Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008483.1 Hibiscus syriacus cultivar Beakdansim tig00111317_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: 262260
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:951 original size:12 final size:12
Alignment explanation
Indices: 933--975 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
923 ACTATACGGT
933 ATGAACAATACC
1 ATGAACAATACC
* *
945 TTGAACAGTA--
1 ATGAACAATACC
955 ATGAACAATACC
1 ATGAACAATACC
967 ATGAACAAT
1 ATGAACAAT
976 GCTACATTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 8 0.32
12 17 0.68
ACGTcount: A:0.49, C:0.19, G:0.12, T:0.21
Consensus pattern (12 bp):
ATGAACAATACC
Found at i:1067 original size:21 final size:21
Alignment explanation
Indices: 1038--1077 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1028 ATATAAATTA
*
1038 TGTATCGATGCACTACTACAG
1 TGTACCGATGCACTACTACAG
*
1059 TGTACCGATGCACTGCTAC
1 TGTACCGATGCACTACTAC
1078 TGCTACAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (21 bp):
TGTACCGATGCACTACTACAG
Found at i:3597 original size:15 final size:15
Alignment explanation
Indices: 3577--3607 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
3567 ACATATATAA
3577 TTTAATTACCTAGAC
1 TTTAATTACCTAGAC
3592 TTTAATTACCTAGAC
1 TTTAATTACCTAGAC
3607 T
1 T
3608 ATCAAAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (15 bp):
TTTAATTACCTAGAC
Found at i:5444 original size:29 final size:29
Alignment explanation
Indices: 5402--5467 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
5392 GGAACATATA
* **
5402 AATAGTTGGAGGACAACTTTGTAACTTTT
1 AATAGTCGGAGGACAACTTTACAACTTTT
*
5431 AATAGTCGGAGGACCACTTTACAACTTTT
1 AATAGTCGGAGGACAACTTTACAACTTTT
5460 AATAGTCG
1 AATAGTCG
5468 AGATACTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (29 bp):
AATAGTCGGAGGACAACTTTACAACTTTT
Found at i:14490 original size:24 final size:24
Alignment explanation
Indices: 14444--14532 Score: 133
Period size: 24 Copynumber: 3.7 Consensus size: 24
14434 ATAAAAAAAA
* * *
14444 ATAAACGAGCTTATCAATTAACTT
1 ATAAACGAGCTTCTAAATGAACTT
* *
14468 ATAAACAAGTTTCTAAATGAACTT
1 ATAAACGAGCTTCTAAATGAACTT
14492 ATAAACGAGCTTCTAAATGAACTT
1 ATAAACGAGCTTCTAAATGAACTT
14516 ATAAACGAGCTTCTAAA
1 ATAAACGAGCTTCTAAA
14533 CAAGATTGTT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.30
Consensus pattern (24 bp):
ATAAACGAGCTTCTAAATGAACTT
Found at i:14532 original size:12 final size:12
Alignment explanation
Indices: 14478--14533 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 12
14468 ATAAACAAGT
*
14478 TTCTAAATGAAC
1 TTCTAAACGAAC
* *
14490 TTATAAACGAGC
1 TTCTAAACGAAC
*
14502 TTCTAAATGAAC
1 TTCTAAACGAAC
* *
14514 TTATAAACGAGC
1 TTCTAAACGAAC
14526 TTCTAAAC
1 TTCTAAAC
14534 AAGATTGTTT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (12 bp):
TTCTAAACGAAC
Found at i:17344 original size:4 final size:4
Alignment explanation
Indices: 17322--17359 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
17312 CATTTGAATT
17322 TAAA -AAA TACAA T-AA TAAA TAAA TAAA TAAA TAAA TAA
1 TAAA TAAA TA-AA TAAA TAAA TAAA TAAA TAAA TAAA TAA
17360 GAAAGAGATG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
3 6 0.19
4 22 0.71
5 3 0.10
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:23406 original size:36 final size:36
Alignment explanation
Indices: 23359--23447 Score: 178
Period size: 36 Copynumber: 2.5 Consensus size: 36
23349 TTTTTTGGTT
23359 TGGTTATATGCCATCACGAGTGGCCAAGAAATCTGG
1 TGGTTATATGCCATCACGAGTGGCCAAGAAATCTGG
23395 TGGTTATATGCCATCACGAGTGGCCAAGAAATCTGG
1 TGGTTATATGCCATCACGAGTGGCCAAGAAATCTGG
23431 TGGTTATATGCCATCAC
1 TGGTTATATGCCATCAC
23448 TCTTTGCTCC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (36 bp):
TGGTTATATGCCATCACGAGTGGCCAAGAAATCTGG
Found at i:24588 original size:2 final size:2
Alignment explanation
Indices: 24556--24666 Score: 62
Period size: 2 Copynumber: 58.0 Consensus size: 2
24546 AGTATTTTAT
* *
24556 TA TA TA TT TA T- TA TA GTA TA TT TA T- TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
24597 TA T- TA TT TCA TA TA -A TA TA T- TA -A T- TT TA TA TA T- TA TA
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
24634 GTA TA TT TA T- TA TA TA TGA TA GTA TA T- TA TA TA
1 -TA TA TA TA TA TA TA TA T-A TA -TA TA TA TA TA TA
24667 CTCTCTCTAA
Statistics
Matches: 85, Mismatches: 9, Indels: 30
0.69 0.07 0.24
Matches are distributed among these distances:
1 10 0.12
2 66 0.78
3 9 0.11
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.55
Consensus pattern (2 bp):
TA
Found at i:24598 original size:23 final size:23
Alignment explanation
Indices: 24551--24665 Score: 100
Period size: 21 Copynumber: 5.0 Consensus size: 23
24541 TCAATAGTAT
*
24551 TTTATTATATATTTATTATAGTATA
1 TTTATTATATATATA-TATA-TATA
24576 TTTATTATATATATATATATATA
1 TTTATTATATATATATATATATA
24599 -TTATT-TCATATA-ATATAT-TA
1 TTTATTAT-ATATATATATATATA
* *
24619 ATT-TTATATAT-TATA-GTATA
1 TTTATTATATATATATATATATA
24639 TTTATTATATATGATAGTATATTATA
1 TTTATTATATAT-ATA-TATA-TATA
24665 T
1 T
24666 ACTCTCTCTA
Statistics
Matches: 75, Mismatches: 4, Indels: 21
0.75 0.04 0.21
Matches are distributed among these distances:
19 1 0.01
20 15 0.20
21 18 0.24
22 10 0.13
23 6 0.08
24 6 0.08
25 14 0.19
26 5 0.07
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (23 bp):
TTTATTATATATATATATATATA
Found at i:25090 original size:7 final size:7
Alignment explanation
Indices: 25078--25152 Score: 67
Period size: 7 Copynumber: 11.7 Consensus size: 7
25068 ATTTTTAAAA
25078 ATATTAT
1 ATATTAT
25085 ATATTAT
1 ATATTAT
*
25092 AGT-CTAT
1 A-TATTAT
25099 ATATTAT
1 ATATTAT
25106 AT-TT-T
1 ATATTAT
25111 A-A-TAT
1 ATATTAT
*
25116 ATATTAC
1 ATATTAT
25123 ATATTAT
1 ATATTAT
25130 ATATTAT
1 ATATTAT
25137 -TATTA-
1 ATATTAT
25142 ATATTA-
1 ATATTAT
25148 ATATT
1 ATATT
25153 TTTGTTTTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
4 1 0.02
5 4 0.07
6 19 0.33
7 32 0.56
8 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (7 bp):
ATATTAT
Found at i:25100 original size:19 final size:19
Alignment explanation
Indices: 25045--25139 Score: 62
Period size: 17 Copynumber: 5.2 Consensus size: 19
25035 CGTATACCAT
*
25045 TTATATATAATAATAGGTATA
1 TTATATATTATAATA--TATA
*
25066 TTAT-T-TT-TAA-AAATA
1 TTATATATTATAATATATA
*
25081 TTATATATTATAGTCTATATA
1 TTATATATTATA--ATATATA
25102 TTATAT-TT-TAATATATA
1 TTATATATTATAATATATA
*
25119 TTACATATTAT-ATAT-TA
1 TTATATATTATAATATATA
25136 TTAT
1 TTAT
25140 TAATATTAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
15 7 0.12
16 1 0.02
17 19 0.32
18 11 0.19
19 4 0.07
20 3 0.05
21 14 0.24
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (19 bp):
TTATATATTATAATATATA
Found at i:25120 original size:31 final size:29
Alignment explanation
Indices: 25082--25145 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 29
25072 TTAAAAATAT
*
25082 TATATATT-ATAGTCTATATATTATATTTTAA
1 TATATATTAATA-T-TATATATTAT-TATTAA
25113 TATATATTACATATTATATATTATTATTAA
1 TATATATTA-ATATTATATATTATTATTAA
25143 TAT
1 TAT
25146 TAATATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 8 0.27
31 18 0.60
32 1 0.03
33 3 0.10
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.55
Consensus pattern (29 bp):
TATATATTAATATTATATATTATTATTAA
Found at i:25145 original size:19 final size:20
Alignment explanation
Indices: 25117--25152 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
25107 TTTTAATATA
25117 TATTACATATTATATATTAT
1 TATTACATATTATATATTAT
25137 TATTA-ATATTA-ATATT
1 TATTACATATTATATATT
25153 TTTGTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.31
19 6 0.38
20 5 0.31
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTACATATTATATATTAT
Found at i:25886 original size:20 final size:20
Alignment explanation
Indices: 25843--25888 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
25833 TCTGCACATG
* *
25843 AAGTTTCGAAACTTTGGAGC
1 AAGTTTCAAAACTTTGGAGA
25863 AAGTTTCAAAACTTT-GATGA
1 AAGTTTCAAAACTTTGGA-GA
25883 AAGTTT
1 AAGTTT
25889 TGAAATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.35
Consensus pattern (20 bp):
AAGTTTCAAAACTTTGGAGA
Found at i:26174 original size:2 final size:2
Alignment explanation
Indices: 26167--26201 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
26157 TCAAAAACAT
26167 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26202 TAGAAAACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:28788 original size:35 final size:35
Alignment explanation
Indices: 28744--28855 Score: 161
Period size: 35 Copynumber: 3.2 Consensus size: 35
28734 AAAACATTCA
* *
28744 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
28779 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
** * *
28814 TCAATTAAATTCTAAACCCCAAATTCTAAAATACT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
28849 TCAATTT
1 TCAATTT
28856 AAGGTTTAGA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.41, C:0.23, G:0.01, T:0.35
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:30518 original size:66 final size:66
Alignment explanation
Indices: 30412--30545 Score: 259
Period size: 66 Copynumber: 2.0 Consensus size: 66
30402 AGACAACGCC
30412 ACTTTCATAATTCCATAAAGTCACGTGTTTAGTAAAAAATAATATATATTTTTAAAATATTTTAA
1 ACTTTCATAATTCCATAAAGTCACGTGTTTAGTAAAAAATAATATATATTTTTAAAATATTTTAA
30477 A
66 A
*
30478 ACTTTCATAATTTCATAAAGTCACGTGTTTAGTAAAAAATAATATATATTTTTAAAATATTTTAA
1 ACTTTCATAATTCCATAAAGTCACGTGTTTAGTAAAAAATAATATATATTTTTAAAATATTTTAA
30543 A
66 A
30544 AC
1 AC
30546 ATCTTTCTAT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (66 bp):
ACTTTCATAATTCCATAAAGTCACGTGTTTAGTAAAAAATAATATATATTTTTAAAATATTTTAA
A
Found at i:30736 original size:35 final size:35
Alignment explanation
Indices: 30688--30799 Score: 120
Period size: 35 Copynumber: 3.2 Consensus size: 35
30678 TCTAAACCTT
* *
30688 AAATTGAAGTATTTTAGAATTT-GAGGTTTAGAATT
1 AAATTGAATTATTTTAGAATTTAG-GGTTTAGAATG
* *
30723 TAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTTAGAATTTAGGGTTTAGAATG
* * * *
30758 AAATTGAATTACTTT-GAAAATTGGGGTTTAAAATG
1 AAATTGAATTATTTTAG-AATTTAGGGTTTAGAATG
30793 AAATTGA
1 AAATTGA
30800 GGACTGTTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
34 1 0.02
35 64 0.97
36 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.21, T:0.41
Consensus pattern (35 bp):
AAATTGAATTATTTTAGAATTTAGGGTTTAGAATG
Found at i:37995 original size:20 final size:20
Alignment explanation
Indices: 37970--38026 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
37960 TTTCTTTAAT
37970 ATTAAAAAAATAAATAAATA
1 ATTAAAAAAATAAATAAATA
* * *
37990 ATTAAAACAATTAATACATA
1 ATTAAAAAAATAAATAAATA
* *
38010 ATTTATAAAATCAAATA
1 ATTAAAAAAAT-AAATA
38027 TTTATTTATT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 25 0.86
21 4 0.14
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (20 bp):
ATTAAAAAAATAAATAAATA
Found at i:39674 original size:3 final size:3
Alignment explanation
Indices: 39666--39748 Score: 132
Period size: 3 Copynumber: 28.0 Consensus size: 3
39656 TTATTTTATT
* * *
39666 TAA TAA TAA TAA TAA CAA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
39714 TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
39749 AAGTAAAATG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
2 2 0.03
3 71 0.97
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:40030 original size:76 final size:76
Alignment explanation
Indices: 39904--40817 Score: 1596
Period size: 76 Copynumber: 12.0 Consensus size: 76
39894 GATCTTATGA
* * *
39904 ATGACCCTGAGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGC
1 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
*
39969 AGAACTTACAG
66 AGGACTTACAG
* * * *
39980 ATGACCCTGAGGGTTTGAAAACATCAAAAAGCTTCCGAAGGCTTTTTGGAAACATCATGCACTGC
1 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
40045 AGGACTTACAG
66 AGGACTTACAG
* *
40056 ATGACCCTGAGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
40121 AGGACTTACAG
66 AGGACTTACAG
* *
40132 ATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTAA
1 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
40197 AGGACTTACAG
66 AGGACTTACAG
40208 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
40273 AGGACTTACAG
66 AGGACTTACAG
*
40284 ATGACCCTAAGGCTTTGAAAACATTAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
*
40349 AGGACTTATAG
66 AGGACTTACAG
* *
40360 ATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATTATGCACTGA
1 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
40425 AGGACTTACAG
66 AGGACTTACAG
*
40436 ATGACCCTAAGACTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
40501 AGGACTTACAG
66 AGGACTTACAG
* *
40512 ATGACCCTAAGGCTTTGAAAACATCAAAAAGATCTCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
40577 AGGACTTACAG
66 AGGACTTACAG
* * *
40588 A-GGCCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAAGCTTTTTGGGAACATCATGCACTGA
1 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
40652 AGGACTTACAG
66 AGGACTTACAG
*
40663 ATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
40728 AGGACTTACAG
66 AGGACTTACAG
* *
40739 ATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTAA
1 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
40804 AGGACTTACAG
66 AGGACTTACAG
40815 ATG
1 ATG
40818 TGGGAAATAG
Statistics
Matches: 805, Mismatches: 32, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
75 70 0.09
76 735 0.91
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (76 bp):
ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
AGGACTTACAG
Found at i:41516 original size:22 final size:22
Alignment explanation
Indices: 41491--41545 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
41481 AATAAAGCTT
* *
41491 TCATCTTTGAAAAGATAATCTA
1 TCATCTTTGAAAAGAGAATATA
*
41513 TCATCTTTAAAAAGAGAATATA
1 TCATCTTTGAAAAGAGAATATA
41535 TCATCTTTGAA
1 TCATCTTTGAA
41546 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATATA
Found at i:42007 original size:54 final size:55
Alignment explanation
Indices: 41912--42020 Score: 132
Period size: 54 Copynumber: 2.0 Consensus size: 55
41902 AGAATAACTA
* * *
41912 GTTCGTAAAACACTTTGACAATACATTCTTCATCTCATGTGGTTTCAGCTCAAAT
1 GTTCGTAAAACACTTTGACAACACATTCTCCATCTCATGTGGCTTCAGCTCAAAT
* * * *
41967 GTTCGTAAAGCA-TTTGACAACACATTCATCCTTTTC-TGTGGCTTCTGCTCAAAT
1 GTTCGTAAAACACTTTGACAACACATTC-TCCATCTCATGTGGCTTCAGCTCAAAT
42021 TTCTCAATTA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
54 30 0.65
55 16 0.35
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.37
Consensus pattern (55 bp):
GTTCGTAAAACACTTTGACAACACATTCTCCATCTCATGTGGCTTCAGCTCAAAT
Found at i:44114 original size:114 final size:114
Alignment explanation
Indices: 43914--44361 Score: 702
Period size: 114 Copynumber: 3.9 Consensus size: 114
43904 GATCATGCAG
* * * * *
43914 TTCATCTTTC-AATTTCAATGATTGGTTATGGGATTCCTATCGAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCT-AATGATTGGTTTTGGGATTCATACCAAACCAGATCAGATAACTCAAAG
* *
43978 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAACAAA
65 AACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTATGAACAAA
*
44028 TTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCTAATGATTGGTTTTGGGATTCATACCAAACCAGATCAGATAACTCAAAGA
** * *
44093 ACACTTATAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAACAAA
66 ACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTATGAACAAA
*
44142 TTCATCTTTTAAATCTAATGATTGGTTTTGAGG-TTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCTAATGATTGGTTTTG-GGATTCATACCAAACCAGATCAGATAACTCAAAG
*
44206 AACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTACGAACAAA
65 AACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTATGAACAAA
* * * *
44256 TTCATCTTTCAAATCCAATGATTGGTTTTGGGATTCCTATCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCTAATGATTGGTTTTGGGATTCATACCAAACCAGATCAGATAACTCAAAGA
44321 ACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTA
66 ACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTA
44362 CGAGAATGTG
Statistics
Matches: 312, Mismatches: 19, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
113 2 0.01
114 304 0.97
115 6 0.02
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (114 bp):
TTCATCTTTCAAATCTAATGATTGGTTTTGGGATTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTATGAACAAA
Found at i:46730 original size:21 final size:19
Alignment explanation
Indices: 46706--46751 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 19
46696 TTTGTTTTTA
46706 TTTTTTTTCTATTTCTTTCC-C
1 TTTTTTTTC--TTT-TTTCCTC
46727 TTTTTTTTCTTTTTTCCTC
1 TTTTTTTTCTTTTTTCCTC
46746 TTTTTT
1 TTTTTT
46752 CATTTTTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.21
19 10 0.42
21 9 0.38
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTTTTCTTTTTTCCTC
Found at i:46740 original size:10 final size:10
Alignment explanation
Indices: 46682--46751 Score: 50
Period size: 10 Copynumber: 6.6 Consensus size: 10
46672 GATTCAATTT
46682 TTTTATTTTTC
1 TTTT-TTTTTC
*
46693 TTTTTTGTTTT
1 TTTTTT-TTTC
46704 TATTTTTTTTC
1 T-TTTTTTTTC
* *
46715 TATTTCTTTCC
1 T-TTTTTTTTC
*
46726 CTTTTTTTTC
1 TTTTTTTTTC
**
46736 TTTTTTCCTC
1 TTTTTTTTTC
46746 TTTTTT
1 TTTTTT
46752 CATTTTTTCC
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
10 22 0.47
11 20 0.43
12 5 0.11
ACGTcount: A:0.04, C:0.14, G:0.01, T:0.80
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:46742 original size:18 final size:19
Alignment explanation
Indices: 46706--46761 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 19
46696 TTTGTTTTTA
46706 TTTTTTTTCTATTTCTTTCCC
1 TTTTTTTTC-ATTT-TTTCCC
46727 TTTTTTTTC-TTTTTT-CC
1 TTTTTTTTCATTTTTTCCC
*
46744 TCTTTTTTCATTTTTTCC
1 TTTTTTTTCATTTTTTCC
46762 TTTCTTTGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 10 0.31
18 9 0.28
19 4 0.12
21 9 0.28
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTTTTTCATTTTTTCCC
Found at i:46762 original size:18 final size:18
Alignment explanation
Indices: 46708--46762 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 18
46698 TGTTTTTATT
*
46708 TTTTTTCTATTTCTTTCCCTT
1 TTTTTTC-ATTT-TTT-CCTC
46729 TTTTTTC-TTTTTTCCTC
1 TTTTTTCATTTTTTCCTC
46746 TTTTTTCATTTTTTCCT
1 TTTTTTCATTTTTTCCT
46763 TTCTTTGCTG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
17 10 0.31
18 12 0.38
19 3 0.09
21 7 0.22
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTTCATTTTTTCCTC
Found at i:46778 original size:27 final size:26
Alignment explanation
Indices: 46747--46801 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 26
46737 TTTTTCCTCT
46747 TTTTTCATTTTTTCCTTTCTTTGCTGGA
1 TTTTTC-TTTTTT-CTTTCTTTGCTGGA
46775 TTTTTCTTTTTTCTTTCTTTGCTGGA
1 TTTTTCTTTTTTCTTTCTTTGCTGGA
46801 T
1 T
46802 GAGTATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 15 0.56
27 6 0.22
28 6 0.22
ACGTcount: A:0.05, C:0.16, G:0.11, T:0.67
Consensus pattern (26 bp):
TTTTTCTTTTTTCTTTCTTTGCTGGA
Found at i:47096 original size:2 final size:2
Alignment explanation
Indices: 47089--47167 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
47079 ACAACAAAGG
47089 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47131 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
47168 GGATAAATGA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:49434 original size:14 final size:14
Alignment explanation
Indices: 49417--49455 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
49407 TAAAAGTATG
49417 AATGCAAAATGAAA
1 AATGCAAAATGAAA
*
49431 AATGCAAAGATGCAA
1 AATGCAAA-ATGAAA
49446 AATG-AAAATG
1 AATGCAAAATG
49456 CATATATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 3 0.13
14 11 0.48
15 9 0.39
ACGTcount: A:0.59, C:0.08, G:0.18, T:0.15
Consensus pattern (14 bp):
AATGCAAAATGAAA
Found at i:51818 original size:16 final size:15
Alignment explanation
Indices: 51780--51835 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 15
51770 TTAATACATG
*
51780 AATAAAATAAATAA-
1 AATAAAAAAAATAAT
*
51794 AAAATAAAAAAATAAT
1 AATA-AAAAAAATAAT
*
51810 ATATAAAAATAATAAGT
1 A-ATAAAAAAAATAA-T
51827 AATAAAAAA
1 AATAAAAAA
51836 TTTGAAAGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
14 3 0.09
15 9 0.27
16 17 0.52
17 4 0.12
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (15 bp):
AATAAAAAAAATAAT
Found at i:52441 original size:21 final size:20
Alignment explanation
Indices: 52405--52458 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
52395 TTTCTTTAAT
52405 ATTAAAAAAATAAATAAATA
1 ATTAAAAAAATAAATAAATA
* *
52425 ATTAAAAACAATTAATACATA
1 ATTAAAAA-AATAAATAAATA
* *
52446 ATTTATAAAATAA
1 ATTAAAAAAATAA
52459 GATATTTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (20 bp):
ATTAAAAAAATAAATAAATA
Found at i:54107 original size:3 final size:3
Alignment explanation
Indices: 54087--54153 Score: 93
Period size: 3 Copynumber: 23.0 Consensus size: 3
54077 TTATTTTATT
* * *
54087 TAA TAA -AA TAA CAA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
54134 TAA TAA TAA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
54154 AAGTAAAATG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 4 0.07
3 52 0.93
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:57023 original size:110 final size:110
Alignment explanation
Indices: 56827--57045 Score: 411
Period size: 110 Copynumber: 2.0 Consensus size: 110
56817 TCCTGACTCA
* *
56827 ACTCTAGTGCCAGTTGAAAGTCAAAAATGAATTTTACCTATGGGCGGCTAATATGGGGCGGTTAA
1 ACTCTAGTACCAGTTGAAAGTCAAAAATGAATTTAACCTATGGGCGGCTAATATGGGGCGGTTAA
56892 TATTAGTCTAAAATGGATGCAAATTGTTGAAAATTAGCAAGGGTG
66 TATTAGTCTAAAATGGATGCAAATTGTTGAAAATTAGCAAGGGTG
56937 ACTCTAGTACCAGTTGAAAGTCAAAAATGAATTTAACCTATGGGCGGCTAATATGGGGCGGTTAA
1 ACTCTAGTACCAGTTGAAAGTCAAAAATGAATTTAACCTATGGGCGGCTAATATGGGGCGGTTAA
*
57002 TATTAGTCTAAAATGGCTGCAAATTGTTGAAAATTAGCAAGGGT
66 TATTAGTCTAAAATGGATGCAAATTGTTGAAAATTAGCAAGGGT
57046 AAAATACCCA
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 106 1.00
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (110 bp):
ACTCTAGTACCAGTTGAAAGTCAAAAATGAATTTAACCTATGGGCGGCTAATATGGGGCGGTTAA
TATTAGTCTAAAATGGATGCAAATTGTTGAAAATTAGCAAGGGTG
Found at i:61628 original size:13 final size:14
Alignment explanation
Indices: 61610--61640 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
61600 TGAATTTAGC
61610 ATAT-GGGCGGCTA
1 ATATGGGGCGGCTA
61623 ATATGGGGCGGCTA
1 ATATGGGGCGGCTA
61637 ATAT
1 ATAT
61641 TAGTCTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.26, C:0.13, G:0.35, T:0.26
Consensus pattern (14 bp):
ATATGGGGCGGCTA
Found at i:65262 original size:30 final size:29
Alignment explanation
Indices: 65228--65303 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
65218 TCTTGGCGAT
*
65228 TTTCCCGATATATCACCGGTGAACAGTATA
1 TTTCCCGATATAACACCGGT-AACAGTATA
* * * *
65258 TTTCCCGATCTAACACCGGTCAGATTATA
1 TTTCCCGATATAACACCGGTAACAGTATA
*
65287 TTTCCCGATCTAACACC
1 TTTCCCGATATAACACC
65304 CTTAGCAGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 23 0.56
30 18 0.44
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.30
Consensus pattern (29 bp):
TTTCCCGATATAACACCGGTAACAGTATA
Found at i:65588 original size:13 final size:14
Alignment explanation
Indices: 65560--65588 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
65550 ATATTTTATA
65560 ATATTTTTACTATT
1 ATATTTTTACTATT
65574 ATATTTTTACT-TT
1 ATATTTTTACTATT
65587 AT
1 AT
65589 TTAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (14 bp):
ATATTTTTACTATT
Found at i:65801 original size:110 final size:111
Alignment explanation
Indices: 65663--65883 Score: 363
Period size: 110 Copynumber: 2.0 Consensus size: 111
65653 TGGAAATTTT
* * * *
65663 ATATCTCTACACTTTGCTGATCCTGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAACTATTAGTAA
* *
65728 TATTTAGTT-ATTTATTTAATGCATGATTATTAGATTAAAAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAAAATTAA
65773 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAACTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAACTATTAGTAA
* *
65838 TAATTAGTTGATTCATTTAATGCATTATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAAAATTAA
65884 TTTTTGTAAT
Statistics
Matches: 102, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
110 69 0.68
111 33 0.32
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAACTATTAGTAA
TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAAAATTAA
Found at i:67413 original size:18 final size:18
Alignment explanation
Indices: 67390--67429 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
67380 CCAGCAGCCA
67390 CCGCAGCCATATATGATG
1 CCGCAGCCATATATGATG
67408 CCGCAGCCATATATGATG
1 CCGCAGCCATATATGATG
67426 CCGC
1 CCGC
67430 CATCGCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.25, C:0.33, G:0.23, T:0.20
Consensus pattern (18 bp):
CCGCAGCCATATATGATG
Found at i:67776 original size:3 final size:3
Alignment explanation
Indices: 67768--67829 Score: 70
Period size: 3 Copynumber: 20.7 Consensus size: 3
67758 ACCTGCGCAA
* * * * *
67768 GAC GAC GAC GAC GAT GAA AAC GAC GAC GAT GAC GAC GAT GAC GAC GAC
1 GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC
*
67816 GAC GAC GAT GAC GA
1 GAC GAC GAC GAC GA
67830 TGGTGATGAT
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.37, C:0.24, G:0.32, T:0.06
Consensus pattern (3 bp):
GAC
Found at i:68033 original size:26 final size:24
Alignment explanation
Indices: 67960--68033 Score: 62
Period size: 25 Copynumber: 3.0 Consensus size: 24
67950 TTATATTTGT
67960 ATTTACTTTATTTTGTTAAATTGTA
1 ATTTACTTTATTTTGTTAAATT-TA
** *
67985 ATTTTTTTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
68009 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
68034 GTTGGACTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 11
0.69 0.11 0.20
Matches are distributed among these distances:
24 4 0.11
25 17 0.46
26 16 0.43
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.64
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:71761 original size:51 final size:52
Alignment explanation
Indices: 71685--71814 Score: 149
Period size: 52 Copynumber: 2.5 Consensus size: 52
71675 CCCTACGTGG
* * * * *
71685 CGTATAGCGCGCTAC-AGGGGCCGCGCTATA-CCCACGTGTA-TGTCATATCAC
1 CGTATAGCGCGGTGCAAGGGG-CGCGCTATACCCCACGTG-ACGGCCAAATCAC
*
71736 CGTATAGCGCGGTGCAAGGGGCGCGCTATACCCCACGTGACGGCCAAATCAT
1 CGTATAGCGCGGTGCAAGGGGCGCGCTATACCCCACGTGACGGCCAAATCAC
* *
71788 CGTATAGCGCGGTGCATGGGGCACGCT
1 CGTATAGCGCGGTGCAAGGGGCGCGCT
71815 TTACTGCTAA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
51 23 0.34
52 45 0.66
ACGTcount: A:0.21, C:0.30, G:0.31, T:0.18
Consensus pattern (52 bp):
CGTATAGCGCGGTGCAAGGGGCGCGCTATACCCCACGTGACGGCCAAATCAC
Found at i:72614 original size:54 final size:54
Alignment explanation
Indices: 72532--72639 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
72522 TGGAAGACTC
72532 ACCTACCAAAACTAGATGTGCAACTCAGGTCGGTCTGAATTAGTCAAAACGAAA
1 ACCTACCAAAACTAGATGTGCAACTCAGGTCGGTCTGAATTAGTCAAAACGAAA
*
72586 ACCTACCAAAATTAGATGTGCAACTCAGGTCGGTCTGAATTAGTCAAAACGAAA
1 ACCTACCAAAACTAGATGTGCAACTCAGGTCGGTCTGAATTAGTCAAAACGAAA
72640 CTTATGACCA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (54 bp):
ACCTACCAAAACTAGATGTGCAACTCAGGTCGGTCTGAATTAGTCAAAACGAAA
Found at i:73291 original size:23 final size:21
Alignment explanation
Indices: 73260--73315 Score: 85
Period size: 23 Copynumber: 2.6 Consensus size: 21
73250 TTATAAATAA
*
73260 TATATTGTAAAATGTTTCGAT
1 TATAATGTAAAATGTTTCGAT
73281 TATATTATGTAAAATGTTTCGAT
1 TATA--ATGTAAAATGTTTCGAT
73304 TATAATGTAAAA
1 TATAATGTAAAA
73316 ATTATAACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 12 0.38
23 20 0.62
ACGTcount: A:0.39, C:0.04, G:0.12, T:0.45
Consensus pattern (21 bp):
TATAATGTAAAATGTTTCGAT
Found at i:73355 original size:13 final size:13
Alignment explanation
Indices: 73326--73360 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
73316 ATTATAACTA
*
73326 ATATTAAAT-ATT
1 ATATTAAATAAAT
73338 ATATTAAATAAAT
1 ATATTAAATAAAT
73351 ATATTAAATA
1 ATATTAAATA
73361 TATTTATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATTAAATAAAT
Found at i:76361 original size:8 final size:8
Alignment explanation
Indices: 76348--76388 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
76338 CTCATTTTCA
76348 GAGAATTT
1 GAGAATTT
76356 GAGAATTT
1 GAGAATTT
*
76364 -AGAGTTT
1 GAGAATTT
*
76371 GGGAATTT
1 GAGAATTT
76379 GAGAATTT
1 GAGAATTT
76387 GA
1 GA
76389 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:76678 original size:125 final size:125
Alignment explanation
Indices: 76456--77054 Score: 1103
Period size: 125 Copynumber: 4.8 Consensus size: 125
76446 CTATAATCGG
76456 TTCACTATTCACGTGAAGGCGCGTTCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTAT
1 TTCACTATTCACGTGAAGGCGCGTTCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTAT
76521 CATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 CATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
*
76581 TTCACTATTCACGTGAAGGCACGTTCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTAT
1 TTCACTATTCACGTGAAGGCGCGTTCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTAT
76646 CATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 CATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
76706 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTT-CCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
76771 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTA-CTACTAT
65 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
*
76831 TTCACTATTCACGTGAAGGCGCGCTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCG-TTCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
76896 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGTCACTAGATATATCAGTACCTATTAT
65 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
*
76957 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGACGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTT-CCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
77022 TCA-TGCCCTATTATGTCACTCATGTCCCTCGGG
65 TCATTGCCCTATTATGTCATTCATGTCCCTCGGG
77055 AATAACTTAA
Statistics
Matches: 461, Mismatches: 9, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
125 298 0.65
126 163 0.35
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (125 bp):
TTCACTATTCACGTGAAGGCGCGTTCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTAT
CATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:76898 original size:251 final size:251
Alignment explanation
Indices: 76456--77054 Score: 1114
Period size: 251 Copynumber: 2.4 Consensus size: 251
76446 CTATAATCGG
76456 TTCACTATTCACGTGAAGGCGCGTT-CCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
76520 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTATTTCA
*
76585 CTATTCACGTGAAGGCACGTTCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATT
131 CTATTCACGTGAAGGCACGTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATT
76650 GCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
196 GCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
76706 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
76771 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTA-CTACTATTTCA
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTATTTCA
*
76835 CTATTCACGTGAAGGCGCGCTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
131 CTATTCACGTGAAGGCACG-TCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
*
76900 TGCCCTATTATGTCATTCATGTCCCTCGGGGTCACTAGATATATCAGTACCTATTAT
195 TGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
*
76957 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGACGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
77022 TCA-TGCCCTATTATGTCACTCATGTCCCTCGGG
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGG
77055 AATAACTTAA
Statistics
Matches: 341, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
250 82 0.24
251 259 0.76
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (251 bp):
TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTATTTCA
CTATTCACGTGAAGGCACGTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATT
GCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:77479 original size:33 final size:33
Alignment explanation
Indices: 77442--77540 Score: 119
Period size: 33 Copynumber: 3.0 Consensus size: 33
77432 AAATTTAATG
*
77442 TTAAATTTCGAATACTATAATTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTATATTTTAAAT
* * * *
77475 TTAAATTT-GAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATA-TAATTATATTTTAAAT
*
77508 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAA-TTATATTTTAAA
77541 AACATTTATC
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
32 7 0.13
33 30 0.56
34 17 0.31
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (33 bp):
TTAAATTTCGAATAATATAATTATATTTTAAAT
Found at i:78086 original size:21 final size:21
Alignment explanation
Indices: 78062--78142 Score: 128
Period size: 21 Copynumber: 3.9 Consensus size: 21
78052 TATAAACCCT
*
78062 GCGGGCTAGGCATGTAACCTG
1 GCGGGCTAGGAATGTAACCTG
*
78083 GCGGGCTAGGCATGTAACCTG
1 GCGGGCTAGGAATGTAACCTG
78104 GCGGGCTAGGAATGTAACCT-
1 GCGGGCTAGGAATGTAACCTG
*
78124 GCGGGCTCGGAATGTAACC
1 GCGGGCTAGGAATGTAACC
78143 CTGCGGAGAT
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
20 18 0.31
21 40 0.69
ACGTcount: A:0.21, C:0.23, G:0.37, T:0.19
Consensus pattern (21 bp):
GCGGGCTAGGAATGTAACCTG
Found at i:78178 original size:21 final size:21
Alignment explanation
Indices: 78152--78199 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
78142 CCTGCGGAGA
*
78152 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
78173 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
78194 GGGCAT
1 TGGCAT
78200 GTACCCCTGC
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:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:79964 original size:34 final size:32
Alignment explanation
Indices: 79919--80007 Score: 90
Period size: 34 Copynumber: 2.7 Consensus size: 32
79909 TTAATAATTC
79919 TAAATAAATAATAATTATATAAATATTATTTTAATA
1 TAAA-AAATAATAATTATATAAATA-TA--TTAATA
* * *
79955 -ATAAAATAATATTTACATAAATATATTAATA
1 TAAAAAATAATAATTATATAAATATATTAATA
* *
79986 TAAAAAATAATAACTATTTAAA
1 TAAAAAATAATAATTATATAAA
80008 AAAATACTAA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
31 6 0.14
32 16 0.36
33 2 0.05
34 18 0.41
35 2 0.05
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.39
Consensus pattern (32 bp):
TAAAAAATAATAATTATATAAATATATTAATA
Found at i:79988 original size:14 final size:15
Alignment explanation
Indices: 79922--79994 Score: 51
Period size: 15 Copynumber: 4.7 Consensus size: 15
79912 ATAATTCTAA
79922 ATAAATAATAATT-AT
1 ATAAATAAT-ATTAAT
*
79937 ATAAATATTATTTTAAT
1 ATAAATA--ATATTAAT
* *
79954 AATAAAATAATATTTAC
1 -AT-AAATAATATTAAT
79971 ATAAAT-ATATTAAT
1 ATAAATAATATTAAT
*
79985 ATAAAAAATA
1 ATAAATAATA
79995 ATAACTATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
14 11 0.24
15 14 0.31
16 4 0.09
17 9 0.20
18 2 0.04
19 5 0.11
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAAATAATATTAAT
Found at i:84299 original size:8 final size:8
Alignment explanation
Indices: 84286--84326 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
84276 CTCATTTTCA
84286 GAGAATTT
1 GAGAATTT
84294 GAGAATTT
1 GAGAATTT
*
84302 -AGAGTTT
1 GAGAATTT
*
84309 GGGAATTT
1 GAGAATTT
84317 GAGAATTT
1 GAGAATTT
84325 GA
1 GA
84327 AAGCTTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:84635 original size:128 final size:128
Alignment explanation
Indices: 84407--84897 Score: 876
Period size: 128 Copynumber: 3.8 Consensus size: 128
84397 ACTATTCATA
*
84407 TGAAGGCACGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
84472 TTATGTCACTCATGTCCCTCGGGAACACTAGATATATCAGTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTCAGGGGACT
* *
84535 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCTATTATTTTGTCAGAGAATATGTTATCATTACCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* *
84600 TTATATCACTCATGTCCCTCGGGGACATTAGATATATCAGTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTCAGGGGACT
84663 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* *
84728 TTATGTCACTCATGTCCCTCGGGGACACTA-TTCATATCAGTACCTATTATTTCTCAAGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTAGAT-ATATCAGTACCTATTATTTCTCAGGGGACT
*
84791 TGAAGGCGCATTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
84856 TTATGTCACTCATGTCCCTCGGGGACACTAAATATATCAGTA
66 TTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
84898 AATCAGGTAA
Statistics
Matches: 347, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
127 1 0.00
128 345 0.99
129 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.32
Consensus pattern (128 bp):
TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
TTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTCAGGGGACT
Found at i:85295 original size:34 final size:34
Alignment explanation
Indices: 85257--85356 Score: 155
Period size: 34 Copynumber: 2.9 Consensus size: 34
85247 AAATTCAATG
*
85257 TTAAATTTCGAATACTATAATTTATATTTTAATT
1 TTAAATTTCGAATAATATAATTTATATTTTAATT
* * *
85291 TTAAATTTCGAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAATT
*
85325 TTAAATTTCGAATAATATAATTTGTATTTTAA
1 TTAAATTTCGAATAATATAATTTATATTTTAA
85357 AAACATTTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 59 1.00
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAATT
Found at i:85956 original size:21 final size:21
Alignment explanation
Indices: 85868--85961 Score: 120
Period size: 21 Copynumber: 4.5 Consensus size: 21
85858 TATGGTATAA
*
85868 AACCCTGCGGGCTAC-GCATGT
1 AACCCTGCGGGCT-CGGAATGT
*
85889 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTCGGAATGT
* *
85910 AACCCTGAGGGCTCGGAATAT
1 AACCCTGCGGGCTCGGAATGT
85931 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTCGGAATGT
85952 AACCCTGCGG
1 AACCCTGCGG
85962 AGATGGCATA
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
20 3 0.05
21 57 0.90
22 3 0.05
ACGTcount: A:0.22, C:0.28, G:0.32, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTCGGAATGT
Found at i:87778 original size:34 final size:31
Alignment explanation
Indices: 87733--87821 Score: 88
Period size: 34 Copynumber: 2.7 Consensus size: 31
87723 TTAATAATTC
*
87733 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTATATAAATA-TA--TTAA
* *
87767 TAAAAAAATAATATTTACATAAATATATTAA
1 TAAAAAAATAATAATTATATAAATATATTAA
* * *
87798 TATAAAATATAATAACTATTTAAA
1 TA-AAAAAATAATAATTATATAAA
87822 AAATACTAAC
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
31 6 0.13
32 16 0.35
33 2 0.04
34 22 0.48
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.39
Consensus pattern (31 bp):
TAAAAAAATAATAATTATATAAATATATTAA
Found at i:87798 original size:31 final size:33
Alignment explanation
Indices: 87733--87812 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 33
87723 TTAATAATTC
* *
87733 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTACATAAATATTA-TTTAA
*
87767 TAAAAAAATAATATTTACATAAATA-TA-TTAA
1 TAAAAAAATAATAATTACATAAATATTATTTAA
*
87798 TATAAAATATAATAA
1 TA-AAAAAATAATAA
87813 CTATTTAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 6 0.15
32 10 0.25
33 2 0.05
34 22 0.55
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (33 bp):
TAAAAAAATAATAATTACATAAATATTATTTAA
Found at i:89283 original size:13 final size:13
Alignment explanation
Indices: 89265--89289 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89255 ATCAATTATA
89265 ATATTATATATTT
1 ATATTATATATTT
89278 ATATTATATATT
1 ATATTATATATT
89290 ATAGTTAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATATTATATATTT
Found at i:89287 original size:7 final size:7
Alignment explanation
Indices: 89259--89292 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
89249 TTAGAAATCA
89259 ATTATAAT
1 ATTAT-AT
89267 ATTATAT
1 ATTATAT
89274 ATT-TAT
1 ATTATAT
89280 ATTATAT
1 ATTATAT
89287 ATTATA
1 ATTATA
89293 GTTAATGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.24
7 14 0.56
8 5 0.20
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
ATTATAT
Found at i:89514 original size:2 final size:2
Alignment explanation
Indices: 89503--89538 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
89493 ATATTCAAAT
89503 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
89539 GTTAATATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:92613 original size:17 final size:17
Alignment explanation
Indices: 92586--92624 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
92576 AATTTACAAT
92586 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
92602 TAATTATAAATAATATC
1 TAATTATAAATAATATC
92619 TAATTA
1 TAATTA
92625 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:92878 original size:18 final size:19
Alignment explanation
Indices: 92845--92882 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
92835 ACCGACCGAA
92845 TTAATCGAACTAATTCGAT
1 TTAATCGAACTAATTCGAT
*
92864 TTAATCG-ATTAATTCGAT
1 TTAATCGAACTAATTCGAT
92882 T
1 T
92883 AAAACCGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (19 bp):
TTAATCGAACTAATTCGAT
Found at i:96035 original size:14 final size:14
Alignment explanation
Indices: 96016--96043 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
96006 AAGTGAAAAA
96016 ATAGTTATATAATT
1 ATAGTTATATAATT
96030 ATAGTTATATAATT
1 ATAGTTATATAATT
96044 TTGTTATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
ATAGTTATATAATT
Found at i:96369 original size:22 final size:22
Alignment explanation
Indices: 96294--96363 Score: 131
Period size: 22 Copynumber: 3.2 Consensus size: 22
96284 ACGTCATCCG
96294 ATTCTTCCGACCGGTCAGACCA
1 ATTCTTCCGACCGGTCAGACCA
96316 ATTCTTCCGACCGGTCAGACCA
1 ATTCTTCCGACCGGTCAGACCA
*
96338 ATTCTTCCGACCGGTCAGACTA
1 ATTCTTCCGACCGGTCAGACCA
96360 ATTC
1 ATTC
96364 AACCGATTGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.23, C:0.34, G:0.17, T:0.26
Consensus pattern (22 bp):
ATTCTTCCGACCGGTCAGACCA
Found at i:107381 original size:23 final size:23
Alignment explanation
Indices: 107355--107402 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
107345 AATTTTAAGG
*
107355 ATAAATTGGTAATTTAATATTTA
1 ATAAATTGGTAATTCAATATTTA
** *
107378 ATAAATTTTTAATTCATTATTTA
1 ATAAATTGGTAATTCAATATTTA
107401 AT
1 AT
107403 TAAGGAAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (23 bp):
ATAAATTGGTAATTCAATATTTA
Found at i:107581 original size:22 final size:22
Alignment explanation
Indices: 107531--107582 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
107521 TAGATGAAAG
* *
107531 CATGGAATAGGAAATTATTCTA
1 CATGAAATAGAAAATTATTCTA
*
107553 CAAGAAATAGAAAATTA-TCATA
1 CATGAAATAGAAAATTATTC-TA
107575 CATGAAAT
1 CATGAAAT
107583 TCTCTATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.50, C:0.10, G:0.13, T:0.27
Consensus pattern (22 bp):
CATGAAATAGAAAATTATTCTA
Found at i:109506 original size:24 final size:24
Alignment explanation
Indices: 109479--109534 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
109469 CGCAGTACTT
* *
109479 TATGTGCAATTCTATGTGGCACTA
1 TATGTGCAATTCTACGTGACACTA
109503 TATGTGCAATTCTACGTGACACTA
1 TATGTGCAATTCTACGTGACACTA
*
109527 TTTGTGCA
1 TATGTGCA
109535 TTCAGGAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.38
Consensus pattern (24 bp):
TATGTGCAATTCTACGTGACACTA
Found at i:111103 original size:37 final size:37
Alignment explanation
Indices: 111027--111103 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
111017 TTTTTATATT
*
111027 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
111064 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
111101 TTT
1 TTT
111104 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:113456 original size:22 final size:21
Alignment explanation
Indices: 113431--113472 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
113421 GGATTCTACC
113431 TAAAAATCAC-AAAATATATATA
1 TAAAAAT-ACTAAAATA-ATATA
113453 TAAAAATACTAAAATAATAT
1 TAAAAATACTAAAATAATAT
113473 CATTTGATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAAAATACTAAAATAATATA
Found at i:113852 original size:25 final size:23
Alignment explanation
Indices: 113815--113866 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
113805 TCTTTTCATT
113815 AAAA-AAAAGTTATAATGAATATAA
1 AAAATAAAAGTTATAA--AATATAA
* *
113839 AAAATAAAATTTATAAATTATAA
1 AAAATAAAAGTTATAAAATATAA
113862 AAAAT
1 AAAAT
113867 TTGAACACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 11 0.44
24 4 0.16
25 10 0.40
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (23 bp):
AAAATAAAAGTTATAAAATATAA
Found at i:114787 original size:29 final size:29
Alignment explanation
Indices: 114702--114787 Score: 100
Period size: 29 Copynumber: 3.0 Consensus size: 29
114692 TTTCAAAGTG
* *
114702 ATATTTATAATCAGGGCCCCAAATTTTTT
1 ATATTTATAATTAGGGCCCCTAATTTTTT
* * * * *
114731 ATATTTTTAATTAAGACTCTTAATTTTTT
1 ATATTTATAATTAGGGCCCCTAATTTTTT
*
114760 ATATTTATAATTAGGGCCCCTAAGTTTT
1 ATATTTATAATTAGGGCCCCTAATTTTT
114788 ATAATTTCAT
Statistics
Matches: 44, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.48
Consensus pattern (29 bp):
ATATTTATAATTAGGGCCCCTAATTTTTT
Found at i:114886 original size:118 final size:118
Alignment explanation
Indices: 114750--114986 Score: 343
Period size: 118 Copynumber: 2.0 Consensus size: 118
114740 ATTAAGACTC
* *
114750 TTAATTTTTTATATTTATAATTAGGGCCCCTAAGTTTTATAATTTCATAAAATT-TTTAGTTTTT
1 TTAATTTTTTATATTTATAATTAGGGACCCTAAGTTTTATAATTTCAT-AAATTGTTTAGCTTTT
* * *
114814 GACCCTCTTTTTTCATTTATGTTATTAATTCATT-ACATTTTGAATTAAATTTAA
65 GACCCTCTTTTTCCATTTATCTTATTAATACATTCA-ATTTTGAATTAAATTTAA
*
114868 TTAATTTTTTATATTTATAATTAGGGACCCTAATTTTTATAATTTCATAAATTGTTTAGCTTTTG
1 TTAATTTTTTATATTTATAATTAGGGACCCTAAGTTTTATAATTTCATAAATTGTTTAGCTTTTG
* * * * *
114933 GCTCTCTTTTTCCGTTTCTCTTATTTATACATTCAATTTTGAATTAAATTTAA
66 ACCCTCTTTTTCCATTTATCTTATTAATACATTCAATTTTGAATTAAATTTAA
114986 T
1 T
114987 CTTATTTTCC
Statistics
Matches: 106, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
117 5 0.05
118 100 0.94
119 1 0.01
ACGTcount: A:0.28, C:0.11, G:0.07, T:0.54
Consensus pattern (118 bp):
TTAATTTTTTATATTTATAATTAGGGACCCTAAGTTTTATAATTTCATAAATTGTTTAGCTTTTG
ACCCTCTTTTTCCATTTATCTTATTAATACATTCAATTTTGAATTAAATTTAA
Found at i:119656 original size:17 final size:17
Alignment explanation
Indices: 119636--119668 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
119626 ATATTTATTT
*
119636 ATATAAAATATAATATA
1 ATATAAAAAATAATATA
119653 ATATAAAAAATAATAT
1 ATATAAAAAATAATAT
119669 TATGATCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATATAAAAAATAATATA
Found at i:120150 original size:22 final size:22
Alignment explanation
Indices: 120122--120177 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
120112 TTTCATTTCG
*
120122 CGTTGCGATAGTCTATAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
*
120144 TGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
120166 CGTTGCGATAGT
1 CGTTGCGATAGT
120178 TAAAAAAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.18, C:0.14, G:0.29, T:0.39
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:120764 original size:5 final size:5
Alignment explanation
Indices: 120756--120796 Score: 55
Period size: 5 Copynumber: 7.6 Consensus size: 5
120746 TCGTCTCGTC
120756 TCGGG TCGGG TCGGG TCGTGG TCGGG TCGTGG TCGTGG TCG
1 TCGGG TCGGG TCGGG TCG-GG TCGGG TCG-GG TCG-GG TCG
120797 TGGTAATACG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 18 0.53
6 16 0.47
ACGTcount: A:0.00, C:0.20, G:0.54, T:0.27
Consensus pattern (5 bp):
TCGGG
Found at i:120780 original size:11 final size:11
Alignment explanation
Indices: 120756--120800 Score: 74
Period size: 11 Copynumber: 4.1 Consensus size: 11
120746 TCGTCTCGTC
120756 TCGGGTCG-GG
1 TCGGGTCGTGG
120766 TCGGGTCGTGG
1 TCGGGTCGTGG
120777 TCGGGTCGTGG
1 TCGGGTCGTGG
120788 TCGTGGTCGTGG
1 TCG-GGTCGTGG
120800 T
1 T
120801 AATACGTGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 8 0.24
11 16 0.48
12 9 0.27
ACGTcount: A:0.00, C:0.18, G:0.53, T:0.29
Consensus pattern (11 bp):
TCGGGTCGTGG
Found at i:120789 original size:6 final size:6
Alignment explanation
Indices: 120759--120800 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
120749 TCTCGTCTCG
120759 GGTCG- GGTCG- GGTCGT GGTCG- GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
120801 AATACGTGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 15 0.43
6 20 0.57
ACGTcount: A:0.00, C:0.17, G:0.55, T:0.29
Consensus pattern (6 bp):
GGTCGT
Found at i:120791 original size:17 final size:16
Alignment explanation
Indices: 120759--120796 Score: 67
Period size: 17 Copynumber: 2.3 Consensus size: 16
120749 TCTCGTCTCG
120759 GGTCGGGTCGGGTCGT
1 GGTCGGGTCGGGTCGT
120775 GGTCGGGTCGTGGTCGT
1 GGTCGGGTCG-GGTCGT
120792 GGTCG
1 GGTCG
120797 TGGTAATACG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.00, C:0.18, G:0.55, T:0.26
Consensus pattern (16 bp):
GGTCGGGTCGGGTCGT
Found at i:120929 original size:22 final size:22
Alignment explanation
Indices: 120902--120952 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
120892 TTTGGAAAAT
*
120902 CGCAACGACAACTGTAGACTAC
1 CGCAACGAAAACTGTAGACTAC
* *
120924 CGCAACAAAAACTGTAGACTAT
1 CGCAACGAAAACTGTAGACTAC
120946 CGCAACG
1 CGCAACG
120953 CGAAATGGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.39, C:0.29, G:0.18, T:0.14
Consensus pattern (22 bp):
CGCAACGAAAACTGTAGACTAC
Found at i:120969 original size:20 final size:20
Alignment explanation
Indices: 120944--121040 Score: 113
Period size: 20 Copynumber: 4.8 Consensus size: 20
120934 ACTGTAGACT
*
120944 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGAAAA
** * **
120964 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGA-AATGAAAA
*
120985 ATCGCAACGCGAACTGAAAA
1 ATCGCAACGCGAAATGAAAA
121005 ATCGCAACGCGAAATGAAAA
1 ATCGCAACGCGAAATGAAAA
*
121025 ATCGTAACGCGAAATG
1 ATCGCAACGCGAAATG
121041 CAACGCGAAT
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
20 49 0.78
21 14 0.22
ACGTcount: A:0.41, C:0.23, G:0.21, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAATGAAAA
Found at i:123542 original size:18 final size:19
Alignment explanation
Indices: 123500--123545 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
123490 AAGTATCCAT
123500 AAATAACAAAATCGATAAA
1 AAATAACAAAATCGATAAA
* *
123519 AAATAACCAAATCGAT-AG
1 AAATAACAAAATCGATAAA
123537 AAATAACAA
1 AAATAACAA
123546 TATTTATGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.65, C:0.13, G:0.07, T:0.15
Consensus pattern (19 bp):
AAATAACAAAATCGATAAA
Found at i:141485 original size:21 final size:21
Alignment explanation
Indices: 141455--141537 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 21
141445 TATTTACATA
* *
141455 TTCGCATTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
141476 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
141499 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
141518 TTCGCTTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
141538 AATCGCAACG
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
19 9 0.18
21 34 0.67
23 8 0.16
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.34
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:141543 original size:21 final size:21
Alignment explanation
Indices: 141503--141543 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
141493 TCCAAATTCG
**
141503 TTGCGATAGTCCAAGTTCGCT
1 TTGCGATAGTCCAAAATCGCT
141524 TTGCGATAGTCCAAAATCGC
1 TTGCGATAGTCCAAAATCGC
141544 AACGACTGGT
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:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (21 bp):
TTGCGATAGTCCAAAATCGCT
Found at i:142137 original size:6 final size:6
Alignment explanation
Indices: 142126--142164 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
142116 TCTCGTCTCG
142126 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
142165 AATACGTGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.15, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:142276 original size:21 final size:21
Alignment explanation
Indices: 142252--142321 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
142242 GAATAAATCA
142252 CAACGCGAACTTCGACTATCG
1 CAACGCGAACTTCGACTATCG
* ** **
142273 CAA--CGAATTTAAAAAATCG
1 CAACGCGAACTTCGACTATCG
142292 CAACGCGAACTTCGACTATCG
1 CAACGCGAACTTCGACTATCG
*
142313 CAATGCGAA
1 CAACGCGAA
142322 TATGTAAATC
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
19 14 0.39
21 22 0.61
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.19
Consensus pattern (21 bp):
CAACGCGAACTTCGACTATCG
Found at i:142297 original size:40 final size:41
Alignment explanation
Indices: 142230--142315 Score: 138
Period size: 40 Copynumber: 2.1 Consensus size: 41
142220 AGAAACAAAT
*
142230 GCAACGAATTTGGAATAAATCACAACGCGAACTTCGACTATC
1 GCAACGAATTT-GAAAAAATCACAACGCGAACTTCGACTATC
*
142272 GCAACGAATTT-AAAAAATCGCAACGCGAACTTCGACTATC
1 GCAACGAATTTGAAAAAATCACAACGCGAACTTCGACTATC
142312 GCAA
1 GCAA
142316 TGCGAATATG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
40 31 0.74
42 11 0.26
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (41 bp):
GCAACGAATTTGAAAAAATCACAACGCGAACTTCGACTATC
Found at i:147427 original size:29 final size:29
Alignment explanation
Indices: 147384--147439 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
147374 GTACTTTATC
* *
147384 CAAATGGGTGATATTATGGTAAATAATGA
1 CAAATGGATGATATTATGATAAATAATGA
* *
147413 CAAATGGATGTTATTTTGATAAATAAT
1 CAAATGGATGATATTATGATAAATAAT
147440 AATTTTTAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.36
Consensus pattern (29 bp):
CAAATGGATGATATTATGATAAATAATGA
Found at i:147833 original size:21 final size:21
Alignment explanation
Indices: 147780--147834 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
147770 ACAATAGAGT
*
147780 GCTACCTAAAATGTTAATTTT
1 GCTACCTAAAATGTTAATTTC
**
147801 TTTA-CTAGAAATGTTAATTTC
1 GCTACCTA-AAATGTTAATTTC
147822 GCTACCTAAAATG
1 GCTACCTAAAATG
147835 AATATTTTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
20 3 0.11
21 21 0.78
22 3 0.11
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.40
Consensus pattern (21 bp):
GCTACCTAAAATGTTAATTTC
Found at i:148214 original size:19 final size:19
Alignment explanation
Indices: 148190--148226 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
148180 ATGACCAACA
*
148190 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
148209 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
148227 CAGTATCGCA
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:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:148356 original size:20 final size:20
Alignment explanation
Indices: 148333--148447 Score: 83
Period size: 20 Copynumber: 5.7 Consensus size: 20
148323 GAATATGTAA
148333 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* * ** *
148353 ATCGTAACACGATAAT-ACAAA
1 ATCGCAACGCGATTCTGAC--T
* *
148374 ATCGCAACACGATTCTGGCT
1 ATCGCAACGCGATTCTGACT
* *
148394 ATCGCAACGC-ATTAAT-ACAAA
1 ATCGCAACGCGATT-CTGAC--T
148415 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
148435 ATCGCAACGCGAT
1 ATCGCAACGCGAT
148448 AATACAAAAT
Statistics
Matches: 71, Mismatches: 16, Indels: 16
0.69 0.16 0.16
Matches are distributed among these distances:
19 6 0.08
20 35 0.49
21 24 0.34
22 6 0.08
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:148376 original size:41 final size:41
Alignment explanation
Indices: 148331--148469 Score: 217
Period size: 41 Copynumber: 3.4 Consensus size: 41
148321 GCGAATATGT
* *
148331 AAATCGCAACGCGATTCTGACTATCGTAACACGATAATACA
1 AAATCGCAACGCGATTCTGACTATCGCAACGCGATAATACA
* *
148372 AAATCGCAACACGATTCTGGCTATCGCAACGC-ATTAATACA
1 AAATCGCAACGCGATTCTGACTATCGCAACGCGA-TAATACA
148413 AAATCGCAACGCGATTCTGACTATCGCAACGCGATAATACA
1 AAATCGCAACGCGATTCTGACTATCGCAACGCGATAATACA
*
148454 AAATCGCAATGCGATT
1 AAATCGCAACGCGATT
148470 TTCAAAGCGC
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
40 1 0.01
41 87 0.98
42 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (41 bp):
AAATCGCAACGCGATTCTGACTATCGCAACGCGATAATACA
Found at i:148386 original size:82 final size:82
Alignment explanation
Indices: 148300--148471 Score: 204
Period size: 82 Copynumber: 2.1 Consensus size: 82
148290 AATTCGCGTT
* ** *
148300 ACGATTTTAGAAAATCGCAATGCGAAT-AT-GTAAATCGCAACGCGATTCTGACTATCGTAACAC
1 ACGATTTT-GAAAATCGCAACGC-AATAATACAAAATCGCAACGCGATTCTGACTATCGCAACAC
148363 GATAATACAAAATCGCAAC
64 GATAATACAAAATCGCAAC
* *** * *
148382 ACGATTCTGGCTATCGCAACGCATTAATACAAAATCGCAACGCGATTCTGACTATCGCAACGCGA
1 ACGATTTTGAAAATCGCAACGCAATAATACAAAATCGCAACGCGATTCTGACTATCGCAACACGA
*
148447 TAATACAAAATCGCAAT
66 TAATACAAAATCGCAAC
*
148464 GCGATTTT
1 ACGATTTT
148472 CAAAGCGCCA
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
80 2 0.03
81 12 0.16
82 61 0.81
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (82 bp):
ACGATTTTGAAAATCGCAACGCAATAATACAAAATCGCAACGCGATTCTGACTATCGCAACACGA
TAATACAAAATCGCAAC
Found at i:148420 original size:21 final size:22
Alignment explanation
Indices: 148394--148469 Score: 81
Period size: 21 Copynumber: 3.6 Consensus size: 22
148384 GATTCTGGCT
148394 ATCGCAACGC-ATTAATACAAA
1 ATCGCAACGCGATTAATACAAA
* *
148415 ATCGCAACGCGATT-CTGAC--T
1 ATCGCAACGCGATTAAT-ACAAA
148435 ATCGCAACGCGA-TAATACAAA
1 ATCGCAACGCGATTAATACAAA
*
148456 ATCGCAATGCGATT
1 ATCGCAACGCGATT
148470 TTCAAAGCGC
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
19 3 0.07
20 13 0.30
21 22 0.50
22 6 0.14
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.21
Consensus pattern (22 bp):
ATCGCAACGCGATTAATACAAA
Found at i:148746 original size:20 final size:21
Alignment explanation
Indices: 148721--148813 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
148711 TTTTCCTAAT
*
148721 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
148741 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
148762 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
148782 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
148803 TCGCAATGCGA
1 TCGCAATGCGA
148814 TACTTACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:148766 original size:41 final size:41
Alignment explanation
Indices: 148721--148813 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
148711 TTTTCCTAAT
148721 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
148762 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
148803 TCGCAATGCGA
1 TCGCAATGCGA
148814 TACTTACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:148826 original size:41 final size:41
Alignment explanation
Indices: 148740--148874 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
148730 GAATAAGTAA
** *
148740 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTTACT
148781 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
* * ** * *
148822 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTTACT
* *
148863 TTTGCAACGCGA
1 ATCGCAACGCGA
148875 TACTGACTTT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
40 5 0.06
41 73 0.91
42 2 0.03
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
Found at i:148827 original size:20 final size:20
Alignment explanation
Indices: 148802--148892 Score: 74
Period size: 20 Copynumber: 4.5 Consensus size: 20
148792 AATTGGGAAA
*
148802 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * * **
148822 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-TACT
*
148843 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
148863 TTTGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
148883 TTCGCAACGC
1 ATCGCAACGC
148893 AATAATACAT
Statistics
Matches: 55, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
20 41 0.75
21 14 0.25
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:149112 original size:22 final size:22
Alignment explanation
Indices: 149084--149127 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
149074 CACTCTCTCA
149084 CCCATCTCC-GACGAAATCCGTC
1 CCCATCTCCAG-CGAAATCCGTC
149106 CCCATCTCCAGCGAAATCCGTC
1 CCCATCTCCAGCGAAATCCGTC
149128 TATCTAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.23, C:0.45, G:0.14, T:0.18
Consensus pattern (22 bp):
CCCATCTCCAGCGAAATCCGTC
Found at i:149416 original size:20 final size:20
Alignment explanation
Indices: 149391--149428 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
149381 CGATTCTCTC
149391 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
149411 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
149429 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:150760 original size:18 final size:18
Alignment explanation
Indices: 150739--150780 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
150729 TCCACTTCGG
*
150739 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
150757 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
150775 GAGCCA
1 GAGCCA
150781 CCATCTGATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.45, G:0.17, T:0.12
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:151310 original size:19 final size:20
Alignment explanation
Indices: 151256--151322 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
151246 TAGTTTACTT
* *
151256 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
151276 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
151296 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
151315 TCGCAACG
1 TCGCAACG
151323 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:151330 original size:14 final size:14
Alignment explanation
Indices: 151311--151368 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
151301 ATGCGAAATG
151311 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
151325 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
151341 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
151357 AAAATCGCAACG
1 AAAATCGCAACG
151369 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:151353 original size:32 final size:33
Alignment explanation
Indices: 151295--151385 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
151285 GGAAATGGCT
151295 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
151328 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
151360 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
151386 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:151423 original size:14 final size:14
Alignment explanation
Indices: 151404--151459 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
151394 GTGTTTCGCA
151404 TTGCGATTTTGTCG
1 TTGCGATTTTGTCG
*
151418 TTGCGATTTCATTTCGCG
1 TTGCGATTT--TGT--CG
151436 TTGCGATTTTGTCG
1 TTGCGATTTTGTCG
151450 TTGCGATTTT
1 TTGCGATTTT
151460 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 21 0.58
16 4 0.11
18 11 0.31
ACGTcount: A:0.09, C:0.16, G:0.25, T:0.50
Consensus pattern (14 bp):
TTGCGATTTTGTCG
Found at i:151440 original size:32 final size:33
Alignment explanation
Indices: 151397--151475 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
151387 GCGATTTGTG
151397 TTTCGCATTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
151429 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
151462 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
151476 AGCCATTTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 26 0.59
33 18 0.41
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:151474 original size:19 final size:19
Alignment explanation
Indices: 151416--151533 Score: 95
Period size: 20 Copynumber: 6.4 Consensus size: 19
151406 GCGATTTTGT
151416 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
151434 CGTTGCGA-TTT--TGT--
1 CGTTGCGATTTTCATTTCG
151448 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* ***
151467 CATTGCGATAGCCATTTCCG
1 CGTTGCGATTTTCATTT-CG
**
151487 CGTTGCGATAGTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
151506 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
151526 TGTTGCGA
1 CGTTGCGA
151534 AAGTAAACTA
Statistics
Matches: 81, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
14 8 0.10
15 3 0.04
16 2 0.02
17 2 0.02
18 11 0.14
19 26 0.32
20 29 0.36
ACGTcount: A:0.14, C:0.20, G:0.25, T:0.42
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:153542 original size:33 final size:35
Alignment explanation
Indices: 153497--153611 Score: 117
Period size: 37 Copynumber: 3.2 Consensus size: 35
153487 AAAACAGACT
* *** *
153497 ATCGCAACGCGAAATGGCTATCGCAA-CGAGA-AA
1 ATCGCAATGCGAAATGAAAATCGCAAGCGAAAGAA
153530 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 ATCGCAATGCGAAATGAAAATCGCAA-GCGAAA-GAA
*
153567 ATCGCAATGCGAAATGAAAATCGCAATACGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA-GCGAAA-G-AA
153605 ATCGCAA
1 ATCGCAA
153612 CGAGAAAATC
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
33 22 0.31
35 4 0.06
37 36 0.51
38 9 0.13
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (35 bp):
ATCGCAATGCGAAATGAAAATCGCAAGCGAAAGAA
Found at i:153578 original size:37 final size:38
Alignment explanation
Indices: 153526--153611 Score: 156
Period size: 37 Copynumber: 2.3 Consensus size: 38
153516 ATCGCAACGA
*
153526 GAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAATGAAAATCGCAATACGAAAT
153564 G-AAATCGCAATGCGAAATGAAAATCGCAATACGAAAT
1 GAAAATCGCAATGCGAAATGAAAATCGCAATACGAAAT
153601 GAAAATCGCAA
1 GAAAATCGCAA
153612 CGAGAAAATC
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
37 36 0.78
38 10 0.22
ACGTcount: A:0.49, C:0.16, G:0.20, T:0.15
Consensus pattern (38 bp):
GAAAATCGCAATGCGAAATGAAAATCGCAATACGAAAT
Found at i:153618 original size:19 final size:19
Alignment explanation
Indices: 153526--153611 Score: 156
Period size: 19 Copynumber: 4.6 Consensus size: 19
153516 ATCGCAACGA
153526 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
153545 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
153564 G-AAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
153582 GAAAATCGCAATACGAAAT
1 GAAAATCGCAATGCGAAAT
153601 GAAAATCGCAA
1 GAAAATCGCAA
153612 CGAGAAAATC
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
18 18 0.28
19 47 0.72
ACGTcount: A:0.49, C:0.16, G:0.20, T:0.15
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:153701 original size:20 final size:19
Alignment explanation
Indices: 153656--153703 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
153646 GCGATTCTCG
*
153656 TTGCGATAACCATTTTCGC
1 TTGCGATAGCCATTTTCGC
*
153675 GTGCGATAGCCATTTTCGC
1 TTGCGATAGCCATTTTCGC
153694 ATTGCGATAG
1 -TTGCGATAG
153704 TCAATGATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (19 bp):
TTGCGATAGCCATTTTCGC
Found at i:153954 original size:33 final size:33
Alignment explanation
Indices: 153903--153965 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
153893 TATGCATGTA
* *
153903 ATCGTTGCCTTTTTCATTTCGCATTGCGATTCT
1 ATCGTTGCCATTTGCATTTCGCATTGCGATTCT
*
153936 ATCGTTGCGATTTGCATTTCGCATTGCGAT
1 ATCGTTGCCATTTGCATTTCGCATTGCGAT
153966 GGTCAATGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.44
Consensus pattern (33 bp):
ATCGTTGCCATTTGCATTTCGCATTGCGATTCT
Found at i:154670 original size:24 final size:24
Alignment explanation
Indices: 154643--154695 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
154633 GTATTTGAAA
* *
154643 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
154667 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
154691 TTTGA
1 TTTGA
154696 AGATGTTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.38
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:154885 original size:12 final size:12
Alignment explanation
Indices: 154868--154892 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
154858 TCATAATCCT
154868 GAAGAAGAAAAA
1 GAAGAAGAAAAA
154880 GAAGAAGAAAAA
1 GAAGAAGAAAAA
154892 G
1 G
154893 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:157204 original size:19 final size:19
Alignment explanation
Indices: 157182--157237 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
157172 AATTACTATT
157182 GCAATGCGAAATGAAAATC
1 GCAATGCGAAATGAAAATC
*
157201 GCAA--CG--A-GAGAATC
1 GCAATGCGAAATGAAAATC
*
157215 GCAATGCGAAATAAAAATC
1 GCAATGCGAAATGAAAATC
157234 GCAA
1 GCAA
157238 CGCTAATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 10
0.69 0.07 0.24
Matches are distributed among these distances:
14 10 0.34
15 1 0.03
16 2 0.07
17 2 0.07
18 1 0.03
19 13 0.45
ACGTcount: A:0.48, C:0.18, G:0.21, T:0.12
Consensus pattern (19 bp):
GCAATGCGAAATGAAAATC
Found at i:157383 original size:14 final size:14
Alignment explanation
Indices: 157364--157400 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
157354 CATCAATTAA
157364 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
157378 ACAAATCACCTTTT
1 ACAAATCAACTTTT
157392 ACAAATCAA
1 ACAAATCAA
157401 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:158837 original size:42 final size:42
Alignment explanation
Indices: 158791--158874 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
158781 CGATGACAGT
* *
158791 GGCCTCTTGAACGGT-GTGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAG-GAGGGGACTCTCGAGGAATGATAGG
* * *
158833 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
158875 CGAGTCGGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
42 35 0.97
43 1 0.03
ACGTcount: A:0.23, C:0.17, G:0.38, T:0.23
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Done.