Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_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: 7662336
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 33 of 38
Found at i:6703713 original size:18 final size:18
Alignment explanation
Indices: 6703690--6703750 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
6703680 TCTCATTCAT
*
6703690 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
6703708 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
6703727 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
6703746 AATTA
1 AATTA
6703751 ACCCTAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:6703726 original size:19 final size:19
Alignment explanation
Indices: 6703702--6703750 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
6703692 TTATATTCAC
6703702 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
6703721 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
6703740 ATACAAAATTA
1 ATACAAAATTA
6703751 ACCCTAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:6705583 original size:33 final size:33
Alignment explanation
Indices: 6705543--6705608 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
6705533 CATCTTAATA
*
6705543 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* * * *
6705576 TCACCCCTCAGCACCTCTACTTCTTTCATCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
6705609 CCATCTATTT
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:0.21, C:0.47, G:0.02, T:0.30
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:6705667 original size:21 final size:21
Alignment explanation
Indices: 6705642--6705706 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
6705632 CCCCTTATGC
* *
6705642 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
6705663 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
6705684 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
6705705 CT
1 CT
6705707 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:6707456 original size:19 final size:21
Alignment explanation
Indices: 6707422--6707461 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
6707412 TGTGTCGGCA
6707422 CATTTATATAACCTATAATAT
1 CATTTATATAACCTATAATAT
6707443 CATTT-TAT-ACCTATAATAT
1 CATTTATATAACCTATAATAT
6707462 TTAATAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.58
20 3 0.16
21 5 0.26
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.45
Consensus pattern (21 bp):
CATTTATATAACCTATAATAT
Found at i:6707757 original size:13 final size:13
Alignment explanation
Indices: 6707741--6707781 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
6707731 AAGATATTTT
6707741 ATATTTTCATTGG
1 ATATTTTCATTGG
* *
6707754 ATATGTT-ATT-T
1 ATATTTTCATTGG
6707765 ATATTTTCATTGG
1 ATATTTTCATTGG
6707778 ATAT
1 ATAT
6707782 GTTATTTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
11 6 0.27
12 6 0.27
13 10 0.45
ACGTcount: A:0.27, C:0.05, G:0.12, T:0.56
Consensus pattern (13 bp):
ATATTTTCATTGG
Found at i:6707768 original size:24 final size:24
Alignment explanation
Indices: 6707738--6707794 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
6707728 CAGAAGATAT
6707738 TTTATATTTTCATTGGATATGTTA
1 TTTATATTTTCATTGGATATGTTA
6707762 TTTATATTTTCATTGGATATGTTA
1 TTTATATTTTCATTGGATATGTTA
6707786 TTTATATTT
1 TTTATATTT
6707795 AATCGATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.25, C:0.04, G:0.11, T:0.61
Consensus pattern (24 bp):
TTTATATTTTCATTGGATATGTTA
Found at i:6707994 original size:20 final size:19
Alignment explanation
Indices: 6707939--6707985 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
6707929 TCCGGTATCG
6707939 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
6707958 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
6707979 TTTTACC
1 TTTTACC
6707986 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:6708392 original size:182 final size:180
Alignment explanation
Indices: 6707906--6708377 Score: 710
Period size: 180 Copynumber: 2.6 Consensus size: 180
6707896 CGTACTTACG
*
6707906 AAAGTATCGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
6707971 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTAAAGTATCGACACATTATA
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAGTATCGACACATTATA
* *
6708036 GGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
131 GGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCATTATAT
*
6708086 AAAGTATCGACACTTTCAATATATCCAGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
6708151 TATCATATTTTTACATGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTT-AAAGTATCGACACATTAT
** * *
6708216 AGGATTTAAAATTGCTTCTCTTTTAAATTCACGAAGTGTCGATCATTATATT
130 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCATTATA-T
* * * * * ** *
6708268 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCAATACCGATTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
6708333 TGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
6708378 AATTTGGATC
Statistics
Matches: 263, Mismatches: 27, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
180 105 0.40
181 61 0.23
182 97 0.37
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (180 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAGTATCGACACATTATA
GGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCATTATAT
Found at i:6710489 original size:49 final size:50
Alignment explanation
Indices: 6710377--6710489 Score: 133
Period size: 49 Copynumber: 2.3 Consensus size: 50
6710367 TAGCGTGGAA
* *
6710377 CAGGGGCCGCGCCTTACCTTTAATTCTGACATAATTATATATAGCGCGGGG
1 CAGGAGCCGCGCCATACCTTTAA-TCTGACATAATTATATATAGCGCGGGG
* * *
6710428 CAGGAGCTGCGCCATACCTTTAA-CTGATATAATTATATA-AGCCGCGGTG
1 CAGGAGCCGCGCCATACCTTTAATCTGACATAATTATATATAG-CGCGGGG
6710477 CAGGTA-CCGCGCC
1 CAGG-AGCCGCGCC
6710490 TTATATAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
48 2 0.04
49 31 0.57
50 1 0.02
51 20 0.37
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (50 bp):
CAGGAGCCGCGCCATACCTTTAATCTGACATAATTATATATAGCGCGGGG
Found at i:6710689 original size:15 final size:16
Alignment explanation
Indices: 6710666--6710713 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
6710656 TCTAAGGTAA
*
6710666 TTTTGTTATAATT-TT
1 TTTTATTATAATTATT
*
6710681 TTTTATTATACTTATT
1 TTTTATTATAATTATT
* *
6710697 GTTTATTATGATTATT
1 TTTTATTATAATTATT
6710713 T
1 T
6710714 GAAAAAAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (16 bp):
TTTTATTATAATTATT
Found at i:6714149 original size:35 final size:33
Alignment explanation
Indices: 6714064--6714150 Score: 95
Period size: 35 Copynumber: 2.5 Consensus size: 33
6714054 AAAATAATTT
6714064 TAAATACAACAAAATTACAATAAGTATTAAATGG
1 TAAATA-AACAAAATTACAATAAGTATTAAATGG
* *
6714098 TAAATGTTAACCAAATTACAATAACTGATATTAAATGG
1 TAAA--TAAACAAAATTACAATAA--G-TATTAAATGG
6714136 T-AATAAACAAAATTA
1 TAAATAAACAAAATTA
6714151 ACTGAAATAC
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
34 4 0.09
35 25 0.57
36 1 0.02
37 3 0.07
38 11 0.25
ACGTcount: A:0.54, C:0.09, G:0.08, T:0.29
Consensus pattern (33 bp):
TAAATAAACAAAATTACAATAAGTATTAAATGG
Found at i:6716514 original size:17 final size:18
Alignment explanation
Indices: 6716473--6716511 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
6716463 ATTATATAAG
6716473 TAAAATA-TTAAATAAAT
1 TAAAATACTTAAATAAAT
6716490 TAAAATACTTAAATAAAT
1 TAAAATACTTAAATAAAT
6716508 TAAA
1 TAAA
6716512 TACAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAATACTTAAATAAAT
Found at i:6716523 original size:18 final size:18
Alignment explanation
Indices: 6716482--6716524 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
6716472 GTAAAATATT
**
6716482 AAATAAATTAAAATACTT
1 AAATAAATTAAAATACAA
6716500 AAATAAATT-AAATACAA
1 AAATAAATTAAAATACAA
6716517 AATATAAA
1 AA-ATAAA
6716525 AAATATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (18 bp):
AAATAAATTAAAATACAA
Found at i:6716573 original size:10 final size:10
Alignment explanation
Indices: 6716550--6716599 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
6716540 TACCTTAAAT
* *
6716550 AGAGAATATA
1 AGAGAATTTG
*
6716560 AGAGTATTTG
1 AGAGAATTTG
*
6716570 AGAGAAGTTG
1 AGAGAATTTG
*
6716580 AGAGAAATTG
1 AGAGAATTTG
6716590 AGAGAATTTG
1 AGAGAATTTG
6716600 GTGTGATGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (10 bp):
AGAGAATTTG
Found at i:6730841 original size:11 final size:11
Alignment explanation
Indices: 6730825--6730856 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
6730815 ATAAAAAGAG
6730825 AAAATGAAAAA
1 AAAATGAAAAA
6730836 AAAATGAAAAA
1 AAAATGAAAAA
6730847 AAAAT-AAAAA
1 AAAATGAAAAA
6730857 TGAGAAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.09
Consensus pattern (11 bp):
AAAATGAAAAA
Found at i:6730848 original size:14 final size:15
Alignment explanation
Indices: 6730817--6730885 Score: 65
Period size: 14 Copynumber: 4.7 Consensus size: 15
6730807 AAGAAGAAAT
6730817 AAAAAGAGAAAATGAA
1 AAAAAGA-AAAATGAA
*
6730833 AAAAA-AATGAA--AA
1 AAAAAGAA-AAATGAA
* *
6730846 AAAAATAAAAATGAG
1 AAAAAGAAAAATGAA
6730861 AAAAAGAAAAA-GAA
1 AAAAAGAAAAATGAA
6730875 AAAAAGAAAAA
1 AAAAAGAAAAA
6730886 AAGATGGAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
13 9 0.20
14 16 0.36
15 14 0.32
16 5 0.11
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (15 bp):
AAAAAGAAAAATGAA
Found at i:6730855 original size:20 final size:19
Alignment explanation
Indices: 6730832--6730887 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
6730822 GAGAAAATGA
6730832 AAAAAAAATGAAAAAAAAAT
1 AAAAAAAA-GAAAAAAAAAT
**
6730852 AAAAATGAGAAAAAGAAAA-
1 AAAAAAAAGAAAAA-AAAAT
6730871 AGAAAAAAAGAAAAAAA
1 A-AAAAAAAGAAAAAAA
6730888 GATGGAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
19 9 0.30
20 21 0.70
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (19 bp):
AAAAAAAAGAAAAAAAAAT
Found at i:6730868 original size:6 final size:6
Alignment explanation
Indices: 6730807--6730889 Score: 50
Period size: 6 Copynumber: 13.7 Consensus size: 6
6730797 ATTTCGCTTG
* *
6730807 AAGAAGA AATAAA AAGAGAA AATGAAA AA-AAA ATGAAA AA-AAA ATA-AAA
1 AAGAA-A AAGAAA AAGA-AA AA-GAAA AAGAAA AAGAAA AAGAAA A-AGAAA
*
6730856 ATGAGAAA AAGAAA AAGAAA AA-AAG AA-AAA AAGA
1 A--AGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGA
6730890 TGGAAAAAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
5 16 0.26
6 27 0.44
7 13 0.21
8 6 0.10
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (6 bp):
AAGAAA
Found at i:6730885 original size:36 final size:35
Alignment explanation
Indices: 6730807--6730886 Score: 101
Period size: 36 Copynumber: 2.3 Consensus size: 35
6730797 ATTTCGCTTG
* *
6730807 AAGAAGAAATAAAAAGAGAAAATGAAAAAAAAATGA
1 AAGAAAAAATAAAAAGAGAAAAAGAAAAAAAAA-GA
6730843 AA-AAAAAATAAAAATGAGAAAAAGAAAAAGAAAA-A
1 AAGAAAAAATAAAAA-GAGAAAAAGAAAAA-AAAAGA
6730878 AAGAAAAAA
1 AAGAAAAAA
6730887 AGATGGAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
35 14 0.36
36 21 0.54
37 4 0.10
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (35 bp):
AAGAAAAAATAAAAAGAGAAAAAGAAAAAAAAAGA
Found at i:6730887 original size:8 final size:8
Alignment explanation
Indices: 6730833--6730889 Score: 57
Period size: 8 Copynumber: 7.1 Consensus size: 8
6730823 AGAAAATGAA
6730833 AAAAAAATG
1 AAAAAAA-G
6730842 AAAAAAA-
1 AAAAAAAG
6730849 AATAAAAATG
1 AA-AAAAA-G
*
6730859 AGAAAAAG
1 AAAAAAAG
6730867 --AAAAAG
1 AAAAAAAG
6730873 AAAAAAAG
1 AAAAAAAG
6730881 AAAAAAAG
1 AAAAAAAG
6730889 A
1 A
6730890 TGGAAAAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
6 6 0.14
7 2 0.05
8 21 0.50
9 12 0.29
10 1 0.02
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.05
Consensus pattern (8 bp):
AAAAAAAG
Found at i:6730887 original size:11 final size:11
Alignment explanation
Indices: 6730825--6730919 Score: 50
Period size: 11 Copynumber: 8.2 Consensus size: 11
6730815 ATAAAAAGAG
*
6730825 AAAATGAAAAA
1 AAAAAGAAAAA
*
6730836 AAAATGAAAAA
1 AAAAAGAAAAA
6730847 AAAATA-AAAATGA
1 AAAA-AGAAAA--A
6730860 GAAAAAGAAAAA
1 -AAAAAGAAAAA
*
6730872 GAAAAA-AAGAA
1 -AAAAAGAAAAA
**
6730883 AAAAAGATGGAA
1 AAAAAGA-AAAA
**
6730895 AAAATTAAAAA
1 AAAAAGAAAAA
6730906 AAAGAAGAAAAA
1 AAA-AAGAAAAA
6730918 AA
1 AA
6730920 GGAAAATGGA
Statistics
Matches: 67, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
10 5 0.07
11 29 0.43
12 23 0.34
13 2 0.03
14 8 0.12
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:6730925 original size:19 final size:19
Alignment explanation
Indices: 6730807--6730942 Score: 89
Period size: 19 Copynumber: 6.9 Consensus size: 19
6730797 ATTTCGCTTG
*
6730807 AAGAAGAAATAAAAAGAGAAA
1 AAGAAG-AA-AAAAAGAAAAA
*
6730828 ATGAA-AAAAAAATGAAAAA
1 AAGAAGAAAAAAA-GAAAAA
* *
6730847 AA-AATAAAAATGAGAAAAA
1 AAGAAGAAAAA-AAGAAAAA
*
6730866 GAAAAAGAAAAAAAGAAAAA
1 -AAGAAGAAAAAAAGAAAAA
*
6730886 AAGATGGAAAAAATTA-AAAAA
1 AAGA-AGAAAAAA--AGAAAAA
*
6730907 AAGAAGAAAAAAAGGAAAA
1 AAGAAGAAAAAAAGAAAAA
** *
6730926 TGGAAGAAAAAATGAAA
1 AAGAAGAAAAAAAGAAA
6730943 GAGAAAAACA
Statistics
Matches: 92, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
18 8 0.09
19 39 0.42
20 24 0.26
21 20 0.22
22 1 0.01
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.07
Consensus pattern (19 bp):
AAGAAGAAAAAAAGAAAAA
Found at i:6730925 original size:49 final size:51
Alignment explanation
Indices: 6730807--6730956 Score: 137
Period size: 50 Copynumber: 3.0 Consensus size: 51
6730797 ATTTCGCTTG
* * * *
6730807 AAGAAGAAATAAAAAGAGAAAATGAAAAAAAAATGAAAAAAAAATAAAAAT
1 AAGAAGAAAGAAAAAGAAAAAAAGAAAAAAAAATGAAAAAAAAATAAAAAA
* * * *
6730858 GAGAA-AAAGAAAAAGAAAAAAAGAAAAAAAGATG-GAAAAAATTAAAAAA
1 AAGAAGAAAGAAAAAGAAAAAAAGAAAAAAAAATGAAAAAAAAATAAAAAA
* ** * *
6730907 AAGAAG-AA-AAAAAGGAAAATGGAAGAAAAAATGAAAGAGAAAAACAAAAA
1 AAGAAGAAAGAAAAAGAAAAAAAGAAAAAAAAATGAAA-A-AAAAATAAAAA
6730957 GAGAAAAGTG
Statistics
Matches: 78, Mismatches: 17, Indels: 8
0.76 0.17 0.08
Matches are distributed among these distances:
48 20 0.26
49 19 0.24
50 26 0.33
51 13 0.17
ACGTcount: A:0.77, C:0.01, G:0.16, T:0.07
Consensus pattern (51 bp):
AAGAAGAAAGAAAAAGAAAAAAAGAAAAAAAAATGAAAAAAAAATAAAAAA
Found at i:6730956 original size:51 final size:49
Alignment explanation
Indices: 6730807--6730956 Score: 135
Period size: 49 Copynumber: 3.0 Consensus size: 49
6730797 ATTTCGCTTG
* *
6730807 AAGAAGAAATAAAAAGAGAAAATGAAAAAAAAATGAAA-AAAAAATAAAAAT
1 AAGAAG-AA-AAAAAG-GAAAATGAAGAAAAAATGAAAGAAAAAATAAAAAA
* * * * **
6730858 GAGAA-AAAGAAAAAGAAAA-AAAGAAAAAAAGATGGAAAAAATTAAAAAA
1 AAGAAGAAA-AAAAGGAAAATGAAGAAAAAATGAAAGAAAAAA-TAAAAAA
*
6730907 AAGAAGAAAAAAAGGAAAATGGAAGAAAAAATGAAAGAGAAAAACAAAAA
1 AAGAAGAAAAAAAGGAAAAT-GAAGAAAAAATGAAAGA-AAAAATAAAAA
6730957 GAGAAAAGTG
Statistics
Matches: 77, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
47 10 0.13
48 12 0.16
49 25 0.32
50 3 0.04
51 22 0.29
52 5 0.06
ACGTcount: A:0.77, C:0.01, G:0.16, T:0.07
Consensus pattern (49 bp):
AAGAAGAAAAAAAGGAAAATGAAGAAAAAATGAAAGAAAAAATAAAAAA
Found at i:6745007 original size:9 final size:9
Alignment explanation
Indices: 6744964--6745049 Score: 61
Period size: 9 Copynumber: 9.2 Consensus size: 9
6744954 AATAAAAGAG
6744964 AAAATG-AA
1 AAAATGAAA
6744972 AAAATGGAAAA
1 AAAAT-G-AAA
6744983 AAAATGAAA
1 AAAATGAAA
*
6744992 AAAATGATA
1 AAAATGAAA
*
6745001 AAAATGAGA
1 AAAATGAAA
*
6745010 AGAA-GAAA
1 AAAATGAAA
*
6745018 AAGAATAAAAGA
1 AA-AAT-GAA-A
6745030 AAAATGAGAA
1 AAAATGA-AA
6745040 AAAA-GAAA
1 AAAATGAAA
6745048 AA
1 AA
6745050 TGATGGAAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
8 13 0.21
9 27 0.43
10 7 0.11
11 13 0.21
12 3 0.05
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.09
Consensus pattern (9 bp):
AAAATGAAA
Found at i:6745066 original size:19 final size:16
Alignment explanation
Indices: 6744982--6745067 Score: 72
Period size: 18 Copynumber: 5.2 Consensus size: 16
6744972 AAAATGGAAA
6744982 AAAAATGA-AAAAAATG
1 AAAAATGAGAAAAAA-G
*
6744998 ATAAAAATGAG-AAGAAG
1 --AAAAATGAGAAAAAAG
*
6745015 AAAAA-GA-ATAAAAG
1 AAAAATGAGAAAAAAG
6745029 AAAAATGAGAAAAAAG
1 AAAAATGAGAAAAAAG
6745045 AAAAATGATGGAAAAAACG
1 AAAAATGA--GAAAAAA-G
6745064 AAAA
1 AAAA
6745068 GAAAAAAGAA
Statistics
Matches: 57, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
14 11 0.19
15 7 0.12
16 14 0.25
17 1 0.02
18 19 0.33
19 5 0.09
ACGTcount: A:0.72, C:0.01, G:0.17, T:0.09
Consensus pattern (16 bp):
AAAAATGAGAAAAAAG
Found at i:6745078 original size:67 final size:66
Alignment explanation
Indices: 6744954--6745084 Score: 149
Period size: 66 Copynumber: 2.0 Consensus size: 66
6744944 TTGAAGAAGA
* * * **
6744954 AATAAAAGAGAAAATGAAAAAATGGAAAAAAAATGAAAAAAATGATAAAAATGAGAAGAAGAAAA
1 AATAAAAGAGAAAATGAAAAAATAGAAAAAAAATGAAAAAAACGAAAAAAAAAAGAAGAA-AAAA
6745019 AG
65 AG
** *
6745021 AATAAAAGA-AAAATGAGAAAAA-AGAAAAATGATGGAAAAAACGAAAAGAAAAAAGAAGAAAAA
1 AATAAAAGAGAAAATGA-AAAAATAGAAAAAAAATGAAAAAAACGAAAA-AAAAAAGAAGAAAAA
6745084 A
64 A
6745085 TGGAAAATGA
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
66 30 0.56
67 24 0.44
ACGTcount: A:0.73, C:0.01, G:0.18, T:0.08
Consensus pattern (66 bp):
AATAAAAGAGAAAATGAAAAAATAGAAAAAAAATGAAAAAAACGAAAAAAAAAAGAAGAAAAAAA
G
Found at i:6745081 original size:23 final size:24
Alignment explanation
Indices: 6745040--6745084 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
6745030 AAAATGAGAA
* *
6745040 AAAAGAAAAATGATGGAAAAAACG
1 AAAAGAAAAAAGATAGAAAAAACG
6745064 AAAAGAAAAAAGA-AGAAAAAA
1 AAAAGAAAAAAGATAGAAAAAA
6745085 TGGAAAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.04
Consensus pattern (24 bp):
AAAAGAAAAAAGATAGAAAAAACG
Found at i:6745092 original size:42 final size:42
Alignment explanation
Indices: 6744981--6745127 Score: 129
Period size: 42 Copynumber: 3.4 Consensus size: 42
6744971 AAAAATGGAA
*
6744981 AAAAAATGA-AAAAAATGATAAAAATGAGAAGAAGAAAAAGAATAAAAG
1 AAAAAA-GAGAAAAAATG--AAAAATGA-AAG-AGAAAAA-CA-AAAAG
* ** *
6745029 AAAAATGAGAAAAAA-GAAAAATGATGGA-AAAAACGAAAAG
1 AAAAAAGAGAAAAAATGAAAAATGAAAGAGAAAAACAAAAAG
*
6745069 AAAAAAGAAGAAAAAATGGAAAATGAAAGAGAAAAACAAAAAG
1 AAAAAAG-AGAAAAAATGAAAAATGAAAGAGAAAAACAAAAAG
* *
6745112 AGAAAAGTGAAAAAAT
1 AAAAAAGAGAAAAAAT
6745128 AAAGAAAAAT
Statistics
Matches: 83, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
40 11 0.13
41 8 0.10
42 23 0.28
43 18 0.22
44 1 0.01
45 8 0.10
47 3 0.04
48 11 0.13
ACGTcount: A:0.72, C:0.01, G:0.18, T:0.08
Consensus pattern (42 bp):
AAAAAAGAGAAAAAATGAAAAATGAAAGAGAAAAACAAAAAG
Found at i:6745102 original size:31 final size:31
Alignment explanation
Indices: 6745035--6745104 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
6745025 AAAGAAAAAT
**
6745035 GAGAAAAAAGAAAAATGATGGAAAAAACGAAA
1 GAGAAAAAAGAAAAAAAATGG-AAAAACGAAA
*
6745067 -AGAAAAAAGAAGAAAAAATGG-AAAATGAAA
1 GAGAAAAAAGAA-AAAAAATGGAAAAACGAAA
6745097 GAGAAAAA
1 GAGAAAAA
6745105 CAAAAAGAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
30 8 0.24
31 18 0.55
32 7 0.21
ACGTcount: A:0.71, C:0.01, G:0.21, T:0.06
Consensus pattern (31 bp):
GAGAAAAAAGAAAAAAAATGGAAAAACGAAA
Found at i:6746472 original size:37 final size:36
Alignment explanation
Indices: 6746409--6746480 Score: 108
Period size: 37 Copynumber: 2.0 Consensus size: 36
6746399 AAACAGGTCA
6746409 ATCTTAAGCCATCACGGAAGAGTAGTGAAGCAAACC
1 ATCTTAAGCCATCACGGAAGAGTAGTGAAGCAAACC
* * *
6746445 ATCTGTAAGCCTTCACGGTAGATTAGTGAAGCAAAC
1 ATCT-TAAGCCATCACGGAAGAGTAGTGAAGCAAAC
6746481 ACATTTTATG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 4 0.12
37 28 0.88
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (36 bp):
ATCTTAAGCCATCACGGAAGAGTAGTGAAGCAAACC
Found at i:6746572 original size:51 final size:50
Alignment explanation
Indices: 6746491--6746689 Score: 191
Period size: 51 Copynumber: 3.7 Consensus size: 50
6746481 ACATTTTATG
* *
6746491 AAGATCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTA
1 AAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC-CGTTTATTA
* * *
6746542 AAGATTGAGTCCTATACTCTTTGAAAGAATAGGGAGCGGACCTGTTTATTG
1 AAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACC-GTTTATTA
* * *
6746593 AAGATTTTCCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATTG
1 AAGA--TT--GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGA-CCG-TTTATTA
* * *
6746649 AAGATTGTTCAAGTCTTATACTCTCTGAATGAATAGAGAGC
1 AAGATTG----AGTCCTATACTCTCTGAAGGAATAGGGAGC
6746690 AGACACATTT
Statistics
Matches: 125, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
50 1 0.01
51 48 0.38
52 1 0.01
53 2 0.02
54 2 0.02
55 31 0.25
56 40 0.32
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (50 bp):
AAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACCGTTTATTA
Found at i:6746634 original size:55 final size:56
Alignment explanation
Indices: 6746495--6746744 Score: 247
Period size: 55 Copynumber: 4.6 Consensus size: 56
6746485 TTTATGAAGA
* * *
6746495 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAC-GTTTGTTAAAGA---T
1 TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACACTGTTTATTGAAGATTGT
* * *
6746547 T-GAGTCCTATACTCTTTGAAAGAATAGGGAGCGGAC-CTGTTTATTGAAGATT-T
1 TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACACTGTTTATTGAAGATTGT
* *
6746600 TCCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGAC-CCGTTTTATTGAAGATTGT
1 T-CGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACACTG-TTTATTGAAGATTGT
* * * *
6746657 TCAAG-TCTTATACTCTCTGAATGAATAGAGAGCAGACACAT-TTTA-TGAAGATTGT
1 TCGAGTTC-TATACTCTCTGAAGGAATAGGGAGCGGACAC-TGTTTATTGAAGATTGT
6746712 TCGAG-TCTTATACT-TCCTGAAGGAATAGGGAGC
1 TCGAGTTC-TATACTCT-CTGAAGGAATAGGGAGC
6746745 AGGCTCATCA
Statistics
Matches: 171, Mismatches: 16, Indels: 19
0.83 0.08 0.09
Matches are distributed among these distances:
50 1 0.01
51 43 0.25
52 1 0.01
53 2 0.01
54 1 0.01
55 73 0.43
56 47 0.27
57 3 0.02
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (56 bp):
TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACACTGTTTATTGAAGATTGT
Found at i:6746732 original size:111 final size:105
Alignment explanation
Indices: 6746474--6746744 Score: 295
Period size: 111 Copynumber: 2.5 Consensus size: 105
6746464 AGATTAGTGA
* *
6746474 AGCAAACACATTTTATGAAGA---TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGT
1 AGCAGACACATTTTATGAAGATTTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACACGT
* * *
6746536 TTGTTAAAGATTGAGTCCTATACTCTTTGAAAGAATAGGG
66 TTATTAAAGATTGAGTCCTATACTCTCTGAAAGAATAGAG
* *
6746576 AGCGGAC-C-TGTTTATTGAAGATTTTCCGAGT-TCTATACTCTCTGAAGGAATAGAGAGCGGAC
1 AGCAGACACAT-TTTA-TGAAGATTTT-CGAGTCT-TATACTCTCTGAAGGAATAGGGAGCGGAC
* * * *
6746638 CCGTTTTATTGAAGATTGTTCAAGTCTTATACTCTCTGAATGAATAGAG
62 ACG-TTTATTAAAGATTG----AGTCCTATACTCTCTGAAAGAATAGAG
6746687 AGCAGACACATTTTATGAAGATTGTTCGAGTCTTATACT-TCCTGAAGGAATAGGGAGC
1 AGCAGACACATTTTATGAAGATT-TTCGAGTCTTATACTCT-CTGAAGGAATAGGGAGC
6746745 AGGCTCATCA
Statistics
Matches: 139, Mismatches: 13, Indels: 25
0.79 0.07 0.14
Matches are distributed among these distances:
100 1 0.01
101 5 0.04
102 11 0.08
105 1 0.01
106 35 0.25
107 12 0.09
110 1 0.01
111 64 0.46
112 8 0.06
113 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (105 bp):
AGCAGACACATTTTATGAAGATTTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACACGT
TTATTAAAGATTGAGTCCTATACTCTCTGAAAGAATAGAG
Found at i:6746761 original size:55 final size:54
Alignment explanation
Indices: 6746609--6746774 Score: 172
Period size: 55 Copynumber: 3.0 Consensus size: 54
6746599 TTCCGAGTTC
* * * *
6746609 TATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTGTTCAAGTCT
1 TATACTCTCTGAAGGAATAGAGAGCAGACAC--ATAATTGAAGATTGTTCAAGTCT
* ** *
6746665 TATACTCTCTGAATGAATAGAGAGCAGACACATTTTATGAAGATTGTTCGAGTCT
1 TATACTCTCTGAAGGAATAGAGAGCAGACACATAAT-TGAAGATTGTTCAAGTCT
* * * *
6746720 TATACT-TCCTGAAGGAATAGGGAGCAGGCTCATCAATTGAAGATTTTTCAAGTCT
1 TATACTCT-CTGAAGGAATAGAGAGCAGACACAT-AATTGAAGATTGTTCAAGTCT
6746775 CATTTATCAA
Statistics
Matches: 93, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
54 4 0.04
55 60 0.65
56 29 0.31
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.32
Consensus pattern (54 bp):
TATACTCTCTGAAGGAATAGAGAGCAGACACATAATTGAAGATTGTTCAAGTCT
Found at i:6750172 original size:2 final size:2
Alignment explanation
Indices: 6750160--6750200 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
6750150 GAAGGAAAGT
* *
6750160 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6750201 GAAGAATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:6751616 original size:18 final size:20
Alignment explanation
Indices: 6751576--6751617 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
6751566 AAAAATTAAC
*
6751576 TAAAATATTATTATTTTTATT
1 TAAAATATTA-TATATTTATT
6751597 TAAAATATTA-ATATTT-TT
1 TAAAATATTATATATTTATT
6751615 TAA
1 TAA
6751618 CATTTCCGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 5 0.25
19 5 0.25
21 10 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TAAAATATTATATATTTATT
Found at i:6751883 original size:16 final size:16
Alignment explanation
Indices: 6751864--6751896 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6751854 TTAAATGATC
6751864 AAAACGGAACAAAAAT
1 AAAACGGAACAAAAAT
6751880 AAAACGGAACAAAAAT
1 AAAACGGAACAAAAAT
6751896 A
1 A
6751897 TAACTGAGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.70, C:0.12, G:0.12, T:0.06
Consensus pattern (16 bp):
AAAACGGAACAAAAAT
Found at i:6752883 original size:15 final size:15
Alignment explanation
Indices: 6752863--6752928 Score: 89
Period size: 15 Copynumber: 4.4 Consensus size: 15
6752853 TTTCAGAAAA
6752863 TGAATTACTGAAATT
1 TGAATTACTGAAATT
*
6752878 TGAATTACTGGAATT
1 TGAATTACTGAAATT
*
6752893 TGAATTACTGGAAA-A
1 TGAATTACT-GAAATT
*
6752908 TGAATTACTGGAATT
1 TGAATTACTGAAATT
6752923 TGAATT
1 TGAATT
6752929 CTGGAAAATG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
14 3 0.07
15 38 0.86
16 3 0.07
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.38
Consensus pattern (15 bp):
TGAATTACTGAAATT
Found at i:6752907 original size:45 final size:44
Alignment explanation
Indices: 6752858--6752943 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 44
6752848 TGGTTTTTCA
**
6752858 GAAAATGAATTACTGAAATTTGAATTACTGGAATTTGAATTACTG
1 GAAAATGAATTACTGAAATTTGAATT-CTGGAAAATGAATTACTG
*
6752903 GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTA
1 GAAAATGAATTACTGAAATTTGAATTCTGGAAAATGAATTA
6752944 TATTTCTGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 13 0.34
45 25 0.66
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.34
Consensus pattern (44 bp):
GAAAATGAATTACTGAAATTTGAATTCTGGAAAATGAATTACTG
Found at i:6752942 original size:29 final size:30
Alignment explanation
Indices: 6752863--6752943 Score: 130
Period size: 30 Copynumber: 2.7 Consensus size: 30
6752853 TTTCAGAAAA
*
6752863 TGAATTACT-GAAATTTGAATTACTGGAATT
1 TGAATTACTGGAAA-ATGAATTACTGGAATT
6752893 TGAATTACTGGAAAATGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
6752923 TGAATT-CTGGAAAATGAATTA
1 TGAATTACTGGAAAATGAATTA
6752944 TATTTCTGTA
Statistics
Matches: 49, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
29 15 0.31
30 30 0.61
31 4 0.08
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.36
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTGGAATT
Found at i:6752950 original size:20 final size:20
Alignment explanation
Indices: 6752927--6752976 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
6752917 GGAATTTGAA
*
6752927 TTCTGGAAAATGAATTATAT
1 TTCTGGAAAATGAATTACAT
*
6752947 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
6752967 TTCTGGAAAA
1 TTCTGGAAAA
6752977 CATCTGGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:6753198 original size:30 final size:29
Alignment explanation
Indices: 6753141--6753244 Score: 101
Period size: 29 Copynumber: 3.5 Consensus size: 29
6753131 CTTTACTAAA
*
6753141 ATATTATTGAAATATAT-AAATAATATTAT
1 ATATTATT-AAATATATAAAAAAATATTAT
6753170 -TCATTATTAAATATATAAAAAAATTATTAT
1 AT-ATTATTAAATATATAAAAAAA-TATTAT
6753200 ATATTATTAAA-ATA-AAAATATAATATCT-T
1 ATATTATTAAATATATAAAA-A-AATAT-TAT
6753229 ATATTATTATAATATA
1 ATATTATTA-AATATA
6753245 ATTGATTATT
Statistics
Matches: 65, Mismatches: 1, Indels: 16
0.79 0.01 0.20
Matches are distributed among these distances:
28 13 0.20
29 28 0.43
30 20 0.31
31 4 0.06
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (29 bp):
ATATTATTAAATATATAAAAAAATATTAT
Found at i:6753288 original size:34 final size:33
Alignment explanation
Indices: 6753229--6753326 Score: 91
Period size: 31 Copynumber: 3.1 Consensus size: 33
6753219 ATAATATCTT
* *
6753229 ATATTATTATAATATA-ATTGATTATTTTATATA
1 ATATTAATA-AATATATATTAATTATTTTATATA
6753262 ATATTAA-AAATATTATATT-A-TATTATTATA-A
1 ATATTAATAAATA-TATATTAATTATT-TTATATA
* *
6753293 ATATTAATAAATATATTTTAAATATTTTA-ATA
1 ATATTAATAAATATATATTAATTATTTTATATA
6753325 AT
1 AT
6753327 TAATATTTTG
Statistics
Matches: 56, Mismatches: 2, Indels: 15
0.77 0.03 0.21
Matches are distributed among these distances:
31 22 0.39
32 21 0.38
33 13 0.23
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (33 bp):
ATATTAATAAATATATATTAATTATTTTATATA
Found at i:6753306 original size:22 final size:21
Alignment explanation
Indices: 6753229--6753318 Score: 62
Period size: 22 Copynumber: 4.2 Consensus size: 21
6753219 ATAATATCTT
*
6753229 ATATTATTATAATATAATTGAT-T
1 ATATTA-TATAATAT-ATT-ATAA
* *
6753252 ATTTTATAT-A-ATATTAAAA
1 ATATTATATAATATATTATAA
*
6753271 ATATTATATTATATTATTATAA
1 ATATTATATAATA-TATTATAA
*
6753293 ATATTA-ATAAATATATTTTAA
1 ATATTATAT-AATATATTATAA
6753314 ATATT
1 ATATT
6753319 TTAATAATTA
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
18 1 0.02
19 11 0.20
20 3 0.05
21 16 0.29
22 19 0.35
23 5 0.09
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (21 bp):
ATATTATATAATATATTATAA
Found at i:6753317 original size:52 final size:51
Alignment explanation
Indices: 6753198--6753318 Score: 124
Period size: 52 Copynumber: 2.3 Consensus size: 51
6753188 AAAAATTATT
* **
6753198 ATATATTATTAAA-A-TAAAAATATAATATCTTATATTATTATAATATAATTG
1 ATATATT-TTAAATATTAAAAATAT-ATATATTATATTATTATAATATAATAA
6753249 AT-TATTTTATATAATATTAAAAATAT-TATATTATATTATTATAAATATTAATAA
1 ATATA-TTT-TA-AATATTAAAAATATATATATTATATTATTAT-AATA-TAATAA
6753303 ATATATTTTAAATATT
1 ATATATTTTAAATATT
6753319 TTAATAATTA
Statistics
Matches: 59, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 23 0.39
53 7 0.12
54 18 0.31
55 2 0.03
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (51 bp):
ATATATTTTAAATATTAAAAATATATATATTATATTATTATAATATAATAA
Found at i:6753566 original size:42 final size:42
Alignment explanation
Indices: 6753507--6753626 Score: 231
Period size: 42 Copynumber: 2.9 Consensus size: 42
6753497 ATGAATTACA
*
6753507 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
6753549 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
6753591 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
6753627 TTCGGGGAAA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 77 1.00
ACGTcount: A:0.44, C:0.19, G:0.21, T:0.16
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:6753898 original size:17 final size:17
Alignment explanation
Indices: 6753876--6753916 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
6753866 TTGTATTTTG
6753876 TGGATTAACTCTTTGTT
1 TGGATTAACTCTTTGTT
6753893 TGGATTAACTCTTTGTT
1 TGGATTAACTCTTTGTT
*
6753910 TAGATTA
1 TGGATTA
6753917 TGTCATCAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.22, C:0.10, G:0.17, T:0.51
Consensus pattern (17 bp):
TGGATTAACTCTTTGTT
Found at i:6754184 original size:24 final size:24
Alignment explanation
Indices: 6754157--6754203 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
6754147 TAATCAAGTC
6754157 ATTATTTTATAACTTTTAATAGTA
1 ATTATTTTATAACTTTTAATAGTA
6754181 ATTATTTTATAACTTTTAATAGT
1 ATTATTTTATAACTTTTAATAGT
6754204 CAACAAACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (24 bp):
ATTATTTTATAACTTTTAATAGTA
Found at i:6754300 original size:18 final size:18
Alignment explanation
Indices: 6754277--6754313 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
6754267 ATTATATTGA
*
6754277 ATTTTATATCATTAATAAT
1 ATTTAATAT-ATTAATAAT
6754296 ATTTAATATATTAATAAT
1 ATTTAATATATTAATAAT
6754314 TAATTGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTAATATATTAATAAT
Found at i:6756239 original size:11 final size:12
Alignment explanation
Indices: 6756219--6756263 Score: 51
Period size: 11 Copynumber: 3.9 Consensus size: 12
6756209 AAGCAACCAA
6756219 AATATTATATAT
1 AATATTATATAT
*
6756231 AAT-TTATATAAA
1 AATATTATAT-AT
6756243 AATATTATATAT
1 AATATTATATAT
6756255 -ATA-TATATA
1 AATATTATATA
6756264 ATCGAGGCGG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
10 6 0.21
11 9 0.31
12 8 0.28
13 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AATATTATATAT
Found at i:6756249 original size:24 final size:23
Alignment explanation
Indices: 6756217--6756264 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 23
6756207 TAAAGCAACC
*
6756217 AAAATATTATATATAATTTATATA
1 AAAATATTATATAT-ATATATATA
6756241 AAAATATTATATATATATATATA
1 AAAATATTATATATATATATATA
6756264 A
1 A
6756265 TCGAGGCGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
AAAATATTATATATATATATATA
Found at i:6757209 original size:2 final size:2
Alignment explanation
Indices: 6757202--6757251 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
6757192 AGAACATTCC
6757202 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6757244 TA TA TA TA
1 TA TA TA TA
6757252 CATTTTATTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6757444 original size:25 final size:28
Alignment explanation
Indices: 6757411--6757466 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
6757401 ATTTTAATTC
*
6757411 AAAAGAAAT-AAA-AT-ATAATTAATAAT
1 AAAAGAAATGAAAGATAAAAATTAA-AAT
6757437 AAAA-AAATGAAAGATAAAAATTAAAAT
1 AAAAGAAATGAAAGATAAAAATTAAAAT
6757464 AAA
1 AAA
6757467 TCAAAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
25 4 0.15
26 7 0.27
27 8 0.31
28 7 0.27
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.21
Consensus pattern (28 bp):
AAAAGAAATGAAAGATAAAAATTAAAAT
Found at i:6762610 original size:42 final size:42
Alignment explanation
Indices: 6762551--6762635 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
6762541 CCGAATAAGT
6762551 GATTATACATTTTAGTTTAGGGTTAATTTAAAAGAAATTAAA
1 GATTATACATTTTAGTTTAGGGTTAATTTAAAAGAAATTAAA
*
6762593 GATTATACATTTTAGTTTAGGGTTAATTTGAAAGAAATTAAA
1 GATTATACATTTTAGTTTAGGGTTAATTTAAAAGAAATTAAA
6762635 G
1 G
6762636 CTAAAAGGTC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.41, C:0.02, G:0.16, T:0.40
Consensus pattern (42 bp):
GATTATACATTTTAGTTTAGGGTTAATTTAAAAGAAATTAAA
Found at i:6764063 original size:45 final size:45
Alignment explanation
Indices: 6763985--6764087 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 45
6763975 CATATTCAAT
* * *
6763985 GTGCATCGATGCA-CTCTTTAAAGAAGAAACATCGAATGCAATTG
1 GTGCATCGATGCATCCCCTTAAAGAAGAAACATCGAAGGCAATTG
* * *
6764029 GTGCATCGATGCATCCCCTTAAA-ATGAAAACATCGAAGGTAATTT
1 GTGCATCGATGCATCCCCTTAAAGAAG-AAACATCGAAGGCAATTG
*
6764074 GTGTATCGATGCAT
1 GTGCATCGATGCAT
6764088 GGGTAGTGCA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
44 15 0.30
45 35 0.70
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (45 bp):
GTGCATCGATGCATCCCCTTAAAGAAGAAACATCGAAGGCAATTG
Found at i:6764139 original size:20 final size:22
Alignment explanation
Indices: 6764094--6764151 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
6764084 GCATGGGTAG
6764094 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
6764118 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
6764138 TGCATCGATGCACT
1 TGCATCGATGCACT
6764152 TCAAGGGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 18 0.53
22 1 0.03
23 2 0.06
24 13 0.38
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:6768082 original size:65 final size:63
Alignment explanation
Indices: 6767987--6768128 Score: 171
Period size: 65 Copynumber: 2.2 Consensus size: 63
6767977 CATATTCAAT
* * *
6767987 GTGCATCGATGCACTCTTTAAAGAAGAAACATCGAATGCAATTGGTGCATCGATGCATAAGG-A
1 GTGCATCGATGCACCCTTAAAAGAAGAAACATCGAAGGCAATTGGTGCATCGATGCAT-AGGTA
* * * *
6768050 GTGCATCGATGCATCCCCTTAAAATGAA-AAACATCGAAGGTAATTTGTGTATCGATGCATGGGT
1 GTGCATCGATGCA--CCCTTAAAA-GAAGAAACATCGAAGGCAATTGGTGCATCGATGCATAGGT
6768114 A
63 A
6768115 GTGCATCGATGCAC
1 GTGCATCGATGCAC
6768129 ATGTTAAAGA
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
63 14 0.21
64 2 0.03
65 49 0.72
66 3 0.04
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.25
Consensus pattern (63 bp):
GTGCATCGATGCACCCTTAAAAGAAGAAACATCGAAGGCAATTGGTGCATCGATGCATAGGTA
Found at i:6768161 original size:20 final size:22
Alignment explanation
Indices: 6768116--6768173 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
6768106 GCATGGGTAG
6768116 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
6768140 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
6768160 TGCATCGATGCACT
1 TGCATCGATGCACT
6768174 TCAAGGGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 18 0.53
22 1 0.03
23 2 0.06
24 13 0.38
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:6770041 original size:3 final size:3
Alignment explanation
Indices: 6770033--6770088 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
6770023 TTTGGGTTTG
6770033 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6770081 TAA TAA TA
1 TAA TAA TA
6770089 TCAAAAAAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6770536 original size:119 final size:120
Alignment explanation
Indices: 6770357--6770780 Score: 563
Period size: 121 Copynumber: 3.5 Consensus size: 120
6770347 ATGATGGTGT
* * *
6770357 TGATCCAACTCCTTATGTGATGGAATCGAG--AGTGTTTGAACAAGTTCTTCACATTATGAACTT
1 TGATCCAACTCATTATGTGAT-GAATCGAGCTA-TGATTGAACAAGTTCTTCTCATTATGAACTT
* *
6770420 CTTAATTGGAAATGTTGATCCACCTCCTTTTGTTATGGAATCAACGTAGTGTTTGCAC
64 CTTAATTGGAAATGTTGATCCACCTCCTTTTGTGATGGAATCAACGTAGTG-CTGCAC
* *
6770478 TGATCCAACTTC-TTATGTGATGAATCAAGC-ATG-TTGAACAAGTTTTTCTCATTATGAACTTC
1 TGATCCAAC-TCATTATGTGATGAATCGAGCTATGATTGAACAAGTTCTTCTCATTATGAACTTC
* * *
6770540 TTCATTGGAAATATTGATCCACCTCCTTTTGTGATGGAATCAACGTAGTACTGACAC
65 TTAATTGGAAATGTTGATCCACCTCCTTTTGTGATGGAATCAACGTAGTGCTG-CAC
* * * *
6770597 TGATCTAACTCTTTATGTGATGAATCGAGCTAAGGTTGAACAA-TTGCTTCTCATTATGAACTTC
1 TGATCCAACTCATTATGTGATGAATCGAGCTATGATTGAACAAGTT-CTTCTCATTATGAACTTC
* *
6770661 TTAATTGGAAATGTTGATCCACATCCTTTTGTGATGGAATCAACGTAGTGCTGGAGC
65 TTAATTGGAAATGTTGATCCACCTCCTTTTGTGATGGAATCAACGTAGTGCTGCA-C
* * * *
6770718 TAATACAACTCATTATATGATGAATCGAGCTAAGATTGAACAAGTTCTTCTCATTATGAACTT
1 TGATCCAACTCATTATGTGATGAATCGAGCTATGATTGAACAAGTTCTTCTCATTATGAACTT
6770781 TTCTCCCTCA
Statistics
Matches: 271, Mismatches: 23, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
118 4 0.01
119 101 0.37
120 14 0.05
121 148 0.55
122 4 0.01
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (120 bp):
TGATCCAACTCATTATGTGATGAATCGAGCTATGATTGAACAAGTTCTTCTCATTATGAACTTCT
TAATTGGAAATGTTGATCCACCTCCTTTTGTGATGGAATCAACGTAGTGCTGCAC
Found at i:6772327 original size:57 final size:56
Alignment explanation
Indices: 6772290--6772883 Score: 635
Period size: 57 Copynumber: 10.4 Consensus size: 56
6772280 ATGAAACTTG
* * *
6772290 GCTTCTTCAAAAATTCATTT-ACAATTATCATCAAGAAACCCTTAAAAATTAGGCTTA
1 GCTTCTTTAAAAATTCATTTGA-AGTTATCATCAAGAAACCCCT-AAAATTAGGCTTA
* * * *
6772347 ACTTCTTTAAAAATTCATTTGAAGTAATCATCAAGAAACCCCTACAAATCAAGCTTA
1 GCTTCTTTAAAAATTCATTTGAAGTTATCATCAAGAAACCCCTA-AAATTAGGCTTA
* * *
6772404 GCTTCTTTAAAAATTAATTT-ACAGCTATCATCAAGAAACCCATAAAACTTAGGCTTA
1 GCTTCTTTAAAAATTCATTTGA-AGTTATCATCAAGAAACCCCTAAAA-TTAGGCTTA
* * * * *
6772461 GCTTCTTTAAAATTTTATTTGAAGTAATCATCAAGAAACCCCTAAAATCAAGCTTA
1 GCTTCTTTAAAAATTCATTTGAAGTTATCATCAAGAAACCCCTAAAATTAGGCTTA
* * * *
6772517 ACTTCTTTAAAAATCCATTT-ACATTTATCATCAAGAATCCCCTAAAAATTAGGCTTA
1 GCTTCTTTAAAAATTCATTTGA-AGTTATCATCAAGAAACCCCT-AAAATTAGGCTTA
* * * * * *
6772574 GTTTCTTTAAAAAAATT-ATTTGAAGTAATCATCAAAAAAACCCTAAAAATAAAGCTTA
1 GCTTCTTT--AAAAATTCATTTGAAGTTATCATCAAGAAACCCCT-AAAATTAGGCTTA
* * *
6772632 GCTTCTTTAAAAATCCATTT-ACAGTTATCATCAAGAAACCACTAAAAATTAGGCTTG
1 GCTTCTTTAAAAATTCATTTGA-AGTTATCATCAAGAAACCCCT-AAAATTAGGCTTA
* * * * ** *
6772689 GATTCTTTAAAAAATTAATTTGAAGTAATCATCAAGAAACCTTCGGAAATCAGGCTTA
1 GCTTCTTT-AAAAATTCATTTGAAGTTATCATCAAGAAACC-CCTAAAATTAGGCTTA
*
6772747 GCTTCTTTAAAAA-TCTATTT-ACATTTATCATCAAGAAACCCCTAAAATTTAGGCTTA
1 GCTTCTTTAAAAATTC-ATTTGA-AGTTATCATCAAGAAACCCCTAAAA-TTAGGCTTA
*
6772804 GCTTCTTTAAAAATTCATTTGAAGTAATCATCAAGAAACCCCTAAAAATTAGGCTTA
1 GCTTCTTTAAAAATTCATTTGAAGTTATCATCAAGAAACCCCT-AAAATTAGGCTTA
*
6772861 ACTTCTTTAAAAATTCATTTGAA
1 GCTTCTTTAAAAATTCATTTGAA
6772884 AACATCATAT
Statistics
Matches: 447, Mismatches: 69, Indels: 42
0.80 0.12 0.08
Matches are distributed among these distances:
55 1 0.00
56 59 0.13
57 286 0.64
58 92 0.21
59 9 0.02
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (56 bp):
GCTTCTTTAAAAATTCATTTGAAGTTATCATCAAGAAACCCCTAAAATTAGGCTTA
Found at i:6772433 original size:114 final size:114
Alignment explanation
Indices: 6772290--6772880 Score: 812
Period size: 114 Copynumber: 5.2 Consensus size: 114
6772280 ATGAAACTTG
* * * *
6772290 GCTTCTTCAAAAATTCATTTACAATTATCATCAAGAAACCCTTAAAAATTAGGCTTAACTTCTTT
1 GCTTCTTTAAAAATTCATTTACAGTTATCATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTT
*
6772355 AAAAATTCATTTGAAGTAATCATCAAGAAACCCCTACAAATCAAGCTTA
66 AAAAATTCATTTGAAGTAATCATCAAGAAACCCCTAAAAATCAAGCTTA
* * * *
6772404 GCTTCTTTAAAAATTAATTTACAGCTATCATCAAGAAACCCATAAAACTTAGGCTTAGCTTCTTT
1 GCTTCTTTAAAAATTCATTTACAGTTATCATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTT
* *
6772469 AAAATTTTATTTGAAGTAATCATCAAGAAACCCCT-AAAATCAAGCTTA
66 AAAAATTCATTTGAAGTAATCATCAAGAAACCCCTAAAAATCAAGCTTA
* * * * *
6772517 ACTTCTTTAAAAATCCATTTACATTTATCATCAAGAATCCCCTAAAAATTAGGCTTAGTTTCTTT
1 GCTTCTTTAAAAATTCATTTACAGTTATCATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTT
* * *
6772582 AAAAAAATT-ATTTGAAGTAATCATCAAAAAAACCCTAAAAATAAAGCTTA
66 --AAAAATTCATTTGAAGTAATCATCAAGAAACCCCTAAAAATCAAGCTTA
* * * *
6772632 GCTTCTTTAAAAATCCATTTACAGTTATCATCAAGAAACCACTAAAAATTAGGCTTGGATTCTTT
1 GCTTCTTTAAAAATTCATTTACAGTTATCATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTT
* * ** *
6772697 AAAAAATTAATTTGAAGTAATCATCAAGAAA-CCTTCGGAAATCAGGCTTA
66 -AAAAATTCATTTGAAGTAATCATCAAGAAACCCCT-AAAAATCAAGCTTA
* *
6772747 GCTTCTTTAAAAA-TCTATTTACATTTATCATCAAGAAACCCCTAAAATTTAGGCTTAGCTTCTT
1 GCTTCTTTAAAAATTC-ATTTACAGTTATCATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTT
* *
6772811 TAAAAATTCATTTGAAGTAATCATCAAGAAACCCCTAAAAATTAGGCTTA
65 TAAAAATTCATTTGAAGTAATCATCAAGAAACCCCTAAAAATCAAGCTTA
*
6772861 ACTTCTTTAAAAATTCATTT
1 GCTTCTTTAAAAATTCATTT
6772881 GAAAACATCA
Statistics
Matches: 422, Mismatches: 47, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
113 68 0.16
114 184 0.44
115 170 0.40
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (114 bp):
GCTTCTTTAAAAATTCATTTACAGTTATCATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTT
AAAAATTCATTTGAAGTAATCATCAAGAAACCCCTAAAAATCAAGCTTA
Found at i:6778854 original size:26 final size:27
Alignment explanation
Indices: 6778823--6778880 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
6778813 ATGTATACAT
* *
6778823 TATATAATA-TAAACAATATATATATA
1 TATATAATACTAAACAATATAAATAAA
* *
6778849 TATAT-ATACTATACATTATAAATAAA
1 TATATAATACTAAACAATATAAATAAA
6778875 TATATA
1 TATATA
6778881 GTCATATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 3 0.12
26 23 0.88
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (27 bp):
TATATAATACTAAACAATATAAATAAA
Found at i:6786219 original size:28 final size:28
Alignment explanation
Indices: 6786179--6786237 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
6786169 GTGAGATTGT
6786179 TTTGTTCTCATATTTTTACTCTTTAGAC
1 TTTGTTCTCATATTTTTACTCTTTAGAC
6786207 TTTGTTCTCATATTTTTACTCTTTAGAC
1 TTTGTTCTCATATTTTTACTCTTTAGAC
6786235 TTT
1 TTT
6786238 TGGGATGCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.17, G:0.07, T:0.59
Consensus pattern (28 bp):
TTTGTTCTCATATTTTTACTCTTTAGAC
Found at i:6786946 original size:20 final size:20
Alignment explanation
Indices: 6786918--6786959 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
6786908 TTAGGGCTAA
*
6786918 TTCGATTTGACATTATACGG
1 TTCGATTTGACATTAAACGG
* *
6786938 TTCGGTTTGACTTTAAACGG
1 TTCGATTTGACATTAAACGG
6786958 TT
1 TT
6786960 TGGTATTGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.43
Consensus pattern (20 bp):
TTCGATTTGACATTAAACGG
Found at i:6788342 original size:13 final size:13
Alignment explanation
Indices: 6788324--6788350 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6788314 AGTTTTTGTA
6788324 TGGATTATATATG
1 TGGATTATATATG
6788337 TGGATTATATATG
1 TGGATTATATATG
6788350 T
1 T
6788351 ATTTTCAGCA
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:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGGATTATATATG
Found at i:6790933 original size:16 final size:15
Alignment explanation
Indices: 6790902--6790939 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
6790892 AATAGTCACA
6790902 AATTTTTTTAAATTG
1 AATTTTTTTAAATTG
6790917 -ATTTTATTTAGAATTG
1 AATTTT-TTTA-AATTG
6790933 AATTTTT
1 AATTTTT
6790940 AAAGTTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
14 5 0.25
15 4 0.20
16 6 0.30
17 5 0.25
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.61
Consensus pattern (15 bp):
AATTTTTTTAAATTG
Found at i:6793012 original size:7 final size:7
Alignment explanation
Indices: 6792996--6793030 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
6792986 AAAGAAAGTA
6792996 AACGGTC
1 AACGGTC
*
6793003 AACGGAC
1 AACGGTC
6793010 AACGGTC
1 AACGGTC
6793017 AACGGTC
1 AACGGTC
6793024 AACGGTC
1 AACGGTC
6793031 GGGTCGAGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.31, C:0.29, G:0.29, T:0.11
Consensus pattern (7 bp):
AACGGTC
Found at i:6793043 original size:17 final size:17
Alignment explanation
Indices: 6793021--6793053 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
6793011 ACGGTCAACG
6793021 GTCAACGGTCGGGTCGA
1 GTCAACGGTCGGGTCGA
6793038 GTCAACGGTCGGGTCG
1 GTCAACGGTCGGGTCG
6793054 GGTCGGGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.24, G:0.42, T:0.18
Consensus pattern (17 bp):
GTCAACGGTCGGGTCGA
Found at i:6793055 original size:22 final size:24
Alignment explanation
Indices: 6793027--6793076 Score: 77
Period size: 22 Copynumber: 2.2 Consensus size: 24
6793017 AACGGTCAAC
6793027 GGTCGGGTCGAGTCA-AC-GGTCG
1 GGTCGGGTCGAGTCAGACGGGTCG
*
6793049 GGTCGGGTCGGGTCAGACGGGTCG
1 GGTCGGGTCGAGTCAGACGGGTCG
6793073 GGTC
1 GGTC
6793077 AGACCGGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 14 0.56
23 2 0.08
24 9 0.36
ACGTcount: A:0.10, C:0.22, G:0.50, T:0.18
Consensus pattern (24 bp):
GGTCGGGTCGAGTCAGACGGGTCG
Found at i:6793071 original size:14 final size:14
Alignment explanation
Indices: 6793052--6793085 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
6793042 ACGGTCGGGT
6793052 CGGGTCGGGTCAGA
1 CGGGTCGGGTCAGA
6793066 CGGGTCGGGTCAGA
1 CGGGTCGGGTCAGA
*
6793080 CCGGTC
1 CGGGTC
6793086 AAACCGATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.12, C:0.26, G:0.47, T:0.15
Consensus pattern (14 bp):
CGGGTCGGGTCAGA
Found at i:6793085 original size:9 final size:9
Alignment explanation
Indices: 6793073--6793132 Score: 57
Period size: 9 Copynumber: 6.3 Consensus size: 9
6793063 AGACGGGTCG
*
6793073 GGTCAGACC
1 GGTCAAACC
6793082 GGTCAAACC
1 GGTCAAACC
* *
6793091 GATCCAGACC
1 GGT-CAAACC
6793101 GGTCAAACC
1 GGTCAAACC
*
6793110 GGTTCAAAACT
1 GG-TC-AAACC
6793121 GGTCAAACC
1 GGTCAAACC
6793130 GGT
1 GGT
6793133 TTTCCAGCAG
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
9 24 0.59
10 11 0.27
11 6 0.15
ACGTcount: A:0.30, C:0.30, G:0.25, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:6794115 original size:34 final size:34
Alignment explanation
Indices: 6794075--6794142 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
6794065 AGTAAGGCTT
6794075 ACTTTAGGGGGAAAGGGGGAACACTATGTACTCC
1 ACTTTAGGGGGAAAGGGGGAACACTATGTACTCC
6794109 ACTTTAGGGGGAAAGGGGGAACACTATGTACTCC
1 ACTTTAGGGGGAAAGGGGGAACACTATGTACTCC
6794143 TAGTGAGTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.32, T:0.21
Consensus pattern (34 bp):
ACTTTAGGGGGAAAGGGGGAACACTATGTACTCC
Found at i:6794801 original size:23 final size:23
Alignment explanation
Indices: 6794737--6794803 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
6794727 TTCTATAACC
* *
6794737 AACAAACTCAAAATATAAAACCA
1 AACAAACTCAAAACATAACACCA
* *
6794760 AGA-AAACTCAAATCATAACATCA
1 A-ACAAACTCAAAACATAACACCA
6794783 AACAAACTCAAAACATAACAC
1 AACAAACTCAAAACATAACAC
6794804 TTGTAATAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
22 1 0.03
23 34 0.94
24 1 0.03
ACGTcount: A:0.61, C:0.24, G:0.01, T:0.13
Consensus pattern (23 bp):
AACAAACTCAAAACATAACACCA
Found at i:6795763 original size:45 final size:46
Alignment explanation
Indices: 6795667--6795774 Score: 168
Period size: 45 Copynumber: 2.4 Consensus size: 46
6795657 ATGCACATAC
6795667 TATGCATCGATGCACTCAGAGTTTTATGAAAACATCGAATGCATTT
1 TATGCATCGATGCACTCAGAGTTTTATGAAAACATCGAATGCATTT
*
6795713 GATGCATCGATGCACTCA-AGCTATTT-TG-AAACATCGAATGCATTT
1 TATGCATCGATGCACTCAGAG-T-TTTATGAAAACATCGAATGCATTT
6795758 TATGCATCGATGCACTC
1 TATGCATCGATGCACTC
6795775 TTAGTGCACC
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
45 35 0.60
46 20 0.34
47 3 0.05
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (46 bp):
TATGCATCGATGCACTCAGAGTTTTATGAAAACATCGAATGCATTT
Found at i:6800362 original size:29 final size:29
Alignment explanation
Indices: 6800315--6800402 Score: 122
Period size: 29 Copynumber: 3.0 Consensus size: 29
6800305 CAAATTTCTT
6800315 AAACACTTCAAATACGCTTTTAACTTTCC
1 AAACACTTCAAATACGCTTTTAACTTTCC
** * * *
6800344 ATTCTCTTCAAATACGCTTTTAAATTTCTT
1 AAACACTTCAAATACGCTTTTAACTTTC-C
6800374 AAACACTTCAAATACGCTTTTAACTTTCC
1 AAACACTTCAAATACGCTTTTAACTTTCC
6800403 CTTTAGAAAC
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
29 24 0.50
30 24 0.50
ACGTcount: A:0.32, C:0.25, G:0.03, T:0.40
Consensus pattern (29 bp):
AAACACTTCAAATACGCTTTTAACTTTCC
Found at i:6800385 original size:30 final size:30
Alignment explanation
Indices: 6800306--6800401 Score: 131
Period size: 30 Copynumber: 3.2 Consensus size: 30
6800296 CAAACTTCTC
6800306 AAATTTCTTAAACACTTCAAATACGCTTTT
1 AAATTTCTTAAACACTTCAAATACGCTTTT
* * ** *
6800336 AACTTTC-CATTCTCTTCAAATACGCTTTT
1 AAATTTCTTAAACACTTCAAATACGCTTTT
6800365 AAATTTCTTAAACACTTCAAATACGCTTTT
1 AAATTTCTTAAACACTTCAAATACGCTTTT
*
6800395 AACTTTC
1 AAATTTC
6800402 CCTTTAGAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 24 0.44
30 30 0.56
ACGTcount: A:0.32, C:0.23, G:0.03, T:0.42
Consensus pattern (30 bp):
AAATTTCTTAAACACTTCAAATACGCTTTT
Found at i:6801104 original size:21 final size:21
Alignment explanation
Indices: 6801078--6801130 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
6801068 GTTTCCAGAT
*
6801078 TCGCAACGCGAACTTAGACTA
1 TCGCAATGCGAACTTAGACTA
* *
6801099 TCGCAATGCAAACTTGGACTA
1 TCGCAATGCGAACTTAGACTA
*
6801120 TCACAATGCGA
1 TCGCAATGCGA
6801131 TTTACATATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAACTTAGACTA
Found at i:6801192 original size:40 final size:40
Alignment explanation
Indices: 6801145--6801283 Score: 251
Period size: 40 Copynumber: 3.5 Consensus size: 40
6801135 CATATTCACA
*
6801145 TTGCGATAGTCTAAGTTCGCGTTGCGATTTTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
*
6801185 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTTG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
*
6801225 TTGCGATAGTCCAAGTTCGCGTTGCGATTTTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
6801265 TTGCGATAGTCGAAGTTCG
1 TTGCGATAGTCGAAGTTCG
6801284 TGTTTCGTTG
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 94 1.00
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.36
Consensus pattern (40 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
Found at i:6801283 original size:19 final size:19
Alignment explanation
Indices: 6801145--6801284 Score: 109
Period size: 19 Copynumber: 7.1 Consensus size: 19
6801135 CATATTCACA
*
6801145 TTGCGATAGTCTAAGTTCGCG
1 TTGCGATAGTCCAAGTT--CG
** *
6801166 TTGCGATTTTCCAAATTCG
1 TTGCGATAGTCCAAGTTCG
*
6801185 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTT--CG
** * *
6801206 TTGCGATTTTCCAAATTTG
1 TTGCGATAGTCCAAGTTCG
6801225 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTT--CG
** *
6801246 TTGCGATTTTCCAAATTCG
1 TTGCGATAGTCCAAGTTCG
*
6801265 TTGCGATAGTCGAAGTTCG
1 TTGCGATAGTCCAAGTTCG
6801284 T
1 T
6801285 GTTTCGTTGC
Statistics
Matches: 91, Mismatches: 24, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
19 48 0.53
21 43 0.47
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.36
Consensus pattern (19 bp):
TTGCGATAGTCCAAGTTCG
Found at i:6801310 original size:26 final size:26
Alignment explanation
Indices: 6801261--6801310 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
6801251 ATTTTCCAAA
* **
6801261 TTCGTTGCGATAGTCGAAGTTCGTGT
1 TTCGTTGCGATAGTCCAAAATCGTGT
6801287 TTCGTTGCGATAGTCCAAAATCGT
1 TTCGTTGCGATAGTCCAAAATCGT
6801311 AACGACTGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (26 bp):
TTCGTTGCGATAGTCCAAAATCGTGT
Found at i:6801894 original size:3 final size:3
Alignment explanation
Indices: 6801886--6801911 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6801876 GACTCTCGCG
6801886 CGC CGC CGC CGC CGC CGC CGC CGC CG
1 CGC CGC CGC CGC CGC CGC CGC CGC CG
6801912 TCTCGTCTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.65, G:0.35, T:0.00
Consensus pattern (3 bp):
CGC
Found at i:6802091 original size:42 final size:42
Alignment explanation
Indices: 6802029--6802207 Score: 281
Period size: 42 Copynumber: 4.3 Consensus size: 42
6802019 TGCAATTTTG
*
6802029 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* * *
6802071 GACTATCGCAACGAACTTGGAATAAACCGCAACGCGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
6802113 GACTATCGCAACGAATTTAGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
6802155 GACTATCGCAACGAATTTAG-A-AAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
6802195 AACTATCGCAACG
1 GACTATCGCAACG
6802208 CGAACTTGGA
Statistics
Matches: 129, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 31 0.24
41 1 0.01
42 97 0.75
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:6802162 original size:21 final size:21
Alignment explanation
Indices: 6802026--6802232 Score: 160
Period size: 21 Copynumber: 10.0 Consensus size: 21
6802016 CGTTGCAATT
*
6802026 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
6802045 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
6802068 TTTGACTATCGCAA--CGAAC
1 TTGGACTATCGCAACGCGAAC
* *
6802087 TTGGAATAAACCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
6802110 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
* *
6802129 TTAGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
* *
6802152 TTCGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
* **
6802171 TTAGAAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
**
6802192 TTCAACTATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
*
6802213 TTGGACTATCGCAATGCGAA
1 TTGGACTATCGCAACGCGAA
6802233 TATGTAAATC
Statistics
Matches: 147, Mismatches: 27, Indels: 26
0.74 0.14 0.13
Matches are distributed among these distances:
19 40 0.27
21 78 0.53
23 29 0.20
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:6806587 original size:60 final size:60
Alignment explanation
Indices: 6806515--6806628 Score: 167
Period size: 60 Copynumber: 1.9 Consensus size: 60
6806505 TAAAATGATG
* *
6806515 ATTATAAGATATTATTTTATTGAGT-TATTTAATTATTAAAAATTATAAAATGATATATTA
1 ATTATAAAATATTATTTTATTGAGTAT-TTTAACTATTAAAAATTATAAAATGATATATTA
* * *
6806575 ATTATAAAATATTATTTTATTGAGTATTTTGACTATTAATAGTTATAAAATGAT
1 ATTATAAAATATTATTTTATTGAGTATTTTAACTATTAAAAATTATAAAATGAT
6806629 CATTTGACTA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
60 47 0.98
61 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.08, T:0.48
Consensus pattern (60 bp):
ATTATAAAATATTATTTTATTGAGTATTTTAACTATTAAAAATTATAAAATGATATATTA
Found at i:6807649 original size:27 final size:28
Alignment explanation
Indices: 6807597--6807663 Score: 118
Period size: 27 Copynumber: 2.4 Consensus size: 28
6807587 TTCATACGAC
6807597 ACTAAGATGACACTTTTTTTTTTATAAA
1 ACTAAGATGACACTTTTTTTTTTATAAA
6807625 ACTAAGATGACAC-TTTTTTTTTATAAA
1 ACTAAGATGACACTTTTTTTTTTATAAA
*
6807652 ACTAAGGTGACA
1 ACTAAGATGACA
6807664 TACTTATATT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 25 0.66
28 13 0.34
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.40
Consensus pattern (28 bp):
ACTAAGATGACACTTTTTTTTTTATAAA
Found at i:6807941 original size:21 final size:21
Alignment explanation
Indices: 6807916--6807963 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
6807906 CCTAATATTG
6807916 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
6807937 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
*
6807958 TAATGT
1 CAATGT
6807964 TTGAAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (21 bp):
CAATGTCAAAATTAGGTGCAA
Found at i:6815192 original size:31 final size:31
Alignment explanation
Indices: 6815157--6815218 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
6815147 ATTAAATTTA
6815157 AGTTCATTCGTTTAATTTTTCAAGAGAAATT
1 AGTTCATTCGTTTAATTTTTCAAGAGAAATT
6815188 AGTTCATTCGTTTAATTTTTCAAGAGAAATT
1 AGTTCATTCGTTTAATTTTTCAAGAGAAATT
6815219 TACGAAGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (31 bp):
AGTTCATTCGTTTAATTTTTCAAGAGAAATT
Found at i:6815396 original size:10 final size:11
Alignment explanation
Indices: 6815373--6815397 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6815363 TTTAAGTGCA
6815373 TTTCTTATTTT
1 TTTCTTATTTT
6815384 TTTCTTATTTT
1 TTTCTTATTTT
6815395 TTT
1 TTT
6815398 ATAAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTCTTATTTT
Found at i:6831002 original size:12 final size:12
Alignment explanation
Indices: 6830985--6831009 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6830975 TGAGACATGA
6830985 GCACGACTCCTG
1 GCACGACTCCTG
6830997 GCACGACTCCTG
1 GCACGACTCCTG
6831009 G
1 G
6831010 ATTGACGCGG
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:0.16, C:0.40, G:0.28, T:0.16
Consensus pattern (12 bp):
GCACGACTCCTG
Found at i:6831961 original size:18 final size:19
Alignment explanation
Indices: 6831933--6831988 Score: 53
Period size: 18 Copynumber: 3.0 Consensus size: 19
6831923 TCTTCTTATT
6831933 TTTACTTTAATTATTTTTA
1 TTTACTTTAATTATTTTTA
***
6831952 TTTA-TTTAATCGCTTTTA
1 TTTACTTTAATTATTTTTA
*
6831970 -TTATTTTAATATATTTTTA
1 TTTACTTTAAT-TATTTTTA
6831989 CTAAAATTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
17 3 0.10
18 17 0.59
19 9 0.31
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTACTTTAATTATTTTTA
Found at i:6837157 original size:60 final size:60
Alignment explanation
Indices: 6837033--6837194 Score: 154
Period size: 60 Copynumber: 2.7 Consensus size: 60
6837023 GTGTATGCGT
* * * * * * *
6837033 ATAGTTTGGGATGAAGTTTG-AATGTTCAAAAAGTTTGGGGACCAATTTAGAATGGAAGTT
1 ATAGTTTGGGATGAAGATTGAAATATTC-AAAAGTTTAGGGACAAATTGAGAATGGAAATC
*
6837093 ATAGTTTGGGGATGAA-ATTGAAATATTCAAAAGTTTAAGGACAAATTGAGAAT-GATAATC
1 ATAGTTT-GGGATGAAGATTGAAATATTCAAAAGTTTAGGGACAAATTGAGAATGGA-AATC
* *
6837153 ATAGTTAAT-GGAT-AAGATTGAAATATTTAAAAATTTAGGGAC
1 ATAGTT--TGGGATGAAGATTGAAATATTCAAAAGTTTAGGGAC
6837195 TAGTTTAAAA
Statistics
Matches: 85, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
59 4 0.05
60 66 0.78
61 14 0.16
62 1 0.01
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.32
Consensus pattern (60 bp):
ATAGTTTGGGATGAAGATTGAAATATTCAAAAGTTTAGGGACAAATTGAGAATGGAAATC
Found at i:6842407 original size:31 final size:31
Alignment explanation
Indices: 6842372--6842464 Score: 186
Period size: 31 Copynumber: 3.0 Consensus size: 31
6842362 TCTTTCAATC
6842372 TAGTCATCAAACCAATTAATTTAAATTCCAA
1 TAGTCATCAAACCAATTAATTTAAATTCCAA
6842403 TAGTCATCAAACCAATTAATTTAAATTCCAA
1 TAGTCATCAAACCAATTAATTTAAATTCCAA
6842434 TAGTCATCAAACCAATTAATTTAAATTCCAA
1 TAGTCATCAAACCAATTAATTTAAATTCCAA
6842465 AATTAAAATC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.32
Consensus pattern (31 bp):
TAGTCATCAAACCAATTAATTTAAATTCCAA
Found at i:6852109 original size:19 final size:19
Alignment explanation
Indices: 6852085--6852122 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6852075 CAATCCTAAC
6852085 AATTAGGCTATAATTTAGG
1 AATTAGGCTATAATTTAGG
6852104 AATTAGGCTATAATTTAGG
1 AATTAGGCTATAATTTAGG
6852123 CAACTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (19 bp):
AATTAGGCTATAATTTAGG
Found at i:6856540 original size:8 final size:8
Alignment explanation
Indices: 6856468--6856564 Score: 57
Period size: 8 Copynumber: 12.9 Consensus size: 8
6856458 TAGAAATAAA
*
6856468 ATAAATAG
1 ATAAATAT
6856476 ATAAATAT
1 ATAAATAT
*
6856484 ATATATAT
1 ATAAATAT
*
6856492 ATATATAT
1 ATAAATAT
* *
6856500 TTACAT-T
1 ATAAATAT
6856507 ACTAAATA-
1 A-TAAATAT
6856515 AT-AATA-
1 ATAAATAT
6856521 AT-AATA-
1 ATAAATAT
6856527 ATTAAATAT
1 A-TAAATAT
*
6856536 ATAAACAT
1 ATAAATAT
6856544 ATAAA-AT
1 ATAAATAT
*
6856551 TTAAA-AT
1 ATAAATAT
6856558 ATAAATA
1 ATAAATA
6856565 AACAATAATT
Statistics
Matches: 74, Mismatches: 9, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
6 11 0.15
7 15 0.20
8 47 0.64
9 1 0.01
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (8 bp):
ATAAATAT
Found at i:6856576 original size:22 final size:22
Alignment explanation
Indices: 6856523--6856582 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
6856513 TAATAATAAT
* *
6856523 AATAATTAAATATATAAACATAT
1 AATAATTAAA-ATATAAACAAAC
*
6856546 AA-AATTTAAAATATAAATAAAC
1 AATAA-TTAAAATATAAACAAAC
6856568 AATAATTAAAATATA
1 AATAATTAAAATATA
6856583 CATTAAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
22 23 0.72
23 9 0.28
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (22 bp):
AATAATTAAAATATAAACAAAC
Found at i:6857790 original size:3 final size:3
Alignment explanation
Indices: 6857784--6857850 Score: 82
Period size: 3 Copynumber: 22.0 Consensus size: 3
6857774 ATTTATTATT
* *
6857784 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAT TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
*
6857830 TAA TAA -ATT TAA TAA TAA TAA
1 TAA TAA TA-A TAA TAA TAA TAA
6857851 ATAAAAAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
2 1 0.02
3 53 0.93
4 3 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:6857842 original size:25 final size:25
Alignment explanation
Indices: 6857784--6857854 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 25
6857774 ATTTATTATT
6857784 TAATAATAATAATAAT-AATAATAA
1 TAATAATAATAATAATAAATAATAA
* *
6857808 TAATAATAATATTATTAAATAATAA
1 TAATAATAATAATAATAAATAATAA
*
6857833 TAA-ATTTAATAATAATAAATAA
1 TAATA-ATAATAATAATAAATAA
6857855 AAAAATGAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
24 15 0.38
25 25 0.62
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
TAATAATAATAATAATAAATAATAA
Found at i:6858385 original size:139 final size:139
Alignment explanation
Indices: 6858067--6858413 Score: 416
Period size: 139 Copynumber: 2.5 Consensus size: 139
6858057 CTAGCAAAAA
* *
6858067 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTTTTCAGATGAGTTCTTCTCATTATGAA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATCTTCAGATGAGTTCTTCTCATTATGAA
* * * * * *
6858132 C-TCCTTCTATAAATGCTAATCTTCAAAAGAGGGATTTGTTGATTCAACTCCCTATGTGATGAAT
66 CTTCCTTCTATAAATACTAATCCTCAAAAGAGGGATTTGTTCATTCAACTCCATAGGAGATGAAT
* **
6858196 TAAGGTAAG
131 CAAGACAAG
* *
6858205 GTTGAACAAATTATTCTTATTATGAACTTCTTCTTCATCTTCAGATGAGTTCTTCTCATTATGAA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATCTTCAGATGAGTTCTTCTCATTATGAA
* * * * *
6858270 CTTCC-TCTGA-AAATATTGATCCT-AAAATGA-GGTTCTTCTTTCATTCAATTCCATAGGAGAT
66 CTTCCTTCT-ATAAATACTAATCCTCAAAA-GAGGGAT-TT-GTTCATTCAACTCCATAGGAGAT
*
6858331 GAATCAATACAAG
127 GAATCAAGACAAG
* * *
6858344 GTTGAACAAATTCTTCTCATTATGAACTTCTCCTTCCTCTTCAGATGAGTTTTTCTCATTAATGA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATCTTCAGATGAGTTCTTCTCATT-ATGA
6858409 ACTTC
65 ACTTC
6858414 ACCTAGAAAT
Statistics
Matches: 179, Mismatches: 24, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
137 7 0.04
138 78 0.44
139 85 0.47
140 9 0.05
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.40
Consensus pattern (139 bp):
GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATCTTCAGATGAGTTCTTCTCATTATGAA
CTTCCTTCTATAAATACTAATCCTCAAAAGAGGGATTTGTTCATTCAACTCCATAGGAGATGAAT
CAAGACAAG
Found at i:6858811 original size:124 final size:123
Alignment explanation
Indices: 6858665--6859116 Score: 694
Period size: 124 Copynumber: 3.7 Consensus size: 123
6858655 TGAATTCAAA
** * *
6858665 CAAAAGGTTGAACAAATTCTTCTGATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* ** * *
6858730 TTATGAACTTTCTCCAGAAATA-TCAATGCTTATCCATCTCCTTTTGTGATAGAGTCATG
66 TTATGAACTTCCTCTGGAAA-AGTTAATG-TGATCCATCTCCTTTTGTGATAGAGTCATG
* *
6858789 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTATTTTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
6858854 TTATGAACTTCCTCTGGAAAAGTTAAT-TGATCCATCTCCTTTTGTGATAGAGTCATG
66 TTATGAACTTCCTCTGGAAAAGTTAATGTGATCCATCTCCTTTTGTGATAGAGTCATG
*
6858911 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * *
6858976 TTATGAACTTCCTCTGGAAAAGTTAACGATGATCTATCTCCTTCTGTGATAGAGTCATG
66 TTATGAACTTCCTCTGGAAAAGTTAATG-TGATCCATCTCCTTTTGTGATAGAGTCATG
* *
6859035 CAAAAGGTTGAACAAGCTCTTCTCATTATTAACTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
6859100 TTATGAAC-TCTCTCTGG
66 TTATGAACTTC-CTCTGG
6859117 CATGTTGATC
Statistics
Matches: 304, Mismatches: 20, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
122 117 0.38
123 3 0.01
124 184 0.61
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (123 bp):
CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTCCTCTGGAAAAGTTAATGTGATCCATCTCCTTTTGTGATAGAGTCATG
Found at i:6858976 original size:246 final size:246
Alignment explanation
Indices: 6858665--6859116 Score: 728
Period size: 246 Copynumber: 1.8 Consensus size: 246
6858655 TGAATTCAAA
*
6858665 CAAAAGGTTGAACAAATTCTTCTGATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * *
6858730 TTATGAACTTTCTCCAGAAATA-TCAATGCTTATCCATCTCCTTTTGTGATAGAGTCATGCAAAA
66 TTATGAACTTCCTCCAGAAA-AGTCAACGATGATCCATCTCCTTCTGTGATAGAGTCATGCAAAA
*
6858794 GGTTGAACAAGCTCTTCTCATTATGAACTTATTTTTCCTTCTTCAGATGAGTTCTTCTCATTATG
130 GGTTGAACAAGCTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
6858859 AACT-TCCTCTGGAAAAGTTAATTGATCCATCTCCTTTTGTGATAGAGTCATG
195 AACTCT-CTCTGGAAAAGTTAATTGATCCATCTCCTTTTGTGATAGAGTCATG
* *
6858911 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
** * *
6858976 TTATGAACTTCCTCTGGAAAAGTTAACGATGATCTATCTCCTTCTGTGATAGAGTCATGCAAAAG
66 TTATGAACTTCCTCCAGAAAAGTCAACGATGATCCATCTCCTTCTGTGATAGAGTCATGCAAAAG
* * *
6859041 GTTGAACAAGCTCTTCTCATTATTAACTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGA
131 GTTGAACAAGCTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
6859106 ACTCTCTCTGG
196 ACTCTCTCTGG
6859117 CATGTTGATC
Statistics
Matches: 188, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
245 1 0.01
246 186 0.99
247 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (246 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTCCTCCAGAAAAGTCAACGATGATCCATCTCCTTCTGTGATAGAGTCATGCAAAAG
GTTGAACAAGCTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
ACTCTCTCTGGAAAAGTTAATTGATCCATCTCCTTTTGTGATAGAGTCATG
Found at i:6860653 original size:19 final size:18
Alignment explanation
Indices: 6860648--6860689 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
6860638 TTTCTTCTTT
6860648 TATTTTCTTCTTTTATTTTC
1 TATTTTC-TCTTTT-TTTTC
6860668 T-TTTTCTCTTTTTTTTC
1 TATTTTCTCTTTTTTTTC
6860685 TATTT
1 TATTT
6860690 CATTTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.29
18 9 0.43
19 5 0.24
20 1 0.05
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (18 bp):
TATTTTCTCTTTTTTTTC
Found at i:6860679 original size:13 final size:13
Alignment explanation
Indices: 6860632--6860669 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
6860622 GACCCTCCTT
6860632 TTTTATTTTCTTC
1 TTTTATTTTCTTC
6860645 TTTTATTTTCTTC
1 TTTTATTTTCTTC
6860658 TTTTATTTTCTT
1 TTTTATTTTCTT
6860670 TTTCTCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTATTTTCTTC
Found at i:6860685 original size:17 final size:19
Alignment explanation
Indices: 6860650--6860690 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
6860640 TCTTCTTTTA
6860650 TTTTCTTCTTTTATTTTCT
1 TTTTCTTCTTTTATTTTCT
6860669 TTTTC-TCTTTT-TTTTCT
1 TTTTCTTCTTTTATTTTCT
*
6860686 ATTTC
1 TTTTC
6860691 ATTTTTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.48
18 6 0.29
19 5 0.24
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTCTTCTTTTATTTTCT
Found at i:6860694 original size:29 final size:32
Alignment explanation
Indices: 6860637--6860695 Score: 79
Period size: 29 Copynumber: 1.9 Consensus size: 32
6860627 TCCTTTTTTA
* *
6860637 TTTTCTTCTTTTATTTTCTTCTTTTATTTTCT
1 TTTTCTTCTTTTATTTTCTTATTTCATTTTCT
6860669 TTTTC-TCTTTT-TTTTC-TATTTCATTTT
1 TTTTCTTCTTTTATTTTCTTATTTCATTTT
6860696 TTCTTCAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 9 0.36
30 5 0.20
31 6 0.24
32 5 0.20
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (32 bp):
TTTTCTTCTTTTATTTTCTTATTTCATTTTCT
Found at i:6860696 original size:17 final size:16
Alignment explanation
Indices: 6860655--6860697 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
6860645 TTTTATTTTC
* *
6860655 TTCTTTTATTTTCTTT
1 TTCTTTTTTTTTCTAT
6860671 TTCTCTTTTTTTTCTAT
1 TTCT-TTTTTTTTCTAT
6860688 TTCATTTTTT
1 TTC-TTTTTT
6860698 CTTCAAGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 4 0.17
17 18 0.78
18 1 0.04
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (16 bp):
TTCTTTTTTTTTCTAT
Found at i:6868058 original size:15 final size:15
Alignment explanation
Indices: 6868035--6868066 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6868025 TGCAATGAAT
6868035 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
6868050 AATGCATGTATGCAA
1 AATGAATGTATGCAA
6868065 AA
1 AA
6868067 GGTATTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:6871415 original size:28 final size:28
Alignment explanation
Indices: 6871360--6871435 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 28
6871350 AATAAAACAT
6871360 TAATAAAATAATATAAATATTATGAAAA
1 TAATAAAATAATATAAATATTATGAAAA
* * *
6871388 TAAT-AAATATATATAAATTTTTTTAAAA
1 TAATAAAATA-ATATAAATATTATGAAAA
* *
6871416 AAATAAAA-AAT-TAAAAATTA
1 TAATAAAATAATATAAATATTA
6871436 AATATATATG
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
26 6 0.15
27 7 0.18
28 23 0.59
29 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (28 bp):
TAATAAAATAATATAAATATTATGAAAA
Found at i:6872149 original size:22 final size:25
Alignment explanation
Indices: 6872106--6872155 Score: 70
Period size: 22 Copynumber: 2.1 Consensus size: 25
6872096 TTTACATTAC
6872106 TAAATAAACATATAAAATTTAAAATA
1 TAAATAAACATAT-AAATTTAAAATA
6872132 TAAATAAACA-AT-AA-TTAAAATA
1 TAAATAAACATATAAATTTAAAATA
6872154 TA
1 TA
6872156 CATTAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 10 0.42
23 2 0.08
25 2 0.08
26 10 0.42
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (25 bp):
TAAATAAACATATAAATTTAAAATA
Found at i:6873493 original size:12 final size:12
Alignment explanation
Indices: 6873476--6873539 Score: 74
Period size: 12 Copynumber: 5.0 Consensus size: 12
6873466 TATTTATTAT
*
6873476 TTAATAAAAATA
1 TTAATAATAATA
*
6873488 TTAATATTAATA
1 TTAATAATAATA
6873500 TTAATAATAATA
1 TTAATAATAATA
6873512 TTAAATAATAATAAAA
1 TT-AATAATAAT---A
6873528 TTAATAATAATA
1 TTAATAATAATA
6873540 AATAAATAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
12 24 0.53
13 9 0.20
15 9 0.20
16 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
TTAATAATAATA
Found at i:6873509 original size:3 final size:3
Alignment explanation
Indices: 6873477--6873540 Score: 58
Period size: 3 Copynumber: 21.0 Consensus size: 3
6873467 ATTTATTATT
* * * * *
6873477 TAA TAA AAA TAT TAA TAT TAA TAT TAA TAA TAA TAT TAAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
6873523 TAA -AA TTAA TAA TAA TAA
1 TAA TAA -TAA TAA TAA TAA
6873541 ATAAATAAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
2 2 0.04
3 42 0.88
4 4 0.08
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:6875965 original size:30 final size:30
Alignment explanation
Indices: 6875910--6875968 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
6875900 AAGTTTTTAC
*
6875910 TTATTTTGACCAAAAAATAACTTTAAATAT
1 TTATTTTGACAAAAAAATAACTTTAAATAT
*
6875940 TTATTTTGACTAAAAAAAT-ATTTTAAATA
1 TTATTTTGAC-AAAAAAATAACTTTAAATA
6875969 CTCAAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (30 bp):
TTATTTTGACAAAAAAATAACTTTAAATAT
Found at i:6879204 original size:15 final size:16
Alignment explanation
Indices: 6879184--6879222 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
6879174 GTATATTTCA
6879184 GAATGATT-AAACGCT
1 GAATGATTCAAACGCT
* *
6879199 GAATGATTCAAATGTT
1 GAATGATTCAAACGCT
6879215 GAATGATT
1 GAATGATT
6879223 TAGAGGCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (16 bp):
GAATGATTCAAACGCT
Found at i:6880198 original size:31 final size:31
Alignment explanation
Indices: 6880162--6880223 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
6880152 TGACCACATC
*
6880162 CTTAATTAAATAAAAACGAAAGTGACAATAT
1 CTTAATTAAATAAAAACAAAAGTGACAATAT
* * *
6880193 CTTAATTCAATAAAAATAAAAGTGACCATAT
1 CTTAATTAAATAAAAACAAAAGTGACAATAT
6880224 ATTATATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.27
Consensus pattern (31 bp):
CTTAATTAAATAAAAACAAAAGTGACAATAT
Found at i:6881556 original size:31 final size:32
Alignment explanation
Indices: 6881521--6881580 Score: 113
Period size: 31 Copynumber: 1.9 Consensus size: 32
6881511 TCTCCGTTAC
6881521 ACTTTTAGGTGTCTACCGTT-ATATTTTTGGA
1 ACTTTTAGGTGTCTACCGTTAATATTTTTGGA
6881552 ACTTTTAGGTGTCTACCGTTAATATTTTT
1 ACTTTTAGGTGTCTACCGTTAATATTTTT
6881581 AATTTTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 20 0.71
32 8 0.29
ACGTcount: A:0.20, C:0.13, G:0.17, T:0.50
Consensus pattern (32 bp):
ACTTTTAGGTGTCTACCGTTAATATTTTTGGA
Found at i:6881967 original size:18 final size:18
Alignment explanation
Indices: 6881921--6881968 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
6881911 ACAAAAAATG
*
6881921 TAAAATTTGAAGT-TTTTT
1 TAAAATTT-AAATATTTTT
*
6881939 TAAAA-TAAAATATTTTT
1 TAAAATTTAAATATTTTT
6881956 TAAAATTTAAATA
1 TAAAATTTAAATA
6881969 CGTGACATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 3 0.12
17 11 0.44
18 11 0.44
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (18 bp):
TAAAATTTAAATATTTTT
Found at i:6886030 original size:31 final size:31
Alignment explanation
Indices: 6885980--6886069 Score: 114
Period size: 31 Copynumber: 3.0 Consensus size: 31
6885970 AAATTTTATA
6885980 TAAAAGAT--TAATTTGAATTTATAAAATTT
1 TAAAAGATACTAATTTGAATTTATAAAATTT
*
6886009 TAAAAGATACTAACTTGAATTTATAAAATTT
1 TAAAAGATACTAATTTGAATTTATAAAATTT
* * *
6886040 TAAGA-ATGACGAATTTGAACTTATAAAATT
1 TAAAAGAT-ACTAATTTGAATTTATAAAATT
6886070 CTAATTGCTT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
29 8 0.15
30 2 0.04
31 43 0.81
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (31 bp):
TAAAAGATACTAATTTGAATTTATAAAATTT
Found at i:6886288 original size:30 final size:29
Alignment explanation
Indices: 6886226--6886316 Score: 101
Period size: 30 Copynumber: 3.1 Consensus size: 29
6886216 TCAATAAGTG
* ** **
6886226 AATACTTTATGTATCTATTCCGATTCAAA
1 AATACTTTAAGTATCTATTTTGATAAAAA
*
6886255 AATATTTTAAGTATCTATTTTGACTAAAAA
1 AATACTTTAAGTATCTATTTTGA-TAAAAA
*
6886285 AATACTTTGAGTATCTATTTTGATAAATAA
1 AATACTTTAAGTATCTATTTTGATAAA-AA
6886315 AA
1 AA
6886317 AAAGACAACT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
29 23 0.44
30 29 0.56
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.42
Consensus pattern (29 bp):
AATACTTTAAGTATCTATTTTGATAAAAA
Done.