Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 141 of 221
Found at i:43363604 original size:40 final size:40
Alignment explanation
Indices: 43363449--43363615 Score: 219
Period size: 40 Copynumber: 4.2 Consensus size: 40
43363439 TCCTCGTTCA
* * * * *
43363449 AATGTCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
43363488 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
43363528 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* * * *
43363568 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
43363608 AAGGCCTT
1 AATGCCTT
43363616 TGGATCTTAG
Statistics
Matches: 115, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 33 0.29
40 82 0.71
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:43363631 original size:40 final size:40
Alignment explanation
Indices: 43363454--43363671 Score: 199
Period size: 40 Copynumber: 5.5 Consensus size: 40
43363444 GTTCAAATGT
* * * * * *
43363454 CTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGC
1 CTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGC
* * * *
43363493 CTTCGGGACATAACCCGGATTTAACAACTCGCACGAATGC
1 CTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGC
* *
43363533 CTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGC
1 CTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGC
* *
43363573 CTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGC
1 CTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGC
* ** * * * *
43363613 CTT-TGGATCTTAGTCCGGATATATTCACTTAGCACAAA-GC
1 CTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACAAAGGC
*
43363653 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAACCCGGA
43363672 CAGCATTCAA
Statistics
Matches: 154, Mismatches: 21, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
39 32 0.21
40 111 0.72
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGC
Found at i:43363631 original size:80 final size:79
Alignment explanation
Indices: 43363414--43363671 Score: 223
Period size: 80 Copynumber: 3.3 Consensus size: 79
43363404 AAATCACGTA
* * ** ** * * * * * *
43363414 CCTTCGGGATTTAA-CCGGATATAACTCCTCGTTCAAATGTCTTCGGGACATAGCCCGGTTTTAG
1 CCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATTTAA
*
43363478 TAACTCACACAATG
66 TAACTCGCACAATG
* * *
43363492 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAA
1 CCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATTTAA
43363557 TAACTCGCACGAATG
66 TAACTCGCAC-AATG
** * * ** *
43363572 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTT-TGGATCTTAGTCCGGATATA
1 CCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATTTA
* * * *
43363636 TTCACTTAGCACAAAG
65 ATAAC-TCGCACAATG
*
43363652 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
43363672 CAGCATTCAA
Statistics
Matches: 147, Mismatches: 29, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
78 12 0.08
79 51 0.35
80 79 0.54
81 5 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
CCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATTTAA
TAACTCGCACAATG
Found at i:43377310 original size:30 final size:29
Alignment explanation
Indices: 43377232--43377310 Score: 70
Period size: 30 Copynumber: 2.6 Consensus size: 29
43377222 ATATCACCTA
* *
43377232 AGATTACCTCTCAATCTCACCTAGGCTTAT
1 AGATTA-CTCTGAATCTCACCTAGGCATAT
* * *
43377262 AAATTACGTCTTG-GTCTCACCTCGGCATAT
1 AGATTAC-TC-TGAATCTCACCTAGGCATAT
43377292 AGATTATCTCTGAATCTCA
1 AGATTA-CTCTGAATCTCA
43377311 TTATTCAGCA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
29 3 0.08
30 33 0.87
31 2 0.05
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.34
Consensus pattern (29 bp):
AGATTACTCTGAATCTCACCTAGGCATAT
Found at i:43378810 original size:36 final size:36
Alignment explanation
Indices: 43378759--43378836 Score: 102
Period size: 36 Copynumber: 2.2 Consensus size: 36
43378749 GCTTCAACAT
*
43378759 CCTTCCATAAGCCTTCCTCATGTACTCGGAGCAAAA
1 CCTTCCATAACCCTTCCTCATGTACTCGGAGCAAAA
* ** * *
43378795 CCTTCCATAACCCTTCCTTATGTGTTGGGAGCAAGA
1 CCTTCCATAACCCTTCCTCATGTACTCGGAGCAAAA
43378831 CCTTCC
1 CCTTCC
43378837 GTAAGCCACT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.28
Consensus pattern (36 bp):
CCTTCCATAACCCTTCCTCATGTACTCGGAGCAAAA
Found at i:43378897 original size:35 final size:35
Alignment explanation
Indices: 43378824--43378967 Score: 125
Period size: 35 Copynumber: 4.0 Consensus size: 35
43378814 ATGTGTTGGG
* *
43378824 AGCAAGACCTTCCGTAAGCCACTTCCCCTC-TGTATGGA
1 AGCAAG-CCTTCCGTAAG-C-CTT-CCCTCATATGTGGA
* * *
43378862 AGCGAGCCTTCTGTAAGCCTTCCCTCATGTGTGGA
1 AGCAAGCCTTCCGTAAGCCTTCCCTCATATGTGGA
* *
43378897 AGAAAGCC-TCCATAAGCCTCTCCC-CATATGTTGGA
1 AGCAAGCCTTCCGTAAGCCT-TCCCTCATATG-TGGA
*
43378932 AGCAAGCCTTCCGTAAG-CTTTCCTCTATATGTGGA
1 AGCAAGCCTTCCGTAAGCCTTCCCTC-ATATGTGGA
43378967 A
1 A
43378968 AAAAGCACCC
Statistics
Matches: 89, Mismatches: 11, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
34 22 0.25
35 39 0.44
36 13 0.15
37 10 0.11
38 5 0.06
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (35 bp):
AGCAAGCCTTCCGTAAGCCTTCCCTCATATGTGGA
Found at i:43378991 original size:70 final size:69
Alignment explanation
Indices: 43378858--43378996 Score: 158
Period size: 70 Copynumber: 2.0 Consensus size: 69
43378848 CCCCTCTGTA
* * * * *
43378858 TGGAAGCGAGCCTTCTGTAAGCCTTCCCTCATGTGTGGAAGAAAGCCTCCATAAGCCTCTCCCCA
1 TGGAAGCAAGCCTTCCGTAAGCCTTCCCTCATATGTGGAAAAAAGCCTCCATAAGCATCTCCCCA
43378923 TATGT
66 -ATGT
* *
43378928 TGGAAGCAAGCCTTCCGTAAG-CTTTCCTCTATATGTGGAAAAAAGCAC-CCTGTAAGCAT-TCC
1 TGGAAGCAAGCCTTCCGTAAGCCTTCCCTC-ATATGTGGAAAAAAGC-CTCC-ATAAGCATCTCC
43378990 CCAATGT
63 CCAATGT
43378997 ACTATGAGCA
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
69 11 0.19
70 41 0.69
71 7 0.12
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (69 bp):
TGGAAGCAAGCCTTCCGTAAGCCTTCCCTCATATGTGGAAAAAAGCCTCCATAAGCATCTCCCCA
ATGT
Found at i:43379069 original size:36 final size:36
Alignment explanation
Indices: 43378977--43379069 Score: 96
Period size: 36 Copynumber: 2.6 Consensus size: 36
43378967 AAAAAGCACC
* *
43378977 CTGTAAGCATTCCCCAATGTACTATGAGCAGGCCTT
1 CTGTAAGCATTCCCCAATGTGCTAAGAGCAGGCCTT
** * ** *
43379013 CCATAAGCTTTCCCTTATGTGCTAAGAGTAGGCCTT
1 CTGTAAGCATTCCCCAATGTGCTAAGAGCAGGCCTT
* *
43379049 CTGTAAGCCTTCCCCCATGTG
1 CTGTAAGCATTCCCCAATGTG
43379070 TGTAAGCAAG
Statistics
Matches: 44, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.30
Consensus pattern (36 bp):
CTGTAAGCATTCCCCAATGTGCTAAGAGCAGGCCTT
Found at i:43379091 original size:107 final size:106
Alignment explanation
Indices: 43378980--43379209 Score: 243
Period size: 107 Copynumber: 2.2 Consensus size: 106
43378970 AAGCACCCTG
* * * *
43378980 TAAGCATTCCCCAATGTACTATGAGCAGGCCTTCCATAAGCTTTCCC-TTATGTGCTAAGAGTAG
1 TAAGCATTCCCC-ATGTACTAGGAGCAGACCTTCCATAAGC-TTCCCTTTATCTACTAAGAGTAG
* * *
43379044 GCCTT-CTGTAAGCCTTCCCCCATGTGTGTAAGCAAGCCCCTCT
64 GCCTTAC-ATAAGCATTCCCCCATGTGTGGAAGCAAGCCCCTCT
* * * * * *
43379087 TAAGCCTTTCCCATGTACTAGGAGTAGACCTTTCGTAAGCTTCCCTTTTATCTACTAGGAGTAGG
1 TAAGCATTCCCCATGTACTAGGAGCAGACCTTCCATAAGCTTCCC-TTTATCTACTAAGAGTAGG
* *
43379152 CCTTACATAAGCATTCCCCCATGTGTGGAAGC-AGACCCTTCG
65 CCTTACATAAGCATTCCCCCATGTGTGGAAGCAAG-CCCCTCT
43379194 TAAGC-TTACCCCATGT
1 TAAGCATT-CCCCATGT
43379210 GTAGCAGTAG
Statistics
Matches: 102, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
105 5 0.05
106 27 0.26
107 69 0.68
108 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (106 bp):
TAAGCATTCCCCATGTACTAGGAGCAGACCTTCCATAAGCTTCCCTTTATCTACTAAGAGTAGGC
CTTACATAAGCATTCCCCCATGTGTGGAAGCAAGCCCCTCT
Found at i:43384770 original size:19 final size:19
Alignment explanation
Indices: 43384746--43384782 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
43384736 TTTAAGAAAA
43384746 CTAGATTTTAACTAAGTAG
1 CTAGATTTTAACTAAGTAG
43384765 CTAGATTTTAACTAAGTA
1 CTAGATTTTAACTAAGTA
43384783 AATTAACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (19 bp):
CTAGATTTTAACTAAGTAG
Found at i:43397296 original size:23 final size:24
Alignment explanation
Indices: 43397263--43397312 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
43397253 TTCCTTAGCC
43397263 CTCATCCCTCATCCCTCATCC-CT
1 CTCATCCCTCATCCCTCATCCTCT
* *
43397286 CTCATCTCTCATCTCTCATCCTCT
1 CTCATCCCTCATCCCTCATCCTCT
43397310 CTC
1 CTC
43397313 TCAACTCTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.12, C:0.52, G:0.00, T:0.36
Consensus pattern (24 bp):
CTCATCCCTCATCCCTCATCCTCT
Found at i:43397320 original size:7 final size:7
Alignment explanation
Indices: 43397263--43397321 Score: 59
Period size: 7 Copynumber: 8.4 Consensus size: 7
43397253 TTCCTTAGCC
*
43397263 CTCATCC
1 CTCATCT
*
43397270 CTCATCC
1 CTCATCT
43397277 CTCATCCCT
1 CTCAT--CT
43397286 CTCATCT
1 CTCATCT
43397293 CTCATCT
1 CTCATCT
43397300 CTCATC-
1 CTCATCT
43397306 CTC-TCT
1 CTCATCT
*
43397312 CTCAACT
1 CTCATCT
43397319 CTC
1 CTC
43397322 TTAGCTCTCA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
5 2 0.04
6 6 0.13
7 32 0.70
9 6 0.13
ACGTcount: A:0.14, C:0.51, G:0.00, T:0.36
Consensus pattern (7 bp):
CTCATCT
Found at i:43404143 original size:20 final size:20
Alignment explanation
Indices: 43404118--43404155 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
43404108 GTTTTTCTAG
43404118 TTTAAATTATTT-TGTTAAAT
1 TTTAAATT-TTTATGTTAAAT
43404138 TTTAAATTTTTATGTTAA
1 TTTAAATTTTTATGTTAA
43404156 TAAAGGGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTAAATTTTTATGTTAAAT
Found at i:43408044 original size:16 final size:17
Alignment explanation
Indices: 43408019--43408053 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
43408009 ACTTTTTCAA
43408019 TCATCCCTCATCC-CTC
1 TCATCCCTCATCCTCTC
*
43408035 TCATCTCTCATCCTCTC
1 TCATCCCTCATCCTCTC
43408052 TC
1 TC
43408054 TCAACTCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.11, C:0.51, G:0.00, T:0.37
Consensus pattern (17 bp):
TCATCCCTCATCCTCTC
Found at i:43409993 original size:5 final size:5
Alignment explanation
Indices: 43409983--43410017 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
43409973 TTTATGTTAG
43409983 CTTTT CTTTT CTTTT CTTTT CTTTTT CTTTT CTTT
1 CTTTT CTTTT CTTTT CTTTT C-TTTT CTTTT CTTT
43410018 CCATTTTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:43410024 original size:16 final size:16
Alignment explanation
Indices: 43409989--43410024 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
43409979 TTAGCTTTTC
* *
43409989 TTTTCTTTTCTTTTCT
1 TTTTCTTTTCTTTCCA
43410005 TTTTCTTTTCTTTCCA
1 TTTTCTTTTCTTTCCA
43410021 TTTT
1 TTTT
43410025 TAGATTAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTCTTTTCTTTCCA
Found at i:43411089 original size:20 final size:20
Alignment explanation
Indices: 43411064--43411101 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
43411054 GATAGGATTT
43411064 ATCCTATC-ATAGACATCCTC
1 ATCCTATCGA-AGACATCCTC
43411084 ATCCTATCGAAGACATCC
1 ATCCTATCGAAGACATCC
43411102 CTCCCACGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.32, C:0.34, G:0.08, T:0.26
Consensus pattern (20 bp):
ATCCTATCGAAGACATCCTC
Found at i:43411813 original size:22 final size:22
Alignment explanation
Indices: 43411777--43411819 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
43411767 AACTCATAAC
43411777 ACATTTAGAGAATTTTGTATTT
1 ACATTTAGAGAATTTTGTATTT
* * *
43411799 ACATTTTGAGGATTTTTTATT
1 ACATTTAGAGAATTTTGTATT
43411820 CTCTTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.28, C:0.05, G:0.14, T:0.53
Consensus pattern (22 bp):
ACATTTAGAGAATTTTGTATTT
Found at i:43416892 original size:18 final size:19
Alignment explanation
Indices: 43416866--43416906 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
43416856 CGTTTGTTTC
43416866 CAAAACATTATTCA-TTTA
1 CAAAACATTATTCACTTTA
*
43416884 CAAATCATTATTCACTTTA
1 CAAAACATTATTCACTTTA
43416903 -AAAA
1 CAAAA
43416907 AGTTTTCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (19 bp):
CAAAACATTATTCACTTTA
Found at i:43423986 original size:49 final size:49
Alignment explanation
Indices: 43423811--43424374 Score: 900
Period size: 49 Copynumber: 11.9 Consensus size: 49
43423801 TAGTATGGCG
*
43423811 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
43423860 TAATAG-CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
43423908 TAATGG-CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
43423956 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
43424005 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTG----GGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
43424048 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
43424097 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
43424144 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
43424191 TAATGGCCGATGTGATGAATGT--AAG-GTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
43424237 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
43424286 TAATGGCCGATGTGATGAATGTG-AAGTG--TATATATGTGA-CAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* * * * *
43424331 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
43424375 TCCGAAGGGC
Statistics
Matches: 487, Mismatches: 12, Indels: 34
0.91 0.02 0.06
Matches are distributed among these distances:
43 33 0.07
44 1 0.00
45 36 0.07
46 62 0.13
47 100 0.21
48 103 0.21
49 152 0.31
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
Found at i:43424239 original size:189 final size:190
Alignment explanation
Indices: 43423811--43424374 Score: 903
Period size: 189 Copynumber: 3.0 Consensus size: 190
43423801 TAGTATGGCG
* *
43423811 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAG-CGATGTGAT
1 TAATGGCCGATGTGATGAATGTG-AAG-GTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
43423875 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CGATGTGATGAATGTGAAAGTGTAT
64 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
*
43423939 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
127 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGC
43424004 C
190 C
* *
43424005 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG----GGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAGGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
43424066 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
43424131 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
131 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
43424191 TAATGGCCGATGTGATGAATGT-AAGGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAGGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
43424255 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATAT
66 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * * *
43424319 ATGTGA-CAGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
131 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
43424375 TCCGAAGGGC
Statistics
Matches: 350, Mismatches: 14, Indels: 19
0.91 0.04 0.05
Matches are distributed among these distances:
185 14 0.04
186 40 0.11
187 43 0.12
188 71 0.20
189 124 0.35
190 22 0.06
192 12 0.03
193 2 0.01
194 22 0.06
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (190 bp):
TAATGGCCGATGTGATGAATGTGAAGGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:43424371 original size:281 final size:283
Alignment explanation
Indices: 43423811--43424374 Score: 935
Period size: 281 Copynumber: 2.0 Consensus size: 283
43423801 TAGTATGGCG
*
43423811 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCGATGTGATG
1 TAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATAGCGATGTGATG
43423876 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCGATGTGATGAATGTGAAAGTGTATAT
65 AATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCGATGTGATGAATGT-AAAGTGTATAT
43423941 ATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
128 ATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
* * *
43424006 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGGGCCTAATGGCCGATGTGATGAATGTG
193 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGGGCCGAATGGCCAACGTGATGAATGTG
43424071 AAAGTGTATATATATGTGATAAGGCC
258 AAAGTGTATATATATGTGATAAGGCC
*
43424097 TAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 TAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATAG-CGATGTGATG
43424161 AATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT-AAG-GTATATA
65 AATGTGAAAGTGATATATATGTGATAAGGCCTAATGG-CGATGTGATGAATGTAAAGTGTATATA
*
43424223 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
129 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
* *
43424288 ATGGCCGATGTGATGAATGTG-AAGTGTATATATGTGACAGGCCGAGTGGCCAACGTGATGGATG
194 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG---GGCCGAATGGCCAACGTGATGAATG
43424352 TGAAAGTGTATA-A-ATGTGATAAG
256 TGAAAGTGTATATATATGTGATAAG
43424375 TCCGAAGGGC
Statistics
Matches: 265, Mismatches: 8, Indels: 15
0.92 0.03 0.05
Matches are distributed among these distances:
280 15 0.06
281 102 0.38
282 4 0.02
283 56 0.21
284 38 0.14
285 22 0.08
286 28 0.11
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (283 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATAGCGATGTGATGA
ATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCGATGTGATGAATGTAAAGTGTATATATA
TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
GGCCGATGTGATGAATGTGAAAGTGTATATATGTGGGCCGAATGGCCAACGTGATGAATGTGAAA
GTGTATATATATGTGATAAGGCC
Found at i:43426110 original size:40 final size:40
Alignment explanation
Indices: 43425716--43426098 Score: 572
Period size: 40 Copynumber: 9.6 Consensus size: 40
43425706 GAGTGAAATG
*
43425716 TCCGGGCTAA-ATCTCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTC-CGAAGAGCATTCGTGCTAGTGATGTA
*
43425756 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
*
43425796 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
* *
43425836 TCCGGACTAAGTTCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
*
43425876 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
*
43425916 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
43425956 TCCGGGCTAAG-TCTCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTC-CGAAGAGCATTCGTGCTAGTGATGTA
* *
43425996 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
* *** * * * *
43426036 TCCGTGCTAAACCCCGAAGAGCATTTGTGCTGGTGTTATA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
*
43426076 TCCGGGCTAGGTTCCGAAGAGCA
1 TCCGGGCTAAGTTCCGAAGAGCA
43426099 ATCATGCTGG
Statistics
Matches: 318, Mismatches: 22, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.00
40 313 0.98
41 4 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:43443332 original size:18 final size:18
Alignment explanation
Indices: 43443292--43443329 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
43443282 GTTAACGAAC
43443292 AAATATATAAATATAAAT
1 AAATATATAAATATAAAT
* *
43443310 AAATATTTATATA-AAAT
1 AAATATATAAATATAAAT
43443327 AAA
1 AAA
43443330 ATAAATTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATATATAAATATAAAT
Found at i:43450966 original size:88 final size:86
Alignment explanation
Indices: 43450831--43451056 Score: 267
Period size: 88 Copynumber: 2.6 Consensus size: 86
43450821 CCAAAATAGA
* * * * * *
43450831 TTATTCAA-TTTAATTCTAATTTGGAAACAAAAT-TAAAATTGAATAAAATCTAATAAACAGCGA
1 TTATTTAATTTTAATACTCATTTGGAAACAAAATAAAAAATGGAATAAAATCTAATAAACAGCAA
*
43450894 GAATAAATCCTGAAATAAATT
66 GAATAAATCCTGAAACAAATT
* ** * ** * *
43450915 TTATTTAATTTTAATTTCTTGTTTGGCAACAAAATAAAAAAATGGAATAAAATCTGTTGAACGGC
1 TTATTTAATTTTAA-TACTCATTTGGAAACAAAAT-AAAAAATGGAATAAAATCTAATAAACAGC
*
43450980 AAGAATAAATCCTGAAACAGATT
64 AAGAATAAATCCTGAAACAAATT
*
43451003 TTATTTAATTTTAATACTCATTTGGAAACAAAATAAAAAATGAAATAAAATCTA
1 TTATTTAATTTTAATACTCATTTGGAAACAAAATAAAAAATGGAATAAAATCTA
43451057 TTTGAACGGA
Statistics
Matches: 119, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
84 7 0.06
85 5 0.04
86 35 0.29
87 16 0.13
88 56 0.47
ACGTcount: A:0.48, C:0.09, G:0.10, T:0.33
Consensus pattern (86 bp):
TTATTTAATTTTAATACTCATTTGGAAACAAAATAAAAAATGGAATAAAATCTAATAAACAGCAA
GAATAAATCCTGAAACAAATT
Found at i:43451084 original size:87 final size:85
Alignment explanation
Indices: 43450831--43451101 Score: 303
Period size: 87 Copynumber: 3.1 Consensus size: 85
43450821 CCAAAATAGA
* * * * * *
43450831 TTATTCAA-TTTAATTCTAATTTGGAAACAAAATTAAAATTGAATAAAATCTAATAAACAGCGAG
1 TTATTCAATTTTAATTCTAATTTGGAAACAAAATAAAAAATGAATAAAATCTATTGAACGGAGAG
* *
43450895 AATAAATCCTGAAATAAATT
66 AATAAATCCTGAAACAGATT
* ** * *
43450915 TTATTTAATTTTAATTTCTTGTTTGGCAACAAAATAAAAAAATGGAATAAAATCTGTTGAACGGC
1 TTATTCAATTTTAA-TTCTAATTTGGAAACAAAAT-AAAAAAT-GAATAAAATCTATTGAACGG-
43450980 A-AGAATAAATCCTGAAACAGATT
62 AGAGAATAAATCCTGAAACAGATT
* * *
43451003 TTATTTAATTTTAATACTCATTTGGAAACAAAATAAAAAATGAAATAAAATCTATTTGAACGGAG
1 TTATTCAATTTTAATTCTAATTTGGAAACAAAATAAAAAATG-AATAAAATCTA-TTGAACGGAG
* * *
43451068 GGAATAAATCCCGAAACAGGTT
64 AGAATAAATCCTGAAACAGATT
43451090 TTATTCAATTTT
1 TTATTCAATTTT
43451102 TATTTTTATT
Statistics
Matches: 157, Mismatches: 22, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
84 7 0.04
85 6 0.04
86 35 0.22
87 59 0.38
88 50 0.32
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.33
Consensus pattern (85 bp):
TTATTCAATTTTAATTCTAATTTGGAAACAAAATAAAAAATGAATAAAATCTATTGAACGGAGAG
AATAAATCCTGAAACAGATT
Found at i:43451281 original size:19 final size:20
Alignment explanation
Indices: 43451228--43451281 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
43451218 GTCCACGAAC
*
43451228 AAATATATAAATATAAATAAA
1 AAATATTTAAATA-AAATAAA
*
43451249 AAATATTTATATAAAATAAA
1 AAATATTTAAATAAAATAAA
43451269 ATAA-A-TTAAATAA
1 A-AATATTTAAATAA
43451282 TTTATATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 7 0.24
20 9 0.31
21 13 0.45
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAATATTTAAATAAAATAAA
Found at i:43451294 original size:30 final size:26
Alignment explanation
Indices: 43451230--43451297 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 26
43451220 CCACGAACAA
43451230 ATATATAAATATAAATAAAAAATATTT
1 ATATA-AAATATAAATAAAAAATATTT
43451257 ATATAAAATA-AAATAAATTAAATAATTT
1 ATATAAAATATAAATAAA--AAAT-ATTT
43451285 ATATTTAAAATAT
1 ATA--TAAAATAT
43451298 CATATACGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
25 7 0.20
26 5 0.14
27 9 0.26
28 7 0.20
30 7 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
ATATAAAATATAAATAAAAAATATTT
Found at i:43453569 original size:8 final size:8
Alignment explanation
Indices: 43453556--43453596 Score: 73
Period size: 8 Copynumber: 5.1 Consensus size: 8
43453546 AAAACTAAAT
43453556 CCCGAAAA
1 CCCGAAAA
43453564 CCCGAAAA
1 CCCGAAAA
43453572 CCCGAAAA
1 CCCGAAAA
43453580 CCCGAAAA
1 CCCGAAAA
*
43453588 CGCGAAAA
1 CCCGAAAA
43453596 C
1 C
43453597 TAAGAATCCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.49, C:0.37, G:0.15, T:0.00
Consensus pattern (8 bp):
CCCGAAAA
Found at i:43464119 original size:31 final size:30
Alignment explanation
Indices: 43464076--43464135 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
43464066 GATGATAATG
* * *
43464076 TTTTAATTAAAATATATATATTCTATTAACA
1 TTTTAATAAAAATATAAATA-TATATTAACA
43464107 TTTTAATAAAAATATAAATATATATTAAC
1 TTTTAATAAAAATATAAATATATATTAAC
43464136 GAAATAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 8 0.31
31 18 0.69
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (30 bp):
TTTTAATAAAAATATAAATATATATTAACA
Found at i:43464887 original size:30 final size:31
Alignment explanation
Indices: 43464839--43464898 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
43464829 AAATTTTTTA
*
43464839 TTTTGCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTGCCCCAAAACTTTTACTCCCTTCCCAC
*
43464869 TTTT-CCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTGCCCC-AAAACTTTTACTCCCTTCCCA
43464899 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 4 0.15
30 17 0.65
31 5 0.19
ACGTcount: A:0.20, C:0.38, G:0.02, T:0.40
Consensus pattern (31 bp):
TTTTGCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:43465162 original size:17 final size:17
Alignment explanation
Indices: 43465142--43465188 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
43465132 CACATTTTAT
43465142 ATTATTTATATTATTGA
1 ATTATTTATATTATTGA
43465159 ATTATTTAGTCA-TATTGA
1 ATTATTTA-T-ATTATTGA
43465177 A-TATTTATATTA
1 ATTATTTATATTA
43465189 AAATTGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 3 0.11
17 14 0.52
18 8 0.30
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:43467475 original size:9 final size:10
Alignment explanation
Indices: 43467432--43467478 Score: 62
Period size: 10 Copynumber: 4.9 Consensus size: 10
43467422 ATAAATTATA
43467432 ATTAAAAATC
1 ATTAAAAATC
43467442 ATTAAAAATC
1 ATTAAAAATC
*
43467452 ATT-AAAATT
1 ATTAAAAATC
*
43467461 ATTAAAAATT
1 ATTAAAAATC
43467471 A-TAAAAAT
1 ATTAAAAAT
43467479 ACCAAAAAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
9 15 0.43
10 20 0.57
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (10 bp):
ATTAAAAATC
Found at i:43467477 original size:19 final size:19
Alignment explanation
Indices: 43467434--43467478 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
43467424 AAATTATAAT
43467434 TAAAAATCATTAAAAATCA
1 TAAAAATCATTAAAAATCA
* * *
43467453 TTAAAATTATTAAAAATTA
1 TAAAAATCATTAAAAATCA
43467472 TAAAAAT
1 TAAAAAT
43467479 ACCAAAAAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAAATCATTAAAAATCA
Found at i:43474982 original size:13 final size:13
Alignment explanation
Indices: 43474959--43474992 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
43474949 AACCAAAACC
43474959 AATAGATACTTATT
1 AATA-ATACTTATT
43474973 AATAATACTTATT
1 AATAATACTTATT
*
43474986 AAAAATA
1 AATAATA
43474993 GTCCAAGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (13 bp):
AATAATACTTATT
Found at i:43477097 original size:15 final size:16
Alignment explanation
Indices: 43477071--43477105 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
43477061 ATTTATAAAT
43477071 TTTAATATTGATAGTA
1 TTTAATATTGATAGTA
43477087 TTTAA-ATTGATAGTA
1 TTTAATATTGATAGTA
43477102 TTTA
1 TTTA
43477106 TAAATTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (16 bp):
TTTAATATTGATAGTA
Found at i:43477998 original size:14 final size:15
Alignment explanation
Indices: 43477968--43478001 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
43477958 CTGTTTAGGG
*
43477968 TTTCATTTCTATCCA
1 TTTCATTGCTATCCA
43477983 TTTCATTGCT-TCCA
1 TTTCATTGCTATCCA
43477997 TTTCA
1 TTTCA
43478002 GTTTTCTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.18, C:0.26, G:0.03, T:0.53
Consensus pattern (15 bp):
TTTCATTGCTATCCA
Found at i:43479725 original size:17 final size:17
Alignment explanation
Indices: 43479705--43479737 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
43479695 TTATTTTCTA
43479705 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
43479722 TATAAGTTTTCTAAAT
1 TATAAGTTTTCTAAAT
43479738 AATTTTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:43479733 original size:30 final size:30
Alignment explanation
Indices: 43479698--43479754 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
43479688 TATTGTTTTA
*
43479698 TTTTCTATATAAGTTTTCTAAATTTATAAG
1 TTTTCTAAATAAGTTTTCTAAATTTATAAG
*
43479728 TTTTCTAAATAATTTTTCTAAATTTAT
1 TTTTCTAAATAAGTTTTCTAAATTTAT
43479755 TAGTATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (30 bp):
TTTTCTAAATAAGTTTTCTAAATTTATAAG
Found at i:43479748 original size:13 final size:13
Alignment explanation
Indices: 43479698--43479750 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
43479688 TATTGTTTTA
*
43479698 TTTTCTATATAAG
1 TTTTCTAAATAAG
43479711 TTTTCTAAATTTATAAG
1 TTTTCT-AA---ATAAG
*
43479728 TTTTCTAAATAAT
1 TTTTCTAAATAAG
43479741 TTTTCTAAAT
1 TTTTCTAAAT
43479751 TTATTAGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
13 20 0.59
14 1 0.03
16 2 0.06
17 11 0.32
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.55
Consensus pattern (13 bp):
TTTTCTAAATAAG
Found at i:43479781 original size:15 final size:15
Alignment explanation
Indices: 43479746--43479785 Score: 71
Period size: 16 Copynumber: 2.6 Consensus size: 15
43479736 ATAATTTTTC
43479746 TAAATTTATTAGTAT
1 TAAATTTATTAGTAT
43479761 TAAAATTTATTAGTAT
1 T-AAATTTATTAGTAT
43479777 TAAATTTAT
1 TAAATTTAT
43479786 AATTTTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (15 bp):
TAAATTTATTAGTAT
Found at i:43479844 original size:15 final size:15
Alignment explanation
Indices: 43479824--43479942 Score: 57
Period size: 15 Copynumber: 7.6 Consensus size: 15
43479814 TTATTCGCTT
43479824 ACATAATACATAATA
1 ACATAATACATAATA
43479839 ACATAATACATAACTTA
1 ACATAATACATAA--TA
* * *
43479856 TATATAAGCTTGCATAACTT
1 -ACATAA---TACATAA-TA
* *
43479876 ACATAATAACTTCCATA
1 ACATAAT-ACAT-AATA
* *
43479893 AC-TTATATATAATA
1 ACATAATACATAATA
*
43479907 ACATAAT--A-AATT
1 ACATAATACATAATA
43479919 ACATAATACATAATA
1 ACATAATACATAATA
43479934 ACATAATAC
1 ACATAATAC
43479943 CTAACTTATA
Statistics
Matches: 76, Mismatches: 16, Indels: 24
0.66 0.14 0.21
Matches are distributed among these distances:
12 10 0.13
13 1 0.01
14 6 0.08
15 30 0.39
16 4 0.05
17 7 0.09
18 6 0.08
19 5 0.07
20 1 0.01
21 6 0.08
ACGTcount: A:0.51, C:0.15, G:0.02, T:0.32
Consensus pattern (15 bp):
ACATAATACATAATA
Found at i:43479873 original size:21 final size:20
Alignment explanation
Indices: 43479847--43479904 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 20
43479837 TAACATAATA
*
43479847 CATAACTTATATATAAGCTTG
1 CATAACTTATATATAA-CTTC
*
43479868 CATAACTTACATAATAACTTC
1 CATAACTTATAT-ATAACTTC
43479889 CATAACTTATATATAA
1 CATAACTTATATATAA
43479905 TAACATAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.12
21 25 0.76
22 4 0.12
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (20 bp):
CATAACTTATATATAACTTC
Found at i:43479968 original size:21 final size:21
Alignment explanation
Indices: 43479944--43480018 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
43479934 ACATAATACC
* *
43479944 TAACTTATAT-ATAAGCTTGCA
1 TAACTTACATAATAA-CTTCCA
43479965 TAACTTACATAATAACTTCCA
1 TAACTTACATAATAACTTCCA
** **
43479986 TAACTTA-ATACACCACTTAAA
1 TAACTTACATA-ATAACTTCCA
43480007 TAACTTACATAA
1 TAACTTACATAA
43480019 CTTACATAGC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
20 3 0.07
21 35 0.78
22 7 0.16
ACGTcount: A:0.44, C:0.20, G:0.03, T:0.33
Consensus pattern (21 bp):
TAACTTACATAATAACTTCCA
Found at i:43480018 original size:9 final size:9
Alignment explanation
Indices: 43480000--43480618 Score: 202
Period size: 9 Copynumber: 72.3 Consensus size: 9
43479990 TTAATACACC
*
43480000 ACTTAAATA
1 ACTTACATA
43480009 ACTTACATA
1 ACTTACATA
43480018 ACTTACATA
1 ACTTACATA
*
43480027 GCTTACATA
1 ACTTACATA
*
43480036 AC-T-CATT
1 ACTTACATA
43480043 ACTTACATA
1 ACTTACATA
*
43480052 ACATACATA
1 ACTTACATA
43480061 A--TACATA
1 ACTTACATA
43480068 ACTTACATA
1 ACTTACATA
**
43480077 AAATAC--A
1 ACTTACATA
43480084 ACTTACATA
1 ACTTACATA
*
43480093 TCTTACATA
1 ACTTACATA
43480102 A--TACATA
1 ACTTACATA
*
43480109 ACTTATATA
1 ACTTACATA
43480118 A--TACA-A
1 ACTTACATA
*
43480124 CACTTACAGA
1 -ACTTACATA
* *
43480134 AATTAAATA
1 ACTTACATA
*
43480143 ACTTGCATA
1 ACTTACATA
*
43480152 A--AACATA
1 ACTTACATA
* *
43480159 GCCTACATA
1 ACTTACATA
*
43480168 ACTTATATA
1 ACTTACATA
*
43480177 ACTTTCATA
1 ACTTACATA
**
43480186 AAATAC--A
1 ACTTACATA
43480193 ACTTACATA
1 ACTTACATA
**
43480202 TTTTACATAAA
1 ACTTACAT--A
43480213 ACTTACATA
1 ACTTACATA
43480222 A--TACA-A
1 ACTTACATA
43480228 CACTTACATA
1 -ACTTACATA
*
43480238 ACTTAAATA
1 ACTTACATA
*
43480247 ACTTGCATA
1 ACTTACATA
43480256 A--TACATA
1 ACTTACATA
43480263 GAC-TACATA
1 -ACTTACATA
** *
43480272 ACTTATTTTT
1 ACTTA-CATA
*
43480282 CCTTACATA
1 ACTTACATA
43480291 A--TACA-A
1 ACTTACATA
*
43480297 CACTTACACA
1 -ACTTACATA
*
43480307 ACTTAAATA
1 ACTTACATA
*
43480316 ACTTGCATA
1 ACTTACATA
*
43480325 A--TACACA
1 ACTTACATA
* *
43480332 GCCTACATA
1 ACTTACATA
*
43480341 ACTTA-ATTTG
1 ACTTACA--TA
*
43480351 CCTTACATA
1 ACTTACATA
43480360 A--TACA-A
1 ACTTACATA
43480366 CACTTACATA
1 -ACTTACATA
*
43480376 ACTTAAATA
1 ACTTACATA
*
43480385 ACTTGCATA
1 ACTTACATA
43480394 A--TACATA
1 ACTTACATA
43480401 GAC-TACATA
1 -ACTTACATA
** *
43480410 ACTTATTTTT
1 ACTTA-CATA
*
43480420 CCTTACATA
1 ACTTACATA
43480429 A--TACA-A
1 ACTTACATA
*
43480435 CACTTACACA
1 -ACTTACATA
*
43480445 ACTTAAATA
1 ACTTACATA
*
43480454 ACTTGCATA
1 ACTTACATA
*
43480463 A--TACACA
1 ACTTACATA
* *
43480470 GCCTACATA
1 ACTTACATA
*
43480479 ACTTA-ATTTG
1 ACTTACA--TA
*
43480489 CCTTACATA
1 ACTTACATA
43480498 A--TACA-A
1 ACTTACATA
43480504 CACTTACATA
1 -ACTTACATA
43480514 ACTTACATA
1 ACTTACATA
**
43480523 GGTTACATA
1 ACTTACATA
*
43480532 A--TACACA
1 ACTTACATA
*
43480539 ACTTAAATA
1 ACTTACATA
*
43480548 ACTTATATA
1 ACTTACATA
43480557 A--TACATA
1 ACTTACATA
43480564 ACTTACATA
1 ACTTACATA
* *
43480573 ATTTACTTA
1 ACTTACATA
43480582 A--TACATA
1 ACTTACATA
* *
43480589 A-ATATATA
1 ACTTACATA
* *
43480597 TCATATCATA
1 ACTTA-CATA
43480607 ACTTACATA
1 ACTTACATA
43480616 ACT
1 ACT
43480619 CATTTAATTT
Statistics
Matches: 441, Mismatches: 106, Indels: 126
0.66 0.16 0.19
Matches are distributed among these distances:
6 6 0.01
7 98 0.22
8 15 0.03
9 281 0.64
10 32 0.07
11 9 0.02
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:43480049 original size:16 final size:17
Alignment explanation
Indices: 43480009--43480276 Score: 84
Period size: 16 Copynumber: 15.8 Consensus size: 17
43479999 CACTTAAATA
43480009 ACTTACATAACTTACAT
1 ACTTACATAACTTACAT
43480026 AGCTTACATAAC-T-CATT
1 A-CTTACATAACTTACA-T
*
43480043 ACTTACATAACATACAT
1 ACTTACATAACTTACAT
*
43480060 A-ATACATAACTTACAT
1 ACTTACATAACTTACAT
**
43480076 AAAATAC--AACTTACAT
1 -ACTTACATAACTTACAT
43480092 ATCTTACATAA--TACAT
1 A-CTTACATAACTTACAT
* *
43480108 AACTTATATAA--TACAAC
1 -ACTTACATAACTTAC-AT
* * *
43480125 ACTTACAGAAATTAAAT
1 ACTTACATAACTTACAT
* *
43480142 AACTTGCATAA--AACAT
1 -ACTTACATAACTTACAT
* *
43480158 AGCCTACATAACTTATAT
1 A-CTTACATAACTTACAT
* **
43480176 AACTTTCATAAAATACA-
1 -ACTTACATAACTTACAT
**
43480193 ACTTACATATTTTACAT
1 ACTTACATAACTTACAT
*
43480210 AAAACTTACATAA--TACAAC
1 ---ACTTACATAACTTAC-AT
*
43480229 ACTTACATAACTTAAAT
1 ACTTACATAACTTACAT
*
43480246 AACTTGCATAA--TACAT
1 -ACTTACATAACTTACAT
43480262 AGAC-TACATAACTTA
1 --ACTTACATAACTTA
43480277 TTTTTCCTTA
Statistics
Matches: 187, Mismatches: 35, Indels: 57
0.67 0.13 0.20
Matches are distributed among these distances:
15 2 0.01
16 103 0.55
17 14 0.07
18 57 0.30
19 2 0.01
20 9 0.05
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.31
Consensus pattern (17 bp):
ACTTACATAACTTACAT
Found at i:43480102 original size:34 final size:34
Alignment explanation
Indices: 43480055--43480564 Score: 142
Period size: 34 Copynumber: 14.7 Consensus size: 34
43480045 TTACATAACA
43480055 TACATAA--TACATAACTTACATAAAATACAACT
1 TACATAACTTACATAACTTACATAAAATACAACT
* * *
43480087 TACATATCTTACATAATACATAACTTATATAATACAACACT
1 TACATAACTTACAT-A-AC-TTAC--ATAAAATAC-A-ACT
* * * * * * * *
43480128 TACAGAAATTAAATAACTTGCATAAAACATAGCC
1 TACATAACTTACATAACTTACATAAAATACAACT
* *
43480162 TACATAACTTATATAACTTTCATAAAATACAACT
1 TACATAACTTACATAACTTACATAAAATACAACT
**
43480196 TACATATTTTACATAAAACTTACAT--AATACAACACT
1 TACATAACTTACAT--AACTTACATAAAATAC-A-ACT
* * *
43480232 TACATAACTTAAATAACTTGCATAATACATA-GAC-
1 TACATAACTTACATAACTTACATAA-A-ATACAACT
** **
43480266 TACATAACTTATTTTTCCTTACAT--AATACAACACT
1 TACATAACTTA-CATAACTTACATAAAATAC-A-ACT
* * * * * * *
43480301 TACACAACTTAAATAACTTGCATAATACACAGCC
1 TACATAACTTACATAACTTACATAAAATACAACT
**
43480335 TACATAACTTA-ATTTGCCTTACAT--AATACAACACT
1 TACATAACTTACA--TAACTTACATAAAATAC-A-ACT
* * *
43480370 TACATAACTTAAATAACTTGCATAATACATA-GAC-
1 TACATAACTTACATAACTTACATAA-A-ATACAACT
** **
43480404 TACATAACTTATTTTTCCTTACAT--AATACAACACT
1 TACATAACTTA-CATAACTTACATAAAATAC-A-ACT
* * * * * * *
43480439 TACACAACTTAAATAACTTGCATAATACACAGCC
1 TACATAACTTACATAACTTACATAAAATACAACT
**
43480473 TACATAACTTA-ATTTGCCTTACAT--AATACAACACT
1 TACATAACTTACA--TAACTTACATAAAATAC-A-ACT
** * *
43480508 TACATAACTTACATAGGTTACATAATACACAACT
1 TACATAACTTACATAACTTACATAAAATACAACT
* *
43480542 TAAATAACTTATATAA--TACATAA
1 TACATAACTTACATAACTTACATAA
43480565 CTTACATAAT
Statistics
Matches: 340, Mismatches: 91, Indels: 94
0.65 0.17 0.18
Matches are distributed among these distances:
31 6 0.02
32 15 0.04
33 8 0.02
34 150 0.44
35 82 0.24
36 41 0.12
37 5 0.01
38 8 0.02
39 10 0.03
40 2 0.01
41 13 0.04
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.32
Consensus pattern (34 bp):
TACATAACTTACATAACTTACATAAAATACAACT
Found at i:43480111 original size:25 final size:26
Alignment explanation
Indices: 43480006--43480276 Score: 119
Period size: 25 Copynumber: 10.7 Consensus size: 26
43479996 CACCACTTAA
*
43480006 ATAACTTACATAACTTACATAGCTTAC
1 ATAACTTACATAACTTACATA-CATAC
*
43480033 ATAAC-T-CATTACTTACATAACATAC
1 ATAACTTACATAACTTACAT-ACATAC
*
43480058 ATAA--TACATAACTTACATAAAATAC
1 ATAACTTACATAACTTACAT-ACATAC
*
43480083 --AACTTACATATCTTACATA-ATAC
1 ATAACTTACATAACTTACATACATAC
*
43480106 ATAACTTATATAA--TACA-ACACTTAC
1 ATAACTTACATAACTTACATACA--TAC
* * * * *
43480131 AGAAATTAAATAACTTGCATA-AAAC
1 ATAACTTACATAACTTACATACATAC
* * * * *
43480156 ATAGCCTACATAACTTATATAACTTTC
1 ATAACTTACATAACTTACAT-ACATAC
** **
43480183 ATAAAATAC--AACTTACATATTTTAC
1 ATAACTTACATAACTTACATA-CATAC
43480208 ATAAAACTTACATAA--TACA-ACACTTAC
1 AT--AACTTACATAACTTACATACA--TAC
* *
43480235 ATAACTTAAATAACTTGCATA-ATAC
1 ATAACTTACATAACTTACATACATAC
43480260 ATAGAC-TACATAACTTA
1 ATA-ACTTACATAACTTA
43480277 TTTTTCCTTA
Statistics
Matches: 183, Mismatches: 36, Indels: 52
0.68 0.13 0.19
Matches are distributed among these distances:
22 1 0.01
23 11 0.06
24 3 0.02
25 124 0.68
26 6 0.03
27 34 0.19
28 2 0.01
29 2 0.01
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.31
Consensus pattern (26 bp):
ATAACTTACATAACTTACATACATAC
Found at i:43480312 original size:69 final size:69
Alignment explanation
Indices: 43480214--43480553 Score: 529
Period size: 69 Copynumber: 4.9 Consensus size: 69
43480204 TTACATAAAA
*
43480214 CTTACATAATACAACACTTACATAACTTAAATAACTTGCATAATACATAGACTACATAACTTATT
1 CTTACATAATACAACACTTACATAACTTAAATAACTTGCATAATACACAGACTACATAACTTATT
*
43480279 TTTC
66 TTGC
* * *
43480283 CTTACATAATACAACACTTACACAACTTAAATAACTTGCATAATACACAGCCTACATAACTTAAT
1 CTTACATAATACAACACTTACATAACTTAAATAACTTGCATAATACACAGACTACATAACTTATT
43480348 TTGC
66 TTGC
*
43480352 CTTACATAATACAACACTTACATAACTTAAATAACTTGCATAATACATAGACTACATAACTTATT
1 CTTACATAATACAACACTTACATAACTTAAATAACTTGCATAATACACAGACTACATAACTTATT
*
43480417 TTTC
66 TTGC
* * *
43480421 CTTACATAATACAACACTTACACAACTTAAATAACTTGCATAATACACAGCCTACATAACTTAAT
1 CTTACATAATACAACACTTACATAACTTAAATAACTTGCATAATACACAGACTACATAACTTATT
43480486 TTGC
66 TTGC
* ** * *
43480490 CTTACATAATACAACACTTACATAACTTACATAGGTTACATAATACACA-ACTTAAATAACTTAT
1 CTTACATAATACAACACTTACATAACTTAAATAACTTGCATAATACACAGAC-TACATAACTTAT
43480554 ATAATACATA
Statistics
Matches: 247, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
68 1 0.00
69 246 1.00
ACGTcount: A:0.43, C:0.22, G:0.04, T:0.32
Consensus pattern (69 bp):
CTTACATAATACAACACTTACATAACTTAAATAACTTGCATAATACACAGACTACATAACTTATT
TTGC
Found at i:43480365 original size:138 final size:138
Alignment explanation
Indices: 43480214--43480553 Score: 610
Period size: 138 Copynumber: 2.5 Consensus size: 138
43480204 TTACATAAAA
43480214 CTTACATAATACAACACTTACATAACTTAAATAACTTGCATAATACATAGACTACATAACTTATT
1 CTTACATAATACAACACTTACATAACTTAAATAACTTGCATAATACATAGACTACATAACTTATT
43480279 TTTCCTTACATAATACAACACTTACACAACTTAAATAACTTGCATAATACACAGCCTACATAACT
66 TTTCCTTACATAATACAACACTTACACAACTTAAATAACTTGCATAATACACAGCCTACATAACT
43480344 TAATTTGC
131 TAATTTGC
43480352 CTTACATAATACAACACTTACATAACTTAAATAACTTGCATAATACATAGACTACATAACTTATT
1 CTTACATAATACAACACTTACATAACTTAAATAACTTGCATAATACATAGACTACATAACTTATT
43480417 TTTCCTTACATAATACAACACTTACACAACTTAAATAACTTGCATAATACACAGCCTACATAACT
66 TTTCCTTACATAATACAACACTTACACAACTTAAATAACTTGCATAATACACAGCCTACATAACT
43480482 TAATTTGC
131 TAATTTGC
* ** * * *
43480490 CTTACATAATACAACACTTACATAACTTACATAGGTTACATAATACACA-ACTTAAATAACTTAT
1 CTTACATAATACAACACTTACATAACTTAAATAACTTGCATAATACATAGAC-TACATAACTTAT
43480554 ATAATACATA
Statistics
Matches: 195, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
137 2 0.01
138 193 0.99
ACGTcount: A:0.43, C:0.22, G:0.04, T:0.32
Consensus pattern (138 bp):
CTTACATAATACAACACTTACATAACTTAAATAACTTGCATAATACATAGACTACATAACTTATT
TTTCCTTACATAATACAACACTTACACAACTTAAATAACTTGCATAATACACAGCCTACATAACT
TAATTTGC
Found at i:43480536 original size:25 final size:25
Alignment explanation
Indices: 43480508--43480589 Score: 101
Period size: 25 Copynumber: 3.3 Consensus size: 25
43480498 ATACAACACT
**
43480508 TACATAACTTACATAGGTTACATAA
1 TACATAACTTACATAACTTACATAA
* * *
43480533 TACACAACTTAAATAACTTATATAA
1 TACATAACTTACATAACTTACATAA
* *
43480558 TACATAACTTACATAATTTACTTAA
1 TACATAACTTACATAACTTACATAA
43480583 TACATAA
1 TACATAA
43480590 ATATATATCA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:43480892 original size:7 final size:7
Alignment explanation
Indices: 43480880--43480905 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
43480870 AATTGTTGAT
43480880 GGGTTTA
1 GGGTTTA
43480887 GGGTTTA
1 GGGTTTA
43480894 GGGTTTA
1 GGGTTTA
43480901 GGGTT
1 GGGTT
43480906 ATAAAAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.46, T:0.42
Consensus pattern (7 bp):
GGGTTTA
Found at i:43490048 original size:20 final size:19
Alignment explanation
Indices: 43490002--43490053 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
43489992 AAAAAATCTT
*
43490002 AAAATATTTAACAATTACA
1 AAAATATTTAAAAATTACA
43490021 AAAATATTTAAAAATTACA
1 AAAATATTTAAAAATTACA
43490040 AAAATTATTTAAAA
1 AAAA-TATTTAAAA
43490054 TAAAATAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 22 0.71
20 9 0.29
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATATTTAAAAATTACA
Found at i:43490139 original size:10 final size:10
Alignment explanation
Indices: 43490124--43490151 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
43490114 ATCAAAATAT
43490124 TAAAATTTAC
1 TAAAATTTAC
43490134 TAAAATTTAC
1 TAAAATTTAC
43490144 TAAAATTT
1 TAAAATTT
43490152 TTAAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (10 bp):
TAAAATTTAC
Found at i:43490158 original size:9 final size:9
Alignment explanation
Indices: 43490123--43490194 Score: 54
Period size: 10 Copynumber: 7.6 Consensus size: 9
43490113 TATCAAAATA
43490123 TTAAAATTT
1 TTAAAATTT
*
43490132 ACTAAAATTT
1 -TTAAAATTT
*
43490142 ACTAAAATTT
1 -TTAAAATTT
*
43490152 TTAAAATATA
1 TTAAAAT-TT
*
43490162 TTAAAAATT
1 TTAAAATTT
* *
43490171 TTAATATTC
1 TTAAAATTT
43490180 TTAAAATTT
1 TTAAAATTT
43490189 TATAAA
1 T-TAAA
43490195 TCATATTTGT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
9 21 0.42
10 29 0.58
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (9 bp):
TTAAAATTT
Found at i:43490158 original size:19 final size:19
Alignment explanation
Indices: 43490124--43490174 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
43490114 ATCAAAATAT
* *
43490124 TAAAATTTACTAAAATTTAC
1 TAAAATTT-TTAAAATATAC
*
43490144 TAAAATTTTTAAAATATAT
1 TAAAATTTTTAAAATATAC
*
43490163 TAAAAATTTTAA
1 TAAAATTTTTAA
43490175 TATTCTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (19 bp):
TAAAATTTTTAAAATATAC
Found at i:43490195 original size:9 final size:8
Alignment explanation
Indices: 43490117--43490195 Score: 50
Period size: 9 Copynumber: 8.6 Consensus size: 8
43490107 AATAGATATC
*
43490117 AAAATATT
1 AAAATTTT
43490125 AAAATTTACT
1 AAAATTT--T
43490135 AAAATTTACT
1 AAAATTT--T
43490145 AAAATTTTT
1 AAAA-TTTT
43490154 AAAATATATT
1 AAAAT-T-TT
43490164 AAAAATTTT
1 -AAAATTTT
*
43490173 AATATTCTT
1 AAAATT-TT
43490182 AAAATTTT
1 AAAATTTT
43490190 ATAAAT
1 A-AAAT
43490196 CATATTTGTT
Statistics
Matches: 60, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
8 15 0.25
9 19 0.32
10 18 0.30
11 8 0.13
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (8 bp):
AAAATTTT
Found at i:43500329 original size:20 final size:19
Alignment explanation
Indices: 43500286--43500322 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
43500276 CAAAAAATTG
43500286 TAAAAATTATTTTTAAAAAT
1 TAAAAATTA-TTTTAAAAAT
43500306 TAAAAATTA-TTTAAAAA
1 TAAAAATTATTTTAAAAA
43500323 GTATAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TAAAAATTATTTTAAAAAT
Found at i:43504311 original size:30 final size:28
Alignment explanation
Indices: 43504258--43504325 Score: 84
Period size: 30 Copynumber: 2.4 Consensus size: 28
43504248 TCACATCTAT
43504258 AATTAATTAAAATTTTAAAAATA-TAGAA
1 AATTAATTAAAATTTTAAAAATATTA-AA
* *
43504286 AATTATTTAAATATTTTGTAAAATATTAAA
1 AATTAATTAAA-ATTTT-AAAAATATTAAA
43504316 AATTAATTAA
1 AATTAATTAA
43504326 TAGTTCATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.29
29 5 0.15
30 17 0.50
31 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (28 bp):
AATTAATTAAAATTTTAAAAATATTAAA
Found at i:43506650 original size:114 final size:114
Alignment explanation
Indices: 43506325--43506909 Score: 523
Period size: 114 Copynumber: 5.1 Consensus size: 114
43506315 TAAAACCTGA
* * * *
43506325 AGAACTAGTGGCGTTTCTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTA-TTGTAAGC
1 AGAATTAGTGGCGTTTTTTAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGGAAGC
* *
43506389 GCCGCAAAATACCTTAACCAAAACGCAGCGTTGGTTCAATT---GTATATT
66 GCCGCAAAATACCTTAACCAAAACGCAGCGTTTGATC--TTGAGGTATATT
* ** * * *****
43506437 AGAATTCGTGGCGTTTTTTTATAAAAAACGCCGCGAAAGAATAGT-ATTAGCGGCGTTTAACAAA
1 AGAATTAGTGGCG--TTTTT-TAAAAAACGCCGTAAAAGAACA-TAATTAGTGGCGTTTATTTGG
* * ** * * *
43506501 AAGCACCGC-AAATATCTTAAGGAAAACGCACCGTTTTATCTTGAGGTAGATT
62 AAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGATCTTGAGGTATATT
* *
43506553 A-ATATTAGTGGCGTTTTTTAAAAAACGCCGTAAAAGAACATAATTAGTGGCATTTATTTGGATG
1 AGA-ATTAGTGGCGTTTTTTAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGGAAG
* ** *
43506617 CGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGT-TCAATTGTATATT
65 CGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGATCTTGA-GGTATATT
* ** * * * *
43506667 AGACATT-GTGGCGTTTTCTGTAAAACGCCGCAAAAGAATAGT-ATTAGCGGCG-TT-TTCGGTA
1 AGA-ATTAGTGGCGTTTTTTAAAAAACGCCGTAAAAGAACA-TAATTAGTGGCGTTTATTTGG--
* ** * * *
43506728 AAGCGCCGC-AAATATCTTAATGAAAACGCACCGTTTCATCTTGAGGTAGATT
62 AAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGATCTTGAGGTATATT
* ** *
43506780 AGTATTAGTGGCG-TTTTTAGAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTTTATG
1 AGAATTAGTGGCGTTTTTTA-AAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGGAAG
* *
43506844 CGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATT
65 CGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGATCTTGAGGTATATT
43506894 AGAATTAGTGGCGTTT
1 AGAATTAGTGGCGTTT
43506910 ACGATAAAAC
Statistics
Matches: 365, Mismatches: 84, Indels: 45
0.74 0.17 0.09
Matches are distributed among these distances:
112 24 0.07
113 116 0.32
114 135 0.37
115 65 0.18
116 25 0.07
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (114 bp):
AGAATTAGTGGCGTTTTTTAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGGAAGC
GCCGCAAAATACCTTAACCAAAACGCAGCGTTTGATCTTGAGGTATATT
Found at i:43506742 original size:227 final size:229
Alignment explanation
Indices: 43506330--43506909 Score: 879
Period size: 227 Copynumber: 2.5 Consensus size: 229
43506320 CCTGAAGAAC
* * *
43506330 TAGTGGCGTTTCTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTA-TTGTAAGCGCCGC
1 TAGTGGCGTTTTTTAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCGC
*
43506394 AAAATACCTTAACCAAAACGCAGCG-TTGGTTCAATTGTATATTAGAATTCGTGGCGTTTTTTTA
66 AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAATTGTATATTAGAATTCGTGGCGTTTTTCTA
*
43506458 TAAAAAACGCCGCGAAAGAATAGTATTAGCGGCGTTTAACAAAAAGCACCGCAAATATCTTAAGG
131 T-AAAAACGCCGCAAAAGAATAGTATTAGCGGCGTTTAACAAAAAGCACCGCAAATATCTTAAGG
*
43506523 AAAACGCACCGTTTTATCTTGAGGTAGATTAATAT
195 AAAACGCACCGTTTCATCTTGAGGTAGATTAATAT
* *
43506558 TAGTGGCGTTTTTTAAAAAACGCCGTAAAAGAACATAATTAGTGGCATTTATTTGGATGCGCCGC
1 TAGTGGCGTTTTTTAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCGC
43506623 AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAATTGTATATTAGACATT-GTGGCG-TTTTCT
66 AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAATTGTATATTAGA-ATTCGTGGCGTTTTTCT
* * ** * *
43506686 GT-AAAACGCCGCAAAAGAATAGTATTAGCGGCGTTT-TCGGTAAAGCGCCGCAAATATCTTAAT
130 ATAAAAACGCCGCAAAAGAATAGTATTAGCGGCGTTTAAC-AAAAAGCACCGCAAATATCTTAAG
*
43506749 GAAAACGCACCGTTTCATCTTGAGGTAGATTAGTAT
194 GAAAACGCACCGTTTCATCTTGAGGTAGATTAATAT
*
43506785 TAGTGGCG-TTTTTAGAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTTTATGCGCCG
1 TAGTGGCGTTTTTTA-AAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCG
** * *
43506849 CAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGA-GGTATATTAGAATTAGTGGCGTTT
65 CAAAATACCTTAACCAAAACGCAGCGTTTGG-TTCAATTGTATATTAGAATTCGTGGCGTTT
43506910 ACGATAAAAC
Statistics
Matches: 323, Mismatches: 21, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
226 10 0.03
227 188 0.58
228 53 0.16
229 42 0.13
230 27 0.08
231 3 0.01
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (229 bp):
TAGTGGCGTTTTTTAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCGC
AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAATTGTATATTAGAATTCGTGGCGTTTTTCTA
TAAAAACGCCGCAAAAGAATAGTATTAGCGGCGTTTAACAAAAAGCACCGCAAATATCTTAAGGA
AAACGCACCGTTTCATCTTGAGGTAGATTAATAT
Found at i:43506960 original size:188 final size:188
Alignment explanation
Indices: 43506709--43507107 Score: 618
Period size: 188 Copynumber: 2.1 Consensus size: 188
43506699 AAAGAATAGT
* * * * *
43506709 ATTAGCGGCGTTTTCGGTAAAGCGCCGCAAATATCTTAATGAAAACGCACCGTTTCATCTTGAGG
1 ATTAGTGGCGTTTACGGTAAAACACCGCAAATATCTTAACGAAAACGCACCGTTTCATCTTGAGG
* *
43506774 TAGATTAGTATTAGTGGCGTTTTTAGAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTT
66 TAGATTAATATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTT
** *
43506839 TTATGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGA
131 GGAAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGA
* **
43506897 ATTAGTGGCGTTTACGATAAAACACCGCAAATATCTTAACGAAAACGCACCGTTTGGTCTTGAGG
1 ATTAGTGGCGTTTACGGTAAAACACCGCAAATATCTTAACGAAAACGCACCGTTTCATCTTGAGG
43506962 TAGATTAATATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTT
66 TAGATTAATATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTT
* * * * *
43507027 GGAAGCGCCGCAAAGTGCCTTAACCAAAATGCAGTGTTTGGTTTTGATGTATATTAGA
131 GGAAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGA
* *
43507085 ATTAGTGGCATTTATGGTAAAAC
1 ATTAGTGGCGTTTACGGTAAAAC
43507108 GCTGCTAAAG
Statistics
Matches: 190, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
188 190 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (188 bp):
ATTAGTGGCGTTTACGGTAAAACACCGCAAATATCTTAACGAAAACGCACCGTTTCATCTTGAGG
TAGATTAATATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTT
GGAAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGA
Found at i:43506993 original size:74 final size:75
Alignment explanation
Indices: 43506846--43507002 Score: 192
Period size: 74 Copynumber: 2.1 Consensus size: 75
43506836 TTTTTATGCG
* * *
43506846 CCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTTTA
1 CCGCAAAATACCTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGCGTTTA
* *
43506911 CGATAAAACA
66 CAAAAAAACA
* *
43506921 CCGC-AAATATCTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGATTA-ATATTAGTGGCGTTT
1 CCGCAAAATACCTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGA-ATTAGTGGCGTTT
** *
43506984 TTAAAAAAACG
65 ACAAAAAAACA
*
43506995 CCGTAAAA
1 CCGCAAAA
43507003 GAACATAATT
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
73 1 0.01
74 61 0.88
75 7 0.10
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (75 bp):
CCGCAAAATACCTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGCGTTTA
CAAAAAAACA
Found at i:43507535 original size:7 final size:7
Alignment explanation
Indices: 43507525--43507575 Score: 79
Period size: 7 Copynumber: 7.6 Consensus size: 7
43507515 GGTTTATGGA
43507525 TTAGGGG
1 TTAGGGG
43507532 TTAGGGG
1 TTAGGGG
*
43507539 TTATGGG
1 TTAGGGG
43507546 TTAGGGG
1 TTAGGGG
43507553 TTAGGGG
1 TTAGGGG
43507560 TTA--GG
1 TTAGGGG
43507565 TTAGGGG
1 TTAGGGG
43507572 TTAG
1 TTAG
43507576 ATGTTAAGAG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
5 5 0.12
7 35 0.88
ACGTcount: A:0.16, C:0.00, G:0.51, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:43507544 original size:21 final size:20
Alignment explanation
Indices: 43507518--43507575 Score: 91
Period size: 21 Copynumber: 2.9 Consensus size: 20
43507508 GATTTAAGGT
43507518 TTATGGATTAGGGGTTAGGGG
1 TTATGG-TTAGGGGTTAGGGG
43507539 TTATGGGTTAGGGGTTAGGGG
1 TTAT-GGTTAGGGGTTAGGGG
43507560 TTA-GGTTAGGGGTTAG
1 TTATGGTTAGGGGTTAG
43507576 ATGTTAAGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 13 0.36
21 21 0.58
22 2 0.06
ACGTcount: A:0.17, C:0.00, G:0.48, T:0.34
Consensus pattern (20 bp):
TTATGGTTAGGGGTTAGGGG
Found at i:43507589 original size:33 final size:33
Alignment explanation
Indices: 43507530--43507597 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
43507520 ATGGATTAGG
* *
43507530 GGTTAGGGGTTATGGGTTAGGGGTTAGGGGTTA
1 GGTTAGGGGTTATGGGTTAAGAGTTAGGGGTTA
* *
43507563 GGTTAGGGGTTA-GATGTTAAGAGTTAGGGTTTA
1 GGTTAGGGGTTATG-GGTTAAGAGTTAGGGGTTA
43507596 GG
1 GG
43507598 ATTTATAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 1 0.03
33 29 0.97
ACGTcount: A:0.19, C:0.00, G:0.47, T:0.34
Consensus pattern (33 bp):
GGTTAGGGGTTATGGGTTAAGAGTTAGGGGTTA
Found at i:43507686 original size:7 final size:7
Alignment explanation
Indices: 43507674--43507770 Score: 131
Period size: 7 Copynumber: 13.9 Consensus size: 7
43507664 TAAATAAGTT
43507674 TTAGGGG
1 TTAGGGG
43507681 TTAGGGG
1 TTAGGGG
*
43507688 TTAGAGG
1 TTAGGGG
* *
43507695 TCATGGG
1 TTAGGGG
*
43507702 TTAAGGG
1 TTAGGGG
43507709 TTAGGGG
1 TTAGGGG
*
43507716 TTAAGGG
1 TTAGGGG
*
43507723 TTAAGGG
1 TTAGGGG
43507730 TTAGGGG
1 TTAGGGG
*
43507737 TTAAGGG
1 TTAGGGG
43507744 TTAGGGG
1 TTAGGGG
43507751 TTAGGGG
1 TTAGGGG
43507758 TTAGGGG
1 TTAGGGG
43507765 TTAGGG
1 TTAGGG
43507771 ATTGGGTTAT
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 79 1.00
ACGTcount: A:0.20, C:0.01, G:0.51, T:0.29
Consensus pattern (7 bp):
TTAGGGG
Found at i:43508014 original size:14 final size:14
Alignment explanation
Indices: 43507995--43508021 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43507985 GATATGCAAT
43507995 ATATAATAATTTGA
1 ATATAATAATTTGA
43508009 ATATAATAATTTG
1 ATATAATAATTTG
43508022 GAATTGTAAA
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:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (14 bp):
ATATAATAATTTGA
Found at i:43508072 original size:18 final size:17
Alignment explanation
Indices: 43508049--43508096 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
43508039 TCAAATTTAC
43508049 AAAAAATAAAATGAAAAT
1 AAAAAATAAAATG-AAAT
* *
43508067 AGAAAATAAAAAGAAAT
1 AAAAAATAAAATGAAAT
43508084 AAAAAACTAAAAT
1 AAAAAA-TAAAAT
43508097 TTTTATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (17 bp):
AAAAAATAAAATGAAAT
Found at i:43508891 original size:198 final size:198
Alignment explanation
Indices: 43508582--43508973 Score: 606
Period size: 198 Copynumber: 2.0 Consensus size: 198
43508572 CGCAATTTTA
* *
43508582 AGAAATTGTTTACAAAAACGGCTCCGTTTTCTTATTTATCTTTAGTGGTGCTTTTAGTACACGCC
1 AGAAATTGTTTACAAAAACGGCTCCGTTTTCTTATTTATCTTTAGTGGCGCTTTTAGTAAACGCC
* * * * ** *
43508647 GCAAAATTATTTTAATTTTTATGGAGACGATGCCGTTTTGTCTAAAACGCCATGAGTTTTAGTTT
66 GCAAAAATATTTTAATTTTTATGGAGACGATGCCGTTTTCTCTAAAACGCAATGACTTAGAGTTA
* *
43508712 ACTAATCGGGGAACGACAGCGTTTGATCATATTACTAGTGGCGCTAGTATATAAACGCCGCAAAG
131 ACTAATCGGGAAACGAAAGCGTTTGATCATATTACTAGTGGCGCTAGTATATAAACGCCGCAAAG
43508777 TAC
196 TAC
** * *
43508780 AGAAATTGTTTAGGAAAACGGCTTCGTTTTCTTATTTA-CTTTTAGTGGCGTTTTTAGTAAACGC
1 AGAAATTGTTTACAAAAACGGCTCCGTTTTCTTATTTATC-TTTAGTGGCGCTTTTAGTAAACGC
*
43508844 CGCAAAAATGTTTTAATTTTTATGGAGACGATGCCGTTTTCTCTAAAACGCAATGACTTAGAGTT
65 CGCAAAAATATTTTAATTTTTATGGAGACGATGCCGTTTTCTCTAAAACGCAATGACTTAGAGTT
* *
43508909 AACTGATCGGGAAACGAAAGCGTTTGATCATATTACTAGTGGCGCTGGTATATAAACGCCGCAAA
130 AACTAATCGGGAAACGAAAGCGTTTGATCATATTACTAGTGGCGCTAGTATATAAACGCCGCAAA
43508974 TAGGTTAATT
Statistics
Matches: 175, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
197 1 0.01
198 174 0.99
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (198 bp):
AGAAATTGTTTACAAAAACGGCTCCGTTTTCTTATTTATCTTTAGTGGCGCTTTTAGTAAACGCC
GCAAAAATATTTTAATTTTTATGGAGACGATGCCGTTTTCTCTAAAACGCAATGACTTAGAGTTA
ACTAATCGGGAAACGAAAGCGTTTGATCATATTACTAGTGGCGCTAGTATATAAACGCCGCAAAG
TAC
Found at i:43509488 original size:10 final size:10
Alignment explanation
Indices: 43509473--43509497 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
43509463 TCGAAAATTG
43509473 CAAAATTGTT
1 CAAAATTGTT
43509483 CAAAATTGTT
1 CAAAATTGTT
43509493 CAAAA
1 CAAAA
43509498 CCATGTCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (10 bp):
CAAAATTGTT
Found at i:43510273 original size:18 final size:19
Alignment explanation
Indices: 43510250--43510293 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
43510240 CAAAAATTTC
*
43510250 TGTTTCTCTAGCA-TGTTA
1 TGTTTCTCTACCATTGTTA
* *
43510268 TGTTTCTGTACCATTTTTA
1 TGTTTCTCTACCATTGTTA
43510287 TGTTTCT
1 TGTTTCT
43510294 TTATTTTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.14, C:0.16, G:0.14, T:0.57
Consensus pattern (19 bp):
TGTTTCTCTACCATTGTTA
Found at i:43510309 original size:7 final size:7
Alignment explanation
Indices: 43510297--43510383 Score: 120
Period size: 7 Copynumber: 12.3 Consensus size: 7
43510287 TGTTTCTTTA
43510297 TTTTCTG
1 TTTTCTG
43510304 TTTTCTG
1 TTTTCTG
43510311 TTTTCTG
1 TTTTCTG
*
43510318 TTTTCTA
1 TTTTCTG
43510325 TTTTCTG
1 TTTTCTG
**
43510332 CATTCTG
1 TTTTCTG
43510339 TTTTCTG
1 TTTTCTG
*
43510346 TTTTCTA
1 TTTTCTG
*
43510353 TTTTTTG
1 TTTTCTG
43510360 TTTTCTG
1 TTTTCTG
43510367 TTTTGCTG
1 TTTT-CTG
43510375 TTTTCTG
1 TTTTCTG
43510382 TT
1 TT
43510384 GAATGAAGTG
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
7 62 0.90
8 7 0.10
ACGTcount: A:0.03, C:0.14, G:0.13, T:0.70
Consensus pattern (7 bp):
TTTTCTG
Found at i:43510326 original size:28 final size:28
Alignment explanation
Indices: 43510295--43510380 Score: 136
Period size: 28 Copynumber: 3.0 Consensus size: 28
43510285 TATGTTTCTT
43510295 TATTTTCTGTTTTCTGTTTTCTGTTTTC
1 TATTTTCTGTTTTCTGTTTTCTGTTTTC
**
43510323 TATTTTCTGCATTCTGTTTTCTGTTTTC
1 TATTTTCTGTTTTCTGTTTTCTGTTTTC
*
43510351 TATTTTTTGTTTTCTGTTTTGCTGTTTTC
1 TATTTTCTGTTTTCTGTTTT-CTGTTTTC
43510380 T
1 T
43510381 GTTGAATGAA
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
28 43 0.83
29 9 0.17
ACGTcount: A:0.05, C:0.14, G:0.12, T:0.70
Consensus pattern (28 bp):
TATTTTCTGTTTTCTGTTTTCTGTTTTC
Found at i:43510907 original size:100 final size:100
Alignment explanation
Indices: 43510786--43511902 Score: 1995
Period size: 100 Copynumber: 11.1 Consensus size: 100
43510776 AATATTAAAA
43510786 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
*
43510851 ATATAATTTTTTAAAATTTATATATTACATTA-TGG
66 ATATAATTTTTTAAAATTTATATATTACATTACT-T
* *
43510886 GAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATGACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
*
43510951 ATATAATTTTTTAAAATTTATATATTACATGACTT
66 ATATAATTTTTTAAAATTTATATATTACATTACTT
43510986 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
* *
43511051 ATATAATTTTTCAAAATTTATATGTTACATTACTT
66 ATATAATTTTTTAAAATTTATATATTACATTACTT
43511086 AAATATATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGT
1 --A-A-ATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGT
*
43511151 ACGAATATAATTTTTTAAAATTTATATATTACATTACTT
62 TCGAATATAATTTTTTAAAATTTATATATTACATTACTT
43511190 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
* *
43511255 ATATAATTTTTCAAAATTTATATGTTACATTACTT
66 ATATAATTTTTTAAAATTTATATATTACATTACTT
43511290 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
43511355 ATATAA-TTTTTAAAATTTATATATTACATTACTT
66 ATATAATTTTTTAAAATTTATATATTACATTACTT
43511389 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
* *
43511454 AGATAATTTTTTAAAATTTATATATTACATGACTT
66 ATATAATTTTTTAAAATTTATATATTACATTACTT
43511489 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
* *
43511554 ATATAATTTTTCAAAATTTATATGTTACATTACTT
66 ATATAATTTTTTAAAATTTATATATTACATTACTT
43511589 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
43511654 ATATAATTTTTTAAAATTTATATATTACATTACTT
66 ATATAATTTTTTAAAATTTATATATTACATTACTT
43511689 AAATATATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGT
1 --A-A-ATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGT
* *
43511754 TCGAAGATAATTTTTTAAAATTTATATATTACATGACTT
62 TCGAATATAATTTTTTAAAATTTATATATTACATTACTT
43511793 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
*
43511858 ATATAATTTTTCAAAATTTATATATTACATTACTT
66 ATATAATTTTTTAAAATTTATATATTACATTACTT
43511893 AAATATATAT
1 AAATATATAT
43511903 TTTTAAGTAT
Statistics
Matches: 977, Mismatches: 30, Indels: 20
0.95 0.03 0.02
Matches are distributed among these distances:
99 96 0.10
100 681 0.70
101 3 0.00
102 4 0.00
103 2 0.00
104 191 0.20
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (100 bp):
AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
ATATAATTTTTTAAAATTTATATATTACATTACTT
Found at i:43510955 original size:59 final size:58
Alignment explanation
Indices: 43510892--43511862 Score: 330
Period size: 52 Copynumber: 19.1 Consensus size: 58
43510882 ATGGGAATAT
43510892 ATATATGTTAATATTTTTACAATTTAATTTAACTTATGACTAATACATATATTGTTCG
1 ATATATGTTAATATTTTTACAATTTAATTTAACTTATGACTAATACATATATTGTTCG
*
43510950 A-ATA---TAAT-TTTTTAAAATTTATATATT-AC--ATGACT--TA-A-ATA----T--
1 ATATATGTTAATATTTTTACAATTTA-AT-TTAACTTATGACTAATACATATATTGTTCG
*
43510992 ATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCG
1 ATATATGTTAATATTTTTACAATTTAATTTAACTTATGACTAATACATATATTGTTCG
* * * * *
43511050 A-ATA---TAAT-TTTTCAAAATTTATATGTT-AC--ATTACT--TAAATATA-T-AT--
1 ATATATGTTAATATTTTTACAATTTA-AT-TTAACTTATGACTAATACATATATTGTTCG
* *
43511096 ATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTACG
1 ATATATGTTAATATTTTTACAATTTAATTTAACTTATGACTAATACATATATTGTTCG
* *
43511154 A-ATA---TAAT-TTTTTAAAATTTATATATT-AC--ATTACT--TA-A-ATA----T--
1 ATATATGTTAATATTTTTACAATTTA-AT-TTAACTTATGACTAATACATATATTGTTCG
*
43511196 ATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCG
1 ATATATGTTAATATTTTTACAATTTAATTTAACTTATGACTAATACATATATTGTTCG
* * *
43511254 A-ATA---TAAT-TTTTCAAAATTTATATGTT-AC--ATTACT--TA-A-ATA----T--
1 ATATATGTTAATATTTTTACAATTTA-AT-TTAACTTATGACTAATACATATATTGTTCG
*
43511296 ATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCG
1 ATATATGTTAATATTTTTACAATTTAATTTAACTTATGACTAATACATATATTGTTCG
* * *
43511354 A-ATA---T-A-ATTTTTAAAATTTATATATT-AC--ATTACTTAA-ATATATATATGTT--
1 ATATATGTTAATATTTTTACAATTTA-AT-TTAACTTATGAC-TAATACATATAT-TGTTCG
* *
43511404 A-ATATT--------TTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCG
1 ATATATGTTAATATTTTTACAATTTAATTTAACTTATGACTAATACATATATTGTTCG
* *
43511453 --A-A-GATAAT-TTTTTAAAATTTATATATT-AC--ATGACT--TA-A-ATA----T--
1 ATATATGTTAATATTTTTACAATTTA-AT-TTAACTTATGACTAATACATATATTGTTCG
*
43511495 ATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCG
1 ATATATGTTAATATTTTTACAATTTAATTTAACTTATGACTAATACATATATTGTTCG
* * *
43511553 A-ATA---TAAT-TTTTCAAAATTTATATGTT-AC--ATTACT--TA-A-ATA----T--
1 ATATATGTTAATATTTTTACAATTTA-AT-TTAACTTATGACTAATACATATATTGTTCG
*
43511595 ATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCG
1 ATATATGTTAATATTTTTACAATTTAATTTAACTTATGACTAATACATATATTGTTCG
* * * *
43511653 A-ATA---TAAT-TTTTTAAAATTTATATATT-AC--ATTACT--TAAATATA-T-AT--
1 ATATATGTTAATATTTTTACAATTTA-AT-TTAACTTATGACTAATACATATATTGTTCG
*
43511699 ATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCG
1 ATATATGTTAATATTTTTACAATTTAATTTAACTTATGACTAATACATATATTGTTCG
* *
43511757 --A-A-GATAAT-TTTTTAAAATTTATATATT-AC--ATGACT--TA-A-ATA----T--
1 ATATATGTTAATATTTTTACAATTTA-AT-TTAACTTATGACTAATACATATATTGTTCG
*
43511799 ATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCG
1 ATATATGTTAATATTTTTACAATTTAATTTAACTTATGACTAATACATATATTGTTCG
43511857 AATATA
1 -ATATA
43511863 ATTTTTCAAA
Statistics
Matches: 696, Mismatches: 45, Indels: 343
0.64 0.04 0.32
Matches are distributed among these distances:
42 4 0.01
43 12 0.02
44 7 0.01
45 16 0.02
46 56 0.08
47 94 0.14
48 66 0.09
49 12 0.02
50 58 0.08
51 41 0.06
52 96 0.14
53 96 0.14
54 78 0.11
55 19 0.03
56 8 0.01
57 21 0.03
58 7 0.01
59 5 0.01
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (58 bp):
ATATATGTTAATATTTTTACAATTTAATTTAACTTATGACTAATACATATATTGTTCG
Found at i:43511337 original size:304 final size:303
Alignment explanation
Indices: 43510788--43511902 Score: 2051
Period size: 304 Copynumber: 3.7 Consensus size: 303
43510778 TATTAAAAAA
*
43510788 ATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGAAT
1 ATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGAAG
* **
43510853 ATAATTTTTTAAAATTTATATATTACATTA-TGGGAATATATATATGTTAATATTTTTACAATTT
66 ATAATTTTTTAAAATTTATATATTACATGACT-TAAATATATATATGTTAATATTTTTACAATTT
* * *
43510917 AATTTAACTTATGACTAATACATATATTGTTCGAATATAATTTTTTAAAATTTATATATTACATG
130 AATTTAACTTATTACTAATACATATATTGTTCGAATATAATTTTTCAAAATTTATATATTACATT
43510982 ACTTAAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGT
195 ACTTAAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGT
*
43511047 TCGAATATAATTTTTCAAAATTTATATGTTACATTACTTAAATAT
260 TCGAATATAATTTTT-AAAATTTATATATTACATTACTTAAATAT
* *
43511092 ATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTACGAAT
1 ATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGAAG
*
43511157 ATAATTTTTTAAAATTTATATATTACATTACTTAAATATATATATGTTAATATTTTTACAATTTA
66 ATAATTTTTTAAAATTTATATATTACATGACTTAAATATATATATGTTAATATTTTTACAATTTA
*
43511222 ATTTAACTTATTACTAATACATATATTGTTCGAATATAATTTTTCAAAATTTATATGTTACATTA
131 ATTTAACTTATTACTAATACATATATTGTTCGAATATAATTTTTCAAAATTTATATATTACATTA
43511287 CTTAAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTT
196 CTTAAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTT
43511352 CGAATATAATTTTTAAAATTTATATATTACATTACTT--A-A-
261 CGAATATAATTTTTAAAATTTATATATTACATTACTTAAATAT
43511391 ATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGAAG
1 ATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGAAG
43511456 ATAATTTTTTAAAATTTATATATTACATGACTTAAATATATATATGTTAATATTTTTACAATTTA
66 ATAATTTTTTAAAATTTATATATTACATGACTTAAATATATATATGTTAATATTTTTACAATTTA
*
43511521 ATTTAACTTATTACTAATACATATATTGTTCGAATATAATTTTTCAAAATTTATATGTTACATTA
131 ATTTAACTTATTACTAATACATATATTGTTCGAATATAATTTTTCAAAATTTATATATTACATTA
43511586 CTTAAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTT
196 CTTAAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTT
43511651 CGAATATAATTTTTTAAAATTTATATATTACATTACTTAAATAT
261 CGAATATAA-TTTTTAAAATTTATATATTACATTACTTAAATAT
43511695 ATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGAAG
1 ATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGAAG
43511760 ATAATTTTTTAAAATTTATATATTACATGACTTAAATATATATATGTTAATATTTTTACAATTTA
66 ATAATTTTTTAAAATTTATATATTACATGACTTAAATATATATATGTTAATATTTTTACAATTTA
43511825 ATTTAACTTATTACTAATACATATATTGTTCGAATATAATTTTTCAAAATTTATATATTACATTA
131 ATTTAACTTATTACTAATACATATATTGTTCGAATATAATTTTTCAAAATTTATATATTACATTA
43511890 CTTAAATATATAT
196 CTTAAATATATAT
43511903 TTTTAAGTAT
Statistics
Matches: 793, Mismatches: 12, Indels: 12
0.97 0.01 0.01
Matches are distributed among these distances:
299 266 0.34
300 29 0.04
301 1 0.00
302 1 0.00
303 23 0.03
304 472 0.60
305 1 0.00
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (303 bp):
ATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGAAG
ATAATTTTTTAAAATTTATATATTACATGACTTAAATATATATATGTTAATATTTTTACAATTTA
ATTTAACTTATTACTAATACATATATTGTTCGAATATAATTTTTCAAAATTTATATATTACATTA
CTTAAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTT
CGAATATAATTTTTAAAATTTATATATTACATTACTTAAATAT
Found at i:43511877 original size:48 final size:48
Alignment explanation
Indices: 43511724--43511877 Score: 138
Period size: 48 Copynumber: 3.1 Consensus size: 48
43511714 TTTACAATTT
* *
43511724 AATTTAACTTATTACTAATACATATATTGTTCGAAGATAATTTTTTAA
1 AATTTAACTTATTACTAATACATATATTGTTCGAATATAATTTTTCAA
* * * *
43511772 AATTTATATATTACATGACTTAA-ATATATATATGTT--AATAT--TTTTACAA
1 AATTTA-A-CTT--ATTAC-TAATACATATAT-TGTTCGAATATAATTTTTCAA
43511821 TTTAATTTAACTTATTACTAATACATATATTGTTCGAATATAATTTTTCAA
1 ---AATTTAACTTATTACTAATACATATATTGTTCGAATATAATTTTTCAA
43511872 AATTTA
1 AATTTA
43511878 TATATTACAT
Statistics
Matches: 82, Mismatches: 10, Indels: 28
0.68 0.08 0.23
Matches are distributed among these distances:
47 7 0.09
48 23 0.28
49 12 0.15
50 4 0.05
51 12 0.15
52 17 0.21
53 7 0.09
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (48 bp):
AATTTAACTTATTACTAATACATATATTGTTCGAATATAATTTTTCAA
Found at i:43511989 original size:13 final size:13
Alignment explanation
Indices: 43511971--43512009 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
43511961 TTTTACTCTT
*
43511971 AATATATTACTTG
1 AATATATTACTTA
43511984 AATATATTACTTA
1 AATATATTACTTA
*
43511997 AATAAATTACTTA
1 AATATATTACTTA
43512010 CTAAAATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (13 bp):
AATATATTACTTA
Found at i:43512041 original size:53 final size:53
Alignment explanation
Indices: 43511977--43512112 Score: 191
Period size: 53 Copynumber: 2.6 Consensus size: 53
43511967 TCTTAATATA
* * *
43511977 TTACTTGAATATATTACTTAAATAAATTACTTACTAAAATTTCGTTAAATTTT
1 TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
* ** * *
43512030 TTACTTAAATATGTTACTCAGTTACATTAATTACTAAAATTTGGTTAAATTTT
1 TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
*
43512083 TTACTTAAATATGTTACTTGAATACATTAC
1 TTACTTAAATATGTTACTTAAATACATTAC
43512113 CCGCTATAAA
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 70 1.00
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (53 bp):
TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
Found at i:43512281 original size:9 final size:9
Alignment explanation
Indices: 43512257--43512507 Score: 157
Period size: 9 Copynumber: 28.8 Consensus size: 9
43512247 TATGTACAAG
43512257 AACTTACAT
1 AACTTACAT
* *
43512266 AATTTACAC
1 AACTTACAT
*
43512275 AACTTACTT
1 AACTTACAT
*
43512284 AACCTACAT
1 AACTTACAT
43512293 AACTTACAT
1 AACTTACAT
43512302 AA--TACA-
1 AACTTACAT
43512308 AAGCTTACAT
1 AA-CTTACAT
* *
43512318 AACTAAAAT
1 AACTTACAT
* *
43512327 AGCTTACAC
1 AACTTACAT
43512336 AACTTACAT
1 AACTTACAT
43512345 AACTTACAT
1 AACTTACAT
*
43512354 AACTTACAG
1 AACTTACAT
* *
43512363 AAGTTATAT
1 AACTTACAT
*
43512372 AATACATA-AT
1 -A-ACTTACAT
43512382 AACTTAC--
1 AACTTACAT
43512389 AACTTACAT
1 AACTTACAT
*
43512398 AACATACAT
1 AACTTACAT
* **
43512407 TACTTTGAT
1 AACTTACAT
43512416 AACTTACAT
1 AACTTACAT
*
43512425 AAGTTACAT
1 AACTTACAT
*
43512434 AA--TACAC
1 AACTTACAT
43512441 AACTTACAT
1 AACTTACAT
** *
43512450 AGTTTACTT
1 AACTTACAT
*
43512459 AA--TACAA
1 AACTTACAT
43512466 AACTTACAT
1 AACTTACAT
43512475 AACTT--AT
1 AACTTACAT
*
43512482 ACACGTACAT
1 A-ACTTACAT
*
43512492 AACCTACAT
1 AACTTACAT
*
43512501 AATTTAC
1 AACTTAC
43512508 TTAATACATA
Statistics
Matches: 181, Mismatches: 45, Indels: 32
0.70 0.17 0.12
Matches are distributed among these distances:
6 2 0.01
7 25 0.14
8 7 0.04
9 136 0.75
10 8 0.04
11 3 0.02
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:43512450 original size:25 final size:25
Alignment explanation
Indices: 43512288--43512480 Score: 131
Period size: 25 Copynumber: 7.4 Consensus size: 25
43512278 TTACTTAACC
43512288 TACATAACTTACATAATACA-AAGCT
1 TACATAACTTACATAATACACAA-CT
* * *
43512313 TACATAACTAAAATAGCTTACACAACT
1 TACATAACTTACATA--ATACACAACT
* *
43512340 TACATAACTTACATAACTTACAGAAGT
1 TACATAACTTACATAA--TACACAACT
*
43512367 TATATAA--TACATAATAACTTACAACT
1 TACATAACTTACATAAT-AC--ACAACT
* * ** *
43512393 TACATAACATACATTACTTTGATAACT
1 TACATAACTTACA-TA-ATACACAACT
*
43512420 TACATAAGTTACATAATACACAACT
1 TACATAACTTACATAATACACAACT
** * *
43512445 TACATAGTTTACTTAATACAAAACT
1 TACATAACTTACATAATACACAACT
43512470 TACATAACTTA
1 TACATAACTTA
43512481 TACACGTACA
Statistics
Matches: 128, Mismatches: 28, Indels: 24
0.71 0.16 0.13
Matches are distributed among these distances:
23 1 0.01
24 2 0.02
25 56 0.44
26 12 0.09
27 48 0.38
28 6 0.05
29 2 0.02
30 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.32
Consensus pattern (25 bp):
TACATAACTTACATAATACACAACT
Found at i:43512518 original size:25 final size:25
Alignment explanation
Indices: 43512414--43512518 Score: 106
Period size: 25 Copynumber: 4.2 Consensus size: 25
43512404 CATTACTTTG
* *
43512414 ATAACTTACATAAGTTACATAATAC
1 ATAACTTACATAATTTACTTAATAC
* *
43512439 ACAACTTACATAGTTTACTTAATAC
1 ATAACTTACATAATTTACTTAATAC
* *
43512464 AAAACTTACATAACTTATAC--ACGTAC
1 ATAACTTACATAA-TT-TACTTA-ATAC
*
43512490 ATAACCTACATAATTTACTTAATAC
1 ATAACTTACATAATTTACTTAATAC
43512515 ATAA
1 ATAA
43512519 ATATATATTA
Statistics
Matches: 65, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
24 3 0.05
25 42 0.65
26 17 0.26
27 3 0.05
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.32
Consensus pattern (25 bp):
ATAACTTACATAATTTACTTAATAC
Found at i:43524409 original size:17 final size:17
Alignment explanation
Indices: 43524387--43524420 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
43524377 CATAGTCCTG
43524387 ATTCAGGCAGTCTATAT
1 ATTCAGGCAGTCTATAT
*
43524404 ATTCAGGTAGTCTATAT
1 ATTCAGGCAGTCTATAT
43524421 TGATATAGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (17 bp):
ATTCAGGCAGTCTATAT
Found at i:43527543 original size:45 final size:47
Alignment explanation
Indices: 43527459--43527552 Score: 129
Period size: 45 Copynumber: 2.0 Consensus size: 47
43527449 ATTAGTCAAT
* *
43527459 TATAAATAATTAATAATAAATACTATATAATTTAGTTAAA-A-TTAG
1 TATAAATAATTAATAATAAATACTATATAATTCAATTAAATATTTAG
* * *
43527504 TATAAATAATTTATAGTAAATACTATGTAATTCAATTAAATATTTAG
1 TATAAATAATTAATAATAAATACTATATAATTCAATTAAATATTTAG
43527551 TA
1 TA
43527553 AAGCAAAATG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
45 35 0.83
46 1 0.02
47 6 0.14
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.41
Consensus pattern (47 bp):
TATAAATAATTAATAATAAATACTATATAATTCAATTAAATATTTAG
Found at i:43535111 original size:6 final size:6
Alignment explanation
Indices: 43535052--43535091 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
43535042 CAGATTAAAA
43535052 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
43535092 AAAGAAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:43535117 original size:18 final size:17
Alignment explanation
Indices: 43535048--43535119 Score: 60
Period size: 18 Copynumber: 4.3 Consensus size: 17
43535038 GGTTCAGATT
*
43535048 AAAAAAAATCAAAATCA
1 AAAAAAAATCAAAAGCA
* *
43535065 AAATCAAAATCAAAATCA
1 AAA-AAAAATCAAAAGCA
**
43535083 AAATCAAA--AAAAG-A
1 AAAAAAAATCAAAAGCA
43535097 AAAGAAAAATCAAAAGCA
1 AAA-AAAAATCAAAAGCA
43535115 AAAAA
1 AAAAA
43535120 GAGAAATCAA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
14 4 0.09
15 7 0.16
17 13 0.30
18 20 0.45
ACGTcount: A:0.75, C:0.11, G:0.04, T:0.10
Consensus pattern (17 bp):
AAAAAAAATCAAAAGCA
Found at i:43535119 original size:20 final size:20
Alignment explanation
Indices: 43535082--43535129 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
43535072 AATCAAAATC
43535082 AAAATCAAAAAAAGAAAAGA
1 AAAATCAAAAAAAGAAAAGA
*
43535102 AAAATCAAAAGCAA-AAAAGA
1 AAAATCAAAA-AAAGAAAAGA
*
43535122 GAAATCAA
1 AAAATCAA
43535130 TCAAAGTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.75, C:0.08, G:0.10, T:0.06
Consensus pattern (20 bp):
AAAATCAAAAAAAGAAAAGA
Found at i:43536965 original size:87 final size:87
Alignment explanation
Indices: 43536815--43537170 Score: 543
Period size: 87 Copynumber: 4.1 Consensus size: 87
43536805 AGATCAGTGA
* * * * *
43536815 AGATCCAAAACAAAGCTTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAA-ATAGCAGGTCTTG
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGATGTAGTGGAGCTGGTT-AAAGATAGCAGATCTTG
*
43536879 CCTTCCTGCATTAACAGCGAAGT
65 CCTTCCTGCATTAACAGCGAAGC
*
43536902 AGATCGAAAACAAAGCCTTGCCTCCATCGGATGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGATGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
43536967 CTTCCTGCATTAACAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* * *
43536989 AGATCGAAAACAAAGCATTGCCTCCATCGGATGTAGTGGAGCTGGTTAAAGATAGAAAATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGATGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
43537054 CTTCCTGCATTAATAGCAAAGC
66 CTTCCTGCATTAACAGCGAAGC
*
43537076 AGATCGAAAACAAAGTCTTGCCTCCATCGGATGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGATGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
** * *
43537141 CTTCCTGTGTTAACAGTGGAGC
66 CTTCCTGCATTAACAGCGAAGC
43537163 AGATCGAA
1 AGATCGAA
43537171 GACGACAAAT
Statistics
Matches: 245, Mismatches: 23, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
86 2 0.01
87 243 0.99
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGATGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCATTAACAGCGAAGC
Found at i:43537230 original size:44 final size:45
Alignment explanation
Indices: 43537154--43537304 Score: 164
Period size: 44 Copynumber: 3.4 Consensus size: 45
43537144 CCTGTGTTAA
*
43537154 CAGTGGAGCAGA-TCGAAGACGACAAATCTTATCTCCCTGAGGTTG
1 CAGTGGAGCAGACT-GAAGAAGACAAATCTTATCTCCCTGAGGTTG
* * * **
43537199 CAGTGGAGCAGACTG-AGAAGACAAGTCTTATCCCCCTGAAGTCA
1 CAGTGGAGCAGACTGAAGAAGACAAATCTTATCTCCCTGAGGTTG
* * * *
43537243 CAGTGGGGCAGACCGAACAAG-CAAATATTATCTCCCTGAGGTTG
1 CAGTGGAGCAGACTGAAGAAGACAAATCTTATCTCCCTGAGGTTG
* *
43537287 CAGTGAAGCAGATTGAAG
1 CAGTGGAGCAGACTGAAG
43537305 TCGATAATCC
Statistics
Matches: 84, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
44 66 0.79
45 17 0.20
46 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (45 bp):
CAGTGGAGCAGACTGAAGAAGACAAATCTTATCTCCCTGAGGTTG
Found at i:43538761 original size:40 final size:40
Alignment explanation
Indices: 43538717--43538898 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 40
43538707 GCTACTCGTT
* *
43538717 CAAATGCCTTCGGGACATAGCCCGGTTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
43538757 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* **
43538797 CCAATGCCTTCGGG-CTTAGCCC-GAAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * * *
43538836 CAAATGCCTTC-GGATCTAAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
43538877 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
43538899 AGACATCATT
Statistics
Matches: 118, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
38 3 0.03
39 29 0.25
40 70 0.59
41 16 0.14
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:43538861 original size:79 final size:80
Alignment explanation
Indices: 43538717--43538898 Score: 194
Period size: 79 Copynumber: 2.3 Consensus size: 80
43538707 GCTACTCGTT
* ** *
43538717 CAAATGCCTTCGGGACATAGCCCG-GTTATAATAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGAAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
43538781 GATTTAGTAAC-TCGCA
64 GATATAGTAACTTAGCA
* *
43538797 CCAATGCCTTCGGG-CTTAGCCCGAAATTAGTAACTCGCACAAATGCCTTC-GGA-TCTAAGTCC
1 -CAAAGCCTTCGGGACTTAGCCCGAAATTAGTAACTCGCACAAATGCCTTCGGGACT-TAA-CCC
* *
43538859 GGATATGGTCACTTAGCA
63 GGATATAGTAACTTAGCA
43538877 CAAAGCCTTCGGGACTTAGCCC
1 CAAAGCCTTCGGGACTTAGCCC
43538899 AGACATCATT
Statistics
Matches: 85, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
77 1 0.01
78 6 0.07
79 53 0.62
80 22 0.26
81 3 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGAAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTTAGCA
Found at i:43540206 original size:56 final size:56
Alignment explanation
Indices: 43540139--43540258 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
43540129 TATTAGTTTA
43540139 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
* *
43540195 TTGCCCATGCTTCTTATTTTATTTTTCCATTAGCACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
43540251 TTGCCCAT
1 TTGCCCAT
43540259 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.22, C:0.23, G:0.10, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:43546107 original size:40 final size:40
Alignment explanation
Indices: 43546063--43546246 Score: 171
Period size: 40 Copynumber: 4.6 Consensus size: 40
43546053 GCTACTCGTT
* *
43546063 CAAATGCCTTCGGGACATAGCCCGGTTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
43546103 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* **
43546143 CCAATGCCTTCGGG-CTTAGCCC-GAAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * * * *
43546182 CAAATGCCTTC-GGATCTAAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
*
43546223 TAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
43546247 ACATCATTCG
Statistics
Matches: 118, Mismatches: 18, Indels: 16
0.78 0.12 0.11
Matches are distributed among these distances:
38 3 0.03
39 29 0.25
40 71 0.60
41 15 0.13
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:43546188 original size:39 final size:39
Alignment explanation
Indices: 43546063--43546194 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 39
43546053 GCTACTCGTT
* * *
43546063 CAAATGCCTTCGGGACATAGCCCGGTTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGATT-TAGTAACTCGCA
*
43546103 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GATTTAGTAACTCGCA
* *
43546143 CCAATGCCTTCGGG-CTTAGCCCGAAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCG-ATTTAGTAACTCGCA
43546182 CAAATGCCTTCGG
1 CAAATGCCTTCGG
43546195 ATCTAAGTCC
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
38 1 0.01
39 33 0.40
40 45 0.55
41 3 0.04
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGATTTAGTAACTCGCA
Found at i:43547553 original size:56 final size:56
Alignment explanation
Indices: 43547486--43547605 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
43547476 TATTAGTTTA
43547486 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
43547542 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
43547598 TTGCCCAT
1 TTGCCCAT
43547606 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:43554754 original size:5 final size:5
Alignment explanation
Indices: 43554744--43554768 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
43554734 TACTCTCTCC
43554744 CTTCT CTTCT CTTCT CTTCT CTTCT
1 CTTCT CTTCT CTTCT CTTCT CTTCT
43554769 TCAACCAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (5 bp):
CTTCT
Found at i:43558803 original size:20 final size:21
Alignment explanation
Indices: 43558752--43558813 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 21
43558742 TTTATTAAAA
* *
43558752 ATTTTAAAAACT-ATAACAAGTT
1 ATTTTAAAAA-TAATAA-AAATC
* *
43558774 ATTTTTAAAA-AATTAAAATC
1 ATTTTAAAAATAATAAAAATC
43558794 ATTTTAAAAATAATAAAAAT
1 ATTTTAAAAATAATAAAAAT
43558814 TATATTATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 12 0.38
21 11 0.34
22 9 0.28
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (21 bp):
ATTTTAAAAATAATAAAAATC
Found at i:43563692 original size:32 final size:32
Alignment explanation
Indices: 43563656--43563755 Score: 104
Period size: 32 Copynumber: 3.3 Consensus size: 32
43563646 TAAATATATA
43563656 AAATTCTAAGAAATAAAATTTAATGAAAAACT
1 AAATTCTAAGAAATAAAATTTAATGAAAAACT
* * * * *
43563688 AAATTCT---AATTTAATTTTAA--ATATA-T
1 AAATTCTAAGAAATAAAATTTAATGAAAAACT
43563714 AAAATTCTAAGAAATAAAATTTAATGAAAAACT
1 -AAATTCTAAGAAATAAAATTTAATGAAAAACT
43563747 AAATTCTAA
1 AAATTCTAA
43563756 TTTAATTTTC
Statistics
Matches: 51, Mismatches: 10, Indels: 14
0.68 0.13 0.19
Matches are distributed among these distances:
26 1 0.02
27 10 0.20
29 10 0.20
30 10 0.20
32 19 0.37
33 1 0.02
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.34
Consensus pattern (32 bp):
AAATTCTAAGAAATAAAATTTAATGAAAAACT
Found at i:43563714 original size:59 final size:59
Alignment explanation
Indices: 43563639--43563764 Score: 252
Period size: 59 Copynumber: 2.1 Consensus size: 59
43563629 AAAATTATTC
43563639 TTAATTTTAAATATATAAAATTCTAAGAAATAAAATTTAATGAAAAACTAAATTCTAAT
1 TTAATTTTAAATATATAAAATTCTAAGAAATAAAATTTAATGAAAAACTAAATTCTAAT
43563698 TTAATTTTAAATATATAAAATTCTAAGAAATAAAATTTAATGAAAAACTAAATTCTAAT
1 TTAATTTTAAATATATAAAATTCTAAGAAATAAAATTTAATGAAAAACTAAATTCTAAT
43563757 TTAATTTT
1 TTAATTTT
43563765 CCTTATTTAC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 67 1.00
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (59 bp):
TTAATTTTAAATATATAAAATTCTAAGAAATAAAATTTAATGAAAAACTAAATTCTAAT
Found at i:43565172 original size:11 final size:10
Alignment explanation
Indices: 43565154--43565193 Score: 71
Period size: 10 Copynumber: 3.9 Consensus size: 10
43565144 AAATAAAAAA
43565154 TAAATTTTTT
1 TAAATTTTTT
43565164 TAAAGTTTTTT
1 TAAA-TTTTTT
43565175 TAAATTTTTT
1 TAAATTTTTT
43565185 TAAATTTTT
1 TAAATTTTT
43565194 AATAATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 19 0.66
11 10 0.34
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (10 bp):
TAAATTTTTT
Found at i:43565178 original size:21 final size:20
Alignment explanation
Indices: 43565154--43565193 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
43565144 AAATAAAAAA
43565154 TAAATTTTTTTAAAGTTTTTT
1 TAAATTTTTTTAAA-TTTTTT
43565175 TAAATTTTTTTAAATTTTT
1 TAAATTTTTTTAAATTTTT
43565194 AATAATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
TAAATTTTTTTAAATTTTTT
Found at i:43565182 original size:8 final size:8
Alignment explanation
Indices: 43565171--43565241 Score: 67
Period size: 7 Copynumber: 8.6 Consensus size: 8
43565161 TTTTAAAGTT
43565171 TTTTTAAA
1 TTTTTAAA
43565179 TTTTTTTAAA
1 --TTTTTAAA
43565189 TTTTTAATAA
1 TTTTT-A-AA
*
43565199 TTTTAATAA
1 TTTTTA-AA
43565208 TTTTTAAA
1 TTTTTAAA
43565216 -TTTTAAA
1 TTTTTAAA
43565223 -TTTTAAA
1 TTTTTAAA
43565230 -TTTTAAA
1 TTTTTAAA
43565237 TTTTT
1 TTTTT
43565242 TTGAATTTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
7 21 0.38
8 11 0.20
9 10 0.18
10 14 0.25
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TTTTTAAA
Found at i:43565227 original size:41 final size:41
Alignment explanation
Indices: 43565182--43565263 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
43565172 TTTTAAATTT
*
43565182 TTTTAAATTTTTAATAATTTT-AATAATTTTT-AAATTTTAAA
1 TTTTAAATTTTAAATAATTTTGAAT--TTTTTAAAATTTTAAA
**
43565223 TTTTAAATTTTAAATTTTTTTGAATTTTTTAAAATTTTAAA
1 TTTTAAATTTTAAATAATTTTGAATTTTTTAAAATTTTAAA
43565264 AAATTAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
40 5 0.14
41 28 0.78
42 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (41 bp):
TTTTAAATTTTAAATAATTTTGAATTTTTTAAAATTTTAAA
Found at i:43565260 original size:8 final size:8
Alignment explanation
Indices: 43565182--43565264 Score: 62
Period size: 8 Copynumber: 10.0 Consensus size: 8
43565172 TTTTAAATTT
*
43565182 TTTTAAAT
1 TTTTAAAA
43565190 TTTTAATAA
1 TTTTAA-AA
43565199 TTTTAATAA
1 TTTTAA-AA
*
43565208 TTTTTAAA
1 TTTTAAAA
43565216 TTTT-AAA
1 TTTTAAAA
43565223 TTTT-AAA
1 TTTTAAAA
*
43565230 TTTTAAATTT
1 TTTTAAA--A
**
43565240 TTTTGAATT
1 TTTT-AAAA
43565249 TTTTAAAA
1 TTTTAAAA
43565257 TTTTAAAA
1 TTTTAAAA
43565265 AATTAATTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
7 14 0.22
8 24 0.38
9 20 0.31
10 4 0.06
11 2 0.03
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (8 bp):
TTTTAAAA
Found at i:43565716 original size:3 final size:3
Alignment explanation
Indices: 43565708--43565746 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
43565698 TTAAAACCCT
*
43565708 AGA AGA AGA AGA AGA AGA AGA AGA AAA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
43565747 GGAGGAGGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:43565751 original size:3 final size:3
Alignment explanation
Indices: 43565745--43565782 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
43565735 AGAAGAAGAA
43565745 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
43565783 AGATGAAGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:43571057 original size:6 final size:6
Alignment explanation
Indices: 43571048--43571082 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
43571038 GATTTTCTCC
43571048 AAAATG AAAATG AAAATG AAAATGG AGAAATG AAA
1 AAAATG AAAATG AAAATG AAAAT-G A-AAATG AAA
43571083 TAATTTAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 19 0.70
7 4 0.15
8 4 0.15
ACGTcount: A:0.66, C:0.00, G:0.20, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:43571111 original size:63 final size:64
Alignment explanation
Indices: 43571000--43571126 Score: 177
Period size: 63 Copynumber: 2.0 Consensus size: 64
43570990 ATAGAAATGG
* *
43571000 TGAAAATGAAGAAATGAGAAACATATGGAAATGATTATGATTTTCTCCAAAATGAAAATGAAAA
1 TGAAAATGAAGAAATGAGAAACATATAGAAATGAATATGATTTTCTCCAAAATGAAAATGAAAA
* * * *
43571064 TGAAAATGGAGAAATGA-AATA-ATTTAGAAATGAATGTGGTTTTCTCCAAAATGAAAATGAAAA
1 TGAAAATGAAGAAATGAGAA-ACATATAGAAATGAATATGATTTTCTCCAAAATGAAAATGAAAA
43571127 AGACTTGAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
63 39 0.70
64 17 0.30
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.26
Consensus pattern (64 bp):
TGAAAATGAAGAAATGAGAAACATATAGAAATGAATATGATTTTCTCCAAAATGAAAATGAAAA
Found at i:43574986 original size:17 final size:16
Alignment explanation
Indices: 43574949--43574987 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
43574939 AATAAGCAAT
43574949 TAAA-TAAATTGGAAA
1 TAAATTAAATTGGAAA
43574964 TAAAATTAAATTGGAAA
1 T-AAATTAAATTGGAAA
43574981 GTAAATT
1 -TAAATT
43574988 TGGATTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.05
16 3 0.14
17 16 0.76
18 1 0.05
ACGTcount: A:0.56, C:0.00, G:0.13, T:0.31
Consensus pattern (16 bp):
TAAATTAAATTGGAAA
Found at i:43583378 original size:82 final size:82
Alignment explanation
Indices: 43583215--43583485 Score: 384
Period size: 82 Copynumber: 3.3 Consensus size: 82
43583205 CCGGCAGGAT
* * * * * *
43583215 TAAATCCCGAAATAGAACTATTTAATTAAATCTTGTTTGGAAA-AAAATCAAAATCGAATAAAAT
1 TAAATCCCGAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATGGAATAAAAT
* *
43583279 CTCTTAAATGGCAGGAA
66 CTGTTAAATGGCGGGAA
* * *
43583296 TAAATCACGAAACAGAATTATTCAATTAATTATCGTGTGGAAACAAAATCAAAATGGAATAAAAT
1 TAAATCCCGAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATGGAATAAAAT
*
43583361 CTGTTGAATGGCGGGAA
66 CTGTTAAATGGCGGGAA
*
43583378 TAAATCCTGAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATGGAATAAAAT
1 TAAATCCCGAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATGGAATAAAAT
* *
43583443 CTGTTCAATGGCGAGAA
66 CTGTTAAATGGCGGGAA
*
43583460 TAAA-CCCGAAACAGAATTGTTCAATT
1 TAAATCCCGAAACAGAATTATTCAATT
43583486 TTAATTTTTT
Statistics
Matches: 169, Mismatches: 20, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
81 55 0.33
82 114 0.67
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (82 bp):
TAAATCCCGAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATGGAATAAAAT
CTGTTAAATGGCGGGAA
Found at i:43586898 original size:9 final size:9
Alignment explanation
Indices: 43586886--43586941 Score: 67
Period size: 10 Copynumber: 5.8 Consensus size: 9
43586876 TAAAAATTTT
43586886 AAAAATATA
1 AAAAATATA
43586895 AAAAATATA
1 AAAAATATA
*
43586904 TAAAATTTATA
1 -AAAA-ATATA
43586915 ACAAAATATA
1 A-AAAATATA
43586925 AAAAACTATA
1 AAAAA-TATA
43586935 AAAAATA
1 AAAAATA
43586942 ACAATACCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 15 0.37
10 19 0.46
11 7 0.17
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (9 bp):
AAAAATATA
Found at i:43587029 original size:20 final size:20
Alignment explanation
Indices: 43587004--43587054 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
43586994 TATAACTTCT
*
43587004 TTTATAAATTTTGTTTATAA
1 TTTATAAATTTTGTTAATAA
*
43587024 TTTATATGA-TTT-TTAATAA
1 TTTATA-AATTTTGTTAATAA
43587043 TTT-TAAATTTTG
1 TTTATAAATTTTG
43587055 AAAGATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 7
0.71 0.09 0.20
Matches are distributed among these distances:
17 1 0.04
18 5 0.20
19 9 0.36
20 9 0.36
21 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (20 bp):
TTTATAAATTTTGTTAATAA
Found at i:43588522 original size:18 final size:19
Alignment explanation
Indices: 43588495--43588530 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
43588485 AATAGTTACT
*
43588495 AAAAATTTATTT-ATAAAC
1 AAAAAATTATTTAATAAAC
43588513 AAAAAATTATTTAATAAA
1 AAAAAATTATTTAATAAA
43588531 AACTATGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAAATTATTTAATAAAC
Found at i:43593666 original size:12 final size:13
Alignment explanation
Indices: 43593649--43593677 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
43593639 AGCATTAAAA
43593649 TCTTTACTTTCT-
1 TCTTTACTTTCTC
43593661 TCTTTACTTTCTC
1 TCTTTACTTTCTC
43593674 TCTT
1 TCTT
43593678 ACTCGTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.07, C:0.28, G:0.00, T:0.66
Consensus pattern (13 bp):
TCTTTACTTTCTC
Found at i:43593968 original size:49 final size:50
Alignment explanation
Indices: 43593907--43594179 Score: 163
Period size: 50 Copynumber: 5.4 Consensus size: 50
43593897 TATGTCCTAG
* * * *
43593907 ACATAGTCTTACATGGGATGTT-TCTTGTA-CTGCCAATTCCATATCCCAA
1 ACATGGTCTTACATGGGA-GTTCTCATATAGCTGCCAATGCCATATCCCAA
* * * *
43593956 ATATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATGCCATGTCCCAA
1 ACATGGTCTTACATGGGAGTTCTCATATAGCTGCCAATGCCATATCCCAA
** ** * * * * ** * * *
43594006 ACATGGTCTTACGGGGGACCTCTTATCTCGGTGCCAGCGCCATGTTCCAT
1 ACATGGTCTTACATGGGAGTTCTCATATAGCTGCCAATGCCATATCCCAA
** * * * * * *
43594056 ACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATGTCCCAG
1 ACATGGTCTTACATGGGAGTTCTCATATAGCTGCCAATGCCATATCCCAA
** * * *
43594106 ACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCCATGTCCCAG
1 ACATGGTCTTACATGGGAGTTCTCAT-A--T--A-GCTGCCAATGCCATATCCCAA
43594162 ACATGGTCTTACATGGGA
1 ACATGGTCTTACATGGGA
43594180 CCTCTTTACC
Statistics
Matches: 184, Mismatches: 32, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
48 3 0.02
49 21 0.11
50 122 0.66
53 1 0.01
56 37 0.20
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (50 bp):
ACATGGTCTTACATGGGAGTTCTCATATAGCTGCCAATGCCATATCCCAA
Found at i:43594065 original size:100 final size:103
Alignment explanation
Indices: 43593958--43594184 Score: 280
Period size: 100 Copynumber: 2.2 Consensus size: 103
43593948 TATCCCAAAT
** * * *
43593958 ATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATGCCATGTCCCAAACATGGTCTTACGGGGG
1 ATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTCCCAAACATGGTCTTACAGGGG
* * * *
43594023 ACCTCT-T-ATCTC-GGTGCCAGCGCCATGTTCCATAC
66 ACCTCTATAATCTCAGATGCCAACGCCATGTCCCAGAC
* * * *
43594058 ATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGG
1 ATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTCCCAAACATGGTCTTACAGGGG
*
43594123 ACCTCTCATAATCTCAATGATGCCAATGCCATGTCCCAGAC
66 ACCTCT-ATAATCTC-A-GATGCCAACGCCATGTCCCAGAC
43594164 ATGGTCTTACATGGGACCTCT
1 ATGGTCTTACATGGGACCTCT
43594185 TTACCCAAAT
Statistics
Matches: 107, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
100 62 0.58
102 1 0.01
103 5 0.05
106 39 0.36
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.28
Consensus pattern (103 bp):
ATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTCCCAAACATGGTCTTACAGGGG
ACCTCTATAATCTCAGATGCCAACGCCATGTCCCAGAC
Found at i:43594154 original size:56 final size:52
Alignment explanation
Indices: 43593958--43594184 Score: 250
Period size: 50 Copynumber: 4.4 Consensus size: 52
43593948 TATCCCAAAT
** * * * * *
43593958 ATGGTCTTACATGGGAGTTCTC-ATAT-AGGTGCCCATGCCATGTCCCAAAC
1 ATGGTCTTACATGGGACCTCTCTATCTCTGGTGCCAACGCCATGTCCCAGAC
** * * *
43594008 ATGGTCTTACGGGGGACCTCT-TATCTC-GGTGCCAGCGCCATGTTCCATAC
1 ATGGTCTTACATGGGACCTCTCTATCTCTGGTGCCAACGCCATGTCCCAGAC
43594058 ATGGTCTTACATGGGACCTCTC-ATCT-TGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCTATCTCTGGTGCCAACGCCATGTCCCAGAC
* *
43594108 ATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTC-T-ATCTC--TGGTGCCAACGCCATGTCCCAGAC
43594164 ATGGTCTTACATGGGACCTCT
1 ATGGTCTTACATGGGACCTCT
43594185 TTACCCAAAT
Statistics
Matches: 150, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
50 103 0.69
53 4 0.03
56 43 0.29
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.28
Consensus pattern (52 bp):
ATGGTCTTACATGGGACCTCTCTATCTCTGGTGCCAACGCCATGTCCCAGAC
Found at i:43600471 original size:14 final size:14
Alignment explanation
Indices: 43600448--43600477 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
43600438 TGGTTTTAGT
43600448 CTGCTCCACTGCAA
1 CTGCTCCACTGCAA
*
43600462 CTGCTTCACTGCAA
1 CTGCTCCACTGCAA
43600476 CT
1 CT
43600478 TCAGAGAGAT
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:0.20, C:0.40, G:0.13, T:0.27
Consensus pattern (14 bp):
CTGCTCCACTGCAA
Found at i:43600696 original size:128 final size:128
Alignment explanation
Indices: 43600468--43601307 Score: 1335
Period size: 128 Copynumber: 6.6 Consensus size: 128
43600458 GCAACTGCTT
* *
43600468 CACTGCAACTTCAGAGAGATAAGG-TTGGTTTCTTCTGTCTACTCCACTACTGCTTAGGGAGATA
1 CACTGCAACTTCAGGGAGAT-AGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGGGAGATA
*
43600532 AGACATGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTC
65 AGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTC
* * *
43600596 CACTGCAACTTCAAGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTACTGAGGGAGATAA
1 CACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGGGAGATAA
* * * * *
43600661 GACTGGATGCGATCTTCTCTACTGCAAGTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTT
66 GACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTC
* * * * * *
43600724 CACTGTAACTTCAAGGAGATAGGAGTGGTTTCTTCTATCTGCTCCATTACTACTTAGGGAGATAA
1 CACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGGGAGATAA
* * *
43600789 GACTTGATGCGATCTGTTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTC
66 GACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTC
* *
43600852 CACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTTTCTGCTCCACTACTACTTAGGGAGATAA
1 CACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGGGAGATAA
* *
43600917 GACTTGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTC
66 GACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTC
* * *
43600980 CACTGCAACTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCTATTACTGCTTAGGGAGATAA
1 CACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGGGAGATAA
*
43601045 GACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTC
66 GACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTC
* * *
43601108 CACTGCAACTTTAGGGAGATA-GATTGGTTTCTTCTGTATGCTCCACTATTGCTTAGGGAGATAA
1 CACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGGGAGATAA
* *
43601172 GACTTGATGCGATCTGCTCTACTGCAACTTCAGAGGGATAAGATCTGTGCTTTTAATCCG-TAC
66 GACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCT-C
*
43601235 CACTGCAACTTCAGGGAGATGGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGGGAGATAA
1 CACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGGGAGATAA
43601300 GACTTGAT
66 GACTTGAT
43601308 ATGATGGCTT
Statistics
Matches: 660, Mismatches: 49, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
126 1 0.00
127 119 0.18
128 540 0.82
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (128 bp):
CACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGGGAGATAA
GACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTC
Done.