Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006023.1 Hibiscus syriacus cultivar Beakdansim tig00014213_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: 1315283
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:7451 original size:6 final size:6
Alignment explanation
Indices: 7440--7484 Score: 65
Period size: 6 Copynumber: 7.5 Consensus size: 6
7430 CTCTATTTTT
*
7440 ATGTAG ATGTAG ATGTTAG AT-TAG ATGTAG ATGTCG ATGTAG ATG
1 ATGTAG ATGTAG ATG-TAG ATGTAG ATGTAG ATGTAG ATGTAG ATG
7485 ATATATCATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 5 0.14
6 25 0.71
7 5 0.14
ACGTcount: A:0.31, C:0.02, G:0.31, T:0.36
Consensus pattern (6 bp):
ATGTAG
Found at i:9268 original size:21 final size:21
Alignment explanation
Indices: 9217--9275 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
9207 AAATCAGTTC
9217 CCAGAATCGCAATGCGATAGT
1 CCAGAATCGCAATGCGATAGT
* * **
9238 ACA-AATTCGCATTGCGATTTT
1 CCAGAA-TCGCAATGCGATAGT
*
9259 CCAGAATCGCAACGCGA
1 CCAGAATCGCAATGCGA
9276 ATATGAAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
20 2 0.07
21 25 0.86
22 2 0.07
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.22
Consensus pattern (21 bp):
CCAGAATCGCAATGCGATAGT
Found at i:9288 original size:20 final size:20
Alignment explanation
Indices: 9263--9446 Score: 184
Period size: 20 Copynumber: 9.5 Consensus size: 20
9253 GATTTTCCAG
* *
9263 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGTA
* *
9283 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
*
9303 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGTA
9323 AATCGCAACGCG-----G-A
1 AATCGCAACGCGAATACGTA
*
9337 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGTA
* * * * *
9357 AATAGTAATGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
*
9377 AATCGCAATGCGAATACGTA
1 AATCGCAACGCGAATACGTA
*
9397 AATCGCAATGCGAATACGTA
1 AATCGCAACGCGAATACGTA
*
9417 AATCGCAATGCGAAT-CTGTA
1 AATCGCAACGCGAATAC-GTA
9437 AATCGCAACG
1 AATCGCAACG
9447 AGATTCTGAC
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
14 12 0.09
15 1 0.01
19 2 0.01
20 122 0.89
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.18
Consensus pattern (20 bp):
AATCGCAACGCGAATACGTA
Found at i:9384 original size:74 final size:74
Alignment explanation
Indices: 9263--9404 Score: 212
Period size: 74 Copynumber: 1.9 Consensus size: 74
9253 GATTTTCCAG
* * *
9263 AATCGCAACGCGAATATGAAAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAATCG
1 AATCGCAACGAGAATACGAAAATAGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAATCG
9328 CAACGCGGA
66 CAACGCGGA
* * * * *
9337 AATCGCAACGAGAATACGTAAATAGTAATGCGTATCCGTAAATCGCAATGCGAATACGTAAATCG
1 AATCGCAACGAGAATACGAAAATAGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAATCG
9402 CAA
66 CAA
9405 TGCGAATACG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
74 60 1.00
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (74 bp):
AATCGCAACGAGAATACGAAAATAGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAATCG
CAACGCGGA
Found at i:12910 original size:14 final size:14
Alignment explanation
Indices: 12891--12958 Score: 55
Period size: 14 Copynumber: 4.5 Consensus size: 14
12881 AGAAATTACT
*
12891 ATCGCAACGAGAGA
1 ATCGCAACGAGAAA
12905 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
* *
12924 ATCGCAATGTGAAA
1 ATCGCAACGAGAAA
*
12938 ATCGCAACGAGAGA
1 ATCGCAACGAGAAA
12952 ATCGCAA
1 ATCGCAA
12959 TGCAAAATGA
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
14 29 0.67
16 2 0.05
17 1 0.02
18 1 0.02
19 10 0.23
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:12928 original size:19 final size:19
Alignment explanation
Indices: 12904--13016 Score: 85
Period size: 19 Copynumber: 6.7 Consensus size: 19
12894 GCAACGAGAG
12904 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
12923 AATCGCAAT--G---TGAA
1 AATCGCAATGCGAAATGAA
*
12937 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
12951 AATCGCAATGCAAAATGAA
1 AATCGCAATGCGAAATGAA
*
12970 AATCGCAA--CG-AA-G-G
1 AATCGCAATGCGAAATGAA
12984 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
13003 AATCGCAACGCGAA
1 AATCGCAATGCGAA
13017 TTTAGTTTCG
Statistics
Matches: 75, Mismatches: 7, Indels: 24
0.71 0.07 0.23
Matches are distributed among these distances:
14 31 0.41
15 1 0.01
16 5 0.07
17 4 0.05
18 2 0.03
19 32 0.43
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:12970 original size:33 final size:33
Alignment explanation
Indices: 12933--13012 Score: 135
Period size: 33 Copynumber: 2.4 Consensus size: 33
12923 AATCGCAATG
12933 TGAAAATCGCAACG-AGAGAATCGCAATGCAAAA
1 TGAAAATCGCAACGAAG-GAATCGCAATGCAAAA
*
12966 TGAAAATCGCAACGAAGGAATCGCAATGCGAAA
1 TGAAAATCGCAACGAAGGAATCGCAATGCAAAA
12999 TGAAAATCGCAACG
1 TGAAAATCGCAACG
13013 CGAATTTAGT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
33 43 0.96
34 2 0.04
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (33 bp):
TGAAAATCGCAACGAAGGAATCGCAATGCAAAA
Found at i:12988 original size:47 final size:46
Alignment explanation
Indices: 12891--12991 Score: 150
Period size: 47 Copynumber: 2.2 Consensus size: 46
12881 AGAAATTACT
* *
12891 ATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGTGAAA
1 ATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAA-GCGAAA
12938 ATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAA-CGAAGGA
1 ATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAAGCGAA--A
12985 ATCGCAA
1 ATCGCAA
12992 TGCGAAATGA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
45 3 0.06
47 47 0.94
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.13
Consensus pattern (46 bp):
ATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAAGCGAAA
Found at i:13034 original size:19 final size:19
Alignment explanation
Indices: 13012--13074 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
13002 AAATCGCAAC
* *
13012 GCGAATTTAGTTTCGTGTT
1 GCGATTTTAGTTTCGCGTT
13031 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
* *
13050 GCGATTTTAATTTCGCATT
1 GCGATTTTAGTTTCGCGTT
13069 GCGATT
1 GCGATT
13075 CTCTCGTTGC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.16, C:0.14, G:0.24, T:0.46
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:13105 original size:19 final size:19
Alignment explanation
Indices: 13029--13106 Score: 78
Period size: 19 Copynumber: 4.4 Consensus size: 19
13019 TAGTTTCGTG
*
13029 TTGCGATTTT-AGTTTCGCG
1 TTGCGATTTTCA-TTTCGCA
*
13048 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
13067 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
13081 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
13100 TTGCGAT
1 TTGCGAT
13107 AGTCATTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
14 6 0.12
16 7 0.14
17 6 0.12
19 29 0.59
20 1 0.02
ACGTcount: A:0.14, C:0.19, G:0.21, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:13232 original size:14 final size:14
Alignment explanation
Indices: 13213--13249 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
13203 CATCAATTAA
13213 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
13227 ACAAATCATCTTTT
1 ACAAATCAACTTTT
13241 ACAAATCAA
1 ACAAATCAA
13250 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:14667 original size:21 final size:21
Alignment explanation
Indices: 14601--14667 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
14591 ATGAATCAGG
*
14601 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
14621 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
14643 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
14664 CTCT
1 CTCT
14668 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:14686 original size:42 final size:41
Alignment explanation
Indices: 14601--14723 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
14591 ATGAATCAGG
* * * *
14601 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
14643 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
14685 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
14724 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:15920 original size:21 final size:21
Alignment explanation
Indices: 15894--15938 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
15884 GATTTCTGGG
* *
15894 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
15915 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
15936 CAA
1 CAA
15939 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:16341 original size:18 final size:18
Alignment explanation
Indices: 16299--16341 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
16289 ACGTATATGA
*
16299 ATGACATGAATTGTGTGT
1 ATGACATGAATTATGTGT
16317 ATG-CATGAATATATGTGT
1 ATGACATGAAT-TATGTGT
16335 -TGACATG
1 ATGACATG
16342 CTTTTGAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.30, C:0.07, G:0.26, T:0.37
Consensus pattern (18 bp):
ATGACATGAATTATGTGT
Found at i:17674 original size:23 final size:22
Alignment explanation
Indices: 17615--17681 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
17605 TATGGACATC
*
17615 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
17637 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
17659 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
17682 TTTATACGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 28 0.65
23 15 0.35
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.25
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:20826 original size:21 final size:21
Alignment explanation
Indices: 20800--20844 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
20790 GATTTCTGGG
* *
20800 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
20821 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
20842 CAA
1 CAA
20845 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:22592 original size:23 final size:22
Alignment explanation
Indices: 22533--22599 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
22523 TATGGACATC
*
22533 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
22555 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
22577 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
22600 TTTATACGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 28 0.65
23 15 0.35
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.25
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:24755 original size:20 final size:20
Alignment explanation
Indices: 24730--24788 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
24720 GGTTGAAATG
24730 AAAATCGCAACGAGAGAATA
1 AAAATCGCAACGAGAGAATA
* *
24750 AAAATCGCAACGCG-GAAATG
1 AAAATCGCAACGAGAG-AATA
**
24770 ACTATCGCAACGAGAGAAT
1 AAAATCGCAACGAGAGAAT
24789 CACAACGCGA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.47, C:0.19, G:0.22, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACGAGAGAATA
Found at i:24813 original size:19 final size:19
Alignment explanation
Indices: 24724--24850 Score: 129
Period size: 19 Copynumber: 6.8 Consensus size: 19
24714 TCTTTTGGTT
*
24724 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
24743 GAGAATAAAAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
24763 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
* *
24781 G--A-GAGAATCACAACGC
1 GAAATGAAAATCGCAACGC
24797 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
24816 GAAATTAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
24835 AAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
24851 TACGATTTTG
Statistics
Matches: 88, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
14 8 0.09
15 1 0.01
16 2 0.02
17 1 0.01
18 2 0.02
19 46 0.52
20 26 0.30
21 2 0.02
ACGTcount: A:0.49, C:0.20, G:0.20, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:24899 original size:33 final size:33
Alignment explanation
Indices: 24853--24931 Score: 122
Period size: 33 Copynumber: 2.4 Consensus size: 33
24843 AATCGCAATA
** *
24853 CGATTTTGGTTTCGCGTTGCGATTATCTCGTTG
1 CGATTTTCATTTCGCGTTACGATTATCTCGTTG
*
24886 CGATTTTCATTTCGCGTTACGATTCTCTCGTTG
1 CGATTTTCATTTCGCGTTACGATTATCTCGTTG
24919 CGATTTTCATTTC
1 CGATTTTCATTTC
24932 TCTCGTTGCG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.47
Consensus pattern (33 bp):
CGATTTTCATTTCGCGTTACGATTATCTCGTTG
Found at i:24934 original size:21 final size:20
Alignment explanation
Indices: 24908--24986 Score: 88
Period size: 20 Copynumber: 3.9 Consensus size: 20
24898 CGCGTTACGA
24908 TTCTCTCGTTGCGATTTTCAT
1 TTCTCT-GTTGCGATTTTCAT
**
24929 TTCTCTCGTTGCGATAGTCAT
1 TTCTCT-GTTGCGATTTTCAT
24950 TT-TCGTGTTGCGATTTTCAT
1 TTCTC-TGTTGCGATTTTCAT
* *
24970 TTTTATGTTGCGATTTT
1 TTCTCTGTTGCGATTTT
24987 AAGTTTAGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
20 28 0.55
21 23 0.45
ACGTcount: A:0.11, C:0.18, G:0.18, T:0.53
Consensus pattern (20 bp):
TTCTCTGTTGCGATTTTCAT
Found at i:25535 original size:20 final size:20
Alignment explanation
Indices: 25510--25679 Score: 171
Period size: 20 Copynumber: 8.4 Consensus size: 20
25500 TAAAAATCGT
25510 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
25530 GTTGCGATTTTACGTAT-TGTC
1 GTTGCGA-TTTACGGATACG-C
25551 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* * * * * *
25571 ATTGTGATTTATGTATTCTC
1 GTTGCGATTTACGGATACGC
*
25591 GTTGCGATTTACAGATACGC
1 GTTGCGATTTACGGATACGC
** * *
25611 GTTGCGATTTACATATTCTC
1 GTTGCGATTTACGGATACGC
25631 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
25651 GTTGCGATTTTACGGATACTC
1 GTTGCGA-TTTACGGATACGC
*
25672 ATTGCGAT
1 GTTGCGAT
25680 AGTCAGAATC
Statistics
Matches: 120, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
20 85 0.71
21 35 0.29
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:25598 original size:40 final size:40
Alignment explanation
Indices: 25510--25679 Score: 241
Period size: 40 Copynumber: 4.2 Consensus size: 40
25500 TAAAAATCGT
*
25510 GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTC
1 GTTGCGATTTACGGATACGCGTTGCGA-TTTACGTATTCTC
* * *
25551 GTTGCGATTTACGGATACGCATTGTGATTTATGTATTCTC
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCTC
* *
25591 GTTGCGATTTACAGATACGCGTTGCGATTTACATATTCTC
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCTC
* *
25631 GTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTC
1 GTTGCGATTTACGGATACGCGTTGCGA-TTTACGTATTCTC
*
25672 ATTGCGAT
1 GTTGCGAT
25680 AGTCAGAATC
Statistics
Matches: 114, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
40 72 0.63
41 42 0.37
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (40 bp):
GTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCTC
Found at i:25677 original size:81 final size:80
Alignment explanation
Indices: 25511--25721 Score: 255
Period size: 81 Copynumber: 2.6 Consensus size: 80
25501 AAAAATCGTG
* * * *
25511 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCATTGT
1 TTGCGATTTACAGATACGCGTTGCGA-TTTACATATTCTCGTTGCGATTTACGGATACGCATTGC
* * * *
25576 GATTTATGTATTCTCG
65 GATTTACGGATACTCA
*
25592 TTGCGATTTACAGATACGCGTTGCGATTTACATATTCTCGTTGCGATTTACGGATACGCGTTGCG
1 TTGCGATTTACAGATACGCGTTGCGATTTACATATTCTCGTTGCGATTTACGGATACGCATTGCG
25657 ATTTTACGGATACTCA
66 A-TTTACGGATACTCA
* * * *
25673 TTGCGATAGT-CAGA-ATCGCGTTGCGATTTATATGTTCGCGTTGCGATTT
1 TTGCGAT-TTACAGATA-CGCGTTGCGATTTACATATTCTCGTTGCGATTT
25722 TCATATTCGC
Statistics
Matches: 114, Mismatches: 13, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
80 37 0.32
81 76 0.67
82 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (80 bp):
TTGCGATTTACAGATACGCGTTGCGATTTACATATTCTCGTTGCGATTTACGGATACGCATTGCG
ATTTACGGATACTCA
Found at i:25711 original size:20 final size:20
Alignment explanation
Indices: 25688--25740 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
25678 ATAGTCAGAA
*
25688 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
25708 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
*
25728 TCGCGTAGCGATT
1 TCGCGTTGCGATT
25741 ATGGAAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.15, C:0.19, G:0.25, T:0.42
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:25732 original size:40 final size:40
Alignment explanation
Indices: 25510--25740 Score: 200
Period size: 40 Copynumber: 5.7 Consensus size: 40
25500 TAAAAATCGT
* * *
25510 GTTGCGATTTACGGATACGCGTTGCGATTT-TACGTATTGTC
1 GTTGCGATTTACAGATACGCGTTGCGATTTATA--TGTTCTC
* * * * *
25551 GTTGCGATTTACGGATACGCATTGTGATTTATGTATTCTC
1 GTTGCGATTTACAGATACGCGTTGCGATTTATATGTTCTC
* *
25591 GTTGCGATTTACAGATACGCGTTGCGATTTACATATTCTC
1 GTTGCGATTTACAGATACGCGTTGCGATTTATATGTTCTC
* * *
25631 GTTGCGATTTACGGATACGCGTTGCGATTT-TACGGATACTC
1 GTTGCGATTTACAGATACGCGTTGCGATTTATA-TG-TTCTC
* * *
25672 ATTGCGATAGT-CAGA-ATCGCGTTGCGATTTATATGTTCGC
1 GTTGCGAT-TTACAGATA-CGCGTTGCGATTTATATGTTCTC
* * * *
25712 GTTGCGATTTTCATATTCGCGTAGCGATT
1 GTTGCGATTTACAGATACGCGTTGCGATT
25741 ATGGAAAATC
Statistics
Matches: 157, Mismatches: 25, Indels: 17
0.79 0.13 0.09
Matches are distributed among these distances:
39 2 0.01
40 95 0.61
41 56 0.36
42 4 0.03
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (40 bp):
GTTGCGATTTACAGATACGCGTTGCGATTTATATGTTCTC
Found at i:26053 original size:17 final size:17
Alignment explanation
Indices: 26031--26066 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
26021 AAAAAAAGTC
*
26031 GTAATGATGGGAGGGTT
1 GTAATGATGGGAGAGTT
26048 GTAATGATGGGAGAGTT
1 GTAATGATGGGAGAGTT
26065 GT
1 GT
26067 GAAAGAATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.25, C:0.00, G:0.44, T:0.31
Consensus pattern (17 bp):
GTAATGATGGGAGAGTT
Found at i:26546 original size:19 final size:19
Alignment explanation
Indices: 26524--26568 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
26514 AATTTGTAAA
26524 TCGCAACTAAATTTCAAAT
1 TCGCAACTAAATTTCAAAT
*
26543 TCGCAACTGAATTTCAAAT
1 TCGCAACTAAATTTCAAAT
26562 TCGCAAC
1 TCGCAAC
26569 GCGAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (19 bp):
TCGCAACTAAATTTCAAAT
Found at i:26576 original size:20 final size:20
Alignment explanation
Indices: 26419--26587 Score: 122
Period size: 20 Copynumber: 8.6 Consensus size: 20
26409 AAATGACCAA
*
26419 CAAATTCGCAACGCGAATTC
1 CAAATTCGCAACGCGAATTT
* * *
26439 CAATTTCGCAAC-CCAGTTT
1 CAAATTCGCAACGCGAATTT
*
26458 CCAATTTCGCAACGCGAATATGT
1 -CAAATTCGCAACGCGAAT-T-T
*
26481 -AAA-TCGCAACAC--ATTAGT
1 CAAATTCGCAACGCGAATT--T
26499 CAAATTCGCAACGCGAATTT
1 CAAATTCGCAACGCGAATTT
* **
26519 GTAAA-TCGCAAC-TAAATTT
1 -CAAATTCGCAACGCGAATTT
*
26538 CAAATTCGCAAC-TGAATTT
1 CAAATTCGCAACGCGAATTT
26557 CAAATTCGCAACGCGAATTT
1 CAAATTCGCAACGCGAATTT
*
26577 -AATTTCGCAAC
1 CAAATTCGCAAC
26588 AGGTTTTAGT
Statistics
Matches: 121, Mismatches: 16, Indels: 25
0.75 0.10 0.15
Matches are distributed among these distances:
17 1 0.01
18 7 0.06
19 47 0.39
20 53 0.44
21 8 0.07
22 4 0.03
23 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.27
Consensus pattern (20 bp):
CAAATTCGCAACGCGAATTT
Found at i:27354 original size:12 final size:12
Alignment explanation
Indices: 27333--27366 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
27323 ACCACATTTC
*
27333 CAATACCAAACA
1 CAATATCAAACA
27345 CAATATCAAACA
1 CAATATCAAACA
*
27357 CAATCTCAAA
1 CAATATCAAA
27367 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:27505 original size:24 final size:24
Alignment explanation
Indices: 27487--27533 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
27477 AGTCAGTATT
27487 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATCTTGGTCAATACC
* *
27511 CGGACTTTGATCTTGGTCAATAC
1 CGAAATTTGATCTTGGTCAATAC
27534 TCGGATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (24 bp):
CGAAATTTGATCTTGGTCAATACC
Found at i:27538 original size:24 final size:24
Alignment explanation
Indices: 27492--27545 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
27482 GTATTCGAAA
27492 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
27516 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
27540 TTTGAT
1 TTTGAT
27546 GATGTGATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:27728 original size:3 final size:3
Alignment explanation
Indices: 27720--27744 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
27710 ATATAACCCT
27720 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
27745 TCCCCGAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:29824 original size:12 final size:12
Alignment explanation
Indices: 29807--29847 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
29797 AGCAAAAAGA
*
29807 AATCAAAATCGC
1 AATCAAAATCAC
*
29819 AATCAAAATCAA
1 AATCAAAATCAC
*
29831 AATCAAAATCCC
1 AATCAAAATCAC
29843 AATCA
1 AATCA
29848 CAACCGGCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.56, C:0.24, G:0.02, T:0.17
Consensus pattern (12 bp):
AATCAAAATCAC
Found at i:29828 original size:6 final size:6
Alignment explanation
Indices: 29806--29840 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
29796 AAGCAAAAAG
* *
29806 AAATCA AAATCG CAATCA AAATCA AAATCA AAATC
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATC
29841 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:30191 original size:20 final size:20
Alignment explanation
Indices: 30166--30203 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
30156 CGTGAAATAA
30166 GCGTTGCGAATTTACCTTTC
1 GCGTTGCGAATTTACCTTTC
30186 GCGTTGCGAATTTACCTT
1 GCGTTGCGAATTTACCTT
30204 CAACATAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.39
Consensus pattern (20 bp):
GCGTTGCGAATTTACCTTTC
Found at i:30282 original size:25 final size:25
Alignment explanation
Indices: 30244--30293 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
30234 AAATCAATTA
*
30244 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
30269 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
30294 GAAAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:30789 original size:65 final size:65
Alignment explanation
Indices: 30711--30854 Score: 195
Period size: 65 Copynumber: 2.2 Consensus size: 65
30701 TTTTAGAAAC
* *
30711 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAA-AAA-TAATTCTTATTTAC-AAATCAAA
1 AACAAATCAACTTTTACAAATCAATTAAACAA-AAAATAAATTAAATCTTATTTACTAAA-C-AA
30773 TTA
63 TTA
* * *
30776 AACAAATCAACTTTTACAAATCAATTAATCAAAAAATAAATTAAATCTTATTTCCTCAACAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAAAAATAAATTAAATCTTATTTACTAAACAATTA
30841 AACAAATCAACTTT
1 AACAAATCAACTTT
30855 CAATATAAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
64 3 0.04
65 53 0.75
66 13 0.18
67 2 0.03
ACGTcount: A:0.52, C:0.17, G:0.01, T:0.31
Consensus pattern (65 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAAAAATAAATTAAATCTTATTTACTAAACAATTA
Found at i:32248 original size:21 final size:21
Alignment explanation
Indices: 32224--32319 Score: 79
Period size: 21 Copynumber: 4.6 Consensus size: 21
32214 GGCGAGACCA
*
32224 CTTGAATGATGACAGGGGCCT
1 CTTGAATGATGAGAGGGGCCT
* * * **
32245 CTTGAACGGTGGGAGGGGATT
1 CTTGAATGATGAGAGGGGCCT
32266 CTTCG-ATGATGAGAGGGGCCT
1 CTT-GAATGATGAGAGGGGCCT
* **
32287 CTTGAACGAT-AGGAGACGCCT
1 CTTGAATGATGA-GAGGGGCCT
32308 CTTGAATGATGA
1 CTTGAATGATGA
32320 TAGGTACATC
Statistics
Matches: 56, Mismatches: 15, Indels: 7
0.72 0.19 0.09
Matches are distributed among these distances:
20 2 0.04
21 52 0.93
22 2 0.04
ACGTcount: A:0.24, C:0.17, G:0.35, T:0.24
Consensus pattern (21 bp):
CTTGAATGATGAGAGGGGCCT
Found at i:32317 original size:42 final size:42
Alignment explanation
Indices: 32224--32319 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
32214 GGCGAGACCA
* * ** *
32224 CTTGAATGATGACAGGGGCCTCTTGAACGGTGGGAGGGGATT
1 CTTGAATGATGACAGGGGCCTCTTGAACGATAGGAGACGACT
* *
32266 CTTCG-ATGATGAGAGGGGCCTCTTGAACGATAGGAGACGCCT
1 CTT-GAATGATGACAGGGGCCTCTTGAACGATAGGAGACGACT
32308 CTTGAATGATGA
1 CTTGAATGATGA
32320 TAGGTACATC
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
41 1 0.02
42 43 0.96
43 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.35, T:0.24
Consensus pattern (42 bp):
CTTGAATGATGACAGGGGCCTCTTGAACGATAGGAGACGACT
Found at i:32495 original size:4 final size:4
Alignment explanation
Indices: 32463--32508 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
32453 GGGCCATTAA
* * * *
32463 AAAT AAAT TAAT ACAT AAAT CAGT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
32509 TGCCGAAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:34515 original size:19 final size:20
Alignment explanation
Indices: 34467--34521 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
34457 AGAAGTTTCT
*
34467 GAAACTTAAAATCGCAACTCG
1 GAAAC-TAAAATCGCAACGCG
* *
34488 GAAATTAAAATTGCAACGC-
1 GAAACTAAAATCGCAACGCG
34507 GAAACTAAAATCGCA
1 GAAACTAAAATCGCA
34522 TTGCTATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 13 0.45
20 12 0.41
21 4 0.14
ACGTcount: A:0.47, C:0.20, G:0.15, T:0.18
Consensus pattern (20 bp):
GAAACTAAAATCGCAACGCG
Found at i:34838 original size:22 final size:22
Alignment explanation
Indices: 34810--34860 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
34800 GATGGAGATA
**
34810 GACGGATTTTGTCGGAAATGGG
1 GACGGATTTCATCGGAAATGGG
*
34832 GACGGATTTCATCGGAGATGGG
1 GACGGATTTCATCGGAAATGGG
34854 GACGGAT
1 GACGGAT
34861 GTCGCCGTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.24, C:0.12, G:0.41, T:0.24
Consensus pattern (22 bp):
GACGGATTTCATCGGAAATGGG
Found at i:35013 original size:20 final size:20
Alignment explanation
Indices: 34988--35036 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
34978 GCATAAAAAC
**
34988 ATTTGACTTTCACGTTGTGA
1 ATTTGACTTTCACGTTGCAA
* *
35008 ATTTGACTATCGCGTTGCAA
1 ATTTGACTTTCACGTTGCAA
35028 ATTTGACTT
1 ATTTGACTT
35037 CTGTGTTGCG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.43
Consensus pattern (20 bp):
ATTTGACTTTCACGTTGCAA
Found at i:35104 original size:20 final size:20
Alignment explanation
Indices: 35055--35108 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
35045 CGATTTACAT
35055 ATTCGCGTTGCGAAATTGGA
1 ATTCGCGTTGCGAAATTGGA
* *
35075 A-ACTGGGTTGCGAAATTGGA
1 ATTC-GCGTTGCGAAATTGGA
35095 ATTCGCGTTGCGAA
1 ATTCGCGTTGCGAA
35109 TTTGTTGGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (20 bp):
ATTCGCGTTGCGAAATTGGA
Found at i:36359 original size:20 final size:20
Alignment explanation
Indices: 36316--36359 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
36306 TCTGGCAATG
* * * *
36316 AACCGGCTGAAAATCGGTAG
1 AACCAGCTGAAAACCGATAA
36336 AACCAGCTGAAAACCGATAA
1 AACCAGCTGAAAACCGATAA
36356 AACC
1 AACC
36360 GGGGTGAACC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.25, G:0.20, T:0.11
Consensus pattern (20 bp):
AACCAGCTGAAAACCGATAA
Found at i:36398 original size:30 final size:30
Alignment explanation
Indices: 36335--36391 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
36325 AAAATCGGTA
* *
36335 GAACCAGCTGAAAACCGATAAAACCGGGGT
1 GAACCAGCTGAAAACCGACAAAACCAGGGT
*
36365 GAACCGGCTGAAAACCGACAAAACCAG
1 GAACCAGCTGAAAACCGACAAAACCAG
36392 TTTGAACTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.42, C:0.26, G:0.25, T:0.07
Consensus pattern (30 bp):
GAACCAGCTGAAAACCGACAAAACCAGGGT
Found at i:37573 original size:40 final size:40
Alignment explanation
Indices: 37494--37573 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
37484 CTACATTACA
* *
37494 CCAAACGGTGTCGTTTCCTTTGTTTTCCTTTCAATCCATT
1 CCAAACGGCGTCGTTTCCTTTGTTTTCCTTTCAACCCATT
* *
37534 CCAAATGGCGTCGTTTCCTTTGTTTTTCTCTT-AACCCATT
1 CCAAACGGCGTCGTTTCCTTTGTTTTCCT-TTCAACCCATT
37574 TTCGTAAACG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 33 0.94
41 2 0.06
ACGTcount: A:0.15, C:0.28, G:0.12, T:0.45
Consensus pattern (40 bp):
CCAAACGGCGTCGTTTCCTTTGTTTTCCTTTCAACCCATT
Found at i:38058 original size:41 final size:42
Alignment explanation
Indices: 37960--38074 Score: 153
Period size: 41 Copynumber: 2.8 Consensus size: 42
37950 GTTTCCAGAT
* * * * *
37960 TCGCAACGCAAACTTCGACTATCGCAATGCAAACTTGGACTA
1 TCGCAATGCGAACTTGGACTATCGCAATGCGAACTTGGACAA
*
38002 TCGCAATGCGAACTTGGACTATCGCAATGCGAA-TATGTA-AA
1 TCGCAATGCGAACTTGGACTATCGCAATGCGAACT-TGGACAA
38043 TCGCAATGCGAACTTGGACTATCGCAATGCGA
1 TCGCAATGCGAACTTGGACTATCGCAATGCGA
38075 TAGTCCAAGT
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 34 0.52
42 32 0.48
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (42 bp):
TCGCAATGCGAACTTGGACTATCGCAATGCGAACTTGGACAA
Found at i:38073 original size:21 final size:21
Alignment explanation
Indices: 37960--38074 Score: 153
Period size: 21 Copynumber: 5.5 Consensus size: 21
37950 GTTTCCAGAT
* * *
37960 TCGCAACGCAAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
*
37981 TCGCAATGCAAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
38002 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* *
38023 TCGCAATGCGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
38043 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
38064 TCGCAATGCGA
1 TCGCAATGCGA
38075 TAGTCCAAGT
Statistics
Matches: 84, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
20 17 0.20
21 67 0.80
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:38225 original size:6 final size:6
Alignment explanation
Indices: 38214--38240 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
38204 GACACGTACT
38214 ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACC
38241 CGAGATGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:38747 original size:6 final size:6
Alignment explanation
Indices: 38736--38761 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
38726 GTCCGTCTCG
38736 GGTCGT GGTCGT GGTCGT GGTCGT GG
1 GGTCGT GGTCGT GGTCGT GGTCGT GG
38762 AAATACGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.54, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:39345 original size:18 final size:18
Alignment explanation
Indices: 39324--39385 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
39314 TATAAAATTT
*
39324 TTATTTTATAATTATATA
1 TTATTTTATAATTATAAA
*
39342 TTATTTAAATTAATTATAAA
1 TTATTT-TA-TAATTATAAA
* * *
39362 CTATTTTTTAATTAAAAA
1 TTATTTTATAATTATAAA
*
39380 ATATTT
1 TTATTT
39386 AATTTTTTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
18 20 0.57
19 1 0.03
20 14 0.40
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
TTATTTTATAATTATAAA
Found at i:39377 original size:185 final size:185
Alignment explanation
Indices: 39013--39384 Score: 631
Period size: 185 Copynumber: 2.0 Consensus size: 185
39003 TTATTTTCTC
* *
39013 TTAAATATATTATATATAACATATAGGCTTAGCCCAAACCATTTAAAACCCAATTAATAATTTAA
1 TTAAATATATTATATATAACATATAGGCTCAGCACAAACCATTTAAAACCCAATTAATAATTTAA
*
39078 GATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTTTATTT
66 GATCCAAAAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTTTATTT
* * *
39143 TATAATTATATATTATTTAAATTAATTGTAAATTGTTTTTTTGAATTAAAAAATA
131 TATAATTATATATTATTTAAATTAATTATAAACTGATTTTTTGAATTAAAAAATA
* *
39198 TTAAATATATTATATATAACATATGGGCTCATCACAAACCATTTAAAACCCAATTAATAATTTAA
1 TTAAATATATTATATATAACATATAGGCTCAGCACAAACCATTTAAAACCCAATTAATAATTTAA
*
39263 GATCTAAAAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTTATATAAAATTTTTAT
66 GATCCAAAAACTTTTAAACCTAAATCAATATTAATTAATT-AAAAAA-TTATATAAAATTTTTAT
39328 TTTATAATTATATATTATTTAAATTAATTATAAACT-ATTTTTT-AATTAAAAAATA
129 TTTATAATTATATATTATTTAAATTAATTATAAACTGATTTTTTGAATTAAAAAATA
39383 TT
1 TT
39385 TAATTTTTTA
Statistics
Matches: 176, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
185 113 0.64
186 12 0.07
187 51 0.29
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.42
Consensus pattern (185 bp):
TTAAATATATTATATATAACATATAGGCTCAGCACAAACCATTTAAAACCCAATTAATAATTTAA
GATCCAAAAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTTTATTT
TATAATTATATATTATTTAAATTAATTATAAACTGATTTTTTGAATTAAAAAATA
Found at i:41140 original size:21 final size:21
Alignment explanation
Indices: 41094--41144 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
41084 TTCATTTGTT
*
41094 AAAATGATAAATGAACGCAAAC
1 AAAATG-TAAATCAACGCAAAC
41116 -AAATGTAAATCAACG-AACAC
1 AAAATGTAAATCAACGCAA-AC
41136 AAAATGTAA
1 AAAATGTAA
41145 CTTTCTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 11 0.42
21 13 0.50
ACGTcount: A:0.59, C:0.14, G:0.12, T:0.16
Consensus pattern (21 bp):
AAAATGTAAATCAACGCAAAC
Found at i:45820 original size:13 final size:14
Alignment explanation
Indices: 45802--45830 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
45792 CGAAACGACC
45802 CCAAAACC-CTCAA
1 CCAAAACCTCTCAA
45815 CCAAAACCTCTCAA
1 CCAAAACCTCTCAA
45829 CC
1 CC
45831 CCCTCAACAA
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:0.41, C:0.48, G:0.00, T:0.10
Consensus pattern (14 bp):
CCAAAACCTCTCAA
Found at i:46588 original size:3 final size:3
Alignment explanation
Indices: 46580--46630 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
46570 CAAAAAGATG
* *
46580 TAA TAA TAA TAA -AA TAA TCA TAA TCA TAA TAA TAA TAA -ATA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
46624 TTAA TAA
1 -TAA TAA
46631 ATATATATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 3 0.08
3 33 0.82
4 4 0.10
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:46630 original size:13 final size:12
Alignment explanation
Indices: 46582--46649 Score: 57
Period size: 13 Copynumber: 5.2 Consensus size: 12
46572 AAAAGATGTA
46582 ATAATAATAAA-
1 ATAATAATAAAT
*
46593 ATAATCATAATCAT
1 ATAATAATAA--AT
46607 AATAATAATAAAT
1 -ATAATAATAAAT
46620 ATAATTAATAAAT
1 ATAA-TAATAAAT
*
46633 ATATATATATATAT
1 ATA-ATA-ATAAAT
46647 ATA
1 ATA
46650 TTTTAAGACC
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
11 9 0.19
12 4 0.09
13 16 0.34
14 9 0.19
15 9 0.19
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (12 bp):
ATAATAATAAAT
Found at i:46633 original size:23 final size:26
Alignment explanation
Indices: 46580--46628 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
46570 CAAAAAGATG
46580 TAATAATAATAAA-ATAATCATAATCA
1 TAATAATAATAAATATAAT-ATAATCA
46606 TAATAATAATAAATATAAT-TAAT
1 TAATAATAATAAATATAATATAAT
46629 AAATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 4 0.18
26 13 0.59
27 5 0.23
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (26 bp):
TAATAATAATAAATATAATATAATCA
Found at i:46965 original size:66 final size:67
Alignment explanation
Indices: 46854--47371 Score: 572
Period size: 66 Copynumber: 7.8 Consensus size: 67
46844 GAGTATGATG
* * ** * * *
46854 GTTTCAAGAGAAACTGT-TACAAGAGAGATAAAACATGTTTAAAGGGAAACAAAT-TCGAAGATT
1 GTTTCAAGAGAAACTGTCT-CAAGGGAGACAAAATTTGTTTCAAGGGAAACAGATCTCAAAGATT
*
46917 GGT
65 TGT
* ** * *
46920 GTTTCAAGGGAAACTACCTCAAGAGAAACAAAATTTGTTTCAAGGGAAAC-GATCTCAAAGATTT
1 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAGATCTCAAAGATTT
46984 GT
66 GT
* * *
46986 GTTTCAAGAAAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACAGAT-TCAAAGATTG
1 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAGATCTCAAAGATTT
47050 GT
66 GT
* *** **
47052 GTTTCAAGGGAAACTGTCTCAATAAAGACAAAATCCGTTTCAAGGGAAAC-GATCTCAAAGATTT
1 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAGATCTCAAAGATTT
47116 GT
66 GT
* * *
47118 GTTTCAAGAGAAACTGTCCCAAGGGAGACAAAATTTGTTTCAAGGGAAATAAAT-TCAAAGATTT
1 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAGATCTCAAAGATTT
47182 GT
66 GT
* * *
47184 GTTTCAAGAGAAACTGTCTCAATGGAGACAAAATTCGTTTCAAGGGAAAC-GATCTCAAAGATAT
1 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAGATCTCAAAGATTT
47248 GT
66 GT
* * *
47250 GTTTTCAATAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACA-ATATCAAAGGTT
1 G-TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAGATCTCAAAGATT
47314 T-T
65 TGT
* * *
47316 -TTTAAAAAACAA-AGAAACTGTCTCAAGAGAGACAAAACTTTGTTTTAAGAGAAACA
1 GTTT------CAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAACA
47372 ACATGCTTTT
Statistics
Matches: 385, Mismatches: 52, Indels: 26
0.83 0.11 0.06
Matches are distributed among these distances:
64 3 0.01
65 7 0.02
66 270 0.70
67 62 0.16
69 24 0.06
70 19 0.05
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (67 bp):
GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAGATCTCAAAGATTT
GT
Found at i:46990 original size:30 final size:31
Alignment explanation
Indices: 46955--47205 Score: 101
Period size: 30 Copynumber: 7.8 Consensus size: 31
46945 AAACAAAATT
*
46955 TGTTTCAAGGGAAAC-GATCTCAAAGATTTG
1 TGTTTCAAGAGAAACTGATCTCAAAGATTTG
* *
46985 TGTTTCAAGAAAAACTG-TCTCAAGGGAGACAAAATT-
1 TGTTTCAAGAGAAACTGATCTCAA---AG----ATTTG
* *
47021 TGTTTCAAGAGAAACAGAT-TCAAAGATTGG
1 TGTTTCAAGAGAAACTGATCTCAAAGATTTG
* ** *
47051 TGTTTCAAGGGAAACTG-TCTCAATAAAGACAAAATC
1 TGTTTCAAGAGAAACTGATCTC---AAAG---ATTTG
* *
47087 CGTTTCAAGGGAAAC-GATCTCAAAGATTTG
1 TGTTTCAAGAGAAACTGATCTCAAAGATTTG
* *
47117 TGTTTCAAGAGAAACTG-TCCCAAGGGAGACAAAATT-
1 TGTTTCAAGAGAAACTGATCTCAA---AG----ATTTG
* *
47153 TGTTTCAAGGGAAA-TAAAT-TCAAAGATTTG
1 TGTTTCAAGAGAAACT-GATCTCAAAGATTTG
47183 TGTTTCAAGAGAAACTG-TCTCAA
1 TGTTTCAAGAGAAACTGATCTCAA
47206 TGGAGACAAA
Statistics
Matches: 163, Mismatches: 27, Indels: 62
0.65 0.11 0.25
Matches are distributed among these distances:
29 7 0.04
30 73 0.45
31 3 0.02
33 16 0.10
35 2 0.01
36 54 0.33
37 8 0.05
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (31 bp):
TGTTTCAAGAGAAACTGATCTCAAAGATTTG
Found at i:47092 original size:132 final size:132
Alignment explanation
Indices: 46854--47310 Score: 659
Period size: 132 Copynumber: 3.5 Consensus size: 132
46844 GAGTATGATG
* * ** * *
46854 GTTTCAAGAGAAACTGT-TACAAGAGAGATAAAACATGTTTAAAGGGAAACAAATTCGAAGATTG
1 GTTTCAAGAGAAACTGTCT-CAAGGGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAAGATTG
** * *
46918 GTGTTTCAAGGGAAACTACCTCAAGAGAA-ACAAAATTTGTTTCAAGGGAAACGATCTCAAAGAT
65 GTGTTTCAAGGGAAACTGTCTCAATA-AAGACAAAATTCGTTTCAAGGGAAACGATCTCAAAGAT
46982 TTGT
129 TTGT
* * *
46986 GTTTCAAGAAAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACAGATTCAAAGATTGG
1 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAAGATTGG
*
47051 TGTTTCAAGGGAAACTGTCTCAATAAAGACAAAATCCGTTTCAAGGGAAACGATCTCAAAGATTT
66 TGTTTCAAGGGAAACTGTCTCAATAAAGACAAAATTCGTTTCAAGGGAAACGATCTCAAAGATTT
47116 GT
131 GT
* * *
47118 GTTTCAAGAGAAACTGTCCCAAGGGAGACAAAATTTGTTTCAAGGGAAATAAATTCAAAGATTTG
1 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAAGATTGG
* ** *
47183 TGTTTCAAGAGAAACTGTCTCAATGGAGACAAAATTCGTTTCAAGGGAAACGATCTCAAAGATAT
66 TGTTTCAAGGGAAACTGTCTCAATAAAGACAAAATTCGTTTCAAGGGAAACGATCTCAAAGATTT
47248 GT
131 GT
*
47250 GTTTTCAATAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAC-AATATCAAAG
1 G-TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAAT-TCAAAG
47311 GTTTTTTTAA
Statistics
Matches: 293, Mismatches: 28, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
131 2 0.01
132 238 0.81
133 53 0.18
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (132 bp):
GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAAGATTGG
TGTTTCAAGGGAAACTGTCTCAATAAAGACAAAATTCGTTTCAAGGGAAACGATCTCAAAGATTT
GT
Found at i:49018 original size:81 final size:81
Alignment explanation
Indices: 48874--49111 Score: 359
Period size: 81 Copynumber: 2.9 Consensus size: 81
48864 TTCTAAAATG
* * * *
48874 AAAGATTAAATGTCTGACTGTGCATTTGGCAGAAAAGTGTCAATCATGCAAGTTAGATAAAAGGT
1 AAAGATTAAATGTCTAACTGTGCATTTGGTAGAAAGGTGTCAATCATGCAAGTTAGATGAAAGGT
*
48939 TAAATGCCTTTGGGTA
66 TAAATGCCTTTGGATA
* * *
48955 AAAGATTAAATGTCTTATTGTGCATTTGGTAGAAAGGTGTCAATCATGCAAGTAAGATGAAAGGT
1 AAAGATTAAATGTCTAACTGTGCATTTGGTAGAAAGGTGTCAATCATGCAAGTTAGATGAAAGGT
49020 TAAATGCCTTTGGATA
66 TAAATGCCTTTGGATA
* * * *
49036 AAAGATTAAATGCCTAACTATGCATTTGGTAGAAAGGTGCCAATAATGCAAGTTAGATGAAAGGT
1 AAAGATTAAATGTCTAACTGTGCATTTGGTAGAAAGGTGTCAATCATGCAAGTTAGATGAAAGGT
*
49101 TAAATTCCTTT
66 TAAATGCCTTT
49112 AGAGGAAATA
Statistics
Matches: 142, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 142 1.00
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.31
Consensus pattern (81 bp):
AAAGATTAAATGTCTAACTGTGCATTTGGTAGAAAGGTGTCAATCATGCAAGTTAGATGAAAGGT
TAAATGCCTTTGGATA
Found at i:49127 original size:81 final size:80
Alignment explanation
Indices: 48873--49143 Score: 312
Period size: 81 Copynumber: 3.4 Consensus size: 80
48863 TTTCTAAAAT
* * * * * *
48873 GAAAGATTAAATGTCTGACTGTGCATTTGGCAGAAAAGTGTCAATCATGCAAGTTAGATAAAAGG
1 GAAAGATTAAATGCCTAACTATGCATTTGGTAGAAAGGTGTCAATCATGCAAGTTAGATGAAAGG
48938 TTAAATGCCTTTG-G
66 TTAAATGCCTTTGAG
* * * * *
48952 GTAAAAGATTAAATGTCTTATTGTGCATTTGGTAGAAAGGTGTCAATCATGCAAGTAAGATGAAA
1 G--AAAGATTAAATGCCTAACTATGCATTTGGTAGAAAGGTGTCAATCATGCAAGTTAGATGAAA
*
49017 GGTTAAATGCCTTTGGAT
64 GGTTAAATGCCTTT-GAG
* * *
49035 AAAAGATTAAATGCCTAACTATGCATTTGGTAGAAAGGTGCCAATAATGCAAGTTAGATGAAAGG
1 GAAAGATTAAATGCCTAACTATGCATTTGGTAGAAAGGTGTCAATCATGCAAGTTAGATGAAAGG
*
49100 TTAAATTCCTTTAGAG
66 TTAAATGCCTTT-GAG
* * *
49116 GAAATACTAAATGCTTAAC-AGTGCATTT
1 GAAAGATTAAATGCCTAACTA-TGCATTT
49144 TGACATAAGC
Statistics
Matches: 165, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
79 1 0.01
80 1 0.01
81 162 0.98
82 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (80 bp):
GAAAGATTAAATGCCTAACTATGCATTTGGTAGAAAGGTGTCAATCATGCAAGTTAGATGAAAGG
TTAAATGCCTTTGAG
Found at i:49767 original size:65 final size:67
Alignment explanation
Indices: 49658--49815 Score: 203
Period size: 65 Copynumber: 2.4 Consensus size: 67
49648 TCAGAGGTTG
* * * * *
49658 GTGTATCAAGGGAAACTTTATCAAGAGAGACAAAACTTGTTTCAATGGAAACAGACTCAAAGA-C
1 GTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAGACTCAAAAATC
49722 TT
66 TT
* * * * *
49724 -TGTTTCAAGGGAAAATGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAGATTCAAAAATT
1 GTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAGACTCAAAAATC
49788 TT
66 TT
*
49790 GTGTTTCAAGAGAAACTGTCTCAAGA
1 GTGTTTCAAGGGAAACTGTCTCAAGA
49816 TAAAGAAAAT
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
65 53 0.69
66 2 0.03
67 22 0.29
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (67 bp):
GTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAGACTCAAAAATC
TT
Found at i:51347 original size:2 final size:2
Alignment explanation
Indices: 51340--51371 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
51330 TATTGTATGC
51340 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
51372 GGGTATATGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52084 original size:29 final size:30
Alignment explanation
Indices: 52013--52072 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
52003 CAATTTAAGG
*
52013 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACGTGAATTGAATTTA
52044 CAAAATGTTTTTGGACGT-AATTGAATTTA
1 CAAAATGTTTTTGGACGTGAATTGAATTTA
52073 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (30 bp):
CAAAATGTTTTTGGACGTGAATTGAATTTA
Found at i:52187 original size:21 final size:21
Alignment explanation
Indices: 52162--52239 Score: 89
Period size: 20 Copynumber: 4.0 Consensus size: 21
52152 TTCAAGATTG
* *
52162 CCCAGGGGGTATAGATTCCCC
1 CCCAGGGGGTACAGATACCCC
52183 CCCAGGGGGTACAGATA---C
1 CCCAGGGGGTACAGATACCCC
52201 CCC---GGGTACAGATACCCC
1 CCCAGGGGGTACAGATACCCC
52219 CCCA-GGGGTACAGATACCCC
1 CCCAGGGGGTACAGATACCCC
52239 C
1 C
52240 TGTAGGTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 11
0.79 0.03 0.17
Matches are distributed among these distances:
15 11 0.22
18 8 0.16
20 16 0.32
21 15 0.30
ACGTcount: A:0.23, C:0.37, G:0.27, T:0.13
Consensus pattern (21 bp):
CCCAGGGGGTACAGATACCCC
Found at i:52203 original size:20 final size:19
Alignment explanation
Indices: 52180--52239 Score: 74
Period size: 15 Copynumber: 3.3 Consensus size: 19
52170 GTATAGATTC
52180 CCCCCCAGGGGGTACAGATA
1 CCCCCCA-GGGGTACAGATA
52200 --CCCC--GGGTACAGATA
1 CCCCCCAGGGGTACAGATA
52215 CCCCCCCAGGGGTACAGATA
1 -CCCCCCAGGGGTACAGATA
52235 CCCCC
1 CCCCC
52240 TGTAGGTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
15 11 0.31
18 8 0.23
19 5 0.14
20 11 0.31
ACGTcount: A:0.23, C:0.42, G:0.25, T:0.10
Consensus pattern (19 bp):
CCCCCCAGGGGTACAGATA
Found at i:52208 original size:36 final size:35
Alignment explanation
Indices: 52168--52238 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 35
52158 ATTGCCCAGG
* *
52168 GGGTATAGATTCCCCCCCAGGGGGTACAGATACCCC
1 GGGTACAGATACCCCCCCA-GGGGTACAGATACCCC
52204 GGGTACAGATACCCCCCCAGGGGTACAGATACCCC
1 GGGTACAGATACCCCCCCAGGGGTACAGATACCCC
52239 CTGTAGGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
35 16 0.48
36 17 0.52
ACGTcount: A:0.24, C:0.35, G:0.27, T:0.14
Consensus pattern (35 bp):
GGGTACAGATACCCCCCCAGGGGTACAGATACCCC
Found at i:52313 original size:20 final size:21
Alignment explanation
Indices: 52273--52316 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
52263 AACAGAATGT
52273 CCAGGGGGTACCGATTCCCCC
1 CCAGGGGGTACCGATTCCCCC
52294 CCAGGGGGTACCGATTCCCCC
1 CCAGGGGGTACCGATTCCCCC
52315 CC
1 CC
52317 TGTTCAACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.14, C:0.45, G:0.27, T:0.14
Consensus pattern (21 bp):
CCAGGGGGTACCGATTCCCCC
Found at i:52378 original size:21 final size:21
Alignment explanation
Indices: 52352--52394 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
52342 ATTTGAATAT
*
52352 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
52373 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
52394 T
1 T
52395 CTATTCTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:52460 original size:20 final size:22
Alignment explanation
Indices: 52422--52461 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
52412 TTTGAGTATA
52422 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
52444 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
52462 ATATACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:54988 original size:29 final size:30
Alignment explanation
Indices: 54917--54976 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
54907 CAATTTAAGG
*
54917 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACGTGAATTGAATTTA
*
54948 CAAAATGTTTTTGGACGT-AGTTGAATTTA
1 CAAAATGTTTTTGGACGTGAATTGAATTTA
54977 TTCAAAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 10 0.37
30 11 0.41
31 6 0.22
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.42
Consensus pattern (30 bp):
CAAAATGTTTTTGGACGTGAATTGAATTTA
Found at i:55097 original size:22 final size:21
Alignment explanation
Indices: 55066--55129 Score: 85
Period size: 21 Copynumber: 3.0 Consensus size: 21
55056 TTCAAGATTG
*
55066 CCCAGGGGGTATAGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
*
55087 CCCTAGGGGGTACAGA-TACCC
1 CCC-AGGGGGTACAGATTCCCC
*
55108 CCCAGGGGGTACAGATACCCC
1 CCCAGGGGGTACAGATTCCCC
55129 C
1 C
55130 TGCAGGTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
20 12 0.32
21 14 0.38
22 11 0.30
ACGTcount: A:0.22, C:0.36, G:0.28, T:0.14
Consensus pattern (21 bp):
CCCAGGGGGTACAGATTCCCC
Found at i:55114 original size:20 final size:20
Alignment explanation
Indices: 55066--55129 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
55056 TTCAAGATTG
* *
55066 CCCAGGGGGTATAGATTCCCC
1 CCCAGGGGGTACAGA-TACCC
55087 CCCTAGGGGGTACAGATACCC
1 CCC-AGGGGGTACAGATACCC
55108 CCCAGGGGGTACAGATACCC
1 CCCAGGGGGTACAGATACCC
55128 CC
1 CC
55130 TGCAGGTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
20 19 0.47
21 10 0.25
22 11 0.28
ACGTcount: A:0.22, C:0.36, G:0.28, T:0.14
Consensus pattern (20 bp):
CCCAGGGGGTACAGATACCC
Found at i:55203 original size:20 final size:21
Alignment explanation
Indices: 55163--55206 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
55153 AACAGAATGT
55163 CCAGGGGGTACCGATTCCCCC
1 CCAGGGGGTACCGATTCCCCC
55184 CCAGGGGGTACCGATTCCCCC
1 CCAGGGGGTACCGATTCCCCC
55205 CC
1 CC
55207 TGTTCAACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.14, C:0.45, G:0.27, T:0.14
Consensus pattern (21 bp):
CCAGGGGGTACCGATTCCCCC
Found at i:55268 original size:21 final size:21
Alignment explanation
Indices: 55242--55284 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
55232 ATTTGAATAT
*
55242 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
55263 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
55284 T
1 T
55285 CTATTCTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:55605 original size:34 final size:32
Alignment explanation
Indices: 55566--55635 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
55556 TTTTGTAAAG
*
55566 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
55600 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
55632 GGGA
1 GGGA
55636 GTTGTAAGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.32
33 1 0.03
34 22 0.65
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:59810 original size:3 final size:3
Alignment explanation
Indices: 59752--59795 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
59742 GCAAAAAGAT
* *
59752 ATA ATA ATA A-A ATA ATA ATA GTA AT- CTA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
59796 ATATACTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
2 3 0.09
3 32 0.91
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:59823 original size:18 final size:19
Alignment explanation
Indices: 59784--59823 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
59774 AATCTAATAA
59784 TAATAATAATAAATATACT
1 TAATAATAATAAATATACT
* *
59803 TAATAAT-ATATATATATT
1 TAATAATAATAAATATACT
59821 TAA
1 TAA
59824 GACCAATACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
TAATAATAATAAATATACT
Found at i:60033 original size:12 final size:12
Alignment explanation
Indices: 60018--60048 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
60008 CAAGATTCAA
*
60018 ATGAAGATGTGG
1 ATGAAGATGAGG
60030 ATGAAGATGAGG
1 ATGAAGATGAGG
60042 ATGAAGA
1 ATGAAGA
60049 CGATAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.39, T:0.19
Consensus pattern (12 bp):
ATGAAGATGAGG
Found at i:62016 original size:20 final size:21
Alignment explanation
Indices: 61991--62030 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
61981 CTTTACATAG
*
61991 TAGTATTGATACCAT-AGGCT
1 TAGTATCGATACCATCAGGCT
62011 TAGTATCGATACCATCAGGC
1 TAGTATCGATACCATCAGGC
62031 CCAATGGCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (21 bp):
TAGTATCGATACCATCAGGCT
Found at i:75071 original size:26 final size:26
Alignment explanation
Indices: 75042--75126 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
75032 AGATTTAGGG
*
75042 TAATAAATCATCAACTCGATCCGATA
1 TAATAAATCATTAACTCGATCCGATA
* * * * ** *
75068 TAATAATATAATTATCCCTTAT-ATATT
1 TAATAA-ATCATTAACTC-GATCCGATA
75095 TAATAAATCATTAACTCGATCCGATA
1 TAATAAATCATTAACTCGATCCGATA
75121 TAATAA
1 TAATAA
75127 TATAATTATC
Statistics
Matches: 41, Mismatches: 15, Indels: 6
0.66 0.24 0.10
Matches are distributed among these distances:
25 2 0.05
26 22 0.54
27 15 0.37
28 2 0.05
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (26 bp):
TAATAAATCATTAACTCGATCCGATA
Found at i:75119 original size:53 final size:53
Alignment explanation
Indices: 75042--75150 Score: 209
Period size: 53 Copynumber: 2.1 Consensus size: 53
75032 AGATTTAGGG
75042 TAATAAATCATCAACTCGATCCGATATAATAATATAATTATCCCTTATATATT
1 TAATAAATCATCAACTCGATCCGATATAATAATATAATTATCCCTTATATATT
*
75095 TAATAAATCATTAACTCGATCCGATATAATAATATAATTATCCCTTATATATT
1 TAATAAATCATCAACTCGATCCGATATAATAATATAATTATCCCTTATATATT
75148 TAA
1 TAA
75151 GTATAACTGC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.39
Consensus pattern (53 bp):
TAATAAATCATCAACTCGATCCGATATAATAATATAATTATCCCTTATATATT
Found at i:76015 original size:13 final size:13
Alignment explanation
Indices: 75997--76022 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
75987 TTTGAAATAT
75997 AATTAGATATGTG
1 AATTAGATATGTG
76010 AATTAGATATGTG
1 AATTAGATATGTG
76023 TATTGATACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (13 bp):
AATTAGATATGTG
Found at i:77948 original size:18 final size:19
Alignment explanation
Indices: 77913--77965 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
77903 AATTTTACAG
*
77913 TTTTGATATTTGTAACAAT
1 TTTTCATATTTGTAACAAT
*
77932 TTTTCATATTT-TTACAAT
1 TTTTCATATTTGTAACAAT
* *
77950 TTTTTATTTTTGTAAC
1 TTTTCATATTTGTAAC
77966 GTGTTGACAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 15 0.54
19 13 0.46
ACGTcount: A:0.26, C:0.08, G:0.06, T:0.60
Consensus pattern (19 bp):
TTTTCATATTTGTAACAAT
Found at i:79711 original size:255 final size:255
Alignment explanation
Indices: 79260--79770 Score: 977
Period size: 255 Copynumber: 2.0 Consensus size: 255
79250 AGAGTAGCAA
79260 TGGATGGTCACCAACTATTAAGATAGAAGAGGATAAGGCTCTAGTTATAGTGTTATCTGTTCTCT
1 TGGATGGTCACCAACTATTAAGATAGAAGAGGATAAGGCTCTAGTTATAGTGTTATCTGTTCTCT
*
79325 TTACAGACACTTAAACGTTTTTAATGAAAATCGACTGATTTCGTTGTTACTCGAGTCCGGGTGAG
66 TTACAGACACTTAAACGTTTTTAATGAAAATCAACTGATTTCGTTGTTACTCGAGTCCGGGTGAG
79390 CATTATGTCCACATATGTACTGGAAACAAGTAATTTAAGAAAAACGGAACGGTATCGGAGACTGA
131 CATTATGTCCACATATGTACTGGAAACAAGTAATTTAAGAAAAACGGAACGGTATCGGAGACTGA
79455 TTCAATCGAACAAAGTCATGTCACGAGGTAGAAGCTTTATTAAACGTTGAGAGGTAACAT
196 TTCAATCGAACAAAGTCATGTCACGAGGTAGAAGCTTTATTAAACGTTGAGAGGTAACAT
79515 TGGATGGTCACCAACTATTAAGATAGAAGAGGATAAGGCTCTAGTTATAGTGTTATCTGTTCTCT
1 TGGATGGTCACCAACTATTAAGATAGAAGAGGATAAGGCTCTAGTTATAGTGTTATCTGTTCTCT
*
79580 TTACAGACACTTAAACGTTTTTAATGAAAATCAACTGATTTCGTTGTTACTTGAGTCCGGGTGAG
66 TTACAGACACTTAAACGTTTTTAATGAAAATCAACTGATTTCGTTGTTACTCGAGTCCGGGTGAG
* *
79645 CATTATGTCCGCATATGTGCTGGAAACAAGTAATTTAAGAAAAACGGAACGGTATCGGAGACTGA
131 CATTATGTCCACATATGTACTGGAAACAAGTAATTTAAGAAAAACGGAACGGTATCGGAGACTGA
*
79710 TTCAATCGAACGAAGTCATGTCACGAGGTAGAAGCTTTATTAAACGTTGAGAGGTAACAT
196 TTCAATCGAACAAAGTCATGTCACGAGGTAGAAGCTTTATTAAACGTTGAGAGGTAACAT
79770 T
1 T
79771 TCAAGGTGCA
Statistics
Matches: 251, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
255 251 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (255 bp):
TGGATGGTCACCAACTATTAAGATAGAAGAGGATAAGGCTCTAGTTATAGTGTTATCTGTTCTCT
TTACAGACACTTAAACGTTTTTAATGAAAATCAACTGATTTCGTTGTTACTCGAGTCCGGGTGAG
CATTATGTCCACATATGTACTGGAAACAAGTAATTTAAGAAAAACGGAACGGTATCGGAGACTGA
TTCAATCGAACAAAGTCATGTCACGAGGTAGAAGCTTTATTAAACGTTGAGAGGTAACAT
Found at i:83531 original size:15 final size:14
Alignment explanation
Indices: 83507--83552 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
83497 GTAATTGATT
*
83507 TTCTAGAAATTGAA
1 TTCTGGAAATTGAA
*
83521 TTCTGGAAAATGAA
1 TTCTGGAAATTGAA
*
83535 TTACTGGAATTTGAA
1 TT-CTGGAAATTGAA
83550 TTC
1 TTC
83553 AAAAAAATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 15 0.56
15 12 0.44
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (14 bp):
TTCTGGAAATTGAA
Found at i:83837 original size:14 final size:14
Alignment explanation
Indices: 83818--83850 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
83808 ATTAATAAAA
83818 ATATTAATATTGAT
1 ATATTAATATTGAT
83832 ATATTAATATTGAT
1 ATATTAATATTGAT
83846 ATATT
1 ATATT
83851 TTATTGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATATTAATATTGAT
Found at i:84117 original size:23 final size:23
Alignment explanation
Indices: 84087--84137 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
84077 TTAAAATAAA
*
84087 AATATAATATCTTATATTATTAT
1 AATATAATATATTATATTATTAT
* *
84110 AATATAATTTATTATTTTATTAT
1 AATATAATATATTATATTATTAT
84133 AATAT
1 AATAT
84138 TAAAAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
AATATAATATATTATATTATTAT
Found at i:84122 original size:18 final size:18
Alignment explanation
Indices: 84101--84135 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
84091 TAATATCTTA
84101 TATTATTATAATATAATT
1 TATTATTATAATATAATT
* *
84119 TATTATTTTATTATAAT
1 TATTATTATAATATAAT
84136 ATTAAAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTATTATAATATAATT
Found at i:84155 original size:22 final size:23
Alignment explanation
Indices: 84127--84173 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
84117 TTTATTATTT
84127 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
*
84149 TATTATATTATTAAAAATATTAA
1 TATTATAATATTAAAAATATTAA
84172 TA
1 TA
84174 AATATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:84172 original size:23 final size:24
Alignment explanation
Indices: 84128--84205 Score: 90
Period size: 23 Copynumber: 3.3 Consensus size: 24
84118 TTATTATTTT
*
84128 ATTATAATATTAAAAATA-TAAT-
1 ATTATATTATTAAAAATATTAATA
84150 ATTATATTATTAAAAATATTAATA
1 ATTATATTATTAAAAATATTAATA
* * *
84174 AATATATT-TTAAATATTTTAATA
1 ATTATATTATTAAAAATATTAATA
84197 ATTAATATT
1 ATT-ATATT
84206 TTGATTAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
22 17 0.35
23 19 0.40
24 12 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
ATTATATTATTAAAAATATTAATA
Found at i:84181 original size:21 final size:22
Alignment explanation
Indices: 84134--84190 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
84124 TTTTATTATA
*
84134 ATATTAAAAATA-TAATATTAT
1 ATATTAAAAATATTAATATAAT
84155 ATTATTAAAAATATTAATA-AAT
1 A-TATTAAAAATATTAATATAAT
**
84177 ATATTTTAAATATT
1 ATATTAAAAATATT
84191 TTAATAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 12 0.39
22 14 0.45
23 5 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATATTAAAAATATTAATATAAT
Found at i:85254 original size:9 final size:8
Alignment explanation
Indices: 85237--85265 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
85227 ATGATTAAGG
85237 TTATTTTT
1 TTATTTTT
85245 TTATTTTT
1 TTATTTTT
85253 TTATTTTT
1 TTATTTTT
85261 TTATT
1 TTATT
85266 ATAATTCTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
TTATTTTT
Found at i:90561 original size:18 final size:19
Alignment explanation
Indices: 90538--90575 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
90528 ATCTTTGATC
90538 TCTTGTTTG-TTTTGAATT
1 TCTTGTTTGCTTTTGAATT
*
90556 TCTTGTTTGCTTTTTAATT
1 TCTTGTTTGCTTTTGAATT
90575 T
1 T
90576 GTAATTTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.11, C:0.08, G:0.13, T:0.68
Consensus pattern (19 bp):
TCTTGTTTGCTTTTGAATT
Found at i:94359 original size:18 final size:18
Alignment explanation
Indices: 94336--94370 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
94326 GTGACCGGTC
94336 TGACCTGACCCGACCCGT
1 TGACCTGACCCGACCCGT
94354 TGACCTGACCCGACCCG
1 TGACCTGACCCGACCCG
94371 ACCTAGTGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.46, G:0.23, T:0.14
Consensus pattern (18 bp):
TGACCTGACCCGACCCGT
Found at i:94420 original size:29 final size:29
Alignment explanation
Indices: 94376--94740 Score: 400
Period size: 29 Copynumber: 12.6 Consensus size: 29
94366 ACCCGACCTA
* * *
94376 GTGACATTTTGCGAATTATTTTGGAAAAT
1 GTGACATTTTGGGAATTATTTTGAAAAAG
* * *
94405 GTGACATTCTGAGAATTATTTTGAAAAAA
1 GTGACATTTTGGGAATTATTTTGAAAAAG
94434 GTGACATTTTGGGAATT-TTTTGTAAAAAAG
1 GTGACATTTTGGGAATTATTTTG--AAAAAG
*
94464 GTGATATTTTGGGAATTATTTT-ACAAAA-
1 GTGACATTTTGGGAATTATTTTGA-AAAAG
* ***
94492 ATGACATGCGGGGAATTATTTTGAAAAAG
1 GTGACATTTTGGGAATTATTTTGAAAAAG
94521 GTGACATTTTGGGAATTATTTT-AGAAAAG
1 GTGACATTTTGGGAATTATTTTGA-AAAAG
**
94550 GTGACATCCTGGGAATTATTTTGAAAAAG
1 GTGACATTTTGGGAATTATTTTGAAAAAG
*
94579 GAGACATTTTGGGAA-TATTTGTGAAAAAG
1 GTGACATTTTGGGAATTATTT-TGAAAAAG
94608 GTGACATTTTGGGAATTATTTTGAAAAA-
1 GTGACATTTTGGGAATTATTTTGAAAAAG
* ** *
94636 ATGACATGATGGGAATTATTTTGAAAAAT
1 GTGACATTTTGGGAATTATTTTGAAAAAG
* * *
94665 GTGACCTTTTGGAAATTATTTTGAAAAAA
1 GTGACATTTTGGGAATTATTTTGAAAAAG
* * *
94694 GTGGCATTCTGGGAATTATTTTGAAAAAAT
1 GTGACATTTTGGGAATTATTTTG-AAAAAG
* *
94724 GTGATATTTTGAGAATT
1 GTGACATTTTGGGAATT
94741 TTCGAATATA
Statistics
Matches: 283, Mismatches: 41, Indels: 23
0.82 0.12 0.07
Matches are distributed among these distances:
28 58 0.20
29 176 0.62
30 45 0.16
31 4 0.01
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.37
Consensus pattern (29 bp):
GTGACATTTTGGGAATTATTTTGAAAAAG
Found at i:94663 original size:144 final size:144
Alignment explanation
Indices: 94376--94740 Score: 500
Period size: 144 Copynumber: 2.5 Consensus size: 144
94366 ACCCGACCTA
* * * *
94376 GTGACATTTTGCGAATTATTTTGGAAAATGTGACATTCTGAGAATTATTTTGAAAAAAGTGACAT
1 GTGACATTTTGGGAATTATTTT-GAAAAAGTGACATTCTGGGAATTATTTTGAAAAAAGAGACAT
* * *
94441 TTTGGGAATTTTTTGTAAAAAAGGTGATATTTTGGGAATTATTTTACAAAAATGACATGCGGGGA
65 TTTGGGAATTATTTGTAAAAAAGGTGACATTTTGGGAATTATTTTACAAAAATGACATGAGGGGA
94506 ATTATTTTGAAAAAG
130 ATTATTTTGAAAAAG
* * *
94521 GTGACATTTTGGGAATTATTTTAGAAAAGGTGACATCCTGGGAATTATTTTGAAAAAGGAGACAT
1 GTGACATTTTGGGAATTATTTT-GAAAAAGTGACATTCTGGGAATTATTTTGAAAAAAGAGACAT
* *
94586 TTTGGGAA-TATTTGTGAAAAAGGTGACATTTTGGGAATTATTTTGA-AAAAATGACATGATGGG
65 TTTGGGAATTATTTGTAAAAAAGGTGACATTTTGGGAATTATTTT-ACAAAAATGACATGAGGGG
*
94649 AATTATTTTGAAAAAT
129 AATTATTTTGAAAAAG
* * * * *
94665 GTGACCTTTTGGAAATTATTTTGAAAAAAGTGGCATTCTGGGAATTATTTTGAAAAAATGTGATA
1 GTGACATTTTGGGAATTATTTTG-AAAAAGTGACATTCTGGGAATTATTTTGAAAAAA-GAGACA
*
94730 TTTTGAGAATT
64 TTTTGGGAATT
94741 TTCGAATATA
Statistics
Matches: 194, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
143 1 0.01
144 113 0.58
145 79 0.41
146 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.37
Consensus pattern (144 bp):
GTGACATTTTGGGAATTATTTTGAAAAAGTGACATTCTGGGAATTATTTTGAAAAAAGAGACATT
TTGGGAATTATTTGTAAAAAAGGTGACATTTTGGGAATTATTTTACAAAAATGACATGAGGGGAA
TTATTTTGAAAAAG
Found at i:95808 original size:25 final size:25
Alignment explanation
Indices: 95756--95808 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
95746 AGGATAACTC
* *
95756 TTTTATGGGATTTACTGCAGTATAA
1 TTTTATGAGATTTACTGCACTATAA
* *
95781 TTTTATGAGATTTACTGTACTATGA
1 TTTTATGAGATTTACTGCACTATAA
95806 TTT
1 TTT
95809 GTTTAGTGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.17, T:0.49
Consensus pattern (25 bp):
TTTTATGAGATTTACTGCACTATAA
Found at i:97456 original size:54 final size:54
Alignment explanation
Indices: 97272--98064 Score: 1129
Period size: 54 Copynumber: 14.8 Consensus size: 54
97262 TGAAGCAAAT
* * *
97272 GAAGATG-TCTGAGTTCCATACACCCT-AGAGAAAGAGGGAGTGAACCCGTTT---
1 GAAGATGTTC-GAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTGAA
* *
97323 GAAGATGTCCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCTGTTT---
1 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
97374 GAAGATG-TCTGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
1 GAAGATGTTC-GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
** * * * *
97428 GAAGATGCCCGAGTTCTATACTCCCTGAAGAAAGAGAGAGCAAACTCGTTTGCA
1 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
* * * *
97482 GAAGATTATTCAAGTTCTATACTCCCTGAAGAAAGAGGGAGCAAACCAGTTTGAA
1 GAAGA-TGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
* *
97537 GAAGATATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAA
1 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
*
97591 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTGAA
1 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
*
97645 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCTGTTTGAA
1 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
* * *
97699 GAAGATGTTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCAAACCCGTGTGAA
1 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
* * *
97753 GAAGATGTTCTAGTTTTATACTCCCTGAAAAAAGAGGGAGCGAACCCGTTTGAA
1 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
* *
97807 TAAGATGTTCGAGTTCTATACTCCCTGAAAAAAGAGGGAGCGAACCCGTTTGAA
1 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
97861 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
1 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
*
97915 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGTGAACCCGTTTGAA
1 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
* * * * **
97969 GAAGATATTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCTGTAAGAA
1 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
* * *
98023 GAAGATTGTTCGAG-TCTTATATTCTCTGAAGAAATAGGGAGC
1 GAAGA-TGTTCGAGTTC-TATACTCCCTGAAGAAAGAGGGAGC
98065 AGACACGATT
Statistics
Matches: 674, Mismatches: 58, Indels: 16
0.90 0.08 0.02
Matches are distributed among these distances:
50 1 0.00
51 89 0.13
52 2 0.00
54 508 0.75
55 74 0.11
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (54 bp):
GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
Found at i:97620 original size:29 final size:29
Alignment explanation
Indices: 97587--97676 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 29
97577 CGAACCCGTT
97587 TGAAGAAGATGTTCGAGTTCTATACTCCC
1 TGAAGAAGATGTTCGAGTTCTATACTCCC
* * *
97616 TGAAGAAAGA-G--GGAG--CGA-AC-CCATT
1 TGAAG-AAGATGTTCGAGTTCTATACTCC--C
97641 TGAAGAAGATGTTCGAGTTCTATACTCCC
1 TGAAGAAGATGTTCGAGTTCTATACTCCC
97670 TGAAGAA
1 TGAAGAA
97677 AGAGGGAGCG
Statistics
Matches: 45, Mismatches: 6, Indels: 20
0.63 0.08 0.28
Matches are distributed among these distances:
23 2 0.04
24 6 0.13
25 8 0.18
27 6 0.13
29 15 0.33
30 6 0.13
31 2 0.04
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (29 bp):
TGAAGAAGATGTTCGAGTTCTATACTCCC
Found at i:97944 original size:29 final size:29
Alignment explanation
Indices: 97857--97946 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 29
97847 CGAACCCGTT
97857 TGAAGAAGATGTTCGAGTTCTATACTCCC
1 TGAAGAAGATGTTCGAGTTCTATACTCCC
* * *
97886 TGAAGAAAGA-G--GGAG--CGA-AC-CCGTT
1 TGAAG-AAGATGTTCGAGTTCTATACTCC--C
97911 TGAAGAAGATGTTCGAGTTCTATACTCCC
1 TGAAGAAGATGTTCGAGTTCTATACTCCC
97940 TGAAGAA
1 TGAAGAA
97947 AGAGGGAGTG
Statistics
Matches: 45, Mismatches: 6, Indels: 20
0.63 0.08 0.28
Matches are distributed among these distances:
23 2 0.04
24 6 0.13
25 8 0.18
27 6 0.13
29 15 0.33
30 6 0.13
31 2 0.04
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (29 bp):
TGAAGAAGATGTTCGAGTTCTATACTCCC
Found at i:98092 original size:52 final size:53
Alignment explanation
Indices: 98025--98231 Score: 317
Period size: 55 Copynumber: 3.8 Consensus size: 53
98015 TGTAAGAAGA
*
98025 AGATTGTTCGAGTCTTATATTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
* * *
98078 -GATTGTTCGAGTCTTATACTCTCTAAAGAAATAAGGAGCATACACGATTGTT
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
* *
98130 GAAGATTATTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTT
1 --AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
98185 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACA
1 --AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACA
98232 TATATTCAGA
Statistics
Matches: 140, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
52 48 0.34
55 92 0.66
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (53 bp):
AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
Found at i:98134 original size:107 final size:108
Alignment explanation
Indices: 98023--98227 Score: 340
Period size: 107 Copynumber: 1.9 Consensus size: 108
98013 CCTGTAAGAA
* *
98023 GAAGATTGTTCGAGTCTTATATTCTCTGAAGAAATAGGGAGCAGACACGATTGTT-GATTGTTCG
1 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTAGATTGTTCG
98087 AGTCTTATACTCTCTAAAGAAATAAGGAGCATACACGATTGTT
66 AGTCTTATACTCTCTAAAGAAATAAGGAGCATACACGATTGTT
*
98130 GAAGATTATTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAAGATTGTT
1 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT--AGATTGTT
* *
98195 CGAGTCTTATACTCTCTGAAGAAATAGGGAGCA
64 CGAGTCTTATACTCTCTAAAGAAATAAGGAGCA
98228 GACATATATT
Statistics
Matches: 90, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
107 52 0.58
110 38 0.42
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (108 bp):
GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTAGATTGTTCG
AGTCTTATACTCTCTAAAGAAATAAGGAGCATACACGATTGTT
Found at i:98142 original size:162 final size:162
Alignment explanation
Indices: 97272--98230 Score: 1053
Period size: 162 Copynumber: 5.9 Consensus size: 162
97262 TGAAGCAAAT
* * * * * * *
97272 GAAGATG-TCTGAGTTCCATACACCCTAGAGAAAGAGGGAGTGAACCCG-TT--TGAAGATGTCC
1 GAAGATGTTC-GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGATTGAAGAAGATATTC
97333 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCTGTTT---GAAGATG-TCTGAGTTCTATA
65 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCTGTTTGAAGAAGATGTTC-GAGTTCTATA
97394 CTCCCTGAAGAAAGAGGGAGC-GAACCCGTTTGAA
129 CTCCCTGAAGAAAGAGGGAGCAG-ACCCGTTTGAA
** * * * * * *
97428 GAAGATGCCCGAGTTCTATACTCCCTGAAGAAAGAGAGAGCAAACTCGTTTGCAGAAGATTATTC
1 GAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGATTGAAGAAGA-TATTC
* * * *
97493 AAGTTCTATACTCCCTGAAGAAAGAGGGAGCAAACCAGTTTGAAGAAGATATTCGAGTTCTATAC
65 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCTGTTTGAAGAAGATGTTCGAGTTCTATAC
*
97558 TCCCTAAAGAAAGAGGGAGC-GAACCCGTTTGAA
130 TCCCTGAAGAAAGAGGGAGCAG-ACCCGTTTGAA
* *
97591 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCC-ATTTGAAGAAGATGTTC
1 GAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGA-TTGAAGAAGATATTC
97655 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCTGTTTGAAGAAGATGTTCGAGTTCTATAC
65 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCTGTTTGAAGAAGATGTTCGAGTTCTATAC
* * *
97720 TTCCTGAAGAAAGAGGGAGCAAACCCGTGTGAA
130 TCCCTGAAGAAAGAGGGAGCAGACCCGTTTGAA
* * * * *
97753 GAAGATGTTCTAGTTTTATACTCCCTGAAA-AAAGAGGGAGCGAACCCGTTTGAATAAGATGTTC
1 GAAGATGTTCGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCGATTGAAGAAGATATTC
* *
97817 GAGTTCTATACTCCCTGAAAAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATAC
65 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCTGTTTGAAGAAGATGTTCGAGTTCTATAC
97882 TCCCTGAAGAAAGAGGGAGC-GAACCCGTTTGAA
130 TCCCTGAAGAAAGAGGGAGCAG-ACCCGTTTGAA
* * *
97915 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGTGAACCCGTTTGAAGAAGATATTCG
1 GAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGATTGAAGAAGATATTCG
* * **
97980 AGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCTGTAAGAAGAAGATTGTTCGAG-TCTTATA
66 AGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCTGTTTGAAGAAGA-TGTTCGAGTTC-TATA
* * * * * **
98044 TTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
129 CTCCCTGAAGAAAGAGGGAGCAGACCCGTTTGAA
* * * * * **
98078 G-A-TTGTTCGAG-TCTTATACTCTCTAAAGAAATAAGGAGC-ATACACGATTGTTGAAGATTAT
1 GAAGATGTTCGAGTTC-TATACTCCCTAAAGAAAGAGGGAGCGA-ACCCGATTGAAGAAGA-TAT
* * * * **
98139 TCGAG-TCTTATACTCTCTGAAGGAATAGGGAGC-AGACAC-GATTGTTGAAGATTGTTCGAG-T
63 TCGAGTTC-TATACTCCCTGAAGAAAGAGGGAGCGA-AC-CTGTTTGAAGAAGA-TGTTCGAGTT
* *
98200 CTTATACTCTCTGAAGAAATAGGGAGCAGAC
124 C-TATACTCCCTGAAGAAAGAGGGAGCAGAC
98231 ATATATTCAG
Statistics
Matches: 696, Mismatches: 83, Indels: 42
0.85 0.10 0.05
Matches are distributed among these distances:
156 37 0.05
157 3 0.00
159 5 0.01
160 44 0.06
161 45 0.06
162 418 0.60
163 141 0.20
164 3 0.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (162 bp):
GAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGATTGAAGAAGATATTCG
AGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCTGTTTGAAGAAGATGTTCGAGTTCTATACT
CCCTGAAGAAAGAGGGAGCAGACCCGTTTGAA
Found at i:98256 original size:55 final size:55
Alignment explanation
Indices: 97390--98231 Score: 439
Period size: 54 Copynumber: 15.5 Consensus size: 55
97380 GTCTGAGTTC
* * * * * **
97390 TATACTCCCTGAAGAAAGAGGGAGC-GAACCCGTTTGAAGAAGA-TGCCCGAGT-T
1 TATACTCTCTGAAGAAATAGGGAGCAG-ACACGATTGTAGAAGATTGTTCGAGTCT
* * * * * * * * *
97443 CTATACTCCCTGAAGAAAGAGAGAGCAAACTCGTTTGCAGAAGATTATTCAAGT-T
1 -TATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTAGAAGATTGTTCGAGTCT
* * * * * *
97498 CTATACTCCCTGAAGAAAGAGGGAGCAAAC-CAGTTTGAAGAAGA-TATTCGAGT-T
1 -TATACTCTCTGAAGAAATAGGGAGCAGACAC-GATTGTAGAAGATTGTTCGAGTCT
* * * * * *
97552 CTATACTCCCTAAAGAAAGAGGGAGC-GAACCCGTTTGAAGAAGA-TGTTCGAGT-T
1 -TATACTCTCTGAAGAAATAGGGAGCAG-ACACGATTGTAGAAGATTGTTCGAGTCT
* * * *
97606 CTATACTCCCTGAAGAAAGAGGGAGC-GA-ACCCATTTGAAGAAGA-TGTTCGAGT-T
1 -TATACTCTCTGAAGAAATAGGGAGCAGACA-CGA-TTGTAGAAGATTGTTCGAGTCT
* * * *
97660 CTATACTCCCTGAAGAAAGAGGGAGC-GA-ACCTGTTTGAAGAAGA-TGTTCGAGT-T
1 -TATACTCTCTGAAGAAATAGGGAGCAGACA-C-GATTGTAGAAGATTGTTCGAGTCT
* * * * * *
97714 CTATACT-TCCTGAAGAAAGAGGGAGCAAACCCG-TGTGAAGAAGA-TGTTCTAGTTT
1 -TATACTCT-CTGAAGAAATAGGGAGCAGACACGAT-TGTAGAAGATTGTTCGAGTCT
* * * * * * *
97769 TATACTCCCTGAAAAAAGAGGGAGC-GAACCCGTTTGAATAAGA-TGTTCGAGT-T
1 TATACTCTCTGAAGAAATAGGGAGCAG-ACACGATTGTAGAAGATTGTTCGAGTCT
* * * * * *
97822 CTATACTCCCTGAAAAAAGAGGGAGC-GAACCCGTTTGAAGAAGA-TGTTCGAGT-T
1 -TATACTCTCTGAAGAAATAGGGAGCAG-ACACGATTGTAGAAGATTGTTCGAGTCT
* * * * *
97876 CTATACTCCCTGAAGAAAGAGGGAGC-GAACCCGTTTGAAGAAGA-TGTTCGAGT-T
1 -TATACTCTCTGAAGAAATAGGGAGCAG-ACACGATTGTAGAAGATTGTTCGAGTCT
* * * * * * *
97930 CTATACTCCCTGAAGAAAGAGGGAG-TGAACCCGTTTGAAGAAGA-TATTCGAGT-T
1 -TATACTCTCTGAAGAAATAGGGAGCAG-ACACGATTGTAGAAGATTGTTCGAGTCT
* * * * * *
97984 CCATACTCCCTAAAGAAAGAGGGAGC-GA-ACCTG-TAAGAAGAAGATTGTTCGAGTCT
1 -TATACTCTCTGAAGAAATAGGGAGCAGACA-C-GAT-TGTAGAAGATTGTTCGAGTCT
* *
98040 TATATTCTCTGAAGAAATAGGGAGCAGACACGATTGT---TGATTGTTCGAGTCT
1 TATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTAGAAGATTGTTCGAGTCT
* * * * *
98092 TATACTCTCTAAAGAAATAAGGAGCATACACGATTGTTGAAGATTATTCGAGTCT
1 TATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTAGAAGATTGTTCGAGTCT
* *
98147 TATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCT
1 TATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTAGAAGATTGTTCGAGTCT
98202 TATACTCTCTGAAGAAATAGGGAGCAGACA
1 TATACTCTCTGAAGAAATAGGGAGCAGACA
98232 TATATTCAGA
Statistics
Matches: 701, Mismatches: 57, Indels: 59
0.86 0.07 0.07
Matches are distributed among these distances:
52 47 0.07
53 7 0.01
54 468 0.67
55 173 0.25
56 5 0.01
57 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (55 bp):
TATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTAGAAGATTGTTCGAGTCT
Found at i:98273 original size:110 final size:107
Alignment explanation
Indices: 98022--98258 Score: 298
Period size: 110 Copynumber: 2.2 Consensus size: 107
98012 ACCTGTAAGA
* * * * *
98022 AGAAGATTGTTCGAGTCTTATATTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGATTGTTCG
1 AGAAGATTATTCAAGTCTCATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGATTGTTCG
*
98087 AGTCTTATACTCTCTAAAGAAATAAGGAGCATACACGATTGT
66 AGTCTTATACTCTCTAAAGAAATAAGGAGCAGACACGATTGT
* * *
98129 TGAAGATTATTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAAGATTGT
1 AGAAGATTATTCAAGTCTCATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTT---GATTGT
* * *
98194 TCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACA-TATAT-T
63 TCGAGTCTTATACTCTCTAAAGAAATAAGGAGCAGACACGAT-TGT
*
98238 CAGAAGATTTTTCAAGTCTCA
1 -AGAAGATTATTCAAGTCTCA
98259 CTCACCCTAG
Statistics
Matches: 113, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
107 52 0.46
109 3 0.03
110 58 0.51
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.31
Consensus pattern (107 bp):
AGAAGATTATTCAAGTCTCATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGATTGTTCG
AGTCTTATACTCTCTAAAGAAATAAGGAGCAGACACGATTGT
Found at i:113353 original size:21 final size:20
Alignment explanation
Indices: 113327--113383 Score: 87
Period size: 21 Copynumber: 2.8 Consensus size: 20
113317 AATATCATTG
*
113327 AAAAATTAATGAAAATTAATT
1 AAAAATTAATTAAAATTAA-T
113348 AAAAATTAATTAAAATTAAT
1 AAAAATTAATTAAAATTAAT
*
113368 AAAAATTTATTAAAAT
1 AAAAATTAATTAAAAT
113384 AAAAAGAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 16 0.47
21 18 0.53
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAAATTAATTAAAATTAAT
Found at i:113382 original size:10 final size:10
Alignment explanation
Indices: 113328--113383 Score: 76
Period size: 10 Copynumber: 5.5 Consensus size: 10
113318 ATATCATTGA
*
113328 AAAATTAATG
1 AAAATTAATT
113338 AAAATTAATT
1 AAAATTAATT
113348 AAAAATTAATT
1 -AAAATTAATT
*
113359 AAAATTAATA
1 AAAATTAATT
*
113369 AAAATTTATT
1 AAAATTAATT
113379 AAAAT
1 AAAAT
113384 AAAAAGAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
10 31 0.76
11 10 0.24
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (10 bp):
AAAATTAATT
Found at i:113699 original size:82 final size:82
Alignment explanation
Indices: 113418--113893 Score: 587
Period size: 82 Copynumber: 5.8 Consensus size: 82
113408 TGTCACCCAG
* *
113418 TTTATCTGAGTTGATGTGATATGTCAATGAAAAGCAAAGGACGTGAATATTGTAGATTCTCTGAT
1 TTTATCTGAGTTGATGTGAAATGTCAATGAAAAGCAAAGGACGTGAATAGTGTAGATTCTCTGAT
* * * *
113483 T-TGAATGGAAATTATTTAAG
66 TCT--CT-AAAATT-TTTCAT
* * * *
113503 TTTATCTGAATTGATGTGAAATGTCAATGAATAGAAAAGGACGTGAATAGTATAGATTCTCTGAT
1 TTTATCTGAGTTGATGTGAAATGTCAATGAAAAGCAAAGGACGTGAATAGTGTAGATTCTCTGAT
* *
113568 TCTATAAATTTTTTTCAT
66 TCTCTAAA-ATTTTTCAT
* * * * *
113586 TTCATCTAAGTTGATGTGAAATGTCAATGAAAA-CAAAATGACATGAATAGTGTAGATTGTCTGA
1 TTTATCTGAGTTGATGTGAAATGTCAATGAAAAGC-AAAGGACGTGAATAGTGTAGATTCTCTGA
113650 TTCTCTAAAATTTTTCAT
65 TTCTCTAAAATTTTTCAT
* * * *
113668 TTTATCTGAGTTGACGTGAAATGTCAATGAAAAGCACAGGACGTGAATAGTGTAAATTATCTGAT
1 TTTATCTGAGTTGATGTGAAATGTCAATGAAAAGCAAAGGACGTGAATAGTGTAGATTCTCTGAT
*
113733 TCTCTAAAAATTTTCAT
66 TCTCTAAAATTTTTCAT
* * * * * * *
113750 TTTATCTAAGTTGATGTGAAATGTAAATGAAAAGCACAGAACGTGAATAATGTATATTCTCCGAT
1 TTTATCTGAGTTGATGTGAAATGTCAATGAAAAGCAAAGGACGTGAATAGTGTAGATTCTCTGAT
*
113815 TCTCTAAAACTTTTCAT
66 TCTCTAAAATTTTTCAT
* * *
113832 TTTATTTGAGTTGATGTGAAATGTCAATGAAAAACAAATGACGTGAATAGTGTAGATTCTCT
1 TTTATCTGAGTTGATGTGAAATGTCAATGAAAAGCAAAGGACGTGAATAGTGTAGATTCTCT
113894 ATAAGGGATG
Statistics
Matches: 338, Mismatches: 49, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
82 204 0.60
83 69 0.20
84 4 0.01
85 60 0.18
86 1 0.00
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (82 bp):
TTTATCTGAGTTGATGTGAAATGTCAATGAAAAGCAAAGGACGTGAATAGTGTAGATTCTCTGAT
TCTCTAAAATTTTTCAT
Found at i:113965 original size:25 final size:25
Alignment explanation
Indices: 113931--113984 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
113921 ATCATAGTCA
*
113931 ATCTCTTACACAACACATTCCTTTC
1 ATCTCTTACACAACACACTCCTTTC
*
113956 ATCTCTTACACAACACACTCTTTTC
1 ATCTCTTACACAACACACTCCTTTC
113981 ATCT
1 ATCT
113985 TTAATCTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.28, C:0.35, G:0.00, T:0.37
Consensus pattern (25 bp):
ATCTCTTACACAACACACTCCTTTC
Found at i:115046 original size:21 final size:21
Alignment explanation
Indices: 115009--115053 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
114999 GATTTCTGGG
*
115009 CAAGGGGAATCAGTACCCATT
1 CAAGGGGAACCAGTACCCATT
*
115030 CAAGGGGAACC-GATACCCCTT
1 CAAGGGGAACCAG-TACCCATT
115051 CAA
1 CAA
115054 ACGAACAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCAGTACCCATT
Found at i:116061 original size:31 final size:31
Alignment explanation
Indices: 115906--116046 Score: 246
Period size: 31 Copynumber: 4.5 Consensus size: 31
115896 AGGGTCGAGG
*
115906 GTTTACCTATGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
115937 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
115968 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
115999 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
116030 GATTACCTAGGTTCTTC
1 GTTTACCTATGTTCTTC
116047 AGAATCTATG
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 105 1.00
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:119595 original size:53 final size:54
Alignment explanation
Indices: 119537--119659 Score: 140
Period size: 55 Copynumber: 2.3 Consensus size: 54
119527 CCCTATAGGA
* *** * * *
119537 GGAACCGATTCCCCCTGAATGGTTTGGCCCCGAG-ATTTCCAGAATGCTTGGAG
1 GGAACCGATTCCCCCTAAACAATTTGGCCCCGAGAAATTCCAGAATGCTCGAAG
* * *
119590 GGAACCGATTCCCCCCTAAACAATTTTGCTCCGAGAAATTCCAGTATGCTCGAAG
1 GGAACCGATT-CCCCCTAAACAATTTGGCCCCGAGAAATTCCAGAATGCTCGAAG
119645 GGAACCGATTCCCCC
1 GGAACCGATTCCCCC
119660 CAAGGGGGTA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
53 10 0.17
54 23 0.40
55 25 0.43
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.23
Consensus pattern (54 bp):
GGAACCGATTCCCCCTAAACAATTTGGCCCCGAGAAATTCCAGAATGCTCGAAG
Found at i:125394 original size:18 final size:19
Alignment explanation
Indices: 125371--125429 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 19
125361 TTTTGGTGCA
*
125371 GAGGGAATCGA-TCCCCCT
1 GAGGGAACCGATTCCCCCT
125389 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCC--T
125410 GAAGGGGAACCGATTCCCCC
1 G-A-GGGAACCGATTCCCCC
125430 CACAGGGGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 10 0.29
19 6 0.17
21 2 0.06
22 1 0.03
23 16 0.46
ACGTcount: A:0.22, C:0.34, G:0.27, T:0.17
Consensus pattern (19 bp):
GAGGGAACCGATTCCCCCT
Found at i:127442 original size:17 final size:17
Alignment explanation
Indices: 127410--127453 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
127400 TTTCAACATT
*
127410 TTGGATATTT-TGGATTG
1 TTGGAT-TTTGTGGATTA
*
127427 TTTGATTTTGTGGATTA
1 TTGGATTTTGTGGATTA
127444 TTGGATTTTG
1 TTGGATTTTG
127454 GACTTATGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 3 0.13
17 20 0.87
ACGTcount: A:0.16, C:0.00, G:0.27, T:0.57
Consensus pattern (17 bp):
TTGGATTTTGTGGATTA
Found at i:128177 original size:74 final size:76
Alignment explanation
Indices: 128026--128232 Score: 267
Period size: 75 Copynumber: 2.8 Consensus size: 76
128016 TCAAAGCTAA
* ** * * **
128026 AAATTCCAGATTGCTCATAGGGAACTGATTCCCCCCTATAGGAGGAACCGATTCCCCCTGAATGG
1 AAATTCCAGAATGCTCGGAGGGAACCGATTCCCCCC-ATAGGAGGAACCGATTCCCCCTAAACAG
128091 TTTGGCCCCGAG
65 TTTGGCCCCGAG
*
128103 -ATTTCCAGAATGCTCGGAGGGAACCGATT-CCCCCATAGGAGGAACCGATTCCCCCTAAACAGT
1 AAATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGT
* *
128166 TTTGCTCCGAG
66 TTGGCCCCGAG
* * *
128177 AAATTCCAGTATGCTCGGAGGGAACCGATTCCCCCCA-AGGGGGTACCGATTCCCCC
1 AAATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCC
128233 CTTGTACAAT
Statistics
Matches: 114, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
74 35 0.31
75 49 0.43
76 30 0.26
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.21
Consensus pattern (76 bp):
AAATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGT
TTGGCCCCGAG
Done.