Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008246.1 Hibiscus syriacus cultivar Beakdansim tig00110896_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: 500120
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:1091 original size:29 final size:30
Alignment explanation
Indices: 1023--1140 Score: 163
Period size: 30 Copynumber: 4.0 Consensus size: 30
1013 CCCGAAGGAC
* *
1023 CAGTCCATA-GATTCCGAAGAACCTAGGTAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAA
1053 CAGTCCATATGTCCCG-A-AACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGT-AA
*
1082 CAGTCCATATGT-CCGAAGAATATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
1111 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
1141 ACCCTCGACC
Statistics
Matches: 79, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
28 11 0.14
29 30 0.38
30 37 0.47
31 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.21
Consensus pattern (30 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAA
Found at i:5539 original size:31 final size:31
Alignment explanation
Indices: 5501--5594 Score: 127
Period size: 31 Copynumber: 3.0 Consensus size: 31
5491 CCCGAAGGAC
* * * *
5501 CAGTCCATAGATTCTGAAGAACCTAGGTAAT
1 CAGTCCATAGATCCCGAAGAACATAGGTAAA
*
5532 CAGTCCATATATCCCGAAGAACATAGGTAAA
1 CAGTCCATAGATCCCGAAGAACATAGGTAAA
5563 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
1 CAGTCCATA-GATCCCGAAGAACATAGGTAAA
5594 C
1 C
5595 CCTCGACCCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
31 56 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.21
Consensus pattern (31 bp):
CAGTCCATAGATCCCGAAGAACATAGGTAAA
Found at i:7564 original size:20 final size:22
Alignment explanation
Indices: 7519--7576 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 22
7509 TACATGGTAG
7519 TGCATCGATGCACCTGTTAAAGAA
1 TGCATCGATGCA-CTGTT-AAGAA
7543 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
*
7563 TGCACCGATGCACT
1 TGCATCGATGCACT
7577 TCAATGGGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 17 0.52
22 1 0.03
23 3 0.09
24 12 0.36
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:10918 original size:24 final size:24
Alignment explanation
Indices: 10891--10937 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
10881 CAAAATCCGA
* *
10891 GTATTGACTAAGGTCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
10915 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
10938 AATACTGACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:11885 original size:19 final size:18
Alignment explanation
Indices: 11842--11888 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
11832 CAAAAGATTT
11842 GTGTTGCGAAACTAAAAC
1 GTGTTGCGAAACTAAAAC
* * *
11860 CTGTTGCGAAATTAAATTC
1 GTGTTGCGAAACTAAA-AC
11879 GTGTTGCGAA
1 GTGTTGCGAA
11889 TTCGAAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (18 bp):
GTGTTGCGAAACTAAAAC
Found at i:11922 original size:19 final size:19
Alignment explanation
Indices: 11862--11950 Score: 99
Period size: 19 Copynumber: 4.6 Consensus size: 19
11852 ACTAAAACCT
* *
11862 GTTGCGAAATT-AAATTCGT
1 GTTGCGAATTTGAAATTC-A
* *
11881 GTTGCGAATTCGAAAATTGA
1 GTTGCGAATTTG-AAATTCA
11901 GTTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
* *
11920 GTTGTGATTTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
11939 GTTGCGAATTTG
1 GTTGCGAATTTG
11951 GCAAACGCGT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
19 42 0.72
20 11 0.19
21 5 0.09
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (19 bp):
GTTGCGAATTTGAAATTCA
Found at i:16393 original size:3 final size:3
Alignment explanation
Indices: 16385--16426 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
16375 CTCCTCACTC
*
16385 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA CCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
16427 GGAGAAGATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.31
Consensus pattern (3 bp):
TCA
Found at i:33237 original size:21 final size:21
Alignment explanation
Indices: 33213--33254 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
33203 GCGTAGAATT
33213 TGTCCCGAAGGACCACATAGA
1 TGTCCCGAAGGACCACATAGA
*
33234 TGTCCCGAATGACCACATAGA
1 TGTCCCGAAGGACCACATAGA
33255 CCCTGACTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.29, G:0.21, T:0.17
Consensus pattern (21 bp):
TGTCCCGAAGGACCACATAGA
Found at i:37294 original size:21 final size:21
Alignment explanation
Indices: 37270--37332 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
37260 GCGTAGAATT
* **
37270 TGTCCCGAATGACCTTATAGA
1 TGTCCCGAAGGACCACATAGA
37291 TGTCCCGAAGGACCACATAGA
1 TGTCCCGAAGGACCACATAGA
37312 TGTCCCGAAGGACCACATAGA
1 TGTCCCGAAGGACCACATAGA
37333 CCCTCGACTC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.19
Consensus pattern (21 bp):
TGTCCCGAAGGACCACATAGA
Found at i:44581 original size:49 final size:47
Alignment explanation
Indices: 44508--44606 Score: 144
Period size: 49 Copynumber: 2.1 Consensus size: 47
44498 TTTTTAAAAC
* *
44508 TATATATTATATATGCTTTTAAAAATTGTTTTCAAAACTATATAATA
1 TATATATTATATATACTTTTAAAAATTATTTTCAAAACTATATAATA
* *
44555 TATATATATATATATATTTTTCAAAAATTATTTTTAAAACTATATAATA
1 TATATAT-TATATATACTTTT-AAAAATTATTTTCAAAACTATATAATA
44604 TAT
1 TAT
44607 TTTCAAAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 7 0.15
48 11 0.24
49 28 0.61
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.48
Consensus pattern (47 bp):
TATATATTATATATACTTTTAAAAATTATTTTCAAAACTATATAATA
Found at i:44599 original size:36 final size:36
Alignment explanation
Indices: 44557--44689 Score: 148
Period size: 35 Copynumber: 3.7 Consensus size: 36
44547 ATATAATATA
*
44557 TATATATATATATATTTTTCAAAAATTATTTTTAAAAC
1 TATATATATATATA-TTTTCAAAAA-TATTTTAAAAAC
* *
44595 --TATATA-ATATATTTTCAAAAATGTTTTCAAAAC
1 TATATATATATATATTTTCAAAAATATTTTAAAAAC
* *
44628 TATCTAT-TATATATATTCAAAAATATTTTCAAAAAC
1 TATATATATATATATTTTCAAAAATATTTT-AAAAAC
44664 TATATATTATATATATGTTTCAAAAA
1 TATATA-TATATATAT-TTTCAAAAA
44690 ACTGATTTAA
Statistics
Matches: 80, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
33 10 0.12
34 10 0.12
35 28 0.35
36 16 0.20
37 1 0.01
38 7 0.09
39 8 0.10
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.45
Consensus pattern (36 bp):
TATATATATATATATTTTCAAAAATATTTTAAAAAC
Found at i:44654 original size:82 final size:84
Alignment explanation
Indices: 44490--44662 Score: 228
Period size: 82 Copynumber: 2.1 Consensus size: 84
44480 AAATAAAAAT
*
44490 AAAAATAATTTTTAAAACTATATATTATATATGCTTTTAAAAATTGTTTTCAAAACTATATAATA
1 AAAAATAATTTTTAAAACTATATA-TATATAT-CTTTCAAAAATTGTTTTCAAAACTATATAATA
* *
44555 TATATATATATATATATTTTTC
64 TATATATATAAAAATA-TTTTC
* * *
44577 AAAAATTATTTTTAAAACTATATA-ATATAT-TTTCAAAAA-TGTTTTCAAAACTATCTATTATA
1 AAAAATAATTTTTAAAACTATATATATATATCTTTCAAAAATTGTTTTCAAAACTATATAATATA
44639 TATAT-TCAAAAATATTTTC
66 TATATAT-AAAAATATTTTC
44658 AAAAA
1 AAAAA
44663 CTATATATTA
Statistics
Matches: 79, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
81 11 0.14
82 31 0.39
83 8 0.10
85 6 0.08
87 23 0.29
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.45
Consensus pattern (84 bp):
AAAAATAATTTTTAAAACTATATATATATATCTTTCAAAAATTGTTTTCAAAACTATATAATATA
TATATATAAAAATATTTTC
Found at i:44667 original size:27 final size:27
Alignment explanation
Indices: 44637--44689 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
44627 CTATCTATTA
44637 TATATATTCAAAAATAT-TTTCAAAAAC
1 TATATATT-AAAAATATGTTTCAAAAAC
* *
44664 TATATATTATATATATGTTTCAAAAA
1 TATATATTAAAAATATGTTTCAAAAA
44690 ACTGATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.42
Consensus pattern (27 bp):
TATATATTAAAAATATGTTTCAAAAAC
Found at i:45461 original size:85 final size:85
Alignment explanation
Indices: 45315--45800 Score: 602
Period size: 85 Copynumber: 5.8 Consensus size: 85
45305 CACTGTCATC
* * * * * *
45315 GAGCTGAATGAAATCGAACTCAAAGGTTTTTGTTGACAGATAGCCCTTCTTGCCTTAAGCTATGT
1 GAGCTGAATGTAATCAAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
* *
45380 TGTAAATTTGGTATTCCCTT
66 TGTAAATTTGATATGCCCTT
* * * * *
45400 GAGCTGAATGGAATCAAACTTGAAGGTTTTTGTTGACAGATAACCCCTCTCTCCTTGAGCTATGC
1 GAGCTGAATGTAATCAAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
45465 TGTAAATTTGATATGCCCTT
66 TGTAAATTTGATATGCCCTT
* * * * ** * ** *
45485 GAGTTGAATGGAATCGAACTCAAAATTTTTTGTTGACAGGTAGCCCTTCTTTCCGTGAGCTATGC
1 GAGCTGAATGTAATCAAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
45550 TGTAAATTTGATATGCCCTT
66 TGTAAATTTGATATGCCCTT
* * * * *
45570 GAGCTTAATGTAATCAAACTCGAAGGTTTTTGTTGACAAATA-CCCTTCTCGCCTTGAGTTGTAC
1 GAGCTGAATGTAATCAAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
* *
45634 TATATATTTGATATGCCCTT
66 TGTAAATTTGATATGCCCTT
* * *
45654 GAGCTTAATGTAAT-AGAACTCGAAGGTTTTAGTTGATAGATAGCCCTTCTCGCCTTGAGCTATG
1 GAGCTGAATGTAATCA-AACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
45718 CTGTAAATTTGATATGCCC--
65 CTGTAAATTTGATATGCCCTT
* * * *
45737 GAGCTGAATGTAATCAAACTCTAATGTTTTTTTTGACAGATAGCCCTTATCGCCTTGAGCTATG
1 GAGCTGAATGTAATCAAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
45801 TTGGGAACAA
Statistics
Matches: 343, Mismatches: 55, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
83 56 0.16
84 72 0.21
85 215 0.63
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.36
Consensus pattern (85 bp):
GAGCTGAATGTAATCAAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
TGTAAATTTGATATGCCCTT
Found at i:50177 original size:45 final size:45
Alignment explanation
Indices: 50126--50278 Score: 220
Period size: 45 Copynumber: 3.4 Consensus size: 45
50116 ATAAAATCTT
*
50126 TTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAATACTC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATACTC
*
50171 TTACCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATA-TAC
1 TTACCATTT-ATTCCATAAGCTCGTAAGCTTATTTTACCAATACT-C
* * *
50217 TTACCATTTGTTCCATAAGCTCGTAAGCTTATTTTACCCATACAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATACTC
*
50262 TTGCCA-TTATTCCATAA
1 TTACCATTTATTCCATAA
50279 CCATATACCA
Statistics
Matches: 98, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
44 10 0.10
45 46 0.47
46 42 0.43
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (45 bp):
TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATACTC
Found at i:50300 original size:20 final size:20
Alignment explanation
Indices: 50275--50317 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
50265 CCATTATTCC
* *
50275 ATAACCATATACCATAGACA
1 ATAACCATAAACAATAGACA
50295 ATAACCATAAACAATAGACA
1 ATAACCATAAACAATAGACA
50315 ATA
1 ATA
50318 GCCTAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.21, G:0.05, T:0.19
Consensus pattern (20 bp):
ATAACCATAAACAATAGACA
Found at i:55332 original size:200 final size:200
Alignment explanation
Indices: 54989--55388 Score: 800
Period size: 200 Copynumber: 2.0 Consensus size: 200
54979 CCCTTCGATA
54989 ATAACCAACAAGTCCCAAAAACTTCGGACTTAAGAACATTTTTTGGAGGTTTCCACTCCAATATT
1 ATAACCAACAAGTCCCAAAAACTTCGGACTTAAGAACATTTTTTGGAGGTTTCCACTCCAATATT
55054 TCTTTTTATACCATCTATCGAGACAACATAACCAAGAAAAACAACTTCTGATAGCCAAAACTCAC
66 TCTTTTTATACCATCTATCGAGACAACATAACCAAGAAAAACAACTTCTGATAGCCAAAACTCAC
55119 ACTTTGACATTTTAGCATATAACTTTTTACCCTTAATTATCTCGAGCACAATACGAATATGAAAT
131 ACTTTGACATTTTAGCATATAACTTTTTACCCTTAATTATCTCGAGCACAATACGAATATGAAAT
55184 CATGC
196 CATGC
55189 ATAACCAACAAGTCCCAAAAACTTCGGACTTAAGAACATTTTTTGGAGGTTTCCACTCCAATATT
1 ATAACCAACAAGTCCCAAAAACTTCGGACTTAAGAACATTTTTTGGAGGTTTCCACTCCAATATT
55254 TCTTTTTATACCATCTATCGAGACAACATAACCAAGAAAAACAACTTCTGATAGCCAAAACTCAC
66 TCTTTTTATACCATCTATCGAGACAACATAACCAAGAAAAACAACTTCTGATAGCCAAAACTCAC
55319 ACTTTGACATTTTAGCATATAACTTTTTACCCTTAATTATCTCGAGCACAATACGAATATGAAAT
131 ACTTTGACATTTTAGCATATAACTTTTTACCCTTAATTATCTCGAGCACAATACGAATATGAAAT
55384 CATGC
196 CATGC
55389 TCTATCTTTT
Statistics
Matches: 200, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 200 1.00
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (200 bp):
ATAACCAACAAGTCCCAAAAACTTCGGACTTAAGAACATTTTTTGGAGGTTTCCACTCCAATATT
TCTTTTTATACCATCTATCGAGACAACATAACCAAGAAAAACAACTTCTGATAGCCAAAACTCAC
ACTTTGACATTTTAGCATATAACTTTTTACCCTTAATTATCTCGAGCACAATACGAATATGAAAT
CATGC
Found at i:62874 original size:38 final size:37
Alignment explanation
Indices: 62827--63007 Score: 214
Period size: 37 Copynumber: 4.9 Consensus size: 37
62817 ATAAAAATCA
* *
62827 TTTTTAAAACTATGTATTATATATGATTTT-AAAATTTG
1 TTTTCAAAACTATATATTATATAT-ATTTTCAAAA-TTG
*
62865 TTTTCAAAACCT-TATAATATATATATTTTCAAAAATTG
1 TTTTCAAAA-CTATATATTATATATATTTTC-AAAATTG
* *
62903 TTTTTAAAAC--TATA-TA-ATATATTTTCAAAAATG
1 TTTTCAAAACTATATATTATATATATTTTCAAAATTG
62936 TTTTCAAAACTATATATTATATATATTTTCAAAA-TG
1 TTTTCAAAACTATATATTATATATATTTTCAAAATTG
62972 TTTTCAAAAACTATATATTATATATATGTTTCAAAA
1 TTTTC-AAAACTATATATTATATATAT-TTTCAAAA
63008 ACCGATTTTT
Statistics
Matches: 128, Mismatches: 6, Indels: 18
0.84 0.04 0.12
Matches are distributed among these distances:
33 15 0.12
34 10 0.08
35 6 0.05
36 13 0.10
37 41 0.32
38 37 0.29
39 6 0.05
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTTCAAAACTATATATTATATATATTTTCAAAATTG
Found at i:63038 original size:109 final size:107
Alignment explanation
Indices: 62827--63042 Score: 262
Period size: 109 Copynumber: 2.0 Consensus size: 107
62817 ATAAAAATCA
* * *
62827 TTTTTAAAACTATGTATTATATATGATTTTAAAATTTGTTTTCAAAACCTTATAATATATATATT
1 TTTTCAAAACTATATATTATATATGATTTTAAAA-TTGTTTTCAAAAACTTATAATATATATATT
**
62892 TTCAAAAATTGTTTTTAAAACTATATAATATATTTTCAAAAATG
65 TTCAAAAACCGTTTTTAAAAC-ATATAATATATTTTCAAAAATG
*
62936 TTTTCAAAACTATATATTATATAT-ATTTTCAAAA-TGTTTTCAAAAACTATATATTATATATAT
1 TTTTCAAAACTATATATTATATATGATTTT-AAAATTGTTTTCAAAAACT-TATAATATATATAT
62999 GTTTCAAAAACCGATTTTTTAAAA-A-A-AACTATATATTTCAAAAA
64 -TTTCAAAAACCG--TTTTTAAAACATATAA-TATAT-TTTCAAAAA
63043 AAATCTTTCA
Statistics
Matches: 94, Mismatches: 6, Indels: 14
0.82 0.05 0.12
Matches are distributed among these distances:
107 15 0.16
108 24 0.26
109 46 0.49
111 9 0.10
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.45
Consensus pattern (107 bp):
TTTTCAAAACTATATATTATATATGATTTTAAAATTGTTTTCAAAAACTTATAATATATATATTT
TCAAAAACCGTTTTTAAAACATATAATATATTTTCAAAAATG
Found at i:63555 original size:23 final size:23
Alignment explanation
Indices: 63480--63568 Score: 90
Period size: 23 Copynumber: 3.7 Consensus size: 23
63470 CCTGTTTATT
63480 TCAAAGTTAAATAACTTGCCTCC
1 TCAAAGTTAAATAACTTGCCTCC
* * * * *
63503 TCATAGTTGAATTCTAACAGTCCCT-G
1 TCAAAGTT-AA--ATAAC-TTGCCTCC
63529 TCAAAGTTAAATAACTTGCCTCC
1 TCAAAGTTAAATAACTTGCCTCC
63552 TCAAAGTTAAATAACTT
1 TCAAAGTTAAATAACTT
63569 CTATGATCCG
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
22 4 0.08
23 28 0.55
24 2 0.04
25 2 0.04
26 11 0.22
27 4 0.08
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.33
Consensus pattern (23 bp):
TCAAAGTTAAATAACTTGCCTCC
Found at i:77267 original size:23 final size:23
Alignment explanation
Indices: 77237--77282 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
77227 GGTGTATATA
* *
77237 GGGTTTCTATACATAGTGGTCAT
1 GGGTTTCTACACATAATGGTCAT
77260 GGGTTTCTACACATAATGGTCAT
1 GGGTTTCTACACATAATGGTCAT
77283 CTATTCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (23 bp):
GGGTTTCTACACATAATGGTCAT
Found at i:79824 original size:18 final size:18
Alignment explanation
Indices: 79801--79867 Score: 98
Period size: 18 Copynumber: 3.7 Consensus size: 18
79791 TTAAGGAGTA
79801 GTCCTTCGGGACATAGTG
1 GTCCTTCGGGACATAGTG
*
79819 GTCCTTCTGGACATAGTG
1 GTCCTTCGGGACATAGTG
*
79837 GTCCTTCGGGACAAAGTG
1 GTCCTTCGGGACATAGTG
* *
79855 GTCATTCAGGACA
1 GTCCTTCGGGACA
79868 AATATTCAGT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (18 bp):
GTCCTTCGGGACATAGTG
Found at i:85317 original size:18 final size:18
Alignment explanation
Indices: 85293--85359 Score: 98
Period size: 18 Copynumber: 3.7 Consensus size: 18
85283 TTAAGGAGTA
*
85293 GTCCTTCGAGACATAGTG
1 GTCCTTCGGGACATAGTG
*
85311 ATCCTTCGGGACATAGTG
1 GTCCTTCGGGACATAGTG
* *
85329 GTTCTTCGGGACAAAGTG
1 GTCCTTCGGGACATAGTG
85347 GTCCTTCGGGACA
1 GTCCTTCGGGACA
85360 AATATTCAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (18 bp):
GTCCTTCGGGACATAGTG
Found at i:88757 original size:24 final size:24
Alignment explanation
Indices: 88724--88794 Score: 108
Period size: 23 Copynumber: 3.0 Consensus size: 24
88714 ACATGAATAG
*
88724 TTTATCTGATACTTGACCTGGATT
1 TTTATATGATACTTGACCTGGATT
*
88748 TTTATATGATACTTAACCTGGA-T
1 TTTATATGATACTTGACCTGGATT
*
88771 TTTATATGATACTTGACATGGATT
1 TTTATATGATACTTGACCTGGATT
88795 ATGATCTACT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 21 0.50
24 21 0.50
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.45
Consensus pattern (24 bp):
TTTATATGATACTTGACCTGGATT
Found at i:95077 original size:29 final size:29
Alignment explanation
Indices: 95033--95267 Score: 252
Period size: 29 Copynumber: 8.2 Consensus size: 29
95023 CCATTGACCG
*
95033 GGTGATATTTTTGTAATTATTTTTAAAAT
1 GGTGATATTTTCGTAATTATTTTTAAAAT
*
95062 GGTGATATTTTCGTAATTATTTTAAAAAT
1 GGTGATATTTTCGTAATTATTTTTAAAAT
*
95091 GGTGCTATTTT-GTAATT-TTTTTAAAAAAT
1 GGTGATATTTTCGTAATTATTTTT--AAAAT
* *
95120 -GT-ATTATTTTCATAA-T-TTTTTAAAAA
1 GGTGA-TATTTTCGTAATTATTTTTAAAAT
* *
95146 AGTGCTATTTTCGTAATTATTTTT-AAAT
1 GGTGATATTTTCGTAATTATTTTTAAAAT
* *
95174 GGTGATATATTCGTAATTA-TTTTAAAAA
1 GGTGATATTTTCGTAATTATTTTTAAAAT
* * *
95202 AGTGATATTTTCGTAAATATTTTTAAAAG
1 GGTGATATTTTCGTAATTATTTTTAAAAT
* *
95231 GGTGATAGTTTCGTAAATATTTCTTAAAAT
1 GGTGATATTTTCGTAATTATTT-TTAAAAT
95261 GGTGATA
1 GGTGATA
95268 ATTGTGTAAA
Statistics
Matches: 174, Mismatches: 21, Indels: 21
0.81 0.10 0.10
Matches are distributed among these distances:
26 4 0.02
27 20 0.11
28 59 0.34
29 78 0.45
30 13 0.07
ACGTcount: A:0.34, C:0.04, G:0.14, T:0.49
Consensus pattern (29 bp):
GGTGATATTTTCGTAATTATTTTTAAAAT
Found at i:95085 original size:28 final size:28
Alignment explanation
Indices: 95033--95267 Score: 235
Period size: 28 Copynumber: 8.2 Consensus size: 28
95023 CCATTGACCG
*
95033 GGTGATATTTTTGTAATTATTTTTAAAAT
1 GGTGATATTTTCGTAATTA-TTTTAAAAT
95062 GGTGATATTTTCGTAATTATTTTAAAAAT
1 GGTGATATTTTCGTAATTATTTT-AAAAT
* *
95091 GGTGCTATTTT-GTAATTTTTTTAAAAAAT
1 GGTGATATTTTCGTAATTATTTT--AAAAT
* *
95120 -GT-ATTATTTTCATAATT-TTTTAAAAA
1 GGTGA-TATTTTCGTAATTATTTTAAAAT
* * *
95146 AGTGCTATTTTCGTAATTATTTTTAAAT
1 GGTGATATTTTCGTAATTATTTTAAAAT
* *
95174 GGTGATATATTCGTAATTATTTTAAAAA
1 GGTGATATTTTCGTAATTATTTTAAAAT
* * *
95202 AGTGATATTTTCGTAAATATTTTTAAAAG
1 GGTGATATTTTCGTAATTA-TTTTAAAAT
* *
95231 GGTGATAGTTTCGTAAATATTTCTTAAAAT
1 GGTGATATTTTCGTAATTA-TT-TTAAAAT
95261 GGTGATA
1 GGTGATA
95268 ATTGTGTAAA
Statistics
Matches: 175, Mismatches: 22, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
26 4 0.02
27 14 0.08
28 72 0.41
29 72 0.41
30 13 0.07
ACGTcount: A:0.34, C:0.04, G:0.14, T:0.49
Consensus pattern (28 bp):
GGTGATATTTTCGTAATTATTTTAAAAT
Found at i:100569 original size:24 final size:24
Alignment explanation
Indices: 100542--100660 Score: 177
Period size: 24 Copynumber: 5.0 Consensus size: 24
100532 TTCGATTTGA
100542 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
100566 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
*
100590 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* *
100614 ATTCTGATATGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
* *
100638 ATTTTGATATGATACTTGACATG
1 ATTCTGATCTGATACTTGACATG
100661 AATTATGTTT
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
23 1 0.01
24 86 0.98
25 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.39
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:100837 original size:43 final size:43
Alignment explanation
Indices: 100776--100870 Score: 181
Period size: 43 Copynumber: 2.2 Consensus size: 43
100766 GGGCCTTACT
*
100776 TGGTGTGTTGGTGGGTGTATGGTTCTGGGGAACCTACACATTA
1 TGGTGTGTTGGTGGGTGTATGGTTCTGGGAAACCTACACATTA
100819 TGGTGTGTTGGTGGGTGTATGGTTCTGGGAAACCTACACATTA
1 TGGTGTGTTGGTGGGTGTATGGTTCTGGGAAACCTACACATTA
100862 TGGTGTGTT
1 TGGTGTGTT
100871 CGGTTGGAGG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.16, C:0.11, G:0.37, T:0.37
Consensus pattern (43 bp):
TGGTGTGTTGGTGGGTGTATGGTTCTGGGAAACCTACACATTA
Found at i:103968 original size:30 final size:30
Alignment explanation
Indices: 103932--104007 Score: 125
Period size: 30 Copynumber: 2.5 Consensus size: 30
103922 AACCGATCGA
103932 ACCGAATTAATTCGGTTAATTCAGTCGGCC
1 ACCGAATTAATTCGGTTAATTCAGTCGGCC
* *
103962 ACCGAATTAATTCAGTTAATTCGGTCGGCC
1 ACCGAATTAATTCGGTTAATTCAGTCGGCC
*
103992 ACCGAATTAGTTCGGT
1 ACCGAATTAATTCGGT
104008 CGGGAAACGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (30 bp):
ACCGAATTAATTCGGTTAATTCAGTCGGCC
Found at i:104788 original size:28 final size:28
Alignment explanation
Indices: 104756--104812 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
104746 CCGTCGTTGT
** * *
104756 TTTCAAGCATTGGCTTGACAACATAATG
1 TTTCAAGCATTACCTCGACAACACAATG
104784 TTTCAAGCATTACCTCGACAACACAATG
1 TTTCAAGCATTACCTCGACAACACAATG
104812 T
1 T
104813 AAACGGAGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (28 bp):
TTTCAAGCATTACCTCGACAACACAATG
Found at i:106744 original size:22 final size:18
Alignment explanation
Indices: 106698--106734 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
106688 AAAAGAAACC
106698 TAAATATAAGGACCTAAT
1 TAAATATAAGGACCTAAT
106716 TAAATATAAGGACCTAAT
1 TAAATATAAGGACCTAAT
106734 T
1 T
106735 GCATAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (18 bp):
TAAATATAAGGACCTAAT
Found at i:106783 original size:21 final size:21
Alignment explanation
Indices: 106759--106798 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
106749 TTACTAAACT
*
106759 AAAATGGAATAAATTAAAATA
1 AAAAGGGAATAAATTAAAATA
**
106780 AAAAGGGGCTAAATTAAAA
1 AAAAGGGAATAAATTAAAA
106799 CAAACTAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.15, T:0.20
Consensus pattern (21 bp):
AAAAGGGAATAAATTAAAATA
Found at i:108235 original size:15 final size:15
Alignment explanation
Indices: 108211--108240 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
108201 GTTTAGGGAT
108211 TTTAACTGGTTTGGG
1 TTTAACTGGTTTGGG
*
108226 TTTAATTGGTTTGGG
1 TTTAACTGGTTTGGG
108241 CTTTGGGTGT
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:0.13, C:0.03, G:0.33, T:0.50
Consensus pattern (15 bp):
TTTAACTGGTTTGGG
Found at i:117022 original size:24 final size:23
Alignment explanation
Indices: 116993--117047 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
116983 ATGTATGTAA
*
116993 TATTTTTTATTCAA-TTTAAAA-
1 TATTTTTTATTCAACTTAAAAAT
*
117014 TATTATTTTATTTAACTTAAAAAT
1 TATT-TTTTATTCAACTTAAAAAT
117038 TATATTTTTA
1 TAT-TTTTTA
117048 ATAATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 4 0.14
22 9 0.32
23 6 0.21
24 8 0.29
25 1 0.04
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (23 bp):
TATTTTTTATTCAACTTAAAAAT
Found at i:117024 original size:22 final size:22
Alignment explanation
Indices: 116991--117040 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
116981 GCATGTATGT
*
116991 AATATT-TTTTATTCAATTTAA
1 AATATTATTTTATTCAACTTAA
*
117012 AATATTATTTTATTTAACTTAA
1 AATATTATTTTATTCAACTTAA
117034 AA-ATTAT
1 AATATTAT
117041 ATTTTTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (22 bp):
AATATTATTTTATTCAACTTAA
Found at i:117036 original size:23 final size:22
Alignment explanation
Indices: 116991--117045 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
116981 GCATGTATGT
*
116991 AATATT-TTTTATTCAATTTAA
1 AATATTATTTTATTCAATTAAA
*
117012 AATATTATTTTATTTAACTTAAA
1 AATATTATTTTATTCAA-TTAAA
117035 AAT-TATATTTT
1 AATAT-TATTTT
117046 TAATAATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 6 0.21
22 10 0.34
23 13 0.45
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
AATATTATTTTATTCAATTAAA
Found at i:133074 original size:19 final size:20
Alignment explanation
Indices: 133038--133080 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
133028 ATTTTCTCTT
*
133038 AAAAGCAAAATTGGA-TTTG
1 AAAAGCAAAATTGAATTTTG
133057 AAAAGCAAAA-TGAAATTTTG
1 AAAAGCAAAATTG-AATTTTG
133077 AAAA
1 AAAA
133081 ATGATTTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 11 0.52
20 8 0.38
ACGTcount: A:0.56, C:0.05, G:0.16, T:0.23
Consensus pattern (20 bp):
AAAAGCAAAATTGAATTTTG
Found at i:135975 original size:14 final size:15
Alignment explanation
Indices: 135950--135997 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
135940 AAGTTAAATC
*
135950 ATTTTTTAAATATTT
1 ATTTATTAAATATTT
135965 ATTTA-TAAATA-TT
1 ATTTATTAAATATTT
**
135978 ATGGATTAAATATTT
1 ATTTATTAAATATTT
135993 ATTTA
1 ATTTA
135998 GTTCTCAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
13 5 0.19
14 12 0.46
15 9 0.35
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (15 bp):
ATTTATTAAATATTT
Found at i:139272 original size:24 final size:23
Alignment explanation
Indices: 139244--139294 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
139234 TCATGCATAT
*
139244 AAAAT-TTTAAAAATATATATTTAA
1 AAAATATTT-AAAAT-TATAATTAA
*
139268 AAAATATTTAATATTATAATTAA
1 AAAATATTTAAAATTATAATTAA
139291 AAAA
1 AAAA
139295 CTCAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 12 0.50
24 9 0.38
25 3 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAATATTTAAAATTATAATTAA
Found at i:140705 original size:18 final size:16
Alignment explanation
Indices: 140694--140759 Score: 57
Period size: 15 Copynumber: 4.2 Consensus size: 16
140684 AAATAAGTCA
140694 AATAA-AAAAAATAAT
1 AATAATAAAAAATAAT
140709 AATAATAAAAAATAA-
1 AATAATAAAAAATAAT
* * *
140724 AAAAAGAGAAAAT-AT
1 AATAATAAAAAATAAT
* *
140739 AAAAAGAAAAAATATAT
1 AATAATAAAAAATA-AT
140756 AATA
1 AATA
140760 TATATATAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
14 1 0.02
15 27 0.64
16 9 0.21
17 5 0.12
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (16 bp):
AATAATAAAAAATAAT
Found at i:140740 original size:24 final size:25
Alignment explanation
Indices: 140693--140743 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
140683 GAAATAAGTC
*
140693 AAATAAAAAAAATAATAATAATAAA
1 AAATAAAAAAAAGAATAATAATAAA
140718 AAATAAAAAAAGAGAA-AAT-ATAAA
1 AAATAAAAAAA-AGAATAATAATAAA
140742 AA
1 AA
140744 GAAAAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 7 0.29
25 14 0.58
26 3 0.12
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (25 bp):
AAATAAAAAAAAGAATAATAATAAA
Found at i:140755 original size:17 final size:16
Alignment explanation
Indices: 140699--140757 Score: 68
Period size: 15 Copynumber: 3.8 Consensus size: 16
140689 AGTCAAATAA
* *
140699 AAAAAATAATAATAAT
1 AAAAAATAATAAAAAG
140715 AAAAAATAA-AAAAAG
1 AAAAAATAATAAAAAG
*
140730 AGAAAAT-ATAAAAAG
1 AAAAAATAATAAAAAG
140745 AAAAAATATATAA
1 AAAAAATA-ATAA
140758 TATATATATA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
14 1 0.03
15 22 0.61
16 9 0.25
17 4 0.11
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (16 bp):
AAAAAATAATAAAAAG
Found at i:140759 original size:22 final size:20
Alignment explanation
Indices: 140695--140761 Score: 62
Period size: 22 Copynumber: 3.1 Consensus size: 20
140685 AATAAGTCAA
*
140695 ATAAAAAAAATAATAATAAT
1 ATAAAAAAAAAAATAATAAT
* * *
140715 AAAAAATAAAAAAAGAGAAAAT
1 ATAAAA-AAAAAAATA-ATAAT
140737 ATAAAAAGAAAAAATATATAAT
1 ATAAAAA-AAAAAATA-ATAAT
140759 ATA
1 ATA
140762 TATATAATGT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 5 0.14
21 8 0.22
22 23 0.64
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.19
Consensus pattern (20 bp):
ATAAAAAAAAAAATAATAAT
Found at i:140762 original size:24 final size:22
Alignment explanation
Indices: 140697--140763 Score: 64
Period size: 24 Copynumber: 2.9 Consensus size: 22
140687 TAAGTCAAAT
140697 AAAAAAAATAATAATA-ATAAA
1 AAAAAAAATAATAATATATAAA
* * *
140718 AAATAAAAAAAGAGAAAATATAAA
1 AAA-AAAAATA-ATAATATATAAA
140742 AAGAAAAAATATATAATATATA
1 AA-AAAAAATA-ATAATATATA
140764 TATAATGTTA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
21 3 0.09
22 6 0.17
23 4 0.11
24 21 0.60
25 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.19
Consensus pattern (22 bp):
AAAAAAAATAATAATATATAAA
Found at i:140813 original size:22 final size:22
Alignment explanation
Indices: 140781--140824 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
140771 TTAGGTAAAG
140781 GAAAAACAATAAAAATACAAAAA
1 GAAAAACAATAAAAATA-AAAAA
*
140804 GAAAAA-AATAATAATAAAAAA
1 GAAAAACAATAAAAATAAAAAA
140825 CATATATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 9 0.45
23 6 0.30
ACGTcount: A:0.80, C:0.05, G:0.05, T:0.11
Consensus pattern (22 bp):
GAAAAACAATAAAAATAAAAAA
Found at i:140917 original size:5 final size:5
Alignment explanation
Indices: 140909--140958 Score: 55
Period size: 5 Copynumber: 9.6 Consensus size: 5
140899 AAAGGAGAGA
* **
140909 AAAAT AAAAT AAAAAT AAAAAC AAAAT AAAGC AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT -AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
140959 TGGAATTTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
5 28 0.74
6 10 0.26
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.14
Consensus pattern (5 bp):
AAAAT
Found at i:140922 original size:11 final size:11
Alignment explanation
Indices: 140908--140958 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
140898 AAAAGGAGAG
140908 AAAAATAAAAT
1 AAAAATAAAAT
140919 AAAAATAAAA-
1 AAAAATAAAAT
*
140929 ACAAAAT-AAAG
1 A-AAAATAAAAT
*
140940 CAAAATAAAAT
1 AAAAATAAAAT
140951 -AAAATAAA
1 AAAAATAAA
140959 TGGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
10 17 0.49
11 18 0.51
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.14
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:141030 original size:2 final size:2
Alignment explanation
Indices: 141025--141049 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
141015 GTAAAAAATA
141025 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
141050 ATAAAATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:141103 original size:17 final size:18
Alignment explanation
Indices: 141069--141113 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 18
141059 AGTATTAATT
141069 GAATAAAATATAAAAAAG
1 GAATAAAATATAAAAAAG
141087 GAATAAAATAT-AAAAAG
1 GAATAAAATATAAAAAAG
*
141104 GACTAAAATA
1 GAATAAAATA
141114 AAATAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.69, C:0.02, G:0.11, T:0.18
Consensus pattern (18 bp):
GAATAAAATATAAAAAAG
Found at i:142179 original size:24 final size:24
Alignment explanation
Indices: 142134--142179 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
142124 TGTAATAAAA
* * *
142134 TCAATAATATATATATATATATGT
1 TCAATAATATAAACATAAATATGT
*
142158 TCAATATTATAAACATAAATAT
1 TCAATAATATAAACATAAATAT
142180 AAGAGAAAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (24 bp):
TCAATAATATAAACATAAATATGT
Found at i:142606 original size:17 final size:17
Alignment explanation
Indices: 142584--142621 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
142574 TGACATCCGT
142584 TCCTATATCCAACGACA
1 TCCTATATCCAACGACA
142601 TCCTATATCCAACGACA
1 TCCTATATCCAACGACA
142618 TCCT
1 TCCT
142622 TCCCCATCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.32, C:0.37, G:0.05, T:0.26
Consensus pattern (17 bp):
TCCTATATCCAACGACA
Found at i:143303 original size:24 final size:24
Alignment explanation
Indices: 143276--143329 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
143266 GTATTCAAAA
143276 TTTGATCTTGGTCAATACCCGGAG
1 TTTGATCTTGGTCAATACCCGGAG
* * *
143300 TTTGATCTTGGTTAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAG
143324 TTTGAT
1 TTTGAT
143330 GATGATTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.15, G:0.22, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAG
Found at i:145819 original size:20 final size:20
Alignment explanation
Indices: 145794--146073 Score: 205
Period size: 20 Copynumber: 15.2 Consensus size: 20
145784 CAACGCAAAA
145794 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
* *
145814 ATCGCAACGTGAATTTGATT
1 ATCGCAACGCGAATTTGACT
*
145834 ATCGCAACGCAAATTTGACT
1 ATCGCAACGCGAATTTGACT
* *
145854 ATCGCAAAGC-AA----A-A
1 ATCGCAACGCGAATTTGACT
* *
145868 ATCGCAAGGCAAATTTGACT
1 ATCGCAACGCGAATTTGACT
* *
145888 ATCGCAAAGC-AA----A-A
1 ATCGCAACGCGAATTTGACT
145902 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
* *
145922 ATCACAACGC-AA----A-A
1 ATCGCAACGCGAATTTGACT
*
145936 ATCGCAACGTGAATTTGACT
1 ATCGCAACGCGAATTTGACT
145956 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
*
145976 ATCGCAACGCGAATTTGATT
1 ATCGCAACGCGAATTTGACT
* *
145996 ATCGCAACGGGAATTTAACT
1 ATCGCAACGCGAATTTGACT
*
146016 ATCGCAACGAGAA----A--
1 ATCGCAACGCGAATTTGACT
* * *
146030 ATCGCAAAGCGTATTAGACT
1 ATCGCAACGCGAATTTGACT
146050 ATCGCAACGCGAA-TTGACT
1 ATCGCAACGCGAATTTGACT
*
146069 TTCGC
1 ATCGC
146074 GTTGCGATTT
Statistics
Matches: 205, Mismatches: 31, Indels: 49
0.72 0.11 0.17
Matches are distributed among these distances:
14 36 0.18
15 9 0.04
16 1 0.00
18 1 0.00
19 18 0.09
20 140 0.68
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGAATTTGACT
Found at i:145849 original size:40 final size:34
Alignment explanation
Indices: 145772--146004 Score: 250
Period size: 34 Copynumber: 6.5 Consensus size: 34
145762 TTACACATTC
*
145772 ATTTGAATATCGCAACGCAAAAATCGCAACGCGA
1 ATTTGACTATCGCAACGCAAAAATCGCAACGCGA
* * *
145806 ATTTGACTATCGCAACGTGAATTTGATTATCGCAACGCAA
1 ATTTGACTATCGCAACG-CAA----A-AATCGCAACGCGA
* * *
145846 ATTTGACTATCGCAAAGCAAAAATCGCAAGGCAA
1 ATTTGACTATCGCAACGCAAAAATCGCAACGCGA
*
145880 ATTTGACTATCGCAAAGCAAAAATCGCAACGCGA
1 ATTTGACTATCGCAACGCAAAAATCGCAACGCGA
* *
145914 ATTTGACTATCACAACGCAAAAATCGCAACGTGA
1 ATTTGACTATCGCAACGCAAAAATCGCAACGCGA
*
145948 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGC-AA----A-AATCGCAACGCGA
*
145988 ATTTGATTATCGCAACG
1 ATTTGACTATCGCAACG
146005 GGAATTTAAC
Statistics
Matches: 170, Mismatches: 17, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
34 107 0.63
35 5 0.03
39 4 0.02
40 54 0.32
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (34 bp):
ATTTGACTATCGCAACGCAAAAATCGCAACGCGA
Found at i:145934 original size:54 final size:54
Alignment explanation
Indices: 145772--146004 Score: 158
Period size: 54 Copynumber: 4.3 Consensus size: 54
145762 TTACACATTC
**
145772 ATTTGAATATCGCAACGCAAAAATCGCAACGCGAATTTGACTATCGCAACGTGA
1 ATTTGAATATCGCAACGCAAAAATCGCAACGCGAATTTGACTATCGCAACGCAA
* * * * **** ** *
145826 ATTTGATTATCGCAACGC-AAATTTGACTATCGC-AAAGCAAAAATCGCAAGGCAA
1 ATTTGAATATCGCAACGCAAAAATCG-C-AACGCGAATTTGACTATCGCAACGCAA
* * *
145880 ATTTGACTATCGCAAAGCAAAAATCGCAACGCGAATTTGACTATCACAACGC-A
1 ATTTGAATATCGCAACGCAAAAATCGCAACGCGAATTTGACTATCGCAACGCAA
* * *
145933 A----AA-ATCGCAACGTGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGA
1 ATTTGAATATCGCAACG-CAA----A-AATCGCAACGCGAATTTGACTATCGCAACGCAA
*
145988 ATTTGATTATCGCAACG
1 ATTTGAATATCGCAACG
146005 GGAATTTAAC
Statistics
Matches: 131, Mismatches: 32, Indels: 26
0.69 0.17 0.14
Matches are distributed among these distances:
48 8 0.06
49 3 0.02
53 12 0.09
54 87 0.66
55 11 0.08
59 1 0.01
60 9 0.07
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (54 bp):
ATTTGAATATCGCAACGCAAAAATCGCAACGCGAATTTGACTATCGCAACGCAA
Found at i:146092 original size:20 final size:20
Alignment explanation
Indices: 146063--146126 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
146053 GCAACGCGAA
*
146063 TTGACTTTCGCGTTGCGATT
1 TTGACTTTCGCATTGCGATT
* *
146083 TTGGCTTTCGTATTGCGATT
1 TTGACTTTCGCATTGCGATT
146103 TTGACTTTCGCATTGCGATT
1 TTGACTTTCGCATTGCGATT
146123 TTGA
1 TTGA
146127 GTTTAACGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.12, C:0.17, G:0.23, T:0.47
Consensus pattern (20 bp):
TTGACTTTCGCATTGCGATT
Found at i:146138 original size:20 final size:20
Alignment explanation
Indices: 146075--146140 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
146065 GACTTTCGCG
* ***
146075 TTGCGATTTTGGCTTTCGTA
1 TTGCGATTTTGACTTTAACA
**
146095 TTGCGATTTTGACTTTCGCA
1 TTGCGATTTTGACTTTAACA
* *
146115 TTGCGATTTTGAGTTTAACG
1 TTGCGATTTTGACTTTAACA
146135 TTGCGA
1 TTGCGA
146141 AAGTGTACCT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.15, C:0.15, G:0.24, T:0.45
Consensus pattern (20 bp):
TTGCGATTTTGACTTTAACA
Found at i:147693 original size:20 final size:21
Alignment explanation
Indices: 147634--147699 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
147624 GTGAATCGGG
* *
147634 CTCTTGAATGGTGGGAGGGAC
1 CTCTTCAACGGTGGGAGGGAC
* ** *
147655 CTCTTCAACGATGACAGGGGC
1 CTCTTCAACGGTGGGAGGGAC
147676 CTCTT-AACGGTGGGAGGGA-
1 CTCTTCAACGGTGGGAGGGAC
147695 CTCTT
1 CTCTT
147700 GAGGGATGAT
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
19 5 0.14
20 10 0.29
21 20 0.57
ACGTcount: A:0.20, C:0.21, G:0.35, T:0.24
Consensus pattern (21 bp):
CTCTTCAACGGTGGGAGGGAC
Found at i:148713 original size:21 final size:20
Alignment explanation
Indices: 148679--148766 Score: 122
Period size: 20 Copynumber: 4.3 Consensus size: 20
148669 AAAACTTAAA
148679 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
148699 ATTGCAACGCGGAAAATGACT
1 ATCGCAACGC-GAAAATGACT
* *
148720 ATCGTAACGCGCAAATGACT
1 ATCGCAACGCGAAAATGACT
**
148740 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
148760 ATCGCAA
1 ATCGCAA
148767 TGGGATAATC
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
20 41 0.69
21 18 0.31
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:148741 original size:41 final size:40
Alignment explanation
Indices: 148679--148766 Score: 122
Period size: 41 Copynumber: 2.2 Consensus size: 40
148669 AAAACTTAAA
*
148679 ATCGCAACGCGAAAATGACTATTGCAACGCGGAAAATGACT
1 ATCGCAACGCGAAAATGACTATCGCAACGC-GAAAATGACT
* * **
148720 ATCGTAACGCGCAAATGACTATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACT
148760 ATCGCAA
1 ATCGCAA
148767 TGGGATAATC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
40 14 0.34
41 27 0.66
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.19
Consensus pattern (40 bp):
ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACT
Found at i:148823 original size:19 final size:19
Alignment explanation
Indices: 148773--148824 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
148763 GCAATGGGAT
* *
148773 AATCGCAATGTGAAATAAA
1 AATCGCAATGCGAAACAAA
* * *
148792 AATCGTAACGCGAAACCAA
1 AATCGCAATGCGAAACAAA
148811 AATCGCAATGCGAA
1 AATCGCAATGCGAA
148825 TCGCGTTGTG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.48, C:0.19, G:0.17, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAACAAA
Found at i:150747 original size:20 final size:20
Alignment explanation
Indices: 150724--150761 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
150714 TCTGAAACTT
150724 AAAATCACAACACGAAAATG
1 AAAATCACAACACGAAAATG
*
150744 AAAATCGCAACACGAAAA
1 AAAATCACAACACGAAAA
150762 ATGACTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.61, C:0.21, G:0.11, T:0.08
Consensus pattern (20 bp):
AAAATCACAACACGAAAATG
Found at i:150764 original size:21 final size:21
Alignment explanation
Indices: 150724--150780 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
150714 TCTGAAACTT
*
150724 AAAATCACAACACG-AAAATG
1 AAAATCGCAACACGAAAAATG
150744 AAAATCGCAACACGAAAAATG
1 AAAATCGCAACACGAAAAATG
** *
150765 ACTATCGCAACGCGAA
1 AAAATCGCAACACGAA
150781 TTTGACTATC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 13 0.41
21 19 0.59
ACGTcount: A:0.53, C:0.23, G:0.14, T:0.11
Consensus pattern (21 bp):
AAAATCGCAACACGAAAAATG
Found at i:151244 original size:22 final size:22
Alignment explanation
Indices: 151219--151276 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
151209 GAGATAGACA
151219 GATTTCGCCGTAGATGGGGACG
1 GATTTCGCCGTAGATGGGGACG
** *
151241 GATTTCTTCGGAGATGGGGACG
1 GATTTCGCCGTAGATGGGGACG
*
151263 GATGTCGCCGTAGA
1 GATTTCGCCGTAGA
151277 GAGTGAGAGA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.19, C:0.17, G:0.40, T:0.24
Consensus pattern (22 bp):
GATTTCGCCGTAGATGGGGACG
Found at i:151459 original size:20 final size:20
Alignment explanation
Indices: 151434--151546 Score: 104
Period size: 20 Copynumber: 5.6 Consensus size: 20
151424 AATTTGTATT
*
151434 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCATA
* *
151454 ATCGCGTTGCGATTTTGT-ATT
1 ATCGCGTTGCGA--TAGTCATA
*
151475 ATCGCGTTGCGATATTCATA
1 ATCGCGTTGCGATAGTCATA
*
151495 ATCGCGTTGCGAT-TTACATA
1 ATCGCGTTGCGATAGT-CATA
* * * *
151515 TTCGCATTGCGATAATCAAA
1 ATCGCGTTGCGATAGTCATA
151535 ATCGCGTTGCGA
1 ATCGCGTTGCGA
151547 ATCTGGAAAC
Statistics
Matches: 76, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
19 4 0.05
20 55 0.72
21 14 0.18
22 3 0.04
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCATA
Found at i:151471 original size:41 final size:40
Alignment explanation
Indices: 151410--151546 Score: 159
Period size: 41 Copynumber: 3.4 Consensus size: 40
151400 TGGCGCTTTG
* * *
151410 AAAATCGCATTGCAAATTTGTATTATCGCGTTGCGATAGTC
1 AAAATCGCGTTGC-GATTTGTATTATCGCGTTGCGATAATC
* *
151451 AGAATCGCGTTGCGATTTTGTATTATCGCGTTGCGATATTC
1 AAAATCGCGTTGCGA-TTTGTATTATCGCGTTGCGATAATC
* ** *
151492 ATAATCGCGTTGCGATTTACA-TATTCGCATTGCGATAATC
1 AAAATCGCGTTGCGATTTGTATTA-TCGCGTTGCGATAATC
151532 AAAATCGCGTTGCGA
1 AAAATCGCGTTGCGA
151547 ATCTGGAAAC
Statistics
Matches: 84, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 2 0.02
40 33 0.39
41 49 0.58
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (40 bp):
AAAATCGCGTTGCGATTTGTATTATCGCGTTGCGATAATC
Found at i:151584 original size:20 final size:19
Alignment explanation
Indices: 151561--151606 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
151551 GGAAACTGAT
* *
151561 TTGCGATACTGGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
151581 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
151600 TTGCGAT
1 TTGCGAT
151607 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:151596 original size:19 final size:19
Alignment explanation
Indices: 151572--151608 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
151562 TGCGATACTG
*
151572 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
151591 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
151609 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:170020 original size:47 final size:47
Alignment explanation
Indices: 169966--170061 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
169956 GACCTTAGTG
169966 GTAAAATAGAATGTTATTTTTTCAAGAGGTCTTAGGTTTAAGTAGCC
1 GTAAAATAGAATGTTATTTTTTCAAGAGGTCTTAGGTTTAAGTAGCC
*
170013 GTAAAATAGAATGTTATTTTTTCAAGAGGTCTTAGGTTTGAGTAGCC
1 GTAAAATAGAATGTTATTTTTTCAAGAGGTCTTAGGTTTAAGTAGCC
170060 GT
1 GT
170062 GTCCGCAAGA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.39
Consensus pattern (47 bp):
GTAAAATAGAATGTTATTTTTTCAAGAGGTCTTAGGTTTAAGTAGCC
Found at i:174903 original size:9 final size:9
Alignment explanation
Indices: 174871--174895 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
174861 AAAAGGGGAA
174871 AAATAAAAT
1 AAATAAAAT
174880 AAATAAAAT
1 AAATAAAAT
174889 AAATAAA
1 AAATAAA
174896 TAAGATAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAATAAAAT
Found at i:175032 original size:36 final size:38
Alignment explanation
Indices: 174967--175042 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 38
174957 TATATATATA
*
174967 TATATATATACATCAAAGTATTAATAAAATA-AATAAGC
1 TATATATATACAACAAAGTATTAATAAAATAGAA-AAGC
*
175005 TATATATATACAACAAA-TATTTA-AAAATAGAAAAGC
1 TATATATATACAACAAAGTATTAATAAAATAGAAAAGC
175041 TA
1 TA
175043 CCCTCTTACT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 12 0.34
37 7 0.20
38 16 0.46
ACGTcount: A:0.57, C:0.08, G:0.05, T:0.30
Consensus pattern (38 bp):
TATATATATACAACAAAGTATTAATAAAATAGAAAAGC
Found at i:175405 original size:85 final size:81
Alignment explanation
Indices: 175300--175472 Score: 224
Period size: 85 Copynumber: 2.1 Consensus size: 81
175290 GAAATAATCA
* * * *
175300 AATAAAAATAATTAAGAATATATATATTAATAATAG-GTATATAAATAAACTATTAAAAGTATAA
1 AATAAAAATAATTAACAATATATATAGTAATAATAGACT-TATAAATAAAATATT-AAAG-A-AA
175364 AATATATATATATATATAACT
62 AATATATATATATATATAA-T
* *
175385 ATATAAAGATAATT-ACAATATATATAGTAATAATAGACTTATAAATAAAATATTAAAGAAACAT
1 A-ATAAAAATAATTAACAATATATATAGTAATAATAGACTTATAAATAAAATATTAAAGAAAAAT
175449 ATATATATATATATAAT
65 ATATATATATATATAAT
175466 AATAAAA
1 AATAAAA
175473 TATAGTAAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 9
0.83 0.07 0.09
Matches are distributed among these distances:
80 5 0.06
81 2 0.03
82 20 0.25
83 1 0.01
84 4 0.05
85 35 0.44
86 12 0.15
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (81 bp):
AATAAAAATAATTAACAATATATATAGTAATAATAGACTTATAAATAAAATATTAAAGAAAAATA
TATATATATATATAAT
Found at i:177039 original size:106 final size:106
Alignment explanation
Indices: 176854--177328 Score: 797
Period size: 106 Copynumber: 4.5 Consensus size: 106
176844 AGTATTGTTC
* * * * * *
176854 CGAGTCCAATATTCTCCGCCGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
176919 ACCAGCCGTCCCTTCGTTATGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
*
176960 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
177025 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
**
177066 CGAGTCCAATGCCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
177131 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTTTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* **
177172 CGAGTCCAGTGCCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
177237 ACCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
*
177278 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
177329 GTTATTTTGT
Statistics
Matches: 350, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
106 350 1.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:180799 original size:20 final size:20
Alignment explanation
Indices: 180725--180807 Score: 78
Period size: 20 Copynumber: 4.0 Consensus size: 20
180715 AGCAGAACCC
*
180725 CAGGGGGGTATCGATTCCC-
1 CAGGGGGGAATCGATTCCCT
* *
180744 CTGTGGGGGAATCGGTTCCCTT
1 CAG-GGGGGAATCGATTCCC-T
* *
180766 CAAAGGGGGAATCGGTTCCCT
1 C-AGGGGGGAATCGATTCCCT
*
180787 CAGGGGGGGATCGATTCCCT
1 CAGGGGGGAATCGATTCCCT
180807 C
1 C
180808 TGCACCAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
19 2 0.04
20 31 0.60
21 2 0.04
22 17 0.33
ACGTcount: A:0.16, C:0.25, G:0.36, T:0.23
Consensus pattern (20 bp):
CAGGGGGGAATCGATTCCCT
Found at i:184605 original size:20 final size:21
Alignment explanation
Indices: 184580--184620 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
184570 GAGTTTGTTT
*
184580 TCATTTTCA-ATTTTGAAACA
1 TCATTTTCATATTTTAAAACA
*
184600 TCATTTTTATATTTTAAAACA
1 TCATTTTCATATTTTAAAACA
184621 ATTTCTCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.37, C:0.12, G:0.02, T:0.49
Consensus pattern (21 bp):
TCATTTTCATATTTTAAAACA
Found at i:186908 original size:257 final size:262
Alignment explanation
Indices: 186430--186952 Score: 986
Period size: 258 Copynumber: 2.0 Consensus size: 262
186420 AACATTTAAT
186430 AAAACAGCTTGGACAGTGGAAGGAATCGTTCCCTATCATAGGGAATCGGTTCCCTAAGTGTAAAA
1 AAAACAGCTTGGACAGTGGAAGGAATCGTTCCCTATCATAGGGAATCGGTTCCCTAAGTGTAAAA
186495 TTCAAATATTTCGACCGTTGAACAGGGGAGAATCGGTACCCCCTTGGGGGGAATCGGTTCCCTCC
66 TTCAAATATTTCGACCGTTGAACAGGGGAGAATCGGTACCCCCTT-GGGGGAATCGGTTCCCTCC
186560 GAGCATTCTGGAAATCTCGGAGCCAAACCATTCAGGGGGGAATCGGTTCCTCCTATGGGGGGAAT
130 GAGCATTCTGGAAATCTCGGAGCCAAACCATTCAGGGGGGAATCGGTTCCTCCTATGGGGGGAAT
186625 CGGTTCCCTCTGAGTATTCTGGAATTTTTGGC-TTGAATTGGTTCGAAATACTTTGTAAAA-ATT
195 CGGTTCCCTCTGAGTATTCTGGAATTTTTGGCTTTGAATTGGTTCGAAATACTTTGTAAAATATT
186688 TTG
260 TTG
186691 AAAACAGCTTGGACAGTGGAAGGAATCGGTTCCCTATCATAGGGAATCGGTTCCCTAAGTGTAAA
1 AAAACAGCTTGGACAGTGGAAGGAATC-GTTCCCTATCATAGGGAATCGGTTCCCTAAGTGTAAA
186756 ATTC-AATATTTCGACCGTTGAACA-GGGAGAATCGGTACCCCCTT-GGGGAATCGGTTCCCTCC
65 ATTCAAATATTTCGACCGTTGAACAGGGGAGAATCGGTACCCCCTTGGGGGAATCGGTTCCCTCC
186818 GAGCATTCTGGAAATCTCGGAGCCAAACCATTCA-GGGGGAATCGGTTCCTCCTATGGGGGGAAT
130 GAGCATTCTGGAAATCTCGGAGCCAAACCATTCAGGGGGGAATCGGTTCCTCCTATGGGGGGAAT
186882 CGGTTCCCTCTGAGTATTCTGGAATTTTTGGCTTTGAATTGGTTCGAAATACTTTGTAAAATATT
195 CGGTTCCCTCTGAGTATTCTGGAATTTTTGGCTTTGAATTGGTTCGAAATACTTTGTAAAATATT
186947 TTG
260 TTG
186950 AAA
1 AAA
186953 TTGTTTTATG
Statistics
Matches: 259, Mismatches: 0, Indels: 8
0.97 0.00 0.03
Matches are distributed among these distances:
257 62 0.24
258 80 0.31
259 9 0.03
260 20 0.08
261 47 0.18
262 41 0.16
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (262 bp):
AAAACAGCTTGGACAGTGGAAGGAATCGTTCCCTATCATAGGGAATCGGTTCCCTAAGTGTAAAA
TTCAAATATTTCGACCGTTGAACAGGGGAGAATCGGTACCCCCTTGGGGGAATCGGTTCCCTCCG
AGCATTCTGGAAATCTCGGAGCCAAACCATTCAGGGGGGAATCGGTTCCTCCTATGGGGGGAATC
GGTTCCCTCTGAGTATTCTGGAATTTTTGGCTTTGAATTGGTTCGAAATACTTTGTAAAATATTT
TG
Found at i:188599 original size:18 final size:18
Alignment explanation
Indices: 188572--188607 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
188562 TGTTAAATCC
*
188572 CCAAAGATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
188590 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
188608 TTGATGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.33, G:0.08, T:0.17
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:193160 original size:10 final size:9
Alignment explanation
Indices: 193141--193184 Score: 63
Period size: 10 Copynumber: 4.8 Consensus size: 9
193131 ACAGTTAGTA
193141 AAATAAAAAT
1 AAAT-AAAAT
193151 AAATAGAAAT
1 AAATA-AAAT
193161 AAATAAAAT
1 AAATAAAAT
193170 AAAT-AAAT
1 AAATAAAAT
193178 AAATAAA
1 AAATAAA
193185 TGGCAAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 8 0.25
9 11 0.34
10 13 0.41
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.20
Consensus pattern (9 bp):
AAATAAAAT
Found at i:193164 original size:4 final size:4
Alignment explanation
Indices: 193147--193185 Score: 51
Period size: 4 Copynumber: 9.0 Consensus size: 4
193137 AGTAAAATAA
193147 AAAT AAAT AGAAAT AAAT AAAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT --AAAT AAAT -AAAT AAAT AAAT AAAT AAAT
193186 GGCAAGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 24 0.75
5 4 0.12
6 4 0.12
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:193179 original size:17 final size:18
Alignment explanation
Indices: 193141--193184 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
193131 ACAGTTAGTA
193141 AAATAAAAATAAATAGAAAT
1 AAAT-AAAATAAATA-AAAT
193161 AAATAAAATAAAT-AAAT
1 AAATAAAATAAATAAAAT
193178 AAATAAA
1 AAATAAA
193185 TGGCAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.46
19 9 0.38
20 4 0.17
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.20
Consensus pattern (18 bp):
AAATAAAATAAATAAAAT
Found at i:194282 original size:36 final size:38
Alignment explanation
Indices: 194217--194292 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 38
194207 AATATATATA
*
194217 TATATATATACATCAAAGTATTAATAAAATA-AATAAGC
1 TATATATATACAACAAAGTATTAATAAAATAGAA-AAGC
*
194255 TATATATATACAACAAA-TATTTA-AAAATAGAAAAGC
1 TATATATATACAACAAAGTATTAATAAAATAGAAAAGC
194291 TA
1 TA
194293 CCCTCTCACT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 12 0.34
37 7 0.20
38 16 0.46
ACGTcount: A:0.57, C:0.08, G:0.05, T:0.30
Consensus pattern (38 bp):
TATATATATACAACAAAGTATTAATAAAATAGAAAAGC
Found at i:194704 original size:82 final size:83
Alignment explanation
Indices: 194551--194711 Score: 197
Period size: 82 Copynumber: 2.0 Consensus size: 83
194541 AAATAATCAA
* * * *
194551 ATAAAAATAATTAAGAATATATATATTAATAATAGGTATATAAATAAACTATTAAAAGTATAAAT
1 ATAAAAATAATTAACAATATATATAGTAATAATAGCTATATAAATAAACTATTAAAAGTAAAAAT
194616 ATTTATATATATAACTAG
66 ATTTATATATATAACTAG
* *
194634 ATAAAGATAATT-ACAATATATATAGTAATAATAGACT-TATAAGTAAA-TATT-AAAG-AAACA
1 ATAAAAATAATTAACAATATATATAGTAATAATAG-CTATATAAATAAACTATTAAAAGTAAA-A
194694 TATATATTATATATATAA
64 -ATAT-TTATATATATAA
194712 TAAATATAGT
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
79 2 0.03
80 5 0.07
81 8 0.12
82 41 0.60
83 12 0.18
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (83 bp):
ATAAAAATAATTAACAATATATATAGTAATAATAGCTATATAAATAAACTATTAAAAGTAAAAAT
ATTTATATATATAACTAG
Found at i:194752 original size:2 final size:2
Alignment explanation
Indices: 194745--194781 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
194735 AAATAATTTA
194745 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
194782 CGTATAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:197998 original size:3 final size:3
Alignment explanation
Indices: 197983--198030 Score: 78
Period size: 3 Copynumber: 15.7 Consensus size: 3
197973 TCCTTTTACG
*
197983 ATT ATT TTT ATT ATT ATT ATT ATT ATT ATT ATAT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
198029 AT
1 AT
198031 ATTTTTGTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:198161 original size:21 final size:20
Alignment explanation
Indices: 198137--198179 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
198127 AAGTATTTGA
198137 TATATATTTA-TTATTCTTTAT
1 TATATATTTACTT-TT-TTTAT
*
198158 TATATTTTTACTTTTTTTAT
1 TATATATTTACTTTTTTTAT
198178 TA
1 TA
198180 ACCATTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 11 0.55
22 2 0.10
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (20 bp):
TATATATTTACTTTTTTTAT
Found at i:198197 original size:2 final size:2
Alignment explanation
Indices: 198190--198225 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
198180 ACCATTAAAT
198190 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
198226 TTTTGTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:198310 original size:21 final size:21
Alignment explanation
Indices: 198286--198326 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
198276 TTTTTTTCTT
198286 TTTTTATCGTGTTTTATTTTA
1 TTTTTATCGTGTTTTATTTTA
**
198307 TTTTTATTTTGTTTTATTTT
1 TTTTTATCGTGTTTTATTTT
198327 TTATTTGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.78
Consensus pattern (21 bp):
TTTTTATCGTGTTTTATTTTA
Found at i:198333 original size:16 final size:16
Alignment explanation
Indices: 198297--198368 Score: 56
Period size: 16 Copynumber: 4.1 Consensus size: 16
198287 TTTTATCGTG
*
198297 TTTTATTTTATTTTTA
1 TTTTGTTTTATTTTTA
198313 TTTTGTTTTATTTTTTA
1 TTTTGTTTTA-TTTTTA
198330 TTTGTGTTCCCATT-TTATTTA
1 TTT-TGTT----TTATT-TTTA
*
198351 ATTTGTTTTATTTTTA
1 TTTTGTTTTATTTTTA
198367 TT
1 TT
198369 CTTAGTTATT
Statistics
Matches: 45, Mismatches: 3, Indels: 16
0.70 0.05 0.25
Matches are distributed among these distances:
16 16 0.36
17 11 0.24
18 4 0.09
20 6 0.13
21 6 0.13
22 2 0.04
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.75
Consensus pattern (16 bp):
TTTTGTTTTATTTTTA
Found at i:198396 original size:18 final size:20
Alignment explanation
Indices: 198375--198417 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
198365 TATTCTTAGT
198375 TATTTTATT-ATCA-TTTTC
1 TATTTTATTCATCATTTTTC
*
198393 TATTTTATTCATTATTTTTC
1 TATTTTATTCATCATTTTTC
198413 TATTT
1 TATTT
198418 ACATTCTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.41
19 3 0.14
20 10 0.45
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (20 bp):
TATTTTATTCATCATTTTTC
Found at i:203582 original size:16 final size:16
Alignment explanation
Indices: 203561--203638 Score: 120
Period size: 16 Copynumber: 4.9 Consensus size: 16
203551 TTTCCCGACA
203561 TGTTTTCAACCTGACT
1 TGTTTTCAACCTGACT
203577 TGTTTTCAACCTGACT
1 TGTTTTCAACCTGACT
*
203593 TGTTTTCAACCTGACC
1 TGTTTTCAACCTGACT
* *
203609 TGTTTTTAACCTGACA
1 TGTTTTCAACCTGACT
*
203625 TGTTTTTAACCTGA
1 TGTTTTCAACCTGA
203639 TATGTAAATG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 59 1.00
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.44
Consensus pattern (16 bp):
TGTTTTCAACCTGACT
Found at i:203844 original size:23 final size:24
Alignment explanation
Indices: 203806--203855 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
203796 ATGCAAAGGA
*
203806 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAATTTAATTTATAT
203830 AAATT-ATATAATTTAATTTATAT
1 AAATTAATATAATTTAATTTATAT
203853 AAA
1 AAA
203856 GAAAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
AAATTAATATAATTTAATTTATAT
Found at i:210305 original size:19 final size:19
Alignment explanation
Indices: 210281--210351 Score: 142
Period size: 19 Copynumber: 3.7 Consensus size: 19
210271 TTTAAGTAGG
210281 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
210300 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
210319 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
210338 TGCATCGATGCACT
1 TGCATCGATGCACT
210352 AGTTGCATTC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.31
Consensus pattern (19 bp):
TGCATCGATGCACTCCTTA
Found at i:211600 original size:20 final size:19
Alignment explanation
Indices: 211575--211639 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 19
211565 ATAGATTGTA
211575 TATATACATATACTATAGGT
1 TATATACATATAC-ATAGGT
*
211595 TATAT--ATATACATAGTT
1 TATATACATATACATAGGT
211612 TATATACACTATACATA-GT
1 TATATACA-TATACATAGGT
211631 T-TATACATA
1 TATATACATA
211640 CATGATACAT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
17 12 0.30
18 12 0.30
19 3 0.08
20 13 0.32
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.42
Consensus pattern (19 bp):
TATATACATATACATAGGT
Found at i:211688 original size:36 final size:36
Alignment explanation
Indices: 211638--211707 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 36
211628 AGTTTATACA
211638 TACATGATACATATACTATAAGTTACA-TATATAGT
1 TACATGATACATATACTATAAGTTACATTATATAGT
* *
211673 TACATGTATACATATATTATATGTTACATTATATA
1 TACATG-ATACATATACTATAAGTTACATTATATA
211708 TTAACTATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 6 0.19
36 19 0.61
37 6 0.19
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (36 bp):
TACATGATACATATACTATAAGTTACATTATATAGT
Found at i:211901 original size:42 final size:42
Alignment explanation
Indices: 211854--211941 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
211844 TAGTTTATGC
* * *
211854 ATATAGTTTACATTATATGTATACATATACTATAAGTTACAT
1 ATATAGTTTACATTACATGAATACACATACTATAAGTTACAT
211896 ATATAGTTTACATTACATGAATACACATACTATAAGTTACAT
1 ATATAGTTTACATTACATGAATACACATACTATAAGTTACAT
211938 ATAT
1 ATAT
211942 TAAACTATTG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (42 bp):
ATATAGTTTACATTACATGAATACACATACTATAAGTTACAT
Found at i:212236 original size:70 final size:71
Alignment explanation
Indices: 212143--212318 Score: 169
Period size: 77 Copynumber: 2.4 Consensus size: 71
212133 TATATATATA
*
212143 TATATATTACTTATATTAG-TTATACATA-CATACATACATATACTATATTAATATAAATTATAA
1 TATATATT--TTATA-TAGTTTATACATATCATACATACATATACTATATTAATATAAATAATAA
212206 CATATAAAC
63 CATATAAAC
* * *
212215 TATATATTTTATATAGTTTATACATATATAGTTTATATATATATATACTATATTAATATAAATAA
1 TATATATTTTATATAGTTTATAC----ATA--TCATACATACATATACTATATTAATATAAATAA
*** *
212280 TATTTTATAAAT
60 TAACATATAAAC
212292 TATATACTTTT-TATAGTTTATACATAT
1 TATATA-TTTTATATAGTTTATACATAT
212319 ATAGTTTATA
Statistics
Matches: 87, Mismatches: 8, Indels: 19
0.76 0.07 0.17
Matches are distributed among these distances:
69 3 0.03
70 11 0.13
71 1 0.01
72 8 0.09
73 3 0.03
74 3 0.03
77 54 0.62
78 4 0.05
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (71 bp):
TATATATTTTATATAGTTTATACATATCATACATACATATACTATATTAATATAAATAATAACAT
ATAAAC
Found at i:212261 original size:17 final size:15
Alignment explanation
Indices: 212224--212259 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
212214 CTATATATTT
212224 TATATAGTTTATACA
1 TATATAGTTTATACA
*
212239 TATATAGTTTATATA
1 TATATAGTTTATACA
212254 TATATA
1 TATATA
212260 TACTATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (15 bp):
TATATAGTTTATACA
Found at i:212266 original size:15 final size:15
Alignment explanation
Indices: 212132--212267 Score: 57
Period size: 15 Copynumber: 8.9 Consensus size: 15
212122 TATTTCTTTA
212132 ATATATA-TATATAT
1 ATATATACTATATAT
212146 ATAT-TACTTATATTAGTT
1 ATATATAC-TATA-TA--T
* *
212164 ATACATAC-ATACAT
1 ATATATACTATATAT
*
212178 ACATATACTATAT-T
1 ATATATACTATATAT
* * *
212192 AATATAAATTATA-AC
1 -ATATATACTATATAT
*
212207 ATATAAACTATATATT
1 ATATATACTATATA-T
* * * *
212223 TTATATAGTTTATAC
1 ATATATACTATATAT
*
212238 ATATATAGTTTATATAT
1 ATATATA--CTATATAT
212255 ATATATACTATAT
1 ATATATACTATAT
212268 TAATATAAAT
Statistics
Matches: 88, Mismatches: 21, Indels: 25
0.66 0.16 0.19
Matches are distributed among these distances:
13 2 0.02
14 23 0.26
15 28 0.32
16 13 0.15
17 15 0.17
18 4 0.05
19 3 0.03
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (15 bp):
ATATATACTATATAT
Found at i:212268 original size:77 final size:77
Alignment explanation
Indices: 212180--212330 Score: 241
Period size: 77 Copynumber: 2.0 Consensus size: 77
212170 ACATACATAC
*
212180 ATATACTATATTAATATAAATTATAACATATAAACTATATA-TTTTATATAGTTTATACATATAT
1 ATATACTATATTAATATAAATAATAACATATAAACTATATACTTTT-TATAGTTTATACATATAT
212244 AGTTTATATATAT
65 AGTTTATATATAT
*** *
212257 ATATACTATATTAATATAAATAATATTTTATAAATTATATACTTTTTATAGTTTATACATATATA
1 ATATACTATATTAATATAAATAATAACATATAAACTATATACTTTTTATAGTTTATACATATATA
212322 GTTTATATA
66 GTTTATATA
212331 CATAGTTCAC
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
77 64 0.94
78 4 0.06
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (77 bp):
ATATACTATATTAATATAAATAATAACATATAAACTATATACTTTTTATAGTTTATACATATATA
GTTTATATATAT
Found at i:212380 original size:18 final size:20
Alignment explanation
Indices: 212347--212398 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 20
212337 TCACATAAAC
212347 ATAATATATATATATAACTT
1 ATAATATATATATATAACTT
**
212367 ATAATA-AT-TATATAGTTT
1 ATAATATATATATATAACTT
*
212385 ATAATATAAATATA
1 ATAATATATATATA
212399 GTTTATAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 14 0.52
19 3 0.11
20 10 0.37
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
ATAATATATATATATAACTT
Found at i:212484 original size:20 final size:18
Alignment explanation
Indices: 212376--212477 Score: 73
Period size: 18 Copynumber: 5.4 Consensus size: 18
212366 TATAATAATT
212376 ATATAGTTTATAATATAA
1 ATATAGTTTATAATATAA
* *
212394 ATATAGTTTATAATTTTAT
1 ATATAGTTTATAA-TATAA
*
212413 ACATAGTTTAT-ATATAA
1 ATATAGTTTATAATATAA
* ** *
212430 TGCACATA-AATATAATTTATAT
1 ---ATATAGTTTATAA--TATAA
212452 ATATAGTTTATAATATAA
1 ATATAGTTTATAATATAA
212470 ATATAGTT
1 ATATAGTT
212478 ATTATAAAAT
Statistics
Matches: 64, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
17 3 0.05
18 26 0.41
19 20 0.31
20 11 0.17
22 4 0.06
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (18 bp):
ATATAGTTTATAATATAA
Found at i:217763 original size:5 final size:5
Alignment explanation
Indices: 217749--217801 Score: 56
Period size: 5 Copynumber: 11.0 Consensus size: 5
217739 GCCCTAAATT
* * * *
217749 GAAAA AAAAA GAAAA -AATA -ACAA GAAAA GAAAA AAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
217797 GAAAA
1 GAAAA
217802 ATAAGGTGGG
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
4 5 0.13
5 34 0.87
ACGTcount: A:0.83, C:0.02, G:0.13, T:0.02
Consensus pattern (5 bp):
GAAAA
Found at i:217783 original size:20 final size:20
Alignment explanation
Indices: 217760--217802 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
217750 AAAAAAAAAG
*
217760 AAAAAATAACAAGAAAAGAAA
1 AAAAAAGAA-AAGAAAAGAAA
217781 AAAAAAGAAAAGAAAAGAAA
1 AAAAAAGAAAAGAAAAGAAA
217801 AA
1 AA
217803 TAAGGTGGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.84, C:0.02, G:0.12, T:0.02
Consensus pattern (20 bp):
AAAAAAGAAAAGAAAAGAAA
Found at i:218431 original size:14 final size:14
Alignment explanation
Indices: 218412--218438 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
218402 AATCAGAACT
218412 TCAAGATTCCAGAA
1 TCAAGATTCCAGAA
218426 TCAAGATTCCAGA
1 TCAAGATTCCAGA
218439 CAGGCAACCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (14 bp):
TCAAGATTCCAGAA
Found at i:218704 original size:61 final size:59
Alignment explanation
Indices: 218628--218788 Score: 229
Period size: 58 Copynumber: 2.7 Consensus size: 59
218618 AACTTACTCG
218628 AGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAACCCAATTTGGTG-AAGCAAA
1 AGATTGGATTTCAACTTCACAACGAAGGATATCCAA-TCAAA-CCAATTTGGTGAAAG-AAA
*
218689 AGATTGGATTTCAACTTCACTACGAAGGATATCCAAT--AACCAATTTGGTGAAAGAAA
1 AGATTGGATTTCAACTTCACAACGAAGGATATCCAATCAAACCAATTTGGTGAAAGAAA
* *
218746 AGGATTGGATTTCAACTTCACGACGAAAGATATCCAATTCAAA
1 A-GATTGGATTTCAACTTCACAACGAAGGATATCCAA-TCAAA
218789 GCTCAACTTC
Statistics
Matches: 92, Mismatches: 3, Indels: 10
0.88 0.03 0.10
Matches are distributed among these distances:
57 15 0.16
58 38 0.41
59 1 0.01
60 1 0.01
61 37 0.40
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.25
Consensus pattern (59 bp):
AGATTGGATTTCAACTTCACAACGAAGGATATCCAATCAAACCAATTTGGTGAAAGAAA
Found at i:218887 original size:121 final size:120
Alignment explanation
Indices: 218748--219164 Score: 524
Period size: 121 Copynumber: 3.5 Consensus size: 120
218738 GAAAGAAAAG
* *
218748 GATTGGATTTCAACTTCACGACGAAAGATATCCAATTCAAAGCTCAACTTCGCAACGAAAGAGCC
1 GATTGGATTTCAACTTCACGACGAAAGATATCCAATTCAAAGCTCAACTTCACAACGAAAGGGCC
* * * *
218813 AGCCACGATTTCAACTCCACGACGGAGGATATCGTGCCCACAACCAACTCACTCAA
66 ATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACTCACTC-A
* * * * *
218869 GATTGGATTTCAACTTCACGATGAAAGATATCCAATTCGAGGCT---TTTCACAACGAAGGGGCC
1 GATTGGATTTCAACTTCACGACGAAAGATATCCAATTCAAAGCTCAACTTCACAACGAAAGGGCC
* * * *
218931 ATCCACGATTTCAACTTCATGACGAAGGATATTGTGCCCACCAGTAACATTCATCTTCA
66 ATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAAC--TCA-C-TCA
* * *
218990 GATTGGATTTCAACTTCACGACGAAAGATATCCAATTCAAGGCTCAACTTCACAACGAATGGGCT
1 GATTGGATTTCAACTTCACGACGAAAGATATCCAATTCAAAGCTCAACTTCACAACGAAAGGGCC
* *
219055 ATCCATGATTTCAACTTCACGATGAAGGATATCGTGCCCACAAGC-A-TCA-TC-
66 ATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACTCACTCA
* * * *
219106 CATTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAGCGAA
1 GATTGGATTTCAACTTCACGACGAAAGATATCCAATTCAAAGCTCAACTTCACAACGAA
219165 GGAGCTTTCC
Statistics
Matches: 258, Mismatches: 31, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
116 54 0.21
117 2 0.01
118 54 0.21
120 6 0.02
121 85 0.33
122 2 0.01
123 1 0.00
124 54 0.21
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (120 bp):
GATTGGATTTCAACTTCACGACGAAAGATATCCAATTCAAAGCTCAACTTCACAACGAAAGGGCC
ATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACTCACTCA
Found at i:220875 original size:17 final size:17
Alignment explanation
Indices: 220849--220888 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
220839 TTTTTATTCC
*
220849 TATTTACTTTATTATAT
1 TATTTACTTTAATATAT
* *
220866 TATTTTCTTTAATATTT
1 TATTTACTTTAATATAT
220883 TATTTA
1 TATTTA
220889 TACGTATACA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (17 bp):
TATTTACTTTAATATAT
Found at i:220963 original size:19 final size:21
Alignment explanation
Indices: 220939--220980 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
220929 AAGTATTTGA
220939 TATATTTATTA-TT-TTTTAT
1 TATATTTATTACTTGTTTTAT
*
220958 TATATTTTTTACTTGTTTTAT
1 TATATTTATTACTTGTTTTAT
220979 TA
1 TA
220981 ACCATTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
20 2 0.10
21 8 0.40
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (21 bp):
TATATTTATTACTTGTTTTAT
Found at i:221071 original size:31 final size:29
Alignment explanation
Indices: 221036--221124 Score: 78
Period size: 31 Copynumber: 3.0 Consensus size: 29
221026 ATTTTGTTGG
221036 TTTCTTTTATTTCTTTATTTAATTCTATTTT
1 TTTCTTTTATTTC-TTATTT-ATTCTATTTT
*
221067 TTTCTTTT-TTATCGTTGTTTTATT-T-TTGTT
1 TTTCTTTTATT-TC-TT-ATTTATTCTATT-TT
*
221097 TTTGTTTTATTTCTTATTT-TTCTATTTT
1 TTTCTTTTATTTCTTATTTATTCTATTTT
221125 GTTTTATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
27 2 0.04
28 6 0.12
29 6 0.12
30 14 0.29
31 17 0.35
32 3 0.06
ACGTcount: A:0.11, C:0.08, G:0.04, T:0.76
Consensus pattern (29 bp):
TTTCTTTTATTTCTTATTTATTCTATTTT
Found at i:221117 original size:25 final size:24
Alignment explanation
Indices: 221084--221139 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 24
221074 TTTATCGTTG
*
221084 TTTTATTTTTGT-TTTTGTTTTAT
1 TTTTATTTTTCTATTTTGTTTTAT
221107 TTCTTATTTTTCTATTTTGTTTTAT
1 TT-TTATTTTTCTATTTTGTTTTAT
221132 TTTTATTT
1 TTTTATTT
221140 GTGTTCCATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 2 0.07
24 15 0.50
25 13 0.43
ACGTcount: A:0.11, C:0.04, G:0.05, T:0.80
Consensus pattern (24 bp):
TTTTATTTTTCTATTTTGTTTTAT
Found at i:226488 original size:3 final size:3
Alignment explanation
Indices: 226470--226520 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
226460 GAAAAAACAT
226470 TAA TAA -AA TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
226516 TAA TA
1 TAA TA
226521 CTATTTTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 4 0.09
3 42 0.91
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:229937 original size:16 final size:15
Alignment explanation
Indices: 229908--229953 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
229898 AGCTTTTTTC
229908 TTTGTTTTTTTCTTT
1 TTTGTTTTTTTCTTT
229923 TTTGTTTTGTTTCTTT
1 TTTGTTTT-TTTCTTT
* *
229939 TCTCTTTTTGTTCTT
1 TTTGTTTTT-TTCTT
229954 GATTGGATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 9 0.33
16 18 0.67
ACGTcount: A:0.00, C:0.11, G:0.09, T:0.80
Consensus pattern (15 bp):
TTTGTTTTTTTCTTT
Found at i:234471 original size:23 final size:23
Alignment explanation
Indices: 234440--234483 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
234430 CCCCATGTAA
* * *
234440 TAGTGGTGGAGTAGGATTAATAG
1 TAGTAGTGGAATAAGATTAATAG
234463 TAGTAGTGGAATAAGATTAAT
1 TAGTAGTGGAATAAGATTAAT
234484 GGTACGGTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (23 bp):
TAGTAGTGGAATAAGATTAATAG
Found at i:241488 original size:20 final size:20
Alignment explanation
Indices: 241465--241528 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 20
241455 TAGTATTTAG
241465 ATAAAT-TTATTAATAATTTT
1 ATAAATATT-TTAATAATTTT
* *
241485 AT-AATCTTTTAATAAATTTA
1 ATAAATATTTTAAT-AATTTT
*
241505 ATAAGTATTTT-ATAATTTT
1 ATAAATATTTTAATAATTTT
*
241524 TTAAA
1 ATAAA
241529 CTTTATTGAC
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
19 16 0.46
20 13 0.37
21 6 0.17
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
ATAAATATTTTAATAATTTT
Found at i:241498 original size:19 final size:20
Alignment explanation
Indices: 241474--241523 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
241464 GATAAATTTA
*
241474 TTAATAATTTTATAA-TCTT
1 TTAATAATTTTATAAGTATT
*
241493 TTAATAAATTTAATAAGTATT
1 TTAAT-AATTTTATAAGTATT
241514 TT-ATAATTTT
1 TTAATAATTTT
241524 TTAAACTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.38
20 11 0.42
21 5 0.19
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TTAATAATTTTATAAGTATT
Found at i:241526 original size:31 final size:30
Alignment explanation
Indices: 241441--241527 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
241431 TTCGATAATA
* *
241441 TAATAATTATTTTAT-AGTATTTAGATAAATT
1 TAATAA-TATTTTATAATTTTTTA-ATAAATT
* *
241472 TATTAATAATTTTATAATCTTTTAATAAATT
1 TAATAAT-ATTTTATAATTTTTTAATAAATT
241503 TAATAAGTATTTTATAATTTTTTAA
1 TAATAA-TATTTTATAATTTTTTAA
241528 ACTTTATTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
30 1 0.02
31 40 0.85
32 6 0.13
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (30 bp):
TAATAATATTTTATAATTTTTTAATAAATT
Found at i:242296 original size:31 final size:31
Alignment explanation
Indices: 242242--242318 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
242232 CATTTTCTTC
*
242242 AATAAATTT-TAAAAAAATTATAAAA-TACTT
1 AATAAATTTATTAAAAAATTATAAAATTA-TT
* *
242272 ATTAAATTTATTAAAAGATTATAAAATTATT
1 AATAAATTTATTAAAAAATTATAAAATTATT
242303 AATAAATTTATCTAAA
1 AATAAATTTAT-TAAA
242319 TACTATAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
30 8 0.20
31 26 0.65
32 6 0.15
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (31 bp):
AATAAATTTATTAAAAAATTATAAAATTATT
Found at i:242302 original size:19 final size:21
Alignment explanation
Indices: 242255--242304 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 21
242245 AAATTTTAAA
*
242255 AAAATTA-TAAAATACTTATT
1 AAAATTATTAAAAGACTTATT
*
242275 AAATTTATTAAAAGA-TTA-T
1 AAAATTATTAAAAGACTTATT
242294 AAAATTATTAA
1 AAAATTATTAA
242305 TAAATTTATC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 11 0.42
20 9 0.35
21 6 0.23
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
AAAATTATTAAAAGACTTATT
Found at i:242326 original size:31 final size:31
Alignment explanation
Indices: 242260--242346 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 31
242250 TTAAAAAAAT
*
242260 TATAAAA-TACTTATTAAATTTAT-TAAAAGAT
1 TATAAAATTA-TTATTAAATTTATCT-AAAGAC
* *
242291 TATAAAATTATTAATAAATTTATCTAAATAC
1 TATAAAATTATTATTAAATTTATCTAAAGAC
*
242322 TAT-AAATTATTATTATA-TTATCTAA
1 TATAAAATTATTATTAAATTTATCTAA
242347 CTTTTATAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.16
30 12 0.24
31 26 0.53
32 3 0.06
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (31 bp):
TATAAAATTATTATTAAATTTATCTAAAGAC
Found at i:242354 original size:29 final size:30
Alignment explanation
Indices: 242258--242362 Score: 88
Period size: 31 Copynumber: 3.5 Consensus size: 30
242248 TTTTAAAAAA
* * *
242258 ATTATAAAATACTTATTAAATTTAT-TAAAAG
1 ATTATAAATTA-TTAATAAATTTATCT-AAAT
242289 ATTATAAAATTATTAATAAATTTATCTAAAT
1 ATTAT-AAATTATTAATAAATTTATCTAAAT
* * * *
242320 ACTATAAATTATTATTATA-TTATCTAACT
1 ATTATAAATTATTAATAAATTTATCTAAAT
* *
242349 TTTATAATTTATTA
1 ATTATAAATTATTA
242363 CAACATTATA
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
29 20 0.32
30 12 0.19
31 24 0.39
32 6 0.10
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.48
Consensus pattern (30 bp):
ATTATAAATTATTAATAAATTTATCTAAAT
Done.