Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01004906.1 Kokia drynarioides strain JFW-HI SEQ_118600, 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: 147077
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 22 characters in sequence are not A, C, G, or T
Found at i:211 original size:22 final size:19
Alignment explanation
Indices: 168--219 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 19
158 CCTAACCGAA
*
168 AATAAAAAAAATAAAGACT
1 AATAAAAAAAATAAAGAAT
187 AATAAAGAAAAATAAATGCAAT
1 AATAAA-AAAAATAAA-G-AAT
209 AATAAATAAAA
1 AATAAA-AAAA
220 CCATTAGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 6 0.21
20 9 0.32
21 1 0.04
22 12 0.43
ACGTcount: A:0.73, C:0.04, G:0.06, T:0.17
Consensus pattern (19 bp):
AATAAAAAAAATAAAGAAT
Found at i:2454 original size:28 final size:28
Alignment explanation
Indices: 2414--2579 Score: 140
Period size: 28 Copynumber: 5.9 Consensus size: 28
2404 AATTTTTCTG
* *
2414 TATTTTTTAGATTTTACAATTTTACCCC
1 TATTTTCTAGATTTTACAATTTTACCCA
* *
2442 TATTTTCTAGATTTTACAATTTT-GCAA
1 TATTTTCTAGATTTTACAATTTTACCCA
* * * * * **
2469 TTGTTTTCCAGATTTTATAGTTTTGCCTT
1 -TATTTTCTAGATTTTACAATTTTACCCA
2498 TATTTTCTAGATTTTACAATTTTACCCA
1 TATTTTCTAGATTTTACAATTTTACCCA
* * *
2526 T-TTATTCTAAAATTTACAAATTTACCCA
1 TATT-TTCTAGATTTTACAATTTTACCCA
* *
2554 TACTTTT-AAGATTTTATAATTTTACC
1 TA-TTTTCTAGATTTTACAATTTTACC
2580 TAAAATTTTA
Statistics
Matches: 107, Mismatches: 26, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
27 3 0.03
28 99 0.93
29 3 0.03
30 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.05, T:0.52
Consensus pattern (28 bp):
TATTTTCTAGATTTTACAATTTTACCCA
Found at i:2566 original size:84 final size:84
Alignment explanation
Indices: 2414--2576 Score: 195
Period size: 84 Copynumber: 1.9 Consensus size: 84
2404 AATTTTTCTG
* * * * ** ** *
2414 TATTTTTTAGATTTTACAATTTTACCCCTATTTTCTAGATTTTACAATTTTGCAATTGTTTTCCA
1 TATTTTCTAGATTTTACAATTTTACCCATATTTTCTAAAATTTACAATTTACCAATACTTTTCAA
*
2479 GATTTTATAGTTTTGCCTT
66 GATTTTATAATTTTGCCTT
*
2498 TATTTTCTAGATTTTACAATTTTACCCAT-TTATTCTAAAATTTACAAATTTACCCATACTTTT-
1 TATTTTCTAGATTTTACAATTTTACCCATATT-TTCTAAAATTTAC-AATTTACCAATACTTTTC
2561 AAGATTTTATAATTTT
64 AAGATTTTATAATTTT
2577 ACCTAAAATT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
83 2 0.03
84 52 0.79
85 12 0.18
ACGTcount: A:0.28, C:0.14, G:0.06, T:0.53
Consensus pattern (84 bp):
TATTTTCTAGATTTTACAATTTTACCCATATTTTCTAAAATTTACAATTTACCAATACTTTTCAA
GATTTTATAATTTTGCCTT
Found at i:3655 original size:53 final size:53
Alignment explanation
Indices: 3575--3681 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
3565 CAGATAACTC
*
3575 ACTAGGTTAGGACGTATACACAACATTCGGAGGGACTCGGCTCAGTTCTGACT
1 ACTAGGTTAAGACGTATACACAACATTCGGAGGGACTCGGCTCAGTTCTGACT
3628 ACTAGGTTAAGACGTATACACAACATTCGGAGGGACTCGGCTCAGTTCTGACT
1 ACTAGGTTAAGACGTATACACAACATTCGGAGGGACTCGGCTCAGTTCTGACT
3681 A
1 A
3682 TTATAATATT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.24
Consensus pattern (53 bp):
ACTAGGTTAAGACGTATACACAACATTCGGAGGGACTCGGCTCAGTTCTGACT
Found at i:6535 original size:8 final size:8
Alignment explanation
Indices: 6522--6548 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
6512 ATGTGCAAAT
6522 GATTTTGA
1 GATTTTGA
6530 GATTTTGA
1 GATTTTGA
6538 GATTTTGA
1 GATTTTGA
6546 GAT
1 GAT
6549 ATATGTATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (8 bp):
GATTTTGA
Found at i:7843 original size:15 final size:16
Alignment explanation
Indices: 7816--7845 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7806 GAAAACATAA
7816 TAATTTAAATATAAAG
1 TAATTTAAATATAAAG
7832 TAATTT-AATATAAA
1 TAATTTAAATATAAA
7846 ATTTAAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (16 bp):
TAATTTAAATATAAAG
Found at i:8416 original size:12 final size:12
Alignment explanation
Indices: 8401--8433 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
8391 TTTTAATTAA
8401 TTTTTAAATACT
1 TTTTTAAATACT
8413 TTTTTAAATACT
1 TTTTTAAATACT
8425 TTTTTAAAT
1 TTTTTAAAT
8434 TTTTATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTTTAAATACT
Found at i:20334 original size:18 final size:18
Alignment explanation
Indices: 20270--20335 Score: 52
Period size: 18 Copynumber: 3.9 Consensus size: 18
20260 TAATAAATTA
* * *
20270 TTAATATAATTTATTAAT
1 TTAATAAAATTTTTTATT
*
20288 TTAATAAAATTATTTGATT
1 TTAATAAAATT-TTTTATT
20307 TT-AT--AA--TTTTATT
1 TTAATAAAATTTTTTATT
20320 TTAATAAAATTTTTTA
1 TTAATAAAATTTTTTA
20336 ACATTATAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
13 8 0.22
14 2 0.05
16 4 0.11
18 17 0.46
19 6 0.16
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
TTAATAAAATTTTTTATT
Found at i:20471 original size:23 final size:23
Alignment explanation
Indices: 20445--20491 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
20435 TCTGATTATA
*
20445 ATAAAT-TTTTAATAGTATGAAAT
1 ATAAATATTTTAATAATAT-AAAT
20468 ATAAATATTTTAATAATATAAAT
1 ATAAATATTTTAATAATATAAAT
20491 A
1 A
20492 AGAGTTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (23 bp):
ATAAATATTTTAATAATATAAAT
Found at i:20957 original size:30 final size:31
Alignment explanation
Indices: 20922--20982 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
20912 ATTATTATTC
20922 TAGAA-TTTTTTT-AACATTTTTATATTTTTT
1 TAGAATTTTTTTTGAA-ATTTTTATATTTTTT
20952 TAGAATTTTTTTTGAAATTTTTATATTTTTT
1 TAGAATTTTTTTTGAAATTTTTATATTTTTT
20983 AAAATAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
30 5 0.17
31 22 0.76
32 2 0.07
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (31 bp):
TAGAATTTTTTTTGAAATTTTTATATTTTTT
Found at i:21456 original size:14 final size:14
Alignment explanation
Indices: 21437--21477 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
21427 AAAAAACTTT
21437 TAAAAATGATTTTC
1 TAAAAATGATTTTC
* *
21451 TAAAAATCATTTTT
1 TAAAAATGATTTTC
21465 TAAAAATG-TTTTC
1 TAAAAATGATTTTC
21478 GGTTAAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (14 bp):
TAAAAATGATTTTC
Found at i:22576 original size:2 final size:2
Alignment explanation
Indices: 22569--22596 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22559 CTCTGGTAAG
22569 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
22597 ACATCACCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:33003 original size:53 final size:55
Alignment explanation
Indices: 32941--33046 Score: 189
Period size: 55 Copynumber: 2.0 Consensus size: 55
32931 CTATAAGAGG
*
32941 CACACGGGCATGTGTCA-GG-GTGTGTGTATACTGTTTTGAGGCACACGGGCTAA
1 CACACGGGCATGTATCAGGGTGTGTGTGTATACTGTTTTGAGGCACACGGGCTAA
32994 CACACGGGCATGTATCAGGGTGTGTGTGTATACTGTTTTGAGGCACACGGGCT
1 CACACGGGCATGTATCAGGGTGTGTGTGTATACTGTTTTGAGGCACACGGGCT
33047 TGTGTTAGGG
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
53 16 0.32
54 2 0.04
55 32 0.64
ACGTcount: A:0.20, C:0.19, G:0.34, T:0.27
Consensus pattern (55 bp):
CACACGGGCATGTATCAGGGTGTGTGTGTATACTGTTTTGAGGCACACGGGCTAA
Found at i:34659 original size:18 final size:18
Alignment explanation
Indices: 34636--34670 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
34626 CTTTTCTATT
34636 GATTTTTT-TAACTTTTTA
1 GATTTTTTATAA-TTTTTA
34654 GATTTTTTATAATTTTT
1 GATTTTTTATAATTTTT
34671 TTAGTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.23, C:0.03, G:0.06, T:0.69
Consensus pattern (18 bp):
GATTTTTTATAATTTTTA
Found at i:34679 original size:13 final size:13
Alignment explanation
Indices: 34663--34687 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34653 AGATTTTTTA
34663 TAATTTTTTTAGT
1 TAATTTTTTTAGT
34676 TAATTTTTTTAG
1 TAATTTTTTTAG
34688 AATCAAGAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (13 bp):
TAATTTTTTTAGT
Found at i:35523 original size:32 final size:31
Alignment explanation
Indices: 35487--35546 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
35477 TACTCCATTC
*
35487 TTAAGAATAGAAATCGAACCCTGACCACAAAA
1 TTAAGAATAGAAAT-GAACCATGACCACAAAA
* * *
35519 TTAAGAGTTGAAATGAACCATGATCACA
1 TTAAGAATAGAAATGAACCATGACCACA
35547 CCTAGTTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 12 0.50
32 12 0.50
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.20
Consensus pattern (31 bp):
TTAAGAATAGAAATGAACCATGACCACAAAA
Found at i:42822 original size:44 final size:44
Alignment explanation
Indices: 42773--42910 Score: 108
Period size: 44 Copynumber: 3.1 Consensus size: 44
42763 TGGGAACTGG
42773 AAATAGTGATTTAGAGAAGAGCCAGAGGGGTTAATTCATCAAAC
1 AAATAGTGATTTAGAGAAGAGCCAGAGGGGTTAATTCATCAAAC
* ** * * * * *
42817 AAATA--GATCTTCGA-ATAGAATTGGTAAAGGGATT--TTGAAT-ACAG
1 AAATAGTGAT-TTAGAGA-AG-A--GCCAGAGGGGTTAATT-CATCAAAC
42861 AAATAGTGATTTAGAGAAGAGCCAGAGGGGTTAATTCATCAAAC
1 AAATAGTGATTTAGAGAAGAGCCAGAGGGGTTAATTCATCAAAC
42905 AAATAG
1 AAATAG
42911 ATCTTCGAAT
Statistics
Matches: 66, Mismatches: 16, Indels: 24
0.62 0.15 0.23
Matches are distributed among these distances:
42 12 0.18
43 8 0.12
44 26 0.39
45 8 0.12
46 12 0.18
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.25
Consensus pattern (44 bp):
AAATAGTGATTTAGAGAAGAGCCAGAGGGGTTAATTCATCAAAC
Found at i:42921 original size:88 final size:88
Alignment explanation
Indices: 42772--42948 Score: 354
Period size: 88 Copynumber: 2.0 Consensus size: 88
42762 CTGGGAACTG
42772 GAAATAGTGATTTAGAGAAGAGCCAGAGGGGTTAATTCATCAAACAAATAGATCTTCGAATAGAA
1 GAAATAGTGATTTAGAGAAGAGCCAGAGGGGTTAATTCATCAAACAAATAGATCTTCGAATAGAA
42837 TTGGTAAAGGGATTTTGAATACA
66 TTGGTAAAGGGATTTTGAATACA
42860 GAAATAGTGATTTAGAGAAGAGCCAGAGGGGTTAATTCATCAAACAAATAGATCTTCGAATAGAA
1 GAAATAGTGATTTAGAGAAGAGCCAGAGGGGTTAATTCATCAAACAAATAGATCTTCGAATAGAA
42925 TTGGTAAAGGGATTTTGAATACA
66 TTGGTAAAGGGATTTTGAATACA
42948 G
1 G
42949 GGAGTCATAA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (88 bp):
GAAATAGTGATTTAGAGAAGAGCCAGAGGGGTTAATTCATCAAACAAATAGATCTTCGAATAGAA
TTGGTAAAGGGATTTTGAATACA
Found at i:44614 original size:16 final size:14
Alignment explanation
Indices: 44588--44628 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
44578 TTTCAATTTT
44588 ATTTT-AATAATAA
1 ATTTTAAATAATAA
44601 ATTTTTAAAATAAT-A
1 A-TTTT-AAATAATAA
44616 ATTTTAAATAATA
1 ATTTTAAATAATA
44629 TTCTTAACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 8 0.33
14 8 0.33
15 2 0.08
16 6 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATTTTAAATAATAA
Found at i:46080 original size:15 final size:15
Alignment explanation
Indices: 46060--46093 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
46050 GTTTAAGTTT
*
46060 TGATTTATGATGACA
1 TGATTTATGATGAAA
*
46075 TGATTTATGTTGAAA
1 TGATTTATGATGAAA
46090 TGAT
1 TGAT
46094 ATGGTGATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.21, T:0.44
Consensus pattern (15 bp):
TGATTTATGATGAAA
Found at i:48286 original size:3 final size:3
Alignment explanation
Indices: 48280--48308 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
48270 TTTTTCCGGG
48280 CTC CTC CTC CTC CTC CTC CTC CTC CTC CT
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CT
48309 ACTACTACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (3 bp):
CTC
Found at i:48332 original size:3 final size:3
Alignment explanation
Indices: 48326--48377 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
48316 CTACTACTAC
48326 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
48374 TAT T
1 TAT T
48378 TATTTATTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:48390 original size:11 final size:11
Alignment explanation
Indices: 48326--48390 Score: 51
Period size: 9 Copynumber: 6.8 Consensus size: 11
48316 CTACTACTAC
48326 TATTA-TTA-T
1 TATTATTTATT
48335 TATTA-TTA-T
1 TATTATTTATT
48344 TATTA-TTA-T
1 TATTATTTATT
48353 TATTA-TTA-T
1 TATTATTTATT
48362 TATTA-TTA-T
1 TATTATTTATT
48371 TATTATTTATT
1 TATTATTTATT
*
48382 TATTTTTTA
1 TATTATTTA
48391 AATCCAAAAC
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
9 41 0.77
10 3 0.06
11 9 0.17
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TATTATTTATT
Found at i:48679 original size:25 final size:25
Alignment explanation
Indices: 48621--48681 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
48611 NNNNNNNNNN
*
48621 AAAAAAAAAAGGAAAGAAGATCAAG
1 AAAAAAAAAAGGAAACAAGATCAAG
* * *
48646 AACACAAAAGGGAAACAAGATCAA-
1 AAAAAAAAAAGGAAACAAGATCAAG
48670 ATAAAAAAAAAG
1 A-AAAAAAAAAG
48682 ATTGTAAATA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.70, C:0.08, G:0.16, T:0.05
Consensus pattern (25 bp):
AAAAAAAAAAGGAAACAAGATCAAG
Found at i:63982 original size:19 final size:19
Alignment explanation
Indices: 63922--63982 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
63912 TGATAGTTAG
63922 TTTAAATTCTTGTTATTTT
1 TTTAAATTCTTGTTATTTT
* * * **
63941 TATATATTTTTG-TACTTAG
1 TTTAAATTCTTGTTA-TTTT
63960 TTTAAATTCTTGTTATTTT
1 TTTAAATTCTTGTTATTTT
63979 TTTA
1 TTTA
63983 TCTATTTCTG
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
18 2 0.07
19 26 0.87
20 2 0.07
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.66
Consensus pattern (19 bp):
TTTAAATTCTTGTTATTTT
Found at i:63995 original size:40 final size:38
Alignment explanation
Indices: 63918--63996 Score: 122
Period size: 38 Copynumber: 2.0 Consensus size: 38
63908 TCATTGATAG
*
63918 TTAGTTTAAATTCTTGTTATTTTTATATATTTTTGTAC
1 TTAGTTTAAATTCTTGTTATTTTTATATATTTCTGTAC
*
63956 TTAGTTTAAATTCTTGTTATTTTTTTATCTATTTCTGTAC
1 TTAGTTTAAATTCTTGTTA--TTTTTATATATTTCTGTAC
63996 T
1 T
63997 AATGTCGATG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 19 0.51
40 18 0.49
ACGTcount: A:0.22, C:0.08, G:0.08, T:0.63
Consensus pattern (38 bp):
TTAGTTTAAATTCTTGTTATTTTTATATATTTCTGTAC
Found at i:71780 original size:37 final size:37
Alignment explanation
Indices: 71739--71818 Score: 160
Period size: 37 Copynumber: 2.2 Consensus size: 37
71729 GTTAATGCAA
71739 GAGTAAAGTTTTAATTGTTGTTAAGTAAGTATAAGGT
1 GAGTAAAGTTTTAATTGTTGTTAAGTAAGTATAAGGT
71776 GAGTAAAGTTTTAATTGTTGTTAAGTAAGTATAAGGT
1 GAGTAAAGTTTTAATTGTTGTTAAGTAAGTATAAGGT
71813 GAGTAA
1 GAGTAA
71819 GAACGTATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.36, C:0.00, G:0.25, T:0.39
Consensus pattern (37 bp):
GAGTAAAGTTTTAATTGTTGTTAAGTAAGTATAAGGT
Found at i:76492 original size:17 final size:17
Alignment explanation
Indices: 76466--76503 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
76456 CTCATTTGTG
*
76466 ATTTATTTTTACTTTA-T
1 ATTTAATTTTA-TTTATT
76483 ATTTAATTTTATTTATT
1 ATTTAATTTTATTTATT
76500 ATTT
1 ATTT
76504 TTATAGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTAATTTTATTTATT
Found at i:76666 original size:21 final size:22
Alignment explanation
Indices: 76625--76666 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
76615 ATATTTTACC
**
76625 TTTATTTATTTTTATTGATATT
1 TTTATTTATTTGCATTGATATT
76647 TTTATTTATTTGCA-TGATAT
1 TTTATTTATTTGCATTGATAT
76667 AGTTTTACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (22 bp):
TTTATTTATTTGCATTGATATT
Found at i:80625 original size:21 final size:20
Alignment explanation
Indices: 80594--80656 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
80584 TTTTAGAAAA
*
80594 TTTTA-AATTTTTA-ACTTT
1 TTTTATAATTTTTATAATTT
80612 CTTTATATAATTTTTTATAATTT
1 -TTT-TATAA-TTTTTATAATTT
*
80635 TTTTATAATTTTTATGATTT
1 TTTTATAATTTTTATAATTT
80655 TT
1 TT
80657 AAAAAATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
19 3 0.08
20 15 0.39
21 7 0.18
22 9 0.24
23 4 0.11
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTTATAATTTTTATAATTT
Found at i:80646 original size:9 final size:10
Alignment explanation
Indices: 80617--80656 Score: 55
Period size: 11 Copynumber: 4.0 Consensus size: 10
80607 ACTTTCTTTA
80617 TATAATTTTT
1 TATAATTTTT
80627 TATAATTTTTT
1 TATAA-TTTTT
80638 TATAA-TTTT
1 TATAATTTTT
*
80647 TATGATTTTT
1 TATAATTTTT
80657 AAAAAATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 8 0.30
10 9 0.33
11 10 0.37
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (10 bp):
TATAATTTTT
Found at i:83846 original size:66 final size:66
Alignment explanation
Indices: 83740--83897 Score: 201
Period size: 66 Copynumber: 2.4 Consensus size: 66
83730 GTACAGGTCA
* * * * *
83740 TACTTCAGTTTATCCGATGAGGCATTGGGTATCAAATACATCAATGAGCGTTGGGC-GCAATCGA
1 TACTTCGGTTTATCCGATGAGGCACTGAGTACCAAATACATCAATGAGCGTTGGGCAGC-ATCAA
83804 AT
65 AT
* * * * *
83806 TACTTTGGTTTATTCGATGAGGCACTGAGTACCAAATACATCGATGAGCGTTGGGCATCATTAAA
1 TACTTCGGTTTATCCGATGAGGCACTGAGTACCAAATACATCAATGAGCGTTGGGCAGCATCAAA
83871 T
66 T
*
83872 TACTTCGGTTTATCCGATGAGACACT
1 TACTTCGGTTTATCCGATGAGGCACT
83898 AGGTGTCAAA
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
66 77 0.99
67 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (66 bp):
TACTTCGGTTTATCCGATGAGGCACTGAGTACCAAATACATCAATGAGCGTTGGGCAGCATCAAA
T
Found at i:83908 original size:66 final size:65
Alignment explanation
Indices: 83740--83923 Score: 199
Period size: 66 Copynumber: 2.8 Consensus size: 65
83730 GTACAGGTCA
* * * *
83740 TACTTCAGTTTATCCGATGAGGCATTGGGTATCAAATACATCAATGAGCGTTGGGCGCAATCGAA
1 TACTTCGGTTTATCCGATGAGGCACT-GGTATCAAATACATCGATGAGCGTTGGGCGCAATCAAA
83805 T
65 T
* * * * *
83806 TACTTTGGTTTATTCGATGAGGCACTGAGTACCAAATACATCGATGAGCGTTGGGCATC-ATTAA
1 TACTTCGGTTTATCCGATGAGGCACTG-GTATCAAATACATCGATGAGCGTTGGGC-GCAATCAA
83870 AT
64 AT
* * * * *
83872 TACTTCGGTTTATCCGATGAGACACTAGGTGTCAAATATATTGATGAACGTT
1 TACTTCGGTTTATCCGATGAGGCACT-GGTATCAAATACATCGATGAGCGTT
83924 AGACGTAAAC
Statistics
Matches: 98, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
65 1 0.01
66 95 0.97
67 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.32
Consensus pattern (65 bp):
TACTTCGGTTTATCCGATGAGGCACTGGTATCAAATACATCGATGAGCGTTGGGCGCAATCAAAT
Found at i:94069 original size:34 final size:34
Alignment explanation
Indices: 94030--94098 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
94020 AATAATTCAA
94030 ACTATCTAACAATGAATTGGAAAACAAGTAAACT
1 ACTATCTAACAATGAATTGGAAAACAAGTAAACT
94064 ACTATCTAACAATGAATTGGAAAACAAGTAAACT
1 ACTATCTAACAATGAATTGGAAAACAAGTAAACT
94098 A
1 A
94099 AGTATAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.51, C:0.14, G:0.12, T:0.23
Consensus pattern (34 bp):
ACTATCTAACAATGAATTGGAAAACAAGTAAACT
Found at i:100021 original size:18 final size:18
Alignment explanation
Indices: 99998--100037 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
99988 GTTGAAACGT
99998 TTATAA-ATATATATGTTA
1 TTATAATATAT-TATGTTA
*
100016 TTATAATTTATTATGTTA
1 TTATAATATATTATGTTA
100034 TTAT
1 TTAT
100038 TGTTGTGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (18 bp):
TTATAATATATTATGTTA
Found at i:101241 original size:30 final size:29
Alignment explanation
Indices: 101204--101426 Score: 121
Period size: 30 Copynumber: 7.6 Consensus size: 29
101194 TTAGAAGGTA
101204 CTTGAACTATCCAAAAATTATATTTTGACC
1 CTTGAACT-TCCAAAAATTATATTTTGACC
* *
101234 TTTGAACTTTCCAAACAA-TACATTTTGACC
1 CTTGAAC-TTCCAAA-AATTATATTTTGACC
*
101264 CTTAAACTTCACAAAAATTATATTTT-AGCC
1 CTTGAACTTC-CAAAAATTATATTTTGA-CC
* * * *
101294 CCTAAACTTTCCAAAAATTACA-TTTAACCC
1 CTTGAAC-TTCCAAAAATTATATTTTGA-CC
** * * * *
101324 CTAAAATTTCCAAAAATAACATTTTAACC
1 CTTGAACTTCCAAAAATTATATTTTGACC
** * * *
101353 CTAAAATTTCCAAAAATTACATTTT-TCC
1 CTTGAACTTCCAAAAATTATATTTTGACC
* ** ** *
101381 CTCGAACTTTTAAAAATTCCATTTTCACC
1 CTTGAACTTCCAAAAATTATATTTTGACC
**
101410 CTCAAACTTCCAAAAAT
1 CTTGAACTTCCAAAAAT
101427 CATGTTTTTG
Statistics
Matches: 160, Mismatches: 24, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
28 21 0.13
29 64 0.40
30 69 0.43
31 6 0.04
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.35
Consensus pattern (29 bp):
CTTGAACTTCCAAAAATTATATTTTGACC
Found at i:101308 original size:60 final size:60
Alignment explanation
Indices: 101208--101377 Score: 179
Period size: 60 Copynumber: 2.9 Consensus size: 60
101198 AAGGTACTTG
** * * *
101208 AACTATCCAAAAATTATATTTT-GACCTTTGAACTTTCCAAACAA-TACATTTTGA-CCCTTA
1 AACT-TCCAAAAATTATATTTTAG-CCCCTAAACTTTCCAAA-AATTACATTTTAACCCCTAA
101268 AACTTCACAAAAATTATATTTTAGCCCCTAAACTTTCCAAAAATTACA-TTTAACCCCTAA
1 AACTTC-CAAAAATTATATTTTAGCCCCTAAACTTTCCAAAAATTACATTTTAACCCCTAA
* * * * *
101328 AATTTCCAAAAATAACATTTTA-ACCCTAAAATTTCCAAAAATTACATTTT
1 AACTTCCAAAAATTATATTTTAGCCCCTAAACTTTCCAAAAATTACATTTT
101378 TCCCTCGAAC
Statistics
Matches: 95, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
58 22 0.23
59 25 0.26
60 47 0.49
61 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.02, T:0.35
Consensus pattern (60 bp):
AACTTCCAAAAATTATATTTTAGCCCCTAAACTTTCCAAAAATTACATTTTAACCCCTAA
Found at i:101324 original size:29 final size:30
Alignment explanation
Indices: 101208--101426 Score: 177
Period size: 29 Copynumber: 7.5 Consensus size: 30
101198 AAGGTACTTG
* * * ** *
101208 AACTATCCAAAAATTATATTTTGACCTTTG
1 AACTTTCCAAAAATTACATTTTAACCCCTA
* *
101238 AACTTTCCAAACAA-TACATTTTGACCCTTA
1 AACTTTCCAAA-AATTACATTTTAACCCCTA
* *
101268 AAC-TTCACAAAAATTATATTTTAGCCCCTA
1 AACTTTC-CAAAAATTACATTTTAACCCCTA
101298 AACTTTCCAAAAATTACA-TTTAACCCCTA
1 AACTTTCCAAAAATTACATTTTAACCCCTA
* *
101327 AAATTTCCAAAAATAACATTTTAA-CCCTA
1 AACTTTCCAAAAATTACATTTTAACCCCTA
* * *
101356 AAATTTCCAAAAATTACATTTT--TCCCTCG
1 AACTTTCCAAAAATTACATTTTAACCCCT-A
* * *
101385 AACTTT-TAAAAATTCCATTTTCA-CCCTCA
1 AACTTTCCAAAAATTACATTTTAACCCCT-A
101414 AAC-TTCCAAAAAT
1 AACTTTCCAAAAAT
101427 CATGTTTTTG
Statistics
Matches: 160, Mismatches: 19, Indels: 21
0.80 0.09 0.10
Matches are distributed among these distances:
28 19 0.12
29 76 0.47
30 60 0.38
31 5 0.03
ACGTcount: A:0.40, C:0.24, G:0.02, T:0.34
Consensus pattern (30 bp):
AACTTTCCAAAAATTACATTTTAACCCCTA
Found at i:107375 original size:99 final size:99
Alignment explanation
Indices: 107219--107540 Score: 384
Period size: 99 Copynumber: 3.3 Consensus size: 99
107209 AGAATATGTA
* *
107219 AAGGGAAAGG-TTGAGGTCGCAACGGCGAA-CCCGATACCTAAGAAGATGTGATCGGAAAGGTTG
1 AAGGG-AAGGATTGAGGTCGCAACGGCGAATCCAG-TACCTAAGAAGATGTGATGGGAAAGGTTG
*
107282 AGGCCACAATGGCGAACTTGGTACCATGAAAAGATG
64 AGGCCACAATGGCGAACTCGGTACCATGAAAAGATG
* * *
107318 AAGGGAAGGATCGAGGTCGCAACGACGAATCCAGTTCCTAAGAAGATGTGATGGGAAAGGTTGAG
1 AAGGGAAGGATTGAGGTCGCAACGGCGAATCCAGTACCTAAGAAGATGTGATGGGAAAGGTTGAG
* * * *
107383 CCCACAATGGTGAACCCGGTACCATGAAGAGATG
66 GCCACAATGGCGAACTCGGTACCATGAAAAGATG
* * * * ** *
107417 AAGGGAAGGATTAAGGTCACGACGGTGAATCTGGTACCTTAGAA-ATGTGATGGGAAAGGTTGAG
1 AAGGGAAGGATTGAGGTCGCAACGGCGAATCCAGTACCTAAGAAGATGTGATGGGAAAGGTTGAG
* *
107481 GTCACAATGGCGAACTCGGTACC-TTAAAAGATATG
66 GCCACAATGGCGAACTCGGTACCATGAAAAG--ATG
*
107516 AAGGGAAAGG-TTGAGGCCGCAACGG
1 AAGGG-AAGGATTGAGGTCGCAACGG
107541 TAAACTTGGC
Statistics
Matches: 188, Mismatches: 30, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
97 5 0.03
98 43 0.23
99 133 0.71
100 7 0.04
ACGTcount: A:0.34, C:0.16, G:0.33, T:0.17
Consensus pattern (99 bp):
AAGGGAAGGATTGAGGTCGCAACGGCGAATCCAGTACCTAAGAAGATGTGATGGGAAAGGTTGAG
GCCACAATGGCGAACTCGGTACCATGAAAAGATG
Found at i:107502 original size:49 final size:50
Alignment explanation
Indices: 107201--107540 Score: 232
Period size: 50 Copynumber: 6.9 Consensus size: 50
107191 AGATGAGTCA
* * * * *
107201 CGGTACC-AAGAATATGTAAAGGGAAAGGTTGAGGTCGCAACGGCGAACC
1 CGGTACCTTAGAAGATGTGAAGGGAAAGGTTGAGGTCACAACGGCGAACT
* * ** * *
107250 CGATACCTAAGAAGATGTGATCGGAAAGGTTGAGGCCACAATGGCGAACT
1 CGGTACCTTAGAAGATGTGAAGGGAAAGGTTGAGGTCACAACGGCGAACT
* * * * * *
107300 TGGTACCAT-GAA-AAGATGAAGGG-AAGGATCGAGGTCGCAACGACGAA-T
1 CGGTACCTTAGAAGATG-TGAAGGGAAAGG-TTGAGGTCACAACGGCGAACT
* * * * ** * * *
107348 CCAGTTCCTAAGAAGATGTGATGGGAAAGGTTGAGCCCACAATGGTGAACC
1 -CGGTACCTTAGAAGATGTGAAGGGAAAGGTTGAGGTCACAACGGCGAACT
* * * *
107399 CGGTACCAT-GAAGA-GATGAAGGG-AAGGATTAAGGTCACGACGGTGAA-T
1 CGGTACCTTAGAAGATG-TGAAGGGAAAGG-TTGAGGTCACAACGGCGAACT
* *
107447 CTGGTACCTTAGAA-ATGTGATGGGAAAGGTTGAGGTCACAATGGCGAACT
1 C-GGTACCTTAGAAGATGTGAAGGGAAAGGTTGAGGTCACAACGGCGAACT
* * * *
107497 CGGTACCTTAAAAGATATGAAGGGAAAGGTTGAGGCCGCAACGG
1 CGGTACCTTAGAAGATGTGAAGGGAAAGGTTGAGGTCACAACGG
107541 TAAACTTGGC
Statistics
Matches: 216, Mismatches: 59, Indels: 31
0.71 0.19 0.10
Matches are distributed among these distances:
48 13 0.06
49 97 0.45
50 100 0.46
51 6 0.03
ACGTcount: A:0.34, C:0.16, G:0.32, T:0.18
Consensus pattern (50 bp):
CGGTACCTTAGAAGATGTGAAGGGAAAGGTTGAGGTCACAACGGCGAACT
Found at i:107856 original size:41 final size:41
Alignment explanation
Indices: 107791--107888 Score: 137
Period size: 41 Copynumber: 2.4 Consensus size: 41
107781 TTACATCATC
* *
107791 ATTC-AGTCTTTTACCCTTAGTCAAGAAGGGTAGATTGAAG
1 ATTCTAGTCTTTTACCCTTAATCAAGAAGGGTAGAATGAAG
*
107831 ATTCTAGTCTTTTACCCTTAATCAAGAGGGGTAGAATGAAG
1 ATTCTAGTCTTTTACCCTTAATCAAGAAGGGTAGAATGAAG
*
107872 ATT-TCGATCTTTTACCC
1 ATTCTAG-TCTTTTACCC
107889 CGAGCCTATG
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
40 6 0.12
41 46 0.88
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (41 bp):
ATTCTAGTCTTTTACCCTTAATCAAGAAGGGTAGAATGAAG
Found at i:108856 original size:209 final size:208
Alignment explanation
Indices: 108044--109631 Score: 1775
Period size: 209 Copynumber: 7.6 Consensus size: 208
108034 GTAATAAAGC
* * ** * *
108044 GGTCGTCTTCCTGATGAGATACAAAGAAG-GAGACAAAATTTGTCTTCCTTATGGGATACAGAGA
1 GGTCGTCTTCCTGATGAGATACAGAGAAGTG-GACCAAATCCGTCTTCCTGATGAGATACAGAGA
* * * * * * * *
108108 AACGAATTAAAATAAGTGATGTGATCATCTTCTTGATGAGATACTGAGAAGTAAACCAAATCGAT
65 AGCGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAAT
* *** * * **
108173 GAAGCAAAGCT---TGTGAATAAAACTTCGAACCCCAACTTCCTGATGAGATAATGAGAAGTGGG
130 GAAACAAAGCTCAATGTGAGCGAAACTTCGAA-CCCAGCTTCCTGATGAGATACTGAGAAGCAGG
* *
108235 TCGAAGCAATAAAGT
194 TTGAAGCAATAAAAT
* * ** ** * * *
108250 GTTCATCTTCCTGACAAGATGTAGAGAAGTGAACCAAATCCATCTTCCTGATAAGATACAGAGAA
1 GGTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAGAGAA
* * * * * *
108315 GTGGATCAAAACAACGAGGCGGTCATTAGCGGTCATCTTCTTGATAAGATACTGAAAAGTAGACC
66 GCGGATTAAAAC-A--A----GTGA-T-GCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACC
* * * *
108380 AAATCAATGAAATC-AGGTTCAAAGAGAGC-AAATCTTCGAACCCTAGCTTCCTGATGAGATACT
122 AAATCAATGAAA-CAAAGCTCAATGTGAGCGAAA-CTTCGAACCC-AGCTTCCTGATGAGATACT
*
108443 GAGAAGCAGGTTGAAGCAATAAAAA
184 GAGAAGCAGGTTGAAGCAATAAAAT
*** ** * *
108468 GGTTACCTTCCTGATGAGATACAGAGAAGTAAACCAGACCCGTCTTCCTGATGAGATACAGAGAA
1 GGTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAGAGAA
* * * *
108533 GTGGATCAAAACAA-TGAGGCGGTCGTCTTCCT-ATTGAGATACTGAGAAGTAGACCAAATCAAT
66 GCGGATTAAAACAAGTGATGCGGTCATCTTCCTGA-TGAGATACTGAGAAGTAGACCAAATCAAT
* *
108596 GAAACAAAGCTCAATGTGAGCGAAACATCGAACCTCAGCTTCCTAATGAGATACTGAGAAGCAGG
130 GAAACAAAGCTCAATGTGAGCGAAACTTCGAACC-CAGCTTCCTGATGAGATACTGAGAAGCAGG
108661 TTGAAGCAATAAAAT
194 TTGAAGCAATAAAAT
* * * * *
108676 GGTCAG-CTTCCTGATGAGATACAAAGAAGTTGATCAAATTCGTCTTCCTGATGAGATACATAGA
1 GGTC-GTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAGAGA
* * * *
108740 AGCGGATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATATTGAGAAGCAGACCAAATCTAT
65 AGCGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAAT
** * * * *
108805 GAAACAAAGCTTGATATGAGCGAAACTTTGAACCTCAGCTTCCTGATGAGATATTGCGAAGCAGG
130 GAAACAAAGCTCAATGTGAGCGAAACTTCGAACC-CAGCTTCCTGATGAGATACTGAGAAGCAGG
*
108870 TCGAAGCAATAAAAT
194 TTGAAGCAATAAAAT
* * * * * * *
108885 GGTCGTCTTCTTGATAAGATACAAATAAGTGGACCAAATCCTTCTTCTTGATGAGATACAGAAAA
1 GGTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAGAGAA
* * * * * * *
108950 GCAGATTAAAACGAGTAAGGCGGTCATCTTCTTGATGAGATACAGAGAAGTATACCAAATCAATG
66 GCGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATG
* * *
109015 AAACAAAGCTCAATGTGAGCAAAACTTCGAACCCCAGCTTCCTGATGAGGTACTAAGAAGCAGGT
131 AAACAAAGCTCAATGTGAGCGAAACTTCGAA-CCCAGCTTCCTGATGAGATACTGAGAAGCAGGT
109080 TGAAGCAATAAAAT
195 TGAAGCAATAAAAT
* * * * *
109094 GGTCGTCTTCGTGATGAGATATAGAGAAGTGGACCATATTCGTCTTCTTGATGAGATACAGAGAA
1 GGTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAGAGAA
* * * * *
109159 GCGGATTAAAATAGGTGATGCGGTCATCTTCTTGATGATATA-TAGAGAAGTATG-TC-AATCAA
66 GCGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACT-GAGAAGTA-GACCAAATCAA
* * *
109221 TGAAACAAAGCTCAATGTGAGCGAAACTTCGAATCCCAGCTTCTTAATGACATACTGAGAAGCAG
129 TGAAACAAAGCTCAATGTGAGCGAAACTTCGAA-CCCAGCTTCCTGATGAGATACTGAGAAGCAG
* *
109286 GTCGAAGCAATAAAGT
193 GTTGAAGCAATAAAAT
* * **
109302 GGTTGTCTTCCAGATGAGATACAGAGAAGTGGACCAAATCCACCTTCCTGATGAGATACAGAGAA
1 GGTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAGAGAA
* *
109367 GCGGATTAAAACAAGTGATGTGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAAGG
66 GCGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATG
*
109432 AAACAAAGCTCAATGTGAGCGAAACTTTGAACCACAGCTTCCTGATGAGATACTGAGAAGC-GAG
131 AAACAAAGCTCAATGTGAGCGAAACTTCGAACC-CAGCTTCCTGATGAGATACTGAGAAGCAG-G
109496 TTGAAGCAA-AAAA-
194 TTGAAGCAATAAAAT
* * * *
109509 GCGATCGTCTTCTTGATGAGATACAGAGAAGTGGACCAAATTCATCTTCCTGATAAGATACAGAG
1 G-G-TCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAGAG
* *
109574 AAGTGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACC
64 AAGCGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACC
109632 GAGAGATGAA
Statistics
Matches: 1165, Mismatches: 183, Indels: 65
0.82 0.13 0.05
Matches are distributed among these distances:
206 55 0.05
207 6 0.01
208 357 0.31
209 572 0.49
210 5 0.00
213 3 0.00
214 1 0.00
215 46 0.04
216 1 0.00
217 7 0.01
218 112 0.10
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (208 bp):
GGTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAGAGAA
GCGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATG
AAACAAAGCTCAATGTGAGCGAAACTTCGAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTT
GAAGCAATAAAAT
Found at i:108881 original size:417 final size:416
Alignment explanation
Indices: 108048--109631 Score: 1776
Period size: 417 Copynumber: 3.8 Consensus size: 416
108038 TAAAGCGGTC
* * *** * * *
108048 GTCTTCCTGATGAGATACAAAGAAG-GAGACAAAATTTGTCTTCCTTATGGGATACAGAGAAACG
1 GTCTTCCTGATGAGATACAGAGAAGTG-GACCAAATCCATCTTCCTGATGAGATACAGAGAAGCG
* * * * * * * * *
108112 AATTAAAATAAGTGATGTGATCATCTTCTTGATGAGATACTGAGAAGTAAACCAAATCGATGAAG
65 GATTAAAACAA-TGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAA
** * * ** *
108177 CAAAGCT---TGTGAATAAAACTTCGAACCCCAACTTCCTGATGAGATAATGAGAAGTGGGTCGA
129 CAAAGCTCAATGTGAGCAAAACTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTTGA
* * * ** ** * *
108239 AGCAATAAAGTGTTCATCTTCCTGACAAGATGTAGAGAAGTGAACCAAATCCATCTTCCTGATAA
194 AGCAATAAAATGGTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCATCTTCCTGATAA
* * * * * *
108304 GATACAGAGAAGTGGATCAAAACAACGAGGCGGTCATTAGCGGTCATCTTCTTGATAAGATACTG
259 GATACAGAGAAGCGGATTAAAAC-A--A----GTGA-T-GCGGTCATCTTCCTGATGAGATACAG
* * *
108369 AAAAGTAGACCAAATCAATGAAATC--AGGTTCAA-A-GAGAGCAAATCTTCGAACCCTAGCTTC
315 AGAAGTAGACCAAATCAATGAAA-CAAAGCTT-AATATGAGCG-AAA-CTTCGAACCC-AGCTTC
* *
108430 CTGATGAGATACTGAGAAGCAGGTTGAAGCAATAAAAAGGTT
375 CTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTT
** ** * * * *
108472 ACCTTCCTGATGAGATACAGAGAAGTAAACCAGACCCGTCTTCCTGATGAGATACAGAGAAGTGG
1 GTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGCGG
* *
108537 ATCAAAACAATGAGGCGGTCGTCTTCCT-ATTGAGATACTGAGAAGTAGACCAAATCAATGAAAC
66 ATTAAAACAATGAGGCGGTCATCTTCCTGA-TGAGATACTGAGAAGTAGACCAAATCAATGAAAC
* * * *
108601 AAAGCTCAATGTGAGCGAAACATCGAACCTCAGCTTCCTAATGAGATACTGAGAAGCAGGTTGAA
130 AAAGCTCAATGTGAGCAAAACTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTTGAA
* * * * *
108666 GCAATAAAATGGTCAG-CTTCCTGATGAGATACAAAGAAGTTGATCAAATTCGTCTTCCTGATGA
195 GCAATAAAATGGTC-GTCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCATCTTCCTGATAA
* * ** *
108730 GATACATAGAAGCGGATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATATTGAGAAGCAGA
259 GATACAGAGAAGCGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGA
* * * *
108795 CCAAATCTATGAAACAAAGCTTGATATGAGCGAAACTTTGAACCTCAGCTTCCTGATGAGATATT
324 CCAAATCAATGAAACAAAGCTTAATATGAGCGAAACTTCGAACC-CAGCTTCCTGATGAGATACT
* *
108860 GCGAAGCAGGTCGAAGCAATAAAATGGTC
388 GAGAAGCAGGTCGAAGCAATAAAATGGTT
* * * * * * * *
108889 GTCTTCTTGATAAGATACAAATAAGTGGACCAAATCCTTCTTCTTGATGAGATACAGAAAAGCAG
1 GTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGCGG
* * * * *
108954 ATTAAAACGAGTAAGGCGGTCATCTTCTTGATGAGATACAGAGAAGTATACCAAATCAATGAAAC
66 ATTAAAAC-AATGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAAC
* *
109019 AAAGCTCAATGTGAGCAAAACTTCGAACCCCAGCTTCCTGATGAGGTACTAAGAAGCAGGTTGAA
130 AAAGCTCAATGTGAGCAAAACTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTTGAA
* * * * * *
109084 GCAATAAAATGGTCGTCTTCGTGATGAGATATAGAGAAGTGGACCATATTCGTCTTCTTGATGAG
195 GCAATAAAATGGTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCATCTTCCTGATAAG
* * * * *
109149 ATACAGAGAAGCGGATTAAAATAGGTGATGCGGTCATCTTCTTGATGATATATAGAGAAGTATG-
260 ATACAGAGAAGCGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACAGAGAAGTA-GA
* * * * * *
109213 TC-AATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCGAATCCCAGCTTCTTAATGACATACT
324 CCAAATCAATGAAACAAAGCTTAATATGAGCGAAACTTCGAA-CCCAGCTTCCTGATGAGATACT
*
109277 GAGAAGCAGGTCGAAGCAATAAAGTGGTT
388 GAGAAGCAGGTCGAAGCAATAAAATGGTT
* *
109306 GTCTTCCAGATGAGATACAGAGAAGTGGACCAAATCCACCTTCCTGATGAGATACAGAGAAGCGG
1 GTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGCGG
* * *
109371 ATTAAAACAAGTGATGTGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAAGGAAAC
66 ATTAAAACAA-TGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAAC
* * *
109436 AAAGCTCAATGTGAGCGAAACTTTGAACCACAGCTTCCTGATGAGATACTGAGAAGC-GAGTTGA
130 AAAGCTCAATGTGAGCAAAACTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAG-GTTGA
*
109500 AGCAA-AAAA-GCGATCGTCTTCTTGATGAGATACAGAGAAGTGGACCAAATTCATCTTCCTGAT
194 AGCAATAAAATG-G-TCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCATCTTCCTGAT
*
109563 AAGATACAGAGAAGTGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACAGAGAAGTA
257 AAGATACAGAGAAGCGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACAGAGAAGTA
109628 GACC
322 GACC
109632 GAGAGATGAA
Statistics
Matches: 977, Mismatches: 162, Indels: 49
0.82 0.14 0.04
Matches are distributed among these distances:
415 1 0.00
416 9 0.01
417 505 0.52
418 230 0.24
419 9 0.01
422 1 0.00
423 51 0.05
424 57 0.06
425 1 0.00
426 113 0.12
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (416 bp):
GTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGCGG
ATTAAAACAATGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACA
AAGCTCAATGTGAGCAAAACTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTTGAAG
CAATAAAATGGTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCATCTTCCTGATAAGA
TACAGAGAAGCGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACC
AAATCAATGAAACAAAGCTTAATATGAGCGAAACTTCGAACCCAGCTTCCTGATGAGATACTGAG
AAGCAGGTCGAAGCAATAAAATGGTT
Found at i:109247 original size:626 final size:622
Alignment explanation
Indices: 108048--109631 Score: 1921
Period size: 626 Copynumber: 2.5 Consensus size: 622
108038 TAAAGCGGTC
* * * * * *
108048 GTCTTCCTGATGAGATACAAAGAAGGAGACAAAATTTGTCTTCCTTATGGGATACAGAGAAACGA
1 GTCTTCCTGATGAGATACAAAGAAGTAGAC-AAATTCGTCTTCCTGATGAGATACAGAGAAGCGG
* * * * * *
108113 ATTAAAATAAGTGATGTGATCATCTTCTTGATGAGATACTGAGAAGTAAACCAAATCGATGAAGC
65 ATTAAAACAAGTGATGTGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAAC
*** * * * *
108178 AAAGCTTG--TGAATAAAACTTCGAACCCCAACTTCCTGATGAGATAATGAGAAGTGGGTCGAAG
130 AAAGCTTGATTGAGCGAAACTTTGAACCACAGCTTCCTGATGAGATAATGAGAAG-CGGTCGAAG
* * * * * ** *
108241 CAATAAAGTGTTCATCTTCCTGACAAGATGTAGAGAAGTGAACCAAATCCATCTTCCTGATAAGA
194 CAATAAAATGGTCGTCTTCTTGATAAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATAAGA
* * * *
108306 TACAGAGAAGTGGATCAAAACAACGAGGCGGTCATTAGCGGTCATCTTCTTGATAAGATACTGAA
259 TACAGAGAAGTGGAT--TAA-AACGA----GT-A--AGCGGTCATCTTCTTGATGAGATACAGAG
* * * *
108371 AAGTAGACCAAATCAATGAAATCAGGTTCAAAGAGAGCAAATCTTCGAACCCTAGCTTCCTGATG
314 AAGTAGACCAAATCAATGAAATCAAGCTCAAAGAGAGCAAAACTTCGAACCCCAGCTTCCTGATG
* *
108436 AGATACTGAGAAGCAGGTTGAAGCAATAAAAAGGTTACCTTCCTGATGAGATACAGAGAAGTAAA
379 AGATACTAAGAAGCAGGTTGAAGCAATAAAAAGGTCACCTTCCTGATGAGATACAGAGAAGTAAA
* *
108501 CCAGACCCGTCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATGAGGCGGTCGTCTTCCTA
444 CCAGACCCGTCTTCCTGATGAGATACAGAGAAGCGGATCAAAACAATGAGGCGGTCATCTTCCTA
108566 TTGAGATACTGAGAAGTAGACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACATCGAA-CC
509 TTGAGATACTGAGAAGTAGACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACATCGAATCC
* *
108630 TCAGCTTCCTAATGAGATACTGAGAAGCAGGTTGAAGCAATAAAATGGTCA
574 -CAGCTTCCTAATGACATACTGAGAAGCAGGTCGAAGCAATAAAATGGT-A
* *
108681 G-CTTCCTGATGAGATACAAAGAAGTTGATCAAATTCGTCTTCCTGATGAGATACATAGAAGCGG
1 GTCTTCCTGATGAGATACAAAGAAGTAGA-CAAATTCGTCTTCCTGATGAGATACAGAGAAGCGG
* * * * *
108745 ATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATATTGAGAAGCAGACCAAATCTATGAAAC
65 ATTAAAACAAGTGATGTGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAAC
* * *
108810 AAAGCTTGATATGAGCGAAACTTTGAACCTCAGCTTCCTGATGAGATATTGCGAAGCAGGTCGAA
130 AAAGCTTGAT-TGAGCGAAACTTTGAACCACAGCTTCCTGATGAGATAATGAGAAGC-GGTCGAA
* * * * *
108875 GCAATAAAATGGTCGTCTTCTTGATAAGATACAAATAAGTGGACCAAATCCTTCTTCTTGATGAG
193 GCAATAAAATGGTCGTCTTCTTGATAAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATAAG
* ** *
108940 ATACAGAAAAGCAGATTAAAACGAGTAAGGCGGTCATCTTCTTGATGAGATACAGAGAAGTATAC
258 ATACAGAGAAGTGGATTAAAACGAGTAA-GCGGTCATCTTCTTGATGAGATACAGAGAAGTAGAC
* * *
109005 CAAATCAATGAAA-CAAAGCTCAATGTGAGCAAAACTTCGAACCCCAGCTTCCTGATGAGGTACT
322 CAAATCAATGAAATC-AAGCTCAAAGAGAGCAAAACTTCGAACCCCAGCTTCCTGATGAGATACT
* ** * * ** * **
109069 AAGAAGCAGGTTGAAGCAATAAAATGGTCGTCTTCGTGATGAGATATAGAGAAGTGGACCATATT
386 AAGAAGCAGGTTGAAGCAATAAAAAGGTCACCTTCCTGATGAGATACAGAGAAGTAAACCAGACC
* * * * * * *
109134 CGTCTTCTTGATGAGATACAGAGAAGCGGATTAAAATAGGTGATGCGGTCATCTTCTTGA-TGAT
451 CGTCTTCCTGATGAGATACAGAGAAGCGGATCAAAACA-ATGAGGCGGTCATCTTCCT-ATTGAG
* *
109198 ATA-TAGAGAAGTATG-TC-AATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCGAATCCCAG
514 ATACT-GAGAAGTA-GACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACATCGAATCCCAG
* * *
109260 CTTCTTAATGACATACTGAGAAGCAGGTCGAAGCAATAAAGTGGTT
577 CTTCCTAATGACATACTGAGAAGCAGGTCGAAGCAATAAAATGGTA
* * * * **
109306 GTCTTCCAGATGAGATACAGAGAAGTGGACCAAATCCACCTTCCTGATGAGATACAGAGAAGCGG
1 GTCTTCCTGATGAGATACAAAGAAGTAGA-CAAATTCGTCTTCCTGATGAGATACAGAGAAGCGG
*
109371 ATTAAAACAAGTGATGTGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAAGGAAAC
65 ATTAAAACAAGTGATGTGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAAC
** * *
109436 AAAGCTCAATGTGAGCGAAACTTTGAACCACAGCTTCCTGATGAGATACTGAGAAGCGAGTTGAA
130 AAAGCTTGAT-TGAGCGAAACTTTGAACCACAGCTTCCTGATGAGATAATGAGAAGCG-GTCGAA
* *
109501 GCAA-AAAA-GCGATCGTCTTCTTGATGAGATACAGAGAAGTGGACCAAATTCATCTTCCTGATA
193 GCAATAAAATG-G-TCGTCTTCTTGATAAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATA
* * *
109564 AGATACAGAGAAGTGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACAGAGAAGTAG
256 AGATACAGAGAAGTGGATTAAAACGAGT-AAGCGGTCATCTTCTTGATGAGATACAGAGAAGTAG
109629 ACC
320 ACC
109632 GAGAGATGAA
Statistics
Matches: 816, Mismatches: 118, Indels: 41
0.84 0.12 0.04
Matches are distributed among these distances:
624 1 0.00
625 9 0.01
626 534 0.65
627 34 0.04
628 4 0.00
632 121 0.15
633 4 0.00
635 109 0.13
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (622 bp):
GTCTTCCTGATGAGATACAAAGAAGTAGACAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGA
TTAAAACAAGTGATGTGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACA
AAGCTTGATTGAGCGAAACTTTGAACCACAGCTTCCTGATGAGATAATGAGAAGCGGTCGAAGCA
ATAAAATGGTCGTCTTCTTGATAAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATAAGATA
CAGAGAAGTGGATTAAAACGAGTAAGCGGTCATCTTCTTGATGAGATACAGAGAAGTAGACCAAA
TCAATGAAATCAAGCTCAAAGAGAGCAAAACTTCGAACCCCAGCTTCCTGATGAGATACTAAGAA
GCAGGTTGAAGCAATAAAAAGGTCACCTTCCTGATGAGATACAGAGAAGTAAACCAGACCCGTCT
TCCTGATGAGATACAGAGAAGCGGATCAAAACAATGAGGCGGTCATCTTCCTATTGAGATACTGA
GAAGTAGACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACATCGAATCCCAGCTTCCTAAT
GACATACTGAGAAGCAGGTCGAAGCAATAAAATGGTA
Found at i:110038 original size:34 final size:34
Alignment explanation
Indices: 110003--110088 Score: 129
Period size: 34 Copynumber: 2.6 Consensus size: 34
109993 TGGACCCAAT
110003 TTTAAATTTA-TTTAAGTTTGAATTTACTTTAAA
1 TTTAAATTTATTTTAAGTTTGAATTTACTTTAAA
* * * *
110036 TTTAAACTTATTTTGAGTTTGGATTTATTTTAAA
1 TTTAAATTTATTTTAAGTTTGAATTTACTTTAAA
110070 TTTAAATTTATTTTAAGTT
1 TTTAAATTTATTTTAAGTT
110089 AAATTTAAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 9 0.20
34 37 0.80
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (34 bp):
TTTAAATTTATTTTAAGTTTGAATTTACTTTAAA
Found at i:110078 original size:17 final size:17
Alignment explanation
Indices: 110003--110095 Score: 91
Period size: 17 Copynumber: 5.6 Consensus size: 17
109993 TGGACCCAAT
*
110003 TTTAAATTTA-TTTAAG
1 TTTAAATTTATTTTAAA
* *
110019 TTTGAATTTACTTTAAA
1 TTTAAATTTATTTTAAA
* * *
110036 TTTAAACTTATTTTGAG
1 TTTAAATTTATTTTAAA
**
110053 TTTGGATTTATTTTAAA
1 TTTAAATTTATTTTAAA
110070 TTTAAATTTATTTT-AA
1 TTTAAATTTATTTTAAA
*
110086 GTTAAATTTA
1 TTTAAATTTA
110096 AACTTTAAAA
Statistics
Matches: 61, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
16 20 0.33
17 41 0.67
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:110792 original size:29 final size:29
Alignment explanation
Indices: 110737--110795 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
110727 CATATTAACT
*
110737 ATATTAAATGCATAATAAATAATTAATAA
1 ATATTAAATGCAAAATAAATAATTAATAA
110766 ATATTAAATG-AAAAT-AATAATAGTAATAA
1 ATATTAAATGCAAAATAAATAAT--TAATAA
110795 A
1 A
110796 AGAAAGTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 6 0.22
28 4 0.15
29 17 0.63
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (29 bp):
ATATTAAATGCAAAATAAATAATTAATAA
Found at i:111914 original size:30 final size:29
Alignment explanation
Indices: 111873--112223 Score: 230
Period size: 29 Copynumber: 11.9 Consensus size: 29
111863 AAGGTCCTTG
* *
111873 AACTATCCAAAAATTATATTTTAACCCCTA
1 AACTTTCCAAAAATTACATTTTAA-CCCTA
* *
111903 AACTTTCCAAAAATTACA-TTTAGACACTCG
1 AACTTTCCAAAAATTACATTTTA-ACCCT-A
*
111933 AACTTCCCAAAAATTACATTTTAACCTCTA
1 AACTTTCCAAAAATTACATTTTAACC-CTA
* *
111963 AACTTTCCAATAATTACATTTTGACACCTA
1 AACTTTCCAAAAATTACATTTTAAC-CCTA
* * * * * *
111993 AACTTTTCAAAAATCACCTTTTGACCTTG
1 AACTTTCCAAAAATTACATTTTAACCCTA
*
112022 AACTTTCCAAAAATTACATTTTAACCCTCG
1 AACTTTCCAAAAATTACATTTTAACCCT-A
* ** *
112052 AA-TTTCCAAAAATCACATTTTTTCCCTCG
1 AACTTTCCAAAAATTACATTTTAACCCT-A
* * *
112081 AACTAT-CAAAAATTCCATTTTTACCCTCA
1 AACTTTCCAAAAATTACATTTTAACCCT-A
* ** * * *
112110 AAC-TTCCAAAAATCATGTTTTTACCTTG
1 AACTTTCCAAAAATTACATTTTAACCCTA
** * *
112138 AA-TATTCTTAAAATGACATTTTTACCCCTAA
1 AACT-TTCCAAAAATTACA-TTTTAACCCT-A
*
112169 AACTTTCC-AAAATTACATTTTAACCCCA
1 AACTTTCCAAAAATTACATTTTAACCCTA
* * *
112197 AACTCTCCGAAACTT-CATTTTGAACCC
1 AACTTTCCAAAAATTACATTTT-AACCC
112224 CGATTTTTTT
Statistics
Matches: 255, Mismatches: 51, Indels: 31
0.76 0.15 0.09
Matches are distributed among these distances:
28 17 0.07
29 123 0.48
30 102 0.40
31 12 0.05
32 1 0.00
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.35
Consensus pattern (29 bp):
AACTTTCCAAAAATTACATTTTAACCCTA
Found at i:111939 original size:29 final size:29
Alignment explanation
Indices: 111872--112122 Score: 188
Period size: 30 Copynumber: 8.5 Consensus size: 29
111862 GAAGGTCCTT
* *
111872 GAACTATCCAAAAATTATATTTTAACCC-C
1 GAACT-TCCAAAAATTACATTTTGACCCTC
* * *
111901 TAAACTTTCCAAAAATTACATTTAGACACTC
1 -GAAC-TTCCAAAAATTACATTTTGACCCTC
*
111932 GAACTTCCCAAAAATTACATTTT-AACCTC
1 GAACTT-CCAAAAATTACATTTTGACCCTC
* *
111961 TAAACTTTCCAATAATTACATTTTGACACCT-
1 -GAAC-TTCCAAAAATTACATTTTGAC-CCTC
* * * * *
111992 AAACTTTTCAAAAATCACCTTTTGA-CCTT
1 GAAC-TTCCAAAAATTACATTTTGACCCTC
*
112021 GAACTTTCCAAAAATTACATTTTAACCCTC
1 GAAC-TTCCAAAAATTACATTTTGACCCTC
* * **
112051 GAATTTCCAAAAATCACATTTTTTCCCTC
1 GAACTTCCAAAAATTACATTTTGACCCTC
* *
112080 GAACTAT-CAAAAATTCCATTTTTACCCTC
1 GAACT-TCCAAAAATTACATTTTGACCCTC
*
112109 AAACTTCCAAAAAT
1 GAACTTCCAAAAAT
112123 CATGTTTTTA
Statistics
Matches: 179, Mismatches: 31, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
28 4 0.02
29 82 0.46
30 85 0.47
31 5 0.03
32 3 0.02
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.34
Consensus pattern (29 bp):
GAACTTCCAAAAATTACATTTTGACCCTC
Found at i:112092 original size:58 final size:59
Alignment explanation
Indices: 111873--112193 Score: 242
Period size: 60 Copynumber: 5.4 Consensus size: 59
111863 AAGGTCCTTG
* * * * * * *
111873 AACTATCCAAAAATTATATTTTAACCCCTAAACTTTCCAAAAATTACA-TTTAGACACTCG
1 AACTTTCCAAAAATCACATTTTAACCTC-GAACTTTCCAAAAATTACATTTTA-ACCCTCA
* * * * *
111933 AACTTCCCAAAAATTACATTTTAACCTCTAAACTTTCCAATAATTACATTTTGACACCT-A
1 AACTTTCCAAAAATCACATTTTAACCTC-GAACTTTCCAAAAATTACATTTTAAC-CCTCA
* * * * *
111993 AACTTTTCAAAAATCACCTTTTGACCTTGAACTTTCCAAAAATTACATTTTAACCCTCG
1 AACTTTCCAAAAATCACATTTTAACCTCGAACTTTCCAAAAATTACATTTTAACCCTCA
** * * *
112052 AA-TTTCCAAAAATCACATTTTTTCCCTCGAACTAT-CAAAAATTCCATTTTTACCCTCA
1 AACTTTCCAAAAATCACA-TTTTAACCTCGAACTTTCCAAAAATTACATTTTAACCCTCA
** * * ** * * *
112110 AAC-TTCCAAAAATCATGTTTTTACCTTGAA-TATTCTTAAAATGACATTTTTACCCCTAA
1 AACTTTCCAAAAATCACATTTTAACCTCGAACT-TTCCAAAAATTACA-TTTTAACCCTCA
*
112169 AACTTTCC-AAAATTACATTTTAACC
1 AACTTTCCAAAAATCACATTTTAACC
112194 CCAAACTCTC
Statistics
Matches: 209, Mismatches: 43, Indels: 19
0.77 0.16 0.07
Matches are distributed among these distances:
56 1 0.00
57 12 0.06
58 57 0.27
59 63 0.30
60 71 0.34
61 5 0.02
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.36
Consensus pattern (59 bp):
AACTTTCCAAAAATCACATTTTAACCTCGAACTTTCCAAAAATTACATTTTAACCCTCA
Found at i:112189 original size:29 final size:29
Alignment explanation
Indices: 111873--112217 Score: 131
Period size: 30 Copynumber: 11.7 Consensus size: 29
111863 AAGGTCCTTG
* *
111873 AACTATCCAAAAATTATATTTTAACCCCT-A
1 AACTTTCC-AAAATTACATTTT-ACCCCTCA
* * *
111903 AACTTTCCAAAAATTACA-TTTAGACACTCG
1 AACTTTCC-AAAATTACATTTTA-CCCCTCA
* *
111933 AACTTCCCAAAAATTACATTTTA-ACCTCTA
1 AACTTTCC-AAAATTACATTTTACCCCTC-A
*
111963 AACTTTCCAATAATTACATTTTGACACCT-A
1 AACTTTCCAA-AATTACATTTT-ACCCCTCA
* * * **
111993 AACTTTTCAAAAATCACCTTTTGA--CCTTG
1 AAC-TTTCCAAAATTACATTTT-ACCCCTCA
* *
112022 AACTTTCCAAAAATTACATTTTAACCCTCG
1 AACTTTCC-AAAATTACATTTTACCCCTCA
* ** *
112052 AA-TTTCCAAAAATCACATTTTTTCCCTCG
1 AACTTTCC-AAAATTACATTTTACCCCTCA
* * *
112081 AACTATCAAAAATTCCATTTTTA-CCCTCA
1 AACTTTCCAAAATTACA-TTTTACCCCTCA
* *** **
112110 AAC-TTCCAAAAAT-CATGTTTTTACCTTG
1 AACTTTCCAAAATTACAT-TTTACCCCTCA
* * *
112138 AA-TATTCTTAAAATGACATTTTTACCCCTAA
1 AACT-TTC-CAAAATTACA-TTTTACCCCTCA
*
112169 AACTTTCCAAAATTACATTTTAACCC-CA
1 AACTTTCCAAAATTACATTTTACCCCTCA
* *
112197 AACTCTCCGAAACTT-CATTTT
1 AACTTTCC-AAAATTACATTTT
112218 GAACCCCGAT
Statistics
Matches: 244, Mismatches: 48, Indels: 48
0.72 0.14 0.14
Matches are distributed among these distances:
26 1 0.00
27 5 0.02
28 35 0.14
29 82 0.34
30 91 0.37
31 24 0.10
32 6 0.02
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (29 bp):
AACTTTCCAAAATTACATTTTACCCCTCA
Found at i:113318 original size:3 final size:3
Alignment explanation
Indices: 113310--113345 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
113300 TATCATTTAA
*
113310 AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
113346 TAGTGCCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:114307 original size:51 final size:51
Alignment explanation
Indices: 114229--114339 Score: 186
Period size: 51 Copynumber: 2.2 Consensus size: 51
114219 CTCTCCTCCA
* *
114229 CCACTCCTTTGCCTCGAACCACCATCATCACCACTGGACCTCCACCTTGCCG
1 CCACTCC-TTGCCTCGAACCACAATCATCACCACCGGACCTCCACCTTGCCG
*
114281 CCACTCCTTGCCTCGAACTACAATCATCACCACCGGACCTCCACCTTGCCG
1 CCACTCCTTGCCTCGAACCACAATCATCACCACCGGACCTCCACCTTGCCG
114332 CCACTCCT
1 CCACTCCT
114340 CTCCTTTATT
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 49 0.88
52 7 0.12
ACGTcount: A:0.20, C:0.49, G:0.11, T:0.21
Consensus pattern (51 bp):
CCACTCCTTGCCTCGAACCACAATCATCACCACCGGACCTCCACCTTGCCG
Found at i:115495 original size:21 final size:21
Alignment explanation
Indices: 115456--115495 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
115446 CTCACATGCC
* *
115456 AAAGTGAAAAATTATTTTTTT
1 AAAGTGAAAAAGTAATTTTTT
115477 AAAGTGAAAAAGTAATTTT
1 AAAGTGAAAAAGTAATTTT
115496 GTGGACATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.40
Consensus pattern (21 bp):
AAAGTGAAAAAGTAATTTTTT
Found at i:115610 original size:47 final size:47
Alignment explanation
Indices: 115541--115651 Score: 177
Period size: 47 Copynumber: 2.4 Consensus size: 47
115531 AAGGTGGAAG
* *
115541 AAGTGACAGTTTATCTGCAAAAGTGGTGGCTTGTTCATAATATTACA
1 AAGTGACAGTTTATCTACAAAAGTGGTGGCTTGTTCACAATATTACA
* **
115588 AAGTGACATTTTATCTACAAAAGTGGTGGCTTGTTCACAATATTATT
1 AAGTGACAGTTTATCTACAAAAGTGGTGGCTTGTTCACAATATTACA
115635 AAGTGACAGTTTATCTA
1 AAGTGACAGTTTATCTA
115652 TGTTACTGTG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 58 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (47 bp):
AAGTGACAGTTTATCTACAAAAGTGGTGGCTTGTTCACAATATTACA
Found at i:140709 original size:30 final size:29
Alignment explanation
Indices: 140654--141209 Score: 427
Period size: 30 Copynumber: 18.8 Consensus size: 29
140644 GAAGAATTTG
* *
140654 GGGTT-AAATATAATTTTGAAAAGTTTAA
1 GGGTTAAAATGTAATTTTGGAAAGTTTAA
* *
140682 GGGTAAAAATATAATTTTAGGAAAGTTT-A
1 GGGTTAAAATGTAATTTT-GGAAAGTTTAA
* * *
140711 GGGTCAAAATGTGATTTTGAGAAGGTTT-A
1 GGGTTAAAATGTAATTTTG-GAAAGTTTAA
* *
140740 GTGGTT-AAATGTGATTTTGGAGAAGTTT-G
1 G-GGTTAAAATGTAATTTTGGA-AAGTTTAA
* * * *
140769 GGGATAAAAATATAATTTTAGAAAGGTTTAG
1 GGG-TTAAAATGTAATTTTGGAAA-GTTTAA
140800 GGGTTAAAATGTAATTTTGGAAAGGTTTAA
1 GGGTTAAAATGTAATTTTGGAAA-GTTTAA
* * *
140830 GGG-TCAAATGTGATCTTGGAGAAGTTT--
1 GGGTTAAAATGTAATTTTGGA-AAGTTTAA
* *
140857 GGAGATAAAAATGTAATTTTGGAAAGATTTAG
1 GG-G-TTAAAATGTAATTTTGGAAAG-TTTAA
* * *
140889 GGGTTAGAATGTGATTTTGGTGAAGTTTAA
1 GGGTTAAAATGTAATTTTGG-AAAGTTTAA
* *
140919 GGGTTAAAATGTAATTTTGGAAGGGTTT-G
1 GGGTTAAAATGTAATTTTGGAA-AGTTTAA
** *
140948 GAGGTTAAAATGTGGTTTTAGAGAAGTTTAA
1 G-GGTTAAAATGTAATTTTGGA-AAGTTTAA
* *
140979 TGGTTAAAATGTAATTTTGGAGAAGTTTGA
1 GGGTTAAAATGTAATTTTGGA-AAGTTTAA
* *
141009 -GGTTAAAATGTAATTTTAGAAAACTTT-A
1 GGGTTAAAATGTAATTTT-GGAAAGTTTAA
* **
141037 GAGGTTAAAGTGTAATTTTAAAAAAGTTT-A
1 G-GGTTAAAATGTAATTTT-GGAAAGTTTAA
* *
141067 GGGGTCAAATGTAATTTTGGAAAAG-TTAGA
1 GGGTTAAAATGTAATTTTGG-AAAGTTTA-A
141097 GGGGTTAAAATGTAATTTTGGAAAGTTTAA
1 -GGGTTAAAATGTAATTTTGGAAAGTTTAA
** *
141127 GGGTTAAAATGTAATTTAAGATAAGTTTAG
1 GGGTTAAAATGTAATTTTGGA-AAGTTTAA
* * *
141157 GGGTCAAAATGTAATTTTAGAGAAGTTTAG
1 GGGTTAAAATGTAATTTTGGA-AAGTTTAA
*
141187 GGGTCAAAATGTAATTTTGGAAA
1 GGGTTAAAATGTAATTTTGGAAA
141210 AAATTGGGGG
Statistics
Matches: 435, Mismatches: 63, Indels: 59
0.78 0.11 0.11
Matches are distributed among these distances:
27 2 0.00
28 13 0.03
29 143 0.33
30 245 0.56
31 30 0.07
32 2 0.00
ACGTcount: A:0.37, C:0.01, G:0.26, T:0.36
Consensus pattern (29 bp):
GGGTTAAAATGTAATTTTGGAAAGTTTAA
Found at i:140849 original size:89 final size:86
Alignment explanation
Indices: 140654--141209 Score: 494
Period size: 89 Copynumber: 6.3 Consensus size: 86
140644 GAAGAATTTG
* * * * * *
140654 GGGTTAAATATAATTTTGAAAAGTTTAAGGGTAAAAATATAATTTTAGGAAAGTTTA-GGGTCAA
1 GGGTAAAATGTAATTTTGGAAAGTTT-GGGGTAAAAATGTAATTTTA-GAAAGTTTAGGGGTTAA
*
140718 AATGTGATTTT-GAGAAGGTTT-A
64 AATGTAATTTTGGAGAA-GTTTAA
* * *
140740 GTGGTTAAATGTGATTTTGGAGAAGTTTGGGGATAAAAATATAATTTTAGAAAGGTTTAGGGGTT
1 G-GGTAAAATGTAATTTTGGA-AAGTTTGGGG-TAAAAATGTAATTTTAGAAA-GTTTAGGGGTT
140805 AAAATGTAATTTTGGA-AAGGTTTAA
62 AAAATGTAATTTTGGAGAA-GTTTAA
* * * * *
140830 GGGTCAAATGTGATCTTGGAGAAGTTTGGAGATAAAAATGTAATTTTGGAAAGATTTAGGGGTTA
1 GGGTAAAATGTAATTTTGGA-AAGTTTGG-GGTAAAAATGTAATTTTAGAAAG-TTTAGGGGTTA
* * *
140895 GAATGTGATTTTGGTGAAGTTTAA
63 AAATGTAATTTTGGAGAAGTTTAA
* * ** **
140919 GGGTTAAAATGTAATTTTGGAAGGGTTTGGAGGTTAAAATGTGGTTTTAGAGAAGTTTAATGGTT
1 GGG-TAAAATGTAATTTTGGAA-AGTTTGG-GGTAAAAATGTAATTTTAGA-AAGTTTAGGGGTT
*
140984 AAAATGTAATTTTGGAGAAGTTTGA
62 AAAATGTAATTTTGGAGAAGTTTAA
* * * * * * * *
141009 GGTTAAAATGTAATTTTAGAAAACTTTAGAGGTTAAAGTGTAATTTTAAAAAAGTTTAGGGG-TC
1 GGGTAAAATGTAATTTT-GGAAAGTTT-GGGGTAAAAATGTAATTTT-AGAAAGTTTAGGGGTTA
*
141073 AAATGTAATTTTGGAAAAG-TTAGA
63 AAATGTAATTTTGGAGAAGTTTA-A
* * * *
141097 GGGGTTAAAATGTAATTTTGGAAAGTTTAAGGGTTAAAATGTAATTTAAGATAAGTTTAGGGGTC
1 -GGG-TAAAATGTAATTTTGGAAAGTTT-GGGGTAAAAATGTAATTTTAGA-AAGTTTAGGGGTT
* *
141162 AAAATGTAATTTTAGAGAAGTTTAG
62 AAAATGTAATTTTGGAGAAGTTTAA
141187 GGGTCAAAATGTAATTTTGGAAA
1 GGGT-AAAATGTAATTTTGGAAA
141210 AAATTGGGGG
Statistics
Matches: 391, Mismatches: 56, Indels: 43
0.80 0.11 0.09
Matches are distributed among these distances:
86 1 0.00
87 25 0.06
88 51 0.13
89 197 0.50
90 111 0.28
91 6 0.02
ACGTcount: A:0.37, C:0.01, G:0.26, T:0.36
Consensus pattern (86 bp):
GGGTAAAATGTAATTTTGGAAAGTTTGGGGTAAAAATGTAATTTTAGAAAGTTTAGGGGTTAAAA
TGTAATTTTGGAGAAGTTTAA
Found at i:141234 original size:60 final size:60
Alignment explanation
Indices: 140659--141226 Score: 385
Period size: 59 Copynumber: 9.6 Consensus size: 60
140649 ATTTGGGGTT
* * * * *
140659 AAATATAATTTT-GAAAAGTTTAAGGGTAAAAATATAATTTTAG-GAAAGTTTA-GGGTCA
1 AAATGTAATTTTAGAAAAATTTAGGGGTTAAAATGTAATTTTAGAG-AAGTTTAGGGGTCA
* ** * * * *
140717 AAATGTGATTTT-GAGAAGGTTTAGTGGTT-AAATGTGATTTTGGAGAAGTTT-GGGGATAA
1 AAATGTAATTTTAGA-AAAATTTAGGGGTTAAAATGTAATTTTAGAGAAGTTTAGGGG-TCA
* ** * *
140776 AAATATAATTTTAGAAAGGTTTAGGGGTTAAAATGTAATTTTGGA-AAGGTTTAAGGGTC-
1 AAATGTAATTTTAGAAAAATTTAGGGGTTAAAATGTAATTTTAGAGAA-GTTTAGGGGTCA
* * * * * * * * *
140835 AAATGTGATCTTGGAGAAGTTT-GGAGATAAAAATGTAATTTTGGA-AAGATTTAGGGGTTA
1 AAATGTAATTTTAGAAAAATTTAGG-GGTTAAAATGTAATTTTAGAGAAG-TTTAGGGGTCA
* * * ** * * *
140895 GAATGTGATTTTGGTGAAGTTTAAGGGTTAAAATGTAATTTT-G-GAAGGGTTT-GGAGGTTA
1 AAATGTAATTTTAGAAAAATTTAGGGGTTAAAATGTAATTTTAGAGAA--GTTTAGG-GGTCA
** * * ** * * *
140955 AAATGTGGTTTTAGAGAAGTTTAATGGTTAAAATGTAATTTTGGAGAAGTTT-GAGGTTA
1 AAATGTAATTTTAGAAAAATTTAGGGGTTAAAATGTAATTTTAGAGAAGTTTAGGGGTCA
* * * * *
141014 AAATGTAATTTTAGAAAACTTTAGAGGTTAAAGTGTAATTTTAAAAAAGTTTAGGGGTC-
1 AAATGTAATTTTAGAAAAATTTAGGGGTTAAAATGTAATTTTAGAGAAGTTTAGGGGTCA
* * * * * *
141073 AAATGTAATTTTGGAAAAGTTAGAGGGGTTAAAATGTAATTTTGGA-AAGTTTAAGGGTTA
1 AAATGTAATTTTAGAAAAATT-TAGGGGTTAAAATGTAATTTTAGAGAAGTTTAGGGGTCA
* * * *
141133 AAATGTAATTTAAGATAAGTTTAGGGGTCAAAATGTAATTTTAGAGAAGTTTAGGGGTCA
1 AAATGTAATTTTAGAAAAATTTAGGGGTTAAAATGTAATTTTAGAGAAGTTTAGGGGTCA
* * *
141193 AAATGTAATTTTGGAAAAAATTGGGGGTTAAAAT
1 AAATGTAATTTTAGAAAAATTTAGGGGTTAAAAT
141227 ATGATTTTTA
Statistics
Matches: 414, Mismatches: 74, Indels: 42
0.78 0.14 0.08
Matches are distributed among these distances:
58 35 0.08
59 185 0.45
60 185 0.45
61 6 0.01
62 3 0.01
ACGTcount: A:0.37, C:0.01, G:0.26, T:0.36
Consensus pattern (60 bp):
AAATGTAATTTTAGAAAAATTTAGGGGTTAAAATGTAATTTTAGAGAAGTTTAGGGGTCA
Found at i:141234 original size:119 final size:120
Alignment explanation
Indices: 140654--141226 Score: 516
Period size: 119 Copynumber: 4.8 Consensus size: 120
140644 GAAGAATTTG
* * * * *
140654 GGGTT-AAATATAATTTT-GAAAAGTTTAAGGGTAAAAATATAATTTTAG-GAAAGTTTA-GGGT
1 GGGTTAAAATGTAATTTTAGATAAGTTTAGGGGTTAAAATGTAATTTTAGAG-AAGTTTAGGGGT
* * * * *
140715 CAAAATGTGATTTT-GAGAAGGTTTAGTGGTT-AAATGTGATTTTGGAGAAGTTT-G
65 CAAAATGTGATTTTGGA-AAAGTTTGGGGGTTAAAATGTAATTTTGGAGAAGTTTAA
* * * *
140769 GGGATAAAAATATAATTTTAGA-AAGGTTTAGGGGTTAAAATGTAATTTTGGA-AAGGTTTAAGG
1 GGG-TTAAAATGTAATTTTAGATAA-GTTTAGGGGTTAAAATGTAATTTTAGAGAA-GTTTAGGG
* * * * * *
140832 GTC-AAATGTGATCTTGGAGAAGTTTGGAGATAAAAATGTAATTTTGGA-AAGATTTAG
63 GTCAAAATGTGATTTTGGAAAAGTTTGGGGGTTAAAATGTAATTTTGGAGAAG-TTTAA
* * * *
140889 GGGTTAGAATGTGATTTT-GGTGAAGTTTAAGGGTTAAAATGTAATTTT-G-GAAGGGTTT-GGA
1 GGGTTAAAATGTAATTTTAGAT-AAGTTTAGGGGTTAAAATGTAATTTTAGAGAA--GTTTAGG-
* * * * *** *
140950 GGTTAAAATGTGGTTTTAGAGAAGTTTAATGGTTAAAATGTAATTTTGGAGAAGTTTGA
62 GGTCAAAATGTGATTTTGGAAAAGTTTGGGGGTTAAAATGTAATTTTGGAGAAGTTTAA
* * * * * *
141009 -GGTTAAAATGTAATTTTAGAAAACTTTAGAGGTTAAAGTGTAATTTTAAAAAAGTTTAGGGGTC
1 GGGTTAAAATGTAATTTTAGATAAGTTTAGGGGTTAAAATGTAATTTTAGAGAAGTTTAGGGGTC
* *
141073 -AAATGTAATTTTGGAAAAGTTAGAGGGGTTAAAATGTAATTTTGGA-AAGTTTAA
66 AAAATGTGATTTTGGAAAAGTTTG-GGGGTTAAAATGTAATTTTGGAGAAGTTTAA
* *
141127 GGGTTAAAATGTAATTTAAGATAAGTTTAGGGGTCAAAATGTAATTTTAGAGAAGTTTAGGGGTC
1 GGGTTAAAATGTAATTTTAGATAAGTTTAGGGGTTAAAATGTAATTTTAGAGAAGTTTAGGGGTC
* **
141192 AAAATGTAATTTTGGAAAAAATTGGGGGTTAAAAT
66 AAAATGTGATTTTGGAAAAGTTTGGGGGTTAAAAT
141227 ATGATTTTTA
Statistics
Matches: 371, Mismatches: 62, Indels: 46
0.77 0.13 0.10
Matches are distributed among these distances:
115 3 0.01
116 1 0.00
117 16 0.04
118 80 0.22
119 197 0.53
120 69 0.19
121 5 0.01
ACGTcount: A:0.37, C:0.01, G:0.27, T:0.36
Consensus pattern (120 bp):
GGGTTAAAATGTAATTTTAGATAAGTTTAGGGGTTAAAATGTAATTTTAGAGAAGTTTAGGGGTC
AAAATGTGATTTTGGAAAAGTTTGGGGGTTAAAATGTAATTTTGGAGAAGTTTAA
Found at i:143582 original size:48 final size:45
Alignment explanation
Indices: 143525--143654 Score: 131
Period size: 48 Copynumber: 2.8 Consensus size: 45
143515 CAATTAAATT
143525 TTATATACATATCATATAATCATAAATATTAA-AATATTTCATACAAA
1 TTAT-TACATATCATATAATCATAAATATTAATAATATTT-ATA-AAA
* *
143572 TTCATGTACATATCATCAT-ATAAT-AATATTAATTATATTTATAAAA
1 TT-AT-TACATATCAT-ATAATCATAAATATTAATAATATTTATAAAA
* * *
143618 TTATTATATATTATATAATCATAAACATTATATAATA
1 TTATTACATATCATATAATCATAAATATTA-ATAATA
143655 AATACTTTTT
Statistics
Matches: 69, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
43 2 0.03
44 12 0.17
45 8 0.12
46 10 0.14
47 13 0.19
48 22 0.32
49 2 0.03
ACGTcount: A:0.48, C:0.08, G:0.01, T:0.42
Consensus pattern (45 bp):
TTATTACATATCATATAATCATAAATATTAATAATATTTATAAAA
Found at i:143620 original size:18 final size:18
Alignment explanation
Indices: 143589--143632 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
143579 ACATATCATC
* *
143589 ATATAATAATATTAATTAT
1 ATATTATAAAATT-ATTAT
143608 AT-TTATAAAATTATTAT
1 ATATTATAAAATTATTAT
143625 ATATTATA
1 ATATTATA
143633 TAATCATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 7 0.32
18 13 0.59
19 2 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATATTATAAAATTATTAT
Found at i:143622 original size:21 final size:20
Alignment explanation
Indices: 143589--143636 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
143579 ACATATCATC
143589 ATATAATAATATTAATTATATT
1 ATATAATAATATT-A-TATATT
143611 -TATAA-AATTATTATATATT
1 ATATAATAA-TATTATATATT
143630 ATATAAT
1 ATATAAT
143637 CATAAACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 6 0.26
20 8 0.35
21 9 0.39
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATAATAATATTATATATT
Found at i:143874 original size:18 final size:17
Alignment explanation
Indices: 143843--143891 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
143833 AAAAGAAACC
* *
143843 AAACTCAAATTAATTCG
1 AAACTAAAAATAATTCG
143860 AAAACTAAAAATAATTCG
1 -AAACTAAAAATAATTCG
*
143878 -AACTTAAAATAATT
1 AAACTAAAAATAATT
143892 TAAACCAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 13 0.46
18 15 0.54
ACGTcount: A:0.55, C:0.12, G:0.04, T:0.29
Consensus pattern (17 bp):
AAACTAAAAATAATTCG
Found at i:144225 original size:28 final size:29
Alignment explanation
Indices: 144179--144233 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
144169 AATTTTGAAA
*
144179 TTATTTTTACTATTCT-AAATATAAAATAT
1 TTATTTTTACTATTATAAAAT-TAAAATAT
144208 TTATTTTTA-TATTATAAAATTAAAAT
1 TTATTTTTACTATTATAAAATTAAAAT
144234 TAAAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (29 bp):
TTATTTTTACTATTATAAAATTAAAATAT
Done.