Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 64 of 292
Found at i:19094958 original size:52 final size:51
Alignment explanation
Indices: 19094832--19094967 Score: 206
Period size: 52 Copynumber: 2.7 Consensus size: 51
19094822 CTGGAGGCCT
* *
19094832 AGCCTCTTTT-AAT-AACTGGGACA-AAGCCCTTTTTGGTAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
*
19094881 AACCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-A
19094933 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
19094968 GCTCTTCCTC
Statistics
Matches: 79, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
48 5 0.06
49 6 0.08
50 9 0.11
51 24 0.30
52 35 0.44
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (51 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
Found at i:19095042 original size:20 final size:20
Alignment explanation
Indices: 19095017--19095103 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
19095007 TAATGAATAC
19095017 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
19095037 ATCATGTGCCTTTCATACAT
1 ATCATGTGCATTTCATACAT
*
19095057 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
19095077 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
19095097 ATCATGT
1 ATCATGT
19095104 ATATCATATC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 59 0.97
21 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:19095964 original size:27 final size:27
Alignment explanation
Indices: 19095934--19096047 Score: 99
Period size: 27 Copynumber: 4.3 Consensus size: 27
19095924 ACAAATCAAG
**
19095934 GGTAATTTTGTAAATCAGGGGTATTTT
1 GGTAATTTTACAAATCAGGGGTATTTT
* *
19095961 GGTAATTTTACAAAT-TGAGGGTATTTC
1 GGTAATTTTACAAATCAG-GGGTATTTT
* * * *
19095988 AGTAATTTCACAAACCAGTGGTATTTT
1 GGTAATTTTACAAATCAGGGGTATTTT
* *
19096015 GGTAATTTTACGAA-CTA-GGGTGTTTT
1 GGTAATTTTACAAATC-AGGGGTATTTT
19096041 GGTAATT
1 GGTAATT
19096048 CTACCCTATA
Statistics
Matches: 69, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
26 16 0.23
27 52 0.75
28 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.41
Consensus pattern (27 bp):
GGTAATTTTACAAATCAGGGGTATTTT
Found at i:19095965 original size:19 final size:19
Alignment explanation
Indices: 19095926--19095961 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19095916 GTAAATCTAC
19095926 AAATCAAGGGTAATTTTGT
1 AAATCAAGGGTAATTTTGT
*
19095945 AAATCAGGGGT-ATTTTG
1 AAATCAAGGGTAATTTTG
19095962 GTAATTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (19 bp):
AAATCAAGGGTAATTTTGT
Found at i:19096109 original size:27 final size:26
Alignment explanation
Indices: 19096079--19096170 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 26
19096069 GTAATTTCAC
*
19096079 AATCAAGGGTAAAACGATAATTTTGTA
1 AATCAAGGGTAAAAC-ATAATTCTGTA
19096106 AATCAAGGGTAAAACAGTAATTCTGTA
1 AATCAAGGGTAAAACA-TAATTCTGTA
* * *
19096133 AATCGAGGGTCAAACAATAATTCTATA
1 AATCAAGGGTAAAAC-ATAATTCTGTA
*
19096160 AATCGAGGGTA
1 AATCAAGGGTA
19096171 CTTTGGTAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
26 1 0.02
27 56 0.97
28 1 0.02
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (26 bp):
AATCAAGGGTAAAACATAATTCTGTA
Found at i:19096115 original size:80 final size:81
Alignment explanation
Indices: 19095936--19096116 Score: 179
Period size: 80 Copynumber: 2.3 Consensus size: 81
19095926 AAATCAAGGG
* * *
19095936 TAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAA
1 TAATTTTGTAAATCAAGGGTATTTTGGTAATTCTACAAATAGAGGGTATTTCAGTAATTTCACAA
* **** *
19096001 ACCAGTGGTATTTTGG
66 ACAAGTGGTAAAACGA
*** * * **
19096017 TAATTTTACGAA-CTAGGGTGTTTTGGTAATTCTACCCTATAG-GGGTATTTCAGTAATTTCACA
1 TAATTTTGTAAATCAAGGGTATTTTGGTAATTCTA-CAAATAGAGGGTATTTCAGTAATTTCACA
*
19096080 ATCAAG-GGTAAAACGA
65 AACAAGTGGTAAAACGA
19096096 TAATTTTGTAAATCAAGGGTA
1 TAATTTTGTAAATCAAGGGTA
19096117 AAACAGTAAT
Statistics
Matches: 76, Mismatches: 22, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
79 14 0.18
80 49 0.64
81 13 0.17
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.38
Consensus pattern (81 bp):
TAATTTTGTAAATCAAGGGTATTTTGGTAATTCTACAAATAGAGGGTATTTCAGTAATTTCACAA
ACAAGTGGTAAAACGA
Found at i:19096180 original size:27 final size:27
Alignment explanation
Indices: 19096150--19096371 Score: 137
Period size: 27 Copynumber: 8.2 Consensus size: 27
19096140 GGTCAAACAA
*
19096150 TAATTCTATAAATCGAGGGTACTTTGG
1 TAATTCTATAAATCGAGGGTATTTTGG
* *
19096177 TAATT-TTTACAAGTCGAGGGTATTTTAG
1 TAATTCTATA-AA-TCGAGGGTATTTTGG
* *
19096205 TAATTTTATAAATC-AGGGGTATTTTAG
1 TAATTCTATAAATCGA-GGGTATTTTGG
* * **
19096232 TAATTTTATAAA-CCAGGGGTATTTTAA
1 TAATTCTATAAATCGA-GGGTATTTTGG
* * ***
19096259 TAATTTTGTAAATCGAGGGTAAAATGG
1 TAATTCTATAAATCGAGGGTATTTTGG
***
19096286 TAACTT-TATAAATCGAGGGTAAAATGG
1 TAA-TTCTATAAATCGAGGGTATTTTGG
* **** *
19096313 TAATTCTATAAATCGAGAGTAGAACGA
1 TAATTCTATAAATCGAGGGTATTTTGG
* * *
19096340 TAATTCTGTAAATCGGGGGTACTTTGG
1 TAATTCTATAAATCGAGGGTATTTTGG
19096367 TAATT
1 TAATT
19096372 TGGTAAATTA
Statistics
Matches: 162, Mismatches: 25, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
26 7 0.04
27 128 0.79
28 24 0.15
29 3 0.02
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.37
Consensus pattern (27 bp):
TAATTCTATAAATCGAGGGTATTTTGG
Found at i:19096279 original size:54 final size:55
Alignment explanation
Indices: 19096148--19096279 Score: 155
Period size: 55 Copynumber: 2.4 Consensus size: 55
19096138 AGGGTCAAAC
* * *
19096148 AATAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACAAGTCGAGGGTATTTT
1 AATAATTTTATAAATCGAGGGTACTTTAGTAATTTTTACAAGCCGAGGGTATTTT
* *
19096203 AGTAATTTTATAAATC-AGGGGTATTTTAGTAATTTTATA-AA-CC-AGGGGTATTTT
1 AATAATTTTATAAATCGA-GGGTACTTTAGTAATTTT-TACAAGCCGA-GGGTATTTT
*
19096257 AATAATTTTGTAAATCGAGGGTA
1 AATAATTTTATAAATCGAGGGTA
19096280 AAATGGTAAC
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
53 1 0.02
54 30 0.45
55 33 0.50
56 2 0.03
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (55 bp):
AATAATTTTATAAATCGAGGGTACTTTAGTAATTTTTACAAGCCGAGGGTATTTT
Found at i:19096306 original size:54 final size:53
Alignment explanation
Indices: 19096095--19096306 Score: 151
Period size: 54 Copynumber: 3.9 Consensus size: 53
19096085 GGGTAAAACG
* * * * ***
19096095 ATAATTTTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTCA-AACA
1 ATAATTTTATAAATCGAGGGTAAAATAGTAATT-TATAAATCGAGGGT-ATTTTA
* *** * *
19096149 ATAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACAAGTCGAGGGTATTTTA
1 ATAATTTTATAAATCGAGGGTAAAATAGTAATTTATA-AA-TCGAGGGTATTTTA
* *** *
19096204 GTAATTTTATAAATC-AGGGGTATTTTAGTAATTTTATAAA-CCAGGGGTATTTTA
1 ATAATTTTATAAATCGA-GGGTAAAATAGTAA-TTTATAAATCGA-GGGTATTTTA
* *
19096258 ATAATTTTGTAAATCGAGGGTAAAATGGTAACTTTATAAATCGAGGGTA
1 ATAATTTTATAAATCGAGGGTAAAATAGTAA-TTTATAAATCGAGGGTA
19096307 AAATGGTAAT
Statistics
Matches: 124, Mismatches: 26, Indels: 16
0.75 0.16 0.10
Matches are distributed among these distances:
53 5 0.04
54 75 0.60
55 39 0.31
56 5 0.04
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.36
Consensus pattern (53 bp):
ATAATTTTATAAATCGAGGGTAAAATAGTAATTTATAAATCGAGGGTATTTTA
Found at i:19099140 original size:25 final size:25
Alignment explanation
Indices: 19099111--19099158 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
19099101 TTATAATATG
* * *
19099111 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
19099136 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
19099159 GTTTATGTAT
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:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:19099227 original size:20 final size:20
Alignment explanation
Indices: 19099202--19099260 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
19099192 TAAATATGGT
19099202 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
19099222 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
19099242 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
19099261 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:19099242 original size:11 final size:11
Alignment explanation
Indices: 19099206--19099260 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
19099196 TATGGTATGT
19099206 ATGATATGCAC
1 ATGATATGCAC
* *
19099217 ATGAAATG--T
1 ATGATATGCAC
19099226 ATGATATGCAC
1 ATGATATGCAC
*
19099237 ATGATATG--T
1 ATGATATGCAC
19099246 ATGATATGCAC
1 ATGATATGCAC
19099257 ATGA
1 ATGA
19099261 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:19099338 original size:24 final size:24
Alignment explanation
Indices: 19099311--19099477 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
19099301 GAGGAAGTGA
19099311 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
19099335 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
19099359 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
19099383 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
19099406 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
19099430 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
19099454 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
19099478 ATGATAAAGC
Statistics
Matches: 135, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
23 23 0.17
24 101 0.75
25 11 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:19099428 original size:71 final size:71
Alignment explanation
Indices: 19099311--19099478 Score: 257
Period size: 71 Copynumber: 2.3 Consensus size: 71
19099301 GAGGAAGTGA
19099311 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
19099376 AGTTATC
65 AGTTATC
** *
19099383 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
*
19099448 GTTATT
66 GTTATC
*
19099454 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
19099479 TGATAAAGCA
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
71 54 0.61
72 35 0.39
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
GTTATC
Found at i:19099704 original size:31 final size:31
Alignment explanation
Indices: 19099669--19099732 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
19099659 CGTTTACAGT
19099669 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
19099700 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
19099731 AA
1 AA
19099733 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:19107269 original size:25 final size:25
Alignment explanation
Indices: 19107240--19107287 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
19107230 TTATAATATG
* *
19107240 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
19107265 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
19107288 GTTTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:19107356 original size:20 final size:20
Alignment explanation
Indices: 19107331--19107389 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
19107321 TAAATATGGT
19107331 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
19107351 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
19107371 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
19107390 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:19107371 original size:11 final size:11
Alignment explanation
Indices: 19107335--19107389 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
19107325 TATGGTATGT
19107335 ATGATATGCAC
1 ATGATATGCAC
* *
19107346 ATGAAATG--T
1 ATGATATGCAC
19107355 ATGATATGCAC
1 ATGATATGCAC
*
19107366 ATGATATG--T
1 ATGATATGCAC
19107375 ATGATATGCAC
1 ATGATATGCAC
19107386 ATGA
1 ATGA
19107390 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:19107467 original size:24 final size:24
Alignment explanation
Indices: 19107440--19107582 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
19107430 GAGGAAGTGA
19107440 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
19107464 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
19107488 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
19107511 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
19107535 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
19107559 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
19107583 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:19107533 original size:47 final size:47
Alignment explanation
Indices: 19107440--19107582 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
19107430 GAGGAAGTGA
19107440 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
19107488 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
19107535 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
19107583 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:19107556 original size:71 final size:72
Alignment explanation
Indices: 19107440--19107583 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
19107430 GAGGAAGTGA
*
19107440 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
19107503 CCAGTTAT
65 CCAGTTAT
** * *
19107511 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
19107576 CAGTTAT
66 CAGTTAT
19107583 A
1 A
19107584 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:19109946 original size:40 final size:40
Alignment explanation
Indices: 19109784--19109963 Score: 143
Period size: 40 Copynumber: 4.5 Consensus size: 40
19109774 TGAATGATAC
* * * * * *
19109784 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATGT
1 CCGGGCTAAGACCCGAAGGTAATTGTGCTAGTGATTATAT
* *
19109824 CCGGGCTAAGACCCGAAGG-CATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGTAATT-GTGCTAG-TGATTATAT
* * * ** *
19109864 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGTAATTGTGCTAGTGATTATAT
* * *
19109904 CCGGGTTAAGACCCGAAGGTAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGTAATTGTGCTAGTGATTATAT
*
19109944 CC-GGTTAA-ATCCCGAAGGTA
1 CCGGGCTAAGA-CCCGAAGGTA
19109964 CGTGACTCGG
Statistics
Matches: 113, Mismatches: 22, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
38 1 0.01
39 19 0.17
40 88 0.78
41 5 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGTAATTGTGCTAGTGATTATAT
Found at i:19121867 original size:40 final size:40
Alignment explanation
Indices: 19121787--19122007 Score: 263
Period size: 40 Copynumber: 5.6 Consensus size: 40
19121777 TATTCGGACG
* *
19121787 ATATCCGTGCTAAGTCCCGAAGGCA-TTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
*
19121826 ATATTCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
* *
19121866 ATATCCGGGCTAAGTCCCGAAGG-TGTTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCAG-TTGTGCTA-TTGACT
* ** *
19121906 ATATCCGGGCTAAGTTCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
* * *
19121946 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTA-TTGACT
*
19121986 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
19122008 TACTTGGGTT
Statistics
Matches: 159, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
39 40 0.25
40 113 0.71
41 6 0.04
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
Found at i:19121920 original size:80 final size:79
Alignment explanation
Indices: 19121787--19122007 Score: 295
Period size: 80 Copynumber: 2.8 Consensus size: 79
19121777 TATTCGGACG
* * *
19121787 ATATCCGTGCTAAGTCCCGAAGGCA-TTGTGCTAG-TGACTATATTCGGGCTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGG-ATTTGTGCGAGTTG-CTATATCCGGGCTAAGTCCCGAAGGC
*
19121850 AGTTGTGCTATTGACT
64 AGTTGTGCTAGTGACT
* * *
19121866 ATATCCGGGCTAAGTCCCGAAGGTGTTTGTGCGAGTTGCTATATCCGGGCTAAGTTCCGAAGGCT
1 ATATCCGGGCTAAGTCCCGAAGG-ATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
*
19121931 TTTGTGCTAGTGACT
65 GTTGTGCTAGTGACT
* *
19121946 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG-ATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
19122008 TACTTGGGTT
Statistics
Matches: 126, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
79 36 0.29
80 88 0.70
81 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCAG
TTGTGCTAGTGACT
Found at i:19128384 original size:40 final size:40
Alignment explanation
Indices: 19128356--19128498 Score: 155
Period size: 40 Copynumber: 3.6 Consensus size: 40
19128346 TACTCGTTCG
* *
19128356 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACA
1 AATGCCTTCGGGACATAACCCGGATATAGTAACTCGCACA
* *
19128396 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACATAACCCGGATATAGTAACTCGCACA
* ** * *
19128436 AATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTTAGCACA
1 AATGCCTTCGGGA-CATAACCCGGATATAGTAAC-TCGCACA
* *
19128477 AA-GCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACATAACCCGG
19128499 TCATCATTCG
Statistics
Matches: 92, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
39 3 0.03
40 78 0.85
41 11 0.12
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATATAGTAACTCGCACA
Found at i:19133944 original size:24 final size:24
Alignment explanation
Indices: 19133917--19134027 Score: 186
Period size: 24 Copynumber: 4.6 Consensus size: 24
19133907 CTTATTATGT
19133917 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
19133941 TCGCACACTTAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
19133965 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
19133989 TCGCACACATAGTGCTATAATAAA
1 TCGCACACATAGTGCCATAGTAAA
*
19134013 TTGCACACATAGTGC
1 TCGCACACATAGTGC
19134028 ATTTGAGATA
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 82 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.23
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:19141756 original size:24 final size:24
Alignment explanation
Indices: 19141729--19141815 Score: 147
Period size: 24 Copynumber: 3.6 Consensus size: 24
19141719 CTTATTATGT
19141729 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
19141753 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
19141777 TCGCACACATAGTGCTATAATAAA
1 TCGCACACATAGTGCCATAGTAAA
*
19141801 TTGCACACATAGTGC
1 TCGCACACATAGTGC
19141816 ATTTGAGATA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:19147266 original size:40 final size:39
Alignment explanation
Indices: 19147196--19147337 Score: 153
Period size: 40 Copynumber: 3.6 Consensus size: 39
19147186 TACTCGTTCG
** * *
19147196 AATGCCTTCGGGACAGAGCCCGGTTATAGTAACTCGTACA
1 AATGCCTTCGGGACTTAGCCCGATT-TAGTAACTCGCACA
*
19147236 AATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCG-ATTTAGTAACTCGCACA
* *
19147276 AATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTTAGCACA
1 AATGCCTTCGGGA-CTTAG-CCCGATTTAGTAAC-TCGCACA
*
19147317 AA-GCCTTCAGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
19147338 GTCATCATTC
Statistics
Matches: 88, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
39 6 0.07
40 66 0.75
41 16 0.18
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGATTTAGTAACTCGCACA
Found at i:19152096 original size:39 final size:40
Alignment explanation
Indices: 19152042--19152182 Score: 180
Period size: 40 Copynumber: 3.6 Consensus size: 40
19152032 TATTCGGATG
*
19152042 ATATCCGGGCTAAGTCCCGAAGGCA-TTGTTCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACT
* *
19152081 ATATCCGGGCTAAGTCCCAAAGGCAGTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACT
* * *
19152121 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAG-TGACT
* *
19152161 ATAT-CTGGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
19152183 TACTTGGGTT
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
39 39 0.44
40 48 0.54
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACT
Found at i:19154828 original size:22 final size:22
Alignment explanation
Indices: 19154746--19154818 Score: 110
Period size: 22 Copynumber: 3.3 Consensus size: 22
19154736 AGCTAAAATG
* *
19154746 GTAAGCTCTATCAAGCTGAATA
1 GTAAGCTCTATTAAGCTGAACA
* *
19154768 GTAAGCTCTGTTGAGCTGAACA
1 GTAAGCTCTATTAAGCTGAACA
19154790 GTAAGCTCTATTAAGCTGAACA
1 GTAAGCTCTATTAAGCTGAACA
19154812 GTAAGCT
1 GTAAGCT
19154819 TTTACAAGCT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (22 bp):
GTAAGCTCTATTAAGCTGAACA
Found at i:19156898 original size:48 final size:48
Alignment explanation
Indices: 19156804--19156981 Score: 214
Period size: 48 Copynumber: 3.7 Consensus size: 48
19156794 CTTGTAGACT
* * * * * * *
19156804 AAGTGCCAATATCATGGCCCGAAGCTAACTCCATATATCTCACACCCG
1 AAGTACCAATATCATGGCCCGAAGCCAAATCAATAAAGCTCACACCCA
* * *
19156852 AAGTGCTAAT-TCCATGGCCCGAAGCCAAATCAATAAAGCTCGCACCCA
1 AAGTACCAATAT-CATGGCCCGAAGCCAAATCAATAAAGCTCACACCCA
* * *
19156900 AAGTTCCAATATCATGGCCCGAAACCAAATCAATAAAGCTCACTCCCA
1 AAGTACCAATATCATGGCCCGAAGCCAAATCAATAAAGCTCACACCCA
*
19156948 AAGTACCAATATCATGTCCCGAAGCCAAATCAAT
1 AAGTACCAATATCATGGCCCGAAGCCAAATCAAT
19156982 GTATCCCCTA
Statistics
Matches: 112, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
47 1 0.01
48 110 0.98
49 1 0.01
ACGTcount: A:0.37, C:0.31, G:0.13, T:0.19
Consensus pattern (48 bp):
AAGTACCAATATCATGGCCCGAAGCCAAATCAATAAAGCTCACACCCA
Found at i:19169390 original size:53 final size:54
Alignment explanation
Indices: 19169322--19169516 Score: 185
Period size: 55 Copynumber: 3.6 Consensus size: 54
19169312 CATACCATTT
* * * *
19169322 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCATTG
1 CCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTACCAATG
* * * * * ** *
19169375 TCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCGTAGTTTATCAATG
1 CCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG-AACTTACCAATG
* * * * * *
19169430 CCATGTCGTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATG
1 CCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTACCAATG
* * *
19169484 CCATGCCCTGGCATGGTCTTACTTGGTATCCTT
1 CCATGCCTTGACATGGTCTTACATGGTATCCTT
19169517 AAACCCTAAT
Statistics
Matches: 109, Mismatches: 31, Indels: 3
0.76 0.22 0.02
Matches are distributed among these distances:
53 34 0.31
54 37 0.34
55 38 0.35
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (54 bp):
CCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTACCAATG
Found at i:19194679 original size:21 final size:22
Alignment explanation
Indices: 19194648--19194688 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
19194638 GAATGTATTG
*
19194648 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
*
19194670 TGAT-TATGTGCCAATGAAA
1 TGATGTATGTGCAAATGAAA
19194689 CATAAATCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:19201467 original size:47 final size:47
Alignment explanation
Indices: 19201415--19201513 Score: 171
Period size: 47 Copynumber: 2.1 Consensus size: 47
19201405 GACAAGAATG
*
19201415 CCATGTTTGGAACATGGCATTTGGTAAGACAATGATACCATGTAAGA
1 CCATGTTTGGAACATGGCATTTGGTAAGACAAGGATACCATGTAAGA
* *
19201462 CCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGA
1 CCATGTTTGGAACATGGCATTTGGTAAGACAAGGATACCATGTAAGA
19201509 CCATG
1 CCATG
19201514 CCAAGACATG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.28
Consensus pattern (47 bp):
CCATGTTTGGAACATGGCATTTGGTAAGACAAGGATACCATGTAAGA
Found at i:19201621 original size:55 final size:55
Alignment explanation
Indices: 19201492--19201894 Score: 385
Period size: 54 Copynumber: 7.6 Consensus size: 55
19201482 TTGGTAAGAT
* *
19201492 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC-
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCA
* * *
19201546 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGCA
* * *
19201602 AAGG-TCCCATGTAAGACCATGCCAAGGCATGACATTGATGAGTTC-ATAA-G-A
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCA
****
19201653 AAGGATACCATGTAAGACCATGTTTGGAACATGGCATT--TG-G-----TAA-G-A
1 AAGGATACCATGTAAGACCATGCCAAG-ACATGGCATTGATGAGTTCTATAAGGCA
* * *
19201699 TAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC-
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCA
* * * * * * *
19201754 AAGGAAATCATGTAAGACCGTGTCAAGACATGGAATTGATGAGTTATTGTAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGCA
* * * *
19201810 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAATTC-ATAAGGC-
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCA
* *
19201862 AAGGATACCACGTAAGACCATGTCAAGACATGG
1 AAGGATACCATGTAAGACCATGCCAAGACATGG
19201895 AAATGGTAAG
Statistics
Matches: 285, Mismatches: 46, Indels: 37
0.77 0.12 0.10
Matches are distributed among these distances:
46 14 0.05
47 22 0.08
48 1 0.00
49 1 0.00
50 1 0.00
51 7 0.02
52 22 0.08
53 42 0.15
54 85 0.30
55 82 0.29
56 8 0.03
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (55 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCA
Found at i:19201727 original size:99 final size:105
Alignment explanation
Indices: 19201500--19201896 Score: 452
Period size: 109 Copynumber: 3.8 Consensus size: 105
19201490 ATAAGGATAT
* * * *
19201500 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTC-ATAAGGCAAGGATACCATGTAAGACC
*
19201565 ATGTCAAGACATGGCATTGATGAGTTACTA-TAAGGCAAAGGTCC
65 ATGTCAAGACATGGAATT-ATGAGTTA-TAGTAAGGCAAA-GT-C
* *
19201609 CATGTAAGACCATGCCAAGGCATGACATTGATGAGTTCATAA-GAAAGGATACCATGTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCATAAGGCAAGGATACCATGTAAGACCA
*** * *
19201673 TGTTTGGAACATGGCATT-TG-G-TA-AGATAAGG-ATA-T-
66 TGTCAAG-ACATGGAATTATGAGTTATAG-TAAGGCAAAGTC
* * *
19201708 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTC-ATAAGGCAAGGATACCATGTAAGACC
* *
19201773 GTGTCAAGACATGGAATTGATGAGTTATTGTAAGGCAAAGGTCC
65 ATGTCAAGACATGGAATT-ATGAGTTATAGTAAGGCAAA-GT-C
* * *
19201817 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAATTCATAAGGCAAGGATACCACGTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCATAAGGCAAGGATACCATGTAAGACCA
19201882 TGTCAAGACATGGAA
66 TGTCAAGACATGGAA
19201897 ATGGTAAGTT
Statistics
Matches: 244, Mismatches: 29, Indels: 31
0.80 0.10 0.10
Matches are distributed among these distances:
99 36 0.15
100 13 0.05
101 23 0.09
102 3 0.01
103 3 0.01
104 14 0.06
105 4 0.02
106 2 0.01
107 24 0.10
108 52 0.21
109 70 0.29
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (105 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCATAAGGCAAGGATACCATGTAAGACCA
TGTCAAGACATGGAATTATGAGTTATAGTAAGGCAAAGTC
Found at i:19201809 original size:208 final size:208
Alignment explanation
Indices: 19201439--19201884 Score: 775
Period size: 208 Copynumber: 2.1 Consensus size: 208
19201429 TGGCATTTGG
*
19201439 TAAGACAATGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
1 TAAGA-AAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
19201504 TAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGT
65 TAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGT
*
19201569 CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGA
130 CAAGACATGGAATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGA
*
19201634 CATTGATGAGTTCA
195 CATTGATGAATTCA
19201648 TAAGAAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGT
1 TAAGAAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGT
* *
19201713 AAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCGTGTC
66 AAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGTC
* * *
19201778 AAGACATGGAATTGATGAGTTATTGTAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGGC
131 AAGACATGGAATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGAC
*
19201843 ATTGGTGAATTCA
196 ATTGATGAATTCA
* *
19201856 TAAGGCAAGGATACCACGTAAGACCATGT
1 TAA-GAAAGGATACCATGTAAGACCATGT
19201885 CAAGACATGG
Statistics
Matches: 225, Mismatches: 11, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
208 197 0.88
209 28 0.12
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (208 bp):
TAAGAAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGT
AAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGTC
AAGACATGGAATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGAC
ATTGATGAATTCA
Found at i:19203993 original size:42 final size:41
Alignment explanation
Indices: 19203913--19204060 Score: 151
Period size: 42 Copynumber: 3.6 Consensus size: 41
19203903 GAGCTTGGTC
19203913 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* *
19203954 TCGAAGGGCTTTTTAGAGCCAGTG-TCATAACCGGACTTAGTT
1 TCGAAGGGC-TTTT-GAGCCAGTGCTAATAACCGAACTTAGTT
* * * * * * *
19203996 CCGAAGGGCCTTCGAGCCAGTAGTTAAT--CCGAGCTTGGTC
1 TCGAAGGGCTTTTGAGCCAGT-GCTAATAACCGAACTTAGTT
*
19204036 TCGAAGGG-TTTTGAGCCGGTGCTAA
1 TCGAAGGGCTTTTGAGCCAGTGCTAA
19204061 GAGTCGGACT
Statistics
Matches: 88, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
38 4 0.05
39 9 0.10
40 23 0.26
41 12 0.14
42 31 0.35
43 9 0.10
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (41 bp):
TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
Found at i:19211899 original size:42 final size:41
Alignment explanation
Indices: 19211819--19211968 Score: 162
Period size: 41 Copynumber: 3.6 Consensus size: 41
19211809 GAGCTTGGTC
19211819 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* *
19211860 TCGAAGGGCTTTTTAGAGCCAGTG-TCATAACCGGACTTAGTT
1 TCGAAGGGC-TTTT-GAGCCAGTGCTAATAACCGAACTTAGTT
* * * * * *
19211902 CCGAAGGGCCTTCGAGCCAGTAGTCTAAT--CCGAGCTTGGTC
1 TCGAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGTT
*
19211943 TCGAAGGGCTTTTGAGCCGGTGCTAA
1 TCGAAGGGCTTTTGAGCCAGTGCTAA
19211969 GAGTCGGACT
Statistics
Matches: 90, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
39 4 0.04
40 9 0.10
41 37 0.41
42 28 0.31
43 12 0.13
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (41 bp):
TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
Found at i:19211951 original size:41 final size:40
Alignment explanation
Indices: 19211799--19211968 Score: 161
Period size: 41 Copynumber: 4.2 Consensus size: 40
19211789 GCTAATCGGG
*
19211799 GTCTAAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GTCT-AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
* *
19211840 G-CTAATAACCGAACTTAGTTTCGAAGGGCTTTTTAGAGCCAGT
1 GTCTAAT--CCGAGCTTAGTCTCGAAGGGC-TTTT-GAGCCAGT
* *
19211883 GTCATAA-CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGT
1 GTC-TAATCCGAG-CTTAGTCT-CGAAGGGCTTTTGAGCCAGT
* *
19211923 AGTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCGGT
1 -GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
19211964 G-CTAA
1 GTCTAA
19211969 GAGTCGGACT
Statistics
Matches: 107, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
39 7 0.07
40 14 0.13
41 50 0.47
42 23 0.21
43 9 0.08
44 1 0.01
45 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
Found at i:19221740 original size:66 final size:66
Alignment explanation
Indices: 19221634--19221767 Score: 259
Period size: 66 Copynumber: 2.0 Consensus size: 66
19221624 ATGTGCGAAT
*
19221634 TGTGCAAGTGTACACATCGAATCAAGTAACAAAGTGATGAGTGAGTATGTTCCCATGAGGATTGG
1 TGTGCAAGTGTACACATCGAATCAAGTAACAAAGTGATGAGTGAGGATGTTCCCATGAGGATTGG
19221699 A
66 A
19221700 TGTGCAAGTGTACACATCGAATCAAGTAACAAAGTGATGAGTGAGGATGTTCCCATGAGGATTGG
1 TGTGCAAGTGTACACATCGAATCAAGTAACAAAGTGATGAGTGAGGATGTTCCCATGAGGATTGG
19221765 A
66 A
19221766 TG
1 TG
19221768 AGTTCTCTTT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.25
Consensus pattern (66 bp):
TGTGCAAGTGTACACATCGAATCAAGTAACAAAGTGATGAGTGAGGATGTTCCCATGAGGATTGG
A
Found at i:19224520 original size:52 final size:51
Alignment explanation
Indices: 19224401--19224578 Score: 236
Period size: 52 Copynumber: 3.5 Consensus size: 51
19224391 ACTAGTAACT
* * * *
19224401 CAAGTGCGGTACTATGTGAAGGTCACTTTGAGAAG-AGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAATAGCTTTGGTCA
19224450 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAAATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAAATAGCTTTGGTCA
* *
19224502 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGTAGCTTT-GACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAATAGCTTTGGTC-A
* * *
19224553 CATGGGTGGTACTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
19224579 CGGGTATCCG
Statistics
Matches: 116, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
49 32 0.28
50 2 0.02
51 40 0.34
52 42 0.36
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAATAGCTTTGGTCA
Found at i:19228498 original size:34 final size:34
Alignment explanation
Indices: 19228451--19228521 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
19228441 TTTTGTTATG
* *
19228451 TGTCACAATTGATTTGGCCTAAAATGTTGGCCTA
1 TGTCACAAGTGATTTGGCCTAAAATGTTCGCCTA
*
19228485 TGTCATAAGTGATTTGGCCTAAAATGTTCGCCTA
1 TGTCACAAGTGATTTGGCCTAAAATGTTCGCCTA
19228519 TGT
1 TGT
19228522 TATTTGATAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (34 bp):
TGTCACAAGTGATTTGGCCTAAAATGTTCGCCTA
Found at i:19230702 original size:53 final size:53
Alignment explanation
Indices: 19230525--19230731 Score: 195
Period size: 53 Copynumber: 3.8 Consensus size: 53
19230515 ATTAGGGTTT
* * * *
19230525 AAGGATACCAAGTAAGACCATGCCAAGGCATGG-AATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAA-TGGTAAG-TTCATAAGGC
* * * * * * *
19230579 AAGGA-ATTCATGTAAGATCATGTCAAGACATGGCATTGATAAACTACGATAAGGC
1 AAGGATA-CCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * *
19230634 AAAGAT-CTCATGTAAGACCATGCCAAGGCATGTCAATGGTAAGTTCATAAGGC
1 AAGGATAC-CATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
19230687 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
19230732 TAAAAAGGAA
Statistics
Matches: 120, Mismatches: 26, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
53 46 0.38
54 35 0.29
55 39 0.32
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:19232657 original size:37 final size:38
Alignment explanation
Indices: 19232611--19232684 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 38
19232601 AAGACACTTT
*
19232611 TGTCAGTAGTACCAAAAGA-AGGGTTACTTGGGATTTG
1 TGTCAGTAGTAACAAAAGAGAGGGTTACTTGGGATTTG
*
19232648 TGTCAGTAGTAACGAAAGAGAGGGTTACTTGGGATTT
1 TGTCAGTAGTAACAAAAGAGAGGGTTACTTGGGATTT
19232685 CTTTCAAGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 17 0.50
38 17 0.50
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (38 bp):
TGTCAGTAGTAACAAAAGAGAGGGTTACTTGGGATTTG
Found at i:19241729 original size:13 final size:13
Alignment explanation
Indices: 19241711--19241742 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
19241701 AGGCACAGGT
19241711 GTGTGACACGGCC
1 GTGTGACACGGCC
19241724 GTGTGACACGGCC
1 GTGTGACACGGCC
19241737 GTGTGA
1 GTGTGA
19241743 GGAAGTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.16, C:0.25, G:0.41, T:0.19
Consensus pattern (13 bp):
GTGTGACACGGCC
Found at i:19245226 original size:49 final size:49
Alignment explanation
Indices: 19245169--19245413 Score: 246
Period size: 49 Copynumber: 4.9 Consensus size: 49
19245159 TAGCCAAAGC
*
19245169 TATCTGGTAAGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTAAGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
19245218 TTTCTGGT-A-CATGTAGTAGCCTGCACTTAGTACTACACACGTC-ACCTAAC
1 TATCTGGTAAGCA--TAGTAGCCTGCACTTAGTACTACACACG-CGACC-AAT
* * * * *
19245268 CATCTGATACA-CGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTA-AGCATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * *
19245319 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTAAGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * * * *
19245368 AATCCGATACGCGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTAAGCATAGTAGCCTGCACTTAGTACTACACACGCGACC
19245414 TCACAATTTG
Statistics
Matches: 162, Mismatches: 24, Indels: 20
0.79 0.12 0.10
Matches are distributed among these distances:
47 2 0.01
48 1 0.01
49 78 0.48
50 42 0.26
51 37 0.23
52 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTAAGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:19245404 original size:100 final size:99
Alignment explanation
Indices: 19245182--19245413 Score: 306
Period size: 100 Copynumber: 2.3 Consensus size: 99
19245172 CTGGTAAGCA
* * * * **
19245182 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTTTCTGGTACATGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
* *
19245247 GTACTACACACGTCACCTAACCATCTGATACACG
66 GTACTACACACGTCACCTAACAATCCGATACACG
* *
19245281 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACT
* * *
19245346 TAGTACTACACATG-CGACC-AATAATCCGATACGCG
64 TAGTACTACACACGTC-ACCTAACAATCCGATACACG
19245381 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
19245414 TCACAATTTG
Statistics
Matches: 116, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
99 30 0.26
100 47 0.41
101 39 0.34
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACACACGTCACCTAACAATCCGATACACG
Found at i:19252016 original size:49 final size:49
Alignment explanation
Indices: 19251851--19252032 Score: 202
Period size: 49 Copynumber: 3.7 Consensus size: 49
19251841 AAGAAAAGAG
** *
19251851 AGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGT
1 AGTAGCCTGCACTTAGTACTACACATGTGACC-AATAATCCGATACACGT
* * * * * * * *
19251901 AGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCAT
1 AGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TAATCCGATACACGT
* **
19251952 AGTAGCCAGCACTTAGTACTACACATACGACCAATAATCCGATACACGT
1 AGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCCGATACACGT
*
19252001 AGTAGCCTGCACTTAGTACTACACACGTGACC
1 AGTAGCCTGCACTTAGTACTACACATGTGACC
19252033 TCACAATAGA
Statistics
Matches: 106, Mismatches: 24, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
49 38 0.36
50 33 0.31
51 35 0.33
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (49 bp):
AGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCCGATACACGT
Found at i:19257055 original size:43 final size:43
Alignment explanation
Indices: 19256999--19257088 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
19256989 GTTATGCCTC
*
19256999 ACACGCCCATGTGGAGGCAAAGCACATGCCCGTGTGCTTATGG
1 ACACGCCCATGTGGAGGCAAAGCACACGCCCGTGTGCTTATGG
* *
19257042 ACACGCCCGTGTGGAGGCAAATCACACGCCCGTGTGCTTATGG
1 ACACGCCCATGTGGAGGCAAAGCACACGCCCGTGTGCTTATGG
19257085 ACAC
1 ACAC
19257089 ACCTGTTTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.23, C:0.30, G:0.29, T:0.18
Consensus pattern (43 bp):
ACACGCCCATGTGGAGGCAAAGCACACGCCCGTGTGCTTATGG
Found at i:19259717 original size:3 final size:3
Alignment explanation
Indices: 19259709--19259754 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
19259699 TATTAACTTT
*
19259709 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATT ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
19259755 ATATCTTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:19260021 original size:20 final size:20
Alignment explanation
Indices: 19259996--19260042 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
19259986 TTTCTTTATT
19259996 TTTAATAATAATAAA-CATAA
1 TTTAATAAT-ATAAATCATAA
19260016 TTTAATAATATAAATCATAA
1 TTTAATAATATAAATCATAA
19260036 TTTAATA
1 TTTAATA
19260043 GAATAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
TTTAATAATATAAATCATAA
Found at i:19260048 original size:20 final size:18
Alignment explanation
Indices: 19260001--19260048 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
19259991 TTATTTTTAA
19260001 TAAT-AATAAACATAATT
1 TAATAAATAAACATAATT
19260018 TAATAATATAAATCATAATT
1 TAATAA-ATAAA-CATAATT
19260038 TAATAGAATAA
1 TAATA-AATAA
19260049 TAATAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 4 0.15
18 1 0.04
19 5 0.19
20 16 0.59
21 1 0.04
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.35
Consensus pattern (18 bp):
TAATAAATAAACATAATT
Found at i:19260572 original size:21 final size:21
Alignment explanation
Indices: 19260538--19260585 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
19260528 GTTTTCATTG
**
19260538 AAAACCCTTCTTAA-AATAAAA
1 AAAACCCTAATTAACAA-AAAA
*
19260559 GAAACCCTAATTAACAAAAAA
1 AAAACCCTAATTAACAAAAAA
19260580 AAAACC
1 AAAACC
19260586 TTTCAGTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.60, C:0.21, G:0.02, T:0.17
Consensus pattern (21 bp):
AAAACCCTAATTAACAAAAAA
Found at i:19261860 original size:16 final size:16
Alignment explanation
Indices: 19261835--19261866 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19261825 AAATTCAAGA
*
19261835 TTTTGGGATTTTTGGG
1 TTTTGAGATTTTTGGG
19261851 TTTTGAGATTTTTGGG
1 TTTTGAGATTTTTGGG
19261867 GCGTTACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.00, G:0.34, T:0.56
Consensus pattern (16 bp):
TTTTGAGATTTTTGGG
Found at i:19273403 original size:16 final size:16
Alignment explanation
Indices: 19273384--19273414 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19273374 CTTCTTCACT
19273384 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
19273400 TACTTACTTACTTAA
1 TACTCACTTACTTAA
19273415 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:19273420 original size:20 final size:20
Alignment explanation
Indices: 19273381--19273420 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
19273371 AAACTTCTTC
* *
19273381 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
19273401 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
19273421 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:19273791 original size:55 final size:53
Alignment explanation
Indices: 19273664--19273818 Score: 172
Period size: 55 Copynumber: 2.9 Consensus size: 53
19273654 AACTGACCAT
* * *
19273664 TGCCATGTCTCGACATGGTCTTACATGGTATCCTAGCCTTATAAACTCACTAA
1 TGCCATCTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAAACTCACTAA
* * * *
19273717 TGCCATAC-CTTGGCATGGTCTTGCATGGGA-CCTTTGCCTTATAGTAACTTA-TCAA
1 TGCCAT-CTCTTGACATGGTCTTACATGGTATCC-TTGCCTTATA--AACTCACT-AA
*
19273772 TGCCATCTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAACT
1 TGCCATCTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAAACT
19273819 TTACCAATTG
Statistics
Matches: 84, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
52 2 0.02
53 37 0.44
54 2 0.02
55 41 0.49
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (53 bp):
TGCCATCTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAAACTCACTAA
Found at i:19273844 original size:55 final size:52
Alignment explanation
Indices: 19273677--19273861 Score: 165
Period size: 55 Copynumber: 3.4 Consensus size: 52
19273667 CATGTCTCGA
* * * * * *
19273677 CATGGTCTTACATGGTATCCTAGCCTTATAAACTCACTAATGCCATACCTTGG
1 CATGGTCTTACATGGTATCCTTGCCTTAGAAACTTACCAATGCCAT-CCCTAG
* * * * * *
19273730 CATGGTCTTGCATGGGA-CCTTTGCCTTATAGTAACTTATCAATGCCATCTCTTG
1 CATGGTCTTACATGGTATCC-TTGCC-T-TAGAAACTTACCAATGCCATCCCTAG
*
19273784 ACATGGTCTTACATGGTATCCTTGCCTTAGAAACTTTACCAATTGCGATGCCCTAG
1 -CATGGTCTTACATGGTATCCTTGCCTTAGAAAC-TTACCAA-TGCCAT-CCCTAG
*
19273840 CATGGTCCTACATGGTATCCTT
1 CATGGTCTTACATGGTATCCTT
19273862 AAACCCTAAT
Statistics
Matches: 105, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
52 2 0.02
53 25 0.24
54 11 0.10
55 61 0.58
56 6 0.06
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (52 bp):
CATGGTCTTACATGGTATCCTTGCCTTAGAAACTTACCAATGCCATCCCTAG
Found at i:19275940 original size:18 final size:18
Alignment explanation
Indices: 19275917--19275952 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
19275907 CAAAGCTTCC
*
19275917 TGTAACTTCTTCCGAAAT
1 TGTAACTTCTTCCAAAAT
19275935 TGTAACTTCTTCCAAAAT
1 TGTAACTTCTTCCAAAAT
19275953 CGTGAAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (18 bp):
TGTAACTTCTTCCAAAAT
Found at i:19280918 original size:40 final size:40
Alignment explanation
Indices: 19280873--19281002 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
19280863 CGGAATACAA
19280873 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
19280913 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * * *
19280953 CCGGATGTAGCCGCTAGCAC-AATTGCCTTAGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
19280993 CCGGATATAA
1 CCGGATATAA
19281003 TTTCCAGCAA
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:19284856 original size:55 final size:52
Alignment explanation
Indices: 19284678--19284873 Score: 189
Period size: 55 Copynumber: 3.6 Consensus size: 52
19284668 CTTACCATTA
* * *
19284678 CCATGTCTTGACATGGTTTTACATGGTATCCTTGCCTTATGAACTCA-CTAATG
1 CCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAACTTATC-AATG
* * * *
19284731 CCATGCCTTGGCATGGTCTCACATGGGA-CATTTGCCTTATAGTAACTTATCAATG
1 CCATGCCTTGACATGGTCTTACATGGTATC-CTTGCC-T-TAG-AACTTATCAATG
* *
19284786 CCATGTCTTGACATGGTCTTGCATGGTATCCTTGCCTTAGAAACCTTATCAATCG
1 CCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAG-AA-CTTATCAAT-G
* * *
19284841 CGATGCCTTGGCATGGTCTTACGTGGTATCCTT
1 CCATGCCTTGACATGGTCTTACATGGTATCCTT
19284874 AAACCCTAAT
Statistics
Matches: 116, Mismatches: 19, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
52 1 0.01
53 33 0.28
54 12 0.10
55 68 0.59
56 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (52 bp):
CCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAACTTATCAATG
Found at i:19289342 original size:40 final size:39
Alignment explanation
Indices: 19289237--19289399 Score: 163
Period size: 40 Copynumber: 4.2 Consensus size: 39
19289227 CGGGATTTAA
* * *
19289237 CGGATATAACCACAAGCACAATGCCTTCGGGTCTTAACC
1 CGGATATAACAACTAGCACAATGCCTTCGGGTCTTAGCC
* *** *
19289276 CGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGCC
1 CGGATATAACAACTAGCACAA-TGCCTTCGGGTCTTAGCC
*
19289316 CGGATATAACAACTCGCACGAATGCCTTC-GGTC-TAGCC
1 CGGATATAACAACTAGCAC-AATGCCTTCGGGTCTTAGCC
* *
19289354 CGGACATAATC-ACTAGCA-AATGCCTTCGGGACTTAGCC
1 CGGATATAA-CAACTAGCACAATGCCTTCGGGTCTTAGCC
*
19289392 CGGGTATA
1 CGGATATA
19289400 TTCAAATGCT
Statistics
Matches: 101, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
36 9 0.09
37 3 0.03
38 30 0.30
39 19 0.19
40 38 0.38
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CGGATATAACAACTAGCACAATGCCTTCGGGTCTTAGCC
Found at i:19296494 original size:27 final size:26
Alignment explanation
Indices: 19296446--19296505 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
19296436 GCGAGGCTGC
*
19296446 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
19296473 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
19296499 CATATAT
1 CAGATAT
19296506 ATATATATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:19299893 original size:83 final size:83
Alignment explanation
Indices: 19299704--19299879 Score: 334
Period size: 83 Copynumber: 2.1 Consensus size: 83
19299694 GCCTAGCACT
19299704 TGGGCATGTGGATTTGCTGTGTGTCCCCAGCATCTTAAAATTGAGAAACAAAATGCTTAAAATTG
1 TGGGCATGTGGATTTGCTGTGTGTCCCCAGCATCTTAAAATTGAGAAACAAAATGCTTAAAATTG
*
19299769 GGTACACGGGCGAAGACA
66 GGTACACGGGCAAAGACA
*
19299787 TGGGCATGTGGATTTGCTGTGTGTCCCTAGCATCTTAAAATTGAGAAACAAAATGCTTAAAATTG
1 TGGGCATGTGGATTTGCTGTGTGTCCCCAGCATCTTAAAATTGAGAAACAAAATGCTTAAAATTG
19299852 GGTACACGGGCAAAGACA
66 GGTACACGGGCAAAGACA
19299870 TGGGCATGTG
1 TGGGCATGTG
19299880 TCTTAGCAGT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 91 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (83 bp):
TGGGCATGTGGATTTGCTGTGTGTCCCCAGCATCTTAAAATTGAGAAACAAAATGCTTAAAATTG
GGTACACGGGCAAAGACA
Found at i:19302235 original size:43 final size:43
Alignment explanation
Indices: 19302174--19302371 Score: 281
Period size: 43 Copynumber: 4.6 Consensus size: 43
19302164 CCGGCATTAC
* *
19302174 GCCTGCTAGGCACGAAGGCCTGAATACACATCACTAGCA-TGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACT-AA
* * * * *
19302217 GCCTGCTAGGCACAAAGGCGCGAATACACATCACCGACACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACTAA
* * *
19302260 GCTTGCTAGGAACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACTAA
19302303 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACTAA
*
19302346 GCCTGCTAGGCACAAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
19302372 TAATACCAGC
Statistics
Matches: 137, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
43 137 1.00
ACGTcount: A:0.32, C:0.31, G:0.24, T:0.13
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACTAA
Found at i:19302437 original size:38 final size:38
Alignment explanation
Indices: 19302364--19302447 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
19302354 GGCACAAAGG
* * * * *
19302364 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTACGAGATTTAA
*
19302402 CCCGGATATAATACCAGCACGAAGCCTACGAGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTACGAGATTTAA
19302440 CCCGAATA
1 CCCGAATA
19302448 CACATCAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.20
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTACGAGATTTAA
Found at i:19302863 original size:41 final size:41
Alignment explanation
Indices: 19302806--19302888 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
19302796 ATAATTTACG
19302806 ATGGTTTTACCCTTACTCACATATATGTCATAGGCATTTTT
1 ATGGTTTTACCCTTACTCACATATATGTCATAGGCATTTTT
*
19302847 ATGGTTTTACCCTTACTCACATATATGTTATAGGCATTTTT
1 ATGGTTTTACCCTTACTCACATATATGTCATAGGCATTTTT
19302888 A
1 A
19302889 CCTATGCTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.45
Consensus pattern (41 bp):
ATGGTTTTACCCTTACTCACATATATGTCATAGGCATTTTT
Found at i:19323022 original size:40 final size:39
Alignment explanation
Indices: 19322978--19323103 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
19322968 GGGACTCAAC
*
19322978 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
19323018 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
19323058 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
19323098 CCGGAT
1 CCGGAT
19323104 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:19323062 original size:80 final size:80
Alignment explanation
Indices: 19322917--19323103 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
19322907 GCTACACATT
* * *
19322917 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
19322981 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
19322997 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
19323060 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
19323078 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
19323104 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:19324887 original size:5 final size:5
Alignment explanation
Indices: 19324861--19324963 Score: 88
Period size: 5 Copynumber: 19.8 Consensus size: 5
19324851 ATCCTCCTTT
19324861 TTTTA -TTTA TTCTTA TTTTTA TTTTA TTTTA TTTTA -TTTA TTTTA TTTTA
1 TTTTA TTTTA TT-TTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
* *
19324911 TTTTTA TTTTTC TTTTGA TTTTTA TTTTCA TTTCAA TTTTA --TTA TTTTA
1 -TTTTA -TTTTA TTTT-A -TTTTA TTTT-A TTT-TA TTTTA TTTTA TTTTA
19324960 TTTT
1 TTTT
19324964 GAAAAACATA
Statistics
Matches: 83, Mismatches: 4, Indels: 22
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.04
4 8 0.10
5 41 0.49
6 25 0.30
7 6 0.07
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:19324902 original size:14 final size:14
Alignment explanation
Indices: 19324861--19324913 Score: 79
Period size: 14 Copynumber: 3.6 Consensus size: 14
19324851 ATCCTCCTTT
19324861 TTTTATTTATTCTTA
1 TTTTATTTATT-TTA
19324876 TTTTTATTTTATTTTA
1 -TTTTA-TTTATTTTA
19324892 TTTTATTTATTTTA
1 TTTTATTTATTTTA
19324906 TTTTATTT
1 TTTTATTT
19324914 TTATTTTTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.47
15 5 0.14
16 8 0.22
17 6 0.17
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:19324902 original size:19 final size:19
Alignment explanation
Indices: 19324878--19324963 Score: 76
Period size: 19 Copynumber: 4.7 Consensus size: 19
19324868 TATTCTTATT
19324878 TTTATTTTATTTTATTTTA
1 TTTATTTTATTTTATTTTA
19324897 TTTATTTTATTTTATTTTTA
1 TTTATTTTATTTTA-TTTTA
* *
19324917 TTT-TTCT-TTTGA--TT-
1 TTTATTTTATTTTATTTTA
*
19324931 TTTATTTTCATTTCAATTTTA
1 TTTATTTT-ATTT-TATTTTA
19324952 -TTATTTTATTTT
1 TTTATTTTATTTT
19324964 GAAAAACATA
Statistics
Matches: 54, Mismatches: 5, Indels: 17
0.71 0.07 0.22
Matches are distributed among these distances:
14 3 0.06
15 5 0.09
17 3 0.06
18 5 0.09
19 21 0.39
20 17 0.31
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (19 bp):
TTTATTTTATTTTATTTTA
Found at i:19324904 original size:24 final size:24
Alignment explanation
Indices: 19324877--19324963 Score: 86
Period size: 29 Copynumber: 3.4 Consensus size: 24
19324867 TTATTCTTAT
19324877 TTTTATTTTATTTTATTTTATTTA
1 TTTTATTTTATTTTATTTTATTTA
*
19324901 TTTTATTTTATTTTTATTTTTCTTTTGA
1 TTTTATTTTA-TTTTA-TTTT-ATTT-A
*
19324929 TTTTTATTTTCATTTCAATTTTA-TTA
1 -TTTTATTTT-ATTT-TATTTTATTTA
19324955 TTTTATTTT
1 TTTTATTTT
19324964 GAAAAACATA
Statistics
Matches: 53, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
24 10 0.19
25 14 0.26
26 5 0.09
27 5 0.09
28 1 0.02
29 16 0.30
30 2 0.04
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.77
Consensus pattern (24 bp):
TTTTATTTTATTTTATTTTATTTA
Found at i:19324933 original size:7 final size:6
Alignment explanation
Indices: 19324866--19324943 Score: 72
Period size: 6 Copynumber: 13.2 Consensus size: 6
19324856 CCTTTTTTTA
* *
19324866 TTTATT CTTATT TTTA-T TTTA-T TTTA-T TTTATT TATTTTAT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT T-TTAT-T TTTATT
* * *
19324913 TTTATT TTTCTT TTGATT TTTATT TTCATT T
1 TTTATT TTTATT TTTATT TTTATT TTTATT T
19324944 CAATTTTATT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
5 15 0.25
6 37 0.62
7 6 0.10
8 2 0.03
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:19326507 original size:40 final size:40
Alignment explanation
Indices: 19326337--19326560 Score: 353
Period size: 40 Copynumber: 5.6 Consensus size: 40
19326327 AACCCAAGTA
* * *
19326337 CCTTCGGGATTTAG-CCGAATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
19326376 CCTTCGGGTCTTAGCCCGGATATAGTCACTTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAC-TAGCACAAATG
*
19326417 CCTTCGGGACTTAGCCCGGATATAGTCACTTAACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAC-TAGCACAAATG
*
19326458 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
19326498 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
19326538 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
19326561 CATTCGAATA
Statistics
Matches: 173, Mismatches: 9, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
39 12 0.07
40 82 0.47
41 79 0.46
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:19326514 original size:81 final size:81
Alignment explanation
Indices: 19326337--19326560 Score: 346
Period size: 81 Copynumber: 2.8 Consensus size: 81
19326327 AACCCAAGTA
* * ** *
19326337 CCTTCGGGATTTAG-CCGAATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAACACAAATGCCTTCGGGACTTAGCCCGGATATA
19326400 GTCACTTAGCACAAATG
65 GTCACTTAGCACAAATG
19326417 CCTTCGGGACTTAGCCCGGATATAGTCACTTAACACAAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTCAC-TAACACAAATGCCTTCGGGACTTAGCCCGGATATA
*
19326482 GTCAC-TAGCTCAAATG
65 GTCACTTAGCACAAATG
*
19326498 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAACACAAATGCCTTCGGGACTTAGCCCGGATAT
19326561 CATTCGAATA
Statistics
Matches: 134, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
80 46 0.34
81 50 0.37
82 38 0.28
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAACACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCACTTAGCACAAATG
Found at i:19336853 original size:43 final size:43
Alignment explanation
Indices: 19336792--19336879 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
19336782 ATAAATGAAT
*
19336792 TAAAAAGAAATAATATCATTTTATATCATATTCTTCCCCAAAA
1 TAAAAAGAAATAATATCATTTTATATCATATTCTTCCACAAAA
19336835 TAAAAAGAAATAATATCATTTTATATCATATTCTTCCACAAAA
1 TAAAAAGAAATAATATCATTTTATATCATATTCTTCCACAAAA
19336878 TA
1 TA
19336880 TACATGGAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (43 bp):
TAAAAAGAAATAATATCATTTTATATCATATTCTTCCACAAAA
Found at i:19344851 original size:6 final size:6
Alignment explanation
Indices: 19344821--19344957 Score: 102
Period size: 6 Copynumber: 22.3 Consensus size: 6
19344811 AAGAAACATT
* *
19344821 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * *
19344868 GTGACAGA ATCAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGT ATTAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
19344919 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
19344958 GTGAATGCAA
Statistics
Matches: 103, Mismatches: 17, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
5 5 0.05
6 86 0.83
7 9 0.09
8 3 0.03
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:19344880 original size:31 final size:31
Alignment explanation
Indices: 19344842--19344957 Score: 133
Period size: 31 Copynumber: 3.5 Consensus size: 31
19344832 AATCAAAATG
19344842 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTGAC
19344873 AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATC------AGGTGAC
* * * *
19344910 AGTATTAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTGAC
*
19344941 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
19344958 GTGAATGCAA
Statistics
Matches: 72, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
31 44 0.61
37 28 0.39
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:19344885 original size:37 final size:37
Alignment explanation
Indices: 19344842--19344935 Score: 152
Period size: 37 Copynumber: 2.5 Consensus size: 37
19344832 AATCAAAATG
19344842 AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATC
* * *
19344879 AGAATCAGAATCAGAATCAGAATTAGGTGACAGTATT
1 AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATC
*
19344916 AGAATCAGAATCAGTATCAG
1 AGAATCAGAATCAGAATCAG
19344936 GTAACAGAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:19344957 original size:37 final size:36
Alignment explanation
Indices: 19344844--19344957 Score: 139
Period size: 37 Copynumber: 3.2 Consensus size: 36
19344834 TCAAAATGAG
19344844 AATCAGAATCAGAATCAGAATCAGGTGACAGAATCA
1 AATCAGAATCAGAATCAGAATCAGGTGACAGAATCA
*
19344880 GAATCAGAATCAGAATCAGAATTAGGTGACAG--T--
1 -AATCAGAATCAGAATCAGAATCAGGTGACAGAATCA
* * *
19344913 -ATTAGAATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGAATCAGAATCAGGTGACAGAATC-A
19344949 AATCAGAAT
1 AATCAGAAT
19344958 GTGAATGCAA
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
31 26 0.40
33 1 0.02
35 1 0.02
37 37 0.57
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.20
Consensus pattern (36 bp):
AATCAGAATCAGAATCAGAATCAGGTGACAGAATCA
Found at i:19345235 original size:67 final size:68
Alignment explanation
Indices: 19345103--19345236 Score: 189
Period size: 67 Copynumber: 2.0 Consensus size: 68
19345093 TCACCAGTTA
* * *
19345103 CAGATATTGTGGCTAGGCCACTAGAACAGATATATATGAGGCAAAGCCACCAGATTGCAGCGAGG
1 CAGATATTGTGACGAAGCCACTAGAACAGA-ATATATGAGGCAAAGCCACCAGATTGCAGCGAGG
19345168 CTAC
65 CTAC
* * * *
19345172 CAGATATTGTGACGAAGTCACTAGAACAG-ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGC
1 CAGATATTGTGACGAAGCCACTAGAACAGAATATATGAGGCAAAGCCACCAGATTGCAGCGAGGC
19345236 T
66 T
19345237 GCAATAATGC
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
67 33 0.57
69 25 0.43
ACGTcount: A:0.32, C:0.21, G:0.28, T:0.19
Consensus pattern (68 bp):
CAGATATTGTGACGAAGCCACTAGAACAGAATATATGAGGCAAAGCCACCAGATTGCAGCGAGGC
TAC
Found at i:19345488 original size:27 final size:27
Alignment explanation
Indices: 19345458--19345678 Score: 273
Period size: 27 Copynumber: 8.2 Consensus size: 27
19345448 AACACCCTAG
* *
19345458 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* **
19345485 GGGTAAAACGGTAATTCTGTAAATTAA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* *
19345512 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
** * *
19345539 GGGTAAAACAATAATTCTGTAAATTGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* **
19345566 GGATAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* *
19345593 GGGTAAAATGGTAATTTTGTAAATTGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
19345620 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
*
19345647 GGGTAAAACGGTAATTCTAG-AAATCGA
1 GGGTAAAACGGTAATT-TTGTAAATCGA
19345674 GGGTA
1 GGGTA
19345679 CTTTGGTAAT
Statistics
Matches: 172, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
27 170 0.99
28 2 0.01
ACGTcount: A:0.40, C:0.06, G:0.24, T:0.30
Consensus pattern (27 bp):
GGGTAAAACGGTAATTTTGTAAATCGA
Found at i:19345686 original size:81 final size:81
Alignment explanation
Indices: 19345458--19345705 Score: 282
Period size: 81 Copynumber: 3.1 Consensus size: 81
19345448 AACACCCTAG
* * ** **
19345458 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATTAAGGGTAAAACAG
1 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGG
*
19345523 TAATTCTGTAAATCGA
66 TAATTTTGTAAATCGA
** * * * ** *
19345539 GGGTAAAACAATAATTCTGTAAATTGAGGATAAAATAGTAATTTTGTAAATCGAGGGTAAAATGG
1 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGG
*
19345604 TAATTTTGTAAATTGA
66 TAATTTTGTAAATCGA
***
19345620 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTAG-AAATCGAGGGTACTTTG
1 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCT-GTAAATCGAGGGTAAAATG
** *
19345684 GTAATTTTACAAGTCGA
65 GTAATTTTGTAAATCGA
19345701 GGGTA
1 GGGTA
19345706 TTTCAGTAAT
Statistics
Matches: 135, Mismatches: 31, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
81 134 0.99
82 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.31
Consensus pattern (81 bp):
GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGG
TAATTTTGTAAATCGA
Found at i:19345687 original size:54 final size:54
Alignment explanation
Indices: 19345458--19345705 Score: 309
Period size: 54 Copynumber: 4.6 Consensus size: 54
19345448 AACACCCTAG
* *
19345458 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATTAA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATTGA
** * **
19345512 GGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAATAATTCTGTAAATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATTGA
* * * *
19345566 GGATAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTGTAAATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATTGA
* *
19345620 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTAG-AAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCT-GTAAATTGA
*** ** *
19345674 GGGTACTTTGGTAATTTTACAAGTCGAGGGTA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTA
19345706 TTTCAGTAAT
Statistics
Matches: 166, Mismatches: 27, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
54 165 0.99
55 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.31
Consensus pattern (54 bp):
GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATTGA
Found at i:19347100 original size:6 final size:6
Alignment explanation
Indices: 19347082--19347200 Score: 66
Period size: 6 Copynumber: 19.3 Consensus size: 6
19347072 AAGAAACATT
* * *
19347082 ATCAGA A-CTAGA ATCAGA ATTAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * * *
19347131 ATCAGA ATCAGT ATTAGGTA A-CAGA ATCAAA ATTAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
19347182 A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
19347201 ATGAATGCAA
Statistics
Matches: 84, Mismatches: 18, Indels: 22
0.68 0.15 0.18
Matches are distributed among these distances:
5 6 0.07
6 67 0.80
7 8 0.10
8 3 0.04
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.22
Consensus pattern (6 bp):
ATCAGA
Found at i:19347127 original size:31 final size:31
Alignment explanation
Indices: 19347091--19347200 Score: 157
Period size: 31 Copynumber: 3.5 Consensus size: 31
19347081 TATCAGAACT
* * * *
19347091 AGAATCAGAATTAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGTATTAGGTAAC
*
19347122 AGAATCAGAATCAGAATCAGTATTAGGTAAC
1 AGAATCAAAATCAGAATCAGTATTAGGTAAC
* *
19347153 AGAATCAAAATTAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATTAGGTAAC
19347184 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
19347201 ATGAATGCAA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.22
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATTAGGTAAC
Found at i:19347385 original size:27 final size:27
Alignment explanation
Indices: 19347337--19347411 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
19347327 GCTCAGTTAT
* * * *
19347337 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAAAGCCACCAGAAA
*
19347364 CAGATATTGTGGCATAGCCACCAGAAA
1 CAGATATTGTGGCAAAGCCACCAGAAA
*
19347391 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAAAGCCAC
19347412 TTAACAGAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAAAGCCACCAGAAA
Found at i:19347598 original size:22 final size:22
Alignment explanation
Indices: 19347570--19347634 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
19347560 GCAAATACGT
*
19347570 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
** *
19347592 TTGGCACAGGGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
19347614 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
19347635 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:19348151 original size:27 final size:26
Alignment explanation
Indices: 19348079--19348497 Score: 428
Period size: 27 Copynumber: 15.5 Consensus size: 26
19348069 TACCTCACAA
* *
19348079 GGTATCTCGGTAATTCCACCCTACAGG
1 GGTATTTC-GTAATTCTACCCTACAGG
*
19348106 GGTATTTAGTAATTCTACCCTACAGG
1 GGTATTTCGTAATTCTACCCTACAGG
*
19348132 GGTATTTCAGTAATTCTACCTTACAGG
1 GGTATTTC-GTAATTCTACCCTACAGG
* *
19348159 GATATTGCGATAATTCTACCCTACAGG
1 GGTATTTCG-TAATTCTACCCTACAGG
19348186 GGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTCG-TAATTCTACCCTACAGG
*
19348213 GGTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCG-TAATTCTACCCTACAGG
* *
19348240 GTTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCG-TAATTCTACCCTACAGG
*
19348267 GGTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCG-TAATTCTACCCTACAGG
* * *
19348294 GGTATTGCGATAATTCTACCTTACAAG
1 GGTATTTCG-TAATTCTACCCTACAGG
*
19348321 GGTATTTCAGTAATTCTACCCTATAGG
1 GGTATTTC-GTAATTCTACCCTACAGG
*
19348348 GGTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCG-TAATTCTACCCTACAGG
*
19348375 GGTATTCCAGTAATTCTACCCTACAGG
1 GGTATTTC-GTAATTCTACCCTACAGG
* **
19348402 GGTATTTCGGTAATTTTA-CAAACTAGG
1 GGTATTTC-GTAATTCTACCCTAC-AGG
* * **
19348429 GGTATTTTGGTAATTTTA-CAAACTAGG
1 GGTA-TTTCGTAATTCTACCCTAC-AGG
* * *
19348456 GGTATTTTGGTAATTCTATCCTATAGG
1 GGTA-TTTCGTAATTCTACCCTACAGG
*
19348483 GGTTTTTCAGTAATT
1 GGTATTTC-GTAATT
19348498 TCACAATTGA
Statistics
Matches: 349, Mismatches: 34, Indels: 18
0.87 0.08 0.04
Matches are distributed among these distances:
26 32 0.09
27 310 0.89
28 7 0.02
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.34
Consensus pattern (26 bp):
GGTATTTCGTAATTCTACCCTACAGG
Found at i:19348461 original size:81 final size:80
Alignment explanation
Indices: 19348079--19348416 Score: 471
Period size: 81 Copynumber: 4.2 Consensus size: 80
19348069 TACCTCACAA
* * ** *
19348079 GGTATCTCGGTAATTCCACCCTACAGGGGTATTTAG-TAATTCTACCCTACAGGGGTATTTCAGT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTGC-GT
*
19348143 AATTCTACCTTACAGG
65 AATTCTACCCTACAGG
* * * *
19348159 GATATTGCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTGCGAT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTGCG-T
19348224 AATTCTACCCTACAGG
65 AATTCTACCCTACAGG
* * *
19348240 GTTATTGCGATAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTGCGAT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTGCG-T
* *
19348305 AATTCTACCTTACAAG
65 AATTCTACCCTACAGG
* * *
19348321 GGTATTTCAGTAATTCTACCCTATAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTCCAGT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTGC-GT
19348386 AATTCTACCCTACAGG
65 AATTCTACCCTACAGG
19348402 GGTATTTCGGTAATT
1 GGTATTTCGGTAATT
19348417 TTACAAACTA
Statistics
Matches: 234, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
80 31 0.13
81 202 0.86
82 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (80 bp):
GGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTGCGTA
ATTCTACCCTACAGG
Found at i:19348618 original size:81 final size:81
Alignment explanation
Indices: 19348507--19348697 Score: 278
Period size: 81 Copynumber: 2.4 Consensus size: 81
19348497 TTCACAATTG
* * * *
19348507 AGGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATTG-TAATTTTGTAAATCGAGGGTAAAA
1 AGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAA-CGATAATTTTGTAAATCGAGGGTAAAA
19348570 CGGTAATTCGATAAATCA
64 CGGTAATTCGATAAATCA
*
19348588 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTGAAACG
1 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACG
* *
19348653 GTAATTCTATAAATCG
66 GTAATTCGATAAATCA
*
19348669 AGGGTAAAATGGTAATTCTACAAATCGAG
1 AGGGTAAAATGGTAATTCTATAAATCGAG
19348698 AGCATTTCAG
Statistics
Matches: 100, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
80 1 0.01
81 98 0.98
82 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (81 bp):
AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACG
GTAATTCGATAAATCA
Found at i:19348686 original size:27 final size:27
Alignment explanation
Indices: 19348506--19348697 Score: 233
Period size: 27 Copynumber: 7.1 Consensus size: 27
19348496 TTTCACAATT
* *
19348506 GAGGGTAAAACGGTAATTTTGTAAA-C
1 GAGGGTAAAACGGTAATTCTATAAATC
** * *
19348532 TGAGGGTAAAATTGTAATTTTGTAAATC
1 -GAGGGTAAAACGGTAATTCTATAAATC
*
19348560 GAGGGTAAAACGGTAATTCGATAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
* *
19348587 AAGGGTAAAATGGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
* * *
19348614 GAGGGTAAAACGATAATTTTGTAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
*
19348641 GAGGGTGAAACGGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
* *
19348668 GAGGGTAAAATGGTAATTCTACAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
19348695 GAG
1 GAG
19348698 AGCATTTCAG
Statistics
Matches: 142, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
27 141 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
GAGGGTAAAACGGTAATTCTATAAATC
Found at i:19348793 original size:27 final size:27
Alignment explanation
Indices: 19348763--19348941 Score: 234
Period size: 27 Copynumber: 6.6 Consensus size: 27
19348753 GGGTAATCAG
**
19348763 GGGTATTTTGGTAATTTTACAAATTAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
19348790 GGGTATTTCGGTAATTTCACAAACC-A
1 GGGTATTTTGGTAATTTTACAAACCAA
* * *
19348816 GTGGTATTTTGATAATTTTACAAATCAG
1 G-GGTATTTTGGTAATTTTACAAACCAA
*
19348844 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
19348871 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
19348898 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
19348925 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
19348942 GAAACTAAAG
Statistics
Matches: 131, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.02
27 128 0.98
28 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:19348823 original size:54 final size:54
Alignment explanation
Indices: 19348760--19348941 Score: 274
Period size: 54 Copynumber: 3.4 Consensus size: 54
19348750 CAAGGGTAAT
* * *
19348760 CAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAATAAAGGGTATTTTGGTAATTTTACAAAC
* * * *
19348814 CAGTGGTATTTTGATAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAATAAAGGGTATTTTGGTAATTTTACAAAC
* * *
19348868 CAGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAATAAAGGGTATTTTGGTAATTTTACAAAC
19348922 CAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
19348942 GAAACTAAAG
Statistics
Matches: 115, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 115 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTTTACAAATAAAGGGTATTTTGGTAATTTTACAAAC
Found at i:19348903 original size:81 final size:81
Alignment explanation
Indices: 19348757--19348941 Score: 266
Period size: 81 Copynumber: 2.3 Consensus size: 81
19348747 AGTCAAGGGT
** *
19348757 AATCAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTA
1 AATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCGGTAATTTCACAAACAAGTGGTA
19348822 TTTT-GATAATTTTACA
66 TTTTAG-TAATTTTACA
* * * *
19348838 AATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAAG-GGT
1 AATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCGGTAATTTCACAAAC-AAGTGGT
19348902 ATTTTAGTAATTTTACA
65 ATTTTAGTAATTTTACA
*
19348919 AACCAGGGGTATTTTGGTAATTT
1 AATCAGGGGTATTTTGGTAATTT
19348942 GAAACTAAAG
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
81 91 0.97
82 3 0.03
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (81 bp):
AATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCGGTAATTTCACAAACAAGTGGTA
TTTTAGTAATTTTACA
Found at i:19360285 original size:27 final size:27
Alignment explanation
Indices: 19360231--19360341 Score: 132
Period size: 27 Copynumber: 4.1 Consensus size: 27
19360221 TTTGTAGAAC
* * * * *
19360231 TACCATTTTACCCTTGATCTATAGAAT
1 TACCGTTTTACCCTCGATTTACAAAAT
* *
19360258 TACCGTTTCACCCTTGATTTACAAAAT
1 TACCGTTTTACCCTCGATTTACAAAAT
* **
19360285 TATCGTTTTACCCTCGATTTATGAAAT
1 TACCGTTTTACCCTCGATTTACAAAAT
19360312 TACCGTTTTACCCTCGATTTACAAAAT
1 TACCGTTTTACCCTCGATTTACAAAAT
19360339 TAC
1 TAC
19360342 TGAAATACCC
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCGTTTTACCCTCGATTTACAAAAT
Found at i:19360318 original size:54 final size:54
Alignment explanation
Indices: 19360236--19360340 Score: 158
Period size: 54 Copynumber: 1.9 Consensus size: 54
19360226 AGAACTACCA
* *
19360236 TTTTACCCTTGATCTATAGAATTACCGTTTCACCCTTGATTTACAAAATTATCG
1 TTTTACCCTCGATCTATAGAATTACCGTTTCACCCTCGATTTACAAAATTATCG
* *
19360290 TTTTACCCTCGATTTAT-GAAATTACCGTTTTACCCTCGATTTACAAAATTA
1 TTTTACCCTCGATCTATAG-AATTACCGTTTCACCCTCGATTTACAAAATTA
19360341 CTGAAATACC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
53 1 0.02
54 45 0.98
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.41
Consensus pattern (54 bp):
TTTTACCCTCGATCTATAGAATTACCGTTTCACCCTCGATTTACAAAATTATCG
Found at i:19360392 original size:54 final size:52
Alignment explanation
Indices: 19360334--19360514 Score: 173
Period size: 54 Copynumber: 3.4 Consensus size: 52
19360324 CTCGATTTAC
* * ** *
19360334 AAAATTACTGAAATACCCTTGTAGGATAGAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCGAAATACCCTAGTTTG-TAAAATTACCAAAATACCCCT-GTTTGT
* * * * *
19360388 AAAATTACCAAAATTCTCCGAGTTTGTAAAATTACCGAAATACCACTGGTTTGT
1 AAAATTACCGAAATAC-CCTAGTTTGTAAAATTACCAAAATACCCCT-GTTTGT
* * **
19360442 GAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACCGAAATACCCT-AGTTTGTAAAATTACCAAAATACCCCTG-TTTGT
*
19360496 AAAATTACAGAAATACCCT
1 AAAATTACCGAAATACCCT
19360515 TGACTTTCTA
Statistics
Matches: 102, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
53 3 0.03
54 94 0.92
55 5 0.05
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.29
Consensus pattern (52 bp):
AAAATTACCGAAATACCCTAGTTTGTAAAATTACCAAAATACCCCTGTTTGT
Found at i:19360393 original size:27 final size:27
Alignment explanation
Indices: 19360363--19360513 Score: 155
Period size: 27 Copynumber: 5.6 Consensus size: 27
19360353 TGTAGGATAG
19360363 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
19360390 AATTACCAAAATTCTCCGAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
19360417 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
19360444 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
**
19360471 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
19360498 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
19360514 TTGACTTTCT
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
26 5 0.05
27 93 0.91
28 4 0.04
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:19360419 original size:81 final size:80
Alignment explanation
Indices: 19360322--19360516 Score: 216
Period size: 81 Copynumber: 2.4 Consensus size: 80
19360312 TACCGTTTTA
* *
19360322 CCCTCGATTTACAAAATTACTGAAATACCCTTGTAGGAT-AGAATTACCAAAATACCC-CTAGTT
1 CCCT-GATTTACAAAATTACAGAAATACCCTTGTAGG-TGA-AATTACCAAAATACCCTC-AATT
*
19360385 TGTAAAATTACCAAAATTC
62 TGTAAAATTACCAAAATAC
* ** * * ** *
19360404 TCC-GAGTTTGTAAAATTACCGAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTG
1 CCCTGA-TTTACAAAATTACAGAAATACC-CTTGTAGGTGAAATTACCAAAATACCCTCAATTTG
19360468 TAAAATTACCAAAATAC
64 TAAAATTACCAAAATAC
19360485 CCCTGATTTACAAAATTACAGAAATACCCTTG
1 CCCTGATTTACAAAATTACAGAAATACCCTTG
19360517 ACTTTCTAAA
Statistics
Matches: 93, Mismatches: 15, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
80 5 0.05
81 77 0.83
82 11 0.12
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (80 bp):
CCCTGATTTACAAAATTACAGAAATACCCTTGTAGGTGAAATTACCAAAATACCCTCAATTTGTA
AAATTACCAAAATAC
Found at i:19360564 original size:27 final size:27
Alignment explanation
Indices: 19360491--19360576 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
19360481 ATACCCCTGA
* * *
19360491 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTATAGAAATACCATTG-G
*
19360519 TTT-CTAAAAATTATAGAAATACTATTGG
1 TTTAC--AAAATTATAGAAATACCATTGG
19360547 TTTACAAAATTACT-GAAATACCATTGG
1 TTTACAAAATTA-TAGAAATACCATTGG
19360574 TTT
1 TTT
19360577 GTAGATTTAC
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
27 23 0.47
28 7 0.14
29 19 0.39
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTATAGAAATACCATTGG
Found at i:19360694 original size:27 final size:27
Alignment explanation
Indices: 19360630--19360694 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
19360620 AACCCTAATA
*
19360630 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
19360657 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
19360684 GGTAAAATGAC
1 GGTAAAATGAC
19360695 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:19361619 original size:25 final size:26
Alignment explanation
Indices: 19361496--19361669 Score: 255
Period size: 26 Copynumber: 6.8 Consensus size: 26
19361486 GAGGAAGTGC
*
19361496 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
19361522 AAAAGGGCTTATGTCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
19361548 AAAAGGGCTTATGCCCTAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
19361574 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
19361600 AAAAGGGGTT-TGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
19361625 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
19361650 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
19361670 ATTAAAGAGG
Statistics
Matches: 136, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
25 57 0.42
26 79 0.58
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:19361872 original size:42 final size:42
Alignment explanation
Indices: 19361813--19361904 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
19361803 TAGTCTCCCC
** * *
19361813 AAATGGGCTTGCATACATTC-ATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACA-TCAATTGACATTACATATGATATTG
19361855 AAATGGGCTTGCATACATCAATTGACATTACATATGATATTG
1 AAATGGGCTTGCATACATCAATTGACATTACATATGATATTG
19361897 AAATGGGC
1 AAATGGGC
19361905 CTAAGGGCCA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 2 0.04
42 43 0.96
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCAATTGACATTACATATGATATTG
Found at i:19361963 original size:31 final size:31
Alignment explanation
Indices: 19361928--19362011 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
19361918 CGTTTACAGT
* *
19361928 AAAGGCTTCAGCCTAGTGATATGAATTATGA
1 AAAGGCTTCGGCCCAGTGATATGAATTATGA
* *
19361959 AAAGGCTTCGGCCCAGTGATATGATTTGTGA
1 AAAGGCTTCGGCCCAGTGATATGAATTATGA
19361990 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
19362012 TCGAGACTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATTATGA
Found at i:19364905 original size:20 final size:20
Alignment explanation
Indices: 19364876--19364917 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
19364866 AGCACATGTA
19364876 TTCATAAAATTTCAAAAATT
1 TTCATAAAATTTCAAAAATT
* * *
19364896 TTCATCAAATTTTACAAATT
1 TTCATAAAATTTCAAAAATT
19364916 TT
1 TT
19364918 TATTTTAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (20 bp):
TTCATAAAATTTCAAAAATT
Found at i:19367104 original size:55 final size:55
Alignment explanation
Indices: 19367041--19367178 Score: 209
Period size: 49 Copynumber: 2.6 Consensus size: 55
19367031 CAAACGGTCT
19367041 CAGTATCAGTATCAGTGTGGGCCTTAGCCCATTTCATTTA-GTCCTTAGCCCATTA
1 CAGTATCAGTATCAGTGTGGGCCTTAGCCCATTTCATTTACG-CCTTAGCCCATTA
19367096 CAGTATCAGTATCAGTGTGGGCC-T-----ATTTCATTTACGCCTTAGCCCATTA
1 CAGTATCAGTATCAGTGTGGGCCTTAGCCCATTTCATTTACGCCTTAGCCCATTA
*
19367145 CAGTATCAGTATTAGTGTGGGCCTTAGCCCATTT
1 CAGTATCAGTATCAGTGTGGGCCTTAGCCCATTT
19367179 TAGTGTCTAT
Statistics
Matches: 75, Mismatches: 1, Indels: 14
0.83 0.01 0.16
Matches are distributed among these distances:
49 45 0.60
50 2 0.03
54 1 0.01
55 27 0.36
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (55 bp):
CAGTATCAGTATCAGTGTGGGCCTTAGCCCATTTCATTTACGCCTTAGCCCATTA
Found at i:19373919 original size:16 final size:16
Alignment explanation
Indices: 19373898--19373939 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
19373888 ATGAATCGAC
*
19373898 AAAAGCTGAAATACCG
1 AAAAGCTGAAATACCA
* *
19373914 AAAAGCCGAAATGCCA
1 AAAAGCTGAAATACCA
19373930 AAAAGCTGAA
1 AAAAGCTGAA
19373940 TGTTTGGCTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.52, C:0.19, G:0.19, T:0.10
Consensus pattern (16 bp):
AAAAGCTGAAATACCA
Found at i:19374264 original size:28 final size:29
Alignment explanation
Indices: 19374151--19374265 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
19374141 GTGAGCATGA
* *
19374151 ATATGAATGTGA-ATGGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
19374179 ATATAAATGTGATTTGGGCCCAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
19374208 ATAT-ACTTGTGATTTGGGCCTAATAGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
19374237 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
19374265 A
1 A
19374266 AATACAGGTA
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
28 27 0.37
29 45 0.62
30 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:19379443 original size:39 final size:40
Alignment explanation
Indices: 19379359--19379541 Score: 207
Period size: 39 Copynumber: 4.7 Consensus size: 40
19379349 GCTACTCGTT
* *
19379359 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGACCGGATT-TAGTAACTCGCA
*
19379399 TAAATGCCTTCGGGACTTA-ACCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGACCGGATTTAGTAACTCGCA
* *
19379438 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGACCGGATTTAGTAACTCGCA
* * * *
19379477 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGACCGGATTTAGTAAC-TCGCA
*
19379518 CAAA-GCCTT-GGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGACCGGA
19379542 CATCATTCGA
Statistics
Matches: 125, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
38 6 0.05
39 68 0.54
40 43 0.34
41 8 0.06
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGACCGGATTTAGTAACTCGCA
Found at i:19379502 original size:79 final size:81
Alignment explanation
Indices: 19379359--19379541 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
19379349 GCTACTCGTT
* * *
19379359 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCATAAATGCCTTCGGGACTTAACCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCGG
* *
19379423 ATTTAGTAAC-TCGCA
66 ATATAGTAACTTAGCA
*
19379438 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTA-ACC
*
19379500 GGATATAGTCACTTAGCA
64 GGATATAGTAACTTAGCA
19379518 CAAA-GCCTT-GGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19379542 CATCATTCGA
Statistics
Matches: 92, Mismatches: 7, Indels: 10
0.84 0.06 0.09
Matches are distributed among these distances:
77 3 0.03
78 38 0.41
79 43 0.47
80 8 0.09
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCGG
ATATAGTAACTTAGCA
Found at i:19387558 original size:79 final size:82
Alignment explanation
Indices: 19387447--19387631 Score: 247
Period size: 79 Copynumber: 2.3 Consensus size: 82
19387437 GCTACTCGTT
* * *
19387447 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCATAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
19387510 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
**
19387527 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
*
19387590 GATATAGTCACTTAGCA
66 GATATAGTAACTTAGCA
19387607 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19387632 CATCATTCGA
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 56 0.60
80 34 0.37
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:19387631 original size:40 final size:40
Alignment explanation
Indices: 19387428--19387631 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
19387418 CGGAATTTAA
** *
19387428 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
19387468 CCGGTTATAGTAACTCGCATAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
19387508 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
19387547 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
19387587 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
19387627 CCGGA
1 CCGGA
19387632 CATCATTCGA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 34 0.24
40 94 0.66
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:19390108 original size:28 final size:29
Alignment explanation
Indices: 19390068--19390129 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
19390058 TGTGAGCATG
*
19390068 AATATGAATGTGA-CTGGGCCTAATAGGC
1 AATATAAATGTGATCTGGGCCTAATAGGC
* *
19390096 AATATAAATGTGATTTGGGCCTAATGGGC
1 AATATAAATGTGATCTGGGCCTAATAGGC
*
19390125 CATAT
1 AATAT
19390130 GATATGATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 12 0.41
29 17 0.59
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (29 bp):
AATATAAATGTGATCTGGGCCTAATAGGC
Found at i:19393356 original size:29 final size:29
Alignment explanation
Indices: 19393295--19393422 Score: 226
Period size: 29 Copynumber: 4.5 Consensus size: 29
19393285 ACAGTAAGTC
19393295 CGCACACTTAGTGCT-TA-ATATTCAAACT
1 CGCACACTTAGTGCTATACA-ATTCAAACT
19393323 CGCACACTTAGTGCTATACAATTCAAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
19393352 CGCACACTTAGTGCTATACAATTCAAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
19393381 CGCACACTTAGTGCTATACAATT-AAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
19393409 CGCACACTTAGTGC
1 CGCACACTTAGTGC
19393423 CAATCTCATT
Statistics
Matches: 98, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
28 34 0.35
29 63 0.64
30 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTATACAATTCAAACT
Found at i:19393386 original size:58 final size:56
Alignment explanation
Indices: 19393295--19393422 Score: 222
Period size: 57 Copynumber: 2.2 Consensus size: 56
19393285 ACAGTAAGTC
19393295 CGCACACTTAGTGCTTAATATTCAAACTCGCACACTTAGTGCTATACAATTCAAACT
1 CGCACACTTAGTGCTTAATATTCAAACTCGCACACTTAGTGCTATACAATT-AAACT
19393352 CGCACACTTAGTGCTATACA-ATTCAAACTCGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCT-TA-ATATTCAAACTCGCACACTTAGTGCTATACAATTAAACT
19393409 CGCACACTTAGTGC
1 CGCACACTTAGTGC
19393423 CAATCTCATT
Statistics
Matches: 69, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
57 34 0.49
58 34 0.49
59 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (56 bp):
CGCACACTTAGTGCTTAATATTCAAACTCGCACACTTAGTGCTATACAATTAAACT
Found at i:19395172 original size:40 final size:40
Alignment explanation
Indices: 19395071--19395282 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
19395061 TATTCGAATG
* * *
19395071 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGACT
* * *
19395112 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
19395152 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * * *
19395192 ATATCCGAGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* **
19395232 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
19395271 ATATCC-GGCTAA
1 ATATCCGGGCTAA
19395283 ATCCCAAAGA
Statistics
Matches: 143, Mismatches: 28, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
38 6 0.04
39 15 0.10
40 94 0.66
41 28 0.20
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
Found at i:19397649 original size:39 final size:39
Alignment explanation
Indices: 19397565--19397717 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
19397555 TATGGTAACC
** * *
19397565 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
19397605 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
19397644 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
19397683 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
19397718 TGAACATTCA
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 86 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Done.