Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005213.1 Hibiscus syriacus cultivar Beakdansim tig00011800_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: 132276
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Found at i:191 original size:105 final size:105
Alignment explanation
Indices: 1--229 Score: 433
Period size: 105 Copynumber: 2.2 Consensus size: 105
1 GAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGCGAA
1 GAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGCGAA
66 GTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGT
66 GTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGT
*
106 GAAAGTTG-AATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
1 G-AAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGCGA
170 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGT
65 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGT
211 GAAGTTGAAATTGGCTCTG
1 GAAGTTGAAATTGGCTCTG
230 GTAAAACCTG
Statistics
Matches: 121, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
104 6 0.05
105 109 0.90
106 6 0.05
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (105 bp):
GAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGCGAA
GTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGT
Found at i:1036 original size:15 final size:14
Alignment explanation
Indices: 1028--1071 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 14
1018 GTTTTTCTCT
1028 TTTTTGTTTTTTTG
1 TTTTTGTTTTTTTG
1042 TTTTTGTTTTTGTTTTG
1 TTTTTG--TTT-TTTTG
1059 TTTTTGTTTTTTT
1 TTTTTGTTTTTTT
1072 TCGACTTAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 10 0.37
15 3 0.11
16 3 0.11
17 11 0.41
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (14 bp):
TTTTTGTTTTTTTG
Found at i:1044 original size:23 final size:23
Alignment explanation
Indices: 1018--1069 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
1008 CACCCTAAAC
1018 GTTTTTCTCTTTT-TTGTT-TTTTT
1 GTTTTTCT-TTTTGTT-TTGTTTTT
*
1041 GTTTTTGTTTTTGTTTTGTTTTT
1 GTTTTTCTTTTTGTTTTGTTTTT
1064 GTTTTT
1 GTTTTT
1070 TTTCGACTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.00, C:0.04, G:0.13, T:0.83
Consensus pattern (23 bp):
GTTTTTCTTTTTGTTTTGTTTTT
Found at i:1045 original size:6 final size:6
Alignment explanation
Indices: 1036--1069 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
1026 CTTTTTTGTT
1036 TTTTTG TTTTTG TTTTTG -TTTTG TTTTTG TTTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTT
1070 TTTCGACTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTTTG
Found at i:1057 original size:11 final size:10
Alignment explanation
Indices: 1027--1072 Score: 58
Period size: 10 Copynumber: 4.5 Consensus size: 10
1017 CGTTTTTCTC
1027 TTTTTTGTTT
1 TTTTTTGTTT
1037 TTTTGTT-TTT
1 TTTT-TTGTTT
*
1047 GTTTTTGTTT
1 TTTTTTGTTT
1057 TGTTTTTGTTT
1 T-TTTTTGTTT
1068 TTTTT
1 TTTTT
1073 CGACTTAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
9 2 0.06
10 17 0.55
11 12 0.39
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (10 bp):
TTTTTTGTTT
Found at i:1057 original size:17 final size:17
Alignment explanation
Indices: 1037--1069 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1027 TTTTTTGTTT
1037 TTTTGTTTTTGTTTTTG
1 TTTTGTTTTTGTTTTTG
1054 TTTTGTTTTTGTTTTT
1 TTTTGTTTTTGTTTTT
1070 TTTCGACTTA
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:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (17 bp):
TTTTGTTTTTGTTTTTG
Found at i:11522 original size:19 final size:18
Alignment explanation
Indices: 11500--11548 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
11490 GAGAAAGAAG
*
11500 AAAAATATAAATGGATAAA
1 AAAAATATAAAT-AATAAA
* *
11519 AAAAATACACATAATAAA
1 AAAAATATAAATAATAAA
11537 ATAAAATATAAA
1 A-AAAATATAAA
11549 ACAATGAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.20
Consensus pattern (18 bp):
AAAAATATAAATAATAAA
Found at i:11799 original size:20 final size:19
Alignment explanation
Indices: 11743--11805 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 19
11733 ACATATACGT
*
11743 ATATAATAATAAAAAATATA
1 ATATAATAATAATAAATA-A
11763 ATATAATAGCATAAATAAATAA
1 ATATAATA--AT-AATAAATAA
*
11785 ATAATAATAATAATAAGTAA
1 AT-ATAATAATAATAAATAA
11805 A
1 A
11806 AGGGGAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
20 17 0.46
21 2 0.05
22 5 0.14
23 13 0.35
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.29
Consensus pattern (19 bp):
ATATAATAATAATAAATAA
Found at i:11919 original size:2 final size:2
Alignment explanation
Indices: 11912--11960 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
11902 GGTAAAAGGA
11912 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
11954 GT AT AT A
1 AT AT AT A
11961 CATACATAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15759 original size:37 final size:36
Alignment explanation
Indices: 15689--15884 Score: 200
Period size: 37 Copynumber: 5.2 Consensus size: 36
15679 TATATGTTTT
* *
15689 TTTTCGAAAACATTTTAAAAATATATATAATATATAG
1 TTTT-GAAAACATTTTGAAAATGTATATAATATATAG
*
15726 TCTTTGAAAACATTTTGGAAATGTATA-ATATATATA-
1 T-TTTGAAAACATTTTGAAAATGTATATA-ATATATAG
*
15762 TATTT-AAAAGCATTTTTGAAAACGTATATAATATATAG
1 T-TTTGAAAA-CA-TTTTGAAAATGTATATAATATATAG
* *
15800 TTTTGAAAAACATTTTTGAAAATTTATATGATATATAG
1 TTTTG-AAAACA-TTTTGAAAATGTATATAATATATAG
* *
15838 TTTTGAAAACATTTTGAAAACATTTATATATTATATAG
1 TTTTGAAAACATTTTG-AAA-ATGTATATAATATATAG
*
15876 TTTTTAAAA
1 TTTTGAAAA
15885 AATATATATA
Statistics
Matches: 137, Mismatches: 12, Indels: 19
0.82 0.07 0.11
Matches are distributed among these distances:
35 4 0.03
36 12 0.09
37 59 0.43
38 58 0.42
39 4 0.03
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.43
Consensus pattern (36 bp):
TTTTGAAAACATTTTGAAAATGTATATAATATATAG
Found at i:15854 original size:11 final size:11
Alignment explanation
Indices: 15838--15862 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15828 TGATATATAG
15838 TTTTGAAAACA
1 TTTTGAAAACA
15849 TTTTGAAAACA
1 TTTTGAAAACA
15860 TTT
1 TTT
15863 ATATATTATA
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:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (11 bp):
TTTTGAAAACA
Found at i:15879 original size:27 final size:26
Alignment explanation
Indices: 15849--15925 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 26
15839 TTTGAAAACA
* *
15849 TTTTGAAAACATTTATATATTATATAG
1 TTTTGAAAAAATATATATA-TATATAG
*
15876 TTTT-TAAAAA-ATATATATATATA-
1 TTTTGAAAAAATATATATATATATAG
*
15899 TTTT--AAAAATATATA-ATATATAA
1 TTTTGAAAAAATATATATATATATAG
15922 TTTT
1 TTTT
15926 TTTAAAGCAT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
22 12 0.27
23 13 0.29
24 6 0.13
25 6 0.13
26 4 0.09
27 4 0.09
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (26 bp):
TTTTGAAAAAATATATATATATATAG
Found at i:15889 original size:21 final size:22
Alignment explanation
Indices: 15863--15925 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 22
15853 GAAAACATTT
15863 ATATATTATATAGT-TTTTAAAA
1 ATATATTATATA-TATTTTAAAA
15885 A-ATATATATATATATTTTAAAA
1 ATATAT-TATATATATTTTAAAA
*
15907 ATATATAATATATAATTTT
1 ATATATTATATAT-ATTTT
15926 TTTAAAGCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
21 5 0.14
22 22 0.61
23 9 0.25
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
ATATATTATATATATTTTAAAA
Found at i:15902 original size:22 final size:21
Alignment explanation
Indices: 15862--15925 Score: 74
Period size: 21 Copynumber: 2.8 Consensus size: 21
15852 TGAAAACATT
15862 TATATATTATATAGTTTTTAAAAAA
1 TATATA-TATATA--TTTT-AAAAA
15887 TATATATATATATTTTAAAAA
1 TATATATATATATTTTAAAAA
15908 TATATAATATATAATTTT
1 TATAT-ATATAT-ATTTT
15926 TTTAAAGCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.27
22 10 0.27
23 5 0.14
24 6 0.16
25 6 0.16
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
TATATATATATATTTTAAAAA
Found at i:16036 original size:14 final size:13
Alignment explanation
Indices: 16017--16078 Score: 54
Period size: 14 Copynumber: 4.5 Consensus size: 13
16007 TATTTATATA
16017 TATTATACTATTAT
1 TATTATA-TATTAT
16031 TATTATTATATTAT
1 TATTA-TATATTAT
*
16045 CATT-TATATTAGT
1 TATTATATATTA-T
*
16058 GTAATTATTTATTAT
1 -T-ATTATATATTAT
16073 TATTAT
1 TATTAT
16079 TTCTTATTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
12 7 0.17
13 6 0.15
14 15 0.38
15 6 0.15
16 6 0.15
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (13 bp):
TATTATATATTAT
Found at i:17518 original size:17 final size:17
Alignment explanation
Indices: 17496--17529 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17486 TCATTTTTCA
17496 ATTTATCTTTTTATTTT
1 ATTTATCTTTTTATTTT
* *
17513 ATTTATTTTTTTCTTTT
1 ATTTATCTTTTTATTTT
17530 CTTCTCTCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (17 bp):
ATTTATCTTTTTATTTT
Found at i:18589 original size:20 final size:20
Alignment explanation
Indices: 18482--18613 Score: 99
Period size: 20 Copynumber: 6.5 Consensus size: 20
18472 AAATGACCAA
18482 CAAAATCGCAACGCGAA-AT
1 CAAAATCGCAACGCGAATAT
* * *
18501 AAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGAAT-AT
* *
18522 GAAAATCGCAATGCG-ATAGT
1 CAAAATCGCAACGCGAATA-T
* ** * *
18542 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGAATAT
18562 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGAATAT
* *
18583 GAAAATCGCAACGCGAACA-
1 CAAAATCGCAACGCGAATAT
18602 CATAAATCGCAA
1 CA-AAATCGCAA
18614 TGCGTATCCG
Statistics
Matches: 87, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
19 16 0.18
20 41 0.47
21 30 0.34
ACGTcount: A:0.41, C:0.23, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGAATAT
Found at i:18592 original size:41 final size:41
Alignment explanation
Indices: 18482--18598 Score: 132
Period size: 41 Copynumber: 2.9 Consensus size: 41
18472 AAATGACCAA
18482 CAAAATCGCAACGCGAA-ATAAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGAATATAAAAATCGCAACGCGATTCTT
* * * * **
18522 GAAAATCGCAATGCG-ATAGTCAAATTCGCATTGCGATT-TT
1 CAAAATCGCAACGCGAATA-TAAAAATCGCAACGCGATTCTT
*
18562 CCAAAATCGCAACGCGAATATGAAAATCGCAACGCGA
1 -CAAAATCGCAACGCGAATATAAAAATCGCAACGCGA
18599 ACACATAAAT
Statistics
Matches: 61, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
39 1 0.02
40 16 0.26
41 41 0.67
42 3 0.05
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (41 bp):
CAAAATCGCAACGCGAATATAAAAATCGCAACGCGATTCTT
Found at i:18627 original size:20 final size:20
Alignment explanation
Indices: 18565--18758 Score: 203
Period size: 20 Copynumber: 9.7 Consensus size: 20
18555 CGATTTTCCA
* ** *
18565 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
18585 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
*
18605 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
18625 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
18645 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
18665 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* *
18685 ATATCGCAACGCGTATCGGT
1 AAATCGCAACGCGTATCCGT
* * *
18705 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
18725 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
18746 AAATCGCAACGCG
1 AAATCGCAACGCG
18759 ATATTTAAAG
Statistics
Matches: 142, Mismatches: 27, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
19 2 0.01
20 122 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:18650 original size:60 final size:60
Alignment explanation
Indices: 18565--18758 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
18555 CGATTTTCCA
* ** * *
18565 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
* * ***
18625 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
* * ** *
18685 ATATCGCAACGCGTATCGGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAATGCGTATCCGT
18746 AAATCGCAACGCG
1 AAATCGCAACGCG
18759 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
Found at i:19180 original size:33 final size:33
Alignment explanation
Indices: 19141--19211 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
19131 TTCACTTAGA
19141 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
19174 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
19207 TTTCA
1 TTTCA
19212 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:19315 original size:20 final size:20
Alignment explanation
Indices: 19290--19359 Score: 81
Period size: 19 Copynumber: 3.5 Consensus size: 20
19280 TGCAGAAGAG
19290 TCGCAACGAGATAAATGA-AA
1 TCGCAACGAGA-AAATGACAA
* **
19310 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAAAATGACAA
*
19330 TCGCAACGCG-AAATGACAA
1 TCGCAACGAGAAAATGACAA
19349 TCGCAACGAGA
1 TCGCAACGAGA
19360 GAATCGCAAC
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 20 0.50
20 20 0.50
ACGTcount: A:0.41, C:0.21, G:0.24, T:0.13
Consensus pattern (20 bp):
TCGCAACGAGAAAATGACAA
Found at i:19344 original size:19 final size:20
Alignment explanation
Indices: 19290--19363 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
19280 TGCAGAAGAG
*
19290 TCGCAACGAGATAAATGA-AA
1 TCGCAACGAGA-GAATGACAA
**
19310 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGACAA
*
19330 TCGCAACGCGA-AATGACAA
1 TCGCAACGAGAGAATGACAA
19349 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
19364 CGCAACGCGA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
19 21 0.47
20 24 0.53
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.14
Consensus pattern (20 bp):
TCGCAACGAGAGAATGACAA
Found at i:19355 original size:39 final size:34
Alignment explanation
Indices: 19302--19408 Score: 123
Period size: 33 Copynumber: 3.1 Consensus size: 34
19292 GCAACGAGAT
19302 AAATGAAATCGCAACGAGAGAATGACTGTCGCAACGCG
1 AAATGAAATCGCAACGAGAGAAT-A---TCGCAACGCG
19340 AAATGACAATCGCAACGAGAG-A-ATCGCAACGCG
1 AAATGA-AATCGCAACGAGAGAATATCGCAACGCG
*
19373 AAATGAAAATCGCAACGAGAG-A-ATCGCAACGGG
1 AAATG-AAATCGCAACGAGAGAATATCGCAACGCG
19406 AAA
1 AAA
19409 CCAAAATCGC
Statistics
Matches: 66, Mismatches: 1, Indels: 9
0.87 0.01 0.12
Matches are distributed among these distances:
33 43 0.65
34 1 0.02
36 1 0.02
38 7 0.11
39 14 0.21
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.10
Consensus pattern (34 bp):
AAATGAAATCGCAACGAGAGAATATCGCAACGCG
Found at i:19366 original size:14 final size:14
Alignment explanation
Indices: 19347--19403 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
19337 GCGAAATGAC
19347 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
19361 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
19380 AATCGCAACGAGAG
1 AATCGCAACGAGAG
19394 AATCGCAACG
1 AATCGCAACG
19404 GGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:19367 original size:33 final size:33
Alignment explanation
Indices: 19330--19419 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
19320 AGAATGACTG
*
19330 TCGCAACGCGAAATGACAATCGCAACGAGAGAA
1 TCGCAACGCGAAATGAAAATCGCAACGAGAGAA
19363 TCGCAACGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAACGCGAAATGAAAATCGCAACGAGAGAA
* **
19396 TCGCAACGGGAAACCAAAATCGCA
1 TCGCAACGCGAAATGAAAATCGCA
19420 TTGCGATTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.43, C:0.24, G:0.23, T:0.09
Consensus pattern (33 bp):
TCGCAACGCGAAATGAAAATCGCAACGAGAGAA
Found at i:19385 original size:19 final size:19
Alignment explanation
Indices: 19302--19389 Score: 71
Period size: 19 Copynumber: 4.9 Consensus size: 19
19292 GCAACGAGAT
*
19302 AAATG-AAATCGCAACGAG
1 AAATGAAAATCGCAACGCG
***
19320 AGAATGACTGTCGCAACGCG
1 A-AATGAAAATCGCAACGCG
*
19340 AAATGACAATCGCAA--CG
1 AAATGAAAATCGCAACGCG
*
19357 --A-GAGAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
19373 AAATGAAAATCGCAACG
1 AAATGAAAATCGCAACG
19390 AGAGAATCGC
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 2 0.04
19 28 0.51
20 10 0.18
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.11
Consensus pattern (19 bp):
AAATGAAAATCGCAACGCG
Found at i:19456 original size:14 final size:14
Alignment explanation
Indices: 19437--19526 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
19427 TTTTATTTCG
19437 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
19451 CGTTGCGATTTTCATTTCC
1 CGTTGCGA--TTC---TCT
19470 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
19484 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
19503 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
19517 CGTTGCGATT
1 CGTTGCGATT
19527 TTCATTTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 1 0.02
16 5 0.08
17 5 0.08
18 1 0.02
19 20 0.32
ACGTcount: A:0.09, C:0.26, G:0.22, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:19462 original size:33 final size:33
Alignment explanation
Indices: 19420--19534 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
19410 CAAAATCGCA
*
19420 TTGCGATTTTTATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
19453 TTGCGATTTTCATTTCCCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
19486 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
19519 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
19535 AACCAAAAGA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 77 1.00
ACGTcount: A:0.10, C:0.23, G:0.20, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:19475 original size:19 final size:19
Alignment explanation
Indices: 19451--19512 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
19441 GCGATTCTCT
19451 CGTTGCGATTTTCATTTCC
1 CGTTGCGATTTTCATTTCC
*
19470 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCC
* *
19484 CGTTGCGATTGTCATTTCG
1 CGTTGCGATTTTCATTTCC
19503 CGTTGCGATT
1 CGTTGCGATT
19513 CTCTCGTTGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 10 0.29
16 2 0.06
17 3 0.09
19 20 0.57
ACGTcount: A:0.10, C:0.24, G:0.23, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCC
Found at i:21486 original size:14 final size:14
Alignment explanation
Indices: 21467--21502 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
21457 ATTGTTTAAT
21467 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
21481 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
21495 TGATTTGT
1 TGATTTGT
21503 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:21625 original size:19 final size:19
Alignment explanation
Indices: 21609--21710 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
21599 AAAAATGACT
21609 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
21628 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
21647 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
21661 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
21680 ATCGCAATGCAGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
21700 ATCGCAATGCG
1 ATCGCAATGCG
21711 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:21744 original size:14 final size:14
Alignment explanation
Indices: 21725--21779 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
21715 TAATTTCGCA
*
21725 TTGCGATTCTCTCG
1 TTGCGATTCTTTCG
21739 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TTTCG
21756 CATTGCGATTCTTTCG
1 --TTGCGATTCTTTCG
21772 TTGCGATT
1 TTGCGATT
21780 TTCATTTCGC
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 14 0.40
16 8 0.23
17 7 0.20
19 6 0.17
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.47
Consensus pattern (14 bp):
TTGCGATTCTTTCG
Found at i:21759 original size:33 final size:33
Alignment explanation
Indices: 21717--22083 Score: 379
Period size: 33 Copynumber: 10.5 Consensus size: 33
21707 TGCGTTTATA
*
21717 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTC
21750 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTC
21783 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTTC
21821 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTTC
21859 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTTC
*
21897 ATTTCGCATTGCGATTCTGTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTC
21930 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTTC
*
21966 -TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTTC
*
22001 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTC
*
22034 ATTTCCGCATTGCGA-T-TTTCATGTTGGGATTTTC
1 ATTT-CGCATTGCGATTCTTTC--GTTGCGATTTTC
*
22068 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
22084 GTAATTTCCG
Statistics
Matches: 306, Mismatches: 9, Indels: 37
0.87 0.03 0.11
Matches are distributed among these distances:
32 3 0.01
33 121 0.40
34 26 0.08
35 21 0.07
36 22 0.07
38 113 0.37
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTTTCGTTGCGATTTTC
Found at i:21763 original size:19 final size:19
Alignment explanation
Indices: 21739--22083 Score: 461
Period size: 19 Copynumber: 19.4 Consensus size: 19
21729 GATTCTCTCG
21739 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
21758 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
21772 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
21791 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
21810 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
21829 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
21848 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
21867 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
21886 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
21905 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
21919 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
21938 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
21957 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
21971 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
21990 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
22009 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
22023 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
22043 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
22057 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
22076 TTGCGATT
1 TTGCGATT
22084 GTAATTTCCG
Statistics
Matches: 292, Mismatches: 8, Indels: 52
0.83 0.02 0.15
Matches are distributed among these distances:
14 35 0.12
16 31 0.11
17 28 0.10
18 3 0.01
19 183 0.63
20 12 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:21795 original size:52 final size:55
Alignment explanation
Indices: 21739--22083 Score: 385
Period size: 52 Copynumber: 6.5 Consensus size: 55
21729 GATTCTCTCG
21739 TTGCGATTTTCATTTCGCATTGCGA-TTC-TTTCG-TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTTCATTTCGATTGCGATTTTCATTTCGCA
21791 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGA-TTTCATTTCG-ATTGCGATTTTCATTTCGCA
21848 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGA-TTTCATTTCG-ATTGCGATTTTCATTTCGCA
*
21905 TTGCGA--TTC-TGTCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGA-TTTCATTTCG-ATTGCGATTTTCATTTCGCA
*
21957 TTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGA-TTTCATTTCG-ATTGCGATTTTCATTTCGCA
*
22009 TTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCCGCATTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCATTGCGA-TTTCATTT-CG-ATTGCGATTTTCATTTCGCA
* *
22057 TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
22084 GTAATTTCCG
Statistics
Matches: 278, Mismatches: 4, Indels: 22
0.91 0.01 0.07
Matches are distributed among these distances:
48 5 0.02
50 4 0.01
51 5 0.02
52 145 0.52
53 22 0.08
54 7 0.03
55 8 0.03
57 82 0.29
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (55 bp):
TTGCGATTTTCATTTCGCATTGCGATTTCATTTCGATTGCGATTTTCATTTCGCA
Found at i:24381 original size:12 final size:12
Alignment explanation
Indices: 24364--24388 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24354 TCTTCGGGGA
24364 CTTTTTCTTCTT
1 CTTTTTCTTCTT
24376 CTTTTTCTTCTT
1 CTTTTTCTTCTT
24388 C
1 C
24389 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:25317 original size:20 final size:20
Alignment explanation
Indices: 25289--25498 Score: 215
Period size: 20 Copynumber: 10.5 Consensus size: 20
25279 AAATTTAAGT
* * *
25289 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
25309 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
25329 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
25349 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
25369 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* **
25389 GTTGCGATATACGGAAACGC
1 GTTGCGATTTACGGATTCGC
* *
25409 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
25429 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
25449 ATTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
25469 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
25489 GTTGCGATTT
1 GTTGCGATTT
25499 TGGAAAATCG
Statistics
Matches: 164, Mismatches: 24, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
20 163 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:25515 original size:21 final size:20
Alignment explanation
Indices: 25465--25562 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
25455 ATTTATGTGT
* * * *
25465 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
*
25485 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTT-GAAAA
* * **
25506 TCGCAATGCGAATTTGACTA
1 TCGCATTGCGATTTTGAAAA
*
25526 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAA-AA
*
25547 TCGCGTTGCGATTTTG
1 TCGCATTGCGATTTTG
25563 GACACTGATT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 32 0.52
21 29 0.48
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTTGAAAA
Found at i:25557 original size:41 final size:41
Alignment explanation
Indices: 25465--25621 Score: 110
Period size: 41 Copynumber: 3.9 Consensus size: 41
25455 ATTTATGTGT
* * *
25465 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
** *
25506 TCGCAATGCGAATTTGACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGATTTTGA-TATTCGCATTGCGATTTTGCAA-AA
* * * ***
25547 TCGCGTTGCGATTTTGGACACT-G-ATTTGCGATTCTG-GGGA
1 TCGCGTTGCGATTTT-GATATTCGCA-TTGCGATTTTGCAAAA
* *
25587 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTG
25622 TTGGTCATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
38 1 0.01
39 12 0.13
40 19 0.21
41 52 0.58
42 5 0.06
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
Found at i:28592 original size:2 final size:2
Alignment explanation
Indices: 28581--28619 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
28571 GTTAGAACTT
28581 TA TA -A 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
28620 CTTTGAAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:34625 original size:13 final size:14
Alignment explanation
Indices: 34607--34635 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
34597 GAGTTAGGGT
34607 GGTTTTTT-AATGA
1 GGTTTTTTAAATGA
34620 GGTTTTTTAAATGA
1 GGTTTTTTAAATGA
34634 GG
1 GG
34636 CCCGTGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (14 bp):
GGTTTTTTAAATGA
Found at i:36785 original size:14 final size:14
Alignment explanation
Indices: 36768--36798 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
36758 CTTTCTCCCT
36768 TTCAGACTCTCTCA
1 TTCAGACTCTCTCA
36782 TTCAGACTCTCTCA
1 TTCAGACTCTCTCA
36796 TTC
1 TTC
36799 TTCTCATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.35, G:0.06, T:0.39
Consensus pattern (14 bp):
TTCAGACTCTCTCA
Found at i:37641 original size:24 final size:23
Alignment explanation
Indices: 37613--37666 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
37603 ATATTTAATA
* *
37613 TTTAAATTATCAA-TTTTATTTCGT
1 TTTAAATT-TAAACTTTCATTT-GT
37637 TTTAATATTTAAACTTTCATTTGT
1 TTTAA-ATTTAAACTTTCATTTGT
37661 TTTAAA
1 TTTAAA
37667 ACTATATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.04
24 15 0.58
25 10 0.38
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.57
Consensus pattern (23 bp):
TTTAAATTTAAACTTTCATTTGT
Found at i:38610 original size:39 final size:39
Alignment explanation
Indices: 38565--38644 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
38555 AATTATATCA
38565 TTTTAATATAAAAAAACTAATAAATATATTTTTATTAAT
1 TTTTAATATAAAAAAACTAATAAATATATTTTTATTAAT
38604 TTTTAATATAAAAAAACTAATAAATATATTTTTATTAAT
1 TTTTAATATAAAAAAACTAATAAATATATTTTTATTAAT
38643 TT
1 TT
38645 ATGTTAATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (39 bp):
TTTTAATATAAAAAAACTAATAAATATATTTTTATTAAT
Found at i:38849 original size:29 final size:29
Alignment explanation
Indices: 38816--38872 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
38806 TATTATATCA
*
38816 ATATTATTA-AAAAAATTATCTTTTATTTG
1 ATATTATTATAAAAAATTA-ATTTTATTTG
*
38845 ATATTTTTATTAAAAAATTAATTTTATT
1 ATATTATTA-TAAAAAATTAATTTTATT
38873 ATTTCTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 8 0.33
30 7 0.29
31 9 0.38
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (29 bp):
ATATTATTATAAAAAATTAATTTTATTTG
Found at i:41351 original size:21 final size:21
Alignment explanation
Indices: 41317--41360 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
41307 AATATGAGAC
*
41317 TGAAGAAACTACAAGAAAAAG
1 TGAAGAAACAACAAGAAAAAG
*
41338 TGAAGGAACAACAAGAAAAAG
1 TGAAGAAACAACAAGAAAAAG
41359 TG
1 TG
41361 GGAGAAAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.59, C:0.09, G:0.23, T:0.09
Consensus pattern (21 bp):
TGAAGAAACAACAAGAAAAAG
Found at i:47541 original size:19 final size:20
Alignment explanation
Indices: 47519--47560 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
47509 ATTAGCAACG
47519 TACATGTGAGAT-TTTTTTT
1 TACATGTGAGATATTTTTTT
*
47538 TACATGTGATATATTTTTTT
1 TACATGTGAGATATTTTTTT
47558 TAC
1 TAC
47561 TTTAACAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.24, C:0.07, G:0.12, T:0.57
Consensus pattern (20 bp):
TACATGTGAGATATTTTTTT
Found at i:56491 original size:26 final size:28
Alignment explanation
Indices: 56461--56523 Score: 76
Period size: 31 Copynumber: 2.2 Consensus size: 28
56451 AAAAATTTTA
*
56461 AGCTCA-C-GAGTTTTCGAGTCGAGTCG
1 AGCTCATCAGAGTTTTCAAGTCGAGTCG
56487 AGCTCCATTTCAGAGTTTTCAAGTCGAGTCG
1 AGCT-CA--TCAGAGTTTTCAAGTCGAGTCG
56518 AGCTCA
1 AGCTCA
56524 GCAATACTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
26 4 0.13
27 2 0.06
30 3 0.10
31 22 0.71
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (28 bp):
AGCTCATCAGAGTTTTCAAGTCGAGTCG
Found at i:56833 original size:17 final size:18
Alignment explanation
Indices: 56804--56839 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
56794 ATTCGAAATC
56804 ATTTAATAAATCCTTAAT
1 ATTTAATAAATCCTTAAT
56822 ATTTAA-AAATCCTTAAT
1 ATTTAATAAATCCTTAAT
56839 A
1 A
56840 AAAAAAACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTTAATAAATCCTTAAT
Found at i:58419 original size:60 final size:59
Alignment explanation
Indices: 58283--58424 Score: 146
Period size: 60 Copynumber: 2.4 Consensus size: 59
58273 AAATATATGA
* * *
58283 ATAATC-AGGTGATCATTTTATAACTTTTAATAGTCGGAGACTCAACAAAGCAATACCCT
1 ATAATCAAGG-GATCATTTTGTAACTTTTAATAGTCGAAGACTCAACAAAACAATACCCT
* * * *
58342 ATAATCAAGGAACCATTTTGTAA-TTATTAATAGTCGAAAGACTCAACAAAACACCT-TCCT
1 ATAATCAAGGGATCATTTTGTAACTT-TTAATAGTCG-AAGACTCAACAAAACA-ATACCCT
*
58402 ATAGTCAAGGGATCATTTGTGTA
1 ATAATCAAGGGATCATTT-TGTA
58425 CTCTACCCTA
Statistics
Matches: 68, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
58 2 0.03
59 26 0.38
60 35 0.51
61 5 0.07
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (59 bp):
ATAATCAAGGGATCATTTTGTAACTTTTAATAGTCGAAGACTCAACAAAACAATACCCT
Found at i:66971 original size:35 final size:35
Alignment explanation
Indices: 66923--66998 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
66913 AAAACAGTCC
* * *
66923 TCAATTTCTTTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
66958 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
66993 TCAATT
1 TCAATT
66999 AAATTCAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.38, C:0.24, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:67535 original size:130 final size:130
Alignment explanation
Indices: 67394--67634 Score: 392
Period size: 130 Copynumber: 1.9 Consensus size: 130
67384 TATTTATATA
* **
67394 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATATG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATG
* *
67459 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGACACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACGTGTCATTGATGACACATGACACCACCTAATTATTTATATATGCT
*
67524 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATG
* * * *
67589 TTAACACATGATCATGATATGTGTTATTGATGACACATGTCACCAC
66 TTAACACATGATCATGACACGTGTCATTGATGACACATGACACCAC
67635 AGGAAAATTA
Statistics
Matches: 101, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
130 101 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATG
TTAACACATGATCATGACACGTGTCATTGATGACACATGACACCACCTAATTATTTATATATGCT
Found at i:67611 original size:23 final size:21
Alignment explanation
Indices: 67568--67614 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
67558 AATTAATCAT
67568 TTAACCAGGATCTGACATGTG
1 TTAACCAGGATCTGACATGTG
* *
67589 TTAACACATGATCATGATATGTG
1 TTAAC-CAGGATC-TGACATGTG
67612 TTA
1 TTA
67615 TTGATGACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 6 0.27
23 11 0.50
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (21 bp):
TTAACCAGGATCTGACATGTG
Found at i:67990 original size:28 final size:27
Alignment explanation
Indices: 67959--68021 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
67949 AGTTGATACA
*
67959 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
67987 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
68015 ATATTTT
1 ATATTTT
68022 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:68122 original size:16 final size:18
Alignment explanation
Indices: 68101--68134 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
68091 ATTTCTTATT
68101 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
68117 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
68135 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:69212 original size:66 final size:66
Alignment explanation
Indices: 69102--69234 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
69092 ATAAAATCGC
*
69102 AACGCGATCTCCAGTATCGCAAATAAGTTTCTAGATTCGAAACGCGATTTTGACTATCGCACTGC
1 AACGCGATCTCCAGTATCGCAAATAAGTTTCCAGATTCGAAACGCGATTTTGACTATCGCACTGC
69167 G
66 G
* * *
69168 AACGCGTTCTCCAGTATCGCAAATAAGTTTCCAGATTCGCAACGCGATTTTGACTATCGCATTGC
1 AACGCGATCTCCAGTATCGCAAATAAGTTTCCAGATTCGAAACGCGATTTTGACTATCGCACTGC
69233 G
66 G
69234 A
1 A
69235 TTTTAGAAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (66 bp):
AACGCGATCTCCAGTATCGCAAATAAGTTTCCAGATTCGAAACGCGATTTTGACTATCGCACTGC
G
Found at i:69270 original size:26 final size:26
Alignment explanation
Indices: 69222--69273 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
69212 CGATTTTGAC
** *
69222 TATCGCATTGCGATTTTAGAAAATCG
1 TATCGCATTGCGATAATACAAAATCG
*
69248 TATCGCGTTGCGATAATACAAAATCG
1 TATCGCATTGCGATAATACAAAATCG
69274 CAATACGATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (26 bp):
TATCGCATTGCGATAATACAAAATCG
Found at i:69458 original size:22 final size:22
Alignment explanation
Indices: 69432--69478 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
69422 GGCGACATCT
*
69432 GTCCCCATCTCTGACGAAATCC
1 GTCCCCATCTCCGACGAAATCC
*
69454 GTCCCCATCTCCGGCGAAATCC
1 GTCCCCATCTCCGACGAAATCC
69476 GTC
1 GTC
69479 TATCTCCATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.19, C:0.43, G:0.17, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCC
Found at i:69485 original size:20 final size:21
Alignment explanation
Indices: 69421--69478 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
69411 TCACTCTCTA
* *
69421 CGGCGACATCTGTCCCCATCTC
1 CGGCGAAATCCGT-CCCATCTC
* *
69443 TGACGAAATCCGTCCCCATCTC
1 CGGCGAAATCCGT-CCCATCTC
69465 CGGCGAAATCCGTC
1 CGGCGAAATCCGTC
69479 TATCTCCATC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 1 0.03
22 29 0.97
ACGTcount: A:0.19, C:0.41, G:0.19, T:0.21
Consensus pattern (21 bp):
CGGCGAAATCCGTCCCATCTC
Found at i:69917 original size:20 final size:20
Alignment explanation
Indices: 69880--69946 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 20
69870 GATTATCTCA
** *
69880 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCATTTTCGTG
69900 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGTCATTTTCGTG
* **
69920 TTGCGGTTTTCATTTTCGTG
1 TTGCGATAGTCATTTTCGTG
69940 TTGCGAT
1 TTGCGAT
69947 TTTAAGTTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.15, C:0.16, G:0.25, T:0.43
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGTG
Found at i:69956 original size:20 final size:20
Alignment explanation
Indices: 69913--69956 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
69903 CGATAGTCAT
* * *
69913 TTTCGTGTTGCGGTTTTCAT
1 TTTCGTGTTGCGATTTTAAG
69933 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
69953 TTTC
1 TTTC
69957 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.09, C:0.14, G:0.23, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:71579 original size:21 final size:21
Alignment explanation
Indices: 71541--71581 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
71531 CATGGCATGA
* * *
71541 TGAGGTATCTACTTTACGTGG
1 TGAGGTAGCGACTCTACGTGG
71562 TGAGGTAGCGACTCTACGTG
1 TGAGGTAGCGACTCTACGTG
71582 AGATGGTAGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.32
Consensus pattern (21 bp):
TGAGGTAGCGACTCTACGTGG
Found at i:71607 original size:63 final size:63
Alignment explanation
Indices: 71540--71684 Score: 238
Period size: 63 Copynumber: 2.3 Consensus size: 63
71530 GCATGGCATG
71540 ATGAGGTATC-TACTTTACGTGGTGAGGTAGCGACTCTACGTGAGATGGTAGCATCGTTGCAGA
1 ATGAGGT-TCATACTTTACGTGGTGAGGTAGCGACTCTACGTGAGATGGTAGCATCGTTGCAGA
* * *
71603 ATGAGGTTCATACTTTACGTGGTGAGGTAGCGGCTGTACGTGAGATGGTAGCATCGTTGTAGA
1 ATGAGGTTCATACTTTACGTGGTGAGGTAGCGACTCTACGTGAGATGGTAGCATCGTTGCAGA
*
71666 ATGAGGTTCATACTCTACG
1 ATGAGGTTCATACTTTACG
71685 CAACGAGGTA
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
62 2 0.03
63 75 0.97
ACGTcount: A:0.23, C:0.15, G:0.32, T:0.30
Consensus pattern (63 bp):
ATGAGGTTCATACTTTACGTGGTGAGGTAGCGACTCTACGTGAGATGGTAGCATCGTTGCAGA
Found at i:72016 original size:20 final size:20
Alignment explanation
Indices: 71922--72030 Score: 106
Period size: 20 Copynumber: 5.8 Consensus size: 20
71912 CACGAAACTT
*
71922 AAAATCGCAACGCGAAAATG
1 AAAATCGCAATGCGAAAATG
**
71942 ACTATCGCAATGCGAAAATG
1 AAAATCGCAATGCGAAAATG
** *
71962 ACTATCGCAATGCG-AAATA
1 AAAATCGCAATGCGAAAATG
71981 AAAATCGCAA--CG----TG
1 AAAATCGCAATGCGAAAATG
71995 AAAATCGCAATGCGAAAATG
1 AAAATCGCAATGCGAAAATG
*
72015 AAAATCGCAACGCGAA
1 AAAATCGCAATGCGAA
72031 TTTAGTTTCG
Statistics
Matches: 75, Mismatches: 8, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
14 11 0.15
16 2 0.03
17 2 0.03
19 12 0.16
20 48 0.64
ACGTcount: A:0.46, C:0.20, G:0.19, T:0.15
Consensus pattern (20 bp):
AAAATCGCAATGCGAAAATG
Found at i:72084 original size:19 final size:19
Alignment explanation
Indices: 72031--72085 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
72021 GCAACGCGAA
*
72031 TTTAGTTTCGCGTTGCGA--
1 TTTA-TTTCGCATTGCGATT
72049 TTT-TTTCGCATTGCGATT
1 TTTATTTCGCATTGCGATT
72067 TTTATTTCGCATTGCGATT
1 TTTATTTCGCATTGCGATT
72086 ATCTTGTTGC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
16 12 0.36
18 6 0.18
19 15 0.45
ACGTcount: A:0.13, C:0.16, G:0.20, T:0.51
Consensus pattern (19 bp):
TTTATTTCGCATTGCGATT
Found at i:72087 original size:16 final size:16
Alignment explanation
Indices: 72036--72087 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
72026 GCGAATTTAG
* *
72036 TTTCGCGTTGCGATTT
1 TTTCGCATTGCGATTA
72052 TTTCGCATTGCGATTTTTA
1 TTTCGCATTGCGA---TTA
72071 TTTCGCATTGCGATTA
1 TTTCGCATTGCGATTA
72087 T
1 T
72088 CTTGTTGCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
16 16 0.52
19 15 0.48
ACGTcount: A:0.13, C:0.17, G:0.19, T:0.50
Consensus pattern (16 bp):
TTTCGCATTGCGATTA
Found at i:72135 original size:20 final size:20
Alignment explanation
Indices: 72092--72138 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
72082 GATTATCTTG
*
72092 TTGCGATAGTCAAATTCACG
1 TTGCGATAGTCAAATTCACA
** *
72112 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCAAATTCACA
72132 TTGCGAT
1 TTGCGAT
72139 TTTAAGTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCACA
Found at i:72148 original size:20 final size:20
Alignment explanation
Indices: 72125--72168 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
72115 CGATAGTCAT
72125 TTTCGCATTGCGATTTTAAG
1 TTTCGCATTGCGATTTTAAG
**
72145 TTTCGTGTTGCGATTTTAAG
1 TTTCGCATTGCGATTTTAAG
72165 TTTC
1 TTTC
72169 AGAAACTATT
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:0.16, C:0.14, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGCATTGCGATTTTAAG
Found at i:72679 original size:21 final size:21
Alignment explanation
Indices: 72655--72749 Score: 90
Period size: 21 Copynumber: 4.5 Consensus size: 21
72645 CCTGTCATCG
72655 TTCAAGAGGCCTCTCCTATCA
1 TTCAAGAGGCCTCTCCTATCA
* *
72676 TTCAAGAGGCCTATCCTATCG
1 TTCAAGAGGCCTCTCCTATCA
72697 TTCAAGAGG-C-C-CCTATCA
1 TTCAAGAGGCCTCTCCTATCA
*
72715 TCCCTCAAGAGTCCTCT-CTCATCA
1 T---TCAAGAGGCCTCTCCT-ATCA
*
72739 TTCAATAGGCC
1 TTCAAGAGGCC
72750 CCTGTCATCG
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
18 7 0.12
20 1 0.02
21 43 0.72
22 1 0.02
23 3 0.05
24 5 0.08
ACGTcount: A:0.24, C:0.34, G:0.15, T:0.27
Consensus pattern (21 bp):
TTCAAGAGGCCTCTCCTATCA
Found at i:72723 original size:42 final size:40
Alignment explanation
Indices: 72649--72758 Score: 107
Period size: 42 Copynumber: 2.6 Consensus size: 40
72639 GACTCACCTG
72649 TCATCGTTCAAGAGGCCTCTCCTATCAT-TCAAGAGGCCTATC
1 TCATCGTTCAAGAGG-C-C-CCTATCATCTCAAGAGGCCTATC
* *
72691 -CTATCGTTCAAGAGGCCCCTATCATCCCTCAAGAGTCCTCTC
1 TC-ATCGTTCAAGAGGCCCCTATCAT--CTCAAGAGGCCTATC
* * *
72733 TCATCATTCAATAGGCCCCTGTCATC
1 TCATCGTTCAAGAGGCCCCTATCATC
72759 GTTGAAGAGG
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
39 8 0.14
40 2 0.03
41 2 0.03
42 45 0.78
43 1 0.02
ACGTcount: A:0.23, C:0.35, G:0.15, T:0.28
Consensus pattern (40 bp):
TCATCGTTCAAGAGGCCCCTATCATCTCAAGAGGCCTATC
Found at i:72757 original size:21 final size:21
Alignment explanation
Indices: 72649--72768 Score: 75
Period size: 21 Copynumber: 5.7 Consensus size: 21
72639 GACTCACCTG
* *
72649 TCATCGTTCAAGAGGCCTCT-
1 TCATCATTCAAGAGGCCCCTA
*
72669 CCTATCATTCAAGAGG--CCTA
1 TC-ATCATTCAAGAGGCCCCTA
*
72689 TCCTATCGTTCAAGAGGCCCCTA
1 T-C-ATCATTCAAGAGGCCCCTA
** * * *
72712 TCATCCCTCAAGAGTCCTCTC
1 TCATCATTCAAGAGGCCCCTA
* *
72733 TCATCATTCAATAGGCCCCTG
1 TCATCATTCAAGAGGCCCCTA
* *
72754 TCATCGTTGAAGAGG
1 TCATCATTCAAGAGG
72769 TCTCTCCCAC
Statistics
Matches: 76, Mismatches: 19, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
19 2 0.03
20 1 0.01
21 67 0.88
22 1 0.01
23 5 0.07
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.28
Consensus pattern (21 bp):
TCATCATTCAAGAGGCCCCTA
Found at i:72767 original size:42 final size:42
Alignment explanation
Indices: 72697--72788 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
72687 TATCCTATCG
* *
72697 TTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCTCTCTCATCA
1 TTCAAGAGGCCCCTATCATCCCTCAAGAGGT-CTCTCCCACCA
* * ** *
72739 TTCAATAGGCCCCTGTCATCGTTGAAGAGGTCTCTCCCACCA
1 TTCAAGAGGCCCCTATCATCCCTCAAGAGGTCTCTCCCACCA
72781 TTCAAGAG
1 TTCAAGAG
72789 CCCGATTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 39 0.95
43 2 0.05
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.26
Consensus pattern (42 bp):
TTCAAGAGGCCCCTATCATCCCTCAAGAGGTCTCTCCCACCA
Found at i:74141 original size:14 final size:14
Alignment explanation
Indices: 74122--74158 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
74112 GCTTGTTTAA
74122 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
74136 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
74150 TTGATTTGT
1 TTGATTTGT
74159 TTAATTGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:74342 original size:19 final size:20
Alignment explanation
Indices: 74277--74359 Score: 89
Period size: 20 Copynumber: 4.2 Consensus size: 20
74267 AAGGTACACT
* *
74277 TTCGCAACGCTAAACTCAAA
1 TTCGCAACGCGAAAGTCAAA
* *
74297 ATCGCAACGCGAAAGCCAAA
1 TTCGCAACGCGAAAGTCAAA
*
74317 ATCGCAACGCGAAAGTC-AA
1 TTCGCAACGCGAAAGTCAAA
* *
74336 TTCGCAATGTGAAAGTC-AA
1 TTCGCAACGCGAAAGTCAAA
74355 TTCGC
1 TTCGC
74360 GTTGCGATAG
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 23 0.42
20 32 0.58
ACGTcount: A:0.39, C:0.27, G:0.18, T:0.17
Consensus pattern (20 bp):
TTCGCAACGCGAAAGTCAAA
Found at i:74418 original size:20 final size:20
Alignment explanation
Indices: 74393--74469 Score: 100
Period size: 20 Copynumber: 3.9 Consensus size: 20
74383 GCGATTTTCT
* *
74393 CGTTGCGATAGTCAACTTCC
1 CGTTGCGATAGTCAAATTCA
*
74413 CGTTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAATTCA
*
74433 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCA
* *
74453 CGTTACGATATTCAAAT
1 CGTTGCGATAGTCAAAT
74470 GAATGTGTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCA
Found at i:74462 original size:40 final size:40
Alignment explanation
Indices: 74393--74469 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
74383 GCGATTTTCT
* *
74393 CGTTGCGATAGTCAACTTCCCGTTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAATTCCCGTTACGATAATCAAATTCA
* *
74433 CGTTGCGATAGTCAAATTCGCGTTACGATATTCAAAT
1 CGTTGCGATAGTCAAATTCCCGTTACGATAATCAAAT
74470 GAATGTGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (40 bp):
CGTTGCGATAGTCAAATTCCCGTTACGATAATCAAATTCA
Found at i:74692 original size:140 final size:140
Alignment explanation
Indices: 74440--74722 Score: 521
Period size: 140 Copynumber: 2.0 Consensus size: 140
74430 TCACGTTGCG
**
74440 ATAGTCAAATTCGCGTTACGATATTCAAATGAATGTGTAATAAGTGATAGTAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTACGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
*
74505 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTATACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
74570 AATACACATA
131 AATACACATA
*
74580 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTACGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
*
74645 TAGCAATGTTCAAACTCAAGTTACTAATACATGCTTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
74710 AATACACATA
131 AATACACATA
74720 ATA
1 ATA
74723 CAACGTTTGC
Statistics
Matches: 138, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 138 1.00
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.29
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTACGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:77972 original size:20 final size:20
Alignment explanation
Indices: 77947--78034 Score: 106
Period size: 20 Copynumber: 4.3 Consensus size: 20
77937 AAATTCAGCA
*
77947 TTGCGACAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
*
77967 TTGCGATAGTCAGAATCGAG
1 TTGCGATAGTCAGAATCGCG
** *
77987 TTGCGATTATGT-ATTATCGTG
1 TTGCGA-TA-GTCAGAATCGCG
78008 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
78028 TTGCGAT
1 TTGCGAT
78035 TTACATATTC
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
19 2 0.04
20 39 0.68
21 14 0.25
22 2 0.04
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:78153 original size:20 final size:19
Alignment explanation
Indices: 78130--78175 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
78120 GGAAACTGAT
* *
78130 TTGCGATACTGGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
78150 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
78169 TTGCGAT
1 TTGCGAT
78176 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:78165 original size:19 final size:19
Alignment explanation
Indices: 78141--78177 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
78131 TGCGATACTG
*
78141 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
78160 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
78178 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:81170 original size:21 final size:21
Alignment explanation
Indices: 81145--81199 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
81135 TTTGAGGGAG
81145 GAGTATCGATACTGCCAAGGA
1 GAGTATCGATACTGCCAAGGA
*
81166 GAGTATCGATACTGCCAAGGG
1 GAGTATCGATACTGCCAAGGA
81187 GAGTATCGATACT
1 GAGTATCGATACT
81200 ACCCCTGCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.22
Consensus pattern (21 bp):
GAGTATCGATACTGCCAAGGA
Found at i:84658 original size:4 final size:4
Alignment explanation
Indices: 84637--84704 Score: 68
Period size: 4 Copynumber: 17.2 Consensus size: 4
84627 TAAAAATAGG
* *
84637 TAAA AAAA TAAA -AAA TAAA TAAA TAAA TAAA TAAA TAAA TGAAA T-AT
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA T-AAA TAAA
* * *
84684 TAAA TATA TATA TATA TAAA T
1 TAAA TAAA TAAA TAAA TAAA T
84705 GAGTAAAATA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
3 5 0.09
4 46 0.84
5 4 0.07
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.29
Consensus pattern (4 bp):
TAAA
Found at i:84805 original size:29 final size:29
Alignment explanation
Indices: 84767--84824 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
84757 ATAATATAAT
84767 ATAAACAAATAAAAAAACCAAAAATAAAA
1 ATAAACAAATAAAAAAACCAAAAATAAAA
* * * * *
84796 ATAAATAAATATATAAATCAAATATAAAA
1 ATAAACAAATAAAAAAACCAAAAATAAAA
84825 GTATACATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (29 bp):
ATAAACAAATAAAAAAACCAAAAATAAAA
Found at i:85574 original size:37 final size:36
Alignment explanation
Indices: 85533--85637 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 36
85523 GTGCTTGTGG
*
85533 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTAT-TTTAGGAGTTTGAATCATAGTAGAACTCT
* * *
85570 ATCCTATTTTAAGGAGTTTGAATCATAGCAAAATTCT
1 ATCCTATTTT-AGGAGTTTGAATCATAGTAGAACTCT
* *
85607 ATCTTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTA-TTTTAGGAGTTTGAATCATAGTAG
85638 GACGAAAAGG
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
36 3 0.05
37 51 0.88
38 4 0.07
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.40
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCATAGTAGAACTCT
Found at i:86686 original size:106 final size:106
Alignment explanation
Indices: 86368--88061 Score: 2524
Period size: 106 Copynumber: 16.0 Consensus size: 106
86358 GCATTGTTCT
* * ** * * *
86368 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTATTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
* * * * *
86432 AGCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
86474 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAA-AT-TTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
** * * *
86533 TAAGCCGCCCCTTCGTCGTGAAGTT-AAGCTTGTGTTGTCTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAA-CTTGCGTTGTC-TG
* *
86575 G-GTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
*
86639 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
86680 GAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
*
86745 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
86786 GAGTCCAATATCCTTCGTTGTGAAGCTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
86851 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
86892 GAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* * *
86957 CCAGCGGTCCCTTCGTCGTGAAGTTGAATTTGCTTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
86998 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
87063 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
87104 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
*
87169 CCAGCGGTCCCTTCGTCTTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
87210 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* * * *
87275 TCAGCGGTCCCTTCCTCGTGAAGTTGAACTTGCATTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
87316 GAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
*
87381 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * * * *
87422 GAGTCCAATATCCTTCGTTGTAAAGTTGAATTTGTCTCTGAAATTGAGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
87487 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
87528 GAGTCCATTATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* * *
87593 CCAACGGTCCCTTCGTCGTGAAGTTGAATTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
87634 GAGTCCAATATCCTTCGATGTGAAATTAAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* *
87699 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGCTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
87740 GAGTCCAATATCCTTCGTTGTGAAGTTGAAAGTGGCTCTGAAATTGAGAAGTCGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
*
87805 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
87846 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
87911 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
87952 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGAAAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* * * *
88017 CCAGCGGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
88058 GAGT
1 GAGT
88062 GGCACGATAT
Statistics
Matches: 1445, Mismatches: 132, Indels: 22
0.90 0.08 0.01
Matches are distributed among these distances:
99 2 0.00
100 78 0.05
101 5 0.00
102 4 0.00
104 3 0.00
105 5 0.00
106 1345 0.93
107 3 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:88891 original size:22 final size:22
Alignment explanation
Indices: 88865--88934 Score: 122
Period size: 22 Copynumber: 3.2 Consensus size: 22
88855 TTATGTTTGG
88865 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
88887 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
* *
88909 TCATAGGTTTGGCATTTTATGC
1 TCAAAGGTTTGGCATTTGATGC
88931 TCAA
1 TCAA
88935 CGATTTGATG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.39
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:89634 original size:172 final size:171
Alignment explanation
Indices: 89337--89683 Score: 597
Period size: 172 Copynumber: 2.0 Consensus size: 171
89327 TAAATAGGCC
* *
89337 CAAACAAGTGTTTCAGGGTGTTGAACCAATGATCAATTCATTCTGATGCCTTCAATCATGTCCTA
1 CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATGCCTTCAATCATG--C--
89402 CTCAAAATGTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATG
62 CTCAAAATGTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATG
*
89467 ATTGTGTTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
127 ATTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
*
89512 CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATGTCTTCAATCATG-CTCA
1 CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATGCCTTCAATCATGCCTCA
89576 AAATGTTTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATGAT
66 AAATG--TCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATGAT
89641 TGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
129 TGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
89684 TTTTAGGGAA
Statistics
Matches: 166, Mismatches: 4, Indels: 7
0.94 0.02 0.04
Matches are distributed among these distances:
170 9 0.05
172 100 0.60
175 57 0.34
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (171 bp):
CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATGCCTTCAATCATGCCTCA
AAATGTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATGATTG
TGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
Found at i:93243 original size:19 final size:19
Alignment explanation
Indices: 93210--93246 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
93200 TGCAGATGAT
93210 GGAAATAAAATAAAAGAGA
1 GGAAATAAAATAAAAGAGA
93229 GGAAA-AAAATGAAAAGAG
1 GGAAATAAAAT-AAAAGAG
93247 TTAGTAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (19 bp):
GGAAATAAAATAAAAGAGA
Found at i:95289 original size:37 final size:37
Alignment explanation
Indices: 95248--95341 Score: 125
Period size: 37 Copynumber: 2.5 Consensus size: 37
95238 TCCTATCTTT
* *
95248 AGGAGTTTAAATCATAGTAGAACTCTATCTTATTTTA
1 AGGAGTTTGAATCCTAGTAGAACTCTATCTTATTTTA
* * * *
95285 AGGAGTTTGAATCCTAGCAAAATTCTATCTTATTTTT
1 AGGAGTTTGAATCCTAGTAGAACTCTATCTTATTTTA
*
95322 AGGAATTTGAATCCTAGTAG
1 AGGAGTTTGAATCCTAGTAG
95342 GACGAAAAAG
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (37 bp):
AGGAGTTTGAATCCTAGTAGAACTCTATCTTATTTTA
Found at i:109508 original size:31 final size:32
Alignment explanation
Indices: 109473--109539 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
109463 AATCAATTCG
* *
109473 GGTCGGGTC-AAATTGGATCGGTTGATTTTCA
1 GGTCGGGTCAAAATCGGATCGGTTGATGTTCA
*
109504 GGTCGGGTCAAAATCGGATCGGTTGGTGTTCA
1 GGTCGGGTCAAAATCGGATCGGTTGATGTTCA
109536 GGTC
1 GGTC
109540 AATTAATCTC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 9 0.28
32 23 0.72
ACGTcount: A:0.18, C:0.15, G:0.36, T:0.31
Consensus pattern (32 bp):
GGTCGGGTCAAAATCGGATCGGTTGATGTTCA
Found at i:109728 original size:46 final size:44
Alignment explanation
Indices: 109588--109733 Score: 157
Period size: 46 Copynumber: 3.2 Consensus size: 44
109578 ATCGGTTCAA
* *
109588 TTGGTTTTGGTTCAGGTCAAGCTTTAGATTTTCGGGTTAATTCGG
1 TTGGTTTT-GTTCAGATCAACCTTTAGATTTTCGGGTTAATTCGG
* * * * *
109633 ATTTGTTTCGGTTCGGATCAACCTGTAGATTTTCGGGTCAATTCGGG
1 -TTGGTTT-TGTTCAGATCAACCTTTAGATTTTCGGGTTAATTC-GG
*
109680 TTGGTTTTGTCTCAGATCAACCTTTAGATTTTCGAGTTAATTCTGG
1 TTGGTTTTGT-TCAGATCAACCTTTAGATTTTCGGGTTAATTC-GG
*
109726 TTGTTTTT
1 TTGGTTTT
109734 ATTTAAGTCA
Statistics
Matches: 82, Mismatches: 15, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
45 2 0.02
46 78 0.95
47 2 0.02
ACGTcount: A:0.16, C:0.14, G:0.25, T:0.45
Consensus pattern (44 bp):
TTGGTTTTGTTCAGATCAACCTTTAGATTTTCGGGTTAATTCGG
Found at i:110277 original size:16 final size:15
Alignment explanation
Indices: 110237--110277 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
110227 TTAAGTTCGG
110237 ATTGATTTCGGTTCA
1 ATTGATTTCGGTTCA
*
110252 AGTTGCTTTCGGTTCA
1 A-TTGATTTCGGTTCA
110268 TATTGATTTC
1 -ATTGATTTC
110278 AGTTAAACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 1 0.05
16 20 0.91
17 1 0.05
ACGTcount: A:0.17, C:0.15, G:0.20, T:0.49
Consensus pattern (15 bp):
ATTGATTTCGGTTCA
Found at i:117364 original size:21 final size:19
Alignment explanation
Indices: 117340--117378 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
117330 GGAAACCACC
117340 CTTCTATCGTAGTTTCTCTTT
1 CTTCTATC-T-GTTTCTCTTT
*
117361 CTTCTCTCTGTTTCTCTT
1 CTTCTATCTGTTTCTCTT
117379 AAGGTTCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 1 0.06
21 7 0.41
ACGTcount: A:0.05, C:0.28, G:0.08, T:0.59
Consensus pattern (19 bp):
CTTCTATCTGTTTCTCTTT
Found at i:125226 original size:38 final size:38
Alignment explanation
Indices: 125175--125258 Score: 159
Period size: 38 Copynumber: 2.2 Consensus size: 38
125165 GATATATCAA
125175 ATTGAAATGAAGTTAGGTAGCACAAAATCAGTAAAACT
1 ATTGAAATGAAGTTAGGTAGCACAAAATCAGTAAAACT
125213 ATTGAAATGAAGTTAGGTAGCACAAAATCAGTAAAACT
1 ATTGAAATGAAGTTAGGTAGCACAAAATCAGTAAAACT
*
125251 ATAGAAAT
1 ATTGAAAT
125259 CAGAGATAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.49, C:0.10, G:0.18, T:0.24
Consensus pattern (38 bp):
ATTGAAATGAAGTTAGGTAGCACAAAATCAGTAAAACT
Done.