Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001423.1 Hibiscus syriacus cultivar Beakdansim tig00002762_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: 97847
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:1571 original size:21 final size:20
Alignment explanation
Indices: 1533--1571 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1523 TGTTAAGTTT
*
1533 TTAATAAAAAAATATTAAAA
1 TTAAAAAAAAAATATTAAAA
*
1553 TTAAAAAAATAAATGTTAA
1 TTAAAAAAA-AAATATTAA
1572 GTATGATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (20 bp):
TTAAAAAAAAAATATTAAAA
Found at i:8702 original size:12 final size:11
Alignment explanation
Indices: 8677--8708 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
8667 GAAAATTAAT
8677 ATTTTTAAAGA
1 ATTTTTAAAGA
8688 ATTTTTAAAGA
1 ATTTTTAAAGA
*
8699 AATTTTAAAG
1 ATTTTTAAAG
8709 TTTTTATTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (11 bp):
ATTTTTAAAGA
Found at i:12405 original size:15 final size:15
Alignment explanation
Indices: 12369--12410 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
12359 ATCTTTTTCT
* *
12369 CTTCATTTCATCCTC
1 CTTCATTTCCTCTTC
12384 C-TCATTTCCTCTTC
1 CTTCATTTCCTCTTC
*
12398 CTTCATTTTCTCT
1 CTTCATTTCCTCT
12411 AAGTAGCCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.10, C:0.38, G:0.00, T:0.52
Consensus pattern (15 bp):
CTTCATTTCCTCTTC
Found at i:13228 original size:15 final size:14
Alignment explanation
Indices: 13204--13241 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
13194 GAAAAAAAAA
13204 AGTTTGGTTAATTC
1 AGTTTGGTTAATTC
13218 AGTTATGGTTAATTC
1 AGTT-TGGTTAATTC
*
13233 AGTTCGGTT
1 AGTTTGGTT
13242 TTAACCGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.21, C:0.08, G:0.24, T:0.47
Consensus pattern (14 bp):
AGTTTGGTTAATTC
Found at i:13665 original size:21 final size:22
Alignment explanation
Indices: 13624--13669 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
13614 CATATTATTG
*
13624 ACAGGGAACCGATTCCCCTGCT
1 ACAGGGAACCGATTACCCTGCT
13646 ACAGGGAACCGA-TACCCTGCT
1 ACAGGGAACCGATTACCCTGCT
13667 ACA
1 ACA
13670 TTACTGCTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.28, C:0.35, G:0.22, T:0.15
Consensus pattern (22 bp):
ACAGGGAACCGATTACCCTGCT
Found at i:13911 original size:24 final size:24
Alignment explanation
Indices: 13884--13957 Score: 130
Period size: 24 Copynumber: 3.1 Consensus size: 24
13874 AGTGTTGTTG
* *
13884 TTCTTGCCACTTCTATTTCTGTTA
1 TTCTTGCAACTTCTATTTCTGCTA
13908 TTCTTGCAACTTCTATTTCTGCTA
1 TTCTTGCAACTTCTATTTCTGCTA
13932 TTCTTGCAACTTCTATTTCTGCTA
1 TTCTTGCAACTTCTATTTCTGCTA
13956 TT
1 TT
13958 ATTGGTTCTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.15, C:0.24, G:0.08, T:0.53
Consensus pattern (24 bp):
TTCTTGCAACTTCTATTTCTGCTA
Found at i:14326 original size:21 final size:22
Alignment explanation
Indices: 14272--14331 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 22
14262 TGAAATTTTA
** *
14272 TCCCGAAGGATTTGTGAGTATG
1 TCCCGAAGGACCTATGAGTATG
*
14294 TCCTGAAGGACCTATGAGT-TG
1 TCCCGAAGGACCTATGAGTATG
*
14315 TCCCGAATGACCTATGA
1 TCCCGAAGGACCTATGA
14332 AACCCTCGAC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 17 0.53
22 15 0.47
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (22 bp):
TCCCGAAGGACCTATGAGTATG
Found at i:15230 original size:16 final size:16
Alignment explanation
Indices: 15206--15246 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
15196 TTTTTCATAA
*
15206 ATTCACTTTGAAACCC
1 ATTCTCTTTGAAACCC
15222 ATTCTCTTTGAAACCC
1 ATTCTCTTTGAAACCC
15238 ATTCTCTTT
1 ATTCTCTTT
15247 AATCTTCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.24, C:0.29, G:0.05, T:0.41
Consensus pattern (16 bp):
ATTCTCTTTGAAACCC
Found at i:18351 original size:34 final size:32
Alignment explanation
Indices: 18291--18360 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
18281 ACCTTACAAC
* *
18291 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGAGCTAAACTAGAACCTT
*
18323 TCCCTAGCTTTTACACGAGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGAGCTAAACTAGAACCTT
18357 TCCC
1 TCCC
18361 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGAGCTAAACTAGAACCTT
Found at i:18666 original size:21 final size:21
Alignment explanation
Indices: 18642--18684 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
18632 CCCAGAATAG
* *
18642 AGGGAATCGGTACCTCTTCAT
1 AGGGAATCGATACCCCTTCAT
18663 AGGGAATCGATACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
18684 A
1 A
18685 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (21 bp):
AGGGAATCGATACCCCTTCAT
Found at i:18819 original size:21 final size:21
Alignment explanation
Indices: 18790--18872 Score: 79
Period size: 21 Copynumber: 4.2 Consensus size: 21
18780 GAGGCAAAAA
18790 CCTGCAGGGGGTATCTATACCC
1 CCTG-AGGGGGTATCTATACCC
*
18812 CCTGAGGGGGTATCTGTA--C
1 CCTGAGGGGGTATCTATACCC
*
18831 CC----GGGGTATCTGTACCC
1 CCTGAGGGGGTATCTATACCC
* *
18848 CCTGGGGGGGAATCTATACCC
1 CCTGAGGGGGTATCTATACCC
18869 CCTG
1 CCTG
18873 GGCAATCTTG
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
15 12 0.23
17 3 0.06
19 3 0.06
21 30 0.58
22 4 0.08
ACGTcount: A:0.16, C:0.30, G:0.31, T:0.23
Consensus pattern (21 bp):
CCTGAGGGGGTATCTATACCC
Found at i:18838 original size:15 final size:15
Alignment explanation
Indices: 18818--18847 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
18808 ACCCCCTGAG
18818 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
18833 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
18848 CCTGGGGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (15 bp):
GGGGTATCTGTACCC
Found at i:18847 original size:36 final size:36
Alignment explanation
Indices: 18797--18868 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
18787 AAACCTGCAG
* *
18797 GGGGTATCTATACCCCCTGAGGGGGTATCTGTACCC
1 GGGGTATCTATACCCCCTGAGGGGGAATCTATACCC
* *
18833 GGGGTATCTGTACCCCCTGGGGGGGAATCTATACCC
1 GGGGTATCTATACCCCCTGAGGGGGAATCTATACCC
18869 CCTGGGCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.17, C:0.28, G:0.32, T:0.24
Consensus pattern (36 bp):
GGGGTATCTATACCCCCTGAGGGGGAATCTATACCC
Found at i:18995 original size:28 final size:31
Alignment explanation
Indices: 18964--19022 Score: 97
Period size: 28 Copynumber: 2.0 Consensus size: 31
18954 AAACTTTGAA
18964 TAAATTCAATT-AAGTCC-AAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
18992 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
19023 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 11 0.39
29 6 0.21
30 4 0.14
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.34
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:19205 original size:21 final size:21
Alignment explanation
Indices: 19180--19228 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
19170 TAAGCTCCCC
19180 ATTTTTCT-TTAAGAAATTGAA
1 ATTTTTCTATTAAGAAATTG-A
*
19201 ATTTTTTTATTAAGAAATTGA
1 ATTTTTCTATTAAGAAATTGA
19222 ATTTTTC
1 ATTTTTC
19229 AAACCAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.53
Consensus pattern (21 bp):
ATTTTTCTATTAAGAAATTGA
Found at i:20343 original size:19 final size:20
Alignment explanation
Indices: 20300--20347 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
20290 TCTAAATCCT
*
20300 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
20320 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
20339 TTTTCAAAA
1 TTTTCAAAA
20348 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:21260 original size:34 final size:32
Alignment explanation
Indices: 21207--21276 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
21197 ACCTTACAAC
* *
21207 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACATT
*
21239 TCCCTAGCTTTTACACGGGCTAAGCTAGAACATT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACATT
21273 TCCC
1 TCCC
21277 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACATT
Found at i:21516 original size:20 final size:22
Alignment explanation
Indices: 21491--21530 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
21481 AGTCGTATAT
21491 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
21511 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
21531 TATACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:21582 original size:21 final size:21
Alignment explanation
Indices: 21558--21600 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
21548 CCCAGAATAG
* *
21558 AGGGAATCGGTACCTCTTCAT
1 AGGGAATCGATACCCCTTCAT
21579 AGGGAATCGATACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
21600 A
1 A
21601 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (21 bp):
AGGGAATCGATACCCCTTCAT
Found at i:21676 original size:22 final size:21
Alignment explanation
Indices: 21636--21675 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
21626 CTGTTGAACA
21636 GGGGGGGAATCGGTACCCCAT
1 GGGGGGGAATCGGTACCCCAT
21657 GGGGGGGAATCGGTACCCC
1 GGGGGGGAATCGGTACCCC
21676 CTGGACATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.25, G:0.45, T:0.12
Consensus pattern (21 bp):
GGGGGGGAATCGGTACCCCAT
Found at i:21738 original size:20 final size:20
Alignment explanation
Indices: 21713--21789 Score: 92
Period size: 20 Copynumber: 4.1 Consensus size: 20
21703 AAAACCTGCA
*
21713 GGGGGTATCTGTACCACCTG
1 GGGGGTATCTGTACCCCCTG
21733 GGGGGTATCTGTA--CCC--
1 GGGGGTATCTGTACCCCCTG
21749 -GGGGTATCTGTACCCCCTG
1 GGGGGTATCTGTACCCCCTG
* *
21768 GGGGGAATCTATACCCCCTG
1 GGGGGTATCTGTACCCCCTG
21788 GG
1 GG
21790 CAATCTTGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
15 12 0.24
17 3 0.06
18 2 0.04
20 32 0.65
ACGTcount: A:0.14, C:0.27, G:0.35, T:0.23
Consensus pattern (20 bp):
GGGGGTATCTGTACCCCCTG
Found at i:21753 original size:35 final size:35
Alignment explanation
Indices: 21714--21783 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
21704 AAACCTGCAG
* *
21714 GGGGTATCTGTACCACCTGGGGGGTATCTGTACCC
1 GGGGTATCTGTACCACCTGGGGGGAATCTATACCC
*
21749 GGGGTATCTGTACCCCCTGGGGGGAATCTATACCC
1 GGGGTATCTGTACCACCTGGGGGGAATCTATACCC
21784 CCTGGGCAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.16, C:0.27, G:0.33, T:0.24
Consensus pattern (35 bp):
GGGGTATCTGTACCACCTGGGGGGAATCTATACCC
Found at i:21754 original size:15 final size:15
Alignment explanation
Indices: 21734--21763 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
21724 TACCACCTGG
21734 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
21749 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
21764 CCTGGGGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (15 bp):
GGGGTATCTGTACCC
Found at i:21911 original size:29 final size:31
Alignment explanation
Indices: 21879--21937 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 31
21869 AAACTTTGAA
21879 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
21908 TAAATTCAATTCAAGTCCAAAAACCATTTT
1 TAAATTCAATTCAAGTCCAAAAACCATTTT
21938 TCCTTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:24722 original size:39 final size:39
Alignment explanation
Indices: 24679--24766 Score: 97
Period size: 39 Copynumber: 2.3 Consensus size: 39
24669 CGTGCACTTT
* ***
24679 TGGGGTCTTCTCCATTTGCTTGAAGATGTCATGCAATCG
1 TGGGGTCTTCTCCATTTGCATGAAGACACCATGCAATCG
* *
24718 TGGGGTCGTT-TTCATTTTCATGAAGACACCATGCAATCG
1 TGGGGTC-TTCTCCATTTGCATGAAGACACCATGCAATCG
*
24757 TGGAGTCTTC
1 TGGGGTCTTC
24767 ATATTTAGTT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
38 2 0.05
39 36 0.90
40 2 0.05
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.35
Consensus pattern (39 bp):
TGGGGTCTTCTCCATTTGCATGAAGACACCATGCAATCG
Found at i:25598 original size:29 final size:29
Alignment explanation
Indices: 25529--25599 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
25519 TTTAAAGGGC
25529 CAGTGGTATAATTGAAACGGAAATTAAAGTT
1 CAGTGGTATAATTGAAA--GAAATTAAAGTT
* *
25560 CAGTGCTATAATTGATAA-AATTTAAAGTT
1 CAGTGGTATAATTGA-AAGAAATTAAAGTT
*
25589 TAGTGGTATAA
1 CAGTGGTATAA
25600 ACGATATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
29 19 0.54
31 14 0.40
32 2 0.06
ACGTcount: A:0.41, C:0.06, G:0.20, T:0.34
Consensus pattern (29 bp):
CAGTGGTATAATTGAAAGAAATTAAAGTT
Found at i:27509 original size:17 final size:17
Alignment explanation
Indices: 27487--27527 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
27477 GGTAGCATGA
27487 CCGGTTCGTTAACCGGG
1 CCGGTTCGTTAACCGGG
*
27504 CCGGTTCGTTAACCGGT
1 CCGGTTCGTTAACCGGG
27521 CCGGTTC
1 CCGGTTC
27528 TGAAAACCAT
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:0.10, C:0.32, G:0.32, T:0.27
Consensus pattern (17 bp):
CCGGTTCGTTAACCGGG
Found at i:29361 original size:11 final size:11
Alignment explanation
Indices: 29345--29369 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
29335 TCGTCGTACA
29345 TTTCCGACGAG
1 TTTCCGACGAG
29356 TTTCCGACGAG
1 TTTCCGACGAG
29367 TTT
1 TTT
29370 TCTTTTATAT
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:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (11 bp):
TTTCCGACGAG
Found at i:29879 original size:2 final size:2
Alignment explanation
Indices: 29872--29907 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
29862 CTTGATTTAA
*
29872 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29908 TGATGATAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32143 original size:16 final size:16
Alignment explanation
Indices: 32119--32158 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
32109 TGACTAGTCC
*
32119 TTAAGCTCCATACAAT
1 TTAAACTCCATACAAT
32135 TTAAACTCCATACAAT
1 TTAAACTCCATACAAT
32151 TTAAACTC
1 TTAAACTC
32159 TAAAATTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.40, C:0.25, G:0.03, T:0.33
Consensus pattern (16 bp):
TTAAACTCCATACAAT
Found at i:32854 original size:23 final size:23
Alignment explanation
Indices: 32828--32875 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
32818 ATAAAGTACA
*
32828 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
32851 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
32874 AT
1 AT
32876 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:33331 original size:23 final size:23
Alignment explanation
Indices: 33302--33364 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
33292 ATATAACCAC
33302 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
33325 TATCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
33348 TACCTATTACATCATAT
1 TACCTATTACATTATAT
33365 GTTTACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:33841 original size:39 final size:39
Alignment explanation
Indices: 33787--33872 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 39
33777 CAAGTTGTAG
*
33787 ATTTTGATTTCCTTTTGCTTGGCATCACATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCACATGAGATTTGA
* * *
33826 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCACATGAGATTTGA
33865 ATTTTGAT
1 ATTTTGAT
33873 GAGCATCGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.48
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCACATGAGATTTGA
Found at i:34153 original size:18 final size:18
Alignment explanation
Indices: 34130--34166 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
34120 CGAAATATAT
34130 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
34148 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
34166 A
1 A
34167 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:34627 original size:23 final size:23
Alignment explanation
Indices: 34601--34663 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
34591 ATATAACCAC
34601 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
34624 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
34647 TACCTATTACATCATAT
1 TACCTATTACATTATAT
34664 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:35066 original size:25 final size:25
Alignment explanation
Indices: 35009--35074 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
34999 CACTCAAAAG
*
35009 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
35034 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
35059 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
35075 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:38689 original size:3 final size:3
Alignment explanation
Indices: 38681--38761 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
38671 ACTTGTTTGG
* * * **
38681 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
38729 AGC TTC ATC GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
38762 GTCAGCTTCA
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.23, C:0.35, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:38698 original size:12 final size:12
Alignment explanation
Indices: 38685--38773 Score: 88
Period size: 12 Copynumber: 7.4 Consensus size: 12
38675 GTTTGGATCA
* *
38685 TCATCTTCATCA
1 TCATCGTCATCT
* *
38697 TCATCATCATCA
1 TCATCGTCATCT
* *
38709 TCGTCATCATCT
1 TCATCGTCATCT
* *
38721 TCATCGCCAGCT
1 TCATCGTCATCT
*
38733 TCATCGTCATCA
1 TCATCGTCATCT
38745 TCATCGTCATCT
1 TCATCGTCATCT
*
38757 TCATCGTCAGCT
1 TCATCGTCATCT
38769 TCATC
1 TCATC
38774 TTCTGCGACC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:38704 original size:18 final size:18
Alignment explanation
Indices: 38685--38776 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 18
38675 GTTTGGATCA
* *
38685 TCATCTTCATCATCATCA
1 TCATCATCATCATCATCT
*
38703 TCATCATCGTCATCATCT
1 TCATCATCATCATCATCT
** * * *
38721 TCATCGCCAGCTTCATCG
1 TCATCATCATCATCATCT
*
38739 TCATCATCATCGTCATCT
1 TCATCATCATCATCATCT
* * *
38757 TCATCGTCAGCTTCATCT
1 TCATCATCATCATCATCT
38775 TC
1 TC
38777 TGCGACCGCT
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.37
Consensus pattern (18 bp):
TCATCATCATCATCATCT
Found at i:38737 original size:36 final size:36
Alignment explanation
Indices: 38697--38773 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
38687 ATCTTCATCA
*
38697 TCATCATCATCATCGTCATCATCTTCATCGCCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
* * *
38733 TCATCGTCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
38769 TCATC
1 TCATC
38774 TTCTGCGACC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.21, C:0.35, G:0.09, T:0.35
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGCCAGCT
Found at i:38776 original size:6 final size:6
Alignment explanation
Indices: 38685--38776 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
38675 GTTTGGATCA
* * * * * * * *
38685 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG CCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * * *
38733 TCATCG TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
38777 TGCGACCGCT
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.37
Consensus pattern (6 bp):
TCATCT
Found at i:40656 original size:199 final size:198
Alignment explanation
Indices: 40234--41190 Score: 1738
Period size: 199 Copynumber: 4.8 Consensus size: 198
40224 TTTAAATTAG
40234 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
40299 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
40363 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
40428 AAA
196 AAA
* * *
40431 TATCGAGACAAAATATATTAGTGTCGACATATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
40496 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
40561 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
40626 AAAA
195 AAAA
* * *
40630 TATCGACACAAACTATATTAGTGTCGACATATTATTTATACATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
40695 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
40760 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
40825 AAAA
195 AAAA
*
40829 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
40894 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTCGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
40959 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAAA
41024 AAAA
195 AAAA
*
41028 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAGA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* * *
41093 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
41158 TTGACACTTTT-TATATGGATCGACACTTTATGG
130 TCGACACTTTTATATATGGATCGACACTTTATGG
41191 TAAATTTGCC
Statistics
Matches: 738, Mismatches: 18, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
197 102 0.14
198 83 0.11
199 529 0.72
200 24 0.03
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (198 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
AAA
Found at i:41325 original size:18 final size:17
Alignment explanation
Indices: 41299--41344 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 17
41289 TTATATTCAC
41299 ATACAAAAATATAAATCGT
1 ATAC-AAAATATAAATC-T
41318 ATACAAAATTATAAATCT
1 ATACAAAA-TATAAATCT
41336 ATACAAAAT
1 ATACAAAAT
41345 TAACCCTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 1 0.04
18 13 0.50
19 12 0.46
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.28
Consensus pattern (17 bp):
ATACAAAATATAAATCT
Found at i:41345 original size:18 final size:19
Alignment explanation
Indices: 41299--41346 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
41289 TTATATTCAC
*
41299 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
41318 ATACAAAATTATAAATC-T
1 ATACAAAATTATAAATCGT
41336 ATACAAAATTA
1 ATACAAAATTA
41347 ACCCTACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.29
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:43173 original size:33 final size:33
Alignment explanation
Indices: 43136--43201 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
43126 CATCTTAATA
*
43136 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
43169 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
43202 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:43259 original size:21 final size:21
Alignment explanation
Indices: 43234--43298 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
43224 CCCCTTATGC
* *
43234 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
* *
43255 CTCTCGAGTTTCTCTACGACT
1 CTCTCAAGTTTCTCTTCGACT
**
43276 CGATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
43297 CT
1 CT
43299 TGATTGTCTT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.17, C:0.31, G:0.14, T:0.38
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:45537 original size:17 final size:18
Alignment explanation
Indices: 45515--45557 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
45505 ATATATCCGG
45515 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
45532 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
45552 TATCAT
1 TATCAT
45558 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:45575 original size:20 final size:19
Alignment explanation
Indices: 45520--45566 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
45510 TCCGGTATCA
45520 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
45539 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
45560 TTTTACC
1 TTTTACC
45567 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:45730 original size:20 final size:20
Alignment explanation
Indices: 45703--45749 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
45693 TCCGGTAACG
45703 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
45722 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
45743 TTTTACC
1 TTTTACC
45750 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:45963 original size:181 final size:181
Alignment explanation
Indices: 45487--45961 Score: 693
Period size: 183 Copynumber: 2.6 Consensus size: 181
45477 CGTACTTACG
* * *
45487 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
45552 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTTTAAAGTATCGACACATT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACA--TTTTTTAAAAGTATCGACACATT
*
45617 ATAGGCACTATAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
129 ATAGGCACTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
* *
45670 AAAGTATCGACACTTTTAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
45735 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
* *
45800 AGG-ATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGCA-CTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * * * *
45852 AAAGTACCGACACTTTAAATGTATCTGGTAGCGCTTGACCGGTTTTATCATTTCT-ATACCGGTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGGTT
* * *
45916 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
45962 AATTTGGATC
Statistics
Matches: 265, Mismatches: 24, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
180 1 0.00
181 68 0.26
182 97 0.37
183 99 0.37
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (181 bp):
AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGCACTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:45975 original size:182 final size:181
Alignment explanation
Indices: 45487--45976 Score: 664
Period size: 182 Copynumber: 2.7 Consensus size: 181
45477 CGTACTTACG
* * *
45487 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
45552 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTT-TTTTAAAGTATCGACACAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTAATTT---GTATCGACACAT
*
45616 TATAGGCACTATAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
128 TATAGGCACTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
* *
45670 AAAGTATCGACACTTTTAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* ** *
45735 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAA-AAGTATCGACACTTTA
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACA-TTTTTAATTTGTATCGACACATTA
* *
45799 TAGG-ATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
130 TAGGCA-CTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * * * *
45852 AAAGTACCGACACTTTAAATGTATCTGGTAGCGCTTGACCGGTTTTATCATTTCT-ATACCGGTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGGTT
* * * *
45916 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTTAATTTGGATCGACAC
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTAATTTGTATCGACAC
45977 GAACCGGTAG
Statistics
Matches: 272, Mismatches: 29, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
180 1 0.00
181 66 0.24
182 101 0.37
183 99 0.36
184 5 0.02
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.42
Consensus pattern (181 bp):
AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTAATTTGTATCGACACATTAT
AGGCACTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:46484 original size:229 final size:229
Alignment explanation
Indices: 46028--46510 Score: 860
Period size: 230 Copynumber: 2.1 Consensus size: 229
46018 ACCTACTTTT
46028 ATAAGTATGGACACTTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTCA
46093 ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
66 ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
*
46158 ATATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
131 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
* *
46223 AAAATATAATAATAAATATGTTTTCAACAGTGAA
196 AAAAGATAATAATAAATATATTTTCAACAGTGAA
* *
46257 ATAAATATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTCA
* *
46322 ATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
66 A-TTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAA
*
46387 AAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGATTTTAAATTTAACAATATTAA
130 AAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAA
*
46452 CTAAAGATAATAATAAATATATTTTC-ACAGTGAA
195 CAAAAGATAATAATAAATATATTTTCAACAGTGAA
*
46486 ATAAGTATAGACACTTTTATAAAAA
1 ATAAGTATGGACACTTTTATAAAAA
46511 AGGATAGATA
Statistics
Matches: 242, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
229 95 0.39
230 147 0.61
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (229 bp):
ATAAGTATGGACACTTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTCA
ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
AAAAGATAATAATAAATATATTTTCAACAGTGAA
Found at i:51940 original size:16 final size:17
Alignment explanation
Indices: 51919--51954 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
51909 GTTATAATAA
51919 AATACATA-TTTTTTTG
1 AATACATATTTTTTTTG
51935 AATACATATTTTTTTTG
1 AATACATATTTTTTTTG
51952 AAT
1 AAT
51955 CTGATCTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (17 bp):
AATACATATTTTTTTTG
Found at i:54269 original size:2 final size:2
Alignment explanation
Indices: 54264--54465 Score: 58
Period size: 2 Copynumber: 106.0 Consensus size: 2
54254 AAAAATTAAA
* *
54264 AT AT AT AT A- AT AT AT AT A- AT AT A- AGT TT AT AT AT AA AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
* * *
54303 AT AT AT AT AA ACT AT AT TT AT AT -T AT AA AT -T AT AT A- AT -T
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * *
54342 AT -T AT A- AG CT AT AT AT AT AA AT -T AT GT TT AT AT AA ACT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* * * * * *
54382 AT AT GT AA ACT AT AT AT GT AT AA AT -T AT A- AA AA AT AT AT AGT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* * *
54424 TT AT AA ACT AT A- AT TT AT AT -T A- AT AT AT AT AT AT AT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
54464 AT
1 AT
54466 TATTCAAAGT
Statistics
Matches: 143, Mismatches: 35, Indels: 44
0.64 0.16 0.20
Matches are distributed among these distances:
1 16 0.11
2 122 0.85
3 5 0.03
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:54277 original size:9 final size:9
Alignment explanation
Indices: 54263--54358 Score: 50
Period size: 9 Copynumber: 11.1 Consensus size: 9
54253 AAAAAATTAA
54263 AATATATAT
1 AATATATAT
54272 AATATATAT
1 AATATATAT
54281 AATATA-AGT
1 AATATATA-T
*
54290 -TTATATAT
1 AATATATAT
54298 AA-AT-TAT
1 AATATATAT
54305 -ATATATA-
1 AATATATAT
54312 AACTATAT-T
1 AA-TATATAT
*
54321 TATAT-TAT
1 AATATATAT
54329 AA-ATTATAT
1 AATA-TATAT
54338 AAT-TATTAT
1 AATATA-TAT
54347 AAGCTATATAT
1 AA--TATATAT
54358 A
1 A
54359 TAAATTATGT
Statistics
Matches: 67, Mismatches: 4, Indels: 30
0.66 0.04 0.30
Matches are distributed among these distances:
6 1 0.01
7 7 0.10
8 19 0.28
9 33 0.49
11 5 0.07
12 2 0.03
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (9 bp):
AATATATAT
Found at i:54382 original size:28 final size:30
Alignment explanation
Indices: 54321--54398 Score: 90
Period size: 28 Copynumber: 2.7 Consensus size: 30
54311 AAACTATATT
*
54321 TATAT-TATAAATTATATAATTATTATAAGC
1 TATATATATAAATTATAT-ATTATTATAAAC
*
54351 TATATATATAAATTATGT-TTA-TATAAAC
1 TATATATATAAATTATATATTATTATAAAC
* *
54379 TATATATGTAAACTATATAT
1 TATATATATAAATTATATAT
54399 GTATAAATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 21 0.51
29 4 0.10
30 5 0.12
31 11 0.27
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (30 bp):
TATATATATAAATTATATATTATTATAAAC
Found at i:54390 original size:13 final size:13
Alignment explanation
Indices: 54374--54401 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
54364 TATGTTTATA
54374 TAAACTATATATG
1 TAAACTATATATG
54387 TAAACTATATATG
1 TAAACTATATATG
54400 TA
1 TA
54402 TAAATTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (13 bp):
TAAACTATATATG
Found at i:54821 original size:8 final size:8
Alignment explanation
Indices: 54808--54858 Score: 93
Period size: 8 Copynumber: 6.4 Consensus size: 8
54798 AATTTTCTAC
54808 GTACGTAT
1 GTACGTAT
54816 GTACGTAT
1 GTACGTAT
54824 GTACGTAT
1 GTACGTAT
54832 GTACGTAT
1 GTACGTAT
54840 GTACGTAT
1 GTACGTAT
*
54848 GTACGCAT
1 GTACGTAT
54856 GTA
1 GTA
54859 TAAACTATAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
8 42 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.35
Consensus pattern (8 bp):
GTACGTAT
Found at i:55572 original size:14 final size:14
Alignment explanation
Indices: 55534--55592 Score: 55
Period size: 14 Copynumber: 4.2 Consensus size: 14
55524 CCCTAAACCC
* *
55534 TAAAACATAAACTA
1 TAAACCATAAACTT
* *
55548 TACACCCTAAACTT
1 TAAACCATAAACTT
**
55562 TAAACCATAAACAC
1 TAAACCATAAACTT
*
55576 TAAACCATAAACCT
1 TAAACCATAAACTT
55590 TAA
1 TAA
55593 TGTAAATGGA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCATAAACTT
Found at i:55586 original size:21 final size:21
Alignment explanation
Indices: 55521--55588 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
55511 TAGTTTACAG
* *
55521 AAACCCTAAACCCTAAAACAT
1 AAACCATAAACCCTAAACCAT
* * **
55542 AAACTATACACCCTAAACTTT
1 AAACCATAAACCCTAAACCAT
*
55563 AAACCATAAACACTAAACCAT
1 AAACCATAAACCCTAAACCAT
55584 AAACC
1 AAACC
55589 TTAATGTAAA
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.18
Consensus pattern (21 bp):
AAACCATAAACCCTAAACCAT
Found at i:55927 original size:4 final size:4
Alignment explanation
Indices: 55918--55964 Score: 67
Period size: 4 Copynumber: 11.8 Consensus size: 4
55908 AATTTTGTGA
* * *
55918 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GCGT GTGC GTGT GTGC GTG
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTG
55965 TGTGTGTGTG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.00, C:0.21, G:0.51, T:0.28
Consensus pattern (4 bp):
GTGC
Found at i:55965 original size:8 final size:8
Alignment explanation
Indices: 55918--55974 Score: 69
Period size: 8 Copynumber: 7.1 Consensus size: 8
55908 AATTTTGTGA
*
55918 GTGCGTGC
1 GTGCGTGT
*
55926 GTGCGTGC
1 GTGCGTGT
*
55934 GTGCGTGC
1 GTGCGTGT
*
55942 GTGCGCGT
1 GTGCGTGT
55950 GTGCGTGT
1 GTGCGTGT
55958 GTGCGTGT
1 GTGCGTGT
*
55966 GTGTGTGT
1 GTGCGTGT
55974 G
1 G
55975 AAAATTTATC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 45 1.00
ACGTcount: A:0.00, C:0.18, G:0.51, T:0.32
Consensus pattern (8 bp):
GTGCGTGT
Found at i:56366 original size:15 final size:15
Alignment explanation
Indices: 56346--56395 Score: 82
Period size: 15 Copynumber: 3.2 Consensus size: 15
56336 ACCATGTATA
56346 ATATATATAAACTAT
1 ATATATATAAACTAT
56361 ATATATATATAACATAT
1 ATATATATA-AAC-TAT
56378 ATATATATAAACTAT
1 ATATATATAAACTAT
56393 ATA
1 ATA
56396 AAGTAAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.45
16 6 0.18
17 12 0.36
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (15 bp):
ATATATATAAACTAT
Found at i:56368 original size:17 final size:17
Alignment explanation
Indices: 56342--56395 Score: 87
Period size: 17 Copynumber: 3.4 Consensus size: 17
56332 ATAAACCATG
56342 TATA-ATATATATAAAC
1 TATATATATATATAAAC
56358 TATATATATATAT-AAC
1 TATATATATATATAAAC
56374 -ATATATATATATAAAC
1 TATATATATATATAAAC
56390 TATATA
1 TATATA
56396 AAGTAAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
15 12 0.34
16 10 0.29
17 13 0.37
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
TATATATATATATAAAC
Found at i:56506 original size:27 final size:28
Alignment explanation
Indices: 56470--56541 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
56460 TAAATTATAA
* * *
56470 AAACCCTAAATCCTAAATTCT-AATCAT
1 AAACACTAAACCCTAAATTCTAAACCAT
* *
56497 AAACTCTAAACCCTAAATTTTAAACCAT
1 AAACACTAAACCCTAAATTCTAAACCAT
*
56525 AAACACTAAACCATAAA
1 AAACACTAAACCCTAAA
56542 CCCTAATGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
27 18 0.47
28 20 0.53
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (28 bp):
AAACACTAAACCCTAAATTCTAAACCAT
Found at i:56534 original size:14 final size:14
Alignment explanation
Indices: 56494--56547 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
56484 AAATTCTAAT
56494 CATAAACTCTAAAC
1 CATAAACTCTAAAC
* * *
56508 CCTAAATTTTAAAC
1 CATAAACTCTAAAC
*
56522 CATAAACACTAAAC
1 CATAAACTCTAAAC
*
56536 CATAAACCCTAA
1 CATAAACTCTAA
56548 TGTAAATAGA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (14 bp):
CATAAACTCTAAAC
Found at i:56733 original size:14 final size:14
Alignment explanation
Indices: 56714--56760 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
56704 ATTTTTTCTT
56714 TATATAAATTAAAC
1 TATATAAATTAAAC
56728 TATAT-AATT----
1 TATATAAATTAAAC
56737 TATATAAATTAAAC
1 TATATAAATTAAAC
*
56751 TATATTAATT
1 TATATAAATT
56761 TTTCCTTTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:56739 original size:23 final size:24
Alignment explanation
Indices: 56712--56761 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
56702 TTATTTTTTC
56712 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
56735 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
56759 TTT
1 TTT
56762 TTCCTTTGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:57003 original size:16 final size:16
Alignment explanation
Indices: 56982--57027 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
56972 AAATATCAGA
*
56982 TCATGTTAAAAACATG
1 TCATGTTAAAAACAGG
56998 TCATGTTAAAAACAGG
1 TCATGTTAAAAACAGG
* *
57014 TCAGGTTGAAAACA
1 TCATGTTAAAAACA
57028 AGTCGGGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.26
Consensus pattern (16 bp):
TCATGTTAAAAACAGG
Found at i:58463 original size:19 final size:20
Alignment explanation
Indices: 58439--58479 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
58429 GAAACGTTTT
*
58439 TATGAATAAT-ATTATACTG
1 TATGAATAATAATAATACTG
*
58458 TATGAATAGTAATAATACTG
1 TATGAATAATAATAATACTG
58478 TA
1 TA
58480 CAAATAGTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (20 bp):
TATGAATAATAATAATACTG
Found at i:59300 original size:31 final size:31
Alignment explanation
Indices: 59262--59416 Score: 224
Period size: 31 Copynumber: 5.0 Consensus size: 31
59252 CCCGAAGGAC
*
59262 CAGTCCATA-GATCCCGAAGAATC-TAGGTAAT
1 CAGTCCATATG-TCCCGAAGAA-CATAGGTAAA
59293 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
59324 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* *
59355 CAATCCATATGTCCCGAAGAACATAGTTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* * *
59386 CAATCCATATGTTCAGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
59417 TCCTCGACTC
Statistics
Matches: 116, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
30 1 0.01
31 114 0.98
32 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:62273 original size:17 final size:18
Alignment explanation
Indices: 62229--62273 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 18
62219 TTTGAATTAA
62229 ATTTAAATAAATAAATTT
1 ATTTAAATAAATAAATTT
62247 ATCGTATAAATAAAT-AATTT
1 AT--T-TAAATAAATAAATTT
62267 ATTTAAA
1 ATTTAAA
62274 ATTACATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
17 4 0.17
18 3 0.12
20 8 0.33
21 9 0.38
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (18 bp):
ATTTAAATAAATAAATTT
Found at i:69631 original size:4 final size:4
Alignment explanation
Indices: 69622--69653 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
69612 CATCAACAAT
69622 CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA
69654 TAAGAGAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:70923 original size:21 final size:21
Alignment explanation
Indices: 70890--70960 Score: 92
Period size: 21 Copynumber: 3.5 Consensus size: 21
70880 CGCGAATATG
70890 TAAA-TCGCATTGCGATTTTC
1 TAAATTCGCATTGCGATTTTC
*
70910 TAAATTCGCGTTGCGATTTTC
1 TAAATTCGCATTGCGATTTTC
* * *
70931 CAAATTCACAATGCGA-TTTC
1 TAAATTCGCATTGCGATTTTC
70951 TAAATTCGCA
1 TAAATTCGCA
70961 ACACTGAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 16 0.37
21 27 0.63
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (21 bp):
TAAATTCGCATTGCGATTTTC
Found at i:70976 original size:41 final size:39
Alignment explanation
Indices: 70931--71023 Score: 107
Period size: 41 Copynumber: 2.3 Consensus size: 39
70921 TGCGATTTTC
70931 CAAATTCACAATGCGATTTCTAAATTCGCAACACTGAATTT
1 CAAATTCACAAT-CGATTTCTAAATTCGCAACAC-GAATTT
* * *
70972 CAAATT-AGCAACTCGATTTCTGAATTCGCAACTCGATTTT
1 CAAATTCA-CAA-TCGATTTCTAAATTCGCAACACGAATTT
*
71012 CGAATTCACAAT
1 CAAATTCACAAT
71024 AGGTTTTAGT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
39 1 0.02
40 14 0.31
41 29 0.64
42 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (39 bp):
CAAATTCACAATCGATTTCTAAATTCGCAACACGAATTT
Found at i:71002 original size:20 final size:20
Alignment explanation
Indices: 70944--71010 Score: 82
Period size: 20 Copynumber: 3.3 Consensus size: 20
70934 ATTCACAATG
*
70944 CGATTTCTAAATTCGCAACA
1 CGATTTCTAAATTCGCAACT
*
70964 CTGAATTTC-AAATTAGCAACT
1 C-G-ATTTCTAAATTCGCAACT
*
70985 CGATTTCTGAATTCGCAACT
1 CGATTTCTAAATTCGCAACT
71005 CGATTT
1 CGATTT
71011 TCGAATTCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 5 0.12
20 18 0.45
21 12 0.30
22 5 0.12
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (20 bp):
CGATTTCTAAATTCGCAACT
Found at i:71016 original size:20 final size:19
Alignment explanation
Indices: 70953--71018 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
70943 GCGATTTCTA
* *
70953 AATTCGCAACACTGAATTTCA
1 AATTCGCAACTC-G-ATTTCG
*
70974 AATTAGCAACTCGATTTCTG
1 AATTCGCAACTCGATTTC-G
70994 AATTCGCAACTCGATTTTCG
1 AATTCGCAACTCGA-TTTCG
71014 AATTC
1 AATTC
71019 ACAATAGGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
19 5 0.13
20 20 0.51
21 14 0.36
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (19 bp):
AATTCGCAACTCGATTTCG
Found at i:72009 original size:24 final size:24
Alignment explanation
Indices: 71958--72011 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
71948 GTATTCGAAA
* *
71958 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCAGGAC
* * *
71982 TTTGATATTGGTTAATACTAGGAT
1 TTTGATATTGGTCAATACCAGGAC
72006 TTTGAT
1 TTTGAT
72012 GATGTTTCAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCAGGAC
Found at i:74162 original size:6 final size:6
Alignment explanation
Indices: 74151--74185 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
74141 AAGAAAAAGG
* *
74151 AAATCA AAATCA AAATCG CAATCA AAATCA AAATC
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATC
74186 CCAATCACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.60, C:0.20, G:0.03, T:0.17
Consensus pattern (6 bp):
AAATCA
Found at i:74173 original size:18 final size:18
Alignment explanation
Indices: 74152--74192 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
74142 AGAAAAAGGA
*
74152 AATCAAAATCAAAATCGC
1 AATCAAAATCAAAATCCC
74170 AATCAAAATCAAAATCCC
1 AATCAAAATCAAAATCCC
74188 AATCA
1 AATCA
74193 CAACCGGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.56, C:0.24, G:0.02, T:0.17
Consensus pattern (18 bp):
AATCAAAATCAAAATCCC
Found at i:74409 original size:19 final size:20
Alignment explanation
Indices: 74367--74409 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
74357 TTTTTTGTTG
*
74367 CGAAAGTCAAATTCGCAACG
1 CGAAAGTCAAATTCGCAACA
74387 CGAAAGT-AAATTC-CTAACA
1 CGAAAGTCAAATTCGC-AACA
74406 CGAA
1 CGAA
74410 TTTGACTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 13 0.62
20 7 0.33
ACGTcount: A:0.44, C:0.23, G:0.16, T:0.16
Consensus pattern (20 bp):
CGAAAGTCAAATTCGCAACA
Found at i:74429 original size:20 final size:20
Alignment explanation
Indices: 74401--74444 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
74391 AGTAAATTCC
74401 TAACACGAATTTGACTATCG
1 TAACACGAATTTGACTATCG
* *
74421 TAACGCGAATTTGACTTTCG
1 TAACACGAATTTGACTATCG
74441 TAAC
1 TAAC
74445 CATCGCAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (20 bp):
TAACACGAATTTGACTATCG
Found at i:74480 original size:20 final size:20
Alignment explanation
Indices: 74457--74514 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
74447 TCGCAATGCG
74457 AATTTGACTTTCGCGTT-ACA
1 AATTTGACTTTCGCGTTGA-A
* *
74477 AATTTGACTTTCACGTTGAG
1 AATTTGACTTTCGCGTTGAA
*
74497 AATTTGACTTTCGTGTTG
1 AATTTGACTTTCGCGTTG
74515 CGAAAGTGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 32 0.97
21 1 0.03
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (20 bp):
AATTTGACTTTCGCGTTGAA
Found at i:74625 original size:14 final size:14
Alignment explanation
Indices: 74603--74634 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
74593 TCAATTAAAT
*
74603 AAATCAACTTTTAC
1 AAATAAACTTTTAC
74617 AAATAAACTTTTAC
1 AAATAAACTTTTAC
74631 AAAT
1 AAAT
74635 CAATTAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (14 bp):
AAATAAACTTTTAC
Found at i:74627 original size:78 final size:78
Alignment explanation
Indices: 74545--74699 Score: 256
Period size: 78 Copynumber: 2.0 Consensus size: 78
74535 GTATTTTTTG
*
74545 ACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTAAATAAATCAA
1 ACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTAAACAAATCAA
74610 CTTTTACAAATAA
66 CTTTTACAAATAA
*** * *
74623 ACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCCTCATCAATTAAACAAATCAA
1 ACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTAAACAAATCAA
74688 CTTTTACAAATA
66 CTTTTACAAATA
74700 CATCAATTTC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 71 1.00
ACGTcount: A:0.51, C:0.16, G:0.02, T:0.31
Consensus pattern (78 bp):
ACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTAAACAAATCAA
CTTTTACAAATAA
Found at i:76080 original size:21 final size:21
Alignment explanation
Indices: 76056--76131 Score: 107
Period size: 21 Copynumber: 3.6 Consensus size: 21
76046 GTGAGAGAAA
*
76056 CCTCTTGAATGATGATAGGGG
1 CCTCTTGAACGATGATAGGGG
* **
76077 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGATGATAGGGG
*
76098 CCTCTTGAAGGATGATAGGGG
1 CCTCTTGAACGATGATAGGGG
76119 CCTCTTGAACGAT
1 CCTCTTGAACGAT
76132 AAGAAAGGAA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.21, C:0.18, G:0.36, T:0.25
Consensus pattern (21 bp):
CCTCTTGAACGATGATAGGGG
Found at i:76146 original size:42 final size:42
Alignment explanation
Indices: 76058--76154 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
76048 GAGAGAAACC
* ** ** **
76058 TCTTGAATGATGATAGGGGCCTCTTGAACGGTGGGAGGGGCC
1 TCTTGAATGATGATAGGGGCCTCTTGAACGATAAGAAAGGAA
*
76100 TCTTGAAGGATGATAGGGGCCTCTTGAACGATAAGAAAGGAA
1 TCTTGAATGATGATAGGGGCCTCTTGAACGATAAGAAAGGAA
76142 TCTTGAATGATGA
1 TCTTGAATGATGA
76155 CAGGTGAATC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.28, C:0.13, G:0.34, T:0.25
Consensus pattern (42 bp):
TCTTGAATGATGATAGGGGCCTCTTGAACGATAAGAAAGGAA
Found at i:78692 original size:20 final size:21
Alignment explanation
Indices: 78667--78709 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
78657 TCTGAGAGAT
78667 GGAGAT-AGACGGATTTCGCC
1 GGAGATGAGACGGATTTCGCC
*
78687 GGAGATGGGGACGGATTTCGCC
1 GGAGAT-GAGACGGATTTCGCC
78709 G
1 G
78710 TAGAGAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
22 14 0.70
ACGTcount: A:0.21, C:0.19, G:0.42, T:0.19
Consensus pattern (21 bp):
GGAGATGAGACGGATTTCGCC
Found at i:78835 original size:19 final size:20
Alignment explanation
Indices: 78813--78850 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
78803 AATATTGTGT
78813 TTCGAATT-CGAAAATAAAA
1 TTCGAATTGCGAAAATAAAA
**
78832 TTCGCGTTGCGAAAATAAA
1 TTCGAATTGCGAAAATAAA
78851 CGCACTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (20 bp):
TTCGAATTGCGAAAATAAAA
Found at i:84678 original size:157 final size:155
Alignment explanation
Indices: 84347--84646 Score: 487
Period size: 157 Copynumber: 1.9 Consensus size: 155
84337 TATGTGCCCC
* * *
84347 TAAAGGCTTCTAAAATGTTATTGCTCATGACCACTAGACTTATGCAATTTGAACAAATTTTACCA
1 TAAAAGCTTCTAAAAAGTTATGGCTCATGACCACTAGACTTATGCAATTTGAACAAATTTTACCA
*
84412 ATCAAAACTCCTTATTCCAATTAAGGATGTTATCCCGGCCCCATGAGAGTTGAAAATTGTTCTTT
66 ATCAAAACTCCTTATTCCAATTAAGAATGTTAT-CC-GCCCCATGAGAGTTGAAAATTGTTCTTT
* **
84477 TCTTAGTGCAAAGTCTATGTTCTTTTG
129 CCTTAGTGCAAAGTCTATGTTCTAATG
84504 TAAAAGCTTCTAAAAAGTTATGGCTCATGACCACTAGACTTATGCAATTTGAACAAATTTTACCA
1 TAAAAGCTTCTAAAAAGTTATGGCTCATGACCACTAGACTTATGCAATTTGAACAAATTTTACCA
*
84569 ATCAAAACTCCTTATTCCAATTAAGAATGTTAT-C-CCCTATGAGAGTTGAAAATTGTTCTTTCC
66 ATCAAAACTCCTTATTCCAATTAAGAATGTTATCCGCCCCATGAGAGTTGAAAATTGTTCTTTCC
*
84632 TTAGTGTAAAGTCTA
131 TTAGTGCAAAGTCTA
84647 ATATTTGGAC
Statistics
Matches: 136, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
153 41 0.30
155 1 0.01
157 94 0.69
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (155 bp):
TAAAAGCTTCTAAAAAGTTATGGCTCATGACCACTAGACTTATGCAATTTGAACAAATTTTACCA
ATCAAAACTCCTTATTCCAATTAAGAATGTTATCCGCCCCATGAGAGTTGAAAATTGTTCTTTCC
TTAGTGCAAAGTCTATGTTCTAATG
Found at i:86662 original size:43 final size:42
Alignment explanation
Indices: 86597--86924 Score: 285
Period size: 43 Copynumber: 7.6 Consensus size: 42
86587 TATGAAATTG
* *
86597 TAAAAAATTA-GAGGCCTTAATTATAAAGTTATAAA-TCGAGAT
1 TAAAAAATTAGGA-GCCTCAATTATAAAGTTAGAAAGT-GAGAT
* * * * *
86639 TGAAAAAAATAGGAGCCTCAATTATAAAGGTA-TAATTGATAT
1 T-AAAAAATTAGGAGCCTCAATTATAAAGTTAGAAAGTGAGAT
* * * *
86681 CGAAAAACTTAGGGGCCTCAATTAGAAAGTTAGAAAGTGAGAT
1 -TAAAAAATTAGGAGCCTCAATTATAAAGTTAGAAAGTGAGAT
*
86724 TAAAAAAACTTAAGG-GCCTCAATTATAAAGTTAAAAAAGTGAGAT
1 T-AAAAAA-TT-AGGAGCCTCAATTATAAAGTT-AGAAAGTGAGAT
* * *
86769 TAAAAAATTAGGAGCCTCAATTATAAAGTTAGAAATTAATAT
1 TAAAAAATTAGGAGCCTCAATTATAAAGTTAGAAAGTGAGAT
* * *
86811 TGAAAAAACTTAGGGGCCTCAATTA-AAAATGTAGAAAGTTAGAT
1 T-AAAAAA-TTAGGAGCCTCAATTATAAAGT-TAGAAAGTGAGAT
*
86855 TAGAAAAACTT-GAAAGCCTCAATTATAAAGTTA-AAAGTGAGAT
1 TA-AAAAA-TTAG-GAGCCTCAATTATAAAGTTAGAAAGTGAGAT
*
86898 TACAAAATTA-GAGACCTCAATTATAAA
1 TAAAAAATTAGGAG-CCTCAATTATAAA
86925 AGTAAAAAGA
Statistics
Matches: 235, Mismatches: 33, Indels: 37
0.77 0.11 0.12
Matches are distributed among these distances:
40 2 0.01
41 15 0.06
42 48 0.20
43 79 0.34
44 72 0.31
45 19 0.08
ACGTcount: A:0.48, C:0.09, G:0.16, T:0.27
Consensus pattern (42 bp):
TAAAAAATTAGGAGCCTCAATTATAAAGTTAGAAAGTGAGAT
Found at i:86742 original size:44 final size:44
Alignment explanation
Indices: 86609--86924 Score: 257
Period size: 44 Copynumber: 7.3 Consensus size: 44
86599 AAAAATTAGA
* *
86609 GGCCTTAATTATAAAGTTATAAA-TCGAGATTGAAAAAAA--T-AG
1 GGCCTCAATTATAAAGTTAGAAAGT-GAGATT-AAAAAAACTTAAG
* * * * ** *
86651 GAGCCTCAATTATAAAGGTA-TAATTGATA-TCGAAAAACTTAGG
1 G-GCCTCAATTATAAAGTTAGAAAGTGAGATTAAAAAAACTTAAG
*
86694 GGCCTCAATTAGAAAGTTAGAAAGTGAGATTAAAAAAACTTAAG
1 GGCCTCAATTATAAAGTTAGAAAGTGAGATTAAAAAAACTTAAG
*
86738 GGCCTCAATTATAAAGTTAAAAAAGTGAGATT-AAAAAA-TT-AG
1 GGCCTCAATTATAAAGTT-AGAAAGTGAGATTAAAAAAACTTAAG
* * * * *
86780 GAGCCTCAATTATAAAGTTAGAAATTAATATTGAAAAAACTTAGG
1 G-GCCTCAATTATAAAGTTAGAAAGTGAGATTAAAAAAACTTAAG
* * *
86825 GGCCTCAATTA-AAAATGTAGAAAGTTAGATTAGAAAAACTTGAA-
1 GGCCTCAATTATAAAGT-TAGAAAGTGAGATTAAAAAAACTT-AAG
* *
86869 AGCCTCAATTATAAAGTTA-AAAGTGAGATT-ACAAAA-TT-AG
1 GGCCTCAATTATAAAGTTAGAAAGTGAGATTAAAAAAACTTAAG
*
86909 AGACCTCAATTATAAA
1 -GGCCTCAATTATAAA
86925 AGTAAAAAGA
Statistics
Matches: 221, Mismatches: 36, Indels: 35
0.76 0.12 0.12
Matches are distributed among these distances:
39 1 0.00
40 5 0.02
41 16 0.07
42 39 0.18
43 64 0.29
44 77 0.35
45 19 0.09
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.27
Consensus pattern (44 bp):
GGCCTCAATTATAAAGTTAGAAAGTGAGATTAAAAAAACTTAAG
Found at i:86923 original size:129 final size:127
Alignment explanation
Indices: 86598--86931 Score: 419
Period size: 129 Copynumber: 2.6 Consensus size: 127
86588 ATGAAATTGT
* *
86598 AAAAAA-TT-AGAGGCCTTAATTATAAAGTTATAAA-TCGAGATTGAAAAAAATAGGAGCCTCAA
1 AAAAAACTTAAGA-GCCTCAATTATAAAGTTA-AAAGT-GAGATT-AAAAAATTAGGAGCCTCAA
* * *
86660 TTATAAAGGTATAATTGATATCGAAAAACTTAGGGGCCTCAATTAGAAAGTTAGAAAGTGAGATT
62 TTATAAAGGTAAAATTAATATCGAAAAACTTAGGGGCCTCAATTAAAAAGTTAGAAAGTGAGATT
86725 A
127 A
*
86726 AAAAAACTTAAGGGCCTCAATTATAAAGTTAAAAAAGTGAGATTAAAAAATTAGGAGCCTCAATT
1 AAAAAACTTAAGAGCCTCAATTATAAAGTT--AAAAGTGAGATTAAAAAATTAGGAGCCTCAATT
* * *
86791 ATAAAGTTAGAAATTAATATTGAAAAAACTTAGGGGCCTCAATTAAAAA-TGTAGAAAGTTAGAT
64 ATAAAGGTA-AAATTAATATCG-AAAAACTTAGGGGCCTCAATTAAAAAGT-TAGAAAGTGAGAT
86855 TA
126 TA
* *
86857 GAAAAACTTGAA-AGCCTCAATTATAAAGTTAAAAGTGAGATTACAAAATTA-GAGACCTCAATT
1 AAAAAACTT-AAGAGCCTCAATTATAAAGTTAAAAGTGAGATTAAAAAATTAGGAG-CCTCAATT
*
86920 ATAAAAGTAAAA
64 ATAAAGGTAAAA
86932 AGAGGATTGA
Statistics
Matches: 182, Mismatches: 14, Indels: 20
0.84 0.06 0.09
Matches are distributed among these distances:
128 12 0.07
129 81 0.45
130 21 0.12
131 66 0.36
132 2 0.01
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.26
Consensus pattern (127 bp):
AAAAAACTTAAGAGCCTCAATTATAAAGTTAAAAGTGAGATTAAAAAATTAGGAGCCTCAATTAT
AAAGGTAAAATTAATATCGAAAAACTTAGGGGCCTCAATTAAAAAGTTAGAAAGTGAGATTA
Found at i:86984 original size:129 final size:130
Alignment explanation
Indices: 86598--87011 Score: 325
Period size: 129 Copynumber: 3.2 Consensus size: 130
86588 ATGAAATTGT
* * *
86598 AAAAAA-TT-AGAGGCCTTAATTATAAAGTTATAAA-TCGAGATTGAAAAAAATAGGAGCCTCAA
1 AAAAAACTTAAGA-GCCTCAATTATAAAGTTAAAAAGT-GAGATT-AAAAAATTAGGAGCCTCAA
* * ** * * * * * * * *
86660 TTATAAAGGTATAATTG-ATATCG-AAAAACTTAGGGGCCTCAATTAGAAAGT-TAGAAAGTGAG
63 TTATAAAGTTAGAAAAGAAGATTGAAAAAACTTAGAGACCTCAATTA-AAAATAAAAAAAGTAAG
86722 ATTA
127 ATTA
*
86726 AAAAAACTTAAGGGCCTCAATTATAAAGTTAAAAAAGTGAGATTAAAAAATTAGGAGCCTCAATT
1 AAAAAACTTAAGAGCCTCAATTATAAAGTT-AAAAAGTGAGATTAAAAAATTAGGAGCCTCAATT
** * * * ** * *
86791 ATAAAGTTAGAAATTAATATTGAAAAAACTTAGGGGCCTCAATTAAAAATGTAGAAAGTTAGATT
65 ATAAAGTTAGAAAAGAAGATTGAAAAAACTTAGAGACCTCAATTAAAAATAAAAAAAGTAAGATT
86856 A
130 A
* *
86857 GAAAAACTTGAA-AGCCTCAATTATAAAGTT-AAAAGTGAGATTACAAAATTA-GAGACCTCAAT
1 AAAAAACTT-AAGAGCCTCAATTATAAAGTTAAAAAGTGAGATTAAAAAATTAGGAG-CCTCAAT
* * * *
86919 TATAAAAG-TA-AAAAGAGGATTGAAAAGGA-TTAGAGACTTCAATTATAAATAAAAAAAAGTAA
64 TAT-AAAGTTAGAAAAGAAGATTGAAAA-AACTTAGAGACCTCAATTAAAAAT-AAAAAAAGTAA
86981 GATTGA
126 GATT-A
* * *
86987 ATAATA-TTATGA-CCTCAATTATAAA
1 AAAAAACTTAAGAGCCTCAATTATAAA
87012 AATAAAAAAA
Statistics
Matches: 241, Mismatches: 31, Indels: 28
0.80 0.10 0.09
Matches are distributed among these distances:
128 52 0.22
129 96 0.40
130 29 0.12
131 62 0.26
132 2 0.01
ACGTcount: A:0.49, C:0.08, G:0.16, T:0.26
Consensus pattern (130 bp):
AAAAAACTTAAGAGCCTCAATTATAAAGTTAAAAAGTGAGATTAAAAAATTAGGAGCCTCAATTA
TAAAGTTAGAAAAGAAGATTGAAAAAACTTAGAGACCTCAATTAAAAATAAAAAAAGTAAGATTA
Found at i:87019 original size:45 final size:44
Alignment explanation
Indices: 86714--87065 Score: 162
Period size: 44 Copynumber: 8.1 Consensus size: 44
86704 AGAAAGTTAG
* * * * *
86714 AAAGTGAGATTAAAAAAACTTAAGGGCCTCAATTAT-AAAGTTAAA
1 AAAGTAAGATTGAAAAAA-TTAA-GACCTCAATTATAAAAATAAAA
* * * * *
86759 AAAGTGAGATT-AAAAAATTAGGAGCCTCAATTAT-AAAGT-TAG
1 AAAGTAAGATTGAAAAAATTAAGA-CCTCAATTATAAAAATAAAA
* * * * ** *
86801 AAATTAATATTGAAAAAACTTAGGGGCCTCAA-T-TAAAAATGTAG
1 AAAGTAAGATTGAAAAAA-TTA-AGACCTCAATTATAAAAATAAAA
* * * *
86845 AAAGTTAGATTAGAAAAACTTGAA-AGCCTCAATTAT-AAAGT--TA
1 AAAGTAAGATT-GAAAAAATT-AAGA-CCTCAATTATAAAAATAAAA
* * *
86888 AAAGTGAGATT-ACAAAATTAGAGACCTCAATTATAAAAGT--AA
1 AAAGTAAGATTGAAAAAATTA-AGACCTCAATTATAAAAATAAAA
* * * *
86930 AAAG-AGGATTGAAAAGGATTAGAGACTTCAATTATAAATA-AAAA
1 AAAGTAAGATTGAAAA-AATTA-AGACCTCAATTATAAAAATAAAA
* *
86974 AAAGTAAGATTGAATAATATTATGACCTCAATTATAAAAATAAAA
1 AAAGTAAGATTGAA-AAAATTAAGACCTCAATTATAAAAATAAAA
* * *
87019 AAA-TAAGATTTAAAAAAATTAAGGA-CTTAATTATAAAGATAAAA
1 AAAGTAAGA-TTGAAAAAATTAA-GACCTCAATTATAAAAATAAAA
87063 AAA
1 AAA
87066 TGAGGACCCG
Statistics
Matches: 245, Mismatches: 39, Indels: 47
0.74 0.12 0.14
Matches are distributed among these distances:
40 1 0.00
41 21 0.09
42 25 0.10
43 59 0.24
44 86 0.35
45 50 0.20
46 3 0.01
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (44 bp):
AAAGTAAGATTGAAAAAATTAAGACCTCAATTATAAAAATAAAA
Found at i:88310 original size:168 final size:168
Alignment explanation
Indices: 88032--88334 Score: 543
Period size: 168 Copynumber: 1.8 Consensus size: 168
88022 TAGTCAATAC
*
88032 AAACTACCACAGAACAAAAACTTGTTCCACACTCCATGACTTTAATATGAATAAACACATAGTGC
1 AAACTACCACAGAACAAAAACTTGTTCCACACTCCATGACTGTAATATGAATAAACACATAGTGC
*
88097 AGCCTGCATCGTCCAAAGAGACCAATCACTGTTGCATCAGCAATGGAGTTATGTACTAACACGAT
66 AGCCTGCATCGTCCAAAGAGACCAATCACTGTTGCATCAGCAATGGAATTATGTACTAACACGAT
88162 CGAATTGAATCCTAATGCTAAAAGGGAAGAACATGTAG
131 CGAATTGAATCCTAATGCTAAAAGGGAAGAACATGTAG
* *
88200 AAACTACCACAGAACAAAAACTTGTTCCACACTCCATGACTGTAATATGTATAACCACATAGTGC
1 AAACTACCACAGAACAAAAACTTGTTCCACACTCCATGACTGTAATATGAATAAACACATAGTGC
* * *
88265 AGCCTGCATTGTCCAAAGAGACCAATCATTGTTGCATCAGCAATGGAATTATGTACTAAGACGAT
66 AGCCTGCATCGTCCAAAGAGACCAATCACTGTTGCATCAGCAATGGAATTATGTACTAACACGAT
88330 CGAAT
131 CGAAT
88335 CACATTGCAT
Statistics
Matches: 128, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
168 128 1.00
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.23
Consensus pattern (168 bp):
AAACTACCACAGAACAAAAACTTGTTCCACACTCCATGACTGTAATATGAATAAACACATAGTGC
AGCCTGCATCGTCCAAAGAGACCAATCACTGTTGCATCAGCAATGGAATTATGTACTAACACGAT
CGAATTGAATCCTAATGCTAAAAGGGAAGAACATGTAG
Done.