Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 147 of 770
Found at i:43279312 original size:48 final size:47
Alignment explanation
Indices: 43279116--43279317 Score: 260
Period size: 48 Copynumber: 4.2 Consensus size: 47
43279106 ATGATATCCC
* * * * *
43279116 GTGTAAGACCATGTCTAGGACATGACATCGGCATCCGAGATGAGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCAT--GATATGTGTGCCA
* * *
43279165 GTGTAATACCATGTCTGGGACATGGCATCGACGTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGC-ATGATATGTGTGCCA
* *
43279213 ATATAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCA-TGATATGTGTGCCA
*
43279261 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGC-ATGATATGTGTGCCA
43279309 GTGTAAGAC
1 GTGTAAGAC
43279318 GGACATGGTA
Statistics
Matches: 134, Mismatches: 16, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
48 104 0.78
49 29 0.22
50 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCATGATATGTGTGCCA
Found at i:43279316 original size:96 final size:97
Alignment explanation
Indices: 43279116--43279317 Score: 289
Period size: 96 Copynumber: 2.1 Consensus size: 97
43279106 ATGATATCCC
*
43279116 GTGTAAGACCATGTCTAGGACATGACATCGGCATCCGAGATGAGAGCCAGTGTAATACCATGTCT
1 GTGTAAGACCATGTCTAGGACATGACATCGGCATCCGAGATGAGAGCCAGTGTAAGACCATGTCT
*
43279181 GGGACATGGCATCGACGTTGATATGTGTGCCA
66 GGGACATGGCATCGACGATGATATGTGTGCCA
* * * * * * * *
43279213 ATATAAGACCATGTCTGGGACATGGCATCGGCAT-TGATATGTGTGCCAGTGTAAGACCATGTCT
1 GTGTAAGACCATGTCTAGGACATGACATCGGCATCCGAGATGAGAGCCAGTGTAAGACCATGTCT
* *
43279277 GGGACATGGCATCGGCGATGATATGTGTGCTA
66 GGGACATGGCATCGACGATGATATGTGTGCCA
43279309 GTGTAAGAC
1 GTGTAAGAC
43279318 GGACATGGTA
Statistics
Matches: 91, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
96 61 0.67
97 30 0.33
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (97 bp):
GTGTAAGACCATGTCTAGGACATGACATCGGCATCCGAGATGAGAGCCAGTGTAAGACCATGTCT
GGGACATGGCATCGACGATGATATGTGTGCCA
Found at i:43284707 original size:40 final size:40
Alignment explanation
Indices: 43284634--43284841 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
43284624 CAATTGAATG
* * ** *
43284634 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * * **
43284674 ATACCCGGGTTAAGACCCGAAGGCCATT-GTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTAATT
* **
43284714 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * **
43284754 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * **
43284794 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
43284834 ATATCCGG
1 ATATCCGG
43284842 TTGTATTCCG
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 4 0.03
40 131 0.94
41 4 0.03
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
Found at i:43284772 original size:80 final size:80
Alignment explanation
Indices: 43284636--43284841 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 80
43284626 ATTGAATGAT
* * ** * * * *
43284636 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATACCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
43284700 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
43284716 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
43284781 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
43284796 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
43284842 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 2 0.02
80 102 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:43286450 original size:40 final size:40
Alignment explanation
Indices: 43286401--43286608 Score: 231
Period size: 40 Copynumber: 5.2 Consensus size: 40
43286391 TCTTCGGAAT
* * * *
43286401 TTAG-CCGGATACAACCACAAGCATAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGTC
* * ** * * *
43286440 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGTC
* * **
43286480 TTAGCCCAGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGTC
*
43286520 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGTC
* *
43286560 TTAGCCCGGATATATTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGTC
43286600 TTAGCCCGG
1 TTAGCCCGG
43286609 GTATCATTCA
Statistics
Matches: 141, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 3 0.02
40 137 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGTC
Found at i:43294691 original size:40 final size:40
Alignment explanation
Indices: 43294633--43294809 Score: 203
Period size: 40 Copynumber: 4.5 Consensus size: 40
43294623 AACCGAGCTT
* * * * * *
43294633 CTTCGGAATTTAG-CCGGATACAACCACAAGCATAATTGC
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATGC
* * * ** * * *
43294672 CTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATGC
*
43294712 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATGC
*
43294752 CTTCGGGACTTAGCCCGGATATATTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATGC
43294792 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
43294810 GTATCATTCA
Statistics
Matches: 114, Mismatches: 23, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
39 9 0.08
40 105 0.92
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATGC
Found at i:43299943 original size:49 final size:49
Alignment explanation
Indices: 43299886--43300278 Score: 464
Period size: 49 Copynumber: 7.9 Consensus size: 49
43299876 TAGCCAAAGC
* * * * *
43299886 TATCTGGTACGCATAGTAGCCTGTACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
43299935 TATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * *
43299985 CATCTGATACACGTAGTAGTCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* * *
43300036 TATC-GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * *
43300084 TATCCGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * *
43300133 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* * * * * * *
43300184 TATCGGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCCAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * * *
43300233 AATTTGGTACATGTAGTAGCTTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
43300279 TCACAATAGA
Statistics
Matches: 291, Mismatches: 47, Indels: 12
0.83 0.13 0.03
Matches are distributed among these distances:
48 5 0.02
49 161 0.55
50 84 0.29
51 41 0.14
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:43300193 original size:149 final size:149
Alignment explanation
Indices: 43299886--43300279 Score: 655
Period size: 149 Copynumber: 2.6 Consensus size: 149
43299876 TAGCCAAAGC
*
43299886 TATCTGGTACGCATAGTAGCCTGTACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAG
1 TATC-GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAG
* *
43299951 TAGCCTACACTTAGTACTACACACGTGACCTAATCATCTGATACACGTAGTAGTCTGCACTTAGT
65 TAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGT
43300016 ACTACACACGTGATCGAAGT
130 ACTACACACGTGATCGAAGT
* *
43300036 TATCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACGTAGT
1 TATCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGT
43300101 AGCCTACACTTAGTACTACACACGTGACC-AACCATCTGATACACGTAGTAGCCTGCACTTAGTA
66 AGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTA
43300165 CTACACACGTGATCGAAGT
131 CTACACACGTGATCGAAGT
* * * * *
43300184 TATCGGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCCATAATTTGGTACATGTAG
1 TATC-GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAG
* *
43300249 TAGCTTGCACTTAGTACTACACACGTGACCT
65 TAGCCTACACTTAGTACTACACACGTGACCT
43300280 CACAATAGAT
Statistics
Matches: 228, Mismatches: 14, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
148 56 0.25
149 168 0.74
150 4 0.02
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (149 bp):
TATCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGT
AGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTA
CTACACACGTGATCGAAGT
Found at i:43300252 original size:198 final size:198
Alignment explanation
Indices: 43299899--43300278 Score: 487
Period size: 198 Copynumber: 1.9 Consensus size: 198
43299889 CTGGTACGCA
** * ** *
43299899 TAGTAGCCTGTACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTACACTTA
1 TAGTAGCCTACACTTAGTACTACACACGCGACCAACCATCTGATACACGTAGTAGCCTACACTTA
* * * *
43299964 GTACTACACACGTGACCTAATCATCTGATACACGTAGTAGTCTGCACTTAGTACTACACACGTGA
66 GTACTACACACGTGACCGAATCATCGGATACACATAGTAGTCTGCACTTAGTACTACACACGCGA
* * * * *
43300029 TCGAAGTTATCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTAC
131 CCCAAATTATCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTAC
43300094 ACG
196 ACG
* *
43300097 TAGTAGCCTACACTTAGTACTACACACGTGACCAACCATCTGATACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTACACTTAGTACTACACACGCGACCAACCATCTGATACACGTAGTAGCCTACACTTA
* * * * *
43300162 GTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAG-CTTGCACTTAGTACTACACATGC
66 GTACTACACACGTGACCGAA-TCATCGGATACACATAGTAGTC-TGCACTTAGTACTACACACGC
** *
43300226 GACCCATAATT-T-GGTACATGTAGTAGCTTGCACTTAGTACTACACACGTGACC
129 GACCCA-AATTATCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
43300279 TCACAATAGA
Statistics
Matches: 154, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
198 112 0.73
199 39 0.25
200 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (198 bp):
TAGTAGCCTACACTTAGTACTACACACGCGACCAACCATCTGATACACGTAGTAGCCTACACTTA
GTACTACACACGTGACCGAATCATCGGATACACATAGTAGTCTGCACTTAGTACTACACACGCGA
CCCAAATTATCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTAC
ACG
Found at i:43303864 original size:14 final size:14
Alignment explanation
Indices: 43303825--43303864 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
43303815 TTCTTATCCC
43303825 TTCGTTCATACCAT
1 TTCGTTCATACCAT
* *
43303839 TTCATTCCTACCAT
1 TTCGTTCATACCAT
43303853 TTCGTTCATACC
1 TTCGTTCATACC
43303865 CCTCTTTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.20, C:0.33, G:0.05, T:0.42
Consensus pattern (14 bp):
TTCGTTCATACCAT
Found at i:43304251 original size:13 final size:12
Alignment explanation
Indices: 43304230--43304268 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
43304220 ATTATACAAG
43304230 TTTGAAAAAAAA
1 TTTGAAAAAAAA
43304242 TTTCGAAAAAAAA
1 TTT-GAAAAAAAA
*
43304255 TCTGAAAAAAAA
1 TTTGAAAAAAAA
43304267 TT
1 TT
43304269 GAAGTGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.62, C:0.05, G:0.08, T:0.26
Consensus pattern (12 bp):
TTTGAAAAAAAA
Found at i:43304760 original size:11 final size:11
Alignment explanation
Indices: 43304744--43304769 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
43304734 TCCAAGTTGA
43304744 AACGAATGGCC
1 AACGAATGGCC
43304755 AACGAATGGCC
1 AACGAATGGCC
43304766 AACG
1 AACG
43304770 TGAAAGAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.27, G:0.27, T:0.08
Consensus pattern (11 bp):
AACGAATGGCC
Found at i:43308260 original size:38 final size:35
Alignment explanation
Indices: 43308201--43308301 Score: 129
Period size: 31 Copynumber: 2.9 Consensus size: 35
43308191 TCAATCATGC
*
43308201 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
43308240 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
43308271 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
43308302 ACTGGCCGAA
Statistics
Matches: 57, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
31 27 0.47
33 3 0.05
34 1 0.02
36 1 0.02
38 14 0.25
39 11 0.19
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:43308262 original size:31 final size:31
Alignment explanation
Indices: 43308224--43308317 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
43308214 CCTTTTCATA
*
43308224 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
43308255 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
43308286 TTTCATATTTCATATTACT-GGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
43308316 TT
1 TT
43308318 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
30 13 0.21
31 49 0.79
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:43308400 original size:42 final size:42
Alignment explanation
Indices: 43308341--43308432 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
43308331 TGGCCCTTAG
* **
43308341 GCCCATTTCAATGTCACAT-ATAATTTCAATGAAAGAATGCAA
1 GCCCATTTCAATATCACATGA-AATACCAATGAAAGAATGCAA
* *
43308383 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAAAGAATGCAA
*
43308425 ACCCATTT
1 GCCCATTT
43308433 GGGGAGACTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 42 0.98
43 1 0.02
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAAAGAATGCAA
Found at i:43308604 original size:23 final size:23
Alignment explanation
Indices: 43308574--43308762 Score: 315
Period size: 23 Copynumber: 8.1 Consensus size: 23
43308564 CCTTGCCTCT
*
43308574 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
43308597 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
43308620 TTTTGATCACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
43308644 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
43308667 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
43308691 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
43308714 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
43308737 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
43308760 TTT
1 TTT
43308763 TTGCACTTCC
Statistics
Matches: 155, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
23 113 0.73
24 42 0.27
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:43308632 original size:47 final size:47
Alignment explanation
Indices: 43308572--43308763 Score: 332
Period size: 47 Copynumber: 4.1 Consensus size: 47
43308562 GGCCTTGCCT
* *
43308572 CTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
* *
43308619 CTTTTGATCACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
*
43308666 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
43308713 C-TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
43308759 CTTTT
1 CTTTT
43308764 TGCACTTCCT
Statistics
Matches: 138, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
46 45 0.33
47 93 0.67
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (47 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
Found at i:43308657 original size:70 final size:70
Alignment explanation
Indices: 43308574--43308763 Score: 319
Period size: 70 Copynumber: 2.7 Consensus size: 70
43308564 CCTTGCCTCT
* * * *
43308574 TTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCGTAAGCCCTTTTGATCACTGGGGCATA
1 TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
43308639 AGCCC
66 AGCCC
*
43308644 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCAT
1 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAT
43308708 AAGCCC
65 AAGCCC
43308714 TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTT
43308764 TGCACTTCCT
Statistics
Matches: 112, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
69 22 0.20
70 69 0.62
71 21 0.19
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (70 bp):
TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
AGCCC
Found at i:43308839 original size:20 final size:20
Alignment explanation
Indices: 43308814--43308874 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
43308804 TTATGATTAC
43308814 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
43308834 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
43308854 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
43308874 A
1 A
43308875 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:43308949 original size:25 final size:25
Alignment explanation
Indices: 43308917--43308964 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
43308907 ATACATAAAC
* * *
43308917 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
43308942 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
43308965 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:43310234 original size:27 final size:27
Alignment explanation
Indices: 43310204--43310550 Score: 414
Period size: 27 Copynumber: 12.9 Consensus size: 27
43310194 AGGATATTTT
*
43310204 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
43310231 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
43310258 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
43310285 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
43310312 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
43310339 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
43310366 -GATAATTATGTAAATCTG-GGGTAAAAT
1 AG-TAATTCTGTAAATC-GAGGGTAAAAC
* * *
43310393 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* *
43310420 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
43310447 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
43310474 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
43310501 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
43310528 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
43310551 CTTTGGTAAT
Statistics
Matches: 287, Mismatches: 25, Indels: 16
0.88 0.08 0.05
Matches are distributed among these distances:
26 2 0.01
27 281 0.98
28 4 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:43310572 original size:27 final size:27
Alignment explanation
Indices: 43310474--43310778 Score: 251
Period size: 27 Copynumber: 11.3 Consensus size: 27
43310464 AGGGTAAAAC
* * ****
43310474 GGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
****
43310501 GGTAATTTTACAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
43310528 GGTAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
43310555 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
** ** *
43310582 AATAATTTTACAGGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
43310609 AGTAATTTCACAAAT-TAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
43310636 GGTAATTTTACAAA-CTAAGGGTATTTT
1 GGTAATTTTACAAATC-GAGGGTATTTT
* *
43310663 GATAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
43310690 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* * *
43310717 GGTAATTTTATAAACCAAGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
43310744 AGTAATTTTACAAAGC-AGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
43310770 GGTAATTTT
1 GGTAATTTT
43310779 GTAAACCAAA
Statistics
Matches: 239, Mismatches: 34, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
26 20 0.08
27 216 0.90
28 3 0.01
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTT
Found at i:43312464 original size:40 final size:40
Alignment explanation
Indices: 43312409--43312600 Score: 264
Period size: 40 Copynumber: 4.8 Consensus size: 40
43312399 GGATATAGCT
* *
43312409 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACATAGCCCGGATT-TAGTA
* *
43312449 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACATAGCCCGGATTTAGTA
43312489 ACTCGCACAAATGCCTTCGGGA-ATTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACA-TAGCCCGGATTTAGTA
* * * *
43312529 ATTCACACAAATGCCTTCGGGACTTAGCCCAGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACATAGCCCGGATTTAGTA
*
43312569 ACTCGCACAAATGCCTTCGGGAC-TTGCCCGGA
1 ACTCGCACAAATGCCTTCGGGACATAGCCCGGA
43312601 ACTAGTCACT
Statistics
Matches: 135, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 7 0.05
40 126 0.93
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACATAGCCCGGATTTAGTA
Found at i:43320432 original size:40 final size:39
Alignment explanation
Indices: 43320377--43320569 Score: 208
Period size: 40 Copynumber: 4.9 Consensus size: 39
43320367 GGATATAGCT
* * *
43320377 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT-TAGTA
* *
43320417 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTTGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTTAGTA
* *
43320457 ACTCGCACAAATGCCTTCGGGACTTCGCCCGAATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCG-GTTTAGTA
* ** *
43320497 ACTCGCACAAATGCCTTTGGGACTT-GCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTTAGTA
* * * *
43320536 ACTAGCGCAGATGCCTTCGGGACTTAGCCTGGTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
43320570 ATCATCCAAA
Statistics
Matches: 128, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
39 30 0.23
40 96 0.75
41 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTTAGTA
Found at i:43327125 original size:48 final size:48
Alignment explanation
Indices: 43327059--43327515 Score: 322
Period size: 48 Copynumber: 9.1 Consensus size: 48
43327049 GCGGAAATTG
43327059 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
43327107 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
43327155 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGT-AAAG
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
** * * * * * * *
43327202 CCGAATG-GCTAATGTGAAATAT-GT-ATG-AGATAT-G-TATATGTGGTAAAGCCGA
1 ATGTATGAGAT-ATGT-ATATGTGGTAAAGCCGA-ATGGCTA-ATGT-G-AAA----T
* * * ** * * * *
43327254 ATGGCTAATGTGAAATATGTATGA-GATAAGTATATGTGGTAAAGCCGAATG-GCTAAT
1 AT-G-T-A--TGAGATATGTAT-ATG-T-GGTA-AAGCCG-AATGGCTAATGTG-AAAT
* *
43327311 GTGAAAT-ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATG-TATGA-G------ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* * *
43327366 ATGTATGAGATATGTATATATGGTAAAGCCGAATGGTTAATGTAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA-AT
*
43327415 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
43327463 ATGTATGAGATATGTATATATGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
43327511 ATGTA
1 ATGTA
43327516 GGCGATGTGT
Statistics
Matches: 321, Mismatches: 50, Indels: 76
0.72 0.11 0.17
Matches are distributed among these distances:
44 2 0.01
45 7 0.02
46 6 0.02
47 12 0.04
48 183 0.57
49 44 0.14
52 1 0.00
53 2 0.01
54 3 0.01
55 16 0.05
56 6 0.02
57 12 0.04
58 3 0.01
59 11 0.03
61 6 0.02
62 2 0.01
63 4 0.01
64 1 0.00
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:43327201 original size:19 final size:19
Alignment explanation
Indices: 43327177--43327216 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
43327167 AGTATATGTG
43327177 GTAAAGCCGAATGGCTAAT
1 GTAAAGCCGAATGGCTAAT
43327196 GTAAAGCCGAATGGCTAAT
1 GTAAAGCCGAATGGCTAAT
43327215 GT
1 GT
43327217 GAAATATGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.23
Consensus pattern (19 bp):
GTAAAGCCGAATGGCTAAT
Found at i:43327207 original size:67 final size:67
Alignment explanation
Indices: 43327129--43327264 Score: 263
Period size: 67 Copynumber: 2.0 Consensus size: 67
43327119 TGTATATGTG
43327129 GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTA
1 GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTA
43327194 AT
66 AT
*
43327196 GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTA
43327261 AT
66 AT
43327263 GT
1 GT
43327265 GAAATATGTA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.36, C:0.09, G:0.27, T:0.28
Consensus pattern (67 bp):
GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTA
AT
Found at i:43327283 original size:115 final size:115
Alignment explanation
Indices: 43327081--43327312 Score: 464
Period size: 115 Copynumber: 2.0 Consensus size: 115
43327071 TGTATATGTG
43327081 GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
43327146 ATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAAT
66 ATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAAT
43327196 GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
43327261 ATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAAT
66 ATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAAT
43327311 GT
1 GT
43327313 GAAATATGTA
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 117 1.00
ACGTcount: A:0.36, C:0.08, G:0.27, T:0.29
Consensus pattern (115 bp):
GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
ATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAAT
Found at i:43327329 original size:163 final size:163
Alignment explanation
Indices: 43327059--43327360 Score: 586
Period size: 163 Copynumber: 1.9 Consensus size: 163
43327049 GCGGAAATTG
*
43327059 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTAT
43327124 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAAT
66 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAAT
43327189 GGCTAATGTAAAGCCGAATGGCTAATGTGAAAT
131 GGCTAATGTAAAGCCGAATGGCTAATGTGAAAT
43327222 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTAT
*
43327287 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
66 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAAT
43327352 GGCTAATGT
131 GGCTAATGT
43327361 GAAATATGTA
Statistics
Matches: 137, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
163 137 1.00
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (163 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTAT
ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAAT
GGCTAATGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:43327531 original size:48 final size:48
Alignment explanation
Indices: 43327196--43327515 Score: 568
Period size: 48 Copynumber: 6.6 Consensus size: 48
43327186 AATGGCTAAT
43327196 GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTG
1 GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTG
*
43327244 GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTG
1 GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTG
43327292 GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTG
1 GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTG
*
43327340 GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATATG
1 GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTG
* * *
43327388 GTAAAGCCGAATGGTTAATGTAAATATATATATGAGATATGTATATGTG
1 GTAAAGCCGAATGGCTAATGTGAA-ATATGTATGAGATATGTATATGTG
*
43327437 GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATATG
1 GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTG
*
43327485 GTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 GTAAAGCCGAATGGCTAATGTGAAATATGTA
43327516 GGCGATGTGT
Statistics
Matches: 259, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
48 215 0.83
49 44 0.17
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTG
Found at i:43329048 original size:40 final size:40
Alignment explanation
Indices: 43328995--43329338 Score: 436
Period size: 40 Copynumber: 8.6 Consensus size: 40
43328985 GAGAGTTATA
* *
43328995 TATATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* *
43329035 TATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* * *
43329075 TGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* * *
43329115 TGTATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* * *
43329155 TATATCCGAGCTAAGTCTCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* * * *
43329195 TGTATCCGGGCTAAGTCTCGAAGAGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* * * * * *
43329235 TATATCCGGGCTAAGTCTCAAAAAGCATTTGTGCTAGAGC
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* * *
43329275 TATATCAGGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* *
43329315 TATAACCGGGCTAGGTCCCGAAGA
1 TATATCCGGGCTAAGTCCCGAAGA
43329339 ACAATCATAC
Statistics
Matches: 263, Mismatches: 41, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 263 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
Found at i:43329210 original size:120 final size:120
Alignment explanation
Indices: 43328997--43329357 Score: 506
Period size: 120 Copynumber: 3.0 Consensus size: 120
43328987 GAGTTATATA
43328997 TATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTGTTATATCCGGGCTAAGTCTCGAAGAGCA
1 TATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTGTTATATCCGGGCTAAGTCTCGAAGAGCA
*
43329062 TTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATG
66 TTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTGATG
*
43329117 TATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTGTTATATCCGAGCTAAGTCTCGAAGAGCA
1 TATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTGTTATATCCGGGCTAAGTCTCGAAGAGCA
* ** * *
43329182 TTCGTGCTAGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTTGTGCTGGTGTTA
66 TTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTGATG
* * * * * * * * *
43329237 TATCCGGGCTAAGTCTCAAAAAGCATTTGTGCTAGAGCTATATCAGGGTTAAGTCCCGAAGAGCA
1 TATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTGTTATATCCGGGCTAAGTCTCGAAGAGCA
* * * * * * * *
43329302 TTCGTGCTGGTGTTATAACCGGGCTAGGTCCCGAAGAACAATCATACTGGTGATG
66 TTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTGATG
43329357 T
1 T
43329358 GTATTCGGGC
Statistics
Matches: 211, Mismatches: 30, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
120 211 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (120 bp):
TATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTGTTATATCCGGGCTAAGTCTCGAAGAGCA
TTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTGATG
Found at i:43329567 original size:25 final size:25
Alignment explanation
Indices: 43329517--43329567 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
43329507 TGTGCAACAA
* *
43329517 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
43329542 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
43329567 C
1 C
43329568 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:43329636 original size:29 final size:28
Alignment explanation
Indices: 43329564--43329654 Score: 94
Period size: 28 Copynumber: 3.2 Consensus size: 28
43329554 GGCACTGAGA
* *
43329564 GTGCGAGTTCTTCAACTGAGCACTATGT
1 GTGCGAGTTCTTTAATTGAGCACTATGT
* **
43329592 GTGAGAGATT-GGTAATTGAGGCACTATGT
1 GTGCGAG-TTCTTTAATTGA-GCACTATGT
* *
43329621 GTGCGAGTTCTTTAATCGAGCGCTATGT
1 GTGCGAGTTCTTTAATTGAGCACTATGT
43329649 GTGCGA
1 GTGCGA
43329655 AATCAGTCAG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
28 27 0.54
29 23 0.46
ACGTcount: A:0.22, C:0.15, G:0.31, T:0.32
Consensus pattern (28 bp):
GTGCGAGTTCTTTAATTGAGCACTATGT
Found at i:43333076 original size:48 final size:48
Alignment explanation
Indices: 43333010--43333413 Score: 540
Period size: 48 Copynumber: 8.1 Consensus size: 48
43333000 GCGGAAATTA
*
43333010 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGTCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
43333058 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
43333106 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
43333154 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* ** * * * *
43333202 ATGTATGAGATAAGTATATGTGAGATAAGTATATGTGGTAAAGCCGAATG-GCTAAT
1 ATGTATGAGATATGTATATGTG-G-T-A--A-A-GCCG-AATGGCTAATGTG-AAAT
* * *
43333258 GTGAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATATGAAAT
1 ATG---TATG----AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
43333313 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
43333361 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
43333409 ATGTA
1 ATGTA
43333414 GGCGATGTGT
Statistics
Matches: 317, Mismatches: 22, Indels: 34
0.85 0.06 0.09
Matches are distributed among these distances:
48 253 0.80
49 1 0.00
50 1 0.00
51 1 0.00
52 4 0.01
53 1 0.00
54 1 0.00
55 15 0.05
56 16 0.05
57 1 0.00
58 1 0.00
59 4 0.01
60 1 0.00
61 1 0.00
62 1 0.00
63 15 0.05
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:43333222 original size:17 final size:16
Alignment explanation
Indices: 43333200--43333237 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
43333190 CTAATGTGAA
43333200 ATATGTATGAGATAAGT
1 ATATGT-TGAGATAAGT
43333217 ATATG-TGAGATAAGT
1 ATATGTTGAGATAAGT
43333232 ATATGT
1 ATATGT
43333238 GGTAAAGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 15 0.75
17 5 0.25
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (16 bp):
ATATGTTGAGATAAGT
Found at i:43333227 original size:15 final size:15
Alignment explanation
Indices: 43333207--43333238 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
43333197 GAAATATGTA
43333207 TGAGATAAGTATATG
1 TGAGATAAGTATATG
43333222 TGAGATAAGTATATG
1 TGAGATAAGTATATG
43333237 TG
1 TG
43333239 GTAAAGCCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.34
Consensus pattern (15 bp):
TGAGATAAGTATATG
Found at i:43333234 original size:63 final size:63
Alignment explanation
Indices: 43333159--43333286 Score: 247
Period size: 63 Copynumber: 2.0 Consensus size: 63
43333149 GAAATATGTA
*
43333159 TGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATG
1 TGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATG
43333222 TGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATG
1 TGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATG
43333285 TG
1 TG
43333287 GTAAAGCCGA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.37, C:0.05, G:0.27, T:0.31
Consensus pattern (63 bp):
TGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATG
Found at i:43333243 original size:111 final size:111
Alignment explanation
Indices: 43333111--43333334 Score: 421
Period size: 111 Copynumber: 2.0 Consensus size: 111
43333101 GAAATATGTA
*
43333111 TGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTG
1 TGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTG
*
43333176 GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATG
66 GTAAAGCCGAATGGCTAATATGAAATATGTATGAGATAAGTATATG
43333222 TGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTG
1 TGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTG
*
43333287 GTAAAGCCGAATGGCTAATATGAAATATGTATGAGATATGTATATG
66 GTAAAGCCGAATGGCTAATATGAAATATGTATGAGATAAGTATATG
43333333 TG
1 TG
43333335 GTAAAGCCGA
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
111 110 1.00
ACGTcount: A:0.37, C:0.05, G:0.27, T:0.31
Consensus pattern (111 bp):
TGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTG
GTAAAGCCGAATGGCTAATATGAAATATGTATGAGATAAGTATATG
Found at i:43333352 original size:159 final size:159
Alignment explanation
Indices: 43333063--43333382 Score: 613
Period size: 159 Copynumber: 2.0 Consensus size: 159
43333053 GAAATATGTA
*
43333063 TGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTG
1 TGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTG
*
43333128 GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
66 GTAAAGCCGAATGGCTAATATGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
43333193 ATGTGAAATATGTATGAGATAAGTATATG
131 ATGTGAAATATGTATGAGATAAGTATATG
43333222 TGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTG
1 TGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTG
43333287 GTAAAGCCGAATGGCTAATATGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
66 GTAAAGCCGAATGGCTAATATGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
*
43333352 ATGTGAAATATGTATGAGATATGTATATG
131 ATGTGAAATATGTATGAGATAAGTATATG
43333381 TG
1 TG
43333383 GTAAAGCCGA
Statistics
Matches: 158, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
159 158 1.00
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.31
Consensus pattern (159 bp):
TGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTG
GTAAAGCCGAATGGCTAATATGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
ATGTGAAATATGTATGAGATAAGTATATG
Found at i:43333370 original size:207 final size:207
Alignment explanation
Indices: 43333015--43333413 Score: 744
Period size: 207 Copynumber: 1.9 Consensus size: 207
43333005 AATTAATGTA
* * *
43333015 TGAGATATGTATATGTGGTAAAGCCGAATGTCTAATGTGAAATATGTATGAGATATGTATATGTG
1 TGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTG
*
43333080 GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTA
66 GTAAAGCCGAATGGCTAATATGAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTA
43333145 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
131 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
43333210 GATAAGTATATG
196 GATAAGTATATG
43333222 TGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTG
1 TGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTG
*
43333287 GTAAAGCCGAATGGCTAATATGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
66 GTAAAGCCGAATGGCTAATATGAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTA
*
43333352 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
131 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
43333414 GGCGATGTGT
Statistics
Matches: 186, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
207 186 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (207 bp):
TGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTG
GTAAAGCCGAATGGCTAATATGAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTA
ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
GATAAGTATATG
Found at i:43336092 original size:14 final size:14
Alignment explanation
Indices: 43336034--43336092 Score: 66
Period size: 14 Copynumber: 4.2 Consensus size: 14
43336024 ACCTAAACCG
*
43336034 ACCAATTCGTTCAT
1 ACCATTTCGTTCAT
*
43336048 ATCC-CTTCGTTCAT
1 A-CCATTTCGTTCAT
* *
43336062 ACCATTTCATTCCT
1 ACCATTTCGTTCAT
43336076 ACCATTTCGTTCAT
1 ACCATTTCGTTCAT
43336090 ACC
1 ACC
43336093 CCTCTTTCTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
13 2 0.05
14 33 0.89
15 2 0.05
ACGTcount: A:0.22, C:0.34, G:0.05, T:0.39
Consensus pattern (14 bp):
ACCATTTCGTTCAT
Found at i:43336454 original size:14 final size:14
Alignment explanation
Indices: 43336415--43336454 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
43336405 TTCATATCCC
43336415 TTCGTTCATACCAT
1 TTCGTTCATACCAT
* *
43336429 TTCATTCCTACCAT
1 TTCGTTCATACCAT
43336443 TTCGTTCATACC
1 TTCGTTCATACC
43336455 CCTCTTTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.20, C:0.33, G:0.05, T:0.42
Consensus pattern (14 bp):
TTCGTTCATACCAT
Found at i:43338752 original size:40 final size:40
Alignment explanation
Indices: 43338697--43338864 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
43338687 TGAATGATAC
* *
43338697 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
43338737 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * * * ** *
43338777 CCGAGCTAAGACCTGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
43338817 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
43338857 CC-GGCTAA
1 CCGGGCTAA
43338865 ATTCCGAAGA
Statistics
Matches: 102, Mismatches: 24, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
39 6 0.06
40 94 0.92
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:43349840 original size:40 final size:40
Alignment explanation
Indices: 43349750--43349969 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
43349740 ACCCAAGTAT
* * ** * *
43349750 CTTCGGGATTTTG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAGC
* * * *
43349788 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAGC
* *
43349828 CTTCGAGACTTAGCCCGGATATAATCACTAGCACAAAAGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAGC
* * *
43349868 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAAGC
* *
43349908 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAAAGC
43349948 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
43349970 CATTCGAATA
Statistics
Matches: 150, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
38 10 0.07
39 18 0.12
40 118 0.79
41 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAGC
Found at i:43349881 original size:80 final size:80
Alignment explanation
Indices: 43349763--43349969 Score: 285
Period size: 80 Copynumber: 2.6 Consensus size: 80
43349753 CGGGATTTTG
* * * * *
43349763 CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGTC-ACTAGCATAAAT
1 CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG-CAACTAGCACAAAT
43349826 GCCTTCGAGA-CTTAGC
65 GCCTTCG-GATCTTAGC
*
43349842 CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATG
1 CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATG
*
43349907 CCTTCGGATCTTAGT
66 CCTTCGGATCTTAGC
* * *
43349922 CCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
43349970 CATTCGAATA
Statistics
Matches: 115, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
79 21 0.18
80 94 0.82
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATG
CCTTCGGATCTTAGC
Found at i:43358008 original size:40 final size:39
Alignment explanation
Indices: 43357899--43358117 Score: 183
Period size: 40 Copynumber: 5.5 Consensus size: 39
43357889 ACCCAAGTAT
* * * * *
43357899 CTTCGGGATTTTGCCGGATATAACCACTTGCAC-AAGGC
1 CTTCGGGACTTAGCCGGATATAATCACTAGCACAAAAGC
* * ** * *
43357937 CTTCGGGTCTTAGCCCGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCGGATATAATCACTAGCACAAAAGC
*
43357976 CTTCGGGACTTAGCCTGGATATAATCGCTAGCACAAAAGC
1 CTTCGGGACTTAGCC-GGATATAATCACTAGCACAAAAGC
* * * * *
43358016 CTTCGGGTCTTAGCCCGA-ATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCGGATATA-ATC-ACTAGCACAAAAGC
* * *
43358056 CTTC-GGATCTTAGTCCAGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAG-CCGGATATAATCACTAGCACAAAAGC
43358096 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAG-CCGGATAT
43358118 CATTCGAATA
Statistics
Matches: 141, Mismatches: 32, Indels: 14
0.75 0.17 0.07
Matches are distributed among these distances:
38 27 0.19
39 24 0.17
40 79 0.56
41 8 0.06
42 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CTTCGGGACTTAGCCGGATATAATCACTAGCACAAAAGC
Found at i:43358077 original size:80 final size:79
Alignment explanation
Indices: 43357915--43358117 Score: 234
Period size: 80 Copynumber: 2.6 Consensus size: 79
43357905 GATTTTGCCG
* * * * *
43357915 GATATAACCACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGATATGGTCACTAGCATAAATGCCTT
1 GATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGATATAGTCACTAGCACAAATGCCTT
*
43357979 CGGGACTTAGCCTG
66 CGGGACTTAGCCTA
* *
43357993 GATATAATCGCTAGCACAAAAGCCTTCGGGTCTTAGCCCGAATATAG-CAACTCGCACAAATGCC
1 GATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCG-ATATAGTC-ACTAGCACAAATGCC
43358057 TTC-GGATCTTAGTCC-A
64 TTCGGGA-CTTAG-CCTA
* * *
43358073 GATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
1 GATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCC-GATAT
43358118 CATTCGAATA
Statistics
Matches: 107, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
78 14 0.13
79 25 0.23
80 65 0.61
81 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (79 bp):
GATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGATATAGTCACTAGCACAAATGCCTT
CGGGACTTAGCCTA
Found at i:43359925 original size:26 final size:26
Alignment explanation
Indices: 43359895--43359975 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
43359885 TTAGGACTGT
43359895 CACATAGTAGCCTGCACTTAGTACTA
1 CACATAGTAGCCTGCACTTAGTACTA
*
43359921 CACAT-GT-GACCT-AACCATCT-G-A-TA
1 CACATAGTAG-CCTGCA-C-T-TAGTACTA
*
43359945 CACGTAGTAGCCTGCACTTAGTACTA
1 CACATAGTAGCCTGCACTTAGTACTA
43359971 CACAT
1 CACAT
43359976 GTGATCGAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 20
0.63 0.06 0.31
Matches are distributed among these distances:
23 1 0.02
24 10 0.24
25 14 0.34
26 15 0.37
27 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (26 bp):
CACATAGTAGCCTGCACTTAGTACTA
Found at i:43360025 original size:51 final size:50
Alignment explanation
Indices: 43359895--43360081 Score: 200
Period size: 50 Copynumber: 3.7 Consensus size: 50
43359885 TTAGGACTGT
* *
43359895 CACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATA
1 CACATAGTAGCCTGCACTTAGTACTACACATGTGACCGAACCATCGGATA
* * ** * *
43359945 CACGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTATCGGGTC
1 CACATAGTAGCCTGCACTTAGTACTACACATGTGACCGAA-CCATCGGATA
* * * *
43359996 CGCATAGTAGTCTGCACTTAGTACTACACATGTGACCCATA--ATTTGG-TA
1 CACATAGTAGCCTGCACTTAGTACTACACATGTGACCGA-ACCA-TCGGATA
* *
43360045 CACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CACATAGTAGCCTGCACTTAGTACTACACATGTGACC
43360082 TCACAATAGA
Statistics
Matches: 115, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
49 35 0.30
50 40 0.35
51 39 0.34
52 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (50 bp):
CACATAGTAGCCTGCACTTAGTACTACACATGTGACCGAACCATCGGATA
Found at i:43363467 original size:48 final size:48
Alignment explanation
Indices: 43363353--43363573 Score: 264
Period size: 48 Copynumber: 4.6 Consensus size: 48
43363343 ATGAGAACCC
* * ** *
43363353 GTGTAAGACCATGTCTTGGACATGGCATCGACGTTTGAGATAAGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACG-TTGATATGTGTGCCA
* *
43363402 GTGTAAGACCATCTCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGTGCCA
* * *
43363450 GTGTAAGACCATGTCTGGGACATGGCAT-TAGCATTGCTATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGA-CGTTGATATGTGTGCCA
* * * *
43363498 GTGTAAGACTATGTCTGGGACATGGCATCGATGATGATATGTGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGTGCCA
* * *
43363546 GTGTGAGACTATGTTTGGGACATGGCAT
1 GTGTAAGACCATGTCTGGGACATGGCAT
43363574 TGACATGGAT
Statistics
Matches: 149, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
48 118 0.79
49 31 0.21
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.29
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGTGCCA
Found at i:43368877 original size:22 final size:22
Alignment explanation
Indices: 43368849--43368924 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
43368839 AGGTGTGTAT
43368849 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* *** ***
43368871 ATGTGATGAATGTGAAAGTGTGTAT
1 ATGTGAT-AAGGCCTAA-TG-GCCG
43368896 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
43368918 ATGTGAT
1 ATGTGAT
43368925 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 15 0.41
23 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:43368910 original size:47 final size:47
Alignment explanation
Indices: 43368841--43369140 Score: 440
Period size: 47 Copynumber: 6.4 Consensus size: 47
43368831 GGTGTACAAG
* *
43368841 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
43368888 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
43368935 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * * *
43368982 GTGTATATATATGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * * * *
43369029 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
43369076 GTGTATATATGTGATAAGG-CTAAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCT-AATGGCCAATGTGATGAATGTGAAA
*
43369123 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
43369141 TCCCGAAGGG
Statistics
Matches: 232, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 2 0.01
47 230 0.99
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
Found at i:43371617 original size:54 final size:54
Alignment explanation
Indices: 43371553--43371749 Score: 247
Period size: 54 Copynumber: 3.6 Consensus size: 54
43371543 TTGGTAAGAT
* * *
43371553 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATATCACGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
43371607 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATATCACGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * *
43371662 AAAGG-T-CCTACGTAAGACCATGCCAAGGCATGGCATTGTTGAGTTC-ATAAGGC
1 -AAGGATATC-ACGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
43371715 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATATCACGTAAGACCATGCCAAGACATGGCA
43371750 ATGGAAAGTT
Statistics
Matches: 126, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
52 4 0.03
53 32 0.25
54 45 0.36
55 41 0.33
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATATCACGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:43371682 original size:55 final size:53
Alignment explanation
Indices: 43371564--43371749 Score: 223
Period size: 55 Copynumber: 3.5 Consensus size: 53
43371554 AGGATATCAT
* * *** *
43371564 GTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCAT
1 GTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGTCCT-AC
*
43371618 GTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCTAC
1 GTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC-AAGGTCCTAC
* *
43371673 GTAAGACCATGCCAAGGCATGGCATTGTTGAGTTC-ATAAGGCAAGGATACC-AC
1 GTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGG-T-CCTAC
*
43371726 GTAAGACCATGTCAAGACATGGCA
1 GTAAGACCATGCCAAGACATGGCA
43371750 ATGGAAAGTT
Statistics
Matches: 116, Mismatches: 12, Indels: 9
0.85 0.09 0.07
Matches are distributed among these distances:
52 4 0.03
53 32 0.28
54 34 0.29
55 41 0.35
56 5 0.04
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.22
Consensus pattern (53 bp):
GTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGTCCTAC
Found at i:43377223 original size:38 final size:39
Alignment explanation
Indices: 43377113--43377274 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
43377103 TGTGAATGAA
43377113 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
43377152 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
43377191 TGTGCGAGCTATGATATCC-GGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
43377229 TGTGCGAATTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
43377269 TGTGCG
1 TGTGCG
43377275 GGTTACCATA
Statistics
Matches: 113, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
38 35 0.31
39 61 0.54
40 17 0.15
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:43377241 original size:77 final size:79
Alignment explanation
Indices: 43377124--43377274 Score: 270
Period size: 77 Copynumber: 1.9 Consensus size: 79
43377114 GTGCGAATTG
43377124 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGC
43377188 AATTGTGCGAGCTA
66 AATTGTGCGAGCTA
*
43377202 TGATATCC-GGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGC
*
43377266 ATTTGTGCG
66 AATTGTGCG
43377275 GGTTACCATA
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
77 45 0.64
78 25 0.36
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGCTA
Found at i:43381745 original size:48 final size:48
Alignment explanation
Indices: 43381641--43381738 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
43381631 GAAAATCAAA
43381641 GTCTAAAATTTACTGATGAAGAATATTTCTGCATTTTGATGTCTAATG
1 GTCTAAAATTTACTGATGAAGAATATTTCTGCATTTTGATGTCTAATG
*
43381689 GTCTAAAATTTACTGATGAAGAATATTTGTGCATTTTGATGTCTAATG
1 GTCTAAAATTTACTGATGAAGAATATTTCTGCATTTTGATGTCTAATG
43381737 GT
1 GT
43381739 ACAAAATGTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (48 bp):
GTCTAAAATTTACTGATGAAGAATATTTCTGCATTTTGATGTCTAATG
Found at i:43384514 original size:29 final size:28
Alignment explanation
Indices: 43384464--43384548 Score: 100
Period size: 28 Copynumber: 3.0 Consensus size: 28
43384454 GCATGAATAT
* *
43384464 TAATGTGA-CTGGGCCTAGTGGGCCATA
1 TAATGTGATTTGGGCCTAATGGGCCATA
43384491 TAAATGTGATTTGGGCCTAATGGGCCATA
1 T-AATGTGATTTGGGCCTAATGGGCCATA
* * * *
43384520 TAAGGTGATTAGGGCCTAATAGGTCATA
1 TAATGTGATTTGGGCCTAATGGGCCATA
43384548 T
1 T
43384549 GAATATGAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
27 1 0.02
28 31 0.62
29 18 0.36
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.29
Consensus pattern (28 bp):
TAATGTGATTTGGGCCTAATGGGCCATA
Found at i:43386046 original size:43 final size:43
Alignment explanation
Indices: 43385985--43386183 Score: 169
Period size: 43 Copynumber: 4.6 Consensus size: 43
43385975 GAGATATCGT
43385985 GTAAGACC-CTGTCTGGGACAGTGGCATCAATATATGATTTCAC
1 GTAAGACCAC-GTCTGGGACAGTGGCATCAATATATGATTTCAC
*
43386028 GTAAGACCACGTCTGGGAC-GTTGGCATCAATTTGA-GATTT-AC
1 GTAAGACCACGTCTGGGACAG-TGGCATCAATAT-ATGATTTCAC
* * * * * *
43386070 GTGTAAGACCATGTCTGGGACATTGGCATC-GTATTTAATTTCAT
1 --GTAAGACCACGTCTGGGACAGTGGCATCAATATATGATTTCAC
* * * *
43386114 GTAAGACC-CTGTCTGGGACAGTGGCATCGATATTTGATTACAT
1 GTAAGACCAC-GTCTGGGACAGTGGCATCAATATATGATTTCAC
* *
43386157 GTAAGACCACATCTAGGAC-GTTGGCAT
1 GTAAGACCACGTCTGGGACAG-TGGCAT
43386184 TGTACAAGTT
Statistics
Matches: 129, Mismatches: 15, Indels: 24
0.77 0.09 0.14
Matches are distributed among these distances:
42 29 0.22
43 71 0.55
44 29 0.22
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
GTAAGACCACGTCTGGGACAGTGGCATCAATATATGATTTCAC
Found at i:43386132 original size:86 final size:89
Alignment explanation
Indices: 43385974--43386183 Score: 231
Period size: 86 Copynumber: 2.4 Consensus size: 89
43385964 TTCCGAGGTG
* * * *
43385974 TGAGATAT-CGTGTAAGACCCTGTCTGGGACAGTGGCATCAATATATGATTTCACGTAAGACCAC
1 TGAGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCAATATATAATTTCACGTAAGACCAC
43386038 GTCTGGGAC-GTTGGCATC-A-ATT
66 GTCTGGGACAG-TGGCATCGATATT
* * *
43386060 TGAGATTTACGTGTAAGACCATGTCTGGGACATTGGCATC-GTATTTAATTTCATGTAAGACC-C
1 TGAGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCAATATATAATTTCACGTAAGACCAC
43386123 TGTCTGGGACAGTGGCATCGATATT
66 -GTCTGGGACAGTGGCATCGATATT
* ** * *
43386148 T--GA-TTACATGTAAGACCACATCTAGGACGTTGGCAT
1 TGAGATTTACGTGTAAGACCATGTCTGGGACATTGGCAT
43386184 TGTACAAGTT
Statistics
Matches: 107, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
85 29 0.27
86 43 0.40
87 31 0.29
88 4 0.04
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (89 bp):
TGAGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCAATATATAATTTCACGTAAGACCAC
GTCTGGGACAGTGGCATCGATATT
Found at i:43387104 original size:19 final size:19
Alignment explanation
Indices: 43387080--43387119 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
43387070 TTTTGGTAAA
43387080 TAAATGCTTGAAATTTGGT
1 TAAATGCTTGAAATTTGGT
43387099 TAAATGCTTGAAATTTGGT
1 TAAATGCTTGAAATTTGGT
43387118 TA
1 TA
43387120 TGTGTCATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.42
Consensus pattern (19 bp):
TAAATGCTTGAAATTTGGT
Found at i:43392724 original size:16 final size:15
Alignment explanation
Indices: 43392698--43392734 Score: 65
Period size: 16 Copynumber: 2.4 Consensus size: 15
43392688 CAAAATCGAA
43392698 TTCTTTGCTCATCTT
1 TTCTTTGCTCATCTT
43392713 TTCTTCTGCTCATCTT
1 TTCTT-TGCTCATCTT
43392729 TTCTTT
1 TTCTTT
43392735 TTCTTTTAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.05, C:0.27, G:0.05, T:0.62
Consensus pattern (15 bp):
TTCTTTGCTCATCTT
Found at i:43393858 original size:27 final size:26
Alignment explanation
Indices: 43393820--43393921 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
43393810 AAGCGTCCTA
*
43393820 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCAC-ATTATCTGATCTG
*
43393847 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGATCTG
*
43393874 GTGGCTCTGCCACGATTATTTGTATCTG
1 GTGGCTCTGCCAC-ATTATCTG-ATCTG
* * *
43393902 GTGACTTTGTCACATTATCT
1 GTGGCTCTGCCACATTATCT
43393922 ATTCTGGCAG
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.03
27 46 0.72
28 16 0.25
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGATCTG
Found at i:43393921 original size:54 final size:54
Alignment explanation
Indices: 43393820--43393928 Score: 139
Period size: 54 Copynumber: 2.0 Consensus size: 54
43393810 AAGCGTCCTA
* *
43393820 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATTCTG
* * * * *
43393874 GTGGCTCTGCCACGATTATTTGTATCTGGTGACTTTGTCACAT-TATCTATTCTG
1 GTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTATTCTG
43393928 G
1 G
43393929 CAGCCATGCT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 30 0.64
55 17 0.36
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (54 bp):
GTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATTCTG
Found at i:43394847 original size:21 final size:21
Alignment explanation
Indices: 43394818--43394859 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
43394808 ATAACGTTTG
*
43394818 GGCCGGGTTTGGGGTGTTACA
1 GGCCAGGTTTGGGGTGTTACA
43394839 GGCCAGGTTTGGGGTGTTACA
1 GGCCAGGTTTGGGGTGTTACA
43394860 ACTATTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.12, C:0.14, G:0.45, T:0.29
Consensus pattern (21 bp):
GGCCAGGTTTGGGGTGTTACA
Found at i:43397369 original size:10 final size:10
Alignment explanation
Indices: 43397354--43397383 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
43397344 AACAAAAAGG
43397354 CATATTATAA
1 CATATTATAA
43397364 CATATTATAA
1 CATATTATAA
*
43397374 CATATAATAA
1 CATATTATAA
43397384 AATCATTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (10 bp):
CATATTATAA
Found at i:43398768 original size:11 final size:12
Alignment explanation
Indices: 43398751--43398779 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
43398741 TGTATATGAT
43398751 TATATGAATATA
1 TATATGAATATA
43398763 -ATATGAATATA
1 TATATGAATATA
43398774 TATATG
1 TATATG
43398780 TGCCTGGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.41
Consensus pattern (12 bp):
TATATGAATATA
Found at i:43403950 original size:93 final size:93
Alignment explanation
Indices: 43403838--43404009 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
43403828 GCCCATAAGT
* *
43403838 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43403903 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
43403931 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43403996 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
43404010 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:43404005 original size:46 final size:46
Alignment explanation
Indices: 43403830--43404005 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
43403820 TGTAACCCGC
* * *
43403830 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
43403876 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
43403926 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
43403969 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
43404006 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:43408412 original size:40 final size:40
Alignment explanation
Indices: 43408357--43408604 Score: 374
Period size: 40 Copynumber: 6.2 Consensus size: 40
43408347 TGAATGATAC
* * *
43408357 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
43408397 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
43408437 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
43408477 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
43408517 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
43408557 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
43408597 CC-GGCTAA
1 CCGGGCTAA
43408605 ATTCCAAAGA
Statistics
Matches: 192, Mismatches: 15, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
39 5 0.03
40 185 0.96
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:43411388 original size:27 final size:26
Alignment explanation
Indices: 43411332--43411388 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
43411322 CAACCTTAAC
*
43411332 CCTAGGGGTAAATCAGTAATTTTACT
1 CCTAGGGGTAAATCAGTAATTTTACA
** *
43411358 CCTAGGGGTAAATTTGTAGATTTTTCA
1 CCTAGGGGTAAATCAGTA-ATTTTACA
43411385 CCTA
1 CCTA
43411389 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 16 0.62
27 10 0.38
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTACA
Found at i:43419211 original size:27 final size:26
Alignment explanation
Indices: 43419155--43419211 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
43419145 CAACCTTAAC
* *
43419155 CCTAGGGGTAAATCAGTTATTTTACT
1 CCTAGGGGTAAATCAGTAATTTTACA
* *
43419181 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTACA
43419208 CCTA
1 CCTA
43419212 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 16 0.62
27 10 0.38
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTACA
Found at i:43426261 original size:43 final size:43
Alignment explanation
Indices: 43426200--43426387 Score: 129
Period size: 43 Copynumber: 4.4 Consensus size: 43
43426190 TGAGATATCA
43426200 TGTAAGACC-CTGTCTGGGACAGTGGCATCTATATATGATTTCG
1 TGTAAGACCACT-TCTGGGACAGTGGCATCTATATATGATTTCG
* * *
43426243 TGTAAGACCACTTCTGGGAC-GTTAGCAT-TGATTTGA-GATTTATG
1 TGTAAGACCACTTCTGGGACAG-TGGCATCT-ATAT-ATGATTT-CG
* * * * *
43426287 TGTAAGACCAGTTTTGGGACATTGGCATCGTAT-T-TAATTTTG
1 TGTAAGACCACTTCTGGGACAGTGGCATC-TATATATGATTTCG
* * * * * *
43426329 TGTAAGACC-TTGTCTGGGATAGTGGCATCAATATTTGATTACA
1 TGTAAGACCACT-TCTGGGACAGTGGCATCTATATATGATTTCG
*
43426372 TGTAAGACCACGTCTG
1 TGTAAGACCACTTCTG
43426388 AAACGTTGGC
Statistics
Matches: 113, Mismatches: 19, Indels: 26
0.72 0.12 0.16
Matches are distributed among these distances:
41 3 0.03
42 28 0.25
43 51 0.45
44 28 0.25
45 2 0.02
46 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.35
Consensus pattern (43 bp):
TGTAAGACCACTTCTGGGACAGTGGCATCTATATATGATTTCG
Found at i:43427938 original size:27 final size:27
Alignment explanation
Indices: 43427907--43428111 Score: 191
Period size: 27 Copynumber: 7.6 Consensus size: 27
43427897 ACATAGGGGT
* *
43427907 AAAACAATCATCTTACCATAAAAGGGC
1 AAAACAATCATTTTACCATATAAGGGC
*
43427934 AAAACAATCATTTTACCACATAAGGGC
1 AAAACAATCATTTTACCATATAAGGGC
43427961 AAAA-ATAGTCATTTTACC-TCATAAGGGC
1 AAAACA-A-TCATTTTACCAT-ATAAGGGC
* * * * *
43427989 AAAATAGTAATTTTACCTTACAAGGGC
1 AAAACAATCATTTTACCATATAAGGGC
* * *
43428016 AAAATAGTCATTTTACCACATAAGGGC
1 AAAACAATCATTTTACCATATAAGGGC
* *
43428043 AAAATAATCATTTTACC-TCATAAAGGC
1 AAAACAATCATTTTACCAT-ATAAGGGC
* * *
43428070 AAAACAATCATTTTACCCTATAAGAGA
1 AAAACAATCATTTTACCATATAAGGGC
* *
43428097 AAAATAGTCATTTTA
1 AAAACAATCATTTTA
43428112 TTAATTTAGG
Statistics
Matches: 151, Mismatches: 20, Indels: 14
0.82 0.11 0.08
Matches are distributed among these distances:
26 1 0.01
27 125 0.83
28 24 0.16
29 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.27
Consensus pattern (27 bp):
AAAACAATCATTTTACCATATAAGGGC
Found at i:43428044 original size:54 final size:54
Alignment explanation
Indices: 43427914--43428111 Score: 227
Period size: 54 Copynumber: 3.6 Consensus size: 54
43427904 GGTAAAACAA
* * * * *
43427914 TCATCTTACCATAAAAGGGCAAAACAATCATTTTACCACATAAGGGCAAAAATAG
1 TCATTTTACCACATAAGGGCAAAATAATCATTTTACCTCATAAGGGC-AAAATAG
* * * * *
43427969 TCATTTTACCTCATAAGGGCAAAATAGTAATTTTACCTTACAAGGGCAAAATAG
1 TCATTTTACCACATAAGGGCAAAATAATCATTTTACCTCATAAGGGCAAAATAG
* * *
43428023 TCATTTTACCACATAAGGGCAAAATAATCATTTTACCTCATAAAGGCAAAACAA
1 TCATTTTACCACATAAGGGCAAAATAATCATTTTACCTCATAAGGGCAAAATAG
* * *
43428077 TCATTTTACC-CTATAAGAGAAAAATAGTCATTTTA
1 TCATTTTACCAC-ATAAGGGCAAAATAATCATTTTA
43428112 TTAATTTAGG
Statistics
Matches: 121, Mismatches: 21, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
53 1 0.01
54 83 0.69
55 37 0.31
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (54 bp):
TCATTTTACCACATAAGGGCAAAATAATCATTTTACCTCATAAGGGCAAAATAG
Found at i:43428101 original size:81 final size:82
Alignment explanation
Indices: 43427907--43428111 Score: 277
Period size: 81 Copynumber: 2.5 Consensus size: 82
43427897 ACATAGGGGT
* * * *
43427907 AAAACAATCATCTTACCATAAAAGGGCAAAACAATCATTTTACCACATAAGGGCAAAAATAGTCA
1 AAAACAATCATTTTACCATAAAAGGGCAAAATAGTCATTTTACCACATAAGGGCAAAAATAATCA
*
43427972 TTTTACCTCATAAGGGC
66 TTTTACCTCATAAAGGC
* * * * *
43427989 AAAATAGTAATTTTACCTTACAAGGGCAAAATAGTCATTTTACCACATAAGGGC-AAAATAATCA
1 AAAACAATCATTTTACCATAAAAGGGCAAAATAGTCATTTTACCACATAAGGGCAAAAATAATCA
43428053 TTTTACCTCATAAAGGC
66 TTTTACCTCATAAAGGC
* * * *
43428070 AAAACAATCATTTTACCCTATAAGAGAAAAATAGTCATTTTA
1 AAAACAATCATTTTACCATAAAAGGGCAAAATAGTCATTTTA
43428112 TTAATTTAGG
Statistics
Matches: 106, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
81 60 0.57
82 46 0.43
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.27
Consensus pattern (82 bp):
AAAACAATCATTTTACCATAAAAGGGCAAAATAGTCATTTTACCACATAAGGGCAAAAATAATCA
TTTTACCTCATAAAGGC
Found at i:43434112 original size:23 final size:24
Alignment explanation
Indices: 43434072--43434116 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
43434062 CAAGTGCTAC
*
43434072 CCATCCAGCCTCTACACTCCATCT
1 CCATCCAACCTCTACACTCCATCT
43434096 CCATCCAACC-CTACACTCCAT
1 CCATCCAACCTCTACACTCCAT
43434117 GTGGGGATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.24, C:0.51, G:0.02, T:0.22
Consensus pattern (24 bp):
CCATCCAACCTCTACACTCCATCT
Found at i:43434415 original size:27 final size:27
Alignment explanation
Indices: 43434377--43434512 Score: 146
Period size: 27 Copynumber: 5.0 Consensus size: 27
43434367 AAACATACAT
* * *
43434377 CACATAGGGGCAAGACAGTCATCCTAC
1 CACATAAGGGCAAAACAGTCATTCTAC
* * *
43434404 CACATAAGGGCAAAATAGTTATTTTAC
1 CACATAAGGGCAAAACAGTCATTCTAC
* * *
43434431 CTCATAAGGGCAACACCGTCATTCTAC
1 CACATAAGGGCAAAACAGTCATTCTAC
* * *
43434458 CACATAAGGGCAAAACTGTCATTTTAA
1 CACATAAGGGCAAAACAGTCATTCTAC
* *
43434485 CACATAAGGGCAAAACATTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTCTAC
43434512 C
1 C
43434513 TTATAGGGGT
Statistics
Matches: 89, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTCTAC
Found at i:43434507 original size:54 final size:54
Alignment explanation
Indices: 43434377--43434512 Score: 166
Period size: 54 Copynumber: 2.5 Consensus size: 54
43434367 AAACATACAT
* * * * *
43434377 CACATAGGGGCAAGACAGTCATCCTACCACATAAGGGCAAAATAGTTATTTTAC
1 CACATAAGGGCAAAACAGTCATTCTACCACATAAGGGCAAAATAGTCATTTTAA
* * *
43434431 CTCATAAGGGCAACACCGTCATTCTACCACATAAGGGCAAAACT-GTCATTTTAA
1 CACATAAGGGCAAAACAGTCATTCTACCACATAAGGGCAAAA-TAGTCATTTTAA
* *
43434485 CACATAAGGGCAAAACATTCATTTTACC
1 CACATAAGGGCAAAACAGTCATTCTACC
43434513 TTATAGGGGT
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
54 68 0.99
55 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (54 bp):
CACATAAGGGCAAAACAGTCATTCTACCACATAAGGGCAAAATAGTCATTTTAA
Found at i:43434533 original size:27 final size:27
Alignment explanation
Indices: 43434503--43434625 Score: 115
Period size: 27 Copynumber: 4.5 Consensus size: 27
43434493 GGCAAAACAT
*
43434503 TCATTTTACCTTATAGGGGTATTAT-AG
1 TCATTTTACCCTATAGGGGTATT-TCAG
*
43434530 TCATTTTACCCCTAT-GAGGGTATTTCGG
1 TCATTTTA-CCCTATAG-GGGTATTTCAG
* * * **
43434558 TAATTTTACTCTATGGGGGTATTTTGG
1 TCATTTTACCCTATAGGGGTATTTCAG
** *
43434585 TCATTTTACCCTATAAAGGTATTTCAA
1 TCATTTTACCCTATAGGGGTATTTCAG
43434612 TCATTTTACCCTAT
1 TCATTTTACCCTAT
43434626 GGGTTCCTGA
Statistics
Matches: 79, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
27 58 0.73
28 21 0.27
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTTCAG
Found at i:43434626 original size:54 final size:55
Alignment explanation
Indices: 43434503--43434628 Score: 155
Period size: 54 Copynumber: 2.3 Consensus size: 55
43434493 GGCAAAACAT
* * * * **
43434503 TCATTTTACCTTATAGGGGTATTATAGTCATTTTACCCCTATGAGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTATAGTCATTTTACCCCTATAAAGGTATTTCAA
* * * *
43434558 TAATTTTACTCTATGGGGGTATTTTGGTCATTTTA-CCCTATAAAGGTATTTCAA
1 TCATTTTACCCTATGGGGGTATTATAGTCATTTTACCCCTATAAAGGTATTTCAA
43434612 TCATTTTACCCTATGGG
1 TCATTTTACCCTATGGG
43434629 TTCCTGATGA
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
54 30 0.51
55 29 0.49
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (55 bp):
TCATTTTACCCTATGGGGGTATTATAGTCATTTTACCCCTATAAAGGTATTTCAA
Found at i:43435053 original size:41 final size:41
Alignment explanation
Indices: 43434937--43435056 Score: 109
Period size: 41 Copynumber: 2.9 Consensus size: 41
43434927 ATACTTGATC
* * * *
43434937 TCTCGCACACTAGGTGCCATAGCATAGTTGAAGCTATTATAA
1 TCTCGCACACTAAGTGCCATA-TATAGTCGAAGCTATTACAA
* * * * * *
43434979 TCTCTCATACTAAGTGCC-TTTCATAGCCAAAGCTATCT-CAG
1 TCTCGCACACTAAGTGCCATAT-ATAGTCGAAGCTAT-TACAA
43435020 TCTCGCACACTAAGTGCCATATATAGTCGAAGCTATT
1 TCTCGCACACTAAGTGCCATATATAGTCGAAGCTATT
43435057 CCGATTTGCA
Statistics
Matches: 60, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
40 1 0.02
41 41 0.68
42 18 0.30
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (41 bp):
TCTCGCACACTAAGTGCCATATATAGTCGAAGCTATTACAA
Found at i:43438013 original size:32 final size:32
Alignment explanation
Indices: 43437977--43438042 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
43437967 AAATAGATAA
*
43437977 TGATGCTAAATCTTTAACACAAACACAATAGC
1 TGATGCCAAATCTTTAACACAAACACAATAGC
*
43438009 TGATGCCAAATCTTTAACGCAAACACAATAGC
1 TGATGCCAAATCTTTAACACAAACACAATAGC
43438041 TG
1 TG
43438043 CTAACTCTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.23, G:0.12, T:0.24
Consensus pattern (32 bp):
TGATGCCAAATCTTTAACACAAACACAATAGC
Found at i:43459327 original size:26 final size:25
Alignment explanation
Indices: 43459284--43459341 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
43459274 ATAAAACCTA
43459284 AAAATAAAATAGTATTAAATGAAAAT
1 AAAATAAAATAGTATTAAA-GAAAAT
* *
43459310 AAAATAAAA-ATTACTTAAAGAAGAT
1 AAAATAAAATAGTA-TTAAAGAAAAT
43459335 -AAATAAA
1 AAAATAAA
43459342 GATAAATGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 7 0.24
25 8 0.28
26 14 0.48
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (25 bp):
AAAATAAAATAGTATTAAAGAAAAT
Found at i:43461076 original size:13 final size:13
Alignment explanation
Indices: 43461058--43461083 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43461048 TTTTGAGCAT
43461058 GGGTGGTGGGCAC
1 GGGTGGTGGGCAC
43461071 GGGTGGTGGGCAC
1 GGGTGGTGGGCAC
43461084 AGGCGTGTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.15, G:0.62, T:0.15
Consensus pattern (13 bp):
GGGTGGTGGGCAC
Found at i:43485329 original size:93 final size:93
Alignment explanation
Indices: 43485217--43485389 Score: 319
Period size: 93 Copynumber: 1.9 Consensus size: 93
43485207 CGCCCATAAG
* *
43485217 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
43485282 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
43485310 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
43485375 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
43485390 CAAATATCCC
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:43485385 original size:46 final size:46
Alignment explanation
Indices: 43485210--43485385 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
43485200 TGTAACCCGC
* * *
43485210 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
43485256 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
43485306 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
43485349 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
43485386 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:43489777 original size:25 final size:25
Alignment explanation
Indices: 43489738--43489819 Score: 101
Period size: 25 Copynumber: 3.3 Consensus size: 25
43489728 CTTGTACTTT
* * *
43489738 TATGCTCATACGAGCTATGAATTGG
1 TATGCTCACATGAGCTATAAATTGG
*
43489763 TATGCTCACATGAGCTATAAATAGG
1 TATGCTCACATGAGCTATAAATTGG
** *
43489788 TATGCTTTCATGAGCTGTAAATTGG
1 TATGCTCACATGAGCTATAAATTGG
43489813 TATGCTC
1 TATGCTC
43489820 TCACGAGTTG
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (25 bp):
TATGCTCACATGAGCTATAAATTGG
Found at i:43492927 original size:19 final size:19
Alignment explanation
Indices: 43492903--43492941 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
43492893 AAAATAACAC
43492903 AAAGTAAGCTTCACAGCTT
1 AAAGTAAGCTTCACAGCTT
*
43492922 AAAGTAAGCTTCATAGCTT
1 AAAGTAAGCTTCACAGCTT
43492941 A
1 A
43492942 GTAAGTTCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (19 bp):
AAAGTAAGCTTCACAGCTT
Found at i:43507111 original size:25 final size:25
Alignment explanation
Indices: 43507072--43507153 Score: 110
Period size: 25 Copynumber: 3.3 Consensus size: 25
43507062 CTTGTACTTT
* * *
43507072 TATGCTCATACGAGCTATGAATTGG
1 TATGCTCACATGAGCTATAAATTGG
*
43507097 TATGCTCACATGAGCTATAAATAGG
1 TATGCTCACATGAGCTATAAATTGG
* *
43507122 TATGCTCTCATGAGCTGTAAATTGG
1 TATGCTCACATGAGCTATAAATTGG
43507147 TATGCTC
1 TATGCTC
43507154 TCACGAGTTG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (25 bp):
TATGCTCACATGAGCTATAAATTGG
Found at i:43507154 original size:25 final size:25
Alignment explanation
Indices: 43507083--43507156 Score: 112
Period size: 25 Copynumber: 3.0 Consensus size: 25
43507073 ATGCTCATAC
* *
43507083 GAGCTATGAATTGGTATGCTCACAT
1 GAGCTATAAATTGGTATGCTCTCAT
*
43507108 GAGCTATAAATAGGTATGCTCTCAT
1 GAGCTATAAATTGGTATGCTCTCAT
*
43507133 GAGCTGTAAATTGGTATGCTCTCA
1 GAGCTATAAATTGGTATGCTCTCA
43507157 CGAGTTGTGG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.32
Consensus pattern (25 bp):
GAGCTATAAATTGGTATGCTCTCAT
Found at i:43509295 original size:43 final size:43
Alignment explanation
Indices: 43509229--43509355 Score: 170
Period size: 43 Copynumber: 3.0 Consensus size: 43
43509219 AAGTCTGAAC
**
43509229 TCAT-TCACCGGCATT-TCA-CCTGCTAGGCTTGAAGCCCGATA
1 TCATCTCACCGGCATTAT-AGCCTGCTAGGCCCGAAGCCCGATA
* **
43509270 TCATTTCAGTGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
*
43509313 TTATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
43509356 ATATTATTCA
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
41 4 0.05
42 10 0.13
43 61 0.81
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (43 bp):
TCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
Found at i:43513028 original size:40 final size:40
Alignment explanation
Indices: 43512965--43513188 Score: 256
Period size: 40 Copynumber: 5.5 Consensus size: 40
43512955 TATTCGGATG
*
43512965 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTAGT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTAGT
*
43513005 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTAGTT-GCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTAG-T
* * * *
43513048 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTAGT
** * * *
43513088 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTAGT
* *
43513128 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTT-GCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTAG-T
*
43513168 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
43513189 ATACTTGGGT
Statistics
Matches: 160, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 13 0.08
40 110 0.69
41 1 0.01
42 1 0.01
43 35 0.22
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTAGT
Found at i:43513111 original size:83 final size:80
Alignment explanation
Indices: 43512970--43513188 Score: 282
Period size: 83 Copynumber: 2.7 Consensus size: 80
43512960 GGATGATATT
* * * **
43512970 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTAGTATATCCGGGCTAAGTCCCAAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCAT
43513035 GCGAGTAGTTG-CTATACC
66 GC---TAG-TGACTATACC
*
43513053 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCAT
*
43513118 GCTAGTGACTATATC
66 GCTAGTGACTATACC
* * *
43513133 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
43513189 ATACTTGGGT
Statistics
Matches: 124, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
79 16 0.13
80 45 0.36
81 2 0.02
83 61 0.49
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCAT
GCTAGTGACTATACC
Found at i:43517862 original size:23 final size:23
Alignment explanation
Indices: 43517836--43517881 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
43517826 ATTTAGGGAC
*
43517836 TTATTTGTTAAAATATTAAAAGT
1 TTATTTGTTAAAATAGTAAAAGT
43517859 TTATTTGTTAAAATAGTAAAAGT
1 TTATTTGTTAAAATAGTAAAAGT
43517882 ACATGTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (23 bp):
TTATTTGTTAAAATAGTAAAAGT
Found at i:43521875 original size:40 final size:39
Alignment explanation
Indices: 43521715--43521877 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
43521705 TGTGTATGAA
*
43521715 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
43521754 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
43521793 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
43521832 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
43521872 TGTGCG
1 TGTGCG
43521878 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:43521893 original size:40 final size:39
Alignment explanation
Indices: 43521715--43521908 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
43521705 TGTGTATGAA
* *
43521715 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
43521754 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
43521793 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
43521832 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
43521872 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
43521909 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:43529301 original size:40 final size:40
Alignment explanation
Indices: 43529256--43529422 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
43529246 CGGAATATAA
43529256 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
43529296 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
43529336 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
43529376 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
43529415 CCGGATAT
1 CCGGATAT
43529423 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:43529406 original size:80 final size:79
Alignment explanation
Indices: 43529256--43529422 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
43529246 CGGAATATAA
* *
43529256 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
43529321 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
43529336 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
43529398 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
43529415 CCGGATAT
1 CCGGATAT
43529423 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:43530271 original size:17 final size:19
Alignment explanation
Indices: 43530248--43530293 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
43530238 AAGAAGCATG
43530248 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
43530266 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
43530284 AATCATGCTC
1 AATCATGCTC
43530294 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:43533003 original size:40 final size:39
Alignment explanation
Indices: 43532843--43533005 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
43532833 TGTGTATGAA
*
43532843 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
43532882 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
43532921 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
43532960 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
43533000 TGTGCG
1 TGTGCG
43533006 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:43533021 original size:40 final size:39
Alignment explanation
Indices: 43532843--43533036 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
43532833 TGTGTATGAA
* *
43532843 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
43532882 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
43532921 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
43532960 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
43533000 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
43533037 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:43536826 original size:39 final size:38
Alignment explanation
Indices: 43536742--43536976 Score: 281
Period size: 39 Copynumber: 6.0 Consensus size: 38
43536732 CAAATCCAAT
* * *
43536742 CACCACCACAAAGCATGCGGGACTTTAAGCCCGGATATAA
1 CACCAGCACAAAGCCTTCGGGAC-TT-AGCCCGGATATAA
* *
43536782 TACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAA
1 CACCAGCACAAAGCCTTCGGGAC-TTAGCCCGGATATAA
* * * *
43536821 CACCAGCATGAATGCCTTTGGGGCTTAGCCCGGATATAA
1 CACCAGCA-CAAAGCCTTCGGGACTTAGCCCGGATATAA
* * *
43536860 CACCAGCACGAATGCCTTCAGGACTTAGCCCAGATATAA
1 CACCAGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAA
* *
43536899 CACCAGCACAGATGCCTTCGGGACTTAGCCTGGATATAA
1 CACCAGCACA-AAGCCTTCGGGACTTAGCCCGGATATAA
43536938 CACCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACAAA-GCCTTCGGGACTTAGCCCGGATATAA
43536977 TACTCCATTA
Statistics
Matches: 172, Mismatches: 19, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 137 0.80
40 33 0.19
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.19
Consensus pattern (38 bp):
CACCAGCACAAAGCCTTCGGGACTTAGCCCGGATATAA
Found at i:43539047 original size:16 final size:16
Alignment explanation
Indices: 43539026--43539065 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
43539016 TGCACTAGGA
43539026 GGGTGTTCTTGGCATC
1 GGGTGTTCTTGGCATC
43539042 GGGTGTTCTTGGCATC
1 GGGTGTTCTTGGCATC
43539058 GGGTGTTC
1 GGGTGTTC
43539066 AACAGTGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.05, C:0.17, G:0.40, T:0.38
Consensus pattern (16 bp):
GGGTGTTCTTGGCATC
Found at i:43541987 original size:49 final size:49
Alignment explanation
Indices: 43541908--43542099 Score: 231
Period size: 49 Copynumber: 3.9 Consensus size: 49
43541898 ACTATTGTGA
* *
43541908 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * * * *
43541957 GGTCGCATGTGTAGTACTAAGCGTAGGCTACTATGCGTACCTGAAAACTCT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-T
* * * *
43542008 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
43542057 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
43542100 GTAGCTTCAG
Statistics
Matches: 117, Mismatches: 24, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
49 78 0.67
50 2 0.02
51 37 0.32
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:43542085 original size:100 final size:100
Alignment explanation
Indices: 43541910--43542097 Score: 322
Period size: 100 Copynumber: 1.9 Consensus size: 100
43541900 TATTGTGAGG
** *
43541910 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCACATGTGTAGTACT
*
43541975 AAGCGTAGGCTACTATGCGTACCTGAAAACTCTGA
66 AAGCGCAGGCTACTATGCGTACCTGAAAACTCTGA
*
43542010 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTATTGGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCACATGTGTAGTACT
*
43542075 AAGTGCAGGCTACTATGCGTACC
66 AAGCGCAGGCTACTATGCGTACC
43542098 AGGTAGCTTC
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCACATGTGTAGTACT
AAGCGCAGGCTACTATGCGTACCTGAAAACTCTGA
Found at i:43545117 original size:15 final size:15
Alignment explanation
Indices: 43545097--43545152 Score: 64
Period size: 15 Copynumber: 3.7 Consensus size: 15
43545087 GTATCTTGGG
43545097 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
43545112 TTTCTTTATTCTAGG-
1 TTTCTTTATTCT-GGA
43545127 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
43545142 TTTCTTTATTC
1 TTTCTTTATTC
43545153 GGTTTGCTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
14 6 0.17
15 23 0.66
16 6 0.17
ACGTcount: A:0.12, C:0.14, G:0.11, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:43547673 original size:51 final size:49
Alignment explanation
Indices: 43547602--43547840 Score: 286
Period size: 49 Copynumber: 4.8 Consensus size: 49
43547592 TATTGTGAGG
43547602 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAA-T-TGA
* * * * *
43547653 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAATTGA
* *
43547702 TCGCAG-GTGTAGTACTAAGTGCAGGCTACTATACGTACCCGAAAACTGTGA
1 TCAC-GTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAA-T-TGA
* * *
43547753 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC-AAATTATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAA--ATTGA
* *
43547802 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
43547841 AGATAGCTTC
Statistics
Matches: 160, Mismatches: 21, Indels: 15
0.82 0.11 0.08
Matches are distributed among these distances:
49 77 0.48
50 8 0.05
51 75 0.47
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAATTGA
Found at i:43547781 original size:100 final size:100
Alignment explanation
Indices: 43547608--43547840 Score: 421
Period size: 100 Copynumber: 2.3 Consensus size: 100
43547598 GAGGTCACGT
43547608 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAGT
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAGT
**
43547673 GCAGGCTACTACGTGTACCGGATAATTGGTCGCAG
66 GCAGGCTACTACGTGTACCAAATAATTGGTCGCAG
*
43547708 GTGTAGTACTAAGTGCAGGCTACTATACGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAGT
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAGT
* *
43547773 GCAGGCTACTACGTGTACCAAATTATTGGTCGCAT
66 GCAGGCTACTACGTGTACCAAATAATTGGTCGCAG
43547808 GTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACC
43547841 AGATAGCTTC
Statistics
Matches: 127, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 127 1.00
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (100 bp):
GTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAGT
GCAGGCTACTACGTGTACCAAATAATTGGTCGCAG
Found at i:43549446 original size:20 final size:20
Alignment explanation
Indices: 43549421--43549463 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
43549411 ACATAGACTT
43549421 TCAACTGAAAAACCAATTTA
1 TCAACTGAAAAACCAATTTA
43549441 TCAACTGAAAAACCAATTTA
1 TCAACTGAAAAACCAATTTA
43549461 TCA
1 TCA
43549464 CTTTTAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.49, C:0.21, G:0.05, T:0.26
Consensus pattern (20 bp):
TCAACTGAAAAACCAATTTA
Found at i:43559479 original size:29 final size:29
Alignment explanation
Indices: 43559417--43559519 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
43559407 GTGACGAGAT
* * *
43559417 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
43559446 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
43559475 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
43559504 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
43559520 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:43567487 original size:29 final size:29
Alignment explanation
Indices: 43567425--43567527 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
43567415 GTGACGAGAT
* * *
43567425 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
43567454 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
43567483 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
43567512 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
43567528 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:43572397 original size:29 final size:29
Alignment explanation
Indices: 43572342--43572399 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
43572332 ATTTAATACG
* *
43572342 AACTTTGGCAAATTACATTTTTTCCCCTA
1 AACTTTGGCAAATTACATCTTTGCCCCTA
*
43572371 AACTTTTGCATAATTACA-CTTTGCCCCTA
1 AACTTTGGCA-AATTACATCTTTGCCCCTA
43572400 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.28, C:0.26, G:0.07, T:0.40
Consensus pattern (29 bp):
AACTTTGGCAAATTACATCTTTGCCCCTA
Found at i:43573471 original size:44 final size:42
Alignment explanation
Indices: 43573420--43573517 Score: 117
Period size: 44 Copynumber: 2.3 Consensus size: 42
43573410 ATATGTGTTA
*
43573420 TCGTGTAAGACCACATCTGGGACATTGGCATCG-ACTTATGATT
1 TCGTGTAAGACCACATCAGGGACATTGGCATCGTA-TT-TGATT
** **
43573463 TACGTGTAAGACCATGTCAGGGATGTTGGCATCGTATTTGATT
1 T-CGTGTAAGACCACATCAGGGACATTGGCATCGTATTTGATT
43573506 TCGTGTAAGACC
1 TCGTGTAAGACC
43573518 CTGTCTCGGA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
42 11 0.23
43 7 0.15
44 29 0.60
45 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (42 bp):
TCGTGTAAGACCACATCAGGGACATTGGCATCGTATTTGATT
Found at i:43573544 original size:43 final size:44
Alignment explanation
Indices: 43573444--43573579 Score: 131
Period size: 43 Copynumber: 3.2 Consensus size: 44
43573434 ATCTGGGACA
* *
43573444 TTGGCATCGACT-TATGATTTACGTGTAAGACCATGTCAGGGATG
1 TTGGCATCGA-TATTTGATTTACGTGTAAGACCATGTCACGGATG
* *
43573488 TTGGCATCG-TATTTGATTT-CGTGTAAGACCCTGTCTCGGATAG
1 TTGGCATCGATATTTGATTTACGTGTAAGACCATGTCACGGAT-G
* * * *
43573531 -TGGCATCGATATTTGA-TTACATGGAAGACCACGTCTA-GGACG
1 TTGGCATCGATATTTGATTTACGTGTAAGACCATGTC-ACGGATG
43573573 TTGGCAT
1 TTGGCAT
43573580 TGTACGAGCT
Statistics
Matches: 76, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
42 31 0.41
43 36 0.47
44 9 0.12
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (44 bp):
TTGGCATCGATATTTGATTTACGTGTAAGACCATGTCACGGATG
Found at i:43575510 original size:42 final size:42
Alignment explanation
Indices: 43575463--43575550 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
43575453 AGAGAATACA
43575463 ATAAGAGTATTTGATGAATTGTC-TCGACTCTGGATAAATGC
1 ATAAGAGTATTTGATGAATTGTCTTCGACTCTGGATAAATGC
* *
43575504 GATAAGAGTATTTGATGAATTGTCTTTGACTTTGGATAAATGC
1 -ATAAGAGTATTTGATGAATTGTCTTCGACTCTGGATAAATGC
43575547 ATAA
1 ATAA
43575551 AATGTGTCGT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
42 27 0.63
43 16 0.37
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.36
Consensus pattern (42 bp):
ATAAGAGTATTTGATGAATTGTCTTCGACTCTGGATAAATGC
Found at i:43577008 original size:33 final size:33
Alignment explanation
Indices: 43576961--43577033 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
43576951 AATAGTGCAT
* * * *
43576961 ACAGTAACGGTCTGGACCTGAGCCCTATTCATTA
1 ACAGT-ACAGTCTGGACCTAAGCCCTATACAGTA
**
43576995 ACAGTACAGTCTGGGTCTAAGCCCTATACAGTA
1 ACAGTACAGTCTGGACCTAAGCCCTATACAGTA
43577028 ACAGTA
1 ACAGTA
43577034 TGGGCCTATA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 28 0.85
34 5 0.15
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (33 bp):
ACAGTACAGTCTGGACCTAAGCCCTATACAGTA
Found at i:43578835 original size:63 final size:63
Alignment explanation
Indices: 43578736--43578868 Score: 266
Period size: 63 Copynumber: 2.1 Consensus size: 63
43578726 ACAAATTATG
43578736 ATCATGACTAGCCATACCAGAGGCTAATCATTGTCAAACATCTCCCTACTACACTATTGCCAT
1 ATCATGACTAGCCATACCAGAGGCTAATCATTGTCAAACATCTCCCTACTACACTATTGCCAT
43578799 ATCATGACTAGCCATACCAGAGGCTAATCATTGTCAAACATCTCCCTACTACACTATTGCCAT
1 ATCATGACTAGCCATACCAGAGGCTAATCATTGTCAAACATCTCCCTACTACACTATTGCCAT
43578862 ATCATGA
1 ATCATGA
43578869 ATTTTAACAC
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 70 1.00
ACGTcount: A:0.32, C:0.29, G:0.11, T:0.27
Consensus pattern (63 bp):
ATCATGACTAGCCATACCAGAGGCTAATCATTGTCAAACATCTCCCTACTACACTATTGCCAT
Found at i:43579567 original size:28 final size:28
Alignment explanation
Indices: 43579527--43579625 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 28
43579517 GTAATAAGCC
*
43579527 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
43579555 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* ** * * *
43579583 TGCACACTTAGTGCTATACCATTTGAACC
1 CGCACACTTAGTGCT-TAATAATCGAACT
43579612 CGCACACTTAGTGC
1 CGCACACTTAGTGC
43579626 CAATTTGTGA
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.62
29 18 0.31
30 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Done.