size:60 final size:60
Alignment explanation
Indices: 103818--103935 Score: 164
Period size: 60 Copynumber: 2.0 Consensus size: 60
103808 TACAAAAATT
** ** *** *
103818 CCCCTAAACTTTCCAAAAATTTGAATTTGTCCCTTGAACTTTCCAAAAATTTGAATTTAA
1 CCCCTAAACTTTCCAAAAATTCAAATTTAACCCGCAAACTTTCCAAAAATTTAAATTTAA
103878 CCCCTAAACTTTCCAAAAATTCAAATTTAACCCGCAAACTTTCCAAAAATTTAAATTT
1 CCCCTAAACTTTCCAAAAATTCAAATTTAACCCGCAAACTTTCCAAAAATTTAAATTT
103936 TGACTCGATT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.34
Consensus pattern (60 bp):
CCCCTAAACTTTCCAAAAATTCAAATTTAACCCGCAAACTTTCCAAAAATTTAAATTTAA
Found at i:112931 original size:12 final size:12
Alignment explanation
Indices: 112912--112943 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
112902 CAACATTTGT
112912 TATTTTGACTAA
1 TATTTTGACTAA
*
112924 TGTTTTGACTAA
1 TATTTTGACTAA
112936 TATTTTGA
1 TATTTTGA
112944 TATCTTCTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.53
Consensus pattern (12 bp):
TATTTTGACTAA
Found at i:113580 original size:50 final size:50
Alignment explanation
Indices: 113521--113627 Score: 142
Period size: 50 Copynumber: 2.1 Consensus size: 50
113511 AGAGGAACAA
**
113521 ATTGAAGCCGCAATAGCAAATCTCATACACCTAAATTTGTAAAGGGGCAG
1 ATTGAAGCCGCAATAGCAAATCTCATACACCTAAAGCTGTAAAGGGGCAG
* * * * * *
113571 ATTGAAGCCGCAATGGCATATCTCATTCACTTAAAGCTGTAGAGTGGCAG
1 ATTGAAGCCGCAATAGCAAATCTCATACACCTAAAGCTGTAAAGGGGCAG
113621 ATTGAAG
1 ATTGAAG
113628 TTGCAAGGGC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (50 bp):
ATTGAAGCCGCAATAGCAAATCTCATACACCTAAAGCTGTAAAGGGGCAG
Found at i:113736 original size:40 final size:40
Alignment explanation
Indices: 113675--114096 Score: 392
Period size: 40 Copynumber: 10.5 Consensus size: 40
113665 GAGCAAAGTT
* *
113675 ACAACTCCAAATCTTTTACCCCGATCATGGGGCAGATTGAAG
1 ACAA-TCC-AATCTTTTACCCCAACCATGGGGCAGATTGAAG
* * * *
113717 ACCATCCAATCCTTTACCCCGACCATGAGGCAGATTGAAG
1 ACAATCCAATCTTTTACCCCAACCATGGGGCAGATTGAAG
** *
113757 --AATCCAATCTTTTACCCCGGCCATGGGGTAGATTGAAG
1 ACAATCCAATCTTTTACCCCAACCATGGGGCAGATTGAAG
* * * *
113795 ACTATCCAATCTTTTACCCTAATCA-GAGGGCAGATTGATTG
1 ACAATCCAATCTTTTACCCCAACCATG-GGGCAGATTGA-AG
* * * *
113836 AAGTAACCCAATCTTTTACCCTAACCA-GAGGGCATATTGAAG
1 -A-CAATCCAATCTTTTACCCCAACCATG-GGGCAGATTGAAG
* * *
113878 ACCATCCAATCTTTTTCCCCAACTATGGGGCAGATTGAAG
1 ACAATCCAATCTTTTACCCCAACCATGGGGCAGATTGAAG
* * *
113918 ACTATCCAATCTTTTACCCTAATCA-GAGGGCAGATTGAAG
1 ACAATCCAATCTTTTACCCCAACCATG-GGGCAGATTGAAG
* *
113958 -CAATCCAATCTTTTACCCTAACTA-GAGGGCAGATTGAAG
1 ACAATCCAATCTTTTACCCCAACCATG-GGGCAGATTGAAG
* * * * *
113997 ACTATCCAATCTTTTACCCCGACCATAAGGACAAATTGAAG
1 ACAATCCAATCTTTTACCCCAACCAT-GGGGCAGATTGAAG
* * * *
114038 ACCATCCGATCTCTTACCCCAACCATGGGGTAGATTGAAG
1 ACAATCCAATCTTTTACCCCAACCATGGGGCAGATTGAAG
114078 -CAATCCAATCTTTTACCCC
1 ACAATCCAATCTTTTACCCC
114097 TAAAGCTATA
Statistics
Matches: 314, Mismatches: 55, Indels: 25
0.80 0.14 0.06
Matches are distributed among these distances:
38 33 0.11
39 54 0.17
40 151 0.48
41 39 0.12
42 5 0.02
43 32 0.10
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (40 bp):
ACAATCCAATCTTTTACCCCAACCATGGGGCAGATTGAAG
Found at i:113913 original size:123 final size:118
Alignment explanation
Indices: 113684--114095 Score: 454
Period size: 119 Copynumber: 3.4 Consensus size: 118
113674 TACAACTCCA
** * * * **
113684 AATCTTTTACCCCGATCATG-GGGCAGATTGAAGACCATCCAATCCTTTACCCCGACCATGA-GG
1 AATCTTTTACCCTAATCA-GAGGGCAGATTGAAG-CAACCCAATCTTTTACCCTAACCA-GAGGG
** *
113747 CAGATTGAAGA-ATCCAATCTTTTACCCCGGCCATGGGGTAGATTGAAGACTATCC
63 CAGATTGAAGACATCCAATCTTTTACCCCAACCATGGGGCAGATTGAAGACTATCC
*
113802 AATCTTTTACCCTAATCAGAGGGCAGATTGATTGAAGTAACCCAATCTTTTACCCTAACCAGAGG
1 AATCTTTTACCCTAATCAGAGGGC--A--GATTGAAGCAACCCAATCTTTTACCCTAACCAGAGG
* * *
113867 GCATATTGAAGACCATCCAATCTTTTTCCCCAACTATGGGGCAGATTGAAGACTATCC
62 GCAGATTGAAGA-CATCCAATCTTTTACCCCAACCATGGGGCAGATTGAAGACTATCC
* *
113925 AATCTTTTACCCTAATCAGAGGGCAGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGGGCAG
1 AATCTTTTACCCTAATCAGAGGGCAGATTGAAGCAACCCAATCTTTTACCCTAACCAGAGGGCAG
* * * * *
113990 ATTGAAGACTATCCAATCTTTTACCCCGACCATAAGGACAAATTGAAGACCATCC
66 ATTGAAGAC-ATCCAATCTTTTACCCCAACCAT-GGGGCAGATTGAAGACTATCC
* * * * * *
114045 GATCTCTTACCCCAACCATG-GGGTAGATTGAAGCAATCCAATCTTTTACCC
1 AATCTTTTACCCTAATCA-GAGGGCAGATTGAAGCAACCCAATCTTTTACCC
114096 CTAAAGCTAT
Statistics
Matches: 253, Mismatches: 30, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
117 1 0.00
118 21 0.08
119 64 0.25
120 64 0.25
121 32 0.13
122 8 0.03
123 63 0.25
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (118 bp):
AATCTTTTACCCTAATCAGAGGGCAGATTGAAGCAACCCAATCTTTTACCCTAACCAGAGGGCAG
ATTGAAGACATCCAATCTTTTACCCCAACCATGGGGCAGATTGAAGACTATCC
Found at i:114382 original size:50 final size:48
Alignment explanation
Indices: 114251--114465 Score: 137
Period size: 50 Copynumber: 4.3 Consensus size: 48
114241 CTAAAATTAT
**
114251 AGTGGATTAGATTGAAGCTAC-AAAGGCAAATCCTTAT-CTCTCTGAAGTTGC
1 AGTGGATCGGATT-AAGCTACGAAA-GCAAAT-CTTATAC-C-CTGAAGTTGC
* * * * * *
114302 AATAGAGCAGGATGAAGCTACAAAACCAAATCTTATACCCTTGAAGTTGC
1 AGTGGATC-GGATTAAGCTACGAAAGCAAATCTTATACCC-TGAAGTTGC
* * * *
114352 AGTGGATCGGATTAAGGTCATGAAAGCAAATATTTATGTCCCTGAAGTTGC
1 AGTGGATCGGATTAAGCT-ACGAAAGCAAAT-CTTAT-ACCCTGAAGTTGC
* * * * *
114403 AGTGGAGCAAGATGAAGCTACGACATCAAATCTTATATCCCTGAAGTTGC
1 AGTGGATC-GGATTAAGCTACGAAAGCAAATCTTATA-CCCTGAAGTTGC
* *
114453 AGTGAATTGGATT
1 AGTGGATCGGATT
114466 GAGGCTACAT
Statistics
Matches: 124, Mismatches: 31, Indels: 20
0.71 0.18 0.11
Matches are distributed among these distances:
49 12 0.10
50 50 0.40
51 46 0.37
52 16 0.13
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (48 bp):
AGTGGATCGGATTAAGCTACGAAAGCAAATCTTATACCCTGAAGTTGC
Found at i:114764 original size:15 final size:16
Alignment explanation
Indices: 114727--114756 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
114717 GTTAAAAAAC
114727 TCATTTTTTTCATTTT
1 TCATTTTTTTCATTTT
114743 TCATTTTTTT-ATTT
1 TCATTTTTTTCATTT
114757 ATTATTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (16 bp):
TCATTTTTTTCATTTT
Found at i:116013 original size:30 final size:30
Alignment explanation
Indices: 115969--116178 Score: 190
Period size: 30 Copynumber: 7.0 Consensus size: 30
115959 TTACTTTTTG
* * * *
115969 ACCCCCAAAATTTCCAAAAATCCAAATTTT
1 ACCCTCAAACTTTCCAAAAATTCAAATTTA
* * *
115999 ACCCTCGAACTTTCCAAAAATTAAAATTTG
1 ACCCTCAAACTTTCCAAAAATTCAAATTTA
* * ** ** *
116029 ACCCTTAAATTGTTAAAAAAAATTTGAATTTG
1 ACCCTCAAACT-TT-CCAAAAATTCAAATTTA
* * *
116061 ACCC-CAAACATTCTAAAAAATT-GAATTTA
1 ACCCTCAAACTTTC-CAAAAATTCAAATTTA
* *
116090 ACCCTTAAACTTTCCAAAAACTCAAATTTA
1 ACCCTCAAACTTTCCAAAAATTCAAATTTA
*
116120 ACCCTCAAACTTTACAAAAATTCAAATTTA
1 ACCCTCAAACTTTCCAAAAATTCAAATTTA
*
116150 ACCCTTAAACTTTCCAAAAATTCAAATTT
1 ACCCTCAAACTTTCCAAAAATTCAAATTT
116179 TGACTCGATT
Statistics
Matches: 147, Mismatches: 28, Indels: 10
0.79 0.15 0.05
Matches are distributed among these distances:
29 16 0.11
30 109 0.74
31 5 0.03
32 17 0.12
ACGTcount: A:0.44, C:0.22, G:0.03, T:0.31
Consensus pattern (30 bp):
ACCCTCAAACTTTCCAAAAATTCAAATTTA
Found at i:116398 original size:18 final size:19
Alignment explanation
Indices: 116351--116404 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 19
116341 ATCTACTTAA
*
116351 TTTATTAATT-TATTGTAT
1 TTTATTATTTATATTGTAT
* *
116369 TTT-TTGTATATATTGT-T
1 TTTATTATTTATATTGTAT
116386 TTTATTATTTATACTTGTA
1 TTTATTATTTATA-TTGTA
116405 AATCATGTGT
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
17 7 0.26
18 16 0.59
19 4 0.15
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (19 bp):
TTTATTATTTATATTGTAT
Found at i:117952 original size:20 final size:20
Alignment explanation
Indices: 117916--117953 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
117906 AAAATGCCTT
**
117916 TTGACCGTTAACTTTAACAG
1 TTGACCGTTAAAGTTAACAG
117936 TTGACCGTTAAAGTTAAC
1 TTGACCGTTAAAGTTAAC
117954 TATCCCTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (20 bp):
TTGACCGTTAAAGTTAACAG
Found at i:118143 original size:19 final size:18
Alignment explanation
Indices: 118038--118143 Score: 54
Period size: 19 Copynumber: 5.6 Consensus size: 18
118028 AAAAATTATT
118038 AAATTATTAAATTTTA-AA
1 AAATTA-TAAATTTTATAA
*
118056 AAATATATAAAATTTATTAA
1 AAAT-TATAAATTTTA-TAA
* **
118076 AAATTAGATTTTTTTATAA
1 AAATTATA-AATTTTATAA
* **
118095 ATATCGTA-AAAAATTATAA
1 AAAT--TATAAATTTTATAA
*
118114 AAACTTGTAAATTTTTATAA
1 AAA-TTATAAA-TTTTATAA
118134 AAATTATAAA
1 AAATTATAAA
118144 AAAATTATAA
Statistics
Matches: 64, Mismatches: 15, Indels: 17
0.67 0.16 0.18
Matches are distributed among these distances:
18 13 0.20
19 28 0.44
20 21 0.33
21 2 0.03
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.42
Consensus pattern (18 bp):
AAATTATAAATTTTATAA
Found at i:119265 original size:7 final size:7
Alignment explanation
Indices: 119250--119342 Score: 50
Period size: 7 Copynumber: 13.4 Consensus size: 7
119240 TTTGAGGATA
119250 TTAGGGT
1 TTAGGGT
*
119257 TTAGTGT
1 TTAGGGT
*
119264 TTTGGGT
1 TTAGGGT
**
119271 TT-GAAT
1 TTAGGGT
*
119277 TTAGGTT
1 TTAGGGT
119284 TTAGGGT
1 TTAGGGT
* *
119291 TTAAGGA
1 TTAGGGT
119298 TT-GGAGT
1 TTAGG-GT
119305 TTA-GGT
1 TTAGGGT
119311 TTAAGGGT
1 TT-AGGGT
*
119319 TT-GGAAT
1 TTAGG-GT
119326 TTAGGGT
1 TTAGGGT
*
119333 TTAAGGT
1 TTAGGGT
119340 TTA
1 TTA
119343 TGGTGTTATA
Statistics
Matches: 64, Mismatches: 15, Indels: 14
0.69 0.16 0.15
Matches are distributed among these distances:
6 11 0.17
7 46 0.72
8 7 0.11
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.46
Consensus pattern (7 bp):
TTAGGGT
Found at i:119340 original size:21 final size:21
Alignment explanation
Indices: 119283--119341 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
119273 GAATTTAGGT
* *
119283 TTTAGGGTTTAAGGATTGGAG
1 TTTAGGGTTTAAGGTTTGGAA
119304 TTTA-GGTTTAAGGGTTTGGAA
1 TTTAGGGTTTAA-GGTTTGGAA
119325 TTTAGGGTTTAAGGTTT
1 TTTAGGGTTTAAGGTTT
119342 ATGGTGTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.21
21 20 0.59
22 7 0.21
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.44
Consensus pattern (21 bp):
TTTAGGGTTTAAGGTTTGGAA
Found at i:119421 original size:14 final size:14
Alignment explanation
Indices: 119402--119428 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
119392 AATGCCTAAC
119402 TGGTAACACCTGAT
1 TGGTAACACCTGAT
119416 TGGTAACACCTGA
1 TGGTAACACCTGA
119429 CCAGTAACGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (14 bp):
TGGTAACACCTGAT
Found at i:119449 original size:42 final size:42
Alignment explanation
Indices: 119370--119450 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
119360 CATTAGGGCT
* * *
119370 TGATCGGTAACGCCTGACCGATAATGCCTAACTGGTAACACC
1 TGATCGGTAACACCTGACCGATAACGCCTAACCGGTAACACC
* *
119412 TGATTGGTAACACCTGACC-AGTAACGCTTAACCGGTAAC
1 TGATCGGTAACACCTGACCGA-TAACGCCTAACCGGTAAC
119451 GCTTGACCAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 1 0.03
42 32 0.97
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (42 bp):
TGATCGGTAACACCTGACCGATAACGCCTAACCGGTAACACC
Found at i:119463 original size:14 final size:14
Alignment explanation
Indices: 119426--119463 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
119416 TGGTAACACC
119426 TGACCAGTAACGCT
1 TGACCAGTAACGCT
* *
119440 TAACCGGTAACGCT
1 TGACCAGTAACGCT
119454 TGACCAGTAA
1 TGACCAGTAA
119464 TGCCTCATCG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (14 bp):
TGACCAGTAACGCT
Found at i:122894 original size:16 final size:16
Alignment explanation
Indices: 122875--122976 Score: 75
Period size: 16 Copynumber: 6.4 Consensus size: 16
122865 ATCCATGTCG
122875 AGGATATCCCATTCTA
1 AGGATATCCCATTCTA
* *
122891 AGGATATCCCAGTCTG
1 AGGATATCCCATTCTA
**
122907 A-GATATCCCGCTCTA
1 AGGATATCCCATTCTA
* * *
122922 AGTATATCCAAGTTC-G
1 AGGATATCCCA-TTCTA
*
122938 AGGACATCCCATTCT-
1 AGGATATCCCATTCTA
* *
122953 AGATATATCCCAATCTA
1 AG-GATATCCCATTCTA
122970 AGGATAT
1 AGGATAT
122977 TAGAGTTTAA
Statistics
Matches: 64, Mismatches: 17, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
15 17 0.27
16 43 0.67
17 4 0.06
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (16 bp):
AGGATATCCCATTCTA
Found at i:122897 original size:31 final size:30
Alignment explanation
Indices: 122862--122953 Score: 96
Period size: 31 Copynumber: 2.9 Consensus size: 30
122852 CCGTTCCATC
122862 GATATCCATGTCGAGGATATCCCATTCTAAG
1 GATATCCA-GTCGAGGATATCCCATTCTAAG
**
122893 GATATCCCAGTCTGA-GATATCCCGCTCTAAG
1 GATAT-CCAGTC-GAGGATATCCCATTCTAAG
* *
122924 TATATCCAAGTTCGAGGACATCCCATTCTA
1 GATATCC-AG-TCGAGGATATCCCATTCTA
122954 GATATATCCC
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
30 2 0.04
31 30 0.60
32 18 0.36
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (30 bp):
GATATCCAGTCGAGGATATCCCATTCTAAG
Found at i:123055 original size:21 final size:22
Alignment explanation
Indices: 123000--123059 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
122990 TTTGGGTTTA
* *
123000 GTTTTAGGTTTTAGGGTTTATGG
1 GTTTTATG-TTTAGGGTTTAGGG
*
123023 GTTATGAT-TTTAGGGTTT-GGG
1 GTT-TTATGTTTAGGGTTTAGGG
123044 GTTTTATGTTTAGGGT
1 GTTTTATGTTTAGGGT
123060 GTTATCGATC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
20 3 0.10
21 13 0.42
22 10 0.32
23 3 0.10
24 2 0.06
ACGTcount: A:0.13, C:0.00, G:0.35, T:0.52
Consensus pattern (22 bp):
GTTTTATGTTTAGGGTTTAGGG
Found at i:123107 original size:14 final size:14
Alignment explanation
Indices: 123090--123134 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
123080 GGTTAAGCCC
*
123090 TAATGCTTGACCGG
1 TAATGCCTGACCGG
*
123104 TAATGCCTGACTGG
1 TAATGCCTGACCGG
**
123118 TAACACCTGACCGG
1 TAATGCCTGACCGG
123132 TAA
1 TAA
123135 CGTCTTGTCG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (14 bp):
TAATGCCTGACCGG
Found at i:131769 original size:14 final size:15
Alignment explanation
Indices: 131750--131778 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
131740 GATATGTGAC
131750 AAAAAATTA-TAAAA
1 AAAAAATTATTAAAA
131764 AAAAAATTATTAAAA
1 AAAAAATTATTAAAA
131779 TTTTAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAAAATTATTAAAA
Found at i:131778 original size:10 final size:10
Alignment explanation
Indices: 131765--131809 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
131755 ATTATAAAAA
131765 AAAAATTATT
1 AAAAATTATT
131775 -AAAATT-TT
1 AAAAATTATT
131783 AAAAA-TATAT
1 AAAAATTAT-T
*
131793 AAAACTTATT
1 AAAAATTATT
131803 AAAAATT
1 AAAAATT
131810 GGATTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
8 3 0.10
9 11 0.38
10 12 0.41
11 3 0.10
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAAATTATT
Found at i:131873 original size:38 final size:39
Alignment explanation
Indices: 131782--131873 Score: 116
Period size: 38 Copynumber: 2.4 Consensus size: 39
131772 ATTAAAATTT
* **
131782 TAAAAA-TATATAAAACTTATTAAAAATTGGATTTTTTTA
1 TAAAAATTATA-AAAACTTATAAAAAATTGGAAATTTTTA
* *
131821 TAAAAATCATAAAAAC-TATAAAAAATTGTAAATTTTTA
1 TAAAAATTATAAAAACTTATAAAAAATTGGAAATTTTTA
131859 TAAAAATTATAAAAA
1 TAAAAATTATAAAAA
131874 AAATTATAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
38 32 0.70
39 11 0.24
40 3 0.07
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (39 bp):
TAAAAATTATAAAAACTTATAAAAAATTGGAAATTTTTA
Found at i:131875 original size:12 final size:12
Alignment explanation
Indices: 131860--131884 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
131850 AAATTTTTAT
131860 AAAAATTATAAA
1 AAAAATTATAAA
131872 AAAAATTATAAA
1 AAAAATTATAAA
131884 A
1 A
131885 TGCATCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAATTATAAA
Found at i:132098 original size:19 final size:19
Alignment explanation
Indices: 132053--132098 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
132043 ATTCTATAAT
*
132053 TTTTTATATTTTTTTACGA
1 TTTTTATATTTCTTTACGA
*
132072 ATTTTATATTTCTTTAC-A
1 TTTTTATATTTCTTTACGA
132090 TTTTCTATA
1 TTTT-TATA
132099 ACTTTCGCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTTATATTTCTTTACGA
Found at i:133486 original size:17 final size:17
Alignment explanation
Indices: 133464--133552 Score: 72
Period size: 17 Copynumber: 5.3 Consensus size: 17
133454 GTTTCATCTT
*
133464 TTAACTTTCCATCTTCC
1 TTAACCTTCCATCTTCC
** ***
133481 TTAA-CTTCTTTGACCC
1 TTAACCTTCCATCTTCC
133497 TTAACCTTCCATCTTCC
1 TTAACCTTCCATCTTCC
* * ** *
133514 TTAACCTCCCTTAATCT
1 TTAACCTTCCATCTTCC
133531 TTAACCTTCCATCTTCC
1 TTAACCTTCCATCTTCC
133548 TTAAC
1 TTAAC
133553 TTTTCATATT
Statistics
Matches: 50, Mismatches: 21, Indels: 2
0.68 0.29 0.03
Matches are distributed among these distances:
16 10 0.20
17 40 0.80
ACGTcount: A:0.20, C:0.36, G:0.01, T:0.43
Consensus pattern (17 bp):
TTAACCTTCCATCTTCC
Found at i:133540 original size:34 final size:34
Alignment explanation
Indices: 133463--133552 Score: 119
Period size: 34 Copynumber: 2.7 Consensus size: 34
133453 CGTTTCATCT
* * * *
133463 TTTAACTTTCCATCTTCCTTAA-CTTCTTTGACC
1 TTTAACCTTCCATCTTCCTTAACCTCCCTTAACC
* *
133496 CTTAACCTTCCATCTTCCTTAACCTCCCTTAATC
1 TTTAACCTTCCATCTTCCTTAACCTCCCTTAACC
133530 TTTAACCTTCCATCTTCCTTAAC
1 TTTAACCTTCCATCTTCCTTAAC
133553 TTTTCATATT
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 20 0.41
34 29 0.59
ACGTcount: A:0.20, C:0.36, G:0.01, T:0.43
Consensus pattern (34 bp):
TTTAACCTTCCATCTTCCTTAACCTCCCTTAACC
Found at i:138940 original size:34 final size:33
Alignment explanation
Indices: 138902--138994 Score: 114
Period size: 34 Copynumber: 2.7 Consensus size: 33
138892 CCTTTCATCT
*
138902 TTTAACCTTCCATCTTGCTTAACTTCCTTTGACC
1 TTTAACCTTCCATCTT-CTTAACTTCCCTTGACC
* * *
138936 TTTAACCTTCTATCTTTCTTAACCTCCCTTGATC
1 TTTAACCTTCCATC-TTCTTAACTTCCCTTGACC
*
138970 TTTAACCTTTCATCTTCTTTAACTT
1 TTTAACCTTCCATCTTC-TTAACTT
138995 TTCATATTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
33 3 0.06
34 45 0.90
35 2 0.04
ACGTcount: A:0.18, C:0.30, G:0.03, T:0.48
Consensus pattern (33 bp):
TTTAACCTTCCATCTTCTTAACTTCCCTTGACC
Found at i:138988 original size:17 final size:17
Alignment explanation
Indices: 138968--139010 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
138958 CCTCCCTTGA
*
138968 TCTTTAACCTTTCATCT
1 TCTTTAACCTTTCATAT
*
138985 TCTTTAACTTTTCATAT
1 TCTTTAACCTTTCATAT
139002 TCTTGTAAC
1 TCTT-TAAC
139011 TACTATTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.21, C:0.23, G:0.02, T:0.53
Consensus pattern (17 bp):
TCTTTAACCTTTCATAT
Found at i:142494 original size:80 final size:79
Alignment explanation
Indices: 142357--142520 Score: 242
Period size: 80 Copynumber: 2.1 Consensus size: 79
142347 TACAAGCACT
** * * * *
142357 AATTTCATTTTAACTCTTGTAGGGAAGCTAATGAGTCATGTGTCTTCATTAGTATCTGATGTAGT
1 AATTTCATTTTAACTCTTGTACAGAAGCCAATGAATCATGTCTCTTCATTAGGATCTGATGTAGT
142422 TGAAAACG-CATGGC
66 TGAAAA-GACATGGC
142436 AATTTCATTTTTAACTCTTGTACAGAAGCCAATGAATCATGTCTCTTCATTAGGATCTGATGTAG
1 AATTTCA-TTTTAACTCTTGTACAGAAGCCAATGAATCATGTCTCTTCATTAGGATCTGATGTAG
142501 TTGAAAAGACATGGC
65 TTGAAAAGACATGGC
142516 -ATTTC
1 AATTTC
142521 TCCTTAAATG
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
79 13 0.17
80 64 0.83
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (79 bp):
AATTTCATTTTAACTCTTGTACAGAAGCCAATGAATCATGTCTCTTCATTAGGATCTGATGTAGT
TGAAAAGACATGGC
Found at i:143084 original size:48 final size:46
Alignment explanation
Indices: 143032--143193 Score: 166
Period size: 48 Copynumber: 3.4 Consensus size: 46
143022 GCTGATGCGT
* * *
143032 TAATGCAAGGCATTTAACATAGATGCATTTAACAAACAAAACATTTAA
1 TAATGC-AGG-ATTAAACAAAGATGCATTTAACAAACAAAACACTTAA
*
143080 TAATGCA-GATTACCAAACAAAGATGCATTTAACAAACAAAATACTTAA
1 TAATGCAGGATT---AAACAAAGATGCATTTAACAAACAAAACACTTAA
* *
143128 TGATGCAGATTATTAAACAAAGATGCATTTAACAAACAAAACACTTAA
1 TAATGCAG--GATTAAACAAAGATGCATTTAACAAACAAAACACTTAA
**
143176 TGAA-GCATAATTAAACAA
1 T-AATGCAGGATTAAACAA
143194 CTTTATTTAT
Statistics
Matches: 97, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
45 3 0.03
46 10 0.10
47 1 0.01
48 79 0.81
49 1 0.01
51 3 0.03
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.25
Consensus pattern (46 bp):
TAATGCAGGATTAAACAAAGATGCATTTAACAAACAAAACACTTAA
Found at i:146447 original size:34 final size:34
Alignment explanation
Indices: 146404--146471 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
146394 CCTAGCAAAA
146404 GTTAAAGAGTTGATGGATGATAATCTTCCTTTCT
1 GTTAAAGAGTTGATGGATGATAATCTTCCTTTCT
146438 GTTAAAGAGTTGATGGATGATAATCTTCCTTTCT
1 GTTAAAGAGTTGATGGATGATAATCTTCCTTTCT
146472 CAATTGCGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (34 bp):
GTTAAAGAGTTGATGGATGATAATCTTCCTTTCT
Found at i:149587 original size:19 final size:19
Alignment explanation
Indices: 149563--149600 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
149553 ACACATTTGG
*
149563 TTTACTTTCAGTACATTGA
1 TTTACTTTCAATACATTGA
149582 TTTACTTTCAATACATTGA
1 TTTACTTTCAATACATTGA
149601 CATTTAACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.47
Consensus pattern (19 bp):
TTTACTTTCAATACATTGA
Found at i:159906 original size:367 final size:367
Alignment explanation
Indices: 159233--159951 Score: 1402
Period size: 367 Copynumber: 2.0 Consensus size: 367
159223 GTACTCTAAC
159233 TAACTTTGACAGCTGTAAAATCTAAATCTGCATATGAGAATGGGAGGTTGAAACTGTAACTTTTG
1 TAACTTTGACAGCTGTAAAATCTAAATCTGCATATGAGAATGGGAGGTTGAAACTGTAACTTTTG
159298 AAGGTTATAAATAGAAGAATGAAGAACTCATCAAGAGGTAGAGGATTAAATTCTGCAATTTTTGT
66 AAGGTTATAAATAGAAGAATGAAGAACTCATCAAGAGGTAGAGGATTAAATTCTGCAATTTTTGT
159363 GTGATTTGGAGACTTTAGCTGGAACGGTGAACTGATGGAGCAAGGGAGCAACTATTTCTGACGAG
131 GTGATTTGGAGACTTTAGCTGGAACGGTGAACTGATGGAGCAAGGGAGCAACTATTTCTGACGAG
159428 AGATGCTTGATGCAAAGTAAGAGAAACGATTAAGGAATAGTCCTAGTAATCTAGAGATAGTAAGC
196 AGATGCTTGATGCAAAGTAAGAGAAACGATTAAGGAATAGTCCTAGTAATCTAGAGATAGTAAGC
* **
159493 TTTGATTGTATTCTTTAATCTTTCTTTTATGCTGATGGATTCTAATGACAATTGAATGAATACGA
261 TTCGATTGTATTCTTTAATCTTTCTTTTACACTGATGGATTCTAATGACAATTGAATGAATACGA
159558 GAGTCTCTTTCATTGTTAGATCACTTTTGAAGGTTGAAACTG
326 GAGTCTCTTTCATTGTTAGATCACTTTTGAAGGTTGAAACTG
*
159600 TAACTTTGACAGCTGTAAAATCTAAATCTGGATATGAGAATGGGAGGTTGAAACTGTAACTTTTG
1 TAACTTTGACAGCTGTAAAATCTAAATCTGCATATGAGAATGGGAGGTTGAAACTGTAACTTTTG
159665 AAGGTTATAAATAGAAGAATGAAGAACTCATCAAGAGGTAGAGGATTAAATTCTGCAATTTTTGT
66 AAGGTTATAAATAGAAGAATGAAGAACTCATCAAGAGGTAGAGGATTAAATTCTGCAATTTTTGT
159730 GTGATTTGGAGACTTTAGCTGGAACGGTGAACTGATGGAGCAAGGGAGCAACTATTTCTGACGAG
131 GTGATTTGGAGACTTTAGCTGGAACGGTGAACTGATGGAGCAAGGGAGCAACTATTTCTGACGAG
159795 AGATGCTTGATGCAAAGTAAGAGAAACGATTAAGGAATAGTCCTAGTAATCTAGAGATAGTAAGC
196 AGATGCTTGATGCAAAGTAAGAGAAACGATTAAGGAATAGTCCTAGTAATCTAGAGATAGTAAGC
159860 TTCGATTGTATTCTTTAATCTTTCTTTTACACTGATGGATTCTAATGACAATTGAATGAATACGA
261 TTCGATTGTATTCTTTAATCTTTCTTTTACACTGATGGATTCTAATGACAATTGAATGAATACGA
159925 GAGTCTCTTTCATTGTTAGATCACTTT
326 GAGTCTCTTTCATTGTTAGATCACTTT
159952 GACTCTTATT
Statistics
Matches: 348, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
367 348 1.00
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (367 bp):
TAACTTTGACAGCTGTAAAATCTAAATCTGCATATGAGAATGGGAGGTTGAAACTGTAACTTTTG
AAGGTTATAAATAGAAGAATGAAGAACTCATCAAGAGGTAGAGGATTAAATTCTGCAATTTTTGT
GTGATTTGGAGACTTTAGCTGGAACGGTGAACTGATGGAGCAAGGGAGCAACTATTTCTGACGAG
AGATGCTTGATGCAAAGTAAGAGAAACGATTAAGGAATAGTCCTAGTAATCTAGAGATAGTAAGC
TTCGATTGTATTCTTTAATCTTTCTTTTACACTGATGGATTCTAATGACAATTGAATGAATACGA
GAGTCTCTTTCATTGTTAGATCACTTTTGAAGGTTGAAACTG
Found at i:160411 original size:42 final size:42
Alignment explanation
Indices: 160364--160793 Score: 518
Period size: 42 Copynumber: 10.5 Consensus size: 42
160354 TAAATTGAAG
* *
160364 TCATCCAATCTCTTACCCCGATCATGGGGCAGATTTAAGACA
1 TCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACA
* *
160406 TCATCCAACCTCTTACCCCGATCATGGGGCAGATTGAAG-C-
1 TCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACA
* * * *
160446 -CATCCAATCTCTTACCCCGATCATGGGGCAAATTGCAGAAA
1 TCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACA
* * * *
160487 TCATCCAATCTCTTACCTCAATAATAGGGCAGATTGAAGATA
1 TCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACA
* * * *
160529 TCATTCAATCTCTTACCCCGATCATAGGGTAGATTGAAGACA
1 TCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACA
* **
160571 TCATTCAATCTCTTACCCTGATCATGGGGCAGATTGAAG---
1 TCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACA
* **
160610 TTATCCAATCTCTTACCCCAATCATGGGATAGATTGAAGACA
1 TCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACA
* *
160652 TCATCCAATCTCTTAACCTAATCATGGGGCAGATTGAAG---
1 TCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACA
*
160691 TCATCCAATCTCTTACCCCAATCATGGGGTAGATTGAAGACA
1 TCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACA
* * * *
160733 TCATCCAATCTCTTACCCTAATCATGAGGCAGACTGAAGCCA
1 TCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACA
* *
160775 CCATCCAATCTTTTACCCC
1 TCATCCAATCTCTTACCCC
160794 TAAATCAAGA
Statistics
Matches: 335, Mismatches: 44, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
39 104 0.31
41 1 0.00
42 230 0.69
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (42 bp):
TCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACA
Found at i:160490 original size:81 final size:81
Alignment explanation
Indices: 160357--160771 Score: 580
Period size: 81 Copynumber: 5.1 Consensus size: 81
160347 CATAGGGTAA
* * *
160357 ATTGAAGTCATCCAATCTCTTACCCCGATCATGGGGCAGATTTAAGACATCATCCAACCTCTTAC
1 ATTGAAGTCATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAGACATCATCCAATCTCTTAC
**
160422 CCCGATCATGGGGCAG
66 CCTAATCATGGGGCAG
* * * * *
160438 ATTGAAGCCATCCAATCTCTTACCCCGATCATGGGGCAAATTGCAGAAATCATCCAATCTCTTA-
1 ATTGAAGTCATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAGACATCATCCAATCTCTTAC
* *
160502 CCTCAATAATAGGGCAG
66 CCT-AATCATGGGGCAG
* * *
160519 ATTGAAGATATCATTCAATCTCTTACCCCGATCATAGGGTAGATTGAAGACATCATTCAATCTCT
1 ATTGAAG---TCATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAGACATCATCCAATCTCT
*
160584 TACCCTGATCATGGGGCAG
63 TACCCTAATCATGGGGCAG
* * * *
160603 ATTGAAGTTATCCAATCTCTTACCCCAATCATGGGATAGATTGAAGACATCATCCAATCTCTTAA
1 ATTGAAGTCATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAGACATCATCCAATCTCTTAC
160668 CCTAATCATGGGGCAG
66 CCTAATCATGGGGCAG
*
160684 ATTGAAGTCATCCAATCTCTTACCCCAATCATGGGGTAGATTGAAGACATCATCCAATCTCTTAC
1 ATTGAAGTCATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAGACATCATCCAATCTCTTAC
*
160749 CCTAATCATGAGGCAG
66 CCTAATCATGGGGCAG
*
160765 ACTGAAG
1 ATTGAAG
160772 CCACCATCCA
Statistics
Matches: 295, Mismatches: 34, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
80 2 0.01
81 224 0.76
84 66 0.22
85 3 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (81 bp):
ATTGAAGTCATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAGACATCATCCAATCTCTTAC
CCTAATCATGGGGCAG
Found at i:160616 original size:123 final size:120
Alignment explanation
Indices: 160357--160793 Score: 527
Period size: 123 Copynumber: 3.6 Consensus size: 120
160347 CATAGGGTAA
* * *
160357 ATTGAAGTCATCCAATCTCTTACCCCGATCATGGGGCAGATTTAAGACATCATCCAACCTCTTAC
1 ATTGAAGTCATCCAATCTCTTACCCCAATCAT-GGGCAGATTGAAGACATCATCCAATCTCTTAC
*
160422 CCCGATCATGGGGCAGATTGAAGC-CATCCAATCTCTTACCCCGATCATGGGGCAA
65 CCCGATCATGGGGCAGATTGAAGCTCATCCAATCTCTTACCCCGATCATGGGGCAG
* * * * *
160477 ATTGCAGAAATCATCCAATCTCTTACCTCAATAATAGGGCAGATTGAAGATATCATTCAATCTCT
1 ATT---GAAGTCATCCAATCTCTTACCCCAATCAT-GGGCAGATTGAAGACATCATCCAATCTCT
* * * *
160542 TACCCCGATCATAGGGTAGATTGAAGACATCATTCAATCTCTTACCCTGATCATGGGGCAG
62 TACCCCGATCATGGGGCAGATTGAAG-C-TCATCCAATCTCTTACCCCGATCATGGGGCAG
* * *
160603 ATTGAAGTTATCCAATCTCTTACCCCAATCATGGGATAGATTGAAGACATCATCCAATCTCTTAA
1 ATTGAAGTCATCCAATCTCTTACCCCAATCATGGG-CAGATTGAAGACATCATCCAATCTCTTAC
** * *
160668 CCTAATCATGGGGCAGATTGAAG-TCATCCAATCTCTTACCCCAATCATGGGGTAG
65 CCCGATCATGGGGCAGATTGAAGCTCATCCAATCTCTTACCCCGATCATGGGGCAG
* * * * *
160723 ATTGAAGACATCATCCAATCTCTTACCCTAATCATGAGGCAGACTGAAGCCACCATCCAATCTTT
1 ATTGAAG---TCATCCAATCTCTTACCCCAATCATG-GGCAGATTGAAGACATCATCCAATCTCT
160788 TACCCC
62 TACCCC
160794 TAAATCAAGA
Statistics
Matches: 267, Mismatches: 39, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
120 38 0.14
122 3 0.01
123 192 0.72
124 3 0.01
126 31 0.12
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (120 bp):
ATTGAAGTCATCCAATCTCTTACCCCAATCATGGGCAGATTGAAGACATCATCCAATCTCTTACC
CCGATCATGGGGCAGATTGAAGCTCATCCAATCTCTTACCCCGATCATGGGGCAG
Found at i:161155 original size:13 final size:12
Alignment explanation
Indices: 161132--161165 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
161122 TGACCGGTAC
*
161132 AAAATAAAACAA
1 AAAACAAAACAA
161144 AAAACCAAAACAA
1 AAAA-CAAAACAA
161157 AAAACAAAA
1 AAAACAAAA
161166 AATAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.82, C:0.15, G:0.00, T:0.03
Consensus pattern (12 bp):
AAAACAAAACAA
Found at i:161166 original size:13 final size:13
Alignment explanation
Indices: 161137--161166 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
161127 GGTACAAAAT
*
161137 AAAACAAAAAACC
1 AAAACAAAAAACA
161150 AAAACAAAAAACA
1 AAAACAAAAAACA
161163 AAAA
1 AAAA
161167 ATAAATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAACAAAAAACA
Found at i:161289 original size:14 final size:15
Alignment explanation
Indices: 161263--161292 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
161253 ATTACAAGCC
161263 CAATTCAAACCCAAA
1 CAATTCAAACCCAAA
161278 CAATTC-AACCCAAA
1 CAATTCAAACCCAAA
161292 C
1 C
161293 TTAAGAAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.50, C:0.37, G:0.00, T:0.13
Consensus pattern (15 bp):
CAATTCAAACCCAAA
Found at i:162674 original size:30 final size:30
Alignment explanation
Indices: 162638--162821 Score: 198
Period size: 29 Copynumber: 6.2 Consensus size: 30
162628 CCCTGTTTTA
* *
162638 TCCAAAAATTCAAATTTAACCCCTAAAC-T
1 TCCAAAAATTTAATTTTAACCCCTAAACTT
* * *
162667 TCTCAAAAATTTAGTTTTGA-CCCTCGAACTT
1 TC-CAAAAATTTAATTTTAACCCCT-AAACTT
*
162698 T-CAAAAATTTGATTTTAACCCCTAAACTT
1 TCCAAAAATTTAATTTTAACCCCTAAACTT
* * * * *
162727 TCCAAAATTTTGATTTTATCCCTTAAAATT
1 TCCAAAAATTTAATTTTAACCCCTAAACTT
* *
162757 TCCAAAAATTTGA-TTTGACCCCTAAACTT
1 TCCAAAAATTTAATTTTAACCCCTAAACTT
162786 TCCAAAAATTT-ATTTTAACCCCTAAACTT
1 TCCAAAAATTTAATTTTAACCCCTAAACTT
162815 TCCAAAA
1 TCCAAAA
162822 CTTTGATTCT
Statistics
Matches: 130, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
28 1 0.01
29 71 0.55
30 56 0.43
31 2 0.02
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.36
Consensus pattern (30 bp):
TCCAAAAATTTAATTTTAACCCCTAAACTT
Found at i:162733 original size:59 final size:59
Alignment explanation
Indices: 162638--162829 Score: 207
Period size: 59 Copynumber: 3.3 Consensus size: 59
162628 CCCTGTTTTA
** * *
162638 TCCAAAAATTCAAATTTAACCCCTAAAC-TTCTCAAAAATTTAGTTTTGACCCTCGAACTT
1 TCCAAAAATTTGATTTTAACCCCTAAACTTTC-CAAAAATTTAGTTTT-ACCCTCAAACTT
* * *
162698 T-CAAAAATTTGATTTTAACCCCTAAACTTTCC-AAAATTTTGATTTTATCCCTTAAAATT
1 TCCAAAAATTTGATTTTAACCCCTAAACTTTCCAAAAATTTAG-TTTTA-CCCTCAAACTT
*
162757 TCCAAAAATTTGA-TTTGACCCCTAAACTTTCCAAAAATTTA-TTTTAACCC-CTAAACTT
1 TCCAAAAATTTGATTTTAACCCCTAAACTTTCCAAAAATTTAGTTTT-ACCCTC-AAACTT
*
162815 TCCAAAACTTTGATT
1 TCCAAAAATTTGATT
162830 CTACCTCATT
Statistics
Matches: 112, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
58 33 0.29
59 57 0.51
60 22 0.20
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.38
Consensus pattern (59 bp):
TCCAAAAATTTGATTTTAACCCCTAAACTTTCCAAAAATTTAGTTTTACCCTCAAACTT
Found at i:167248 original size:2 final size:2
Alignment explanation
Indices: 167243--167268 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
167233 GTTATATATA
167243 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
167269 AAAGTTTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:168749 original size:158 final size:157
Alignment explanation
Indices: 168470--168762 Score: 444
Period size: 158 Copynumber: 1.9 Consensus size: 157
168460 CAGGTGTTGA
* ** *
168470 TCTTGGATGTCCTACTGATGGCTGAGGTCTTGCATTTGTAATGGATTCTCCACAGCTCATGTGAG
1 TCTTAGATGTCCTACCAATGGCTGAGGTCCTGCATTTGT-ATGGATTCTCCACAGCTCATGTGAG
* *
168535 CAGCATCGTGTAGCCTAACATCTCGACCCACAGCTCGTGTGAGCAAACCCATTTCACATCTCGTG
65 CAACATCGTGTAGCCTAACATCTCGACCCACAGCTCGTGTGAGCAAACCCATTTCACAGCTCGTG
168600 TGAGCGTTACAGGTTATATAGGTGCTAG
130 TGAGCGTTACAGGTTATATAGGTGCTAG
* * *
168628 TCTTAGATGTCCTACCAATGGCTGAGGTCCTGCATTTGT-TGCGAATTTTTCACAGCTCGTGTGA
1 TCTTAGATGTCCTACCAATGGCTGAGGTCCTGCATTTGTATG-G-ATTCTCCACAGCTCATGTGA
* * *
168692 GCAACATCGTGTAGCCTAACATCTCGACCCACAGCTCGTGTGAGTAGACCCATTTCACAGCTTGT
64 GCAACATCGTGTAGCCTAACATCTCGACCCACAGCTCGTGTGAGCAAACCCATTTCACAGCTCGT
168757 GTGAGC
129 GTGAGC
168763 ATATATGGTT
Statistics
Matches: 121, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
156 2 0.02
157 1 0.01
158 118 0.98
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.30
Consensus pattern (157 bp):
TCTTAGATGTCCTACCAATGGCTGAGGTCCTGCATTTGTATGGATTCTCCACAGCTCATGTGAGC
AACATCGTGTAGCCTAACATCTCGACCCACAGCTCGTGTGAGCAAACCCATTTCACAGCTCGTGT
GAGCGTTACAGGTTATATAGGTGCTAG
Found at i:175313 original size:21 final size:22
Alignment explanation
Indices: 175280--175322 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
175270 GCTTTTATTC
* *
175280 AAAACTTGCGTTTTAATGACTA
1 AAAACTTGAGTTTAAATGACTA
175302 AAAACTT-AGTTTAAATGACTA
1 AAAACTTGAGTTTAAATGACTA
175323 GATATCATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (22 bp):
AAAACTTGAGTTTAAATGACTA
Found at i:181781 original size:51 final size:51
Alignment explanation
Indices: 181643--181831 Score: 227
Period size: 51 Copynumber: 3.6 Consensus size: 51
181633 TTTCATTTAA
* * *
181643 TACTCACGATGACA-TATAGTCATCAGACCTCTTATTCCGTATATGAATTCATA
1 TACTCACGATGACACT-TAGTCATCAGACCT-TTAATCCGTA-ATGGATTCATT
* * * *
181696 TACTCACGATGACTCTGAGTCATCAGACCCTTAATCCGTCATGGATTCATT
1 TACTCACGATGACACTTAGTCATCAGACCTTTAATCCGTAATGGATTCATT
* * *
181747 TACTCACGATGACACTTAGTCTTCGGACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCAGACCTTTAATCCGTAATGGATTCATT
* *
181798 TACTCACGATGACACTTAGCCATCGAGCCCTTTA
1 TACTCACGATGACACTTAGTCATC-AGACCTTTA
181832 GTTTATAGCT
Statistics
Matches: 116, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
51 75 0.65
52 15 0.13
53 25 0.22
54 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCAGACCTTTAATCCGTAATGGATTCATT
Found at i:188769 original size:11 final size:12
Alignment explanation
Indices: 188733--188773 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
188723 TTGTAAACAT
188733 TAAAATAATGT-
1 TAAAATAATGTA
188744 TAAAATAAT-TA
1 TAAAATAATGTA
*
188755 TATAAAAAATGTA
1 TA-AAATAATGTA
188768 TAAAAT
1 TAAAAT
188774 TATTAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
10 1 0.04
11 11 0.44
12 9 0.36
13 4 0.16
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (12 bp):
TAAAATAATGTA
Found at i:188771 original size:24 final size:24
Alignment explanation
Indices: 188733--188792 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 24
188723 TTGTAAACAT
188733 TAAAATAATGTTAAAATAATTATA
1 TAAAATAATGTTAAAATAATTATA
*
188757 TAAAA-AATGTATAAAATTATTAAATA
1 TAAAATAATGT-TAAAATAATT--ATA
188783 TTAAAATAAT
1 -TAAAATAAT
188793 ATAATATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
23 5 0.17
24 14 0.47
26 3 0.10
27 5 0.17
28 3 0.10
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (24 bp):
TAAAATAATGTTAAAATAATTATA
Found at i:188802 original size:31 final size:31
Alignment explanation
Indices: 188766--188824 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
188756 ATAAAAAATG
*
188766 TATAAA-ATTATT-AAATATTAAAATAATATAA
1 TATAAATATT-TTAAAAAATTAAAA-AATATAA
188797 TATAAATATTTTAAAAAATTAAAAAATA
1 TATAAATATTTTAAAAAATTAAAAAATA
188825 ATATGAGCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
31 12 0.48
32 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (31 bp):
TATAAATATTTTAAAAAATTAAAAAATATAA
Found at i:188812 original size:51 final size:50
Alignment explanation
Indices: 188726--188823 Score: 117
Period size: 51 Copynumber: 1.9 Consensus size: 50
188716 TACTCTATTG
* * *
188726 TAAACATTAAAATAATGTTAAAATAATTATATAAAAAATGTATAAAATTAT
1 TAAACATTAAAATAATGATAAAATAAATATATAAAAAAT-TAAAAAATTAT
* * *
188777 TAAATATTAAAATAAT-ATAATATAAATATTTTAAAAAATTAAAAAAT
1 TAAACATTAAAATAATGATAAAATAAATA-TATAAAAAATTAAAAAAT
188824 AATATGAGCG
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
50 16 0.40
51 24 0.60
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (50 bp):
TAAACATTAAAATAATGATAAAATAAATATATAAAAAATTAAAAAATTAT
Found at i:190537 original size:18 final size:19
Alignment explanation
Indices: 190503--190540 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
190493 TAATGTGTCC
190503 TTTTTAAATTTTATAATTA
1 TTTTTAAATTTTATAATTA
*
190522 TTTTTATATTTT-TAATTA
1 TTTTTAAATTTTATAATTA
190540 T
1 T
190541 AAATTTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTTAAATTTTATAATTA
Found at i:202130 original size:14 final size:13
Alignment explanation
Indices: 202111--202144 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
202101 TTTAATTTGT
202111 ATTTATCTTTCTAG
1 ATTTATCTTT-TAG
202125 ATTTATCTTTTAG
1 ATTTATCTTTTAG
202138 AGTTTAT
1 A-TTTAT
202145 AGTGGATCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.59
Consensus pattern (13 bp):
ATTTATCTTTTAG
Found at i:205856 original size:26 final size:26
Alignment explanation
Indices: 205790--205862 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
205780 TTTTAAGAAT
* *
205790 TACTGATACTAGCTCGTAAGAGTAATA
1 TACTG-TACTAGCTCGTAAGAGCAACA
* * *
205817 TATTGCACTGGCTCGTAAGAGCAACA
1 TACTGTACTAGCTCGTAAGAGCAACA
*
205843 TACTGTACTAGCTCTTAAGA
1 TACTGTACTAGCTCGTAAGA
205863 TCGATTTACT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
26 33 0.89
27 4 0.11
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (26 bp):
TACTGTACTAGCTCGTAAGAGCAACA
Found at i:210938 original size:22 final size:22
Alignment explanation
Indices: 210913--210976 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 22
210903 ATTTATAGCT
210913 TTAACATTTTAGTCCTTAAATA
1 TTAACATTTTAGTCCTTAAATA
* * *
210935 TTAAAATCTTA-----TAACT-
1 TTAACATTTTAGTCCTTAAATA
210951 TTAACATTTTAGTCCTTAAATA
1 TTAACATTTTAGTCCTTAAATA
210973 TTAA
1 TTAA
210977 AATCATCAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 12
0.62 0.12 0.25
Matches are distributed among these distances:
16 9 0.30
17 4 0.13
21 4 0.13
22 13 0.43
ACGTcount: A:0.39, C:0.12, G:0.03, T:0.45
Consensus pattern (22 bp):
TTAACATTTTAGTCCTTAAATA
Found at i:210953 original size:38 final size:38
Alignment explanation
Indices: 210901--210980 Score: 144
Period size: 38 Copynumber: 2.1 Consensus size: 38
210891 AAGTCCTTGT
*
210901 AAAT-TTATAGCTTTAACATTTTAGTCCTTAAATATTA
1 AAATCTTATAACTTTAACATTTTAGTCCTTAAATATTA
210938 AAATCTTATAACTTTAACATTTTAGTCCTTAAATATTA
1 AAATCTTATAACTTTAACATTTTAGTCCTTAAATATTA
210976 AAATC
1 AAATC
210981 ATCAAAAACT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
37 4 0.10
38 37 0.90
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.44
Consensus pattern (38 bp):
AAATCTTATAACTTTAACATTTTAGTCCTTAAATATTA
Found at i:223225 original size:12 final size:12
Alignment explanation
Indices: 223208--223232 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
223198 TCAGCATTAC
223208 ACATCAATAATG
1 ACATCAATAATG
223220 ACATCAATAATG
1 ACATCAATAATG
223232 A
1 A
223233 AAGTAGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (12 bp):
ACATCAATAATG
Found at i:227068 original size:13 final size:13
Alignment explanation
Indices: 227033--227070 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
227023 TAGCTCAACC
227033 TGCGAGCTCCA-TA
1 TGCGAGCT-CATTA
227046 TGCGAGCTCATTA
1 TGCGAGCTCATTA
*
227059 TGTGAGCTCATT
1 TGCGAGCTCATT
227071 TTGGATTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 2 0.09
13 21 0.91
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.32
Consensus pattern (13 bp):
TGCGAGCTCATTA
Found at i:228203 original size:18 final size:20
Alignment explanation
Indices: 228175--228218 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
228165 ACGAACAAAA
*
228175 CAAAAACCAAAACATAAT-C
1 CAAAAACCAAAACACAATCC
*
228194 CAAAAA-CAAAATACAATCC
1 CAAAAACCAAAACACAATCC
228213 CAAAAA
1 CAAAAA
228219 TTCAAGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.66, C:0.25, G:0.00, T:0.09
Consensus pattern (20 bp):
CAAAAACCAAAACACAATCC
Found at i:228552 original size:5 final size:5
Alignment explanation
Indices: 228537--228616 Score: 65
Period size: 5 Copynumber: 16.0 Consensus size: 5
228527 CATACCAGAA
* * *
228537 CATAT CTTAT CATAT CATAAT -GTAT CGA-AT CATAT CATAT CATAT CACAT
1 CATAT CATAT CATAT CAT-AT CATAT C-ATAT CATAT CATAT CATAT CATAT
* * **
228587 TATAG CATAT CGGAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT
228617 AATGTCCTAC
Statistics
Matches: 57, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
4 3 0.05
5 52 0.91
6 2 0.04
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (5 bp):
CATAT
Found at i:232305 original size:22 final size:21
Alignment explanation
Indices: 232262--232309 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
232252 GGCATATTAT
232262 TATTT-TTTAATTTTTTTAAA
1 TATTTATTTAATTTTTTTAAA
* *
232282 TATTTATTTTATTTTATTTTAA
1 TATTTATTTAATTTT-TTTAAA
232304 TATTTA
1 TATTTA
232310 ATAATTCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 5 0.21
21 8 0.33
22 11 0.46
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
TATTTATTTAATTTTTTTAAA
Found at i:232995 original size:41 final size:41
Alignment explanation
Indices: 232900--232996 Score: 149
Period size: 41 Copynumber: 2.4 Consensus size: 41
232890 ACAAAGCTTG
* *
232900 CTAGGCACAAGGCCCGATACAGTACACAGGCATAAAGCCTA
1 CTAGGCACAAGGCTCGATACAGTACACAGACATAAAGCCTA
* *
232941 CTAGGCTCAAGGCTCGATACAGTACACCGACATAAAGCCTA
1 CTAGGCACAAGGCTCGATACAGTACACAGACATAAAGCCTA
*
232982 TTAGGCACAAGGCTC
1 CTAGGCACAAGGCTC
232997 AAGTCATTAC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.34, C:0.29, G:0.22, T:0.15
Consensus pattern (41 bp):
CTAGGCACAAGGCTCGATACAGTACACAGACATAAAGCCTA
Found at i:238421 original size:41 final size:42
Alignment explanation
Indices: 238303--238532 Score: 211
Period size: 41 Copynumber: 5.5 Consensus size: 42
238293 TTATGCTCTA
* * * *
238303 TCGAGTCATAAGTCTTCCTTTAATCATATTCTTATTCTCATC
1 TCGAGACATGAGTCTTCCTTTAATCATAATCTCATTCTCATC
* * *
238345 CCGAGACATGAGTATTCCTTTAATCATAACCTCATTCTCATC
1 TCGAGACATGAGTCTTCCTTTAATCATAATCTCATTCTCATC
* *
238387 TCGAGACATGAGTCTT-CGTTAATCATAATCTCATTTTCATC
1 TCGAGACATGAGTCTTCCTTTAATCATAATCTCATTCTCATC
* * * *
238428 TCGAGACACGAGTCTTCCTTT-AT--TAACTTTTCATGCTCATT
1 TCGAGACATGAGTCTTCCTTTAATCATAA--TCTCATTCTCATC
* * * *
238469 TTGAGTCATGAGTCTTCCATTT-ATACA-AATTCTCATGCTCAAC
1 TCGAGACATGAGTCTTCC-TTTAAT-CATAA-TCTCATTCTCATC
*
238512 CCGAGACATGAGTCTTCCTTT
1 TCGAGACATGAGTCTTCCTTT
238533 TTATACATCA
Statistics
Matches: 154, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
39 3 0.02
41 63 0.41
42 60 0.39
43 26 0.17
44 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.39
Consensus pattern (42 bp):
TCGAGACATGAGTCTTCCTTTAATCATAATCTCATTCTCATC
Found at i:257543 original size:42 final size:42
Alignment explanation
Indices: 257497--257717 Score: 196
Period size: 42 Copynumber: 5.3 Consensus size: 42
257487 TCGAATCATA
257497 AGTCTTCCTTTAATCATATTCTCATTCTCATCCCGAGACATG
1 AGTCTTCCTTTAATCATATTCTCATTCTCATCCCGAGACATG
** ** * *
257539 AGTCTTCCTTTAATCATAACCTCATTCTCATATCGAGAAAAG
1 AGTCTTCCTTTAATCATATTCTCATTCTCATCCCGAGACATG
* * * *
257581 AGTCTTCCTTTAATCATAATATAATTCTCATCTCGAGACATG
1 AGTCTTCCTTTAATCATATTCTCATTCTCATCCCGAGACATG
* * * * * * *
257623 AGTCTTCCTTTAATAAT-TTTTC-TTGCTTATTCTGAGTCACG
1 AGTCTTCCTTTAATCATATTCTCATT-CTCATCCCGAGACATG
* * * *
257664 AGTCTTCCATTT-ATACAAATTCTCATGCTCAACCCAAGACATG
1 AGTCTTCC-TTTAAT-CATATTCTCATTCTCATCCCGAGACATG
*
257707 AGTATTCCTTT
1 AGTCTTCCTTT
257718 TTATACATCA
Statistics
Matches: 140, Mismatches: 34, Indels: 10
0.76 0.18 0.05
Matches are distributed among these distances:
40 2 0.01
41 22 0.16
42 95 0.68
43 20 0.14
44 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (42 bp):
AGTCTTCCTTTAATCATATTCTCATTCTCATCCCGAGACATG
Found at i:258543 original size:21 final size:20
Alignment explanation
Indices: 258519--258562 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
258509 ACTTTCATCA
* *
258519 TTAAGCTTTAATTAACCCTTT
1 TTAAGC-TTAATTAAACCTAT
*
258540 TTAATCTTAATTAAACCTAT
1 TTAAGCTTAATTAAACCTAT
258560 TTA
1 TTA
258563 TACTTAGCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.34, C:0.16, G:0.02, T:0.48
Consensus pattern (20 bp):
TTAAGCTTAATTAAACCTAT
Found at i:262345 original size:23 final size:23
Alignment explanation
Indices: 262319--262580 Score: 295
Period size: 23 Copynumber: 11.7 Consensus size: 23
262309 AAATGTGTTA
*
262319 AAATATTAATATGATTTATGCTT
1 AAATATTAATGTGATTTATGCTT
*
262342 AAATATTAATGTGATTTGTGCTT
1 AAATATTAATGTGATTTATGCTT
*
262365 AAATATTAATGTGATTTGTGCTT
1 AAATATTAATGTGATTTATGCTT
*
262388 AAATATTAATGTGATTTATCCTT
1 AAATATTAATGTGATTTATGCTT
* *
262411 -AA-A-T-A--TGATTTGTACTT
1 AAATATTAATGTGATTTATGCTT
* **
262428 AAATATTAATAT-ATTTATAATT
1 AAATATTAATGTGATTTATGCTT
*
262450 AAATATTGATGTGATTTATGCTT
1 AAATATTAATGTGATTTATGCTT
*
262473 AAATATTAATGTGATTTGTGCTT
1 AAATATTAATGTGATTTATGCTT
*
262496 AAATATTAATATGATTTATGCTT
1 AAATATTAATGTGATTTATGCTT
* *
262519 AAATATTAATGTGATTTGTGTTT
1 AAATATTAATGTGATTTATGCTT
* ** *
262542 AAATATTAACGTGATAAATGCTG
1 AAATATTAATGTGATTTATGCTT
* *
262565 AATTATTCATGTGATT
1 AAATATTAATGTGATT
262581 AAATGTGACT
Statistics
Matches: 203, Mismatches: 29, Indels: 14
0.83 0.12 0.06
Matches are distributed among these distances:
17 10 0.05
18 2 0.01
19 2 0.01
20 2 0.01
21 2 0.01
22 20 0.10
23 165 0.81
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.47
Consensus pattern (23 bp):
AAATATTAATGTGATTTATGCTT
Found at i:262421 original size:17 final size:17
Alignment explanation
Indices: 262399--262433 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
262389 AATATTAATG
*
262399 TGATTTATCCTTAAATA
1 TGATTTATACTTAAATA
*
262416 TGATTTGTACTTAAATA
1 TGATTTATACTTAAATA
262433 T
1 T
262434 TAATATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.49
Consensus pattern (17 bp):
TGATTTATACTTAAATA
Found at i:262472 original size:85 final size:86
Alignment explanation
Indices: 262326--262580 Score: 260
Period size: 85 Copynumber: 2.9 Consensus size: 86
262316 TTAAAATATT
* * * ** *
262326 AATATGATTTATGCTTAAATATTAATGTGATTTGTGCTTAAATATTAATGTGATTTGTGCTTAAA
1 AATATGATTTATACTTAAATATTAATATGATTTATAATTAAATATTAATGTGATTTATGCTTAAA
262391 TATTAATGTGATTTATCCTTA
66 TATTAATGTGATTTATCCTTA
* *
262412 AATATGATTTGTACTTAAATATTAATAT-ATTTATAATTAAATATTGATGTGATTTATGCTTAAA
1 AATATGATTTATACTTAAATATTAATATGATTTATAATTAAATATTAATGTGATTTATGCTTAAA
* *
262476 TATTAATGTGATTTGTGCTTAAATA
66 TATTAATGTGATTTAT-CCT---TA
* * * ** * ** *
262501 TTAATATGATTTATGCTTAAATATTAATGTGATTTGTGTTTAAATATTAACGTGATAAATGCTGA
1 --AATATGATTTATACTTAAATATTAATATGATTTATAATTAAATATTAATGTGATTTATGCTTA
* *
262566 ATTATTCATGTGATT
64 AATATTAATGTGATT
262581 AAATGTGACT
Statistics
Matches: 139, Mismatches: 23, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
85 46 0.33
86 27 0.19
89 2 0.01
91 25 0.18
92 39 0.28
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.47
Consensus pattern (86 bp):
AATATGATTTATACTTAAATATTAATATGATTTATAATTAAATATTAATGTGATTTATGCTTAAA
TATTAATGTGATTTATCCTTA
Found at i:262521 original size:108 final size:109
Alignment explanation
Indices: 262319--262524 Score: 351
Period size: 108 Copynumber: 1.9 Consensus size: 109
262309 AAATGTGTTA
** *
262319 AAATATTAATATGATTTATGCTTAAATATTAATGTGATTTGTGCTTAAATATTAATGTGATTTGT
1 AAATATTAATATGATTTATAATTAAATATTAATGTGATTTATGCTTAAATATTAATGTGATTTGT
*
262384 GCTTAAATATTAATGTGATTTATCCTTAAATATGATTTGTACTT
66 GCTTAAATATTAATATGATTTATCCTTAAATATGATTTGTACTT
*
262428 AAATATTAATAT-ATTTATAATTAAATATTGATGTGATTTATGCTTAAATATTAATGTGATTTGT
1 AAATATTAATATGATTTATAATTAAATATTAATGTGATTTATGCTTAAATATTAATGTGATTTGT
*
262492 GCTTAAATATTAATATGATTTATGCTTAAATAT
66 GCTTAAATATTAATATGATTTATCCTTAAATAT
262525 TAATGTGATT
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
108 79 0.87
109 12 0.13
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (109 bp):
AAATATTAATATGATTTATAATTAAATATTAATGTGATTTATGCTTAAATATTAATGTGATTTGT
GCTTAAATATTAATATGATTTATCCTTAAATATGATTTGTACTT
Found at i:262582 original size:131 final size:131
Alignment explanation
Indices: 262311--262584 Score: 342
Period size: 131 Copynumber: 2.1 Consensus size: 131
262301 TTATCATTAA
262311 ATGTG-TTAAAATATTAATATGATTTATGCTTAAATATTAATGTGATTTGTGCTTAAATATTAAT
1 ATGTGATT-AAATATTAATATGATTTATGCTTAAATATTAATGTGATTTGTGCTTAAATATTAAT
* * * ** *
262375 GTGATTTGTGCTTAAATATTAATGTGATTTATCCTTAAATATGATTTGTACTTAAATATTAATAT
65 ATGATTTATGCTTAAATATTAATGTGATTTATCCTTAAATATAACGTGTAC-TAAATATGAATAT
262440 ATT
129 ATT
* * * *
262443 -TATAATTAAATATTGATGTGATTTATGCTTAAATATTAATGTGATTTGTGCTTAAATATTAATA
1 ATGTGATTAAATATTAATATGATTTATGCTTAAATATTAATGTGATTTGTGCTTAAATATTAATA
* ** *
262507 TGATTTATGCTTAAATATTAATGTGATTTGTGTTTAAATATTAACGTG-A-TAAATGCTGAAT-T
66 TGATTTATGCTTAAATATTAATGTGATTTATCCTTAAATA-TAACGTGTACTAAAT-ATGAATAT
262569 ATT
129 ATT
262572 CATGTGATTAAAT
1 -ATGTGATTAAAT
262585 GTGACTAAAT
Statistics
Matches: 121, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
129 9 0.07
130 4 0.03
131 102 0.84
132 6 0.05
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (131 bp):
ATGTGATTAAATATTAATATGATTTATGCTTAAATATTAATGTGATTTGTGCTTAAATATTAATA
TGATTTATGCTTAAATATTAATGTGATTTATCCTTAAATATAACGTGTACTAAATATGAATATAT
T
Found at i:262588 original size:10 final size:10
Alignment explanation
Indices: 262573--262685 Score: 50
Period size: 10 Copynumber: 10.5 Consensus size: 10
262563 TGAATTATTC
262573 ATGTGATTAA
1 ATGTGATTAA
*
262583 ATGTGACTAA
1 ATGTGATTAA
*
262593 ATTTGATTAA
1 ATGTGATTAA
262603 TATGTGATGTGATCA
1 -ATGTGAT-T-A--A
**
262618 ATGTTGAAATATTC
1 ATG-TG--AT-TAA
*
262632 ATGTGACT-A
1 ATGTGATTAA
262641 ATGTGATTAA
1 ATGTGATTAA
* *
262651 ATGTTATT-T
1 ATGTGATTAA
*
262660 ATGTTATTAA
1 ATGTGATTAA
262670 ATGTGATTAA
1 ATGTGATTAA
262680 TATGTG
1 -ATGTG
262686 TTGTGTTAAA
Statistics
Matches: 78, Mismatches: 14, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
9 15 0.19
10 35 0.45
11 12 0.15
12 1 0.01
13 3 0.04
14 6 0.08
15 3 0.04
17 3 0.04
ACGTcount: A:0.35, C:0.04, G:0.19, T:0.43
Consensus pattern (10 bp):
ATGTGATTAA
Found at i:262612 original size:26 final size:25
Alignment explanation
Indices: 262583--262654 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 25
262573 ATGTGATTAA
*
262583 ATGTGACTAAATTTGATTAATATGTG
1 ATGTGACT-AATTTGATTAATATGTC
262609 ATGTGA-TCAATGTTGA--AATAT-TC
1 ATGTGACT-AAT-TTGATTAATATGTC
*
262632 ATGTGACTAATGTGATTAA-ATGT
1 ATGTGACTAATTTGATTAATATGT
262655 TATTTATGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
22 3 0.08
23 12 0.32
24 9 0.24
25 4 0.11
26 10 0.26
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (25 bp):
ATGTGACTAATTTGATTAATATGTC
Found at i:262644 original size:23 final size:26
Alignment explanation
Indices: 262583--262641 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 26
262573 ATGTGATTAA
*
262583 ATGTGACTAAAT-TTGATTAATATGTG
1 ATGTGACTAAATGTTGA-TAATATGTC
*
262609 ATGTGA-TCAATGTTGA-AATAT-TC
1 ATGTGACTAAATGTTGATAATATGTC
262632 ATGTGACTAA
1 ATGTGACTAA
262642 TGTGATTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
23 7 0.25
24 7 0.25
25 4 0.14
26 10 0.36
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.39
Consensus pattern (26 bp):
ATGTGACTAAATGTTGATAATATGTC
Found at i:283545 original size:17 final size:17
Alignment explanation
Indices: 283520--283562 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
283510 ATGCATCTCA
283520 TTTAATTGTCATTGCAT
1 TTTAATTGTCATTGCAT
* *
283537 TTTAGTTGTCGTTGCAT
1 TTTAATTGTCATTGCAT
*
283554 TTTACTTGT
1 TTTAATTGT
283563 TAGTTCATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.16, C:0.12, G:0.16, T:0.56
Consensus pattern (17 bp):
TTTAATTGTCATTGCAT
Done.