Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006774.1 Hibiscus syriacus cultivar Beakdansim tig00017124_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: 108281
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Found at i:3416 original size:30 final size:29
Alignment explanation
Indices: 3372--3428 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
3362 TAAATAATCC
*
3372 TAAATAATATAATAT-TAAAATTACATAAGT
1 TAAATAATAAAATATAT-AAATTA-ATAAGT
*
3402 TAAATTATAAAATATATAAATTAATAA
1 TAAATAATAAAATATATAAATTAATAA
3429 TCCTATTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 4 0.17
30 19 0.79
31 1 0.04
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (29 bp):
TAAATAATAAAATATATAAATTAATAAGT
Found at i:4592 original size:6 final size:6
Alignment explanation
Indices: 4581--4637 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
4571 CTGTAACCAG
* *
4581 AATTAT AATTATT AATTAT AATAATAT AATAAT AATAAT -ATTAT AATTAT
1 AATTAT AATTA-T AATTAT AAT--TAT AATTAT AATTAT AATTAT AATTAT
4631 AA-TAT AA
1 AATTAT AA
4638 AACGAAACTC
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
5 9 0.20
6 24 0.53
7 6 0.13
8 6 0.13
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
AATTAT
Found at i:4615 original size:14 final size:14
Alignment explanation
Indices: 4593--4637 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
4583 TTATAATTAT
*
4593 TAATTATAATAATA
1 TAATAATAATAATA
4607 TAATAATAATAATA
1 TAATAATAATAATA
* *
4621 TTATAATTATAATA
1 TAATAATAATAATA
4635 TAA
1 TAA
4638 AACGAAACTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TAATAATAATAATA
Found at i:4893 original size:76 final size:76
Alignment explanation
Indices: 4806--5012 Score: 225
Period size: 76 Copynumber: 2.8 Consensus size: 76
4796 GATTTGTTCC
* *
4806 TACTTCACAACTCTTCTGTGAAGGCT-GAATTTGTAT-CGTTTCACTACTCTTTCATGAAGGTTG
1 TACTTCACAACTCTTCTGTGAAGGCTAGAATTTCTATAC--TTCACTACTCTTCCATGAAGGTTG
4869 GATTACATTGCTT
64 GATTACATTGCTT
* * * * *
4882 TACTTCACAACTCTTTTGTGAAGGTTAGATTTTCTTTACTTCACTATTCTTCCATGAAGGTTGGA
1 TACTTCACAACTCTTCTGTGAAGGCTAGAATTTCTATACTTCACTACTCTTCCATGAAGGTTGGA
4947 TTACATTG---
66 TTACATTGCTT
* * *
4955 --CTTCACTACTCTTCTGTGAAGGCTAAGAATGAT-T-TACTTCACTACTCTTCCGTGAAGG
1 TACTTCACAACTCTTCTGTGAAGGCT-AGAAT-TTCTATACTTCACTACTCTTCCATGAAGG
5013 CTAGATCCAA
Statistics
Matches: 113, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
71 43 0.38
72 5 0.04
73 1 0.01
76 56 0.50
77 7 0.06
78 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.40
Consensus pattern (76 bp):
TACTTCACAACTCTTCTGTGAAGGCTAGAATTTCTATACTTCACTACTCTTCCATGAAGGTTGGA
TTACATTGCTT
Found at i:4895 original size:40 final size:40
Alignment explanation
Indices: 4845--4957 Score: 144
Period size: 36 Copynumber: 2.9 Consensus size: 40
4835 TTTGTATCGT
4845 TTCACTACTCTTTCATGAAGGTTGGATTACATTGCTTTAC
1 TTCACTACTCTTTCATGAAGGTTGGATTACATTGCTTTAC
* ** *
4885 TTCACAACTCTTTTGTGAAGGTTAGATT---TT-CTTTAC
1 TTCACTACTCTTTCATGAAGGTTGGATTACATTGCTTTAC
* *
4921 TTCACTATTCTTCCATGAAGGTTGGATTACATTGCTT
1 TTCACTACTCTTTCATGAAGGTTGGATTACATTGCTT
4958 CACTACTCTT
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
36 28 0.47
37 2 0.03
39 2 0.03
40 27 0.46
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (40 bp):
TTCACTACTCTTTCATGAAGGTTGGATTACATTGCTTTAC
Found at i:4940 original size:36 final size:36
Alignment explanation
Indices: 4845--5018 Score: 127
Period size: 36 Copynumber: 4.8 Consensus size: 36
4835 TTTGTATCGT
* * *
4845 TTCACTACTCTTTCATGAAGGTTGGATTACATTGCTTTAC
1 TTCACTACTCTTCCGTGAAGGTTAGATT---TT-CTTTAC
* **
4885 TTCACAACTCTTTTGTGAAGGTTAGATTTTCTTTAC
1 TTCACTACTCTTCCGTGAAGGTTAGATTTTCTTTAC
* * * * * *
4921 TTCACTATTCTTCCATGAAGGTTGGA-TTACATTGC
1 TTCACTACTCTTCCGTGAAGGTTAGATTTTCTTTAC
* * * **
4956 TTCACTACTCTTCTGTGAAGGCTAAGA-ATGATTTAC
1 TTCACTACTCTTCCGTGAAGG-TTAGATTTTCTTTAC
*
4992 TTCACTACTCTTCCGTGAAGGCTAGAT
1 TTCACTACTCTTCCGTGAAGGTTAGAT
5019 CCAAGGTTGG
Statistics
Matches: 106, Mismatches: 26, Indels: 8
0.76 0.19 0.06
Matches are distributed among these distances:
35 27 0.25
36 53 0.50
37 2 0.02
40 24 0.23
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (36 bp):
TTCACTACTCTTCCGTGAAGGTTAGATTTTCTTTAC
Found at i:19172 original size:2 final size:2
Alignment explanation
Indices: 19167--19206 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
19157 GATTTAAAAA
19167 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19207 TTGTTTTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20183 original size:27 final size:27
Alignment explanation
Indices: 20144--20207 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
20134 TTTAAAGTTT
*
20144 TCGAGTTCAAGTTGAACTCAGCAGTAC
1 TCGAGTTCGAGTTGAACTCAGCAGTAC
20171 TCGAGTTCGAGTTGAACTCAGCAGTAC
1 TCGAGTTCGAGTTGAACTCAGCAGTAC
20198 TCGAGTTCGA
1 TCGAGTTCGA
20208 CTCGGCTCGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (27 bp):
TCGAGTTCGAGTTGAACTCAGCAGTAC
Found at i:22262 original size:21 final size:21
Alignment explanation
Indices: 22237--22277 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
22227 GTCCTACTGC
22237 GAAGGTACTCCACGAACTGGA
1 GAAGGTACTCCACGAACTGGA
22258 GAAGGTACTCCACGAACTGG
1 GAAGGTACTCCACGAACTGG
22278 CCAAGCTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.24, G:0.29, T:0.15
Consensus pattern (21 bp):
GAAGGTACTCCACGAACTGGA
Found at i:22287 original size:21 final size:21
Alignment explanation
Indices: 22242--22287 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
22232 ACTGCGAAGG
* *
22242 TACTCCACGAACTGGAGAAGG
1 TACTCCACGAACTGGACAAGC
*
22263 TACTCCACGAACTGGCCAAGC
1 TACTCCACGAACTGGACAAGC
22284 TACT
1 TACT
22288 AACCTGCCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.17
Consensus pattern (21 bp):
TACTCCACGAACTGGACAAGC
Found at i:37423 original size:52 final size:53
Alignment explanation
Indices: 37348--37906 Score: 501
Period size: 51 Copynumber: 10.5 Consensus size: 53
37338 TCACTTCCTC
* * *
37348 TTTCTTCA-GGAGTAGAAATCGAACATTCTTCTT-CTACGGG-CTCGCTCTCCT-
1 TTTCTTCAGGGAGTAGAACTCGAACAATCATCTTCCTACGGGTC-CGCTCT-CTA
*
37399 TTTCTTCAGGGAGTAGAACTCGAACAATCATCTTCCTACGGGTCTGCTCTC--
1 TTTCTTCAGGGAGTAGAACTCGAACAATCATCTTCCTACGGGTCCGCTCTCTA
* * *
37450 TTCCTTCAAGGAGTAGAACCTCGAACAATCATCTTCCTACGGG-CCGCTCTCTC
1 TTTCTTCAGGGAGTAGAA-CTCGAACAATCATCTTCCTACGGGTCCGCTCTCTA
* *
37503 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTACTACGGGTCCGCTCTCTA
1 TTTCTTCAGGGAGTAGAACTCGAACAATCATCTTCCTACGGGTCCGCTCTCTA
* *
37556 TTTCTTCAGGGAGTAGAACTC-AAC-ATAATCTTCCTACGGGTCCGCTCTCTT
1 TTTCTTCAGGGAGTAGAACTCGAACAATCATCTTCCTACGGGTCCGCTCTCTA
* *
37607 TTTCTTCAAGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
1 TTTCTTCAGGGAGT-AGAACTCGAACAATCATCTTCCTACGGGTCCGCTCTCTA
* * * *
37661 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTTCTACGGGAATCTTCCAACGGGTCCGCTCTC
1 TTTCTTCAGGGAGTAGAACTCGAACAATCATCTTCCTACGGG-----T-C--C--G--CTCTCTA
*** * * * **
37726 TTT-TTC-TTCAG--GGAGTAGAACTCGAA-CAATAATCTCTACGGG-CTCGCTCTCTA
1 TTTCTTCAGGGAGTAGAACTCGAA--C-AATC-ATCTTC-CTACGGGTC-CGCTCTCTA
* *
37779 TTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTAC-GGTCCAC-C-CTA
1 TTTCTTCAGGGAGT-AGAACTCGAACAATCATCTTCCTACGGGTCCGCTCTCTA
*
37830 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGC-C-CTA
1 TTTCTTCAGGGAGTAGAACTCGAACAATCATCTTCCTACGGGTCCGCTCTCTA
* *
37881 TCTCTTCAGGGAGTAGAACTCTAACA
1 TTTCTTCAGGGAGTAGAACTCGAACA
37907 TCTTTGTTGC
Statistics
Matches: 427, Mismatches: 46, Indels: 70
0.79 0.08 0.13
Matches are distributed among these distances:
50 25 0.06
51 120 0.28
52 80 0.19
53 100 0.23
54 48 0.11
55 9 0.02
56 1 0.00
57 1 0.00
58 8 0.02
59 1 0.00
61 7 0.02
63 4 0.01
64 8 0.02
65 15 0.04
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (53 bp):
TTTCTTCAGGGAGTAGAACTCGAACAATCATCTTCCTACGGGTCCGCTCTCTA
Found at i:37474 original size:104 final size:103
Alignment explanation
Indices: 37348--37686 Score: 447
Period size: 104 Copynumber: 3.3 Consensus size: 103
37338 TCACTTCCTC
*
37348 TTTCTTCA-GGAGTAGAAATCGAACATTCTTCTTCTACGGGCTCGCTCTCCTTTTCTTCAGGGAG
1 TTTCTTCAGGGAGTAGAACTCGAACATTCTTCTTCTACGGG-TCGCTCTCCTTTTCTTCAGGGAG
* *
37412 TAGAACTCGAACAATCATCTTCCTACGGGTCTGCTCTC-
65 TAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCA
* * * * *
37450 TTCCTTCAAGGAGTAGAACCTCGAACAATCATCTTCCTACGGGCCGCTCT-CTCTTTCTTCAGGG
1 TTTCTTCAGGGAGTAGAA-CTCGAACATTCTTCTT-CTACGGGTCGCTCTCCT-TTTCTTCAGGG
*
37514 AGTAGAACTCGAACAATAATCTTACTACGGGTCCGCTCTCTA
63 AGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTC-A
* *
37556 TTTCTTCAGGGAGTAGAACTC-AACATAATCTTC--CTACGGGTCCGCTCTCTTTTTCTTCAAGG
1 TTTCTTCAGGGAGTAGAACTCGAACAT--TCTTCTTCTACGGGT-CGCTCTCCTTTTCTTCAGGG
37618 AGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
63 AGT-AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTC-A
37661 TTTCTTCAGGGAGTAGAACTCGAACA
1 TTTCTTCAGGGAGTAGAACTCGAACA
37687 ATAATCTTTC
Statistics
Matches: 209, Mismatches: 16, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
102 7 0.03
103 18 0.09
104 90 0.43
105 70 0.33
106 24 0.11
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (103 bp):
TTTCTTCAGGGAGTAGAACTCGAACATTCTTCTTCTACGGGTCGCTCTCCTTTTCTTCAGGGAGT
AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCA
Found at i:37744 original size:67 final size:65
Alignment explanation
Indices: 37636--37767 Score: 228
Period size: 67 Copynumber: 2.0 Consensus size: 65
37626 CTCGAACAAT
*
37636 AATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTTCTACG
1 AATCTTCCAACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATC--TCTACG
37701 GG
64 GG
*
37703 AATCTTCCAACGGGTCCGCTCTCTTTTTCTTCAGGGAGTAGAACTCGAACAATAATCTCTACGGG
1 AATCTTCCAACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTCTACGGG
37768 CTCGCTCTCT
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
65 8 0.13
67 55 0.87
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (65 bp):
AATCTTCCAACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTCTACGGG
Found at i:39215 original size:9 final size:9
Alignment explanation
Indices: 39212--39283 Score: 80
Period size: 9 Copynumber: 8.4 Consensus size: 9
39202 TTTTTTTTCA
39212 TTTTCATTT
1 TTTTCATTT
*
39221 TTTTTATTT
1 TTTTCATTT
*
39230 TTTTTATTT
1 TTTTCATTT
39239 TTTTCATTT
1 TTTTCATTT
39248 TTTTCA-TT
1 TTTTCATTT
*
39256 TTTT-ATAT
1 TTTTCATTT
*
39264 TTTTCA--C
1 TTTTCATTT
39271 TTTTCATTT
1 TTTTCATTT
39280 TTTT
1 TTTT
39284 TTCATCTTCA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
7 7 0.13
8 11 0.20
9 36 0.67
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTCATTT
Found at i:39223 original size:18 final size:17
Alignment explanation
Indices: 39200--39259 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
39190 TGTTTTTGTT
39200 TTTTTTTTTTCATTTTCA
1 TTTTTTTTTT-ATTTTCA
* *
39218 TTTTTTTTATTTTTTTTA
1 TTTTTTTT-TTATTTTCA
39236 TTTTTTTCATTT-TTTTCA
1 TTTTTTT--TTTATTTTCA
39254 TTTTTT
1 TTTTTT
39260 ATATTTTTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 31 0.86
19 4 0.11
20 1 0.03
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTTTTTTATTTTCA
Found at i:39223 original size:27 final size:26
Alignment explanation
Indices: 39192--39285 Score: 91
Period size: 27 Copynumber: 3.3 Consensus size: 26
39182 TATTTGTTTG
*
39192 TTTTTGTTTTTTTTTTTTCATTTTCA
1 TTTTTTTTTTTTTTTTTTCATTTTCA
*
39218 TTTTTTTTATTTTTTTTATT-TTTTTCA
1 TTTTTTTT-TTTTTTTT-TTCATTTTCA
39245 TTTTTTTCATTTTTTATATTTTTCACTTTTCA
1 -TTTTTT--TTTTTT-T-TTTTTCA-TTTTCA
39277 TTTTTTTTT
1 TTTTTTTTT
39286 CATCTTCAAG
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
26 7 0.12
27 14 0.25
28 8 0.14
29 7 0.12
30 5 0.09
31 9 0.16
32 6 0.11
ACGTcount: A:0.11, C:0.07, G:0.01, T:0.81
Consensus pattern (26 bp):
TTTTTTTTTTTTTTTTTTCATTTTCA
Found at i:39240 original size:25 final size:25
Alignment explanation
Indices: 39192--39274 Score: 87
Period size: 25 Copynumber: 3.2 Consensus size: 25
39182 TATTTGTTTG
*
39192 TTTTTGTTTTTTTTTTTTCA-TTTTCA
1 TTTTT-TTTATTTTTTTT-ATTTTTCA
39218 TTTTTTTTATTTTTTTTATTTTTTTCA
1 TTTTTTTTATTTTTTTTA--TTTTTCA
* *
39245 TTTTTTTCATTTTTTATATTTTTCA
1 TTTTTTTTATTTTTTTTATTTTTCA
*
39270 CTTTT
1 TTTTT
39275 CATTTTTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
24 1 0.02
25 22 0.44
26 5 0.10
27 22 0.44
ACGTcount: A:0.11, C:0.07, G:0.01, T:0.81
Consensus pattern (25 bp):
TTTTTTTTATTTTTTTTATTTTTCA
Found at i:50408 original size:34 final size:32
Alignment explanation
Indices: 50366--50438 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 32
50356 GTACAAAAAG
*
50366 AAAGAAAAGATA-AAAAG-AAGAAGAAAATTCAGAA
1 AAAGAAAAGA-AGAAAAGAAAAAAG-AAATTC--AA
50400 AAAGAAAAGAAGAAAAGAAAAAAGAAATTCAA
1 AAAGAAAAGAAGAAAAGAAAAAAGAAATTCAA
50432 AAAGAAA
1 AAAGAAA
50439 GCAAGCCAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
32 9 0.25
33 1 0.03
34 21 0.58
35 5 0.14
ACGTcount: A:0.74, C:0.03, G:0.16, T:0.07
Consensus pattern (32 bp):
AAAGAAAAGAAGAAAAGAAAAAAGAAATTCAA
Found at i:50421 original size:20 final size:21
Alignment explanation
Indices: 50361--50426 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 21
50351 TTGGAGTACA
*
50361 AAAAGAAAGAAAAGATAAAAAG
1 AAAAG-AAGAAAAGAGAAAAAG
*
50383 --AAGAAGAAAATTCAGAAAAAG
1 AAAAGAAGAAAA--GAGAAAAAG
50404 AAAAGAAGAAAAGA-AAAAAG
1 AAAAGAAGAAAAGAGAAAAAG
50424 AAA
1 AAA
50427 TTCAAAAAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
19 7 0.19
20 12 0.32
21 8 0.22
23 10 0.27
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.05
Consensus pattern (21 bp):
AAAAGAAGAAAAGAGAAAAAG
Found at i:50548 original size:29 final size:29
Alignment explanation
Indices: 50506--50563 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
50496 AAGAGAATAT
50506 AACCTTATTGTTTCTTGAGAAAGGTTGTA
1 AACCTTATTGTTTCTTGAGAAAGGTTGTA
50535 AACCTTATTGTTTCTTGAGAAAGGTTGTA
1 AACCTTATTGTTTCTTGAGAAAGGTTGTA
50564 GTAAGTGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (29 bp):
AACCTTATTGTTTCTTGAGAAAGGTTGTA
Found at i:50574 original size:29 final size:28
Alignment explanation
Indices: 50511--50580 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 28
50501 AATATAACCT
*
50511 TATTGTTTCTTGAGAAAGGTTGTAAACCT
1 TATTGTTTCTTGAGAAAGGTTGTAAA-CG
50540 TATTGTTTCTTGAGAAAGGTTGTAGTAA-G
1 TATTGTTTCTTGAGAAAGGTTGTA--AACG
*
50569 TGTTGTTTCTTG
1 TATTGTTTCTTG
50581 GATTGTAAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
29 35 0.95
31 2 0.05
ACGTcount: A:0.23, C:0.07, G:0.24, T:0.46
Consensus pattern (28 bp):
TATTGTTTCTTGAGAAAGGTTGTAAACG
Found at i:54175 original size:19 final size:20
Alignment explanation
Indices: 54155--54190 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 20
54145 CTTTATTTAT
54155 TTTATTTT-ATT-CTTATTA
1 TTTATTTTCATTACTTATTA
54173 TTTATTTTCATTACTTAT
1 TTTATTTTCATTACTTAT
54191 ATTATTATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.50
19 3 0.19
20 5 0.31
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTATTTTCATTACTTATTA
Found at i:54185 original size:13 final size:12
Alignment explanation
Indices: 54147--54198 Score: 54
Period size: 13 Copynumber: 4.3 Consensus size: 12
54137 TCTCTATCCT
54147 TTATTTATTTTA
1 TTATTTATTTTA
54159 -T-TTTATTCTTA
1 TTATTTATT-TTA
54170 TTATTTATTTTCA
1 TTATTTATTTT-A
* *
54183 TTACTTATATTA
1 TTATTTATTTTA
54195 TTAT
1 TTAT
54199 CCACTTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
10 6 0.18
11 4 0.12
12 7 0.21
13 16 0.48
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (12 bp):
TTATTTATTTTA
Found at i:54193 original size:19 final size:17
Alignment explanation
Indices: 54151--54193 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
54141 TATCCTTTAT
54151 TTAT-TTTATTTTATTC
1 TTATATTTATTTTATTC
54167 TTATTATTTATTTTCATTAC
1 TTA-TATTTATTTT-ATT-C
54187 TTATATT
1 TTATATT
54194 ATTATCCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 3 0.13
17 1 0.04
18 8 0.35
19 7 0.30
20 4 0.17
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (17 bp):
TTATATTTATTTTATTC
Found at i:58050 original size:2 final size:2
Alignment explanation
Indices: 58043--58085 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
58033 TCGACTTAAT
58043 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
58085 T
1 T
58086 TATTTATGGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:63947 original size:14 final size:14
Alignment explanation
Indices: 63928--63954 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
63918 GTCGAGATTT
63928 TTTTTTTCTTTTTC
1 TTTTTTTCTTTTTC
63942 TTTTTTTCTTTTT
1 TTTTTTTCTTTTT
63955 GAAAGGCGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTTTCTTTTTC
Found at i:64294 original size:34 final size:34
Alignment explanation
Indices: 64253--64352 Score: 114
Period size: 34 Copynumber: 3.3 Consensus size: 34
64243 TTTAAAATAA
64253 TATATTTTATAATAATATATTTATAATTATTTAT
1 TATATTTTATAATAATATATTTATAATTATTTAT
*
64287 TATA-TTT-T-A-AA-CTA-TTA-AATTA---A-
1 TATATTTTATAATAATATATTTATAATTATTTAT
64310 TATATTTTATAATAATATATTTATAATTATTTAT
1 TATATTTTATAATAATATATTTATAATTATTTAT
64344 TATATTTTA
1 TATATTTTA
64353 AACTATTAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 22
0.69 0.03 0.29
Matches are distributed among these distances:
23 4 0.08
24 4 0.08
25 1 0.02
26 1 0.02
27 7 0.13
28 5 0.09
29 5 0.09
30 7 0.13
31 1 0.02
32 1 0.02
33 4 0.08
34 13 0.25
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (34 bp):
TATATTTTATAATAATATATTTATAATTATTTAT
Found at i:64318 original size:57 final size:57
Alignment explanation
Indices: 64244--64439 Score: 356
Period size: 57 Copynumber: 3.4 Consensus size: 57
64234 TATTAATATT
64244 TTAAAATAATATATTTTATAATAATATATTTATAATTATTTATTATATTTTAAACTA
1 TTAAAATAATATATTTTATAATAATATATTTATAATTATTTATTATATTTTAAACTA
*
64301 TTAAATTAATATATTTTATAATAATATATTTATAATTATTTATTATATTTTAAACTA
1 TTAAAATAATATATTTTATAATAATATATTTATAATTATTTATTATATTTTAAACTA
* *
64358 TTAAAATATTGTATTTTATAATAATATATTTATAATTATTTATTATATTTTAAACTA
1 TTAAAATAATATATTTTATAATAATATATTTATAATTATTTATTATATTTTAAACTA
*
64415 TTAAAATAATATATTTTGTAATAAT
1 TTAAAATAATATATTTTATAATAAT
64440 TTAAATATTT
Statistics
Matches: 132, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 132 1.00
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (57 bp):
TTAAAATAATATATTTTATAATAATATATTTATAATTATTTATTATATTTTAAACTA
Found at i:64327 original size:15 final size:15
Alignment explanation
Indices: 64239--64393 Score: 87
Period size: 15 Copynumber: 10.8 Consensus size: 15
64229 GAATATATTA
*
64239 ATATTTTAAAATAAT
1 ATATTTTATAATAAT
64254 ATATTTTATAATAAT
1 ATATTTTATAATAAT
*
64269 ATA-TTTATAATTAT
1 ATATTTTATAATAAT
* * **
64283 TTATTATATTTTAA-
1 ATATTTTATAATAAT
64297 ACTA--TTA-AATTAAT
1 A-TATTTTATAA-TAAT
64311 ATATTTTATAATAAT
1 ATATTTTATAATAAT
*
64326 ATA-TTTATAATTAT
1 ATATTTTATAATAAT
* * **
64340 TTATTATATTTTAA-
1 ATATTTTATAATAAT
* *
64354 ACTA--TTAAAATATT
1 A-TATTTTATAATAAT
*
64368 GTATTTTATAATAAT
1 ATATTTTATAATAAT
64383 ATA-TTTATAAT
1 ATATTTTATAAT
64394 TATTTATTAT
Statistics
Matches: 101, Mismatches: 27, Indels: 25
0.66 0.18 0.16
Matches are distributed among these distances:
13 13 0.13
14 33 0.33
15 53 0.52
16 2 0.02
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.54
Consensus pattern (15 bp):
ATATTTTATAATAAT
Found at i:64446 original size:21 final size:21
Alignment explanation
Indices: 64422--64487 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
64412 CTATTAAAAT
*
64422 AATATATTTTGTAATAATT--T
1 AATATATTTT-TAATAATTAAG
64442 AA-ATATTTTTAATAATTAAAG
1 AATATATTTTTAATAATT-AAG
*
64463 AATATA-TTTTAATAATATAAA
1 AATATATTTTTAATAAT-TAAG
64484 AATA
1 AATA
64488 AAAATTCCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
18 8 0.21
19 7 0.18
20 2 0.05
21 18 0.46
22 4 0.10
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (21 bp):
AATATATTTTTAATAATTAAG
Found at i:64448 original size:42 final size:42
Alignment explanation
Indices: 64377--64479 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 42
64367 TGTATTTTAT
* *
64377 AATAATATA-TTTATAATTATTTATTATATTTTAAACT-ATTAA
1 AATAATATATTTTATAATAATTTATAATATTTTAAA-TAATT-A
* *
64419 AATAATATATTTTGTAATAATTTA-AATATTTTTAATAATTA
1 AATAATATATTTTATAATAATTTATAATATTTTAAATAATTA
*
64460 AAGAATATATTTTAATAATA
1 AATAATATATTTT-ATAATA
64480 TAAAAATAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
41 14 0.27
42 26 0.50
43 12 0.23
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.50
Consensus pattern (42 bp):
AATAATATATTTTATAATAATTTATAATATTTTAAATAATTA
Found at i:64456 original size:18 final size:18
Alignment explanation
Indices: 64425--64483 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 18
64415 TTAAAATAAT
64425 ATATTTTGTAATAATTTAA
1 ATATTTT-TAATAATTTAA
*
64444 ATATTTTTAATAATTAAAGA
1 ATATTTTTAATAATT-TA-A
*
64464 ATATATTTTAATAATATAA
1 ATAT-TTTTAATAATTTAA
64483 A
1 A
64484 AATAAAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 8 0.24
19 10 0.29
20 6 0.18
21 10 0.29
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
ATATTTTTAATAATTTAA
Found at i:64471 original size:22 final size:21
Alignment explanation
Indices: 64442--64487 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
64432 GTAATAATTT
64442 AAATAT-TTTTAATAAT-TAA
1 AAATATATTTTAATAATATAA
64461 AGAATATATTTTAATAATATAA
1 A-AATATATTTTAATAATATAA
64483 AAATA
1 AAATA
64488 AAAATTCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.04
20 5 0.21
21 14 0.58
22 4 0.17
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
AAATATATTTTAATAATATAA
Found at i:64480 original size:114 final size:113
Alignment explanation
Indices: 64239--64480 Score: 313
Period size: 114 Copynumber: 2.1 Consensus size: 113
64229 GAATATATTA
*
64239 ATATTTTAAAATAATATATTTTATAATAATATATTTATAATTATTTATTATATTTTAAACTATTA
1 ATATTTTAAAATATTATATTTTATAATAATATATTTATAATTATTTATTATATTTTAAACTATTA
* ** * * * ***
64304 AATTAATATATTTTATAATAATATATTTATAATTATTTATTATATTTT
66 AAATAATATATTTTATAATAATATAAATATAATTAATAATTAAAGAAT
* * *
64352 AAACTATTAAAATATTGTATTTTATAATAATATATTTATAATTATTTATTATATTTTAAACTATT
1 ATA-TTTTAAAATATTATATTTTATAATAATATATTTATAATTATTTATTATATTTTAAACTATT
* * **
64417 AAAATAATATATTTTGTAATAATTTAAATATTTTTAATAATTAAAGAAT
65 AAAATAATATATTTTATAATAATATAAATATAATTAATAATTAAAGAAT
64466 ATATTTTAATAATAT
1 ATATTTTAA-AATAT
64481 AAAAATAAAA
Statistics
Matches: 108, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
113 7 0.06
114 101 0.94
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (113 bp):
ATATTTTAAAATATTATATTTTATAATAATATATTTATAATTATTTATTATATTTTAAACTATTA
AAATAATATATTTTATAATAATATAAATATAATTAATAATTAAAGAAT
Found at i:64721 original size:42 final size:42
Alignment explanation
Indices: 64666--64755 Score: 164
Period size: 42 Copynumber: 2.2 Consensus size: 42
64656 AAAAATCCCT
64666 ATAA-TTTTAAATATTATATATATGTATAAAAAGATAAAATA
1 ATAATTTTTAAATATTATATATATGTATAAAAAGATAAAATA
64707 ATAATTTTTAAATATTATATATATGTATAAAAAGATAAAATA
1 ATAATTTTTAAATATTATATATATGTATAAAAAGATAAAATA
*
64749 AAAATTT
1 ATAATTT
64756 ATAAGGGTCG
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 4 0.09
42 43 0.91
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (42 bp):
ATAATTTTTAAATATTATATATATGTATAAAAAGATAAAATA
Found at i:65031 original size:14 final size:14
Alignment explanation
Indices: 65012--65041 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
65002 TTAATTGGTT
*
65012 TTCTGGAAATTGAA
1 TTCTGGAAAATGAA
65026 TTCTGGAAAATGAA
1 TTCTGGAAAATGAA
65040 TT
1 TT
65042 ACATTTCTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (14 bp):
TTCTGGAAAATGAA
Found at i:65238 original size:31 final size:29
Alignment explanation
Indices: 65170--65239 Score: 70
Period size: 31 Copynumber: 2.2 Consensus size: 29
65160 AATATTATTT
*
65170 TTATAATTTTATTAATAAAAATATTAATAT
1 TTAT-ATTTTATTAATAAAAATATTAATAA
65200 TGGTATATTTTATTGAAATAAAAATATT-ATAAA
1 T--TATATTTTATT--AATAAAAATATTAAT-AA
65233 TTATATT
1 TTATATT
65240 AATTATTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
30 1 0.03
31 14 0.41
32 5 0.15
33 14 0.41
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (29 bp):
TTATATTTTATTAATAAAAATATTAATAA
Found at i:65451 original size:31 final size:31
Alignment explanation
Indices: 65413--65521 Score: 93
Period size: 31 Copynumber: 3.6 Consensus size: 31
65403 ATTAATAAAT
65413 AATATAAATTTATTATAATTTATATATTATTAA
1 AATAT-AATTTATTAT-ATTTATATATTATTAA
** * * *
65446 AATA-AAAATATAATATCT-TATATTATTAT
1 AATATAATTTATTATATTTATATATTATTAA
* *
65475 AATATAATTGATTAT-TTTATTATAATATTAA
1 AATATAATTTATTATATTTA-TATATTATTAA
65506 AATATAA--TATTATATT
1 AATATAATTTATTATATT
65522 ATTAGAAATA
Statistics
Matches: 59, Mismatches: 13, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
29 21 0.36
30 11 0.19
31 23 0.39
33 4 0.07
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (31 bp):
AATATAATTTATTATATTTATATATTATTAA
Found at i:65518 original size:21 final size:23
Alignment explanation
Indices: 65492--65537 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
65482 TTGATTATTT
65492 TATTATAATATTA-AAATA-TAA
1 TATTATAATATTAGAAATATTAA
*
65513 TATTATATTATTAGAAATATTAA
1 TATTATAATATTAGAAATATTAA
65536 TA
1 TA
65538 AATATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.55
22 5 0.23
23 5 0.23
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
TATTATAATATTAGAAATATTAA
Found at i:65544 original size:29 final size:29
Alignment explanation
Indices: 65485--65545 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
65475 AATATAATTG
* * *
65485 ATTATTTTATTATAATATTAAAATATAAT
1 ATTATATTATTAAAATATTAAAAAATAAT
*
65514 ATTATATTATTAGAAATATTAATAAAT-AT
1 ATTATATTATTA-AAATATTAAAAAATAAT
65543 ATT
1 ATT
65546 TTAAATATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (29 bp):
ATTATATTATTAAAATATTAAAAAATAAT
Found at i:65545 original size:21 final size:21
Alignment explanation
Indices: 65499--65554 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 21
65489 TTTTATTATA
*
65499 ATATTAAAATA-TAATATTAT
1 ATATTAAAATATTAATATAAT
65519 ATTATTAGAAATATTAATA-AAT
1 A-TATTA-AAATATTAATATAAT
*
65541 ATATTTTAAATATT
1 ATA-TTAAAATATT
65555 TTTCGAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
20 1 0.03
21 14 0.47
22 10 0.33
23 5 0.17
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
ATATTAAAATATTAATATAAT
Found at i:67221 original size:30 final size:30
Alignment explanation
Indices: 67164--67221 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
67154 CCATCAATTT
*
67164 TTTAATTTTATCAATCAGACCACCTAACTA
1 TTTAATTTTATCAATAAGACCACCTAACTA
67194 TTTAATTATTATCAATTAAG-CCA-CTAAC
1 TTTAATT-TTATCAA-TAAGACCACCTAAC
67222 AGTTAAGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 12 0.48
31 10 0.40
32 3 0.12
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (30 bp):
TTTAATTTTATCAATAAGACCACCTAACTA
Found at i:67465 original size:16 final size:17
Alignment explanation
Indices: 67431--67470 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
67421 TGACTGATAG
67431 ATTTTTTTATTAATTTTA
1 ATTTTTTTATTAA-TTTA
67449 ATTTTTTTATTAA-TTA
1 ATTTTTTTATTAATTTA
67465 ATTTTT
1 ATTTTT
67471 CTATCCAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 9 0.41
18 13 0.59
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTTTTATTAATTTA
Found at i:68028 original size:19 final size:20
Alignment explanation
Indices: 68004--68053 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
67994 GATAAATTTA
*
68004 TTAATAATTTTATAA-TCTT
1 TTAATAATTTTATAAGTATT
*
68023 TTAATAAATTTAATAAGTATT
1 TTAAT-AATTTTATAAGTATT
68044 TT-ATAATTTT
1 TTAATAATTTT
68054 TTAAATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.38
20 11 0.42
21 5 0.19
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TTAATAATTTTATAAGTATT
Found at i:68049 original size:11 final size:10
Alignment explanation
Indices: 67973--68064 Score: 52
Period size: 11 Copynumber: 9.2 Consensus size: 10
67963 CGATAATATA
67973 ATAATTATTTT
1 ATAA-TATTTT
* *
67984 ATAGTATTTAG
1 ATAATATTT-T
67995 ATAA-A-TTT
1 ATAATATTTT
68003 ATTAATAATTTT
1 A-TAAT-ATTTT
*
68015 ATAATCTTTT
1 ATAATATTTT
*
68025 AATAA-ATTTA
1 -ATAATATTTT
68035 ATAAGTATTTT
1 ATAA-TATTTT
68046 ATAAT-TTTT
1 ATAATATTTT
68055 -TAA-ATTTT
1 ATAATATTTT
68063 AT
1 AT
68065 TGACGAAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 22
0.68 0.09 0.24
Matches are distributed among these distances:
8 8 0.13
9 14 0.22
10 14 0.22
11 23 0.37
12 4 0.06
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.55
Consensus pattern (10 bp):
ATAATATTTT
Found at i:68056 original size:31 final size:30
Alignment explanation
Indices: 67971--68057 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
67961 TTCGATAATA
* *
67971 TAATAATTATTTTAT-AGTATTTAGATAAATT
1 TAATAA-TATTTTATAATTTTTTA-ATAAATT
* *
68002 TATTAATAATTTTATAATCTTTTAATAAATT
1 TAATAAT-ATTTTATAATTTTTTAATAAATT
68033 TAATAAGTATTTTATAATTTTTTAA
1 TAATAA-TATTTTATAATTTTTTAA
68058 ATTTTATTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
30 1 0.02
31 40 0.85
32 6 0.13
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (30 bp):
TAATAATATTTTATAATTTTTTAATAAATT
Found at i:68152 original size:24 final size:24
Alignment explanation
Indices: 68119--68169 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 24
68109 ACTTTATTTG
68119 AAAATATAT-ATTAAACTTAGTAA
1 AAAATATATAATTAAACTTAGTAA
68142 AAAATATTATACAATTAAACTTAGTAA
1 AAAATA-TAT--AATTAAACTTAGTAA
68169 A
1 A
68170 CTTTTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 6 0.25
24 3 0.12
27 15 0.62
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (24 bp):
AAAATATATAATTAAACTTAGTAA
Found at i:68669 original size:31 final size:30
Alignment explanation
Indices: 68634--68720 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
68624 TCAATAAAGT
68634 TTAAAAAATTATAAAATACTTATTAAATTTA
1 TTAAAAAATTATAAAATA-TTATTAAATTTA
* *
68665 TTAAAAGATTATAAAATTATTAATAAATTTA
1 TTAAAAAATTATAAAA-TATTATTAAATTTA
* *
68696 TCT-AAATACTATAAAATAATTATTA
1 T-TAAAAAATTATAAAAT-ATTATTA
68721 TATTATCAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
30 1 0.02
31 44 0.92
32 3 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (30 bp):
TTAAAAAATTATAAAATATTATTAAATTTA
Found at i:68696 original size:20 final size:20
Alignment explanation
Indices: 68629--68696 Score: 54
Period size: 19 Copynumber: 3.5 Consensus size: 20
68619 TTTCGTCAAT
*
68629 AAAG-TTTAAAAAATTA-TA
1 AAAGATTTATAAAATTATTA
* * *
68647 AAATACTTATTAAATTTATTA
1 AAAGATTTA-TAAAATTATTA
68668 AAAGA-TTATAAAATTATTA
1 AAAGATTTATAAAATTATTA
68687 ATAA-ATTTAT
1 A-AAGATTTAT
68697 CTAAATACTA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
18 3 0.08
19 15 0.38
20 15 0.38
21 6 0.15
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (20 bp):
AAAGATTTATAAAATTATTA
Found at i:69026 original size:14 final size:14
Alignment explanation
Indices: 69007--69037 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
68997 ACCACCTAAA
69007 TATTTTTATAATTT
1 TATTTTTATAATTT
*
69021 TATTTTTATATTTT
1 TATTTTTATAATTT
69035 TAT
1 TAT
69038 GCTATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTTTTATAATTT
Found at i:69166 original size:19 final size:19
Alignment explanation
Indices: 69107--69166 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
69097 TACGAGCAAA
69107 TTTTAAAATATAAAAATAT
1 TTTTAAAATATAAAAATAT
** **
69126 CATTATAAATATTAAATTTAT
1 TTTTA-AAATA-TAAAAATAT
69147 TTTTAAAATATAAAAATAT
1 TTTTAAAATATAAAAATAT
69166 T
1 T
69167 AACTTTTGTT
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
19 11 0.35
20 10 0.32
21 10 0.32
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTTAAAATATAAAAATAT
Found at i:69190 original size:27 final size:28
Alignment explanation
Indices: 69129--69206 Score: 106
Period size: 27 Copynumber: 2.8 Consensus size: 28
69119 AAAATATCAT
69129 TATAAATATTAAATTTATTTTTAAAATA
1 TATAAATATTAAATTTATTTTTAAAATA
* *
69157 TAAAAATATTAACTTT-TGTTTT-AAATA
1 TATAAATATTAAATTTAT-TTTTAAAATA
*
69184 TATAAATCTTAAATTTATTTTTA
1 TATAAATATTAAATTTATTTTTA
69207 TTGTAAATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (28 bp):
TATAAATATTAAATTTATTTTTAAAATA
Found at i:69242 original size:2 final size:2
Alignment explanation
Indices: 69235--69286 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
69225 TTACAATTTA
69235 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
69277 AT AT AT AT AT
1 AT AT AT AT AT
69287 GTATTTCTCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70118 original size:16 final size:16
Alignment explanation
Indices: 70097--70128 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
70087 ATAATCTAAT
*
70097 TTTTGGGATTTTTTGG
1 TTTTGGGAGTTTTTGG
70113 TTTTGGGAGTTTTTGG
1 TTTTGGGAGTTTTTGG
70129 CTAGTTCCCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.00, G:0.34, T:0.59
Consensus pattern (16 bp):
TTTTGGGAGTTTTTGG
Found at i:72956 original size:21 final size:20
Alignment explanation
Indices: 72936--72982 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
72926 AATCTCTTTA
72936 AATTTTATAACTTCAT-TTTT
1 AATTTTATAA-TTCATGTTTT
* *
72956 ACTTTTATAATTGATGTTTTT
1 AATTTTATAATTCATG-TTTT
72977 AATTTT
1 AATTTT
72983 TTTCAATTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 4 0.18
20 9 0.41
21 9 0.41
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (20 bp):
AATTTTATAATTCATGTTTT
Found at i:73174 original size:43 final size:43
Alignment explanation
Indices: 73111--73585 Score: 336
Period size: 43 Copynumber: 11.0 Consensus size: 43
73101 GTCTGTAACG
* * * *
73111 TTTTT-AATCTCACTTTTTTTACATTTATATTTGATGCCCCTGAT
1 TTTTTCAATCTCAC--TTTTTACCTTTATAATTGAAGCCCCTAAT
* ***
73155 TTTTTCAATCTCACTTTTTACCTTTATAATTGAGGCATATAA-
1 TTTTTCAATCTCACTTTTTACCTTTATAATTGAAGCCCCTAAT
* * * * *
73197 TTTTTCTATCTCGCTTTATAGCTTTATAATTAAAGCCCCTAAT
1 TTTTTCAATCTCACTTTTTACCTTTATAATTGAAGCCCCTAAT
* *
73240 TTATTT-AATCCCACTTTTTACCTTTATAATT-AA-CACTCCTAAA
1 TT-TTTCAATCTCACTTTTTACCTTTATAATTGAAGC-C-CCTAAT
* * * *
73283 ATTTTCAATCACACTTCTTA-C--T-T--TTGAAGCTCCTAAT
1 TTTTTCAATCTCACTTTTTACCTTTATAATTGAAGCCCCTAAT
*** *
73320 TTTTTCAATCTCACTTTTTGGTTTTATAATTG-AGACCCATAA-
1 TTTTTCAATCTCACTTTTTACCTTTATAATTGAAG-CCCCTAAT
* *
73362 TTTTTCAATC-CTACTTTTTACCTTTATAATTGAGGCTCCTAAT
1 TTTTTCAATCTC-ACTTTTTACCTTTATAATTGAAGCCCCTAAT
* *
73405 TTTTTCAATCACACCTTTTACCTTTATAATTG-AGACCCCTAATTTATTT
1 TTTTTCAATCTCACTTTTTACCTTTATAATTGAAG-CCCCT-A---A--T
* * *
73454 TTTTTCAATCCCACTTTTCACCTTGATAATTG-AGACCCCTAATT
1 TTTTTCAATCTCACTTTTTACCTTTATAATTGAAG-CCCCTAA-T
** * *
73498 TTTTTCAATCTCACTTCCTACATTTATAATTGAAGCCCTTAA-
1 TTTTTCAATCTCACTTTTTACCTTTATAATTGAAGCCCCTAAT
** * *
73540 TTTTTCAATCAAACTTTTTTACTTTTATAATTTAAGCCCCTAAT
1 TTTTTCAATCTCAC-TTTTTACCTTTATAATTGAAGCCCCTAAT
73584 TT
1 TT
73586 AATCATTTTT
Statistics
Matches: 341, Mismatches: 61, Indels: 58
0.74 0.13 0.13
Matches are distributed among these distances:
37 23 0.07
38 2 0.01
39 2 0.01
40 2 0.01
41 3 0.01
42 87 0.26
43 126 0.37
44 46 0.13
45 11 0.03
47 1 0.00
48 1 0.00
49 37 0.11
ACGTcount: A:0.27, C:0.21, G:0.05, T:0.47
Consensus pattern (43 bp):
TTTTTCAATCTCACTTTTTACCTTTATAATTGAAGCCCCTAAT
Found at i:73412 original size:85 final size:85
Alignment explanation
Indices: 73126--73585 Score: 359
Period size: 85 Copynumber: 5.4 Consensus size: 85
73116 AATCTCACTT
* * * * *
73126 TTTTTACATTTATATTTGATGCCCCTGATTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGC
1 TTTTTACCTTTATAATTGAAGCCCCTAATTTTTTCAATCTCACTTTTTACCTTTATAATTGAGAC
** * *
73191 ATATAATTTTTCTAT-CTCGC
66 CCATAATTTTTCAATCCT-AC
* * * * * *
73211 TTTATAGCTTTATAATTAAAGCCCCTAATTTATTT-AATCCCACTTTTTACCTTTATAATTAACA
1 TTTTTACCTTTATAATTGAAGCCCCTAATTT-TTTCAATCTCACTTTTTACCTTTATAATTGAGA
*
73275 CTCC-TAAAATTTTCAATCAC-AC
65 C-CCAT-AATTTTTCAATC-CTAC
* * ***
73297 TTCTTA-C--T-T--TTGAAGCTCCTAATTTTTTCAATCTCACTTTTTGGTTTTATAATTGAGAC
1 TTTTTACCTTTATAATTGAAGCCCCTAATTTTTTCAATCTCACTTTTTACCTTTATAATTGAGAC
73356 CCATAATTTTTCAATCCTAC
66 CCATAATTTTTCAATCCTAC
* * * *
73376 TTTTTACCTTTATAATTGAGGCTCCTAATTTTTTCAATCACACCTTTTACCTTTATAATTGAGAC
1 TTTTTACCTTTATAATTGAAGCCCCTAATTTTTTCAATCTCACTTTTTACCTTTATAATTGAGA-
* *
73441 CCCTAATTTATTTTTTTTCAATCCCAC
65 CCC--A--TA--ATTTTTCAATCCTAC
* * ** *
73468 TTTTCACCTTGATAATTG-AGACCCCTAATTTTTTTCAATCTCACTTCCTACATTTATAATTGA-
1 TTTTTACCTTTATAATTGAAG-CCCCTAA-TTTTTTCAATCTCACTTTTTACCTTTATAATTGAG
* **
73531 AGCCCTTAATTTTTCAATCAAAC
64 A-CCCATAATTTTTCAATCCTAC
* *
73554 TTTTTTACTTTTATAATTTAAGCCCCTAATTT
1 -TTTTTACCTTTATAATTGAAGCCCCTAATTT
73586 AATCATTTTT
Statistics
Matches: 296, Mismatches: 54, Indels: 49
0.74 0.14 0.12
Matches are distributed among these distances:
78 1 0.00
79 23 0.08
80 40 0.14
82 2 0.01
83 2 0.01
85 95 0.32
86 35 0.12
87 21 0.07
88 6 0.02
90 2 0.01
91 1 0.00
92 39 0.13
93 29 0.10
ACGTcount: A:0.27, C:0.21, G:0.06, T:0.47
Consensus pattern (85 bp):
TTTTTACCTTTATAATTGAAGCCCCTAATTTTTTCAATCTCACTTTTTACCTTTATAATTGAGAC
CCATAATTTTTCAATCCTAC
Found at i:73459 original size:49 final size:48
Alignment explanation
Indices: 73404--73502 Score: 155
Period size: 49 Copynumber: 2.0 Consensus size: 48
73394 AGGCTCCTAA
*
73404 TTTTTTCAATCACACCTTTT-ACCTTTATAATTGAGACCCCTAATTTATT
1 TTTTTTCAATCACA-CTTTTCACCTTGATAATTGAGACCCCTAATTT-TT
*
73453 TTTTTTCAATCCCACTTTTCACCTTGATAATTGAGACCCCTAATTTTT
1 TTTTTTCAATCACACTTTTCACCTTGATAATTGAGACCCCTAATTTTT
73501 TT
1 TT
73503 CAATCTCACT
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
48 9 0.19
49 38 0.81
ACGTcount: A:0.24, C:0.23, G:0.05, T:0.47
Consensus pattern (48 bp):
TTTTTTCAATCACACTTTTCACCTTGATAATTGAGACCCCTAATTTTT
Found at i:73470 original size:92 final size:93
Alignment explanation
Indices: 73362--73530 Score: 243
Period size: 92 Copynumber: 1.8 Consensus size: 93
73352 AGACCCATAA
* * * * * *
73362 TTTTTCAATCCTACTTTTTACCTTTATAATTGAGGCTCCTAA-TTTTTTCAATCACACCTT-TTA
1 TTTTTCAATCCCACTTTTCACCTTGATAATTGAGACCCCTAATTTTTTTCAATCACA-CTTCCTA
*
73425 CCTTTATAATTGAGACCCCTAATTTATTT
65 CATTTATAATTGAGACCCCTAATTTATTT
*
73454 TTTTTCAATCCCACTTTTCACCTTGATAATTGAGACCCCTAATTTTTTTCAATCTCACTTCCTAC
1 TTTTTCAATCCCACTTTTCACCTTGATAATTGAGACCCCTAATTTTTTTCAATCACACTTCCTAC
73519 ATTTATAATTGA
66 ATTTATAATTGA
73531 AGCCCTTAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
92 40 0.60
93 27 0.40
ACGTcount: A:0.25, C:0.23, G:0.05, T:0.46
Consensus pattern (93 bp):
TTTTTCAATCCCACTTTTCACCTTGATAATTGAGACCCCTAATTTTTTTCAATCACACTTCCTAC
ATTTATAATTGAGACCCCTAATTTATTT
Found at i:73983 original size:16 final size:16
Alignment explanation
Indices: 73962--74006 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
73952 TTAATTCAAC
73962 TTAAATAATATTTAAA
1 TTAAATAATATTTAAA
73978 TTAAAT-AT-TTT--A
1 TTAAATAATATTTAAA
73990 TTAAATAATATTTAAA
1 TTAAATAATATTTAAA
74006 T
1 T
74007 GAATAAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
12 7 0.28
13 2 0.08
14 6 0.24
15 2 0.08
16 8 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTAAATAATATTTAAA
Found at i:74020 original size:28 final size:28
Alignment explanation
Indices: 73957--74022 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
73947 ATGATTTAAT
* *
73957 TCAACTTAAATAATATTTAAATTAAATAT
1 TCAA-TTAAATAATATTTAAATGAAATAA
**
73986 TTTATTAAATAATATTTAAATG-AATAAA
1 TCAATTAAATAATATTTAAATGAAAT-AA
74014 TCAATTAAA
1 TCAATTAAA
74023 ATGACAATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
27 3 0.10
28 25 0.83
29 2 0.07
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.41
Consensus pattern (28 bp):
TCAATTAAATAATATTTAAATGAAATAA
Found at i:74658 original size:29 final size:29
Alignment explanation
Indices: 74609--74665 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
74599 GATGTCTCAC
*
74609 AAAGTTTGAGGGCCTAATTAATATTTTAG
1 AAAGTTTGAGGACCTAATTAATATTTTAG
* * *
74638 AAAGTTTGAGGACTTATTTAATTTTTTA
1 AAAGTTTGAGGACCTAATTAATATTTTA
74666 AAAAAATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (29 bp):
AAAGTTTGAGGACCTAATTAATATTTTAG
Found at i:75845 original size:3 final size:3
Alignment explanation
Indices: 75837--75864 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
75827 ATTTTGTTTA
75837 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
75865 ATTTTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:76313 original size:13 final size:13
Alignment explanation
Indices: 76295--76320 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
76285 ACTAGAGATT
76295 AAAAACGAGAGAA
1 AAAAACGAGAGAA
76308 AAAAACGAGAGAA
1 AAAAACGAGAGAA
76321 CATGTCGATT
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:0.69, C:0.08, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAAACGAGAGAA
Found at i:76357 original size:14 final size:14
Alignment explanation
Indices: 76334--76367 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
76324 GTCGATTTTT
*
76334 AAAAAAAAAAAAAG
1 AAAAAGAAAAAAAG
76348 AAAAAGAAAAAAAG
1 AAAAAGAAAAAAAG
76362 AAAAAG
1 AAAAAG
76368 GGGAACCACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAAG
Found at i:85154 original size:234 final size:231
Alignment explanation
Indices: 84719--85603 Score: 1191
Period size: 234 Copynumber: 3.8 Consensus size: 231
84709 TTTATAAGTA
* * *
84719 AAAAATAAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGTAAAGTAAGAAAAGTTTC
1 AAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTCGAAAAGTAAGAAAAGTTTC
* *
84784 TTACCTAGTAAACTATTTCCAAAATTGGTAGATCCTTCAGGTCATCAGTAAGTCTTCCGAGCATG
66 TTACCTAGTAAACTATTTCCAAAATTGGTAAATCCTTC-GGTCATCAGTAAGTCTTTCGAGCATG
* * * * * * *
84849 ATGCTTAAACCCTTCGGGTCATCTATAAGTCTTTCAAGAAAGGTGATAAGTTCTTCAGGCCATCA
130 ATGCTTAAATCCTTCGGATCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATC-
84914 ATAAGACCTTTGGACAGGATGTTTTCACATGTTTTTTG
194 ATAAGACCTTTGGACAGGATGTTTTCACATGTTTTTTG
* *
84952 AAAAATGAGAAAAGGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAATTT
1 AAAAATGAGAAAA-GTTTCTCATTTAAATCTGAAAATTGAAATTTTCGAAAAGTAAGAAAAGTTT
* *
85017 ATTACCTAGTAAACTATTTCCAAAATTGGTAAATCCTTCGGATCATCAGTAAGTCTTTTGAGCAT
65 CTTACCTAGTAAACTATTTCCAAAATTGGTAAATCCTTCGG-TCATCAGTAAGTCTTTCGAGCAT
* *
85082 GATGCTTAAATCCTTCAGATCATCTATAAGTCTTTCGAGCAAGGTGATAAGTCCTTCGGGCCATT
129 GATGCTTAAATCCTTCGGATCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCA-T
*
85147 CATAAGACCTTTGGGCAGGATGTTTTCACATGTTTTTTCG
193 CATAAGACCTTTGGACAGGATGTTTTCACATGTTTTTT-G
* * * *
85187 TAAAATGAGAAAAATTTCTCATTTAAATCTGAAAATTGAAAATTTCAAAAAGTAAGAAAAGTTTC
1 AAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTCGAAAAGTAAGAAAAGTTTC
* * * * *
85252 TTTCCTAGTAAACTATTTCTAAAATTGGTAAGTCCTTCGGGCCACCAGTAAGTCTTTCGAGCATG
66 TTACCTAGTAAACTATTTCCAAAATTGGTAAATCCTTC-GGTCATCAGTAAGTCTTTCGAGCATG
* * * * *
85317 ATGCTAAAATCCTTCGGGTCAGCTTTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCC
130 ATGCTTAAATCCTTCGGATCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCA
* * * **
85382 TAAGACCTTCGGCCAGGATGTTTTCACATGTTTCTCA
195 TAAGACCTTTGGACAGGATGTTTTCACATGTTTTTTG
* *
85419 AAAAATGAGAAAGGTTTCTCATTTAAATATGAAAATTGAAATTTTCGAAAA-TAAGAAAAGTTTC
1 AAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTCGAAAAGTAAGAAAAGTTTC
* * * * * * * *
85483 TTACGTAGTAAATTATTTCCAAAA-TGATAAGTCCTTCGGGCTATCAATAAGTTTTTCAAGCATG
66 TTACCTAGTAAACTATTTCCAAAATTGGTAAATCCTTCGGTC-ATCAGTAAGTCTTTCGAGCATG
* * * * *
85547 ATGCTTAAATCCTTCGGGA-CATTTGTTAGTATTTCGAGCAAGATGTTAAGTCCTTCG
130 ATGCTTAAATCCTTC-GGATCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCG
85604 AGCTAGATGG
Statistics
Matches: 581, Mismatches: 64, Indels: 17
0.88 0.10 0.03
Matches are distributed among these distances:
229 3 0.01
230 76 0.13
231 35 0.06
232 45 0.08
233 48 0.08
234 357 0.61
235 17 0.03
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (231 bp):
AAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTCGAAAAGTAAGAAAAGTTTC
TTACCTAGTAAACTATTTCCAAAATTGGTAAATCCTTCGGTCATCAGTAAGTCTTTCGAGCATGA
TGCTTAAATCCTTCGGATCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCAT
AAGACCTTTGGACAGGATGTTTTCACATGTTTTTTG
Found at i:85331 original size:42 final size:41
Alignment explanation
Indices: 85284--85378 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 41
85274 AATTGGTAAG
* *
85284 TCCTTCGGGCCACCAGTAAGTCTTTCGAGCATGATGCTAAAA
1 TCCTTCGGGCCACCAGTAAGTCTTTCGAGCAAGATGAT-AAA
* * ** *
85326 TCCTTCGGGTCAGCTTTAAGTCTTTCGAGCAAGATGATAAG
1 TCCTTCGGGCCACCAGTAAGTCTTTCGAGCAAGATGATAAA
85367 TCCTTCGGGCCA
1 TCCTTCGGGCCA
85379 TCCTAAGACC
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 13 0.29
42 32 0.71
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (41 bp):
TCCTTCGGGCCACCAGTAAGTCTTTCGAGCAAGATGATAAA
Found at i:89563 original size:25 final size:25
Alignment explanation
Indices: 89521--89568 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
89511 TTTTCGAGTT
*
89521 TATTTAGGAAATTCGGTATTAATTA
1 TATTTAGGAAATTCGGTACTAATTA
*
89546 TATTTAGG-AATGTTGGTACTAAT
1 TATTTAGGAAAT-TCGGTACTAAT
89569 ATAAGATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.33, C:0.04, G:0.19, T:0.44
Consensus pattern (25 bp):
TATTTAGGAAATTCGGTACTAATTA
Found at i:90918 original size:18 final size:18
Alignment explanation
Indices: 90895--90933 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
90885 ACATATTATC
90895 AATAAAAAAACATAAAAA
1 AATAAAAAAACATAAAAA
* *
90913 AATAAAAAAATATATAAA
1 AATAAAAAAACATAAAAA
90931 AAT
1 AAT
90934 TTAAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (18 bp):
AATAAAAAAACATAAAAA
Found at i:91630 original size:83 final size:83
Alignment explanation
Indices: 91467--91630 Score: 240
Period size: 83 Copynumber: 2.0 Consensus size: 83
91457 GTGTATATAT
* * *
91467 GTTTAATATTTTATATTTTAAATATATTATTATCTATTTTAATTTAGATATTAAAAGATATCTAG
1 GTTTAATATTTTATACTTAAAAGATATTATTATCTATTTTAATTTAGATATTAAAAGATATCTAG
** *
91532 TAGGAGTAAATCTCTCAG
66 TAGGAAAAAAACTCTCAG
*
91550 GTTTAATATTTTATACTTAAAAGATATTATTATCTA-TTTAGATTTAGATATTAAAAGATATTTA
1 GTTTAATATTTTATACTTAAAAGATATTATTATCTATTTTA-ATTTAGATATTAAAAGATATCTA
*
91614 GTTGGAAAAAAACTCTC
65 GTAGGAAAAAAACTCTC
91631 TCGAAATTCC
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
82 4 0.06
83 68 0.94
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.45
Consensus pattern (83 bp):
GTTTAATATTTTATACTTAAAAGATATTATTATCTATTTTAATTTAGATATTAAAAGATATCTAG
TAGGAAAAAAACTCTCAG
Found at i:91727 original size:24 final size:22
Alignment explanation
Indices: 91694--91737 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
91684 ATTCAAGAAG
*
91694 CTTTCTTCTCTTGAAAATATTTT
1 CTTTCTTCTC-AGAAAATATTTT
91717 CTTTCATTCTCAGAAAATATT
1 CTTTC-TTCTCAGAAAATATT
91738 CTTTTTCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.27, C:0.18, G:0.05, T:0.50
Consensus pattern (22 bp):
CTTTCTTCTCAGAAAATATTTT
Found at i:100519 original size:83 final size:84
Alignment explanation
Indices: 100379--100532 Score: 247
Period size: 83 Copynumber: 1.8 Consensus size: 84
100369 GTGTATATAT
* *
100379 GTTTAATATTTTAAATTTTAAAAGATATTATTATCTATTTAAATTTAAATATTAAAAGATATCTG
1 GTTTAATATTTTAAATTTTAAAAGATATTATTATATATTTAAATTTAAATATTAAAAGATATCTA
100444 GTTGGAGTAAATCTCTCAG
66 GTTGGAGTAAATCTCTCAG
* * * *
100463 GTTTAATATTTTAAA-TTTAAATGATATTATTATATGTTTAAATTTAGATATTAAAAGATATTTA
1 GTTTAATATTTTAAATTTTAAAAGATATTATTATATATTTAAATTTAAATATTAAAAGATATCTA
100527 GTTGGA
66 GTTGGA
100533 AAGAACTCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
83 49 0.77
84 15 0.23
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.46
Consensus pattern (84 bp):
GTTTAATATTTTAAATTTTAAAAGATATTATTATATATTTAAATTTAAATATTAAAAGATATCTA
GTTGGAGTAAATCTCTCAG
Found at i:100561 original size:83 final size:83
Alignment explanation
Indices: 100381--100550 Score: 180
Period size: 83 Copynumber: 2.0 Consensus size: 83
100371 GTATATATGT
* * * *
100381 TTAATATTTTAAATTTTAAAAGATATTATTATCTATTTAAATTTAAATATTAAAAGATATCTGGT
1 TTAATACTATAAA-TTTAAAAGATATTATTATATATTTAAATTTAAATATTAAAAGATATCTAGT
***
100446 TGGAGTAAATCTCTCAGGT
65 TGGAGTAAATCTCTCAAAA
* * * * * *
100465 TTAATATTTTAAATTTAAATGATATTATTATATGTTTAAATTTAGATATTAAAAGATATTTAGTT
1 TTAATACTATAAATTTAAAAGATATTATTATATATTTAAATTTAAATATTAAAAGATATCTAGTT
*
100530 GGAAAG-AACTCTCTCAAAA
66 GG--AGTAAATCTCTCAAAA
100549 TT
1 TT
100551 CTCCTATAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
83 48 0.65
84 24 0.32
85 2 0.03
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (83 bp):
TTAATACTATAAATTTAAAAGATATTATTATATATTTAAATTTAAATATTAAAAGATATCTAGTT
GGAGTAAATCTCTCAAAA
Found at i:102900 original size:133 final size:132
Alignment explanation
Indices: 102724--102963 Score: 360
Period size: 133 Copynumber: 1.8 Consensus size: 132
102714 AGGAACACAC
**
102724 ATTATTATGGTATTTCCGATTAAAGAAAAACTAATTCCCTAATTTTTATTAAGGTGATTATTTCT
1 ATTATTATGGTATTTCCGATTAAAGAAAAACTAATTCCCTAATTTTTATTAAGGCAATTATTTCT
*
102789 TATTTTTTTAATTTAAATAATAAAATATTGTCATTTC-TTAAAAGTTTAGAAAATAAGAAAAAAC
66 TA--TTTTTAATTTAAATAATAAAATATTGACATTTCATTAAAAGTTTAGAAAATAAGAAAAAAC
102853 GTAA
129 GTAA
* * * *
102857 ATTATTAT-TTATTTCC-AGTTAAAGAAGAAATTAGTTTCCTAATTTTTATTAAGGCAATTATTT
1 ATTATTATGGTATTTCCGA-TTAAAGAA-AAACTAATTCCCTAATTTTTATTAAGGCAATTATTT
102920 CTTATTTTTAATTTAAATAATAAAATATTGACATTTCATTAAAA
64 CTTATTTTTAATTTAAATAATAAAATATTGACATTTCATTAAAA
102964 ATTAAAATAA
Statistics
Matches: 97, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
131 33 0.34
132 21 0.22
133 43 0.44
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.44
Consensus pattern (132 bp):
ATTATTATGGTATTTCCGATTAAAGAAAAACTAATTCCCTAATTTTTATTAAGGCAATTATTTCT
TATTTTTAATTTAAATAATAAAATATTGACATTTCATTAAAAGTTTAGAAAATAAGAAAAAACGT
AA
Found at i:104049 original size:13 final size:13
Alignment explanation
Indices: 104027--104071 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
104017 AACCCGACCC
*
104027 GACCCAACCCGTT
1 GACCCGACCCGTT
*
104040 TACCCGACCCGTT
1 GACCCGACCCGTT
* *
104053 GGCCCGACCCATT
1 GACCCGACCCGTT
104066 GACCCG
1 GACCCG
104072 TTGACTCGTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.18, C:0.47, G:0.20, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:104089 original size:15 final size:16
Alignment explanation
Indices: 104064--104102 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
104054 GCCCGACCCA
104064 TTGACCCGTTGACT-CG
1 TTGA-CCGTTGACTGCG
104080 TTGACCGTTGACTGGCG
1 TTGACCGTTGACT-GCG
104097 TTGACC
1 TTGACC
104103 ACTGTTAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 4 0.19
17 8 0.38
ACGTcount: A:0.13, C:0.28, G:0.28, T:0.31
Consensus pattern (16 bp):
TTGACCGTTGACTGCG
Found at i:106591 original size:24 final size:24
Alignment explanation
Indices: 106525--106610 Score: 84
Period size: 24 Copynumber: 3.5 Consensus size: 24
106515 TCCGACTTGA
* *
106525 ATTCTATTCTGATA-CATGACCTGG
1 ATTCTGTTCTGATATC-TGATCTGG
* *
106549 ATTCTATTTCTGATTTCTGATCTGG
1 ATTCT-GTTCTGATATCTGATCTGG
* *
106574 ATTCTGTTCTGATATCTGATTTGA
1 ATTCTGTTCTGATATCTGATCTGG
*
106598 ATTCTGTTTTGAT
1 ATTCTGTTCTGAT
106611 TTTTGATATC
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
24 32 0.62
25 19 0.37
26 1 0.02
ACGTcount: A:0.20, C:0.15, G:0.16, T:0.49
Consensus pattern (24 bp):
ATTCTGTTCTGATATCTGATCTGG
Found at i:106617 original size:24 final size:24
Alignment explanation
Indices: 106549--106617 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
106539 CATGACCTGG
* *
106549 ATTCTATTTCTGATTTCTGATCTGG
1 ATTCTGTTT-TGATTTCTGATCTGA
* * *
106574 ATTCTGTTCTGATATCTGATTTGA
1 ATTCTGTTTTGATTTCTGATCTGA
*
106598 ATTCTGTTTTGATTTTTGAT
1 ATTCTGTTTTGATTTCTGAT
106618 ATCTCCGTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
24 29 0.81
25 7 0.19
ACGTcount: A:0.17, C:0.12, G:0.16, T:0.55
Consensus pattern (24 bp):
ATTCTGTTTTGATTTCTGATCTGA
Done.