Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 89 of 235
Found at i:31047398 original size:174 final size:174
Alignment explanation
Indices: 31047133--31047460 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
31047123 AAATTGTACA
31047133 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
31047198 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
31047263 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
31047307 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGTACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
31047372 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
31047437 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
31047461 ACCTTGAGTT
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:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:31049932 original size:31 final size:31
Alignment explanation
Indices: 31049848--31049933 Score: 156
Period size: 31 Copynumber: 2.8 Consensus size: 31
31049838 TTAGTCTTGA
*
31049848 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
31049878 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
31049909 CATATCACTGGGCCGAAGCCTTTTC
1 CATATCACTGGGCCGAAGCCTTTTC
31049934 TGTAAACGGT
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.09
31 49 0.91
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:31050210 original size:25 final size:26
Alignment explanation
Indices: 31050152--31050221 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 26
31050142 CTCATTTAAT
31050152 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTCTGATA
* *
31050177 ATCTGGGGCAAAGCCCTTTTC-GGTA
1 AACTGGGGCAAAGCCCTTTTCTGATA
* *
31050202 AACTAGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
31050222 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 35 0.90
26 4 0.10
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTCTGATA
Found at i:31051049 original size:27 final size:28
Alignment explanation
Indices: 31051018--31051086 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
31051008 TACGGAACAT
*
31051018 AAGGGCATATT-C-GTCATTTTACCATAC
1 AAGGGC-TATTACGGTCACTTTACCATAC
*
31051045 AAGGG-TATTACGGTCACTTTACCCTAC
1 AAGGGCTATTACGGTCACTTTACCATAC
31051072 AAGGGCT-TTACGGTC
1 AAGGGCTATTACGGTC
31051087 TTTTTACCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
25 4 0.11
26 1 0.03
27 31 0.84
28 1 0.03
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (28 bp):
AAGGGCTATTACGGTCACTTTACCATAC
Found at i:31051092 original size:27 final size:27
Alignment explanation
Indices: 31051030--31051094 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
31051020 GGGCATATTC
31051030 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACCATACAAGGGTATTACG
* *
31051057 GTCACTTTACCCTACAAGGGCT-TTACG
1 GTCATTTTACCATACAAGGG-TATTACG
*
31051084 GTCTTTTTACC
1 GTCATTTTACC
31051095 TATTAGGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGTATTACG
Found at i:31051211 original size:27 final size:27
Alignment explanation
Indices: 31051194--31051347 Score: 220
Period size: 27 Copynumber: 5.7 Consensus size: 27
31051184 TTTTGTAAAT
31051194 TAGGGGTATTTTGGTAATTTTACAAA-
1 TAGGGGTATTTTGGTAATTTTACAAAC
* *
31051220 TTGAGGGTATTTTGGTAATTTCACAAAC
1 TAG-GGGTATTTTGGTAATTTTACAAAC
* * **
31051248 CAGTGGTATTTCAGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
31051275 TAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* *
31051302 TAGGGGTATTTTGGTAAATTTATAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
31051329 TAGGGGTATTTTGGTAATT
1 TAGGGGTATTTTGGTAATT
31051348 CTATCCTATA
Statistics
Matches: 111, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
26 2 0.02
27 108 0.97
28 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:31051229 original size:54 final size:53
Alignment explanation
Indices: 31051154--31051347 Score: 201
Period size: 54 Copynumber: 3.6 Consensus size: 53
31051144 CCACAAACTA
* * ** *
31051154 AATTTTAGAAAGTTAAGGGTATTTCT-ATAATTTTGTAAATTAGGGGTATTTTGGT
1 AATTTTACAAA-TT-AGGGTATTT-TGGTAATTTTACAAACTAGGGGTATTTTGGT
* * * **
31051209 AATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACCAGTGGTATTTCAGT
1 AATTTTACAAATT-AGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGT
*
31051263 AATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGT
1 AATTTTACAAATTA-GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGT
* * *
31051317 AAATTTATAAACTAGGGGTATTTTGGTAATT
1 AATTTTACAAATTA-GGGTATTTTGGTAATT
31051348 CTATCCTATA
Statistics
Matches: 118, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
53 2 0.02
54 106 0.90
55 10 0.08
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.42
Consensus pattern (53 bp):
AATTTTACAAATTAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGT
Found at i:31051347 original size:81 final size:81
Alignment explanation
Indices: 31051170--31051339 Score: 229
Period size: 81 Copynumber: 2.1 Consensus size: 81
31051160 AGAAAGTTAA
** * *
31051170 GGGTATTTCTA-TAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTG
1 GGGTATTTC-AGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTTG
31051234 GTAATTTCACAAACCAG
65 GTAATTTCACAAACCAG
*
31051251 TGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTG
1 GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTTG
* *
31051315 GTAAATTT-ATAAACTAG
65 GT-AATTTCACAAACCAG
31051332 GGGTATTT
1 GGGTATTT
31051340 TGGTAATTCT
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
80 1 0.01
81 70 0.90
82 7 0.09
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTTGG
TAATTTCACAAACCAG
Found at i:31051359 original size:27 final size:27
Alignment explanation
Indices: 31051194--31051375 Score: 171
Period size: 27 Copynumber: 6.7 Consensus size: 27
31051184 TTTTGTAAAT
31051194 TAGGGGTATTTTGGTAATTT-TACAAA-
1 TAGGGGTATTTTGGTAATTTAT-CAAAC
*
31051220 TTGAGGGTATTTTGGTAATTTCA-CAAAC
1 TAG-GGGTATTTTGGTAATTT-ATCAAAC
* * **
31051248 CAGTGGTATTTCAGTAATTT-TACAAAC
1 TAGGGGTATTTTGGTAATTTAT-CAAAC
31051275 TAGGGGTATTTTGGTAATTT-TACAAAC
1 TAGGGGTATTTTGGTAATTTAT-CAAAC
31051302 TAGGGGTATTTTGGTAAATTTAT-AAAC
1 TAGGGGTATTTTGGT-AATTTATCAAAC
**
31051329 TAGGGGTATTTTGGTAATTCTATCCTA-
1 TAGGGGTATTTTGGTAATT-TATCAAAC
**
31051356 TAGGGGTATTTCAGTAATTT
1 TAGGGGTATTTTGGTAATTT
31051376 CACAATCGAG
Statistics
Matches: 132, Mismatches: 14, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
26 7 0.05
27 117 0.89
28 7 0.05
29 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTATCAAAC
Found at i:31051360 original size:81 final size:81
Alignment explanation
Indices: 31051194--31051389 Score: 220
Period size: 81 Copynumber: 2.4 Consensus size: 81
31051184 TTTTGTAAAT
* *
31051194 TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACCAGTGGTATTT
1 TAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTTGGTAATTTCACAAACCAGGGGTATTT
*
31051259 CAGTAATTTTACAAAC
66 CAGTAATTCTACAAAC
* *
31051275 TAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAAATTT-ATAAACTAGGGGTAT
1 TAGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTTGGT-AATTTCACAAACCAGGGGTAT
** **
31051338 TTTGGTAATTCTATCCTA-
64 TTCAGTAATTCTA-CAAAC
** * *
31051356 TAGGGGTATTTCAGTAATTTCAC-AATCGAGGGTA
1 TAGGGGTATTTTGGTAATTTTACAAATAGAGGGTA
31051390 AAACGATAAT
Statistics
Matches: 98, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
79 2 0.02
80 7 0.07
81 80 0.82
82 9 0.09
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (81 bp):
TAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTTGGTAATTTCACAAACCAGGGGTATTT
CAGTAATTCTACAAAC
Found at i:31051565 original size:27 final size:27
Alignment explanation
Indices: 31051379--31051564 Score: 239
Period size: 27 Copynumber: 6.9 Consensus size: 27
31051369 GTAATTTCAC
* * *
31051379 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* *
31051406 AA-CTAAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTGTA
31051433 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
31051460 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* *
31051487 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* ** *
31051514 AATCGAGGGTGAAACAGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
31051541 AATCAAGGGTAAAATGGTAATTCT
1 AATCGAGGGTAAAATGGTAATTCT
31051565 ACAAGTTGAG
Statistics
Matches: 140, Mismatches: 17, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 138 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:31055000 original size:58 final size:59
Alignment explanation
Indices: 31054910--31055026 Score: 218
Period size: 58 Copynumber: 2.0 Consensus size: 59
31054900 GTGCCACATA
31054910 TGTAGCCAAGCTACCATGTAACCCGCCCATAAGCGAACTC-GACTCAACTCAACGAGCT
1 TGTAGCCAAGCTACCATGTAACCCGCCCATAAGCGAACTCGGACTCAACTCAACGAGCT
*
31054968 TGTAGCCAAGCTACCATGTAACCCGCCCATAAGCGAACTCGGACTCAACTCAATGAGCT
1 TGTAGCCAAGCTACCATGTAACCCGCCCATAAGCGAACTCGGACTCAACTCAACGAGCT
31055027 CGGGCGTTCG
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
58 40 0.70
59 17 0.30
ACGTcount: A:0.31, C:0.33, G:0.18, T:0.18
Consensus pattern (59 bp):
TGTAGCCAAGCTACCATGTAACCCGCCCATAAGCGAACTCGGACTCAACTCAACGAGCT
Found at i:31055072 original size:46 final size:46
Alignment explanation
Indices: 31054994--31055306 Score: 452
Period size: 46 Copynumber: 6.8 Consensus size: 46
31054984 TGTAACCCGC
* * * * *
31054994 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * * *
31055040 CCACAAGTGAACTCAGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* ***
31055086 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
31055133 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
31055179 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
31055225 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
31055271 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
31055307 CCGATACCGA
Statistics
Matches: 242, Mismatches: 18, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
43 1 0.00
44 3 0.01
46 202 0.83
47 31 0.13
49 4 0.02
50 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:31055292 original size:138 final size:138
Alignment explanation
Indices: 31054994--31055306 Score: 452
Period size: 139 Copynumber: 2.3 Consensus size: 138
31054984 TGTAACCCGC
* * * * *
31054994 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCACAAGTGAACTCAGACT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCACAAGTGAACTCAGACT
**
31055059 CAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGA
66 CAACTCAACGAGCTCGGATGCCTAG-TACATAACTCGAACTCGGACTCAACTCAACGAGTTCGGA
31055124 CATTCGCAT
130 CATTCGCAT
* *
31055133 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCACAAGTGAACTCAGACT
* * * *
31055198 CAACTCAACGAGTTCGGACATTCGC-A-TCCATAAGT-GAACTCGGACTCAACTCAACGAGTTCG
66 CAACTCAACGAGCTCGG--ATGC-CTAGTACATAACTCGAACTCGGACTCAACTCAACGAGTTCG
31055260 GACATTCGCAT
128 GACATTCGCAT
31055271 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
31055307 CCGATACCGA
Statistics
Matches: 158, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
138 74 0.47
139 79 0.50
141 4 0.03
142 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (138 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCACAAGTGAACTCAGACT
CAACTCAACGAGCTCGGATGCCTAGTACATAACTCGAACTCGGACTCAACTCAACGAGTTCGGAC
ATTCGCAT
Found at i:31056707 original size:31 final size:31
Alignment explanation
Indices: 31056672--31056748 Score: 129
Period size: 31 Copynumber: 2.5 Consensus size: 31
31056662 ACATATAATT
31056672 GGCCGAAGCC-TTTCTATAAATCATATCACTG
1 GGCCGAAGCCTTTTC-ATAAATCATATCACTG
31056703 GGCCGAAGCCTTTTCATAAATCATATCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
*
31056734 GGCCGAAGCATTTTC
1 GGCCGAAGCCTTTTC
31056749 TGTAAACGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
31 40 0.91
32 4 0.09
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTG
Found at i:31056995 original size:25 final size:25
Alignment explanation
Indices: 31056967--31057036 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
31056957 CTCATTTAAT
31056967 AACTGGGGCAGAGCCC-TTTCTGATA
1 AACTGGGGCAGAGCCCTTTTC-GATA
* *
31056992 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAGAGCCCTTTTCGATA
31057017 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAGAGCCCTTTT
31057037 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 37 0.90
26 4 0.10
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAGAGCCCTTTTCGATA
Found at i:31057886 original size:26 final size:26
Alignment explanation
Indices: 31057851--31057900 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
31057841 ATTTATCATT
31057851 TTACCATACAAGGG-TATTACGGTCAA
1 TTACCATACAAGGGCT-TTACGGTCAA
* *
31057877 TTACCCTACAGGGGCTTTACGGTC
1 TTACCATACAAGGGCTTTACGGTC
31057901 TTTTTACCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 20 0.95
27 1 0.05
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (26 bp):
TTACCATACAAGGGCTTTACGGTCAA
Found at i:31057993 original size:27 final size:27
Alignment explanation
Indices: 31057963--31058059 Score: 108
Period size: 27 Copynumber: 3.5 Consensus size: 27
31057953 TAAATCTACT
31057963 AACCAAGGGTATTTC-AGTAATTTTGTA
1 AACCAAGGGTATTTCTA-TAATTTTGTA
*
31057990 AACCAATGGTATTTCTATAATTTT-TAGA
1 AACCAAGGGTATTTCTATAATTTTGT--A
*
31058018 AAGTCAAGGGTATTTCTATAATTTTGTA
1 AA-CCAAGGGTATTTCTATAATTTTGTA
* *
31058046 AATCAGGGGTATTT
1 AACCAAGGGTATTT
31058060 TGGTAATTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
26 1 0.02
27 32 0.52
28 7 0.11
29 20 0.33
30 1 0.02
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (27 bp):
AACCAAGGGTATTTCTATAATTTTGTA
Found at i:31058066 original size:27 final size:26
Alignment explanation
Indices: 31058049--31058173 Score: 169
Period size: 27 Copynumber: 4.7 Consensus size: 26
31058039 TTTTGTAAAT
31058049 CAGGGGTATTTTGGTAATTTTACAAA
1 CAGGGGTATTTTGGTAATTTTACAAA
** *
31058075 TTGAGGGTATTTTGGTAATTTCACAAA
1 CAG-GGGTATTTTGGTAATTTTACAAA
* *
31058102 CCAGTGGTATTTCGGTAATTTTACAAA
1 -CAGGGGTATTTTGGTAATTTTACAAA
31058129 CTAGGGGTATTTTGGTAATTTTACAAA
1 C-AGGGGTATTTTGGTAATTTTACAAA
31058156 CTAGGGGTATTTTGGTAA
1 C-AGGGGTATTTTGGTAA
31058174 AATTCTATCT
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
26 2 0.02
27 83 0.97
28 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (26 bp):
CAGGGGTATTTTGGTAATTTTACAAA
Found at i:31058111 original size:54 final size:54
Alignment explanation
Indices: 31058049--31058173 Score: 189
Period size: 54 Copynumber: 2.3 Consensus size: 54
31058039 TTTTGTAAAT
*
31058049 CAGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTTGGTAATTTCACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTCACAAAC
* * *
31058103 CAGTGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTCACAAAC
*
31058157 TAGGGGTATTTTGGTAA
1 CAGGGGTATTTTGGTAA
31058174 AATTCTATCT
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
54 61 0.97
55 2 0.03
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTCACAAAC
Found at i:31058217 original size:27 final size:26
Alignment explanation
Indices: 31058046--31058217 Score: 125
Period size: 27 Copynumber: 6.3 Consensus size: 26
31058036 TAATTTTGTA
*
31058046 AATCAGGGGTATTTTGGTAATTTTAC
1 AATCAGGGGTATTTTGGTAATTTCAC
*
31058072 AAAT-TGAGGGTATTTTGGTAATTTCAC
1 -AATCAG-GGGTATTTTGGTAATTTCAC
* * * *
31058099 AAACCAGTGGTATTTCGGTAATTTTAC
1 -AATCAGGGGTATTTTGGTAATTTCAC
* *
31058126 AAACTAGGGGTATTTTGGTAATTTTAC
1 AATC-AGGGGTATTTTGGTAATTTCAC
* *
31058153 AAACTAGGGGTATTTTGGTAAAATTCTATC
1 AATC-AGGGGTATTTTGGT-AATTTC-A-C
*
31058183 -TTACAGGGGTATTTCT-GTAATTTCAC
1 AAT-CAGGGGTATTT-TGGTAATTTCAC
31058209 AATCGAGGG
1 AATC-AGGG
31058218 TAAAATGGTA
Statistics
Matches: 119, Mismatches: 16, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
26 6 0.05
27 87 0.73
28 10 0.08
29 13 0.11
30 3 0.03
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.38
Consensus pattern (26 bp):
AATCAGGGGTATTTTGGTAATTTCAC
Found at i:31058243 original size:27 final size:27
Alignment explanation
Indices: 31058209--31058325 Score: 164
Period size: 27 Copynumber: 4.3 Consensus size: 27
31058199 GTAATTTCAC
*
31058209 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
31058236 AATTGAGGGTAAAACGGTAACTT-TGTA
1 AATCGAGGGTAAAACGGTAA-TTCTATA
*
31058263 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
31058290 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
31058317 AATCGAGGG
1 AATCGAGGG
31058326 CATTTTAGTA
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
26 2 0.03
27 75 0.95
28 2 0.03
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:31063451 original size:23 final size:23
Alignment explanation
Indices: 31063395--31063569 Score: 124
Period size: 23 Copynumber: 7.3 Consensus size: 23
31063385 GCATTGATCG
31063395 GTAAGCTCT-TCCTGAGCTGATGAACA
1 GTAAGCTCTAT-C-GAGCTGA--AACA
*
31063421 GTAAGCTCTATCGAGCTGAAACG
1 GTAAGCTCTATCGAGCTGAAACA
* *
31063444 GTAAGCTCTATTGAGTTGAAACA
1 GTAAGCTCTATCGAGCTGAAACA
* *
31063467 GTAAGCTCTATCGAGC-GGATCA
1 GTAAGCTCTATCGAGCTGAAACA
* **
31063489 GTAAGCTCATAT-GACCT-ACAATG
1 GTAAGCTC-TATCGAGCTGA-AACA
*
31063512 GTAAGCTCTATTGAGCTGAACACA
1 GTAAGCTCTATCGAGCTGAA-ACA
* * *
31063536 ATAAGCTCTTTCGAGTTGATATATCA
1 GTAAGCTCTATCGAGCTGA-A-A-CA
31063562 GTAAGCTC
1 GTAAGCTC
31063570 ATACCAACTG
Statistics
Matches: 118, Mismatches: 22, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
22 18 0.15
23 54 0.46
24 17 0.14
25 9 0.08
26 19 0.16
27 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (23 bp):
GTAAGCTCTATCGAGCTGAAACA
Found at i:31064901 original size:19 final size:21
Alignment explanation
Indices: 31064863--31064903 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
31064853 TATTTCCACA
*
31064863 TAGCTTCTTCAGATTCCCATG
1 TAGCTTCCTCAGATTCCCATG
31064884 TAGCTTCCTCA-A-TCCCATG
1 TAGCTTCCTCAGATTCCCATG
31064903 T
1 T
31064904 TTATGGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 1 0.05
21 10 0.53
ACGTcount: A:0.20, C:0.32, G:0.12, T:0.37
Consensus pattern (21 bp):
TAGCTTCCTCAGATTCCCATG
Found at i:31067807 original size:138 final size:138
Alignment explanation
Indices: 31067549--31067823 Score: 451
Period size: 138 Copynumber: 2.0 Consensus size: 138
31067539 ATCGGTAAAA
* * *
31067549 ATACGTAATAGTCATAATTACATGTTAGAGTGAGAATTTGATGTTGCCATAAAAGGGAAAAATGA
1 ATACCTAATAATCATAAGTACATGTTAGAGTGAGAATTTGATGTTGCCATAAAAGGGAAAAATGA
* * * *
31067614 TTAGCATGTCATAAAACATAAGAAGATAGGATGAAGTTTAATTTCCGAACCTTGGGGCAAAAGTG
66 TCAGCATGTCATAAAACATAAGAAAATAGGATGAAGTTTAATTTCCGAACATTGGGGCAAAAGTA
31067679 CAAATATT
131 CAAATATT
* *
31067687 ATACCTAATAATCATAAGTACATGTTAGAGTGAGAATTTGATGTTGCCATAGAAGGGGAAAATGA
1 ATACCTAATAATCATAAGTACATGTTAGAGTGAGAATTTGATGTTGCCATAAAAGGGAAAAATGA
* *
31067752 TCAGCATGTCATAAAACATAAGAAAATAGGGTGAAGTTTAATTTCTGAACATTGGGGCAAAAGTA
66 TCAGCATGTCATAAAACATAAGAAAATAGGATGAAGTTTAATTTCCGAACATTGGGGCAAAAGTA
31067817 CAAATAT
131 CAAATAT
31067824 GCAAAAGTTT
Statistics
Matches: 126, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
138 126 1.00
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (138 bp):
ATACCTAATAATCATAAGTACATGTTAGAGTGAGAATTTGATGTTGCCATAAAAGGGAAAAATGA
TCAGCATGTCATAAAACATAAGAAAATAGGATGAAGTTTAATTTCCGAACATTGGGGCAAAAGTA
CAAATATT
Found at i:31081903 original size:27 final size:27
Alignment explanation
Indices: 31081873--31082050 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31081863 ATATTGAGTC
* * * *
31081873 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
31081900 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31081927 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
31081955 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
31081982 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
31082009 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31082036 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31082051 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:31082012 original size:82 final size:81
Alignment explanation
Indices: 31081894--31082049 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31081884 TGCTATATAA
* *
31081894 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
31081959 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
31081976 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
31082040 CACTTAGTGC
65 CACTTAGTGC
31082050 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:31083995 original size:15 final size:15
Alignment explanation
Indices: 31083975--31084030 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
31083965 GTATCTTGGG
31083975 TTTCTTTATTCTAGA
1 TTTCTTTATTCTAGA
*
31083990 TTTCTTTATTCTAGG
1 TTTCTTTATTCTAGA
*
31084005 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TAGA
31084020 TTTCTTTATTC
1 TTTCTTTATTC
31084031 GATTTTCTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 4 0.12
15 26 0.76
16 4 0.12
ACGTcount: A:0.14, C:0.14, G:0.09, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTAGA
Found at i:31087510 original size:20 final size:20
Alignment explanation
Indices: 31087444--31087510 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
31087434 ATTTTAGTAA
*
31087444 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
31087464 ACATGACATGTATGCTATGC
1 ACATGATATGTATGATATGC
31087484 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
31087504 ACATGAT
1 ACATGAT
31087511 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:31087681 original size:24 final size:23
Alignment explanation
Indices: 31087561--31087679 Score: 193
Period size: 23 Copynumber: 5.1 Consensus size: 23
31087551 AGGAAGTGCA
31087561 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
31087584 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
31087607 AAAGGGCTTATACCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
31087630 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
31087653 AAAAGGGCTTTTGCCCTAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
31087677 AAA
1 AAA
31087680 AGAGGCTAGG
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
23 68 0.76
24 21 0.24
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:31087698 original size:25 final size:24
Alignment explanation
Indices: 31087560--31087700 Score: 191
Period size: 23 Copynumber: 6.0 Consensus size: 24
31087550 GAGGAAGTGC
31087560 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
31087584 -AAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
31087607 -AAAGGGCTTATACCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
31087630 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
31087653 AAAAGGGCTTTTGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
31087677 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
31087701 ATGATAAAGC
Statistics
Matches: 105, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
23 65 0.62
24 30 0.29
25 10 0.10
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:31102405 original size:46 final size:49
Alignment explanation
Indices: 31102220--31102537 Score: 276
Period size: 46 Copynumber: 6.7 Consensus size: 49
31102210 TCATTTGTGT
* * ** *
31102220 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCACGTTAT-CA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGTA
* * * *
31102266 GAGCCAGTGTAAGACCATGTCTGGGACATGGCACCGG-TATGGAGACG-A
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA-CGAGATGTA
* * *
31102314 GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATTAGGCT-CGGGATGTA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCA-TCGGCTACGAGATGTA
* *
31102361 -AGCAAGTATAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGT-
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGTA
* *
31102406 --GTTAGTGTAAGACCATGTCTAGGACATGGCATCGGC-ACG-GTTATGTGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAG--ATGT-A
31102454 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAAGATG-A
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTACG-AGATGTA
* * *
31102503 TAGCCAGTGTAAGACCATGTATGGGACATGGCATC
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
31102538 TTCACTTTAC
Statistics
Matches: 223, Mismatches: 29, Indels: 37
0.77 0.10 0.13
Matches are distributed among these distances:
44 10 0.04
45 21 0.09
46 66 0.30
47 32 0.14
48 21 0.09
49 33 0.15
50 33 0.15
51 6 0.03
53 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (49 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGTA
Found at i:31108367 original size:27 final size:26
Alignment explanation
Indices: 31108327--31108410 Score: 114
Period size: 27 Copynumber: 3.2 Consensus size: 26
31108317 AGGAAGCGTC
*
31108327 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGTT
*
31108354 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGTT
* *
31108381 CTGGTGACTATGTCACATTATCTGTT
1 CTGGTGGCTATGCCACATTATCTGTT
31108407 CTGG
1 CTGG
31108411 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
26 14 0.27
27 37 0.73
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTATGCCACATTATCTGTT
Found at i:31113379 original size:30 final size:30
Alignment explanation
Indices: 31113345--31113405 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
31113335 TCCTTAACTC
*
31113345 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGACAAAATTACAATTTTGCCCCT
* * * *
31113375 AAACTTTTACATATTTACACTTTTGCCCCT
1 AAACTTTGACAAAATTACAATTTTGCCCCT
31113405 A
1 A
31113406 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTGACAAAATTACAATTTTGCCCCT
Found at i:31114473 original size:47 final size:47
Alignment explanation
Indices: 31114419--31114527 Score: 200
Period size: 47 Copynumber: 2.3 Consensus size: 47
31114409 ATACCGATGC
31114419 CATGTCCCAGACATGGTATTACACTGGCTCTCATAATGTAGCCAACG
1 CATGTCCCAGACATGGTATTACACTGGCTCTCATAATGTAGCCAACG
* *
31114466 CATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTAGCCAATG
1 CATGTCCCAGACATGGTATTACACTGGCTCTCATAATGTAGCCAACG
31114513 CATGTCCCAGACATG
1 CATGTCCCAGACATG
31114528 TCTTACTCTA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 60 1.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (47 bp):
CATGTCCCAGACATGGTATTACACTGGCTCTCATAATGTAGCCAACG
Found at i:31114912 original size:30 final size:30
Alignment explanation
Indices: 31114878--31114935 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
31114868 AAATTCACAT
* *
31114878 CTTTGGTAAAATGACCATTTTGCCCCTAGA
1 CTTTGGCAAAATGACCATTTTACCCCTAGA
31114908 CTTTGGCAAAATGACCATTTTACCCCTA
1 CTTTGGCAAAATGACCATTTTACCCCTA
31114936 TGCTCGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTAGA
Found at i:31118258 original size:47 final size:46
Alignment explanation
Indices: 31118184--31118446 Score: 173
Period size: 46 Copynumber: 5.6 Consensus size: 46
31118174 CATTTGTGTC
* * *
31118184 AGCTAGTGTAAGACATGTCTAGGACATGAATCAGCCA-CATTATGAG
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAGCA-GATGAG
* *
31118230 AGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCATGGAGATGAG
1 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA-GCAGATGAG
* * * *
31118278 TGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGGA-ACGTA-
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCC-AGCAGATG-AG
* * * *
31118324 AGCTAGTATAAGACATGTCTGGGACATGCATCGGCTA-CGAGATGTG
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAGC-AGATGAG
* * * * * *
31118370 -TC-AGTGTAAGACCATGTTTAGGACATGGCATCGGCACGGTTATG-TGAG
1 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-CAG-CA-GATGAG
*
31118418 AGCTAGTGTAAGACCATGTCTGGGTCATG
1 AGCTAGTGTAAGA-CATGTCTGGGACATG
31118447 GCCTTAACCT
Statistics
Matches: 170, Mismatches: 29, Indels: 33
0.73 0.12 0.14
Matches are distributed among these distances:
44 8 0.05
45 14 0.08
46 62 0.36
47 36 0.21
48 25 0.15
49 4 0.02
50 21 0.12
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (46 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAGCAGATGAG
Found at i:31118336 original size:46 final size:46
Alignment explanation
Indices: 31118184--31118356 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
31118174 CATTTGTGTC
* * * * *
31118184 AGCTAGTGTAAGACATGTCTAGGACATGAATCAGCCA--CATTATGAG
1 AGCTAGTGTAAGACATGTCTGGGACATGCATC-GCCATGGA-GACGAG
* *
31118230 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGAGATGAG
1 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGCCATGGAGACGAG
* *
31118278 TGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGGA-ACGTA-
1 AGCTAGTGTAAGACATGTCTGGGACATGCATC-GCCATGGAGACG-AG
*
31118324 AGCTAGTATAAGACATGTCTGGGACATGCATCG
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCG
31118357 GCTACGAGAT
Statistics
Matches: 110, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
45 1 0.01
46 50 0.45
47 37 0.34
48 21 0.19
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGCCATGGAGACGAG
Found at i:31124926 original size:42 final size:42
Alignment explanation
Indices: 31124859--31124976 Score: 114
Period size: 42 Copynumber: 2.8 Consensus size: 42
31124849 ATCGGTATAT
* * * * *
31124859 GATTTCATGTAAGACCATATCTGGGATATGGCGTTGATATGA
1 GATTTCGTGTAAGACCATGTTTGGGATATGGCATCGATATGA
31124901 GATTTCGTGTAAGACCATGTTTGGGACT-TGGCATCGATATGA
1 GATTTCGTGTAAGACCATGTTTGGGA-TATGGCATCGATATGA
* ** **
31124943 GGTCCCGTACAAGACCATGTCTT-GGATATGGCAT
1 GATTTCGTGTAAGACCATGT-TTGGGATATGGCAT
31124977 TGGCACCGAC
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
41 1 0.02
42 59 0.94
43 3 0.05
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (42 bp):
GATTTCGTGTAAGACCATGTTTGGGATATGGCATCGATATGA
Found at i:31124991 original size:48 final size:47
Alignment explanation
Indices: 31124928--31125023 Score: 111
Period size: 47 Copynumber: 2.0 Consensus size: 47
31124918 TGTTTGGGAC
* * * * *
31124928 TTGGCATCGATATGAGGTCCCGTACAAGACCATGTCTTGGATATGGCA
1 TTGGCACCGACATGAGAT-CCGTACAAGACCATATCTGGGATATGGCA
* * *
31124976 TTGGCACCGACATGAGATTCGTATAATACCATATCTGGGATATGGCA
1 TTGGCACCGACATGAGATCCGTACAAGACCATATCTGGGATATGGCA
31125023 T
1 T
31125024 CAGTACGTAG
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
47 25 0.62
48 15 0.38
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (47 bp):
TTGGCACCGACATGAGATCCGTACAAGACCATATCTGGGATATGGCA
Found at i:31126630 original size:20 final size:20
Alignment explanation
Indices: 31126605--31126646 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
31126595 TATTCCACGG
31126605 AGAGACCTTAGGAAAAACTA
1 AGAGACCTTAGGAAAAACTA
31126625 AGAGACCTTAGGAAAAACTA
1 AGAGACCTTAGGAAAAACTA
31126645 AG
1 AG
31126647 TCCTCACTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.21, T:0.14
Consensus pattern (20 bp):
AGAGACCTTAGGAAAAACTA
Found at i:31128823 original size:138 final size:138
Alignment explanation
Indices: 31128575--31129443 Score: 1729
Period size: 138 Copynumber: 6.3 Consensus size: 138
31128565 TCTATTGTGA
31128575 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCTTACCCAAAAACTGTGATCATGTGTGTAG
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCTTACCCAAAAACTGTGATCATGTGTGTAG
31128640 TACTAAGTGCAGGTTACTACGTGTATTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC
66 TACTAAGTGCAGGTTACTACGTGTATTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC
31128705 AGACTGTT
131 AGACTGTT
31128713 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCTTACCCAAAAACTGTGATCATGTGTGTAG
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCTTACCCAAAAACTGTGATCATGTGTGTAG
31128778 TACTAAGTGCAGGTTACTACGTGTATTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC
66 TACTAAGTGCAGGTTACTACGTGTATTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC
31128843 AGACTGTT
131 AGACTGTT
31128851 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCTTACCCAAAAACTGTGATCATGTGTGTAG
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCTTACCCAAAAACTGTGATCATGTGTGTAG
31128916 TACTAAGTGCAGGTTACTACGTGTATTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC
66 TACTAAGTGCAGGTTACTACGTGTATTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC
31128981 AGACTGTT
131 AGACTGTT
31128989 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCTTACCCAAAAACTGTGATCATGTGTGTAG
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCTTACCCAAAAACTGTGATCATGTGTGTAG
31129054 TACTAAGTGCAGGTTACTACGTGTATTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC
66 TACTAAGTGCAGGTTACTACGTGTATTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC
31129119 AGACTGTT
131 AGACTGTT
31129127 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCTTACCCAAAAACTGTGATCATGTGTGTAG
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCTTACCCAAAAACTGTGATCATGTGTGTAG
31129192 TACTAAGTGCAGGTTACTACGTGTATTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC
66 TACTAAGTGCAGGTTACTACGTGTATTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC
31129257 AGACTGTT
131 AGACTGTT
31129265 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCTTACCCAAAAACTGTGATCATGTGTGTAG
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCTTACCCAAAAACTGTGATCATGTGTGTAG
31129330 TACTAAGTGCAGGTTACTACGTGTATTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC
66 TACTAAGTGCAGGTTACTACGTGTATTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC
31129395 AGACTGTT
131 AGACTGTT
*
31129403 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCTTACC
31129444 AGATAGCTTT
Statistics
Matches: 730, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
138 730 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (138 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCTTACCCAAAAACTGTGATCATGTGTGTAG
TACTAAGTGCAGGTTACTACGTGTATTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC
AGACTGTT
Found at i:31134369 original size:17 final size:17
Alignment explanation
Indices: 31134347--31134408 Score: 74
Period size: 17 Copynumber: 3.7 Consensus size: 17
31134337 GAGAACACGG
31134347 AGTAAGCTTTAATGCTT
1 AGTAAGCTTTAATGCTT
* *
31134364 AGTAAGTTTTAA-GC-A
1 AGTAAGCTTTAATGCTT
31134379 ATGTAAGCTTTAATGCTT
1 A-GTAAGCTTTAATGCTT
*
31134397 AGTAAGTTTTAA
1 AGTAAGCTTTAA
31134409 GCAATGCAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
15 1 0.03
16 12 0.32
17 23 0.62
18 1 0.03
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (17 bp):
AGTAAGCTTTAATGCTT
Found at i:31134385 original size:33 final size:33
Alignment explanation
Indices: 31134348--31134414 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
31134338 AGAACACGGA
31134348 GTAAGCTTTAATGCTTAGTAAGTTTTAAGCAAT
1 GTAAGCTTTAATGCTTAGTAAGTTTTAAGCAAT
31134381 GTAAGCTTTAATGCTTAGTAAGTTTTAAGCAAT
1 GTAAGCTTTAATGCTTAGTAAGTTTTAAGCAAT
31134414 G
1 G
31134415 CAAACAATTA
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:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (33 bp):
GTAAGCTTTAATGCTTAGTAAGTTTTAAGCAAT
Found at i:31134390 original size:16 final size:16
Alignment explanation
Indices: 31134365--31134414 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
31134355 TTAATGCTTA
31134365 GTAAGTTTTAAGCAAT
1 GTAAGTTTTAAGCAAT
* *
31134381 GTAAGCTTTAATGC-TT
1 GTAAGTTTTAA-GCAAT
31134397 AGTAAGTTTTAAGCAAT
1 -GTAAGTTTTAAGCAAT
31134414 G
1 G
31134415 CAAACAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
16 14 0.52
17 13 0.48
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (16 bp):
GTAAGTTTTAAGCAAT
Found at i:31134741 original size:62 final size:62
Alignment explanation
Indices: 31134665--31134787 Score: 228
Period size: 62 Copynumber: 2.0 Consensus size: 62
31134655 CTATTTTCCT
*
31134665 AAGCAACAGTCACTAAAGTATTTATAACTGGAGATAAGAAACTCCAAATAAAGTGCCGTTAA
1 AAGCAACAGTCACTAAAGTATTTATAACTGGAGATAAGAAACTACAAATAAAGTGCCGTTAA
*
31134727 AAGCAACAGTCACTAAAGTATTTATAACTGGAGATAAGAAACTATAAATAAAGTGCCGTTA
1 AAGCAACAGTCACTAAAGTATTTATAACTGGAGATAAGAAACTACAAATAAAGTGCCGTTA
31134788 CTTTTTCCTG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.46, C:0.15, G:0.16, T:0.24
Consensus pattern (62 bp):
AAGCAACAGTCACTAAAGTATTTATAACTGGAGATAAGAAACTACAAATAAAGTGCCGTTAA
Found at i:31139382 original size:33 final size:33
Alignment explanation
Indices: 31139345--31139580 Score: 472
Period size: 33 Copynumber: 7.2 Consensus size: 33
31139335 AAAGAGAACA
31139345 CAATGTAAGCTTTAATGCTTAGTAAGTTTTAAG
1 CAATGTAAGCTTTAATGCTTAGTAAGTTTTAAG
31139378 CAATGTAAGCTTTAATGCTTAGTAAGTTTTAAG
1 CAATGTAAGCTTTAATGCTTAGTAAGTTTTAAG
31139411 CAATGTAAGCTTTAATGCTTAGTAAGTTTTAAG
1 CAATGTAAGCTTTAATGCTTAGTAAGTTTTAAG
31139444 CAATGTAAGCTTTAATGCTTAGTAAGTTTTAAG
1 CAATGTAAGCTTTAATGCTTAGTAAGTTTTAAG
31139477 CAATGTAAGCTTTAATGCTTAGTAAGTTTTAAG
1 CAATGTAAGCTTTAATGCTTAGTAAGTTTTAAG
31139510 CAATGTAAGCTTTAATGCTTAGTAAGTTTTAAG
1 CAATGTAAGCTTTAATGCTTAGTAAGTTTTAAG
31139543 CAATGTAAGCTTTAATGCTTAGTAAGTTTTAAG
1 CAATGTAAGCTTTAATGCTTAGTAAGTTTTAAG
31139576 CAATG
1 CAATG
31139581 CAAACAATTA
Statistics
Matches: 203, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 203 1.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.39
Consensus pattern (33 bp):
CAATGTAAGCTTTAATGCTTAGTAAGTTTTAAG
Found at i:31140972 original size:39 final size:39
Alignment explanation
Indices: 31140929--31141132 Score: 390
Period size: 39 Copynumber: 5.2 Consensus size: 39
31140919 ATTATATTAT
* *
31140929 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
31140968 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
31141007 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
31141046 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
31141085 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
31141124 CAGCACGAA
1 CAGCACGAA
31141133 TTCCGATCTT
Statistics
Matches: 163, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 163 1.00
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.20
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:31143831 original size:29 final size:29
Alignment explanation
Indices: 31143764--31143858 Score: 120
Period size: 29 Copynumber: 3.3 Consensus size: 29
31143754 AAGTCTATAT
* * *
31143764 ACATACATATGGCCCACTAGG-CCTAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
31143792 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
31143821 ACATTCGTATGGCCCATTAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
31143850 ACACTCATA
1 ACATTCATA
31143859 GTCATGCTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
28 18 0.32
29 39 0.68
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:31148847 original size:27 final size:27
Alignment explanation
Indices: 31148816--31148868 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
31148806 CATCACATAG
31148816 GGGCAAAATAGTCATCTTACCATATAA
1 GGGCAAAATAGTCATCTTACCATATAA
* *
31148843 GGGCAAAATAGTCATTTTATCATATA
1 GGGCAAAATAGTCATCTTACCATATA
31148869 TGGGGGTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (27 bp):
GGGCAAAATAGTCATCTTACCATATAA
Found at i:31155176 original size:13 final size:13
Alignment explanation
Indices: 31155144--31155176 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
31155134 CAATCCCCAC
*
31155144 GGCCGTATGACAT
1 GGCCGTGTGACAT
31155157 GGCCGTGTGACAT
1 GGCCGTGTGACAT
31155170 GGCCGTG
1 GGCCGTG
31155177 GGTGAACTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.24, G:0.39, T:0.21
Consensus pattern (13 bp):
GGCCGTGTGACAT
Found at i:31155217 original size:22 final size:23
Alignment explanation
Indices: 31155186--31155228 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
31155176 GGGTGAACTT
*
31155186 GATAGGAAAAACATGGGCGTGGG
1 GATAGGAAAAACACGGGCGTGGG
*
31155209 GATA-GAAAACCACGGGCGTG
1 GATAGGAAAAACACGGGCGTG
31155229 CTAGGGATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.35, C:0.14, G:0.40, T:0.12
Consensus pattern (23 bp):
GATAGGAAAAACACGGGCGTGGG
Found at i:31157910 original size:71 final size:67
Alignment explanation
Indices: 31157747--31157903 Score: 260
Period size: 67 Copynumber: 2.3 Consensus size: 67
31157737 CTAGCCAGTT
*
31157747 TATCTCGAAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCATGCATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCATGCATGCGACCTAGCTACA
31157812 TA
66 TA
*
31157814 TATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCATGCATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCATGCATGCGACCTAGCTACA
31157879 TCA
66 T-A
31157882 TAATGTCTCGTAGCTCTCTTGT
1 T-A--TCTCGTAGCTCTCTTGT
31157904 ACACATGATG
Statistics
Matches: 83, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
67 64 0.77
68 2 0.02
69 1 0.01
71 16 0.19
ACGTcount: A:0.20, C:0.30, G:0.18, T:0.32
Consensus pattern (67 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCATGCATGCGACCTAGCTACA
TA
Found at i:31160487 original size:19 final size:18
Alignment explanation
Indices: 31160459--31160559 Score: 66
Period size: 19 Copynumber: 5.6 Consensus size: 18
31160449 TGAATCCTCC
31160459 TATTT-TTTTATTATTTAT
1 TATTTATTTTATT-TTTAT
* *
31160477 T-CTTATTTTTATTTTATTT
1 TATTTA-TTTTATTTT-TAT
31160496 TATTTATTTTATTTTTAT
1 TATTTATTTTATTTTTAT
*
31160514 T-TTTCTTTTGATTTTTAT
1 TATTTATTTT-ATTTTTAT
** * *
31160532 T-TCCATTTCAATTTTAT
1 TATTTATTTTATTTTTAT
31160549 TATTTTATTTT
1 TA-TTTATTTT
31160560 GAAAGACATA
Statistics
Matches: 63, Mismatches: 13, Indels: 13
0.71 0.15 0.15
Matches are distributed among these distances:
17 17 0.27
18 19 0.30
19 24 0.38
20 3 0.05
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.75
Consensus pattern (18 bp):
TATTTATTTTATTTTTAT
Found at i:31160493 original size:5 final size:5
Alignment explanation
Indices: 31160459--31160516 Score: 57
Period size: 5 Copynumber: 11.2 Consensus size: 5
31160449 TGAATCCTCC
*
31160459 TATTT TTTTAT TA-TT TATTCT TATTTT TATTT TATTT TA-TT TATTT
1 TATTT TATT-T TATTT TATT-T TA-TTT TATTT TATTT TATTT TATTT
31160505 TATTTT TATTT T
1 TA-TTT TATTT T
31160517 TCTTTTGATT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
4 7 0.16
5 23 0.51
6 13 0.29
7 2 0.04
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:31160503 original size:9 final size:9
Alignment explanation
Indices: 31160469--31160509 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
31160459 TATTTTTTTA
31160469 TTATTTATT
1 TTATTTATT
31160478 CTTATTT-TT
1 -TTATTTATT
*
31160487 AT-TTTATT
1 TTATTTATT
31160495 TTATTTATT
1 TTATTTATT
31160504 TTATTT
1 TTATTT
31160510 TTATTTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
7 3 0.11
8 4 0.15
9 14 0.52
10 6 0.22
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (9 bp):
TTATTTATT
Found at i:31160513 original size:37 final size:38
Alignment explanation
Indices: 31160459--31160533 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 38
31160449 TGAATCCTCC
*
31160459 TATTTTTTTATTATTTATTCTTATTTTTA-TTTTATTT
1 TATTTTTTTATTATTTATTCTTATTTTGATTTTTATTT
* *
31160496 TATTTATTTTATT-TTTATTTTTCTTTTGATTTTTATTT
1 TATTT-TTTTATTATTTATTCTTATTTTGATTTTTATTT
31160534 CCATTTCAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
37 18 0.55
38 15 0.45
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.79
Consensus pattern (38 bp):
TATTTTTTTATTATTTATTCTTATTTTGATTTTTATTT
Found at i:31160529 original size:7 final size:6
Alignment explanation
Indices: 31160463--31160533 Score: 72
Period size: 6 Copynumber: 11.5 Consensus size: 6
31160453 TCCTCCTATT
* *
31160463 TTTTTA TTATTTA TTCTTA TTTTTA -TTTTA TTTTATT TATTTTA TTTTTA
1 TTTTTA TT-TTTA TTTTTA TTTTTA TTTTTA TTTT-TA T-TTTTA TTTTTA
* *
31160513 TTTTTC TTTTGA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTT
31160534 CCATTTCAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
5 5 0.09
6 35 0.66
7 10 0.19
8 3 0.06
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:31169409 original size:40 final size:40
Alignment explanation
Indices: 31169361--31169486 Score: 166
Period size: 40 Copynumber: 3.2 Consensus size: 40
31169351 GGACTAAGAT
*
31169361 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
31169401 CCGAAGGCATTTGTGCTAGTGACTATGTCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * * * *
31169441 TCGAAGGCATTCGTGCGAGTTG-CTATATCC-GGCTAAATT
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
31169480 CCGAAGG
1 CCGAAGG
31169487 TACTTGGGTT
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
39 13 0.17
40 61 0.80
41 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:31178629 original size:21 final size:23
Alignment explanation
Indices: 31178603--31178655 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
31178593 CTACAAGCAT
*
31178603 CAAATTCATAA-CATTTTA-TAC
1 CAAATTCATAACCATTTTACAAC
31178624 CAAATTC-TCAACCATTTTACAAC
1 CAAATTCAT-AACCATTTTACAAC
31178647 CAAA-TCATA
1 CAAATTCATA
31178656 CATCATTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
20 1 0.04
21 9 0.33
22 10 0.37
23 7 0.26
ACGTcount: A:0.43, C:0.25, G:0.00, T:0.32
Consensus pattern (23 bp):
CAAATTCATAACCATTTTACAAC
Found at i:31179600 original size:43 final size:44
Alignment explanation
Indices: 31179480--31179634 Score: 155
Period size: 43 Copynumber: 3.6 Consensus size: 44
31179470 AGCTCATACA
* *
31179480 ATGCCAATGTCCCAGACA-TGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGAAAGTGGTCTTACATGTAAATCAAATAT-G
* *
31179523 ATGCC-ACTGTCCCAGACAG-GGTCTTACACG-AAATCAAATATG
1 ATGCCAAC-GTCCCAGAAAGTGGTCTTACATGTAAATCAAATATG
31179565 ATGCCAACGTCCCA-AAAGTGGTCTTACATGTAAATCATAAGTA-G
1 ATGCCAACGTCCCAGAAAGTGGTCTTACATGTAAATCA-AA-TATG
* * *
31179609 CTGCCAATGTCCCA-AACGTGGTCTTA
1 ATGCCAACGTCCCAGAAAGTGGTCTTA
31179635 TCACTTATCG
Statistics
Matches: 97, Mismatches: 7, Indels: 15
0.82 0.06 0.13
Matches are distributed among these distances:
41 3 0.03
42 23 0.24
43 43 0.44
44 26 0.27
45 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (44 bp):
ATGCCAACGTCCCAGAAAGTGGTCTTACATGTAAATCAAATATG
Found at i:31199885 original size:44 final size:44
Alignment explanation
Indices: 31199819--31199915 Score: 167
Period size: 44 Copynumber: 2.2 Consensus size: 44
31199809 GGGCATTATA
*
31199819 GCCAATGTCCCAGACATGGTCTTACACGTAAATCACAAATCGAT
1 GCCAACGTCCCAGACATGGTCTTACACGTAAATCACAAATCGAT
* *
31199863 GCCAACGTCCTAGACGTGGTCTTACACGTAAATCACAAATCGAT
1 GCCAACGTCCCAGACATGGTCTTACACGTAAATCACAAATCGAT
31199907 GCCAACGTC
1 GCCAACGTC
31199916 ATGACATATG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.22
Consensus pattern (44 bp):
GCCAACGTCCCAGACATGGTCTTACACGTAAATCACAAATCGAT
Found at i:31205892 original size:13 final size:13
Alignment explanation
Indices: 31205874--31205900 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
31205864 GCTCGGTAGA
31205874 GACACGCCCGTGT
1 GACACGCCCGTGT
31205887 GACACGCCCGTGT
1 GACACGCCCGTGT
31205900 G
1 G
31205901 CGATTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:31217885 original size:40 final size:40
Alignment explanation
Indices: 31217791--31217931 Score: 130
Period size: 41 Copynumber: 3.6 Consensus size: 40
31217781 TATTCGTATG
* * *
31217791 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGC-ATTGTGCAAGTTG-CT
* * * *
31217832 ATAACTGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGATCCCGAAGGCATT-GTGCAAGTTGCT
* * *
31217872 ATATCCGGGCTAAGA-CCCGAAGGCCTTGTGCAAGTAGTT
1 ATATCCGGGCTAAGATCCCGAAGGCATTGTGCAAGTTGCT
31217911 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
31217932 ATTACTTGAG
Statistics
Matches: 83, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
37 1 0.01
38 13 0.16
39 15 0.18
40 26 0.31
41 27 0.33
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTGTGCAAGTTGCT
Found at i:31217929 original size:38 final size:40
Alignment explanation
Indices: 31217791--31217931 Score: 119
Period size: 40 Copynumber: 3.5 Consensus size: 40
31217781 TATTCGTATG
* * * *
31217791 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGT-GACT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AAGTAG-CT
* * * * * *
31217832 ATAACTGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGCT
* *
31217872 ATATCCGGGCTAAGACCCGAAGGCCTT-GTGCAAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGCT
31217911 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
31217932 ATTACTTGAG
Statistics
Matches: 81, Mismatches: 17, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
37 1 0.01
38 13 0.16
39 15 0.19
40 26 0.32
41 26 0.32
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGCT
Found at i:31228422 original size:47 final size:47
Alignment explanation
Indices: 31228350--31228567 Score: 207
Period size: 47 Copynumber: 4.7 Consensus size: 47
31228340 CGTGTGTAAA
* * * * *
31228350 CCAGTGTAAGACCCTATCTGGGACATGGCATCAGCATTGAGATGAGGG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGAT-AGAG
* * *
31228398 CTAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCTCGAGACATA-AG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAG--ATAGAG
*
31228444 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TACGAGATGATAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CGAGAT-AGAG
* * *
31228490 TCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAGATATGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATA-GAG
* *
31228537 CCAGTGTAAGACCGTGTCTAGGACATGGCAT
1 CCAGTGTAAGACCATGTCTGGGACATGGCAT
31228568 AGGAACTATG
Statistics
Matches: 145, Mismatches: 17, Indels: 17
0.81 0.09 0.09
Matches are distributed among these distances:
44 2 0.01
45 2 0.01
46 59 0.41
47 62 0.43
48 20 0.14
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATAGAG
Found at i:31228456 original size:46 final size:45
Alignment explanation
Indices: 31228400--31228563 Score: 179
Period size: 46 Copynumber: 3.6 Consensus size: 45
31228390 GATGAGGGCT
31228400 AGTGTAAGA-CATGTCTGGGACATGCATTGGCCTCGAGACATAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATTGG-CTCGAGACAT-AGCC
* * *
31228446 AGTGTAAGA-CATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATTGGCT-CGAGA-CATAGCC
* * * *
31228492 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATATGAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATTGGCTCGAGACAT-AGCC
* *
31228539 AGTGTAAGACCGTGTCTAGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
31228564 GCATAGGAAC
Statistics
Matches: 104, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
45 2 0.02
46 49 0.47
47 45 0.43
48 8 0.08
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACCATGTCTGGGACATGCATTGGCTCGAGACATAGCC
Found at i:31233435 original size:20 final size:21
Alignment explanation
Indices: 31233410--31233449 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
31233400 CTCTTGAAAC
31233410 AGGGC-ACATGCCCGTGTGGA
1 AGGGCAACATGCCCGTGTGGA
*
31233430 AGGGCAACATGCCTGTGTGG
1 AGGGCAACATGCCCGTGTGG
31233450 TCATTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.23, G:0.40, T:0.17
Consensus pattern (21 bp):
AGGGCAACATGCCCGTGTGGA
Found at i:31235128 original size:30 final size:30
Alignment explanation
Indices: 31235082--31235145 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
31235072 CAACTTAACA
* * * *
31235082 CTTATACTTTGGAAAAATGACAGTTTTGCC
1 CTTAAACTTTGCAAAAATGACAATTTTACC
*
31235112 CTTAAACTTTGCAAAAATTACAATTTTACC
1 CTTAAACTTTGCAAAAATGACAATTTTACC
31235142 CTTA
1 CTTA
31235146 GGCCCGAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (30 bp):
CTTAAACTTTGCAAAAATGACAATTTTACC
Found at i:31242255 original size:31 final size:31
Alignment explanation
Indices: 31242219--31242282 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
31242209 GAAAATCAGC
31242219 CATTGAAGGGGGTTTGAAAACGTGAAAATTT
1 CATTGAAGGGGGTTTGAAAACGTGAAAATTT
*
31242250 CATTGAAGGGGGTTTGAAAGCGTGAAAATTT
1 CATTGAAGGGGGTTTGAAAACGTGAAAATTT
31242281 CA
1 CA
31242283 GCAACTTGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (31 bp):
CATTGAAGGGGGTTTGAAAACGTGAAAATTT
Found at i:31243346 original size:25 final size:25
Alignment explanation
Indices: 31243312--31243378 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
31243302 AATCAAAATG
* *
31243312 AGAATTAGAATTAGAATCAGGTGAC
1 AGAATCAGAATTAGAATCAGGTAAC
*
31243337 AGAATCAGAATTAGTATCAGGTAAC
1 AGAATCAGAATTAGAATCAGGTAAC
31243362 AGAATCAGAATTAGAAT
1 AGAATCAGAATTAGAAT
31243379 GTGAATGCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.46, C:0.09, G:0.21, T:0.24
Consensus pattern (25 bp):
AGAATCAGAATTAGAATCAGGTAAC
Found at i:31243762 original size:22 final size:22
Alignment explanation
Indices: 31243734--31243798 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
31243724 GCAAATACGT
*
31243734 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
31243756 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
* *
31243778 TTGGCGCAAAGCCATACTCAG
1 TTGGCACAAAGCCATAATCAG
31243799 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.91
23 1 0.03
ACGTcount: A:0.29, C:0.25, G:0.26, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:31244256 original size:27 final size:27
Alignment explanation
Indices: 31244226--31244729 Score: 585
Period size: 27 Copynumber: 19.0 Consensus size: 27
31244216 GGGGCAAAAT
* * * *
31244226 GGTAATTTTACCCCATAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
31244253 GGTAATTCTACCCTGTAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31244280 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
31244307 GGTAATTCTATCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31244334 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31244361 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31244388 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31244415 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
31244442 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
31244469 GTTATTTCTACCCTGCAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31244496 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
31244523 AGTAATTCTACCATACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31244550 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31244577 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31244604 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31244631 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
31244658 --T-A-TCT----TACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
31244677 AGTATTTCTATCCTAC-AGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31244703 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
31244730 AATAATTTTG
Statistics
Matches: 415, Mismatches: 53, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
19 13 0.03
21 1 0.00
23 6 0.01
24 1 0.00
25 1 0.00
26 24 0.06
27 369 0.89
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:31244671 original size:73 final size:72
Alignment explanation
Indices: 31244577--31244729 Score: 243
Period size: 73 Copynumber: 2.1 Consensus size: 72
31244567 AGGGTATTTC
*
31244577 GGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTAC
1 GGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACA-GGGTATTTCAGTAATTCTAC
*
31244642 CCTACAGG
65 CCTACAAG
* * * *
31244650 GGTATTTCTATCTTACAAGGGTATTTCAGTATTTCTATCCTACAGGGTATTTCAGTAATTCTACC
1 GGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGTATTTCAGTAATTCTACC
31244715 CTACAAG
66 CTACAAG
31244722 GGTATTTC
1 GGTATTTC
31244730 AATAATTTTG
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
72 35 0.47
73 39 0.53
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (72 bp):
GGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGTATTTCAGTAATTCTACC
CTACAAG
Found at i:31244735 original size:27 final size:27
Alignment explanation
Indices: 31244663--31244736 Score: 114
Period size: 26 Copynumber: 2.8 Consensus size: 27
31244653 ATTTCTATCT
* *
31244663 TACAAGGGTATTTCAGTATTTCTATCC
1 TACAAGGGTATTTCAGTAATTCTACCC
31244690 TAC-AGGGTATTTCAGTAATTCTACCC
1 TACAAGGGTATTTCAGTAATTCTACCC
*
31244716 TACAAGGGTATTTCAATAATT
1 TACAAGGGTATTTCAGTAATT
31244737 TTGCAAATCG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 24 0.56
27 19 0.44
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.38
Consensus pattern (27 bp):
TACAAGGGTATTTCAGTAATTCTACCC
Found at i:31244750 original size:27 final size:27
Alignment explanation
Indices: 31244720--31244890 Score: 114
Period size: 27 Copynumber: 6.3 Consensus size: 27
31244710 CTACCCTACA
*
31244720 AGGGTATTTCAATAATTTTGCAAATCG
1 AGGGTATTTCAATAATTTTACAAATCG
** ** * **
31244747 AGGGTAAAAT-GGTAATTCTGTAAATCG
1 AGGGT-ATTTCAATAATTTTACAAATCG
* * * *
31244774 ACGGTACTTT-GATAATTTTATAAGTCG
1 AGGGTA-TTTCAATAATTTTACAAATCG
*
31244801 AGGGTATTTTAATAATTTTACAAATCG
1 AGGGTATTTCAATAATTTTACAAATCG
* * *
31244828 AAGGTATTTCATTAATTTTGCAAA-CTG
1 AGGGTATTTCAATAATTTTACAAATC-G
** *
31244855 AGGGTATTTCGGTAATTTTACAAATAG
1 AGGGTATTTCAATAATTTTACAAATCG
*
31244882 AGGATATTT
1 AGGGTATTT
31244891 GGGTAATTTT
Statistics
Matches: 112, Mismatches: 27, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
26 5 0.04
27 105 0.94
28 2 0.02
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCAATAATTTTACAAATCG
Found at i:31244858 original size:54 final size:54
Alignment explanation
Indices: 31244800--31244952 Score: 157
Period size: 54 Copynumber: 2.9 Consensus size: 54
31244790 TTTATAAGTC
** * * *
31244800 GAGGGTATTTTAATAATTTTACAAATCGAAGG-TATTTCATTAATTTTGCAAACT
1 GAGGGTATTTTGGTAATTTTACAAATAG-AGGATATTTCAGTAATTTTACAAACT
* ** *
31244854 GAGGGTATTTCGGTAATTTTACAAATAGAGGATATTTGGGTAATTTTATAAACT
1 GAGGGTATTTTGGTAATTTTACAAATAGAGGATATTTCAGTAATTTTACAAACT
* * * * *
31244908 GGGGGTACTTTGGTAATTTTACAAAT-GGGGGTATTTTAGTAATTT
1 GAGGGTATTTTGGTAATTTTACAAATAGAGGATATTTCAGTAATTT
31244953 GGTAAACTAA
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
53 18 0.22
54 64 0.78
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.41
Consensus pattern (54 bp):
GAGGGTATTTTGGTAATTTTACAAATAGAGGATATTTCAGTAATTTTACAAACT
Found at i:31244949 original size:26 final size:26
Alignment explanation
Indices: 31244786--31244952 Score: 136
Period size: 27 Copynumber: 6.2 Consensus size: 26
31244776 GGTACTTTGA
* * *
31244786 TAATTTTATAAGTCGAGGGTATTTTAA
1 TAATTTTACAAAT-GAGGGTATTTTAG
* * *
31244813 TAATTTTACAAATCGAAGGTATTTCAT
1 TAATTTTACAAAT-GAGGGTATTTTAG
* **
31244840 TAATTTTGCAAACTGAGGGTATTTCGG
1 TAATTTTACAAA-TGAGGGTATTTTAG
* **
31244867 TAATTTTACAAATAGAGGATATTTGGG
1 TAATTTTACAAAT-GAGGGTATTTTAG
* * * *
31244894 TAATTTTATAAACTGGGGGTACTTTGG
1 TAATTTTACAAA-TGAGGGTATTTTAG
*
31244921 TAATTTTACAAATGGGGGTATTTTAG
1 TAATTTTACAAATGAGGGTATTTTAG
31244947 TAATTT
1 TAATTT
31244953 GGTAAACTAA
Statistics
Matches: 117, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
26 19 0.16
27 96 0.82
28 2 0.02
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (26 bp):
TAATTTTACAAATGAGGGTATTTTAG
Found at i:31246966 original size:175 final size:174
Alignment explanation
Indices: 31246668--31246996 Score: 577
Period size: 175 Copynumber: 1.9 Consensus size: 174
31246658 AACTCAAGGT
* *
31246668 ACTTACCTTTTCCGCTGTCCAAAATTGACGCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATAGACGCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
31246733 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCCCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCACCCACACTTAGTGCCATGT
31246798 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
* *
31246842 ACTTACCTTTTTCCGCTGTCCAAAATAGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTAT
1 ACTTACC-TTTTCCGCTGTCCAAAATAGACGCGGTAAAGTCGCACCCTTAATGTAAATAATTTAT
* *
31246907 AGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
65 AGAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCACCCACACTTAGTGCCATG
*
31246972 TACTTTAAACTCGCACACTTAGTGC
130 TACTTTAAACTCACACACTTAGTGC
31246997 TGTACAATTT
Statistics
Matches: 146, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
174 7 0.05
175 139 0.95
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATAGACGCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCACCCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:31246988 original size:29 final size:30
Alignment explanation
Indices: 31246949--31247027 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
31246939 CTTAATAATC
31246949 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
31246979 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
31247008 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
31247028 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:31265005 original size:48 final size:48
Alignment explanation
Indices: 31264925--31265239 Score: 226
Period size: 48 Copynumber: 6.8 Consensus size: 48
31264915 TAGGGTTATT
* *
31264925 TGTGGGCTAGTGTAAGACCATGTTTGGGACATGGCATCAACCTCAATA
1 TGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTCAATA
* * * ***
31264973 TGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAGCATTGTTA
1 TGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTCAATA
* * * * ** *
31265021 TGAGAGCTAGTGTAAGACCATGTCTGGGACACGACATTGGTCTCAATA
1 TGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTCAATA
* * *
31265069 TGTGAGCTAGTGTAAGACCAAGTAT-CGACAT----T--G--T---TA
1 TGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTCAATA
* * * ** *
31265105 TGAGAGCTAGTATAAGACCGTGTCCGGGACATGACATCAGCCTCAATA
1 TGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTCAATA
* * * * *
31265153 TGTAAGCAAGTG-AAGACCATGTCTGGAACATGGCATCGGCACT-AATACA
1 TGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGC-CTCAAT--A
* *
31265202 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
1 TGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATC
31265240 GACATTTTAC
Statistics
Matches: 205, Mismatches: 46, Indels: 30
0.73 0.16 0.11
Matches are distributed among these distances:
36 21 0.10
37 5 0.02
39 1 0.00
41 2 0.01
43 2 0.01
45 1 0.00
47 30 0.15
48 109 0.53
49 10 0.05
50 24 0.12
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
TGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTCAATA
Found at i:31265154 original size:84 final size:83
Alignment explanation
Indices: 31265013--31265171 Score: 228
Period size: 84 Copynumber: 1.9 Consensus size: 83
31265003 ATGGCATCAG
* * ** * * *
31265013 CATTGTTATGAGAGCTAGTGTAAGACCATGTCTGGGACACGACATTGGTCTCAATATGTGAGCTA
1 CATTGTTATGAGAGCTAGTATAAGACCATGTCCGGGACACGACATCAGCCTCAATATGTAAGCAA
31265078 GTGTAAGACCAAGTATCGA
66 GTG-AAGACCAAGTATCGA
* *
31265097 CATTGTTATGAGAGCTAGTATAAGACCGTGTCCGGGACATGACATCAGCCTCAATATGTAAGCAA
1 CATTGTTATGAGAGCTAGTATAAGACCATGTCCGGGACACGACATCAGCCTCAATATGTAAGCAA
31265162 GTGAAGACCA
66 GTGAAGACCA
31265172 TGTCTGGAAC
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
83 7 0.11
84 59 0.89
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (83 bp):
CATTGTTATGAGAGCTAGTATAAGACCATGTCCGGGACACGACATCAGCCTCAATATGTAAGCAA
GTGAAGACCAAGTATCGA
Found at i:31265224 original size:50 final size:48
Alignment explanation
Indices: 31265103--31265240 Score: 156
Period size: 47 Copynumber: 2.9 Consensus size: 48
31265093 TCGACATTGT
* * * * *
31265103 TATGAGAGCTAGTATAAGACCGTGTCCGGGACATGACATCAGCCTCAA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAA
* *
31265151 TATGTA-AGCAAGTG-AAGACCATGTCTGGAACATGGCATCGGCACT-AA
1 TATG-AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCAA
31265198 TACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 T--ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
31265241 ACATTTTACC
Statistics
Matches: 75, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
47 26 0.35
48 13 0.17
49 11 0.15
50 25 0.33
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAA
Found at i:31268133 original size:2 final size:2
Alignment explanation
Indices: 31268126--31268168 Score: 50
Period size: 2 Copynumber: 21.0 Consensus size: 2
31268116 ACCTTTTTAG
* * *
31268126 TA TA TA TA TA AA TA TA TA TT TA TG TA TA TA TA TA GTA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
31268169 CTTTTATAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:31269612 original size:43 final size:44
Alignment explanation
Indices: 31269455--31269623 Score: 143
Period size: 43 Copynumber: 3.9 Consensus size: 44
31269445 AGGATTTTGA
* * * * *
31269455 TATGTTTTATCATGTATGACCACGTCTGGGATGTTGGAATAGATT
1 TATGATTTA-CATGTAAGACCACGTCTGGGAAGTTGGCATCGATT
* * * *
31269500 TGTGATTTACGTGTAAGACCATGTCTGGGACA-TTGGCATC-ATA
1 TATGATTTACATGTAAGACCACGTCTGGGA-AGTTGGCATCGATT
* *
31269543 TATGATTTTC-TATAAGACC-CTGTCTGGGACAG-TGGCATCGATT
1 TATGATTTACATGTAAGACCAC-GTCTGGGA-AGTTGGCATCGATT
* *
31269586 TTTGA-TTACATGTAAGACCACATCTGGGAAGTTGGCAT
1 TATGATTTACATGTAAGACCACGTCTGGGAAGTTGGCAT
31269624 TCTATGAGCT
Statistics
Matches: 99, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
42 30 0.30
43 37 0.37
44 25 0.25
45 7 0.07
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.35
Consensus pattern (44 bp):
TATGATTTACATGTAAGACCACGTCTGGGAAGTTGGCATCGATT
Found at i:31275851 original size:27 final size:27
Alignment explanation
Indices: 31275821--31275998 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31275811 ATATTGAGTC
* * * *
31275821 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
31275848 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31275875 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
31275903 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
31275930 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
31275957 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31275984 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31275999 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:31275960 original size:82 final size:81
Alignment explanation
Indices: 31275842--31275997 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31275832 TGCTATATAA
* *
31275842 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
31275907 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
31275924 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
31275988 CACTTAGTGC
65 CACTTAGTGC
31275998 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:31284041 original size:27 final size:27
Alignment explanation
Indices: 31284011--31284242 Score: 304
Period size: 27 Copynumber: 8.6 Consensus size: 27
31284001 ATATTGAGTC
* * *
31284011 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
31284038 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
31284065 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
31284092 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
31284119 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
31284147 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
31284174 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
31284201 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
31284228 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31284243 GTACAATTTA
Statistics
Matches: 183, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
27 158 0.86
28 25 0.14
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:31284177 original size:109 final size:108
Alignment explanation
Indices: 31284011--31284242 Score: 313
Period size: 109 Copynumber: 2.1 Consensus size: 108
31284001 ATATTGAGTC
* * * *
31284011 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAG
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAG
* *
31284076 TGC-TACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
66 TGCAT-CATAGTCAACTCGCACACTTAGTGCAACATAGTCAAAT
* * ** *
31284119 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTA
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTA
* **
31284184 GTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
65 GTGCATCATAGTCAACTCGCACACTTAGTGCAACATAGTCAAAT
31284228 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31284243 GTACAATTTA
Statistics
Matches: 108, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
108 20 0.19
109 87 0.81
110 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (108 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAG
TGCATCATAGTCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:31291973 original size:20 final size:20
Alignment explanation
Indices: 31291948--31291994 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
31291938 ATTTTGATAT
31291948 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
31291968 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
31291988 ACATGAT
1 ACATGAT
31291995 GTATTTTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:31292071 original size:26 final size:26
Alignment explanation
Indices: 31292029--31292138 Score: 129
Period size: 26 Copynumber: 4.3 Consensus size: 26
31292019 GAGGAAGTGC
31292029 AAAAGGGC-TATGCCCCAATTTATTG
1 AAAAGGGCTTATGCCCCAATTTATTG
*
31292054 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAATTTATTG
* * **
31292080 AAAAGGGCTTATGGCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAATTTATTG
*
31292106 AAAAGGGCTT-TGCCCC-AGTTATT-
1 AAAAGGGCTTATGCCCCAATTTATTG
31292129 AAAAGAGGCT
1 AAAAG-GGCT
31292139 AGGCCTCCAG
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
23 5 0.07
24 7 0.09
25 13 0.18
26 49 0.66
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAATTTATTG
Found at i:31292120 original size:51 final size:50
Alignment explanation
Indices: 31292029--31292138 Score: 143
Period size: 52 Copynumber: 2.2 Consensus size: 50
31292019 GAGGAAGTGC
**
31292029 AAAAGGGC-TATGCCCCAATTTATTGAAAAGGGCTTATGCCCCAGTTTATT
1 AAAAGGGCTTATGCCCCAATTTACCGAAAAGGGCTTATGCCCCAG-TTATT
* *
31292079 GAAAAGGGCTTATGGCCCAGTTTACCGAAAAGGGCTT-TGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAATTTACCGAAAAGGGCTTATGCCCCAGTTATT
31292129 AAAAGAGGCT
1 AAAAG-GGCT
31292139 AGGCCTCCAG
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
49 5 0.09
50 9 0.17
51 16 0.30
52 23 0.43
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (50 bp):
AAAAGGGCTTATGCCCCAATTTACCGAAAAGGGCTTATGCCCCAGTTATT
Found at i:31299472 original size:83 final size:83
Alignment explanation
Indices: 31299333--31299497 Score: 321
Period size: 83 Copynumber: 2.0 Consensus size: 83
31299323 GGGAGGTGGC
31299333 CGAATATGGGTATAGGCCTTATTGGCTTCTTCTTTTAATCTTTTTATGGTTTGTATAGTGGAGGA
1 CGAATATGGGTATAGGCCTTATTGGCTTCTTCTTTTAATCTTTTTATGGTTTGTATAGTGGAGGA
31299398 GCAGCAAGGCATAGTGTT
66 GCAGCAAGGCATAGTGTT
*
31299416 CGAATGTGGGTATAGGCCTTATTGGCTTCTTCTTTTAATCTTTTTATGGTTTGTATAGTGGAGGA
1 CGAATATGGGTATAGGCCTTATTGGCTTCTTCTTTTAATCTTTTTATGGTTTGTATAGTGGAGGA
31299481 GCAGCAAGGCATAGTGT
66 GCAGCAAGGCATAGTGT
31299498 CGACTTGGAT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.21, C:0.12, G:0.27, T:0.39
Consensus pattern (83 bp):
CGAATATGGGTATAGGCCTTATTGGCTTCTTCTTTTAATCTTTTTATGGTTTGTATAGTGGAGGA
GCAGCAAGGCATAGTGTT
Found at i:31300305 original size:20 final size:20
Alignment explanation
Indices: 31300280--31300326 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
31300270 ATTTTGATAT
31300280 ACATGAT-TGATATGATATGC
1 ACATGATAT-ATATGATATGC
31300300 ACATGATATATATGATATGC
1 ACATGATATATATGATATGC
31300320 ACATGAT
1 ACATGAT
31300327 GTATTCATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (20 bp):
ACATGATATATATGATATGC
Found at i:31300412 original size:26 final size:25
Alignment explanation
Indices: 31300376--31300485 Score: 145
Period size: 26 Copynumber: 4.4 Consensus size: 25
31300366 GAGGAAGTGC
31300376 AAAAGGG-TTATGCCCCAGTTTATT
1 AAAAGGGCTTATGCCCCAGTTTATT
31300400 GAAAAGGGCTTATGCCCCAGTTTATTT
1 -AAAAGGGCTTATGCCCCAGTTTA-TT
*
31300427 AAAAGGGCTTATGCCCCAGTTTACCT
1 AAAAGGGCTTATGCCCCAGTTTA-TT
*
31300453 AAAAGGGCTT-TGCCCC-GGTTATT
1 AAAAGGGCTTATGCCCCAGTTTATT
31300476 AAAAGAGGCT
1 AAAAG-GGCT
31300486 AGGCCTCCAG
Statistics
Matches: 78, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.08
24 8 0.10
25 13 0.17
26 49 0.63
27 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTATGCCCCAGTTTATT
Found at i:31301057 original size:26 final size:25
Alignment explanation
Indices: 31301018--31301110 Score: 136
Period size: 26 Copynumber: 3.7 Consensus size: 25
31301008 TTCCAAGTGC
31301018 AAAAGGG-TTATGCCCCAGTTTATT
1 AAAAGGGCTTATGCCCCAGTTTATT
31301042 GAAAAGGGCTTATGCCCCAGTTTATTT
1 -AAAAGGGCTTATGCCCCAGTTTA-TT
*
31301069 AAAAGGGCTTATGCCCCAGTTTACCT
1 AAAAGGGCTTATGCCCCAGTTTA-TT
31301095 AAAAGGGCTT-TGCCCC
1 AAAAGGGCTTATGCCCC
31301111 GGATAATTGT
Statistics
Matches: 64, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
25 13 0.20
26 49 0.77
27 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTATGCCCCAGTTTATT
Found at i:31302323 original size:25 final size:25
Alignment explanation
Indices: 31302295--31302342 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
31302285 TTATATTATG
* * *
31302295 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCGTTATACCCCTAGGTA
31302320 AAAATGACCGTTATACCCCTAGG
1 AAAATGACCGTTATACCCCTAGG
31302343 GTTTACTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (25 bp):
AAAATGACCGTTATACCCCTAGGTA
Found at i:31302403 original size:20 final size:20
Alignment explanation
Indices: 31302378--31302424 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
31302368 ATTTTGATAT
31302378 ACATGAT-TGATATGATATGC
1 ACATGATAT-ATATGATATGC
31302398 ACATGATATATATGATATGC
1 ACATGATATATATGATATGC
31302418 ACATGAT
1 ACATGAT
31302425 GTATTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (20 bp):
ACATGATATATATGATATGC
Found at i:31302510 original size:26 final size:25
Alignment explanation
Indices: 31302474--31302577 Score: 140
Period size: 26 Copynumber: 4.1 Consensus size: 25
31302464 GAGGAAGTGC
31302474 AAAAGGG-TTATGCCCCAGTTTATT
1 AAAAGGGCTTATGCCCCAGTTTATT
31302498 GAAAAGGGCTTATGCCCCAGTTTATTT
1 -AAAAGGGCTTATGCCCCAGTTTA-TT
*
31302525 AAAAGGGCTTATGCCCCAGTTTACCT
1 AAAAGGGCTTATGCCCCAGTTTA-TT
* *
31302551 AAAAGGGCTT-TGCCCCGGTTAATT
1 AAAAGGGCTTATGCCCCAGTTTATT
31302575 AAA
1 AAA
31302578 GAGGCTAGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
24 4 0.06
25 17 0.24
26 49 0.68
27 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (25 bp):
AAAAGGGCTTATGCCCCAGTTTATT
Found at i:31312341 original size:42 final size:43
Alignment explanation
Indices: 31312207--31312344 Score: 138
Period size: 42 Copynumber: 3.2 Consensus size: 43
31312197 TATGTGTTAT
* * * *
31312207 CGTGTAAGACCACGTCTGGGA-TGTTGGCATCGATTTGTGATTTA
1 CGTGTAAGACCATGTCTGGGACAG-TGGCATCGATATATGA-TTA
* * *
31312251 CGTGTAAGACCATGTCTGGGACATTGACATCG-TATATGATTT
1 CGTGTAAGACCATGTCTGGGACAGTGGCATCGATATATGATTA
* * *
31312293 TGTGTAAGTCCCTGTCTGGGACAGTGGCATCGATAT-TGATTA
1 CGTGTAAGACCATGTCTGGGACAGTGGCATCGATATATGATTA
*
31312335 CATGTAAGAC
1 CGTGTAAGAC
31312345 AACTTCTGAG
Statistics
Matches: 76, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
42 41 0.54
43 8 0.11
44 27 0.36
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACAGTGGCATCGATATATGATTA
Found at i:31319498 original size:42 final size:42
Alignment explanation
Indices: 31319439--31319527 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
31319429 TCCTAATTGG
31319439 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
*
31319481 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
*
31319523 TAAAA
1 GAAAA
31319528 ATATTCCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.52, C:0.15, G:0.06, T:0.28
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
Found at i:31319548 original size:43 final size:42
Alignment explanation
Indices: 31319440--31319549 Score: 107
Period size: 42 Copynumber: 2.6 Consensus size: 42
31319430 CCTAATTGGG
* * * *
31319440 AAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAG
1 AAAATAGTTCCCTGAATATAATAAACTACTAAAACATAAAAA
* * * *
31319482 AAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAATA
1 AAAATAGTTCCCTGAATATAATAAACTACTAAAACATAAAA-A
31319525 AAAATA-TT-CCTAGAATATGAATAAA
1 AAAATAGTTCCCT-GAATAT-AATAAA
31319550 ACTTATCTAC
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
41 3 0.05
42 45 0.75
43 12 0.20
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (42 bp):
AAAATAGTTCCCTGAATATAATAAACTACTAAAACATAAAAA
Found at i:31327922 original size:42 final size:42
Alignment explanation
Indices: 31327863--31327948 Score: 147
Period size: 42 Copynumber: 2.0 Consensus size: 42
31327853 TAATTGGGAC
31327863 AATAGTTCTCTTATTCTAATAAACTACTAAAAC-ATAAAAGAA
1 AATAGTTCTCTTATTCTAATAAACTACT-AAACGATAAAAGAA
*
31327905 AATAGTTCTCTTATTCTAATAAACTACTAAACGATAAAATAA
1 AATAGTTCTCTTATTCTAATAAACTACTAAACGATAAAAGAA
31327947 AA
1 AA
31327949 ATATTCCTAG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
41 4 0.10
42 38 0.90
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.31
Consensus pattern (42 bp):
AATAGTTCTCTTATTCTAATAAACTACTAAACGATAAAAGAA
Found at i:31327995 original size:19 final size:18
Alignment explanation
Indices: 31327973--31328012 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
31327963 TGAATAAAAC
31327973 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
31327992 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
31328010 TTA
1 TTA
31328013 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:31329578 original size:42 final size:42
Alignment explanation
Indices: 31329465--31329777 Score: 463
Period size: 42 Copynumber: 7.5 Consensus size: 42
31329455 TGCATCGGTG
*
31329465 ATATTCGGGCTTTATTGCCTAGCATGCTTTATGCTGGTGTATT
1 ATATT-GGGCTTTATTGCCTAGCAGGCTTTATGCTGGTGTATT
*
31329508 ATATCGGGC-TTATTGCCTAGCAGGCTTTATGCTGGTGTATT
1 ATATTGGGCTTTATTGCCTAGCAGGCTTTATGCTGGTGTATT
* *
31329549 ATATTAGGCTTCATTGCCTAGCAGGCTTTATGCTGGTGTATT
1 ATATTGGGCTTTATTGCCTAGCAGGCTTTATGCTGGTGTATT
*
31329591 ATATCGGGCTTTATTGCCTAGCAGGCTTTATGCTGGTGTATT
1 ATATTGGGCTTTATTGCCTAGCAGGCTTTATGCTGGTGTATT
*
31329633 ATATCGGGCTTTATTGCCTAGCAGGCTTTATGCTGGTGTATT
1 ATATTGGGCTTTATTGCCTAGCAGGCTTTATGCTGGTGTATT
*
31329675 ATATTGGGCTTTATTGCCTAGCAGGCTTTATACTGGTGTATT
1 ATATTGGGCTTTATTGCCTAGCAGGCTTTATGCTGGTGTATT
* * *
31329717 ATATTAGGC-CTATTGCCTAGCAGG-TTCTGTGCTGGTGTATT
1 ATATTGGGCTTTATTGCCTAGCAGGCTT-TATGCTGGTGTATT
* * *
31329758 ATACTAGGCTTT-TCGCCTAG
1 ATATTGGGCTTTATTGCCTAG
31329778 TAAATTTTAT
Statistics
Matches: 250, Mismatches: 17, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
40 2 0.01
41 79 0.32
42 165 0.66
43 4 0.02
ACGTcount: A:0.18, C:0.17, G:0.25, T:0.41
Consensus pattern (42 bp):
ATATTGGGCTTTATTGCCTAGCAGGCTTTATGCTGGTGTATT
Found at i:31334172 original size:27 final size:27
Alignment explanation
Indices: 31334142--31334319 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31334132 ATATTGAGTC
* * * *
31334142 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
31334169 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31334196 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
31334224 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
31334251 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
31334278 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31334305 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31334320 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:31334281 original size:82 final size:81
Alignment explanation
Indices: 31334163--31334318 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31334153 TGCTATATAA
* *
31334163 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
31334228 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
31334245 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
31334309 CACTTAGTGC
65 CACTTAGTGC
31334319 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:31347349 original size:28 final size:28
Alignment explanation
Indices: 31347317--31347381 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
31347307 ATTTACTAGA
*
31347317 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
31347345 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
31347373 ATACCCCTA
1 ATACCCCTA
31347382 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:31347545 original size:27 final size:27
Alignment explanation
Indices: 31347487--31347576 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
31347477 AGGAAGCGTC
31347487 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
31347515 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
31347542 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
31347571 CTGGTG
1 CTGGTG
31347577 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:31347595 original size:55 final size:56
Alignment explanation
Indices: 31347487--31347601 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
31347477 AGGAAGCGTC
* *
31347487 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
31347542 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
31347598 CTGG
1 CTGG
31347602 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:31348064 original size:19 final size:19
Alignment explanation
Indices: 31348040--31348078 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
31348030 TTTTAATTAT
* *
31348040 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
31348059 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
31348078 T
1 T
31348079 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:31350376 original size:24 final size:24
Alignment explanation
Indices: 31350229--31350364 Score: 200
Period size: 24 Copynumber: 5.7 Consensus size: 24
31350219 GATTCAACTC
* * *
31350229 CGCACACATAGTGCCAAATAATTA
1 CGCACACATAGTGCCATACAAATA
* *
31350253 CGCACGCATAGTGCCATACATATA
1 CGCACACATAGTGCCATACAAATA
*
31350277 CGAACACATAGTGCCATACAAATA
1 CGCACACATAGTGCCATACAAATA
*
31350301 CACACACATAGTGCCATACAAATA
1 CGCACACATAGTGCCATACAAATA
*
31350325 CGCACACATAGTGCCATACAATTA
1 CGCACACATAGTGCCATACAAATA
31350349 CGCACACATAGTGCCA
1 CGCACACATAGTGCCA
31350365 CTCAAATCCG
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 100 1.00
ACGTcount: A:0.40, C:0.29, G:0.13, T:0.18
Consensus pattern (24 bp):
CGCACACATAGTGCCATACAAATA
Found at i:31367528 original size:16 final size:16
Alignment explanation
Indices: 31367509--31367540 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31367499 ATTGTAACGC
31367509 CCCAAAAATCCCAAAA
1 CCCAAAAATCCCAAAA
*
31367525 CCCAAAAATCCTAAAA
1 CCCAAAAATCCCAAAA
31367541 TCTTGAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.34, G:0.00, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCAAAA
Found at i:31369957 original size:38 final size:38
Alignment explanation
Indices: 31369906--31370101 Score: 223
Period size: 38 Copynumber: 4.9 Consensus size: 38
31369896 ATAAAAAAAT
*
31369906 GTGGTGCTAAGTGGATATACCATTGTTAAACATGTAAC
1 GTGGTGCTAAGTGGATATACCATGGTTAAACATGTAAC
*
31369944 GTGGTGCTAAGTGGATATGCCATGGTTACATTTATTGATTCAT-TAAC
1 GTGGTGCTAAGTGGATATACCATGGTT--A---A---A--CATGTAAC
* *
31369991 GTGGTGCTGAGTGGATATACCACGGTTAAACATGTAAC
1 GTGGTGCTAAGTGGATATACCATGGTTAAACATGTAAC
31370029 GTGGTGCTAAGTGGATATACCATGGTTAAACATGTAAC
1 GTGGTGCTAAGTGGATATACCATGGTTAAACATGTAAC
* * * *
31370067 GTGGTGCTGAGTGGATATGCCACGGTTATACATGT
1 GTGGTGCTAAGTGGATATACCATGGTTAAACATGT
31370102 TAATTTGAAA
Statistics
Matches: 136, Mismatches: 11, Indels: 22
0.80 0.07 0.13
Matches are distributed among these distances:
37 3 0.02
38 96 0.71
39 1 0.01
40 1 0.01
42 1 0.01
43 1 0.01
45 1 0.01
46 1 0.01
47 28 0.21
48 3 0.02
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.32
Consensus pattern (38 bp):
GTGGTGCTAAGTGGATATACCATGGTTAAACATGTAAC
Found at i:31372917 original size:29 final size:29
Alignment explanation
Indices: 31372875--31372992 Score: 125
Period size: 29 Copynumber: 4.1 Consensus size: 29
31372865 GAGAGCATGA
*
31372875 ATAT-AAGGTGATTTGGGCCTAACGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
*
31372903 ATATAAAGGTGATTTGGGCCTAATAGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
* * * *
31372932 ATATGAATGTGAATTGGGTCTAATGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
* * *
31372961 ATATAAATGAGA-TTGGGCC-AAGTGGGTC
1 ATATAAAGGTGATTTGGGCCTAA-TGGGCC
31372989 ATAT
1 ATAT
31372993 GCATGTATGT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
27 2 0.03
28 19 0.25
29 56 0.73
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.28
Consensus pattern (29 bp):
ATATAAAGGTGATTTGGGCCTAATGGGCC
Found at i:31375689 original size:29 final size:28
Alignment explanation
Indices: 31375642--31375725 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
31375632 GCATGACTAT
*
31375642 GAATGTGATTGGGCCTAATGGGTCATAA
1 GAATGTGATTGGGCCTAATGGGCCATAA
* *
31375670 GAATGTGATTTGGGCTTAATGGGCCATAT
1 GAATGTGA-TTGGGCCTAATGGGCCATAA
* *
31375699 GAAAGAT-ATTGGGCCTAGTGGGCCATA
1 GAATG-TGATTGGGCCTAATGGGCCATA
31375726 TGCATGTATG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
28 25 0.52
29 22 0.46
30 1 0.02
ACGTcount: A:0.27, C:0.12, G:0.32, T:0.29
Consensus pattern (28 bp):
GAATGTGATTGGGCCTAATGGGCCATAA
Found at i:31377849 original size:29 final size:28
Alignment explanation
Indices: 31377802--31377885 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
31377792 GCATGACTAT
*
31377802 GAATGTGATTGGGCCTAATGGGTCATAA
1 GAATGTGATTGGGCCTAATGGGCCATAA
* *
31377830 GAATGTGATTTGGGCTTAATGGGCCATAT
1 GAATGTGA-TTGGGCCTAATGGGCCATAA
* *
31377859 GAAAGAT-ATTGGGCCTAGTGGGCCATA
1 GAATG-TGATTGGGCCTAATGGGCCATA
31377886 TGCATGTATG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
28 25 0.52
29 22 0.46
30 1 0.02
ACGTcount: A:0.27, C:0.12, G:0.32, T:0.29
Consensus pattern (28 bp):
GAATGTGATTGGGCCTAATGGGCCATAA
Found at i:31379626 original size:27 final size:26
Alignment explanation
Indices: 31379570--31379681 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
31379560 CAGCATGGCT
* * *
31379570 ACCAGAACAGGTAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
*
31379596 ACCAGAGCAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATAAT-GTGGCAGAGCC
31379623 ACCAGAACAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* *
31379650 ACCAGATCAGATAATTGTGGCATAGCC
1 ACCAGAACAGATAA-TGTGGCAGAGCC
31379677 ACCAG
1 ACCAG
31379682 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 14 0.18
27 60 0.79
28 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.26, T:0.15
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:31379653 original size:54 final size:53
Alignment explanation
Indices: 31379570--31379681 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 53
31379560 CAGCATGGCT
* *
31379570 ACCAGAACAGGTAATGTGACAGAGTCACCAGAGCAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATAATGTGACAGAGCCACCAGAGCAGATAATCGTGGCAGAGCC
* * * *
31379623 ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCC
1 ACCAGAACAGATA-ATGTGACAGAGCCACCAGAGCAGATAATCGTGGCAGAGCC
31379677 ACCAG
1 ACCAG
31379682 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 12 0.23
54 40 0.77
ACGTcount: A:0.36, C:0.23, G:0.26, T:0.15
Consensus pattern (53 bp):
ACCAGAACAGATAATGTGACAGAGCCACCAGAGCAGATAATCGTGGCAGAGCC
Found at i:31381119 original size:24 final size:24
Alignment explanation
Indices: 31381084--31381160 Score: 118
Period size: 24 Copynumber: 3.2 Consensus size: 24
31381074 CCAACACTGT
*
31381084 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
31381108 TTTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
* *
31381132 TCTCCTTTATCAACTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
31381156 TCTCC
1 TCTCC
31381161 TGACAGACTT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.22, C:0.40, G:0.03, T:0.35
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Done.