Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 82 of 213
Found at i:22646242 original size:60 final size:59
Alignment explanation
Indices: 22646178--22646368 Score: 210
Period size: 60 Copynumber: 3.2 Consensus size: 59
22646168 TGGGTATTGC
*
22646178 ATGGGAATGGGAAATGGGAGGAGGGCACGGTAGAAGAGGGGAATCGATGGAAGAGGGGAG
1 ATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAGGGGAAT-GATGGAAGAGGGGAG
* * * * * **
22646238 ATGGGAATGGGAAATGGGAGGACGACACGGTGGAA-TGGGAAAT--TGGAA-TGGTTATTG
1 ATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAGGGGAATGATGGAAGAGGGGA--G
** *
22646295 CATGGGAATAAGAAATGGGAGGAGGGAACGGTGGAAGAGGGGAATGATGGAAGAGGGGAG
1 -ATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAGGGGAATGATGGAAGAGGGGAG
22646355 ATGGGAGATGGGAA
1 ATGGGA-ATGGGAA
22646369 TGGAGAAATT
Statistics
Matches: 103, Mismatches: 20, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
55 3 0.03
56 5 0.05
57 1 0.01
58 30 0.29
59 18 0.17
60 38 0.37
61 5 0.05
62 3 0.03
ACGTcount: A:0.34, C:0.04, G:0.48, T:0.14
Consensus pattern (59 bp):
ATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAGGGGAATGATGGAAGAGGGGAG
Found at i:22646332 original size:118 final size:117
Alignment explanation
Indices: 22646152--22646368 Score: 355
Period size: 118 Copynumber: 1.8 Consensus size: 117
22646142 AATGGGAATG
** *
22646152 GGAATGGGAATGGGAATGGGTATTGCATGGGAATGGGAAATGGGAGGAGGGCACGGTAGAAGAGG
1 GGAATGGGAATGGGAATGGGTATTGCATGGGAATAAGAAATGGGAGGAGGGAACGGTAGAAGAGG
22646217 GGAATCGATGGAAGAGGGGAGATGGGA-ATGGGAAATGGGAGGACGACACGGT
66 GGAAT-GATGGAAGAGGGGAGATGGGAGATGGGAAATGGGAGGACGACACGGT
* * *
22646269 GGAATGGGAAATTGGAATGGTTATTGCATGGGAATAAGAAATGGGAGGAGGGAACGGTGGAAGAG
1 GGAATGGG-AATGGGAATGGGTATTGCATGGGAATAAGAAATGGGAGGAGGGAACGGTAGAAGAG
22646334 GGGAATGATGGAAGAGGGGAGATGGGAGATGGGAA
65 GGGAATGATGGAAGAGGGGAGATGGGAGATGGGAA
22646369 TGGAGAAATT
Statistics
Matches: 92, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
117 29 0.32
118 63 0.68
ACGTcount: A:0.33, C:0.04, G:0.48, T:0.15
Consensus pattern (117 bp):
GGAATGGGAATGGGAATGGGTATTGCATGGGAATAAGAAATGGGAGGAGGGAACGGTAGAAGAGG
GGAATGATGGAAGAGGGGAGATGGGAGATGGGAAATGGGAGGACGACACGGT
Found at i:22646345 original size:16 final size:16
Alignment explanation
Indices: 22646326--22646370 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
22646316 GAGGGAACGG
22646326 TGGAAGAGGGGAATGA
1 TGGAAGAGGGGAATGA
22646342 TGGAAGAGGGG-A-GA
1 TGGAAGAGGGGAATGA
* *
22646356 TGGGAGATGGGAATG
1 TGGAAGAGGGGAATG
22646371 GAGAAATTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 11 0.44
15 2 0.08
16 12 0.48
ACGTcount: A:0.33, C:0.00, G:0.53, T:0.13
Consensus pattern (16 bp):
TGGAAGAGGGGAATGA
Found at i:22646367 original size:14 final size:14
Alignment explanation
Indices: 22646326--22646372 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
22646316 GAGGGAACGG
22646326 TGGAAGAGGGGAATGA
1 TGGAAGAGGGG-A-GA
22646342 TGGAAGAGGGGAGA
1 TGGAAGAGGGGAGA
* *
22646356 TGGGAGATGGGA-A
1 TGGAAGAGGGGAGA
22646369 TGGA
1 TGGA
22646373 GAAATTGCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 4 0.14
14 12 0.43
15 1 0.04
16 11 0.39
ACGTcount: A:0.34, C:0.00, G:0.53, T:0.13
Consensus pattern (14 bp):
TGGAAGAGGGGAGA
Found at i:22650285 original size:21 final size:21
Alignment explanation
Indices: 22650261--22650313 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
22650251 CATTATTTCT
* *
22650261 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAATAACC
** *
22650282 AATCTCACCATTACAATAACT
1 AATCTCACCGCTACAATAACC
22650303 AATCTCACCGC
1 AATCTCACCGC
22650314 CACCGCTGTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.38, G:0.06, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:22650667 original size:31 final size:30
Alignment explanation
Indices: 22650630--22650710 Score: 117
Period size: 31 Copynumber: 2.7 Consensus size: 30
22650620 ATATAATCTC
*
22650630 TAAAAATCAATTAAGCCCTCTTAAAATAAT
1 TAAAAATCAATTAAGCCCTCGTAAAATAAT
* *
22650660 TAAAAAATCAATTGAGCTCTCGTAAAATAAT
1 T-AAAAATCAATTAAGCCCTCGTAAAATAAT
*
22650691 TAAAAATTAATTAAGCCCTC
1 TAAAAATCAATTAAGCCCTC
22650711 CATTTCAGTA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
30 17 0.39
31 27 0.61
ACGTcount: A:0.48, C:0.16, G:0.06, T:0.30
Consensus pattern (30 bp):
TAAAAATCAATTAAGCCCTCGTAAAATAAT
Found at i:22652444 original size:40 final size:40
Alignment explanation
Indices: 22652394--22652549 Score: 190
Period size: 40 Copynumber: 3.9 Consensus size: 40
22652384 GAAAAGGTAG
**
22652394 ATATCCGAAATGGATATCAAATGAAAACATT-AAAACAGAT
1 ATATCCGAAATGGATATCAAATGAAAAGGTTGAAAA-AGAT
* * *
22652434 ATATCTGAAATGAATATCAAATGAAAAGGTTGAAAAGGAT
1 ATATCCGAAATGGATATCAAATGAAAAGGTTGAAAAAGAT
* * * *
22652474 ATATCTGACATGGATATCAATTGAAAAGGTTGAAAATGAT
1 ATATCCGAAATGGATATCAAATGAAAAGGTTGAAAAAGAT
*
22652514 ATATCCGAAACT-GATATGAAATGAAAAGGTTGAAAA
1 ATATCCGAAA-TGGATATCAAATGAAAAGGTTGAAAA
22652550 GGTTGTTACC
Statistics
Matches: 101, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
40 96 0.95
41 5 0.05
ACGTcount: A:0.49, C:0.08, G:0.18, T:0.25
Consensus pattern (40 bp):
ATATCCGAAATGGATATCAAATGAAAAGGTTGAAAAAGAT
Found at i:22652492 original size:80 final size:81
Alignment explanation
Indices: 22652382--22652552 Score: 222
Period size: 80 Copynumber: 2.1 Consensus size: 81
22652372 CTCCGAATTC
*
22652382 TTGAAAAGGTAGATATCCGAAATGGATATCAAATGAAAACATT-AAAACAGATATATCTGAAA-T
1 TTGAAAAGGTAGATATCCGAAATGGATATCAAATGAAAACATTGAAAA-AGATATATCCGAAACT
22652445 GAATATCAAATGAAAAGG
65 G-ATATCAAATGAAAAGG
* * * * ** *
22652463 TTGAAAAGG-ATATATCTGACATGGATATCAATTGAAAAGGTTGAAAATGATATATCCGAAACTG
1 TTGAAAAGGTAGATATCCGAAATGGATATCAAATGAAAACATTGAAAAAGATATATCCGAAACTG
*
22652527 ATATGAAATGAAAAGG
66 ATATCAAATGAAAAGG
22652543 TTGAAAAGGT
1 TTGAAAAGGT
22652553 TGTTACCCTA
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
80 63 0.81
81 15 0.19
ACGTcount: A:0.47, C:0.08, G:0.20, T:0.25
Consensus pattern (81 bp):
TTGAAAAGGTAGATATCCGAAATGGATATCAAATGAAAACATTGAAAAAGATATATCCGAAACTG
ATATCAAATGAAAAGG
Found at i:22652729 original size:17 final size:18
Alignment explanation
Indices: 22652696--22652729 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22652686 AGGAAGAATT
*
22652696 ATGCTTGTAAGGATTAAA
1 ATGCTTGTAACGATTAAA
22652714 ATGCTTG-AACGATTAA
1 ATGCTTGTAACGATTAA
22652730 TCATGAGATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (18 bp):
ATGCTTGTAACGATTAAA
Found at i:22654718 original size:23 final size:22
Alignment explanation
Indices: 22654686--22654747 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 22
22654676 CCAGACCCGT
*
22654686 TTTTTAATTAAAATTAAAATTATA
1 TTTTT-ATTAAAATTAAAACTA-A
22654710 TTTTTATTAAAATTAAAACTAA
1 TTTTTATTAAAATTAAAACTAA
**
22654732 TTGATATTAAAATTAA
1 TTTTTATTAAAATTAA
22654748 TTGTTATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
22 15 0.43
23 15 0.43
24 5 0.14
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
TTTTTATTAAAATTAAAACTAA
Found at i:22654760 original size:16 final size:16
Alignment explanation
Indices: 22654721--22654762 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
22654711 TTTTATTAAA
*
22654721 ATTAAAACTAATTGAT
1 ATTAAAATTAATTGAT
*
22654737 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGAT
22654753 ATTAAAATTA
1 ATTAAAATTA
22654763 TATCAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (16 bp):
ATTAAAATTAATTGAT
Found at i:22654840 original size:19 final size:19
Alignment explanation
Indices: 22654816--22654866 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 19
22654806 ATCTAATATT
22654816 TTGTTAGTAAAATTATTAA
1 TTGTTAGTAAAATTATTAA
*
22654835 TTG-T--T-AATTGTATTAA
1 TTGTTAGTAAAAT-TATTAA
22654851 TTGTTAGTAAAATTAT
1 TTGTTAGTAAAATTAT
22654867 CAAATTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 10
0.68 0.05 0.27
Matches are distributed among these distances:
15 3 0.12
16 10 0.40
17 1 0.04
18 1 0.04
19 7 0.28
20 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (19 bp):
TTGTTAGTAAAATTATTAA
Found at i:22654862 original size:35 final size:35
Alignment explanation
Indices: 22654816--22654968 Score: 120
Period size: 35 Copynumber: 4.5 Consensus size: 35
22654806 ATCTAATATT
22654816 TTGTTAGTAAAATTATTAATTGTTAATTGTATTAA
1 TTGTTAGTAAAATTATTAATTGTTAATTGTATTAA
* *
22654851 TTGTTAGTAAAATTATCAAATTATTAA-T-TATT-A
1 TTGTTAGTAAAATTAT-TAATTGTTAATTGTATTAA
* *** * * * * ** *
22654884 CTACCAGTCAAAA-CATT--TTGTAAAATCTAACATT
1 TTGTTAGT-AAAATTATTAATTGTTAATTGTATTA-A
22654918 TTGTTAGTAAAATTATTAATTGTTAATTGTATTAA
1 TTGTTAGTAAAATTATTAATTGTTAATTGTATTAA
22654953 TTGTTAGTAAAATTAT
1 TTGTTAGTAAAATTAT
22654969 CAAATTATAT
Statistics
Matches: 85, Mismatches: 24, Indels: 18
0.67 0.19 0.14
Matches are distributed among these distances:
30 5 0.06
31 1 0.01
32 2 0.02
33 11 0.13
34 15 0.18
35 33 0.39
36 18 0.21
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.46
Consensus pattern (35 bp):
TTGTTAGTAAAATTATTAATTGTTAATTGTATTAA
Found at i:22654919 original size:102 final size:102
Alignment explanation
Indices: 22654743--22654976 Score: 371
Period size: 102 Copynumber: 2.3 Consensus size: 102
22654733 TGATATTAAA
* * * ** *
22654743 ATTAATTGTTATTAAAATTATATCAAATTA-TATTTTTTTGTATCAATCAAAACATTTTGTAAAA
1 ATTAATTGTTAGTAAAA-T-TATCAAATTATTAATTATTACTACCAATCAAAACATTTTGTAAAA
*
22654807 TCTAATATTTTGTTAGTAAAATTATTAATTGTTAATTGT
64 TCTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGT
*
22654846 ATTAATTGTTAGTAAAATTATCAAATTATTAATTATTACTACCAGTCAAAACATTTTGTAAAATC
1 ATTAATTGTTAGTAAAATTATCAAATTATTAATTATTACTACCAATCAAAACATTTTGTAAAATC
22654911 TAACATTTTGTTAGTAAAATTATTAATTGTTAATTGT
66 TAACATTTTGTTAGTAAAATTATTAATTGTTAATTGT
22654948 ATTAATTGTTAGTAAAATTATCAAATTAT
1 ATTAATTGTTAGTAAAATTATCAAATTAT
22654977 ATCAAATTAT
Statistics
Matches: 122, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
101 10 0.08
102 96 0.79
103 16 0.13
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.47
Consensus pattern (102 bp):
ATTAATTGTTAGTAAAATTATCAAATTATTAATTATTACTACCAATCAAAACATTTTGTAAAATC
TAACATTTTGTTAGTAAAATTATTAATTGTTAATTGT
Found at i:22654942 original size:19 final size:19
Alignment explanation
Indices: 22654918--22655002 Score: 65
Period size: 19 Copynumber: 4.7 Consensus size: 19
22654908 ATCTAACATT
22654918 TTGTTAGTAAAATTATTAA
1 TTGTTAGTAAAATTATTAA
*
22654937 TTG-T--T-AATTGTATTAA
1 TTGTTAGTAAAAT-TATTAA
*
22654953 TTGTTAGTAAAATTATCAAA
1 TTGTTAGTAAAATTAT-TAA
* * *
22654973 TT-ATA-TCAAATTATTAG
1 TTGTTAGTAAAATTATTAA
22654990 TTGTTAGTAAAAT
1 TTGTTAGTAAAAT
22655003 CTAACATTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 16
0.66 0.12 0.22
Matches are distributed among these distances:
15 3 0.06
16 10 0.20
17 4 0.08
18 11 0.22
19 14 0.29
20 7 0.14
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (19 bp):
TTGTTAGTAAAATTATTAA
Found at i:22654997 original size:37 final size:35
Alignment explanation
Indices: 22654918--22655002 Score: 100
Period size: 37 Copynumber: 2.4 Consensus size: 35
22654908 ATCTAACATT
* * *
22654918 TTGTTAGTAAAATTATTAATTGTTAATTGTATTAA
1 TTGTTAGTAAAATTATAAATTATTAAATGTATTAA
*
22654953 TTGTTAGTAAAATTATCAAATTATATCAAAT-TATTAG
1 TTGTTAGTAAAATTAT-AAATTAT-T-AAATGTATTAA
22654990 TTGTTAGTAAAAT
1 TTGTTAGTAAAAT
22655003 CTAACATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
35 16 0.37
36 5 0.12
37 19 0.44
38 3 0.07
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (35 bp):
TTGTTAGTAAAATTATAAATTATTAAATGTATTAA
Found at i:22662911 original size:38 final size:37
Alignment explanation
Indices: 22662846--22662918 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
22662836 TTTTCATAAT
* *
22662846 TTCACTTTTTCACTTTTAATCACTATTCAATTCAAAA
1 TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
22662883 TTCACTTTTCCA-TTTTCAAATCAATATTCAATTCAA
1 TTCACTTTTCCACTTTT--AATCAATATTCAATTCAA
22662919 TTCCACACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 11 0.34
38 17 0.53
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.45
Consensus pattern (37 bp):
TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
Found at i:22662949 original size:23 final size:22
Alignment explanation
Indices: 22662906--22662949 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
22662896 TTTCAAATCA
22662906 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
22662929 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
22662950 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:22663074 original size:23 final size:23
Alignment explanation
Indices: 22663048--22663100 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
22663038 ATAAGTGCCA
22663048 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
22663071 CACTGAAATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
22663094 CACTGAT
1 CACTGAT
22663101 CAATAACACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:22674410 original size:16 final size:15
Alignment explanation
Indices: 22674369--22674413 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
22674359 AATTCCATAA
*
22674369 AGTACTTAATTTTTC
1 AGTACTTATTTTTTC
*
22674384 AATACTTATTTTTTC
1 AGTACTTATTTTTTC
22674399 AGTACTTGATTTTTT
1 AGTACTT-ATTTTTT
22674414 TTTTAGTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.24, C:0.11, G:0.07, T:0.58
Consensus pattern (15 bp):
AGTACTTATTTTTTC
Found at i:22680053 original size:23 final size:23
Alignment explanation
Indices: 22680000--22680054 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
22679990 TGATGGATCA
22680000 AAAG-GGGAAGAGAAAAGAAAAG
1 AAAGAGGGAAGAGAAAAGAAAAG
* *
22680022 AAAGGGGGAAGAGAAAGGAAGAAG
1 AAAGAGGGAAGAGAAAAGAA-AAG
*
22680046 -ATGAGGGAA
1 AAAGAGGGAA
22680055 AATTGCCAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.14
23 21 0.75
24 3 0.11
ACGTcount: A:0.56, C:0.00, G:0.42, T:0.02
Consensus pattern (23 bp):
AAAGAGGGAAGAGAAAAGAAAAG
Found at i:22688759 original size:6 final size:6
Alignment explanation
Indices: 22688678--22688748 Score: 52
Period size: 6 Copynumber: 11.7 Consensus size: 6
22688668 AAACATAAAC
* * * *** *
22688678 AAATAA AATTAA AATTAA AATTAA AGGCAA AGATAA AAATGAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAAT-AA AAATAA
* *
22688727 AACTAA AACTAA AAATAA AAAT
1 AAATAA AAATAA AAATAA AAAT
22688749 TTTAAAATTA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
6 49 0.89
7 6 0.11
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:22696324 original size:41 final size:41
Alignment explanation
Indices: 22696263--22696373 Score: 159
Period size: 41 Copynumber: 2.7 Consensus size: 41
22696253 TGAAAATAAG
* *
22696263 ATGTTTCAGACTTTACGTCTAGGAGGCTTGATGTCGATGAA
1 ATGTTTCAGACTTTATGTCTAGCAGGCTTGATGTCGATGAA
* *
22696304 ATGTTTCAGACTTTATGTCTAGCAGGCTTGATGTTGGTGAA
1 ATGTTTCAGACTTTATGTCTAGCAGGCTTGATGTCGATGAA
* **
22696345 TTACTTCAGACTTTATGTCTAGCAGGCTT
1 ATGTTTCAGACTTTATGTCTAGCAGGCTT
22696374 TGTGCCAGTG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.38
Consensus pattern (41 bp):
ATGTTTCAGACTTTATGTCTAGCAGGCTTGATGTCGATGAA
Found at i:22696385 original size:41 final size:41
Alignment explanation
Indices: 22696267--22696385 Score: 125
Period size: 41 Copynumber: 2.9 Consensus size: 41
22696257 AATAAGATGT
* * * * **
22696267 TTCAGACTTTACGTCTAGGAGGCTTGATGTC-GATGAAATGT
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCAG-TGAATTAC
***
22696308 TTCAGACTTTATGTCTAGCAGGCTTGATGTTGGTGAATTAC
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCAGTGAATTAC
22696349 TTCAGACTTTATGTCTAGCAGGCTTTG-TGCCAGTGAA
1 TTCAGACTTTATGTCTAGCAGGC-TTGATGCCAGTGAA
22696386 ATGTATCGGG
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 63 0.94
42 4 0.06
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (41 bp):
TTCAGACTTTATGTCTAGCAGGCTTGATGCCAGTGAATTAC
Found at i:22697806 original size:28 final size:27
Alignment explanation
Indices: 22697784--22698053 Score: 236
Period size: 28 Copynumber: 9.6 Consensus size: 27
22697774 CCTTTATCAA
22697784 AGGTT-GCCACAAAGGCTTTCTTTATAG
1 AGGTTCGCCACAAAGGCTTTCTTT-TAG
*
22697811 AGGTTCGCCACAAAGGCTTTCTTTATAC
1 AGGTTCGCCACAAAGGCTTTCTTT-TAG
* *
22697839 AGGTTCACCATAAAGGCTTTCCTTTTCAG
1 AGGTTCGCCACAAAGGCTTT-CTTTT-AG
* *
22697868 AGGTTCCCCACAAAGGCTTTCCTTTAAGG
1 AGGTTCGCCACAAAGGCTTT-CTTTTA-G
** * **
22697897 AGGTTTTCCACAAAGGTTTTCCTTCCAG
1 AGGTTCGCCACAAAGGCTTT-CTTTTAG
22697925 AGGTTCGCCACAAAGGCTTTCCTTTTAG
1 AGGTTCGCCACAAAGGCTTT-CTTTTAG
** * * *
22697953 ATTTTTGCCATAAAGGCTTTCCTTTGCAG
1 AGGTTCGCCACAAAGGCTTT-CTTT-TAG
*
22697982 AGGTTTGCCACAAAGGCTTTCATTTGTAG
1 AGGTTCGCCACAAAGGCTTTC-TTT-TAG
* * * *
22698011 TGGTTTGCCACAAAGGCTTTCCTTTCAA
1 AGGTTCGCCACAAAGGCTTT-CTTTTAG
22698039 AGGTTCGCCACAAAG
1 AGGTTCGCCACAAAG
22698054 ATTTCCATTT
Statistics
Matches: 205, Mismatches: 31, Indels: 13
0.82 0.12 0.05
Matches are distributed among these distances:
27 5 0.02
28 101 0.49
29 98 0.48
30 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (27 bp):
AGGTTCGCCACAAAGGCTTTCTTTTAG
Found at i:22697885 original size:57 final size:57
Alignment explanation
Indices: 22697768--22698053 Score: 307
Period size: 57 Copynumber: 5.0 Consensus size: 57
22697758 GATTTCCACG
* *
22697768 AGGCTTCCTTTATCAAAGG-TTGCCACAAAGGCTTT-CTTTAT-AGAGGTTCGCCACAA
1 AGGCTTTCTTTAT-AGAGGTTTGCCACAAAGGCTTTCCTTT-TCAGAGGTTCGCCACAA
* ** * *
22697824 AGGCTTTCTTTATACAGGTTCACCATAAAGGCTTTCCTTTTCAGAGGTTCCCCACAA
1 AGGCTTTCTTTATAGAGGTTTGCCACAAAGGCTTTCCTTTTCAGAGGTTCGCCACAA
* * *
22697881 AGGCTTTCCTTTA-AGGAGGTTTTCCACAAAGGTTTTCC-TTCCAGAGGTTCGCCACAA
1 AGGCTTT-CTTTATA-GAGGTTTGCCACAAAGGCTTTCCTTTTCAGAGGTTCGCCACAA
** * * *
22697938 AGGCTTTCCTTT-TAGATTTTTGCCATAAAGGCTTTCCTTTGCAGAGGTTTGCCACAA
1 AGGCTTT-CTTTATAGAGGTTTGCCACAAAGGCTTTCCTTTTCAGAGGTTCGCCACAA
* * *
22697995 AGGCTTTCATTTGTAGTGGTTTGCCACAAAGGCTTTCC-TTTCAAAGGTTCGCCACAA
1 AGGCTTTC-TTTATAGAGGTTTGCCACAAAGGCTTTCCTTTTCAGAGGTTCGCCACAA
22698052 AG
1 AG
22698054 ATTTCCATTT
Statistics
Matches: 194, Mismatches: 27, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
55 4 0.02
56 45 0.23
57 101 0.52
58 44 0.23
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (57 bp):
AGGCTTTCTTTATAGAGGTTTGCCACAAAGGCTTTCCTTTTCAGAGGTTCGCCACAA
Found at i:22697932 original size:114 final size:114
Alignment explanation
Indices: 22697787--22698053 Score: 340
Period size: 114 Copynumber: 2.3 Consensus size: 114
22697777 TTATCAAAGG
* *
22697787 TTGCCACAAAGGCTTTCTTTATAGAGGTTCGCCACAAAGGCTTT-CTTTATACAGGTTCACCATA
1 TTGCCACAAAGGCTTTCCTTACAGAGGTTCGCCACAAAGGCTTTCCTTT-TACAGGTTCACCATA
* *
22697851 AAGGCTTTCCTTTTCAGAGGTTCCCCACAAAGGCTTTCCTTT-AAGGAGGT
65 AAGGCTTTCCTTTGCAGAGGTTCCCCACAAAGGCTTTCATTTGAA-GAGGT
* * * * ** **
22697901 TTTCCACAAAGGTTTTCCTTCCAGAGGTTCGCCACAAAGGCTTTCCTTTTAGATTTTTGCCATAA
1 TTGCCACAAAGGCTTTCCTTACAGAGGTTCGCCACAAAGGCTTTCCTTTTACAGGTTCACCATAA
** * *
22697966 AGGCTTTCCTTTGCAGAGGTTTGCCACAAAGGCTTTCATTTGTAGTGGT
66 AGGCTTTCCTTTGCAGAGGTTCCCCACAAAGGCTTTCATTTGAAGAGGT
* *
22698015 TTGCCACAAAGGCTTTCCTTTCAAAGGTTCGCCACAAAG
1 TTGCCACAAAGGCTTTCCTTACAGAGGTTCGCCACAAAG
22698054 ATTTCCATTT
Statistics
Matches: 131, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
114 126 0.96
115 5 0.04
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (114 bp):
TTGCCACAAAGGCTTTCCTTACAGAGGTTCGCCACAAAGGCTTTCCTTTTACAGGTTCACCATAA
AGGCTTTCCTTTGCAGAGGTTCCCCACAAAGGCTTTCATTTGAAGAGGT
Found at i:22698539 original size:21 final size:21
Alignment explanation
Indices: 22698514--22698555 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
22698504 CTTAACATAT
*
22698514 ATCTCAAACATTTACTTATAG
1 ATCTCAAACATTCACTTATAG
22698535 ATCTCAAACATTCACTTATAG
1 ATCTCAAACATTCACTTATAG
22698556 TCATACTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (21 bp):
ATCTCAAACATTCACTTATAG
Found at i:22702224 original size:16 final size:16
Alignment explanation
Indices: 22702192--22702225 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
22702182 TTTCTATCAA
* *
22702192 AAAAATAAAATATTTT
1 AAAAATAAAAAACTTT
22702208 AAAAATAAAAAACTTT
1 AAAAATAAAAAACTTT
22702224 AA
1 AA
22702226 CTTTAATTGA
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:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATAAAAAACTTT
Found at i:22707516 original size:18 final size:19
Alignment explanation
Indices: 22707495--22707559 Score: 55
Period size: 19 Copynumber: 3.5 Consensus size: 19
22707485 GGTTCGTGAG
22707495 AAGA-GATTTTCTTCCTTT
1 AAGATGATTTTCTTCCTTT
* ** *
22707513 AAGATGATTCT-TTAATTGAG
1 AAGATGATTTTCTTCCTT--T
22707533 AAGA-GATTTTCTTCCTTT
1 AAGATGATTTTCTTCCTTT
22707551 AAGATGATT
1 AAGATGATT
22707560 CTTTAATTCT
Statistics
Matches: 34, Mismatches: 8, Indels: 9
0.67 0.16 0.18
Matches are distributed among these distances:
18 12 0.35
19 14 0.41
20 8 0.24
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (19 bp):
AAGATGATTTTCTTCCTTT
Found at i:22707533 original size:38 final size:38
Alignment explanation
Indices: 22707491--22707567 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
22707481 GAAGGGTTCG
22707491 TGAGAAGAGATTTTCTTCCTTTAAGATGATTCTTTAAT
1 TGAGAAGAGATTTTCTTCCTTTAAGATGATTCTTTAAT
22707529 TGAGAAGAGATTTTCTTCCTTTAAGATGATTCTTTAAT
1 TGAGAAGAGATTTTCTTCCTTTAAGATGATTCTTTAAT
22707567 T
1 T
22707568 CTTTCTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.45
Consensus pattern (38 bp):
TGAGAAGAGATTTTCTTCCTTTAAGATGATTCTTTAAT
Found at i:22708607 original size:22 final size:23
Alignment explanation
Indices: 22708509--22708674 Score: 81
Period size: 25 Copynumber: 7.0 Consensus size: 23
22708499 GCCTGGGTGG
* *
22708509 TATTCTATTTAGCCTTTGTGG--
1 TATTCTGTATAGCCTTTGTGGCA
* * *
22708530 TGTACTGTAATAGCCTTTGTGCCA
1 TATTCTGT-ATAGCCTTTGTGGCA
* *
22708554 TATTCTGTATGATGTCTTTATGGCA
1 TATTCTGTAT-A-GCCTTTGTGGCA
**
22708579 TCCTCTG-ATAGCCTTTGTGGCA
1 TATTCTGTATAGCCTTTGTGGCA
* **
22708601 TATTCTGTATGCTGCCTTTGTGGTG
1 TATTCTGTAT--AGCCTTTGTGGCA
*
22708626 TATTCTGAAT-GTTTCCTTTGTGG-A
1 TATTCTGTATAG---CCTTTGTGGCA
* *
22708650 GTATTCTGTCTAGCCCTTGTGGCA
1 -TATTCTGTATAGCCTTTGTGGCA
22708674 T
1 T
22708675 GCTCTGATAA
Statistics
Matches: 107, Mismatches: 24, Indels: 26
0.68 0.15 0.17
Matches are distributed among these distances:
21 5 0.05
22 27 0.25
23 14 0.13
24 10 0.09
25 50 0.47
26 1 0.01
ACGTcount: A:0.15, C:0.18, G:0.22, T:0.45
Consensus pattern (23 bp):
TATTCTGTATAGCCTTTGTGGCA
Found at i:22708623 original size:25 final size:24
Alignment explanation
Indices: 22708542--22708658 Score: 87
Period size: 25 Copynumber: 4.8 Consensus size: 24
22708532 TACTGTAATA
*
22708542 GCCTTTGTGCCATATTCTGTATGAT
1 GCCTTTGTGGCATATTCTGTATG-T
* * ** *
22708567 GTCTTTATGGCATCCTCTG-AT-A
1 GCCTTTGTGGCATATTCTGTATGT
22708589 GCCTTTGTGGCATATTCTGTATGCT
1 GCCTTTGTGGCATATTCTGTATG-T
** *
22708614 GCCTTTGTGGTGTATTCTGAATGTT
1 GCCTTTGTGGCATATTCTGTATG-T
*
22708639 TCCTTTGTGG-AGTATTCTGT
1 GCCTTTGTGGCA-TATTCTGT
22708659 CTAGCCCTTG
Statistics
Matches: 70, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
22 15 0.21
23 2 0.03
24 2 0.03
25 51 0.73
ACGTcount: A:0.14, C:0.18, G:0.23, T:0.45
Consensus pattern (24 bp):
GCCTTTGTGGCATATTCTGTATGT
Found at i:22708633 original size:47 final size:47
Alignment explanation
Indices: 22708520--22708633 Score: 138
Period size: 47 Copynumber: 2.4 Consensus size: 47
22708510 ATTCTATTTA
* *
22708520 GCCTTTGTGGTGTACTGTAATAGCCTTTGTGCCATATTCTGTATGAT
1 GCCTTTGTGGTGTACTCTGATAGCCTTTGTGCCATATTCTGTATGAT
* * ** * * *
22708567 GTCTTTATGGCATCCTCTGATAGCCTTTGTGGCATATTCTGTATGCT
1 GCCTTTGTGGTGTACTCTGATAGCCTTTGTGCCATATTCTGTATGAT
*
22708614 GCCTTTGTGGTGTATTCTGA
1 GCCTTTGTGGTGTACTCTGA
22708634 ATGTTTCCTT
Statistics
Matches: 52, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.15, C:0.18, G:0.24, T:0.43
Consensus pattern (47 bp):
GCCTTTGTGGTGTACTCTGATAGCCTTTGTGCCATATTCTGTATGAT
Found at i:22710532 original size:22 final size:21
Alignment explanation
Indices: 22710504--22710546 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
22710494 CATGATGATG
22710504 TCAATGCAGAGCTTTTTAGAAA
1 TCAATGCA-AGCTTTTTAGAAA
**
22710526 TCAATGCAATTTTTTTAGAAA
1 TCAATGCAAGCTTTTTAGAAA
22710547 AAATTCCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (21 bp):
TCAATGCAAGCTTTTTAGAAA
Found at i:22714929 original size:86 final size:86
Alignment explanation
Indices: 22714784--22714956 Score: 310
Period size: 86 Copynumber: 2.0 Consensus size: 86
22714774 CAAGCAAAAC
* *
22714784 TAAACAAAATATCGGGTCTACTTGCAGTAAGATCAAGCAATGAGCCAATCATTGGCCTATATAAA
1 TAAACAAAATATAGGGTCTACTTGCAGTAAGATAAAGCAATGAGCCAATCATTGGCCTATATAAA
22714849 TTTGTATCAACACATTTACCT
66 TTTGTATCAACACATTTACCT
* *
22714870 TAAACAAAATATAGGGTCTACTTGCAGTAAGATAAAGTAATGAGCCAATCATTGGCCTATGTAAA
1 TAAACAAAATATAGGGTCTACTTGCAGTAAGATAAAGCAATGAGCCAATCATTGGCCTATATAAA
22714935 TTTGTATCAACACATTTACCT
66 TTTGTATCAACACATTTACCT
22714956 T
1 T
22714957 CTTAGTATTT
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (86 bp):
TAAACAAAATATAGGGTCTACTTGCAGTAAGATAAAGCAATGAGCCAATCATTGGCCTATATAAA
TTTGTATCAACACATTTACCT
Found at i:22718884 original size:20 final size:20
Alignment explanation
Indices: 22718859--22718900 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
22718849 TAAGATTTCT
22718859 ACACAAATCTTAATACTCTA
1 ACACAAATCTTAATACTCTA
22718879 ACACAAATCTTAATACTCTA
1 ACACAAATCTTAATACTCTA
22718899 AC
1 AC
22718901 CCTCTCAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (20 bp):
ACACAAATCTTAATACTCTA
Found at i:22722474 original size:40 final size:40
Alignment explanation
Indices: 22722429--22722538 Score: 143
Period size: 40 Copynumber: 2.8 Consensus size: 40
22722419 GTTTGGATAA
*
22722429 AAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTCTCA-T
1 AAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTT-TCAGG
* **
22722469 AAAACGCCGCTAAAGATCAAGCATTAGCGGCGCTTTCAGG
1 AAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTTCAGG
* *
22722509 AAAGCGCCACTAAAAA-TGAGCATTAGCGGC
1 AAAACGCCGCTAAAAATTGAGCATTAGCGGC
22722539 ATTTCTTGGA
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
39 15 0.25
40 45 0.75
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.18
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTTCAGG
Found at i:22722557 original size:40 final size:39
Alignment explanation
Indices: 22722428--22722565 Score: 118
Period size: 40 Copynumber: 3.5 Consensus size: 39
22722418 CGTTTGGATA
* ** *
22722428 AAAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTCT-C
1 AAAAACGCCACTAAAAA-TGAGCATTAGCGGCATTTCTGG
* * * * *
22722467 ATAAAACGCCGCTAAAGATCAAGCATTAGCGGCGCTTTCAGG
1 A-AAAACGCCACTAAAAAT-GAGCATTAGCGGC-ATTTCTGG
*
22722509 -AAAGCGCCACTAAAAATGAGCATTAGCGGCATTTCTTGG
1 AAAAACGCCACTAAAAATGAGCATTAGCGGCATTTC-TGG
*
22722548 AAAAACGCCACAAAAAAT
1 AAAAACGCCACTAAAAAT
22722566 CTAAACCCAA
Statistics
Matches: 79, Mismatches: 14, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
38 4 0.05
39 16 0.20
40 56 0.71
41 3 0.04
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (39 bp):
AAAAACGCCACTAAAAATGAGCATTAGCGGCATTTCTGG
Found at i:22722678 original size:41 final size:40
Alignment explanation
Indices: 22722604--22722750 Score: 197
Period size: 41 Copynumber: 3.6 Consensus size: 40
22722594 ACCTTCTAGG
*
22722604 GCTTTAGCGGCGTTTTTAAAAAGAGC-CGCTAATGCTCAGA
1 GCTTTAGCGGCATTTTTAAAAA-AGCGCGCTAATGCTCAGA
22722644 GCTTTAGCGGCATTTTTAAAAAAGCGTCGCTAATGCTCAGA
1 GCTTTAGCGGCATTTTTAAAAAAGCG-CGCTAATGCTCAGA
** * * *
22722685 GCTTTAGCGGCATTTTCCAAGAAGCGCCGCTAATGCTCGGG
1 GCTTTAGCGGCATTTTTAAAAAAGCG-CGCTAATGCTCAGA
*
22722726 GCTTTAGCGGCGTTTTTAAAAAAGC
1 GCTTTAGCGGCATTTTTAAAAAAGC
22722751 ACCGCAAAAA
Statistics
Matches: 94, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 3 0.03
40 21 0.22
41 70 0.74
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (40 bp):
GCTTTAGCGGCATTTTTAAAAAAGCGCGCTAATGCTCAGA
Found at i:22723357 original size:74 final size:75
Alignment explanation
Indices: 22723261--22723400 Score: 210
Period size: 74 Copynumber: 1.9 Consensus size: 75
22723251 AGTGTCAGGT
* *
22723261 TAAGGCTTAGGGTTTAGGTTAATTAGTATGTTTTAA-TCTATATTAAATAAGGTTTAGGGGTTAG
1 TAAGGCTTAGGGTTTAGATTAATTAGTATGTTTTAATTATATATTAAATAAGGTTTAGGGGTTAG
22723325 GGACTTGTGA
66 GGACTTGTGA
* * * *
22723335 TAAGGTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGGTTTATGGGTTA
1 TAAGGCTTAGGGTTTAGATTAATTAGTATGTTTTAA-TTATATATTAAATAAGGTTTAGGGGTTA
22723400 G
65 G
22723401 TAGTTAAGGG
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
74 32 0.55
76 26 0.45
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.44
Consensus pattern (75 bp):
TAAGGCTTAGGGTTTAGATTAATTAGTATGTTTTAATTATATATTAAATAAGGTTTAGGGGTTAG
GGACTTGTGA
Found at i:22723575 original size:13 final size:14
Alignment explanation
Indices: 22723557--22723594 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
22723547 TAAAAGAGGG
22723557 GTTAGGG-TTAAGA
1 GTTAGGGATTAAGA
22723570 GTTAGGGATTTAAGA
1 GTTAGGGA-TTAAGA
*
22723585 TTTAGGGATT
1 GTTAGGGATT
22723595 TTAGGGTCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 7 0.32
14 2 0.09
15 13 0.59
ACGTcount: A:0.29, C:0.00, G:0.34, T:0.37
Consensus pattern (14 bp):
GTTAGGGATTAAGA
Found at i:22723584 original size:15 final size:15
Alignment explanation
Indices: 22723564--22723595 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22723554 GGGGTTAGGG
22723564 TTAAGAGTTAGGGAT
1 TTAAGAGTTAGGGAT
*
22723579 TTAAGATTTAGGGAT
1 TTAAGAGTTAGGGAT
22723594 TT
1 TT
22723596 TAGGGTCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.28, T:0.41
Consensus pattern (15 bp):
TTAAGAGTTAGGGAT
Found at i:22724259 original size:11 final size:11
Alignment explanation
Indices: 22724243--22724267 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22724233 AGTTCTTCGA
22724243 TCCTTTCCGTC
1 TCCTTTCCGTC
22724254 TCCTTTCCGTC
1 TCCTTTCCGTC
22724265 TCC
1 TCC
22724268 AAAGCTCTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.48, G:0.08, T:0.44
Consensus pattern (11 bp):
TCCTTTCCGTC
Found at i:22727346 original size:24 final size:22
Alignment explanation
Indices: 22727318--22727361 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
22727308 AATTTAAAAA
22727318 ATAAAACATAATATAATATTTATC
1 ATAAAA-ATAA-ATAATATTTATC
*
22727342 ATAAAAATAAATATTATTTA
1 ATAAAAATAAATAATATTTA
22727362 ATTAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
ATAAAAATAAATAATATTTATC
Found at i:22727439 original size:43 final size:42
Alignment explanation
Indices: 22727391--22727632 Score: 202
Period size: 43 Copynumber: 5.6 Consensus size: 42
22727381 AGGTTATTTT
* * *
22727391 TTTAGCGGCGTTTTTTGTAAAAACGTCGCTAAAGGTCATAGTC
1 TTTAGCGGCGTTTTTTG-AAAAACGCCGCTAAAGGTCTTGGTC
* * ** *
22727434 TTTAGCAGTGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTT-TTTGAAAAACGCCGCTAAAGGTCTTGGTC
** * * *
22727477 TTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCTTAGTC
1 TTTAGCGGCGTTT-TTTGAAAAACGCCGCTAAAGGTCTTGGTC
* * *
22727520 TTTAGCAGCG-TTTGTGAGAGAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTTTTGA-A-AAACGCCGCTAAAGGTCTTGGTC
* **
22727563 TTTAGCGGCG-TTTGTGAGAGAAGTGCCGCTAAAGGTCTTGGAT-
1 TTTAGCGGCGTTTTTTGA-A-AAACGCCGCTAAAGGTCTTGG-TC
*
22727606 TTTAGCGGCGTTTTTTCTAAAAACGCC
1 TTTAGCGGCGTTTTTT-GAAAAACGCC
22727633 ATTAAAGTTA
Statistics
Matches: 171, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
41 4 0.02
42 2 0.01
43 156 0.91
44 8 0.05
45 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.31
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTTGAAAAACGCCGCTAAAGGTCTTGGTC
Found at i:22727487 original size:86 final size:86
Alignment explanation
Indices: 22727391--22727599 Score: 292
Period size: 86 Copynumber: 2.4 Consensus size: 86
22727381 AGGTTATTTT
* * * * * *
22727391 TTTAGCGGCGTTTTTTGTAAAAACGTCGCTAAAGGTCATAGTCTTTAGCAGTGTTTGTGGGAAAA
1 TTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCATAGTCTTTAGCAGCGTTTGTGAGAAAA
22727456 GCGCCGCTAAAGGTCTTGGTC
66 GCGCCGCTAAAGGTCTTGGTC
* * * *
22727477 TTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCTTAGTCTTTAGCAGCGTTTGTGAGAGAA
1 TTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCATAGTCTTTAGCAGCGTTTGTGAGAAAA
22727542 GCGCCGCTAAAGGTCTTGGTC
66 GCGCCGCTAAAGGTCTTGGTC
* * **
22727563 TTTAGCGGCGTTTGTGAGAGAAGTGCCGCTAAAGGTC
1 TTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTC
22727600 TTGGATTTTA
Statistics
Matches: 111, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 111 1.00
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.30
Consensus pattern (86 bp):
TTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCATAGTCTTTAGCAGCGTTTGTGAGAAAA
GCGCCGCTAAAGGTCTTGGTC
Found at i:22727600 original size:86 final size:86
Alignment explanation
Indices: 22727417--22727618 Score: 316
Period size: 86 Copynumber: 2.3 Consensus size: 86
22727407 GTAAAAACGT
* * *
22727417 CGCTAAAGGTCATAGTCTTTAGCAGTGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAG
1 CGCTAAAGGTCTTAGTCTTTAGCAGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAG
*
22727482 CGGCGTTTGTGGGAGAAGCGC
66 CGGCGTTTGTGAGAGAAGCGC
*
22727503 CGCTAAAGGTCTTAGTCTTTAGCAGCGTTTGTGAGAGAAGCGCCGCTAAAGGTCTTGGTCTTTAG
1 CGCTAAAGGTCTTAGTCTTTAGCAGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAG
*
22727568 CGGCGTTTGTGAGAGAAGTGC
66 CGGCGTTTGTGAGAGAAGCGC
* *
22727589 CGCTAAAGGTCTTGGAT-TTTAGCGGCGTTT
1 CGCTAAAGGTCTTAG-TCTTTAGCAGCGTTT
22727619 TTTCTAAAAA
Statistics
Matches: 107, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
86 106 0.99
87 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (86 bp):
CGCTAAAGGTCTTAGTCTTTAGCAGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAG
CGGCGTTTGTGAGAGAAGCGC
Found at i:22727707 original size:22 final size:22
Alignment explanation
Indices: 22727682--22727723 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
22727672 GGCGATTGTC
*
22727682 AAAGCACCGCTAAAGGCCTAAA
1 AAAGCACCGCTAAAAGCCTAAA
*
22727704 AAAGCGCCGCTAAAAGCCTA
1 AAAGCACCGCTAAAAGCCTA
22727724 TTTTGGTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.29, G:0.19, T:0.10
Consensus pattern (22 bp):
AAAGCACCGCTAAAAGCCTAAA
Found at i:22728496 original size:44 final size:44
Alignment explanation
Indices: 22728447--22728547 Score: 134
Period size: 44 Copynumber: 2.3 Consensus size: 44
22728437 TTTTTCACAT
* *
22728447 AAACGCCGCTAAAGAACATGACCTTTAGC-G-GCACTTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAACAGTG-A-TTTTTATCAA
*
22728491 AAACGCCGCTAAATAACATGACCTTTAACAGTGATTTTTATCAA
1 AAACGCCGCTAAAGAACATGACCTTTAACAGTGATTTTTATCAA
*
22728535 AAACGCCCCTAAA
1 AAACGCCGCTAAA
22728548 AGTACCGTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
44 48 0.94
45 2 0.04
46 1 0.02
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.25
Consensus pattern (44 bp):
AAACGCCGCTAAAGAACATGACCTTTAACAGTGATTTTTATCAA
Found at i:22728942 original size:21 final size:21
Alignment explanation
Indices: 22728851--22728939 Score: 133
Period size: 21 Copynumber: 4.2 Consensus size: 21
22728841 TTCTGCTATG
22728851 CTCTGCTTCCCTCGCTGCTGC
1 CTCTGCTTCCCTCGCTGCTGC
* *
22728872 CTCTACTTCCCTCACTGCTGC
1 CTCTGCTTCCCTCGCTGCTGC
*
22728893 CTCTGCTTCCCTCGCTACTGC
1 CTCTGCTTCCCTCGCTGCTGC
* *
22728914 TTCTGTTTCCCTCGCTGCTGC
1 CTCTGCTTCCCTCGCTGCTGC
22728935 CTCTG
1 CTCTG
22728940 TTTTAAGCTG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.03, C:0.45, G:0.16, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCTGC
Found at i:22734444 original size:9 final size:9
Alignment explanation
Indices: 22734430--22734661 Score: 142
Period size: 9 Copynumber: 26.0 Consensus size: 9
22734420 TAGGTATAAT
22734430 TAAGTTATG
1 TAAGTTATG
22734439 TAAGTTATG
1 TAAGTTATG
* * *
22734448 ATATGATATA
1 -TAAGTTATG
*
22734458 T-ATTTATG
1 TAAGTTATG
22734466 T-A-TTATG
1 TAAGTTATG
22734473 TAAGTTATG
1 TAAGTTATG
*
22734482 TGAGTTATG
1 TAAGTTATG
*
22734491 TGAGTTATG
1 TAAGTTATG
22734500 TAAGTTATG
1 TAAGTTATG
* * *
22734509 ATATGATATA
1 -TAAGTTATG
*
22734519 T-ATTTATG
1 TAAGTTATG
22734527 T-A-TTATG
1 TAAGTTATG
*
22734534 TAAGTTCTG
1 TAAGTTATG
* *
22734543 TGAGCTATG
1 TAAGTTATG
*
22734552 TAAGTTATT
1 TAAGTTATG
*
22734561 TATTA-TATATT
1 TA--AGT-TATG
22734572 TAAGTTAT-
1 TAAGTTATG
22734580 TAAGTTATG
1 TAAGTTATG
22734589 TAAGTTATG
1 TAAGTTATG
*
22734598 TGAGTTATG
1 TAAGTTATG
* *
22734607 ATATGATATATA
1 -TAAG-T-TATG
22734619 TAAGTTAT-
1 TAAGTTATG
22734627 TAAGTTATG
1 TAAGTTATG
*
22734636 TATG-TATG
1 TAAGTTATG
*
22734644 TGAGTTATG
1 TAAGTTATG
22734653 TAAGTTATG
1 TAAGTTATG
22734662 ATCTGACATA
Statistics
Matches: 175, Mismatches: 32, Indels: 32
0.73 0.13 0.13
Matches are distributed among these distances:
7 12 0.07
8 34 0.19
9 98 0.56
10 17 0.10
11 11 0.06
12 3 0.02
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:22734472 original size:34 final size:34
Alignment explanation
Indices: 22734434--22734539 Score: 129
Period size: 34 Copynumber: 3.3 Consensus size: 34
22734424 TATAATTAAG
22734434 TTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGTTATGATATGATATATATTTATGTA
* *
22734468 TTATGTAAGTTATG---TGA-GT-TA--TGTG-A
1 TTATGTAAGTTATGATATGATATATATTTATGTA
22734494 GTTATGTAAGTTATGATATGATATATATTTATGTA
1 -TTATGTAAGTTATGATATGATATATATTTATGTA
22734529 TTATGTAAGTT
1 TTATGTAAGTT
22734540 CTGTGAGCTA
Statistics
Matches: 59, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
26 1 0.02
27 17 0.29
29 2 0.03
30 4 0.07
31 4 0.07
32 2 0.03
34 28 0.47
35 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (34 bp):
TTATGTAAGTTATGATATGATATATATTTATGTA
Found at i:22734527 original size:61 final size:61
Alignment explanation
Indices: 22734430--22734606 Score: 235
Period size: 61 Copynumber: 3.0 Consensus size: 61
22734420 TAGGTATAAT
22734430 TAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTGAGTTATG
1 TAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTGAGTTATG
* * *
22734491 TGAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTCTGTGAGCTATG
1 TAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTGAGTTATG
* *
22734552 TAAGTTAT-TTA-TTAT-ATAT--T-TA-AGTTAT-TAAGTTATGTAAGTTATGTGAGTTATG
1 TAAGTTATGTAAGTTATGATATGATATATATTTATGT-A-TTATGTAAGTTATGTGAGTTATG
22734607 ATATGATATA
Statistics
Matches: 106, Mismatches: 8, Indels: 10
0.85 0.06 0.08
Matches are distributed among these distances:
53 1 0.01
54 6 0.06
55 23 0.22
56 1 0.01
58 4 0.04
59 4 0.04
60 2 0.02
61 65 0.61
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.48
Consensus pattern (61 bp):
TAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTGAGTTATG
Found at i:22734661 original size:55 final size:56
Alignment explanation
Indices: 22734432--22734688 Score: 242
Period size: 55 Copynumber: 4.8 Consensus size: 56
22734422 GGTATAATTA
*
22734432 AGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTGA-GTTATGTG
1 AGTTATGTAAGTTATGATATGATATATA--TAAG--TTAT-TAAGTTATGT-ATGTTATGTG
* *
22734493 AGTTATGTAAGTTATGATATGATATATAT---TTATGT-A-TTATGTAAGTTCTGTG
1 AGTTATGTAAGTTATGATATGATATATATAAGTTAT-TAAGTTATGTATGTTATGTG
* * *
22734545 AGCTATGTAAGTTAT--T-T-AT-TATAT-A--T-TTAAGTTAT-TAAGTTATGTA
1 AGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTATGTATGTTATGTG
*
22734591 AGTTATGTGAGTTATGATATGATATATATAAGTTATTAAGTTATGTATG-TATGTG
1 AGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTATGTATGTTATGTG
* * *
22734646 AGTTATGTAAGTTATGATCTGACATATATAATTTATTAAGTTA
1 AGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTA
22734689 AGATCCAAAG
Statistics
Matches: 170, Mismatches: 12, Indels: 34
0.79 0.06 0.16
Matches are distributed among these distances:
45 1 0.01
46 24 0.14
47 10 0.06
48 3 0.02
49 2 0.01
50 3 0.02
51 6 0.04
52 28 0.16
53 1 0.01
54 7 0.04
55 53 0.31
56 3 0.02
59 1 0.01
61 28 0.16
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (56 bp):
AGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTATGTATGTTATGTG
Found at i:22735817 original size:51 final size:49
Alignment explanation
Indices: 22735760--22735859 Score: 130
Period size: 53 Copynumber: 2.0 Consensus size: 49
22735750 AGAAAATGAA
22735760 TAAAATTATAAAAACATAAAAAG-ATATATGAGTATGTATATATATGTGTAT
1 TAAAATTAT-AAAACATAAAAAGTATATATGAGTATGTAT-TA-ATGTGTAT
**
22735811 TAAAATTATAAAGTATAAAAAGTATATATATGAGTATGTATTAATGTGT
1 TAAAATTATAAAACATAAAAAG--TATATATGAGTATGTATTAATGTGT
22735860 TTATGAAGAT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
50 11 0.25
51 15 0.34
52 2 0.05
53 16 0.36
ACGTcount: A:0.49, C:0.01, G:0.13, T:0.37
Consensus pattern (49 bp):
TAAAATTATAAAACATAAAAAGTATATATGAGTATGTATTAATGTGTAT
Found at i:22736188 original size:33 final size:33
Alignment explanation
Indices: 22736138--22736202 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
22736128 CTAATAAACG
* *
22736138 AATAATAATAAATAAATAAATAAGAGTAATAAT
1 AATAATAATAAAAAAATAAAAAAGAGTAATAAT
* *
22736171 AATAATAGTAAAAAAATAAAAAATAGTAATAA
1 AATAATAATAAAAAAATAAAAAAGAGTAATAA
22736203 CAGTATTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (33 bp):
AATAATAATAAAAAAATAAAAAAGAGTAATAAT
Found at i:22736195 original size:27 final size:28
Alignment explanation
Indices: 22736138--22736207 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 28
22736128 CTAATAAACG
* *
22736138 AATAATAATAAA-TAAATAAATAAGAGT
1 AATAATAATAAAGTAAAAAAATAAGAGA
22736165 AATAATAATAATAGTAAAAAAATAA-A-A
1 AATAATAATAA-AGTAAAAAAATAAGAGA
*
22736192 AATAGTAATAACAGTA
1 AATAATAATAA-AGTA
22736208 TTAAACATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 25 0.68
28 2 0.05
29 10 0.27
ACGTcount: A:0.67, C:0.01, G:0.07, T:0.24
Consensus pattern (28 bp):
AATAATAATAAAGTAAAAAAATAAGAGA
Found at i:22737564 original size:9 final size:9
Alignment explanation
Indices: 22737526--22737638 Score: 86
Period size: 9 Copynumber: 12.4 Consensus size: 9
22737516 TGTACATAAA
22737526 TTATGTAAG
1 TTATGTAAG
22737535 TTATGATATAG
1 TTATG-TA-AG
22737546 TTAT-TAAG
1 TTATGTAAG
22737554 TTATGTAAG
1 TTATGTAAG
*
22737563 TTATGTGAG
1 TTATGTAAG
*
22737572 TTATGTAAA
1 TTATGTAAG
* *
22737581 TTATATAAT
1 TTATGTAAG
*
22737590 TTATGTAAA
1 TTATGTAAG
* *
22737599 TTTTGATATG
1 TTATG-TAAG
* * *
22737609 ATATAT-AT
1 TTATGTAAG
22737617 TTATGTAAG
1 TTATGTAAG
*
22737626 TTATGTAAA
1 TTATGTAAG
22737635 TTAT
1 TTAT
22737639 ATATTAATTT
Statistics
Matches: 80, Mismatches: 19, Indels: 10
0.73 0.17 0.09
Matches are distributed among these distances:
8 10 0.12
9 58 0.73
10 6 0.08
11 6 0.08
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:22737593 original size:18 final size:18
Alignment explanation
Indices: 22737522--22737638 Score: 103
Period size: 18 Copynumber: 6.4 Consensus size: 18
22737512 GGGATGTACA
22737522 TAAATTATGTAAGTTATG
1 TAAATTATGTAAGTTATG
*
22737540 ATATAGTTAT-TAAGTTATG
1 -TA-AATTATGTAAGTTATG
* *
22737559 TAAGTTATGTGAGTTATG
1 TAAATTATGTAAGTTATG
* *
22737577 TAAATTATATAATTTATG
1 TAAATTATGTAAGTTATG
* * * *
22737595 TAAATTTTGATATGATATA
1 TAAATTATG-TAAGTTATG
*
22737614 T-ATTTATGTAAGTTATG
1 TAAATTATGTAAGTTATG
22737631 TAAATTAT
1 TAAATTAT
22737639 ATATTAATTT
Statistics
Matches: 76, Mismatches: 18, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
17 13 0.17
18 41 0.54
19 17 0.22
20 5 0.07
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.48
Consensus pattern (18 bp):
TAAATTATGTAAGTTATG
Found at i:22737912 original size:72 final size:73
Alignment explanation
Indices: 22737792--22737951 Score: 243
Period size: 72 Copynumber: 2.2 Consensus size: 73
22737782 GAAAGAAATT
* * * *
22737792 AAAATATAATAAATTTGTCTATATTTATCAAAATAAGTAAAAT-AAAAAAATAATACTTTGAGTT
1 AAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAATAAAAAAAAAAAGACTTTAAGTT
*
22737856 TGCATTAC
66 GGCATTAC
*
22737864 AAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAATTAAAAAAAAAAGACTTTAAGTT
1 AAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAATAAAAAAAAAAAGACTTTAAGTT
22737929 GGCATTAC
66 GGCATTAC
22737937 AAAATA-AATATAATT
1 AAAATATAAT-TAATT
22737952 GGAAGAATAA
Statistics
Matches: 81, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
72 45 0.56
73 36 0.44
ACGTcount: A:0.52, C:0.06, G:0.07, T:0.35
Consensus pattern (73 bp):
AAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAATAAAAAAAAAAAGACTTTAAGTT
GGCATTAC
Found at i:22737965 original size:3 final size:3
Alignment explanation
Indices: 22737957--22738015 Score: 91
Period size: 3 Copynumber: 19.3 Consensus size: 3
22737947 TAATTGGAAG
* *
22737957 AAT AAT AAT AAT GAT AAT AAAT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
22738003 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
22738016 CAAGATTAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:22738069 original size:20 final size:20
Alignment explanation
Indices: 22738046--22738083 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22738036 ATAGTATTAA
* *
22738046 TAATATTAAAATAACTAATT
1 TAATAATAAAAAAACTAATT
22738066 TAATAATAAAAAAACTAA
1 TAATAATAAAAAAACTAA
22738084 AATAACAAAT
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:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
TAATAATAAAAAAACTAATT
Found at i:22738206 original size:15 final size:16
Alignment explanation
Indices: 22738188--22738219 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
22738178 AATGTAAACA
22738188 AATTTGAAAAT-AATG
1 AATTTGAAAATGAATG
22738203 AATTTGAAAATGAATG
1 AATTTGAAAATGAATG
22738219 A
1 A
22738220 TAAGGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (16 bp):
AATTTGAAAATGAATG
Found at i:22738263 original size:23 final size:23
Alignment explanation
Indices: 22738237--22738281 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
22738227 AAAAAATTTG
*
22738237 AAATCAACAATATACAAATCAAT
1 AAATAAACAATATACAAATCAAT
**
22738260 AAATAAATTATATACAAATCAA
1 AAATAAACAATATACAAATCAA
22738282 CAAAATAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.24
Consensus pattern (23 bp):
AAATAAACAATATACAAATCAAT
Found at i:22740234 original size:31 final size:32
Alignment explanation
Indices: 22740199--22740261 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
22740189 AACCTAATCA
*
22740199 AGGGAAGAA-AAACTAAAAGGCAGAAAATAAT
1 AGGGAAGAATAAACCAAAAGGCAGAAAATAAT
* *
22740230 AGGGAAGAATTGAACCAAAAGGCATAAAATAA
1 AGGGAAGAA-TAAACCAAAAGGCAGAAAATAA
22740262 GGGGAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 9 0.33
33 18 0.67
ACGTcount: A:0.59, C:0.08, G:0.22, T:0.11
Consensus pattern (32 bp):
AGGGAAGAATAAACCAAAAGGCAGAAAATAAT
Found at i:22740782 original size:21 final size:21
Alignment explanation
Indices: 22740738--22740784 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
22740728 TGATTGACAT
*
22740738 ATTTTTATAATTTTATATTTA
1 ATTTTTATAATTTTATATTCA
22740759 ATTTTTATATATTTTATA-TCA
1 ATTTTTATA-ATTTTATATTCA
22740780 ATTTT
1 ATTTT
22740785 AAATCATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
ATTTTTATAATTTTATATTCA
Found at i:22740916 original size:7 final size:7
Alignment explanation
Indices: 22740904--22740996 Score: 57
Period size: 7 Copynumber: 13.1 Consensus size: 7
22740894 ACTAATTAAT
22740904 CTAAACC
1 CTAAACC
22740911 CTAAA-C
1 CTAAACC
22740917 C-AAACC
1 CTAAACC
** *
22740923 CTCTATC
1 CTAAACC
22740930 CTAAAAACC
1 CT--AAACC
22740939 CTAAACC
1 CTAAACC
22740946 CTAAACC
1 CTAAACC
22740953 CTAAACC
1 CTAAACC
**
22740960 TCT-ATTC
1 -CTAAACC
22740967 CTAAACC
1 CTAAACC
**
22740974 CTTGACAC
1 CTAAAC-C
22740982 CTAAACC
1 CTAAACC
*
22740989 TTAAACC
1 CTAAACC
22740996 C
1 C
22740997 CAACCTTTAA
Statistics
Matches: 63, Mismatches: 16, Indels: 14
0.68 0.17 0.15
Matches are distributed among these distances:
5 3 0.05
6 6 0.10
7 43 0.68
8 7 0.11
9 4 0.06
ACGTcount: A:0.39, C:0.40, G:0.01, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:22741269 original size:7 final size:7
Alignment explanation
Indices: 22741241--22741283 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
22741231 CTAAACTTTA
22741241 AACCC-T
1 AACCCAT
*
22741247 AACCCTT
1 AACCCAT
*
22741254 AAACCAT
1 AACCCAT
22741261 AACCCAT
1 AACCCAT
22741268 AACCCAT
1 AACCCAT
22741275 AACCCAT
1 AACCCAT
22741282 AA
1 AA
22741284 TCCCTAAACC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
6 5 0.15
7 28 0.85
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.16
Consensus pattern (7 bp):
AACCCAT
Found at i:22741270 original size:21 final size:20
Alignment explanation
Indices: 22741241--22741290 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
22741231 CTAAACTTTA
*
22741241 AACCCTAACCCTTAAACCAT
1 AACCCTAACCCATAAACCAT
*
22741261 AACCCATAACCCATAACCCAT
1 AACCC-TAACCCATAAACCAT
22741282 AATCCCTAA
1 AA-CCCTAA
22741291 ACCCCTAACC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 5 0.19
21 18 0.69
22 3 0.12
ACGTcount: A:0.42, C:0.40, G:0.00, T:0.18
Consensus pattern (20 bp):
AACCCTAACCCATAAACCAT
Found at i:22741329 original size:142 final size:135
Alignment explanation
Indices: 22741054--22741356 Score: 365
Period size: 142 Copynumber: 2.2 Consensus size: 135
22741044 TACTAAACCT
* ** *
22741054 TAAACTATAAACCCTAAACCCCTAACTCTTAACCCCTAATGCCTAAACCTTAAATCCTAACCCTT
1 TAAACTATAAACCCTAAACCCCTAACGCTTAACCCCTAACACCTAAACCTTAAACCCTAACCCTT
*** ** *
22741119 AAATTGTAAACCACAAACCATAATCCCTAAACCTTTAACACATTTCCCCTAAACCTTGAATCATA
66 AAACCATAAACCACAAACCATAATCCCTAAACCCCTAACACATATCCCCTAAACCTTGAATCATA
22741184 AAACA
131 AAACA
** * *
22741189 TAAACTATAAATGCTAAACCCCTAACGCTTAACCTCTAACACCTAAACTTTAAACCCTAACCCTT
1 TAAACTATAAACCCTAAACCCCTAACGCTTAACCCCTAACACCTAAACCTTAAACCCTAACCCTT
*
22741254 AAACCATAACCCATAACCCATAACCCATAATCCCTAAACCCCTAAC-CTATATCCCCTAAACCTT
66 AAACCATAAACC---A--CA-AA-CCATAATCCCTAAACCCCTAACAC-ATATCCCCTAAACCTT
* *
22741318 GTATTATAAAACA
123 GAATCATAAAACA
*
22741331 TAAATTATAAACCCTAAACCCCTAAC
1 TAAACTATAAACCCTAAACCCCTAAC
22741357 CATTAAACCC
Statistics
Matches: 140, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
135 65 0.46
138 1 0.01
140 2 0.01
141 3 0.02
142 69 0.49
ACGTcount: A:0.41, C:0.33, G:0.02, T:0.24
Consensus pattern (135 bp):
TAAACTATAAACCCTAAACCCCTAACGCTTAACCCCTAACACCTAAACCTTAAACCCTAACCCTT
AAACCATAAACCACAAACCATAATCCCTAAACCCCTAACACATATCCCCTAAACCTTGAATCATA
AAACA
Found at i:22741376 original size:14 final size:15
Alignment explanation
Indices: 22741340--22741377 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
22741330 ATAAATTATA
22741340 AACCC-TAAACCCCT
1 AACCCTTAAACCCCT
*
22741354 AACCATTAAACCCC-
1 AACCCTTAAACCCCT
22741368 AACCCTTAAA
1 AACCCTTAAA
22741378 TAATAAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.16
Consensus pattern (15 bp):
AACCCTTAAACCCCT
Found at i:22741412 original size:15 final size:14
Alignment explanation
Indices: 22741388--22741422 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
22741378 TAATAAACAA
22741388 TAAACCATAACCCC
1 TAAACCATAACCCC
*
22741402 TAAATCCATAATCCC
1 TAAA-CCATAACCCC
22741417 TAAACC
1 TAAACC
22741423 GCTAATGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAACCATAACCCC
Found at i:22747485 original size:18 final size:18
Alignment explanation
Indices: 22747454--22747488 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22747444 ACTTAGTCAG
* *
22747454 TTTCTTCTTTCCCTTAGC
1 TTTCTGCTTCCCCTTAGC
22747472 TTTCTGCTTCCCCTTAG
1 TTTCTGCTTCCCCTTAG
22747489 AAGACAAAGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.06, C:0.34, G:0.09, T:0.51
Consensus pattern (18 bp):
TTTCTGCTTCCCCTTAGC
Found at i:22750249 original size:68 final size:71
Alignment explanation
Indices: 22750116--22750253 Score: 192
Period size: 68 Copynumber: 2.0 Consensus size: 71
22750106 TGATTAAACT
* *
22750116 TAATCACTTTAATATTAAATTAATAGAATATTTATCTACAAGATAAACATTAAATTAAATTTAAT
1 TAATCACTTTAATATTAAATTAATAAAATATCTATCTA-AAGATAAACATTAAATTAAATTTAAT
22750181 ATTAAGA
65 ATTAAGA
* ** *
22750188 TAATCACTTTAATATTGAATTAATAAAATA-CTAT-T-AAGATAAGTATTAAATTTAATTTAATA
1 TAATCACTTTAATATTAAATTAATAAAATATCTATCTAAAGATAAACATTAAATTAAATTTAATA
22750250 TTAA
66 TTAA
22750254 ATCTTTTAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
68 28 0.47
70 1 0.02
71 3 0.05
72 28 0.47
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (71 bp):
TAATCACTTTAATATTAAATTAATAAAATATCTATCTAAAGATAAACATTAAATTAAATTTAATA
TTAAGA
Found at i:22760266 original size:40 final size:41
Alignment explanation
Indices: 22760221--22760336 Score: 148
Period size: 40 Copynumber: 2.9 Consensus size: 41
22760211 GTTTGGATAA
*
22760221 AAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTCTCA-T
1 AAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTCTCAGG
* **
22760261 AAAACGCCGCTAAAGATCAAGCATTAGCGGCGCTT-TCAGG
1 AAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTCTCAGG
* * *
22760301 AAAGCGCCACTAAAAA-TGAGCATTAGCGGCGTTTCT
1 AAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTCT
22760337 TGGAAAAACG
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
39 18 0.28
40 46 0.72
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (41 bp):
AAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTCTCAGG
Found at i:22760349 original size:40 final size:39
Alignment explanation
Indices: 22760220--22760357 Score: 136
Period size: 40 Copynumber: 3.5 Consensus size: 39
22760210 CGTTTGGATA
* * *
22760220 AAAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTCT-C
1 AAAAACGCCACTAAAAA-TGAGCATTAGCGGCGTTTCTGG
* * * *
22760259 ATAAAACGCCGCTAAAGATCAAGCATTAGCGGCGCTTTCAGG
1 A-AAAACGCCACTAAAAAT-GAGCATTAGCGGCG-TTTCTGG
*
22760301 -AAAGCGCCACTAAAAATGAGCATTAGCGGCGTTTCTTGG
1 AAAAACGCCACTAAAAATGAGCATTAGCGGCGTTTC-TGG
*
22760340 AAAAACGCCACAAAAAAT
1 AAAAACGCCACTAAAAAT
22760358 CTAAACCCAA
Statistics
Matches: 81, Mismatches: 12, Indels: 11
0.78 0.12 0.11
Matches are distributed among these distances:
38 4 0.05
39 17 0.21
40 57 0.70
41 3 0.04
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (39 bp):
AAAAACGCCACTAAAAATGAGCATTAGCGGCGTTTCTGG
Found at i:22760467 original size:40 final size:41
Alignment explanation
Indices: 22760394--22760543 Score: 257
Period size: 41 Copynumber: 3.7 Consensus size: 41
22760384 ACCTTCTAGG
*
22760394 GCTTTAGCGGCGTTTTTAAAAAAGCGACGCTAATGCTCAGA
1 GCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGA
* *
22760435 GCTTTAGCGTCGTTTTT-AAAAAGCGCCGCTAATGCTCAAA
1 GCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGA
*
22760475 GCTTTAGCGGCGTTTTTAAAAAAGCGTCGCTAATGCTCAGA
1 GCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGA
22760516 GCTTTAGCGGCGTTTTTAAAAAAGCGCC
1 GCTTTAGCGGCGTTTTTAAAAAAGCGCC
22760544 ACAAAAACAT
Statistics
Matches: 101, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 37 0.37
41 64 0.63
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (41 bp):
GCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGA
Found at i:22760530 original size:81 final size:82
Alignment explanation
Indices: 22760394--22760543 Score: 275
Period size: 81 Copynumber: 1.8 Consensus size: 82
22760384 ACCTTCTAGG
*
22760394 GCTTTAGCGGCGTTTTTAAAAAAGCGACGCTAATGCTCAGAGCTTTAGCGTCGTTTTT-AAAAAG
1 GCTTTAGCGGCGTTTTTAAAAAAGCGACGCTAATGCTCAGAGCTTTAGCGGCGTTTTTAAAAAAG
22760458 CGCCGCTAATGCTCAAA
66 CGCCGCTAATGCTCAAA
*
22760475 GCTTTAGCGGCGTTTTTAAAAAAGCGTCGCTAATGCTCAGAGCTTTAGCGGCGTTTTTAAAAAAG
1 GCTTTAGCGGCGTTTTTAAAAAAGCGACGCTAATGCTCAGAGCTTTAGCGGCGTTTTTAAAAAAG
22760540 CGCC
66 CGCC
22760544 ACAAAAACAT
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
81 56 0.85
82 10 0.15
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (82 bp):
GCTTTAGCGGCGTTTTTAAAAAAGCGACGCTAATGCTCAGAGCTTTAGCGGCGTTTTTAAAAAAG
CGCCGCTAATGCTCAAA
Found at i:22760979 original size:22 final size:21
Alignment explanation
Indices: 22760954--22760998 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
22760944 ATTTTAAGGT
22760954 TTATAGATTATGGAATTAGGGA
1 TTATAGATTAT-GAATTAGGGA
* *
22760976 TTATGGATTATGTATTAGGGA
1 TTATAGATTATGAATTAGGGA
22760997 TT
1 TT
22760999 CTGGTTTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.42
Consensus pattern (21 bp):
TTATAGATTATGAATTAGGGA
Found at i:22761082 original size:16 final size:16
Alignment explanation
Indices: 22761061--22761128 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
22761051 TTTGGTTCGC
22761061 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
22761077 TGTATTGGATTGGAGG
1 TGTATTGGATTAGAGG
22761093 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
22761109 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
22761125 TGTA
1 TGTA
22761129 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:22761452 original size:157 final size:157
Alignment explanation
Indices: 22761251--22761567 Score: 571
Period size: 157 Copynumber: 2.0 Consensus size: 157
22761241 TAGAATACCC
*
22761251 TTAGCATAAATTTGTTTTAGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTAGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * *
22761316 TTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATCTATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
22761381 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
* *
22761408 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTAGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
22761473 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
22761538 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
22761565 TTA
1 TTA
22761568 ATATTCTTAT
Statistics
Matches: 153, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 153 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTAGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:22761538 original size:16 final size:16
Alignment explanation
Indices: 22761501--22761542 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
22761491 TTAATCATAT
*
22761501 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
22761517 TT-AAATATATTATAA
1 TTAAAATATATTATAA
22761532 TTAAAATATAT
1 TTAAAATATAT
22761543 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:22761549 original size:14 final size:15
Alignment explanation
Indices: 22761510--22761551 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
22761500 TTTAAACATA
*
22761510 ATTATTATTAAATAT
1 ATTATAATTAAATAT
22761525 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
22761539 A-TATAATTTAATA
1 ATTATAATTAAATA
22761552 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:22761627 original size:107 final size:109
Alignment explanation
Indices: 22761499--22761728 Score: 401
Period size: 107 Copynumber: 2.1 Consensus size: 109
22761489 ATTTAATCAT
22761499 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
22761564 ATTAATATTCTTATATGAATTTACTCAAATCATAATATA-GATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATA
22761607 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
22761671 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATA
* * *
22761715 CTATAAATATAATT
1 ATTTAAACATAATT
22761729 TGAAATAATT
Statistics
Matches: 115, Mismatches: 5, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
107 97 0.84
108 10 0.09
109 8 0.07
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (109 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATA
Found at i:22761647 original size:16 final size:16
Alignment explanation
Indices: 22761604--22761649 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
22761594 CATAATATAG
*
22761604 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
22761620 ATTATT-AAATATATT
1 ATAATTAAAATATATT
22761635 ATAATTAAAATATAT
1 ATAATTAAAATATAT
22761650 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:22761656 original size:14 final size:15
Alignment explanation
Indices: 22761604--22761658 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
22761594 CATAATATAG
22761604 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
22761620 ATTATTAAATATATT
1 ATAATTAAATATATT
22761635 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
22761648 ATAATTTAATA
1 ATAATTAAATA
22761659 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:22761707 original size:37 final size:35
Alignment explanation
Indices: 22761538--22761707 Score: 100
Period size: 37 Copynumber: 4.7 Consensus size: 35
22761528 ATAATTAAAA
*
22761538 TATATAATTTAATAAAATTCTTAATAATTAATATTCT
1 TATATAATTTAATAAAA-TCATAATAATTAATATT-T
* *
22761575 TATATGAATTTACTCAAATCATAAT-A-TAGATAATTT
1 TATAT-AATTTAATAAAATCATAATAATTA-AT-ATTT
* * * * *
22761611 AACATAATTATTATTAAATAT-ATTATAATTAA-A--A
1 TATATAA-T-TTAATAAA-ATCATAATAATTAATATTT
* *
22761645 TATATAATTTAATAAAATTCTTAATAATCAATATTCT
1 TATATAATTTAATAAAA-TCATAATAATTAATATT-T
*
22761682 TATATGAATTTACTAAAATCATAATA
1 TATAT-AATTTAATAAAATCATAATA
22761708 TATGATACTA
Statistics
Matches: 100, Mismatches: 18, Indels: 30
0.68 0.12 0.20
Matches are distributed among these distances:
31 1 0.01
32 8 0.08
33 9 0.09
34 6 0.06
35 4 0.04
36 9 0.09
37 36 0.36
38 25 0.25
39 2 0.02
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (35 bp):
TATATAATTTAATAAAATCATAATAATTAATATTT
Found at i:22765778 original size:74 final size:75
Alignment explanation
Indices: 22765690--22765829 Score: 210
Period size: 74 Copynumber: 1.9 Consensus size: 75
22765680 AGTGTCAGGT
* *
22765690 TAAGGCTTAGGGTTTAGGTTAATTAGTATGTTTTAA-TCTATATTAAATAAGGTTTAGGGGTTAG
1 TAAGGCTTAGGGTTTAGATTAATTAGTATGTTTTAATTATATATTAAATAAGGTTTAGGGGTTAG
22765754 GGACTTGGGA
66 GGACTTGGGA
* * * *
22765764 TAAGGTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGGTTTATGGGTTA
1 TAAGGCTTAGGGTTTAGATTAATTAGTATGTTTTAA-TTATATATTAAATAAGGTTTAGGGGTTA
22765829 G
65 G
22765830 TAGTTAAGGG
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
74 32 0.55
76 26 0.45
ACGTcount: A:0.29, C:0.02, G:0.25, T:0.44
Consensus pattern (75 bp):
TAAGGCTTAGGGTTTAGATTAATTAGTATGTTTTAATTATATATTAAATAAGGTTTAGGGGTTAG
GGACTTGGGA
Found at i:22765853 original size:14 final size:14
Alignment explanation
Indices: 22765836--22765866 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
22765826 TTAGTAGTTA
22765836 AGGGTTTGGGGTTT
1 AGGGTTTGGGGTTT
22765850 AGGGTTTGGGGTTT
1 AGGGTTTGGGGTTT
22765864 AGG
1 AGG
22765867 ATTAGAGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.10, C:0.00, G:0.52, T:0.39
Consensus pattern (14 bp):
AGGGTTTGGGGTTT
Found at i:22769738 original size:24 final size:22
Alignment explanation
Indices: 22769710--22769753 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
22769700 AATTTAAAAA
22769710 ATAAAACATAATATAATATTTATC
1 ATAAAA-ATAA-ATAATATTTATC
*
22769734 ATAAAAATAAATATTATTTA
1 ATAAAAATAAATAATATTTA
22769754 ATTAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
ATAAAAATAAATAATATTTATC
Found at i:22769831 original size:43 final size:43
Alignment explanation
Indices: 22769784--22769885 Score: 114
Period size: 43 Copynumber: 2.4 Consensus size: 43
22769774 AGGTTATATT
* * *
22769784 TTTAGCGGCGTTTTTTGCAAAAACATCGCTAAAAGTCATAGTC
1 TTTAGCGGCGTTTGTGGCAAAAACATCACTAAAAGTCATAGTC
* * * * * * *
22769827 TTTAGCAGCGTTTGTGGGAAAAGCGTCACTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGCAAAAACATCACTAAAAGTCATAGTC
22769870 TTTAGCGGCGTTTGTG
1 TTTAGCGGCGTTTGTG
22769886 AGAGAAGCGC
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGCAAAAACATCACTAAAAGTCATAGTC
Found at i:22769894 original size:43 final size:43
Alignment explanation
Indices: 22769824--22769921 Score: 151
Period size: 43 Copynumber: 2.3 Consensus size: 43
22769814 AAAAGTCATA
* * *
22769824 GTCTTTAGCAGCGTTTGTGGGAAAAGCGTCACTAAAGGTCTTG
1 GTCTTTAGCGGCGTTTGTGAGAAAAGCGCCACTAAAGGTCTTG
* *
22769867 GTCTTTAGCGGCGTTTGTGAGAGAAGCGCCGCTAAAGGTCTTG
1 GTCTTTAGCGGCGTTTGTGAGAAAAGCGCCACTAAAGGTCTTG
22769910 GTCTTTAGCGGC
1 GTCTTTAGCGGC
22769922 CTTTTTTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.19, C:0.18, G:0.33, T:0.30
Consensus pattern (43 bp):
GTCTTTAGCGGCGTTTGTGAGAAAAGCGCCACTAAAGGTCTTG
Found at i:22772064 original size:17 final size:18
Alignment explanation
Indices: 22772034--22772079 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
22772024 ATTTAAATTG
22772034 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
22772052 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
22772068 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
22772080 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:22773184 original size:31 final size:31
Alignment explanation
Indices: 22773108--22773184 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
22773098 CATCGAATTT
*
22773108 AGAGTTTTTTTATATATTTTTTTATATTTTAA
1 AGAGTTTTTTT-TTTATTTTTTTATATTTTAA
* **
22773140 AAAGTTCATTTTTTATTTTTTTA-ATTTTAA
1 AGAGTTTTTTTTTTATTTTTTTATATTTTAA
22773170 AGAGTTTTTATTTTT
1 AGAGTTTTT-TTTTT
22773185 CATAATTTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
30 13 0.35
31 16 0.43
32 8 0.22
ACGTcount: A:0.27, C:0.01, G:0.06, T:0.65
Consensus pattern (31 bp):
AGAGTTTTTTTTTTATTTTTTTATATTTTAA
Found at i:22773976 original size:29 final size:29
Alignment explanation
Indices: 22773920--22773977 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
22773910 CTTAATGACC
* *
22773920 AGTAAAGCGCGCCCACGTCGGCGTGCTTT
1 AGTAAAGCGCGCCCACGTAGGCGCGCTTT
** *
22773949 AGTAAAGCGCTTCCACGTAGGTGCGCTTT
1 AGTAAAGCGCGCCCACGTAGGCGCGCTTT
22773978 TGCCCATGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.19, C:0.28, G:0.29, T:0.24
Consensus pattern (29 bp):
AGTAAAGCGCGCCCACGTAGGCGCGCTTT
Found at i:22774045 original size:34 final size:32
Alignment explanation
Indices: 22774005--22774072 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
22773995 TGCCAATTAG
* *
22774005 GGTTTA-GGTTTTTTTTAAAATTTTTAAGTGTTTA
1 GGTTTAGGGTTTTATTT--AATTTTT-AGGGTTTA
22774039 GGTTTAGGGTTTTATTTAATTTTTAGGGTTTA
1 GGTTTAGGGTTTTATTTAATTTTTAGGGTTTA
22774071 GG
1 GG
22774073 GGTTCTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 9 0.29
33 7 0.23
34 6 0.19
35 9 0.29
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.56
Consensus pattern (32 bp):
GGTTTAGGGTTTTATTTAATTTTTAGGGTTTA
Found at i:22774129 original size:29 final size:28
Alignment explanation
Indices: 22774074--22774150 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 28
22774064 GGGTTTAGGG
* *
22774074 GTTCTAAAAACATAATTTGTATAGGATGA
1 GTTCTAAAAAAATAATTT-TAAAGGATGA
*
22774103 GTTCTAAAAAAATAATTTTAAAGGGATGG
1 GTTCTAAAAAAATAATTTTAAA-GGATGA
* *
22774132 GTTCTGAAGAAATAATTTT
1 GTTCTAAAAAAATAATTTT
22774151 GACAAGATGG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 3 0.07
29 39 0.93
ACGTcount: A:0.42, C:0.05, G:0.18, T:0.35
Consensus pattern (28 bp):
GTTCTAAAAAAATAATTTTAAAGGATGA
Found at i:22775799 original size:38 final size:36
Alignment explanation
Indices: 22775743--22775825 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 36
22775733 ACATTATAAT
* *
22775743 ATATGTCTTCATGGGAATTGTT-AGCCAAAATAAATTTG
1 ATATTTCTTCATGGGAATT-TTCA-ACAAAA-AAATTTG
* *
22775781 ATATTTCTTCATGTGAATTTTCAACAAAAACATTTG
1 ATATTTCTTCATGGGAATTTTCAACAAAAAAATTTG
22775817 ATATTTCTT
1 ATATTTCTT
22775826 TTCAAATCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
36 15 0.38
37 7 0.17
38 18 0.45
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (36 bp):
ATATTTCTTCATGGGAATTTTCAACAAAAAAATTTG
Found at i:22783701 original size:157 final size:157
Alignment explanation
Indices: 22783412--22783885 Score: 777
Period size: 157 Copynumber: 3.0 Consensus size: 157
22783402 TAATATGCCA
* *
22783412 TCCTTTTTTGGCTTCTAGTTATTGTACTCGTACTAGACTGAGGAAAAGAAATGCACAACCCCAAA
1 TCCTTTTTTGGCTTCTAGTTCTTGTACTCGTACCAGACTGA--AAAA-AAATGCACAACCCCAAA
* * * * * * *
22783477 TTAGATTTAAATATTTTGAAACTTGACACTAAAAAAGTGTTTATGATATACATATGATCCAGTTG
63 TTAGATTTAAATATTTTGAAACTTAATAGTGAAAAAGTGTTTACGGTATACATATGATCCAATTG
22783542 TGTTAGGTTGATTGCATGATCTTCTGTTGT
128 TGTTAGGTTGATTGCATGATCTTCTGTTGT
22783572 TCCTTTTTTGGCTTCTAGTTCTTGTACTCGTACCAGACTGAAAAAAAATGCACAACCCCAAATTA
1 TCCTTTTTTGGCTTCTAGTTCTTGTACTCGTACCAGACTGAAAAAAAATGCACAACCCCAAATTA
* *
22783637 GATTTAAATATTTTGAAACTTAATAGTGAAAAAGTGTTTACGGTATACCTACGATCCAATTGTGT
66 GATTTAAATATTTTGAAACTTAATAGTGAAAAAGTGTTTACGGTATACATATGATCCAATTGTGT
*
22783702 TAGGTTGATTGCATGATCTTATGTTGT
131 TAGGTTGATTGCATGATCTTCTGTTGT
* * *
22783729 TTCTTTTTTGGCTTCTAGTTCTTGTACTCGTACCAGACTGAAAAAAAGTGCACAATCCCAAATTA
1 TCCTTTTTTGGCTTCTAGTTCTTGTACTCGTACCAGACTGAAAAAAAATGCACAACCCCAAATTA
*
22783794 GATTTAAATATTTTGAAACTTAATAGTGAAAAAGTGTTTACGGTATACATGTGATCCAATTGTGT
66 GATTTAAATATTTTGAAACTTAATAGTGAAAAAGTGTTTACGGTATACATATGATCCAATTGTGT
22783859 TAGGTTGATTGCATGATCTTCTGTTGT
131 TAGGTTGATTGCATGATCTTCTGTTGT
22783886 GACCTTTACC
Statistics
Matches: 295, Mismatches: 19, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
157 252 0.85
158 4 0.01
160 39 0.13
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (157 bp):
TCCTTTTTTGGCTTCTAGTTCTTGTACTCGTACCAGACTGAAAAAAAATGCACAACCCCAAATTA
GATTTAAATATTTTGAAACTTAATAGTGAAAAAGTGTTTACGGTATACATATGATCCAATTGTGT
TAGGTTGATTGCATGATCTTCTGTTGT
Found at i:22785160 original size:20 final size:20
Alignment explanation
Indices: 22785126--22785163 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22785116 AGACAAACAA
22785126 AATATCAAAATAATATAAGC
1 AATATCAAAATAATATAAGC
22785146 AATA-CAAAATGAATATAA
1 AATATCAAAAT-AATATAA
22785164 AGTTAATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.63, C:0.08, G:0.05, T:0.24
Consensus pattern (20 bp):
AATATCAAAATAATATAAGC
Found at i:22785627 original size:30 final size:30
Alignment explanation
Indices: 22785583--22785660 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 30
22785573 CTCAATATCA
* *
22785583 AAAACCCT-AACCCAAAATCCCCAAA-TTT
1 AAAACCCTAAACCCAAAATCCACAAACTCT
* *
22785611 GACAACCCTAAACCCAAAATTCACAAACTCT
1 -AAAACCCTAAACCCAAAATCCACAAACTCT
22785642 AAAACCCTAAA-CCAAAATC
1 AAAACCCTAAACCCAAAATC
22785661 GAAATAACAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
29 14 0.34
30 25 0.61
31 2 0.05
ACGTcount: A:0.49, C:0.35, G:0.01, T:0.15
Consensus pattern (30 bp):
AAAACCCTAAACCCAAAATCCACAAACTCT
Found at i:22797272 original size:15 final size:16
Alignment explanation
Indices: 22797252--22797290 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
22797242 TTAACTAAAA
22797252 TGTATTT-ACGTGTAT
1 TGTATTTAACGTGTAT
22797267 TGTATTTTAACGTGTAT
1 TGTA-TTTAACGTGTAT
22797284 TGTATTT
1 TGTATTT
22797291 TAACTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.21, C:0.05, G:0.18, T:0.56
Consensus pattern (16 bp):
TGTATTTAACGTGTAT
Found at i:22797281 original size:17 final size:17
Alignment explanation
Indices: 22797259--22797294 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
22797249 AAATGTATTT
22797259 ACGTGTATTGTATTTTA
1 ACGTGTATTGTATTTTA
22797276 ACGTGTATTGTATTTTA
1 ACGTGTATTGTATTTTA
22797293 AC
1 AC
22797295 TTTTTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.25, C:0.08, G:0.17, T:0.50
Consensus pattern (17 bp):
ACGTGTATTGTATTTTA
Found at i:22797375 original size:26 final size:24
Alignment explanation
Indices: 22797322--22797376 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
22797312 AATTTTTTTA
* **
22797322 TATTTTTATATTTTAATTTTGATG
1 TATTTTTATATTATAATTTTGAAC
22797346 TATTTTTATACTTATAATTTTTGAAC
1 TATTTTTATA-TTATAA-TTTTGAAC
22797372 TATTT
1 TATTT
22797377 GTTGACACGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 10 0.38
25 5 0.19
26 11 0.42
ACGTcount: A:0.27, C:0.04, G:0.05, T:0.64
Consensus pattern (24 bp):
TATTTTTATATTATAATTTTGAAC
Found at i:22797433 original size:58 final size:58
Alignment explanation
Indices: 22797369--22797488 Score: 222
Period size: 58 Copynumber: 2.1 Consensus size: 58
22797359 ATAATTTTTG
* *
22797369 AACTATTTGTTGACACGACATAAAATAAATGATGTTATGTTAGCATAATGTGGATATA
1 AACTATTTGTTGACACGACATAAAACAAATAATGTTATGTTAGCATAATGTGGATATA
22797427 AACTATTTGTTGACACGACATAAAACAAATAATGTTATGTTAGCATAATGTGGATATA
1 AACTATTTGTTGACACGACATAAAACAAATAATGTTATGTTAGCATAATGTGGATATA
22797485 AACT
1 AACT
22797489 GTAATATAAG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.33
Consensus pattern (58 bp):
AACTATTTGTTGACACGACATAAAACAAATAATGTTATGTTAGCATAATGTGGATATA
Found at i:22797617 original size:23 final size:23
Alignment explanation
Indices: 22797591--22797638 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
22797581 AAATTTAATT
*
22797591 AAAAATAAGA-ATCAAAATAATAA
1 AAAAATAAAATATCAAAA-AATAA
*
22797614 AAAATTAAAATATCAAAAAATAA
1 AAAAATAAAATATCAAAAAATAA
22797637 AA
1 AA
22797639 TTATCATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (23 bp):
AAAAATAAAATATCAAAAAATAA
Found at i:22797808 original size:16 final size:16
Alignment explanation
Indices: 22797787--22797855 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
22797777 TTTGGTTCGC
22797787 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
22797803 TGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
22797819 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
22797836 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
22797852 TGTA
1 TGTA
22797856 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 35 0.70
17 15 0.30
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:22797833 original size:33 final size:32
Alignment explanation
Indices: 22797787--22797855 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
22797777 TTTGGTTCGC
22797787 TGTATTGGATTAGAGGTGTATTGGATTAAAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAAAGG
*
22797819 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAAAGG
22797852 TGTA
1 TGTA
22797856 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAAAGG
Found at i:22797920 original size:44 final size:45
Alignment explanation
Indices: 22797836--22797926 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
22797826 GGATTAGAGG
* * *
22797836 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
22797881 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
22797925 TG
1 TG
22797927 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:22798112 original size:18 final size:19
Alignment explanation
Indices: 22798091--22798127 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
22798081 TTATTATTAA
22798091 ATAT-ATTT-TAATTAAAAT
1 ATATAATTTATAA-TAAAAT
22798109 ATATAATTTATAATAAAAT
1 ATATAATTTATAATAAAAT
22798128 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 10 0.59
20 3 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATTTATAATAAAAT
Found at i:22798292 original size:120 final size:120
Alignment explanation
Indices: 22798077--22798480 Score: 666
Period size: 120 Copynumber: 3.4 Consensus size: 120
22798067 ATATTTTAAC
* * *
22798077 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTATAATAAAATTCTTAATAATCAAT
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAA-TT-TAATAAAATTCTTAATATTAAAT
22798142 ATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTGAA
64 ATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTGAA
*
22798199 ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATATTAAATAT
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
22798264 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTGAA
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTGAA
*
22798319 ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATATTAAATAT
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
* * *
22798384 TCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAATTT-AA
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTGAA
* ** *
22798438 CATAATTATTATTAAATATAAGTTAATAAAAATATATAATTTA
1 -ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTA
22798481 TCATCATACT
Statistics
Matches: 269, Mismatches: 12, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
119 2 0.01
120 229 0.85
121 2 0.01
122 36 0.13
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTGAA
Found at i:22803932 original size:21 final size:21
Alignment explanation
Indices: 22803908--22803951 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
22803898 AGTGCCACAT
*
22803908 GTCAAACCAAAATTATCATGG
1 GTCAAACCAAAATTACCATGG
** *
22803929 GTCAAGTCGAAATTACCATGG
1 GTCAAACCAAAATTACCATGG
22803950 GT
1 GT
22803952 AAAAAGGATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (21 bp):
GTCAAACCAAAATTACCATGG
Found at i:22804111 original size:54 final size:54
Alignment explanation
Indices: 22804045--22804164 Score: 240
Period size: 54 Copynumber: 2.2 Consensus size: 54
22804035 ATATTATTAC
22804045 TAATTTAATTAAATAAATTAAGTCATAATAGTAAATGATTATTCTATATCTATT
1 TAATTTAATTAAATAAATTAAGTCATAATAGTAAATGATTATTCTATATCTATT
22804099 TAATTTAATTAAATAAATTAAGTCATAATAGTAAATGATTATTCTATATCTATT
1 TAATTTAATTAAATAAATTAAGTCATAATAGTAAATGATTATTCTATATCTATT
22804153 TAATTTAATTAA
1 TAATTTAATTAA
22804165 TTAGAAATAA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (54 bp):
TAATTTAATTAAATAAATTAAGTCATAATAGTAAATGATTATTCTATATCTATT
Found at i:22804599 original size:61 final size:61
Alignment explanation
Indices: 22804427--22804606 Score: 163
Period size: 61 Copynumber: 3.0 Consensus size: 61
22804417 TAACGAATAT
* *
22804427 CATACCATTTTTGCAGAAAGCCACCTTCCGATCCAATTTAATTGAGGAAAGGAGGTCAAA-
1 CATACCATTTTTGAAGAAAGCCACCTTTCGATCCAATTTAATTGAGGAAAGGAGGTCAAAG
*** * ** ** * * * *
22804487 -AT-TTGTTTATGTGGAAAGCTGCTTTTCGAT-CATGATCT-AGTGAAGAAAGGAGGTCAAAG
1 CATACCATTTTTGAAGAAAGCCACCTTTCGATCCA--ATTTAATTGAGGAAAGGAGGTCAAAG
* *
22804546 CATACCATTTTTGAAGAAAGCCCCCTTTCAATCCAATTTAATTGAGGAAAGGAGGTCAAAG
1 CATACCATTTTTGAAGAAAGCCACCTTTCGATCCAATTTAATTGAGGAAAGGAGGTCAAAG
22804607 TTTGTTTATG
Statistics
Matches: 87, Mismatches: 26, Indels: 13
0.69 0.21 0.10
Matches are distributed among these distances:
57 2 0.02
58 36 0.41
59 5 0.06
60 5 0.06
61 37 0.43
62 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (61 bp):
CATACCATTTTTGAAGAAAGCCACCTTTCGATCCAATTTAATTGAGGAAAGGAGGTCAAAG
Found at i:22804638 original size:119 final size:119
Alignment explanation
Indices: 22804427--22804665 Score: 415
Period size: 119 Copynumber: 2.0 Consensus size: 119
22804417 TAACGAATAT
* *
22804427 CATACCATTTTTGCAGAAAGCCACCTTCCGATCCAATTTAATTGAGGAAAGGAGGTCAAAATTTG
1 CATACCATTTTTGAAGAAAGCCACCTTCCAATCCAATTTAATTGAGGAAAGGAGGTCAAAATTTG
*
22804492 TTTATGTGGAAAGCTGCTTTTCGATCATGATCTAGTGAAGAAAGGAGGTCAAAG
66 TTTATGTGGAAAGCTGCTTTTCGATCATGATCTAGTAAAGAAAGGAGGTCAAAG
* * *
22804546 CATACCATTTTTGAAGAAAGCCCCCTTTCAATCCAATTTAATTGAGGAAAGGAGGTCAAAGTTTG
1 CATACCATTTTTGAAGAAAGCCACCTTCCAATCCAATTTAATTGAGGAAAGGAGGTCAAAATTTG
*
22804611 TTTATGTGGAAAGCTGCTTTTCGATCATGATCTATTAAAGAAAGGAGGTCAAAG
66 TTTATGTGGAAAGCTGCTTTTCGATCATGATCTAGTAAAGAAAGGAGGTCAAAG
22804665 C
1 C
22804666 TTTTTTTAAG
Statistics
Matches: 113, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
119 113 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (119 bp):
CATACCATTTTTGAAGAAAGCCACCTTCCAATCCAATTTAATTGAGGAAAGGAGGTCAAAATTTG
TTTATGTGGAAAGCTGCTTTTCGATCATGATCTAGTAAAGAAAGGAGGTCAAAG
Found at i:22804664 original size:58 final size:59
Alignment explanation
Indices: 22804467--22804673 Score: 197
Period size: 58 Copynumber: 3.5 Consensus size: 59
22804457 ATCCAATTTA
* *
22804467 ATTGAGGAAAGGAGGTCAAA-ATTTGTTTATGTGGAAAGCTGCTTTTCGATCATGATCT
1 ATTGAAGAAAGGAGGTCAAAGCTTTGTTTATGTGGAAAGCTGCTTTTCGATCATGATCT
* *** * ** ** * * *
22804525 AGTGAAGAAAGGAGGTCAAAGCATACCATTTTTGAAGAAAGCCCCCTTTCAATCCA--ATTT
1 ATTGAAGAAAGGAGGTCAAAGC-T-TTGTTTATGTGGAAAGCTGCTTTTCGAT-CATGATCT
*
22804585 AATTGAGGAAAGGAGGTCAAAG-TTTGTTTATGTGGAAAGCTGCTTTTCGATCATGATCT
1 -ATTGAAGAAAGGAGGTCAAAGCTTTGTTTATGTGGAAAGCTGCTTTTCGATCATGATCT
* *
22804644 ATTAAAGAAAGGAGGTCAAAGCTTTTTTTA
1 ATTGAAGAAAGGAGGTCAAAGCTTTGTTTA
22804674 AGAAAAAAAA
Statistics
Matches: 111, Mismatches: 30, Indels: 15
0.71 0.19 0.10
Matches are distributed among these distances:
57 2 0.02
58 55 0.50
59 11 0.10
60 4 0.04
61 37 0.33
62 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (59 bp):
ATTGAAGAAAGGAGGTCAAAGCTTTGTTTATGTGGAAAGCTGCTTTTCGATCATGATCT
Found at i:22806629 original size:50 final size:50
Alignment explanation
Indices: 22806519--22806766 Score: 225
Period size: 50 Copynumber: 4.9 Consensus size: 50
22806509 ATTTGAGTAA
*
22806519 AGAGATCCGATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGACTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGG---CATTGAG---ATG
* **
22806575 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCATTGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGATG
* ** * *** *
22806625 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCAATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGATG
* * *
22806675 AGA-ACTCCCATGTAAGACCATATCTGGGATATGGCATTGGTAGTAT-AGA--
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-T-TGAGATG
* * *
22806724 AAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
22806767 GTTATTATCA
Statistics
Matches: 160, Mismatches: 28, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
48 1 0.01
49 35 0.22
50 79 0.49
51 2 0.01
53 7 0.04
56 36 0.22
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGATG
Found at i:22812118 original size:39 final size:38
Alignment explanation
Indices: 22812068--22812170 Score: 134
Period size: 39 Copynumber: 2.7 Consensus size: 38
22812058 TGAATATAAT
* * *
22812068 AATTATAATTACCATAATTATAATAATGTTTGACCGAAA
1 AATTATAATTACAATAATTATAATAATATTCGACCG-AA
* * *
22812107 AATTAGAATTACAATAATTATAATAATATTCGATCGTA
1 AATTATAATTACAATAATTATAATAATATTCGACCGAA
*
22812145 AATTATAATTGCAATAATTATAATAA
1 AATTATAATTACAATAATTATAATAA
22812171 GGATTTCGGT
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 25 0.45
39 31 0.55
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.37
Consensus pattern (38 bp):
AATTATAATTACAATAATTATAATAATATTCGACCGAA
Found at i:22819629 original size:41 final size:41
Alignment explanation
Indices: 22819492--22819649 Score: 129
Period size: 42 Copynumber: 3.8 Consensus size: 41
22819482 AACATAGCTC
* * * * ** *
22819492 CTAAGCACGAGCCTAAATTGTTAATCCAAAATGCTAATGCTC
1 CTAAGCATGAGCTTAAACTGTTCATCCAAAA-AATAATGCTT
** * * ** *
22819534 CTAAATATGAGCTTAAACTATTCAGCCTAAACGATGATGCTT
1 CTAAGCATGAGCTTAAACTGTTCATCC-AAAAAATAATGCTT
*
22819576 CTAAGCACGAGCTTAAACTGTTCATCCAAAAAATAATG-TT
1 CTAAGCATGAGCTTAAACTGTTCATCCAAAAAATAATGCTT
**
22819616 CTTAAGCATGAGCTTAAACTGCACATCCAAAAAA
1 C-TAAGCATGAGCTTAAACTGTTCATCCAAAAAA
22819650 ATATATATGG
Statistics
Matches: 91, Mismatches: 23, Indels: 5
0.76 0.19 0.04
Matches are distributed among these distances:
40 3 0.03
41 37 0.41
42 48 0.53
43 3 0.03
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.27
Consensus pattern (41 bp):
CTAAGCATGAGCTTAAACTGTTCATCCAAAAAATAATGCTT
Done.