Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003878.1 Hibiscus syriacus cultivar Beakdansim tig00008355_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: 157489
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:4169 original size:11 final size:11
Alignment explanation
Indices: 4153--4265 Score: 59
Period size: 11 Copynumber: 9.9 Consensus size: 11
4143 TTAATAATTC
*
4153 TAATATATTAA
1 TAATATAATAA
4164 TAATATAATAA
1 TAATATAATAA
* *
4175 TACTATAACAA
1 TAATATAATAA
*
4186 TAATAATATTAA
1 TAAT-ATAATAA
* *
4198 TAA-ATTATTAT
1 TAATA-TAATAA
**
4209 TTTTATAATAA
1 TAATATAATAA
*
4220 TTCTAATAT-ATTA
1 ---TAATATAATAA
4233 TAATATAATAA
1 TAATATAATAA
* *
4244 TACTATAACAA
1 TAATATAATAA
4255 TAATAATAATA
1 TAAT-ATAATA
4266 TCAAGAAATG
Statistics
Matches: 75, Mismatches: 19, Indels: 15
0.69 0.17 0.14
Matches are distributed among these distances:
10 7 0.09
11 47 0.63
12 14 0.19
13 3 0.04
14 4 0.05
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (11 bp):
TAATATAATAA
Found at i:4197 original size:74 final size:69
Alignment explanation
Indices: 4110--4262 Score: 261
Period size: 69 Copynumber: 2.1 Consensus size: 69
4100 TAATCTGTAA
4110 AATAATAATATTAATAAATTATTATTTTTATTATTAATAATTCTAATATATTAATAATATAATAA
1 AATAATAATATTAATAAATTATTA--TTT-TTA-TAATAATTCTAATATATT-ATAATATAATAA
4175 TACTATAAC
61 TACTATAAC
4184 AATAATAATATTAATAAATTATTATTTTTATAATAATTCTAATATATTATAATATAATAATACTA
1 AATAATAATATTAATAAATTATTATTTTTATAATAATTCTAATATATTATAATATAATAATACTA
4249 TAAC
66 TAAC
4253 AATAATAATA
1 AATAATAATA
4263 ATATCAAGAA
Statistics
Matches: 79, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
69 31 0.39
70 18 0.23
71 3 0.04
72 3 0.04
74 24 0.30
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (69 bp):
AATAATAATATTAATAAATTATTATTTTTATAATAATTCTAATATATTATAATATAATAATACTA
TAAC
Found at i:4464 original size:49 final size:49
Alignment explanation
Indices: 4408--4675 Score: 412
Period size: 49 Copynumber: 5.4 Consensus size: 49
4398 GTTATAGGTT
* *
4408 CATTTCGGCATAAAAGGTGTCATTAATGAAAGTTAAATGTATAACGGTG
1 CATTTCGGCATAAAAGGTGCCATTAATGAAAGTTAAATGCATAACGGTG
* * *
4457 CATTTCGGCTTAAAAGGTGCCACTAATGAAAGTTAAATGCATAAGGGTG
1 CATTTCGGCATAAAAGGTGCCATTAATGAAAGTTAAATGCATAACGGTG
* *
4506 CATTTCGGCATAAAAGGTGCCACTAATGAAAGTTAAATGCATAAGGGTG
1 CATTTCGGCATAAAAGGTGCCATTAATGAAAGTTAAATGCATAACGGTG
* * *
4555 CATTTTGGCATAAAAGGTGTCATTAATGAAAGTTAAATGCATAATGGTG
1 CATTTCGGCATAAAAGGTGCCATTAATGAAAGTTAAATGCATAACGGTG
4604 CATTTTC-GCATAAAAGGTGCCATTAATGAAAGTTAAATGCATAACGGTG
1 CA-TTTCGGCATAAAAGGTGCCATTAATGAAAGTTAAATGCATAACGGTG
*
4653 CATTTTCGGTATAAAAGGTGCCA
1 CA-TTTCGGCATAAAAGGTGCCA
4676 CTCATGGTAT
Statistics
Matches: 203, Mismatches: 14, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
49 186 0.92
50 17 0.08
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.29
Consensus pattern (49 bp):
CATTTCGGCATAAAAGGTGCCATTAATGAAAGTTAAATGCATAACGGTG
Found at i:10997 original size:13 final size:13
Alignment explanation
Indices: 10976--11005 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10966 AAGATGAAAG
*
10976 AAAGTTAAAGTAA
1 AAAGATAAAGTAA
10989 AAAGATAAAGTAA
1 AAAGATAAAGTAA
11002 AAAG
1 AAAG
11006 TGAAATGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (13 bp):
AAAGATAAAGTAA
Found at i:22354 original size:15 final size:15
Alignment explanation
Indices: 22334--22365 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
22324 CGAATCCGAA
22334 ACCTAAACCGCCTAT
1 ACCTAAACCGCCTAT
22349 ACCTAAACCGCCTAT
1 ACCTAAACCGCCTAT
22364 AC
1 AC
22366 TTTCCGCCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.41, G:0.06, T:0.19
Consensus pattern (15 bp):
ACCTAAACCGCCTAT
Found at i:22931 original size:41 final size:41
Alignment explanation
Indices: 22886--22967 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
22876 CTAAATTCAG
*
22886 TAGAACTTTTAATTATTAGACTAATAATTAAAAGAAAATAC
1 TAGAACTTTTAATTATTAGACTAATAAGTAAAAGAAAATAC
22927 TAGAACTTTTAATTATTAGACTAATAAGTAAAAGAAAATAC
1 TAGAACTTTTAATTATTAGACTAATAAGTAAAAGAAAATAC
22968 CCTTCAAGTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (41 bp):
TAGAACTTTTAATTATTAGACTAATAAGTAAAAGAAAATAC
Found at i:24161 original size:22 final size:23
Alignment explanation
Indices: 24112--24161 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
24102 TTTTATGTCG
*
24112 AGGATGAATGTATAAGATTTTTA
1 AGGATGAATGTATAAGAATTTTA
*
24135 TGGATGAAAT-TATAA-AATTTTA
1 AGGATG-AATGTATAAGAATTTTA
24157 AGGAT
1 AGGAT
24162 CTAAAATAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 10 0.43
23 10 0.43
24 3 0.13
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (23 bp):
AGGATGAATGTATAAGAATTTTA
Found at i:24398 original size:30 final size:30
Alignment explanation
Indices: 24364--24428 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
24354 TTGAATGACC
* *
24364 TATAATATGTCTCGTCTTATTTTTCGTGGT
1 TATAATATGTCTAGTCTTATTTTCCGTGGT
24394 TATAATATGTCTAGTCTTATTTTCCGTGGT
1 TATAATATGTCTAGTCTTATTTTCCGTGGT
*
24424 AATAA
1 TATAA
24429 GGAGTAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.23, C:0.12, G:0.15, T:0.49
Consensus pattern (30 bp):
TATAATATGTCTAGTCTTATTTTCCGTGGT
Found at i:24740 original size:32 final size:32
Alignment explanation
Indices: 24648--24726 Score: 149
Period size: 32 Copynumber: 2.4 Consensus size: 32
24638 GTTTAAATTA
24648 AACCGGTTGAACTGTCACTAGTGAACCGGTTAG
1 AACC-GTTGAACTGTCACTAGTGAACCGGTTAG
24681 AACCGTTGAACTGTCACTAGTGAACCGGTTAG
1 AACCGTTGAACTGTCACTAGTGAACCGGTTAG
24713 AACCGTTGAACTGT
1 AACCGTTGAACTGT
24727 TCGAACCGGA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 42 0.91
33 4 0.09
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (32 bp):
AACCGTTGAACTGTCACTAGTGAACCGGTTAG
Found at i:24766 original size:11 final size:10
Alignment explanation
Indices: 24744--24796 Score: 65
Period size: 10 Copynumber: 5.3 Consensus size: 10
24734 GGACCGGCTG
24744 AAAATCGGAA
1 AAAATCGGAA
24754 AAAATCAGG-A
1 AAAATC-GGAA
24764 AAAATCGGAA
1 AAAATCGGAA
24774 AAAATCAGG-A
1 AAAATC-GGAA
*
24784 AAAACCGGAA
1 AAAATCGGAA
24794 AAA
1 AAA
24797 CCCGCCAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
9 4 0.11
10 30 0.79
11 4 0.11
ACGTcount: A:0.62, C:0.11, G:0.19, T:0.08
Consensus pattern (10 bp):
AAAATCGGAA
Found at i:24769 original size:20 final size:20
Alignment explanation
Indices: 24744--24796 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
24734 GGACCGGCTG
24744 AAAATCGGAAAAAATCAGGA
1 AAAATCGGAAAAAATCAGGA
24764 AAAATCGGAAAAAATCAGGA
1 AAAATCGGAAAAAATCAGGA
*
24784 AAAACCGGAAAAA
1 AAAATCGGAAAAA
24797 CCCGCCAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.62, C:0.11, G:0.19, T:0.08
Consensus pattern (20 bp):
AAAATCGGAAAAAATCAGGA
Found at i:26268 original size:2 final size:2
Alignment explanation
Indices: 26263--26313 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
26253 TTTTTAAAAC
26263 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
26305 AT AT AT AT A
1 AT AT AT AT A
26314 CCCCCATCCG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:26448 original size:35 final size:35
Alignment explanation
Indices: 26372--26449 Score: 113
Period size: 35 Copynumber: 2.3 Consensus size: 35
26362 CCCCGTCACG
*
26372 TCCAA-TAAGGCCCTGAGCACACAGTCGAGGAACC
1 TCCAAGTAAGGCCCTGAGCACACAGCCGAGGAACC
***
26406 GGTAAGTAAGGCCCTGAGCACACAGCCGAGGAACC
1 TCCAAGTAAGGCCCTGAGCACACAGCCGAGGAACC
26441 TCCAAGTAA
1 TCCAAGTAA
26450 TCTTCCTCCA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
34 2 0.06
35 34 0.94
ACGTcount: A:0.33, C:0.29, G:0.26, T:0.12
Consensus pattern (35 bp):
TCCAAGTAAGGCCCTGAGCACACAGCCGAGGAACC
Found at i:26554 original size:24 final size:24
Alignment explanation
Indices: 26527--26617 Score: 121
Period size: 24 Copynumber: 3.8 Consensus size: 24
26517 CATAATTCAA
*
26527 GTCAAGTATCATATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
* *
26551 GTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAG
26575 GTCAA-TATCAGATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
* * *
26598 GTCAGGTATCATAACAGAAT
1 GTCAAGTATCAGATCAGAAT
26618 TCAAATTTGA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
23 21 0.36
24 37 0.64
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAG
Found at i:26597 original size:47 final size:48
Alignment explanation
Indices: 26527--26617 Score: 139
Period size: 47 Copynumber: 1.9 Consensus size: 48
26517 CATAATTCAA
* * *
26527 GTCAAGTATCATATCAGAATCCAGGTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAGGTCAGGTATCAGAACAGAATCCAT
*
26575 GTCAA-TATCAGATCAGAATCCAGGTCAGGTATCATAACAGAAT
1 GTCAAGTATCAGATCAGAATCCAGGTCAGGTATCAGAACAGAAT
26618 TCAAATTTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 34 0.87
48 5 0.13
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (48 bp):
GTCAAGTATCAGATCAGAATCCAGGTCAGGTATCAGAACAGAATCCAT
Found at i:28030 original size:14 final size:15
Alignment explanation
Indices: 27997--28042 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
27987 TTTTCTTCGA
*
27997 TATTGAAAAATAAA-
1 TATTTAAAAATAAAT
*
28011 TA-TT-AAAATAATT
1 TATTTAAAAATAAAT
28024 TATTTAAAAATAAAT
1 TATTTAAAAATAAAT
28039 TATT
1 TATT
28043 ATTTATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
12 7 0.27
13 3 0.12
14 4 0.15
15 12 0.46
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (15 bp):
TATTTAAAAATAAAT
Found at i:29521 original size:3 final size:3
Alignment explanation
Indices: 29513--29615 Score: 154
Period size: 3 Copynumber: 34.7 Consensus size: 3
29503 TTAATATATT
29513 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
29561 TAA TAA TGA TAA TGA TAA TAA TAA TAA TAA TAA TAA AAA AAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
29609 TAA -AA TA
1 TAA TAA TA
29616 TCAATATGGG
Statistics
Matches: 93, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
2 2 0.02
3 91 0.98
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:30195 original size:113 final size:113
Alignment explanation
Indices: 29941--30617 Score: 975
Period size: 113 Copynumber: 6.0 Consensus size: 113
29931 ATAGAATTAT
* * * * * *
29941 GCAAAAAGTTGAACAAGTTCTTATTATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* ** * * *
30006 ATTATGAAC-TTCTCTGGAAAAGCTGCTCCATCCAGTGAGGGATTTGA
66 ATTATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGGATTTGA
* * *
30053 GTAAAAGGTTGAACAAATTATTCTCATTATGAACTTCTTCTTCCTTCTTCCGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
30118 ATTATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTTGA
66 ATTATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGGATTTGA
* * *
30166 GCAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
30231 ATTATGAACTTTCTCTGGAAAAGATAATCCATCAAGTGAT-GAATTCA
66 ATTATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGGATTTGA
* * *
30278 GGTAACAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 -GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* * *
30343 CATTATGAACTTTCTCTGGAAAAGATAATCCATCAAGTGAT-GAATTCA
65 CATTATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGGATTTGA
* * *
30391 GGTAACAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 -GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* *
30456 CATTATGAACTTTCTCTGGAAAATATGATCCATCAAATGATGGATTTGA
65 CATTATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGGATTTGA
*
30505 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
30570 ATTATGAACTTTCTCTGGAAATG-TCAATCCATCAAATGATAGATTTGA
66 ATTATGAACTTTCTCTGGAAAAGAT-AATCCATCAAATGATGGATTTGA
30618 ATCTTTGCTA
Statistics
Matches: 520, Mismatches: 41, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
112 71 0.14
113 444 0.85
114 5 0.01
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.39
Consensus pattern (113 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGGATTTGA
Found at i:31473 original size:83 final size:83
Alignment explanation
Indices: 31334--31891 Score: 910
Period size: 83 Copynumber: 6.7 Consensus size: 83
31324 GTAGTTCTTA
* *
31334 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
31399 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* *
31417 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCCA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
31482 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* *
31500 CTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
31565 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* *
31583 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCCA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
31648 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* * * * *
31666 CTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
31731 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
*
31749 TCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTCT
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCAAATTCATCTTCC
31812 AAATTCAATGATT-GTTCTG
64 AAATTCAATGATTGGTTCTG
*
31831 TCC-AACCAGATCAGATAACTCAAAGAATACTTCCAGAAGATGCTATTG-GCAAATTCATCTT
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCAAATTCATCTT
31892 TCAGTTAATG
Statistics
Matches: 449, Mismatches: 24, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
82 66 0.15
83 381 0.85
84 2 0.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (83 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
ATTCAATGATTGGTTCTG
Found at i:33041 original size:6 final size:6
Alignment explanation
Indices: 33030--33077 Score: 71
Period size: 6 Copynumber: 7.8 Consensus size: 6
33020 TGACCCCCCT
33030 TTTTTC TTTTTC TTTTTTC TCTTTT- TTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC -TTTTTC T-TTTTC TTTTTC TTTTTC TTTTTC TTTTT
33078 TTTCTTCAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
5 4 0.10
6 25 0.64
7 10 0.26
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:33057 original size:25 final size:23
Alignment explanation
Indices: 33029--33080 Score: 86
Period size: 25 Copynumber: 2.2 Consensus size: 23
33019 TTGACCCCCC
33029 TTTTTTCTTTTTCTTTTTTCTCTTT
1 TTTTTTCTTTTTC-TTTTTCT-TTT
33054 TTTTTTCTTTTTCTTTTTCTTTT
1 TTTTTTCTTTTTCTTTTTCTTTT
33077 TTTT
1 TTTT
33081 CTTCAAGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 7 0.26
24 7 0.26
25 13 0.48
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (23 bp):
TTTTTTCTTTTTCTTTTTCTTTT
Found at i:43113 original size:16 final size:17
Alignment explanation
Indices: 43077--43114 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
43067 CAAAAAGGAA
* *
43077 AATAAATTAGTTTACAT
1 AATAAATAAATTTACAT
43094 AATAAATAAATTTA-AT
1 AATAAATAAATTTACAT
43110 AATAA
1 AATAA
43115 CATTTACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (17 bp):
AATAAATAAATTTACAT
Found at i:43672 original size:15 final size:13
Alignment explanation
Indices: 43639--43677 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 13
43629 CTTTGACAGA
43639 GAAAT-AAATAAT
1 GAAATAAAATAAT
43651 GAAATAAAATAATT
1 GAAATAAAATAA-T
43665 GCAAATAAAATAA
1 G-AAATAAAATAA
43678 AACATATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.21
13 6 0.25
14 2 0.08
15 11 0.46
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.23
Consensus pattern (13 bp):
GAAATAAAATAAT
Found at i:44410 original size:14 final size:15
Alignment explanation
Indices: 44377--44422 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
44367 TTTTCTTCGA
*
44377 TATTGAAAAATAAA-
1 TATTTAAAAATAAAT
*
44391 TA-TT-AAAATAATT
1 TATTTAAAAATAAAT
44404 TATTTAAAAATAAAT
1 TATTTAAAAATAAAT
44419 TATT
1 TATT
44423 ATTTATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
12 7 0.27
13 3 0.12
14 4 0.15
15 12 0.46
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (15 bp):
TATTTAAAAATAAAT
Found at i:45897 original size:3 final size:3
Alignment explanation
Indices: 45889--45988 Score: 166
Period size: 3 Copynumber: 33.7 Consensus size: 3
45879 TTAATATATT
* *
45889 TAA TAA TAA TAA TAA TAA TAA TGA TGA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
45937 TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
45985 -AA TA
1 TAA TA
45989 TCAATATGGG
Statistics
Matches: 92, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
2 2 0.02
3 90 0.98
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:47645 original size:18 final size:18
Alignment explanation
Indices: 47622--47663 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
47612 GGTCAACGGT
*
47622 TCGGGTCAACAGGTCGGG
1 TCGGGTAAACAGGTCGGG
*
47640 TCGGGTAAACGGGTCGGG
1 TCGGGTAAACAGGTCGGG
47658 TCGGGT
1 TCGGGT
47664 TGGGTTATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.14, C:0.19, G:0.48, T:0.19
Consensus pattern (18 bp):
TCGGGTAAACAGGTCGGG
Found at i:52124 original size:25 final size:25
Alignment explanation
Indices: 52090--52137 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
52080 TAAGTTATAG
52090 TTCGTAGGCACTTACGCTATTCTAT
1 TTCGTAGGCACTTACGCTATTCTAT
* **
52115 TTCGTCGGCACTTGTGCTATTCT
1 TTCGTAGGCACTTACGCTATTCT
52138 TCTCTGGTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.15, C:0.25, G:0.19, T:0.42
Consensus pattern (25 bp):
TTCGTAGGCACTTACGCTATTCTAT
Found at i:54282 original size:17 final size:17
Alignment explanation
Indices: 54260--54298 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
54250 AACGGTCAAC
54260 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
54277 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
54294 GGTCA
1 GGTCA
54299 GACCGGTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.13, C:0.23, G:0.46, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:54312 original size:9 final size:9
Alignment explanation
Indices: 54294--54343 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
54284 GGTCGGGTCG
*
54294 GGTCAGACC
1 GGTCAAACC
54303 GGTCAAACC
1 GGTCAAACC
*
54312 GGTTCAGACC
1 GG-TCAAACC
54322 GGTCAAACC
1 GGTCAAACC
*
54331 GGTTCGAACC
1 GG-TCAAACC
54341 GGT
1 GGT
54344 TTCCAGCAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
9 19 0.54
10 16 0.46
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:54324 original size:10 final size:10
Alignment explanation
Indices: 54296--54344 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
54286 TCGGGTCGGG
54296 TCAGACCGG-
1 TCAGACCGGT
*
54305 TCAAACCGGT
1 TCAGACCGGT
54315 TCAGACCGG-
1 TCAGACCGGT
*
54324 TCAAACCGGT
1 TCAGACCGGT
54334 TC-GAACCGGT
1 TCAG-ACCGGT
54344 T
1 T
54345 TCCAGCAGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
9 16 0.48
10 17 0.52
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.18
Consensus pattern (10 bp):
TCAGACCGGT
Found at i:54343 original size:19 final size:19
Alignment explanation
Indices: 54296--54335 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
54286 TCGGGTCGGG
54296 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
54315 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
54334 TC
1 TC
54336 GAACCGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.33, G:0.25, T:0.17
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:61595 original size:19 final size:19
Alignment explanation
Indices: 61573--61644 Score: 74
Period size: 19 Copynumber: 3.7 Consensus size: 19
61563 GTGGGGTCAG
*
61573 ACCGGTCAAACCGGTTCGA
1 ACCGGTCAAACCGGTTCAA
*
61592 ACCGGTTGAAACCGG-TCAA
1 ACCGG-TCAAACCGGTTCAA
*
61611 ACCGGTCAGAACCGGTTGAAA
1 ACCGGTCA-AACCGGTT-CAA
*
61632 ACCGGTTAAACCG
1 ACCGGTCAAACCG
61645 ATTTCCAGCA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
18 2 0.05
19 19 0.43
20 14 0.32
21 9 0.20
ACGTcount: A:0.31, C:0.28, G:0.26, T:0.15
Consensus pattern (19 bp):
ACCGGTCAAACCGGTTCAA
Found at i:61607 original size:29 final size:30
Alignment explanation
Indices: 61573--61644 Score: 112
Period size: 29 Copynumber: 2.4 Consensus size: 30
61563 GTGGGGTCAG
61573 ACCGGTCAAACCGGTTC-GAACCGGTTG-AA
1 ACCGGTCAAACCGG-TCAGAACCGGTTGAAA
61602 ACCGGTCAAACCGGTCAGAACCGGTTGAAA
1 ACCGGTCAAACCGGTCAGAACCGGTTGAAA
*
61632 ACCGGTTAAACCG
1 ACCGGTCAAACCG
61645 ATTTCCAGCA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
28 2 0.05
29 24 0.60
30 14 0.35
ACGTcount: A:0.31, C:0.28, G:0.26, T:0.15
Consensus pattern (30 bp):
ACCGGTCAAACCGGTCAGAACCGGTTGAAA
Found at i:61644 original size:9 final size:9
Alignment explanation
Indices: 61573--61644 Score: 63
Period size: 9 Copynumber: 7.4 Consensus size: 9
61563 GTGGGGTCAG
*
61573 ACCGGTCAA
1 ACCGGTTAA
*
61582 ACCGGTTCGA
1 ACCGGTT-AA
61592 ACCGGTTGAA
1 ACCGGTT-AA
*
61602 ACCGGTCAA
1 ACCGGTTAA
*
61611 ACCGGTCAGA
1 ACCGGTTA-A
61621 ACCGGTTGAAA
1 ACCGGTT--AA
61632 ACCGGTTAA
1 ACCGGTTAA
61641 ACCG
1 ACCG
61645 ATTTCCAGCA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
9 22 0.42
10 22 0.42
11 8 0.15
12 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.26, T:0.15
Consensus pattern (9 bp):
ACCGGTTAA
Found at i:62992 original size:6 final size:6
Alignment explanation
Indices: 62983--63014 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
62973 TTTCAACTTC
62983 ATACAT ATACAT ATACAT ATACAT ATACAT AT
1 ATACAT ATACAT ATACAT ATACAT ATACAT AT
63015 GCACAAACCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (6 bp):
ATACAT
Found at i:66028 original size:21 final size:19
Alignment explanation
Indices: 65967--66037 Score: 90
Period size: 19 Copynumber: 3.6 Consensus size: 19
65957 ATATATGTTT
65967 TATGAACAGTAAAATA-CGG
1 TATGAACAGTAAAATATC-G
* *
65986 TATGAACCGTAAAATATGG
1 TATGAACAGTAAAATATCG
66005 TATGAACAGTGAACAATATCG
1 TATGAACAGT-AA-AATATCG
66026 TATGAACAGTAA
1 TATGAACAGTAA
66038 TGAACAATAG
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
19 25 0.56
20 4 0.09
21 16 0.36
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.24
Consensus pattern (19 bp):
TATGAACAGTAAAATATCG
Found at i:66991 original size:23 final size:23
Alignment explanation
Indices: 66926--66992 Score: 116
Period size: 23 Copynumber: 2.9 Consensus size: 23
66916 ATTACATATA
* *
66926 TGTCCCGAAGGACCACGTAAAAT
1 TGTCCCGAAGGACCGCGTAGAAT
66949 TGTCCCGAAGGACCGCGTAGAAT
1 TGTCCCGAAGGACCGCGTAGAAT
66972 TGTCCCGAAGGACCGCGTAGA
1 TGTCCCGAAGGACCGCGTAGA
66993 CCCTCGACTC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.28, C:0.27, G:0.28, T:0.16
Consensus pattern (23 bp):
TGTCCCGAAGGACCGCGTAGAAT
Found at i:68079 original size:13 final size:13
Alignment explanation
Indices: 68047--68071 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68037 ATTCCATAAT
68047 TTTTCATTAAAAA
1 TTTTCATTAAAAA
68060 TTTTCATTAAAA
1 TTTTCATTAAAA
68072 TTCTTCATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTTCATTAAAAA
Found at i:69679 original size:16 final size:18
Alignment explanation
Indices: 69655--69694 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
69645 TAAATTGATT
69655 TTTTA-AATA-ATTTA-A
1 TTTTATAATATATTTATA
*
69670 TTTTATAATATTTTTATA
1 TTTTATAATATATTTATA
69688 TTTTATA
1 TTTTATA
69695 TGTTGAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 4 0.19
18 8 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTATAATATATTTATA
Found at i:71390 original size:23 final size:22
Alignment explanation
Indices: 71342--71390 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
71332 CTAGAATGTC
71342 AAGG-GGGAACCGATGCCCCCA
1 AAGGAGGGAACCGATGCCCCCA
* *
71363 CAGGAGGGAACCGATTCCCCCTA
1 AAGGAGGGAACCGATGCCCCC-A
71386 AAGGA
1 AAGGA
71391 AAATTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 15 0.65
23 5 0.22
ACGTcount: A:0.31, C:0.31, G:0.31, T:0.08
Consensus pattern (22 bp):
AAGGAGGGAACCGATGCCCCCA
Found at i:72266 original size:103 final size:103
Alignment explanation
Indices: 72087--72406 Score: 514
Period size: 103 Copynumber: 3.1 Consensus size: 103
72077 GTCGAGGGTC
* *
72087 TATGTGGTCATTCGAGACATATATGTATTCTTTGGAACATGTGTGAAGTCTCGTGAGACACATAC
1 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
72152 TTGATCCTTGGCATATGTGTATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
* *
72190 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACATATAC
1 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
72255 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
* * *
72293 TATGTGGTCATTCGGGATATATATATGTATTCTTTGGAATATGTGTGTAGTCTGGTGAGACACAT
1 TATGTGGTCATTCGGG--ACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACAT
* * *
72358 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
64 ACTTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
72398 CATGTGGTC
1 TATGTGGTC
72407 CTTATAGACA
Statistics
Matches: 201, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
103 113 0.56
105 88 0.44
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:72470 original size:47 final size:47
Alignment explanation
Indices: 72416--72535 Score: 197
Period size: 47 Copynumber: 2.6 Consensus size: 47
72406 CCTTATAGAC
*
72416 ATTATTATATGGCACTACGGTGCAATTCTACGCGGCACTCCGGTGCA
1 ATTATTATATGGCACTACGGTGCAATTCTACACGGCACTCCGGTGCA
72463 ATTATTATATGGCACTACGGTGCAATTCTACACGGCACTCCGGTGCA
1 ATTATTATATGGCACTACGGTGCAATTCTACACGGCACTCCGGTGCA
* * *
72510 ATTA-TATGTGGCACTTCAGTGCAATT
1 ATTATTATATGGCACTACGGTGCAATT
72536 ATATGAGCTG
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
46 19 0.28
47 50 0.72
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (47 bp):
ATTATTATATGGCACTACGGTGCAATTCTACACGGCACTCCGGTGCA
Found at i:72540 original size:23 final size:23
Alignment explanation
Indices: 72416--72539 Score: 122
Period size: 23 Copynumber: 5.3 Consensus size: 23
72406 CCTTATAGAC
72416 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATATGGCACTACGGTGCA
* *** *
72440 ATTCTACGCGGCACTCCGGTGCA
1 ATTATATATGGCACTACGGTGCA
72463 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATATGGCACTACGGTGCA
* * * *
72487 ATTCTACACGGCACTCCGGTGCA
1 ATTATATATGGCACTACGGTGCA
* * *
72510 ATTATATGTGGCACTTCAGTGCA
1 ATTATATATGGCACTACGGTGCA
72533 ATTATAT
1 ATTATAT
72540 GAGCTGTGGT
Statistics
Matches: 79, Mismatches: 20, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
23 58 0.73
24 21 0.27
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (23 bp):
ATTATATATGGCACTACGGTGCA
Found at i:77327 original size:23 final size:22
Alignment explanation
Indices: 77279--77327 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
77269 CCAGAATGTC
77279 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
77300 CAGGAGGGAACCGATTCCCCCTA
1 AAGGAGGGAACCGATACCCCC-A
77323 AAGGA
1 AAGGA
77328 AAATTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 15 0.65
23 5 0.22
ACGTcount: A:0.33, C:0.31, G:0.29, T:0.08
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:78349 original size:103 final size:103
Alignment explanation
Indices: 78021--78341 Score: 588
Period size: 103 Copynumber: 3.1 Consensus size: 103
78011 GTCGAGGGTC
78021 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
78086 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
* *
78124 TATGTGGTTCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
78189 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
78227 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
78292 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
78330 CATGTGGTCCTT
1 TATGTGGTCCTT
78342 ATAGACATTA
Statistics
Matches: 210, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 210 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:78402 original size:47 final size:47
Alignment explanation
Indices: 78348--78467 Score: 206
Period size: 47 Copynumber: 2.6 Consensus size: 47
78338 CCTTATAGAC
*
78348 ATTATTATATGGCACTACGGTGCAATTCTACGCGGTACTCCGGTGCA
1 ATTATTATATGGCACTACGGTGCAATTCTACGCGGCACTCCGGTGCA
78395 ATTATTATATGGCACTACGGTGCAATTCTACGCGGCACTCCGGTGCA
1 ATTATTATATGGCACTACGGTGCAATTCTACGCGGCACTCCGGTGCA
* *
78442 ATTA-TATGTGGCACTTCGGTGCAATT
1 ATTATTATATGGCACTACGGTGCAATT
78468 ATATGAGCTG
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 20 0.29
47 50 0.71
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (47 bp):
ATTATTATATGGCACTACGGTGCAATTCTACGCGGCACTCCGGTGCA
Found at i:78468 original size:23 final size:23
Alignment explanation
Indices: 78348--78472 Score: 124
Period size: 23 Copynumber: 5.3 Consensus size: 23
78338 CCTTATAGAC
*
78348 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * * * *
78372 ATTCTACGCGGTACTCCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
78395 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * * *
78419 ATTCTACGCGGCACTCCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
78442 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
78465 ATTATATG
1 ATTATATG
78473 AGCTGTGGTG
Statistics
Matches: 79, Mismatches: 21, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
23 59 0.75
24 20 0.25
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:79686 original size:64 final size:63
Alignment explanation
Indices: 79601--79741 Score: 185
Period size: 64 Copynumber: 2.2 Consensus size: 63
79591 TTGTTTAAGG
* * * *
79601 TGCATCGATGCACATGCAGTGCATCGATGCAT-GAATTTAAATAGAAAACATCGAATATGATTTA
1 TGCATCGATGCATAAGCAGTGCATCGATGCATCCAA-TTAAATA-AAAACATCGAATAGGATTTA
* * *
79665 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGCAGTGCATCGATGCAT-CCAATTAAATAAAAACATCGAATAGGATTTA
79729 TGCATCGATGCAT
1 TGCATCGATGCAT
79742 GGTGTAGTAC
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
64 60 0.88
65 7 0.10
66 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (63 bp):
TGCATCGATGCATAAGCAGTGCATCGATGCATCCAATTAAATAAAAACATCGAATAGGATTTA
Found at i:81166 original size:21 final size:21
Alignment explanation
Indices: 81140--81200 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
81130 CGAGGGTTTA
81140 ATAGGTCCTTCGGGACAACTC
1 ATAGGTCCTTCGGGACAACTC
* *
81161 ATAGGTCATTCGGGACAAATTC
1 ATAGGTCCTTCGGGAC-AACTC
* *
81183 ACAGGTCCTTTGGGACAA
1 ATAGGTCCTTCGGGACAA
81201 ATTTCATATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 17 0.50
22 17 0.50
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (21 bp):
ATAGGTCCTTCGGGACAACTC
Found at i:81197 original size:22 final size:22
Alignment explanation
Indices: 81142--81203 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
81132 AGGGTTTAAT
* *
81142 AGGTCCTTCGGGAC-AACTCAT
1 AGGTCCTTCGGGACAAATTCAC
*
81163 AGGTCATTCGGGACAAATTCAC
1 AGGTCCTTCGGGACAAATTCAC
*
81185 AGGTCCTTTGGGACAAATT
1 AGGTCCTTCGGGACAAATT
81204 TCATATGCCA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
21 13 0.37
22 22 0.63
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (22 bp):
AGGTCCTTCGGGACAAATTCAC
Found at i:84427 original size:63 final size:63
Alignment explanation
Indices: 84360--84498 Score: 165
Period size: 63 Copynumber: 2.2 Consensus size: 63
84350 TTGTTTAAGG
* * *
84360 TGCATCGATGCACATGCAGTGCAACGATGCAT-GAATTTAAATAGAAAACATCGAATATGA-TTA
1 TGCATCGATGCACAAGCAGTGCAACGATGCATCCAA-TTAAATA-AAAACATCGAATAGGATTTA
* * * * *
84423 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCACAAGCAGTGCAACGATGCAT-CCAATTAAATAAAAACATCGAATAGGATTTA
84487 TGCATCGATGCA
1 TGCATCGATGCA
84499 TGGTGTAGTG
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
63 42 0.65
64 22 0.34
65 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (63 bp):
TGCATCGATGCACAAGCAGTGCAACGATGCATCCAATTAAATAAAAACATCGAATAGGATTTA
Found at i:84497 original size:64 final size:65
Alignment explanation
Indices: 84396--84519 Score: 182
Period size: 64 Copynumber: 1.9 Consensus size: 65
84386 ATGCATGAAT
*
84396 TTAAATAGAAAACATCGAATATGATTATGCATCGATGCATAAG-G-AGTGCATCGATGCATCCCC
1 TTAAATAGAAAACATCGAATAGGATTATGCATCGATGCAT-AGTGTAGTGCATCGATGCATCCCC
84459 A
65 A
* *
84460 TTAAATA-CAAACATCGAATAGGATTTATGCATCGATGCATGGTGTAGTGCATCGATGCAT
1 TTAAATAGAAAACATCGAATAGGA-TTATGCATCGATGCATAGTGTAGTGCATCGATGCAT
84520 ACCTTCATTA
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
63 15 0.28
64 24 0.44
65 15 0.28
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.27
Consensus pattern (65 bp):
TTAAATAGAAAACATCGAATAGGATTATGCATCGATGCATAGTGTAGTGCATCGATGCATCCCCA
Found at i:85947 original size:22 final size:22
Alignment explanation
Indices: 85895--85956 Score: 90
Period size: 22 Copynumber: 2.9 Consensus size: 22
85885 AGGGTTTAAT
* *
85895 AGGTCCTTCGGGAC-AACTCAT
1 AGGTCCTTCGGGACAAATTCAC
*
85916 AGGTCATTCGGGACAAATTCAC
1 AGGTCCTTCGGGACAAATTCAC
85938 AGGTCCTTCGGGACAAATT
1 AGGTCCTTCGGGACAAATT
85957 TCATATGCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 13 0.36
22 23 0.64
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (22 bp):
AGGTCCTTCGGGACAAATTCAC
Found at i:89198 original size:64 final size:63
Alignment explanation
Indices: 89113--89253 Score: 185
Period size: 64 Copynumber: 2.2 Consensus size: 63
89103 TTGTTTAAGG
* * * *
89113 TGCATCGATGCACATGCAGTGCATCGATGCAT-GAATTTAAATAGAAAACATCGAATATGATTTA
1 TGCATCGATGCATAAGCAGTGCATCGATGCATCCAA-TTAAATA-AAAACATCGAATAGGATTTA
* * *
89177 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGCAGTGCATCGATGCAT-CCAATTAAATAAAAACATCGAATAGGATTTA
89241 TGCATCGATGCAT
1 TGCATCGATGCAT
89254 GGTGTAGTAC
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
64 60 0.88
65 7 0.10
66 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (63 bp):
TGCATCGATGCATAAGCAGTGCATCGATGCATCCAATTAAATAAAAACATCGAATAGGATTTA
Found at i:90698 original size:22 final size:22
Alignment explanation
Indices: 90646--90707 Score: 90
Period size: 22 Copynumber: 2.9 Consensus size: 22
90636 AGGGTTTAAT
* *
90646 AGGTCCTTCGGGAC-AACTCAT
1 AGGTCCTTCGGGACAAATTCAC
*
90667 AGGTCATTCGGGACAAATTCAC
1 AGGTCCTTCGGGACAAATTCAC
90689 AGGTCCTTCGGGACAAATT
1 AGGTCCTTCGGGACAAATT
90708 TCATATGCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 13 0.36
22 23 0.64
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (22 bp):
AGGTCCTTCGGGACAAATTCAC
Found at i:94542 original size:3 final size:3
Alignment explanation
Indices: 94534--94569 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
94524 ACTCTTTGTA
94534 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
94570 GTTTATAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:106503 original size:189 final size:189
Alignment explanation
Indices: 106183--106562 Score: 742
Period size: 189 Copynumber: 2.0 Consensus size: 189
106173 TGTAAGGTGC
106183 GGCTGAAAGAAACAGAGAATGATAAAGTAGGGTTTTTTCTTCTTTTTGTTATATGCAATTAGCAC
1 GGCTGAAAGAAACAGAGAATGATAAAGTAGGGTTTTTTCTTCTTTTTGTTATATGCAATTAGCAC
*
106248 GTGGAATATAAAAGGAAAAAGGTAGAATGAATTTGAATTAGAAAAAGATTTGGTTGATGATAAGG
66 GTGGAATATAAAAGGAAAAAGGTAGAATGAATTTGAATTAGAAAAAGATTTAGTTGATGATAAGG
106313 TTGTGTGTGGGTCCCAAAAGTTTAAAAAAGTATAAGAGAGTTGGGTAGAATGGGCGGCT
131 TTGTGTGTGGGTCCCAAAAGTTTAAAAAAGTATAAGAGAGTTGGGTAGAATGGGCGGCT
106372 GGCTGAAAGAAACAGAGAATGATAAAGTAGGGTTTTTTCTTCTTTTTGTTATATGCAATTAGCAC
1 GGCTGAAAGAAACAGAGAATGATAAAGTAGGGTTTTTTCTTCTTTTTGTTATATGCAATTAGCAC
106437 GTGGAATATAAAAGGAAAAAGGTAGAATGAATTTGAATTAGAAAAAGATTTAGTTGATGATAAGG
66 GTGGAATATAAAAGGAAAAAGGTAGAATGAATTTGAATTAGAAAAAGATTTAGTTGATGATAAGG
*
106502 TTGTGTGTGGGTCCTAAAAGTTTAAAAAAGTATAAGAGAGTTGGGTAGAATGGGCGGCT
131 TTGTGTGTGGGTCCCAAAAGTTTAAAAAAGTATAAGAGAGTTGGGTAGAATGGGCGGCT
106561 GG
1 GG
106563 TCAAAGGACG
Statistics
Matches: 189, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
189 189 1.00
ACGTcount: A:0.37, C:0.06, G:0.28, T:0.30
Consensus pattern (189 bp):
GGCTGAAAGAAACAGAGAATGATAAAGTAGGGTTTTTTCTTCTTTTTGTTATATGCAATTAGCAC
GTGGAATATAAAAGGAAAAAGGTAGAATGAATTTGAATTAGAAAAAGATTTAGTTGATGATAAGG
TTGTGTGTGGGTCCCAAAAGTTTAAAAAAGTATAAGAGAGTTGGGTAGAATGGGCGGCT
Found at i:112515 original size:18 final size:19
Alignment explanation
Indices: 112489--112528 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
112479 GAGAATGTGG
*
112489 AAAATTAAATCT-AGAAAA
1 AAAAGTAAATCTGAGAAAA
*
112507 AAAAGTAAATTTGAGAAAA
1 AAAAGTAAATCTGAGAAAA
112526 AAA
1 AAA
112529 TCAATTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.68, C:0.03, G:0.10, T:0.20
Consensus pattern (19 bp):
AAAAGTAAATCTGAGAAAA
Found at i:115737 original size:31 final size:31
Alignment explanation
Indices: 115652--115750 Score: 96
Period size: 30 Copynumber: 3.1 Consensus size: 31
115642 ATCAACGAGG
115652 CGAGCAACAAATTTCTTAACAAGC-ACGAAT
1 CGAGCAACAAATTTCTTAACAAGCAACGAAT
* * *
115682 CGAGCAA-AATTTTAACGAGCTTAACGAGCAACGAGT
1 CGAGCAACAAATTT------CTTAACAAGCAACGAAT
115718 CGAGCAACAAATTTCTTAACAAG-AACGAAT
1 CGAGCAACAAATTTCTTAACAAGCAACGAAT
115748 CGA
1 CGA
115751 ACAAAATTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
29 5 0.09
30 16 0.29
31 8 0.15
35 9 0.16
36 12 0.22
37 5 0.09
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.19
Consensus pattern (31 bp):
CGAGCAACAAATTTCTTAACAAGCAACGAAT
Found at i:115738 original size:66 final size:66
Alignment explanation
Indices: 115632--115771 Score: 244
Period size: 66 Copynumber: 2.1 Consensus size: 66
115622 AAAATTCGGT
* * *
115632 GAGCTTAACGATCAACGAGGCGAGCAACAAATTTCTTAACAAGCACGAATCGAGCAAAATTTTAA
1 GAGCTTAACGAGCAACGAGGCGAGCAACAAATTTCTTAACAAGAACGAATCGAACAAAATTTTAA
115697 C
66 C
*
115698 GAGCTTAACGAGCAACGAGTCGAGCAACAAATTTCTTAACAAGAACGAATCGAACAAAATTTTAA
1 GAGCTTAACGAGCAACGAGGCGAGCAACAAATTTCTTAACAAGAACGAATCGAACAAAATTTTAA
115763 C
66 C
115764 GAGCTTAA
1 GAGCTTAA
115772 TGAGTAACAA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 70 1.00
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (66 bp):
GAGCTTAACGAGCAACGAGGCGAGCAACAAATTTCTTAACAAGAACGAATCGAACAAAATTTTAA
C
Found at i:115771 original size:35 final size:35
Alignment explanation
Indices: 115666--115771 Score: 107
Period size: 35 Copynumber: 3.1 Consensus size: 35
115656 CAACAAATTT
*
115666 CTTAACAAGCACGAATCGAGCAAAATTTTAACGAG
1 CTTAACAAGAACGAATCGAGCAAAATTTTAACGAG
* * *
115701 CTTAACGAGCAACGAGTCGAGCAACAAATTT------
1 CTTAACAAG-AACGAATCGAGCAA-AATTTTAACGAG
*
115732 CTTAACAAGAACGAATCGAACAAAATTTTAACGAG
1 CTTAACAAGAACGAATCGAGCAAAATTTTAACGAG
115767 CTTAA
1 CTTAA
115772 TGAGTAACAA
Statistics
Matches: 55, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
29 5 0.09
30 12 0.22
31 8 0.15
35 13 0.24
36 12 0.22
37 5 0.09
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (35 bp):
CTTAACAAGAACGAATCGAGCAAAATTTTAACGAG
Found at i:115787 original size:66 final size:66
Alignment explanation
Indices: 115632--115787 Score: 222
Period size: 66 Copynumber: 2.4 Consensus size: 66
115622 AAAATTCGGT
* * ** * *
115632 GAGCTTAACGATCAACGAGGCGAGCAACAAATTTCTTAACAAGCACGAATCGAGCAAAATTTTAA
1 GAGCTTAACGAGCAACAAATCGAGCAACAAATTTCTTAACAAGAACGAATCGAACAAAATTTTAA
115697 C
66 C
* *
115698 GAGCTTAACGAGCAACGAGTCGAGCAACAAATTTCTTAACAAGAACGAATCGAACAAAATTTTAA
1 GAGCTTAACGAGCAACAAATCGAGCAACAAATTTCTTAACAAGAACGAATCGAACAAAATTTTAA
115763 C
66 C
* *
115764 GAGCTTAATGAGTAACAAATCGAG
1 GAGCTTAACGAGCAACAAATCGAG
115788 TCGAATAACA
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 82 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.20
Consensus pattern (66 bp):
GAGCTTAACGAGCAACAAATCGAGCAACAAATTTCTTAACAAGAACGAATCGAACAAAATTTTAA
C
Found at i:121212 original size:23 final size:22
Alignment explanation
Indices: 121159--121213 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
121149 AAAATAAAAA
*
121159 TAATTTTAAATTTTTTATATCT
1 TAATTTTAAATTTTTTATATAT
**
121181 TAAAATTAAATTATTTTATATAAT
1 TAATTTTAAATT-TTTTATAT-AT
121205 T-ATTTTAAA
1 TAATTTTAAA
121214 CAATTTCAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 10 0.38
23 14 0.54
24 2 0.08
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TAATTTTAAATTTTTTATATAT
Found at i:125847 original size:20 final size:20
Alignment explanation
Indices: 125818--125855 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
125808 TTTCAAAGGG
125818 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
125838 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
125856 GAATAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:126027 original size:64 final size:65
Alignment explanation
Indices: 125866--126027 Score: 245
Period size: 65 Copynumber: 2.5 Consensus size: 65
125856 GAATAAATTG
* * * * *
125866 AACATCGAATGCAGTTTATGCATCGATGCACTCTCCATGCATCGATGCACTCAGGTTTTAATGAA
1 AACATCGAATGCATTTTATGCATCGATGCACACACCATGCATCGATGCACTCAGGTCTTAATCAA
* *
125931 AACATCGAATGCATTTTATGCATCGATGCACACACCATGCATCGATGCACTTAGG-CTTATTCAA
1 AACATCGAATGCATTTTATGCATCGATGCACACACCATGCATCGATGCACTCAGGTCTTAATCAA
*
125995 AACATCGAATGCATTTTATGCATCGATACACAC
1 AACATCGAATGCATTTTATGCATCGATGCACAC
126028 TTAGTGCAAC
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
64 38 0.43
65 51 0.57
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTTATGCATCGATGCACACACCATGCATCGATGCACTCAGGTCTTAATCAA
Found at i:126041 original size:64 final size:64
Alignment explanation
Indices: 125866--126045 Score: 229
Period size: 64 Copynumber: 2.8 Consensus size: 64
125856 GAATAAATTG
* * * * *
125866 AACATCGAATGCAGTTTATGCATCGATGCACTCTCCATGCATCGATGCACTCAGGTTTTAATGAA
1 AACATCGAATGCATTTTATGCATCGATACACACT-CATGCATCGATGCACTCAGGTCTTAATCAA
* *
125931 AACATCGAATGCATTTTATGCATCGATGCACACAC-CATGCATCGATGCACTTAGG-CTTATTCA
1 AACATCGAATGCATTTTATGCATCGAT--ACACACTCATGCATCGATGCACTCAGGTCTTAATCA
125994 A
64 A
* *
125995 AACATCGAATGCATTTTATGCATCGATACACACTTAGTGCAACGATGCACT
1 AACATCGAATGCATTTTATGCATCGATACACACTCA-TGCATCGATGCACT
126046 AAGTGTTCCA
Statistics
Matches: 102, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
62 6 0.06
63 1 0.01
64 46 0.45
65 45 0.44
67 4 0.04
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTTATGCATCGATACACACTCATGCATCGATGCACTCAGGTCTTAATCAA
Found at i:132610 original size:103 final size:103
Alignment explanation
Indices: 132431--132643 Score: 374
Period size: 103 Copynumber: 2.1 Consensus size: 103
132421 GGGTCTACGC
132431 GGTCCTTCGGGACATATATGTATTCTTTGAAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGAAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
*
132496 CCTTGACATATGTATATGATTCTTAAGGAATGATATGT
66 CCTAGACATATGTATATGATTCTTAAGGAATGATATGT
*
132534 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGAAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
*
132599 CCCTAG-TATATGTATATGATTCTTAAGGAATGATATGT
66 -CCTAGACATATGTATATGATTCTTAAGGAATGATATGT
*
132637 AGTCCTT
1 GGTCCTT
132644 ATGGACATTA
Statistics
Matches: 105, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
103 101 0.96
104 4 0.04
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (103 bp):
GGTCCTTCGGGACATATATGTATTCTTTGAAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
CCTAGACATATGTATATGATTCTTAAGGAATGATATGT
Found at i:132693 original size:23 final size:23
Alignment explanation
Indices: 132660--132727 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 23
132650 ATTATTATAT
132660 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * ***
132683 GGCACTCCGGTGTAATTCTATAT
1 GGCACTACGGTGCAATTCTACGC
* *
132706 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
132728 AGCTGTGGTG
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.28
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:134167 original size:21 final size:21
Alignment explanation
Indices: 134123--134167 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
134113 GATTTCTGGG
* *
134123 CAAGGGGAATCGATACCCATT
1 CAAGGGGAACCGATACCCACT
*
134144 CAAGGGGAACCGATACCCCCT
1 CAAGGGGAACCGATACCCACT
134165 CAA
1 CAA
134168 ACGAACATGG
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:0.33, C:0.31, G:0.22, T:0.13
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCACT
Found at i:135740 original size:103 final size:103
Alignment explanation
Indices: 135412--135732 Score: 624
Period size: 103 Copynumber: 3.1 Consensus size: 103
135402 GTCGAGGGAC
135412 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
135477 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
*
135515 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTAAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
135580 TTGATCCCTAATATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
135618 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
135683 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
135721 TATGTGGTCCTT
1 TATGTGGTCCTT
135733 ATGGACATTA
Statistics
Matches: 214, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 214 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
Found at i:135798 original size:23 final size:23
Alignment explanation
Indices: 135744--135816 Score: 78
Period size: 23 Copynumber: 3.3 Consensus size: 23
135734 TGGACATTAT
*
135744 TATATGGCACTATGGTGCAATTC
1 TATATGGCACTACGGTGCAATTC
***
135767 TACGCGGCACTACGGTGCAATTC
1 TATATGGCACTACGGTGCAATTC
* *
135790 TGTATGGCACTTCGGTGC-ATT-
1 TATATGGCACTACGGTGCAATTC
135811 TATATG
1 TATATG
135817 AGCTGTGGTG
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
21 5 0.12
22 3 0.08
23 32 0.80
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.33
Consensus pattern (23 bp):
TATATGGCACTACGGTGCAATTC
Found at i:141050 original size:12 final size:12
Alignment explanation
Indices: 141033--141063 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
141023 TTTTGAACTG
141033 AAATCAAGCCTA
1 AAATCAAGCCTA
141045 AAATCAAGCCTA
1 AAATCAAGCCTA
141057 AAATCAA
1 AAATCAA
141064 TTTTTCAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.55, C:0.23, G:0.06, T:0.16
Consensus pattern (12 bp):
AAATCAAGCCTA
Found at i:141105 original size:20 final size:20
Alignment explanation
Indices: 141076--141113 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
141066 TTTCAAAGGG
141076 ATGCACCGATCCACCAATCC
1 ATGCACCGATCCACCAATCC
* *
141096 ATGCATCGATGCACCAAT
1 ATGCACCGATCCACCAAT
141114 GAATAAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.37, G:0.13, T:0.18
Consensus pattern (20 bp):
ATGCACCGATCCACCAATCC
Found at i:141236 original size:64 final size:65
Alignment explanation
Indices: 141141--141266 Score: 200
Period size: 64 Copynumber: 2.0 Consensus size: 65
141131 AATGCAGTTT
* *
141141 ATGCATCGATGCACTCAGGTTTTAATGAAAACATCGAATGCATTTTATGCATCGATGCACACACC
1 ATGCATCGATGCACTCAGGTCTTAATCAAAACATCGAATGCATTTTATGCATCGATGCACACACC
* * *
141206 ATGCATCGATTCACTTAGG-CTTATTCAAAACATCGAATGCATTTTATGCATCGATGCACAC
1 ATGCATCGATGCACTCAGGTCTTAATCAAAACATCGAATGCATTTTATGCATCGATGCACAC
141267 TTAGTGCACC
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
64 39 0.70
65 17 0.30
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (65 bp):
ATGCATCGATGCACTCAGGTCTTAATCAAAACATCGAATGCATTTTATGCATCGATGCACACACC
Found at i:145175 original size:64 final size:66
Alignment explanation
Indices: 145065--145257 Score: 201
Period size: 69 Copynumber: 2.9 Consensus size: 66
145055 ATTCTTGATT
* * * * *
145065 TCTTAGTTTTTTCAATGATTATCTGAGGATCTTCTGTGTCAAACATGAGAGAGAGAGAGA-C-AA
1 TCTTAATTTCTTCAATGATTGTCTGAGGATCTTCTGAGTCAGACATGAGAGAGAGAGAGATCTAA
145128 G
66 G
* * * * * * *
145129 TCTTAATTTCTTCAGTGATTGTCTAAGGATCTTTTGAGTTAGACATGAGAGAGATATATATTCTT
1 TCTTAATTTCTTCAATGATTGTCTGAGGATCTTCTGAGTCAGACATGAGAGAGAGAGAGA-TC-T
**
145194 GATT
64 -AAG
* *
145198 TCTTAATTTCTTCAATGATTGTTTGAGGATCTTCTGAGTCAGACATGACAGAGAGAGAGA
1 TCTTAATTTCTTCAATGATTGTCTGAGGATCTTCTGAGTCAGACATGAGAGAGAGAGAGA
145258 GGTTATATTA
Statistics
Matches: 101, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
64 48 0.48
66 1 0.01
69 52 0.51
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.37
Consensus pattern (66 bp):
TCTTAATTTCTTCAATGATTGTCTGAGGATCTTCTGAGTCAGACATGAGAGAGAGAGAGATCTAA
G
Found at i:157039 original size:20 final size:20
Alignment explanation
Indices: 157002--157040 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
156992 TTCTAAATCA
***
157002 TTTTTCAAAATTTCATTTTT
1 TTTTTCAAAATCAAATTTTT
157022 TTTTTCAAAATCAAATTTT
1 TTTTTCAAAATCAAATTTT
157041 GCTTTCAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTCAAAATCAAATTTTT
Done.