Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold81
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: 1151237
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.32
Warning! 79344 characters in sequence are not A, C, G, or T
File 1 of 9
Found at i:969 original size:27 final size:25
Alignment explanation
Indices: 939--1000 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 25
929 TGTTTTAAAT
*
939 TTAAGATATATTTTAAATATTTTTATA
1 TTAAAATATATTTTAAA-ATTTTT-TA
966 TTAATAAT-T-TTTTAAAATTTTTTA
1 TTAA-AATATATTTTAAAATTTTTTA
*
990 ATAAAATATAT
1 TTAAAATATAT
1001 ATATATAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
23 3 0.10
24 6 0.20
25 7 0.23
26 7 0.23
27 5 0.17
28 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (25 bp):
TTAAAATATATTTTAAAATTTTTTA
Found at i:1085 original size:20 final size:21
Alignment explanation
Indices: 1056--1098 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
1046 ATGAAAATAT
*
1056 AAATTTAAAATTATAAT-TTA
1 AAATTCAAAATTATAATATTA
*
1076 AAATTCAAAATTTTAATATTA
1 AAATTCAAAATTATAATATTA
1097 AA
1 AA
1099 TAATAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATTCAAAATTATAATATTA
Found at i:2405 original size:7 final size:8
Alignment explanation
Indices: 2388--2480 Score: 55
Period size: 8 Copynumber: 11.1 Consensus size: 8
2378 ATGTAAAATT
2388 TATATAAA
1 TATATAAA
2396 TATA-AAA
1 TATATAAA
2403 TATATTAAACA
1 TATA-T-AA-A
* *
2414 TAATTTTAA
1 T-ATATAAA
2423 TATAATAAAA
1 TAT-AT-AAA
2433 TATATAAA
1 TATATAAA
* *
2441 CATA-ACA
1 TATATAAA
*
2448 TATATATA
1 TATATAAA
*
2456 TATATATA
1 TATATAAA
*
2464 TATATATA
1 TATATAAA
2472 TATATAAA
1 TATATAAA
2480 T
1 T
2481 TGTTTAAGTC
Statistics
Matches: 68, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
7 12 0.18
8 38 0.56
9 5 0.07
10 8 0.12
11 3 0.04
12 2 0.03
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (8 bp):
TATATAAA
Found at i:2452 original size:2 final size:2
Alignment explanation
Indices: 2447--2477 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2437 TAAACATAAC
2447 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2478 AATTGTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2988 original size:27 final size:27
Alignment explanation
Indices: 2950--3004 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
2940 TAATCATCTG
2950 ACCCATGAACATAATCCAAGTTTATAT
1 ACCCATGAACATAATCCAAGTTTATAT
2977 ACCCATGAACATAATCCAAGTTTATAT
1 ACCCATGAACATAATCCAAGTTTATAT
3004 A
1 A
3005 TAAATTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (27 bp):
ACCCATGAACATAATCCAAGTTTATAT
Found at i:3032 original size:13 final size:14
Alignment explanation
Indices: 2997--3026 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2987 ATAATCCAAG
2997 TTTATAT-ATAAAT
1 TTTATATAATAAAT
3010 TTTATATAATAAAT
1 TTTATATAATAAAT
3024 TTT
1 TTT
3027 GTTAATGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTATATAATAAAT
Found at i:3135 original size:17 final size:17
Alignment explanation
Indices: 3090--3128 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
3080 AAGCATTCTT
*
3090 ATTTAATTATTTTTTTA
1 ATTTAATTATTTTATTA
3107 ATTTAATTATTTTATTA
1 ATTTAATTATTTTATTA
3124 ATTTA
1 ATTTA
3129 TGTATTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTTAATTATTTTATTA
Found at i:14211 original size:2 final size:2
Alignment explanation
Indices: 14206--14247 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
14196 TCATAAGTTT
14206 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14248 GGAGATACAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15856 original size:29 final size:29
Alignment explanation
Indices: 15802--15859 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
15792 CTATAGGATA
* *
15802 AAATAAATAAATAAATTAAACCAAAAAAT
1 AAATAAATAAAAAAATTAAACAAAAAAAT
*
15831 AAATAAATAATAAAAATTAAAAAAAAAAA
1 AAATAAATAA-AAAAATTAAACAAAAAAA
15860 GAGAAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (29 bp):
AAATAAATAAAAAAATTAAACAAAAAAAT
Found at i:16244 original size:1 final size:1
Alignment explanation
Indices: 16202--16228 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
16192 TCCTTCTTTC
16202 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
16229 CCTTTCTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:16928 original size:34 final size:34
Alignment explanation
Indices: 16873--16941 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 34
16863 TTTTAATTTA
*
16873 TTAATTTATTAATATAATTTTTTTAAAAT-TTAAT
1 TTAATTTATTAATAT-ATTTTTTAAAAATATTAAT
*
16907 TTAATTTAATTTAT-TATTTTTTAAAAATATTAAT
1 TTAATTT-ATTAATATATTTTTTAAAAATATTAAT
16941 T
1 T
16942 AATACATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 12 0.39
34 14 0.45
35 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (34 bp):
TTAATTTATTAATATATTTTTTAAAAATATTAAT
Found at i:16944 original size:33 final size:32
Alignment explanation
Indices: 16867--16944 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 32
16857 TTAATATTTT
*
16867 AATTT-ATTAATTTATTAATATAATTTTTTTAA
1 AATTTAATTAATTTATT-ATATAATTTTTTAAA
*
16899 AATTTAATTTAATTTAATT-TATTATTTTTTAAA
1 AATTTAA-TTAATTT-ATTATATAATTTTTTAAA
16932 AATATTAATTAAT
1 AAT-TTAATTAAT
16945 ACATAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
32 5 0.12
33 21 0.52
34 11 0.28
35 3 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (32 bp):
AATTTAATTAATTTATTATATAATTTTTTAAA
Found at i:17663 original size:2 final size:2
Alignment explanation
Indices: 17656--17686 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
17646 TAAGAAGCAA
17656 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17687 ACCATGAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18981 original size:152 final size:146
Alignment explanation
Indices: 18680--19113 Score: 498
Period size: 152 Copynumber: 2.9 Consensus size: 146
18670 AAAATGATTG
* * * * * *
18680 ATTTTATAAGTATCTAATTATATAGAAAAAGTTGGATATATCACCTAGTAGTGAAAAAAAGATAA
1 ATTTCATAAGTATCGAGTTATGTAGAAAAAG-AGGATAGATCACCTA-TAGTGAAAAAAAGA-AA
* *
18745 AGATAAAA-CTAATTTTAAAATGTAAAAGAAAGAATAACTAAAAAAGAGAAAAAAAACATGAGCA
63 AGA-AAAAGCT-ATTTTAAAATGTAAAGGAAAGAATAAATAAAAAAGAG---AAAAACATGAGCA
18809 AGAAAAGAATTTTACTAAAAA-TA
123 AGAAAAGAATTTTACTAAAAACTA
18832 ATTTCATAAGTATCGAGTTATGTAGAAAAAGACGGATAGATCACCTATTAGTGAAAAAAAGAAGA
1 ATTTCATAAGTATCGAGTTATGTAGAAAAAGA-GGATAGATCACCTA-TAGTGAAAAAAAGAA-A
*
18897 AGAAAAAGCATATTTTATAATGTAAAGGAAAGAATAAATAAAAAAGAGAAAAACATGAGCAAGAA
63 AGAAAAAGC-TATTTTAAAATGTAAAGGAAAGAATAAATAAAAAAGAGAAAAACATGAGCAAGAA
18962 AAGAATTTTACTAAAAAAAACTA
127 AAGAATTTTACT---AAAAACTA
18985 ATTTCATAAGTATCGAGTTATGTAG-AAAA-A-GAT-G---A---ATAGT-AAAAAAAGAATAAG
1 ATTTCATAAGTATCGAGTTATGTAGAAAAAGAGGATAGATCACCTATAGTGAAAAAAAGAA-AAG
* * * **
19039 ATAAAGCTTATTTTAAAATGTAAAGGAAAGGATAAATAAAAAAGAGAAAAAAACAAGCAAGAAAA
65 AAAAAGC-TATTTTAAAATGTAAAGGAAAGAATAAATAAAAAAGAGAAAAACATGAGCAAGAAAA
19104 GAATTTTACT
129 GAATTTTACT
19114 TTATTTGGTT
Statistics
Matches: 256, Mismatches: 18, Indels: 28
0.85 0.06 0.09
Matches are distributed among these distances:
140 81 0.32
141 4 0.02
142 1 0.00
145 1 0.00
148 1 0.00
149 32 0.12
151 6 0.02
152 102 0.40
153 28 0.11
ACGTcount: A:0.56, C:0.06, G:0.15, T:0.23
Consensus pattern (146 bp):
ATTTCATAAGTATCGAGTTATGTAGAAAAAGAGGATAGATCACCTATAGTGAAAAAAAGAAAAGA
AAAAGCTATTTTAAAATGTAAAGGAAAGAATAAATAAAAAAGAGAAAAACATGAGCAAGAAAAGA
ATTTTACTAAAAACTA
Found at i:19030 original size:140 final size:144
Alignment explanation
Indices: 18728--19113 Score: 470
Period size: 140 Copynumber: 2.7 Consensus size: 144
18718 TATCACCTAG
* *
18728 TAGTGAAAAAAAGATA-AAGATAAAA-C-TAATTTTAAAATGTAAAAGAAAGAATAACTAAAAAA
1 TAGTGAAAAAAAGA-AGAAGA-AAAAGCAT-ATTTTAAAATGTAAAGGAAAGAATAAATAAAAAA
18790 GAGAAAAAAAACATGAGCAAGAAAAGAATTTTACTAAAAATAATTTCATAAGTATCGAGTTATGT
63 GAG---AAAAACATGAGCAAGAAAAGAATTTTACTAAAAATAATTTCATAAGTATCGAGTTATGT
18855 AGAAAAAGACGGATAGATCACCTAT
125 AGAAAAAGAC-GATAGA--A-C-AT
*
18880 TAGTGAAAAAAAGAAGAAGAAAAAGCATATTTTATAATGTAAAGGAAAGAATAAATAAAAAAGAG
1 TAGTGAAAAAAAGAAGAAGAAAAAGCATATTTTAAAATGTAAAGGAAAGAATAAATAAAAAAGAG
18945 AAAAACATGAGCAAGAAAAGAATTTTACTAAAAAAAACTAATTTCATAAGTATCGAGTTATGTAG
66 AAAAACATGAGCAAGAAAAGAATTTTACT---AAAAA-TAATTTCATAAGTATCGAGTTATGTAG
19010 -AAAA-A-GAT-G-A-A-
127 AAAAAGACGATAGAACAT
* * * *
19021 TAGT-AAAAAAAGAATAAGATAAAGCTTATTTTAAAATGTAAAGGAAAGGATAAATAAAAAAGAG
1 TAGTGAAAAAAAGAAGAAGAAAAAGCATATTTTAAAATGTAAAGGAAAGAATAAATAAAAAAGAG
* **
19085 AAAAAAACAAGCAAGAAAAGAATTTTACT
66 AAAAACATGAGCAAGAAAAGAATTTTACT
19114 TTATTTGGTT
Statistics
Matches: 216, Mismatches: 11, Indels: 26
0.85 0.04 0.10
Matches are distributed among these distances:
140 81 0.38
141 4 0.02
142 1 0.00
145 1 0.00
148 1 0.00
149 32 0.15
151 6 0.03
152 62 0.29
153 28 0.13
ACGTcount: A:0.58, C:0.06, G:0.15, T:0.22
Consensus pattern (144 bp):
TAGTGAAAAAAAGAAGAAGAAAAAGCATATTTTAAAATGTAAAGGAAAGAATAAATAAAAAAGAG
AAAAACATGAGCAAGAAAAGAATTTTACTAAAAATAATTTCATAAGTATCGAGTTATGTAGAAAA
AGACGATAGAACAT
Found at i:21545 original size:55 final size:55
Alignment explanation
Indices: 21477--21587 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
21467 TATATCTTTC
*
21477 TTTATCTTTAAATCAATATTTTATTTAAAATGAAAACTCGACTAATTTCATAAGT
1 TTTATCTTCAAATCAATATTTTATTTAAAATGAAAACTCGACTAATTTCATAAGT
21532 TTTATCTTCAAATCAATATTTTATTTAAAATGAAAACTCGACTAATTTCATAAGT
1 TTTATCTTCAAATCAATATTTTATTTAAAATGAAAACTCGACTAATTTCATAAGT
21587 T
1 T
21588 ATGTAAGGAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (55 bp):
TTTATCTTCAAATCAATATTTTATTTAAAATGAAAACTCGACTAATTTCATAAGT
Found at i:26583 original size:9 final size:9
Alignment explanation
Indices: 26557--26598 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
26547 TGGGATGAAC
*
26557 ATAAGTTTA
1 ATAAATTTA
26566 ATAATATTTA
1 ATAA-ATTTA
26576 ATAAATTTA
1 ATAAATTTA
*
26585 ATAAAATT-
1 ATAAATTTA
26593 ATAAAT
1 ATAAAT
26599 ATTATATAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
8 5 0.17
9 16 0.55
10 8 0.28
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (9 bp):
ATAAATTTA
Found at i:28131 original size:21 final size:19
Alignment explanation
Indices: 28107--28155 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
28097 TTATTTAATT
28107 TTAATTATAAAAATATAAATA
1 TTAA-TATAAAAATA-AAATA
*
28128 TTAATATTAAAATAAAATTA
1 TTAATATAAAAATAAAA-TA
28148 TTTAATAT
1 -TTAATAT
28156 TTTTATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 3 0.12
20 11 0.44
21 11 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TTAATATAAAAATAAAATA
Found at i:28156 original size:21 final size:21
Alignment explanation
Indices: 28106--28156 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
28096 TTTATTTAAT
*
28106 TTTAATTATAAAAATATAAATA
1 TTTAA-TATTAAAATATAAATA
28128 -TTAATATTAAAATA-AAATTA
1 TTTAATATTAAAATATAAA-TA
28148 TTTAATATT
1 TTTAATATT
28157 TTTATAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 3 0.12
20 11 0.42
21 12 0.46
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTAATATTAAAATATAAATA
Found at i:28557 original size:9 final size:8
Alignment explanation
Indices: 28529--28554 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
28519 TATATATAAA
28529 TTAATATT
1 TTAATATT
28537 TTAATATT
1 TTAATATT
28545 TTAATATT
1 TTAATATT
28553 TT
1 TT
28555 TAAATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTAATATT
Found at i:29529 original size:2 final size:2
Alignment explanation
Indices: 29522--29551 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
29512 ACAACCCCAC
29522 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
29552 ATATATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:29556 original size:2 final size:2
Alignment explanation
Indices: 29551--29579 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
29541 TCTCTCTCTC
29551 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
29580 TTGGAGGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:29686 original size:28 final size:27
Alignment explanation
Indices: 29647--29699 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 27
29637 AATTATATAA
29647 ATTTATAGTATTATAATAATATAAAATC
1 ATTTATAGTATT-TAATAATATAAAATC
* *
29675 ATTT-TAGATATTTCATACTATAAAA
1 ATTTATAG-TATTTAATAATATAAAA
29700 GATAAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 14 0.64
28 8 0.36
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (27 bp):
ATTTATAGTATTTAATAATATAAAATC
Found at i:29817 original size:28 final size:27
Alignment explanation
Indices: 29785--29864 Score: 78
Period size: 28 Copynumber: 3.0 Consensus size: 27
29775 TTGCATTAAA
29785 AAATAATATAAATATTAAGTAAATATAT
1 AAATAATATAAATATTAAGTAAATA-AT
29813 AAAT-AT-TAAATA-T-AGTAAATAAT
1 AAATAATATAAATATTAAGTAAATAAT
* * * *
29836 TAATAAAATATATATTTAATTAAATAAT
1 AAATAATATAAATA-TTAAGTAAATAAT
29864 A
1 A
29865 TGACTTTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
23 5 0.12
24 9 0.21
25 6 0.14
26 6 0.14
27 3 0.07
28 13 0.31
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (27 bp):
AAATAATATAAATATTAAGTAAATAAT
Found at i:29840 original size:16 final size:15
Alignment explanation
Indices: 29804--29838 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 15
29794 AAATATTAAG
29804 TAAATATATAAATAT
1 TAAATATATAAATAT
29819 TAAATATAGTAAATAAT
1 TAAATATA-TAAAT-AT
29836 TAA
1 TAA
29839 TAAAATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
16 5 0.28
17 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (15 bp):
TAAATATATAAATAT
Found at i:29851 original size:32 final size:34
Alignment explanation
Indices: 29785--29865 Score: 85
Period size: 36 Copynumber: 2.3 Consensus size: 34
29775 TTGCATTAAA
29785 AAATAATATAAATATTAAGTAAATATATAAATATT
1 AAATAATATAAATATTAAGTAAATATAT-AATATT
*
29820 AAAT-ATAGTAAATAATTAA-TAAAATATATATTTAATT
1 AAATAATA-TAAAT-ATTAAGT-AAATATATA-AT-ATT
29857 AAATAATAT
1 AAATAATAT
29866 GACTTTTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
34 3 0.08
35 11 0.28
36 14 0.36
37 8 0.21
38 3 0.08
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.38
Consensus pattern (34 bp):
AAATAATATAAATATTAAGTAAATATATAATATT
Found at i:31135 original size:25 final size:25
Alignment explanation
Indices: 31101--31186 Score: 90
Period size: 25 Copynumber: 3.5 Consensus size: 25
31091 ATACGGATTA
* *
31101 TAATCATTTAAAATTTTAATATATT
1 TAATAATTTAATATTTTAATATATT
31126 TAATAATTT-ATATTTTAATTATATT
1 TAATAATTTAATATTTTAA-TATATT
31151 TAA-AATTTTAATATATTTAATA-ATT
1 TAATAA-TTTAATAT-TTTAATATATT
*
31176 T-ATATTTTAAT
1 TAATAATTTAAT
31187 TATATTTACA
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
24 17 0.32
25 25 0.47
26 6 0.11
27 5 0.09
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (25 bp):
TAATAATTTAATATTTTAATATATT
Found at i:31158 original size:42 final size:42
Alignment explanation
Indices: 31106--31194 Score: 178
Period size: 42 Copynumber: 2.1 Consensus size: 42
31096 GATTATAATC
31106 ATTTAAAATTTTAATATATTTAATAATTTATATTTTAATTAT
1 ATTTAAAATTTTAATATATTTAATAATTTATATTTTAATTAT
31148 ATTTAAAATTTTAATATATTTAATAATTTATATTTTAATTAT
1 ATTTAAAATTTTAATATATTTAATAATTTATATTTTAATTAT
31190 ATTTA
1 ATTTA
31195 CACTATTGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (42 bp):
ATTTAAAATTTTAATATATTTAATAATTTATATTTTAATTAT
Found at i:31160 original size:18 final size:18
Alignment explanation
Indices: 31115--31176 Score: 71
Period size: 17 Copynumber: 3.6 Consensus size: 18
31105 CATTTAAAAT
31115 TTTAAT-ATATTTAATA-A
1 TTTAATAAT-TTTAATATA
31132 TTT-AT-ATTTTAATTATA
1 TTTAATAATTTTAA-TATA
31149 TTTAA-AATTTTAATATA
1 TTTAATAATTTTAATATA
31166 TTTAATAATTT
1 TTTAATAATTT
31177 ATATTTTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
15 5 0.12
16 6 0.15
17 16 0.40
18 13 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTAATAATTTTAATATA
Found at i:31975 original size:13 final size:13
Alignment explanation
Indices: 31957--31983 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
31947 ATAAATTAAT
31957 TTAAATTAATTTA
1 TTAAATTAATTTA
31970 TTAAATTAATTTA
1 TTAAATTAATTTA
31983 T
1 T
31984 AATTTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATTAATTTA
Found at i:32797 original size:97 final size:98
Alignment explanation
Indices: 32684--32879 Score: 263
Period size: 100 Copynumber: 2.0 Consensus size: 98
32674 CACAGTTCTC
* * *
32684 ATGAACATAAACTTAATAATATTTCAAAAAATAATAATAATATCATGAATATTATAT-A-ATAAA
1 ATGAACATAAACTTAATAATATTTAAAAAAAT-ATAATAATATAATAAATATTATATAAGATAAA
*
32747 ATATAA-TTTTCCATTACGTCGTGGTCGTTATGAG
65 AAATAAGTTTT-CATTACGTCGTGGTCGTTATGAG
* * *
32781 ATGAACATAAATTTAATAATATTTAAAAAAATTTGATAATATAATAAATATTATATAACAGATAA
1 ATGAACATAAACTTAATAATATTTAAAAAAATATAATAATATAATAAATATTATAT-A-AGATAA
*
32846 AAAATAAGTTTTCATTACGTCGTGGTTGTTATGA
64 AAAATAAGTTTTCATTACGTCGTGGTCGTTATGA
32880 ATTTTATAAC
Statistics
Matches: 86, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
96 20 0.23
97 30 0.35
99 1 0.01
100 31 0.36
101 4 0.05
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.37
Consensus pattern (98 bp):
ATGAACATAAACTTAATAATATTTAAAAAAATATAATAATATAATAAATATTATATAAGATAAAA
AATAAGTTTTCATTACGTCGTGGTCGTTATGAG
Found at i:33997 original size:16 final size:16
Alignment explanation
Indices: 33976--34014 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
33966 ATTTTTATAT
*
33976 AAAAAATCATAATTTG
1 AAAAAATAATAATTTG
*
33992 AAAAAAAAATAATTTG
1 AAAAAATAATAATTTG
34008 AAAAAAT
1 AAAAAAT
34015 TGAAATTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (16 bp):
AAAAAATAATAATTTG
Found at i:34624 original size:19 final size:19
Alignment explanation
Indices: 34600--34636 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
34590 ATTTTAAAAC
34600 ATAAAATATAAA-TATTTAT
1 ATAAAATA-AAATTATTTAT
34619 ATAAAATAAAATTATTTA
1 ATAAAATAAAATTATTTA
34637 ATATTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAAAATAAAATTATTTAT
Found at i:34917 original size:11 final size:10
Alignment explanation
Indices: 34887--34956 Score: 60
Period size: 10 Copynumber: 7.2 Consensus size: 10
34877 TAAGTTTGAC
34887 TAATTTAAA-
1 TAATTTAAAT
34896 TAATATTAAAT
1 TAAT-TTAAAT
34907 TAAATTTAAAT
1 T-AATTTAAAT
34918 ATAATTT---T
1 -TAATTTAAAT
*
34926 TAATTTGAAT
1 TAATTTAAAT
*
34936 T-ATTTAATT
1 TAATTTAAAT
34945 TAATTTAAAT
1 TAATTTAAAT
34955 TA
1 TA
34957 TTATTTATTA
Statistics
Matches: 50, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
7 6 0.12
8 1 0.02
9 11 0.22
10 16 0.32
11 12 0.24
12 4 0.08
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (10 bp):
TAATTTAAAT
Found at i:35027 original size:19 final size:20
Alignment explanation
Indices: 34989--35028 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
34979 TTATTAAAAT
34989 TTAATTATAAAATATATAAA
1 TTAATTATAAAATATATAAA
* *
35009 TTAATT-TATAATATTTAAA
1 TTAATTATAAAATATATAAA
35028 T
1 T
35029 ATTTCAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTAATTATAAAATATATAAA
Found at i:36618 original size:2 final size:2
Alignment explanation
Indices: 36605--36651 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
36595 CAAAAACAAA
*
36605 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36647 AT AT A
1 AT AT A
36652 CTTATAGCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:37626 original size:13 final size:14
Alignment explanation
Indices: 37601--37633 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
37591 AGTTTTAATA
37601 AAATTTGATTAAAT
1 AAATTTGATTAAAT
37615 AAATTT-ATTAAAT
1 AAATTTGATTAAAT
37628 AAATTT
1 AAATTT
37634 TATAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
AAATTTGATTAAAT
Found at i:37898 original size:18 final size:17
Alignment explanation
Indices: 37875--37910 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
37865 ATTTTGATCG
37875 ATTTAATAAAACTTTTAA
1 ATTTAAT-AAACTTTTAA
*
37893 ATTTAATTAACTTTTAA
1 ATTTAATAAACTTTTAA
37910 A
1 A
37911 ATTTTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTTAATAAACTTTTAA
Found at i:39877 original size:12 final size:12
Alignment explanation
Indices: 39860--39885 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
39850 TATAATATTT
39860 ATTTATTTTTAA
1 ATTTATTTTTAA
39872 ATTTATTTTTAA
1 ATTTATTTTTAA
39884 AT
1 AT
39886 ATTTGAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
ATTTATTTTTAA
Found at i:47310 original size:19 final size:21
Alignment explanation
Indices: 47265--47321 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 21
47255 TTTATTTAAA
*
47265 TTTAATTATAAAAAATATTAAT
1 TTTAA-TATAAAAAATAATAAT
*
47287 ATTAATAT-AAAAATAAT-AT
1 TTTAATATAAAAAATAATAAT
47306 TTTAATAATAATAAAA
1 TTTAAT-ATAA-AAAA
47322 AACAATGATA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 7 0.24
20 10 0.34
21 4 0.14
22 8 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTAATATAAAAAATAATAAT
Found at i:47555 original size:10 final size:10
Alignment explanation
Indices: 47542--47587 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
47532 TGAAGTTAAA
47542 ATATTTTTAT
1 ATATTTTTAT
47552 ATATTTTT-T
1 ATATTTTTAT
* *
47561 AAATTTTTTT
1 ATATTTTTAT
*
47571 ATATTTTAAT
1 ATATTTTTAT
47581 ATATTTT
1 ATATTTT
47588 ATAAGATATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
9 8 0.26
10 23 0.74
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
ATATTTTTAT
Found at i:47754 original size:2 final size:2
Alignment explanation
Indices: 47747--47792 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
47737 TAAAGAGGGT
47747 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47789 TA TA
1 TA TA
47793 CTATCAAAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:48269 original size:127 final size:127
Alignment explanation
Indices: 48117--48363 Score: 458
Period size: 127 Copynumber: 1.9 Consensus size: 127
48107 TTTATTCTTA
48117 TTTTAAACTATTCAAACTTTATACAAATATTTTACTCAAGTATTTCACTCTTTTATAACAAATGA
1 TTTTAAACTATTCAAACTTTATACAAATATTTTACTCAAGTATTTCACTCTTTTATAACAAATGA
48182 GATATTGGTGAAAATTAAATTAACATTATAAATTTTATAACTTTGATTTATTAAATAATTTT
66 GATATTGGTGAAAATTAAATTAACATTATAAATTTTATAACTTTGATTTATTAAATAATTTT
* * *
48244 TTTTAAACTATTCAAACTTTATACAAATATTTTACTTAAGTGTTTCACTCTTTTATAGCAAATGA
1 TTTTAAACTATTCAAACTTTATACAAATATTTTACTCAAGTATTTCACTCTTTTATAACAAATGA
*
48309 GATATTGGTGAAAATTAAATTAACATTATAAATTTTATAATTTTGATTTATTAAA
66 GATATTGGTGAAAATTAAATTAACATTATAAATTTTATAACTTTGATTTATTAAA
48364 AAACATTTAA
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
127 116 1.00
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (127 bp):
TTTTAAACTATTCAAACTTTATACAAATATTTTACTCAAGTATTTCACTCTTTTATAACAAATGA
GATATTGGTGAAAATTAAATTAACATTATAAATTTTATAACTTTGATTTATTAAATAATTTT
Found at i:50345 original size:11 final size:11
Alignment explanation
Indices: 50331--50397 Score: 59
Period size: 11 Copynumber: 6.1 Consensus size: 11
50321 TAAAAATTAC
50331 ATAAATAAAAT
1 ATAAATAAAAT
*
50342 ATAAAAAAAAT
1 ATAAATAAAAT
*
50353 -TAAAATATAAT
1 AT-AAATAAAAT
50364 ATAAATTAAAA-
1 ATAAA-TAAAAT
*
50375 ATAACAT-GAAT
1 ATAA-ATAAAAT
50386 ATAAATAAAAT
1 ATAAATAAAAT
50397 A
1 A
50398 CATAAATTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
10 5 0.11
11 33 0.75
12 6 0.14
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.27
Consensus pattern (11 bp):
ATAAATAAAAT
Found at i:50358 original size:17 final size:17
Alignment explanation
Indices: 50336--50378 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
50326 ATTACATAAA
50336 TAAAATATAAAAAAAAT
1 TAAAATATAAAAAAAAT
* *
50353 TAAAATATAATATAAAT
1 TAAAATATAAAAAAAAT
50370 TAAAA-ATAA
1 TAAAATATAA
50379 CATGAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
TAAAATATAAAAAAAAT
Found at i:50483 original size:19 final size:20
Alignment explanation
Indices: 50440--50483 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
50430 CTTAATTTTT
50440 CAACATTTATAAAAATATAA
1 CAACATTTATAAAAATATAA
* *
50460 AAACATTT-TAAAAATATTA
1 CAACATTTATAAAAATATAA
50479 CAACA
1 CAACA
50484 AAATAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (20 bp):
CAACATTTATAAAAATATAA
Found at i:50826 original size:55 final size:55
Alignment explanation
Indices: 50767--50876 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
50757 TTACTGATGA
*
50767 TTAAAATACTATTTTTATAATCATTATCCAAAAAGAAACCTAAAAGATAGAATTT
1 TTAAAATACTACTTTTATAATCATTATCCAAAAAGAAACCTAAAAGATAGAATTT
*
50822 TTAAAATACTACTTTTATAATTATTATCCAAAAAGAAACCTAAAAGATAGAATTT
1 TTAAAATACTACTTTTATAATCATTATCCAAAAAGAAACCTAAAAGATAGAATTT
50877 GAAGTAATAG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.35
Consensus pattern (55 bp):
TTAAAATACTACTTTTATAATCATTATCCAAAAAGAAACCTAAAAGATAGAATTT
Found at i:52210 original size:37 final size:37
Alignment explanation
Indices: 52157--52254 Score: 171
Period size: 37 Copynumber: 2.6 Consensus size: 37
52147 ATATTTTTCC
52157 GTGGATTGG-CATAGCCACCCAAATTCTAACAATCATA
1 GTGGATTGGTCA-AGCCACCCAAATTCTAACAATCATA
52194 GTGGATTGGTCAAGCCACCCAAATTCTAACAATCATA
1 GTGGATTGGTCAAGCCACCCAAATTCTAACAATCATA
*
52231 GTGGATTGGTCAAGCCACCTAAAT
1 GTGGATTGGTCAAGCCACCCAAAT
52255 ATTACTTATC
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
37 57 0.97
38 2 0.03
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.24
Consensus pattern (37 bp):
GTGGATTGGTCAAGCCACCCAAATTCTAACAATCATA
Found at i:56078 original size:52 final size:52
Alignment explanation
Indices: 56008--56128 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
55998 GAAAATTTAT
*
56008 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
56060 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
56112 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
56129 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:56141 original size:52 final size:51
Alignment explanation
Indices: 56008--56148 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
55998 GAAAATTTAT
56008 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
56060 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
56112 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
56149 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:56155 original size:13 final size:13
Alignment explanation
Indices: 56137--56161 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56127 CAAAGATCAG
56137 TGTATCGATACAA
1 TGTATCGATACAA
56150 TGTATCGATACA
1 TGTATCGATACA
56162 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:56245 original size:13 final size:13
Alignment explanation
Indices: 56227--56251 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56217 CAAAAAAATA
56227 TGTATCGATACAT
1 TGTATCGATACAT
56240 TGTATCGATACA
1 TGTATCGATACA
56252 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:56247 original size:33 final size:33
Alignment explanation
Indices: 56205--56271 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
56195 AGTAGCTTAA
56205 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
56238 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
56271 A
1 A
56272 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:57346 original size:49 final size:49
Alignment explanation
Indices: 57204--58247 Score: 1362
Period size: 49 Copynumber: 21.5 Consensus size: 49
57194 GATGTCAACG
* * *
57204 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGCCAATA
*
57256 TGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATA
* *
57299 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATA
* *
57348 TGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATA
* * *
57391 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATA
* * *
57440 TGCTGATTCAAGGTCAGCGATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATA
* *
57489 TGCTGAGTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATA
* * *
57538 TGATGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATA
* *
57587 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGCCAATA
*
57639 TGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATA
* *
57682 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATA
* *
57731 TGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATA
* * *
57774 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATA
* *
57823 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATA
* * * *
57872 TGCTGAGTCAAGGCCAGCTACATTGGACTTGAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATA
* *
57921 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATA
* *
57970 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGCCAATA
*
58022 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATA
* *
58071 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGCCAATA
* *
58123 TGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATA
* * *
58172 TGCTAAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGCCAATA
58224 TGCTGATTCAAGGCCAGCTATATT
1 TGCTGATTCAAGGCCAGCTATATT
58248 TGGCTTAGAG
Statistics
Matches: 865, Mismatches: 91, Indels: 72
0.84 0.09 0.07
Matches are distributed among these distances:
43 153 0.18
45 2 0.00
47 4 0.00
48 2 0.00
49 510 0.59
50 4 0.00
51 2 0.00
52 188 0.22
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATA
Found at i:57508 original size:98 final size:98
Alignment explanation
Indices: 57137--58247 Score: 1622
Period size: 98 Copynumber: 11.4 Consensus size: 98
57127 AAAAGTGATA
* * * * * *
57137 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCAA
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G---AAGG-TGCCAA
* * *
57202 CGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGG
60 TGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G
* *
57242 AAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTG
1 AAGA--TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTG
*
57301 CTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
64 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
57336 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
57395 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
*
57428 AAGATGCCAATATGCTGATTCAAGGTCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
*
57493 GAGTCAAGGCCAGCTATATTGGACTTAAAGATG
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
*
57526 AAGATGCCAATATGATGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
57591 GAGTCAAGGCCAGCTACATTGGACTTAAAGATGG
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G
* *
57625 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTG
1 --AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTG
*
57684 CTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
64 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
57719 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
57778 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
57811 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
*
57876 GAGTCAAGGCCAGCTACATTGGACTTGAAGATG
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
57909 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
57974 GAGTCAAGGCCAGCTACATTGGACTTAAAGATGG
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G
* *
58008 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTG
1 --AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTG
58073 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGG
64 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G
* * *
58109 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGATGAAGGTGCCAATGTG
1 --AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTG
*
58174 CTAAGTCAAGGCCAGCTACATTGGACTTAAAGATGG
64 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G
* *
58210 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATT
1 --AAGATGCCAATATGCTGATTCAAGGCCAGCGATATT
58248 TGGCTTAGAG
Statistics
Matches: 955, Mismatches: 31, Indels: 44
0.93 0.03 0.04
Matches are distributed among these distances:
92 258 0.27
94 5 0.01
95 88 0.09
96 6 0.01
97 1 0.00
98 286 0.30
99 2 0.00
101 273 0.29
103 1 0.00
105 3 0.00
107 32 0.03
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (98 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
Found at i:57641 original size:383 final size:383
Alignment explanation
Indices: 57137--58247 Score: 1817
Period size: 383 Copynumber: 2.8 Consensus size: 383
57127 AAAAGTGATA
* * * * * *
57137 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCAA
1 AAGATGCCAATATGATGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G---AAGG-TGCCAA
* * * *
57202 CGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAA
60 TGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAA
57267 GGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
125 GGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
57332 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGA
190 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGA
*
57397 GTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGTCAGCGATA
255 GTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATA
*
57462 TTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTATATTGGACTTAAAGATG
320 TTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
57526 AAGATGCCAATATGATGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGATGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
57591 GAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAG
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAG
57656 CTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
131 CTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
57721 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAG
196 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAG
57786 GCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
261 GCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
57851 TTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTGAAGATG
326 TTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
*
57909 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGATGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
57974 GAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAG
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAG
*
58039 CTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
131 CTATATTGGACTT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
* * *
58104 GATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGATGAAGGTGCCA
190 GAT-G--AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCA
* *
58169 ATGTGCTAAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCA
246 ATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAATATGCTGATTCA
*
58234 AGGCCAGCTATATT
308 AGGCCAGCGATATT
58248 TGGCTTAGAG
Statistics
Matches: 683, Mismatches: 21, Indels: 24
0.94 0.03 0.03
Matches are distributed among these distances:
383 464 0.68
384 4 0.01
387 2 0.00
389 90 0.13
390 1 0.00
392 39 0.06
396 1 0.00
398 47 0.07
399 1 0.00
401 34 0.05
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (383 bp):
AAGATGCCAATATGATGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
GAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAG
CTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAG
GCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
TTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
Found at i:58355 original size:32 final size:33
Alignment explanation
Indices: 58259--58351 Score: 163
Period size: 33 Copynumber: 2.8 Consensus size: 33
58249 GGCTTAGAGG
58259 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
58292 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAG-A
1 GGTTGCCACCGACTTGTGTGGGCTTT-GGAAGAA
58325 -GTTGCCACCGACTTGTGTGGGCTTTGG
1 GGTTGCCACCGACTTGTGTGGGCTTTGG
58352 GAAGGAAAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
31 2 0.03
32 25 0.42
33 27 0.46
34 5 0.08
ACGTcount: A:0.15, C:0.19, G:0.37, T:0.29
Consensus pattern (33 bp):
GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
Found at i:58399 original size:34 final size:34
Alignment explanation
Indices: 58359--58988 Score: 437
Period size: 34 Copynumber: 18.1 Consensus size: 34
58349 TGGGAAGGAA
*
58359 AAAAAGATGCCACGGAGTTGTGGAC-TTAAAAGGG
1 AAAAAGATGCCACGGAGTTGTGGGCTTTAAAA-GG
*
58393 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGA
1 AAAAAGA-TGCCACGGAGTTGTGGGCTTTAAAAGG
58428 AAAAAG-TGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGATGCCACGGAGTTGTGGGCTTT-AAAA-GG
*
58463 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACGG
1 AAAAAGA-TGCCACGGAGTTGTGGGCTTTAAAAGG
*
58498 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGG
1 AAAAAGATGCCACGGAGTTGTGGGCTTT-AAAA-GG
* ** * *** **
58534 AAAGAGAGTGCCACAAAGTCGTAGGTGCCACAGAGTTGTGGG
1 AAAAAGA-TGCCACGGAGTTGT-GG-GCTTTA-A----AAGG
*
58576 CTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGG
1 ----AAAA-----AGATGCCACGGAGTTGTGGGCTTT-AAAAGG
**
58620 AAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAA-G
1 -AAAAAGA-TGCCACGGAGTTGTGGGCTTTAAAAGG
* *
58655 AAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-G
1 AAAAAGATGCCACGGAGTTGTGGGCTTT-AAAAGG
* * * *
58689 AAGAAGGTTGCCACCGACTTGTGTGGGCTTTAAGAAGGG
1 AA-AAAGATGCCACGGA-GT-TGTGGGCTTTAA-AA-GG
* *
58728 AGAAAGATGCCACGGAGTTGTGGAC-TTAAAAGGG
1 AAAAAGATGCCACGGAGTTGTGGGCTTTAAAA-GG
*
58762 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGA
1 AAAAAGA-TGCCACGGAGTTGTGGGCTTTAAAAGG
58797 AAAAAG-TGCCACGGAGTTGTGGGCTTT-----G
1 AAAAAGATGCCACGGAGTTGTGGGCTTTAAAAGG
* *
58825 -AAGAG-TGCCACGGAGTTGTGGGCTTTAAACA-A
1 AAAAAGATGCCACGGAGTTGTGGGCTTTAAA-AGG
* * *
58857 AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAGATG
1 AAAAAGATGCCACGGAGTTGTGGGCTTTAAA-AGG
* *
58891 AAAAA-AGTGCCACGGAATTGTGGCCTTTAAAAGG
1 AAAAAGA-TGCCACGGAGTTGTGGGCTTTAAAAGG
58925 -----G-TGCCACGGAGTTGTGGGCTTT-AAAGG
1 AAAAAGATGCCACGGAGTTGTGGGCTTTAAAAGG
* *
58952 -AAAAGGTGCCACGGAGTTGTGGGCTTT-GAAGG
1 AAAAAGATGCCACGGAGTTGTGGGCTTTAAAAGG
58984 AAAAA
1 AAAAA
58989 TGCCATTGAG
Statistics
Matches: 481, Mismatches: 62, Indels: 107
0.74 0.10 0.16
Matches are distributed among these distances:
27 30 0.06
28 19 0.04
31 1 0.00
32 25 0.05
33 75 0.16
34 95 0.20
35 86 0.18
36 37 0.08
37 64 0.13
38 14 0.03
39 5 0.01
41 4 0.01
42 2 0.00
44 2 0.00
46 3 0.01
48 3 0.01
49 3 0.01
50 11 0.02
51 2 0.00
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (34 bp):
AAAAAGATGCCACGGAGTTGTGGGCTTTAAAAGG
Found at i:58432 original size:71 final size:70
Alignment explanation
Indices: 58358--58547 Score: 303
Period size: 71 Copynumber: 2.7 Consensus size: 70
58348 TTGGGAAGGA
*
58358 AAAAAAGATGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAAAG-TGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
58421 TAAAAG
65 TAAAAG
*
58427 AAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
*
58492 AAACGG
66 AAA-AG
* *
58498 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAGAGAGTGCCAC
1 AAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAGAGTGCCAC
58548 AAAGTCGTAG
Statistics
Matches: 113, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
68 17 0.15
69 9 0.08
70 39 0.35
71 48 0.42
ACGTcount: A:0.35, C:0.13, G:0.34, T:0.18
Consensus pattern (70 bp):
AAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
AAAAG
Found at i:58593 original size:33 final size:33
Alignment explanation
Indices: 58556--58988 Score: 435
Period size: 33 Copynumber: 13.0 Consensus size: 33
58546 ACAAAGTCGT
*
58556 AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
58589 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAA-G-AAAA
** *
58625 AGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGA
1 AG-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
*
58659 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAA
* * *
58693 AGGTTGCCACCGACTTGTGTGGGCTTTAAGAAGGGAGAA
1 AGG-TGCCACGGA-GT-TGTGGGCTTTAA-AA--GAAAA
* *
58732 AGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAA--GAAAA
58766 AGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
1 AG-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
* *
58800 AAGTGCCACGGAGTTGTGGGCTTT----G-AAG
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
*
58828 A-GTGCCACGGAGTTGTGGGCTTTAAACAAAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAA-AGAAAA
*
58861 AGGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAA-A-GAAAA
* * *
58895 AAGTGCCACGGAATTGTGGCCTTTAAAAG----
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
*
58924 -GGTGCCACGGAGTTGTGGGCTTT-AAAGGAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
* *
58955 AGGTGCCACGGAGTTGTGGGCTTTGAAGGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
58988 A
1 A
58989 TGCCATTGAG
Statistics
Matches: 340, Mismatches: 32, Indels: 56
0.79 0.07 0.13
Matches are distributed among these distances:
27 26 0.08
28 23 0.07
29 1 0.00
32 23 0.07
33 82 0.24
34 78 0.23
35 36 0.11
36 25 0.07
37 33 0.10
38 8 0.02
39 5 0.01
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (33 bp):
AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
Found at i:58618 original size:87 final size:88
Alignment explanation
Indices: 58470--58639 Score: 288
Period size: 87 Copynumber: 1.9 Consensus size: 88
58460 GGGAAAAAGA
* * *
58470 GTGCCACGGAGTTGTGGGCTTTAAACGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGA
1 GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
*
58535 AAGAGAGTGCCACAAAGTCGTAG
66 AAAAGAGTGCCACAAAGTCGTAG
*
58558 GTGCCACAGAGTTGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAA
1 GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
58622 AAAAGAGTGCCACAAAGT
66 AAAAGAGTGCCACAAAGT
58640 TGTGGGCTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
87 53 0.69
88 24 0.31
ACGTcount: A:0.33, C:0.14, G:0.34, T:0.19
Consensus pattern (88 bp):
GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
AAAAGAGTGCCACAAAGTCGTAG
Found at i:58671 original size:70 final size:68
Alignment explanation
Indices: 58558--58988 Score: 445
Period size: 70 Copynumber: 6.5 Consensus size: 68
58548 AAAGTCGTAG
*
58558 GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
1 GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGG-AA
58623 AAAGA
64 AAAGA
** * *
58628 GTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAG
1 GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGGAAA
58692 AAG-
65 AAGA
* * * * *
58695 GTTGCCACCGACTTGTGTGGGCTTTAAGAAGGGAGAAAGATGCCACGGAGTTGTGGAC-TTAAAA
1 G-TGCCACGGA-GT-TGTGGGCTTTAA-AA--GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA
58759 GGGAAAAAGA
60 -GGAAAAAGA
*
58769 GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTT-----G---A
1 GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAA
58826 AGA
66 AGA
* * *
58829 GTGCCACGGAGTTGTGGGCTTTAAACAAAAAAAGGTGCCACGGAGTTGTGGAC-TTAAAGATGAA
1 GTGCCACGGAGTTGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAA-AGGAA
58893 AAA-A
64 AAAGA
* *
58897 GTGCCACGGAATTGTGGCCTTTAAAAG-----GGTGCCACGGAGTTGTGGGCTTT-AAAGG-AAA
1 GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAA
58955 AG-
66 AGA
* *
58957 GTGCCACGGAGTTGTGGGCTTTGAAGGAAAAA
1 GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAA
58989 TGCCATTGAG
Statistics
Matches: 305, Mismatches: 29, Indels: 59
0.78 0.07 0.15
Matches are distributed among these distances:
60 58 0.19
61 26 0.09
62 21 0.07
63 3 0.01
66 1 0.00
67 2 0.01
68 58 0.19
69 6 0.02
70 72 0.24
71 18 0.06
72 3 0.01
73 36 0.12
74 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (68 bp):
GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAA
AGA
Found at i:58761 original size:228 final size:225
Alignment explanation
Indices: 58359--58775 Score: 599
Period size: 228 Copynumber: 1.8 Consensus size: 225
58349 TGGGAAGGAA
* **
58359 AAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAAAAAAGAGTGCCACAAAGTTGTGGGCTTTAA
*
58424 AAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGC
66 AAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAA-GGAAAAAGAGTGCCACCGAGTTGTGGGC
* * *
58489 TTTAAACGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAGAGAGTGCCACAAAGTC
130 TTTAAACGGAAAAAGATGCCACGGAGTTGTGGACTTTAAAAAGGGAAAAAGAGTGCCACAAAGTC
58554 GTAGGTGCCACAGAGTTGTGGGCTTTAAAAG
195 GTAGGTGCCACAGAGTTGTGGGCTTTAAAAG
* *
58585 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAGTGCCACAAAGTTGTGGGCTTT
1 AAAAAGATGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAAGAGTGCCACAAAGTTGTGGGCTTT
* * * *
58650 AAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAGAAG-GTTGCCACCGACTTGTGT
64 AAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAG-TGCCACCGA-GT-TGT
* *
58713 GGGCTTTAAGAAGGGAGAAAGATGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCAC
126 GGGCTTT-A-AACGGAAAAAGATGCCACGGAGTTGTGGACTTTAAAAAGGGAAAAAGAGTGCCAC
58776 GGAGTTGTGG
Statistics
Matches: 169, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
225 1 0.01
226 37 0.22
227 3 0.02
228 99 0.59
229 3 0.02
230 26 0.15
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.19
Consensus pattern (225 bp):
AAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAAAAAAGAGTGCCACAAAGTTGTGGGCTTTAA
AAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACCGAGTTGTGGGCT
TTAAACGGAAAAAGATGCCACGGAGTTGTGGACTTTAAAAAGGGAAAAAGAGTGCCACAAAGTCG
TAGGTGCCACAGAGTTGTGGGCTTTAAAAG
Found at i:58810 original size:141 final size:133
Alignment explanation
Indices: 58556--58988 Score: 473
Period size: 141 Copynumber: 3.3 Consensus size: 133
58546 ACAAAGTCGT
* * *
58556 AGGTGCCACAGAGT-TGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGG
1 AGGTGCCACGGATTGTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGG
* **
58620 AAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGA
64 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAA-AAGGTGCCACGGAGTTGTGGGCTTT--
58685 AAAGAAGA
126 AAAGAAGA
* * *
58693 AGGTTGCCACCGACTTGTGTGGGCTTTAAGAAGGGAGAAAGATGCCACGGAGTTGTGGACTTAAA
1 AGG-TGCCACGGA-TTGTGTGGGCTTTAA-AA--GAAAAAGGTGCCACGGAGTTGTGGACTTAAA
*
58758 AGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTT
61 AGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG-AAAAGGTGCCACGGAGTTGTGGGCTT
58823 T---GAAG-
125 TAAAGAAGA
* * *
58828 A-GTGCCACGGAGT-TGTGGGCTTTAAACAAAAAAAGGTGCCACGGAGTTGTGGACTT-AAAGAT
1 AGGTGCCACGGATTGTGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAG-G
* *
58890 GAAAAA-AGTGCCACGGAATTGTGGCCTTTAAAAG----GGTGCCACGGAGTTGTGGGCTTTAAA
64 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAGGTGCCACGGAGTTGTGGGCTTTAAA
58950 GGAA-A
129 -GAAGA
* * *
58955 AGGTGCCACGGAGT-TGTGGGCTTTGAAGGAAAAA
1 AGGTGCCACGGATTGTGTGGGCTTTAAAAGAAAAA
58989 TGCCATTGAG
Statistics
Matches: 260, Mismatches: 21, Indels: 40
0.81 0.07 0.12
Matches are distributed among these distances:
123 22 0.08
127 9 0.03
128 54 0.21
129 31 0.12
130 1 0.00
131 13 0.05
132 1 0.00
133 8 0.03
134 1 0.00
135 1 0.00
136 4 0.02
137 3 0.01
138 8 0.03
139 1 0.00
140 12 0.05
141 64 0.25
142 4 0.02
143 23 0.09
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (133 bp):
AGGTGCCACGGATTGTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGA
AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAGGTGCCACGGAGTTGTGGGCTTTAAAGA
AGA
Found at i:58898 original size:95 final size:94
Alignment explanation
Indices: 58730--59071 Score: 333
Period size: 95 Copynumber: 3.6 Consensus size: 94
58720 AAGAAGGGAG
* *
58730 AAAGA-TGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAA--GAAAAAG-GTGCCACGGAGTTGTGGACTTTAA
* *
58793 AAGAAAAAAGTGCCACGGAGTTGTGGGCTTT-
63 AAGAAAAAAGTGCCACGGAATTGTGGCCTTTA
* *
58824 GAAGAGTGCCACGGAGTTGTGGGCTTTAAACAAAAAAAGGTGCCACGGAGTTGTGGAC-TTAAAG
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGTTGTGGACTTTAAA-
58888 ATGAAAAAAGTGCCACGGAATTGTGGCCTTTA
64 A-GAAAAAAGTGCCACGGAATTGTGGCCTTTA
* * * *
58920 AAAGGGTGCCACGGAGTTGTGGGCTTT-AAAGGAAAAGGTGCCACGGAGTTGTGGGCTTT-GAAG
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAG
* ** * * *
58983 GAAAAA-TGCCATTGAGTCGTGGACCTTGA
66 AAAAAAGTGCCACGGAATTGTGG-CCTTTA
* * * * * * *
59012 GACAA-AATGCCACTGAGTCGTGGACTTT-AAAGAAAAAGATGCCACTGAGTCGTGGACTTT
1 -A-AAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTT
59072 GAGCAGAGAT
Statistics
Matches: 210, Mismatches: 28, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
91 12 0.06
92 11 0.05
93 52 0.25
94 50 0.24
95 54 0.26
96 30 0.14
97 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.32, T:0.22
Consensus pattern (94 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAG
AAAAAAGTGCCACGGAATTGTGGCCTTTA
Found at i:59035 original size:155 final size:154
Alignment explanation
Indices: 58763--59044 Score: 356
Period size: 155 Copynumber: 1.8 Consensus size: 154
58753 TTAAAAGGGA
58763 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAG
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAG
* * * * *
58828 AGTGCCACGGAGTTGTGGGCTTTAAACAAAAAAAGGTGCCACGGAGTTGTGGAC-TTAAAGATGA
66 AATGCCACGGAGTCGTGGCCTTGAAAC--AAAAA-GTGCCACGGAGTCGTGGACTTTAAAGATGA
58892 AAAAAGTGCCACGGAATTGTGGCCTTT
128 AAAAAGTGCCACGGAATTGTGGCCTTT
* * *
58919 AAAAGGGTGCCACGGAGTTGTGGGCTTT-AAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAG
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAA-
** * *
58983 GAAAAATGCCATTGAGTCGTGGACCTTGAGAC-AAAA-TGCCACTGAGTCGTGGACTTTAAAGA
65 G---AATGCCACGGAGTCGTGG-CCTTGAAACAAAAAGTGCCACGGAGTCGTGGACTTTAAAGA
59045 AAAAGATGCC
Statistics
Matches: 108, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
155 49 0.45
156 35 0.32
157 4 0.04
159 14 0.13
160 6 0.06
ACGTcount: A:0.31, C:0.15, G:0.32, T:0.22
Consensus pattern (154 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAG
AATGCCACGGAGTCGTGGCCTTGAAACAAAAAGTGCCACGGAGTCGTGGACTTTAAAGATGAAAA
AAGTGCCACGGAATTGTGGCCTTT
Found at i:59089 original size:31 final size:31
Alignment explanation
Indices: 58953--59165 Score: 229
Period size: 31 Copynumber: 6.8 Consensus size: 31
58943 CTTTAAAGGA
* * * *
58953 AAAGGTGCCACGGAGTTGTGGGCTTTGAAGGA-
1 AAAGATGCCACTGAGTCGTGGACTTTG-A-GAC
* *
58985 AAA-ATGCCATTGAGTCGTGGACCTTGAGAC
1 AAAGATGCCACTGAGTCGTGGACTTTGAGAC
* *
59015 AAA-ATGCCACTGAGTCGTGGACTTTAAAGAA
1 AAAGATGCCACTGAGTCGTGGACTTT-GAGAC
59046 AAAGATGCCACTGAGTCGTGGACTTTGAG-C
1 AAAGATGCCACTGAGTCGTGGACTTTGAGAC
* * *
59076 AGAGATTGCCACTGAGTCGTGGACTTTAAAGAA
1 AAAGA-TGCCACTGAGTCGTGGACTTT-GAGAC
59109 AAAGATGCCACTGAGTCGTGGACTTTGAG-C
1 AAAGATGCCACTGAGTCGTGGACTTTGAGAC
*
59139 AGAGATTGCCACTGAGTCGTGGACTTT
1 AAAGA-TGCCACTGAGTCGTGGACTTT
59166 TTTTTTTTTT
Statistics
Matches: 155, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
29 2 0.01
30 32 0.21
31 69 0.45
32 48 0.31
33 4 0.03
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (31 bp):
AAAGATGCCACTGAGTCGTGGACTTTGAGAC
Found at i:59104 original size:63 final size:63
Alignment explanation
Indices: 58958--59165 Score: 314
Period size: 63 Copynumber: 3.3 Consensus size: 63
58948 AAGGAAAAGG
* * * * * * * *
58958 TGCCACGGAGTTGTGGGCTTTGAAGGAAAA-ATGCCATTGAGTCGTGGACCTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAG-CAGAGAT
59019 TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGAT
59082 TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGAT
59145 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
59166 TTTTTTTTTT
Statistics
Matches: 136, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
61 27 0.20
62 24 0.18
63 85 0.62
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (63 bp):
TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGAT
Found at i:59169 original size:1 final size:1
Alignment explanation
Indices: 59163--59200 Score: 76
Period size: 1 Copynumber: 38.0 Consensus size: 1
59153 AGTCGTGGAC
59163 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
59201 AAAAAGGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:67536 original size:52 final size:52
Alignment explanation
Indices: 67466--67586 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
67456 GAAAATTTAT
*
67466 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
67518 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
67570 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
67587 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:67599 original size:52 final size:51
Alignment explanation
Indices: 67466--67606 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
67456 GAAAATTTAT
67466 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
67518 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
67570 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
67607 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:67613 original size:13 final size:13
Alignment explanation
Indices: 67595--67619 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67585 CAAAGATCAG
67595 TGTATCGATACAA
1 TGTATCGATACAA
67608 TGTATCGATACA
1 TGTATCGATACA
67620 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:67703 original size:13 final size:13
Alignment explanation
Indices: 67685--67709 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67675 CAAAAAAATA
67685 TGTATCGATACAT
1 TGTATCGATACAT
67698 TGTATCGATACA
1 TGTATCGATACA
67710 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:67705 original size:33 final size:33
Alignment explanation
Indices: 67663--67729 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
67653 AGTAGCTTAA
67663 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
67696 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
67729 A
1 A
67730 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:74565 original size:11 final size:11
Alignment explanation
Indices: 74549--74573 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
74539 CCATTTCATA
74549 TTTTTTTTCTT
1 TTTTTTTTCTT
74560 TTTTTTTTCTT
1 TTTTTTTTCTT
74571 TTT
1 TTT
74574 CTTCCTTTCT
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:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:75292 original size:22 final size:22
Alignment explanation
Indices: 75251--75293 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
75241 AACCACTTAT
*
75251 TTTCTCTTTTTTTTGCTTTTTG
1 TTTCTCTTTTTTTTGATTTTTG
* *
75273 TTTCTTTTTTTTTTTATTTTT
1 TTTCTCTTTTTTTTGATTTTT
75294 TTTTGTTAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.02, C:0.09, G:0.05, T:0.84
Consensus pattern (22 bp):
TTTCTCTTTTTTTTGATTTTTG
Found at i:76932 original size:35 final size:34
Alignment explanation
Indices: 76857--76935 Score: 95
Period size: 35 Copynumber: 2.3 Consensus size: 34
76847 TTCCAAGAAT
*** *
76857 AAATTTAAAGGTTTCTCAAATAAGGTTTATTAAA
1 AAATTTAAAGGTTTCTCAAATAAGGGAAATCAAA
*
76891 ATAATTTAAAGGTTTCTCAAATAAGGGAAATCCAAG
1 A-AATTTAAAGGTTTCTCAAATAAGGGAAAT-CAAA
76927 AAATTTAAA
1 AAATTTAAA
76936 TCTCATAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
34 1 0.03
35 34 0.89
36 3 0.08
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.33
Consensus pattern (34 bp):
AAATTTAAAGGTTTCTCAAATAAGGGAAATCAAA
Found at i:77706 original size:18 final size:18
Alignment explanation
Indices: 77678--77728 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
77668 CCAATTGTAT
77678 AATTA-TAAATATAAAAA
1 AATTATTAAATATAAAAA
*
77695 AATTATTAAATATATCAAA
1 AATTATTAAATATA-AAAA
*
77714 AATT-TTAAAAATAAA
1 AATTATTAAATATAAA
77729 TATGATAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 6 0.21
18 16 0.55
19 7 0.24
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
AATTATTAAATATAAAAA
Found at i:77745 original size:24 final size:24
Alignment explanation
Indices: 77701--77746 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
77691 AAAAAATTAT
*
77701 TAAATATATCAAAAATTTTAAAAA
1 TAAATATATCAAAAATATTAAAAA
*
77725 TAAATATGAT-AAATATATTAAA
1 TAAATAT-ATCAAAAATATTAAA
77747 TATGTCGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (24 bp):
TAAATATATCAAAAATATTAAAAA
Found at i:78441 original size:6 final size:7
Alignment explanation
Indices: 78427--78456 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
78417 ACAAGAAACC
78427 AAATAAA
1 AAATAAA
78434 AAAT-AA
1 AAATAAA
78440 AAATAAA
1 AAATAAA
78447 AAATAAA
1 AAATAAA
78454 AAA
1 AAA
78457 AGCATCTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAATAAA
Found at i:78445 original size:13 final size:13
Alignment explanation
Indices: 78427--78455 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
78417 ACAAGAAACC
78427 AAATAAAAAATAA
1 AAATAAAAAATAA
78440 AAATAAAAAATAA
1 AAATAAAAAATAA
78453 AAA
1 AAA
78456 AAGCATCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (13 bp):
AAATAAAAAATAA
Found at i:79376 original size:2 final size:2
Alignment explanation
Indices: 79336--79360 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
79326 TATTATGGAT
79336 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
79361 GAATGATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:79984 original size:31 final size:31
Alignment explanation
Indices: 79931--79995 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
79921 ACTCAACTTA
79931 AATTAATATGTAATAATAAAAATAATAATTTT
1 AATTAATATGTAATAATAAAAATAAT-ATTTT
* *
79963 AATTAA-ATTTAATTATAAAAATAATATTTT
1 AATTAATATGTAATAATAAAAATAATATTTT
79993 AAT
1 AAT
79996 GATATAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 8 0.26
31 17 0.55
32 6 0.19
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (31 bp):
AATTAATATGTAATAATAAAAATAATATTTT
Found at i:80003 original size:28 final size:28
Alignment explanation
Indices: 79933--80005 Score: 76
Period size: 31 Copynumber: 2.5 Consensus size: 28
79923 TCAACTTAAA
*
79933 TTAATATGTAATAATAAAAATAATAATT
1 TTAATATATAATAATAAAAATAATAATT
* *
79961 TTAATTAAATTTAATTATAAAAATAAT-ATT
1 TTAA-T--ATATAATAATAAAAATAATAATT
79991 TTAATGATATAATAA
1 TTAAT-ATATAATAA
80006 ATTATAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
28 11 0.30
29 2 0.05
30 7 0.19
31 17 0.46
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (28 bp):
TTAATATATAATAATAAAAATAATAATT
Found at i:80015 original size:31 final size:31
Alignment explanation
Indices: 79946--80014 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 31
79936 ATATGTAATA
*
79946 ATAAAAATAATAATTTTAATTAAATTTAATT
1 ATAAAAATAATAATTTTAATTAAATTAAATT
79977 ATAAAAATAAT-ATTTTAATGATATAA-TAAATT
1 ATAAAAATAATAATTTTAAT--TA-AATTAAATT
80009 ATAAAA
1 ATAAAA
80015 TGAGCCCGAC
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
30 8 0.24
31 11 0.32
32 13 0.38
33 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (31 bp):
ATAAAAATAATAATTTTAATTAAATTAAATT
Found at i:81317 original size:18 final size:18
Alignment explanation
Indices: 81287--81328 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
81277 ATTATTTTAG
81287 ATAT-AATAAAAAATAA-A
1 ATATAAATAAAAAA-AATA
*
81304 ATATAAATATAAAAAATA
1 ATATAAATAAAAAAAATA
81322 ATATAAA
1 ATATAAA
81329 AAGGTGATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
ATATAAATAAAAAAAATA
Found at i:84833 original size:2 final size:2
Alignment explanation
Indices: 84828--84856 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
84818 ATATATATAT
84828 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
84857 ACCAGACCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:85481 original size:26 final size:27
Alignment explanation
Indices: 85452--85504 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
85442 TTGCACTTAA
*
85452 ACTTTAAAATATTAAAATAAT-ATGAT
1 ACTTTAAAATATTAAAAAAATGATGAT
*
85478 ACTTTTAAATATTAAAAAAATGATGAT
1 ACTTTAAAATATTAAAAAAATGATGAT
85505 CTAAACACGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.38
Consensus pattern (27 bp):
ACTTTAAAATATTAAAAAAATGATGAT
Found at i:91122 original size:3 final size:3
Alignment explanation
Indices: 91105--91160 Score: 78
Period size: 3 Copynumber: 18.7 Consensus size: 3
91095 CATCCCATTA
* *
91105 AAT AA- AAT AAAT AAT AAT AAT ACT AAT ACT AAT AAT AAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
91150 AAT AAT AAT AA
1 AAT AAT AAT AA
91161 CTAGTTCCCA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 42 0.89
4 3 0.06
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:91240 original size:5 final size:5
Alignment explanation
Indices: 91230--91310 Score: 55
Period size: 5 Copynumber: 16.4 Consensus size: 5
91220 TAATAATTTA
* * * *
91230 AATAT AATAT AATTAT AATAT -AT-G AATAT GATAT AAAATT AATTAA
1 AATAT AATAT AA-TAT AATAT AATAT AATAT AATAT AATA-T AA-TAT
91276 AATAT AATAT AATAT AA-A- AA-AT AATAT GAATAT AA
1 AATAT AATAT AATAT AATAT AATAT AATAT -AATAT AA
91311 AAATATTTAA
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
3 3 0.05
4 7 0.12
5 34 0.57
6 15 0.25
7 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (5 bp):
AATAT
Found at i:91243 original size:16 final size:19
Alignment explanation
Indices: 91222--91258 Score: 53
Period size: 16 Copynumber: 2.1 Consensus size: 19
91212 AGCTTACCTA
91222 ATAATT-TAA-ATAT-AAT
1 ATAATTATAATATATGAAT
91238 ATAATTATAATATATGAAT
1 ATAATTATAATATATGAAT
91257 AT
1 AT
91259 GATATAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.33
17 3 0.17
18 4 0.22
19 5 0.28
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (19 bp):
ATAATTATAATATATGAAT
Found at i:91307 original size:18 final size:17
Alignment explanation
Indices: 91269--91313 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
91259 GATATAAAAT
*
91269 TAAT-TAAAATATAATA
1 TAATATAAAAAATAATA
91285 TAATATAAAAAATAATA
1 TAATATAAAAAATAATA
91302 TGAATATAAAAA
1 T-AATATAAAAA
91314 TATTTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 4 0.15
17 12 0.46
18 10 0.38
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (17 bp):
TAATATAAAAAATAATA
Found at i:91314 original size:46 final size:45
Alignment explanation
Indices: 91221--91322 Score: 127
Period size: 45 Copynumber: 2.2 Consensus size: 45
91211 TAGCTTACCT
* * *
91221 AATAATTTAAATATAATATAATTATAATATATGAATATGATATAA
1 AATAATTAAAATATAATATAATTATAAAAAATGAATATGATATAA
91266 AATTAATTAAAATATAATATAA-TATAAAAAAT-AATATGAATATAAA
1 AA-TAATTAAAATATAATATAATTATAAAAAATGAATATG-ATAT-AA
*
91312 AATATTTAAAA
1 AATAATTAAAA
91323 AACTACATAA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
44 6 0.12
45 22 0.44
46 22 0.44
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (45 bp):
AATAATTAAAATATAATATAATTATAAAAAATGAATATGATATAA
Found at i:93044 original size:100 final size:95
Alignment explanation
Indices: 92883--93077 Score: 225
Period size: 100 Copynumber: 2.0 Consensus size: 95
92873 ATTCAATTGG
* * *
92883 ATTATTAAATTAATTAATTTAATTAAAAAATTTTAAATATTAGATATGATAAATATTTAATATAA
1 ATTACTAAATTAATTAATTTAATTAAAAAATTTTAAATAATAAATAT-ATAAATA-TTAATA-AA
92948 TATTT-CATAAAAATTAAAAATTTAAATCTCATTAA
63 TATTTACATAAAAATT--AAATTT-AATCTCATTAA
*
92983 ATTACTAAATTTATTAATTTAATTAAAAATATTTTAACATTAAATAAATAT-TAAATA-TAATAA
1 ATTACTAAATTAATTAATTTAATTAAAAA-ATTTTAA-A-T-AATAAATATATAAATATTAATAA
*
93046 ATATTTAATATAAAAATTAAATTTAATCTCAT
62 ATATTT-ACATAAAAATTAAATTTAATCTCAT
93078 CTTATATAAT
Statistics
Matches: 84, Mismatches: 5, Indels: 14
0.82 0.05 0.14
Matches are distributed among these distances:
98 8 0.10
99 13 0.15
100 32 0.38
101 16 0.19
102 7 0.08
103 1 0.01
104 7 0.08
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (95 bp):
ATTACTAAATTAATTAATTTAATTAAAAAATTTTAAATAATAAATATATAAATATTAATAAATAT
TTACATAAAAATTAAATTTAATCTCATTAA
Found at i:93046 original size:16 final size:16
Alignment explanation
Indices: 93025--93062 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
93015 TTTAACATTA
93025 AATAAATATTAAATAT
1 AATAAATATTAAATAT
*
93041 AATAAATATTTAATAT
1 AATAAATATTAAATAT
93057 AA-AAAT
1 AATAAAT
93063 TAAATTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AATAAATATTAAATAT
Found at i:94345 original size:6 final size:6
Alignment explanation
Indices: 94334--94358 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
94324 ATCAATTTTG
94334 TAAATA TAAATA TAAATA TAAATA T
1 TAAATA TAAATA TAAATA TAAATA T
94359 TAATTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
TAAATA
Found at i:94390 original size:11 final size:11
Alignment explanation
Indices: 94376--94433 Score: 64
Period size: 11 Copynumber: 5.4 Consensus size: 11
94366 AAATTATTAA
94376 ATATTTTAAAT
1 ATATTTTAAAT
* * *
94387 ATATATGACAT
1 ATATTTTAAAT
94398 ATATTTTAAAT
1 ATATTTTAAAT
* *
94409 ATATATTAATT
1 ATATTTTAAAT
94420 ATA-TTTAAAT
1 ATATTTTAAAT
94430 ATAT
1 ATAT
94434 AATATTATAT
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
10 8 0.22
11 28 0.78
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (11 bp):
ATATTTTAAAT
Found at i:94401 original size:22 final size:21
Alignment explanation
Indices: 94361--94434 Score: 86
Period size: 22 Copynumber: 3.7 Consensus size: 21
94351 ATAAATATTA
94361 ATTTTAAAT-TAT-T-AA-AT
1 ATTTTAAATATATATGAATAT
94378 ATTTTAAATATATATGACATAT
1 ATTTTAAATATATATGA-ATAT
*
94400 ATTTTAAATATATATTAAT-T
1 ATTTTAAATATATATGAATAT
94420 ATATTTAAATATATA
1 AT-TTTAAATATATA
94435 ATATTATATT
Statistics
Matches: 50, Mismatches: 1, Indels: 8
0.85 0.02 0.14
Matches are distributed among these distances:
17 9 0.18
18 3 0.06
19 1 0.02
20 4 0.08
21 15 0.30
22 18 0.36
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (21 bp):
ATTTTAAATATATATGAATAT
Found at i:94442 original size:20 final size:20
Alignment explanation
Indices: 94346--94446 Score: 81
Period size: 20 Copynumber: 5.1 Consensus size: 20
94336 AATATAAATA
94346 TAAATATA-AATATTA-ATTT
1 TAAATATATAATATTATA-TT
94365 TAAAT-TATTAA-A-TAT-TT
1 TAAATATA-TAATATTATATT
*
94382 TAAATATAT-ATGACATATATTT
1 TAAATATATAAT-A-TTATA-TT
*
94404 TAAATATATATTAATTATATT
1 TAAATATATAAT-ATTATATT
94425 TAAATATATAATATTATATT
1 TAAATATATAATATTATATT
94445 TA
1 TA
94447 TTAAACATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 21
0.73 0.04 0.23
Matches are distributed among these distances:
16 1 0.01
17 8 0.12
18 7 0.10
19 6 0.09
20 15 0.22
21 13 0.19
22 15 0.22
23 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (20 bp):
TAAATATATAATATTATATT
Found at i:94464 original size:21 final size:22
Alignment explanation
Indices: 94381--94470 Score: 80
Period size: 22 Copynumber: 4.1 Consensus size: 22
94371 ATTAAATATT
* * *
94381 TTAAATATATA-TGACATATATT
1 TTAAATATATATTTATAT-TATA
94403 TTAAATATATA-TTA-ATTATA
1 TTAAATATATATTTATATTATA
94423 TTTAAATATATAATATTATATT-TA
1 -TTAAATATAT-AT-TTATATTATA
*
94447 TTAAACATATATTTATATTATA
1 TTAAATATATATTTATATTATA
94469 TT
1 TT
94471 TTTATATTAT
Statistics
Matches: 59, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
20 3 0.05
21 19 0.32
22 20 0.34
23 9 0.15
24 5 0.08
25 3 0.05
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (22 bp):
TTAAATATATATTTATATTATA
Found at i:94464 original size:26 final size:24
Alignment explanation
Indices: 94410--94471 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
94400 ATTTTAAATA
*
94410 TATATTA-ATTATATTTAAATATAT
1 TATATTATATT-TATTAAAATATAT
*
94434 AATATTATATTTATTAAACATATATT
1 TATATTATATTTATTAAA-ATATA-T
94460 TATATTATATTT
1 TATATTATATTT
94472 TTATATTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 12 0.38
25 8 0.25
26 12 0.38
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
TATATTATATTTATTAAAATATAT
Found at i:94469 original size:13 final size:13
Alignment explanation
Indices: 94453--94482 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
94443 TTTATTAAAC
94453 ATATATTTATATT
1 ATATATTTATATT
*
94466 ATATTTTTATATT
1 ATATATTTATATT
94479 ATAT
1 ATAT
94483 CGAAAATGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
ATATATTTATATT
Found at i:99233 original size:140 final size:140
Alignment explanation
Indices: 99073--99350 Score: 529
Period size: 140 Copynumber: 2.0 Consensus size: 140
99063 TAGTCGCGAC
99073 TTAAAAATTTTAAATTTTAAATTTAAACTTGAATATTAAAAATTTATTTTTATATTAATATTTTT
1 TTAAAAATTTTAAATTTTAAATTTAAACTTGAATATTAAAAATTTATTTTTATATTAATATTTTT
99138 ATATTTAAATAATTAAAATTAAATAAATAATATCATTTAATTAAATAAACAGTGATATGAATCAA
66 ATATTTAAATAATTAAAATTAAATAAATAATATCATTTAATTAAATAAACAGTGATATGAATCAA
99203 ATCTACAAGG
131 ATCTACAAGG
99213 TTAAAAATTTTAAATTTTAAATTTAAACTTGAATATTAAAAATTTATTTTTATATTAATATTTTT
1 TTAAAAATTTTAAATTTTAAATTTAAACTTGAATATTAAAAATTTATTTTTATATTAATATTTTT
* * *
99278 ATATTTAAATAATTAAAATTAAATAAATAATATTATTTAATTAAATAAATAGTGATATGAATCAG
66 ATATTTAAATAATTAAAATTAAATAAATAATATCATTTAATTAAATAAACAGTGATATGAATCAA
99343 ATCTACAA
131 ATCTACAA
99351 AGTCAAACAT
Statistics
Matches: 135, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 135 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (140 bp):
TTAAAAATTTTAAATTTTAAATTTAAACTTGAATATTAAAAATTTATTTTTATATTAATATTTTT
ATATTTAAATAATTAAAATTAAATAAATAATATCATTTAATTAAATAAACAGTGATATGAATCAA
ATCTACAAGG
Found at i:100127 original size:14 final size:14
Alignment explanation
Indices: 100108--100137 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
100098 ATTTTATATT
100108 TATATAAATTATAA
1 TATATAAATTATAA
*
100122 TATATAAATTTTAA
1 TATATAAATTATAA
100136 TA
1 TA
100138 CGTTTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TATATAAATTATAA
Found at i:111261 original size:13 final size:13
Alignment explanation
Indices: 111245--111269 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
111235 TTTTTTAAAA
111245 ATATTTATATTTT
1 ATATTTATATTTT
111258 ATATTTATATTT
1 ATATTTATATTT
111270 AAGTATATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATATTTATATTTT
Found at i:111964 original size:22 final size:22
Alignment explanation
Indices: 111939--111989 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
111929 TAATTACACA
* *
111939 AAATAAATATAATAT-AAAACAT
1 AAATAAA-ATAACATGAAAAAAT
111961 AAATAAAATAACATGAAAAAAT
1 AAATAAAATAACATGAAAAAAT
111983 -AATAAAA
1 AAATAAAA
111990 ATTATATGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.22
Consensus pattern (22 bp):
AAATAAAATAACATGAAAAAAT
Found at i:111990 original size:22 final size:21
Alignment explanation
Indices: 111940--111991 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
111930 AATTACACAA
* * *
111940 AATAAATATAATATAAAACAT
1 AATAAAAATAACATAAAAAAT
111961 AA-ATAAAATAACATGAAAAAAT
1 AATA-AAAATAACAT-AAAAAAT
111983 AATAAAAAT
1 AATAAAAAT
111992 TATATGTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 1 0.04
21 10 0.40
22 13 0.52
23 1 0.04
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (21 bp):
AATAAAAATAACATAAAAAAT
Found at i:112416 original size:2 final size:2
Alignment explanation
Indices: 112411--112445 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
112401 CCAAATATAT
112411 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
112446 ATTTCTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:114126 original size:6 final size:6
Alignment explanation
Indices: 114115--114174 Score: 54
Period size: 6 Copynumber: 10.0 Consensus size: 6
114105 TACAATATGT
* *
114115 TTTATA TTTATA TTTTAAA TTT-TA -ATATA TTTAATAA TTTATA -TTATA
1 TTTATA TTTATA -TTTATA TTTATA TTTATA TTT-AT-A TTTATA TTTATA
114163 TTTATA TTTATA
1 TTTATA TTTATA
114175 CGAATAATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
4 1 0.02
5 8 0.18
6 22 0.50
7 9 0.20
8 4 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
TTTATA
Found at i:114145 original size:17 final size:19
Alignment explanation
Indices: 114123--114174 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 19
114113 GTTTTATATT
*
114123 TATATTTTA-AATTT-TAA
1 TATATTTAATAATTTATAA
*
114140 TATATTTAATAATTTATAT
1 TATATTTAATAATTTATAA
114159 TATATTT-AT-ATTTATA
1 TATATTTAATAATTTATA
114175 CGAATAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 15 0.48
18 7 0.23
19 9 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TATATTTAATAATTTATAA
Found at i:115271 original size:23 final size:23
Alignment explanation
Indices: 115245--115312 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
115235 TTAAATGAAT
115245 TAAAAAATAATTTAAATATGATA
1 TAAAAAATAATTTAAATATGATA
* * *
115268 TAAAAAATAATTAAAAAATAATA
1 TAAAAAATAATTTAAATATGATA
* * *
115291 CAAAATATAATAT-AATATGATA
1 TAAAAAATAATTTAAATATGATA
115313 AAATATTAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
22 7 0.19
23 29 0.81
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (23 bp):
TAAAAAATAATTTAAATATGATA
Found at i:115297 original size:10 final size:11
Alignment explanation
Indices: 115237--115289 Score: 61
Period size: 11 Copynumber: 4.6 Consensus size: 11
115227 AGTTAATATT
115237 AAATGAATTAAA
1 AAAT-AATTAAA
*
115249 AAATAATTTAA
1 AAATAATTAAA
* *
115260 ATATGATATAAA
1 AAATAAT-TAAA
115272 AAATAATTAAA
1 AAATAATTAAA
115283 AAATAAT
1 AAATAAT
115290 ACAAAATATA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
11 22 0.65
12 12 0.35
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (11 bp):
AAATAATTAAA
Found at i:115315 original size:20 final size:18
Alignment explanation
Indices: 115292--115385 Score: 73
Period size: 20 Copynumber: 4.8 Consensus size: 18
115282 AAAATAATAC
115292 AAAATATAATATAATATGAT
1 AAAATATAA-ATAATAT-AT
115312 AAAATATTAAATAATA-ATT
1 AAAATA-TAAATAATATA-T
* *
115331 TAAATAAAATATAAATATAT
1 AAAATATAA-AT-AATATAT
*
115351 AAAATATTAAAAAATATATAT
1 AAAATA-T-AAATA-ATATAT
115372 AAAATATAAATAAT
1 AAAATATAAATAAT
115386 TAATAAGTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 18
0.71 0.07 0.21
Matches are distributed among these distances:
18 5 0.08
19 12 0.20
20 24 0.40
21 17 0.28
22 2 0.03
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (18 bp):
AAAATATAAATAATATAT
Found at i:115344 original size:39 final size:39
Alignment explanation
Indices: 115258--115383 Score: 137
Period size: 40 Copynumber: 3.1 Consensus size: 39
115248 AAAATAATTT
* *
115258 AAATATGATATAAAAAATAATTAAAAAATAATACAAAATA
1 AAATATAATATATAAAAT-ATTAAAAAATAATACAAAATA
* * **
115298 TAATATAATATGATAAAATATTAAATAATAAT-TTAAATA
1 AAATATAATAT-ATAAAATATTAAAAAATAATACAAAATA
*
115337 AAATATAAATATATAAAATATTAAAAAATATATATAAAATA
1 AAATAT-AATATATAAAATATTAAAAAATA-ATACAAAATA
115378 TAAATA
1 -AAATA
115384 ATTAATAAGT
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
39 27 0.38
40 28 0.39
41 12 0.17
42 5 0.07
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.32
Consensus pattern (39 bp):
AAATATAATATATAAAATATTAAAAAATAATACAAAATA
Found at i:115357 original size:7 final size:7
Alignment explanation
Indices: 115287--115381 Score: 54
Period size: 7 Copynumber: 13.1 Consensus size: 7
115277 ATTAAAAAAT
*
115287 AATACAA
1 AATATAA
115294 AATAT--
1 AATATAA
115299 AATATAA
1 AATATAA
*
115306 TATGATAA
1 AAT-ATAA
*
115314 AATATTA
1 AATATAA
115321 AATAATAA
1 AAT-ATAA
115329 TTTAA-ATAA
1 ---AATATAA
115338 AATATAA
1 AATATAA
115345 ATATATAA
1 A-ATATAA
115353 AATATTAA
1 AATA-TAA
*
115361 AAAAT-A
1 AATATAA
*
115367 TATATAA
1 AATATAA
115374 AATATAA
1 AATATAA
115381 A
1 A
115382 TAATTAATAA
Statistics
Matches: 68, Mismatches: 9, Indels: 22
0.69 0.09 0.22
Matches are distributed among these distances:
5 5 0.07
6 6 0.09
7 29 0.43
8 22 0.32
9 4 0.06
11 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (7 bp):
AATATAA
Found at i:115361 original size:23 final size:21
Alignment explanation
Indices: 115265--115378 Score: 64
Period size: 21 Copynumber: 5.6 Consensus size: 21
115255 TTTAAATATG
* *
115265 ATATAAAAAATAATTAAAAAAT
1 ATATATAAAAT-ATTAAAAAAA
* * *
115287 A-ATACAAAATA-T-AATATA
1 ATATATAAAATATTAAAAAAA
*
115305 ATATGATAAAATATTAAATAATA
1 ATAT-ATAAAATATTAAA-AAAA
*
115328 AT-T-T-AAATA--AAATATAA
1 ATATATAAAATATTAAA-AAAA
*
115345 ATATATAAAATATTAAAAAAT
1 ATATATAAAATATTAAAAAAA
115366 ATATATAAAATAT
1 ATATATAAAATAT
115379 AAATAATTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
17 8 0.11
18 5 0.07
19 9 0.12
20 14 0.19
21 24 0.33
22 7 0.10
23 5 0.07
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (21 bp):
ATATATAAAATATTAAAAAAA
Found at i:115925 original size:13 final size:15
Alignment explanation
Indices: 115907--115946 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
115897 ATATTAAAAA
115907 AATATTT-TAT-ATT
1 AATATTTATATAATT
115920 AATATTTATATAATT
1 AATATTTATATAATT
*
115935 AA-ATTTAAATAA
1 AATATTTATATAA
115947 AATAATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 7 0.29
14 12 0.50
15 5 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATATTTATATAATT
Found at i:115931 original size:40 final size:40
Alignment explanation
Indices: 115887--115963 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 40
115877 ATTATTTTAA
115887 ATAT-ATTAAAATATTAAA-AAAAT-ATTTTATATTAATATTT
1 ATATAATT-AAAT-TTAAATAAAATAATTTT-TATTAATATTT
115927 ATATAATTAAATTTAAATAAAATAATTTTTATTAATA
1 ATATAATTAAATTTAAATAAAATAATTTTTATTAATA
115964 AAATAATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
39 5 0.15
40 21 0.62
41 8 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (40 bp):
ATATAATTAAATTTAAATAAAATAATTTTTATTAATATTT
Found at i:115973 original size:40 final size:40
Alignment explanation
Indices: 115886--115974 Score: 94
Period size: 40 Copynumber: 2.2 Consensus size: 40
115876 AATTATTTTA
**
115886 AATATATTAAAATATTAAAAAAATATTTTATATTAATATTT
1 AATA-ATTAAAATATTAAAAAAATATTTTATATTAATAAAT
115927 ATATAATT-AAAT-TTAAATAAAATAATTTT-TATTAATAAAAT
1 A-ATAATTAAAATATTAAA-AAAAT-ATTTTATATTAAT-AAAT
115968 AATAATT
1 AATAATT
115975 GAAACCGACA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
39 5 0.12
40 22 0.52
41 12 0.29
42 3 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (40 bp):
AATAATTAAAATATTAAAAAAATATTTTATATTAATAAAT
Found at i:116159 original size:2 final size:2
Alignment explanation
Indices: 116152--116177 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
116142 TTAAATTAAT
116152 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
116178 AACGATTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.