Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007718.1 Hibiscus syriacus cultivar Beakdansim tig00109949_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1062497
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:1957 original size:20 final size:20
Alignment explanation
Indices: 1932--1971 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1922 TTAGGAGATT
*
1932 GCTTAGTGTTCGAGAGAATA
1 GCTTAGTGTTCAAGAGAATA
1952 GCTTAGTGTTCAAGAGAATA
1 GCTTAGTGTTCAAGAGAATA
1972 ACTAAGTAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.30
Consensus pattern (20 bp):
GCTTAGTGTTCAAGAGAATA
Found at i:2867 original size:26 final size:26
Alignment explanation
Indices: 2820--2869 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
2810 AGAATTTTTA
* *
2820 TTTTACTTTTTCATTTTTTTATATAG
1 TTTTACTTGTTCATTTTCTTATATAG
2846 TTTTACTTGTT-ATTTTCCTTATAT
1 TTTTACTTGTTCATTTT-CTTATAT
2870 TTCAAGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.18, C:0.10, G:0.04, T:0.68
Consensus pattern (26 bp):
TTTTACTTGTTCATTTTCTTATATAG
Found at i:6468 original size:5 final size:5
Alignment explanation
Indices: 6458--6542 Score: 55
Period size: 5 Copynumber: 17.0 Consensus size: 5
6448 TGTTCAGGGA
* * * * ****
6458 AAAAT AAAAT AAAAT AAAAT AAAAT -ACAT AGAAT GAAAT AAAGT TTGCT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
* * *
6507 AAAAT AAAAT GAAAAT AAAAC GAAAT AAAAT GAAAT
1 AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT
6543 GGGTTACCTC
Statistics
Matches: 58, Mismatches: 20, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
4 3 0.05
5 50 0.86
6 5 0.09
ACGTcount: A:0.67, C:0.04, G:0.08, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:6523 original size:11 final size:11
Alignment explanation
Indices: 6507--6541 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
6497 AAAGTTTGCT
6507 AAAATAAAATG
1 AAAATAAAATG
*
6518 AAAATAAAACG
1 AAAATAAAATG
6529 -AAATAAAATG
1 AAAATAAAATG
6539 AAA
1 AAA
6542 TGGGTTACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.74, C:0.03, G:0.09, T:0.14
Consensus pattern (11 bp):
AAAATAAAATG
Found at i:10673 original size:21 final size:21
Alignment explanation
Indices: 10649--10696 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
10639 AGGCAATTAG
** *
10649 CTTTTCCTGGGATGTTACCAA
1 CTTTTCCTGGGACATAACCAA
*
10670 CTTTTCTTGGGACATAACCAA
1 CTTTTCCTGGGACATAACCAA
10691 CTTTTC
1 CTTTTC
10697 TTATGAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.40
Consensus pattern (21 bp):
CTTTTCCTGGGACATAACCAA
Found at i:11854 original size:76 final size:75
Alignment explanation
Indices: 11716--12206 Score: 413
Period size: 76 Copynumber: 6.5 Consensus size: 75
11706 TGTCCAACTC
* * ** * *
11716 CACCAGTGAAATGAATACGTAATTCAAGAACTAAACTTATCAAATAATTCCTGCAGTTAAATTTA
1 CACCAGTGAAATGAATACGTAATTCAAGCACTAAACTTATCACAT-ATTCCAACAGTGAAACTTA
*
11781 TCATTGACTTA
65 ACATTGACTTA
* * * * *
11792 CATCAGTGTAATGAATACGTAATTCAAGCACTAAACTTATCACATCATTTCAACATTGAAATTTA
1 CACCAGTGAAATGAATACGTAATTCAAGCACTAAACTTATCACAT-ATTCCAACAGTGAAACTTA
*
11857 GCATTGACTTA
65 ACATTGACTTA
* * ** * *
11868 CACCAGTAAAATGAATACGTAATTCTAGCGTTAAACTTATCACATGATTCCAATAATGAAACTTA
1 CACCAGTGAAATGAATACGTAATTCAAGCACTAAACTTATCACAT-ATTCCAACAGTGAAACTTA
* *
11933 TCATTAACTTA
65 ACATTGACTTA
** *
11944 CACCAGTGATTTGAATACGTAATTCCAA-CACT--A---ATCACATAATTCCTACAGTGAAACTT
1 CACCAGTGAAATGAATACGTAATT-CAAGCACTAAACTTATCACAT-ATTCCAACAGTGAAACTT
**
12003 AACATTTTCTTA
64 AACATTGACTTA
** * * * * * * * * **
12015 CACCAACGAAATAAATACATAATTCCATCATTAAATTTATCACCTAATTCTAGTAGTGAAACTTA
1 CACCAGTGAAATGAATACGTAATTCAAGCACTAAACTTATCACAT-ATTCCAACAGTGAAACTTA
12080 ACATTGACTTA
65 ACATTGACTTA
* * * * **
12091 AATCAGTGAAATGAATACGTAATTCTAA-CACTAAACTTTTCACATAAGT-CATGGAGTGAAACT
1 CACCAGTGAAATGAATACGTAATTC-AAGCACTAAACTTATCACAT-ATTCCA-ACAGTGAAACT
*
12154 GAACATTGACTTA
63 TAACATTGACTTA
* * *
12167 CACTAGTGAAATGAATACGTAATTCCAGCAATAAACTTAT
1 CACCAGTGAAATGAATACGTAATTCAAGCACTAAACTTAT
12207 GATTTCACAT
Statistics
Matches: 332, Mismatches: 73, Indels: 20
0.78 0.17 0.05
Matches are distributed among these distances:
70 2 0.01
71 52 0.16
73 1 0.00
74 1 0.00
75 2 0.01
76 271 0.82
77 3 0.01
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (75 bp):
CACCAGTGAAATGAATACGTAATTCAAGCACTAAACTTATCACATATTCCAACAGTGAAACTTAA
CATTGACTTA
Found at i:12577 original size:19 final size:21
Alignment explanation
Indices: 12546--12587 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
12536 TTCCCGTCAC
12546 ATTTGTGATTCTT-A-CCTTA
1 ATTTGTGATTCTTCACCCTTA
12565 ATTTGT-ATGTCTTCACCCTTA
1 ATTTGTGAT-TCTTCACCCTTA
12586 AT
1 AT
12588 CACCTTTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
18 2 0.10
19 10 0.50
20 1 0.05
21 7 0.35
ACGTcount: A:0.21, C:0.19, G:0.10, T:0.50
Consensus pattern (21 bp):
ATTTGTGATTCTTCACCCTTA
Found at i:16352 original size:31 final size:31
Alignment explanation
Indices: 16307--16387 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 31
16297 ACGATTAGGT
* **
16307 GCTCCCGTGGAAGTCACTCGAATCCTTCGGG
1 GCTCCCGTGCAAGTCACTCGAATCCTTCAAG
*
16338 GCTCCTGTGCAAGTCACTC---TCCTTCAAG
1 GCTCCCGTGCAAGTCACTCGAATCCTTCAAG
*
16366 GCTCCCGTGCAAGTCACCCGAA
1 GCTCCCGTGCAAGTCACTCGAA
16388 ATAATTCTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
28 24 0.59
31 17 0.41
ACGTcount: A:0.19, C:0.36, G:0.23, T:0.22
Consensus pattern (31 bp):
GCTCCCGTGCAAGTCACTCGAATCCTTCAAG
Found at i:16790 original size:76 final size:76
Alignment explanation
Indices: 16658--17209 Score: 644
Period size: 76 Copynumber: 7.3 Consensus size: 76
16648 ACATTAACAT
* * * * *
16658 GTAATTCCAGCACTAAA-TTAAACACATCACAATTCTAGCAGTGAAACGTAGCATTGATTTACAC
1 GTAATTCCAGCACTAAACTT-ATCACAT---AATTCCAGCAGTGAAACTTAACATTGACTTACAC
16722 CAGTGAAATGAATAC
62 CAGTGAAATGAATAC
* * * * * * *
16737 GCAATTCTAGCACTAAACTTATGACATGATTTCAGTAGTGAAACTTAACATTGACTTACACTAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
*
16802 GAAATGAATAT
66 GAAATGAATAC
* * ** * *
16813 GTAATTCAAGCACTAAACTTATCACATCATTTTAGCAGTGAAATTTAGCATTGACTTACACCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
*
16878 AAAATGAATAC
66 GAAATGAATAC
* * * * **
16889 GTAATTCCAGCGCTAAACTTATCACATAATTCCAGTAATGAAACTTAACATTAACTTACACCAAC
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
*
16954 AAAATGAATAC
66 GAAATGAATAC
* * * *
16965 GTAATTCCAACACTAAACTTATCTCATAATTCCAACAGTGAAACTTAACATTTACTTACACCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
17030 GAAATGAATAC
66 GAAATGAATAC
* * *
17041 GTAATTCCAGCACTAAACTTATCACATAATTCTAGCAATGAAATTTAACATTGA-TTACACCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
* *
17105 AAAATAAATAC
66 GAAATGAATAC
* * ** * *
17116 GTAATTCCAACAC--AACTTATTACATAATTCCAGCAACGAAACTTAACATTGACTTATATCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
17179 GAAATGAATAC
66 GAAATGAATAC
* *
17190 GTAAATCCAACACTAAACTT
1 GTAATTCCAGCACTAAACTT
17210 TGAAGCTTAA
Statistics
Matches: 404, Mismatches: 65, Indels: 11
0.84 0.14 0.02
Matches are distributed among these distances:
73 35 0.09
74 29 0.07
75 31 0.08
76 287 0.71
79 20 0.05
80 2 0.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.28
Consensus pattern (76 bp):
GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
GAAATGAATAC
Found at i:28192 original size:31 final size:30
Alignment explanation
Indices: 28121--28209 Score: 97
Period size: 31 Copynumber: 2.9 Consensus size: 30
28111 AACTTGGGTA
* *
28121 GGCCCTGAGATCATTCTTGGGTAGGCCCTAC
1 GGCCCTGAGATCTTTCTT-GGTAGGCCCCAC
* * **
28152 GGTCTTGAGATCTTTCTTGGATAGGCCCCGT
1 GGCCCTGAGATCTTTCTTGG-TAGGCCCCAC
*
28183 GGCCCTGAGAACTTTCTTGGTAGGCCC
1 GGCCCTGAGATCTTTCTTGGTAGGCCC
28210 ATAGGACCCA
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
30 9 0.19
31 39 0.81
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.29
Consensus pattern (30 bp):
GGCCCTGAGATCTTTCTTGGTAGGCCCCAC
Found at i:29170 original size:22 final size:23
Alignment explanation
Indices: 29145--29193 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
29135 ATATAACACC
29145 ATTATATA-AAAAATATTTATAT
1 ATTATATACAAAAATATTTATAT
* *
29167 ATTATATACATAACTATTTATAT
1 ATTATATACAAAAATATTTATAT
29190 -TTAT
1 ATTAT
29194 TTAGCATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTATATACAAAAATATTTATAT
Found at i:29324 original size:31 final size:29
Alignment explanation
Indices: 29287--29348 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 29
29277 TTTTTACTAC
29287 ATATAATTA-AATTAAAATAAAAATATTATGT
1 ATATAATTACAA-T-AAATAAAAAT-TTATGT
*
29318 ATATAATTACAATAAATTAAAATTTATGT
1 ATATAATTACAATAAATAAAAATTTATGT
29347 AT
1 AT
29349 TACACCAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 8 0.28
30 9 0.31
31 10 0.34
32 2 0.07
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (29 bp):
ATATAATTACAATAAATAAAAATTTATGT
Found at i:33436 original size:24 final size:23
Alignment explanation
Indices: 33400--33452 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
33390 AGTTTGATTG
*
33400 TCCC-GACCTGGTCTGACCCTGAC
1 TCCCTGACCCGGTCTGACCC-GAC
* *
33423 TGCCTGACCCGGTCTTACCCGAC
1 TCCCTGACCCGGTCTGACCCGAC
33446 TCCCTGA
1 TCCCTGA
33453 TCCGATCCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.13, C:0.43, G:0.21, T:0.23
Consensus pattern (23 bp):
TCCCTGACCCGGTCTGACCCGAC
Found at i:38471 original size:2 final size:2
Alignment explanation
Indices: 38464--38499 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
38454 AACTGGTTTG
*
38464 AT AT AT AT GT 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
38500 TTCAGTGGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42932 original size:69 final size:69
Alignment explanation
Indices: 42838--43062 Score: 247
Period size: 69 Copynumber: 3.3 Consensus size: 69
42828 GTTCCCTTGT
*
42838 GAGTCACTCTAATCCTTCGGAGCTCCCGTGCAAGTCAACCGAAGTAATTATGATTAGGTGCTCCC
1 GAGTCACTCTAATCCTTCGGGGCTCCCGTGCAAGTCAACCGAAGTAATTATGATTAGGTGCTCCC
42903 GTGC
66 GTGC
* * * * * *
42907 AAGTTACTCTAATCCTTCGGGGCTCCTGTGCAAGTCACCCGAAATAATTATGATTAGGTTCTCCC
1 GAGTCACTCTAATCCTTCGGGGCTCCCGTGCAAGTCAACCGAAGTAATTATGATTAGGTGCTCCC
**
42972 GTAT
66 GTGC
* * ** * * * *
42976 GAGTCACTCTATTCCTTAGGGGCTTTCATGCGAGT-AACC-AAGAATAATCACGATTAGGTGCTC
1 GAGTCACTCTAATCCTTCGGGGCTCCCGTGCAAGTCAACCGAAG--TAATTATGATTAGGTGCTC
* *
43039 CCTTGG
64 CCGTGC
43045 GAGTCACTCTAATCCTTC
1 GAGTCACTCTAATCCTTC
43063 AAGGCTCATG
Statistics
Matches: 126, Mismatches: 28, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
67 2 0.02
68 3 0.02
69 121 0.96
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (69 bp):
GAGTCACTCTAATCCTTCGGGGCTCCCGTGCAAGTCAACCGAAGTAATTATGATTAGGTGCTCCC
GTGC
Found at i:43090 original size:69 final size:69
Alignment explanation
Indices: 42838--43090 Score: 185
Period size: 69 Copynumber: 3.7 Consensus size: 69
42828 GTTCCCTTGT
** * * *
42838 GAGTCACTCTAATCCTTC-GGAGCTCCCGTGCAAGTCAACC--GAAGTAATTATGATTAGGTGCT
1 GAGTCACTCTAATCCTTCAGG-GCTCATGTGCGAGTC-ACCAGGAA-TAATCACGATTAGGTGCT
42900 CCCGTGC
63 CCCGTGC
* * * * * * * * * *
42907 AAGTTACTCTAATCCTTCGGGGCTCCTGTGCAAGTCACCCGAAATAATTATGATTAGGTTCTCCC
1 GAGTCACTCTAATCCTTCAGGGCTCATGTGCGAGTCACCAGGAATAATCACGATTAGGTGCTCCC
**
42972 GTAT
66 GTGC
* * *
42976 GAGTCACTCTATTCCTT-AGGGGCTTTCA--TGCGAGTAACCAAGAATAATCACGATTAGGTGCT
1 GAGTCACTCTAATCCTTCA-GGGC--TCATGTGCGAGTCACCAGGAATAATCACGATTAGGTGCT
* *
43038 CCCTTGG
63 CCCGTGC
* * *
43045 GAGTCACTCTAATCCTTCAAGGCTCATGTGCGACTCACCTGGAATA
1 GAGTCACTCTAATCCTTCAGGGCTCATGTGCGAGTCACCAGGAATA
43091 CTCATTATTA
Statistics
Matches: 146, Mismatches: 29, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
67 3 0.02
68 3 0.02
69 133 0.91
70 5 0.03
71 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (69 bp):
GAGTCACTCTAATCCTTCAGGGCTCATGTGCGAGTCACCAGGAATAATCACGATTAGGTGCTCCC
GTGC
Found at i:55252 original size:30 final size:30
Alignment explanation
Indices: 55217--55284 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
55207 CTTTTTGGTC
*
55217 AAAGTCAAC-AGTCAACGGGTTGACTCTGTA
1 AAAGTCAACGA-TCAACGGGTTGACTCGGTA
*
55247 AAAGTCAACGATCAACGGGTTGACTCGGTC
1 AAAGTCAACGATCAACGGGTTGACTCGGTA
55277 AAAGTCAA
1 AAAGTCAA
55285 TGAGTTGACC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 34 0.97
31 1 0.03
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (30 bp):
AAAGTCAACGATCAACGGGTTGACTCGGTA
Found at i:56885 original size:63 final size:63
Alignment explanation
Indices: 56812--56934 Score: 156
Period size: 63 Copynumber: 2.0 Consensus size: 63
56802 CCTTGTGAGT
* * * *
56812 CACTCTAATCCTTCAGAGCTCCCGTGCGAGTCAACTAAAATAATTATGATTAGGTGCTCCTAA
1 CACTCTAATCCTTCAGAGCTCCCGTGCAAGTCAACCAAAATAATTATGACTAGATGCTCCTAA
* * ** * *
56875 CACTCTAATCCTTCGGGGCTCTTGTGCAAGTCACCCGAAATAATTATGACTAGATGCTCC
1 CACTCTAATCCTTCAGAGCTCCCGTGCAAGTCAACCAAAATAATTATGACTAGATGCTCC
56935 CGTGTTAGTC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 50 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (63 bp):
CACTCTAATCCTTCAGAGCTCCCGTGCAAGTCAACCAAAATAATTATGACTAGATGCTCCTAA
Found at i:60186 original size:43 final size:43
Alignment explanation
Indices: 60105--60575 Score: 546
Period size: 43 Copynumber: 10.9 Consensus size: 43
60095 CTATGACTTG
* * * * *
60105 TAAGACCTTACCGTTACCAGAGGCTCCTCTGTTATGTGCAAGGG
1 TAAGACCTTACCGTTTCC-CAGGCTCCTTTGCTATGTGCAAGGA
* * * *
60149 TAAGTCCTTACCGTTACCCAGGCTCCTCTGCTATGTGCAAGGG
1 TAAGACCTTACCGTTTCCCAGGCTCCTTTGCTATGTGCAAGGA
* * * * *
60192 TAAGTCCTAACCGTTTCCTAGGCTCCTCTGCTATGTGCAAGGG
1 TAAGACCTTACCGTTTCCCAGGCTCCTTTGCTATGTGCAAGGA
* * *
60235 TAAGTCCTTACCGTTTTCCCAAGCTCCTTTGCTATATGCAAGGA
1 TAAGACCTTACCG-TTTCCCAGGCTCCTTTGCTATGTGCAAGGA
* * * * *
60279 TTACACCTTACCGTTTCTCAAGTTCCTTTGCTATGTGCAAGGA
1 TAAGACCTTACCGTTTCCCAGGCTCCTTTGCTATGTGCAAGGA
* * * *
60322 TAAGACCTTACCGTTTCTCAAGCTTCTTTACTATGTGCAAGGA
1 TAAGACCTTACCGTTTCCCAGGCTCCTTTGCTATGTGCAAGGA
*
60365 TAAGACCTTACCGTTTCCCAGGCTCCTTTGCTATATGCAAGGA
1 TAAGACCTTACCGTTTCCCAGGCTCCTTTGCTATGTGCAAGGA
* * * *
60408 TAAGACATGACCGTTTCTCAGGCTCATTTGCTATGTGCAAGGA
1 TAAGACCTTACCGTTTCCCAGGCTCCTTTGCTATGTGCAAGGA
* * *
60451 TAAGACCTTACCTTTTCTCAGGCTCCTTTGTTATGTGCAAGGA
1 TAAGACCTTACCGTTTCCCAGGCTCCTTTGCTATGTGCAAGGA
* * * * *
60494 TAAGACCTTACCATTTCCAAGGCTCCTTTTCCATGTGTAAGGA
1 TAAGACCTTACCGTTTCCCAGGCTCCTTTGCTATGTGCAAGGA
* * *
60537 TAAGACCTTATCGTTTCCCAGGCTCTTTTTCTATGTGCA
1 TAAGACCTTACCGTTTCCCAGGCTCCTTTGCTATGTGCA
60576 CAATTCGAGG
Statistics
Matches: 375, Mismatches: 51, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
43 323 0.86
44 52 0.14
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (43 bp):
TAAGACCTTACCGTTTCCCAGGCTCCTTTGCTATGTGCAAGGA
Found at i:61998 original size:43 final size:43
Alignment explanation
Indices: 61941--62182 Score: 349
Period size: 43 Copynumber: 5.6 Consensus size: 43
61931 GCTAAAGTTC
* * * *
61941 GCGGCGTTTGTCCAACAAACGCCGCAATAGGTGTTGATATTTG
1 GCGGCGTTTTTCCCACAAACGCCGCAATAGGTGTTGAGATTTA
* *
61984 GCGGCATTTTTCCAACAAACGCCGCAATAGGTGTTGAGATTTA
1 GCGGCGTTTTTCCCACAAACGCCGCAATAGGTGTTGAGATTTA
*
62027 GCGGCGTTTTTCCCACAAACGCCGTAATAGGTGTTGAGATTTA
1 GCGGCGTTTTTCCCACAAACGCCGCAATAGGTGTTGAGATTTA
* * *
62070 GCGACGTTTTTCCCACAAACGTCGCAATAGGTGTTGAGATTGA
1 GCGGCGTTTTTCCCACAAACGCCGCAATAGGTGTTGAGATTTA
* * *
62113 GCGGCGTTTTTTCCAGAAACGCCGCAATAGGTCTTGAGATTTA
1 GCGGCGTTTTTCCCACAAACGCCGCAATAGGTGTTGAGATTTA
* *
62156 GCGGCGTTTTCCCCACAAACACCGCAA
1 GCGGCGTTTTTCCCACAAACGCCGCAA
62183 AAGATCTGGT
Statistics
Matches: 178, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 178 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (43 bp):
GCGGCGTTTTTCCCACAAACGCCGCAATAGGTGTTGAGATTTA
Found at i:62217 original size:129 final size:129
Alignment explanation
Indices: 61955--62223 Score: 312
Period size: 129 Copynumber: 2.1 Consensus size: 129
61945 CGTTTGTCCA
* *
61955 ACAAACGCCGCAATAGGTGTTGATATTTGGCGGCATTTTTCCAACAAACGCCGCAATAGGTGTTG
1 ACAAACGCCGCAATAGGTGTTGAGATTTGGCGGCATTTTTCCAACAAACGCCGCAATAGGTCTTG
* * * * * * * * *
62020 AGATTTAGCGGCGTTTTTCCCACAAACGCCGTAATAGGTGTTGAGATTTAGCGACGTTTTTCCC
66 AGATTTAGCGGCGTTTTCCCCACAAACACCGCAAAAGATGCTGAGATATAGCGACGTTTTACAC
* * *
62084 ACAAACGTCGCAATAGGTGTTGAGA-TTGAGCGGCGTTTTTTCC-AGAAACGCCGCAATAGGTCT
1 ACAAACGCCGCAATAGGTGTTGAGATTTG-GCGGC-ATTTTTCCAACAAACGCCGCAATAGGTCT
* *
62147 TGAGATTTAGCGGCGTTTTCCCCACAAACACCGCAAAAGAT-CTG-GTATATAGTGGCGTTTTAA
64 TGAGATTTAGCGGCGTTTTCCCCACAAACACCGCAAAAGATGCTGAG-ATATAGCGACGTTTT-A
* *
62210 GAT
127 CAC
62213 ACAAACGCCGC
1 ACAAACGCCGC
62224 TAATTACCTC
Statistics
Matches: 117, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
127 1 0.01
128 17 0.15
129 92 0.79
130 7 0.06
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (129 bp):
ACAAACGCCGCAATAGGTGTTGAGATTTGGCGGCATTTTTCCAACAAACGCCGCAATAGGTCTTG
AGATTTAGCGGCGTTTTCCCCACAAACACCGCAAAAGATGCTGAGATATAGCGACGTTTTACAC
Found at i:62361 original size:21 final size:21
Alignment explanation
Indices: 62335--62393 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
62325 ATTTTCCAAT
*
62335 AAACTTGACATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
* *
62356 AAACTTAAAATCCATAACAAG
1 AAACTTGAAATCCATAACAAC
**
62377 AAAAATGAAATCCATAA
1 AAACTTGAAATCCATAA
62394 TAATAAATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.56, C:0.20, G:0.05, T:0.19
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAC
Found at i:64389 original size:41 final size:41
Alignment explanation
Indices: 64342--64606 Score: 314
Period size: 41 Copynumber: 6.4 Consensus size: 41
64332 TTGTAAACAC
* * *
64342 AAACGCCACTATAGTACAAGTGTATAGCGGCGTTTGAATAA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAA
** * *
64383 AAACGCCACTAAAGTATGAGTCTTTAGCGGTGTTTGTATAA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAA
* ** * *
64424 AAACGCCACTAAATTATGAGTCTTTAGCGGCGTTTGTAAACA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATA-A
* * * * *
64466 CAAACGCCACTATAGTACATGTGTATAACGGCATTTGTATAA
1 -AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAA
*
64508 AAACGCCACTAAAGTACAATTCTATAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAA
* * * *
64549 AAATGCCACTAAATTACGAGTCTTTAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAA
64590 AAACGCCACTAAAGTAC
1 AAACGCCACTAAAGTAC
64607 TACTCTTTTG
Statistics
Matches: 189, Mismatches: 33, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
41 157 0.83
42 2 0.01
43 30 0.16
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (41 bp):
AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAA
Found at i:64557 original size:125 final size:125
Alignment explanation
Indices: 64325--64606 Score: 424
Period size: 125 Copynumber: 2.3 Consensus size: 125
64315 TTGTAAACTT
* * *
64325 GCGGTGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATAGCGGCGTTTGAATAAAAACGCC
1 GCGGCGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATAACGGCATTTGAATAAAAACGCC
** * * *
64390 ACTAAAGTATGAGTCTTTAGCGGTGTTTGTATAAAAACGCCACTAAATTATGAGTCTTTA
66 ACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAATTACGAGTCTTTA
* *
64450 GCGGCGTTTGTAAACACAAACGCCACTATAGTACATGTGTATAACGGCATTTGTATAAAAACGCC
1 GCGGCGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATAACGGCATTTGAATAAAAACGCC
* *
64515 ACTAAAGTACAATTCTATAGCGGCGTTTGTATAAAAATGCCACTAAATTACGAGTCTTTA
66 ACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAATTACGAGTCTTTA
* *
64575 GCGGCGTTTGTATA-A-AAACGCCACTAAAGTAC
1 GCGGCGTTTGTAAACACAAACGCCACTATAGTAC
64607 TACTCTTTTG
Statistics
Matches: 143, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
123 16 0.11
124 1 0.01
125 126 0.88
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (125 bp):
GCGGCGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATAACGGCATTTGAATAAAAACGCC
ACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAATTACGAGTCTTTA
Found at i:66653 original size:28 final size:28
Alignment explanation
Indices: 66589--66652 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
66579 TGAAGTTCAT
66589 GTGTATTTTGATAATTTTAGAATTCAATG
1 GTGT-TTTTGATAATTTTAGAATTCAATG
* *
66618 GTGTTTTTGGTAATTTTGGAATTCAA-G
1 GTGTTTTTGATAATTTTAGAATTCAATG
*
66645 GTATTTTT
1 GTGTTTTT
66653 TATTTGGGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 8 0.25
28 20 0.62
29 4 0.12
ACGTcount: A:0.25, C:0.03, G:0.20, T:0.52
Consensus pattern (28 bp):
GTGTTTTTGATAATTTTAGAATTCAATG
Found at i:67895 original size:45 final size:44
Alignment explanation
Indices: 67845--68078 Score: 123
Period size: 45 Copynumber: 5.4 Consensus size: 44
67835 ATCTTGTTAT
*
67845 TTTCTCTAAAGGACACCAAGTCGTAATCAATGGTTGATCTGCTTC
1 TTTCTCTAAAGGACACCAAGTCGTAATCAA-GGTTGATCTGCTCC
* * ** * * * *
67890 TTTCTCTGAATGATTCCAAATCG-AA-GAA---TGATCTTGCACA
1 TTTCTCTAAAGGACACCAAGTCGTAATCAAGGTTGATC-TGCTCC
* *
67930 TTTCTCTAAAGGA-AGCCAAGTAGTAATCAAAGGTTGATATGCTCC
1 TTTCTCTAAAGGACA-CCAAGTCGTAATC-AAGGTTGATCTGCTCC
* * * * *
67975 TTTCTCAAAAGGACGCCAAATTGGGT-AGCAA---TG-TC-GCTCC
1 TTTCTCTAAAGGACACC-AAGT-CGTAATCAAGGTTGATCTGCTCC
* * *
68015 TTTCTCTAAAGGAAACCAAGTCGTAATCAATGGTTGATTTGCTTC
1 TTTCTCTAAAGGACACCAAGTCGTAATCAA-GGTTGATCTGCTCC
* * *
68060 ATTATCTGAAGGACACCAA
1 TTTCTCTAAAGGACACCAA
68079 ATCTCGGAAT
Statistics
Matches: 135, Mismatches: 36, Indels: 36
0.65 0.17 0.17
Matches are distributed among these distances:
38 2 0.01
39 12 0.09
40 39 0.29
41 3 0.02
42 2 0.01
43 6 0.04
44 3 0.02
45 57 0.42
46 9 0.07
47 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (44 bp):
TTTCTCTAAAGGACACCAAGTCGTAATCAAGGTTGATCTGCTCC
Found at i:68101 original size:85 final size:85
Alignment explanation
Indices: 67777--68112 Score: 266
Period size: 85 Copynumber: 4.0 Consensus size: 85
67767 TGGGGATGCG
* * * * * * * * * ** *
67777 AAGTCGTTATCAATGGTTGATCTGCTCCTTTCTTTGAAGAACGCAAAATCAAAGAACAATCTTGT
1 AAGTCGTAATCAATGGTTGATATGCTTCTTTCTCTGAAGGACACCAAATCTAGGAATGATCTTGA
** *
67842 TATTTTCTCTAAAGGACACC
66 TCCTTTCTCTAAAGGAAACC
* * ** * *
67862 AAGTCGTAATCAATGGTTGATCTGCTTCTTTCTCTGAATGATTCCAAATCGAAGAATGATCTTGC
1 AAGTCGTAATCAATGGTTGATATGCTTCTTTCTCTGAAGGACACCAAATCTAGGAATGATCTTG-
* *
67927 A-CATTTCTCTAAAGGAAGCC
65 ATCCTTTCTCTAAAGGAAACC
* * * ** * * *
67947 AAGTAGTAATCAAAGGTTGATATGCTCCTTTCTCAAAAGGACGCCAAATTGGGTAGCAATG-TC-
1 AAGTCGTAATCAATGGTTGATATGCTTCTTTCTCTGAAGGACACCAAA-T--CTAGGAATGATCT
*
68010 -GCTCCTTTCTCTAAAGGAAACC
63 TGATCCTTTCTCTAAAGGAAACC
* * * *
68032 AAGTCGTAATCAATGGTTGATTTGCTTCATTATCTGAAGGACACCAAATCTCGGAATGATCTTGA
1 AAGTCGTAATCAATGGTTGATATGCTTCTTTCTCTGAAGGACACCAAATCTAGGAATGATCTTGA
* *
68097 TCCTTTATCTGAAGGA
66 TCCTTTCTCTAAAGGA
68113 TGCTAAGTCA
Statistics
Matches: 196, Mismatches: 47, Indels: 16
0.76 0.18 0.06
Matches are distributed among these distances:
82 6 0.03
83 2 0.01
84 1 0.01
85 179 0.91
86 1 0.01
87 2 0.01
88 5 0.03
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.32
Consensus pattern (85 bp):
AAGTCGTAATCAATGGTTGATATGCTTCTTTCTCTGAAGGACACCAAATCTAGGAATGATCTTGA
TCCTTTCTCTAAAGGAAACC
Found at i:94474 original size:65 final size:65
Alignment explanation
Indices: 94404--94631 Score: 194
Period size: 65 Copynumber: 3.4 Consensus size: 65
94394 TACGATAATA
** **
94404 TGCTCCCTTGTGAGTCACTCTAATCCTTCGGATCTCCCGTGCAAGTCAAAATAATTACGATTAGG
1 TGCTCCCTTGCAAGTCACTCTAATCCTTCGGGGCTCCCGTGCAAGTCAAAATAATTACGATTAGG
* * * * *
94469 TGCTCCCTGGCAAGTCACACTAATCCTTCGGGGCTCCTGTGCAAGTCACCCGAGATAATTACAAT
1 TGCTCCCTTGCAAGTCACTCTAATCCTTCGGGGCTCCCGTGCAAGTCA----AAATAATTACGAT
94534 TAGG
62 TAGG
* * * * ** * * *
94538 TGCT-CCGTG-TAGTCA--CTATTCCTTAGGGGCTTTCGTGCGAGTAACCAAGCATAATCACGAT
1 TGCTCCCTTGCAAGTCACTCTAATCCTTCGGGGCTCCCGTGCAAGT---CAA-AATAATTACGAT
94599 TAGG
62 TAGG
94603 TGCTCCCTTGCAAGTCACTCTAATCCTTC
1 TGCTCCCTTGCAAGTCACTCTAATCCTTC
94632 AAGGCTCATG
Statistics
Matches: 126, Mismatches: 25, Indels: 20
0.74 0.15 0.12
Matches are distributed among these distances:
64 1 0.01
65 79 0.63
66 4 0.03
67 10 0.08
68 5 0.04
69 27 0.21
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (65 bp):
TGCTCCCTTGCAAGTCACTCTAATCCTTCGGGGCTCCCGTGCAAGTCAAAATAATTACGATTAGG
Found at i:94992 original size:76 final size:76
Alignment explanation
Indices: 94820--95343 Score: 642
Period size: 76 Copynumber: 6.9 Consensus size: 76
94810 AACACATCAC
* * * * * * *
94820 AATTCTAGCAGTGAAATTTAACATTGACATACACTAGTGAAACG-ATATGTAATTCTAGCACTAA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCAAGCACTAA
*
94884 ACTTATGACAT
66 ACTTATCACAT
* *
94895 GATTTCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCAAGCACTAA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCAAGCACTAA
94960 ACTTATCACAT
66 ACTTATCACAT
* * * * * * * * * *
94971 CATTTCAGTAGTCAAATTTAACATTGAGTTACACCAGTAAAATGAATAAGTAATTCCAGCGCTAA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCAAGCACTAA
95036 ACTTATCACAT
66 ACTTATCACAT
* * * ** *
95047 AATTCCAGTAATGAAACTTAACATTAACTTACACCAACGAAATGAATACGTAATTCCAGCACTAA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCAAGCACTAA
95112 ACTTATCACAT
66 ACTTATCACAT
* * * *
95123 AATTTCAACAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGAAATTCCAGCACTAA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCAAGCACTAA
95188 ACTTATCACAT
66 ACTTATCACAT
* * * *
95199 AATTCCAGCAATGAAATTTAAAATTGACTTACACCAGTAAAATGAATACGTAATTCCAA-CAACT
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATT-CAAGC-ACT
95263 -AACTTATCACAT
64 AAACTTATCACAT
** * * *
95275 AATTCCAGCAACGAAACTTAACATTGACTTACATCAGTGAAATGAATATGTAACTCCAA-CACTA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAA-TTCAAGCACTA
95339 AACTT
65 AACTT
95344 TGAAGCTTAA
Statistics
Matches: 390, Mismatches: 54, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
75 40 0.10
76 344 0.88
77 6 0.02
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.28
Consensus pattern (76 bp):
AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCAAGCACTAA
ACTTATCACAT
Found at i:95269 original size:228 final size:228
Alignment explanation
Indices: 94868--95343 Score: 711
Period size: 228 Copynumber: 2.1 Consensus size: 228
94858 GAAACGATAT
* * * *
94868 GTAATTCTAGCACTAAACTTATGACATGATTTCAGCAGTGAAACTTAACATTGACTTACACCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTTCAACAGTGAAACTTAACATTGACTTACACCAGT
* * * * * *
94933 GAAATGAATACGTAATTCAAGCACTAAACTTATCACATCATTTCAGTAGTCAAATTTAACATTGA
66 GAAATGAATACGAAATTCAAGCACTAAACTTATCACATAATTCCAGCAATCAAATTTAAAATTGA
* * * * *
94998 GTTACACCAGTAAAATGAATAAGTAATTCCAGCGCTAAACTTATCACATAATTCCAGTAATGAAA
131 CTTACACCAGTAAAATGAATAAGTAATTCCAACACTAAACTTATCACATAATTCCAGCAACGAAA
95063 CTTAACATTAACTTACACCAACGAAATGAATAC
196 CTTAACATTAACTTACACCAACGAAATGAATAC
95096 GTAATTCCAGCACTAAACTTATCACATAATTTCAACAGTGAAACTTAACATTGACTTACACCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTTCAACAGTGAAACTTAACATTGACTTACACCAGT
* *
95161 GAAATGAATACGAAATTCCAGCACTAAACTTATCACATAATTCCAGCAATGAAATTTAAAATTGA
66 GAAATGAATACGAAATTCAAGCACTAAACTTATCACATAATTCCAGCAATCAAATTTAAAATTGA
*
95226 CTTACACCAGTAAAATGAATACGTAATTCCAACAACT-AACTTATCACATAATTCCAGCAACGAA
131 CTTACACCAGTAAAATGAATAAGTAATTCCAAC-ACTAAACTTATCACATAATTCCAGCAACGAA
* * ** *
95290 ACTTAACATTGACTTACATCAGTGAAATGAATAT
195 ACTTAACATTAACTTACACCAACGAAATGAATAC
* *
95324 GTAACTCCAACACTAAACTT
1 GTAATTCCAGCACTAAACTT
95344 TGAAGCTTAA
Statistics
Matches: 222, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
228 220 0.99
229 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (228 bp):
GTAATTCCAGCACTAAACTTATCACATAATTTCAACAGTGAAACTTAACATTGACTTACACCAGT
GAAATGAATACGAAATTCAAGCACTAAACTTATCACATAATTCCAGCAATCAAATTTAAAATTGA
CTTACACCAGTAAAATGAATAAGTAATTCCAACACTAAACTTATCACATAATTCCAGCAACGAAA
CTTAACATTAACTTACACCAACGAAATGAATAC
Found at i:95362 original size:58 final size:58
Alignment explanation
Indices: 95291--95401 Score: 181
Period size: 58 Copynumber: 1.9 Consensus size: 58
95281 AGCAACGAAA
95291 CTTAACATTGACTTACATCAGTGAAATGAATATGTAACTCCA-A-CACTAAACTTTGAAG
1 CTTAACATTGACTTACATCAGTGAAATGAATATGTAA-T-CATAGCACTAAACTTTGAAG
*
95349 CTTAATATTGACTTACATCAGTGAAATGAATATGTAATCATAGCACTAAACTT
1 CTTAACATTGACTTACATCAGTGAAATGAATATGTAATCATAGCACTAAACTT
95402 ATCACATAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
56 2 0.04
57 2 0.04
58 46 0.92
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.32
Consensus pattern (58 bp):
CTTAACATTGACTTACATCAGTGAAATGAATATGTAATCATAGCACTAAACTTTGAAG
Found at i:95472 original size:134 final size:134
Alignment explanation
Indices: 95216--95477 Score: 334
Period size: 134 Copynumber: 2.0 Consensus size: 134
95206 GCAATGAAAT
95216 TTAAAATTGACTTACACCAGTAAAATGAATACGTAATTCCAACAACTAACTTATCACATAATTCC
1 TTAAAATTGACTTACACCAGTAAAATGAATACGTAATTCCAACAACTAACTTATCACATAATTCC
* *
95281 AGCAACGAAACTTAACATTGACTTACATCAGTGAAATGAATATGTAACTCCAACACTAAACTTTG
66 AGCAACGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAACTCCAACACTAAACTTTG
95346 AAGC
131 AAGC
* * * *
95350 TTAATATTGACTTACATCAGTGAAATGAATATGTAA-T-CATAGC-ACTAAACTTATCACATAAT
1 TTAAAATTGACTTACACCAGTAAAATGAATACGTAATTCCA-A-CAACT-AACTTATCACATAAT
* * ** * * * *
95412 TGCTGCAGTGAAATTTATCATTGACTTACACCAGTGAAATGACTACGTAA-TTCAAGCACTAAAC
63 TCCAGCAACGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAACTCCAA-CACTAAAC
95476 TT
127 TT
95478 ATCACATCAT
Statistics
Matches: 110, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
132 2 0.02
133 9 0.08
134 99 0.90
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.29
Consensus pattern (134 bp):
TTAAAATTGACTTACACCAGTAAAATGAATACGTAATTCCAACAACTAACTTATCACATAATTCC
AGCAACGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAACTCCAACACTAAACTTTG
AAGC
Found at i:95481 original size:76 final size:76
Alignment explanation
Indices: 95355--95641 Score: 357
Period size: 76 Copynumber: 3.8 Consensus size: 76
95345 GAAGCTTAAT
* * * *
95355 ATTGACTTACATCAGTGAAATGAATATGTAA-TCATAGCACTAAACTTATCACATAATTGCTGCA
1 ATTGACTTACACCAGTGAAATGAATACGTAATTCA-AGCACTAAACTTATCACATAATTCCAGCA
95419 GTGAAATTTATC
65 GTGAAATTTATC
* * *
95431 ATTGACTTACACCAGTGAAATGACTACGTAATTCAAGCACTAAACTTATCACATCATTTCAGCAG
1 ATTGACTTACACCAGTGAAATGAATACGTAATTCAAGCACTAAACTTATCACATAATTCCAGCAG
95496 TGAAATTTAAT-
66 TGAAATTT-ATC
* * * **
95507 ATTGACTTA-ACCCAGTAAAATGAATACGTAATTCCAGCGCTAAACTTATCACATAATTCCAATA
1 ATTGACTTACA-CCAGTGAAATGAATACGTAATTCAAGCACTAAACTTATCACATAATTCCAGCA
* * *
95571 ATGAAACTTAAC
65 GTGAAATTTATC
* * *
95583 ATTAACTTATACCA-TGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTCC
1 ATTGACTTACACCAGTGAAATGAATACGTAATTCAAGCACTAAACTTATCACATAATTCC
95642 TGCACTAAAC
Statistics
Matches: 186, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
75 45 0.24
76 135 0.73
77 6 0.03
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (76 bp):
ATTGACTTACACCAGTGAAATGAATACGTAATTCAAGCACTAAACTTATCACATAATTCCAGCAG
TGAAATTTATC
Found at i:95513 original size:210 final size:210
Alignment explanation
Indices: 95134--95553 Score: 551
Period size: 210 Copynumber: 2.0 Consensus size: 210
95124 ATTTCAACAG
95134 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGAAATTCCAGCACTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGAAATTCCAGCACTAAACTTATCACAT
95199 AATTCCAGCAATGAAATTTAAAATTGACTTACACCAGTAAAATGAATACGTAATTCCAACAACTA
66 AATTCCAGCAATGAAATTTAAAATTGACTTACACCAGTAAAATGAATACGTAATTCCAACAACTA
* * *
95264 ACTTATCACATAATTCCAGCAACGAAACTTAACATTGACTT-ACATCAGTGAAATGAATATGTAA
131 ACTTATCACATAATTCCAGCAACGAAACTTAACATTGACTTAAC-CCAGTAAAATGAATACGTAA
95328 CTCCAACACTAAACTT
195 CTCCAACACTAAACTT
* * * * * *
95344 TGAAGCTTAATATTGACTTACATCAGTGAAATGAATATGTAA-TCATAGCACTAAACTTATCACA
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGAAATTC-CAGCACTAAACTTATCACA
* * * ** * *
95408 TAATTGCTGCAGTGAAATTTATCATTGACTTACACCAGTGAAATGACTACGTAATT-CAAGC-AC
65 TAATTCCAGCAATGAAATTTAAAATTGACTTACACCAGTAAAATGAATACGTAATTCCAA-CAAC
* * ** * *
95471 TAAACTTATCACATCATTTCAGCAGTGAAATTTAATATTGACTTAACCCAGTAAAATGAATACGT
129 T-AACTTATCACATAATTCCAGCAACGAAACTTAACATTGACTTAACCCAGTAAAATGAATACGT
* * *
95536 AATTCCAGCGCTAAACTT
193 AACTCCAACACTAAACTT
95554 ATCACATAAT
Statistics
Matches: 181, Mismatches: 25, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
209 8 0.04
210 171 0.94
211 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (210 bp):
TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGAAATTCCAGCACTAAACTTATCACAT
AATTCCAGCAATGAAATTTAAAATTGACTTACACCAGTAAAATGAATACGTAATTCCAACAACTA
ACTTATCACATAATTCCAGCAACGAAACTTAACATTGACTTAACCCAGTAAAATGAATACGTAAC
TCCAACACTAAACTT
Found at i:95646 original size:25 final size:25
Alignment explanation
Indices: 95610--95705 Score: 165
Period size: 25 Copynumber: 3.8 Consensus size: 25
95600 AATGAATACG
*
95610 TAATTCCAGCACTAAACTTATCACA
1 TAATTCCTGCACTAAACTTATCACA
95635 TAATTCCTGCACTAAACTTATCACA
1 TAATTCCTGCACTAAACTTATCACA
95660 TAATTCCTGCACTAAACTTATCACA
1 TAATTCCTGCACTAAACTTATCACA
*
95685 TAATTCCTGCAGTGAAACTTA
1 TAATTCCTGCACT-AAACTTA
95706 ACATTGACTT
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
25 61 0.90
26 7 0.10
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (25 bp):
TAATTCCTGCACTAAACTTATCACA
Found at i:95714 original size:201 final size:202
Alignment explanation
Indices: 95467--95839 Score: 545
Period size: 201 Copynumber: 1.9 Consensus size: 202
95457 CGTAATTCAA
* * * * *
95467 GCACTAAACTTATCACATCATTTCAGCAGTGAAATTTAATATTGACTTA-ACCCAGTAAAATGAA
1 GCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACA-CCAGCAAAATGAA
* * *
95531 TACGTAATTCCAGCGCTAAACTTATCACATAATTCCAATAATGAAACTTAACATTAACTT-ATAC
65 TACATAATTCCAGCACTAAACTTATCACATAATTCCAATAATGAAACTTAACAATAACTTGA-AC
95595 CA-TGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTCCTGCACTAAACTTATCAC
129 CAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTCCTGCACTAAACTTATCAC
95659 ATAATTCCT
194 ATAATTCCT
*
95668 GCACTAAACTTATCACATAATTCCTGCAGTGAAACTTAACATTGACTTACACCAGCAAAATGAAT
1 GCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGCAAAATGAAT
* * * * * * * *
95733 ACATAATTCTATCATTAAATTTATCACCTAATTTCAATAGTGAAACTTAACAATGACTTGAACCA
66 ACATAATTCCAGCACTAAACTTATCACATAATTCCAATAATGAAACTTAACAATAACTTGAACCA
*
95798 GTGAAATGAATACGTAATTCCAGCACTAAACTTTTCACATAA
131 GTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAA
95840 GTCAAGGAGT
Statistics
Matches: 151, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
201 109 0.72
202 42 0.28
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (202 bp):
GCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGCAAAATGAAT
ACATAATTCCAGCACTAAACTTATCACATAATTCCAATAATGAAACTTAACAATAACTTGAACCA
GTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTCCTGCACTAAACTTATCACAT
AATTCCT
Found at i:95757 original size:76 final size:76
Alignment explanation
Indices: 95657--95871 Score: 227
Period size: 76 Copynumber: 2.8 Consensus size: 76
95647 TAAACTTATC
* * *
95657 ACATAATTCCTGCACTAAACTTATCACATAATTCCTGCAGTGAAACTTAACATTGACTTACACCA
1 ACATAATTCCAGCACTAAATTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCA
95722 GCAAAATGAAT
66 GCAAAATGAAT
* * * * * ** *
95733 ACATAATTCTATCATTAAATTTATCACCTAATTTCAATAGTGAAACTTAACAATGACTTGA-ACC
1 ACATAATTCCAGCACTAAATTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTT-ACACC
**
95797 AGTGAAATGAAT
65 AGCAAAATGAAT
* * * * * *
95809 ACGTAATTCCAGCACTAAACTTT-TCACATAAGTCAAGGAGTGAAACTGAAAATTGACTTACAC
1 ACATAATTCCAGCACTAAA-TTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACAC
95872 TAGTATACTG
Statistics
Matches: 110, Mismatches: 26, Indels: 6
0.77 0.18 0.04
Matches are distributed among these distances:
75 1 0.01
76 105 0.95
77 4 0.04
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (76 bp):
ACATAATTCCAGCACTAAATTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCA
GCAAAATGAAT
Found at i:100243 original size:21 final size:21
Alignment explanation
Indices: 100219--100327 Score: 91
Period size: 21 Copynumber: 5.0 Consensus size: 21
100209 ACAGCTAGTA
100219 ATTTGCACCGAAGTGCCACAT
1 ATTTGCACCGAAGTGCCACAT
*
100240 ATTTATC-CCGAA-TGACCACAT
1 ATTT-GCACCGAAGTG-CCACAT
*
100261 AGTTTTGCACCAAAGTGCCACAT
1 A--TTTGCACCGAAGTGCCACAT
* *
100284 AGATTGCACCGAAGTGCCATAT
1 A-TTTGCACCGAAGTGCCACAT
100306 ATTTGTC-CCGAA-TGACCACAT
1 ATTTG-CACCGAAGTG-CCACAT
100327 A
1 A
100328 AAACCCTCGA
Statistics
Matches: 71, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
20 4 0.06
21 30 0.42
22 21 0.30
23 14 0.20
24 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (21 bp):
ATTTGCACCGAAGTGCCACAT
Found at i:100293 original size:22 final size:23
Alignment explanation
Indices: 100255--100302 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
100245 TCCCGAATGA
*
100255 CCACATAGTTTTGCACCAAAGTG
1 CCACATAGTATTGCACCAAAGTG
*
100278 CCACATAG-ATTGCACCGAAGTG
1 CCACATAGTATTGCACCAAAGTG
100300 CCA
1 CCA
100303 TATATTTGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (23 bp):
CCACATAGTATTGCACCAAAGTG
Found at i:100487 original size:21 final size:21
Alignment explanation
Indices: 100461--100512 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
100451 CATAGAGTCT
100461 GTTCACATTTACTGGTTCAAA
1 GTTCACATTTACTGGTTCAAA
* * *
100482 GTTCACATTCATTTGTTCAAA
1 GTTCACATTTACTGGTTCAAA
100503 GTTCACATTT
1 GTTCACATTT
100513 CCATAATTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (21 bp):
GTTCACATTTACTGGTTCAAA
Found at i:100553 original size:21 final size:21
Alignment explanation
Indices: 100514--100553 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
100504 TTCACATTTC
*
100514 CATAATTGTATGATCATAAAA
1 CATAATTGTATAATCATAAAA
100535 CATAACTTGTATAAT-ATAA
1 CATAA-TTGTATAATCATAA
100554 CTTGAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (21 bp):
CATAATTGTATAATCATAAAA
Found at i:100809 original size:48 final size:48
Alignment explanation
Indices: 100701--100797 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
100691 CACAAAACAA
100701 TCGAAAATCAATATCGTTCTTCGGATCATTTCTAACGAATCAAATAAC
1 TCGAAAATCAATATCGTTCTTCGGATCATTTCTAACGAATCAAATAAC
100749 TCGAAAATCAATATCGTTCTTCGGATCA-TTCTAACGAATCAGAATAAC
1 TCGAAAATCAATATCGTTCTTCGGATCATTTCTAACGAATCA-AATAAC
100797 T
1 T
100798 TGTGATGCAA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 13 0.27
48 35 0.73
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.31
Consensus pattern (48 bp):
TCGAAAATCAATATCGTTCTTCGGATCATTTCTAACGAATCAAATAAC
Found at i:100986 original size:40 final size:42
Alignment explanation
Indices: 100940--101018 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
100930 TCCTAAAAAT
* *
100940 AGTATCGATACCATCC-C-CCTGGTATCAATACTACCCTCTC
1 AGTATCGATACCATCCTCAACGGGTATCAATACTACCCTCTC
* *
100980 AGTATCGATACCCTCCTCAACGGGTATCGATACTACCCT
1 AGTATCGATACCATCCTCAACGGGTATCAATACTACCCT
101019 TAAGAAATAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 15 0.45
41 1 0.03
42 17 0.52
ACGTcount: A:0.25, C:0.35, G:0.13, T:0.27
Consensus pattern (42 bp):
AGTATCGATACCATCCTCAACGGGTATCAATACTACCCTCTC
Found at i:103806 original size:15 final size:15
Alignment explanation
Indices: 103786--103815 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
103776 ATAAAGTATG
103786 AAAAGTAAGAAAAAA
1 AAAAGTAAGAAAAAA
*
103801 AAAAGTAATAAAAAA
1 AAAAGTAAGAAAAAA
103816 CCTGCAGAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (15 bp):
AAAAGTAAGAAAAAA
Found at i:104377 original size:16 final size:15
Alignment explanation
Indices: 104341--104382 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
104331 ATTATTTTAA
104341 ATAT-TTTTAAAAAT
1 ATATATTTTAAAAAT
*
104355 -TAAATTTTATAAAAT
1 ATATATTTTA-AAAAT
104370 ATATATTTTAAAA
1 ATATATTTTAAAA
104383 TTACTAGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
13 2 0.09
14 5 0.22
15 8 0.35
16 8 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATATTTTAAAAAT
Found at i:104948 original size:40 final size:40
Alignment explanation
Indices: 104879--104982 Score: 149
Period size: 39 Copynumber: 2.6 Consensus size: 40
104869 TTAGATTTTT
* *
104879 ATTTCTTAA-TTCTCAAATCATTTCACCATAAAATTATAA
1 ATTTCTTAATTTCTTAAATTATTTCACCATAAAATTATAA
* *
104918 ATTTCTTAATTTCTTAAATTATTTCACCATAACATTCTAA
1 ATTTCTTAATTTCTTAAATTATTTCACCATAAAATTATAA
*
104958 A-TTATTAATTTCTTAAATTATTTCA
1 ATTTCTTAATTTCTTAAATTATTTCA
104983 TTCTCAAAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
39 32 0.54
40 27 0.46
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (40 bp):
ATTTCTTAATTTCTTAAATTATTTCACCATAAAATTATAA
Found at i:110693 original size:18 final size:18
Alignment explanation
Indices: 110672--110749 Score: 92
Period size: 18 Copynumber: 4.5 Consensus size: 18
110662 CATTTTTTTC
* *
110672 TTTTCTTTTCATTTTCTG
1 TTTTCTTTTCTTTTTCTA
*
110690 TTTTTTTTTC-TTTTC-A
1 TTTTCTTTTCTTTTTCTA
110706 TTTTC-TTTCTTTTTCTA
1 TTTTCTTTTCTTTTTCTA
110723 TTTTCTTTTCTTTTTCT-
1 TTTTCTTTTCTTTTTCTA
110740 TCTTTCTTTT
1 T-TTTCTTTT
110750 TTTGTTTCTT
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
15 4 0.08
16 9 0.17
17 12 0.23
18 28 0.53
ACGTcount: A:0.04, C:0.17, G:0.01, T:0.78
Consensus pattern (18 bp):
TTTTCTTTTCTTTTTCTA
Found at i:110693 original size:23 final size:22
Alignment explanation
Indices: 110666--110749 Score: 91
Period size: 23 Copynumber: 3.7 Consensus size: 22
110656 ATCTCTCATT
110666 TTTTTCTTTTCTTTTCATTTTC
1 TTTTTCTTTTCTTTTCATTTTC
*
110688 TGTTTTTTTTTCTTTTCATTTTC
1 T-TTTTCTTTTCTTTTCATTTTC
*
110711 TTTCTT-TTTCTATTTTC-TTTTC
1 TTT-TTCTTT-TCTTTTCATTTTC
110733 TTTTTCTTCTTTCTTTT
1 TTTTTC-T-TTTCTTTT
110750 TTTGTTTCTT
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
21 2 0.04
22 14 0.26
23 35 0.66
24 2 0.04
ACGTcount: A:0.04, C:0.17, G:0.01, T:0.79
Consensus pattern (22 bp):
TTTTTCTTTTCTTTTCATTTTC
Found at i:110701 original size:28 final size:26
Alignment explanation
Indices: 110664--110759 Score: 104
Period size: 28 Copynumber: 3.4 Consensus size: 26
110654 TTATCTCTCA
110664 TTTTTTTCTTTTCTTTTCATTTTCTGTT
1 TTTTTTTCTTTTCTTTTC-TTTTCT-TT
110692 TTTTTTTCTTTTCATTTTC-TTTCTTT
1 TTTTTTTCTTTTC-TTTTCTTTTCTTT
110718 TTCTATTTTCTTTTCTTTTTCTTCTTTCTTT
1 TT-T-TTTTCTTTTC-TTTTC-T-TTTCTTT
110749 TTTTGTTTCTT
1 TTTT-TTTCTT
110760 CATTTTTGTT
Statistics
Matches: 60, Mismatches: 1, Indels: 12
0.82 0.01 0.16
Matches are distributed among these distances:
26 4 0.07
27 6 0.10
28 28 0.47
29 6 0.10
30 7 0.12
31 9 0.15
ACGTcount: A:0.03, C:0.16, G:0.02, T:0.79
Consensus pattern (26 bp):
TTTTTTTCTTTTCTTTTCTTTTCTTT
Found at i:110720 original size:39 final size:37
Alignment explanation
Indices: 110667--110779 Score: 124
Period size: 39 Copynumber: 2.9 Consensus size: 37
110657 TCTCTCATTT
110667 TTTTCTTTTCTTTTCATTTTCTGTTTTTTTTTCTTTTC
1 TTTTCTTTT-TTTTCATTTTCTGTTTTTTTTTCTTTTC
*
110705 ATTTTCTTTCTTTTTCTATTTTCT-TTTCTTTTTCTTCTTTC
1 -TTTTCTTT-TTTTTC-ATTTTCTGTTTTTTTTTC-T-TTTC
110746 TTTT-TTTGTTTCTTCATTTT-TGTTTTTTTTTCTT
1 TTTTCTTT-TTT-TTCATTTTCTGTTTTTTTTTCTT
110780 ATATAATATA
Statistics
Matches: 65, Mismatches: 3, Indels: 14
0.79 0.04 0.17
Matches are distributed among these distances:
37 1 0.02
38 2 0.03
39 42 0.65
40 16 0.25
41 4 0.06
ACGTcount: A:0.04, C:0.15, G:0.03, T:0.79
Consensus pattern (37 bp):
TTTTCTTTTTTTTCATTTTCTGTTTTTTTTTCTTTTC
Found at i:113642 original size:47 final size:41
Alignment explanation
Indices: 113584--113817 Score: 228
Period size: 47 Copynumber: 5.5 Consensus size: 41
113574 CCATTTATCC
*
113584 CATAAGATCGTAAGCTTATTTTACCAAAATACTTACCATTTAAATT
1 CATAAGCTCGTAAGCTTATTTTA-C-AAATACTTACCA-TT--ATT
* *
113630 CCATAAGCTCGTAAGCTTATTTTATCAACACACTTGCCATTTAAATT
1 -CATAAGCTCGTAAGCTTATTTTA-CAA-ATACTTACCA-TT--ATT
* ** * *
113677 CCATACGCTCAAAAGCTTAATTTATCAATATACTTGCCATTATT
1 -CATAAGCTCGTAAGCTTATTTTA-CAA-ATACTTACCATTATT
113721 CATAAGCTCGTAAGCTTA-TTTAC--ATACTTACCATTATT
1 CATAAGCTCGTAAGCTTATTTTACAAATACTTACCATTATT
113759 CATAAGCTCGTAAGCTTA-TTTAC--ATACTTACCATTATT
1 CATAAGCTCGTAAGCTTATTTTACAAATACTTACCATTATT
113797 CATAAGCTCGTAAGCTTATTT
1 CATAAGCTCGTAAGCTTATTT
113818 GCATACTTAC
Statistics
Matches: 171, Mismatches: 14, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
38 70 0.41
39 2 0.01
41 1 0.01
42 4 0.02
43 15 0.09
44 3 0.02
46 4 0.02
47 72 0.42
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (41 bp):
CATAAGCTCGTAAGCTTATTTTACAAATACTTACCATTATT
Found at i:113748 original size:38 final size:38
Alignment explanation
Indices: 113706--113831 Score: 234
Period size: 38 Copynumber: 3.3 Consensus size: 38
113696 ATTTATCAAT
*
113706 ATACTTGCCATTATTCATAAGCTCGTAAGCTTATTTAC
1 ATACTTACCATTATTCATAAGCTCGTAAGCTTATTTAC
113744 ATACTTACCATTATTCATAAGCTCGTAAGCTTATTTAC
1 ATACTTACCATTATTCATAAGCTCGTAAGCTTATTTAC
*
113782 ATACTTACCATTATTCATAAGCTCGTAAGCTTATTTGC
1 ATACTTACCATTATTCATAAGCTCGTAAGCTTATTTAC
113820 ATACTTACCATT
1 ATACTTACCATT
113832 TATTAACTAA
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 86 1.00
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (38 bp):
ATACTTACCATTATTCATAAGCTCGTAAGCTTATTTAC
Found at i:114358 original size:29 final size:29
Alignment explanation
Indices: 114300--114365 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
114290 CATATCAATG
* * *
114300 TCAATTTTCCAAAATTTACGAATTTATCC
1 TCAATTTTCCAAAACTTACGAAATGATCC
*
114329 TCAACTTTT-CAAAACTTACGAAATGGTCC
1 TCAA-TTTTCCAAAACTTACGAAATGATCC
114358 TCAATTTT
1 TCAATTTT
114366 ACTAAGGCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 4 0.12
29 24 0.75
30 4 0.12
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.39
Consensus pattern (29 bp):
TCAATTTTCCAAAACTTACGAAATGATCC
Found at i:120503 original size:18 final size:18
Alignment explanation
Indices: 120480--120514 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
120470 TTCCATCCGG
*
120480 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
120498 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
120515 GTCCTTTCGA
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:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:121797 original size:28 final size:28
Alignment explanation
Indices: 121757--121821 Score: 130
Period size: 28 Copynumber: 2.3 Consensus size: 28
121747 TAGGAATACT
121757 CGGTCAAAGTCAAAGGTCGTTTAATGCC
1 CGGTCAAAGTCAAAGGTCGTTTAATGCC
121785 CGGTCAAAGTCAAAGGTCGTTTAATGCC
1 CGGTCAAAGTCAAAGGTCGTTTAATGCC
121813 CGGTCAAAG
1 CGGTCAAAG
121822 CAGTCAAAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (28 bp):
CGGTCAAAGTCAAAGGTCGTTTAATGCC
Found at i:121886 original size:19 final size:19
Alignment explanation
Indices: 121857--121912 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
121847 CAACCGTCAA
* *
121857 CGGTTCGGTCCAGTCGGTT
1 CGGTCCGGTCCAGGCGGTT
* *
121876 CGTTCCGGTCCAGGCTGTT
1 CGGTCCGGTCCAGGCGGTT
121895 CGGTCCGGTCCAGGCGGT
1 CGGTCCGGTCCAGGCGGT
121913 CCAGTCCAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.05, C:0.30, G:0.38, T:0.27
Consensus pattern (19 bp):
CGGTCCGGTCCAGGCGGTT
Found at i:121919 original size:19 final size:19
Alignment explanation
Indices: 121879--121919 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
121869 GTCGGTTCGT
* * *
121879 TCCGGTCCAGGCTGTTCGG
1 TCCGGTCCAGGCGGTCCAG
121898 TCCGGTCCAGGCGGTCCAG
1 TCCGGTCCAGGCGGTCCAG
121917 TCC
1 TCC
121920 AAGCGGCTCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.07, C:0.37, G:0.34, T:0.22
Consensus pattern (19 bp):
TCCGGTCCAGGCGGTCCAG
Found at i:121958 original size:31 final size:31
Alignment explanation
Indices: 121923--121999 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
121913 CCAGTCCAAG
*
121923 CGGCTCGATCGGCTCGGTC-GATCAGCTCGGT
1 CGGCTCGGTCGGCTCGGTCGGATCAG-TCGGT
* *
121954 CGGCTCGGTCAGCTCGGTCGGCTCAGTCGGT
1 CGGCTCGGTCGGCTCGGTCGGATCAGTCGGT
121985 CGGCTCGGTCGGCTC
1 CGGCTCGGTCGGCTC
122000 AACTGGTTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 36 0.88
32 5 0.12
ACGTcount: A:0.06, C:0.34, G:0.38, T:0.22
Consensus pattern (31 bp):
CGGCTCGGTCGGCTCGGTCGGATCAGTCGGT
Found at i:121961 original size:9 final size:9
Alignment explanation
Indices: 121923--121999 Score: 64
Period size: 9 Copynumber: 7.7 Consensus size: 9
121913 CCAGTCCAAG
*
121923 CGGCTCGAT
1 CGGCTCGGT
121932 CGGCTCGGT
1 CGGCTCGGT
121941 CGATCAGCTCGGT
1 CG----GCTCGGT
121954 CGGCTCGGT
1 CGGCTCGGT
*
121963 CAGCTCGGT
1 CGGCTCGGT
121972 CGGCTCAGTCGGT
1 CGG--C--TCGGT
121985 CGGCTCGGT
1 CGGCTCGGT
121994 CGGCTC
1 CGGCTC
122000 AACTGGTTCA
Statistics
Matches: 57, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
9 38 0.67
11 2 0.04
13 17 0.30
ACGTcount: A:0.06, C:0.34, G:0.38, T:0.22
Consensus pattern (9 bp):
CGGCTCGGT
Found at i:121996 original size:13 final size:13
Alignment explanation
Indices: 121931--121996 Score: 71
Period size: 13 Copynumber: 5.0 Consensus size: 13
121921 AGCGGCTCGA
*
121931 TCGGCTCGGTCGA
1 TCGGCTCGGTCGG
*
121944 TCAGCTCGGTCGG
1 TCGGCTCGGTCGG
*
121957 CTCGG-TCAGCTCGG
1 -TCGGCTC-GGTCGG
*
121971 TCGGCTCAGTCGG
1 TCGGCTCGGTCGG
121984 TCGGCTCGGTCGG
1 TCGGCTCGGTCGG
121997 CTCAACTGGT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
13 33 0.77
14 10 0.23
ACGTcount: A:0.06, C:0.32, G:0.39, T:0.23
Consensus pattern (13 bp):
TCGGCTCGGTCGG
Found at i:122000 original size:22 final size:22
Alignment explanation
Indices: 121925--122000 Score: 88
Period size: 22 Copynumber: 3.6 Consensus size: 22
121915 AGTCCAAGCG
* * *
121925 GCTCGATCGGCTCGGTCGATCA
1 GCTCGGTCGGCTCAGTCGGTCA
121947 GCTCGGTCGG--C--TCGGTCA
1 GCTCGGTCGGCTCAGTCGGTCA
*
121965 GCTCGGTCGGCTCAGTCGGTCG
1 GCTCGGTCGGCTCAGTCGGTCA
121987 GCTCGGTCGGCTCA
1 GCTCGGTCGGCTCA
122001 ACTGGTTCAC
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
18 16 0.34
20 2 0.04
22 29 0.62
ACGTcount: A:0.08, C:0.33, G:0.37, T:0.22
Consensus pattern (22 bp):
GCTCGGTCGGCTCAGTCGGTCA
Found at i:125720 original size:18 final size:18
Alignment explanation
Indices: 125697--125731 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
125687 TTCCATCCGG
*
125697 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
125715 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
125732 GTCCTTTCGA
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:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:127105 original size:19 final size:19
Alignment explanation
Indices: 127043--127098 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
127033 CAACGGTCAA
*
127043 CGGTTCGGTCCAGGCGGTT
1 CGGTCCGGTCCAGGCGGTT
*
127062 CGGTCCGGTCCAGGCTGTT
1 CGGTCCGGTCCAGGCGGTT
127081 CGGTCCGGTCCAGGCGGT
1 CGGTCCGGTCCAGGCGGT
127099 CCAGTCCAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.05, C:0.30, G:0.41, T:0.23
Consensus pattern (19 bp):
CGGTCCGGTCCAGGCGGTT
Found at i:127176 original size:22 final size:22
Alignment explanation
Indices: 127133--127177 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
127123 CAGTCGGTCA
* * *
127133 GATCGGTCGGCTCGGTCTGCTC
1 GATCGATCGGCTCGGCCGGCTC
127155 GATCGATCGGCTCGGCCGGCTC
1 GATCGATCGGCTCGGCCGGCTC
127177 G
1 G
127178 GTCGGCTCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.07, C:0.33, G:0.38, T:0.22
Consensus pattern (22 bp):
GATCGATCGGCTCGGCCGGCTC
Found at i:130883 original size:26 final size:26
Alignment explanation
Indices: 130830--130885 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
130820 TTTATTTTTT
* * * **
130830 TCTATTAAAATTTTATAAGTTCGTTC
1 TCTACTAAAATTTTAGAAATTCAATC
130856 TCTACTAAAATTTTAGAAATTCAATC
1 TCTACTAAAATTTTAGAAATTCAATC
130882 TCTA
1 TCTA
130886 ACATAAGATC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (26 bp):
TCTACTAAAATTTTAGAAATTCAATC
Found at i:136066 original size:73 final size:73
Alignment explanation
Indices: 135977--136118 Score: 212
Period size: 73 Copynumber: 1.9 Consensus size: 73
135967 CCCATAACAT
* * * *
135977 TACATAATATTTTATCAGATGAACATATAGTTCATAACATTACAATATTCAGCATGCAAACATGT
1 TACATAATATATTATCAGATGAACATATAGTCCATAACATTACAATATTCAACATGAAAACATGT
136042 AGGGGACG
66 AGGGGACG
* * * *
136050 TACATAATATATTATCATATGAACATATGGTCCATAACATTACAGTATTCAATATGAAAACATGT
1 TACATAATATATTATCAGATGAACATATAGTCCATAACATTACAATATTCAACATGAAAACATGT
136115 AGGG
66 AGGG
136119 TCTGCAACAG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 61 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (73 bp):
TACATAATATATTATCAGATGAACATATAGTCCATAACATTACAATATTCAACATGAAAACATGT
AGGGGACG
Found at i:137866 original size:21 final size:21
Alignment explanation
Indices: 137833--137976 Score: 153
Period size: 21 Copynumber: 6.9 Consensus size: 21
137823 CATTAATGAA
*
137833 ATGTGAATATGAAGAGATGTG
1 ATGTTAATATGAAGAGATGTG
* * * *
137854 ATGTTAATGTGAAAATATGTT
1 ATGTTAATATGAAGAGATGTG
*
137875 ATGTTAACATGAAGAGATGTG
1 ATGTTAATATGAAGAGATGTG
* * * *
137896 TTATTAATAGGAAGAAATGTG
1 ATGTTAATATGAAGAGATGTG
*
137917 ATGTTAATGTGAAGAGATGTG
1 ATGTTAATATGAAGAGATGTG
* * * *
137938 ATATTAACATGAATAGATGTT
1 ATGTTAATATGAAGAGATGTG
137959 ATGTTAATATGAAGAGAT
1 ATGTTAATATGAAGAGAT
137977 ATATCTCATC
Statistics
Matches: 95, Mismatches: 28, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 95 1.00
ACGTcount: A:0.40, C:0.01, G:0.25, T:0.34
Consensus pattern (21 bp):
ATGTTAATATGAAGAGATGTG
Found at i:137966 original size:63 final size:64
Alignment explanation
Indices: 137833--137973 Score: 187
Period size: 63 Copynumber: 2.2 Consensus size: 64
137823 CATTAATGAA
* * * * *
137833 ATGTGAATATGAAGAGATGTGATGTTAATGTGAAAATATGTTATGTTAACATGAAGAGATGTGT
1 ATGTTAATATGAAGAAATGTGATGTTAATGTGAAAAGATGTGATATTAACATGAAGAGATGTGT
* * * *
137897 -TATTAATAGGAAGAAATGTGATGTTAATGTGAAGAGATGTGATATTAACATGAATAGATGT-T
1 ATGTTAATATGAAGAAATGTGATGTTAATGTGAAAAGATGTGATATTAACATGAAGAGATGTGT
137959 ATGTTAATATGAAGA
1 ATGTTAATATGAAGA
137974 GATATATCTC
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
62 1 0.02
63 64 0.98
ACGTcount: A:0.40, C:0.01, G:0.25, T:0.34
Consensus pattern (64 bp):
ATGTTAATATGAAGAAATGTGATGTTAATGTGAAAAGATGTGATATTAACATGAAGAGATGTGT
Found at i:138390 original size:21 final size:21
Alignment explanation
Indices: 138365--138448 Score: 87
Period size: 21 Copynumber: 4.0 Consensus size: 21
138355 TAATTTTATG
*
138365 TTAATATCACATCTCTTCATA
1 TTAACATCACATCTCTTCATA
* * ** *
138386 TTAATATCACATTTGATCATG
1 TTAACATCACATCTCTTCATA
* * *
138407 TTAACATTATATCTCTTCACA
1 TTAACATCACATCTCTTCATA
138428 TTAACATCACATCTCTTCATA
1 TTAACATCACATCTCTTCATA
138449 ATCATATCTC
Statistics
Matches: 48, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.33, C:0.23, G:0.02, T:0.42
Consensus pattern (21 bp):
TTAACATCACATCTCTTCATA
Found at i:141064 original size:18 final size:18
Alignment explanation
Indices: 141041--141075 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
141031 TTCCATCCGG
*
141041 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
141059 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
141076 GTCCTTTCGA
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:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:142351 original size:28 final size:28
Alignment explanation
Indices: 142319--142383 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
142309 TAGGTATACT
* * *
142319 CGGTCAAAGTCAAAGGTCGTTTATTGCC
1 CGGTCAAAGTCAAAGGACATTTAATGCC
142347 CGGTCAAAGTCAAAGGACATTTAATGCC
1 CGGTCAAAGTCAAAGGACATTTAATGCC
142375 CGGTCAAAG
1 CGGTCAAAG
142384 CCAATCAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.23
Consensus pattern (28 bp):
CGGTCAAAGTCAAAGGACATTTAATGCC
Found at i:142447 original size:19 final size:19
Alignment explanation
Indices: 142420--142472 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
142410 CAACGGTCAA
* *
142420 CGGTTCGGTCCAGGCAGTT
1 CGGTCCGGTCCAAGCAGTT
**
142439 CGGTCCGGTCCAAGCTTTT
1 CGGTCCGGTCCAAGCAGTT
*
142458 CGGTCTGGTCCAAGC
1 CGGTCCGGTCCAAGC
142473 GGTCTAGTCC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.11, C:0.30, G:0.32, T:0.26
Consensus pattern (19 bp):
CGGTCCGGTCCAAGCAGTT
Found at i:142522 original size:9 final size:9
Alignment explanation
Indices: 142505--142592 Score: 58
Period size: 9 Copynumber: 10.0 Consensus size: 9
142495 CGGCTCGGTA
*
142505 GGTCAGCTC
1 GGTCGGCTC
142514 GGTCGGCTC
1 GGTCGGCTC
*
142523 GGTC-GATC
1 GGTCGGCTC
*
142531 GGCTC-GATC
1 GG-TCGGCTC
142540 GGTCGGCTC
1 GGTCGGCTC
142549 GGTCGGCTC
1 GGTCGGCTC
* *
142558 AGTCTG-TC
1 GGTCGGCTC
**
142566 GGCTTAG-TC
1 GG-TCGGCTC
142575 GGTCGGCTC
1 GGTCGGCTC
*
142584 GGTCAGCTC
1 GGTCGGCTC
142593 AACTGGTTCA
Statistics
Matches: 64, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
8 12 0.19
9 52 0.81
ACGTcount: A:0.07, C:0.31, G:0.38, T:0.25
Consensus pattern (9 bp):
GGTCGGCTC
Found at i:142535 original size:22 final size:22
Alignment explanation
Indices: 142492--142557 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
142482 CAAGCTGCTA
* *
142492 GATCGGCTCGGTAGGTCAGCTC
1 GATCGGCTCGGTCGGTCGGCTC
* *
142514 GGTCGGCTCGGTCGATCGGCTC
1 GATCGGCTCGGTCGGTCGGCTC
142536 GATCGG-TCGGCTCGGTCGGCTC
1 GATCGGCTCGG-TCGGTCGGCTC
142558 AGTCTGTCGG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
21 4 0.11
22 33 0.89
ACGTcount: A:0.08, C:0.30, G:0.39, T:0.23
Consensus pattern (22 bp):
GATCGGCTCGGTCGGTCGGCTC
Found at i:142549 original size:35 final size:36
Alignment explanation
Indices: 142492--142593 Score: 120
Period size: 35 Copynumber: 2.9 Consensus size: 36
142482 CAAGCTGCTA
* * * *
142492 GATCGGCTCGGTAGGTCAGCTCGGTCGGCTCGGTC-
1 GATCGGCTCGATCGGTCGGCTCGGTCGGCTCAGTCT
142527 GATCGGCTCGATCGGTCGGCTCGGTCGGCTCAGTCT
1 GATCGGCTCGATCGGTCGGCTCGGTCGGCTCAGTCT
* *
142563 G-TCGGCT-TAGTCGGTCGGCTCGGTCAGCTCA
1 GATCGGCTCGA-TCGGTCGGCTCGGTCGGCTCA
142594 ACTGGTTCAC
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
34 1 0.02
35 57 0.97
36 1 0.02
ACGTcount: A:0.09, C:0.29, G:0.37, T:0.25
Consensus pattern (36 bp):
GATCGGCTCGATCGGTCGGCTCGGTCGGCTCAGTCT
Found at i:142554 original size:13 final size:13
Alignment explanation
Indices: 142512--142587 Score: 70
Period size: 13 Copynumber: 6.2 Consensus size: 13
142502 GTAGGTCAGC
142512 TCGGTCGGCTCGG
1 TCGGTCGGCTCGG
* *
142525 TCGATCGGCTCGA
1 TCGGTCGGCTCGG
142538 TCGGTCGG--C--
1 TCGGTCGGCTCGG
*
142547 TCGGTCGGCTCAG
1 TCGGTCGGCTCGG
* **
142560 TCTGTCGGCTTAG
1 TCGGTCGGCTCGG
142573 TCGGTCGGCTCGG
1 TCGGTCGGCTCGG
142586 TC
1 TC
142588 AGCTCAACTG
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
9 8 0.16
11 2 0.04
13 41 0.80
ACGTcount: A:0.05, C:0.30, G:0.38, T:0.26
Consensus pattern (13 bp):
TCGGTCGGCTCGG
Found at i:146317 original size:18 final size:18
Alignment explanation
Indices: 146294--146328 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
146284 TTTCATCCGG
*
146294 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
146312 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
146329 GTCCTTTCGA
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:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:147520 original size:28 final size:28
Alignment explanation
Indices: 147488--147552 Score: 130
Period size: 28 Copynumber: 2.3 Consensus size: 28
147478 TAGGAATACT
147488 CGGTCAAAGTCAAAGGTCGTTTAATGCC
1 CGGTCAAAGTCAAAGGTCGTTTAATGCC
147516 CGGTCAAAGTCAAAGGTCGTTTAATGCC
1 CGGTCAAAGTCAAAGGTCGTTTAATGCC
147544 CGGTCAAAG
1 CGGTCAAAG
147553 CCAGTCAAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (28 bp):
CGGTCAAAGTCAAAGGTCGTTTAATGCC
Found at i:147616 original size:19 final size:19
Alignment explanation
Indices: 147589--147641 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
147579 CAACCGTCAA
*
147589 CGGTTCGGTCCAGGCAGTT
1 CGGTCCGGTCCAGGCAGTT
* **
147608 CGGTCCGGTCCAAGCTTTT
1 CGGTCCGGTCCAGGCAGTT
*
147627 CGGTCTGGTCCAGGC
1 CGGTCCGGTCCAGGC
147642 GGTCTAGTCC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.09, C:0.30, G:0.34, T:0.26
Consensus pattern (19 bp):
CGGTCCGGTCCAGGCAGTT
Found at i:147737 original size:9 final size:9
Alignment explanation
Indices: 147725--147779 Score: 60
Period size: 9 Copynumber: 6.2 Consensus size: 9
147715 ATCAGTTCGA
147725 TCGGTCGGC
1 TCGGTCGGC
147734 TCGGTCGGC
1 TCGGTCGGC
* *
147743 TCAGTCTG-
1 TCGGTCGGC
*
147751 TCGGCTCAG-
1 TCGG-TCGGC
147760 TCGGTCGGC
1 TCGGTCGGC
147769 TCGGTCGGC
1 TCGGTCGGC
147778 TC
1 TC
147780 AACTAGTTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
8 6 0.15
9 33 0.85
ACGTcount: A:0.04, C:0.33, G:0.38, T:0.25
Consensus pattern (9 bp):
TCGGTCGGC
Found at i:147775 original size:13 final size:13
Alignment explanation
Indices: 147663--147776 Score: 72
Period size: 13 Copynumber: 8.6 Consensus size: 13
147653 AGCAGCTAGA
147663 TCGGCTCGGTCGG-
1 TCGG-TCGGTCGGC
*
147676 TCAGCTCGGTCGGC
1 TC-GGTCGGTCGGC
**
147690 TCGGTCAATCGGC
1 TCGGTCGGTCGGC
* *
147703 TCGATCGGCTC-GA
1 TCGGTCGG-TCGGC
* *
147716 TCAGTTCGATCGG-
1 TC-GGTCGGTCGGC
147729 TCGGCTCGGTCGGC
1 TCGG-TCGGTCGGC
* *
147743 TCAGTCTGTCGGC
1 TCGGTCGGTCGGC
*
147756 TCAGTCGGTCGGC
1 TCGGTCGGTCGGC
147769 TCGGTCGG
1 TCGGTCGG
147777 CTCAACTAGT
Statistics
Matches: 78, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
12 1 0.01
13 64 0.82
14 13 0.17
ACGTcount: A:0.08, C:0.31, G:0.37, T:0.25
Consensus pattern (13 bp):
TCGGTCGGTCGGC
Found at i:147780 original size:22 final size:22
Alignment explanation
Indices: 147663--147779 Score: 112
Period size: 22 Copynumber: 5.3 Consensus size: 22
147653 AGCAGCTAGA
147663 TCGGCTCGGTCGGTCAGCTCGG
1 TCGGCTCGGTCGGTCAGCTCGG
** * *
147685 TCGGCTCGGTCAATCGGCTCGA
1 TCGGCTCGGTCGGTCAGCTCGG
* * *
147707 TCGGCTCGATCAGTTC-GATCGG
1 TCGGCTCGGTC-GGTCAGCTCGG
*
147729 TCGGCTCGGTCGGCTCAG-TCTG
1 TCGGCTCGGTCGG-TCAGCTCGG
* *
147751 TCGGCTCAGTCGGTCGGCTCGG
1 TCGGCTCGGTCGGTCAGCTCGG
147773 TCGGCTC
1 TCGGCTC
147780 AACTAGTTCA
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
21 4 0.05
22 69 0.91
23 3 0.04
ACGTcount: A:0.08, C:0.32, G:0.36, T:0.25
Consensus pattern (22 bp):
TCGGCTCGGTCGGTCAGCTCGG
Found at i:148808 original size:33 final size:34
Alignment explanation
Indices: 148763--148833 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
148753 CCTTTACAAC
*
148763 TCCCTACTTTTTCA-ATGGCTAA-ACTAGAACCAA
1 TCCCTACTTTTTCACATGGCTAAGA-TAAAACCAA
*
148796 TCCCTA-TCTTTTCACTTGGCTAAGATAAAACCAA
1 TCCCTACT-TTTTCACATGGCTAAGATAAAACCAA
148830 TCCC
1 TCCC
148834 CTTTTACAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
32 1 0.03
33 12 0.36
34 19 0.58
35 1 0.03
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.31
Consensus pattern (34 bp):
TCCCTACTTTTTCACATGGCTAAGATAAAACCAA
Found at i:152413 original size:16 final size:16
Alignment explanation
Indices: 152392--152425 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
152382 AATTTATATA
152392 TTTAAT-ATAATTTTGG
1 TTTAATGAT-ATTTTGG
152408 TTTAATGATATTTTGG
1 TTTAATGATATTTTGG
152424 TT
1 TT
152426 CATGTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (16 bp):
TTTAATGATATTTTGG
Found at i:152458 original size:16 final size:17
Alignment explanation
Indices: 152437--152479 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
152427 ATGTAAAAAT
152437 AAATATTTAAATTTA-A
1 AAATATTTAAATTTATA
** *
152453 AAATATAAAAATTTATT
1 AAATATTTAAATTTATA
152470 AAATATTTAA
1 AAATATTTAA
152480 TCAAGTAGGG
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATATTTAAATTTATA
Found at i:153302 original size:21 final size:21
Alignment explanation
Indices: 153277--153459 Score: 133
Period size: 21 Copynumber: 8.9 Consensus size: 21
153267 ATATTAATGA
* *
153277 GATGTGAATATGAAGAAATGT
1 GATGTTAATATGAAGAGATGT
* ** *
153298 AATGTTAATGCGAAGAGATAT
1 GATGTTAATATGAAGAGATGT
153319 GATGTTAATATGAAGAGATGT
1 GATGTTAATATGAAGAGATGT
*
153340 GATATTAATATGAAGAGATGT
1 GATGTTAATATGAAGAGATGT
* * *
153361 GATATTAATGTTAAGAGA--T
1 GATGTTAATATGAAGAGATGT
* **
153380 -ATGATAATGCGAAGAGATGT
1 GATGTTAATATGAAGAGATGT
* *
153400 GATGTTAACAGGAAGAGATGT
1 GATGTTAATATGAAGAGATGT
* * * *
153421 AATATTACATA--AATAGATAT
1 GATGTTA-ATATGAAGAGATGT
* *
153441 TATGTTAATATCAAGAGAT
1 GATGTTAATATGAAGAGAT
153460 ATATCTCTTC
Statistics
Matches: 127, Mismatches: 29, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
18 13 0.10
19 4 0.03
20 13 0.10
21 95 0.75
22 2 0.02
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.31
Consensus pattern (21 bp):
GATGTTAATATGAAGAGATGT
Found at i:153323 original size:42 final size:42
Alignment explanation
Indices: 153277--153423 Score: 156
Period size: 42 Copynumber: 3.6 Consensus size: 42
153267 ATATTAATGA
* * *
153277 GATGTGAATATGAAGAAATGTAATGTTAATGCGAAGAGATAT
1 GATGTTAATATGAAGAGATGTAATGTTAATGCGAAGAGATGT
* * **
153319 GATGTTAATATGAAGAGATGTGATATTAATATGAAGAGATGT
1 GATGTTAATATGAAGAGATGTAATGTTAATGCGAAGAGATGT
* * * *
153361 GATATTAATGTTAAGAGA--T-ATGATAATGCGAAGAGATGT
1 GATGTTAATATGAAGAGATGTAATGTTAATGCGAAGAGATGT
* *
153400 GATGTTAACAGGAAGAGATGTAAT
1 GATGTTAATATGAAGAGATGTAAT
153424 ATTACATAAA
Statistics
Matches: 83, Mismatches: 19, Indels: 6
0.77 0.18 0.06
Matches are distributed among these distances:
39 29 0.35
40 1 0.01
41 1 0.01
42 52 0.63
ACGTcount: A:0.41, C:0.02, G:0.27, T:0.30
Consensus pattern (42 bp):
GATGTTAATATGAAGAGATGTAATGTTAATGCGAAGAGATGT
Found at i:155072 original size:21 final size:21
Alignment explanation
Indices: 155011--155176 Score: 138
Period size: 21 Copynumber: 7.9 Consensus size: 21
155001 GAATAGATAT
*
155011 ATCTCTTCATATTAACATAAC
1 ATCTCTTCATATTAACATCAC
* * *
155032 ATCTATTTATGTT-ACTATCAC
1 ATCTCTTCATATTAAC-ATCAC
* * *
155053 ATATCTTCACATTAACATCAT
1 ATCTCTTCATATTAACATCAC
* *
155074 ATCTTTTCATATTAATATCAC
1 ATCTCTTCATATTAACATCAC
*
155095 ATCTCTTCATGTTAACATCAC
1 ATCTCTTCATATTAACATCAC
** * *
155116 ATCTCTTCGCATTAATATCAT
1 ATCTCTTCATATTAACATCAC
* *
155137 ATTTCTTTA-AGTTAACATCAC
1 ATCTCTTCATA-TTAACATCAC
* *
155158 ATTTCTTCATATTCACATC
1 ATCTCTTCATATTAACATC
155177 TCATTAATAT
Statistics
Matches: 111, Mismatches: 30, Indels: 8
0.74 0.20 0.05
Matches are distributed among these distances:
20 3 0.03
21 105 0.95
22 3 0.03
ACGTcount: A:0.32, C:0.23, G:0.02, T:0.43
Consensus pattern (21 bp):
ATCTCTTCATATTAACATCAC
Found at i:155157 original size:63 final size:62
Alignment explanation
Indices: 155009--155176 Score: 178
Period size: 63 Copynumber: 2.7 Consensus size: 62
154999 TAGAATAGAT
* * * *
155009 ATATCTCTTCATATTAACATAACATCTATTTATGTTACTATCACATATCTTCACATTAACATC
1 ATATCTTTTCATATTAACATCACATCTCTTCATGTTAC-ATCACATATCTTCACATTAACATC
* * * *
155072 ATATCTTTTCATATTAATATCACATCTCTTCATGTTAACATCACATCTCTTCGCATTAATATC
1 ATATCTTTTCATATTAACATCACATCTCTTCATGTT-ACATCACATATCTTCACATTAACATC
* * *
155135 ATAT-TTCTTTA-AGTTAACATCACATTTCTTCATATTCACATC
1 ATATCTT-TTCATA-TTAACATCACATCTCTTCATGTT-ACATC
155177 TCATTAATAT
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
62 3 0.03
63 84 0.94
64 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.02, T:0.43
Consensus pattern (62 bp):
ATATCTTTTCATATTAACATCACATCTCTTCATGTTACATCACATATCTTCACATTAACATC
Found at i:162397 original size:20 final size:19
Alignment explanation
Indices: 162358--162409 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
162348 TTTCTTTGAT
162358 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
162377 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
*
162397 ATTTATAAAATAA
1 A-TTAAAAAATAA
162410 GATATTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 7 0.26
20 15 0.56
21 5 0.19
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:162550 original size:3 final size:3
Alignment explanation
Indices: 162542--162573 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
162532 TGGTTAAATG
*
162542 ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
162574 TAAAAGTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:163930 original size:3 final size:3
Alignment explanation
Indices: 163910--163988 Score: 117
Period size: 3 Copynumber: 26.0 Consensus size: 3
163900 TTTGGGCATG
163910 TAA T-A TAA TAA -AA TTAA TAA TAAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
163955 TAA TAA TAA TAA TAA TAAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
163989 AAAACCAAAT
Statistics
Matches: 71, Mismatches: 0, Indels: 10
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.06
3 59 0.83
4 8 0.11
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:164638 original size:225 final size:225
Alignment explanation
Indices: 164321--164871 Score: 794
Period size: 225 Copynumber: 2.5 Consensus size: 225
164311 TAGAGTTATG
*
164321 CAAAAGGTTGAACAAGCTCTTCTCATTATGAA---CTTCTT-CTTCTTCAGATAAGTTCTTCTTA
1 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
* * *
164382 TTATGAAATTTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCAAACAAAAAGTTGAACAAAT
66 TTATGAACTTTCTCTGGAAATGTTGATCCATCGAATGATGAATTCAAACAAAAAGTTGAACAAAT
*
164447 TCTTCTCATTATGAA-T-TTCTT-CTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCT
131 TCTTCTCATTATGAACTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTAACT
* * *
164509 GGCAATGTTGATCCATCAAATGATGAATTTAAA
193 GGCAATGCTAATCCACCAAATGATGAATTTAAA
*
164542 CAAAAGGTTTAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
1 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
* * *
164607 TTATGAACTTTCTCTTGAAATGATGATCCATCGAATGATGAATTCAAACAAAAAGTTGAACAAGT
66 TTATGAACTTTCTCTGGAAATGTTGATCCATCGAATGATGAATTCAAACAAAAAGTTGAACAAAT
*
164672 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAACTGG
131 TCTTCTCATTATGAAC-TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGG
* * * *
164737 CACTGCTAATCCACCGAGTGATGAATTTAAG
195 CAATGCTAATCCACCAAATGATGAATTTAAA
* * * * *
164768 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTTTTTAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
* *
164833 TTATGAACTCT-TCTGGAAATGTTGATCCATTGAATGATG
66 TTATGAACTTTCTCTGGAAATGTTGATCCATCGAATGATG
164872 GATTTAAATC
Statistics
Matches: 295, Mismatches: 27, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
221 31 0.11
224 6 0.02
225 121 0.41
226 120 0.41
227 1 0.00
228 5 0.02
229 11 0.04
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (225 bp):
CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
TTATGAACTTTCTCTGGAAATGTTGATCCATCGAATGATGAATTCAAACAAAAAGTTGAACAAAT
TCTTCTCATTATGAACTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGGC
AATGCTAATCCACCAAATGATGAATTTAAA
Found at i:164649 original size:113 final size:113
Alignment explanation
Indices: 164321--164879 Score: 715
Period size: 113 Copynumber: 5.0 Consensus size: 113
164311 TAGAGTTATG
* * *
164321 CAAAAGGTTGAACAAGCTCTTCTCATTATGAA---CTTCTT-CTTCTTCAGATAAGTTCTTCTTA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
* * * *
164382 TTATGAAATTTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCAAA
66 TTATGAACTTTCTCTGGAAATGTTGATCCATCGAATGATGAATTTAAA
*
164430 CAAAAAGTTGAACAAATTCTTCTCATTATGAA--T-TTCTT-CTTCTTCAGATGACGAGTTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-A--AGTTCTTC
* * *
164491 TCATTATGAACTCTAC-CTGGCAATGTTGATCCATCAAATGATGAATTTAAA
63 TCATTATGAACT-TTCTCTGGAAATGTTGATCCATCGAATGATGAATTTAAA
* * *
164542 CAAAAGGTTTAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
* * *
164607 TTATGAACTTTCTCTTGAAATGATGATCCATCGAATGATGAATTCAAA
66 TTATGAACTTTCTCTGGAAATGTTGATCCATCGAATGATGAATTTAAA
*
164655 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
** * * * * * * *
164720 TTATGAACTTTAACTGGCACTGCTAATCCACCGAGTGATGAATTTAAG
66 TTATGAACTTTCTCTGGAAATGTTGATCCATCGAATGATGAATTTAAA
* * *
164768 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTTTTTAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
* * *
164833 TTATGAACTCT-TCTGGAAATGTTGATCCATTGAATGATGGATTTAAA
66 TTATGAACTTTCTCTGGAAATGTTGATCCATCGAATGATGAATTTAAA
164880 TCTTTGCTAA
Statistics
Matches: 391, Mismatches: 49, Indels: 17
0.86 0.11 0.04
Matches are distributed among these distances:
109 45 0.12
110 1 0.00
112 104 0.27
113 223 0.57
114 1 0.00
115 6 0.02
116 11 0.03
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (113 bp):
CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
TTATGAACTTTCTCTGGAAATGTTGATCCATCGAATGATGAATTTAAA
Found at i:164838 original size:226 final size:222
Alignment explanation
Indices: 164320--164871 Score: 790
Period size: 226 Copynumber: 2.5 Consensus size: 222
164310 ATAGAGTTAT
*
164320 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTT-C--TTCAGATAAGTTCTTCTTA
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTTTCAGATAAGTTCTTCTCA
* * *
164382 TTATGAAATTTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCAAACAAAAAGTTGAACAAAT
66 TTATGAACTTTCTCTGGAAATGTTGATCCATCGAATGATGAATTCAAACAAAAAGTTGAACAAAT
*
164447 TCTTCTCATTATGAATTTCTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGC
131 TCTTCTCATTATGAATTTCTTCTTCTTCAGAT-A-GAGTTCTTCTCATTATGAACTCTAACTGGC
* * *
164512 AATGTTGATCCATCAAATGATGAATTTAA
194 AATGCTAATCCACCAAATGATGAATTTAA
* *
164541 ACAAAAGGTTTAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTT-TTCAGATAAGTTCTTCTC
* * *
164606 ATTATGAACTTTCTCTTGAAATGATGATCCATCGAATGATGAATTCAAACAAAAAGTTGAACAAG
65 ATTATGAACTTTCTCTGGAAATGTTGATCCATCGAATGATGAATTCAAACAAAAAGTTGAACAAA
*
164671 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-GAGTTCTTCTCATTATGAACTTTAACT
130 TTCTTCTCATTATGAA--T-TTCTT-CTTCTTCAGATAGAGTTCTTCTCATTATGAACTCTAACT
* * *
164735 GGCACTGCTAATCCACCGAGTGATGAATTTAA
191 GGCAATGCTAATCCACCAAATGATGAATTTAA
* * * *
164767 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTTTTTAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TTTTCAGATAAGTTCTTCTC
* *
164832 ATTATGAACTCT-TCTGGAAATGTTGATCCATTGAATGATG
65 ATTATGAACTTTCTCTGGAAATGTTGATCCATCGAATGATG
164872 GATTTAAATC
Statistics
Matches: 295, Mismatches: 27, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
221 40 0.14
222 1 0.00
225 117 0.40
226 118 0.40
227 3 0.01
228 5 0.02
229 11 0.04
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (222 bp):
GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTTTCAGATAAGTTCTTCTCA
TTATGAACTTTCTCTGGAAATGTTGATCCATCGAATGATGAATTCAAACAAAAAGTTGAACAAAT
TCTTCTCATTATGAATTTCTTCTTCTTCAGATAGAGTTCTTCTCATTATGAACTCTAACTGGCAA
TGCTAATCCACCAAATGATGAATTTAA
Found at i:165779 original size:114 final size:114
Alignment explanation
Indices: 165571--165793 Score: 356
Period size: 114 Copynumber: 2.0 Consensus size: 114
165561 GATCATGTAG
* * * * *
165571 TTCATCTTTCAATTCTAATGATTGGTTCTGTGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCTAATAATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* * * *
165636 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTAGGCCTCCTTATCTCTACCATGAGCAAA
*
165685 TTCATCTTTCAAATCTAATAATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCTAATAATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
165750 ACACTTCCAGAAGATGCTATTAGGCCTCCTTATCTCTACCATGA
66 ACACTTCCAGAAGATGCTATTAGGCCTCCTTATCTCTACCATGA
165794 TAACGTGGCA
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 99 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.32
Consensus pattern (114 bp):
TTCATCTTTCAAATCTAATAATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTAGGCCTCCTTATCTCTACCATGAGCAAA
Found at i:166115 original size:19 final size:17
Alignment explanation
Indices: 166087--166135 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
166077 AAAATAAAAG
*
166087 AATAAGTTGAATTTTCGAA
1 AATAAATTGAATTTTC--A
*
166106 AATAAATTGAA-TCTCA
1 AATAAATTGAATTTTCA
166122 AATAAATTGAATTT
1 AATAAATTGAATTT
166136 AGAGAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 12 0.46
17 1 0.04
18 3 0.12
19 10 0.38
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (17 bp):
AATAAATTGAATTTTCA
Found at i:173902 original size:15 final size:15
Alignment explanation
Indices: 173879--173910 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
173869 TGCAATGAAT
173879 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
173894 AATGCATGTATGCAA
1 AATGAATGTATGCAA
173909 AA
1 AA
173911 GGTATTGATC
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:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:177875 original size:20 final size:19
Alignment explanation
Indices: 177836--177887 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
177826 TTTCTTTGAT
177836 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
177855 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
*
177875 ATTTATAAAATAA
1 A-TTAAAAAATAA
177888 GATATTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 7 0.26
20 15 0.56
21 5 0.19
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:178048 original size:18 final size:18
Alignment explanation
Indices: 178025--178060 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
178015 TTTTAAATAA
178025 ATAAATACTAT-TATTTAT
1 ATAAATA-TATATATTTAT
178043 ATAAATATATATATTTAT
1 ATAAATATATATATTTAT
178061 GGTTAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.18
18 14 0.82
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
ATAAATATATATATTTAT
Found at i:178060 original size:22 final size:22
Alignment explanation
Indices: 178016--178057 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
178006 TAACTAAGAT
178016 TTTAAATAAATAAATACTATTA
1 TTTAAATAAATAAATACTATTA
* *
178038 TTTATATAAATATATA-TATT
1 TTTAAATAAATAAATACTATT
178058 TATGGTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTAAATAAATAAATACTATTA
Found at i:179458 original size:3 final size:3
Alignment explanation
Indices: 179438--179507 Score: 99
Period size: 3 Copynumber: 23.0 Consensus size: 3
179428 TTTGGGACTG
179438 TAA T-A TAA TAA -AA TTAA TAA TAAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
179483 TAA TAA TAA TAA TAA TAAA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA
179508 AAAACCAAAT
Statistics
Matches: 62, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
2 4 0.06
3 50 0.81
4 8 0.13
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:183464 original size:68 final size:68
Alignment explanation
Indices: 183384--183559 Score: 244
Period size: 68 Copynumber: 2.6 Consensus size: 68
183374 TATAGTATTA
* *
183384 CATATTAAATAATTGCATATCATATAGTTCATATTAAATAATTGCATGCCATTGCATATTATATA
1 CATACTAAATAATTGCATATCATATAGTTCATATTAAATAACTGCATGCCATTGCATATTATATA
*
183449 GTT
66 ATT
* * * *
183452 TATACTAAATAATTACATATCATATAGTTCATATTAAATAACTGCATGTCATTGCGTATTATATA
1 CATACTAAATAATTGCATATCATATAGTTCATATTAAATAACTGCATGCCATTGCATATTATATA
183517 ATT
66 ATT
* * * * *
183520 CATATTAAACATTTGCATATCATATAGTCCATGTTAAATA
1 CATACTAAATAATTGCATATCATATAGTTCATATTAAATA
183560 GTTAGCATAT
Statistics
Matches: 94, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
68 94 1.00
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.40
Consensus pattern (68 bp):
CATACTAAATAATTGCATATCATATAGTTCATATTAAATAACTGCATGCCATTGCATATTATATA
ATT
Found at i:183503 original size:29 final size:29
Alignment explanation
Indices: 183438--183503 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
183428 CATGCCATTG
* * *
183438 CATATTATATAGTTTATACTAAATAATTA
1 CATATCATATAGTTCATACTAAATAACTA
* *
183467 CATATCATATAGTTCATATTAAATAACTG
1 CATATCATATAGTTCATACTAAATAACTA
*
183496 CATGTCAT
1 CATATCAT
183504 TGCGTATTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (29 bp):
CATATCATATAGTTCATACTAAATAACTA
Found at i:183577 original size:18 final size:18
Alignment explanation
Indices: 183554--183612 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
183544 TAGTCCATGT
183554 TAAATAGTTAGCATATTA
1 TAAATAGTTAGCATATTA
* *
183572 TAAATA-ATAGTCCAT-GT-
1 TAAATAGTTAG--CATATTA
183589 TAAATAGTTAGCATATTA
1 TAAATAGTTAGCATATTA
183607 TAAATA
1 TAAATA
183613 ATAGTCCATG
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
16 3 0.09
17 10 0.31
18 16 0.50
19 3 0.09
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.37
Consensus pattern (18 bp):
TAAATAGTTAGCATATTA
Found at i:183582 original size:21 final size:21
Alignment explanation
Indices: 183556--183617 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
183546 GTCCATGTTA
183556 AATAGTTAGCATATTATAAAT
1 AATAGTTAGCATATTATAAAT
* *
183577 AATAG-T-CCAT-GT-T--A-
1 AATAGTTAGCATATTATAAAT
183591 AATAGTTAGCATATTATAAAT
1 AATAGTTAGCATATTATAAAT
183612 AATAGT
1 AATAGT
183618 CCATGTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 14
0.62 0.08 0.29
Matches are distributed among these distances:
14 5 0.17
15 2 0.07
16 3 0.10
17 2 0.07
18 2 0.07
19 3 0.10
20 2 0.07
21 11 0.37
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.37
Consensus pattern (21 bp):
AATAGTTAGCATATTATAAAT
Found at i:183589 original size:35 final size:35
Alignment explanation
Indices: 183543--183631 Score: 178
Period size: 35 Copynumber: 2.5 Consensus size: 35
183533 TGCATATCAT
183543 ATAGTCCATGTTAAATAGTTAGCATATTATAAATA
1 ATAGTCCATGTTAAATAGTTAGCATATTATAAATA
183578 ATAGTCCATGTTAAATAGTTAGCATATTATAAATA
1 ATAGTCCATGTTAAATAGTTAGCATATTATAAATA
183613 ATAGTCCATGTTAAATAGT
1 ATAGTCCATGTTAAATAGT
183632 CTATATTAGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 54 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (35 bp):
ATAGTCCATGTTAAATAGTTAGCATATTATAAATA
Found at i:183594 original size:17 final size:17
Alignment explanation
Indices: 183572--183629 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
183562 TAGCATATTA
183572 TAAATAATAGTCCATGT
1 TAAATAATAGTCCATGT
* *
183589 TAAATAGTTAG--CATATT
1 TAAATA-ATAGTCCAT-GT
183606 ATAAATAATAGTCCATGT
1 -TAAATAATAGTCCATGT
183624 TAAATA
1 TAAATA
183630 GTCTATATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
16 3 0.09
17 16 0.50
18 10 0.31
19 3 0.09
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.36
Consensus pattern (17 bp):
TAAATAATAGTCCATGT
Found at i:184024 original size:20 final size:20
Alignment explanation
Indices: 183999--184036 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
183989 AAATCAGGTC
183999 AAAAAATAATATTTTAGGAA
1 AAAAAATAATATTTTAGGAA
184019 AAAAAATAATATTTTAGG
1 AAAAAATAATATTTTAGG
184037 TAACATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (20 bp):
AAAAAATAATATTTTAGGAA
Found at i:188906 original size:31 final size:31
Alignment explanation
Indices: 188871--188976 Score: 85
Period size: 31 Copynumber: 3.4 Consensus size: 31
188861 TTTTATTATT
188871 TCGGGTCGGGTTTCAAATTTATATATTCGGG
1 TCGGGTCGGGTTTCAAATTTATATATTCGGG
* *
188902 TCGGGTCGGG--TGAAACTTTAT-TTTGGTCGGG
1 TCGGGTCGGGTTTCAAA-TTTATATAT--TCGGG
* * * * *
188933 TCGGGTCGGTTTTTTAAGTGT-GATATTCGGG
1 TCGGGTCGG-GTTTCAAATTTATATATTCGGG
188964 TCGGGTCGGGTTT
1 TCGGGTCGGGTTT
188977 AGGGTGAAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
29 6 0.10
30 8 0.14
31 38 0.64
33 4 0.07
34 3 0.05
ACGTcount: A:0.13, C:0.12, G:0.36, T:0.39
Consensus pattern (31 bp):
TCGGGTCGGGTTTCAAATTTATATATTCGGG
Found at i:196261 original size:20 final size:21
Alignment explanation
Indices: 196236--196287 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
196226 TTTTCCCAAT
*
196236 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
196256 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
196277 TCGCAATGCGA
1 TCGCAATGCGA
196288 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:196301 original size:20 final size:20
Alignment explanation
Indices: 196276--196369 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
196266 AATTGGGAAA
*
196276 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
196296 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
196317 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
196337 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
196357 TTCGCAACGCGAT
1 ATCGCAACGCGAT
196370 TTTCAAAGCG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 2 0.03
20 45 0.73
21 13 0.21
22 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:196565 original size:22 final size:22
Alignment explanation
Indices: 196537--196580 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
196527 CACTCTCTCA
*
196537 CCCATCTCCGACGAAATTCGTC
1 CCCATCTCCGACGAAATCCGTC
*
196559 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
196581 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:196897 original size:20 final size:20
Alignment explanation
Indices: 196843--196901 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
196833 GCGATTCTCT
**
196843 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
196863 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
196883 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
196902 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:197092 original size:25 final size:24
Alignment explanation
Indices: 197038--197092 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
197028 TGTTTATTAT
* *
197038 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
197062 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
197088 TGTTT
1 TGTTT
197093 ATTATTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:198234 original size:18 final size:18
Alignment explanation
Indices: 198213--198257 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
198203 TCCACTTCGG
*
198213 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
198231 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
198249 GAGCCATCA
1 GAGCCATCA
198258 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:198774 original size:99 final size:99
Alignment explanation
Indices: 198623--198816 Score: 388
Period size: 99 Copynumber: 2.0 Consensus size: 99
198613 ATTCGGTTGC
198623 TGCCAATACTGCTAAACTGTTTTTGTTAGTATTTGTTTTTGGTTTTGTTTTTGTCTTTTGGTTGA
1 TGCCAATACTGCTAAACTGTTTTTGTTAGTATTTGTTTTTGGTTTTGTTTTTGTCTTTTGGTTGA
198688 AGTAATGCAATCCATTCAAGTTTCAATTTGTTTT
66 AGTAATGCAATCCATTCAAGTTTCAATTTGTTTT
198722 TGCCAATACTGCTAAACTGTTTTTGTTAGTATTTGTTTTTGGTTTTGTTTTTGTCTTTTGGTTGA
1 TGCCAATACTGCTAAACTGTTTTTGTTAGTATTTGTTTTTGGTTTTGTTTTTGTCTTTTGGTTGA
198787 AGTAATGCAATCCATTCAAGTTTCAATTTG
66 AGTAATGCAATCCATTCAAGTTTCAATTTG
198817 CAGAAGAAGA
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 95 1.00
ACGTcount: A:0.20, C:0.11, G:0.18, T:0.52
Consensus pattern (99 bp):
TGCCAATACTGCTAAACTGTTTTTGTTAGTATTTGTTTTTGGTTTTGTTTTTGTCTTTTGGTTGA
AGTAATGCAATCCATTCAAGTTTCAATTTGTTTT
Found at i:198892 original size:19 final size:20
Alignment explanation
Indices: 198849--198904 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
198839 CGTAACACAA
198849 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
198869 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
**
198888 AAATGAAAATCGCAACG
1 AAATGACTATCGCAACG
198905 ACAAAATCGC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:198912 original size:14 final size:14
Alignment explanation
Indices: 198893--198950 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
198883 ATGCGAAATG
198893 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
198907 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
*
198923 ATGAAATCGCAATGAC
1 A--AAATCGCAACGAC
198939 AAAATCGCAACG
1 AAAATCGCAACG
198951 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.56
16 7 0.19
18 9 0.25
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:198968 original size:33 final size:33
Alignment explanation
Indices: 198877--198969 Score: 161
Period size: 32 Copynumber: 2.8 Consensus size: 33
198867 GGAAATGGCT
*
198877 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAATGACAAA
198910 ATCGCAATGCGAAATG-AAATCGCAATGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAATGACAAA
*
198942 ATCGCAACGCGAAATGAAAATCGCAATG
1 ATCGCAATGCGAAATGAAAATCGCAATG
198970 CGATTTGTGT
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 30 0.53
33 27 0.47
ACGTcount: A:0.46, C:0.20, G:0.19, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAATGACAAA
Done.