Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 116 of 186
Found at i:38428097 original size:44 final size:44
Alignment explanation
Indices: 38428034--38428154 Score: 188
Period size: 44 Copynumber: 2.8 Consensus size: 44
38428024 AGGTTAAGAT
* *
38428034 GCTGACGTCATGTCCCAGACAAGTCTTACACTGACACACTACAA
1 GCTGACGCCATGTCCCAGACAAGTCTTACACTAACACACTACAA
* * *
38428078 GCTGACGCCATGTCCCAGACATGCCTTACACTAACACACTGCAA
1 GCTGACGCCATGTCCCAGACAAGTCTTACACTAACACACTACAA
*
38428122 GCTGACGCCATGTCCCAGAGAAGTCTTACACTA
1 GCTGACGCCATGTCCCAGACAAGTCTTACACTA
38428155 GCTTGTGTAT
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 69 1.00
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (44 bp):
GCTGACGCCATGTCCCAGACAAGTCTTACACTAACACACTACAA
Found at i:38428287 original size:46 final size:48
Alignment explanation
Indices: 38428130--38428295 Score: 187
Period size: 48 Copynumber: 3.5 Consensus size: 48
38428120 AAGCTGACGC
* * * * **
38428130 CATGTCCCAGAGAAGTCTTACACTAGCTT-GTGTATCGCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTAAT-TATCTTGAGGCCGATG
*
38428178 CATGTCCCAGACATGTCTTACACTGGCTTAATTATCTTGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGCTTAATTATCTTGAGGCCGATG
* * * *
38428226 CATGTCCCAAACATGTCTTACACTGGCTCTCA-TA-C-TGTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCT-TAATTATCTTGAGGCCGATG
38428272 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
38428296 AGCACACCTA
Statistics
Matches: 103, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
46 31 0.30
47 1 0.01
48 68 0.66
49 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTGGCTTAATTATCTTGAGGCCGATG
Found at i:38430672 original size:27 final size:26
Alignment explanation
Indices: 38430624--38430675 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
38430614 GTGAGGCTGC
*
38430624 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
38430650 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
38430676 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:38431305 original size:26 final size:27
Alignment explanation
Indices: 38431276--38431329 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
38431266 TCACACAAGT
*
38431276 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
38431302 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
38431329 T
1 T
38431330 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:38431360 original size:27 final size:27
Alignment explanation
Indices: 38431330--38431529 Score: 249
Period size: 27 Copynumber: 7.4 Consensus size: 27
38431320 GGGGCAAAAT
* * *
38431330 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
38431357 GGTAATTCTACCCTAC-AGAGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
* * *
38431384 GATAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
38431411 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
38431438 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
38431465 GGGAATTCTACCTTACAATGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
38431492 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
38431519 GGTAATTCTAC
1 GGTAATTCTAC
38431530 AACTTATCCA
Statistics
Matches: 151, Mismatches: 20, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
26 2 0.01
27 148 0.98
28 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:38431454 original size:81 final size:81
Alignment explanation
Indices: 38431330--38431529 Score: 276
Period size: 81 Copynumber: 2.5 Consensus size: 81
38431320 GGGGCAAAAT
* * *
38431330 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGAGGTATTTCGATAATTCTAT
1 GGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCGAGAATTCTA-
*
38431395 CC-TACAGGGGTATTTC
65 CCTTACAAGGGTATTTC
* ** * *
38431411 GGTAATTTTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCGGGAATTCTAC
1 GGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCGAGAATTCTAC
*
38431476 CTTACAATGGTATTTC
66 CTTACAAGGGTATTTC
* *
38431492 GGTAATTCTACCTTACAAGGGTATTTCGGTAATTCTAC
1 GGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTAC
38431530 AACTTATCCA
Statistics
Matches: 103, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 2 0.02
81 101 0.98
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (81 bp):
GGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCGAGAATTCTAC
CTTACAAGGGTATTTC
Found at i:38434313 original size:24 final size:24
Alignment explanation
Indices: 38434279--38434354 Score: 134
Period size: 24 Copynumber: 3.2 Consensus size: 24
38434269 AAAATTCGCT
38434279 CTTACTGAACTTGGCATATAACTG
1 CTTACTGAACTTGGCATATAACTG
* *
38434303 CTTACTAAACTTGACATATAACTG
1 CTTACTGAACTTGGCATATAACTG
38434327 CTTACTGAACTTGGCATATAACTG
1 CTTACTGAACTTGGCATATAACTG
38434351 CTTA
1 CTTA
38434355 TCTCTCAAGG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (24 bp):
CTTACTGAACTTGGCATATAACTG
Found at i:38437593 original size:60 final size:59
Alignment explanation
Indices: 38437519--38437636 Score: 182
Period size: 60 Copynumber: 2.0 Consensus size: 59
38437509 TTTGACTTGC
* * * *
38437519 AATTTTTACGTGCAGGGGACACATGGCCGAGCAACACACCCATGGGGCTGGCTGTGTGTA
1 AATTTTTACGTGCAGGGGACACACGACCGAACAACACACCCAT-GGGCTGGCCGTGTGTA
*
38437579 AATTTTTATGTGCAGGGGACACACGACCGAACAACACACCCATGGGCTGGCCGTGTGT
1 AATTTTTACGTGCAGGGGACACACGACCGAACAACACACCCATGGGCTGGCCGTGTGT
38437637 CACACACGGC
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
59 14 0.26
60 39 0.74
ACGTcount: A:0.25, C:0.25, G:0.30, T:0.21
Consensus pattern (59 bp):
AATTTTTACGTGCAGGGGACACACGACCGAACAACACACCCATGGGCTGGCCGTGTGTA
Found at i:38438549 original size:48 final size:49
Alignment explanation
Indices: 38438422--38438598 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 49
38438412 GTTAAGATGT
*
38438422 CGATGCCATATCCCAGACATGGTCTTACACTAGCTTTCACATAGCGAGGC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTAGCTTTCACATAGCGAGGC
* *
38438472 CGATGCCATGTCCCAGACA-GATCTTACACTAGCTTGT-ATATCGCGAGGC
1 CGATGCCATGTCCCAGACATG-TCTTACACTAGCTT-TCACATAGCGAGGC
* * * *
38438521 CGATG-CATGTCCTAGACATGTCTTACACTGGC--TCTCATA-CTGTGGC
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCTTTCACATAGC-GAGGC
* * *
38438567 TGAT-ACATGTCCCAGACATGTTTTACACTAGC
1 CGATGCCATGTCCCAGACATGTCTTACACTAGC
38438599 ACACCTATTA
Statistics
Matches: 108, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
45 2 0.02
46 33 0.31
48 24 0.22
49 30 0.28
50 19 0.18
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGTCTTACACTAGCTTTCACATAGCGAGGC
Found at i:38449175 original size:20 final size:21
Alignment explanation
Indices: 38449139--38449177 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
38449129 TACTTAATCG
38449139 AAAACTCATAAAGATTTTCAA
1 AAAACTCATAAAGATTTTCAA
38449160 AAAACTTCA-AAA-ATTTTC
1 AAAAC-TCATAAAGATTTTC
38449178 CAAGGTTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 8 0.47
22 3 0.18
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (21 bp):
AAAACTCATAAAGATTTTCAA
Found at i:38452101 original size:48 final size:48
Alignment explanation
Indices: 38452045--38452255 Score: 198
Period size: 46 Copynumber: 4.5 Consensus size: 48
38452035 TGACGCCATA
* * * *
38452045 TCCCAGACAGGTTTTACACTAGCTTGTATATCGCGAGGCCGATGCATG
1 TCCCAGACATGTCTTACACTAGCTTATATATCTCGAGGCCGATGCATG
* * * * *
38452093 TCCCAGACATGTCATACACTAGC-TCT-TGTCTCAATGCCGATGCATG
1 TCCCAGACATGTCTTACACTAGCTTATATATCTCGAGGCCGATGCATG
* * *
38452139 TCCTAGACATGTCTTACACTAGCGTAAATATCTCGAGGCCGATGCATG
1 TCCCAGACATGTCTTACACTAGCTTATATATCTCGAGGCCGATGCATG
* * * * * * *
38452187 TTCCAGACATGTCTTACACAAGCTGT-CAT-GCT-GTGGCTGGTGCATG
1 TCCCAGACATGTCTTACACTAGCT-TATATATCTCGAGGCCGATGCATG
*
38452233 TCCCAAACATGTCTTACACTAGC
1 TCCCAGACATGTCTTACACTAGC
38452256 ACACATATCA
Statistics
Matches: 133, Mismatches: 27, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
46 68 0.51
47 5 0.04
48 59 0.44
49 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (48 bp):
TCCCAGACATGTCTTACACTAGCTTATATATCTCGAGGCCGATGCATG
Found at i:38452147 original size:46 final size:46
Alignment explanation
Indices: 38452047--38452210 Score: 159
Period size: 48 Copynumber: 3.5 Consensus size: 46
38452037 ACGCCATATC
* * ** * *
38452047 CCAGACAGGTTTTACACTAGCTTGTATATCGCGAGGCCGATGCATGT
1 CCAGACATGTCTTACACTAGC-TAAATATCTCAAGGCCGATGCATGT
* ** * *
38452094 CCCAGACATGTCATACACTAGCT-CTTGTCTCAATGCCGATGCATGT
1 -CCAGACATGTCTTACACTAGCTAAATATCTCAAGGCCGATGCATGT
*
38452140 CCTAGACATGTCTTACACTAGCGTAAATATCTCGAGGCCGATGCATGTT
1 CC-AGACATGTCTTACACTAGC-TAAATATCTCAAGGCCGATGCATG-T
*
38452189 CCAGACATGTCTTACACAAGCT
1 CCAGACATGTCTTACACTAGCT
38452211 GTCATGCTGT
Statistics
Matches: 96, Mismatches: 16, Indels: 9
0.79 0.13 0.07
Matches are distributed among these distances:
45 2 0.02
46 35 0.36
47 3 0.03
48 53 0.55
49 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (46 bp):
CCAGACATGTCTTACACTAGCTAAATATCTCAAGGCCGATGCATGT
Found at i:38452231 original size:94 final size:93
Alignment explanation
Indices: 38452045--38452255 Score: 237
Period size: 94 Copynumber: 2.2 Consensus size: 93
38452035 TGACGCCATA
* * * **
38452045 TCCCAGACAGGTTTTACACTAGCTTGTATATCGCGAGGCCGATGCATGTCCCAGACATGTCATAC
1 TCCCAGACATGTCTTACACTAGCGTAAATATCGCGAGGCCGATGCATGTCCCAGACATGTCATAC
*
38452110 ACTAGCTCTTGTCTCAATGCCGATGCATG
66 ACAAGC-CTTGTCTCAATGCCGATGCATG
* * * *
38452139 TCCTAGACATGTCTTACACTAGCGTAAATATCTCGAGGCCGATGCATGTTCCAGACATGTCTTAC
1 TCCCAGACATGTCTTACACTAGCGTAAATATCGCGAGGCCGATGCATGTCCCAGACATGTCATAC
** * *
38452204 ACAAG-C-TGTCATGCTGTGGCTGGTGCATG
66 ACAAGCCTTGTC-T-CAAT-GCCGATGCATG
*
38452233 TCCCAAACATGTCTTACACTAGC
1 TCCCAGACATGTCTTACACTAGC
38452256 ACACATATCA
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
91 4 0.04
92 2 0.02
93 2 0.02
94 90 0.92
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (93 bp):
TCCCAGACATGTCTTACACTAGCGTAAATATCGCGAGGCCGATGCATGTCCCAGACATGTCATAC
ACAAGCCTTGTCTCAATGCCGATGCATG
Found at i:38455174 original size:27 final size:26
Alignment explanation
Indices: 38455134--38455207 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 26
38455124 ATTTAATTAC
*
38455134 CAATAATAATAATTTTATAAAT-ATA
1 CAATAATAAAAATTTTATAAATAATA
38455159 TCTAATAATAAAAA-TTTA-AAATAATA
1 -C-AATAATAAAAATTTTATAAATAATA
*
38455185 CAGTAAATAAAAATTTTCATAAA
1 CAAT-AATAAAAATTTT-ATAAA
38455208 AATTTTTCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
24 2 0.05
25 13 0.32
26 11 0.28
27 11 0.28
28 3 0.08
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.35
Consensus pattern (26 bp):
CAATAATAAAAATTTTATAAATAATA
Found at i:38456429 original size:227 final size:227
Alignment explanation
Indices: 38456034--38456472 Score: 833
Period size: 227 Copynumber: 1.9 Consensus size: 227
38456024 CTAAAAACGA
*
38456034 GACTTGATTTCATACCTTATTAAGCTTGAAAAGTCTTCTTCCTATCTCCTAGGGTTTCCATAGAA
1 GACTTGATTTCATAACTTATTAAGCTTGAAAAGTCTTCTTCCTATCTCCTAGGGTTTCCATAGAA
* *
38456099 ATATTTGGGGAAGATGATATGGAATTTTTTTCTTTTTCATTTAATTAAATTATCATTTAATAACT
66 ATATTTGGGGAAGATGATATGAAATTGTTTTCTTTTTCATTTAATTAAATTATCATTTAATAACT
38456164 TTTCATCTTTTCAATTTAGTTCTTAGCCTTTTCTAATTTTTCCATGAATGAGTCATTAAAATATC
131 TTTCATCTTTTCAATTTAGTTCTTAGCCTTTTCTAATTTTTCCATGAATGAGTCATTAAAATATC
38456229 TACTAACTACTCTTCAAAATTATTAAAAGTAG
196 TACTAACTACTCTTCAAAATTATTAAAAGTAG
* *
38456261 GACTTGATTTCATAACTTATTAAGCTTGAAAAGTCTTCTTCCTTTCTCCTAGGGTTTCTATAGAA
1 GACTTGATTTCATAACTTATTAAGCTTGAAAAGTCTTCTTCCTATCTCCTAGGGTTTCCATAGAA
38456326 ATATTTGGGGAAGATGATATGAAATTGTTTTCTTTTTCATTTAATTAAATTATCATTTAATAACT
66 ATATTTGGGGAAGATGATATGAAATTGTTTTCTTTTTCATTTAATTAAATTATCATTTAATAACT
38456391 TTTCATCTTTTCAATTTAGTTCTTAGCCTTTTCTAATTTTTCCATGAATGAGTCATTAAAATATC
131 TTTCATCTTTTCAATTTAGTTCTTAGCCTTTTCTAATTTTTCCATGAATGAGTCATTAAAATATC
38456456 TACTAACTACTCTTCAA
196 TACTAACTACTCTTCAA
38456473 TGGTCTAATT
Statistics
Matches: 207, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
227 207 1.00
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (227 bp):
GACTTGATTTCATAACTTATTAAGCTTGAAAAGTCTTCTTCCTATCTCCTAGGGTTTCCATAGAA
ATATTTGGGGAAGATGATATGAAATTGTTTTCTTTTTCATTTAATTAAATTATCATTTAATAACT
TTTCATCTTTTCAATTTAGTTCTTAGCCTTTTCTAATTTTTCCATGAATGAGTCATTAAAATATC
TACTAACTACTCTTCAAAATTATTAAAAGTAG
Found at i:38459708 original size:23 final size:26
Alignment explanation
Indices: 38459658--38459712 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
38459648 CATAGAAATC
*
38459658 TCAATTCAGTCATAATTTCTCACATTT
1 TCAATTCAATCAT-ATTTCTCACATTT
38459685 TCAATTCAATCAT-TTTC-CAC-TTT
1 TCAATTCAATCATATTTCTCACATTT
38459708 TCAAT
1 TCAAT
38459713 CAAATTTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 8 0.30
24 3 0.11
25 4 0.15
27 12 0.44
ACGTcount: A:0.29, C:0.24, G:0.02, T:0.45
Consensus pattern (26 bp):
TCAATTCAATCATATTTCTCACATTT
Found at i:38460203 original size:17 final size:18
Alignment explanation
Indices: 38460169--38460204 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
38460159 TGAATTTCTA
38460169 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
38460187 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
38460204 T
1 T
38460205 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:38461420 original size:16 final size:15
Alignment explanation
Indices: 38461395--38461431 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
38461385 TATAATTTAA
38461395 AATAAAATAATAATT
1 AATAAAATAATAATT
*
38461410 ATATAATATAATAATT
1 A-ATAAAATAATAATT
38461426 AATAAA
1 AATAAA
38461432 TTAAGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAAAATAATAATT
Found at i:38462039 original size:21 final size:21
Alignment explanation
Indices: 38462015--38462084 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
38462005 TGATTTGAAC
38462015 TCATTGAATTGTGGTCTGAGT
1 TCATTGAATTGTGGTCTGAGT
* * **
38462036 TCA-TGATATATGTGACATATGAAC
1 TCATTGA-AT-TGTG--GTCTGAGT
*
38462060 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAATTGTGGTCTGAGT
38462081 TCAT
1 TCAT
38462085 GATGTATGTG
Statistics
Matches: 35, Mismatches: 9, Indels: 10
0.65 0.17 0.19
Matches are distributed among these distances:
20 3 0.09
21 13 0.37
22 4 0.11
23 4 0.11
24 8 0.23
25 3 0.09
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.40
Consensus pattern (21 bp):
TCATTGAATTGTGGTCTGAGT
Found at i:38462063 original size:45 final size:45
Alignment explanation
Indices: 38462010--38462097 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
38462000 CTATGTGATT
38462010 TGAACTCATTGAATTGTGGTCTGAGTTCATGATATATGTGACATA
1 TGAACTCATTGAATTGTGGTCTGAGTTCATGATATATGTGACATA
* *
38462055 TGAACTCATTGAGTTGTGGTCTGAGTTCATGATGTATGTGACA
1 TGAACTCATTGAATTGTGGTCTGAGTTCATGATATATGTGACA
38462098 CATGTTTTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.26, C:0.11, G:0.25, T:0.38
Consensus pattern (45 bp):
TGAACTCATTGAATTGTGGTCTGAGTTCATGATATATGTGACATA
Found at i:38466264 original size:31 final size:31
Alignment explanation
Indices: 38466226--38466289 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
38466216 ACCCATCCAG
38466226 TTTCTCAGATTCAACCCAGAGTAACTCAACA
1 TTTCTCAGATTCAACCCAGAGTAACTCAACA
**
38466257 TTTCTCAGATTCAACCTGGAGTAACTCAACA
1 TTTCTCAGATTCAACCCAGAGTAACTCAACA
38466288 TT
1 TT
38466290 CTGACACTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.30
Consensus pattern (31 bp):
TTTCTCAGATTCAACCCAGAGTAACTCAACA
Found at i:38470547 original size:12 final size:12
Alignment explanation
Indices: 38470530--38470554 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38470520 ATGTAAGTGA
38470530 TCTTGATGATTT
1 TCTTGATGATTT
38470542 TCTTGATGATTT
1 TCTTGATGATTT
38470554 T
1 T
38470555 TACATTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:38470891 original size:17 final size:17
Alignment explanation
Indices: 38470869--38470902 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
38470859 ATCAATTTTC
38470869 GGGCATAGGGGTAAAAT
1 GGGCATAGGGGTAAAAT
38470886 GGGCATAGGGGTAAAAT
1 GGGCATAGGGGTAAAAT
38470903 TCATAGTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.41, T:0.18
Consensus pattern (17 bp):
GGGCATAGGGGTAAAAT
Found at i:38471314 original size:47 final size:45
Alignment explanation
Indices: 38471245--38471510 Score: 214
Period size: 47 Copynumber: 5.7 Consensus size: 45
38471235 TAATTTGTGT
* * * *
38471245 GCCAGTGTAACACATGTATGGGACATGCTTCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-GATGAGA
* * *
38471291 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CCACAGATGAGA
* * *
38471339 GCCAGAGTAAGACATGTTTGGGACATGCATCGGCCTCGACAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-C-C-ACAGATGAGA
* * * * * *
38471386 GCCAGTGTAAGACGTGTCTGGGACACGCATCGACTA-AGA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATG-AGA
* * * *
38471430 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCCGCATATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-G-GC-CACAGATGAGA
38471478 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
38471511 AGCAATTTAT
Statistics
Matches: 175, Mismatches: 32, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
43 4 0.02
44 29 0.17
45 1 0.01
46 20 0.11
47 58 0.33
48 40 0.23
49 18 0.10
50 5 0.03
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATGAGA
Found at i:38471404 original size:94 final size:93
Alignment explanation
Indices: 38471243--38471510 Score: 314
Period size: 94 Copynumber: 2.9 Consensus size: 93
38471233 GGTAATTTGT
* *
38471243 GTGCCAGTGTAACACATGTATGGGACATGCTTCGG-CC-ACATTATGAGAGCCAGTGTAAGACCA
1 GTGCCAGTGTAAGACATGTATGGGACATGCATCGGCCCGACA-TATGAGAGCCAGTGTAAGACCA
*
38471306 TGTCTGGGACATGGCATCG-GTACAGAGATGA
65 TGTCTGGGACATGGCATCGACTA-AGAG-T-A
* * * * *
38471337 GTGCCAGAGTAAGACATGTTTGGGACATGCATCGGCCTCGACAGA-GATAGCCAGTGTAAGA-CG
1 GTGCCAGTGTAAGACATGTATGGGACATGCATCGGCC-CGACATATGAGAGCCAGTGTAAGACCA
* *
38471400 TGTCTGGGACA-CGCATCGACTAAGAGTT
65 TGTCTGGGACATGGCATCGACTAAGAGTA
* * * *
38471428 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCCGCATATATGAGAGCCAGTGTAAGACCA
1 GTGCCAGTGTAAGACATGTATGGGACATGCATCGGCCCG-ACATATGAGAGCCAGTGTAAGACCA
38471493 TGTCTGGGACATGGCATC
65 TGTCTGGGACATGGCATC
38471511 AGCAATTTAT
Statistics
Matches: 147, Mismatches: 19, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
90 2 0.01
91 36 0.24
92 16 0.11
93 22 0.15
94 50 0.34
95 16 0.11
96 2 0.01
97 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (93 bp):
GTGCCAGTGTAAGACATGTATGGGACATGCATCGGCCCGACATATGAGAGCCAGTGTAAGACCAT
GTCTGGGACATGGCATCGACTAAGAGTA
Found at i:38475837 original size:43 final size:42
Alignment explanation
Indices: 38475768--38475934 Score: 201
Period size: 43 Copynumber: 3.9 Consensus size: 42
38475758 AGCTCGTACA
* * * *
38475768 ATGCC-ATATCCCAGATATGGCCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAT-G
* * * * *
38475810 ATGCCACTGTCCTAGACAGGGTCTTACATGAAATCATAATATG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCA-CATATG
* *
38475853 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATATA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAC-ATATG
38475896 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
38475935 CTCGATAACC
Statistics
Matches: 105, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
42 7 0.07
43 94 0.90
44 4 0.04
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATG
Found at i:38495826 original size:40 final size:40
Alignment explanation
Indices: 38495721--38495855 Score: 117
Period size: 40 Copynumber: 3.4 Consensus size: 40
38495711 TTTCATATAA
* * * * * *
38495721 CTATTTTCGTATAACTGATTCATATAATTATTATGCATCT
1 CTATTTCCATATAATTGACTCATATAATCATTATGCATAT
* * * * * *
38495761 CTATTTCCATACAACTGATTAATATAACCATTCTGCATAT
1 CTATTTCCATATAATTGACTCATATAATCATTATGCATAT
* * * *
38495801 CTATTTCCATATAATTTACTCATATAATCATTTTGTAAAT
1 CTATTTCCATATAATTGACTCATATAATCATTATGCATAT
*
38495841 CTAGTTCCATATAAT
1 CTATTTCCATATAAT
38495856 CGATTCATCT
Statistics
Matches: 77, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 77 1.00
ACGTcount: A:0.33, C:0.18, G:0.05, T:0.44
Consensus pattern (40 bp):
CTATTTCCATATAATTGACTCATATAATCATTATGCATAT
Found at i:38495873 original size:40 final size:40
Alignment explanation
Indices: 38495782--38495873 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 40
38495772 CAACTGATTA
* * * **
38495782 ATATAACCATTCTGCATATCTATTTCCATATAATTTACTC
1 ATATAACCATTTTGCAAATCTAGTTCCATATAATCGACTC
* * *
38495822 ATATAATCATTTTGTAAATCTAGTTCCATATAATCGATTC
1 ATATAACCATTTTGCAAATCTAGTTCCATATAATCGACTC
*
38495862 ATCTAACCATTT
1 ATATAACCATTT
38495874 CATATATCTA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.42
Consensus pattern (40 bp):
ATATAACCATTTTGCAAATCTAGTTCCATATAATCGACTC
Found at i:38495883 original size:40 final size:40
Alignment explanation
Indices: 38495797--38495883 Score: 93
Period size: 40 Copynumber: 2.2 Consensus size: 40
38495787 ACCATTCTGC
* ** * **
38495797 ATATCTATTTCCATATAATTTACTCATATAATCATTTTGT
1 ATATCTAGTTCCATATAATCGACTCATATAACCATTTCAT
* * *
38495837 AAATCTAGTTCCATATAATCGATTCATCTAACCATTTCAT
1 ATATCTAGTTCCATATAATCGACTCATATAACCATTTCAT
38495877 ATATCTA
1 ATATCTA
38495884 TTTTTCACAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.34, C:0.18, G:0.03, T:0.44
Consensus pattern (40 bp):
ATATCTAGTTCCATATAATCGACTCATATAACCATTTCAT
Found at i:38497167 original size:17 final size:16
Alignment explanation
Indices: 38497131--38497187 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
38497121 GTTTTTTTAC
*
38497131 TATTTTAATATTAAAT
1 TATTTTAATAATAAAT
*
38497147 TATTTTAATAATATTAT
1 TATTTTAATAATA-AAT
* *
38497164 TATTATAAAACATAAAT
1 TATTTTAATA-ATAAAT
*
38497181 TAATTTA
1 TATTTTA
38497188 TCAATACAAG
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
16 12 0.38
17 17 0.53
18 3 0.09
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
TATTTTAATAATAAAT
Found at i:38499209 original size:46 final size:46
Alignment explanation
Indices: 38499159--38499266 Score: 128
Period size: 46 Copynumber: 2.3 Consensus size: 46
38499149 ATAAGTTCTA
* ** * *
38499159 AGCTCCTACGTATGTTGTGGGCTCGAGAATACAGGA-ATAGGTTTCG
1 AGCTCCTACATATGTTGCAGACGCGAGAATACA-GATATAGGTTTCG
* * *
38499205 AGCTCCCATATATGTTGCAGACGCGAGAATACAGATTTAGGTTTCG
1 AGCTCCTACATATGTTGCAGACGCGAGAATACAGATATAGGTTTCG
38499251 AGCTCCTACATATGTT
1 AGCTCCTACATATGTT
38499267 ACGAATTCGA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
45 2 0.04
46 49 0.96
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (46 bp):
AGCTCCTACATATGTTGCAGACGCGAGAATACAGATATAGGTTTCG
Found at i:38499278 original size:46 final size:46
Alignment explanation
Indices: 38499180--38499283 Score: 122
Period size: 46 Copynumber: 2.3 Consensus size: 46
38499170 ATGTTGTGGG
* *
38499180 CTCGAGAATACAGGAATAGGTTTCGAGCTCCCATATATGTTGCAGA
1 CTCGAGAATACAGGAATAGGTTTCGAGCTCCCACATATGTTACAGA
* * *
38499226 CGCGAGAATACA-GATTTAGGTTTCGAGCTCCTACATATGTTAC-GAA
1 CTCGAGAATACAGGA-ATAGGTTTCGAGCTCCCACATATGTTACAG-A
*
38499272 TTCGAGAATACA
1 CTCGAGAATACA
38499284 AAAATATTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
45 3 0.06
46 46 0.94
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (46 bp):
CTCGAGAATACAGGAATAGGTTTCGAGCTCCCACATATGTTACAGA
Found at i:38509201 original size:19 final size:20
Alignment explanation
Indices: 38509164--38509201 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
38509154 ATAAGGTGGT
38509164 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
38509184 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
38509202 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:38518931 original size:39 final size:39
Alignment explanation
Indices: 38518886--38519051 Score: 233
Period size: 39 Copynumber: 4.3 Consensus size: 39
38518876 GTCTTTAACT
** * * *
38518886 CGGATATTTTTCCAGCACGTAGCTTGCGGACCTTAAGTC
1 CGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTC
* * * * *
38518925 CAGATATATTTCTAGCATATAGCCTACGGATCTCATGTC
1 CGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTC
*
38518964 CGGATATTTTTCCAGCATATAGCCTGCGGATCTCATGTC
1 CGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTC
38519003 CGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTC
1 CGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTC
38519042 CGGATATTTT
1 CGGATATTTT
38519052 CAATCTCATA
Statistics
Matches: 112, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 112 1.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (39 bp):
CGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTC
Found at i:38525205 original size:27 final size:26
Alignment explanation
Indices: 38525161--38525212 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
38525151 CTCGCTGCAA
*
38525161 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
38525188 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
38525213 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:38531040 original size:39 final size:38
Alignment explanation
Indices: 38530981--38531074 Score: 152
Period size: 39 Copynumber: 2.4 Consensus size: 38
38530971 GCTTAAAGAC
* *
38530981 CCGCAGGCTATATGCTGAATTATACCCGGACTTAAGGT
1 CCGCAGGCTATGTGCTGAATTATAACCGGACTTAAGGT
38531019 CCGCAGGCTATGTGCTAGAATTATAACCGGACTTAAGGT
1 CCGCAGGCTATGTGCT-GAATTATAACCGGACTTAAGGT
*
38531058 CCGCAGGCTACGTGCTG
1 CCGCAGGCTATGTGCTG
38531075 GCAATATGTC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
38 16 0.31
39 36 0.69
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (38 bp):
CCGCAGGCTATGTGCTGAATTATAACCGGACTTAAGGT
Found at i:38535931 original size:13 final size:13
Alignment explanation
Indices: 38535915--38535939 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38535905 TTTCTTCTTT
38535915 ATTTGGGATTTTA
1 ATTTGGGATTTTA
38535928 ATTTGGGATTTT
1 ATTTGGGATTTT
38535940 TGCTTATCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (13 bp):
ATTTGGGATTTTA
Found at i:38546135 original size:23 final size:23
Alignment explanation
Indices: 38546109--38546162 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
38546099 TTACCGCTAT
*
38546109 TAGCAGCTTTGCTACGTTACTAC
1 TAGCAGCTTTACTACGTTACTAC
* * *
38546132 TAGCAGCTTTATTGCGTTACTAT
1 TAGCAGCTTTACTACGTTACTAC
38546155 TAGCAGCT
1 TAGCAGCT
38546163 ACGCTACGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (23 bp):
TAGCAGCTTTACTACGTTACTAC
Found at i:38552517 original size:23 final size:23
Alignment explanation
Indices: 38552464--38552519 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
38552454 GCATTTACCG
* *
38552464 CTATTAGCAGCTTTGCTGTGTTA
1 CTATTAGTAGCTTTGCTGCGTTA
*
38552487 CTATTAGTAGCTTTGTTGCGTTA
1 CTATTAGTAGCTTTGCTGCGTTA
38552510 CTATTAGTAG
1 CTATTAGTAG
38552520 TTACACTGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.20, C:0.14, G:0.21, T:0.45
Consensus pattern (23 bp):
CTATTAGTAGCTTTGCTGCGTTA
Found at i:38556192 original size:56 final size:56
Alignment explanation
Indices: 38556095--38556203 Score: 148
Period size: 56 Copynumber: 1.9 Consensus size: 56
38556085 ACCATGGCAT
* * *
38556095 CAATATATGTGTGCGAGTAAGACCATGTTTTATACGTTGGCATCGATATGTGACTC
1 CAATATATGTGTGCGAGTAAGACCATGTCTGAGACGTTGGCATCGATATGTGACTC
* * *
38556151 CAATTTATGTGTGCGAGTAAGACCTTGTCTGGGACAG-TGGCATCGATATGTGA
1 CAATATATGTGTGCGAGTAAGACCATGTCTGAGAC-GTTGGCATCGATATGTGA
38556204 TTACATGCAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
56 45 0.98
57 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (56 bp):
CAATATATGTGTGCGAGTAAGACCATGTCTGAGACGTTGGCATCGATATGTGACTC
Found at i:38558005 original size:93 final size:93
Alignment explanation
Indices: 38557893--38558064 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
38557883 CGCCCATAAG
* *
38557893 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
38557958 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
38557986 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
38558051 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
38558065 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:38558061 original size:46 final size:46
Alignment explanation
Indices: 38557886--38558061 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
38557876 TGTAACCCGC
* * *
38557886 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
38557932 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
38557982 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
38558025 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
38558062 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:38565954 original size:27 final size:27
Alignment explanation
Indices: 38565924--38566099 Score: 192
Period size: 27 Copynumber: 6.5 Consensus size: 27
38565914 ATTGAGTCCA
* * * *
38565924 CACACTCAGTGCTATATAATCAACTCG
1 CACACTTAGTGCTACATAGTCAAATCG
* *
38565951 CACACTTAGTGCTACGTAATCAAATCG
1 CACACTTAGTGCTACATAGTCAAATCG
38565978 CACACTTAGTGCTACATAGTCAAACTCG
1 CACACTTAGTGCTACATAGTCAAA-TCG
** * *
38566006 CACACTTAGTGCCGCATGGTCAATTCG
1 CACACTTAGTGCTACATAGTCAAATCG
* **
38566033 CACACTTAGTGC-ATCATATTCATTTCG
1 CACACTTAGTGCTA-CATAGTCAAATCG
* *
38566060 CACACTTAGTGCAATATAGTCAAATCG
1 CACACTTAGTGCTACATAGTCAAATCG
38566087 CACACTTAGTGCT
1 CACACTTAGTGCT
38566100 GTACAATTTA
Statistics
Matches: 127, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (27 bp):
CACACTTAGTGCTACATAGTCAAATCG
Found at i:38566061 original size:82 final size:81
Alignment explanation
Indices: 38565943--38566098 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
38565933 TGCTATATAA
* *
38565943 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
38566008 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
38566025 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAATATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
38566089 CACTTAGTGC
65 CACTTAGTGC
38566099 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:38566596 original size:12 final size:12
Alignment explanation
Indices: 38566579--38566604 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38566569 ATGGCATACT
38566579 TATGTATATATA
1 TATGTATATATA
38566591 TATGTATATATA
1 TATGTATATATA
38566603 TA
1 TA
38566605 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:38568848 original size:46 final size:46
Alignment explanation
Indices: 38568781--38569092 Score: 388
Period size: 46 Copynumber: 6.7 Consensus size: 46
38568771 AACCCGCCCC
* *
38568781 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
38568827 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
38568875 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
38568920 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
38568968 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
38569013 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
38569059 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
38569093 TGCTCAACCA
Statistics
Matches: 230, Mismatches: 18, Indels: 36
0.81 0.06 0.13
Matches are distributed among these distances:
42 4 0.02
43 8 0.03
44 2 0.01
45 4 0.02
46 136 0.59
47 58 0.25
48 4 0.02
49 2 0.01
50 8 0.03
51 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:38568893 original size:93 final size:93
Alignment explanation
Indices: 38568786--38569046 Score: 504
Period size: 93 Copynumber: 2.8 Consensus size: 93
38568776 GCCCCTAAGT
* *
38568786 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38568851 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
38568879 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38568944 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
38568972 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38569037 CGAGTTCGGA
66 CGAGTTCGGA
38569047 CATTCGCATC
Statistics
Matches: 166, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 166 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:38568900 original size:47 final size:47
Alignment explanation
Indices: 38568832--38569000 Score: 231
Period size: 47 Copynumber: 3.6 Consensus size: 47
38568822 ATCCATAAGT
38568832 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
* * * *
38568879 GAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--TTCA-C
38568925 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
38568972 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
38569001 CATTCGCATC
Statistics
Matches: 105, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 29 0.28
47 58 0.55
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:38573156 original size:119 final size:120
Alignment explanation
Indices: 38572974--38573195 Score: 299
Period size: 119 Copynumber: 1.9 Consensus size: 120
38572964 TACTCGTTCA
* *
38572974 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
* *
38573039 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGGTTTAGTAACTCGCACC
* **
38573094 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCACACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGG
* * *
38573156 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGG
38573196 ACATCATTCG
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGGTTTAGTAACTCGCACC
Found at i:38573196 original size:40 final size:40
Alignment explanation
Indices: 38572953--38573196 Score: 282
Period size: 40 Copynumber: 6.1 Consensus size: 40
38572943 CGGAATTTAA
** *
38572953 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
38572993 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
38573033 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
38573073 CCGGGTTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
38573112 CCGGA-ATTAGTAACTCACACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
38573152 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
38573192 CCGGA
1 CCGGA
38573197 CATCATTCGA
Statistics
Matches: 177, Mismatches: 20, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.01
39 31 0.18
40 133 0.75
41 11 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:38593121 original size:18 final size:17
Alignment explanation
Indices: 38593098--38593132 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
38593088 CATAATGCGG
38593098 GCCCATGTGAGCACACAT
1 GCCCATGT-AGCACACAT
*
38593116 GCCCATGTAGCCCACAT
1 GCCCATGTAGCACACAT
38593133 AGCCTAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.26, C:0.37, G:0.20, T:0.17
Consensus pattern (17 bp):
GCCCATGTAGCACACAT
Found at i:38599932 original size:29 final size:29
Alignment explanation
Indices: 38599873--38599933 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
38599863 TTCCACCTTC
*
38599873 CTTCGCTTATCTCATTCTCAAAACCTGTT
1 CTTCGCTTATCTCATTCTCAAAACCTATT
* * * *
38599902 CTTCGCTTCTCTTATTCTCGAAACTTATT
1 CTTCGCTTATCTCATTCTCAAAACCTATT
38599931 CTT
1 CTT
38599934 TTGACCTACA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.18, C:0.30, G:0.07, T:0.46
Consensus pattern (29 bp):
CTTCGCTTATCTCATTCTCAAAACCTATT
Found at i:38603707 original size:28 final size:28
Alignment explanation
Indices: 38603661--38603716 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
38603651 CAGTACCAAT
** * *
38603661 ACAGTATGGGCCTTTGCCCTATACAGTA
1 ACAGTATGGGCCTAAGCCCAACACAGTA
*
38603689 ACAGTGTGGGCCTAAGCCCAACACAGTA
1 ACAGTATGGGCCTAAGCCCAACACAGTA
38603717 TTAGTACAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (28 bp):
ACAGTATGGGCCTAAGCCCAACACAGTA
Found at i:38605826 original size:27 final size:27
Alignment explanation
Indices: 38605772--38605882 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
38605762 AGCATTGCTG
* *
38605772 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
38605798 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
38605825 CCAGAACAGAT-ATATGTGGTAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * * * *
38605852 CTAGATCAAATAAATGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
38605879 CCAG
1 CCAG
38605883 GACGATTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 15 0.21
27 56 0.78
28 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:38605872 original size:54 final size:53
Alignment explanation
Indices: 38605772--38605882 Score: 141
Period size: 54 Copynumber: 2.1 Consensus size: 53
38605762 AGCATTGCTG
* * *
38605772 CCAGAACAGATAATGTGACAGAGTCACCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAACAAATAAATGTGGCAGAGCCA
** * * *
38605825 CCAGAACAGATATATGTGGTAGAGCCACTAGATCAAATAAATGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGAACAAATAAATGTGGCAGAGCCA
38605879 CCAG
1 CCAG
38605883 GACGATTCCT
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 12 0.24
54 37 0.76
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGAACAAATAAATGTGGCAGAGCCA
Found at i:38607326 original size:24 final size:24
Alignment explanation
Indices: 38607291--38607392 Score: 143
Period size: 24 Copynumber: 4.3 Consensus size: 24
38607281 CCAACACTGT
* *
38607291 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
* *
38607315 TCTCCCTTATCAGCTCCTAAATCT
1 TCTCCCTTATCAACTCCTAAATCC
*
38607339 TATCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
*
38607363 TATCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
38607387 TC-CCCT
1 TCTCCCT
38607393 GACAGACTTT
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
23 4 0.06
24 68 0.94
ACGTcount: A:0.25, C:0.40, G:0.02, T:0.33
Consensus pattern (24 bp):
TCTCCCTTATCAACTCCTAAATCC
Found at i:38619365 original size:79 final size:79
Alignment explanation
Indices: 38619265--38619431 Score: 316
Period size: 79 Copynumber: 2.1 Consensus size: 79
38619255 AATTTACCGA
38619265 TATCAAACTTGCTTCACAACATTAACAACCCTTATGTACATACACAATAGACTAACTTAGCCGAA
1 TATC-AACTTGCTTCACAACATTAACAACCCTTATGTACATACACAATAGACTAACTTAGCCGAA
38619330 GGCCGGTAGCTCATT
65 GGCCGGTAGCTCATT
38619345 TATCAACTTGCTTCACAACATTAACAACCCTTATGTACATACACAATAGACTAACTTAGCCGAAG
1 TATCAACTTGCTTCACAACATTAACAACCCTTATGTACATACACAATAGACTAACTTAGCCGAAG
*
38619410 GCCGGTAGCTCGTT
66 GCCGGTAGCTCATT
38619424 TATCAACT
1 TATCAACT
38619432 GAGCGAACAT
Statistics
Matches: 86, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
79 82 0.95
80 4 0.05
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (79 bp):
TATCAACTTGCTTCACAACATTAACAACCCTTATGTACATACACAATAGACTAACTTAGCCGAAG
GCCGGTAGCTCATT
Found at i:38619690 original size:40 final size:40
Alignment explanation
Indices: 38619590--38619853 Score: 284
Period size: 40 Copynumber: 6.6 Consensus size: 40
38619580 GCTCCTCGTT
* * * *
38619590 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
38619630 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
38619669 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
38619709 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
38619749 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
38619789 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
38619830 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCGG
38619854 GCAGCATTCA
Statistics
Matches: 196, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 142 0.72
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:38625705 original size:48 final size:47
Alignment explanation
Indices: 38625638--38625818 Score: 172
Period size: 48 Copynumber: 3.9 Consensus size: 47
38625628 CGCCAAAGAA
* * *
38625638 ATAGCCAAAGTTATATCAATCTCGCACACTAAGTGCCAATATGTATAT
1 ATAGCCGAAGCTATCTCAATCTCGCACACTAAGTGCCAATAT-TATAT
* * *
38625686 ATAGCCGGAGCTATCTCAATCACGCACACTAAGTGCCAATATATGTAT
1 ATAGCCGAAGCTATCTCAATCTCGCACACTAAGTGCCAATAT-TATAT
* * * * * *
38625734 ATAACCAAAGTTATCT-AGTCTCGCACAATTAGTGCCAATA-TAT-T
1 ATAGCCGAAGCTATCTCAATCTCGCACACTAAGTGCCAATATTATAT
* * * *
38625778 -TAGTCGAAGCTATCTCAGTCTCACACACTTAGTGCCAATAT
1 ATAGCCGAAGCTATCTCAATCTCGCACACTAAGTGCCAATAT
38625819 ATAACCGAAT
Statistics
Matches: 109, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
43 11 0.10
44 23 0.21
45 2 0.02
47 20 0.18
48 53 0.49
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (47 bp):
ATAGCCGAAGCTATCTCAATCTCGCACACTAAGTGCCAATATTATAT
Found at i:38625789 original size:91 final size:95
Alignment explanation
Indices: 38625642--38625820 Score: 231
Period size: 91 Copynumber: 1.9 Consensus size: 95
38625632 AAAGAAATAG
* *
38625642 CCAAAGTTATATCAATCTCGCACACTAAGTGCCAATATGTATATATAGCCGGAGCTATCTCAATC
1 CCAAAGTTATATCAATCTCGCACAATAAGTGCCAATA-GTATATATAGCCGAAGCTATCTCAATC
*
38625707 ACGCACACTAAGTGCCAATATATGTATATAA
65 ACACACACTAAGTGCCAATATATGTATATAA
* * * * * *
38625738 CCAAAGTTATCT-AGTCTCGCACAATTAGTGCCAATA-TAT-T-TAGTCGAAGCTATCTCAGTCT
1 CCAAAGTTATATCAATCTCGCACAATAAGTGCCAATAGTATATATAGCCGAAGCTATCTCAATCA
*
38625799 CACACACTTAGTGCCAATATAT
66 CACACACTAAGTGCCAATATAT
38625821 AACCGAATCA
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
91 37 0.51
92 1 0.01
93 3 0.04
95 21 0.29
96 11 0.15
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.29
Consensus pattern (95 bp):
CCAAAGTTATATCAATCTCGCACAATAAGTGCCAATAGTATATATAGCCGAAGCTATCTCAATCA
CACACACTAAGTGCCAATATATGTATATAA
Found at i:38630620 original size:17 final size:18
Alignment explanation
Indices: 38630588--38630621 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38630578 CAATTCAGAA
38630588 CATTCAATTATCAATCAT
1 CATTCAATTATCAATCAT
*
38630606 CATTTAATT-TCAATCA
1 CATTCAATTATCAATCA
38630622 AAGTCATTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (18 bp):
CATTCAATTATCAATCAT
Found at i:38632171 original size:48 final size:47
Alignment explanation
Indices: 38632112--38632292 Score: 165
Period size: 48 Copynumber: 3.9 Consensus size: 47
38632102 CGCCAAATAA
*
38632112 ATAGCCAAAGCTATATCAATCTCGCACACTAAGTGCCAATATGTATAT
1 ATAGCCGAAGCTATATCAATCTCGCACACTAAGTGCCAATAT-TATAT
* * * *
38632160 ATAGCTGAAGCTATCTCAATCACGCACACTAAGTGCCAATATATGTAT
1 ATAGCCGAAGCTATATCAATCTCGCACACTAAGTGCCAATAT-TATAT
* * * * *
38632208 ATAACCAAAG-T-TATCTAGTCTCGCACAATTAGTGCCAATA-TAT-T
1 ATAGCCGAAGCTATATC-AATCTCGCACACTAAGTGCCAATATTATAT
* * * * *
38632252 -TAGCCGAAGCTTTCTCAGTCTCACACACTTAGTGCCAATAT
1 ATAGCCGAAGCTATATCAATCTCGCACACTAAGTGCCAATAT
38632293 ATAACCGAAT
Statistics
Matches: 109, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
43 7 0.06
44 24 0.22
45 5 0.05
46 3 0.03
47 21 0.19
48 49 0.45
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (47 bp):
ATAGCCGAAGCTATATCAATCTCGCACACTAAGTGCCAATATTATAT
Found at i:38637102 original size:54 final size:54
Alignment explanation
Indices: 38637038--38637299 Score: 312
Period size: 54 Copynumber: 4.9 Consensus size: 54
38637028 TTGGTAAGAT
38637038 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* * *
38637092 AAGGAAATCATGTAAGACCATGCCAAGGCATGACATTGATAAGTTCTTTAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* * * * *
38637146 AAGGAAATCATGTAAGACCATGTCAAGACATGTCATTGATGAGTTACTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTATAAGGC
** * * * *
38637201 AAAGG-TCCCATGTAAGACCATGCCAAGGTATAGCATTGGTGAGTT-TATAAGGC
1 -AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* * * * * *
38637254 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC
38637300 AAAAAGGAAA
Statistics
Matches: 179, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
52 4 0.02
53 40 0.22
54 92 0.51
55 39 0.22
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
Found at i:38642579 original size:47 final size:47
Alignment explanation
Indices: 38642516--38642959 Score: 699
Period size: 47 Copynumber: 9.4 Consensus size: 47
38642506 CAGCCAAGAC
* *
38642516 AGTGTATATAAGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
38642563 AGTGCATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
38642610 AGTATATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
38642657 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
38642704 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
38642751 AGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
38642800 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
38642847 AGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
38642894 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
38642941 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
38642960 TCCCGAAGGG
Statistics
Matches: 368, Mismatches: 27, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 322 0.88
49 46 0.12
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:38642942 original size:237 final size:235
Alignment explanation
Indices: 38642516--38642959 Score: 726
Period size: 237 Copynumber: 1.9 Consensus size: 235
38642506 CAGCCAAGAC
*
38642516 AGTGTATATAAGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAA
1 AGTGTATATAAGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGCATATATGTAATAA
*
38642581 GGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATGTGTGATAAGGCCTAATAGCCGATGTG
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATAGCCGATGTG
* * * * *
38642646 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
131 ATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATAGCCAACGTGATGAATGTGAAAGTGCAT
*
38642711 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
196 AAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
38642751 AGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAAT
1 AGTGTATATA-A-GTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGCATATATGTAAT
* * *
38642816 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGGTAAGGCCTAATGGCCGATG
64 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATAGCCGATG
* * * *
38642881 TGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGC
129 TGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATAGCCAACGTGATGAATGTGAAAGTGC
38642946 ATAAATGTGATAAG
194 ATAAATGTGATAAG
38642960 TCCCGAAGGG
Statistics
Matches: 191, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
235 10 0.05
236 1 0.01
237 180 0.94
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (235 bp):
AGTGTATATAAGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGCATATATGTAATAA
GGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATAGCCGATGTG
ATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATAGCCAACGTGATGAATGTGAAAGTGCAT
AAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:38643134 original size:37 final size:37
Alignment explanation
Indices: 38643078--38643156 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
38643068 CCGAGCTCTA
* *
38643078 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
38643115 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
38643152 AAGAC
1 AAGAC
38643157 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:38647256 original size:75 final size:75
Alignment explanation
Indices: 38647154--38647307 Score: 272
Period size: 75 Copynumber: 2.1 Consensus size: 75
38647144 TGGTTTTTTG
* *
38647154 ATATTTGAAGAAGTTGGGGACGTTTTAGAGTTAGAAAGGGTTTAGGAATAGTTTAAAAATGTTTT
1 ATATTTGAAGAAGCTGGGGACGTTTTAGAGTTAGAAAGGGTTTAAGAATAGTTTAAAAATGTTTT
38647219 AGTTATAAAA
66 AGTTATAAAA
* *
38647229 ATATTTGAAGAAGCTGGGGAGGTTTTAGAGTTAGAAAGGGTTTAAGAATAGTTTGAAAATGTTTT
1 ATATTTGAAGAAGCTGGGGACGTTTTAGAGTTAGAAAGGGTTTAAGAATAGTTTAAAAATGTTTT
38647294 AGTTATAAAA
66 AGTTATAAAA
38647304 ATAT
1 ATAT
38647308 GGGTATTTTT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.38, C:0.01, G:0.25, T:0.36
Consensus pattern (75 bp):
ATATTTGAAGAAGCTGGGGACGTTTTAGAGTTAGAAAGGGTTTAAGAATAGTTTAAAAATGTTTT
AGTTATAAAA
Found at i:38661593 original size:46 final size:46
Alignment explanation
Indices: 38661526--38661648 Score: 192
Period size: 46 Copynumber: 2.7 Consensus size: 46
38661516 TGTAACCCGC
* * *
38661526 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCAGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCAT
* *
38661572 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCAT
*
38661618 CCATAAGTGAACTCGAACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
38661649 TTCGGATGCC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCAT
Found at i:38664407 original size:15 final size:15
Alignment explanation
Indices: 38664389--38664428 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
38664379 TCCAAGATTG
* *
38664389 AGAAGCCCAGAATAA
1 AGAAACCCAAAATAA
*
38664404 AGAAATCCAAAATAA
1 AGAAACCCAAAATAA
38664419 AGAAACCCAA
1 AGAAACCCAA
38664429 GATACGATAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.60, C:0.20, G:0.12, T:0.07
Consensus pattern (15 bp):
AGAAACCCAAAATAA
Found at i:38667151 original size:22 final size:21
Alignment explanation
Indices: 38667110--38667152 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
38667100 AACTTAACAA
38667110 AGCAAATATACCAACCAACATT
1 AGCAAATATACCAA-CAACATT
38667132 AGCATAATATCACCAA-AACAT
1 AGCA-AATAT-ACCAACAACAT
38667153 ATATCACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 9 0.47
23 5 0.26
24 5 0.26
ACGTcount: A:0.51, C:0.26, G:0.05, T:0.19
Consensus pattern (21 bp):
AGCAAATATACCAACAACATT
Found at i:38670318 original size:21 final size:22
Alignment explanation
Indices: 38670271--38670318 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
38670261 GGATGCATGG
* * *
38670271 ACACCATTTGAGTGGTTTATCT
1 ACACCATTGGAGTGATTTATCC
*
38670293 GCACCA-TGGAGTGATTTATCC
1 ACACCATTGGAGTGATTTATCC
38670314 ACACC
1 ACACC
38670319 GTATTAGCAA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (22 bp):
ACACCATTGGAGTGATTTATCC
Found at i:38671935 original size:19 final size:19
Alignment explanation
Indices: 38671911--38671948 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
38671901 ATGATAATTT
38671911 TGCCTAGGATGTAAATTGA
1 TGCCTAGGATGTAAATTGA
38671930 TGCCTAGGATGTAAATTGA
1 TGCCTAGGATGTAAATTGA
38671949 GTTCAATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (19 bp):
TGCCTAGGATGTAAATTGA
Found at i:38673411 original size:18 final size:20
Alignment explanation
Indices: 38673385--38673425 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
38673375 TATGTTAGAA
*
38673385 TTGACTTGGAT-TTA-ATAC
1 TTGAATTGGATGTTATATAC
*
38673403 TTGAATTGGCTGTTATATAC
1 TTGAATTGGATGTTATATAC
38673423 TTG
1 TTG
38673426 TAAATTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 9 0.47
19 3 0.16
20 7 0.37
ACGTcount: A:0.24, C:0.10, G:0.20, T:0.46
Consensus pattern (20 bp):
TTGAATTGGATGTTATATAC
Found at i:38675774 original size:24 final size:24
Alignment explanation
Indices: 38675747--38675794 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
38675737 CTATTTATAA
38675747 AAAAATTA-TACATATATTATTATC
1 AAAAA-TACTACATATATTATTATC
* *
38675771 AAAAATACTACTTATATTTTTATC
1 AAAAATACTACATATATTATTATC
38675795 GTATATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (24 bp):
AAAAATACTACATATATTATTATC
Found at i:38675905 original size:16 final size:16
Alignment explanation
Indices: 38675884--38675919 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
38675874 GTTTTAAATA
*
38675884 TATTATTTTATATTAT
1 TATTATTTTACATTAT
38675900 TATTATTTTACATTAT
1 TATTATTTTACATTAT
38675916 TATT
1 TATT
38675920 TATATATGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTATTTTACATTAT
Found at i:38676015 original size:13 final size:14
Alignment explanation
Indices: 38675875--38676017 Score: 71
Period size: 15 Copynumber: 10.1 Consensus size: 14
38675865 TTATCTTACG
*
38675875 TTTTAAATATATTA
1 TTTTATATATATTA
38675889 TTTTATATTATTATTA
1 TTTTATA-TA-TATTA
*
38675905 TTTTACAT-TATTA
1 TTTTATATATATTA
*
38675918 -TTTATATATGGTTA
1 TTTTATATAT-ATTA
* * * *
38675932 TTATATTTGTGCTTA
1 TTTTATATAT-ATTA
* *
38675947 TATTATATATTAATA
1 TTTTATATA-TATTA
* *
38675962 TATATATAATACATTA
1 T-TTTAT-ATATATTA
*
38675978 TTTT-TATATA-CA
1 TTTTATATATATTA
*
38675990 TGTTATATATATTA
1 TTTTATATATATTA
38676004 TTTTATAT-TATTA
1 TTTTATATATATTA
38676017 T
1 T
38676018 GTCATTTTTA
Statistics
Matches: 95, Mismatches: 24, Indels: 21
0.68 0.17 0.15
Matches are distributed among these distances:
12 10 0.11
13 22 0.23
14 18 0.19
15 23 0.24
16 19 0.20
17 3 0.03
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (14 bp):
TTTTATATATATTA
Found at i:38680891 original size:48 final size:48
Alignment explanation
Indices: 38680745--38680964 Score: 213
Period size: 47 Copynumber: 4.7 Consensus size: 48
38680735 ATTGTGAGCT
* *
38680745 AGTGTAAGACCATGTCAGGGACATGGCATTGGTATTAAGATGAGTGCC
1 AGTGTAAGACCATGTCAGGGACATGGCATCGGCATTAAGATGAGTGCC
* * ** *
38680793 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CATTATGAGAGCC
1 AGTGTAAGACCATGTCAGGGACATGGCATCGG-CATTAAGATGAGTGCC
* * *
38680839 AGTGTAAGACCATATCAGGGACATGGCATCGGCATTAAGATTAGTGCT
1 AGTGTAAGACCATGTCAGGGACATGGCATCGGCATTAAGATGAGTGCC
* * * * *
38680887 AGTGTAAGA-CATGTCTGAGACAT-GCATCAGC--TACGA-GATGTGTC
1 AGTGTAAGACCATGTCAGGGACATGGCATCGGCATTAAGATGA-GTGCC
* *
38680931 AGTGTAAGACCATGTCTGGCACATGGCATCGGCA
1 AGTGTAAGACCATGTCAGGGACATGGCATCGGCA
38680965 CAGACATGCT
Statistics
Matches: 138, Mismatches: 26, Indels: 17
0.76 0.14 0.09
Matches are distributed among these distances:
43 1 0.01
44 16 0.12
45 12 0.09
46 38 0.28
47 39 0.28
48 32 0.23
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCAGGGACATGGCATCGGCATTAAGATGAGTGCC
Found at i:38680909 original size:94 final size:94
Alignment explanation
Indices: 38680740--38680914 Score: 287
Period size: 94 Copynumber: 1.9 Consensus size: 94
38680730 GGGTTATTGT
* * * *
38680740 GAGCTAGTGTAAGACCATGTCAGGGACATGGCATTGGTATTAAGATGAGTGCCAGTGTAAGACAT
1 GAGCCAGTGTAAGACCATATCAGGGACATGGCATCGGCATTAAGATGAGTGCCAGTGTAAGACAT
*
38680805 GTCTGGGACATGCATCGGCCACATTATGA
66 GTCTGAGACATGCATCGGCCACATTATGA
* *
38680834 GAGCCAGTGTAAGACCATATCAGGGACATGGCATCGGCATTAAGATTAGTGCTAGTGTAAGACAT
1 GAGCCAGTGTAAGACCATATCAGGGACATGGCATCGGCATTAAGATGAGTGCCAGTGTAAGACAT
38680899 GTCTGAGACATGCATC
66 GTCTGAGACATGCATC
38680915 AGCTACGAGA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 74 1.00
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.24
Consensus pattern (94 bp):
GAGCCAGTGTAAGACCATATCAGGGACATGGCATCGGCATTAAGATGAGTGCCAGTGTAAGACAT
GTCTGAGACATGCATCGGCCACATTATGA
Found at i:38681863 original size:12 final size:12
Alignment explanation
Indices: 38681846--38681872 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
38681836 CCAAGCACAT
38681846 GTATGTATGTTA
1 GTATGTATGTTA
38681858 GTATGTATGTTA
1 GTATGTATGTTA
38681870 GTA
1 GTA
38681873 AACACACAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (12 bp):
GTATGTATGTTA
Found at i:38681872 original size:88 final size:88
Alignment explanation
Indices: 38681770--38681934 Score: 321
Period size: 88 Copynumber: 1.9 Consensus size: 88
38681760 TGGGTGTGTG
*
38681770 GTATGTATGTTAGTAAACATACAGGCAAAGACACGGCCGTGTGTCTCAGCCGTGTGATAGACACG
1 GTATGTATGTTAGTAAACACACAGGCAAAGACACGGCCGTGTGTCTCAGCCGTGTGATAGACACG
38681835 GCCAAGCACATGTATGTATGTTA
66 GCCAAGCACATGTATGTATGTTA
38681858 GTATGTATGTTAGTAAACACACAGGCAAAGACACGGCCGTGTGTCTCAGCCGTGTGATAGACACG
1 GTATGTATGTTAGTAAACACACAGGCAAAGACACGGCCGTGTGTCTCAGCCGTGTGATAGACACG
38681923 GCCAAGCACATG
66 GCCAAGCACATG
38681935 GGCGTGTGCA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 76 1.00
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (88 bp):
GTATGTATGTTAGTAAACACACAGGCAAAGACACGGCCGTGTGTCTCAGCCGTGTGATAGACACG
GCCAAGCACATGTATGTATGTTA
Found at i:38693911 original size:76 final size:76
Alignment explanation
Indices: 38693785--38693935 Score: 293
Period size: 76 Copynumber: 2.0 Consensus size: 76
38693775 CTTTCCTATG
38693785 AAAGTAGATTCATCAAGGTTTGTTTACATAATTTATTCACTATTTAATTCCACTCCTACTATTTT
1 AAAGTAGATTCATCAAGGTTTGTTTACATAATTTATTCACTATTTAATTCCACTCCTACTATTTT
38693850 TAGTGATTTTT
66 TAGTGATTTTT
*
38693861 AAAGTAGATTCATCAAGGTTTGTTTACATAATTTATTCACTATTTAATTCCATTCCTACTATTTT
1 AAAGTAGATTCATCAAGGTTTGTTTACATAATTTATTCACTATTTAATTCCACTCCTACTATTTT
38693926 TAGTGATTTT
66 TAGTGATTTT
38693936 CCAAATCTAC
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.48
Consensus pattern (76 bp):
AAAGTAGATTCATCAAGGTTTGTTTACATAATTTATTCACTATTTAATTCCACTCCTACTATTTT
TAGTGATTTTT
Found at i:38694731 original size:40 final size:40
Alignment explanation
Indices: 38694687--38694948 Score: 310
Period size: 39 Copynumber: 6.7 Consensus size: 40
38694677 GCTCCTCATT
* *
38694687 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * * *
38694727 CAAATGCTTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
38694767 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
38694806 CAAATGCCTTTGGG-CTTAGCCTGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
38694845 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
38694884 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
38694925 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38694949 CATCATTCAA
Statistics
Matches: 199, Mismatches: 15, Indels: 17
0.86 0.06 0.07
Matches are distributed among these distances:
38 2 0.01
39 124 0.62
40 62 0.31
41 11 0.06
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:38710339 original size:21 final size:20
Alignment explanation
Indices: 38710313--38710354 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
38710303 CCTGCTGTTG
38710313 CCTTGC-TACTCGCACCAACAC
1 CCTTGCTTA-TCGCACC-ACAC
38710334 CCTTGCTTATCGCACCACAC
1 CCTTGCTTATCGCACCACAC
38710354 C
1 C
38710355 ATCAAGACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 13 0.65
22 2 0.10
ACGTcount: A:0.21, C:0.48, G:0.10, T:0.21
Consensus pattern (20 bp):
CCTTGCTTATCGCACCACAC
Found at i:38710489 original size:24 final size:23
Alignment explanation
Indices: 38710460--38710518 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 23
38710450 ATTTTTCTCC
*
38710460 TAAATTTTAATTTTATTTAATTATT
1 TAAATTTTAA-TTTATTGAATTA-T
*
38710485 TAATTTTTCAATTTATTGAATTAT
1 TAAATTTT-AATTTATTGAATTAT
38710509 TAATATTTTA
1 TAA-ATTTTA
38710519 TACTAACTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 5 0.17
25 22 0.76
26 2 0.07
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (23 bp):
TAAATTTTAATTTATTGAATTAT
Found at i:38715475 original size:16 final size:16
Alignment explanation
Indices: 38715451--38715482 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38715441 TTTCATAATA
*
38715451 TAATTCAATTTAATTT
1 TAATCCAATTTAATTT
38715467 TAATCCAATTTAATTT
1 TAATCCAATTTAATTT
38715483 GGGTGAAATA
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:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (16 bp):
TAATCCAATTTAATTT
Found at i:38730687 original size:18 final size:18
Alignment explanation
Indices: 38730660--38730694 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38730650 TTTTTGTTTA
38730660 AATAAATTAATAAGCATT
1 AATAAATTAATAAGCATT
* *
38730678 AATAATTTAATATGCAT
1 AATAAATTAATAAGCAT
38730695 ATATTTAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (18 bp):
AATAAATTAATAAGCATT
Found at i:38744747 original size:27 final size:27
Alignment explanation
Indices: 38744730--38745123 Score: 689
Period size: 27 Copynumber: 14.5 Consensus size: 27
38744720 ATATTAAGTC
* * *
38744730 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
38744757 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
38744785 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
38744812 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
38744839 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
38744866 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
38744893 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
38744920 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
38744947 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
38744974 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
38745001 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
38745029 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
*
38745056 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
*
38745083 CGTACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
38745111 TGCACACTTAGTG
1 CGCACACTTAGTG
38745124 GCACAATTTA
Statistics
Matches: 356, Mismatches: 8, Indels: 5
0.96 0.02 0.01
Matches are distributed among these distances:
27 289 0.81
28 67 0.19
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:38752504 original size:121 final size:121
Alignment explanation
Indices: 38752290--38752530 Score: 473
Period size: 121 Copynumber: 2.0 Consensus size: 121
38752280 TCGAGCTTCG
*
38752290 AATACATAATTTATTCATCAATTAATTCCACTCCTACTATTTTTTTTGTGGTTTTTCAATCTCAT
1 AATACATAATTTATTCATCAATTAATTCCACTCCTACTATTTTTTTTGTGATTTTTCAATCTCAT
38752355 GTCACTGCTGCTGCCAGCATCTGTTACGAAAGTAACTAGGTCCATTTCATGCCTAA
66 GTCACTGCTGCTGCCAGCATCTGTTACGAAAGTAACTAGGTCCATTTCATGCCTAA
38752411 AATACATAATTTATTCATCAATTAATTCCACTCCTACTATTTTTTTTGTGATTTTTCAATCTCAT
1 AATACATAATTTATTCATCAATTAATTCCACTCCTACTATTTTTTTTGTGATTTTTCAATCTCAT
38752476 GTCACTGCTGCTGCCAGCATCTGTTACGAAAGTAACTAGGTCCATTTCATGCCTA
66 GTCACTGCTGCTGCCAGCATCTGTTACGAAAGTAACTAGGTCCATTTCATGCCTA
38752531 CTCCTTGATC
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
121 119 1.00
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (121 bp):
AATACATAATTTATTCATCAATTAATTCCACTCCTACTATTTTTTTTGTGATTTTTCAATCTCAT
GTCACTGCTGCTGCCAGCATCTGTTACGAAAGTAACTAGGTCCATTTCATGCCTAA
Found at i:38753268 original size:28 final size:27
Alignment explanation
Indices: 38753213--38753528 Score: 535
Period size: 28 Copynumber: 11.6 Consensus size: 27
38753203 ATATTAAGTC
* * *
38753213 CGCACACTCAGTGCTATA-AATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
38753239 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
38753267 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
38753294 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
38753322 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
38753349 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
38753377 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
38753404 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
38753432 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
38753459 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
38753487 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
38753514 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38753529 GCACAATTTA
Statistics
Matches: 280, Mismatches: 4, Indels: 11
0.95 0.01 0.04
Matches are distributed among these distances:
26 16 0.06
27 130 0.46
28 134 0.48
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:38753302 original size:55 final size:55
Alignment explanation
Indices: 38753213--38753528 Score: 580
Period size: 55 Copynumber: 5.8 Consensus size: 55
38753203 ATATTAAGTC
* * * *
38753213 CGCACACTCAGTGCTATA-AATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
38753267 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
38753322 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
38753377 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
38753432 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
38753487 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
38753529 GCACAATTTA
Statistics
Matches: 256, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
54 16 0.06
55 240 0.94
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:38755576 original size:3 final size:3
Alignment explanation
Indices: 38755570--38755625 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
38755560 AAAATAATAA
*
38755570 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TTG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
38755618 TAG TAG TA
1 TAG TAG TA
38755626 CTAATAGTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TAG
Found at i:38757587 original size:79 final size:78
Alignment explanation
Indices: 38757485--38757707 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 78
38757475 GCTCCTCGTT
* *
38757485 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
38757550 ATTTAGTAACTTGCA
64 AATTAGTAACTCGCA
*
38757565 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
38757628 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
38757643 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
38757706 GA
63 GA
38757708 CATCATTCAA
Statistics
Matches: 124, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
78 46 0.37
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:38757605 original size:39 final size:40
Alignment explanation
Indices: 38757485--38757707 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
38757475 GCTCCTCGTT
* *
38757485 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * * *
38757525 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
38757565 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
38757604 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
38757643 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
38757684 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38757708 CATCATTCAA
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 2 0.01
39 88 0.54
40 63 0.38
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:38765592 original size:39 final size:40
Alignment explanation
Indices: 38765475--38765697 Score: 230
Period size: 39 Copynumber: 5.7 Consensus size: 40
38765465 GCTCCTCGTT
* * *
38765475 CAAATGCCTTCGGGACATAGCTCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
** * * *
38765515 CAAATGTATTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
38765555 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
38765594 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
38765633 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
38765674 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38765698 CATCATTCAA
Statistics
Matches: 159, Mismatches: 16, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
38 2 0.01
39 88 0.55
40 58 0.36
41 11 0.07
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:38773238 original size:40 final size:39
Alignment explanation
Indices: 38773194--38773324 Score: 199
Period size: 40 Copynumber: 3.3 Consensus size: 39
38773184 GCTCCTCGTT
* * *
38773194 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGTT-TAGTAACTCGCA
38773234 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-TTTAGTAACTCGCA
*
38773274 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCC-GGTTTAGTAACTCGCA
38773314 CAAATGCCTTC
1 CAAATGCCTTC
38773325 AGATCTTAGT
Statistics
Matches: 85, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
40 82 0.96
41 3 0.04
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGGTTTAGTAACTCGCA
Found at i:38773339 original size:80 final size:81
Alignment explanation
Indices: 38773194--38773376 Score: 207
Period size: 80 Copynumber: 2.3 Consensus size: 81
38773184 GCTCCTCGTT
* * * * *
38773194 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGATTATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGG
*
38773259 AT-TTAGTAAC-TCGCA
66 ATATT-GTAACTTAGCA
**
38773274 CAAATGCCTTCGGGACTTAACCCAGATT-TAGTAACTCGCACAAATGCCTTC-AGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAACCC-GATTATAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCC
*
38773337 GGATATTGTCACTTAGCA
64 GGATATTGTAACTTAGCA
*
38773355 C-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAACCCG
38773377 GACAGCATTC
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
78 1 0.01
79 19 0.21
80 59 0.66
81 10 0.11
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAACCCGATTATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGG
ATATTGTAACTTAGCA
Found at i:38780857 original size:39 final size:39
Alignment explanation
Indices: 38780810--38780938 Score: 204
Period size: 39 Copynumber: 3.3 Consensus size: 39
38780800 TATATGAGAT
*
38780810 TGGAAATATATCCGGACATAAGGTCCGCAGGCTATATGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
*
38780849 TGGAAATATATCCGAACATGAGGTCCGCAGGCTATATGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
* **
38780888 TGGAAATATATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
*
38780927 TGGAAAAATATC
1 TGGAAATATATC
38780939 TGGGTTAAAG
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.23
Consensus pattern (39 bp):
TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
Found at i:38784220 original size:132 final size:132
Alignment explanation
Indices: 38784065--38784323 Score: 464
Period size: 132 Copynumber: 2.0 Consensus size: 132
38784055 TCACATAGCC
*
38784065 GTAAGTAAATTTGGGCTAAATGGGCCACACGAGCGTGTGGGCCCACTTGGGCCGAGTAATGGGCC
1 GTAACTAAATTTGGGCTAAATGGGCCACACGAGCGTGTGGGCCCACTTGGGCCGAGTAATGGGCC
38784130 TCGGGCCCATTTACACCGTTATGATCATTTAGGTTATCTGTATCATTCGAGGCGATTGTAGAACT
66 TCGGGCCCATTTACACCGTTATGATCATTTAGGTTATCTGTATCATTCGAGGCGATTGTAGAACT
38784195 TT
131 TT
38784197 GTAACTAAATTTGGGCTAAATGGGCCACACGAGCGTGTGGGCCCACTTGGGCCGAGTAATGGGCC
1 GTAACTAAATTTGGGCTAAATGGGCCACACGAGCGTGTGGGCCCACTTGGGCCGAGTAATGGGCC
* * * * *
38784262 TTGGGCCTATTTACACCGTTATGATCATTTTGGTTATCTGTGTCGTTCGAGGCGATTGTAGA
66 TCGGGCCCATTTACACCGTTATGATCATTTAGGTTATCTGTATCATTCGAGGCGATTGTAGA
38784324 CCTTCGGAGG
Statistics
Matches: 121, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 121 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (132 bp):
GTAACTAAATTTGGGCTAAATGGGCCACACGAGCGTGTGGGCCCACTTGGGCCGAGTAATGGGCC
TCGGGCCCATTTACACCGTTATGATCATTTAGGTTATCTGTATCATTCGAGGCGATTGTAGAACT
TT
Found at i:38784421 original size:27 final size:27
Alignment explanation
Indices: 38784364--38784589 Score: 229
Period size: 27 Copynumber: 8.4 Consensus size: 27
38784354 CCCCAAAATA
* * * *
38784364 GGTAAAATGACCGTAATGCCCTTATAA
1 GGTAAAATGACCGTAATACCCCTGTAG
** *
38784391 GGTAAAATGATTGTAATACCCCTGTGG
1 GGTAAAATGACCGTAATACCCCTGTAG
*
38784418 GGTAAAATGACCGTAACACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* * *
38784445 GGTAAAATTACCGTAATACCTCTATA-
1 GGTAAAATGACCGTAATACCCCTGTAG
* *
38784471 AGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* *
38784498 TGTAAAATGACCGTAATATCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* **
38784525 GGTAAAATGACTGTAATGTCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* * ** * *
38784552 GATAAAATGATCGTAATATTCTTGTAT
1 GGTAAAATGACCGTAATACCCCTGTAG
38784579 GGTAAAATGAC
1 GGTAAAATGAC
38784590 AATTATGCTC
Statistics
Matches: 163, Mismatches: 35, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
26 21 0.13
27 142 0.87
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAG
Found at i:38784503 original size:80 final size:81
Alignment explanation
Indices: 38784364--38784589 Score: 244
Period size: 80 Copynumber: 2.8 Consensus size: 81
38784354 CCCCAAAATA
* ** *
38784364 GGTAAAATGACCGTAATGCCCTTATAAGGTAAAATGATTGTAATACCCCTGTGGGGTAAAATGAC
1 GGTAAAATGACCGTAATACCCTTATAAGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGAC
38784429 CGTAACACCCCTGTAG
66 CGTAACACCCCTGTAG
* * *
38784445 GGTAAAATTACCGTAATA-CCTCTATAA-GTAAAATGACCGTAATGCCCCTGTAGTGTAAAATGA
1 GGTAAAATGACCGTAATACCCT-TATAAGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGA
* *
38784508 CCGTAATATCCCTGTAG
65 CCGTAACACCCCTGTAG
* * * * ** * *
38784525 GGTAAAATGACTGTAATGTCCC-TGT-AGGATAAAATGATCGTAATATTCTTGTATGGTAAAATG
1 GGTAAAATGACCGTAAT-ACCCTTATAAGG-TAAAATGACCGTAATACCCCTGTAGGGTAAAATG
38784588 AC
64 AC
38784590 AATTATGCTC
Statistics
Matches: 120, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
79 1 0.01
80 67 0.56
81 50 0.42
82 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (81 bp):
GGTAAAATGACCGTAATACCCTTATAAGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGAC
CGTAACACCCCTGTAG
Found at i:38784551 original size:107 final size:107
Alignment explanation
Indices: 38784365--38784569 Score: 277
Period size: 107 Copynumber: 1.9 Consensus size: 107
38784355 CCCAAAATAG
* ** *
38784365 GTAAAATGACCGTAATGCCCTTATAAGGTAAAATGATTGTAATACCCCTGTGGGGTAAAATGACC
1 GTAAAATGACCGTAATGCCCCTATAAGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACC
* *
38784430 GTAACACCCCTGTAGGGTAAAATTACCGTAATACCTCTATAA
66 GTAACACCCCTGTAGGATAAAATGACCGTAATACCTCTATAA
* *
38784472 GTAAAATGACCGTAATGCCCCTGT-AGTGTAAAATGACCGTAATATCCCTGTAGGGTAAAATGAC
1 GTAAAATGACCGTAATGCCCCTATAAG-GTAAAATGACCGTAATACCCCTGTAGGGTAAAATGAC
* *** *
38784536 TGTAATGTCCCTGTAGGATAAAATGATCGTAATA
65 CGTAACACCCCTGTAGGATAAAATGACCGTAATA
38784570 TTCTTGTATG
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
106 2 0.02
107 82 0.98
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (107 bp):
GTAAAATGACCGTAATGCCCCTATAAGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACC
GTAACACCCCTGTAGGATAAAATGACCGTAATACCTCTATAA
Found at i:38784763 original size:27 final size:27
Alignment explanation
Indices: 38784733--38784784 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
38784723 AATACTATAC
*
38784733 TGGTGACTATGTCACATTCACTGTTAT
1 TGGTGACTATGCCACATTCACTGTTAT
* * *
38784760 TGGTGGCTTTGCCACATTTACTGTT
1 TGGTGACTATGCCACATTCACTGTT
38784785 TCTAGCAGCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.42
Consensus pattern (27 bp):
TGGTGACTATGCCACATTCACTGTTAT
Found at i:38785059 original size:61 final size:60
Alignment explanation
Indices: 38784934--38785059 Score: 146
Period size: 61 Copynumber: 2.1 Consensus size: 60
38784924 ATTGCATTAC
* * *
38784934 ACTGTACTGATACTGTATTGGGCTTAGGCCACACTATTACTGTATAGGGCGAAGGCCCAG
1 ACTGTACTGATACTGAATAGGGCTCAGGCCACACTATTACTGTATAGGGCGAAGGCCCAG
* * * * **
38784994 ACTGTATTGATACTGAATAGGGCTCAGGCCCAGACTGTTACTG-ATCTGGGCTTAGGCCCAG
1 ACTGTACTGATACTGAATAGGGCTCAGG-CCACACTATTACTGTAT-AGGGCGAAGGCCCAG
38785055 ACTGT
1 ACTGT
38785060 GTTATTCACT
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
60 26 0.47
61 29 0.53
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (60 bp):
ACTGTACTGATACTGAATAGGGCTCAGGCCACACTATTACTGTATAGGGCGAAGGCCCAG
Found at i:38785715 original size:21 final size:21
Alignment explanation
Indices: 38785691--38785734 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
38785681 TAAAATAAGA
38785691 AAAATACTAA-TAGAATGT-CCT
1 AAAATAC-AACTA-AATGTACCT
38785712 AAAATACAACTAAATGTACCT
1 AAAATACAACTAAATGTACCT
38785733 AA
1 AA
38785735 GTACAGGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.52, C:0.16, G:0.07, T:0.25
Consensus pattern (21 bp):
AAAATACAACTAAATGTACCT
Found at i:38803754 original size:30 final size:30
Alignment explanation
Indices: 38803720--38803780 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 30
38803710 AGTGAAGAAG
38803720 GCTAAGGAT-GCCGAGGAGGTGAAACAAATC
1 GCTAA-GATAGCCGAGGAGGTGAAACAAATC
38803750 GCTAAGATAGCCGAGGAGGTGAAACAAATC
1 GCTAAGATAGCCGAGGAGGTGAAACAAATC
38803780 G
1 G
38803781 AACGGAAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 3 0.10
30 27 0.90
ACGTcount: A:0.38, C:0.16, G:0.33, T:0.13
Consensus pattern (30 bp):
GCTAAGATAGCCGAGGAGGTGAAACAAATC
Found at i:38806580 original size:43 final size:43
Alignment explanation
Indices: 38806527--38806611 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
38806517 TGGGAAAGAT
*
38806527 TAACGATGGACTTTGTGAGTGGGTTACCTTCGACACCCACCAG
1 TAACAATGGACTTTGTGAGTGGGTTACCTTCGACACCCACCAG
*
38806570 TAACAATGGACTTTGTGAGTGGGTTACCTTTGACACCCACCA
1 TAACAATGGACTTTGTGAGTGGGTTACCTTCGACACCCACCA
38806612 AGAAAGATTC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (43 bp):
TAACAATGGACTTTGTGAGTGGGTTACCTTCGACACCCACCAG
Found at i:38808376 original size:15 final size:15
Alignment explanation
Indices: 38808356--38808385 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38808346 CAACACTTGT
38808356 GCCGAAACCACAAAA
1 GCCGAAACCACAAAA
*
38808371 GCCGAAACCTCAAAA
1 GCCGAAACCACAAAA
38808386 AATACATTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.33, G:0.13, T:0.03
Consensus pattern (15 bp):
GCCGAAACCACAAAA
Found at i:38808761 original size:65 final size:65
Alignment explanation
Indices: 38808657--38808851 Score: 342
Period size: 65 Copynumber: 3.0 Consensus size: 65
38808647 AAAAAAGGAG
38808657 AGTTAAAAACCTTTAGTTCCGGCCTAAAGGTTTTTAACTGACGTTTTCTGTCAATGATTAATGTC
1 AGTTAAAAACCTTTAGTTCCGGCCTAAAGGTTTTTAACTGACGTTTTCTGTCAATGATTAATGTC
38808722 AGTTAAAAACCTTTAGTTCCGGCCTAAAGGTTTTTAACTGACGTTTTCTGTCAATGATTAATGTC
1 AGTTAAAAACCTTTAGTTCCGGCCTAAAGGTTTTTAACTGACGTTTTCTGTCAATGATTAATGTC
38808787 AGTTAAAAACCTTTCA-TGT--GGCTCTAAAGGTTTTTAACTGACGTTTTCTGTCAATGATTAAT
1 AGTTAAAAACCTTT-AGT-TCCGGC-CTAAAGGTTTTTAACTGACGTTTTCTGTCAATGATTAAT
38808849 GTC
63 GTC
38808852 TTCTTAAGTG
Statistics
Matches: 127, Mismatches: 0, Indels: 6
0.95 0.00 0.05
Matches are distributed among these distances:
64 3 0.02
65 122 0.96
66 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (65 bp):
AGTTAAAAACCTTTAGTTCCGGCCTAAAGGTTTTTAACTGACGTTTTCTGTCAATGATTAATGTC
Found at i:38811399 original size:28 final size:28
Alignment explanation
Indices: 38811337--38812273 Score: 1777
Period size: 28 Copynumber: 33.5 Consensus size: 28
38811327 TATTAAGTCC
* * * *
38811337 GCACACTCAGTGTTATATAATC-AACTC
1 GCACACTTAGTGCTACATAATCAAACTT
*
38811364 GCACACTTAGTGCTATATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38811392 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38811420 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38811448 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38811476 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38811504 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38811532 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38811560 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38811588 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38811616 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38811644 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38811672 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38811700 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38811728 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38811756 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38811784 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38811812 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38811840 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38811868 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38811896 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38811924 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38811952 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38811980 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38812008 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38812036 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38812064 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38812092 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38812120 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
*
38812148 GCACACTTAGTGCTATATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
38812176 GCACACTTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTT
* *
38812204 GCACACTTAGTGCTATATAATCAAACTC
1 GCACACTTAGTGCTACATAATCAAACTT
* *
38812232 GCACACTTAGTGCTATATAATCAAACTC
1 GCACACTTAGTGCTACATAATCAAACTT
38812260 GCACACTTAGTGCT
1 GCACACTTAGTGCT
38812274 GTACAATTTA
Statistics
Matches: 901, Mismatches: 8, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
27 20 0.02
28 881 0.98
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.29
Consensus pattern (28 bp):
GCACACTTAGTGCTACATAATCAAACTT
Found at i:38819499 original size:124 final size:123
Alignment explanation
Indices: 38819275--38819511 Score: 429
Period size: 124 Copynumber: 1.9 Consensus size: 123
38819265 TACAGGTTTG
* *
38819275 TTTTGCAAAACAAGTGTCATACTAAGTTGTTATTACATTTTAAAAACATTTTTCATTGCAAAAGC
1 TTTTGCAAAACAAGTGTCATAATAAGTTGTTATTACATTTTAAAAACATTGTTCATTGCAAAAGC
* *
38819340 TTTTAAAACGAGTTGCGGAACGTGGTAGTTGAAAATCATTTGTCTTTTAAAGGTTTTT
66 TTTTAAAACAAGTTGCGAAACGTGGTAGTTGAAAATCATTTGTCTTTTAAAGGTTTTT
38819398 TTTTAGCAAAACAAGTGTCATAATAAGTTGTTATTACATTTTAAAAACATTGTTCATTGCAAAAG
1 TTTT-GCAAAACAAGTGTCATAATAAGTTGTTATTACATTTTAAAAACATTGTTCATTGCAAAAG
38819463 CTTTTAAAACAAGTTGCGAAACGTGGTAGTTGAAAATCATTTGTCTTTT
65 CTTTTAAAACAAGTTGCGAAACGTGGTAGTTGAAAATCATTTGTCTTTT
38819512 GAAAATCGAG
Statistics
Matches: 109, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
123 4 0.04
124 105 0.96
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (123 bp):
TTTTGCAAAACAAGTGTCATAATAAGTTGTTATTACATTTTAAAAACATTGTTCATTGCAAAAGC
TTTTAAAACAAGTTGCGAAACGTGGTAGTTGAAAATCATTTGTCTTTTAAAGGTTTTT
Found at i:38820342 original size:37 final size:37
Alignment explanation
Indices: 38820300--38820375 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
38820290 ATTAATGAGT
38820300 ATAATTAAAGTAGAGGTCCTTAAATGGAAATTAGATC
1 ATAATTAAAGTAGAGGTCCTTAAATGGAAATTAGATC
*
38820337 ATAATTAAAGTAGAGGTCCTTAAATGGTAATTAGATC
1 ATAATTAAAGTAGAGGTCCTTAAATGGAAATTAGATC
38820374 AT
1 AT
38820376 TAGGTTTTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (37 bp):
ATAATTAAAGTAGAGGTCCTTAAATGGAAATTAGATC
Found at i:38821494 original size:53 final size:53
Alignment explanation
Indices: 38821312--38821518 Score: 216
Period size: 53 Copynumber: 3.8 Consensus size: 53
38821302 ATTAGGGTTT
* * * * *
38821312 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * *
38821366 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACAATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * * *
38821421 AAAGATCCCATGTAAAACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
38821474 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
38821519 TACAAAGGAA
Statistics
Matches: 122, Mismatches: 29, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 45 0.37
54 38 0.31
55 39 0.32
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:38822034 original size:32 final size:32
Alignment explanation
Indices: 38821984--38822054 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
38821974 AAGAAAGTAT
*
38821984 GAAAGAGTAAGAGTTGGCCATGGAACAGTTAG
1 GAAACAGTAAGAGTTGGCCATGGAACAGTTAG
* *
38822016 GAAACAGTTAGAGTTGGCCATGGAATAGTTAG
1 GAAACAGTAAGAGTTGGCCATGGAACAGTTAG
38822048 GAAACAG
1 GAAACAG
38822055 CAGCAATGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.38, C:0.10, G:0.32, T:0.20
Consensus pattern (32 bp):
GAAACAGTAAGAGTTGGCCATGGAACAGTTAG
Found at i:38830420 original size:34 final size:34
Alignment explanation
Indices: 38830372--38830457 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 34
38830362 TAGTACAAAA
* * ** **
38830372 CAGTCTGGGCCTTAGCCCTTTTTAATGGCAATAT
1 CAGTGTGGGCCTTAGCCCATTACAATAACAATAT
* *
38830406 CAGTGTGGGCCTTAGCCCATTACAGTAACAGTAT
1 CAGTGTGGGCCTTAGCCCATTACAATAACAATAT
38830440 CAGTGTGGGCCTTAGCCC
1 CAGTGTGGGCCTTAGCCC
38830458 CATTTCAGTA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (34 bp):
CAGTGTGGGCCTTAGCCCATTACAATAACAATAT
Found at i:38830471 original size:34 final size:34
Alignment explanation
Indices: 38830403--38830476 Score: 123
Period size: 34 Copynumber: 2.2 Consensus size: 34
38830393 TTAATGGCAA
38830403 TATCAGTGTGGGCCTTAGCCCATTACAGTAACAG
1 TATCAGTGTGGGCCTTAGCCCATTACAGTAACAG
*
38830437 TATCAGTGTGGGCCTTAGCCCCATTTCAGT-ACAG
1 TATCAGTGTGGGCCTTAG-CCCATTACAGTAACAG
38830471 TATCAG
1 TATCAG
38830477 AGATCCATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
34 28 0.74
35 10 0.26
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.28
Consensus pattern (34 bp):
TATCAGTGTGGGCCTTAGCCCATTACAGTAACAG
Found at i:38843783 original size:27 final size:26
Alignment explanation
Indices: 38843747--38843832 Score: 118
Period size: 27 Copynumber: 3.2 Consensus size: 26
38843737 AGCATAGCTG
* *
38843747 CCAGAATAGATATTGTGATAGAGTCA
1 CCAGAATAGATATTGTGGTAGAGCCA
*
38843773 CCAGATATAGATATTGTGGCAGAGCCA
1 CCAGA-ATAGATATTGTGGTAGAGCCA
38843800 CCAGAAATAGATATTGTGGTAGAGCCA
1 CCAG-AATAGATATTGTGGTAGAGCCA
*
38843827 CAAGAA
1 CCAGAA
38843833 CGCTTCCTCC
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
26 7 0.13
27 45 0.85
28 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.22
Consensus pattern (26 bp):
CCAGAATAGATATTGTGGTAGAGCCA
Found at i:38854895 original size:40 final size:40
Alignment explanation
Indices: 38854817--38855040 Score: 256
Period size: 40 Copynumber: 5.5 Consensus size: 40
38854807 ACCCAAGTAT
* * *
38854817 CTTCGGGATTTAG-CCGGATATCG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
38854856 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
38854896 CTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
38854936 CTTCGGGACATAGCCCGGGTATAG-CAACTACTCGCAAAAATAC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
38854979 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
38855019 CTTCGGGACTTAGCCCGTATAT
1 CTTCGGGACTTAGCCCGGATAT
38855041 CATCCGAATA
Statistics
Matches: 156, Mismatches: 22, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
39 12 0.08
40 110 0.71
41 1 0.01
43 33 0.21
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:38855013 original size:83 final size:80
Alignment explanation
Indices: 38854817--38855040 Score: 272
Period size: 83 Copynumber: 2.8 Consensus size: 80
38854807 ACCCAAGTAT
* * * * *
38854817 CTTCGGGATTTAG-CCGGATATCGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
** *
38854881 CACTAGCATGAATGC
66 CACTAGCAAAAATAC
* * * *
38854896 CTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAATGCCTTCGGGACATAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
38854960 CAACTACTCGCAAAAATAC
66 C-ACTA---GCAAAAATAC
* *
38854979 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGTATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
38855041 CATCCGAATA
Statistics
Matches: 122, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
79 13 0.11
80 46 0.38
83 63 0.52
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCAAAAATAC
Found at i:38857694 original size:18 final size:18
Alignment explanation
Indices: 38857671--38857706 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
38857661 TTCGATGTAA
38857671 GGCACATGGCCGTGTCCT
1 GGCACATGGCCGTGTCCT
*
38857689 GGCACATGGCTGTGTCCT
1 GGCACATGGCCGTGTCCT
38857707 AGCCCATGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.31, G:0.33, T:0.25
Consensus pattern (18 bp):
GGCACATGGCCGTGTCCT
Found at i:38857714 original size:18 final size:18
Alignment explanation
Indices: 38857672--38857714 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
38857662 TCGATGTAAG
*
38857672 GCACATGGCCGTGTCCTG
1 GCACATGGCCGTGTCCTA
*
38857690 GCACATGGCTGTGTCCTA
1 GCACATGGCCGTGTCCTA
*
38857708 GCCCATG
1 GCACATG
38857715 TCCTTACCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.14, C:0.33, G:0.30, T:0.23
Consensus pattern (18 bp):
GCACATGGCCGTGTCCTA
Done.