Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_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: 6287495
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 33
Found at i:2424941 original size:14 final size:15
Alignment explanation
Indices: 2424922--2424968 Score: 80
Period size: 14 Copynumber: 3.3 Consensus size: 15
2424912 TCAATCAAAT
2424922 CAAAGA-AAAAGAAA
1 CAAAGAGAAAAGAAA
2424936 CAAAGAGAAAAGAAA
1 CAAAGAGAAAAGAAA
2424951 -AAAGAGAAAAGAAA
1 CAAAGAGAAAAGAAA
2424965 CAAA
1 CAAA
2424969 AAAATAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
14 20 0.65
15 11 0.35
ACGTcount: A:0.77, C:0.06, G:0.17, T:0.00
Consensus pattern (15 bp):
CAAAGAGAAAAGAAA
Found at i:2424970 original size:24 final size:22
Alignment explanation
Indices: 2424928--2424996 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 22
2424918 AAATCAAAGA
2424928 AAAAGAAACAAAGAGAAAA-GAA-
1 AAAAGAAA-AAAGA-AAAACGAAC
*
2424950 AAAAGAGAAAAG--AAAC-AA-
1 AAAAGAAAAAAGAAAAACGAAC
*
2424968 AAAA-ATAAAAGAAAAACGAAC
1 AAAAGAAAAAAGAAAAACGAAC
2424989 AAAAGAAA
1 AAAAGAAA
2424997 TGGAAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
17 6 0.16
18 9 0.24
19 4 0.11
20 2 0.05
21 8 0.21
22 9 0.24
ACGTcount: A:0.78, C:0.06, G:0.14, T:0.01
Consensus pattern (22 bp):
AAAAGAAAAAAGAAAAACGAAC
Found at i:2424997 original size:24 final size:25
Alignment explanation
Indices: 2424918--2424997 Score: 69
Period size: 24 Copynumber: 3.2 Consensus size: 25
2424908 AGATTCAATC
*
2424918 AAATCAAAGA-AAAAGAAACAAAGAG
1 AAATAAAAGAGAAAAGAAACAAA-AG
*
2424943 AAAAGAAAAAAGAGAAAAGAAACAAAA-
1 --AA-ATAAAAGAGAAAAGAAACAAAAG
2424970 AAATAAAAGA-AAAACG-AACAAAAG
1 AAATAAAAGAGAAAA-GAAACAAAAG
2424994 AAAT
1 AAAT
2424998 GGAAAAAAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
23 11 0.24
24 12 0.26
25 2 0.04
27 2 0.04
28 7 0.15
29 12 0.26
ACGTcount: A:0.76, C:0.06, G:0.14, T:0.04
Consensus pattern (25 bp):
AAATAAAAGAGAAAAGAAACAAAAG
Found at i:2426498 original size:30 final size:29
Alignment explanation
Indices: 2426450--2426521 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 29
2426440 CTTTTGAAGG
* *
2426450 AAAATCTTTGAGTATGTTTTTCTTGAAAC
1 AAAATCTTTAAGTATGTTTCTCTTGAAAC
*
2426479 AAAAGTCTTTAAGTTTGTTTCTCTTGAAAC
1 AAAA-TCTTTAAGTATGTTTCTCTTGAAAC
2426509 AAACATCTTTAAG
1 AAA-ATCTTTAAG
2426522 ATCATTTCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.11
30 33 0.87
31 1 0.03
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (29 bp):
AAAATCTTTAAGTATGTTTCTCTTGAAAC
Found at i:2426724 original size:42 final size:40
Alignment explanation
Indices: 2426626--2426729 Score: 120
Period size: 40 Copynumber: 2.5 Consensus size: 40
2426616 AGATGGCATA
2426626 TCGTCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAG
1 TCGTCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAG
* * ** * *
2426666 ACCTCCTCATCACGTAGGAGTCGTGTCA-CCCCTGATAACGAG
1 TCGTCCTCATCACGTAGGAACCGTGTCATCCCCCG---ACCAG
2426708 TCGTCCTCATCACGTAGGAACC
1 TCGTCCTCATCACGTAGGAACC
2426730 ATGTTATCAT
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
39 5 0.10
40 24 0.47
42 22 0.43
ACGTcount: A:0.22, C:0.37, G:0.20, T:0.21
Consensus pattern (40 bp):
TCGTCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAG
Found at i:2427028 original size:3 final size:3
Alignment explanation
Indices: 2427020--2427065 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
2427010 GTCTAAAAAA
2427020 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2427066 ATTACATTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:2428328 original size:30 final size:30
Alignment explanation
Indices: 2428264--2428397 Score: 126
Period size: 30 Copynumber: 4.4 Consensus size: 30
2428254 GTAATTACTG
* * * * *
2428264 TTTAGTCATTTTAAATTTCTGTTTTTACTGT
1 TTTAGTC-CTTTAAGTTTCTATTTTTGCTAT
* * * *
2428295 TTTAGCCCTTTGAGTATCTATTTTTGTTAT
1 TTTAGTCCTTTAAGTTTCTATTTTTGCTAT
* *
2428325 TTTAATCCTTTAACTTTCTATTTTAT-CTAT
1 TTTAGTCCTTTAAGTTTCTATTTT-TGCTAT
*
2428355 TTTAGTCCTTTAAGTTTCTATATTTGCTAT
1 TTTAGTCCTTTAAGTTTCTATTTTTGCTAT
*
2428385 TTTGGTCCTTTAA
1 TTTAGTCCTTTAA
2428398 CTTTTTGTAT
Statistics
Matches: 82, Mismatches: 19, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
29 1 0.01
30 74 0.90
31 7 0.09
ACGTcount: A:0.19, C:0.13, G:0.09, T:0.58
Consensus pattern (30 bp):
TTTAGTCCTTTAAGTTTCTATTTTTGCTAT
Found at i:2428343 original size:60 final size:60
Alignment explanation
Indices: 2428273--2428426 Score: 159
Period size: 60 Copynumber: 2.6 Consensus size: 60
2428263 GTTTAGTCAT
* * * *
2428273 TTTAAATTTCTGTTTTTACTGTTTTAGCCCTTTGAGTATCTATTTTTGTTATTTTAATCC
1 TTTAACTTTCTGTTTTTACTGTTTTAGCCCTTTAAGTATCTATATTTGCTATTTTAATCC
* * * * **
2428333 TTTAACTTTCT-ATTTTATCTATTTTAGTCCTTTAAGTTTCTATATTTGCTATTTTGGTCC
1 TTTAACTTTCTGTTTTTA-CTGTTTTAGCCCTTTAAGTATCTATATTTGCTATTTTAATCC
* * * *
2428393 TTTAACTTTTTGTATTTATTG-TTTAGCCTTTTAA
1 TTTAACTTTCTGTTTTTACTGTTTTAGCCCTTTAA
2428427 ATTTATGTTA
Statistics
Matches: 75, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
59 16 0.21
60 55 0.73
61 4 0.05
ACGTcount: A:0.19, C:0.13, G:0.09, T:0.59
Consensus pattern (60 bp):
TTTAACTTTCTGTTTTTACTGTTTTAGCCCTTTAAGTATCTATATTTGCTATTTTAATCC
Found at i:2430009 original size:21 final size:20
Alignment explanation
Indices: 2429983--2430077 Score: 77
Period size: 21 Copynumber: 4.7 Consensus size: 20
2429973 ATCAGTTTCC
2429983 AAATCGCAACGCGATTCTTGA
1 AAATCGCAACGCGATT-TTGA
* **
2430004 AAATCGCAATGCGATAGT-A
1 AAATCGCAACGCGATTTTGA
** *
2430023 CAAATCGCATTGCGATTTTCCA
1 -AAATCGCAACGCGATTTT-GA
* *
2430045 AAATCGCAACGCGAATATG-
1 AAATCGCAACGCGATTTTGA
2430064 AAATCGCAACGCGA
1 AAATCGCAACGCGA
2430078 ACCATAAACG
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
19 15 0.25
20 16 0.27
21 28 0.47
22 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
AAATCGCAACGCGATTTTGA
Found at i:2430046 original size:20 final size:20
Alignment explanation
Indices: 2429966--2430058 Score: 73
Period size: 21 Copynumber: 4.7 Consensus size: 20
2429956 CGATCCCCAG
*
2429966 AATCGCAAT-C-AGTTTCCA
1 AATCGCAATGCGATTTTCCA
* **
2429984 AATCGCAACGCGATTCTTGAA
1 AATCGCAATGCGATT-TTCCA
** *
2430005 AATCGCAATGCGATAGTACA
1 AATCGCAATGCGATTTTCCA
*
2430025 AATCGCATTGCGATTTTCCAA
1 AATCGCAATGCGATTTTCC-A
*
2430046 AATCGCAACGCGA
1 AATCGCAATGCGA
2430059 ATATGAAATC
Statistics
Matches: 56, Mismatches: 15, Indels: 5
0.74 0.20 0.07
Matches are distributed among these distances:
18 8 0.14
19 1 0.02
20 19 0.34
21 28 0.50
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (20 bp):
AATCGCAATGCGATTTTCCA
Found at i:2430144 original size:20 final size:20
Alignment explanation
Indices: 2430045--2430229 Score: 197
Period size: 20 Copynumber: 9.7 Consensus size: 20
2430035 CGATTTTCCA
* **
2430045 AAATCGCAACGCGAATATG-
1 AAATCGCAACGCGTATCCGT
* *
2430064 AAATCGCAACGCG-AACCAT
1 AAATCGCAACGCGTATCCGT
*
2430083 AAA-CGCAAC-TGTATCC-T
1 AAATCGCAACGCGTATCCGT
2430100 AAATCGCAACG-GTATCCGT
1 AAATCGCAACGCGTATCCGT
**
2430119 -AATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
2430138 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
2430158 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
2430178 AAATCGCAACG-ATATACAT
1 AAATCGCAACGCGTATCCGT
2430197 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
2430217 AAATCGCAACGCG
1 AAATCGCAACGCG
2430230 ATATTTAAAG
Statistics
Matches: 138, Mismatches: 20, Indels: 15
0.80 0.12 0.09
Matches are distributed among these distances:
17 5 0.04
18 32 0.23
19 39 0.28
20 62 0.45
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:2430200 original size:59 final size:59
Alignment explanation
Indices: 2430045--2430229 Score: 195
Period size: 59 Copynumber: 3.2 Consensus size: 59
2430035 CGATTTTCCA
* ** * * *
2430045 AAATCGCAACGCGAATATGAAATCGCAACGCGA-A-CCATAAA-CGCAAC-TGTATCC-T
1 AAATCGCAACGCGTATCCGTAATCGCAACGC-ATATACATAAATCGCAACGCGTATCCGT
* *** *
2430100 AAATCGCAACG-GTATCCGTAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAATCGCAACGCATATACATAAATCGCAACGCGTATCCGT
*
2430158 ATATCGCAACGCGTATCCGTAAATCGCAACG-ATATACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT-AATCGCAACGCATATACATAAATCGCAACGCGTATCCGT
2430217 AAATCGCAACGCG
1 AAATCGCAACGCG
2430230 ATATTTAAAG
Statistics
Matches: 106, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
54 16 0.15
55 15 0.14
56 5 0.05
57 6 0.06
58 11 0.10
59 43 0.41
60 10 0.09
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (59 bp):
AAATCGCAACGCGTATCCGTAATCGCAACGCATATACATAAATCGCAACGCGTATCCGT
Found at i:2430213 original size:39 final size:38
Alignment explanation
Indices: 2430045--2430227 Score: 162
Period size: 39 Copynumber: 4.8 Consensus size: 38
2430035 CGATTTTCCA
* ** *
2430045 AAATCGCAACGCGAATATG-AAATCGCAACGCGA-ACCAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACG-TATA-CAT
* * *
2430083 AAA-CGCAAC-TGTATCC-TAAATCGCAACGGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAAC-GTATACAT
** * *
2430119 -AATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAA--CGTATACAT
*
2430158 ATATCGCAACGCGTATCCGTAAATCGCAACGATATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACG-TATACAT
2430197 AAATCGCAACGCGTATCCGTAAATCGCAACG
1 AAATCGCAACGCGTATCCGTAAATCGCAACG
2430228 CGATATTTAA
Statistics
Matches: 119, Mismatches: 16, Indels: 19
0.77 0.10 0.12
Matches are distributed among these distances:
35 2 0.02
36 22 0.18
37 11 0.09
38 15 0.13
39 43 0.36
40 26 0.22
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (38 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGTATACAT
Found at i:2430642 original size:33 final size:33
Alignment explanation
Indices: 2430603--2430673 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
2430593 TTCACTTAGA
* *
2430603 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTACGAT
* *
2430636 TTTCATTTCGCGTTGCTATTCTCTCGTTACGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTACGAT
2430669 TTTCA
1 TTTCA
2430674 AGTTTAGTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTACGAT
Found at i:2430798 original size:20 final size:20
Alignment explanation
Indices: 2430754--2430863 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
2430744 TGCAGAAGAG
*
2430754 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
2430775 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
2430795 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
2430816 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
2430830 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
2430849 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
2430864 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:2430811 original size:41 final size:38
Alignment explanation
Indices: 2430747--2430863 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 38
2430737 TTCAATTTGC
* *
2430747 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
2430785 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
2430826 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
2430859 AGAAT
1 AGAAT
2430864 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
33 23 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 33 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:2430833 original size:14 final size:14
Alignment explanation
Indices: 2430814--2430870 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2430804 GAGAAATGAA
2430814 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
2430828 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
2430847 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2430861 AATCGCAACG
1 AATCGCAACG
2430871 CGAACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2430846 original size:33 final size:33
Alignment explanation
Indices: 2430806--2430874 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
2430796 CGCAACGAGA
2430806 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2430839 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2430872 GAA
1 GAA
2430875 CCAAAATCGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.46, C:0.20, G:0.25, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:2430908 original size:19 final size:19
Alignment explanation
Indices: 2430881--2430964 Score: 106
Period size: 19 Copynumber: 4.7 Consensus size: 19
2430871 CGAACCAAAA
*
2430881 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2430900 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
2430914 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
2430933 TCGCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
2430952 TCGCGTTGCGATT
1 TCGCGTTGCGATT
2430965 CTCTCGTTGC
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
14 10 0.18
16 3 0.05
17 3 0.05
19 40 0.71
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2430964 original size:52 final size:52
Alignment explanation
Indices: 2430881--2430986 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
2430871 CGAACCAAAA
*
2430881 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTGTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
*
2430933 TCGCGTTGCGATTGTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTGTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
2430985 TC
1 TC
2430987 AACCAAAAGA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTGTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:2432801 original size:90 final size:91
Alignment explanation
Indices: 2432594--2433053 Score: 815
Period size: 91 Copynumber: 5.1 Consensus size: 91
2432584 TAGATTGCTT
*
2432594 AGTAAA-TTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAA-TAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAAGTA-T
2432657 ATTGTCTTTGTTTTGTCTTTTGGTTGAA
65 -TTGTCTTTGTTTTGTCTTTTGGTTGAA
2432685 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAAGTATT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAAGTATT
2432750 TGTCTTTG-TTTGTCTTTTGGTTGAA
66 TGTCTTTGTTTTGTCTTTTGGTTGAA
2432775 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAAGTATT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAAGTATT
2432840 TGTCTTTGTTTTGTCTTTTGGTTGAA
66 TGTCTTTGTTTTGTCTTTTGGTTGAA
2432866 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAAC--TGTATTCTTTAACACTGTGAATAGTAT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAA-AGTAT
2432929 TTGTCTTTGTTTTTGTCTTTTGGTTGAA
65 TTGTCTTTG-TTTTGTCTTTTGGTTGAA
2432957 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTG-AA-AGTA
2433022 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
64 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2433049 AGTAA
1 AGTAA
2433054 TGCAATCCAT
Statistics
Matches: 360, Mismatches: 1, Indels: 15
0.96 0.00 0.04
Matches are distributed among these distances:
89 21 0.06
90 104 0.29
91 122 0.34
92 59 0.16
93 37 0.10
94 17 0.05
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (91 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAAGTATT
TGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:2433141 original size:19 final size:18
Alignment explanation
Indices: 2433117--2433228 Score: 114
Period size: 19 Copynumber: 6.5 Consensus size: 18
2433107 CACGAGACTT
2433117 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAA-C
*
2433136 AAAATCGCAACGCGAAAT
1 AAAATCGCAACGCGAAAC
2433154 AAAATCGCAA--CG--AC
1 AAAATCGCAACGCGAAAC
*
2433168 AGAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAA-C
2433187 AAAATCGCAA--CG--AC
1 AAAATCGCAACGCGAAAC
*
2433201 AAGATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAA-C
2433220 AAAATCGCA
1 AAAATCGCA
2433229 TTGCGATTCT
Statistics
Matches: 77, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
14 20 0.26
15 1 0.01
16 6 0.08
17 2 0.03
18 12 0.16
19 36 0.47
ACGTcount: A:0.47, C:0.29, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAATCGCAACGCGAAAC
Found at i:2433196 original size:33 final size:32
Alignment explanation
Indices: 2433137--2433228 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
2433127 CGCGAAACCA
*
2433137 AAATCGCAACGCGAAA-TAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
2433168 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
2433201 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
2433229 TTGCGATTCT
Statistics
Matches: 57, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
31 1 0.02
32 16 0.28
33 40 0.70
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:2433248 original size:14 final size:14
Alignment explanation
Indices: 2433229--2433283 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
2433219 CAAAATCGCA
2433229 TTGCGATTCTTTCG
1 TTGCGATTCTTTCG
2433243 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TTTCG
*
2433260 CATTGCGATTCTGTCG
1 --TTGCGATTCTTTCG
2433276 TTGCGATT
1 TTGCGATT
2433284 TTCATTTCGC
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 14 0.40
16 7 0.20
17 8 0.23
19 6 0.17
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (14 bp):
TTGCGATTCTTTCG
Found at i:2433266 original size:33 final size:33
Alignment explanation
Indices: 2433224--2433302 Score: 140
Period size: 33 Copynumber: 2.4 Consensus size: 33
2433214 GAAACCAAAA
*
2433224 TCGCATTGCGATTCTTTCGTTGCGATTTTCATT
1 TCGCATTGCGATTCTGTCGTTGCGATTTTCATT
2433257 TCGCATTGCGATTCTGTCGTTGCGATTTTCATT
1 TCGCATTGCGATTCTGTCGTTGCGATTTTCATT
*
2433290 TCGCGTTGCGATT
1 TCGCATTGCGATT
2433303 TTGGTTTCGC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.46
Consensus pattern (33 bp):
TCGCATTGCGATTCTGTCGTTGCGATTTTCATT
Found at i:2433267 original size:19 final size:17
Alignment explanation
Indices: 2433235--2433323 Score: 78
Period size: 19 Copynumber: 5.1 Consensus size: 17
2433225 CGCATTGCGA
2433235 TTCTTTCG-TTGCGATT
1 TTCTTTCGCTTGCGATT
2433251 TTCATTTCGCATTGCGA--
1 TTC-TTTCGC-TTGCGATT
*
2433268 TTCTGTCG-TTGCGATT
1 TTCTTTCGCTTGCGATT
2433284 TTCATTTCGCGTTGCGATT
1 TTC-TTTCGC-TTGCGATT
*
2433303 TTGGTTTCGCGTTGCGATT
1 TT-CTTTCGC-TTGCGATT
2433322 TT
1 TT
2433324 AAGTTTCGTG
Statistics
Matches: 61, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
14 6 0.10
16 10 0.16
17 12 0.20
19 33 0.54
ACGTcount: A:0.09, C:0.19, G:0.22, T:0.49
Consensus pattern (17 bp):
TTCTTTCGCTTGCGATT
Found at i:2433331 original size:20 final size:19
Alignment explanation
Indices: 2433274--2433339 Score: 89
Period size: 19 Copynumber: 3.4 Consensus size: 19
2433264 GCGATTCTGT
2433274 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATTTT-AGTTTCG
*
2433293 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTTAGTTTCG
2433312 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTT-AGTTTCG
*
2433332 TGTTGCGA
1 CGTTGCGA
2433340 AAGTAAACTA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
19 29 0.69
20 13 0.31
ACGTcount: A:0.11, C:0.17, G:0.27, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTAGTTTCG
Found at i:2434945 original size:156 final size:151
Alignment explanation
Indices: 2434664--2434962 Score: 553
Period size: 156 Copynumber: 1.9 Consensus size: 151
2434654 ATTTAGCTAA
2434664 TCTTGGATGCGATCAATTATTGGACTCGTTCTGGAAACAAGAAGTCAAGAAGCTCAATATTACAG
1 TCTTGGATGCGATCAATTATTGGACTCGTTCTGGAAACAAGAAGTCAAGAAGCTCAATATTACAG
2434729 TTATTAGAGACAGACGCGCCAACAAACGAGCGGAGCCAGAGGAGATTGTGGTCCTCTCGTATGCT
66 TTATTAGAGACAGACGCGCCAACAAACGAGCGGAGCCAGAGGAGATTGTGGTCCTCTCGTATGCT
2434794 TGGCGTTGGAGCGAGCTAAAT
131 TGGCGTTGGAGCGAGCTAAAT
2434815 TCTTGGATGCGATCAATTATTGGACTCGTTCTGGAAACAAGAAGTCAAAGAAGCTCAATATTACA
1 TCTTGGATGCGATCAATTATTGGACTCGTTCTGGAAACAAGAAGTC-AAGAAGCTCAATATTACA
2434880 GTTATTAGAGACGAGACCGCGCCACAACAAACGAGCGGAGCCAGAGGAGATTGTGGTCCTCTCGT
65 GTTATTAGAGAC-AGA-CGCG-C-CAACAAACGAGCGGAGCCAGAGGAGATTGTGGTCCTCTCGT
2434945 ATGCTTGGCGTTGGAGCG
126 ATGCTTGGCGTTGGAGCG
2434963 TTTGACGACG
Statistics
Matches: 143, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
151 46 0.32
152 30 0.21
153 3 0.02
154 4 0.03
155 1 0.01
156 59 0.41
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (151 bp):
TCTTGGATGCGATCAATTATTGGACTCGTTCTGGAAACAAGAAGTCAAGAAGCTCAATATTACAG
TTATTAGAGACAGACGCGCCAACAAACGAGCGGAGCCAGAGGAGATTGTGGTCCTCTCGTATGCT
TGGCGTTGGAGCGAGCTAAAT
Found at i:2435413 original size:14 final size:14
Alignment explanation
Indices: 2435394--2435429 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
2435384 ATTGTTTAAT
2435394 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
2435408 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
2435422 TGATTTGT
1 TGATTTGT
2435430 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2435552 original size:19 final size:19
Alignment explanation
Indices: 2435528--2435614 Score: 121
Period size: 19 Copynumber: 4.8 Consensus size: 19
2435518 TTGAAGGCAA
2435528 AAATGAAAATCGCAATGCG
1 AAATGAAAATCGCAATGCG
2435547 AAATGAAAATCGCAA--CG
1 AAATGAAAATCGCAATGCG
*
2435564 --A-GAGAATCGCAATGCG
1 AAATGAAAATCGCAATGCG
2435580 AAATGAAAATCGCAATGCGG
1 AAATGAAAATCGCAATGC-G
2435600 AAATGAAAATCGCAA
1 AAATGAAAATCGCAA
2435615 CGAGAGAATC
Statistics
Matches: 60, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
14 10 0.17
15 1 0.02
16 2 0.03
17 2 0.03
18 1 0.02
19 28 0.47
20 16 0.27
ACGTcount: A:0.48, C:0.16, G:0.22, T:0.14
Consensus pattern (19 bp):
AAATGAAAATCGCAATGCG
Found at i:2435646 original size:53 final size:53
Alignment explanation
Indices: 2435528--2435632 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
2435518 TTGAAGGCAA
2435528 AAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCG
1 AAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCG
2435580 AAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCG
1 AAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCG
2435633 TTTATAATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 18 0.35
53 34 0.65
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (53 bp):
AAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCG
Found at i:2435676 original size:33 final size:33
Alignment explanation
Indices: 2435639--2435929 Score: 220
Period size: 33 Copynumber: 8.5 Consensus size: 33
2435629 TGCGTTTATA
2435639 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
* *
2435672 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCCCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT--TTC
* * *
2435712 -TTT-GCGATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGC-A-TTGCGATTCTCTCGTTGCGATTTTC
2435743 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
* *
2435776 ATTTCGTATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * * * *
2435816 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
2435847 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
* *
2435880 ATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTC
1 ATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTC
*
2435914 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
2435930 GTAATTTCCG
Statistics
Matches: 206, Mismatches: 26, Indels: 52
0.73 0.09 0.18
Matches are distributed among these distances:
31 14 0.07
32 12 0.06
33 88 0.43
34 29 0.14
35 11 0.05
36 8 0.04
37 4 0.02
38 18 0.09
39 8 0.04
40 14 0.07
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:2435685 original size:19 final size:19
Alignment explanation
Indices: 2435661--2435929 Score: 273
Period size: 19 Copynumber: 15.4 Consensus size: 19
2435651 GATTCTCTCG
2435661 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2435680 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* * *
2435699 TTGCGA--TTC---CCTCT
1 TTGCGATTTTCATTTCGCA
2435713 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2435732 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
2435751 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
2435765 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
2435784 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
2435803 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
2435817 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2435836 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
2435855 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
2435869 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
2435889 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
2435903 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
2435922 TTGCGATT
1 TTGCGATT
2435930 GTAATTTCCG
Statistics
Matches: 209, Mismatches: 15, Indels: 52
0.76 0.05 0.19
Matches are distributed among these distances:
14 37 0.18
16 26 0.12
17 23 0.11
18 3 0.01
19 108 0.52
20 12 0.06
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:2435696 original size:52 final size:52
Alignment explanation
Indices: 2435639--2435901 Score: 490
Period size: 52 Copynumber: 5.0 Consensus size: 52
2435629 TGCGTTTATA
2435639 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* *
2435691 ATTTCGCATTGCGATTCCCTCTTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
2435743 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGTATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
2435795 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
2435847 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
2435900 AT
1 AT
2435902 GTTGGGATTT
Statistics
Matches: 204, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
52 187 0.92
53 17 0.08
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:2438213 original size:12 final size:12
Alignment explanation
Indices: 2438198--2438222 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2438188 TTCTTCGGGA
2438198 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2438210 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2438222 C
1 C
2438223 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:2439145 original size:20 final size:20
Alignment explanation
Indices: 2439117--2439346 Score: 219
Period size: 20 Copynumber: 11.5 Consensus size: 20
2439107 AAATTTCAGT
* * *
2439117 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
2439137 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
2439157 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
2439177 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
2439197 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
2439217 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
2439237 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
2439257 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* * *
2439277 ATTGCGATTTACGGATACGA
1 GTTGCGATTTACGGATTCGC
*
2439297 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
2439317 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
2439337 GTTGCGATTT
1 GTTGCGATTT
2439347 TGGAAAATCG
Statistics
Matches: 178, Mismatches: 30, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
20 177 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:2439363 original size:21 final size:21
Alignment explanation
Indices: 2439333--2439415 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
2439323 ATTTTCATAT
*
2439333 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
2439354 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
2439375 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
2439396 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
2439416 CTGATTTACG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:2439406 original size:42 final size:43
Alignment explanation
Indices: 2439313--2439411 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
2439303 ATTTATGTGT
* *
2439313 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
2439354 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
2439396 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
2439412 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:2440133 original size:180 final size:181
Alignment explanation
Indices: 2439826--2440299 Score: 641
Period size: 180 Copynumber: 2.6 Consensus size: 181
2439816 CGATCCAAAT
* * * * *
2439826 TAAAAATGTATCGATCCATATCAATATAATAGGTAAAAATATCGATAAAACCGGTCAT-GAAAAG
1 TAAAAATGTATCGATCCACAACGATATAAAAGGTAAAAATAT-GA-AAAACCGGT-ATCGAAATG
* * ** * * * *
2439890 ACAATACTAGTAAAGCCCTACCGGATATATTGAACGTGTTGATACTTTAATGTAAAGATCGACAC
63 ATAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTAGATACTTTAATATAAAGATCGACAC
*
2439955 TTTATGAATTTAAAAGAGAAGCAGTTTTAATGCCAATAAAGTGTCGATACTTTA
128 TTTATGAATTTAAAAGAGAAGCAGTTTTAACGCCAATAAAGTGTCGATACTTTA
*
2440009 TAAAAATGTATCGATCCACAACGATATAAAAGGTAAAAATATG-ACAACCGGTATCGAAATGATA
1 TAAAAATGTATCGATCCACAACGATATAAAAGGTAAAAATATGAAAAACCGGTATCGAAATGATA
*
2440073 AAACCGGTAAAGCGCTACCGGATATATTTAAAGTGTCAG-TACTTTAATAT-AAGTATCGACACT
66 AAACCGGTAAAGCGCTACCGGATATATTGAAAGTGT-AGATACTTTAATATAAAG-ATCGACACT
* * * *
2440136 TTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTTTCGATACTTTA
129 TTATGAATTTAAAAGAGAAGCAGTTTTAACGCCAATAAAGTGTCGATACTTTA
* *
2440189 TAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGAT
1 TAAAAATGTATCGATCCACAACGATATAAAAGGTAAAAATATGA-AAAACCGGTATCGAAATGAT
* * *
2440254 AAAATCGGTAAAGAGCTACCGGATATATTGAAAGTGTTGATACTTT
65 AAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTAGATACTTT
2440300 CATAAGTACG
Statistics
Matches: 258, Mismatches: 27, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
179 5 0.02
180 154 0.60
181 2 0.01
182 59 0.23
183 38 0.15
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.28
Consensus pattern (181 bp):
TAAAAATGTATCGATCCACAACGATATAAAAGGTAAAAATATGAAAAACCGGTATCGAAATGATA
AAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTAGATACTTTAATATAAAGATCGACACTTT
ATGAATTTAAAAGAGAAGCAGTTTTAACGCCAATAAAGTGTCGATACTTTA
Found at i:2440243 original size:20 final size:19
Alignment explanation
Indices: 2440220--2440265 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
2440210 CGATATAACA
2440220 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
* *
2440240 GGTATCAAAATGATAAAATC
1 GGTA-AAAAATGATAAAACC
2440260 GGTAAA
1 GGTAAA
2440266 GAGCTACCGG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.05
20 18 0.82
21 3 0.14
ACGTcount: A:0.52, C:0.09, G:0.17, T:0.22
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:2442517 original size:21 final size:21
Alignment explanation
Indices: 2442488--2442529 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2442478 GACAATCAAA
*
2442488 AGTCGAAGAGAAACTTGAGAG
1 AGTCAAAGAGAAACTTGAGAG
* *
2442509 AGTCAAAGATACACTTGAGAG
1 AGTCAAAGAGAAACTTGAGAG
2442530 GCATAAGGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.12, G:0.29, T:0.17
Consensus pattern (21 bp):
AGTCAAAGAGAAACTTGAGAG
Found at i:2442605 original size:33 final size:33
Alignment explanation
Indices: 2442563--2442628 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
2442553 AAATAGATGG
* * *
2442563 AGTGATGAAAGAAGTAGAGGTGTTGATGGGTGA
1 AGTGATGAAAGAAGTAGAAGTGTTAAGGGGTGA
* *
2442596 AGTGGTGAAAGAAGTTGAAGTGTTAAGGGGTGA
1 AGTGATGAAAGAAGTAGAAGTGTTAAGGGGTGA
2442629 TCTTAAGATG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.33, C:0.00, G:0.42, T:0.24
Consensus pattern (33 bp):
AGTGATGAAAGAAGTAGAAGTGTTAAGGGGTGA
Found at i:2443393 original size:200 final size:197
Alignment explanation
Indices: 2443136--2443688 Score: 831
Period size: 197 Copynumber: 2.8 Consensus size: 197
2443126 AAAGGGTTGC
* *
2443136 ACGCATAAAGT-TTCGATATATTTATTAAAAGTGTCAATCCCAAAAACATCGAAACCCATAATTA
1 ACGCATAAAGTGTT-GATACATTTATTAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTA
* *
2443200 TAATGTAATAGGTAATTTTGTAATATAACCAGTATACATATACCGGTTTTATGAGAGAATAGGTC
65 TAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTC
* * *
2443265 TATAATATGTATCAACACTTCTTAATATTGTGTCGATAATTTTTGTCCAGAATGGATGCCAAAAA
130 TATAACATGTATCGACACTTCTTAA-ATT-TGTCGATAATTTTT-TCCAGAATAGATGCCAAAAA
2443330 GGATGA
192 GGATGA
2443336 ACGCATAAAGTGTTGATACATTT-TTAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTA
1 ACGCATAAAGTGTTGATACATTTATT-AAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTA
* ** *
2443400 TAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTC
65 TAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTC
* * * *
2443465 TATAACATGTAGCGACACTTGTTAAGTTTGTCGATACTTTTTTCCAGAATAGATGCCAAAAAGGA
130 TATAACATGTATCGACACTTCTTAAATTTGTCGATAATTTTTTCCAGAATAGATGCCAAAAAGGA
2443530 TGA
195 TGA
* * * * * *
2443533 ACACACAAAGTGTCGATACATTTATTAAAAGTGTCGATACCGAAAACATCGAAACCGATAATTAT
1 ACGCATAAAGTGTTGATACATTTATTAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTAT
*
2443598 AATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATATCGGTTTTATGAGAGAATAGGTCT
66 AATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCT
* *
2443663 ACAACATGTATCGACACTTTTTAAAT
131 ATAACATGTATCGACACTTCTTAAAT
2443689 AAACCCCAGG
Statistics
Matches: 320, Mismatches: 30, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
197 163 0.51
198 15 0.05
199 4 0.01
200 136 0.43
201 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (197 bp):
ACGCATAAAGTGTTGATACATTTATTAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTAT
AATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCT
ATAACATGTATCGACACTTCTTAAATTTGTCGATAATTTTTTCCAGAATAGATGCCAAAAAGGAT
GA
Found at i:2446736 original size:198 final size:195
Alignment explanation
Indices: 2446381--2446950 Score: 686
Period size: 198 Copynumber: 2.9 Consensus size: 195
2446371 TACCTAATAT
* * *
2446381 GTGTCGATACATTT-TATACAAGTATCGA-CCCAAAAAACATCAAAGCCATAATTATAATGTAAT
1 GTGTCGATACATTTAT-TAAAAGTATCGATCCC-AAAAACATCGAACCCATAATTATAATGTAAT
* * * * *
2446444 AGGTAAATTAACAATGTAACATGTATAAATATACCGG-TTAATTAGAAAACAGGTCAACATAATG
64 AGGTAAATTTACAATGTAAC-CGTATAAATATACCGGTTTTATGAGAAAATAGGTC-ACATAATG
* * *
2446508 TATCGACA-TTTGTGGAATTTGTGTCGATACTTATTGTCCAGGATGAATGCACAAACGAGGTGC-
127 TATCGACACTTTGT-AAATTTGTGTCGATACTT-TTGTCCAGAATGAATGC-CAAA-AAGGTGCA
2446571 ACGCATAAA
188 AC-CATAAA
* *
2446580 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAATCGATAATTATAATGT-ATAG
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAACCCATAATTATAATGTAATAG
* *
2446644 GTAAATTTACAATGTAACCGTATAAATATACCGGTTTTATGATAAAATAGGTCAGCATAAAGTAT
66 GTAAATTTACAATGTAACCGTATAAATATACCGGTTTTATGAGAAAATAGGTCA-CATAATGTAT
* *
2446709 CGACACTTTCTAAATTTGTGTCGATACTTTTGTTCCAAAATGAATGCCAAAAAGGTGCAACCATA
130 CGACACTTTGTAAATTTGTGTCGATACTTTTG-TCCAGAATGAATGCCAAAAAGGTGCAACCATA
2446774 AA
194 AA
* ** ** *
2446776 GTGTCGATACATTTATAAAAAGTATCGATCCCGGAAACATCGAAACCCATAAGCATATTGTAATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCG-AACCCATAATTATAATGTAATA
* * * *
2446841 GGTAAATTTTCAA-GTAACCAGTATAAATATATCGGTTTTTATGAGAGAATAGGTCTAAATAATG
65 GGTAAATTTACAATGTAACC-GTATAAATATACCGG-TTTTATGAGAAAATAGGTC-ACATAATG
* * *
2446905 TATCGACACTTTGTTAGTTTGTGTCGATACTTTTTTCCAGAATGAA
127 TATCGACACTTTGTAAATTTGTGTCGATACTTTTGTCCAGAATGAA
2446951 ATATGAATAG
Statistics
Matches: 324, Mismatches: 35, Indels: 25
0.84 0.09 0.07
Matches are distributed among these distances:
196 51 0.16
197 44 0.14
198 117 0.36
199 107 0.33
200 5 0.02
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (195 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAACCCATAATTATAATGTAATAG
GTAAATTTACAATGTAACCGTATAAATATACCGGTTTTATGAGAAAATAGGTCACATAATGTATC
GACACTTTGTAAATTTGTGTCGATACTTTTGTCCAGAATGAATGCCAAAAAGGTGCAACCATAAA
Found at i:2447121 original size:23 final size:23
Alignment explanation
Indices: 2447048--2447112 Score: 121
Period size: 23 Copynumber: 2.8 Consensus size: 23
2447038 ATGCTTATTT
2447048 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
2447071 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
*
2447094 ATTATATAAACGCTACCTA
1 ATTATATAAGCGCTACCTA
2447113 ATATGTTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.34
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTATTAC
Found at i:2451716 original size:22 final size:21
Alignment explanation
Indices: 2451686--2451726 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
2451676 TTATAATAAA
*
2451686 TAAAGTCAAATAATAGAACAAG
1 TAAACTCAAATAATA-AACAAG
*
2451708 TAAACTCAAGTAATAAACA
1 TAAACTCAAATAATAAACA
2451727 TACAACAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.59, C:0.12, G:0.10, T:0.20
Consensus pattern (21 bp):
TAAACTCAAATAATAAACAAG
Found at i:2452649 original size:23 final size:23
Alignment explanation
Indices: 2452590--2452650 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
2452580 TTTTAATTAT
* *
2452590 GTTATATTATTATTTATTATATA
1 GTTATAGTATTATATATTATATA
* * *
2452613 CTACATGGTA-TATATATTATATA
1 GT-TATAGTATTATATATTATATA
2452636 GTTATAGTATTATAT
1 GTTATAGTATTATAT
2452651 TATAGTGTGT
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
22 5 0.18
23 19 0.68
24 4 0.14
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.52
Consensus pattern (23 bp):
GTTATAGTATTATATATTATATA
Found at i:2452667 original size:26 final size:24
Alignment explanation
Indices: 2452638--2452700 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 24
2452628 ATTATATAGT
*
2452638 TATAGTATTATATTATAGTGTGTGTA
1 TATA-TATTATATTATAGTATG-GTA
*
2452664 TATATATATATATTATGGTATGGTA
1 TATATAT-TATATTATAGTATGGTA
*
2452689 TATACATTATAT
1 TATATATTATAT
2452701 AGTGTATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 5 0.15
25 12 0.36
26 16 0.48
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (24 bp):
TATATATTATATTATAGTATGGTA
Found at i:2452701 original size:26 final size:26
Alignment explanation
Indices: 2452646--2452727 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
2452636 GTTATAGTAT
* *
2452646 TATATTATAGTGTGTGTATATATATA
1 TATATTATAGTATGTGTATATACATA
*
2452672 TATATTATGGTATG-GTATATACAT-
1 TATATTATAGTATGTGTATATACATA
2452696 TATA-TAGT-GTA--T-TATATAGCATA
1 TATATTA-TAGTATGTGTATATA-CATA
2452719 TATATTATA
1 TATATTATA
2452728 TAATATTATA
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
21 6 0.13
22 3 0.06
23 10 0.21
24 7 0.15
25 9 0.19
26 12 0.26
ACGTcount: A:0.37, C:0.02, G:0.13, T:0.48
Consensus pattern (26 bp):
TATATTATAGTATGTGTATATACATA
Found at i:2452726 original size:16 final size:15
Alignment explanation
Indices: 2452705--2452833 Score: 67
Period size: 16 Copynumber: 8.4 Consensus size: 15
2452695 TTATATAGTG
2452705 TATTATATAGCATATA
1 TATTATATAG-ATATA
2452721 TATTATATA-ATAT-
1 TATTATATAGATATA
2452734 TA-TATAT--ATAT-
1 TATTATATAGATATA
2452745 TATTAAATATAGCATATA
1 TATT--ATATAG-ATATA
*
2452763 TTTTATATAGTATAGTATA
1 TATTATATAG---A-TATA
*
2452782 TATTATGTAGAGTATA
1 TATTATATAGA-TATA
*
2452798 TATTATAGA-ATATTA
1 TATTATATAGATA-TA
*
2452813 TATTATAT-TATATTA
1 TATTATATAGATA-TA
2452828 TATTAT
1 TATTAT
2452834 TATTTTGATT
Statistics
Matches: 94, Mismatches: 7, Indels: 25
0.75 0.06 0.20
Matches are distributed among these distances:
11 6 0.06
12 6 0.06
13 2 0.02
14 10 0.11
15 22 0.23
16 28 0.30
17 4 0.04
18 4 0.04
19 12 0.13
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (15 bp):
TATTATATAGATATA
Found at i:2452733 original size:21 final size:21
Alignment explanation
Indices: 2452709--2452787 Score: 85
Period size: 21 Copynumber: 3.9 Consensus size: 21
2452699 ATAGTGTATT
2452709 ATATAGCATATATATTATATA
1 ATATAGCATATATATTATATA
*
2452730 ATATTA-TATATATATTAT-TAA
1 ATA-TAGCATATATATTATAT-A
*
2452751 ATATAGCATATATTTTATATA
1 ATATAGCATATATATTATATA
*
2452772 GTATAG--TATATATTAT
1 ATATAGCATATATATTAT
2452788 GTAGAGTATA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
19 9 0.18
20 3 0.06
21 34 0.69
22 3 0.06
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (21 bp):
ATATAGCATATATATTATATA
Found at i:2452755 original size:28 final size:28
Alignment explanation
Indices: 2452724--2452833 Score: 79
Period size: 28 Copynumber: 3.9 Consensus size: 28
2452714 GCATATATAT
2452724 TATATA-ATATTATATATATATTATTAAA
1 TATATATATATTATATATATATTA-TAAA
* * *
2452752 TATAGCATATATT-T-TATATAGTAT-AG
1 TATA-TATATATTATATATATATTATAAA
*
2452778 TATATAT-TATGTAGAGTATATATTATAGAA
1 TATATATATAT-TATA-TATATATTATA-AA
2452808 TATTATATTATATTATAT-TATATTAT
1 TA-TATA-TATATTATATATATATTAT
2452834 TATTTTGATT
Statistics
Matches: 63, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
24 3 0.05
25 3 0.05
26 5 0.08
27 1 0.02
28 21 0.33
29 2 0.03
30 16 0.25
31 5 0.08
32 4 0.06
33 3 0.05
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.50
Consensus pattern (28 bp):
TATATATATATTATATATATATTATAAA
Found at i:2452795 original size:21 final size:19
Alignment explanation
Indices: 2452734--2452797 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 19
2452724 TATATAATAT
*
2452734 TATA-TATATATTATTAAA
1 TATAGTATATATTATTAAG
* *
2452752 TATAGCATATATTTTATATAG
1 TATAGTATATATTAT-TA-AG
2452773 TATAGTATATATTATGTAGAG
1 TATAGTATATATTAT-TA-AG
2452794 TATA
1 TATA
2452798 TATTATAGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
18 4 0.11
19 8 0.22
20 2 0.06
21 22 0.61
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (19 bp):
TATAGTATATATTATTAAG
Found at i:2452849 original size:5 final size:5
Alignment explanation
Indices: 2452796--2452833 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
2452786 ATGTAGAGTA
* *
2452796 TATAT TATAG AATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
2452834 TATTTTGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (5 bp):
TATAT
Found at i:2455734 original size:23 final size:21
Alignment explanation
Indices: 2455691--2455743 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 21
2455681 AATTATTTTG
2455691 TTTATAATTAGGACTCCTAATAT
1 TTTATAATTAGGACTCCT-A-AT
* *
2455714 TTTATAATTA-GAGTCTTTAAT
1 TTTATAATTAGGACTC-CTAAT
2455735 TTTATAATT
1 TTTATAATT
2455744 TCATAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 11 0.41
22 5 0.19
23 11 0.41
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.51
Consensus pattern (21 bp):
TTTATAATTAGGACTCCTAAT
Found at i:2470479 original size:20 final size:21
Alignment explanation
Indices: 2470451--2470493 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
2470441 TTATTTAATT
2470451 TAAATTA-TTTATAATATAAAA
1 TAAATTATTTTAT-ATATAAAA
*
2470472 TAAA-TATTTTATATTTAAAA
1 TAAATTATTTTATATATAAAA
2470492 TA
1 TA
2470494 TTAAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TAAATTATTTTATATATAAAA
Found at i:2471274 original size:27 final size:26
Alignment explanation
Indices: 2471244--2471328 Score: 107
Period size: 27 Copynumber: 3.2 Consensus size: 26
2471234 TATAACGTTT
* *
2471244 CCGGTAAAGTGGTCAACAATAACAAAA
1 CCGGTAAAG-CGTCAATAATAACAAAA
2471271 CCGGTAAAGCGTCCAATAATAACAAAA
1 CCGGTAAAGCGT-CAATAATAACAAAA
* *
2471298 CTGGTAAAGCGCCTAATAATAACAAAA
1 CCGGTAAAGCGTC-AATAATAACAAAA
2471325 CCGG
1 CCGG
2471329 AATAAATAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
26 3 0.06
27 48 0.94
ACGTcount: A:0.46, C:0.21, G:0.18, T:0.15
Consensus pattern (26 bp):
CCGGTAAAGCGTCAATAATAACAAAA
Found at i:2472527 original size:13 final size:13
Alignment explanation
Indices: 2472509--2472535 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2472499 CTATAACCAC
2472509 TCCATACTTAATA
1 TCCATACTTAATA
2472522 TCCATACTTAATA
1 TCCATACTTAATA
2472535 T
1 T
2472536 ATGCATGCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (13 bp):
TCCATACTTAATA
Found at i:2478807 original size:28 final size:28
Alignment explanation
Indices: 2478750--2478807 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
2478740 AAAAAGTTTG
* *
2478750 AATAGTTTAGGTACCTATTTTGACACAA
1 AATACTTTAGGTACCTATTTTGACAAAA
* * *
2478778 AATACTTTAGGTGCTTATTTTGGCAAAA
1 AATACTTTAGGTACCTATTTTGACAAAA
2478806 AA
1 AA
2478808 GATAACTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (28 bp):
AATACTTTAGGTACCTATTTTGACAAAA
Found at i:2479614 original size:2 final size:2
Alignment explanation
Indices: 2479607--2479643 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2479597 ATACCCGGTT
2479607 TA 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 TA T
2479644 TATTTTATAT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2479733 original size:39 final size:39
Alignment explanation
Indices: 2479675--2479780 Score: 128
Period size: 39 Copynumber: 2.7 Consensus size: 39
2479665 TATAATTCTC
* *
2479675 AAATTATTTCAC-TCTAACATTCTAAATTCTCAATTTCTT
1 AAATTATGTCACAT-TAACATTCTAAATTCTCAATATCTT
*
2479714 AAAATT-TGTCACCA-TAACATTCTAAATTCTTAATATCTT
1 -AAATTATGTCA-CATTAACATTCTAAATTCTCAATATCTT
*
2479753 AAATTATTTCACATTAACATTCTAAATT
1 AAATTATGTCACATTAACATTCTAAATT
2479781 ATTTTAAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 9
0.82 0.06 0.13
Matches are distributed among these distances:
38 7 0.12
39 45 0.78
40 6 0.10
ACGTcount: A:0.38, C:0.18, G:0.01, T:0.43
Consensus pattern (39 bp):
AAATTATGTCACATTAACATTCTAAATTCTCAATATCTT
Found at i:2479929 original size:2 final size:2
Alignment explanation
Indices: 2479922--2479968 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
2479912 TTTTAGAATT
*
2479922 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2479964 -A TA TA
1 TA TA TA
2479969 GTTCTAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:2485056 original size:20 final size:21
Alignment explanation
Indices: 2485014--2485067 Score: 92
Period size: 20 Copynumber: 2.6 Consensus size: 21
2485004 AATGCCCAAC
2485014 AATAACAAAACCGATAGAAAAA
1 AATAACAAAACCGATA-AAAAA
2485036 AATAACAAAACCGAT-AAAAA
1 AATAACAAAACCGATAAAAAA
2485056 AATAACAAAACC
1 AATAACAAAACC
2485068 AGTAAAACGC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 17 0.53
22 15 0.47
ACGTcount: A:0.69, C:0.17, G:0.06, T:0.09
Consensus pattern (21 bp):
AATAACAAAACCGATAAAAAA
Found at i:2496236 original size:160 final size:157
Alignment explanation
Indices: 2495938--2496254 Score: 591
Period size: 160 Copynumber: 2.0 Consensus size: 157
2495928 ATTCTAAAAA
2495938 GTATTATGAATATCGTTCTAGTGTATATTAAAAATAATCTTTCAAATATAAGAATTCATCATCAT
1 GTATTATGAATATCGTTCTAGTGTATATTAAAAATAATCTTTCAAATATAAGAATTCATCATCAT
2496003 CAACTTAAATTTCTTTTTTTTTAAAAAAATCAGTGAGTGCTTTGTTACTTGCCAATCCATTGTTC
66 CAACTTAAATTTCTTTTTTTTTAAAAAAATCAGTGAGTGCTTTGTTACTTGCCAATCCATTGTTC
2496068 TTCATGTTACC-TTTACCTAAAGATAT
131 TTCATGTTACCTTTTACCTAAAGATAT
2496094 GTATTATGAATATCGTTCTAGTGTATATTAAAAATAATCTTTCAAATATAAGAATTCAAATCATC
1 GTATTATGAATATCGTTCTAGTGTATATTAAAAATAATCTTTCAAATATAAGAATTC--ATCATC
2496159 ATCAACTTAAATTTCTTTTCTTTTTTAAAAAAATCAGTGAGTGCTTTGTTACTTGCCAATCCATT
64 ATCAACTTAAATTTC-TTT-TTTTTTAAAAAAATCAGTGAGTGCTTTGTTACTTGCCAATCCATT
2496224 GTTCTTCATGTTACCTTTTACCTAAAGATAT
127 GTTCTTCATGTTACCTTTTACCTAAAGATAT
2496255 TAGTGGGTTT
Statistics
Matches: 156, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
156 57 0.37
158 21 0.13
159 3 0.02
160 60 0.38
161 15 0.10
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.42
Consensus pattern (157 bp):
GTATTATGAATATCGTTCTAGTGTATATTAAAAATAATCTTTCAAATATAAGAATTCATCATCAT
CAACTTAAATTTCTTTTTTTTTAAAAAAATCAGTGAGTGCTTTGTTACTTGCCAATCCATTGTTC
TTCATGTTACCTTTTACCTAAAGATAT
Found at i:2509565 original size:20 final size:19
Alignment explanation
Indices: 2509524--2509568 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
2509514 TGAGAAGTTG
*
2509524 AAATAAATAAAATGAAAGA
1 AAATAAATAAAAGGAAAGA
2509543 AAATGAAATAAAAAGGAAA-A
1 AAAT-AAAT-AAAAGGAAAGA
2509563 AAATAA
1 AAATAA
2509569 GAGGTAGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 6 0.26
20 9 0.39
21 8 0.35
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (19 bp):
AAATAAATAAAAGGAAAGA
Found at i:2522091 original size:2 final size:2
Alignment explanation
Indices: 2522084--2522134 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
2522074 AGCCAACATA
2522084 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
2522126 AT AT AT AT A
1 AT AT AT AT A
2522135 GTAGCTAATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2522316 original size:2 final size:2
Alignment explanation
Indices: 2522311--2522344 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2522301 ATTAAATTTA
2522311 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
2522345 TTAAAATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2523353 original size:21 final size:21
Alignment explanation
Indices: 2523327--2523373 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
2523317 CTCGGAAACC
* *
2523327 CCATGCAGATTCACGTCCCAT
1 CCATGCAGATCCACGTCCCAA
*
2523348 CCATGCAGATCCGCGTCCCAA
1 CCATGCAGATCCACGTCCCAA
2523369 CCATG
1 CCATG
2523374 GTACCGCTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.40, G:0.17, T:0.19
Consensus pattern (21 bp):
CCATGCAGATCCACGTCCCAA
Found at i:2524395 original size:91 final size:92
Alignment explanation
Indices: 2524290--2524472 Score: 332
Period size: 92 Copynumber: 2.0 Consensus size: 92
2524280 ATCTCCTTAG
2524290 AATGAAATCGGATCACAGACCACTTCTTTTATC-TTCAGCTGTTAGTTCTTGCTCTAATCGAACT
1 AATGAAATCGGATCACAGACCACTTCTTTTATCTTTCAGCTGTTAGTTCTTGCTCTAATCGAACT
*
2524354 CCAAAATTCAGGTACTTCTCGGGATGA
66 CCAAAATTCAGGTACCTCTCGGGATGA
* *
2524381 AATGAAATCGGATCACAGACCACTTCTTTTGTCTTTCAGCTGTTAGTTCTTGCTCTCATCGAACT
1 AATGAAATCGGATCACAGACCACTTCTTTTATCTTTCAGCTGTTAGTTCTTGCTCTAATCGAACT
2524446 CCAAAATTCAGGTACCTCTCGGGATGA
66 CCAAAATTCAGGTACCTCTCGGGATGA
2524473 TTTCTTCACC
Statistics
Matches: 88, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
91 32 0.36
92 56 0.64
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (92 bp):
AATGAAATCGGATCACAGACCACTTCTTTTATCTTTCAGCTGTTAGTTCTTGCTCTAATCGAACT
CCAAAATTCAGGTACCTCTCGGGATGA
Found at i:2527844 original size:23 final size:20
Alignment explanation
Indices: 2527794--2527845 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 20
2527784 AGTTAAAATG
2527794 AAATCATTAATTAAATTAAA
1 AAATCATTAATTAAATTAAA
2527814 AAGA--ATTAATTAAGATTATATA
1 AA-ATCATTAATTAA-ATTA-A-A
2527836 AAATCATTAA
1 AAATCATTAA
2527846 ATTATAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
19 9 0.35
20 6 0.23
21 3 0.12
22 3 0.12
23 5 0.19
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (20 bp):
AAATCATTAATTAAATTAAA
Found at i:2528863 original size:20 final size:19
Alignment explanation
Indices: 2528840--2528945 Score: 106
Period size: 20 Copynumber: 5.4 Consensus size: 19
2528830 AATCTGTAAA
2528840 TCGCAACACAGAAGTCAAAT
1 TCGCAACAC-GAAGTCAAAT
*
2528860 TCGCAACGCGATAGTCAAAT
1 TCGCAACACGA-AGTCAAAT
*
2528880 TCACAACAC-ATAGTCAAAT
1 TCGCAACACGA-AGTCAAAT
*
2528899 TCGCAACACGAATTTCAAAT
1 TCGCAACACGAA-GTCAAAT
* * * *
2528919 TCGCAACGCGAATTTAATT
1 TCGCAACACGAAGTCAAAT
2528938 TCGCAACA
1 TCGCAACA
2528946 TGTTTTAGTT
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
19 33 0.45
20 41 0.55
ACGTcount: A:0.40, C:0.25, G:0.13, T:0.22
Consensus pattern (19 bp):
TCGCAACACGAAGTCAAAT
Found at i:2528917 original size:39 final size:41
Alignment explanation
Indices: 2528816--2528925 Score: 131
Period size: 39 Copynumber: 2.8 Consensus size: 41
2528806 CCCAGTTTAT
*
2528816 AAATTCGCAACGCGAATCTGT-AAA-TCGCAACACAGAAGTC
1 AAATTCGCAACGCGAATAT-TCAAATTCGCAACACAGAAGTC
* * *
2528856 AAATTCGCAACGCG-ATAGTCAAATTCACAACACA-TAGTC
1 AAATTCGCAACGCGAATATTCAAATTCGCAACACAGAAGTC
*
2528895 AAATTCGCAACACGAAT-TTCAAATTCGCAAC
1 AAATTCGCAACGCGAATATTCAAATTCGCAAC
2528926 GCGAATTTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
38 1 0.02
39 34 0.57
40 25 0.42
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.20
Consensus pattern (41 bp):
AAATTCGCAACGCGAATATTCAAATTCGCAACACAGAAGTC
Found at i:2528942 original size:19 final size:20
Alignment explanation
Indices: 2528816--2528945 Score: 94
Period size: 20 Copynumber: 6.6 Consensus size: 20
2528806 CCCAGTTTAT
*
2528816 AAATTCGCAACGCGAATCTGT-
1 AAATTCGCAACACGAAT-T-TC
*
2528837 AAA-TCGCAACACAGAA-GTC
1 AAATTCGCAACAC-GAATTTC
* *
2528856 AAATTCGCAACGCG-ATAGTC
1 AAATTCGCAACACGAAT-TTC
* *
2528876 AAATTCACAACAC--ATAGTC
1 AAATTCGCAACACGAAT-TTC
2528895 AAATTCGCAACACGAATTTC
1 AAATTCGCAACACGAATTTC
*
2528915 AAATTCGCAACGCGAATTT-
1 AAATTCGCAACACGAATTTC
*
2528934 AATTTCGCAACA
1 AAATTCGCAACA
2528946 TGTTTTAGTT
Statistics
Matches: 92, Mismatches: 10, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
18 2 0.02
19 32 0.35
20 50 0.54
21 8 0.09
ACGTcount: A:0.40, C:0.25, G:0.14, T:0.22
Consensus pattern (20 bp):
AAATTCGCAACACGAATTTC
Found at i:2531200 original size:20 final size:20
Alignment explanation
Indices: 2531163--2531200 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2531153 GAGAAGTTGA
*
2531163 AAATAAAATGAAAGAAAAGG
1 AAATAAAAGGAAAGAAAAGG
2531183 AAATAAAAAGGAAA-AAAA
1 AAAT-AAAAGGAAAGAAAA
2531201 AAAAGGTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (20 bp):
AAATAAAAGGAAAGAAAAGG
Found at i:2537638 original size:19 final size:18
Alignment explanation
Indices: 2537603--2537638 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
2537593 CATGCCTCTA
*
2537603 TCATAAGAAATTAAGAAC
1 TCATAAGAAAATAAGAAC
2537621 TCATAAGAAAAATAAGAA
1 TCATAAG-AAAATAAGAA
2537639 ATAAGCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.61, C:0.08, G:0.11, T:0.19
Consensus pattern (18 bp):
TCATAAGAAAATAAGAAC
Found at i:2538174 original size:18 final size:21
Alignment explanation
Indices: 2538132--2538176 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
2538122 TGATTTCATA
2538132 GGTGGTAGTGTGTCCCATTTG
1 GGTGGTAGTGTGTCCCATTTG
2538153 GGTGG-AGTGTGTCCC-TTT-
1 GGTGGTAGTGTGTCCCATTTG
2538171 GGTGGT
1 GGTGGT
2538177 TACTAGCACA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.22
19 3 0.13
20 10 0.43
21 5 0.22
ACGTcount: A:0.07, C:0.13, G:0.42, T:0.38
Consensus pattern (21 bp):
GGTGGTAGTGTGTCCCATTTG
Found at i:2542985 original size:25 final size:23
Alignment explanation
Indices: 2542926--2542985 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
2542916 ATTAGAAAAT
* * *
2542926 ATTGTAAGTTTTGACTAATTTAA
1 ATTGTAAGTCTCGACAAATTTAA
*
2542949 ATTGTAATTCTCGACAAATTTAA
1 ATTGTAAGTCTCGACAAATTTAA
2542972 ACTTTGTAAGTCTC
1 A--TTGTAAGTCTC
2542986 TATTAATCTA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 20 0.67
25 10 0.33
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (23 bp):
ATTGTAAGTCTCGACAAATTTAA
Found at i:2543198 original size:29 final size:29
Alignment explanation
Indices: 2543166--2543226 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
2543156 ATTTTTAAGA
2543166 TTTA-TATT-CAATTTTTTAGTAATTTAATT
1 TTTATTATTACAATTTTTTA-T-ATTTAATT
* *
2543195 TTTATTTTTAGAATTTTTTATATTTAATT
1 TTTATTATTACAATTTTTTATATTTAATT
2543224 TTT
1 TTT
2543227 TTGAATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 15 0.54
30 4 0.14
31 9 0.32
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (29 bp):
TTTATTATTACAATTTTTTATATTTAATT
Found at i:2543227 original size:16 final size:16
Alignment explanation
Indices: 2543193--2543251 Score: 59
Period size: 16 Copynumber: 3.6 Consensus size: 16
2543183 AGTAATTTAA
*
2543193 TTTTTATTTTTAGAA-T
1 TTTTTATATTT-GAATT
2543209 TTTTTATATTT-AATT
1 TTTTTATATTTGAATT
2543224 TTTTTGAATATTTGAATT
1 TTTTT--ATATTTGAATT
*
2543242 ATTTTATATT
1 TTTTTATATT
2543252 GAAAATTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 2 0.05
15 6 0.16
16 15 0.41
17 6 0.16
18 8 0.22
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (16 bp):
TTTTTATATTTGAATT
Found at i:2550925 original size:12 final size:12
Alignment explanation
Indices: 2550908--2550956 Score: 64
Period size: 12 Copynumber: 4.0 Consensus size: 12
2550898 AAATAAATTA
2550908 AATATTAATTTT
1 AATATTAATTTT
*
2550920 AATATT-ATATT
1 AATATTAATTTT
2550931 ATATATTAATTTT
1 A-ATATTAATTTT
2550944 AATATTAAATTTT
1 AATATT-AATTTT
2550957 TAAATAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 5 0.16
12 16 0.50
13 11 0.34
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
AATATTAATTTT
Found at i:2550931 original size:24 final size:24
Alignment explanation
Indices: 2550904--2550950 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
2550894 TTTTAAATAA
2550904 ATTAAATATTAATTTTAATATTAT
1 ATTAAATATTAATTTTAATATTAT
*
2550928 ATTATATATTAATTTTAATATTA
1 ATTAAATATTAATTTTAATATTA
2550951 AATTTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
ATTAAATATTAATTTTAATATTAT
Found at i:2550951 original size:6 final size:6
Alignment explanation
Indices: 2550908--2550951 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
2550898 AAATAAATTA
* *
2550908 AATATT AATTTT AATATT -ATATT ATATATT AATTTT AATATT AA
1 AATATT AATATT AATATT AATATT A-ATATT AATATT AATATT AA
2550952 ATTTTTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 5 0.16
6 21 0.66
7 6 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (6 bp):
AATATT
Found at i:2550963 original size:60 final size:60
Alignment explanation
Indices: 2550854--2551006 Score: 186
Period size: 60 Copynumber: 2.5 Consensus size: 60
2550844 GGTTTTATAT
* * * *
2550854 TTAATTTT-ATATTATATT-TGATTTTGA-TTTAATGTTAATTTTTTAAATAAATTAAATA
1 TTAATTTTAATATTATATTAT-ATATTAATTTTAATATTAAATTTTTAAATAAATTAAATA
2550912 TTAATTTTAATATTATATTATATATTAATTTTAATATTAAATTTTTAAATAAATTAAATA
1 TTAATTTTAATATTATATTATATATTAATTTTAATATTAAATTTTTAAATAAATTAAATA
* *
2550972 TTACTTTTTTAATATTATATATAGATATTTAATTT
1 TTA--ATTTTAATATTATAT-TATATA-TTAATTT
2551007 ATATCATATA
Statistics
Matches: 82, Mismatches: 6, Indels: 8
0.85 0.06 0.08
Matches are distributed among these distances:
58 8 0.10
59 15 0.18
60 33 0.40
62 14 0.17
63 5 0.06
64 7 0.09
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.56
Consensus pattern (60 bp):
TTAATTTTAATATTATATTATATATTAATTTTAATATTAAATTTTTAAATAAATTAAATA
Found at i:2551039 original size:20 final size:19
Alignment explanation
Indices: 2551016--2551061 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
2551006 TATATCATAT
2551016 AAATTATTTATATATTATTA
1 AAATTATTTATAT-TTATTA
*
2551036 AAA-T-TTTATATTTATTT
1 AAATTATTTATATTTATTA
*
2551053 TAATTATTT
1 AAATTATTT
2551062 TGATTTAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
17 7 0.32
18 8 0.36
19 4 0.18
20 3 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
AAATTATTTATATTTATTA
Found at i:2552022 original size:20 final size:18
Alignment explanation
Indices: 2551997--2552042 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
2551987 TGAAACAAAT
2551997 ATAAAAAAAAATGAAATTGA
1 ATAAAAAAAAAT-AAA-TGA
*
2552017 ATAAAATAAAATAAATGA
1 ATAAAAAAAAATAAATGA
*
2552035 AGAAAAAA
1 ATAAAAAA
2552043 TATAAATACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 9 0.39
19 3 0.13
20 11 0.48
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (18 bp):
ATAAAAAAAAATAAATGA
Found at i:2552176 original size:22 final size:22
Alignment explanation
Indices: 2552120--2552174 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
2552110 GAAACTAAAA
2552120 AAATAATGAAAATAAAATAGTAT
1 AAATAAT-AAAATAAAATAGTAT
2552143 AAATAATAAAATAAAATA-TAT
1 AAATAATAAAATAAAATAGTAT
2552164 ATAAT-ATAAAA
1 A-AATAATAAAA
2552175 ATGTATGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
21 10 0.32
22 14 0.45
23 7 0.23
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (22 bp):
AAATAATAAAATAAAATAGTAT
Found at i:2552379 original size:20 final size:20
Alignment explanation
Indices: 2552356--2552396 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
2552346 GATAAAAAAT
2552356 ATAAT-AAATATATATATATA
1 ATAATAAAATA-ATATATATA
2552376 ATAATAAAATAATATATATA
1 ATAATAAAATAATATATATA
2552396 A
1 A
2552397 CGCAAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATAATAAAATAATATATATA
Found at i:2552955 original size:37 final size:37
Alignment explanation
Indices: 2552862--2552963 Score: 141
Period size: 37 Copynumber: 2.8 Consensus size: 37
2552852 ATGCTTGTGG
* * ** * *
2552862 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
*
2552899 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
2552936 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAG
2552964 TAGGACGGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
Found at i:2553960 original size:106 final size:106
Alignment explanation
Indices: 2553708--2554779 Score: 1601
Period size: 106 Copynumber: 10.2 Consensus size: 106
2553698 GTTGACCAGA
* ** * * * *
2553708 CCTTCGTTGTGAAGTTGAACTTGTATTGTATCGAGTCCAATATCCTTTGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
* * *
2553773 GGCTCCGAAA-TGGGAAATTGTTTATTGACAACCAGCGGTC
66 GGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTC
* *
2553813 CC--CATCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
2553876 GGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTC
* ** * * *
2553917 CCTTTGTCGCAAAGTTAAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
* *
2553982 GGCTCTGAAAATGAGAAGTTGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTC
*
2554023 CCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
** * *
2554088 GGCTCCAAAATTGGGAAATTATTTGTTG-CAACCAGCGGT-
66 GGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTC
*
2554127 CCTTCGTCGTGAAGTTGAACTTGC---GTCTGGAGTCCAATATCTTTCGCTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
* * * *
2554189 GGCTCCGAAATTGGGAAATTTTTTGTTAACAACCAGCGGTC
66 GGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTC
* *
2554230 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTAAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
2554295 GGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTC
* *
2554336 CCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
* * **
2554401 GGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGGG
66 GGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTC
* * * *
2554442 TCTTCGTCATGAAGTTGAACTTGCGTTGTCTTGAGTCCAATACCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
* * **
2554507 GGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGATGTC
66 GGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTC
*
2554548 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
*
2554613 GGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTC
*
2554654 CCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
*
2554719 GGCTC-GAATTTGGGAAGTTGTTTGTTGACAACCAG-GCGT-
66 GGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCG-GTC
2554758 CCTTCGT-GTGAAGTTGAACTTG
1 CCTTCGTCGTGAAGTTGAACTTG
2554780 TTTGTCTCGA
Statistics
Matches: 884, Mismatches: 74, Indels: 20
0.90 0.08 0.02
Matches are distributed among these distances:
101 62 0.07
102 11 0.01
103 102 0.12
104 62 0.07
105 43 0.05
106 604 0.68
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
GGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTC
Found at i:2554491 original size:419 final size:421
Alignment explanation
Indices: 2553708--2554779 Score: 1660
Period size: 419 Copynumber: 2.6 Consensus size: 421
2553698 GTTGACCAGA
* * * *
2553708 CCTTCGTTGTGAAGTTGAACTTGTATTGTATCGAGTCCAATATCCTTT-GTTGTGAAGTTGAAAT
1 CCTTCGTCGTGAAGTTGAACTTG---CGTCTGGAGTCCAATAT-CTTTCGTTGTGAAGTTGAAAT
* *
2553772 TGGCTCCGAAA-TGGGAAATTGTTTATTGACAACCAGCGGTCCC--CATCGTGAAGTTGAACTTG
62 TGGCTCCGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
2553834 CGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTT
127 CGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTT
* ** *
2553899 TGTTGACAACCAGCGGTCCCTTTGTCGCAAAGTTAAACTTGCATTGTCTGGAGTCCAATATCCTT
192 TGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTT
* *
2553964 CGTTGTGAAGTTGAAATTGGCTCTGAAAATGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCG
257 CGTTGTGAAGTTGAAATTGGCTCTGAAAATGAGAAGTTGTTTATTGACAACCAGCGGGCCCTTCG
* *
2554029 TCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCC
322 TCATGAAGTTGAACTTGCATTGTCTGGAGTCCAATACCCTTCGCTGTGAAGTTGAAATTGGCTCC
* *
2554094 AAAATTGGGAAATTATTTGTTG-CAACCAGCGGT-
387 AAAATTGGGAAATTATTTATTGACAACCAGAGGTC
*
2554127 CCTTCGTCGTGAAGTTGAACTTGCGTCTGGAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGC
1 CCTTCGTCGTGAAGTTGAACTTGCGTCTGGAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGC
* *
2554192 TCCGAAATTGGGAAATTTTTTGTTAACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
66 TCCGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
*
2554257 GTCTCGAGTCCAATATCCTTCGCTGTAAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTT
131 GTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTT
* *
2554322 GACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTT
196 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTT
* **
2554387 GTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGGGTCTTCGTCAT
261 GTGAAGTTGAAATTGGCTCTGAAAATGAGAAGTTGTTTATTGACAACCAGCGGGCCCTTCGTCAT
* * **
2554452 GAAGTTGAACTTGCGTTGTCTTGAGTCCAATACCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA
326 GAAGTTGAACTTGCATTGTCTGGAGTCCAATACCCTTCGCTGTGAAGTTGAAATTGGCTCCAAAA
* *
2554517 TTGGGAAATTGTTTATTGACAACCAGATGTC
391 TTGGGAAATTATTTATTGACAACCAGAGGTC
*
2554548 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGC---GTCTGGAGTCCAATATCTTTCGTTGTGAAGTTGAAATT
* * * *
2554613 GGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGT
63 GGCTCCGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
* *
2554678 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC-GAATTTGGGAAGTTGTTT
128 GTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTT
2554742 GTTGACAACCAG-GCGT-CCTTCGT-GTGAAGTTGAACTTG
193 GTTGACAACCAGCG-GTCCCTTCGTCGTGAAGTTGAACTTG
2554780 TTTGTCTCGA
Statistics
Matches: 600, Mismatches: 43, Indels: 18
0.91 0.07 0.03
Matches are distributed among these distances:
415 4 0.01
416 40 0.07
417 29 0.05
419 302 0.50
420 9 0.01
421 38 0.06
422 8 0.01
423 31 0.05
424 139 0.23
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (421 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTCTGGAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGC
TCCGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
GTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTT
GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTT
GTGAAGTTGAAATTGGCTCTGAAAATGAGAAGTTGTTTATTGACAACCAGCGGGCCCTTCGTCAT
GAAGTTGAACTTGCATTGTCTGGAGTCCAATACCCTTCGCTGTGAAGTTGAAATTGGCTCCAAAA
TTGGGAAATTATTTATTGACAACCAGAGGTC
Found at i:2555739 original size:22 final size:22
Alignment explanation
Indices: 2555713--2555765 Score: 83
Period size: 21 Copynumber: 2.5 Consensus size: 22
2555703 TTGTGTTTGG
*
2555713 TCAAAGGTTTGGCATTTGATGT
1 TCAAAGGTTTGGCATTTGATGC
2555735 TCAAAGG-TTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
2555756 TC-AAGGTTTG
1 TCAAAGGTTTG
2555766 ATGGGTAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 4 0.14
21 18 0.62
22 7 0.24
ACGTcount: A:0.23, C:0.11, G:0.28, T:0.38
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:2556379 original size:21 final size:19
Alignment explanation
Indices: 2556355--2556398 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
2556345 TTGCATGTGC
2556355 TTTTTGTCCCTTTCTTTTTG
1 TTTTTGT-CCTTTCTTTTTG
* *
2556375 ATTTTTGTTCTTTTTTTTTG
1 -TTTTTGTCCTTTCTTTTTG
2556395 TTTT
1 TTTT
2556399 CTTCTTTTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 10 0.48
21 7 0.33
ACGTcount: A:0.02, C:0.11, G:0.09, T:0.77
Consensus pattern (19 bp):
TTTTTGTCCTTTCTTTTTG
Found at i:2561014 original size:21 final size:20
Alignment explanation
Indices: 2560952--2561015 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 20
2560942 TGGATGAAAC
* *
2560952 AAATATAAAAAAGAAATGAAT
1 AAATATAAAAAAG-AATAAAA
*
2560973 AAATA-AAATAAATGAAGAAAA
1 AAATATAAA-AAA-GAATAAAA
2560994 AAATATACAAAAAGAATAAAA
1 AAATATA-AAAAAGAATAAAA
2561015 A
1 A
2561016 GTAAATTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 3 0.09
21 25 0.71
22 5 0.14
23 2 0.06
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.16
Consensus pattern (20 bp):
AAATATAAAAAAGAATAAAA
Found at i:2561288 original size:18 final size:19
Alignment explanation
Indices: 2561259--2561294 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
2561249 TACGTTAGGA
2561259 AAATATAGTAAAAAATAAT
1 AAATATAGTAAAAAATAAT
*
2561278 AAATA-AGTAAATAATAA
1 AAATATAGTAAAAAATAA
2561295 AAAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (19 bp):
AAATATAGTAAAAAATAAT
Found at i:2561304 original size:2 final size:2
Alignment explanation
Indices: 2561299--2561331 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2561289 TAATAAAAAA
2561299 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 A
2561332 ATAGGAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2561360 original size:20 final size:22
Alignment explanation
Indices: 2561288--2561360 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 22
2561278 AAATAAGTAA
*
2561288 ATAATAAAAAAAT-ATATATAT
1 ATAATAGAAAAATAATATATAT
* * *
2561309 AT-ATATATATAT-ATATATAT
1 ATAATAGAAAAATAATATATAT
*
2561329 ATAATAGGAAAATAATATA-AT
1 ATAATAGAAAAATAATATATAT
2561350 ATAA-AGAAAAA
1 ATAATAGAAAAA
2561361 AAATGAAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
20 23 0.55
21 14 0.33
22 5 0.12
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (22 bp):
ATAATAGAAAAATAATATATAT
Found at i:2566586 original size:14 final size:14
Alignment explanation
Indices: 2566576--2566607 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
2566566 GACAAAACTT
2566576 GGGAGGGAAAATGA
1 GGGAGGGAAAATGA
2566590 GGGAGGGAAAATGA
1 GGGAGGGAAAATGA
2566604 GGGA
1 GGGA
2566608 ATGAAAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.53, T:0.06
Consensus pattern (14 bp):
GGGAGGGAAAATGA
Found at i:2566613 original size:14 final size:14
Alignment explanation
Indices: 2566576--2566616 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
2566566 GACAAAACTT
*
2566576 GGGAGGGAAAATGA
1 GGGAAGGAAAATGA
*
2566590 GGGAGGGAAAATGA
1 GGGAAGGAAAATGA
*
2566604 GGGAATGAAAATG
1 GGGAAGGAAAATG
2566617 GCTTATTCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.46, T:0.10
Consensus pattern (14 bp):
GGGAAGGAAAATGA
Found at i:2576954 original size:41 final size:42
Alignment explanation
Indices: 2576897--2576981 Score: 163
Period size: 41 Copynumber: 2.0 Consensus size: 42
2576887 CCACAACGAA
2576897 AGTCAATGCAACCAATATTAGAAATTGAGAT-TTTGAAATTT
1 AGTCAATGCAACCAATATTAGAAATTGAGATGTTTGAAATTT
2576938 AGTCAATGCAACCAATATTAGAAATTGAGATGTTTGAAATTT
1 AGTCAATGCAACCAATATTAGAAATTGAGATGTTTGAAATTT
2576980 AG
1 AG
2576982 GTACTAGACT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 31 0.72
42 12 0.28
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.33
Consensus pattern (42 bp):
AGTCAATGCAACCAATATTAGAAATTGAGATGTTTGAAATTT
Found at i:2577470 original size:16 final size:16
Alignment explanation
Indices: 2577449--2577484 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
2577439 TCGAGTTAGA
*
2577449 GCACAAAGCAATGTGG
1 GCACAAAGCAATATGG
2577465 GCACAAAGCAATATGG
1 GCACAAAGCAATATGG
2577481 GCAC
1 GCAC
2577485 TTAAGAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.22, G:0.28, T:0.11
Consensus pattern (16 bp):
GCACAAAGCAATATGG
Found at i:2584929 original size:32 final size:32
Alignment explanation
Indices: 2584888--2584964 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
2584878 TTTAAATAGT
* *
2584888 TATTATTTTTTATATTAAT-ATATTTATGTAAA
1 TATTATTTTTTATA-AAATAATATTTATATAAA
* *
2584920 TATTATTTTTTTTAAAATAATATTTATATAAT
1 TATTATTTTTTATAAAATAATATTTATATAAA
2584952 TATTATTTATTTA
1 TATTATTT-TTTA
2584965 GAATTATTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
31 3 0.08
32 32 0.84
33 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (32 bp):
TATTATTTTTTATAAAATAATATTTATATAAA
Found at i:2584931 original size:34 final size:34
Alignment explanation
Indices: 2584855--2584959 Score: 94
Period size: 34 Copynumber: 3.1 Consensus size: 34
2584845 GTGGTAAGAA
* * *
2584855 ATTTATTTTTATGTTAGTAT-TTT-TTTAAATAGTT
1 ATTT-TTTTTATATTAATATATTTATATAAATA-TT
*
2584889 ATTATTTTTTATATTAATATATTTATGTAAATATT
1 ATT-TTTTTTATATTAATATATTTATATAAATATT
*
2584924 ATTTTTTTTA-A--AATAATATTTATATAATTATT
1 ATTTTTTTTATATTAAT-ATATTTATATAAATATT
2584956 ATTT
1 ATTT
2584960 ATTTAGAATT
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
31 3 0.05
32 19 0.31
33 1 0.02
34 23 0.37
35 9 0.15
36 7 0.11
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (34 bp):
ATTTTTTTTATATTAATATATTTATATAAATATT
Found at i:2585124 original size:17 final size:17
Alignment explanation
Indices: 2585102--2585155 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
2585092 AATGTTAATA
2585102 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
2585119 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
2585136 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
2585153 TTT
1 TTT
2585156 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:2586716 original size:21 final size:21
Alignment explanation
Indices: 2586686--2586733 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
2586676 GCAGGGGTAC
* *
2586686 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
2586707 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
2586728 ATGCCA
1 ATGCCA
2586734 TCTCCGCAGG
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:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:2586763 original size:21 final size:21
Alignment explanation
Indices: 2586737--2586830 Score: 136
Period size: 21 Copynumber: 4.5 Consensus size: 21
2586727 TATGCCATCT
2586737 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCGAGC
2586758 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCGAGC
* *
2586779 CTGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCGAGC
* *
2586800 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCGAGC
2586821 CCGCAGGGTT
1 CCGCAGGGTT
2586831 TTATACCATA
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
20 2 0.03
21 63 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.33, G:0.28, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCGAGC
Found at i:2587338 original size:34 final size:34
Alignment explanation
Indices: 2587249--2587347 Score: 139
Period size: 32 Copynumber: 3.0 Consensus size: 34
2587239 GATCAATGTT
* *
2587249 TTTAAAATACAAATTATATTATTCAAAATTTAAA
1 TTTAAAATATAAATTATATTATTCGAAATTTAAA
* *
2587283 -ATAAAA-ATAAAATATATTATTCGAAATTTAAA
1 TTTAAAATATAAATTATATTATTCGAAATTTAAA
*
2587315 TTTAAAATATAAATTATAGTATTCGAAATTTAA
1 TTTAAAATATAAATTATATTATTCGAAATTTAA
2587348 CATTAAATTT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
32 23 0.41
33 10 0.18
34 23 0.41
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (34 bp):
TTTAAAATATAAATTATATTATTCGAAATTTAAA
Found at i:2587354 original size:34 final size:33
Alignment explanation
Indices: 2587250--2587354 Score: 140
Period size: 34 Copynumber: 3.2 Consensus size: 33
2587240 ATCAATGTTT
* *
2587250 TTAAAATACAAATTATATTATTCAAAATTTAAA
1 TTAAAATATAAATTATATTATTCGAAATTTAAA
* *
2587283 ATAAAA-ATAAAATATATTATTCGAAATTTAAA
1 TTAAAATATAAATTATATTATTCGAAATTTAAA
*
2587315 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATATAAATTATATTATTCGAAATTTAA-A
2587350 TTAAA
1 TTAAA
2587355 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
32 23 0.37
33 10 0.16
34 28 0.45
35 1 0.02
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (33 bp):
TTAAAATATAAATTATATTATTCGAAATTTAAA
Found at i:2588080 original size:128 final size:128
Alignment explanation
Indices: 2587745--2588196 Score: 733
Period size: 128 Copynumber: 3.6 Consensus size: 128
2587735 CTATTTACTG
*
2587745 ATATCTAGTGTCCCCGA-GGACATGAGTGACATAATAGGGCAATGATAACATATTCTATGACAAA
1 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAA
* ***
2587809 ATAATGGAAGGCGCG-CCCCGGGAACACGCCTTCAAGT---CCCTGAAATAATAGGTACTGAT
66 ATAATGGAAGGCGCGCCCCCGGGAACACGCCTTCATGTGAATAGTGAAATAATAGGTACTGAT
*
2587868 ATGA--TAATGT-CCCGAGGGACATGAGTGACATAATAGGGCAATGATAA-ATATTCTCTGACAA
1 AT-ATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAA
* * *
2587929 AATAATGGAAGGCACGCCCCCGGGAACGCCCCTTCATGTGAATAGTGAAATAATAGGTACTGAT
65 AATAATGGAAGGCGCGCCCCCGGGAACACGCCTTCATGTGAATAGTGAAATAATAGGTACTGAT
2587993 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAA
1 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAA
2588058 ATAATGGAAGGCGCGCCCCCGGGAACACGCCTTCATGTGAATAGTGAAATAATAGGTACTGAT
66 ATAATGGAAGGCGCGCCCCCGGGAACACGCCTTCATGTGAATAGTGAAATAATAGGTACTGAT
* *
2588121 ATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGCCAATGATAACATATTCTCTGACAAA
1 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAA
2588186 ATAATGGAAGG
66 ATAATGGAAGG
2588197 TGCGTGTTGA
Statistics
Matches: 304, Mismatches: 15, Indels: 15
0.91 0.04 0.04
Matches are distributed among these distances:
121 33 0.11
122 55 0.18
123 2 0.01
124 2 0.01
125 21 0.07
126 5 0.02
127 37 0.12
128 149 0.49
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (128 bp):
ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAA
ATAATGGAAGGCGCGCCCCCGGGAACACGCCTTCATGTGAATAGTGAAATAATAGGTACTGAT
Found at i:2589000 original size:75 final size:75
Alignment explanation
Indices: 2588900--2589096 Score: 234
Period size: 75 Copynumber: 2.6 Consensus size: 75
2588890 CCGTTGAATA
* * *
2588900 GGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAACA
1 GGGGGAATCGGTTCCTCCTAT-GGGGGGATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAACA
** *
2588964 AAAATGTTTAG
65 AAAACATTCAG
* * * * *
2588975 GGGGGAATCGGTTCCTCCTATGGGGGAATCAGTTCCCTCCGAGCATTCTGGAAATCTCGGAGCCA
1 GGGGGAATCGGTTCCTCCTATGGGGGGATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAACAA
*
2589040 AACCATTCAG
66 AAACATTCAG
* *
2589050 AGGGGAATCGGTTCCTCCTATGGGGGGAAATCGGTTCCCTCTGAGCA
1 GGGGGAATCGGTTCCTCCTATGGGGGG--ATCGGTTCCCTCCGAGCA
2589097 ATCTGTAATT
Statistics
Matches: 103, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
75 86 0.83
76 1 0.01
77 16 0.16
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.23
Consensus pattern (75 bp):
GGGGGAATCGGTTCCTCCTATGGGGGGATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAACAA
AAACATTCAG
Found at i:2591689 original size:21 final size:21
Alignment explanation
Indices: 2591663--2591702 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2591653 CAGAACCCCA
*
2591663 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
2591684 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
2591703 TCAAAGGGGA
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:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:2591736 original size:20 final size:20
Alignment explanation
Indices: 2591661--2591744 Score: 62
Period size: 20 Copynumber: 4.0 Consensus size: 20
2591651 AACAGAACCC
*
2591661 CAGGGGGGTATCGATTCCC-
1 CAGGGGGGGATCGATTCCCT
* *
2591680 CTGTGGGGGGAATCGGTTCCCCTT
1 CAG-GGGGGG-ATCGATT-CCC-T
** * *
2591704 CAAAGGGGAATCGGTTCCCT
1 CAGGGGGGGATCGATTCCCT
2591724 CAGGGGGGGATCGATTCCCT
1 CAGGGGGGGATCGATTCCCT
2591744 C
1 C
2591745 TGCACCAAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
19 2 0.04
20 23 0.47
21 9 0.18
22 10 0.20
23 4 0.08
24 1 0.02
ACGTcount: A:0.15, C:0.26, G:0.36, T:0.23
Consensus pattern (20 bp):
CAGGGGGGGATCGATTCCCT
Found at i:2597561 original size:76 final size:77
Alignment explanation
Indices: 2597475--2597676 Score: 257
Period size: 76 Copynumber: 2.6 Consensus size: 77
2597465 GACCGTTGAA
* * *
2597475 TAGGGGGGAATCGGTACCCCCT-TGGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCAG
1 TAGGGGGGAATCGGTTCCCCCTATGGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCAG
**
2597539 AACAAAAATGTT
66 AACAAAAACATT
* *
2597551 TAGGGGGGAATCGGTTCCTCCCTAT--GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCG
1 TAGGGGGGAATCGGTTCC-CCCTATGGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCA
* * *
2597614 GAGCCAAACCATT
65 GAACAAAAACATT
* * *
2597627 CAGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCA
1 TAGGGGGGAATCGGTTCCCCCTATGGGGGGGAATCGGTTCCCTCCGAGCA
2597677 ATATGTAATT
Statistics
Matches: 109, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
75 5 0.05
76 76 0.70
77 27 0.25
78 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.23
Consensus pattern (77 bp):
TAGGGGGGAATCGGTTCCCCCTATGGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCAG
AACAAAAACATT
Found at i:2598033 original size:8 final size:8
Alignment explanation
Indices: 2598020--2598060 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
2598010 TCACAAGCTT
2598020 TCAAATTC
1 TCAAATTC
2598028 TCAAATTC
1 TCAAATTC
* *
2598036 CCAAACTC
1 TCAAATTC
2598044 T-AAATTC
1 TCAAATTC
2598051 TCAAATTC
1 TCAAATTC
2598059 TC
1 TC
2598061 TGAAAATGAG
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:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:2602778 original size:3 final size:3
Alignment explanation
Indices: 2602770--2602834 Score: 51
Period size: 3 Copynumber: 21.7 Consensus size: 3
2602760 AATTTTAATA
* * * *
2602770 TAT TAT TAT TA- TAT TACT TGT TAT TAC TAT TAT TGT TGT TAT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
2602815 TAT TTT TTT TAT TAA TAT TA
1 TAT TAT TAT TAT TAT TAT TA
2602835 CATTTACATT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
2 2 0.04
3 46 0.92
4 2 0.04
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:2602818 original size:18 final size:17
Alignment explanation
Indices: 2602772--2602834 Score: 60
Period size: 18 Copynumber: 3.7 Consensus size: 17
2602762 TTTTAATATA
2602772 TTATTATTA-TATTACTTG
1 TTATTATTATTATT--TTG
*
2602790 TTATTACTATTATTGTTG
1 TTATTATTATTATT-TTG
2602808 TTATTATTATT-TTTT-
1 TTATTATTATTATTTTG
*
2602823 TTATTAATATTA
1 TTATTATTATTA
2602835 CATTTACATT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
15 10 0.26
16 2 0.05
17 2 0.05
18 21 0.54
19 4 0.10
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (17 bp):
TTATTATTATTATTTTG
Found at i:2603684 original size:2 final size:2
Alignment explanation
Indices: 2603677--2603715 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
2603667 AAGCTGGGAG
*
2603677 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT TT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
2603716 ATTTAGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:2604313 original size:29 final size:29
Alignment explanation
Indices: 2604280--2604367 Score: 113
Period size: 30 Copynumber: 3.0 Consensus size: 29
2604270 TTATGCTATT
2604280 ACTATTTTAGTCCTTAAGTTTCTATTTTG
1 ACTATTTTAGTCCTTAAGTTTCTATTTTG
* * *
2604309 GCTATTTTAGTCCTTTAGATTTCTATTTTT
1 ACTATTTTAGTCCTTAAG-TTTCTATTTTG
* *
2604339 ACTATTTTGGTCCCTTAACTTTCTATTTT
1 ACTATTTTAGT-CCTTAAGTTTCTATTTT
2604368 TTCATTTATA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
29 16 0.32
30 29 0.58
31 5 0.10
ACGTcount: A:0.18, C:0.16, G:0.09, T:0.57
Consensus pattern (29 bp):
ACTATTTTAGTCCTTAAGTTTCTATTTTG
Found at i:2605809 original size:14 final size:15
Alignment explanation
Indices: 2605790--2605878 Score: 71
Period size: 14 Copynumber: 6.0 Consensus size: 15
2605780 TTTTGTCTGG
2605790 TTATAAATATTA-TA
1 TTATAAATATTATTA
* *
2605804 TTATAATTATTACTA
1 TTATAAATATTATTA
*
2605819 TTAT-ATTATTATTA
1 TTATAAATATTATTA
*
2605833 TTATTATTATATTATTA
1 TTA-TA-AATATTATTA
2605850 TTATAACA-ATTA-TA
1 TTATAA-ATATTATTA
2605864 TTAT-AATAATTATTA
1 TTATAAAT-ATTATTA
2605879 ATATTATTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
12 1 0.02
13 1 0.02
14 33 0.53
15 13 0.21
16 3 0.05
17 11 0.18
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
TTATAAATATTATTA
Found at i:2605820 original size:20 final size:20
Alignment explanation
Indices: 2605797--2605875 Score: 104
Period size: 20 Copynumber: 4.0 Consensus size: 20
2605787 TGGTTATAAA
2605797 TATTATATTATAATTATTAC
1 TATTATATTATAATTATTAC
* *
2605817 TATTATATTATTATTATTAT
1 TATTATATTATAATTATTAC
* *
2605837 TATTATATTATTATTATAAC
1 TATTATATTATAATTATTAC
* *
2605857 AATTATATTATAATAATTA
1 TATTATATTATAATTATTA
2605876 TTAATATTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTATATTATAATTATTAC
Found at i:2605828 original size:3 final size:3
Alignment explanation
Indices: 2605797--2605890 Score: 88
Period size: 3 Copynumber: 32.7 Consensus size: 3
2605787 TGGTTATAAA
* *
2605797 TAT TA- TAT TAT AAT TAT TAC TAT TA- TAT TAT TAT TAT TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
2605842 TAT TAT TAT TAT AAC AAT TA- TAT TAT AAT AAT TAT TAA TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2605889 TA
1 TA
2605891 ATATCATTTA
Statistics
Matches: 75, Mismatches: 12, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
2 8 0.11
3 67 0.89
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (3 bp):
TAT
Done.