Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008194.1 Hibiscus syriacus cultivar Beakdansim tig00110813_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: 2426039
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 13
Found at i:3804 original size:21 final size:21
Alignment explanation
Indices: 3780--3878 Score: 62
Period size: 21 Copynumber: 4.8 Consensus size: 21
3770 GGGAGGGACT
3780 TCTTGAACGATGACAGAGGCC
1 TCTTGAACGATGACAGAGGCC
* * *
3801 TCTTGAACTG-TG-GAGGGGCA
1 TCTTGAAC-GATGACAGAGGCC
* * *
3821 TCTTGAACGATGAGAGGGGTC
1 TCTTGAACGATGACAGAGGCC
* *
3842 TCTTGAATGAT-A-TGAGGAGCC
1 TCTTGAACGATGACAGA-G-GCC
*
3863 TCTTGAATGATGACAG
1 TCTTGAACGATGACAG
3879 GTGAATCGGG
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
19 2 0.03
20 17 0.28
21 39 0.64
22 2 0.03
23 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.25
Consensus pattern (21 bp):
TCTTGAACGATGACAGAGGCC
Found at i:3825 original size:41 final size:42
Alignment explanation
Indices: 3758--3850 Score: 118
Period size: 41 Copynumber: 2.2 Consensus size: 42
3748 GTGAATCGGG
*
3758 CTCTTGAATGGTGGGAGGGACTTCTTGAACGATGACAGAGGC
1 CTCTTGAATGGTGGGAGGGACATCTTGAACGATGACAGAGGC
* * * *
3800 CTCTTGAACT-GT-GGAGGGGCATCTTGAACGATGAGAGGGGT
1 CTCTTGAA-TGGTGGGAGGGACATCTTGAACGATGACAGAGGC
3841 CTCTTGAATG
1 CTCTTGAATG
3851 ATATGAGGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
40 1 0.02
41 32 0.73
42 10 0.23
43 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.35, T:0.26
Consensus pattern (42 bp):
CTCTTGAATGGTGGGAGGGACATCTTGAACGATGACAGAGGC
Found at i:4040 original size:4 final size:4
Alignment explanation
Indices: 4019--4060 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
4009 GGGCCGCTAA
* * *
4019 AAAT AAAT TAAT ACAT AAAT AAGT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
4061 TGCCGAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:4180 original size:21 final size:21
Alignment explanation
Indices: 4170--4228 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
4160 GTAGAGTGGC
*
4170 TACCTCATCACGTAAAGTAGA
1 TACCTCACCACGTAAAGTAGA
4191 TACCTCACCACGTAAAGTAGA
1 TACCTCACCACGTAAAGTAGA
4212 TACCTCACCACGTAAAG
1 TACCTCACCACGTAAAG
4229 CACCATTGTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.37, C:0.29, G:0.14, T:0.20
Consensus pattern (21 bp):
TACCTCACCACGTAAAGTAGA
Found at i:4241 original size:63 final size:62
Alignment explanation
Indices: 4174--4314 Score: 149
Period size: 63 Copynumber: 2.2 Consensus size: 62
4164 AGTGGCTACC
* *
4174 TCATCACGTAAAGTAGATACCTCACCACGTAAAGTA-GATACCTCACCACGTAAAGCACCATTG
1 TCATCACGTAAAGTAGATACCTCACCACGTAAAG-ACG-TACCTCACCACGCAAAGCACCATTA
* ** ** * * *
4237 TCATCGCGTAAAACATTTACCTCACCACGTAAAGACCGTACCTCATCACGCCATGCACCATTA
1 TCATCACGTAAAGTAGATACCTCACCACGTAAAGA-CGTACCTCACCACGCAAAGCACCATTA
*
4300 TCGTCACGTAAAGTA
1 TCATCACGTAAAGTA
4315 CCGACCTCAT
Statistics
Matches: 62, Mismatches: 14, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
62 1 0.02
63 60 0.97
64 1 0.02
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.22
Consensus pattern (62 bp):
TCATCACGTAAAGTAGATACCTCACCACGTAAAGACGTACCTCACCACGCAAAGCACCATTA
Found at i:4327 original size:21 final size:21
Alignment explanation
Indices: 4255--4352 Score: 74
Period size: 21 Copynumber: 4.7 Consensus size: 21
4245 TAAAACATTT
*
4255 ACCTCACCACGTAAAG-ACCG
1 ACCTCATCACGTAAAGCACCG
** *
4275 TACCTCATCACGCCATGCACC-
1 -ACCTCATCACGTAAAGCACCG
** * *
4296 ATTATCGTCACGTAAAGTACCG
1 A-CCTCATCACGTAAAGCACCG
* *
4318 ACCTCATCACGCAAAGCACTG
1 ACCTCATCACGTAAAGCACCG
4339 ACCTCATCACGTAA
1 ACCTCATCACGTAA
4353 CTCCCCTAAC
Statistics
Matches: 56, Mismatches: 18, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
20 1 0.02
21 51 0.91
22 4 0.07
ACGTcount: A:0.32, C:0.37, G:0.13, T:0.18
Consensus pattern (21 bp):
ACCTCATCACGTAAAGCACCG
Found at i:4349 original size:42 final size:44
Alignment explanation
Indices: 4255--4352 Score: 107
Period size: 42 Copynumber: 2.3 Consensus size: 44
4245 TAAAACATTT
* * * *
4255 ACCTCACCACGTAAAGACCGTACCTCATCACGCCATGCACCATT
1 ACCTCATCACGTAAAGACCGTACCTCATCACGCAAAGCACCATG
*
4299 A--TCGTCACGTAAAGTACCG-ACCTCATCACGCAAAGCA-C-TG
1 ACCTCATCACGTAAAG-ACCGTACCTCATCACGCAAAGCACCATG
4339 ACCTCATCACGTAA
1 ACCTCATCACGTAA
4353 CTCCCCTAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
40 2 0.04
41 1 0.02
42 37 0.82
43 4 0.09
44 1 0.02
ACGTcount: A:0.32, C:0.37, G:0.13, T:0.18
Consensus pattern (44 bp):
ACCTCATCACGTAAAGACCGTACCTCATCACGCAAAGCACCATG
Found at i:5845 original size:20 final size:20
Alignment explanation
Indices: 5822--5880 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
5812 TCTGAAACTT
*
5822 AAATTCGCAACGCGAAAATA
1 AAATTCGCAACACGAAAATA
*
5842 AAATTCGCAACACGAAAATG
1 AAATTCGCAACACGAAAATA
5862 AAATTCGCAACACGAAAAT
1 AAATTCGCAACACGAAAAT
5881 CGCAACGCGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.51, C:0.20, G:0.14, T:0.15
Consensus pattern (20 bp):
AAATTCGCAACACGAAAATA
Found at i:6301 original size:22 final size:22
Alignment explanation
Indices: 6271--6328 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
6261 GATTGAGATA
6271 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
* *
6293 GACGAATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
6315 GACGGATGTCGCCG
1 GACGGATTTCGCCG
6329 TAAAGAGTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.19, C:0.19, G:0.43, T:0.19
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:6452 original size:19 final size:20
Alignment explanation
Indices: 6430--6467 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6420 AATATTGTGT
6430 TTCGAATT-CGAAAATAAAA
1 TTCGAATTGCGAAAATAAAA
**
6449 TTCGCGTTGCGAAAATAAA
1 TTCGAATTGCGAAAATAAA
6468 CGCGCTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (20 bp):
TTCGAATTGCGAAAATAAAA
Found at i:6555 original size:19 final size:19
Alignment explanation
Indices: 6514--6561 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
6504 GGAAACTGTA
* *
6514 TTGCGAAATTGGAGTTCGAG
1 TTGCG-AATTCGAGATCGAG
*
6534 TTGCGAATTCGAGATCGCG
1 TTGCGAATTCGAGATCGAG
*
6553 TTGCTAATT
1 TTGCGAATT
6562 TGTTGGTCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (19 bp):
TTGCGAATTCGAGATCGAG
Found at i:7856 original size:2 final size:2
Alignment explanation
Indices: 7849--7882 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7839 GTTTAAAACA
7849 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
7883 GAACATGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14612 original size:14 final size:14
Alignment explanation
Indices: 14593--14638 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
14583 ATTATTTCAA
14593 ATTTTAATTTTTAT
1 ATTTTAATTTTTAT
* *
14607 ATTTTAAATTTGTAA
1 ATTTT-AATTTTTAT
*
14622 AATTTAATTTTTAT
1 ATTTTAATTTTTAT
14636 ATT
1 ATT
14639 ATCTATATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (14 bp):
ATTTTAATTTTTAT
Found at i:14651 original size:29 final size:27
Alignment explanation
Indices: 14585--14652 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 27
14575 GTTTAAGTAT
*
14585 TATTTCAAATTTTAATTTTTATATTTTA
1 TATTT-AAAATTTAATTTTTATATTTTA
*
14613 AATTTGTAAAATTTAATTTTTATATTATCTA
1 TA-TT-TAAAATTTAATTTTTATATT-T-TA
14644 TATTTAAAA
1 TATTTAAAA
14653 ATTTTAGTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
28 1 0.03
29 25 0.76
30 4 0.12
31 3 0.09
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.57
Consensus pattern (27 bp):
TATTTAAAATTTAATTTTTATATTTTA
Found at i:17392 original size:2 final size:2
Alignment explanation
Indices: 17385--17466 Score: 164
Period size: 2 Copynumber: 41.0 Consensus size: 2
17375 ATTTGGTTAT
17385 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17427 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17467 GGCATGAGCA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 80 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27175 original size:15 final size:15
Alignment explanation
Indices: 27155--27202 Score: 87
Period size: 15 Copynumber: 3.2 Consensus size: 15
27145 CAGATGAAGG
27155 GAAAGTGAAAATTGA
1 GAAAGTGAAAATTGA
27170 GAAAGTGAAAATTGA
1 GAAAGTGAAAATTGA
*
27185 GAAGGTGAAAATTGA
1 GAAAGTGAAAATTGA
27200 GAA
1 GAA
27203 GTTCGATGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.52, C:0.00, G:0.29, T:0.19
Consensus pattern (15 bp):
GAAAGTGAAAATTGA
Found at i:30554 original size:22 final size:22
Alignment explanation
Indices: 30502--30555 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
30492 TAATATTAAA
*
30502 AAAATAATAAATATTATTATTT
1 AAAATAATAAATATTATTATAT
*
30524 AAACA-AATATATA-TATTTATAT
1 AAA-ATAATAAATATTA-TTATAT
30546 AAAATAATAA
1 AAAATAATAA
30556 TTAAAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
21 3 0.12
22 22 0.85
23 1 0.04
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAATAATAAATATTATTATAT
Found at i:30560 original size:12 final size:12
Alignment explanation
Indices: 30545--30569 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30535 TATATTTATA
30545 TAAAATAATAAT
1 TAAAATAATAAT
30557 TAAAATAATAAT
1 TAAAATAATAAT
30569 T
1 T
30570 TAAACATATC
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TAAAATAATAAT
Found at i:30667 original size:21 final size:21
Alignment explanation
Indices: 30630--30669 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30620 AGTGACTAAA
**
30630 ATAAATAAAATTTAAAATAAC
1 ATAAATAAAATGCAAAATAAC
30651 ATAAATAAAATGCAAAATA
1 ATAAATAAAATGCAAAATA
30670 TCAAAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.25
Consensus pattern (21 bp):
ATAAATAAAATGCAAAATAAC
Found at i:31935 original size:3 final size:3
Alignment explanation
Indices: 31914--31966 Score: 63
Period size: 3 Copynumber: 18.0 Consensus size: 3
31904 GGCATGTTTG
* * * *
31914 TAA TAA TAT TAA TAG TAA TAA TAA TAT TAA TAA TAA TAA T-A TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
31961 TAA TAA
1 TAA TAA
31967 AAAATGGATA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:31937 original size:18 final size:18
Alignment explanation
Indices: 31914--31954 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
31904 GGCATGTTTG
*
31914 TAATAATATTAATAGTAA
1 TAATAATATTAATAATAA
31932 TAATAATATTAATAATAA
1 TAATAATATTAATAATAA
31950 TAATA
1 TAATA
31955 TAAAAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
TAATAATATTAATAATAA
Found at i:32555 original size:123 final size:121
Alignment explanation
Indices: 32350--32753 Score: 508
Period size: 123 Copynumber: 3.4 Consensus size: 121
32340 TTCTTCTCTT
* ** * *
32350 TCTTTAGATGAGTTCTTCTCATTATGAACACT-TCTGGAAATGTTGATGCTGATCTATCTCCTTC
1 TCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG-AATGTTGATGTTGATCTATCGCCTTC
32414 TGTGATAGAATCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC
65 TGTGATAGAATC-AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC
* *
32472 TCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTAGAAGTGTTGGTGTTGATCTATCGCCTTC
1 TCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAA-TGTTGATGTTGATCTATCGCCTTC
* * *
32537 TGTTATAGAGTCATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCATCTTCC
65 TGTGATAGAATCA-GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC
* *
32595 TCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAA-----ATGTTGATCCATCG-----A
1 TCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAATGTTGATGTTGATCTATCGCCTTCT
* * * *
32650 GTGATGGATTCGAGCAAAAGGTTGAACAAGTTATTCTCATGATGAACTTCTTCTTCC
66 GTGATAGAATC-AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC
*
32707 TCTTCAGATGAGTTCTTCTCATTATGAACTCTAC-CTGGAAATGTTGA
1 TCTTCAGATGAGTTCTTCTCATTATGAACT-TTCTCTGG-AATGTTGA
32754 AAACATCATG
Statistics
Matches: 250, Mismatches: 21, Indels: 26
0.84 0.07 0.09
Matches are distributed among these distances:
112 83 0.33
113 5 0.02
117 12 0.05
118 1 0.00
122 32 0.13
123 117 0.47
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.38
Consensus pattern (121 bp):
TCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAATGTTGATGTTGATCTATCGCCTTCT
GTGATAGAATCAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC
Found at i:32687 original size:112 final size:112
Alignment explanation
Indices: 32415--32753 Score: 430
Period size: 112 Copynumber: 2.9 Consensus size: 112
32405 ATCTCCTTCT
*
32415 GTGATAGAATCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGA
1 GTGATAGAGTC-AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGA
* * * *
32480 TGAGTTCTTCTCATTATGAACTTTCTCTAGAAGTGTTGGTGTTGATCTATCGCCTTCT
65 TGAGTTCTTCTCATTATGAACTTTCTCTGGAA------ATGTTGATCCATCG----CA
* *
32538 GTTATAGAGTCATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCATCTTCCTCTTCAGA
1 GTGATAGAGTCA-GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGA
32603 TGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTGATCCATCG-A
65 TGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTGATCCATCGCA
* * * *
32650 GTGATGGATTCGAGCAAAAGGTTGAACAAGTTATTCTCATGATGAACTTCTTCTTCCTCTTCAGA
1 GTGATAGAGTC-AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGA
*
32715 TGAGTTCTTCTCATTATGAACTCTAC-CTGGAAATGTTGA
65 TGAGTTCTTCTCATTATGAACT-TTCTCTGGAAATGTTGA
32754 AAACATCATG
Statistics
Matches: 199, Mismatches: 14, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
112 92 0.46
113 3 0.02
117 12 0.06
122 1 0.01
123 91 0.46
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.37
Consensus pattern (112 bp):
GTGATAGAGTCAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGAT
GAGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTGATCCATCGCA
Found at i:32818 original size:45 final size:45
Alignment explanation
Indices: 32750--32873 Score: 221
Period size: 45 Copynumber: 2.8 Consensus size: 45
32740 CCTGGAAATG
*
32750 TTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCAAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTT
* *
32795 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACTCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTT
32840 TTGAAAACATCATGCACTGAAGGGCTTACAGATG
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATG
32874 TGGGAAATAG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 76 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (45 bp):
TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTT
Found at i:33552 original size:22 final size:22
Alignment explanation
Indices: 33527--33601 Score: 98
Period size: 22 Copynumber: 3.4 Consensus size: 22
33517 AATAAAGATT
* *
33527 TCATATTTGAAAAGAGAATCTC
1 TCATCTTTGAAAAGAGAATCTA
33549 TCATCTTT-AAAGAGAGAATCTA
1 TCATCTTTGAAA-AGAGAATCTA
* *
33571 TCATCTTTGAAGAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
33593 TCATCTTTG
1 TCATCTTTG
33602 GAGAATATAG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
21 3 0.06
22 42 0.89
23 2 0.04
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:40757 original size:15 final size:14
Alignment explanation
Indices: 40732--40772 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 14
40722 ATAAAAGTAT
40732 AAATG-AAAATGCA
1 AAATGCAAAATGCA
40745 AAGATGCAAAATGCA
1 AA-ATGCAAAATGCA
40760 AAATGC-AAATGCA
1 AAATGCAAAATGCA
40773 TGTATGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 9 0.35
14 7 0.27
15 10 0.38
ACGTcount: A:0.56, C:0.12, G:0.17, T:0.15
Consensus pattern (14 bp):
AAATGCAAAATGCA
Found at i:40771 original size:6 final size:7
Alignment explanation
Indices: 40732--40772 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
40722 ATAAAAGTAT
40732 AAATG-A
1 AAATGCA
40738 AAATGCA
1 AAATGCA
40745 AAGATGCA
1 AA-ATGCA
40753 AAATGCA
1 AAATGCA
40760 AAATGC-
1 AAATGCA
40766 AAATGCA
1 AAATGCA
40773 TGTATGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 11 0.34
7 14 0.44
8 7 0.22
ACGTcount: A:0.56, C:0.12, G:0.17, T:0.15
Consensus pattern (7 bp):
AAATGCA
Found at i:40911 original size:43 final size:44
Alignment explanation
Indices: 40847--40933 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 44
40837 CCGTGCATCA
* * *
40847 AACAAAACTTTTACATGTAGGGGACATCTTTCAGTCCTAACTTC
1 AACAAAACTTTTACATATAGGGGACAACTTTCACTCCTAACTTC
* *
40891 AACAAAAC-TTTACATATAGGGGATAACTTTCCCTCCTAACTTC
1 AACAAAACTTTTACATATAGGGGACAACTTTCACTCCTAACTTC
40934 TCTAAAGCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
43 30 0.79
44 8 0.21
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.31
Consensus pattern (44 bp):
AACAAAACTTTTACATATAGGGGACAACTTTCACTCCTAACTTC
Found at i:46342 original size:46 final size:49
Alignment explanation
Indices: 46275--46365 Score: 118
Period size: 46 Copynumber: 1.9 Consensus size: 49
46265 TGGTATAAAT
* * *
46275 CCTAACCTCATGCTTTCTAGTT-TCATGC-TTTGTTT-GGAAAAATTAA
1 CCTAACCTCATGATTTCTAGTTCGCATGCATTTATTTAGGAAAAATTAA
46321 CCTAA-CTGCATGATTTCTAGTTCGCATGCATTTATTTAGGAAAAA
1 CCTAACCT-CATGATTTCTAGTTCGCATGCATTTATTTAGGAAAAA
46366 AGAAAATAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
45 2 0.05
46 18 0.47
47 5 0.13
48 6 0.16
49 7 0.18
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (49 bp):
CCTAACCTCATGATTTCTAGTTCGCATGCATTTATTTAGGAAAAATTAA
Found at i:47450 original size:12 final size:11
Alignment explanation
Indices: 47423--47453 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
47413 GAAGATACTA
47423 ATTTTTTATCC
1 ATTTTTTATCC
47434 ATTTTTTATCC
1 ATTTTTTATCC
47445 ATTTTTTAT
1 ATTTTTTAT
47454 ATTATTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.19, C:0.13, G:0.00, T:0.68
Consensus pattern (11 bp):
ATTTTTTATCC
Found at i:47461 original size:3 final size:3
Alignment explanation
Indices: 47453--47501 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
47443 CCATTTTTTA
* * *
47453 TAT TAT TAT TA- TAT TAT TAT TAA TAT TAT TAT TAC TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
47500 TA
1 TA
47502 AAAACAGACC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:48868 original size:2 final size:2
Alignment explanation
Indices: 48856--48904 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
48846 ATTATTATTT
*
48856 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
48898 TA TA TA T
1 TA TA TA T
48905 TTTTTAAATA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:53929 original size:14 final size:15
Alignment explanation
Indices: 53899--53933 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
53889 TTGCTCTCAA
53899 TTTTCTCACTAAAGC
1 TTTTCTCACTAAAGC
*
53914 TTTTCTCTCT-AAGC
1 TTTTCTCACTAAAGC
53928 TTTTCT
1 TTTTCT
53934 TTGTGTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.17, C:0.26, G:0.06, T:0.51
Consensus pattern (15 bp):
TTTTCTCACTAAAGC
Found at i:57389 original size:15 final size:15
Alignment explanation
Indices: 57369--57400 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
57359 AAAATCTTTC
*
57369 TTTCCCGTTCTTGAT
1 TTTCCCGTTCTAGAT
57384 TTTCCCGTTCTAGAT
1 TTTCCCGTTCTAGAT
57399 TT
1 TT
57401 CGATCTGCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.09, C:0.25, G:0.12, T:0.53
Consensus pattern (15 bp):
TTTCCCGTTCTAGAT
Found at i:62651 original size:46 final size:45
Alignment explanation
Indices: 62547--62651 Score: 113
Period size: 46 Copynumber: 2.3 Consensus size: 45
62537 TTATTTTCGC
* *
62547 TTTTTGAATAA-ATGTATGCGAACTAGAAATCATGCGGTTAGGTT
1 TTTTTGAATAACAAGCATGCGAACTAGAAATCATGCGGTTAGGTT
**** * *
62591 TATTTTCTCGAACAAGCATGCGAATTAGATATCATGCGGTTAGGATT
1 T-TTTTGAATAACAAGCATGCGAACTAGAAATCATGCGGTTAGG-TT
62638 TTTTTGAATAACAA
1 TTTTTGAATAACAA
62652 AGTATGGGGG
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
44 1 0.02
45 6 0.13
46 36 0.78
47 3 0.07
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.36
Consensus pattern (45 bp):
TTTTTGAATAACAAGCATGCGAACTAGAAATCATGCGGTTAGGTT
Found at i:63808 original size:20 final size:20
Alignment explanation
Indices: 63783--63823 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
63773 AACCATTCAG
63783 GGGGAATCGGTACCCCTTGA
1 GGGGAATCGGTACCCCTTGA
* *
63803 GGGGAATCGGTTCCCTTTGA
1 GGGGAATCGGTACCCCTTGA
63823 G
1 G
63824 CAATCTGGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.22, G:0.37, T:0.24
Consensus pattern (20 bp):
GGGGAATCGGTACCCCTTGA
Found at i:64796 original size:12 final size:12
Alignment explanation
Indices: 64779--64804 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
64769 TTGTTGTGCT
64779 TGCTCCTCGGGC
1 TGCTCCTCGGGC
64791 TGCTCCTCGGGC
1 TGCTCCTCGGGC
64803 TG
1 TG
64805 TTCAGGCTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.38, G:0.35, T:0.27
Consensus pattern (12 bp):
TGCTCCTCGGGC
Found at i:66902 original size:31 final size:31
Alignment explanation
Indices: 66864--67019 Score: 260
Period size: 31 Copynumber: 5.0 Consensus size: 31
66854 CCCGAAGGAC
* * *
66864 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
66895 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
66926 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
66957 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
66988 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
67019 C
1 C
67020 CCTCGACCCT
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
31 118 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:67706 original size:2 final size:2
Alignment explanation
Indices: 67699--67727 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
67689 ATACAATTCC
67699 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
67728 CTAACTCATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:68315 original size:21 final size:21
Alignment explanation
Indices: 68285--68329 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
68275 ATTCTGTCGT
* *
68285 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
68306 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
68327 TTG
1 TTG
68330 CCCAGAAATC
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:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:69362 original size:20 final size:20
Alignment explanation
Indices: 69310--69370 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
69300 AGAACCCCAG
* *
69310 GGGGGCATCGATTCCCCTTCAAA
1 GGGGGAATCGATT-CCC-TC-AT
*
69333 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
69353 GGGGGTATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
69371 TGCACCAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
20 17 0.52
21 2 0.06
22 3 0.09
23 11 0.33
ACGTcount: A:0.16, C:0.28, G:0.31, T:0.25
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:75172 original size:23 final size:23
Alignment explanation
Indices: 75142--75201 Score: 120
Period size: 23 Copynumber: 2.6 Consensus size: 23
75132 GTTGAATAGT
75142 GGGGGGGAATCGGTACCCCCTGC
1 GGGGGGGAATCGGTACCCCCTGC
75165 GGGGGGGAATCGGTACCCCCTGC
1 GGGGGGGAATCGGTACCCCCTGC
75188 GGGGGGGAATCGGT
1 GGGGGGGAATCGGT
75202 TCCCTTCGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.13, C:0.25, G:0.48, T:0.13
Consensus pattern (23 bp):
GGGGGGGAATCGGTACCCCCTGC
Found at i:75584 original size:21 final size:21
Alignment explanation
Indices: 75564--75658 Score: 138
Period size: 21 Copynumber: 4.5 Consensus size: 21
75554 CCATACCAAG
*
75564 GACGAGAAGACCATTCACAAG
1 GACGAGAAGACCATTCACAAA
* *
75585 GACGAGAAGATCATTCATAAA
1 GACGAGAAGACCATTCACAAA
*
75606 GACGAGAAGACCATTCATAAA
1 GACGAGAAGACCATTCACAAA
75627 GACGAGAAGACCATTCACAAA
1 GACGAGAAGACCATTCACAAA
75648 GAC-ATGAAGAC
1 GACGA-GAAGAC
75659 TACTTAGCAT
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
20 1 0.01
21 67 0.99
ACGTcount: A:0.46, C:0.20, G:0.21, T:0.13
Consensus pattern (21 bp):
GACGAGAAGACCATTCACAAA
Found at i:75910 original size:6 final size:6
Alignment explanation
Indices: 75899--75953 Score: 76
Period size: 6 Copynumber: 9.2 Consensus size: 6
75889 ATTAACACCT
* *
75899 TTTGCA TTTGCA TTTAGCA TTTGCA TTTGTA TTTGCA TTTGTA TTTGCA
1 TTTGCA TTTGCA TTT-GCA TTTGCA TTTGCA TTTGCA TTTGCA TTTGCA
75948 -TTGCA T
1 TTTGCA T
75954 GTATTTGTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
5 5 0.12
6 32 0.74
7 6 0.14
ACGTcount: A:0.18, C:0.13, G:0.16, T:0.53
Consensus pattern (6 bp):
TTTGCA
Found at i:78342 original size:31 final size:32
Alignment explanation
Indices: 78258--78342 Score: 90
Period size: 31 Copynumber: 2.8 Consensus size: 32
78248 AGAAATGTGG
*
78258 AAAGAGAAAAAGAA--AAAGAAAATATGAAAA
1 AAAGAAAAAAAGAAGGAAAGAAAATATGAAAA
**
78288 AAAGAAAAAAA-TTGGAAATGAAAA-ATGAAAA
1 AAAGAAAAAAAGAAGGAAA-GAAAATATGAAAA
78319 TAAA-AAAAAAAGAAGGAAAGAAAA
1 -AAAGAAAAAAAGAAGGAAAGAAAA
78343 CTCACCTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
30 10 0.22
31 22 0.49
32 13 0.29
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.08
Consensus pattern (32 bp):
AAAGAAAAAAAGAAGGAAAGAAAATATGAAAA
Found at i:81125 original size:37 final size:37
Alignment explanation
Indices: 81074--81242 Score: 232
Period size: 37 Copynumber: 4.6 Consensus size: 37
81064 GGAGATTGGG
*
81074 GCAAAGTCAATCTTAAGCCTTCACTGAAGAGTAGTGAA
1 GCAAA-TCCATCTTAAGCCTTCACTGAAGAGTAGTGAA
* *
81112 GCAAATCCATCTTAAGCCTTCACCGAAGAATAGTGAA
1 GCAAATCCATCTTAAGCCTTCACTGAAGAGTAGTGAA
** ** *
81149 G-TGATTTATCCTAAGCCTTCACTGAAGAGTAGTGAA
1 GCAAATCCATCTTAAGCCTTCACTGAAGAGTAGTGAA
*
81185 GCAAATCCATCTTAAGCCTTCACTGAAAAGTAGTGAA
1 GCAAATCCATCTTAAGCCTTCACTGAAGAGTAGTGAA
*
81222 GCAAATCCATTTTAAGCCTTC
1 GCAAATCCATCTTAAGCCTTC
81243 TCGAAAGAGT
Statistics
Matches: 113, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
36 29 0.26
37 79 0.70
38 5 0.04
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (37 bp):
GCAAATCCATCTTAAGCCTTCACTGAAGAGTAGTGAA
Found at i:81178 original size:73 final size:73
Alignment explanation
Indices: 81087--81222 Score: 247
Period size: 73 Copynumber: 1.9 Consensus size: 73
81077 AAGTCAATCT
81087 TAAGCCTTCACTGAAGAGTAGTGAAGCAAATCCATCTTAAGCCTTCACCGAAGAA-TAGTGAAGT
1 TAAGCCTTCACTGAAGAGTAGTGAAGCAAATCCATCTTAAGCCTTCACCGAA-AAGTAGTGAAGT
81151 GATTTATCC
65 GATTTATCC
*
81160 TAAGCCTTCACTGAAGAGTAGTGAAGCAAATCCATCTTAAGCCTTCACTGAAAAGTAGTGAAG
1 TAAGCCTTCACTGAAGAGTAGTGAAGCAAATCCATCTTAAGCCTTCACCGAAAAGTAGTGAAG
81223 CAAATCCATT
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
72 2 0.03
73 59 0.97
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (73 bp):
TAAGCCTTCACTGAAGAGTAGTGAAGCAAATCCATCTTAAGCCTTCACCGAAAAGTAGTGAAGTG
ATTTATCC
Found at i:81268 original size:73 final size:73
Alignment explanation
Indices: 81083--81242 Score: 232
Period size: 73 Copynumber: 2.2 Consensus size: 73
81073 GGCAAAGTCA
81083 ATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATCCATCTTAAGCCTTCACCGAAGAATAGTGA
1 ATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATCCATCTTAAGCCTTCACCGAAGAATAGTGA
** **
81148 AGTGATTT
66 AGAAATCC
* *
81156 ATCCTAAGCCTTCACTGAAGAGTAGTGAAGCAAATCCATCTTAAGCCTTCACTGAA-AAGTAGTG
1 ATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATCCATCTTAAGCCTTCACCGAAGAA-TAGTG
81220 AAGCAAATCC
65 AAG-AAATCC
*
81230 ATTTTAAGCCTTC
1 ATCTTAAGCCTTC
81243 TCGAAAGAGT
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
72 2 0.03
73 62 0.81
74 13 0.17
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (73 bp):
ATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATCCATCTTAAGCCTTCACCGAAGAATAGTGA
AGAAATCC
Found at i:81785 original size:107 final size:108
Alignment explanation
Indices: 81617--82270 Score: 447
Period size: 111 Copynumber: 6.0 Consensus size: 108
81607 GTGAGGAAAA
* * * ** *
81617 TAAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTTCATAAGATTAT
1 TAAAGATTATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTATGAAGAAGATTAT
** * *
81682 TCGAGTTCTATACTTTTTGAAAGAAAGAGGGATCGAGCCCGTT
66 TCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTT
*
81725 TAAAGATT-TTCAAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTATGAAGAAGATTAT
1 TAAAGATTATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTATGAAGAAGATTAT
* *
81789 TCGAGTTTTATACTTCCTGAAAGAAATAGGGAGCGAACCCGTT
66 TCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTT
* * * * * *
81832 TGCAGAAAATTATTCGAGTTCTATAATTCCTGAAAGAAAGAGGGAGCGAACCCATTTGTAGAAGA
1 T--A-AAGATTATTCGAGTTCTATACTCCCTG-AAGAAAGAGGGAGCGAACCCGTATGAAGAAGA
** * ***
81897 -TCGTCTGAG-TCTTATAC-TCTCTG-AAGAAATAGGGAGC-ATACATAATTGT
62 TTATTC-GAGTTC-TATACTTC-CTGAAAGAAAGAGGGAGCGA-AC--CCGT-T
* * * * * * * **
81946 TGAAGATTGTCCGAG-TCTTATACTCTCTGAAGAAATAGGGAGC-ATACACG-AT--TGTTGATT
1 TAAAGATTATTCGAGTTC-TATACTCCCTGAAGAAAGAGGGAGCGA-ACCCGTATGAAGAAGATT
* * * * * * *
82006 GTTTGAGTTCTATACTCCCTGAAAGGAATAGAGAGCGAACCTGTTTT
64 ATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCG--TT
* * * * * *
82053 TAGAAGATTTTTCGAGTTCTATACTCCCTGAAAAGAATAGGGAGCGAACCTGTTTGTAGAAGATT
1 TA-AAGATTATTCGAGTTCTATACTCCCTGAAGA-AAGAGGGAGCGAACCCGTATGAAGAAGATT
* *
82118 GTTCGAGTTCTATA-TTCCCTGAAA-AGAATAGGGAGCGAA-CCGTT
64 ATTCGAGTTCTATACTT-CCTGAAAGA-AAGAGGGAGCGAACCCGTT
* * * * * * **
82162 TGCAGAAGATTGTTCGAGTTCTATACTACCTGAAAGGAATAGGGAGCGAACCCCTATGCAGTGGA
1 T--A-AAGATTATTCGAGTTCTATACTCCCTG-AAGAAAGAGGGAGCGAACCCGTATGAAGAAGA
* * *
82227 TTGTTCGAGTTCTATACTCCCTGAAA-AGAATAGGGAGCGAACCC
62 TTATTCGAGTTCTATACTTCCTGAAAGA-AAGAGGGAGCGAACCC
82271 ATTTTCAGAA
Statistics
Matches: 436, Mismatches: 75, Indels: 66
0.76 0.13 0.11
Matches are distributed among these distances:
107 104 0.24
108 52 0.12
109 22 0.05
110 26 0.06
111 147 0.34
112 82 0.19
113 1 0.00
114 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (108 bp):
TAAAGATTATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTATGAAGAAGATTAT
TCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTT
Found at i:81821 original size:56 final size:56
Alignment explanation
Indices: 81619--82292 Score: 581
Period size: 56 Copynumber: 12.2 Consensus size: 56
81609 GAGGAAAATA
* * *
81619 AAGATTGTTCGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTTT-TCAT
1 AAGATTGTTCGAGTTCTATACTTCCTGAAAGAAATAGGGAGCGAACCCGTTTGT-AG
* ** * * *
81674 AAGATTATTCGAGTTCTATACTTTTTGAAAGAAAGAGGGATCGAGCCCG-TT-TA-
1 AAGATTGTTCGAGTTCTATACTTCCTGAAAGAAATAGGGAGCGAACCCGTTTGTAG
* * * * *
81727 AAGATT-TTCAAGTTCTATACTCCCTG-AAGAAAGAGGGAGCGAACCCGTATGAAG
1 AAGATTGTTCGAGTTCTATACTTCCTGAAAGAAATAGGGAGCGAACCCGTTTGTAG
* * *
81781 AAGATTATTCGAGTTTTATACTTCCTGAAAGAAATAGGGAGCGAACCCGTTTGCAG
1 AAGATTGTTCGAGTTCTATACTTCCTGAAAGAAATAGGGAGCGAACCCGTTTGTAG
* * * * *
81837 AAAATTATTCGAGTTCTATAATTCCTGAAAGAAAGAGGGAGCGAACCCATTTGTAG
1 AAGATTGTTCGAGTTCTATACTTCCTGAAAGAAATAGGGAGCGAACCCGTTTGTAG
* **** *
81893 AAGATCG-TCTGAG-TCTTATAC-TCTCTG-AAGAAATAGGGAGC-ATACATAATTGTTG
1 AAGATTGTTC-GAGTTC-TATACTTC-CTGAAAGAAATAGGGAGCGA-ACCCGTTTGTAG
* * *
81948 AAGATTGTCCGAG-TCTTATAC-TCTCTG-AAGAAATAGGGAGC-ATACACGATTGT--
1 AAGATTGTTCGAGTTC-TATACTTC-CTGAAAGAAATAGGGAGCGA-ACCCGTTTGTAG
* * * * * * *
82001 -TGATTGTTTGAGTTCTATACTCCCTGAAAGGAATAGAGAGCGAACCTGTTTTTAG
1 AAGATTGTTCGAGTTCTATACTTCCTGAAAGAAATAGGGAGCGAACCCGTTTGTAG
* * *
82056 AAGATTTTTCGAGTTCTATACTCCCTGAAA-AGAATAGGGAGCGAACCTGTTTGTAG
1 AAGATTGTTCGAGTTCTATACTTCCTGAAAGA-AATAGGGAGCGAACCCGTTTGTAG
*
82112 AAGATTGTTCGAGTTCTATA-TTCCCTGAAA-AGAATAGGGAGCGAA-CCGTTTGCAG
1 AAGATTGTTCGAGTTCTATACTT-CCTGAAAGA-AATAGGGAGCGAACCCGTTTGTAG
* * * * *
82167 AAGATTGTTCGAGTTCTATACTACCTGAAAGGAATAGGGAGCGAACCCCTATGCAG
1 AAGATTGTTCGAGTTCTATACTTCCTGAAAGAAATAGGGAGCGAACCCGTTTGTAG
** * *
82223 TGGATTGTTCGAGTTCTATACTCCCTGAAA-AGAATAGGGAGCGAACCCATTT-TCAG
1 AAGATTGTTCGAGTTCTATACTTCCTGAAAGA-AATAGGGAGCGAACCCGTTTGT-AG
82279 AAGATT-TCTCGAGT
1 AAGATTGT-TCGAGT
82293 ATGATATCCC
Statistics
Matches: 521, Mismatches: 72, Indels: 51
0.81 0.11 0.08
Matches are distributed among these distances:
51 19 0.04
52 34 0.07
53 28 0.05
54 9 0.02
55 166 0.32
56 265 0.51
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (56 bp):
AAGATTGTTCGAGTTCTATACTTCCTGAAAGAAATAGGGAGCGAACCCGTTTGTAG
Found at i:82028 original size:52 final size:53
Alignment explanation
Indices: 81894--82007 Score: 167
Period size: 55 Copynumber: 2.1 Consensus size: 53
81884 CATTTGTAGA
* * *
81894 AGATCGTCTGAGTCTTATACTCTCTGAAGAAATAGGGAGCATACATAATTGTT
1 AGATTGTCCGAGTCTTATACTCTCTGAAGAAATAGGGAGCATACACAATTGTT
*
81947 GAAGATTGTCCGAGTCTTATACTCTCTGAAGAAATAGGGAGCATACACGATTGTT
1 --AGATTGTCCGAGTCTTATACTCTCTGAAGAAATAGGGAGCATACACAATTGTT
82002 -GATTGT
1 AGATTGT
82008 TTGAGTTCTA
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
52 6 0.11
55 49 0.89
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.32
Consensus pattern (53 bp):
AGATTGTCCGAGTCTTATACTCTCTGAAGAAATAGGGAGCATACACAATTGTT
Found at i:84016 original size:21 final size:21
Alignment explanation
Indices: 83988--84071 Score: 105
Period size: 21 Copynumber: 4.0 Consensus size: 21
83978 ATGTGAAATT
*
83988 TGTCCCGAAGGACCTCATGTA
1 TGTCCCGAAGGACCTCATATA
* *
84009 TATCCCGAAGGACCTCGTATA
1 TGTCCCGAAGGACCTCATATA
* *
84030 TGTTCTGAAGGACCTCATATA
1 TGTCCCGAAGGACCTCATATA
**
84051 TGTCCCGAAAAACCTCATATA
1 TGTCCCGAAGGACCTCATATA
84072 ATTCTCGACT
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (21 bp):
TGTCCCGAAGGACCTCATATA
Found at i:87330 original size:11 final size:13
Alignment explanation
Indices: 87314--87345 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
87304 CACATATGAG
87314 TCATAT-TATTT-
1 TCATATATATTTA
87325 TCATATATATTTA
1 TCATATATATTTA
87338 TCATATAT
1 TCATATAT
87346 CTCATGATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 6 0.32
12 5 0.26
13 8 0.42
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.56
Consensus pattern (13 bp):
TCATATATATTTA
Found at i:96390 original size:2 final size:2
Alignment explanation
Indices: 96383--96419 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
96373 ATGTTAGACA
96383 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
96420 AATTCAGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:96676 original size:33 final size:32
Alignment explanation
Indices: 96629--96690 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
96619 ATGTAGGAAA
*
96629 TAATAATATTTAATTATATTGATTTATATGTAT
1 TAATAATATTTAATTAAATTGATTT-TATGTAT
*
96662 TAATAA-ATTGTAATTAAATTTATTTTATG
1 TAATAATATT-TAATTAAATTGATTTTATG
96691 AGAAAAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 7 0.27
33 19 0.73
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.53
Consensus pattern (32 bp):
TAATAATATTTAATTAAATTGATTTTATGTAT
Found at i:98354 original size:14 final size:15
Alignment explanation
Indices: 98326--98387 Score: 56
Period size: 14 Copynumber: 4.1 Consensus size: 15
98316 TAGACAATTA
*
98326 AAATGAAAATAAAAT
1 AAATAAAAATAAAAT
*
98341 TAATAAAAAT-AAAT
1 AAATAAAAATAAAAT
*
98355 AAATAAAAATGATAAT
1 AAATAAAAAT-AAAAT
98371 -AATAATAATATAAAAT
1 AAATAA-AA-ATAAAAT
98387 A
1 A
98388 TTTTCTAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
14 13 0.35
15 13 0.35
16 9 0.24
17 2 0.05
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
AAATAAAAATAAAAT
Found at i:98360 original size:23 final size:22
Alignment explanation
Indices: 98332--98386 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
98322 ATTAAAATGA
98332 AAATAAAATTAATAAAAATAAAT
1 AAATAAAATTAATAAAAAT-AAT
* * *
98355 AAATAAAAATGATAATAATAAT
1 AAATAAAATTAATAAAAATAAT
98377 AATATAAAAT
1 AA-ATAAAAT
98387 ATTTTCTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 5 0.19
23 22 0.81
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (22 bp):
AAATAAAATTAATAAAAATAAT
Found at i:98438 original size:34 final size:34
Alignment explanation
Indices: 98395--98734 Score: 182
Period size: 34 Copynumber: 9.6 Consensus size: 34
98385 ATATTTTCTA
98395 AAAACTATATAATATATATTTTCAAAA-GTATTTT
1 AAAACTATATAATATATATTTTCAAAATGT-TTTT
* * *
98429 AAAAGTATATATTTTATATATTTTTTTAAAATCG-TTTT
1 AAAACTATATA----ATATATATTTTCAAAAT-GTTTTT
* *
98467 CAAA--AT-T-ATATA-GTTTTCAAAAATGTTTTTTT
1 AAAACTATATAATATATATTTTC-AAAATG--TTTTT
* * * *
98499 AAAATTATATATTATA-AGTTTTCAAAATGATTTC
1 AAAACTATATAATATATA-TTTTCAAAATGTTTTT
98533 AAAACTATATAATATATATATGTTTTCAAAATGTTTCTTTTT
1 AAAACTATAT-A-ATATATA--TTTTCAAAATG----TTTTT
* *
98575 AAAA--AT-T-ATATTTATTTTCAAAATGTTTTG
1 AAAACTATATAATATATATTTTCAAAATGTTTTT
* * *
98605 AAAACCATATAATATATATTTTCAAAAACGTTTTA
1 AAAACTATATAATATATATTTTC-AAAATGTTTTT
* * *
98640 AAAACTATATATTATATTTATTTTCAAAGTGTTTTA
1 AAAACTATATA--ATATATATTTTCAAAATGTTTTT
* *
98676 AAAACTATATAATATATAAATGTTTCAAATATGTCTTC
1 AAAACTATATAATATAT--AT-TTTCAAA-ATGTTTTT
98714 AAAACTATATATATTATATAT
1 AAAACTATATA-A-TATATAT
98735 ATGTATATAT
Statistics
Matches: 242, Mismatches: 28, Indels: 68
0.72 0.08 0.20
Matches are distributed among these distances:
29 5 0.02
30 18 0.07
32 9 0.04
33 1 0.00
34 51 0.21
35 22 0.09
36 44 0.18
37 24 0.10
38 51 0.21
39 2 0.01
40 8 0.03
42 7 0.03
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.46
Consensus pattern (34 bp):
AAAACTATATAATATATATTTTCAAAATGTTTTT
Found at i:98478 original size:30 final size:30
Alignment explanation
Indices: 98442--98511 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
98432 AGTATATATT
**
98442 TTATATATTTTTTTAAAATCG-TTTTCAAAA
1 TTATATATTTTTCAAAAAT-GTTTTTCAAAA
* *
98472 TTATATAGTTTTCAAAAATGTTTTTTTAAAA
1 TTATATATTTTTCAAAAATG-TTTTTCAAAA
98503 TTATATATT
1 TTATATATT
98512 ATAAGTTTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 1 0.03
30 16 0.48
31 16 0.48
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.54
Consensus pattern (30 bp):
TTATATATTTTTCAAAAATGTTTTTCAAAA
Found at i:98598 original size:72 final size:74
Alignment explanation
Indices: 98473--98693 Score: 214
Period size: 71 Copynumber: 3.1 Consensus size: 74
98463 TTTTCAAAAT
*
98473 TATATAGTTTTCAAAAATGTTTTTTTAAAATTATATATTATAAGTTTTCAAAATGATTTCAAAAC
1 TATATAGTTTTCAAAAATGTTTTTTTAAAAATATATATTATAAGTTTTCAAAATGATTTCAAAAC
*
98538 TATATAATA
66 CATATAATA
* *
98547 TATATATGTTTTC-AAAATGTTTCTTTTTAAAAAT-TATATT-T-A-TTTTCAAAATGTTTTGAA
1 TATATA-GTTTTCAAAAATG-TT-TTTTTAAAAATATATATTATAAGTTTTCAAAATGATTTCAA
98607 AACCATAT-A-A
63 AACCATATAATA
* * * *
98617 TATATA-TTTTCAAAAACG---TTTTAAAAACTATATATTATATTTA-TTTTCAAAGTGTTTTAA
1 TATATAGTTTTCAAAAATGTTTTTTTAAAAA-TATATATTATA---AGTTTTCAAAATGATTTCA
*
98677 AAACTATATAATA
62 AAACCATATAATA
98690 TATA
1 TATA
98694 AATGTTTCAA
Statistics
Matches: 126, Mismatches: 8, Indels: 27
0.78 0.05 0.17
Matches are distributed among these distances:
64 9 0.07
65 1 0.01
66 6 0.05
67 1 0.01
68 5 0.04
69 5 0.04
70 7 0.06
71 25 0.20
72 24 0.19
73 6 0.05
74 13 0.10
75 14 0.11
76 10 0.08
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (74 bp):
TATATAGTTTTCAAAAATGTTTTTTTAAAAATATATATTATAAGTTTTCAAAATGATTTCAAAAC
CATATAATA
Found at i:98673 original size:71 final size:73
Alignment explanation
Indices: 98579--98725 Score: 208
Period size: 71 Copynumber: 2.0 Consensus size: 73
98569 CTTTTTAAAA
* *
98579 ATTATATTTATTTTCAAAATGTTTTGAAAACCATATAATATAT-AT-TTTCAAAAACGTTTTAAA
1 ATTATATTTATTTTCAAAATGTTTTAAAAACCATATAATATATAATGTTTCAAAAACGTCTTAAA
98642 AACTATAT
66 AACTATAT
* * * * *
98650 ATTATATTTATTTTCAAAGTGTTTTAAAAACTATATAATATATAAATGTTTCAAATATGTCTTCA
1 ATTATATTTATTTTCAAAATGTTTTAAAAACCATATAATATAT-AATGTTTCAAAAACGTCTTAA
98715 AAACTATAT
65 AAACTATAT
98724 AT
1 AT
98726 ATTATATATA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
71 40 0.61
73 2 0.03
74 24 0.36
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.44
Consensus pattern (73 bp):
ATTATATTTATTTTCAAAATGTTTTAAAAACCATATAATATATAATGTTTCAAAAACGTCTTAAA
AACTATAT
Found at i:98679 original size:36 final size:36
Alignment explanation
Indices: 98473--98736 Score: 184
Period size: 34 Copynumber: 7.2 Consensus size: 36
98463 TTTTCAAAAT
* *
98473 TATATAGTTTTCAAAAATGTTTTTTTAAAATTATATATTA
1 TATATA-TTTTC-AAAATG--TTTTAAAAACTATATATTA
* * *
98513 TA-A-GTTTTCAAAATGATTTCAAAACTATATAATATA
1 TATATATTTTCAAAATGTTTTAAAAACTATAT-AT-TA
* ***
98549 TATATGTTTTCAAAATGTTTCTTTTTAA--A-A-ATTA
1 TATATATTTTCAAAATG-TT-TTAAAAACTATATATTA
* * *
98583 TATTTATTTTCAAAATGTTTTGAAAACCATATA--A
1 TATATATTTTCAAAATGTTTTAAAAACTATATATTA
*
98617 TATATATTTTCAAAAACGTTTTAAAAACTATATATTA
1 TATATATTTTC-AAAATGTTTTAAAAACTATATATTA
* * *
98654 TATTTATTTTCAAAGTGTTTTAAAAACTATATAATA
1 TATATATTTTCAAAATGTTTTAAAAACTATATATTA
* * *
98690 TATAAATGTTTCAAATATGTCTTCAAAACTATATATATTA
1 TATATAT-TTTCAAA-ATGTTTTAAAAAC--TATATATTA
98730 TATATAT
1 TATATAT
98737 GTATATATAT
Statistics
Matches: 179, Mismatches: 28, Indels: 34
0.74 0.12 0.14
Matches are distributed among these distances:
32 4 0.02
33 2 0.01
34 41 0.23
35 24 0.13
36 38 0.21
37 25 0.14
38 23 0.13
39 2 0.01
40 20 0.11
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (36 bp):
TATATATTTTCAAAATGTTTTAAAAACTATATATTA
Found at i:98727 original size:71 final size:69
Alignment explanation
Indices: 98517--98728 Score: 200
Period size: 71 Copynumber: 3.0 Consensus size: 69
98507 ATATTATAAG
* * *
98517 TTTTCAAAATGATTTCAAAACTATATAATATATATATGTTTTCAAAATGTTTCTTTTTAAAA--A
1 TTTTCAAAATGTTTTAAAAACTATATAATATATA-ATG-TTTCAAAATG--TC--TTAAAAACTA
98580 T-TATATTTA
60 TATATATTTA
* * * *
98589 TTTTCAAAATGTTTTGAAAACCATATAATATAT-AT-TTTCAAAAACGTTTTAAAAACTATATAT
1 TTTTCAAAATGTTTTAAAAACTATATAATATATAATGTTTC-AAAATGTCTTAAAAAC--TATA-
98652 TATATTTA
62 TATATTTA
* *
98660 TTTTCAAAGTGTTTTAAAAACTATATAATATATAAATGTTTCAAATATGTCTTCAAAACTATATA
1 TTTTCAAAATGTTTTAAAAACTATATAATATAT-AATGTTTCAAA-ATGTCTTAAAAACTATATA
98725 TATT
64 TATT
98729 ATATATATGT
Statistics
Matches: 117, Mismatches: 12, Indels: 23
0.77 0.08 0.15
Matches are distributed among these distances:
65 6 0.05
67 1 0.01
68 4 0.03
69 7 0.06
70 2 0.02
71 44 0.38
72 34 0.29
73 5 0.04
74 14 0.12
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (69 bp):
TTTTCAAAATGTTTTAAAAACTATATAATATATAATGTTTCAAAATGTCTTAAAAACTATATATA
TTTA
Found at i:98732 original size:40 final size:39
Alignment explanation
Indices: 98579--98738 Score: 126
Period size: 36 Copynumber: 4.3 Consensus size: 39
98569 CTTTTTAAAA
* * * *
98579 ATTATATTTAT-TTTCAAAATGTTTTGAAAAC--CATAT
1 ATTATATATATGTTTCAAAATGTCTTAAAAACTATATAT
* *
98615 A--ATATATAT-TTTCAAAAACGTTTTAAAAAC--TATAT
1 ATTATATATATGTTTC-AAAATGTCTTAAAAACTATATAT
* * *
98650 ATTATATTTAT-TTTCAAAGTGTTTTAAAAACTATATA-
1 ATTATATATATGTTTCAAAATGTCTTAAAAACTATATAT
* *
98687 A-TATATAAATGTTTCAAATATGTCTTCAAAACTATATAT
1 ATTATATATATGTTTCAAA-ATGTCTTAAAAACTATATAT
98726 ATTATATATATGT
1 ATTATATATATGT
98739 ATATATATAA
Statistics
Matches: 102, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
34 11 0.11
35 19 0.19
36 22 0.22
37 19 0.19
38 20 0.20
39 1 0.01
40 10 0.10
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.45
Consensus pattern (39 bp):
ATTATATATATGTTTCAAAATGTCTTAAAAACTATATAT
Found at i:98825 original size:13 final size:13
Alignment explanation
Indices: 98807--98832 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
98797 TTTGTCCTTT
98807 TTCGTGGAACGAA
1 TTCGTGGAACGAA
98820 TTCGTGGAACGAA
1 TTCGTGGAACGAA
98833 AAATAGGACA
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:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (13 bp):
TTCGTGGAACGAA
Found at i:99518 original size:165 final size:165
Alignment explanation
Indices: 99328--100500 Score: 1473
Period size: 165 Copynumber: 7.1 Consensus size: 165
99318 ATTTTATTGA
* * * * * * * *
99328 CAGATAGCCCTTCTTGCCTTAAGCTATGCTGCAAATGATGGGCCTTGGAGCTAAGTGAAATTGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* * * * *
99393 CTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCCT
66 CTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCT
99458 CGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG
131 CGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG
* *
99493 CAGATAGCCCTTCTCGACCTAAGCTATGCTACAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGA
* * * * * *
99557 ACTCAAAGGTCTTTTGTTGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATG-CC
65 ACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCC
* * * * **
99621 TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGG
130 TCGAAGCTGAGTGTAATCGAACTCGGGGGTC---T-TTGG
* * * * * * *
99661 CAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* * *
99726 CTCGAAGGTCTTTGGTTGACATATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCT
66 CTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCT
*
99791 CGAAGCTGAGTGTAATCGAACTCGGGGATCTTTGG
131 CGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG
* * * *
99826 CAGATAGCCCTTCTCGACTTAAGCTATACTACAAATGATGTG-CTGTTGAGCTGAGTGTAGTCGA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCT-TGGAGCTGAGCGTAGTCGA
*
99890 ACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCC
65 ACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCC
99955 TCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG
130 TCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG
99991 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* * **
100056 CTCAAAGTTCTTTGGTTGGCAGATAACCCTTCTCGACTTAATTTATATTGCAAATGATGTGCCCT
66 CTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCT
100121 CGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG
131 CGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG
*
100156 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGTTGAGCGTAGTCGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* *
100221 CTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACCTAAGCTATGCTGCAAATGATGTG-CCT
66 CTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCT
* * * * ***
100285 TGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTG
131 CGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT-G--G
* * * * * * *
100323 ACAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
1 -CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCG
*** * *
100388 AACTCGGGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-C
64 AACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC
* * * * ***
100448 CTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGTGG
129 CTCGAAGCTGAGTGTAATCGAACTCGGGGGTC-TT-TGG
*
100487 CAGGTAGCCCTTCT
1 CAGATAGCCCTTCT
100501 GGCCTTGAGC
Statistics
Matches: 898, Mismatches: 94, Indels: 34
0.88 0.09 0.03
Matches are distributed among these distances:
163 12 0.01
164 59 0.07
165 614 0.68
166 8 0.01
167 6 0.01
168 148 0.16
169 51 0.06
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (165 bp):
CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
CTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCT
CGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG
Found at i:99628 original size:84 final size:84
Alignment explanation
Indices: 99319--100500 Score: 1244
Period size: 84 Copynumber: 14.3 Consensus size: 84
99309 AACTCGACAA
* * * * * * * *
99319 TTTTATTGACAGATAGCCCTTCTTGCCTTAAGCTATGCTGCAAATGATGGGCCTTGGAGCTAAGT
1 TTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
* * *
99384 GAAATTGAACTCAAAGGTC
66 GTAGTCGAACTCAAAGGTC
* * * * * * *
99403 TTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCCTCGAAGCTGAG
1 TTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAG
* * ***
99468 TGTAATCGAACTCGGGGGTC
65 CGTAGTCGAACTCAAAGGTC
* * *
99488 ---T-TTGGCAGATAGCCCTTCTCGACCTAAGCTATGCTACAAATGATGTGCCGTT-GAGCTGAG
1 TTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC-TTGGAGCTGAG
99548 CGTAGTCGAACTCAAAGGTC
65 CGTAGTCGAACTCAAAGGTC
* * * * * *
99568 TTTTGTTGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGC
1 TTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
*
99633 GTAGTCGAACTCGAAGGTC
66 GTAGTCGAACTCAAAGGTC
* * * * * *
99652 TTTTGTTGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGC
1 TTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
*
99717 GTAGTCGAACTCGAAGGTC
66 GTAGTCGAACTCAAAGGTC
* * * * * *
99736 TTTGGTTGACATATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAG
1 TTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAG
* * **
99801 TGTAATCGAACTC-GGGGATC
65 CGTAGTCGAACTCAAAGG-TC
* * * *
99821 ---T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATACTACAAATGATGTG-CTGTTGAGCTGAG
1 TTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCT-TGGAGCTGAG
*
99881 TGTAGTCGAACTCAAAGGTC
65 CGTAGTCGAACTCAAAGGTC
* * * * *
99901 TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCCTCGAAGCTGAG
1 TTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAG
* * ***
99966 TGTAATCGAACTCGGGGGTC
65 CGTAGTCGAACTCAAAGGTC
*
99986 ---T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
1 TTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
*
100047 GTAGTCGAACTCAAAGTTC
66 GTAGTCGAACTCAAAGGTC
* ** ** * *
100066 TTTGGTTGGCAGATAACCCTTCTCGACTTAATTTATATTGCAAATGATGTGCCCTCGAAGCTGAG
1 TTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAG
* * ***
100131 TGTAATCGAACTCGGGGGTC
65 CGTAGTCGAACTCAAAGGTC
* *
100151 ---T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGTTGAGC
1 TTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
100212 GTAGTCGAACTCAAAGGTC
66 GTAGTCGAACTCAAAGGTC
* *
100231 TTTGGTTGGCAGATAACCCTTCTCGACCTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
1 TTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
100296 GTAGTCGAACTCAAAGGTC
66 GTAGTCGAACTCAAAGGTC
* * * * * *
100315 TTTGGTTGACAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCCTCGAAGCTGAG
1 TTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAG
* * ***
100380 TGTAATCGAACTCGGGGGTC
65 CGTAGTCGAACTCAAAGGTC
*
100400 ---T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
1 TTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
100461 GTAGTCGAACTCAAAGGTC
66 GTAGTCGAACTCAAAGGTC
* *
100480 -TTTG-TGGCAGGTAGCCCTTCT
1 TTTTGTTGGCAGATAACCCTTCT
100501 GGCCTTGAGC
Statistics
Matches: 919, Mismatches: 149, Indels: 62
0.81 0.13 0.05
Matches are distributed among these distances:
79 2 0.00
80 121 0.13
81 207 0.23
82 18 0.02
83 3 0.00
84 443 0.48
85 123 0.13
86 2 0.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (84 bp):
TTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
GTAGTCGAACTCAAAGGTC
Found at i:99828 original size:249 final size:247
Alignment explanation
Indices: 99328--100500 Score: 1323
Period size: 249 Copynumber: 4.7 Consensus size: 247
99318 ATTTTATTGA
* * * * * * * * *
99328 CAGATAGCCCTTCTTGCCTTAAGCTATGCTGCAAATGATGGGCCTTGGAGCTAAGTGAAATTGAA
1 CAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCTTGGAGCTGAGTGTAATCGAA
* * * * *
99393 CTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCCT
66 CTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCT
* * * * ** *
99458 CGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT-GGCAGATAGCCCTTCTCGACCTAAGCTATGC
130 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGGCAGATAACCCTTCTCGACCTAAGCTATGC
*
99522 TACAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGG
195 TGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCAAAGGTC--TTGTTGG
* * * * * * * *
99577 CAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCTTGGAGCTGAGTGTAATCGAA
* * * * *
99642 CTCGAAGGTCTTTTGTTGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATGCCTT
66 CTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTT
* * *
99707 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACATATAACCCTTCTCGACTTAAGTTAT
131 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG--G-CAGATAACCCTTCTCGACCTAAGCTAT
* * * * **
99772 GCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTC-GGGGATC-T-TTGG
193 GCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCAAAGG-TCTTGTTGG
* * * * *
99826 CAGATAGCCCTTCTCGACTTAAGCTATACTACAAATGATGTG-CTGTTGAGCTGAGTGTAGTCGA
1 CAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCT-TGGAGCTGAGTGTAATCGA
* * *
99890 ACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCC
65 ACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CC
* * * * ** * *
99955 TCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT-GGCAGATAGCCCTTCTCGACTTAAGCTATG
129 TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGGCAGATAACCCTTCTCGACCTAAGCTATG
*
100019 CTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGTTCTTTGGTTGG
194 CTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTC-TT-GTTGG
* * * *
100075 CAGATAACCCTTCTCGACTTAATTTATATTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTG-CCTTGGAGCTGAGTGTAATCGA
** * *
100140 ACTCGGGGGTC---T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCT
65 ACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCT
* *
100201 TGGAGTTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACCTAAGCTA
130 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-G--GGCAGATAACCCTTCTCGACCTAAGCTA
*
100266 TGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGA
192 TGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTC-TT-GTTGG
* *
100324 CAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTG-CCTTGGAGCTGAGTGTAATCGA
** * *
100389 ACTCGGGGGTC---T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCT
65 ACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCT
* * *
100450 TGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGTGGCAGGTAGCCCTTCT
130 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTG-GGCAGATAACCCTTCT
100501 GGCCTTGAGC
Statistics
Matches: 803, Mismatches: 101, Indels: 42
0.85 0.11 0.04
Matches are distributed among these distances:
245 52 0.06
246 83 0.10
247 17 0.02
248 33 0.04
249 499 0.62
250 54 0.07
251 3 0.00
252 40 0.05
253 22 0.03
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (247 bp):
CAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCTTGGAGCTGAGTGTAATCGAA
CTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTT
GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGGCAGATAACCCTTCTCGACCTAAGCTATGCT
GCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTGTTGG
Found at i:106535 original size:25 final size:25
Alignment explanation
Indices: 106507--106568 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
106497 CCTAGACAAT
106507 TAAAATGAAAATAAAT-TAATAAAAA
1 TAAAAT-AAAATAAATATAATAAAAA
* *
106532 T-AAATAAAAAAAATGATAATAATAA
1 TAAAATAAAATAAAT-ATAATAAAAA
*
106557 TAATATAAAATA
1 TAAAATAAAATA
106569 TTTTCTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
23 8 0.27
24 4 0.13
25 10 0.33
26 8 0.27
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (25 bp):
TAAAATAAAATAAATATAATAAAAA
Found at i:106543 original size:13 final size:14
Alignment explanation
Indices: 106504--106545 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
106494 GGACCTAGAC
106504 AATTAAAATGAAAATA
1 AATTAAAA--AAAATA
*
106520 AATTAATAAAAATA
1 AATTAAAAAAAATA
106534 AA-TAAAAAAAAT
1 AATTAAAAAAAAT
106546 GATAATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 8 0.33
16 7 0.29
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (14 bp):
AATTAAAAAAAATA
Found at i:106760 original size:68 final size:68
Alignment explanation
Indices: 106648--106788 Score: 182
Period size: 68 Copynumber: 2.1 Consensus size: 68
106638 TTTTCAAAAT
*
106648 TATATAGTTTTCAAAATGTTTTTTAAAATTATATATTAAGTTTTCAAAATGATTTCAAAACTA-A
1 TATATAGTTTTCAAAATGTTTTTTAAAATTATATATTAAGTTTTCAAAATGATTTCAAAACCATA
106712 TAA
66 TAA
* * *
106715 TATATATGTTTTCAAAATGCTTCTTTTTAAAATTATAT-TT-A-TTTTCAAATTGTTTTGAAAAC
1 TATATA-GTTTTCAAAATG--T-TTTTTAAAATTATATATTAAGTTTTCAAAATGATTTCAAAAC
106777 CATATAA
62 CATATAA
106784 TATAT
1 TATAT
106789 TTTCAAAAAC
Statistics
Matches: 65, Mismatches: 4, Indels: 8
0.84 0.05 0.10
Matches are distributed among these distances:
67 6 0.09
68 31 0.48
69 10 0.15
70 3 0.05
71 15 0.23
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.48
Consensus pattern (68 bp):
TATATAGTTTTCAAAATGTTTTTTAAAATTATATATTAAGTTTTCAAAATGATTTCAAAACCATA
TAA
Found at i:106840 original size:36 final size:35
Alignment explanation
Indices: 106746--106855 Score: 111
Period size: 36 Copynumber: 3.2 Consensus size: 35
106736 TCTTTTTAAA
* * *
106746 ATTATATTTATTTTCAAATTGTTTTGAAAACCATAT
1 ATTATATTTATTTTCAAA-TATTTTAAAAACTATAT
* *
106782 A--ATA--TATTTTCAAAAACGTTTAAAAACTATAT
1 ATTATATTTATTTTCAAATA-TTTTAAAAACTATAT
106814 ATTATATTTATTTTCAAAGTATTTTAAAAACTATAT
1 ATTATATTTATTTTCAAA-TATTTTAAAAACTATAT
*
106850 AATATA
1 ATTATA
106856 AATGTTTCAA
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
32 23 0.38
34 6 0.10
36 30 0.50
37 1 0.02
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (35 bp):
ATTATATTTATTTTCAAATATTTTAAAAACTATAT
Found at i:111334 original size:38 final size:39
Alignment explanation
Indices: 111241--111483 Score: 270
Period size: 38 Copynumber: 6.3 Consensus size: 39
111231 TTTCCATATC
* * *
111241 TCTCACTT-TCTTCTCGTTCTCGAGCTTTCCTTCACTTTCT
1 TCTCA-TTCTCTTCTCGTTCACGAGC-TTCCTTCAATCTCT
*
111281 TCTCATTCTCTTCTCGCTCACGAGCTTCCTTCAATCTCT
1 TCTCATTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCT
* *
111320 T-TCATTCTCTTCTCGCTCACAAGCTTCCTTCAATCTCT
1 TCTCATTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCT
*
111358 TCTCATTCTCTTCACGTTCACGAGCTTCCTTC-ATCTCT
1 TCTCATTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCT
* *
111396 TCTCGTTCTTTCTTCTCGTTCACAAGCTTCCTTC--TCTTCT
1 TCTCATTC--TCTTCTCGTTCACGAGCTTCCTTCAATC-TCT
* *
111436 TCTCA-T-TC-TCTCGTTCAGGAG-TTTCTTCAATCTCT
1 TCTCATTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCT
*
111471 TCTCTTTCTCTTC
1 TCTCATTCTCTTC
111484 CTGTTCAGCA
Statistics
Matches: 177, Mismatches: 16, Indels: 22
0.82 0.07 0.10
Matches are distributed among these distances:
34 6 0.03
35 18 0.10
36 5 0.03
37 2 0.01
38 52 0.29
39 45 0.25
40 49 0.28
ACGTcount: A:0.11, C:0.35, G:0.07, T:0.46
Consensus pattern (39 bp):
TCTCATTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCT
Found at i:111376 original size:117 final size:112
Alignment explanation
Indices: 111241--111483 Score: 269
Period size: 117 Copynumber: 2.1 Consensus size: 112
111231 TTTCCATATC
* * * *
111241 TCTCACTT-TCTTCTCGTTCTCGAGCTTTCCTTCACTTTCTTCTCATTC-TCTTCTCGCTCACGA
1 TCTCA-TTCTCTTCACGTTCACGAGC-TTCCTTCA-TCTCTTCTCATTCTTCTTCTCGCTCACAA
111304 GCTTCCTTCAATC-TCTT-TCATTCTCTTCTCGCTCACAAGCTTCCTTCAATCTCT
63 GCTTCCTTC--TCTTCTTCTCA-T-TC-TCTCGCTCACAAG-TTCCTTCAATCTCT
* *
111358 TCTCATTCTCTTCACGTTCACGAGCTTCCTTCATCTCTTCTCGTTCTTTCTTCTCGTTCACAAGC
1 TCTCATTCTCTTCACGTTCACGAGCTTCCTTCATCTCTTCTCATTC-TTCTTCTCGCTCACAAGC
* ** *
111423 TTCCTTCTCTTCTTCTCATTCTCTCGTTCAGGAGTTTCTTCAATCTCT
65 TTCCTTCTCTTCTTCTCATTCTCTCGCTCACAAGTTCCTTCAATCTCT
*
111471 TCTCTTTCTCTTC
1 TCTCATTCTCTTC
111484 CTGTTCAGCA
Statistics
Matches: 110, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
113 25 0.23
114 10 0.09
115 15 0.14
116 15 0.14
117 45 0.41
ACGTcount: A:0.11, C:0.35, G:0.07, T:0.46
Consensus pattern (112 bp):
TCTCATTCTCTTCACGTTCACGAGCTTCCTTCATCTCTTCTCATTCTTCTTCTCGCTCACAAGCT
TCCTTCTCTTCTTCTCATTCTCTCGCTCACAAGTTCCTTCAATCTCT
Found at i:114290 original size:51 final size:50
Alignment explanation
Indices: 114230--114343 Score: 158
Period size: 51 Copynumber: 2.3 Consensus size: 50
114220 TGCTCTCTGC
* **
114230 CCGCGCTATATGCTGATTTGGCGT-CACGTGGGGTATAGCGCGCCCCCTGTA
1 CCGCGCTATACGCTGACATGGCGTACACGT-GGGTATAGCGCG-CCCCTGTA
* *
114281 CCGCGCTATACGCTGACATGGCTTACACGTGGGTATAGCGCGCCCCTGTT
1 CCGCGCTATACGCTGACATGGCGTACACGTGGGTATAGCGCGCCCCTGTA
114331 CCGCGCTATACGC
1 CCGCGCTATACGC
114344 CACGTAGGGG
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
50 20 0.35
51 32 0.56
52 5 0.09
ACGTcount: A:0.15, C:0.32, G:0.29, T:0.24
Consensus pattern (50 bp):
CCGCGCTATACGCTGACATGGCGTACACGTGGGTATAGCGCGCCCCTGTA
Found at i:114636 original size:14 final size:15
Alignment explanation
Indices: 114614--114660 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
114604 TTGTTATAAA
*
114614 TTTTGTTATAATT-T
1 TTTTATTATAATTAT
*
114628 TTTTATTATACTTAT
1 TTTTATTATAATTAT
*
114643 TGTTTATTATGATTAT
1 T-TTTATTATAATTAT
114659 TT
1 TT
114661 GAAAAAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 11 0.41
15 3 0.11
16 13 0.48
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTATAATTAT
Found at i:120166 original size:26 final size:26
Alignment explanation
Indices: 120083--120166 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
120073 AATTACACAA
120083 ATTAATTCTTAATCTAATAATCATGC
1 ATTAATTCTTAATCTAATAATCATGC
* * * *
120109 ATTAA--ATAAATC-AATAAATTATTAC
1 ATTAATTCTTAATCTAAT-AATCA-TGC
120134 AAATTAATTCTTAATCTAATAATCATGC
1 --ATTAATTCTTAATCTAATAATCATGC
120162 ATTAA
1 ATTAA
120167 ACAAATTATT
Statistics
Matches: 43, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
23 3 0.07
24 9 0.21
25 2 0.05
26 10 0.23
27 5 0.12
28 2 0.05
29 9 0.21
30 3 0.07
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.39
Consensus pattern (26 bp):
ATTAATTCTTAATCTAATAATCATGC
Found at i:120305 original size:17 final size:18
Alignment explanation
Indices: 120285--120331 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
120275 AAATTATATT
120285 AGTAAAATA-ATAAATAA
1 AGTAAAATACATAAATAA
*
120302 AGTAAAATACTTAAATAA
1 AGTAAAATACATAAATAA
*
120320 A-TTAAATACATA
1 AGTAAAATACATA
120332 TTATTAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (18 bp):
AGTAAAATACATAAATAA
Found at i:120318 original size:18 final size:17
Alignment explanation
Indices: 120285--120325 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
120275 AAATTATATT
120285 AGTAAAATAATAAATAA
1 AGTAAAATAATAAATAA
*
120302 AGTAAAATACTTAAATAA
1 AGTAAAATA-ATAAATAA
*
120320 ATTAAA
1 AGTAAA
120326 TACATATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (17 bp):
AGTAAAATAATAAATAA
Found at i:126617 original size:32 final size:31
Alignment explanation
Indices: 126576--126668 Score: 98
Period size: 31 Copynumber: 2.9 Consensus size: 31
126566 AGTCGAGGGT
126576 TTACCTATGTCTTTCAGGACATATGGACAGGA
1 TTACCTATGT-TTTCAGGACATATGGACAGGA
* * *
126608 TTACCTATGTTCTAAGGAACATATGGACA-GT
1 TTACCTATGTTTTCAGG-ACATATGGACAGGA
* * *
126639 TTACCTAGGTTATTCGGGACTTATGGACAG
1 TTACCTATGTT-TTCAGGACATATGGACAG
126669 TTGTCGAGGT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
31 26 0.52
32 24 0.48
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (31 bp):
TTACCTATGTTTTCAGGACATATGGACAGGA
Found at i:127473 original size:12 final size:12
Alignment explanation
Indices: 127454--127496 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
127444 GCACTGTAGC
127454 ACTGTTCATGGT
1 ACTGTTCATGGT
*
127466 ATTGTTCAT--T
1 ACTGTTCATGGT
127476 ACTGTTCATGGT
1 ACTGTTCATGGT
127488 ACTGTTCAT
1 ACTGTTCAT
127497 ACTATATTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 9 0.33
12 18 0.67
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.47
Consensus pattern (12 bp):
ACTGTTCATGGT
Found at i:127482 original size:22 final size:22
Alignment explanation
Indices: 127454--127496 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
127444 GCACTGTAGC
*
127454 ACTGTTCATGGTATTGTTCATT
1 ACTGTTCATGGTACTGTTCATT
127476 ACTGTTCATGGTACTGTTCAT
1 ACTGTTCATGGTACTGTTCAT
127497 ACTATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.47
Consensus pattern (22 bp):
ACTGTTCATGGTACTGTTCATT
Found at i:134080 original size:21 final size:21
Alignment explanation
Indices: 134054--134093 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
134044 CCCCCTTTGA
*
134054 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
134075 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
134094 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:137787 original size:24 final size:24
Alignment explanation
Indices: 137755--137812 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
137745 CCATCAATCA
*
137755 TAAGATCAGAACAATAAAGAGGAT
1 TAAGATCAGAACAATAAAAAGGAT
137779 TAAGATCAGAACAATAAAAAGGAT
1 TAAGATCAGAACAATAAAAAGGAT
137803 TAAGATCAGA
1 TAAGATCAGA
137813 GTTAGAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.55, C:0.09, G:0.19, T:0.17
Consensus pattern (24 bp):
TAAGATCAGAACAATAAAAAGGAT
Found at i:142145 original size:23 final size:23
Alignment explanation
Indices: 142092--142152 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
142082 CAATTTTATA
* * *
142092 TGGCACTACAGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTAAG
* *
142115 CGGCACTTCGGTGTAATTCTAAG
1 TGGCACTTCGGTGCAATTCTAAG
142138 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
142153 TTTATACGAG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTAAG
Found at i:142637 original size:14 final size:14
Alignment explanation
Indices: 142618--142645 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
142608 GGCATGTACA
142618 TAAATATTTGAATC
1 TAAATATTTGAATC
142632 TAAATATTTGAATC
1 TAAATATTTGAATC
142646 ATTTTTGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (14 bp):
TAAATATTTGAATC
Found at i:142789 original size:21 final size:21
Alignment explanation
Indices: 142765--142807 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
142755 TGCTGAAAGT
* *
142765 ACTGTAGTAGTGCATCGGTAC
1 ACTGTAGCAGTGCATCGATAC
142786 ACTGTAGCAGTGCATCGATAC
1 ACTGTAGCAGTGCATCGATAC
142807 A
1 A
142808 TATTTTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (21 bp):
ACTGTAGCAGTGCATCGATAC
Found at i:143828 original size:60 final size:59
Alignment explanation
Indices: 143694--143831 Score: 154
Period size: 60 Copynumber: 2.3 Consensus size: 59
143684 GAACACGTGA
* * * *
143694 ATAGTCATATGACCATTTTGTAACTTTTAATAGTCGGAAGACTCAACAAAGTAGCATTCT
1 ATAGTCA-ATGACCATTTTATAACTTTTAATAGTCGGAAGACTCAACAAAATAACATACT
* * *
143754 ATAGTTGAAAGACCATTTTATAACTTTTAATAGTCATG-AGACTCAACAAAATAACA-ACAT
1 ATAG-TCAATGACCATTTTATAACTTTTAATAGTC-GGAAGACTCAACAAAATAACATAC-T
143814 ATAGTCAATGGACCATTT
1 ATAGTCAAT-GACCATTT
143832 GTGCACTTTA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
59 4 0.06
60 58 0.89
61 3 0.05
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (59 bp):
ATAGTCAATGACCATTTTATAACTTTTAATAGTCGGAAGACTCAACAAAATAACATACT
Found at i:149585 original size:62 final size:62
Alignment explanation
Indices: 149488--149611 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
149478 TGTGGAAGTT
149488 CACAAGGAGATTTTATCGTTGACTTATAACTCTCATCTTTTGAATTGAATAAAATGTCGTTG
1 CACAAGGAGATTTTATCGTTGACTTATAACTCTCATCTTTTGAATTGAATAAAATGTCGTTG
149550 CACAAGGAGATTTTATCGTTGACTTATAACTCTCATCTTTTGAATTGAATAAAATGTCGTTG
1 CACAAGGAGATTTTATCGTTGACTTATAACTCTCATCTTTTGAATTGAATAAAATGTCGTTG
149612 TTCGATATAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.39
Consensus pattern (62 bp):
CACAAGGAGATTTTATCGTTGACTTATAACTCTCATCTTTTGAATTGAATAAAATGTCGTTG
Found at i:153873 original size:22 final size:22
Alignment explanation
Indices: 153848--153895 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
153838 GCTTTGCAGG
153848 ATTCGAGTTGCGAAATTGGCGA
1 ATTCGAGTTGCGAAATTGGCGA
*
153870 ATTCGAGTTGTGAAATTGGCGA
1 ATTCGAGTTGCGAAATTGGCGA
153892 ATTC
1 ATTC
153896 AATTTTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.31
Consensus pattern (22 bp):
ATTCGAGTTGCGAAATTGGCGA
Found at i:153982 original size:22 final size:21
Alignment explanation
Indices: 153946--154043 Score: 87
Period size: 20 Copynumber: 4.8 Consensus size: 21
153936 GCGAAATCAG
* *
153946 AATTCGAGTTACGAATTTGGTA
1 AATTCGTGTTGCGAATTTGG-A
*
153968 AATTCGTGTTGCGAATTTAGA
1 AATTCGTGTTGCGAATTTGGA
* * *
153989 AACT-GTGTAGCGAAATTGG-
1 AATTCGTGTTGCGAATTTGGA
*
154008 AGTTCGTGTTGCGAATTT-GA
1 AATTCGTGTTGCGAATTTGGA
*
154028 AA-TCGCGTTGCGAATT
1 AATTCGTGTTGCGAATT
154044 CGTTGGTAAT
Statistics
Matches: 61, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
19 16 0.26
20 24 0.39
21 4 0.07
22 17 0.28
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.35
Consensus pattern (21 bp):
AATTCGTGTTGCGAATTTGGA
Found at i:154775 original size:21 final size:22
Alignment explanation
Indices: 154742--154786 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
154732 TATTATGTCA
154742 AAAAATTA-ATTTTAATTGATGT
1 AAAAATTATATTTTAATTGA-GT
*
154764 AAAAA-TATTTTTTAATTGAGT
1 AAAAATTATATTTTAATTGAGT
154785 AA
1 AA
154787 GATTCAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (22 bp):
AAAAATTATATTTTAATTGAGT
Found at i:168556 original size:11 final size:11
Alignment explanation
Indices: 168540--168592 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
168530 AATTTCCAAT
168540 GAAATCTTCAA
1 GAAATCTTCAA
* *
168551 GAAATCCTCTAG
1 GAAATCTTC-AA
*
168563 GAAAGCTATCAA
1 GAAATCT-TCAA
168575 TGAAATCTTCAA
1 -GAAATCTTCAA
168587 GAAATC
1 GAAATC
168593 CCCTAAGAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
11 14 0.42
12 11 0.33
13 8 0.24
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (11 bp):
GAAATCTTCAA
Found at i:168583 original size:36 final size:36
Alignment explanation
Indices: 168536--168611 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
168526 TTTCAATTTC
* *
168536 CAATGAAATCTTCAAGAAATCCTCTAGGAAAGCTAT
1 CAATGAAATCTTCAAGAAATCCCCTAAGAAAGCTAT
168572 CAATGAAATCTTCAAGAAATCCCCTAAGAAAGCTAT
1 CAATGAAATCTTCAAGAAATCCCCTAAGAAAGCTAT
168608 CAAT
1 CAAT
168612 TAAAACAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.43, C:0.21, G:0.12, T:0.24
Consensus pattern (36 bp):
CAATGAAATCTTCAAGAAATCCCCTAAGAAAGCTAT
Found at i:174366 original size:19 final size:20
Alignment explanation
Indices: 174342--174380 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
174332 TACACATCAC
*
174342 TTTAAAA-ATATTAATATCT
1 TTTAAAAGAAATTAATATCT
174361 TTTAAAAGAAATTAATATCT
1 TTTAAAAGAAATTAATATCT
174381 CAAAATTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (20 bp):
TTTAAAAGAAATTAATATCT
Found at i:177135 original size:15 final size:15
Alignment explanation
Indices: 177115--177143 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
177105 CTCATGGAGG
177115 TGCATCAACATGTTA
1 TGCATCAACATGTTA
177130 TGCATCAACATGTT
1 TGCATCAACATGTT
177144 GATAATCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (15 bp):
TGCATCAACATGTTA
Found at i:189071 original size:29 final size:29
Alignment explanation
Indices: 188995--189073 Score: 88
Period size: 28 Copynumber: 2.7 Consensus size: 29
188985 ATTTAAACAT
* *
188995 AATAAAATTTATGTACTAAAACGGAACAAA
1 AATAATATTTAAGTACT-AAACGGAACAAA
* *
189025 AATAATAATTAAATACTAAA-GGAACAAA
1 AATAATATTTAAGTACTAAACGGAACAAA
*
189053 AATAATAGTTTAGGTACTAAA
1 AATAATA-TTTAAGTACTAAA
189074 TGCGTAATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
28 15 0.37
29 13 0.32
30 13 0.32
ACGTcount: A:0.57, C:0.08, G:0.10, T:0.25
Consensus pattern (29 bp):
AATAATATTTAAGTACTAAACGGAACAAA
Found at i:196049 original size:17 final size:17
Alignment explanation
Indices: 196027--196061 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
196017 GATAAGGCAA
196027 CCAATA-AAACCAAAAAT
1 CCAATAGAAA-CAAAAAT
196044 CCAATAGAAACAAAAAT
1 CCAATAGAAACAAAAAT
196061 C
1 C
196062 TTAACATCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.63, C:0.23, G:0.03, T:0.11
Consensus pattern (17 bp):
CCAATAGAAACAAAAAT
Found at i:196783 original size:21 final size:21
Alignment explanation
Indices: 196666--196783 Score: 80
Period size: 21 Copynumber: 5.7 Consensus size: 21
196656 ACGCGAAATA
**
196666 AAAATCGCAACGCGA-TCCCC
1 AAAATCGCAACGCGATTTTCC
* ** *
196686 AGAATCGCAAATC-AGTTTCC
1 AAAATCGCAACGCGATTTTCC
*
196706 AAAATCGCAACGCGATTCTT-T
1 AAAATCGCAACGCGATT-TTCC
* ** *
196727 AAAATCGCAATGCGATAGTAC
1 AAAATCGCAACGCGATTTTCC
* **
196748 AAATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTTCC
196769 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
196784 ATATGAAATC
Statistics
Matches: 72, Mismatches: 22, Indels: 7
0.71 0.22 0.07
Matches are distributed among these distances:
19 1 0.01
20 24 0.33
21 45 0.62
22 2 0.03
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (21 bp):
AAAATCGCAACGCGATTTTCC
Found at i:196814 original size:18 final size:19
Alignment explanation
Indices: 196770--196819 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
196760 CGATTTTCCA
* *
196770 AAATCGCAACGCGAATATG
1 AAATCGCAACGCGAACATC
196789 AAATCGCAACGCGAACA-C
1 AAATCGCAACGCGAACATC
*
196807 ATATCGCAACGCG
1 AAATCGCAACGCG
196820 TATCCGGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.40, C:0.28, G:0.20, T:0.12
Consensus pattern (19 bp):
AAATCGCAACGCGAACATC
Found at i:196834 original size:20 final size:20
Alignment explanation
Indices: 196809--197031 Score: 201
Period size: 20 Copynumber: 11.4 Consensus size: 20
196799 GCGAACACAT
*
196809 ATCGCAACGCGTATCCGGAA
1 ATCGCAACGCGTATCCGTAA
* *
196829 ATCGCAACGTGTATCCGTAT
1 ATCGCAACGCGTATCCGTAA
196849 ATCGCAACGCGTATCC-T-A
1 ATCGCAACGCGTATCCGTAA
* *
196867 ATCGCAA-TCGTATCCGTAT
1 ATCGCAACGCGTATCCGTAA
196886 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
*
196906 ATCGC-ACG-ATAATCCGTAA
1 ATCGCAACGCGT-ATCCGTAA
* * *
196925 ATCGCAACGAGAATCTGTAA
1 ATCGCAACGCGTATCCGTAA
*
196945 ATCGCAACG-ATAATCCGTAA
1 ATCGCAACGCGT-ATCCGTAA
* * *
196965 ATCGCAACGAGAATCTGTAA
1 ATCGCAACGCGTATCCGTAA
*
196985 ATCGCAACG-ATAATCCGT-A
1 ATCGCAACGCGT-ATCCGTAA
* * *
197004 ATCGCAACGAGAATCTGTAA
1 ATCGCAACGCGTATCCGTAA
*
197024 ATCACAAC
1 ATCGCAAC
197032 ATGAAATTTT
Statistics
Matches: 166, Mismatches: 26, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
17 7 0.04
18 9 0.05
19 39 0.23
20 111 0.67
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGTATCCGTAA
Found at i:196921 original size:39 final size:40
Alignment explanation
Indices: 196807--197031 Score: 257
Period size: 40 Copynumber: 5.8 Consensus size: 40
196797 ACGCGAACAC
* * * *
196807 ATATCGCAACGCGTATCCGGAAATCGCAACG-TGTATCCGT
1 ATATCGCAACGAGAATCCGTAAATCGCAACGAT-AATCCGT
* *
196847 ATATCGCAACGCGTATCC-T-AATCGCAATCG-T-ATCCGT
1 ATATCGCAACGAGAATCCGTAAATCGCAA-CGATAATCCGT
* *
196884 ATATCGCAACGCGTATCCGTAAATCGC-ACGATAATCCGT
1 ATATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* *
196923 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 ATATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* *
196963 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 ATATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* *
197003 A-ATCGCAACGAGAATCTGTAAATCACAAC
1 ATATCGCAACGAGAATCCGTAAATCGCAAC
197032 ATGAAATTTT
Statistics
Matches: 173, Mismatches: 6, Indels: 13
0.90 0.03 0.07
Matches are distributed among these distances:
37 26 0.15
38 11 0.06
39 65 0.38
40 71 0.41
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.22
Consensus pattern (40 bp):
ATATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
Found at i:200115 original size:19 final size:19
Alignment explanation
Indices: 200046--200334 Score: 525
Period size: 19 Copynumber: 15.4 Consensus size: 19
200036 GCAACGAGAG
200046 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
200065 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
200079 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
200099 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
200118 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
200137 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
200156 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
200175 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
200194 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
200213 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
200232 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
200251 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
200270 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
200289 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
200308 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
200327 AATCGCAA
1 AATCGCAA
200335 CGAGAGAATC
Statistics
Matches: 262, Mismatches: 2, Indels: 12
0.95 0.01 0.04
Matches are distributed among these distances:
14 12 0.05
16 1 0.00
17 1 0.00
19 232 0.89
20 16 0.06
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:200402 original size:19 final size:19
Alignment explanation
Indices: 200362--200459 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
200352 GATTCTCCCG
200362 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
200382 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
200401 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
200415 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
200434 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
200453 TTGCGAT
1 TTGCGAT
200460 AGTCAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:200456 original size:52 final size:53
Alignment explanation
Indices: 200343--200459 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
200333 AACGAGAGAA
200343 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
*
200396 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
200448 TCGCATTGCGAT
1 TCGCATTGCGAT
200460 AGTCAATTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 30 0.48
53 33 0.52
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:200581 original size:14 final size:14
Alignment explanation
Indices: 200562--200598 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
200552 CATCAATTAC
200562 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
200576 ACAAATCATCTTTT
1 ACAAATCAACTTTT
200590 ACAAATCAA
1 ACAAATCAA
200599 TTAAACAATC
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:202589 original size:14 final size:14
Alignment explanation
Indices: 202570--202626 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
202560 GCGAAATGAA
*
202570 AATCGCAACGACAG
1 AATCGCAACGAAAG
202584 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
202601 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
202617 AATCGCAACG
1 AATCGCAACG
202627 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:202597 original size:33 final size:33
Alignment explanation
Indices: 202551--202643 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
202541 GCGAAACCAA
*
202551 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
202584 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
202617 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
202644 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:202608 original size:19 final size:19
Alignment explanation
Indices: 202514--202648 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
202504 TAGTTTACTT
* *
202514 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
* **
202534 TCACAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
202553 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
202572 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
202586 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
202605 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
202619 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
202638 TCGCAATGCGA
1 TCGCAACGCGA
202649 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 16 0.17
16 11 0.12
17 11 0.12
19 46 0.48
20 11 0.12
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:202666 original size:19 final size:19
Alignment explanation
Indices: 202644--202772 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
202634 AAAATCGCAA
202644 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
202663 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
202677 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
202696 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
202710 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
202729 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
202748 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
202768 TGCGA
1 TGCGA
202773 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:202686 original size:33 final size:33
Alignment explanation
Indices: 202644--202735 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
202634 AAAATCGCAA
202644 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
202677 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
202710 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
202736 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:202936 original size:93 final size:93
Alignment explanation
Indices: 202820--203195 Score: 727
Period size: 93 Copynumber: 4.1 Consensus size: 93
202810 ATGGATTGCA
202820 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
202884 TAGCAGAATTGGCAGCAACCGAACACAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
202912 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
202977 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
203005 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
203070 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
203098 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
203163 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
203191 TTACT
1 TTACT
203196 AAGCAATCTA
Statistics
Matches: 281, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 4 0.01
93 277 0.99
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:204877 original size:14 final size:14
Alignment explanation
Indices: 204858--204914 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
204848 TTGAAATGAA
204858 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
204872 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
204891 AATCGCAACGAGAG
1 AATCGCAACGAGAG
204905 AATCGCAACG
1 AATCGCAACG
204915 CGAAATGAAA
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:204892 original size:33 final size:33
Alignment explanation
Indices: 204850--204931 Score: 164
Period size: 33 Copynumber: 2.5 Consensus size: 33
204840 TCTTTTGGTT
204850 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
204883 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
204916 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
204932 TGCGATTTTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.48, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:204896 original size:19 final size:19
Alignment explanation
Indices: 204872--204936 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
204862 GCAACGAGAG
204872 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
204891 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
204905 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
204924 AATCGCAATGCGA
1 AATCGCAACGCGA
204937 TTTTGGTTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 22 0.58
ACGTcount: A:0.45, C:0.22, G:0.23, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:204967 original size:14 final size:14
Alignment explanation
Indices: 204948--205004 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
204938 TTTGGTTTCG
204948 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
204962 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
204981 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
204995 CGTTGCGATT
1 CGTTGCGATT
205005 TTATTTCTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:204980 original size:33 final size:32
Alignment explanation
Indices: 204932--205011 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 32
204922 AAAATCGCAA
*
204932 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTT-ATTTCGCGTTGCGATTCTCTCGT
204965 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTT-ATTTCGCGTTGCGATTCTCTCGT
204998 TGCGATTTTATTTC
1 TGCGATTTTATTTC
205012 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 5 0.11
33 40 0.89
ACGTcount: A:0.09, C:0.21, G:0.23, T:0.47
Consensus pattern (32 bp):
TGCGATTTTATTTCGCGTTGCGATTCTCTCGT
Found at i:205014 original size:20 final size:20
Alignment explanation
Indices: 204989--205063 Score: 89
Period size: 20 Copynumber: 3.7 Consensus size: 20
204979 CGCGTTGCGA
204989 TTCTCTCGTTGCGATTTTAT
1 TTCTCTCGTTGCGATTTTAT
** *
205009 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGA-TTTTAT
205029 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTT-AT
*
205050 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
205064 CTCTTCTGCA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
19 1 0.02
20 29 0.64
21 15 0.33
ACGTcount: A:0.12, C:0.24, G:0.17, T:0.47
Consensus pattern (20 bp):
TTCTCTCGTTGCGATTTTAT
Found at i:205043 original size:40 final size:41
Alignment explanation
Indices: 204988--205064 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 41
204978 TCGCGTTGCG
*
204988 ATTCTCTCGTTGCGATTTT-ATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
205028 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
205065 TCTTCTGCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 19 0.54
41 16 0.46
ACGTcount: A:0.13, C:0.25, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:205183 original size:33 final size:33
Alignment explanation
Indices: 205141--205211 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
205131 AATACTAACT
*
205141 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
205174 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
205207 TGAAA
1 TGAAA
205212 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Done.