Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 168 of 295
Found at i:53203233 original size:54 final size:54
Alignment explanation
Indices: 53203147--53203330 Score: 174
Period size: 54 Copynumber: 3.4 Consensus size: 54
53203137 AGAAAGTCAA
* *** * *
53203147 GGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTAC-AAATTG
1 GGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAAAATAG
* * **
53203200 AGGGTATTTCGGTAATTTCACAAGCCAGTGGTATTTCAGTAATTTTACAAAATAG
1 -GGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAAAATAG
* * * * ** *
53203255 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATC-CTACAG
1 GGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTGGTAATTTTA-CAAAATAG
*
53203309 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCGGTAATTTCACAA
53203331 TCGAGGGTAA
Statistics
Matches: 104, Mismatches: 24, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
54 98 0.94
55 6 0.06
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAAAATAG
Found at i:53203264 original size:81 final size:81
Alignment explanation
Indices: 53203148--53203297 Score: 223
Period size: 81 Copynumber: 1.9 Consensus size: 81
53203138 GAAAGTCAAG
* ** *
53203148 GGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGG
1 GGTATTTCAGTAATTTTCAAAATCAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGG
53203212 TAATTTCACAAGCCAGT
65 TAATTTCACAAGCCAGT
*
53203229 GGTATTTCAGTAATTTTACAAAAT-AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
1 GGTATTTCAGTAATTTT-CAAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGG
53203293 TAATT
65 TAATT
53203298 CTATCCTACA
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
81 56 0.90
82 6 0.10
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (81 bp):
GGTATTTCAGTAATTTTCAAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGT
AATTTCACAAGCCAGT
Found at i:53203314 original size:81 final size:81
Alignment explanation
Indices: 53203147--53203330 Score: 216
Period size: 81 Copynumber: 2.3 Consensus size: 81
53203137 AGAAAGTCAA
* ** *
53203147 GGGTATTTCTGTAATTTT-GTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCG
1 GGGTATTTCAGTAATTTTACAAAATCAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCG
53203211 GTAATTTCACAAGCCAG
66 GTAATTTCACAA-CCAG
* *
53203228 TGGTATTTCAGTAATTTTACAAAAT-AGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTT
1 GGGTATTTCAGTAATTTTACAAAATCAGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTC
*
53203291 GGTAA-TTCTATCCTA-CAG
65 GGTAATTTC-A--CAACCAG
*
53203309 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCAGTAATTTTACAA
53203331 TCGAGGGTAA
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
80 3 0.03
81 78 0.88
82 6 0.07
83 2 0.02
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAAATCAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCG
GTAATTTCACAACCAG
Found at i:53203337 original size:27 final size:26
Alignment explanation
Indices: 53203168--53203337 Score: 105
Period size: 27 Copynumber: 6.3 Consensus size: 26
53203158 TAATTTTGTA
* *
53203168 AATCAGGGGTATTTTGGTAATTTTAC
1 AATCAGGGGTATTTCGGTAATTTCAC
*
53203194 AAAT-TGAGGGTATTTCGGTAATTTCAC
1 -AATCAG-GGGTATTTCGGTAATTTCAC
* * * *
53203221 AAGCCAGTGGTATTTCAGTAATTTTACAA
1 AA-TCAGGGGTATTTCGGTAA-TTT-CAC
* *
53203250 AAT-AGGGGTATTTTGGTAATTTTAC
1 AATCAGGGGTATTTCGGTAATTTCAC
* *
53203275 AAACTAGGGGTATTTTGGTAA-TTCTATC
1 AATC-AGGGGTATTTCGGTAATTTC-A-C
* *
53203303 -CTACAGGGGTATTTCAGTAATTTCAC
1 AAT-CAGGGGTATTTCGGTAATTTCAC
53203329 AATCGAGGG
1 AATC-AGGG
53203338 TAAAACGGTA
Statistics
Matches: 109, Mismatches: 21, Indels: 26
0.70 0.13 0.17
Matches are distributed among these distances:
25 3 0.03
26 10 0.09
27 83 0.76
28 9 0.08
29 4 0.04
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.37
Consensus pattern (26 bp):
AATCAGGGGTATTTCGGTAATTTCAC
Found at i:53203363 original size:27 final size:27
Alignment explanation
Indices: 53203329--53203553 Score: 272
Period size: 27 Copynumber: 8.3 Consensus size: 27
53203319 GTAATTTCAC
*
53203329 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
53203356 AA-CTGAGGATAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* * *
53203383 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
53203410 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
53203437 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
53203464 AATCGAGGGTGAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
53203491 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * **
53203518 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
53203545 AATCGAGGG
1 AATCGAGGG
53203554 CATTTCAGTA
Statistics
Matches: 177, Mismatches: 19, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
26 1 0.01
27 175 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:53203548 original size:81 final size:81
Alignment explanation
Indices: 53203329--53203553 Score: 317
Period size: 81 Copynumber: 2.8 Consensus size: 81
53203319 GTAATTTCAC
* * *
53203329 AATCGAGGGTAAAACGGTAATTTTATAAA-CTGAGGATAAAATGGTAATTTTGTAAATCAAGGGT
1 AATCGAGGGTAAAACGGTAATTCTATAAATC-GAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
* *
53203393 AAAATGGTAATTCTGTA
65 AAAACGATAATTCTGTA
* * *
53203410 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
*
53203475 AAACGATAATTTTGTA
66 AAACGATAATTCTGTA
* * **
53203491 AATCGAGGGTGAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGG
53203554 CATTTCAGTA
Statistics
Matches: 128, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
81 127 0.99
82 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.28
Consensus pattern (81 bp):
AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
AAACGATAATTCTGTA
Found at i:53203566 original size:81 final size:80
Alignment explanation
Indices: 53203313--53203573 Score: 262
Period size: 81 Copynumber: 3.2 Consensus size: 80
53203303 CTACAGGGGT
* * *
53203313 ATTTCAGTAA-TTT-CACAATCGAGGGTAAAACGGTAATTTTATAAA-CTGAGGATAAAATGGTA
1 ATTTCAGTAATTTTGTA-AATCGAGGGTAAAACGGTAATTCTATAAATC-GAGGGTAAAATGGTA
*
53203375 ATTTTGTAAATCAAGGG
64 ATTTTGTAAATCGAGGG
** * * * *
53203392 TAAAAT-GGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTA
1 --ATTTCAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTA
53203456 ATTTTGTAAATCGAGGG
64 ATTTTGTAAATCGAGGG
*** *
53203473 -TGAAACGATAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATCGAGGGTAAAATGGTA
1 ATTTCA-G-TAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTA
* **
53203537 ATTCTACAAATCGAGGG
64 ATTTTGTAAATCGAGGG
*
53203554 CATTTCAGTAATTTAGTAAA
1 -ATTTCAGTAATTTTGTAAA
53203574 CTAAAGTATT
Statistics
Matches: 147, Mismatches: 25, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
80 5 0.03
81 137 0.93
82 3 0.02
83 2 0.01
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (80 bp):
ATTTCAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAAT
TTTGTAAATCGAGGG
Found at i:53205860 original size:31 final size:31
Alignment explanation
Indices: 53205825--53205903 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
53205815 CTTGACATAT
*
53205825 ACTGGGTCGAAGCCTTTCCATAAATCATACC
1 ACTGGGCCGAAGCCTTTCCATAAATCATACC
* *
53205856 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTCCATAAATCATACC
53205887 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
53205904 ACTGTAAATG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTCCATAAATCATACC
Found at i:53206129 original size:24 final size:24
Alignment explanation
Indices: 53206102--53206185 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 24
53206092 CTGGAGGCCT
*
53206102 AGCCTCTTTTAAT-AATTGGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
*
53206126 AGCCCTTTCTGATAAACTGGGGCAA
1 AGCCCTTT-TAATAAACTGGGGCAA
** *
53206151 AGCCCTTTTTGGTAAACTGGGGCAG
1 AGCCC-TTTTAATAAACTGGGGCAA
53206176 AGCCCTTTTA
1 AGCCCTTTTA
53206186 GCACTTCCTC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
23 4 0.08
24 11 0.21
25 34 0.65
26 3 0.06
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:53206184 original size:25 final size:25
Alignment explanation
Indices: 53206118--53206184 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
53206108 TTTTAATAAT
*
53206118 TGGGGCAAAGCCCTTTCTGATAAAC
1 TGGGGCAAAGCCCTTTTTGATAAAC
*
53206143 TGGGGCAAAGCCCTTTTTGGTAAAC
1 TGGGGCAAAGCCCTTTTTGATAAAC
*
53206168 TGGGGCAGAGCCCTTTT
1 TGGGGCAAAGCCCTTTT
53206185 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (25 bp):
TGGGGCAAAGCCCTTTTTGATAAAC
Found at i:53207056 original size:27 final size:27
Alignment explanation
Indices: 53206997--53207058 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
53206987 CATATTCGTT
53206997 ATTTTACCATACAAGGGTATTACGGTC
1 ATTTTACCATACAAGGGTATTACGGTC
* * *
53207024 ACTTTACCCTACAGGGGCT-TTACGGTC
1 ATTTTACCATACAAGGG-TATTACGGTC
*
53207051 TTTTTACC
1 ATTTTACC
53207059 TATTAGGGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (27 bp):
ATTTTACCATACAAGGGTATTACGGTC
Found at i:53207142 original size:27 final size:27
Alignment explanation
Indices: 53207112--53207219 Score: 94
Period size: 27 Copynumber: 3.9 Consensus size: 27
53207102 GTAAATCTAC
53207112 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
53207139 AAACCAATGGTATTTCTA-TAACTTTTAG-
1 AAACCAAGGGTATTTC-AGTAA-TTTT-GT
* **
53207167 AAAGTCAAGGGTATTTTTGTAATTTTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
53207195 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
53207220 ACAAATTGAA
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
27 39 0.57
28 15 0.22
29 14 0.21
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:53207224 original size:110 final size:109
Alignment explanation
Indices: 53207092--53207329 Score: 259
Period size: 110 Copynumber: 2.2 Consensus size: 109
53207082 CATCCTACAA
* *** *
53207092 GGGTGTTTTGGTAAATCTACAAA-CCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT
1 GGGTGTTTTGGTAATTCTACAAATCCAA-GGTATTTCAGTAATTTCACAAACCAATGGCATTTC-
* * * *
53207156 A-TAACTTTTA-GAAAGTCAAGGGTATTTTTGTAATTTTGTAAA-TCAG
64 AGTAA-TTTTACAAAACT-AAGGGTATTTTGGTAATTTTATAAACT-AG
* * ** * *
53207202 GGGTATTTTGGTAATTTTACAAATTGAAGGTATTTCGGTAATTTCACAAACCAGTGGCATTTCAG
1 GGGTGTTTTGGTAATTCTACAAATCCAAGGTATTTCAGTAATTTCACAAACCAATGGCATTTCAG
*
53207267 TAATTTTACAAAACTAGGGGTATTTTGGTAATTTTATAAACTAG
66 TAATTTTACAAAACTAAGGGTATTTTGGTAATTTTATAAACTAG
53207311 GGGTGTTTTGGTAATTCTA
1 GGGTGTTTTGGTAATTCTA
53207330 TCCTATAGGG
Statistics
Matches: 106, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
109 47 0.44
110 57 0.54
111 2 0.02
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (109 bp):
GGGTGTTTTGGTAATTCTACAAATCCAAGGTATTTCAGTAATTTCACAAACCAATGGCATTTCAG
TAATTTTACAAAACTAAGGGTATTTTGGTAATTTTATAAACTAG
Found at i:53207225 original size:27 final size:27
Alignment explanation
Indices: 53207161--53207359 Score: 134
Period size: 27 Copynumber: 7.3 Consensus size: 27
53207151 TTTCTATAAC
* * *
53207161 TTTTAGAAAGTCAAGGGTATTTTTGTAA
1 TTTTACAAA-TCAGGGGTATTTTGGTAA
**
53207189 TTTTGTAAATCAGGGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* * *
53207216 TTTTACAAAT-TGAAGGTATTTCGGTAA
1 TTTTACAAATCAG-GGGTATTTTGGTAA
* * * * **
53207243 TTTCACAAACCAGTGGCATTTCAGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
*
53207270 TTTTACAAAACTAGGGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
* *
53207298 TTTTATAAA-CTAGGGGTGTTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
* ** *
53207325 TTCTATCCTAT-AGGGGTATTTCGGTAA
1 TTTTA-CAAATCAGGGGTATTTTGGTAA
*
53207352 TTTCACAA
1 TTTTACAA
53207360 TCGAGGGTAA
Statistics
Matches: 133, Mismatches: 33, Indels: 12
0.75 0.19 0.07
Matches are distributed among these distances:
26 2 0.02
27 102 0.77
28 29 0.22
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
TTTTACAAATCAGGGGTATTTTGGTAA
Found at i:53207392 original size:27 final size:27
Alignment explanation
Indices: 53207358--53207581 Score: 229
Period size: 27 Copynumber: 8.3 Consensus size: 27
53207348 GTAATTTCAC
53207358 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
53207385 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* * *
53207412 AATCAAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
53207439 AATCGAGGGTGAAATGGTAA--TTGATA
1 AATCGAGGGTAAAACGGTAATTTTG-TA
* * *
53207465 AATCGAGGGTAAAACAGCAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
** * *
53207492 AATTAAGGGTGAAACGGTGATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * *
53207519 AATCGAGGGTGAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* **
53207546 AATCGAGGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
53207573 AATCGAGGG
1 AATCGAGGG
53207582 CATTTAAGTA
Statistics
Matches: 159, Mismatches: 33, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
25 2 0.01
26 19 0.12
27 135 0.85
28 3 0.02
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:53207458 original size:107 final size:106
Alignment explanation
Indices: 53207347--53207581 Score: 294
Period size: 107 Copynumber: 2.2 Consensus size: 106
53207337 GGGGTATTTC
* * * * *
53207347 GGTAATTTCACAATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTA
1 GGTAATTT-ACAATCGAGGGTAAAACAGCAATTTTATAAACTAAGGGTAAAACGGTAATTTTGTA
* *
53207412 AATCAAGGGTAAAAC-AGTAATTCTGTAAATCGAGGGTGAAAT
65 AATCAAGGGTAAAACGA-TAATTCTATAAATCGAGGGTAAAAT
* * *
53207454 GGTAATTGATA-AATCGAGGGTAAAACAGCAATTTTATAAATTAAGGGTGAAACGGTGATTTTGT
1 GGTAATT--TACAATCGAGGGTAAAACAGCAATTTTATAAACTAAGGGTAAAACGGTAATTTTGT
* *
53207518 AAATCGAGGGTGAAACGATAATTCTATAAATCGAGGGTAAAAT
64 AAATCAAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAAT
53207561 GGTAATTTTACAAATCGAGGG
1 GGTAA-TTTAC-AATCGAGGG
53207582 CATTTAAGTA
Statistics
Matches: 110, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
106 2 0.02
107 94 0.85
108 13 0.12
109 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.29
Consensus pattern (106 bp):
GGTAATTTACAATCGAGGGTAAAACAGCAATTTTATAAACTAAGGGTAAAACGGTAATTTTGTAA
ATCAAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAAT
Found at i:53210828 original size:33 final size:33
Alignment explanation
Indices: 53210786--53210852 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
53210776 GATGAATAGA
53210786 CATGTTACCACTATGAGCTTCATTCAAAATTTT
1 CATGTTACCACTATGAGCTTCATTCAAAATTTT
53210819 CATGTTACCACTATGAGCTTCATTCAAAATTTT
1 CATGTTACCACTATGAGCTTCATTCAAAATTTT
53210852 C
1 C
53210853 TGTACTAGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (33 bp):
CATGTTACCACTATGAGCTTCATTCAAAATTTT
Found at i:53220406 original size:47 final size:49
Alignment explanation
Indices: 53220286--53220463 Score: 189
Period size: 45 Copynumber: 3.8 Consensus size: 49
53220276 TGTAACCCGC
* * *
53220286 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC--A-G-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
* *
53220331 CCATACGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
* *
53220381 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
53220424 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
53220464 TCAATCATCC
Statistics
Matches: 109, Mismatches: 11, Indels: 22
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 33 0.30
46 29 0.27
47 30 0.28
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
Found at i:53220451 original size:93 final size:92
Alignment explanation
Indices: 53220293--53220463 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 92
53220283 CGCCCATAAG
* *
53220293 CGAACTCGGACTCAACTCAACGAGCTCAGCGTTCGCATCCATACGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53220358 CGAGTTCGGATGCCTAGTTACATCTCA
66 CGAGTTCGGATGCCTAGTTACATCTCA
* *
53220385 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
53220450 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
53220464 TCAATCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 27 0.36
93 47 0.64
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:53227963 original size:93 final size:93
Alignment explanation
Indices: 53227804--53227975 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
53227794 CGCCCATAAG
* *
53227804 CGAACTCGGACTCAACTCAACGAGCTTAGGCGTTCGCATCCGTAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTTAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
53227869 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
53227897 CGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTTAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
53227961 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
53227976 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 4 0.05
93 71 0.95
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTTAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:53227969 original size:46 final size:46
Alignment explanation
Indices: 53227797--53227972 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
53227787 TGTAACCCGC
* *
53227797 CCATAAGCGAACTCGGACTCAACTCAACGAGCTTAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCAT
* * *
53227843 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
53227893 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
53227936 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
53227973 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 6 0.05
46 58 0.53
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:53227991 original size:46 final size:46
Alignment explanation
Indices: 53227846--53227984 Score: 144
Period size: 47 Copynumber: 3.0 Consensus size: 46
53227836 TTCGCATCCG
53227846 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
53227894 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
53227939 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
53227985 CTAGTGACAT
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.37
47 30 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:53234101 original size:40 final size:39
Alignment explanation
Indices: 53234057--53234318 Score: 236
Period size: 39 Copynumber: 6.6 Consensus size: 39
53234047 CTCCTCGTTC
*
53234057 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGT-ATCTCGCA
* * *
53234097 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTATCTCGCA
* *
53234137 CAAATGCCTTC-GGATCTTAGTCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTA-TAGTATCTCGCA
* *
53234177 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTATCTCGCA
* *
53234216 CAAATGCCTTC-GGATCTTAGTCC-GAATTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTA-TAGTATCTCGCA
* * *
53234255 CAAATGCCTTC-GGATCTTAGTCCGGATATTGTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TATAGT-ATC-TCGCA
53234296 C-AA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
53234319 ACATCATTCA
Statistics
Matches: 194, Mismatches: 17, Indels: 23
0.83 0.07 0.10
Matches are distributed among these distances:
38 2 0.01
39 92 0.47
40 91 0.47
41 9 0.05
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTATCTCGCA
Found at i:53234206 original size:39 final size:38
Alignment explanation
Indices: 53234057--53234267 Score: 244
Period size: 40 Copynumber: 5.3 Consensus size: 38
53234047 CTCCTCGTTC
* **
53234057 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGAAT-TAGT-ATCTCGCA
* * *
53234097 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCC-GAATTAGTATCTCGCA
* *
53234137 CAAATGCCTTCGGATCTTAGTCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGG-GCTTAG-CCCGAATTAGTATCTCGCA
53234177 CAAATGCCTTCGGGCTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCC-GAATTAGTATCTCGCA
* *
53234216 CAAATGCCTTCGGATCTTAGTCCGAATTAGTATCTCGCA
1 CAAATGCCTTCGG-GCTTAGCCCGAATTAGTATCTCGCA
53234255 CAAATGCCTTCGG
1 CAAATGCCTTCGG
53234268 ATCTTAGTCC
Statistics
Matches: 152, Mismatches: 13, Indels: 13
0.85 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 64 0.42
40 81 0.53
41 5 0.03
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (38 bp):
CAAATGCCTTCGGGCTTAGCCCGAATTAGTATCTCGCA
Found at i:53234229 original size:79 final size:79
Alignment explanation
Indices: 53234092--53234267 Score: 300
Period size: 79 Copynumber: 2.2 Consensus size: 79
53234082 TTATAGTAAT
* *
53234092 TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAG
1 TCGCACAAATGCCTTCGGGACTTAACCCAGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAG
53234157 TCCGGAATTAGTATC
66 TCC-GAATTAGTATC
* *
53234172 TCGCACAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAG
1 TCGCACAAATGCCTTCGGGACTTAACCCAGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAG
53234236 TCCGAATTAGTATC
66 TCCGAATTAGTATC
53234250 TCGCACAAATGCCTTCGG
1 TCGCACAAATGCCTTCGG
53234268 ATCTTAGTCC
Statistics
Matches: 92, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
78 29 0.32
79 44 0.48
80 19 0.21
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (79 bp):
TCGCACAAATGCCTTCGGGACTTAACCCAGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAG
TCCGAATTAGTATC
Found at i:53234268 original size:39 final size:40
Alignment explanation
Indices: 53234092--53234280 Score: 285
Period size: 39 Copynumber: 4.8 Consensus size: 40
53234082 TTATAGTAAT
** * *
53234092 TCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC
1 TCGCACAAATGCCTTC-GGATCTTAGTCCGGAATTAGTATC
53234132 TCGCACAAATGCCTTCGGATCTTAGTCCGGAATTAGTATC
1 TCGCACAAATGCCTTCGGATCTTAGTCCGGAATTAGTATC
* * *
53234172 TCGCACAAATGCCTTCGG-GCTTAGCCCAGAATTAGTATC
1 TCGCACAAATGCCTTCGGATCTTAGTCCGGAATTAGTATC
53234211 TCGCACAAATGCCTTCGGATCTTAGTCC-GAATTAGTATC
1 TCGCACAAATGCCTTCGGATCTTAGTCCGGAATTAGTATC
53234250 TCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 TCGCACAAATGCCTTCGGATCTTAGTCCGGA
53234281 TATTGTCACT
Statistics
Matches: 137, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
39 78 0.57
40 59 0.43
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGATCTTAGTCCGGAATTAGTATC
Found at i:53242074 original size:40 final size:40
Alignment explanation
Indices: 53242030--53242292 Score: 253
Period size: 40 Copynumber: 6.6 Consensus size: 40
53242020 CTCCTCGTTC
*
53242030 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGT-ATCTCGCA
* *
53242070 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTATCTCGCA
* *
53242110 CAAATGCCTTC-GGATCTTAGTCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTA-TAGTATCTCGCA
*
53242150 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTATCTCGCA
*
53242189 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TTATAGTATCTCGCA
* * * *
53242229 CAAATGCCTTC-GGATCTTAGTCCGGATATTGTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-ATC-TCGCA
53242270 C-AA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
53242293 ACATCATTCA
Statistics
Matches: 195, Mismatches: 14, Indels: 29
0.82 0.06 0.12
Matches are distributed among these distances:
38 2 0.01
39 55 0.28
40 128 0.66
41 10 0.05
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTATCTCGCA
Found at i:53242202 original size:79 final size:80
Alignment explanation
Indices: 53242065--53242241 Score: 311
Period size: 79 Copynumber: 2.2 Consensus size: 80
53242055 TTATAGTAAT
*
53242065 TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAG
1 TCGCACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAG
53242130 TCCGGAATTAGTATC
66 TCCGGAATTAGTATC
* *
53242145 TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAG
1 TCGCACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAG
*
53242209 TCCGGATTTAGTATC
66 TCCGGAATTAGTATC
53242224 TCGCACAAATGCCTTCGG
1 TCGCACAAATGCCTTCGG
53242242 ATCTTAGTCC
Statistics
Matches: 93, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
79 74 0.80
80 19 0.20
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (80 bp):
TCGCACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAG
TCCGGAATTAGTATC
Found at i:53242214 original size:119 final size:122
Alignment explanation
Indices: 53242030--53242293 Score: 368
Period size: 119 Copynumber: 2.2 Consensus size: 122
53242020 CTCCTCGTTC
* *
53242030 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
*
53242094 GATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA-ATTAGT-A-TCTCGCA
66 GATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATT-GTCACT-TAGCA
**
53242150 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
*
53242211 CGGATTTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCA
64 CGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCA
53242270 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
53242294 CATCATTCAA
Statistics
Matches: 131, Mismatches: 6, Indels: 15
0.86 0.04 0.10
Matches are distributed among these distances:
118 14 0.11
119 92 0.70
120 24 0.18
121 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (122 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
GATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCA
Found at i:53242277 original size:79 final size:80
Alignment explanation
Indices: 53242065--53242293 Score: 294
Period size: 79 Copynumber: 2.9 Consensus size: 80
53242055 TTATAGTAAT
*
53242065 TCGCACAAATGCCTTCGGGACTTAACCCGGAT-TTAGTAAC-TCGCACAAATGCCTTCGGATCTT
1 TCGCACAAATGCCTTC-GGACTTAGCCCGGATATTAGT-ACTTCGCACAAATGCCTTCGGATCTT
53242128 AGTCCGGAATTAGTATC
64 AGTCCGGAATTAGTATC
*
53242145 TCGCACAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTA-TCTCGCACAAATGCCTTCGGATCTTA
1 TCGCACAAATGCCTTCGGACTTAGCCCGGATATTAGTACT-TCGCACAAATGCCTTCGGATCTTA
*
53242208 GTCCGGATTTAGTATC
65 GTCCGGAATTAGTATC
* *
53242224 TCGCACAAATGCCTTCGGATCTTAGTCCGGATATT-GTCACTTAGCAC-AA-GCCTTCGGGA-CT
1 TCGCACAAATGCCTTCGGA-CTTAGCCCGGATATTAGT-ACTTCGCACAAATGCCTTC-GGATCT
*
53242285 TAGCCCGGA
63 TAGTCCGGA
53242294 CATCATTCAA
Statistics
Matches: 134, Mismatches: 7, Indels: 17
0.85 0.04 0.11
Matches are distributed among these distances:
78 1 0.01
79 90 0.67
80 33 0.25
81 9 0.07
82 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (80 bp):
TCGCACAAATGCCTTCGGACTTAGCCCGGATATTAGTACTTCGCACAAATGCCTTCGGATCTTAG
TCCGGAATTAGTATC
Found at i:53243390 original size:13 final size:13
Alignment explanation
Indices: 53243372--53243396 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53243362 GGATGAGCAT
53243372 TTTTTTTTCTTTG
1 TTTTTTTTCTTTG
53243385 TTTTTTTTCTTT
1 TTTTTTTTCTTT
53243397 CTAGTTTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTTG
Found at i:53246584 original size:40 final size:40
Alignment explanation
Indices: 53246510--53246691 Score: 296
Period size: 40 Copynumber: 4.6 Consensus size: 40
53246500 AACCCAAGTA
* * *
53246510 CCTTCGGGATTTAG-CTGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
53246549 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
53246589 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
53246629 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
53246669 CCTTCCGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
53246692 CATTCGAATA
Statistics
Matches: 135, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 12 0.09
40 122 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:53251419 original size:110 final size:110
Alignment explanation
Indices: 53251281--53251498 Score: 382
Period size: 110 Copynumber: 2.0 Consensus size: 110
53251271 GCCATTGTAG
*
53251281 TTTCTCTAAACTAGCTTGGGTAAGATCTCTTTTCTCTTAAATTTCTTGATTAATCTTGTTAATTA
1 TTTCTCTAAACTAGCTTGGGTAAGATCTCTTTTCTCTTAAATTTCTTGATTAATCTTGTCAATTA
* *
53251346 AAAACCAAAATGTCCAAATCTATAGTCTTGTGGATTTTAAATGGT
66 AAAACCAAAATGTCCAAATCTAGAATCTTGTGGATTTTAAATGGT
* *
53251391 TTTCTCTGAACTAGCTTGGGTGAGATCTCTTTTCTCTTAAATTTCTTGATTAATCTTGTCAATTA
1 TTTCTCTAAACTAGCTTGGGTAAGATCTCTTTTCTCTTAAATTTCTTGATTAATCTTGTCAATTA
*
53251456 AAAACCAAAATGTCCAGATCTAGAATCTTGTGGATTTTAAATG
66 AAAACCAAAATGTCCAAATCTAGAATCTTGTGGATTTTAAATG
53251499 ATTTCAAATG
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
110 102 1.00
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (110 bp):
TTTCTCTAAACTAGCTTGGGTAAGATCTCTTTTCTCTTAAATTTCTTGATTAATCTTGTCAATTA
AAAACCAAAATGTCCAAATCTAGAATCTTGTGGATTTTAAATGGT
Found at i:53271074 original size:40 final size:41
Alignment explanation
Indices: 53270994--53271224 Score: 267
Period size: 40 Copynumber: 5.8 Consensus size: 41
53270984 TATAACCACA
* *
53270994 AGCACAAATGCCTTC-GGTCTTAGCCCAGAT-ATATCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACT
53271033 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACT
* * * * * * *
53271073 AGCACAATTGCCTTCGGGTTTTAACCCGGGT-ATAGCAATT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACT
*
53271113 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACT
* * * * *
53271153 AGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACT
* *
53271193 CGCACAAATGCCTTCGGGTCTGAGCCCGGATA
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATA
53271225 TCATTCAAAT
Statistics
Matches: 158, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
39 21 0.13
40 130 0.82
41 7 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACT
Found at i:53271136 original size:80 final size:80
Alignment explanation
Indices: 53270975--53271224 Score: 378
Period size: 80 Copynumber: 3.1 Consensus size: 80
53270965 TCTTCGGAAT
* * * * * * * * *
53270975 TTAG-CCGGATATAACCACAAGCACAAATGCCTTC-GGTCTTAGCCCAGATATATCAACTAGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
53271038 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
53271053 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTTTTAACCCGGGTATAGCAATTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
53271118 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
53271133 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
53271198 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
53271213 TGAGCCCGGATA
1 TTAGCCCGGATA
53271225 TCATTCAAAT
Statistics
Matches: 156, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
78 4 0.03
79 26 0.17
80 126 0.81
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:53274358 original size:40 final size:40
Alignment explanation
Indices: 53274321--53274505 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
53274311 GCTACTCGTT
*
53274321 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
53274361 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
53274401 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
53274440 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
53274481 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
53274506 CATCATTCAA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 75 0.60
41 15 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:53274432 original size:79 final size:82
Alignment explanation
Indices: 53274321--53274505 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
53274311 GCTACTCGTT
* * *
53274321 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
53274384 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
53274401 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
53274464 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
53274481 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
53274506 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 52 0.57
80 36 0.40
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:53278772 original size:15 final size:15
Alignment explanation
Indices: 53278740--53278768 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
53278730 ATTTTCTGTG
53278740 TTTATATTGTGTGAA
1 TTTATATTGTGTGAA
53278755 TTTATATT-TGTGAA
1 TTTATATTGTGTGAA
53278769 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (15 bp):
TTTATATTGTGTGAA
Found at i:53282472 original size:26 final size:26
Alignment explanation
Indices: 53282436--53282486 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
53282426 CCACACTGCT
53282436 TGTGACACGGGTGTATCTTTTGGCCG
1 TGTGACACGGGTGTATCTTTTGGCCG
*
53282462 TGTGTCACGGGTGTATCTTTTGGCC
1 TGTGACACGGGTGTATCTTTTGGCC
53282487 TGAACCACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.10, C:0.20, G:0.33, T:0.37
Consensus pattern (26 bp):
TGTGACACGGGTGTATCTTTTGGCCG
Found at i:53284306 original size:19 final size:19
Alignment explanation
Indices: 53284262--53284306 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
53284252 AGATTCAATG
* *
53284262 GACATAAAAATCTTTACAT
1 GACATGAAAATCTTGACAT
*
53284281 GGCATGAAAATCTTGACAT
1 GACATGAAAATCTTGACAT
*
53284300 GATATGA
1 GACATGA
53284307 TAATGACTTG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (19 bp):
GACATGAAAATCTTGACAT
Found at i:53291457 original size:29 final size:29
Alignment explanation
Indices: 53291394--53291461 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
53291384 TAATCAACCG
53291394 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
53291423 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
53291452 CGCACACTTA
1 CGCACACTTA
53291462 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:53291574 original size:174 final size:174
Alignment explanation
Indices: 53291283--53291610 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
53291273 AACTCAAGGT
* *
53291283 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
53291348 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
53291413 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
53291457 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
53291522 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
53291587 ACTTTAAACTCACACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
53291611 TGTACAATTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:53291604 original size:29 final size:30
Alignment explanation
Indices: 53291570--53291641 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
53291560 ATCAACCACG
*
53291570 CACACTTAGTGCCATGTAC-TTTAAACTCA
1 CACACTTAGTGCCATGTACATTTAAACCCA
*
53291599 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCA
53291628 CACACTTAGTGCCA
1 CACACTTAGTGCCA
53291642 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCA
Found at i:53303425 original size:27 final size:26
Alignment explanation
Indices: 53303369--53303425 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
53303359 CAACCTTAAC
* *
53303369 CCTAGGGGTATATCAGTAATTTTACT
1 CCTAGGGGTAAATCAGTAATTTTACA
*
53303395 CCTAGGGGTAAATCTA-TAAATTTTCCA
1 CCTAGGGGTAAATC-AGT-AATTTTACA
53303422 CCTA
1 CCTA
53303426 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTACA
Found at i:53314190 original size:28 final size:28
Alignment explanation
Indices: 53314158--53314227 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
53314148 ATAGTAAGTC
53314158 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
53314186 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
53314214 CGCACACTTAGTGC
1 CGCACACTTAGTGC
53314228 CAATCTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:53318583 original size:24 final size:25
Alignment explanation
Indices: 53318542--53318608 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 25
53318532 CCTGTTAAAT
* *
53318542 TGGCTCTTTATGAGCTTCCGAA-TA
1 TGGCTCTTTATGAACTTCCCAATTA
* *
53318566 TGGTTCTTTGTGAACTTCCCAATTA
1 TGGCTCTTTATGAACTTCCCAATTA
53318591 TGGCTC-TTATGAACTTCC
1 TGGCTCTTTATGAACTTCC
53318609 TGTTATATAG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
24 29 0.81
25 7 0.19
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.40
Consensus pattern (25 bp):
TGGCTCTTTATGAACTTCCCAATTA
Found at i:53335499 original size:28 final size:28
Alignment explanation
Indices: 53335468--53335525 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
53335458 TAAATTGTAG
* * *
53335468 TTTAAATTGGTTTACGCCATATACGATT
1 TTTAAACTAGTTTACACCATATACGATT
*
53335496 TTTAAACTAGTTTACACCATATACGGTT
1 TTTAAACTAGTTTACACCATATACGATT
53335524 TT
1 TT
53335526 AAAGATAACG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (28 bp):
TTTAAACTAGTTTACACCATATACGATT
Found at i:53340658 original size:28 final size:28
Alignment explanation
Indices: 53340595--53340717 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
53340585 ATATTAAATC
*
53340595 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
53340622 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
53340650 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * * *
53340678 CGCACACTTAGTGTTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
53340707 CGCACACTTAG
1 CGCACACTTAG
53340718 CGCCAATCTC
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 22 0.26
28 48 0.56
29 16 0.19
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:53348857 original size:28 final size:28
Alignment explanation
Indices: 53348794--53348916 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
53348784 ATATTAAGTC
*
53348794 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
53348821 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
53348849 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
53348877 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
53348906 CGCACACTTAG
1 CGCACACTTAG
53348917 CGCCAATCTC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.25
28 49 0.56
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:53352868 original size:39 final size:38
Alignment explanation
Indices: 53352801--53353018 Score: 258
Period size: 39 Copynumber: 5.6 Consensus size: 38
53352791 ACAAAGCATG
* * *
53352801 CGGGACTTTAAGCCCGAATATAATACCAGCAC-AAAGCCT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCT
* *
53352840 GCTGGACTTTAGCCCGGATATAACACCAGTACGAATGCCTT
1 -CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCC-T
* * *
53352881 TGGGACTTATCCCGGATATAACACCTGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCC-T
53352920 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCC-T
* * *
53352959 TGGGACTTAGCCCAGATATAACACCATCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCC-T
53352998 CGGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
53353019 TTCTCCATTA
Statistics
Matches: 158, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 140 0.89
40 17 0.11
41 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (38 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCT
Found at i:53352930 original size:78 final size:78
Alignment explanation
Indices: 53352843--53353018 Score: 300
Period size: 78 Copynumber: 2.2 Consensus size: 78
53352833 AAAGCCTGCT
* * *
53352843 GGACTTTAGCCCGGATATAACACCAGTACGAATGCCTTTGGGACTTATCCCGGATATAACACC-T
1 GGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTTTGGGACTTAGCCCAGATATAACACCAT
53352907 GCACGAATGCCTTCG
65 -CACGAATGCCTTCG
53352922 GGACTTAGCCCGGATATAACACCAGCACGAATGCCTTTGGGACTTAGCCCAGATATAACACCATC
1 GGACTTAGCCCGGATATAACACCAGCACGAATGCCTTTGGGACTTAGCCCAGATATAACACCATC
53352987 ACGAATGCCTTCG
66 ACGAATGCCTTCG
53353000 GGACTTAGCCCGGATATAA
1 GGACTTAGCCCGGATATAA
53353019 TTCTCCATTA
Statistics
Matches: 93, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
78 88 0.95
79 5 0.05
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (78 bp):
GGACTTAGCCCGGATATAACACCAGCACGAATGCCTTTGGGACTTAGCCCAGATATAACACCATC
ACGAATGCCTTCG
Found at i:53353017 original size:117 final size:119
Alignment explanation
Indices: 53352801--53353018 Score: 311
Period size: 117 Copynumber: 1.8 Consensus size: 119
53352791 ACAAAGCATG
* *
53352801 CGGGACTTTAAGCCCGAATATAATACCAGCACAAAGCCTGCTGGACTTTAGCCCGGATATAACAC
1 CGGGACTTTAAGCCCGAATATAACACCAGCACAAAGCCTGCTGGACTTTAGCCCAGATATAACAC
* *
53352866 CAGTACGAATGCCTTTGGGACTTATCCCGGATATAACACCTGCACGAATGCCTT
66 CAGTACGAATGCCTTCGGGACTTAGCCCGGATATAACACCTGCACGAATGCCTT
* * *
53352920 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCT-TTGGGAC-TTAGCCCAGATATAAC
1 CGGGACTTTAAGCCCGAATATAACACCAGCAC-AAAGCCTGCT-GGACTTTAGCCCAGATATAAC
53352981 ACCA-TCACGAATGCCTTCGGGACTTAGCCCGGATATAA
64 ACCAGT-ACGAATGCCTTCGGGACTTAGCCCGGATATAA
53353019 TTCTCCATTA
Statistics
Matches: 89, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
116 1 0.01
117 70 0.79
118 12 0.13
119 6 0.07
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (119 bp):
CGGGACTTTAAGCCCGAATATAACACCAGCACAAAGCCTGCTGGACTTTAGCCCAGATATAACAC
CAGTACGAATGCCTTCGGGACTTAGCCCGGATATAACACCTGCACGAATGCCTT
Found at i:53359030 original size:46 final size:46
Alignment explanation
Indices: 53358963--53359138 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
53358953 TGTAACCCGC
* * *
53358963 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGGGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGATTCGCAT
* ** * *
53359009 CCATAAGTGAACTGGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-GATTCGCAT
* *** * *
53359055 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGAGATTCGCAT
*
53359102 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
53359139 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
46 70 0.67
47 35 0.33
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGATTCGCAT
Found at i:53359084 original size:93 final size:93
Alignment explanation
Indices: 53358971--53359142 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
53358961 GCCCATAAGT
*** *
53358971 GAACTCAGACTCAACTCAACGAGCTCGGGGGTTCGCATCCATAAGTGAACTGGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53359036 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
53359064 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
53359129 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
53359143 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:53374305 original size:28 final size:28
Alignment explanation
Indices: 53374265--53374365 Score: 130
Period size: 28 Copynumber: 3.6 Consensus size: 28
53374255 GCCCCCTTTA
* *
53374265 GCCCAATCTCATTCATATGGCCCATCGG
1 GCCCAATCACATTCATATGGCCCATCAG
*
53374293 GCCCAATAACATTCATATGGCCCATCAG
1 GCCCAATCACATTCATATGGCCCATCAG
** * * *
53374321 GCCCAATCATTTTCATGTTGCCCATTAG
1 GCCCAATCACATTCATATGGCCCATCAG
53374349 GCCCAATCACATTCATA
1 GCCCAATCACATTCATA
53374366 GTCATGCAAT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.27, C:0.33, G:0.14, T:0.27
Consensus pattern (28 bp):
GCCCAATCACATTCATATGGCCCATCAG
Found at i:53376431 original size:40 final size:40
Alignment explanation
Indices: 53376348--53376572 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
53376338 TTGAATGATG
* * * *
53376348 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
53376388 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
53376428 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
53376468 TCCGGGCTAA-TCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
53376507 TCCGGGTTAAGTCCCGAAGGCAATTGTGCAAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
53376548 -CCGGGCTATGTCCCGAAAGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
53376573 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 37 0.23
40 114 0.71
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:53376561 original size:119 final size:120
Alignment explanation
Indices: 53376348--53376572 Score: 296
Period size: 119 Copynumber: 1.9 Consensus size: 120
53376338 TTGAATGATG
* *
53376348 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
* * *
53376413 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
66 GTGCAAGTTACTAAATCCGGGCTAAGTCCCGAAAGCATTTGTGCGAGATACTAAT
* * * **
53376468 TCCGGGCTAA-TCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAA
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAA
*
53376530 TTGTGCAAGTTACTATAA-CCGGGCTATGTCCCGAAAGCATTTG
64 TTGTGCAAGTTACTA-AATCCGGGCTAAGTCCCGAAAGCATTTG
53376573 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
118 1 0.01
119 71 0.78
120 19 0.21
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTGCAAGTTACTAAATCCGGGCTAAGTCCCGAAAGCATTTGTGCGAGATACTAAT
Found at i:53376595 original size:79 final size:79
Alignment explanation
Indices: 53376348--53376572 Score: 294
Period size: 79 Copynumber: 2.8 Consensus size: 79
53376338 TTGAATGATG
* * * *
53376348 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-AAGTTACTATATCCGGGCT-AG-TCCCGAAGGCAT
53376411 TTGTGCGAGTTACTAAA
63 TTGTGCGAGTTACTAAA
* * *
53376428 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAATCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA-TCCGGGCTAGTCCCGAAGGCATTT
53376492 GTGCGAGTTACTAAA
65 GTGCGAGTTACTAAA
* * *
53376507 TCCGGGTTAAGTCCCGAAGGCAATTGTGCAAGTTACTATAACCGGGCTATGTCCCGAAAGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTA-GTCCCGAAGGCATTT
53376572 G
65 G
53376573 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 72 0.57
80 47 0.37
81 7 0.06
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAGTCCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:53380604 original size:40 final size:40
Alignment explanation
Indices: 53380504--53380675 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
53380494 GCTCCTCGTT
* * *
53380504 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
53380544 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
53380583 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTTGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
53380623 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
53380663 CAAATGCCTTCGG
1 CAAATGCCTTCGG
53380676 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 35 0.30
40 78 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:53380712 original size:80 final size:80
Alignment explanation
Indices: 53380504--53380728 Score: 215
Period size: 80 Copynumber: 2.8 Consensus size: 80
53380494 GCTCCTCGTT
* * * * * ** * *
53380504 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTATCTTGCACAAAGCCTTCGGGACTTAACCCGGA
53380568 ATTTAATAACTCGCA
66 ATTTAATAACTCGCA
* * *
53380583 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTTGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTATCTTGCACAAA-GCCTTCGGGACTTAACCCGG
* *
53380648 AATTT-GTATCTCGCA
65 AATTTAATAACTCGCA
** * * *
53380663 CAAATGCCTTC-GGATCTTAGTCCGGGTATATTCA-CTTAGCACAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATATAGT-ATCTT-GCACAAAGCCTTCGGGACTTAACCC
53380726 GGA
63 GGA
53380729 CAACATTCCA
Statistics
Matches: 121, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
79 39 0.32
80 70 0.58
81 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCGGATATAGTATCTTGCACAAAGCCTTCGGGACTTAACCCGGA
ATTTAATAACTCGCA
Found at i:53387681 original size:40 final size:40
Alignment explanation
Indices: 53387496--53387719 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
53387486 TTGAATGATG
* * * *
53387496 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
53387536 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAG-TACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
53387575 TCCGGGTTAAGTCCCGAAGGCATTTGTCCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
53387615 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
53387654 TCCGGGTTAAGTCCCGAAGGCAATTGTGCAAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
53387695 -CCGGGCTATGTCCCGAAAGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
53387720 AACGAGTAGC
Statistics
Matches: 158, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
38 1 0.01
39 66 0.42
40 81 0.51
41 10 0.06
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:53387691 original size:79 final size:79
Alignment explanation
Indices: 53387496--53387752 Score: 288
Period size: 79 Copynumber: 3.3 Consensus size: 79
53387486 TTGAATGATG
* * * * *
53387496 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-AAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
53387560 TGTGCGAGTACTAAA
65 TGTGCGAGTACTAAA
* * *
53387575 TCCGGGTTAAGTCCCGAAGGCATTTGTCCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA-TCCGGGCTAAGACCCGAAGGCATT
53387638 TGTGCGAGTTACTAAA
65 TGTGCGAG-TACTAAA
* * * * *
53387654 TCCGGGTTAAGTCCCGAAGGCAATTGTGCAAGTTACTATAACCGGGCTATGTCCCGAAAGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGACCCGAAGGCATTT
** *
53387719 GAACGAGTAGCTATA
66 GTGCGAGTA-CTAAA
* *
53387734 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
53387753 TACGTGATTT
Statistics
Matches: 152, Mismatches: 20, Indels: 12
0.83 0.11 0.07
Matches are distributed among these distances:
78 20 0.13
79 101 0.66
80 31 0.20
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGTACTAAA
Found at i:53389217 original size:21 final size:21
Alignment explanation
Indices: 53389188--53389227 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
53389178 ACTAAACAAA
*
53389188 AAGTGACTCAAAAATCATCTT
1 AAGTCACTCAAAAATCATCTT
**
53389209 AAGTCACTCTTAAATCATC
1 AAGTCACTCAAAAATCATC
53389228 CATGACCATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (21 bp):
AAGTCACTCAAAAATCATCTT
Found at i:53396466 original size:28 final size:28
Alignment explanation
Indices: 53396423--53396523 Score: 157
Period size: 28 Copynumber: 3.6 Consensus size: 28
53396413 TAACCCATTT
**
53396423 AGGCCCAATCTTATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
53396451 AGGCCCAATCACATTCATATGGCGCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
53396479 AGGCCCAATCACTTTCATATGGCCCGTC
1 AGGCCCAATCACATTCATATGGCCCATC
53396507 AGGCCCAATCACATTCA
1 AGGCCCAATCACATTCA
53396524 CAGTCATGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 66 1.00
ACGTcount: A:0.27, C:0.34, G:0.16, T:0.24
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:53401460 original size:33 final size:33
Alignment explanation
Indices: 53401416--53401487 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
53401406 AGTAAACAAC
* *
53401416 ACAGTATCAGTATAGTCTGGGCCAAAGCCCTAT
1 ACAGTAACAGTACAGTCTGGGCCAAAGCCCTAT
* **
53401449 TCAGTAACAGTACAGTCTGGGCCTTAGCCCTAT
1 ACAGTAACAGTACAGTCTGGGCCAAAGCCCTAT
53401482 ACAGTA
1 ACAGTA
53401488 GCATTGTGGG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (33 bp):
ACAGTAACAGTACAGTCTGGGCCAAAGCCCTAT
Found at i:53405091 original size:40 final size:40
Alignment explanation
Indices: 53405047--53405141 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
53405037 TCAATATCTT
* *
53405047 GCACACTAAGTGCCGTACATAGTCGAAGCTATCTCAAATC
1 GCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATC
* * **
53405087 GCACACTAAGTGCCATATATAGCCGAAGCTATGTCGTATC
1 GCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATC
*
53405127 ACACACTAAGTGCCA
1 GCACACTAAGTGCCA
53405142 CAAATAACCG
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (40 bp):
GCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATC
Found at i:53425256 original size:40 final size:40
Alignment explanation
Indices: 53425208--53425412 Score: 283
Period size: 40 Copynumber: 5.2 Consensus size: 40
53425198 GGACTAAGAT
*
53425208 CCGAAGGCATTTGTGCGAGTTG-CTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
*
53425248 CCGAAGGCATTTATGCTAGTGACTATA-CCGGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCC-GGGCTAAGTC
*
53425288 CCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
53425328 CCGAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGAC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * *
53425368 CCGAAGGCATTTGTGCGAGTTG-CGATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
53425407 CCGAAG
1 CCGAAG
53425413 ATACTTGGGT
Statistics
Matches: 149, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
39 17 0.11
40 128 0.86
41 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:53425334 original size:80 final size:80
Alignment explanation
Indices: 53425196--53425412 Score: 323
Period size: 80 Copynumber: 2.7 Consensus size: 80
53425186 CGGATGATAA
* * *
53425196 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTCGCTATATCCGGGCTAAGTCCCGAAGGCATTTA
53425261 TGCTAGTGACTATA-
66 TGCTAGTGACTATAT
* *
53425275 CCGGGGCTAAGTCCCGAAGGCATTTGTGCTAG-CGACTATATCCGGGCTAAGTCCCGAAGGCATT
1 CC-GGGCTAAGACCCGAAGGCATTTGTGCGAGTCG-CTATATCCGGGCTAAGTCCCGAAGGCATT
53425339 TATGCTAGTGACTATAT
64 TATGCTAGTGACTATAT
* * *
53425356 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCGATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTCGCTATATCCGGGCTAAGTCCCGAAG
53425413 ATACTTGGGT
Statistics
Matches: 124, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
79 17 0.14
80 104 0.84
81 3 0.02
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTCGCTATATCCGGGCTAAGTCCCGAAGGCATTTA
TGCTAGTGACTATAT
Found at i:53430563 original size:21 final size:21
Alignment explanation
Indices: 53430539--53430580 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
53430529 TCATCAGATC
*
53430539 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
53430560 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
53430581 AGGTGGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:53455661 original size:39 final size:39
Alignment explanation
Indices: 53455618--53455826 Score: 307
Period size: 39 Copynumber: 5.3 Consensus size: 39
53455608 GGACTAAGAT
53455618 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
*
53455657 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
53455696 CCGAAGGCA-TTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
* * *
53455734 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
* *
53455774 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-C
53455814 CCGAAGGCATTTG
1 CCGAAGGCATTTG
53455827 AACGAGGAGC
Statistics
Matches: 156, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
38 37 0.24
39 73 0.47
40 46 0.29
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
Found at i:53455727 original size:77 final size:79
Alignment explanation
Indices: 53455604--53455826 Score: 312
Period size: 77 Copynumber: 2.8 Consensus size: 79
53455594 AAGTGACAAT
*
53455604 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATT
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATT
*
53455668 TGTGTGAGATACTAA
65 TGTGCGAGATACTAA
*
53455683 TTCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTT
*
53455746 GTGCGAGTTACTAA
66 GTGCGAGATACTAA
* * *
53455760 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-CCCGAAGGCA
53455823 TTTG
63 TTTG
53455827 AACGAGGAGC
Statistics
Matches: 130, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
77 63 0.48
78 22 0.17
79 31 0.24
80 14 0.11
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTT
GTGCGAGATACTAA
Found at i:53455840 original size:40 final size:39
Alignment explanation
Indices: 53455570--53455826 Score: 230
Period size: 39 Copynumber: 6.6 Consensus size: 39
53455560 AATGATCTCC
* * *
53455570 GGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAACCG
* *
53455609 GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-ACCG
* *
53455649 GGCTAAG-CCCGAAGGCATTTGTGTGAGATACTA-ATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATA-ACCG
*
53455688 GGCTAAG-CCCGAAGGCA-TTGTGCGAGATACTA-ATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATA-ACCG
53455726 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA-CCG
* *
53455765 GGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAACCG
*
53455805 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
53455827 AACGAGGAGC
Statistics
Matches: 195, Mismatches: 12, Indels: 21
0.86 0.05 0.09
Matches are distributed among these distances:
38 37 0.19
39 86 0.44
40 62 0.32
41 10 0.05
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAACCG
Found at i:53463799 original size:40 final size:39
Alignment explanation
Indices: 53463633--53463840 Score: 285
Period size: 39 Copynumber: 5.3 Consensus size: 39
53463623 ACTAAGATCT
53463633 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
1 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
53463672 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
1 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
* *
53463711 GAAGGCATTCGTGCGAGATACTAATTCCGAGCTAAGCCC
1 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
* * *
53463750 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCC
* * *
53463790 GAAGGCATTTGTCCGA-ATTACT-ATAACCGGGCTATGTCCC
1 GAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-CCC
*
53463830 AAAGGCATTTG
1 GAAGGCATTTG
53463841 AACGAGGAGC
Statistics
Matches: 152, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 108 0.71
40 44 0.29
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (39 bp):
GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
Found at i:53472047 original size:96 final size:94
Alignment explanation
Indices: 53471916--53472230 Score: 513
Period size: 96 Copynumber: 3.3 Consensus size: 94
53471906 TGGATAATTG
53471916 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
53471981 TATGTGATAAGGCCGAATGGCCAATGTGA
66 TATGTGATAAGGCCGAATGGCCAATGTGA
53472010 TGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--
* *
53472075 TATATATGTGATAAGGCCTAATGGCCGATGTGA
62 TATATATGTGATAAGGCCGAATGGCCAATGTGA
*
53472108 TGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * * *
53472173 TATGTGACAGGGCCGAGTGGCCAACGTGA
66 TATGTGATAAGGCCGAATGGCCAATGTGA
* *
53472202 TGGATGTGAAAGTGTATAAATGTGATAAG
1 TGAATGTGAAAGTGTATATATGTGATAAG
53472231 TCCCGAAGGG
Statistics
Matches: 205, Mismatches: 12, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
94 67 0.33
96 93 0.45
98 45 0.22
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCGAATGGCCAATGTGA
Found at i:53472049 original size:49 final size:47
Alignment explanation
Indices: 53471916--53472230 Score: 495
Period size: 47 Copynumber: 6.6 Consensus size: 47
53471906 TGGATAATTG
53471916 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
* *
53471963 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
53472010 TGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGA
1 TGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGA
53472059 TGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGA
1 TGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGA
*
53472108 TGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
* * * * * *
53472155 TGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
* *
53472202 TGGATGTGAAAGTGTATAAATGTGATAAG
1 TGAATGTGAAAGTGTATATATGTGATAAG
53472231 TCCCGAAGGG
Statistics
Matches: 250, Mismatches: 16, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 156 0.62
49 94 0.38
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
Found at i:53488569 original size:21 final size:22
Alignment explanation
Indices: 53488545--53488599 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
53488535 ACGGCCTCCA
53488545 ACACGGGCGTGTCCCAGGGA-C
1 ACACGGGCGTGTCCCAGGGACC
* **
53488566 ACACGGGCATGTCCCTTGGACC
1 ACACGGGCGTGTCCCAGGGACC
53488588 ACACGGGCGTGT
1 ACACGGGCGTGT
53488600 GACCCCTACA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.18, C:0.33, G:0.35, T:0.15
Consensus pattern (22 bp):
ACACGGGCGTGTCCCAGGGACC
Found at i:53496354 original size:14 final size:15
Alignment explanation
Indices: 53496337--53496365 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
53496327 ACATGAAAAT
53496337 TTCACACAT-ATAAA
1 TTCACACATAATAAA
53496351 TTCACACATAATAAA
1 TTCACACATAATAAA
53496366 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:53501629 original size:34 final size:33
Alignment explanation
Indices: 53501586--53501656 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 33
53501576 TGTGTTTTCG
*
53501586 TACTGTACTGAAATGGGCTAAGGCCCAGACTGC
1 TACTGTACTGAAATGGACTAAGGCCCAGACTGC
* * *
53501619 TACTGATACTGTAATGGACTCAGGCCCAGACTGT
1 TACTG-TACTGAAATGGACTAAGGCCCAGACTGC
53501653 TACT
1 TACT
53501657 ACTCTTGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
33 5 0.15
34 28 0.85
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (33 bp):
TACTGTACTGAAATGGACTAAGGCCCAGACTGC
Found at i:53507777 original size:84 final size:84
Alignment explanation
Indices: 53507633--53507788 Score: 204
Period size: 84 Copynumber: 1.9 Consensus size: 84
53507623 ACGCATATTG
* * * * *
53507633 TACAATGCCAACGTCCCAGACGTGGTCTTATATGCAATCATATATCGATGCCACTGTCCCAGACA
1 TACAATGCCAACGTCCCAGACATGGTCTTACACGCAATCACATATCGATGCCAATGTCCCAGACA
53507698 GGGTCTTTAACGAATCAAA
66 GGGTCTTTAACGAATCAAA
* * * * * *
53507717 TACAATGCCAATGTTCTAGACATGGTCTTACACGTAATCACATATCGATGCCAATTTCCCAGAGA
1 TACAATGCCAACGTCCCAGACATGGTCTTACACGCAATCACATATCGATGCCAATGTCCCAGACA
*
53507782 TGGTCTT
66 GGGTCTT
53507789 ACATGAGAAC
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
84 60 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (84 bp):
TACAATGCCAACGTCCCAGACATGGTCTTACACGCAATCACATATCGATGCCAATGTCCCAGACA
GGGTCTTTAACGAATCAAA
Found at i:53507790 original size:43 final size:42
Alignment explanation
Indices: 53507637--53507791 Score: 152
Period size: 43 Copynumber: 3.7 Consensus size: 42
53507627 ATATTGTACA
* * * * *
53507637 ATGCCAACGTCCCAGACGTGGTCTTATATGCAATCATATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AATCAAATATCG
* * *
53507680 ATGCCACTGTCCCAGACAGGGTCTTTA-ACGAATCAAATA-CA
1 ATGCCAATGTCCCAGACATGGTC-TTACACGAATCAAATATCG
* * *
53507721 ATGCCAATGTTCTAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AATCAAATATCG
* *
53507764 ATGCCAATTTCCCAGAGATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
53507792 TGAGAACACA
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
40 3 0.03
41 23 0.25
42 16 0.18
43 46 0.51
44 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAATCAAATATCG
Found at i:53509425 original size:42 final size:42
Alignment explanation
Indices: 53509366--53509452 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
53509356 TTTATTATTC
53509366 ACATTATTCAACTCAGTCCAATAATCATACTATGGAAAAATT
1 ACATTATTCAACTCAGTCCAATAATCATACTATGGAAAAATT
53509408 ACATTATTCAACTCAGTCCAATAATCATACTATGGAAAAATT
1 ACATTATTCAACTCAGTCCAATAATCATACTATGGAAAAATT
53509450 ACA
1 ACA
53509453 CTTTTGCCCC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.30
Consensus pattern (42 bp):
ACATTATTCAACTCAGTCCAATAATCATACTATGGAAAAATT
Found at i:53522057 original size:93 final size:93
Alignment explanation
Indices: 53521930--53522100 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
53521920 CCCATAAGTG
* * *
53521930 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCAGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAATGAACTCAGACTCAACTCAAC
53521995 GAGCTCGGATGCCTAGTTACATCTCTCA
66 GAGCTCGGATGCCTAGTTACATCTCTCA
* * * *
53522023 AACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAATGAACTCAGACTCAACTCAAC
*
53522088 GAGTTCGGATGCC
66 GAGCTCGGATGCC
53522101 CAAATATCCT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.21
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAATGAACTCAGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTCA
Found at i:53522085 original size:46 final size:46
Alignment explanation
Indices: 53521925--53522096 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
53521915 ACCCGCCCAT
* * *
53521925 AAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAC
* * * *
53521971 AAATGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACATCTCTC
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCATC-CAC
* *
53522022 -A---AACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCAC
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAC
*
53522064 AAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGGA
53522097 TGCCCAAATA
Statistics
Matches: 102, Mismatches: 13, Indels: 22
0.74 0.09 0.16
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
44 1 0.01
46 57 0.56
47 25 0.25
49 1 0.01
50 5 0.05
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
AAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAC
Found at i:53527509 original size:46 final size:46
Alignment explanation
Indices: 53527442--53527617 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
53527432 TGTAACCCAC
* *
53527442 CCATAAGTGAATTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * * * *
53527488 CCATAAATGAACTCGGACTCAACTCAACGAGCTCGGATGACTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-TTCGCAT
* *** * *
53527534 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
*
53527581 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
53527618 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
46 71 0.67
47 35 0.33
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:53527636 original size:46 final size:44
Alignment explanation
Indices: 53527495--53527636 Score: 103
Period size: 46 Copynumber: 3.1 Consensus size: 44
53527485 CATCCATAAA
* * *
53527495 TGAACTCGGACTCAACTCAACGAGCTCGGATGACTAGTTACATCTCT--
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CTAG
* * *
53527542 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T-AG
53527588 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCTAG
53527634 TGA
1 TGA
53527637 CATGTCACTT
Statistics
Matches: 76, Mismatches: 9, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 33 0.43
47 28 0.37
48 4 0.05
49 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCTAG
Found at i:53529226 original size:28 final size:27
Alignment explanation
Indices: 53529186--53529247 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
53529176 AAGTCTATTT
53529186 ACTAAGCCATTTTTCCACCCTTACTTGC
1 ACTAA-CCATTTTTCCACCCTTACTTGC
53529214 ACTAACCATTTTTCCACCCTTACTTGC
1 ACTAACCATTTTTCCACCCTTACTTGC
53529241 ACTAACC
1 ACTAACC
53529248 TACACAACCA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 29 0.85
28 5 0.15
ACGTcount: A:0.24, C:0.37, G:0.05, T:0.34
Consensus pattern (27 bp):
ACTAACCATTTTTCCACCCTTACTTGC
Found at i:53530109 original size:58 final size:58
Alignment explanation
Indices: 53530035--53530150 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
53530025 CCAATGCCAT
53530035 ATCCCAGATATGGTCTTACATGGGATCTCATATCAATGCCAATAGCCCAGCTATGGTC
1 ATCCCAGATATGGTCTTACATGGGATCTCATATCAATGCCAATAGCCCAGCTATGGTC
* *
53530093 ATCCTAGATATGGTCTTACATGGGATCTCATATCAATGCTAATAGCCCAGCTATGGTC
1 ATCCCAGATATGGTCTTACATGGGATCTCATATCAATGCCAATAGCCCAGCTATGGTC
53530151 TTACACGAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (58 bp):
ATCCCAGATATGGTCTTACATGGGATCTCATATCAATGCCAATAGCCCAGCTATGGTC
Found at i:53530205 original size:42 final size:42
Alignment explanation
Indices: 53530093--53530207 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 42
53530083 AGCTATGGTC
***
53530093 ATCCTAGATATGGTCTTACATGGGATCTCATATCAATGCTAAT
1 ATCCTAGATATGGTCTTACA-CAAATCTCATATCAATGCTAAT
* * * *
53530136 AGCCCAGCTATGGTCTTACACGAAATCTCATATCAATG-TCAT
1 ATCCTAGATATGGTCTTACAC-AAATCTCATATCAATGCTAAT
53530178 ATCCTAGATATGGTCTTACACATAATCTCA
1 ATCCTAGATATGGTCTTACACA-AATCTCA
53530208 AATAACCCTA
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
41 1 0.02
42 28 0.47
43 31 0.52
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (42 bp):
ATCCTAGATATGGTCTTACACAAATCTCATATCAATGCTAAT
Found at i:53535057 original size:19 final size:19
Alignment explanation
Indices: 53535035--53535072 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
53535025 ATGGACATAT
*
53535035 AAATCTTGATATGACATGA
1 AAATCTTGAGATGACATGA
*
53535054 AAATCTTGAGATGATATGA
1 AAATCTTGAGATGACATGA
53535073 TAATAACTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (19 bp):
AAATCTTGAGATGACATGA
Found at i:53540165 original size:16 final size:16
Alignment explanation
Indices: 53540144--53540211 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
53540134 TTTGGTTCGC
53540144 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
53540160 TGTATTGGATTAGAGT
1 TGTATTGGATTAGAGG
53540176 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
53540192 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
53540208 TGTA
1 TGTA
53540212 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.25, C:0.00, G:0.35, T:0.40
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:53540540 original size:61 final size:61
Alignment explanation
Indices: 53540475--53540661 Score: 181
Period size: 61 Copynumber: 3.1 Consensus size: 61
53540465 ATAGAATTTA
*
53540475 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATAATAATATATGATACT
1 ATAAAATTCTTAATAATCAATATTATTATATGAATTTACTCAAATAATAATATATGATACT
* * * * * * *
53540536 ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA-AATATATAAT-TT
1 ATAAAATTCTTAA-TAATCAAT-ATTATTATATGAATTTACTCA-AA-TAATAATATATGATACT
* * *
53540594 AATAAAATTCTTAATAATTAATATTTTTATATGAATTTACTCAAATCATAATATATGATACT
1 -ATAAAATTCTTAATAATCAATATTATTATATGAATTTACTCAAATAATAATATATGATACT
53540656 ATAAAA
1 ATAAAA
53540662 GATAATTTGA
Statistics
Matches: 96, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
58 3 0.03
59 28 0.29
60 28 0.29
61 34 0.35
62 3 0.03
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (61 bp):
ATAAAATTCTTAATAATCAATATTATTATATGAATTTACTCAAATAATAATATATGATACT
Found at i:53540595 original size:14 final size:15
Alignment explanation
Indices: 53540546--53540597 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
53540536 ATAAAATATA
53540546 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
53540561 TATTAAATATATTAT
1 AATTAAATATATTAT
53540576 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
53540589 AATTTAATA
1 AATTAAATA
53540598 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:53540599 original size:59 final size:58
Alignment explanation
Indices: 53540430--53540726 Score: 164
Period size: 59 Copynumber: 5.0 Consensus size: 58
53540420 ATCATATTTA
* * *
53540430 AACATAATTATTATTAGATATATTATAATTAAAATATA-GAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATG-ATTTAATAAAA-TATAAAT
* * * * *
53540489 AATCA-ATATTCTTATATGAATTTACTCA-AA-TAATAATATATGATACT-ATAAAATATAAATT
1 AA-CATA-ATTATTAT-TAAATATA-TTATAATTAA-AATATATGAT-TTAATAAAATATAAA-T
* * *
53540550 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAA-TATAAAT
* * * * * * * *
53540609 AA-TTAA-TATTTTTATATGA-ATTTACTCAAATCATAATATATGATACT-ATAAAAGATAATTT
1 AACATAATTATTATTAAAT-ATA-TTA-T--AATTAAAATATATGAT-TTAATAAAATATAA-AT
* * *
53540670 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTTAAA
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATATAAA
53540727 ATAATTATAA
Statistics
Matches: 176, Mismatches: 38, Indels: 49
0.67 0.14 0.19
Matches are distributed among these distances:
57 10 0.06
58 11 0.06
59 53 0.30
60 34 0.19
61 46 0.26
62 13 0.07
63 9 0.05
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (58 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATATAAAT
Found at i:53540645 original size:120 final size:121
Alignment explanation
Indices: 53540430--53540722 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 121
53540420 ATCATATTTA
* *
53540430 AACATAATTATTATTAGATATATTATAATTAAAATATAGAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
53540495 TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAAGATAAATTG
*
53540550 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
* * *
53540615 TATTTTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAAGATAAATTG
* * *
53540671 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
53540723 TAAAATAATT
Statistics
Matches: 162, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
120 160 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.42
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAAGATAAATTG
Found at i:53554653 original size:42 final size:43
Alignment explanation
Indices: 53554565--53554655 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 43
53554555 ACATTAGGGT
* *
53554565 TATGAG-TTTACGTGTAAGACCATATCCAGGATATGGCATCAT
1 TATGAGATTTACGTGTAAGACCATATCCAGGACATGGCATCAA
* *** *
53554607 TATGAGATTT-CGTGTAAGACCATGTTTGGGACATGGTATCAA
1 TATGAGATTTACGTGTAAGACCATATCCAGGACATGGCATCAA
53554649 TATGAGA
1 TATGAGA
53554656 ATCATGTAGG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 38 0.93
43 3 0.07
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (43 bp):
TATGAGATTTACGTGTAAGACCATATCCAGGACATGGCATCAA
Found at i:53556097 original size:46 final size:46
Alignment explanation
Indices: 53556047--53556222 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
53556037 TATTTGGGCA
*
53556047 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* *** * * * *
53556093 TCCGAACTCGTTGAGTTGAGTTCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATACGA-ACG
* *
53556140 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * *
53556186 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53556223 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
46 72 0.68
47 34 0.32
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:53556202 original size:93 final size:93
Alignment explanation
Indices: 53556043--53556214 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
53556033 AGGATATTTG
* *
53556043 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
*
53556108 TTGAGTTCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
53556136 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
53556201 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
53556215 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:53562166 original size:26 final size:26
Alignment explanation
Indices: 53562136--53562187 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
53562126 TGAAATGCCC
53562136 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
53562162 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
53562188 TTTAATTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:53569147 original size:40 final size:40
Alignment explanation
Indices: 53569007--53569236 Score: 286
Period size: 40 Copynumber: 5.8 Consensus size: 40
53568997 TGGATGATAA
* * * * **
53569007 CCGGGCTAAGTCCCGAAGGCAATTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
53569047 CCGGGC-AAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
53569086 CCGGGC-AAGTCCTGAAGGCATTTGTGTGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
53569125 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
53569165 CCGAGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
53569205 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
53569237 AGCTATATCC
Statistics
Matches: 167, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 68 0.41
40 97 0.58
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:53572953 original size:26 final size:26
Alignment explanation
Indices: 53572923--53572978 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
53572913 TGAAATGCCC
53572923 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
53572949 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
53572975 ATCA
1 ATCA
53572979 ATTTTTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:53573961 original size:54 final size:53
Alignment explanation
Indices: 53573833--53573969 Score: 175
Period size: 54 Copynumber: 2.5 Consensus size: 53
53573823 TTGTCGTTGT
53573833 AAGGGATTTAACCTGGACTGGTAATCCCGACGACATTCTACGAGTTCATATTAC
1 AAGGGATTTAA-CTGGACTGGTAATCCCGACGACATTCTACGAGTTCATATTAC
* ** ** * *
53573887 GAGGGATTTAAACTAAACTGGTAATTTCGACGACATTCTATGAGTTTATATTAC
1 AAGGGATTT-AACTGGACTGGTAATCCCGACGACATTCTACGAGTTCATATTAC
*
53573941 AAGGGATTTAGCTTGGACTGGTAATCCCG
1 AAGGGATTTAAC-TGGACTGGTAATCCCG
53573970 CCGTAGGAAC
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
53 2 0.03
54 64 0.94
55 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.31
Consensus pattern (53 bp):
AAGGGATTTAACTGGACTGGTAATCCCGACGACATTCTACGAGTTCATATTAC
Found at i:53576057 original size:27 final size:27
Alignment explanation
Indices: 53576000--53576175 Score: 153
Period size: 27 Copynumber: 6.5 Consensus size: 27
53575990 AAATTGTACA
* * *
53576000 GCACTATGTGTGCG-ATTTACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGAT
* *
53576026 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGAT
* *
53576053 GCACTAAGTGTGCGAATTGACCATG-C
1 GCACTAAGTGTGCGAATTGACTATGAT
* *
53576079 GTCACTAAGTGTGCGAGTTTGACTATGAA
1 G-CACTAAGTGTGCGA-ATTGACTATGAT
* * *
53576108 GCACTAAGTGTGCGATTTGATTACG-T
1 GCACTAAGTGTGCGAATTGACTATGAT
* *
53576134 AGCACTAAGTGTGCGAGTTGATTAT-AT
1 -GCACTAAGTGTGCGAATTGACTATGAT
*
53576161 AGCACTGAGTGTGCG
1 -GCACTAAGTGTGCG
53576176 GACTCAATAT
Statistics
Matches: 126, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
26 14 0.11
27 89 0.71
28 22 0.17
29 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGAT
Found at i:53576112 original size:82 final size:80
Alignment explanation
Indices: 53576001--53576154 Score: 202
Period size: 82 Copynumber: 1.9 Consensus size: 80
53575991 AATTGTACAG
* ** *
53576001 CACTATGTGTGCGATTTACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTG
1 CACTAAGTGTGCGATTTACTATGAAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTGTG
53576065 CGAATTGACCATGCGT
65 CGAATTGACCATGCGT
** *
53576081 CACTAAGTGTGCGAGTTTGACTATGAAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGT
1 CACTAAGTGTGCGA-TTT-ACTATGAAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
*
53576146 GCGAGTTGA
64 GCGAATTGA
53576155 TTATATAGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 13 0.21
81 3 0.05
82 46 0.73
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (80 bp):
CACTAAGTGTGCGATTTACTATGAAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTGC
GAATTGACCATGCGT
Found at i:53576116 original size:55 final size:53
Alignment explanation
Indices: 53576027--53576175 Score: 158
Period size: 55 Copynumber: 2.8 Consensus size: 53
53576017 TACTATGTTG
** * *
53576027 CACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCGT-
1 CACTAAGTGTGCGAGTTGAATATGAAGCACTAAGTGTGCGAATTGA--ATACGTA
* * *
53576081 CACTAAGTGTGCGAGTTTGACTATGAAGCACTAAGTGTGCGATTTGATTACGTA
1 CACTAAGTGTGCGAG-TTGAATATGAAGCACTAAGTGTGCGAATTGAATACGTA
* *
53576135 GCACTAAGTGTGCGAGTTGATTAT-ATAGCACTGAGTGTGCG
1 -CACTAAGTGTGCGAGTTGAATATGA-AGCACTAAGTGTGCG
53576176 GACTCAATAT
Statistics
Matches: 82, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
53 5 0.06
54 35 0.43
55 42 0.51
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (53 bp):
CACTAAGTGTGCGAGTTGAATATGAAGCACTAAGTGTGCGAATTGAATACGTA
Found at i:53584596 original size:27 final size:26
Alignment explanation
Indices: 53584565--53584742 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
53584555 TAAATTGTAC
53584565 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
53584592 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
53584618 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
53584646 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
53584674 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
53584701 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
53584728 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
53584743 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 25 0.20
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:53584681 original size:82 final size:81
Alignment explanation
Indices: 53584566--53584721 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
53584556 AAATTGTACA
* * *
53584566 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
53584630 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
53584647 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
53584712 TGCGAGTTGA
65 TGCGAATTGA
53584722 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:53584733 original size:82 final size:81
Alignment explanation
Indices: 53584562--53584742 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
53584552 GATTAAATTG
* * *
53584562 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
53584627 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
53584643 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
53584707 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
53584725 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
53584743 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:53586361 original size:6 final size:6
Alignment explanation
Indices: 53586323--53586380 Score: 55
Period size: 6 Copynumber: 9.5 Consensus size: 6
53586313 TCCTCCTATC
* * *
53586323 TTTTTA TTCTTA -TTTTA TTTTATT TTATTTA TTTTTA TTTTTC TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTT-TA TT-TTTA TTTTTA TTTTTA TTTTTA
*
53586372 TTTTCA TTT
1 TTTTTA TTT
53586381 CAATTTTATT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
5 4 0.10
6 30 0.71
7 6 0.14
8 2 0.05
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:53586375 original size:5 final size:5
Alignment explanation
Indices: 53586324--53586363 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
53586314 CCTCCTATCT
53586324 TTTTA TTCTTA TTTTA TTTTA TTTTA -TTTA TTTTTA TTTT
1 TTTTA TT-TTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTTT
53586364 TCTTTTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 4 0.12
5 19 0.59
6 9 0.28
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:53586393 original size:32 final size:32
Alignment explanation
Indices: 53586335--53586395 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
53586325 TTTATTCTTA
* * *
53586335 TTTTATTTTATTTTATTTATTTTTATTTTTCT
1 TTTTATTTTATTTCAATTATTATTATTTTTCT
53586367 TTTTATTTTCATTTCAATT-TTATTATTTT
1 TTTTATTTT-ATTTCAATTATTATTATTTT
53586396 GAAAGACATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 18 0.72
33 7 0.28
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (32 bp):
TTTTATTTTATTTCAATTATTATTATTTTTCT
Found at i:53589317 original size:13 final size:13
Alignment explanation
Indices: 53589301--53589333 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
53589291 TTTAATTGAA
*
53589301 TTAGTTAATTAGT
1 TTAGATAATTAGT
53589314 TTAGATAATTAGT
1 TTAGATAATTAGT
53589327 TTA-ATAA
1 TTAGATAA
53589334 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:53590811 original size:18 final size:18
Alignment explanation
Indices: 53590766--53590804 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
53590756 ACTTGAAAAT
*
53590766 AGTCAAAATTTATTTTTA
1 AGTCAAAATTTATTTCTA
53590784 AGTCAAAATTTATTTCTA
1 AGTCAAAATTTATTTCTA
53590802 AGT
1 AGT
53590805 ATAAATTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (18 bp):
AGTCAAAATTTATTTCTA
Found at i:53592874 original size:6 final size:6
Alignment explanation
Indices: 53592844--53593042 Score: 149
Period size: 6 Copynumber: 32.3 Consensus size: 6
53592834 AAGAAACATT
* * *
53592844 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
53592891 GTGACAGA ATAAAA ATCAGA ATCAGA ATCAGA ATCAGA ATTAGGTA A-CAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * *
53592942 ATCAGA ATCAGT ATCAGGTA A-CAGA ATTAGA ATCAGA ACCAGA ATCAGA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* *
53592991 ATTAGGTA A-CAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
53593041 AT
1 AT
53593043 GTCAATGCAA
Statistics
Matches: 153, Mismatches: 23, Indels: 34
0.73 0.11 0.16
Matches are distributed among these distances:
5 10 0.07
6 122 0.80
7 14 0.09
8 7 0.05
ACGTcount: A:0.49, C:0.14, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:53592906 original size:43 final size:43
Alignment explanation
Indices: 53592853--53593042 Score: 172
Period size: 43 Copynumber: 4.4 Consensus size: 43
53592843 TATCAGAACT
* * * *
53592853 AGAATCAAAATGAGAATTAGAATCAGAATCAGAATCAGGTGAC
1 AGAATAAAAATCAGAATCAGAATCAGAATCAGAATCAGGTAAC
*
53592896 AGAATAAAAATCAGAATCAGAATCAGAATCAGAATTAGGTAAC
1 AGAATAAAAATCAGAATCAGAATCAGAATCAGAATCAGGTAAC
* * * *
53592939 AGAATCAGAATCAGTATCAGGTAA-CAGAATTAGAATCA-G-AACC
1 AGAATAAAAATCAGAATCA-G-AATCAGAATCAGAATCAGGTAA-C
* * * *
53592982 AGAATCAGAATTAGGTAA-CAGAATCAGAATCAGTATCAGGTAAC
1 AGAATAAAAATCA-G-AATCAGAATCAGAATCAGAATCAGGTAAC
* *
53593026 AGAATCAGAATCAGAAT
1 AGAATAAAAATCAGAAT
53593043 GTCAATGCAA
Statistics
Matches: 123, Mismatches: 15, Indels: 18
0.79 0.10 0.12
Matches are distributed among these distances:
42 6 0.05
43 82 0.67
44 30 0.24
45 5 0.04
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (43 bp):
AGAATAAAAATCAGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:53592943 original size:25 final size:25
Alignment explanation
Indices: 53592871--53592979 Score: 117
Period size: 25 Copynumber: 4.6 Consensus size: 25
53592861 AATGAGAATT
*
53592871 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
53592896 AGAAT---AA--A-AATCA-G-AATC
1 AGAATCAGAATCAGAATCAGGTAA-C
*
53592914 AGAATCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
53592939 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
53592964 AGAATTAGAATCAGAA
1 AGAATCAGAATCAGAA
53592980 CCAGAATCAG
Statistics
Matches: 69, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
17 1 0.01
18 7 0.10
19 5 0.07
20 1 0.01
21 2 0.03
22 2 0.03
23 1 0.01
24 4 0.06
25 44 0.64
26 2 0.03
ACGTcount: A:0.50, C:0.13, G:0.19, T:0.18
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:53592974 original size:62 final size:62
Alignment explanation
Indices: 53592871--53593042 Score: 254
Period size: 62 Copynumber: 2.7 Consensus size: 62
53592861 AATGAGAATT
* *
53592871 AGAATCAGAATCAGAATCAGGTGACAGAATAAAAATCAGAATCAGAATCAGAATCAGAATTAGGT
1 AGAATCAGAATCAGTATCAGGTAACAGAAT-----T-AGAATCAGAATCAGAATCAGAATTAGGT
53592936 AAC
60 AAC
*
53592939 AGAATCAGAATCAGTATCAGGTAACAGAATTAGAATCAGAACCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGTATCAGGTAACAGAATTAGAATCAGAATCAGAATCAGAATTAGGTAAC
*
53593001 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGTATCAGGTAACAGAATTAGAATCAGAAT
53593043 GTCAATGCAA
Statistics
Matches: 99, Mismatches: 5, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
62 70 0.71
63 1 0.01
68 28 0.28
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (62 bp):
AGAATCAGAATCAGTATCAGGTAACAGAATTAGAATCAGAATCAGAATCAGAATTAGGTAAC
Found at i:53593009 original size:25 final size:25
Alignment explanation
Indices: 53592963--53593042 Score: 110
Period size: 25 Copynumber: 3.2 Consensus size: 25
53592953 TATCAGGTAA
*
53592963 CAGAATTA-G-AATCAGAACCAGAAT
1 CAGAATTAGGTAA-CAGAATCAGAAT
53592987 CAGAATTAGGTAACAGAATCAGAAT
1 CAGAATTAGGTAACAGAATCAGAAT
* *
53593012 CAGTATCAGGTAACAGAATCAGAAT
1 CAGAATTAGGTAACAGAATCAGAAT
53593037 CAGAAT
1 CAGAAT
53593043 GTCAATGCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
24 8 0.16
25 40 0.80
26 2 0.04
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (25 bp):
CAGAATTAGGTAACAGAATCAGAAT
Found at i:53593033 original size:19 final size:19
Alignment explanation
Indices: 53592904--53593014 Score: 95
Period size: 19 Copynumber: 5.6 Consensus size: 19
53592894 ACAGAATAAA
53592904 AATCAGAATCA-G-AATCAG
1 AATCAGAATCAGGTAA-CAG
*
53592922 AATCAGAATTAGGTAACAG
1 AATCAGAATCAGGTAACAG
53592941 AATCAGAATCAGTATCAGGTAACAG
1 AATCAG----A--ATCAGGTAACAG
*
53592966 AATTAGAATCA-G-AACCAG
1 AATCAGAATCAGGTAA-CAG
*
53592984 AATCAGAATTAGGTAACAG
1 AATCAGAATCAGGTAACAG
53593003 AATCAGAATCAG
1 AATCAGAATCAG
53593015 TATCAGGTAA
Statistics
Matches: 76, Mismatches: 6, Indels: 21
0.74 0.06 0.20
Matches are distributed among these distances:
17 2 0.03
18 23 0.30
19 29 0.38
20 4 0.05
21 1 0.01
23 1 0.01
25 16 0.21
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (19 bp):
AATCAGAATCAGGTAACAG
Found at i:53593263 original size:71 final size:67
Alignment explanation
Indices: 53593188--53593329 Score: 185
Period size: 67 Copynumber: 2.1 Consensus size: 67
53593178 TCACCAGAGA
* * * *
53593188 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGTAACGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAACGA
53593253 GGCTGC
62 GGCTGC
* * *
53593259 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAACGAGGCT
53593324 GC
66 GC
53593326 CAGA
1 CAGA
53593330 ACGCTTCCTC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
67 39 0.61
71 25 0.39
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAACGAGGCT
GC
Found at i:53593307 original size:27 final size:26
Alignment explanation
Indices: 53593259--53593310 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
53593249 ACGAGGCTGC
*
53593259 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
53593285 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
53593311 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Done.