Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 36 of 145
Found at i:11541690 original size:131 final size:131
Alignment explanation
Indices: 11541518--11541865 Score: 579
Period size: 131 Copynumber: 2.7 Consensus size: 131
11541508 CGACAACCCT
* * * * *
11541518 AGTCCTATCTCCCAGGTCAGCAGTAGAATGGGTTGGAAATTACAGATCTTATCTCCCTAAGTAGT
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTATCTCCCTAAGCAGT
* *
11541583 AGTGGAGCAAATCGAAGACGACGAATATTATCTTCCATAGGAGTAGGGAATCAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGACGAATATTATCTTCCATAAGAGTAGGGAATCAGATTTAAGCCAC
11541648 A
131 A
11541649 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTATCTCCCTAAGCAGT
* ** * *
11541714 AGTGGAGCAGATTGAAGACGGTGAATCTTATCTTCCCTAAGAGTAGGGAATCAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGACGAATATTATCTTCCATAAGAGTAGGGAATCAGATTTAAGCCAC
11541779 A
131 A
*
11541780 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTATCTCCCTAAGGAGT
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTATCTCCCTAAGCAGT
11541845 AGTGGAGCAGATCGAAGACGA
66 AGTGGAGCAGATCGAAGACGA
11541866 ATTCAGATCT
Statistics
Matches: 202, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
131 202 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (131 bp):
AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACGACGAATATTATCTTCCATAAGAGTAGGGAATCAGATTTAAGCCAC
A
Found at i:11541718 original size:44 final size:43
Alignment explanation
Indices: 11541670--11542247 Score: 179
Period size: 44 Copynumber: 13.1 Consensus size: 43
11541660 CCTGGTCAGC
*
11541670 AGTGGAATAGGTTAGAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATT-GAAATTACAGATCTTATCTCCCTAAGCAGT
** * *
11541714 AGTGGAGCAGATTG-AA-GACGGTGAATCTTATCTTCCCTAAG-AGT
1 AGTGGAATAGATTGAAATTAC--AG-ATCTTATC-TCCCTAAGCAGT
* *** * * *
11541758 AG-GGAATCAGATTTAAGCCACA-AGTCCTATCTCCCT-GGTCAGC
1 AGTGGAAT-AGATTGAAATTACAGA-TCTTATCTCCCTAAG-CAGT
* *
11541801 AGTGGAATAGGTTAGAAATTACAGATCTTATCTCCCTAAGGAGT
1 AGTGGAATAGATT-GAAATTACAGATCTTATCTCCCTAAGCAGT
** * *
11541845 AGTGGAGCAGATCGAAGACGAATT-CAGATCTTATCTCCCTAAGGAGT
1 AGTGGAATAGAT---TGA--AATTACAGATCTTATCTCCCTAAGCAGT
** * *** * *
11541892 AGTGGAGCAGATCGAAGACGGC-GAATCTTATCTTCCC-CAGGAGT
1 AGTGGAATAGATTGAA-ATTACAG-ATCTTATC-TCCCTAAGCAGT
* *** *
11541936 AG-GGAAGTAGATTTAAGCCACA-AGTCTTATCTCCCT-GGTCAGT
1 AGTGGAA-TAGATTGAAATTACAGA-TCTTATCTCCCTAAG-CAGT
*
11541979 AGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATT-GAAATTACAGATCTTATCTCCCTAAGCAGT
* * ** * *
11542023 AGTGGAGTAGATCGAAGATGGC-GAATCTTATCTTCCC-CAGGAGT
1 AGTGGAATAGATTGAA-ATTACAG-ATCTTATC-TCCCTAAGCAGT
* * * *** * * *
11542067 AG-GGAAGCAAATTTAAGCCACTA-ATCCTATCTCCCT-GGTCAGC
1 AGTGGAA-TAGATTGAAATTAC-AGATCTTATCTCCCTAAG-CAGT
11542110 AGTGGAATATG-TTGAAGATTACAGATCTTATCTCCCTAAGCAGT
1 AGTGGAATA-GATTGAA-ATTACAGATCTTATCTCCCTAAGCAGT
** * * ** * * *
11542154 AGTGGAGCAGATCGAAGTCCCCAG-CCTTGTCTCCCT-AGCAGC
1 AGTGGAATAGATTGAAAT-TACAGATCTTATCTCCCTAAGCAGT
* * * *
11542196 AGTGGAGTAGGTTAAAAAAATTACAGATCTTATCTTCCTAAGCAGT
1 AGTGGAATAGATT---GAAATTACAGATCTTATCTCCCTAAGCAGT
11542242 AGTGGA
1 AGTGGA
11542248 GCAGATCAAA
Statistics
Matches: 387, Mismatches: 95, Indels: 102
0.66 0.16 0.17
Matches are distributed among these distances:
41 3 0.01
42 35 0.09
43 80 0.21
44 181 0.47
45 34 0.09
46 15 0.04
47 35 0.09
48 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (43 bp):
AGTGGAATAGATTGAAATTACAGATCTTATCTCCCTAAGCAGT
Found at i:11541790 original size:87 final size:87
Alignment explanation
Indices: 11541695--11541984 Score: 238
Period size: 87 Copynumber: 3.3 Consensus size: 87
11541685 AAATTACAGA
11541695 TCTTATCTCCCTAAG-CAGTAGTGGAGCAGATTGAAGACGGTGAATCTTATCTTCCCTAAGAGTA
1 TCTTATCTCCCT-AGTCAGTAGTGGAGCAGATTGAAGACGGTGAATCTTATCTTCCCTAAGAGTA
11541759 GGGAATCAGATTTAAGCCACAAG
65 GGGAATCAGATTTAAGCCACAAG
* * * ** * * *
11541782 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAA-A--TTACAGATCTTATC-TCCCTAAGGA
1 TCTTATCTCCCTAGTCAGTAGTGGAGCAGATT-GAAGACGGT-GA-ATCTTATCTTCCCTAA-GA
* ** *
11541843 GTAGTGG-AGCAGATCGAAGACGA-ATTCAG
62 GTAG-GGAATCAGATTTAAG-CCACA---AG
* * * * *
11541872 ATCTTATCTCCCTAAG-GAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGT
1 -TCTTATCTCCCT-AGTCAGTAGTGGAGCAGATTGAAGACGGTGAATCTTATCTTCCCTAAGAGT
11541936 AGGGAAGT-AGATTTAAGCCACAAG
64 AGGGAA-TCAGATTTAAGCCACAAG
*
11541960 TCTTATCTCCCTGGTCAGTAGTGGA
1 TCTTATCTCCCTAGTCAGTAGTGGA
11541985 ATAGGTTGGA
Statistics
Matches: 152, Mismatches: 31, Indels: 40
0.68 0.14 0.18
Matches are distributed among these distances:
85 1 0.01
86 10 0.07
87 70 0.46
88 9 0.06
90 9 0.06
91 46 0.30
92 7 0.05
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (87 bp):
TCTTATCTCCCTAGTCAGTAGTGGAGCAGATTGAAGACGGTGAATCTTATCTTCCCTAAGAGTAG
GGAATCAGATTTAAGCCACAAG
Found at i:11541881 original size:47 final size:48
Alignment explanation
Indices: 11541817--11541911 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 48
11541807 ATAGGTTAGA
11541817 AATTACAGATCTTATCTCCCTAAGGAGTAGTGGAGCAGATCGAAGACG
1 AATTACAGATCTTATCTCCCTAAGGAGTAGTGGAGCAGATCGAAGACG
11541865 AATT-CAGATCTTATCTCCCTAAGGAGTAGTGGAGCAGATCGAAGACG
1 AATTACAGATCTTATCTCCCTAAGGAGTAGTGGAGCAGATCGAAGACG
11541912 GCGAATCTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 43 0.91
48 4 0.09
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (48 bp):
AATTACAGATCTTATCTCCCTAAGGAGTAGTGGAGCAGATCGAAGACG
Found at i:11541886 original size:178 final size:179
Alignment explanation
Indices: 11541686--11542040 Score: 597
Period size: 178 Copynumber: 2.0 Consensus size: 179
11541676 ATAGGTTAGA
* *
11541686 AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGTGAATCTTATCTTCCC
1 AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCC
*
11541751 TAAGAGTAGGGAA-TCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTA
66 CAAGAGTAGGGAAGT-AGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTA
*
11541815 GAAATTACAGATCTTATCTCCCTAAGGAGTAGTGGAGCAGATCGAAGACG
130 GAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
*
11541865 AATT-CAGATCTTATCTCCCTAAGGAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCC
1 AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCC
* * * *
11541929 CAGGAGTAGGGAAGTAGATTTAAGCCACAAGTCTTATCTCCCTGGTCAGTAGTGGAATAGGTTGG
66 CAAGAGTAGGGAAGTAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAG
*
11541994 AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGA
131 AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
11542041 TGGCGAATCT
Statistics
Matches: 165, Mismatches: 10, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
178 160 0.97
179 5 0.03
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (179 bp):
AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCC
CAAGAGTAGGGAAGTAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAG
AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
Found at i:11542007 original size:87 final size:87
Alignment explanation
Indices: 11541738--11542034 Score: 238
Period size: 87 Copynumber: 3.4 Consensus size: 87
11541728 AAGACGGTGA
* *
11541738 ATCTTATCTTCCCTAA-GAGTAGGGAA-TCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGC
1 ATCTTATCTTCCC-AAGGAGTAGGGAAGT-AGATTTAAGCCACAAGTCTTATCTCCCTGGTCAGT
11541801 AGTGGAATAGGTTAGAAATTACAG
64 AGTGGAATAGGTTAGAAATTACAG
* ** *
11541825 ATCTTATC-TCCCTAAGGAGTAGTGG-AGCAGATCGAAGACGA-ATTCAGATCTTATCTCCCTAA
1 ATCTTATCTTCCC-AAGGAGTAG-GGAAGTAGATTTAAG-CCACA---AG-TCTTATCTCCCT--
** * * ***
11541887 GG--AGTAGTGGAGCA-GATCGAAGACGGC-G
57 GGTCAGTAGTGGAATAGGTTAGAA-ATTACAG
*
11541915 AATCTTATCTTCCCCAGGAGTAGGGAAGTAGATTTAAGCCACAAGTCTTATCTCCCTGGTCAGTA
1 -ATCTTATCTTCCCAAGGAGTAGGGAAGTAGATTTAAGCCACAAGTCTTATCTCCCTGGTCAGTA
*
11541980 GTGGAATAGGTTGGAAATTACAG
65 GTGGAATAGGTTAGAAATTACAG
*
11542003 ATCTTATC-TCCCTAAGCAGTAGTGG-AGTAGAT
1 ATCTTATCTTCCC-AAGGAGTAG-GGAAGTAGAT
11542035 CGAAGATGGC
Statistics
Matches: 162, Mismatches: 27, Indels: 42
0.70 0.12 0.18
Matches are distributed among these distances:
85 2 0.01
86 11 0.07
87 69 0.43
88 14 0.09
90 12 0.07
91 48 0.30
92 4 0.02
93 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (87 bp):
ATCTTATCTTCCCAAGGAGTAGGGAAGTAGATTTAAGCCACAAGTCTTATCTCCCTGGTCAGTAG
TGGAATAGGTTAGAAATTACAG
Found at i:11542027 original size:131 final size:130
Alignment explanation
Indices: 11541865--11542170 Score: 499
Period size: 131 Copynumber: 2.3 Consensus size: 130
11541855 ATCGAAGACG
*
11541865 AATT-CAGATCTTATCTCCCTAAGGAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCC
1 AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCC
* * * *
11541929 CAGGAGTAGGGAAGTAGATTTAAGCCAC-AAGTCTTATCTCCCTGGTCAGTAGTGGAATAGGTTG
66 CAGGAGTAGGGAAGCAAATTTAAGCCACTAA-TCCTATCTCCCTGGTCAGCAGTGGAATAGGTT-
11541993 GA
129 GA
* *
11541995 AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCGAATCTTATCTTCCC
1 AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCC
*
11542060 CAGGAGTAGGGAAGCAAATTTAAGCCACTAATCCTATCTCCCTGGTCAGCAGTGGAATATGTTGA
66 CAGGAGTAGGGAAGCAAATTTAAGCCACTAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGA
11542125 AGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
1 A-ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
11542171 TCCCCAGCCT
Statistics
Matches: 164, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
130 7 0.04
131 155 0.95
132 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (130 bp):
AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCC
CAGGAGTAGGGAAGCAAATTTAAGCCACTAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGA
Found at i:11542133 original size:309 final size:310
Alignment explanation
Indices: 11541555--11542170 Score: 1006
Period size: 309 Copynumber: 2.0 Consensus size: 310
11541545 ATGGGTTGGA
*
11541555 AATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAAATCGAAGACGACGAATATTATCTTCCA
1 AATTACAGATCTTATCTCCCTAAGGAGTAGTGGAGCAAATCGAAGACGACGAATATTATCTTCCA
*
11541620 TAGGAGTAGGGAATCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAG
66 CAGGAGTAGGGAATCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAG
* *
11541685 AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGTGAATCTTATCTTCC
131 AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCC
* * *
11541750 CTAAGAGTAGGGAATCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTA
196 CCAAGAGTAGGGAAGCAAATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTA
*
11541815 GAAATTACAGATCTTATCTCCCTAAGGAGTAGTGGAGCAGATCGAAGACG
261 GAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
* * * *
11541865 AATT-CAGATCTTATCTCCCTAAGGAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCC
1 AATTACAGATCTTATCTCCCTAAGGAGTAGTGGAGCAAATCGAAGACGACGAATATTATCTTCCA
* * *
11541929 CAGGAGTAGGGAAGT-AGATTTAAGCCACAAGTCTTATCTCCCTGGTCAGTAGTGGAATAGGTTG
66 CAGGAGTAGGGAA-TCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTA
* *
11541993 GAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCGAATCTTATCTTC
130 GAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTC
* *
11542058 CCCAGGAGTAGGGAAGCAAATTTAAGCCACTAA-TCCTATCTCCCTGGTCAGCAGTGGAATATGT
195 CCCAAGAGTAGGGAAGCAAATTTAAGCCAC-AAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGT
11542122 T-GAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
259 TAGAA-ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
11542171 TCCCCAGCCT
Statistics
Matches: 284, Mismatches: 19, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
308 3 0.01
309 274 0.96
310 7 0.02
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (310 bp):
AATTACAGATCTTATCTCCCTAAGGAGTAGTGGAGCAAATCGAAGACGACGAATATTATCTTCCA
CAGGAGTAGGGAATCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAG
AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCC
CCAAGAGTAGGGAAGCAAATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTA
GAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
Found at i:11542286 original size:44 final size:43
Alignment explanation
Indices: 11542140--11542292 Score: 137
Period size: 44 Copynumber: 3.5 Consensus size: 43
11542130 ACAGATCTTA
* * *
11542140 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGTCCCCAGCCTTG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACCTCAGCCTTG
* * * * * ** * *
11542183 TCTCCCT-AGCAGCAGTGGAGTAGGTTAAAAAAATTACAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCA-GATCAAAGACCT-CAG-CCTTG
*
11542228 TCTTCCTAAGCAGTAGTGGAGCAGATCAAAGACGCTCAGCCTTG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC-CTCAGCCTTG
*
11542272 TCTCCCTAAGCAGTATTGGAG
1 TCTCCCTAAGCAGTAGTGGAG
11542293 TAGGTTGAAA
Statistics
Matches: 81, Mismatches: 24, Indels: 9
0.71 0.21 0.08
Matches are distributed among these distances:
42 13 0.16
43 11 0.14
44 25 0.31
45 18 0.22
46 14 0.17
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (43 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACCTCAGCCTTG
Found at i:11542304 original size:88 final size:86
Alignment explanation
Indices: 11542096--11542319 Score: 281
Period size: 88 Copynumber: 2.6 Consensus size: 86
11542086 ACTAATCCTA
* * * * *
11542096 TCTCCCTGGTCAGCAGTGGAATATGTTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTAG-CAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTTCCTAAGCAGTAGTGGAG
* *
11542161 CAGATCGAAGTCCCCAGCCTTG
65 CAGATCAAAGACCCCAGCCTTG
*
11542183 TCTCCCTAGCAGCAGTGGAGTAGGTTAAAAAAATTACAGATCTTATCTTCCTAAGCAGTAGTGGA
1 TCTCCCTAGCAGCAGTGGAGTAGGTT--GAAAATTACAGATCTTATCTTCCTAAGCAGTAGTGGA
*
11542248 GCAGATCAAAGACGCTCAGCCTTG
64 GCAGATCAAAGAC-CCCAGCCTTG
* *
11542272 TCTCCCTAAGCAGTATTGGAGTAGGTTGAAAATTAC-GAATCTTA-CTTC
1 TCTCCCT-AGCAGCAGTGGAGTAGGTTGAAAATTACAG-ATCTTATCTTC
11542320 TCAGGCAGTG
Statistics
Matches: 120, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
86 15 0.12
87 13 0.11
88 59 0.49
89 16 0.13
90 17 0.14
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (86 bp):
TCTCCCTAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTTCCTAAGCAGTAGTGGAGC
AGATCAAAGACCCCAGCCTTG
Found at i:11542500 original size:97 final size:96
Alignment explanation
Indices: 11542306--11542869 Score: 658
Period size: 97 Copynumber: 5.8 Consensus size: 96
11542296 GTTGAAAATT
* * * * * * *
11542306 ACGAATCTTACTTCTCAGGCAGTGCAATGGAATAGATTAAATCCACAA---CG-A-CTTGTTTCC
1 ACGAATCTTATTTC-CTGGAAGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCC
* *
11542366 TCGACATTGCAGTTAAAGATTAAAGCTAAAAC
65 CCGACATTGCAGTTAAAGATTAAAGCTACAAC
*
11542398 AACGAATCTTATTTCCTGGAAGTGCATTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCC
1 -ACGAATCTTATTTCCTGGAAGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCC
*
11542463 CCGACATTGCAGTTAAAGATTAAAGCCACAAC
65 CCGACATTGCAGTTAAAGATTAAAGCTACAAC
* ** * *
11542495 GACGAATCTTACTTCCCTGGTGGTGCAGTGGAACTA-ATTAAAGCCACAACGGTGAATCTTGTTT
1 -ACGAATCTTA-TTTCCTGGAAGTGCAGTGGAAC-AGATTAAAGCCACAACGGCGAATCTTGCTT
* *
11542559 CCTCGACATTGCAGTTAAAGATTAAAGTTACAAC
63 CCCCGACATTGCAGTTAAAGATTAAAGCTACAAC
* *
11542593 AGGAAATCTTATTTCCTGGTAGTGCAGTGGAACAGATTAAAGCCACAAC-GCGAATCTTGCTTCC
1 ACG-AATCTTATTTCCTGGAAGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCC
**
11542657 CCGACATTATAGTTAAAGATTAAAGCTACAAC
65 CCGACATTGCAGTTAAAGATTAAAGCTACAAC
* * * *
11542689 AGTGAATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGACGAATATTGCTTCC
1 A-CGAATCTTATTTCCTGGAAGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCC
* *
11542754 CCGACATTGTAGTTAAAAATATTAAAGCTACAAC
65 CCGACATTGCAGTT--AAAGATTAAAGCTACAAC
* * * * * * *
11542788 AGCGAATATTATTTCCT-AACAATGCAGTGGAACAGATTAAAGCTACGATGGCGAATCTTGTTTC
1 A-CGAATCTTATTTCCTGGA-AGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTC
11542852 CCCGACATTGCAGTTAAA
64 CCCGACATTGCAGTTAAA
11542870 CAGATTGAAG
Statistics
Matches: 410, Mismatches: 47, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
92 28 0.07
93 13 0.03
95 2 0.00
96 88 0.21
97 113 0.28
98 82 0.20
99 84 0.20
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.27
Consensus pattern (96 bp):
ACGAATCTTATTTCCTGGAAGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCC
CGACATTGCAGTTAAAGATTAAAGCTACAAC
Found at i:11542633 original size:195 final size:193
Alignment explanation
Indices: 11542307--11542869 Score: 694
Period size: 195 Copynumber: 2.9 Consensus size: 193
11542297 TTGAAAATTA
* * * * *
11542307 CGAATCTTACTTCTCAGGCAGTGCAATGGAATAGATTAAATCCAC-A--ACG-A-CTTGTTTCCT
1 CGAATCTTA-TTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGACGAATCTTGTTTCCT
* * *
11542367 CGACATTGCAGTTAAAGATTAAAGCTAAAACAACGAATCTTATTTCCTGGAAGTGCATTGGAACA
65 CGACATTGCAGTTAAAGATTAAAGCTACAAC-AGGAATCTTATTTCCTGGAAGTGCAGTGGAACA
11542432 GATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAGATTAAAGCCACAAC-G
129 GATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAGATTAAAGCCACAACAG
** **
11542496 ACGAATCTTACTTCCCTGGTGGTGCAGTGGAACTA-ATTAAAGCCACAACGGTGAATCTTGTTTC
1 -CGAATCTTA-TTCCCTGGCAGTGCAGTGGAAC-AGATTAAAGCCACAACGACGAATCTTGTTTC
* *
11542560 CTCGACATTGCAGTTAAAGATTAAAGTTACAACAGGAAATCTTATTTCCTGGTAGTGCAGTGGAA
63 CTCGACATTGCAGTTAAAGATTAAAGCTACAACAGG-AATCTTATTTCCTGGAAGTGCAGTGGAA
** *
11542625 CAGATTAAAGCCACAAC-GCGAATCTTGCTTCCCCGACATTATAGTTAAAGATTAAAGCTACAAC
127 CAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAGATTAAAGCCACAAC
11542689 AG
192 AG
* * * * *
11542691 TGAATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGACGAATATTGCTTCCCC
1 CGAATCTTATTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGACGAATCTTGTTTCCTC
* * * * *
11542756 GACATTGTAGTTAAAAATATTAAAGCTACAACAGCGAATATTATTTCCT-AACAATGCAGTGGAA
66 GACATTGCAGTT--AAAGATTAAAGCTACAACAG-GAATCTTATTTCCTGGA-AGTGCAGTGGAA
* * * *
11542820 CAGATTAAAGCTACGATGGCGAATCTTGTTTCCCCGACATTGCAGTTAAA
127 CAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAA
11542870 CAGATTGAAG
Statistics
Matches: 320, Mismatches: 39, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
190 36 0.11
191 2 0.01
192 1 0.00
193 58 0.18
194 55 0.17
195 138 0.43
196 30 0.09
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.27
Consensus pattern (193 bp):
CGAATCTTATTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGACGAATCTTGTTTCCTC
GACATTGCAGTTAAAGATTAAAGCTACAACAGGAATCTTATTTCCTGGAAGTGCAGTGGAACAGA
TTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAGATTAAAGCCACAACAG
Found at i:11544506 original size:15 final size:15
Alignment explanation
Indices: 11544483--11544512 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11544473 TTAACTATTT
*
11544483 TTATTATTACTGTTA
1 TTATGATTACTGTTA
11544498 TTATGATTACTGTTA
1 TTATGATTACTGTTA
11544513 CTATAACTAT
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:0.27, C:0.07, G:0.10, T:0.57
Consensus pattern (15 bp):
TTATGATTACTGTTA
Found at i:11552160 original size:18 final size:19
Alignment explanation
Indices: 11552137--11552182 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
11552127 AACTAATTTC
*
11552137 TTATTTATATCTTCTAT-T
1 TTATTTATATCTTATATAT
*
11552155 TTATTT-TAATTTTATATAT
1 TTATTTAT-ATCTTATATAT
11552174 TTATTTATA
1 TTATTTATA
11552183 ATTAAATCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
17 1 0.04
18 13 0.57
19 8 0.35
20 1 0.04
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATTTATATCTTATATAT
Found at i:11557316 original size:68 final size:68
Alignment explanation
Indices: 11557233--11557377 Score: 186
Period size: 68 Copynumber: 2.1 Consensus size: 68
11557223 GCAACTTCTG
* * * *
11557233 TCAGTTTATCTGACTAGTGCTGGGCAC-ACATT-TGTCGATTTATCTGACTAGTGCCGGGCACAC
1 TCAGTTTATCCGACTAGCGCTGGGCACAAC-TTCCGTC-AGTTATCTGACTAGTGCCGGGCACAC
11557296 ATTTT
64 ATTTT
* * * *
11557301 TCGGTTTATCCGACTAGCGCTGGGCGCAACTTCCGTCAGTTATTTGACTAGTGCTGGGCACACAT
1 TCAGTTTATCCGACTAGCGCTGGGCACAACTTCCGTCAGTTATCTGACTAGTGCCGGGCACACAT
11557366 TTT
66 TTT
11557369 TCAGTTTAT
1 TCAGTTTAT
11557378 TCAACAAGCG
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
68 61 0.92
69 5 0.08
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (68 bp):
TCAGTTTATCCGACTAGCGCTGGGCACAACTTCCGTCAGTTATCTGACTAGTGCCGGGCACACAT
TTT
Found at i:11557378 original size:34 final size:34
Alignment explanation
Indices: 11557231--11557377 Score: 165
Period size: 34 Copynumber: 4.3 Consensus size: 34
11557221 GCGCAACTTC
11557231 TGTCAGTTTATCTGACTAGTGCTGGGCACACATT
1 TGTCAGTTTATCTGACTAGTGCTGGGCACACATT
*
11557265 TGTC-GATTTATCTGACTAGTGCCGGGCACACATT
1 TGTCAG-TTTATCTGACTAGTGCTGGGCACACATT
* * * * *
11557299 TTTCGGTTTATCCGACTAGCGCTGGGCGCA-ACTT
1 TGTCAGTTTATCTGACTAGTGCTGGGCACACA-TT
* *
11557333 CCGTCAG-TTATTTGACTAGTGCTGGGCACACATT
1 -TGTCAGTTTATCTGACTAGTGCTGGGCACACATT
*
11557367 TTTCAGTTTAT
1 TGTCAGTTTAT
11557378 TCAACAAGCG
Statistics
Matches: 92, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
33 6 0.07
34 81 0.88
35 5 0.05
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.35
Consensus pattern (34 bp):
TGTCAGTTTATCTGACTAGTGCTGGGCACACATT
Found at i:11560038 original size:12 final size:12
Alignment explanation
Indices: 11559998--11560056 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
11559988 GGTTATATAT
11559998 TATTTTTA-TAA
1 TATTTTTATTAA
*
11560009 TATTATATATT-A
1 TATT-TTTATTAA
11560021 TGATTTTTATTAA
1 T-ATTTTTATTAA
11560034 TA-TTTTATTAA
1 TATTTTTATTAA
* *
11560045 TAATTATATTAA
1 TATTTTTATTAA
11560057 GAATGTTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
11 15 0.38
12 19 0.47
13 6 0.15
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (12 bp):
TATTTTTATTAA
Found at i:11560041 original size:11 final size:12
Alignment explanation
Indices: 11560025--11560068 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
11560015 ATATTATGAT
11560025 TTTTATTAAT-A
1 TTTTATTAATAA
11560036 TTTTATTAATAA
1 TTTTATTAATAA
* *
11560048 TTATATTAAGAA
1 TTTTATTAATAA
*
11560060 TGTTATTAA
1 TTTTATTAA
11560069 ATTNNNCAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
11 10 0.36
12 18 0.64
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (12 bp):
TTTTATTAATAA
Found at i:11560042 original size:23 final size:23
Alignment explanation
Indices: 11559990--11560043 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
11559980 ATAAAGTAGG
*
11559990 TTATATATTATTTTTATAATATTA
1 TTAT-TATGATTTTTATAATATTA
11560014 TATATTATGATTTTTATTAATATT-
1 T-TATTATGATTTTTA-TAATATTA
11560038 TTATTA
1 TTATTA
11560044 ATAATTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 5 0.19
24 12 0.44
25 10 0.37
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (23 bp):
TTATTATGATTTTTATAATATTA
Found at i:11560066 original size:35 final size:35
Alignment explanation
Indices: 11560001--11560068 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
11559991 TATATATTAT
* * * *
11560001 TTTTATAATATTATATATTATGATTTTTATTAATA
1 TTTTATAATAATATATATTAAGAATGTTATTAATA
11560036 TTTTATTAATAAT-TATATTAAGAATGTTATTAA
1 TTTTA-TAATAATATATATTAAGAATGTTATTAA
11560069 ATTNNNCAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 22 0.79
36 6 0.21
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (35 bp):
TTTTATAATAATATATATTAAGAATGTTATTAATA
Found at i:11567421 original size:24 final size:24
Alignment explanation
Indices: 11567394--11567445 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
11567384 AATCTATGTC
* *
11567394 AAATATATTCTGCTAATAAATACT
1 AAATATATTATACTAATAAATACT
11567418 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATACT
11567442 AAAT
1 AAAT
11567446 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:11569100 original size:23 final size:23
Alignment explanation
Indices: 11569070--11569118 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
11569060 GATCTCATGT
*
11569070 TCTGTTCTTATGGAGTGATTCCA
1 TCTGTTCTTATGGAGCGATTCCA
11569093 TCTGTTCTTATGGAGCGATTCCA
1 TCTGTTCTTATGGAGCGATTCCA
11569116 TCT
1 TCT
11569119 CTTTTTGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.16, C:0.20, G:0.20, T:0.43
Consensus pattern (23 bp):
TCTGTTCTTATGGAGCGATTCCA
Found at i:11571789 original size:85 final size:85
Alignment explanation
Indices: 11571641--11571811 Score: 270
Period size: 85 Copynumber: 2.0 Consensus size: 85
11571631 AACCGAAAAA
* * *
11571641 ACTCTGATACCAATTTGTTAAAAACTAAACGTCGATAATGGCAATGTAGAAAGAACACAAAGAAA
1 ACTCTAATACCAATTTGTTAAAAACTAAACATCGATAATGGAAATGTAGAAAGAACACAAAGAAA
11571706 AAGAAAGAAAAATAGAACAC
66 AAGAAAGAAAAATAGAACAC
* * ***
11571726 ACTCTAATACCAATTTGTTAAAAACTAAACATTGATAATGGAAATGTAGAAAGATCGTGAAGAAA
1 ACTCTAATACCAATTTGTTAAAAACTAAACATCGATAATGGAAATGTAGAAAGAACACAAAGAAA
11571791 AAGAAAGAAAAATAGAACAC
66 AAGAAAGAAAAATAGAACAC
11571811 A
1 A
11571812 TAGTTTTTAC
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 78 1.00
ACGTcount: A:0.53, C:0.12, G:0.15, T:0.19
Consensus pattern (85 bp):
ACTCTAATACCAATTTGTTAAAAACTAAACATCGATAATGGAAATGTAGAAAGAACACAAAGAAA
AAGAAAGAAAAATAGAACAC
Found at i:11579108 original size:45 final size:45
Alignment explanation
Indices: 11579052--11579207 Score: 188
Period size: 45 Copynumber: 3.5 Consensus size: 45
11579042 TGCCATAATG
* * * *
11579052 TCTTTCAACTATGGTCTTATTCGTTTGATTCATGATGTCATAGCA
1 TCTTTCAACTATGGTCTTACTCGTTAGAATCATGATGTCATAACA
* *
11579097 TCTTTCAACTATGTTCTTACTCGTTAGAATCGTGAT-TCCATAACA
1 TCTTTCAACTATGGTCTTACTCGTTAGAATCATGATGT-CATAACA
* * * **
11579142 TCTTTCAGCTATGGTCTTACTCGATAGAATCGTGATGTCATAATG
1 TCTTTCAACTATGGTCTTACTCGTTAGAATCATGATGTCATAACA
*
11579187 TCTTTCAGCTATGGTCTTACT
1 TCTTTCAACTATGGTCTTACT
11579208 TGTTTCTGGT
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
44 1 0.01
45 96 0.98
46 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (45 bp):
TCTTTCAACTATGGTCTTACTCGTTAGAATCATGATGTCATAACA
Found at i:11580451 original size:214 final size:214
Alignment explanation
Indices: 11580124--11580556 Score: 812
Period size: 214 Copynumber: 2.0 Consensus size: 214
11580114 TAAACAACCA
11580124 AAGGTCAATCTTCCTAATAAATCCCCCAATCCTATAATATTATTAATTTAACACCTTAAATAAAT
1 AAGGTCAATCTTCCTAATAAATCCCCCAATCCTATAATATTATTAATTTAACACCTTAAATAAAT
* * *
11580189 GAAAATTAACTTTTACGACTTTTTCAAATTAGTCCTTTTCATTTAATTAGTATTTAAACGTTAAA
66 GAAAATTAACTTTTACGACCTTTACAAATTAGTCCTTTTCATTTAATTAATATTTAAACGTTAAA
* *
11580254 GTTTCTTAATCAAATTTTTAATATGATCCACATAACACTCAGTAAATATTTAATAAAATATGTAT
131 ATTTCTTAACCAAATTTTTAATATGATCCACATAACACTCAGTAAATATTTAATAAAATATGTAT
11580319 GGGTTCAGTTTATAGAAAC
196 GGGTTCAGTTTATAGAAAC
*
11580338 AAGGTCAATCTTTCTAATAAATCCCCCAATCCTATAATATTATTAATTTAACACCTTAAATAAAT
1 AAGGTCAATCTTCCTAATAAATCCCCCAATCCTATAATATTATTAATTTAACACCTTAAATAAAT
11580403 GAAAATTAACTTTTACGACCTTTACAAATTAGTCCTTTTCATTTAATTAATATTTAAACGTTAAA
66 GAAAATTAACTTTTACGACCTTTACAAATTAGTCCTTTTCATTTAATTAATATTTAAACGTTAAA
11580468 ATTTCTTAACCAAATTTTTAATATGATCCACATAACACTCAGTAAATATTTAATAAAATATGTAT
131 ATTTCTTAACCAAATTTTTAATATGATCCACATAACACTCAGTAAATATTTAATAAAATATGTAT
11580533 GGGTTCAGTTTATAGAAAC
196 GGGTTCAGTTTATAGAAAC
11580552 AAGGT
1 AAGGT
11580557 ATTAAGACAT
Statistics
Matches: 213, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
214 213 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.38
Consensus pattern (214 bp):
AAGGTCAATCTTCCTAATAAATCCCCCAATCCTATAATATTATTAATTTAACACCTTAAATAAAT
GAAAATTAACTTTTACGACCTTTACAAATTAGTCCTTTTCATTTAATTAATATTTAAACGTTAAA
ATTTCTTAACCAAATTTTTAATATGATCCACATAACACTCAGTAAATATTTAATAAAATATGTAT
GGGTTCAGTTTATAGAAAC
Found at i:11587491 original size:3 final size:3
Alignment explanation
Indices: 11587483--11587528 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
11587473 TCAGCTAACT
* * *
11587483 CTA CTA CTA CTA CAA CAA CAA CTA CTA CTA CTA CTA CTA CTA CTA C
1 CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA C
11587529 AATATTTTCT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.39, C:0.35, G:0.00, T:0.26
Consensus pattern (3 bp):
CTA
Found at i:11596109 original size:19 final size:18
Alignment explanation
Indices: 11596085--11596121 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
11596075 TTTCTCAAGT
*
11596085 ATAATTGATAATTTTTTTA
1 ATAATTAAT-ATTTTTTTA
11596104 ATAATTAATATTTTTTTA
1 ATAATTAATATTTTTTTA
11596122 GAATTCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
ATAATTAATATTTTTTTA
Found at i:11596583 original size:93 final size:92
Alignment explanation
Indices: 11596347--11596617 Score: 419
Period size: 92 Copynumber: 3.0 Consensus size: 92
11596337 CTTAAGGATG
*
11596347 TAAAAAG-CCCTCAAACTTTTTCAAAAAAGCAATTAAGCCCTGCCTTTTTTTTTTTTGCACTTAA
1 TAAAAAGACTCTCAAACTTTTTCAAAAAAGCAATTAAGCCCTGCCTTTTTTTTTTTTGCACTTAA
11596411 TTGGGTACTTGAAATTTCAAAATGCAT
66 TTGGGTACTTGAAATTTCAAAATGCAT
11596438 TAAAAAGACTCTCAAACTTTTTCAAAAAAGCAATTAAGCCCTGCCTTTTTTTTTTTTGCACTTAA
1 TAAAAAGACTCTCAAACTTTTTCAAAAAAGCAATTAAGCCCTGCCTTTTTTTTTTTTGCACTTAA
11596503 TTGGGTACTTGAAATTTCAAAATGCAT
66 TTGGGTACTTGAAATTTCAAAATGCAT
* ** *
11596530 TAAAAAGACTCTCAAACTTTTTCAAAAAAAGTAATTAAG--CT-CCTACTTTTTTTTT-CACTCA
1 TAAAAAGACTCTCAAACTTTTTC-AAAAAAGCAATTAAGCCCTGCCTTTTTTTTTTTTGCACTTA
* *
11596591 ATTGGGTATTTG-AATTGCCAAAATGCA
65 ATTGGGTACTTGAAATT-TCAAAATGCA
11596618 CCAAAAAAGG
Statistics
Matches: 170, Mismatches: 7, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
88 4 0.02
89 25 0.15
90 12 0.07
91 9 0.05
92 106 0.62
93 14 0.08
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (92 bp):
TAAAAAGACTCTCAAACTTTTTCAAAAAAGCAATTAAGCCCTGCCTTTTTTTTTTTTGCACTTAA
TTGGGTACTTGAAATTTCAAAATGCAT
Found at i:11596809 original size:20 final size:21
Alignment explanation
Indices: 11596768--11596822 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
11596758 ATAAAAGTTA
* *
11596768 TAAAATTATT-AAATTTTAAT
1 TAAAAATATTAAAAATTTAAT
11596788 TAAAAATATTAAAAATTT-AT
1 TAAAAATATTAAAAATTTAAT
11596808 TAAAAA-ATTAGAAAA
1 TAAAAATATTA-AAAA
11596823 ATATAAATAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.13
20 21 0.68
21 6 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
TAAAAATATTAAAAATTTAAT
Found at i:11599975 original size:15 final size:14
Alignment explanation
Indices: 11599953--11599992 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
11599943 TTAGTTTAGG
11599953 TTTT-TTTTTTTCT
1 TTTTCTTTTTTTCT
*
11599966 TTTCTCTTTTCTTCT
1 TTT-TCTTTTTTTCT
11599981 TTTTCTTTTTTT
1 TTTTCTTTTTTT
11599993 TTATTGTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 3 0.13
14 9 0.39
15 11 0.48
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTCTTTTTTTCT
Found at i:11602560 original size:6 final size:6
Alignment explanation
Indices: 11602551--11602577 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
11602541 TAATTTTAAT
11602551 TTTAGA TTTAGA TTTAGA TTTAGA TTT
1 TTTAGA TTTAGA TTTAGA TTTAGA TTT
11602578 TATATAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (6 bp):
TTTAGA
Found at i:11602560 original size:12 final size:13
Alignment explanation
Indices: 11602545--11602579 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
11602535 TAATTTTAAT
11602545 TTTA-ATTTTAGA
1 TTTAGATTTTAGA
11602557 TTTAGA-TTTAGA
1 TTTAGATTTTAGA
11602569 TTTAGATTTTA
1 TTTAGATTTTA
11602580 TATAATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (13 bp):
TTTAGATTTTAGA
Found at i:11602607 original size:9 final size:9
Alignment explanation
Indices: 11602595--11602640 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
11602585 TATTTTAAAG
11602595 TTTTT-TAT
1 TTTTTATAT
*
11602603 TTTTTATAA
1 TTTTTATAT
11602612 TTTTTATAT
1 TTTTTATAT
*
11602621 TTTTAATAT
1 TTTTTATAT
11602630 TTTTT-TAT
1 TTTTTATAT
11602638 TTT
1 TTT
11602641 CAAATGATGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
8 11 0.33
9 22 0.67
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTATAT
Found at i:11602630 original size:27 final size:27
Alignment explanation
Indices: 11602574--11602634 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
11602564 TTAGATTTAG
*
11602574 ATTTTATATAATATTTTAAAGTTTTTT
1 ATTTTTTATAATATTTTAAAGTTTTTT
*
11602601 ATTTTTTATAAT-TTTTATA-TTTTTAAT
1 ATTTTTTATAATATTTTAAAGTTTTT--T
11602628 ATTTTTT
1 ATTTTTT
11602635 TATTTTCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 5 0.17
26 6 0.20
27 19 0.63
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (27 bp):
ATTTTTTATAATATTTTAAAGTTTTTT
Found at i:11607204 original size:396 final size:396
Alignment explanation
Indices: 11606472--11608835 Score: 4524
Period size: 396 Copynumber: 6.0 Consensus size: 396
11606462 TAAATTAATG
* * *
11606472 GAAAATAAATTAAACTAAGCTATGACACCATAATGGTGGAACTAATTGCAGTATCCTCATAAATA
1 GAAAATAAATTAAACTAAGCTATGACACCATAATGGTGAAACTAATTGCAGTGTCCTCGTAAATA
* * *
11606537 GTGCAATTGTAAACAAGTGCAGCAACAATGAAGGATAGCTTAAAGACAACAATCAACATAAAACT
66 GCGCAATTGTAAACAAGTGCAGCAACAATGAAGGACAGCTTAAAGACAACAGTCAACATAAAACT
11606602 ACTATATTAGTAAATATGAAGCTGAAAATGAGATGTCGAAATGCCTTTGAGATTAGTTAACCACT
131 ACTATATTAGTAAATATGAAGCTGAAAATGAGATGTCGAAATGCCTTTGAGATTAGTTAACCACT
11606667 ATCCTGATTAAAAATTTCATGTAATTGCCCTTTTTTCGTCACTTCAGTATTTGAAACTCATGCAG
196 ATCCTGATTAAAAATTTCATGTAATTGCCCTTTTTTCGTCACTTCAGTATTTGAAACTCATGCAG
11606732 ATCATTAAAAACTGGTTTCCATGTTTTCTCGGAGAAAGAGTTGTGGTAAATAAGATTGTGAAGAT
261 ATCATTAAAAACTGGTTTCCATGTTTTCTCGGAGAAAGAGTTGTGGTAAATAAGATTGTGAAGAT
11606797 ATTACCAGGTAACAGATCTTAGAAACACCAGAATCCAAGAATTCAAAGTGCAAACATCCAATGAA
326 ATTACCAGGTAACAGATCTTAGAAACACCAGAATCCAAGAATTCAAAGTGCAAACATCCAATGAA
11606862 CCATTT
391 CCATTT
11606868 GAAAATAAATTAAACTAAGCTATGACACCATAATGGTGAAACTAATTGCAGTGTCCTCGTAAATA
1 GAAAATAAATTAAACTAAGCTATGACACCATAATGGTGAAACTAATTGCAGTGTCCTCGTAAATA
11606933 GCGCAATTGTAAACAAGTGCAGCAACAATGAAGGACAGCTTAAAGACAACAGTCAACATAAAACT
66 GCGCAATTGTAAACAAGTGCAGCAACAATGAAGGACAGCTTAAAGACAACAGTCAACATAAAACT
11606998 ACTATATTAGTAAATATGAAGCTGAAAATGAGATGTCGAAATGCCTTTGAGATTAGTTAACCACT
131 ACTATATTAGTAAATATGAAGCTGAAAATGAGATGTCGAAATGCCTTTGAGATTAGTTAACCACT
11607063 ATCCTGATTAAAAATTTCATGTAATTGCCCTTTTTTCGTCACTTCAGTATTTGAAACTCATGCAG
196 ATCCTGATTAAAAATTTCATGTAATTGCCCTTTTTTCGTCACTTCAGTATTTGAAACTCATGCAG
11607128 ATCATTAAAAACTGGTTTCCATGTTTTCTCGGAGAAAGAGTTGTGGTAAATAAGATTGTGAAGAT
261 ATCATTAAAAACTGGTTTCCATGTTTTCTCGGAGAAAGAGTTGTGGTAAATAAGATTGTGAAGAT
11607193 ATTACCAGGTAACAGATCTTAGAAACACCAGAATCCAAGAATTCAAAGTGCAAACATCCAATGAA
326 ATTACCAGGTAACAGATCTTAGAAACACCAGAATCCAAGAATTCAAAGTGCAAACATCCAATGAA
11607258 CCATTT
391 CCATTT
11607264 GAAAATAAATTAAACTAAGCTATGACACCATAATGGTGAAACTAATTGCAGTGTCCTCGTAAATA
1 GAAAATAAATTAAACTAAGCTATGACACCATAATGGTGAAACTAATTGCAGTGTCCTCGTAAATA
11607329 GCGCAATTGTAAACAAGTGCAGCAACAATGAAGGACAGCTTAAAGACAACAGTCAACATAAAACT
66 GCGCAATTGTAAACAAGTGCAGCAACAATGAAGGACAGCTTAAAGACAACAGTCAACATAAAACT
11607394 ACTATATTAGTAAATATGAAGCTGAAAATGAGATGTCGAAATGCCTTTGAGATTAGTTAACCACT
131 ACTATATTAGTAAATATGAAGCTGAAAATGAGATGTCGAAATGCCTTTGAGATTAGTTAACCACT
11607459 ATCCTGATTAAAAATTTCATGTAATTGCCCTTTTTTCGTCACTTCAGTATTTGAAACTCATGCAG
196 ATCCTGATTAAAAATTTCATGTAATTGCCCTTTTTTCGTCACTTCAGTATTTGAAACTCATGCAG
11607524 ATCATTAAAAACTGGTTTCCATGTTTTCTCGGAGAAAGAGTTGTGGTAAATAAGATTGTGAAGAT
261 ATCATTAAAAACTGGTTTCCATGTTTTCTCGGAGAAAGAGTTGTGGTAAATAAGATTGTGAAGAT
11607589 ATTACCAGGTAACAGATCTTAGAAACACCAGAATCCAAGAATTCAAAGTGCAAACATCCAATGAA
326 ATTACCAGGTAACAGATCTTAGAAACACCAGAATCCAAGAATTCAAAGTGCAAACATCCAATGAA
11607654 CCATTT
391 CCATTT
11607660 GAAAATAAATTAAACTAAGCTATGACACCATAATGGTGAAACTAATTGCAGTGTCCTCGTAAATA
1 GAAAATAAATTAAACTAAGCTATGACACCATAATGGTGAAACTAATTGCAGTGTCCTCGTAAATA
11607725 GCGCAATTGTAAACAAGTGCAGCAACAATGAAGGACAGCTTAAAGACAACAGTCAACATAAAACT
66 GCGCAATTGTAAACAAGTGCAGCAACAATGAAGGACAGCTTAAAGACAACAGTCAACATAAAACT
11607790 ACTATATTAGTAAATATGAAGCTGAAAATGAGATGTCGAAATGCCTTTGAGATTAGTTAACCACT
131 ACTATATTAGTAAATATGAAGCTGAAAATGAGATGTCGAAATGCCTTTGAGATTAGTTAACCACT
11607855 ATCCTGATTAAAAATTTCATGTAATTGCCCTTTTTTCGTCACTTCAGTATTTGAAACTCATGCAG
196 ATCCTGATTAAAAATTTCATGTAATTGCCCTTTTTTCGTCACTTCAGTATTTGAAACTCATGCAG
11607920 ATCATTAAAAACTGGTTTCCATGTTTTCTCGGAGAAAGAGTTGTGGTAAATAAGATTGTGAAGAT
261 ATCATTAAAAACTGGTTTCCATGTTTTCTCGGAGAAAGAGTTGTGGTAAATAAGATTGTGAAGAT
11607985 ATTACCAGGTAACAGATCTTAGAAACACCAGAATCCAAGAATTCAAAGTGCAAACATCCAATGAA
326 ATTACCAGGTAACAGATCTTAGAAACACCAGAATCCAAGAATTCAAAGTGCAAACATCCAATGAA
11608050 CCATTT
391 CCATTT
11608056 GAAAATAAATTAAACTAAGCTATGACACCATAATGGTGAAACTAATTGCAGTGTCCTCGTAAATA
1 GAAAATAAATTAAACTAAGCTATGACACCATAATGGTGAAACTAATTGCAGTGTCCTCGTAAATA
11608121 GCGCAATTGTAAACAAGTGCAGCAACAATGAAGGACAGCTTAAAGACAACAGTCAACATAAAACT
66 GCGCAATTGTAAACAAGTGCAGCAACAATGAAGGACAGCTTAAAGACAACAGTCAACATAAAACT
11608186 ACTATATTAGTAAATATGAAGCTGAAAATGAGATGTCGAAATGCCTTTGAGATTAGTTAACCACT
131 ACTATATTAGTAAATATGAAGCTGAAAATGAGATGTCGAAATGCCTTTGAGATTAGTTAACCACT
11608251 ATCCTGATTAAAAATTTCATGTAATTGCCCTTTTTTCGTCACTTCAGTATTTGAAACTCATGCAG
196 ATCCTGATTAAAAATTTCATGTAATTGCCCTTTTTTCGTCACTTCAGTATTTGAAACTCATGCAG
11608316 ATCATTAAAAACTGGTTTCCATGTTTTCTCGGAGAAAGAGTTGTGGTAAATAAGATTGTGAAGAT
261 ATCATTAAAAACTGGTTTCCATGTTTTCTCGGAGAAAGAGTTGTGGTAAATAAGATTGTGAAGAT
11608381 ATTACCAGGTAACAGATCTTAGAAACACCAGAATCCAAGAATTCAAAGTGCAAACATCCAATGAA
326 ATTACCAGGTAACAGATCTTAGAAACACCAGAATCCAAGAATTCAAAGTGCAAACATCCAATGAA
11608446 CCATTT
391 CCATTT
11608452 GAAAATAAATTAAACTAAGCTATGACACCATAATGGTGAAACTAATTGCAGTGTCCTCGTAAATA
1 GAAAATAAATTAAACTAAGCTATGACACCATAATGGTGAAACTAATTGCAGTGTCCTCGTAAATA
11608517 GCGCAATTGTAAACAAGTGCAGCAACAATGAAGGACAGCTTAAAGACAACAGTCAACATAAAACT
66 GCGCAATTGTAAACAAGTGCAGCAACAATGAAGGACAGCTTAAAGACAACAGTCAACATAAAACT
11608582 ACTATATTAGTAAATATGAAGCTGAAAATGAGATGTCGAAATGCCTTTGAGATTAGTTAACCACT
131 ACTATATTAGTAAATATGAAGCTGAAAATGAGATGTCGAAATGCCTTTGAGATTAGTTAACCACT
11608647 ATCCTGATTAAAAATTTCATGTAATTGCCCTTTTTTCGTCACTTCAGTATTTGAAACTCATGCAG
196 ATCCTGATTAAAAATTTCATGTAATTGCCCTTTTTTCGTCACTTCAGTATTTGAAACTCATGCAG
* *
11608712 ATCATTAAAAACTGGTTTCCATGTTTTCT---TG---GA------G--AATAAGATTTTGAAGAT
261 ATCATTAAAAACTGGTTTCCATGTTTTCTCGGAGAAAGAGTTGTGGTAAATAAGATTGTGAAGAT
* * *
11608763 A-TACCAGGTAACAGATCTTAGAAACACCAGAATCCTAGAATGCAGAGTGCAAACATCCAATGAA
326 ATTACCAGGTAACAGATCTTAGAAACACCAGAATCCAAGAATTCAAAGTGCAAACATCCAATGAA
11608827 CCATTT
391 CCATTT
11608833 GAA
1 GAA
11608836 TAACATATTT
Statistics
Matches: 1957, Mismatches: 11, Indels: 15
0.99 0.01 0.01
Matches are distributed among these distances:
381 69 0.04
382 17 0.01
384 1 0.00
390 2 0.00
393 1 0.00
396 1867 0.95
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (396 bp):
GAAAATAAATTAAACTAAGCTATGACACCATAATGGTGAAACTAATTGCAGTGTCCTCGTAAATA
GCGCAATTGTAAACAAGTGCAGCAACAATGAAGGACAGCTTAAAGACAACAGTCAACATAAAACT
ACTATATTAGTAAATATGAAGCTGAAAATGAGATGTCGAAATGCCTTTGAGATTAGTTAACCACT
ATCCTGATTAAAAATTTCATGTAATTGCCCTTTTTTCGTCACTTCAGTATTTGAAACTCATGCAG
ATCATTAAAAACTGGTTTCCATGTTTTCTCGGAGAAAGAGTTGTGGTAAATAAGATTGTGAAGAT
ATTACCAGGTAACAGATCTTAGAAACACCAGAATCCAAGAATTCAAAGTGCAAACATCCAATGAA
CCATTT
Found at i:11620654 original size:99 final size:100
Alignment explanation
Indices: 11620533--11620732 Score: 393
Period size: 99 Copynumber: 2.0 Consensus size: 100
11620523 TTTTTTTTTT
11620533 AAGTGGGATCGGGCACCTTCAAAAATTCTCTTTTAGAAGAAAAATTTATTTTTAAACTTTTCTAA
1 AAGTGGGATCGGGCACCTTCAAAAATTCTCTTTTAGAAGAAAAATTTATTTTTAAACTTTTCTAA
11620598 AAAAGAGGTAATTTTAGGTCTACATTAAAATCCAG
66 AAAAGAGGTAATTTTAGGTCTACATTAAAATCCAG
11620633 AAGTGGGATC-GGCACCTTCAAAAATTCTCTTTTAGAAGAAAAATTTATTTTTAAACTTTTCTAA
1 AAGTGGGATCGGGCACCTTCAAAAATTCTCTTTTAGAAGAAAAATTTATTTTTAAACTTTTCTAA
11620697 AAAAGAGGTAATTTTAGGTCTACATTAAAATCCAG
66 AAAAGAGGTAATTTTAGGTCTACATTAAAATCCAG
11620732 A
1 A
11620733 GAAAAATTGG
Statistics
Matches: 100, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
99 90 0.90
100 10 0.10
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (100 bp):
AAGTGGGATCGGGCACCTTCAAAAATTCTCTTTTAGAAGAAAAATTTATTTTTAAACTTTTCTAA
AAAAGAGGTAATTTTAGGTCTACATTAAAATCCAG
Found at i:11620947 original size:20 final size:19
Alignment explanation
Indices: 11620910--11620966 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
11620900 AACACGAAAA
* *
11620910 TTTTGAAACACTATAATTC
1 TTTTGAAACACGAGAATTC
*
11620929 TTTTGAGAACACGAGAATTT
1 TTTTGA-AACACGAGAATTC
*
11620949 TTTTGAAATACGAGAATT
1 TTTTGAAACACGAGAATT
11620967 TTAAAAACAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.39
Consensus pattern (19 bp):
TTTTGAAACACGAGAATTC
Found at i:11620961 original size:19 final size:19
Alignment explanation
Indices: 11620910--11621076 Score: 75
Period size: 17 Copynumber: 9.2 Consensus size: 19
11620900 AACACGAAAA
* * *
11620910 TTTTGAAACACTATAATTC
1 TTTTGAAACACGAGAATTT
11620929 TTTTGAGAACACGAGAATTT
1 TTTTGA-AACACGAGAATTT
*
11620949 TTTTGAAATACGAGAA--T
1 TTTTGAAACACGAGAATTT
** *
11620966 TTTAAAAACACGA-AA-AT
1 TTTTGAAACACGAGAATTT
* * * *
11620983 TTCTAAAACACTA-AA-AT
1 TTTTGAAACACGAGAATTT
** * *
11621000 TTTAAAAACACGGGATTTT
1 TTTTGAAACACGAGAATTT
*
11621019 TTTTGAAACACGGGAA-TT
1 TTTTGAAACACGAGAATTT
*
11621037 TTTTGAAAACACG-GAA-AT
1 TTTTG-AAACACGAGAATTT
* *
11621055 TTTTGAGACACGA-AGTTT
1 TTTTGAAACACGAGAATTT
11621073 TTTT
1 TTTT
11621077 TTAAAAAACA
Statistics
Matches: 118, Mismatches: 23, Indels: 15
0.76 0.15 0.10
Matches are distributed among these distances:
16 2 0.02
17 42 0.36
18 22 0.19
19 36 0.31
20 16 0.14
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (19 bp):
TTTTGAAACACGAGAATTT
Found at i:11621038 original size:18 final size:19
Alignment explanation
Indices: 11620999--11621058 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
11620989 AACACTAAAA
* *
11620999 TTTTAAAAACACGGGATTTT
1 TTTTGAAAACACGGGA-ATT
11621019 TTTTG-AAACACGGGAATT
1 TTTTGAAAACACGGGAATT
*
11621037 TTTTGAAAACACGGAAATT
1 TTTTGAAAACACGGGAATT
11621056 TTT
1 TTT
11621059 GAGACACGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.19
19 25 0.69
20 4 0.11
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (19 bp):
TTTTGAAAACACGGGAATT
Found at i:11621058 original size:36 final size:36
Alignment explanation
Indices: 11620891--11621075 Score: 112
Period size: 36 Copynumber: 5.2 Consensus size: 36
11620881 ATGTGAGATT
* * * *
11620891 TTTTTTTAAAACAC-GAAAATTTTGAAACACTATAA
1 TTTTTTAAAAACACGGAAATTTTTGAAACACGAGAA
* * * *
11620926 TTCTTTTGAGAACACGAGAATTTTTTTGAAATACGAGAA
1 TT-TTTTAAAAACACG-GAA-ATTTTTGAAACACGAGAA
* * * *
11620965 --TTTTAAAAACACGAAAATTTCTAAAACACTA-AA
1 TTTTTTAAAAACACGGAAATTTTTGAAACACGAGAA
* ** *
11620998 -ATTTTAAAAACACGGGATTTTTTTTGAAACACGGGAA
1 TTTTTTAAAAACAC-GGA-AATTTTTGAAACACGAGAA
* * *
11621035 TTTTTTGAAAACACGGAAATTTTTGAGACACGA-AG
1 TTTTTTAAAAACACGGAAATTTTTGAAACACGAGAA
11621070 TTTTTT
1 TTTTTT
11621076 TTTAAAAAAC
Statistics
Matches: 112, Mismatches: 29, Indels: 18
0.70 0.18 0.11
Matches are distributed among these distances:
33 2 0.02
34 22 0.20
35 13 0.12
36 43 0.38
37 5 0.04
38 14 0.12
39 13 0.12
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (36 bp):
TTTTTTAAAAACACGGAAATTTTTGAAACACGAGAA
Found at i:11621059 original size:18 final size:18
Alignment explanation
Indices: 11620965--11621060 Score: 63
Period size: 18 Copynumber: 5.3 Consensus size: 18
11620955 AATACGAGAA
* *
11620965 TTTTAAAAACACGAAAAT
1 TTTTGAAAACACGGAAAT
* * *
11620983 TTCT-AAAACAC-TAAAA
1 TTTTGAAAACACGGAAAT
* **
11620999 TTTTAAAAACACGGGATTTT
1 TTTTGAAAACAC-GGA-AAT
*
11621019 TTTTG-AAACACGGGAATT
1 TTTTGAAAACAC-GGAAAT
11621037 TTTTGAAAACACGGAAAT
1 TTTTGAAAACACGGAAAT
11621055 TTTTGA
1 TTTTGA
11621061 GACACGAAGT
Statistics
Matches: 62, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
16 6 0.10
17 14 0.23
18 21 0.34
19 17 0.27
20 4 0.06
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.33
Consensus pattern (18 bp):
TTTTGAAAACACGGAAAT
Found at i:11621422 original size:12 final size:12
Alignment explanation
Indices: 11621405--11621429 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11621395 CGGTGATATT
11621405 CATCCAACATAG
1 CATCCAACATAG
11621417 CATCCAACATAG
1 CATCCAACATAG
11621429 C
1 C
11621430 GATGAAATCA
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:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (12 bp):
CATCCAACATAG
Found at i:11621526 original size:17 final size:17
Alignment explanation
Indices: 11621488--11621527 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
11621478 AAAATTATTT
*
11621488 AAAATAAAATAAAATTA
1 AAAATAAAATAAAAATA
*
11621505 AAAATAAATTAAAAATA
1 AAAATAAAATAAAAATA
*
11621522 TAAATA
1 AAAATA
11621528 CAAAAATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
AAAATAAAATAAAAATA
Found at i:11621690 original size:11 final size:11
Alignment explanation
Indices: 11621666--11621705 Score: 62
Period size: 12 Copynumber: 3.5 Consensus size: 11
11621656 GGATTAACAA
11621666 TTTTTCCTTCTT
1 TTTTTCCTT-TT
11621678 TTTTTCCTTTT
1 TTTTTCCTTTT
11621689 TTTTTCTCTTTT
1 TTTTTC-CTTTT
11621701 TTTTT
1 TTTTT
11621706 TCTGTTGGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 8 0.30
12 19 0.70
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTCCTTTT
Found at i:11621708 original size:13 final size:12
Alignment explanation
Indices: 11621666--11621707 Score: 59
Period size: 13 Copynumber: 3.5 Consensus size: 12
11621656 GGATTAACAA
*
11621666 TTTTTCCTTCTT
1 TTTTTCCTTTTT
11621678 TTTTTCC-TTTT
1 TTTTTCCTTTTT
11621689 TTTTTCTCTTTTT
1 TTTTTC-CTTTTT
11621702 TTTTTC
1 TTTTTC
11621708 TGTTGGGCTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 9 0.33
12 8 0.30
13 10 0.37
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTTCCTTTTT
Found at i:11621865 original size:18 final size:17
Alignment explanation
Indices: 11621842--11621881 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
11621832 TTTCTTCTTC
*
11621842 TTTTTTCTGCTTCTTTCT
1 TTTTTTCTGCTACTTT-T
*
11621860 TTTTTTTTGCTACTTTT
1 TTTTTTCTGCTACTTTT
11621877 TTTTT
1 TTTTT
11621882 GCTTTGGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.78
Consensus pattern (17 bp):
TTTTTTCTGCTACTTTT
Found at i:11621877 original size:14 final size:14
Alignment explanation
Indices: 11621858--11621884 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11621848 CTGCTTCTTT
11621858 CTTTTTTTTTGCTA
1 CTTTTTTTTTGCTA
11621872 CTTTTTTTTTGCT
1 CTTTTTTTTTGCT
11621885 TTGGTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.04, C:0.15, G:0.07, T:0.74
Consensus pattern (14 bp):
CTTTTTTTTTGCTA
Found at i:11622597 original size:30 final size:29
Alignment explanation
Indices: 11622562--11622688 Score: 101
Period size: 30 Copynumber: 4.2 Consensus size: 29
11622552 GGGCCAAGCA
* *
11622562 TAATTTTGAAAAAATTTAGGGGTCAAAATA
1 TAATTTT-AAAAAATTGAGGGGTCAAAATG
* * * * * * *
11622592 TAATTTCAAAAAGTTGATGAGCCTAAACG
1 TAATTTTAAAAAATTGAGGGGTCAAAATG
* * *
11622621 TAATTTTAGGAAAGTTTAGGGGTCAAAATG
1 TAATTTTA-AAAAATTGAGGGGTCAAAATG
*
11622651 TAATTTTTAAAAAAGTTGAGGGGTTAAAATG
1 TAA-TTTTAAAAAA-TTGAGGGGTCAAAATG
11622682 TAATTTT
1 TAATTTT
11622689 TTATTTTGTA
Statistics
Matches: 73, Mismatches: 21, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
29 21 0.29
30 30 0.41
31 22 0.30
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.35
Consensus pattern (29 bp):
TAATTTTAAAAAATTGAGGGGTCAAAATG
Found at i:11622666 original size:31 final size:31
Alignment explanation
Indices: 11622562--11622689 Score: 111
Period size: 31 Copynumber: 4.3 Consensus size: 31
11622552 GGGCCAAGCA
* * *
11622562 TAATTTTGAAAAAA-TTTAGGGGTCAAAATA
1 TAATTTTTAAAAAAGTTGAGGGGTCAAAATG
* * * * * *
11622592 TAA--TTTCAAAAAGTTGATGAGCCTAAACG
1 TAATTTTTAAAAAAGTTGAGGGGTCAAAATG
** *
11622621 TAA-TTTTAGGAAAGTTTAGGGGTCAAAATG
1 TAATTTTTAAAAAAGTTGAGGGGTCAAAATG
*
11622651 TAATTTTTAAAAAAGTTGAGGGGTTAAAATG
1 TAATTTTTAAAAAAGTTGAGGGGTCAAAATG
11622682 TAATTTTT
1 TAATTTTT
11622690 TATTTTGTAT
Statistics
Matches: 73, Mismatches: 22, Indels: 5
0.73 0.22 0.05
Matches are distributed among these distances:
28 7 0.10
29 12 0.16
30 23 0.32
31 31 0.42
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.35
Consensus pattern (31 bp):
TAATTTTTAAAAAAGTTGAGGGGTCAAAATG
Found at i:11623505 original size:75 final size:75
Alignment explanation
Indices: 11622875--11624313 Score: 1352
Period size: 75 Copynumber: 18.6 Consensus size: 75
11622865 CCCGGCATGC
* * * * *
11622875 GACCCGAAGCTCAACTCACCTCTCG-AATTATGAGTTGA--TCTTCGAAAAACAAAAATCGAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAA-TATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAA
11622937 TACCTTGGCATGTG-T
65 TACC-T--CA-G-GAT
** * * *
11622952 G-CCTAAGGCTCAACTCACC-CATCGCAATATGAGTTGATTTTTTTTTTAACAAC-GGAATTGAA
1 GACCCGAGGCTCAACTCACCTC-TCGCAATATGAGTTGA--TTTTTTTGAAAAACAGAAATTG-A
* **
11623014 AAATACTTCAACAT
62 AAATACCTCAGGAT
11623028 ACGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAA
1 --GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG-AA
*
11623093 AATACCTTAGCG-T
63 AATACCTCAG-GAT
*
11623106 GTACCCGAGGCTCAACTCAACTCTCGCAATATGAGTTGATTTTTTTTTTGAAAAACAGAAATTGA
1 G-ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTTGAAAAACAGAAATTGA
***
11623171 AAATACCTCATCTT
62 AAATACCTCAGGAT
* * * * *
11623185 AACCTGAGGCTCAACTCACCTCTCGCATTATGAATTTATTTTTTTGAAAAACAGAAATTGAAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG-AAAA
11623250 TTACCTCAGCG-T
65 -TACCTCAG-GAT
11623262 GTACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGA-AGAAATTGAAA
1 G-ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA-ACAGAAATTG-AA
11623326 AATACCTCAGCG-T
63 AATACCTCAG-GAT
*
11623339 GTACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAAACAAAAATTGT
1 G-ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTTGAAAAACAGAAATTG-
11623404 AAAATACCTCAGGAT
61 AAAATACCTCAGGAT
* *
11623419 GACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAACTGAAAAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAT
*
11623484 GCCTCAGGAT
66 ACCTCAGGAT
* *
11623494 GACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAACTGAAAAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAT
*
11623559 GCCTCAGGAT
66 ACCTCAGGAT
* * *
11623569 GACCCGAGGCTCAACTCACCTCTCGCATTATGAGTGGATTCTTGATTTGATTTTTTTTAAA-AGA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TT--TTTGA-------AAAACAGA
* *
11623633 AATTAAAAAATACCTC-GGCTT
56 AATT-GAAAATACCTCAGG-AT
* *
11623654 GCAGCCCGAGGCTCAACTCACGTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAATTTGAAA
1 G-A-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAA
11623717 ATACCTCAGCG-T
64 ATACCTCAG-GAT
* *
11623729 GACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGA--TTTTTGAAAAAATAGAAATTGAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAAACAGAAATTGAAAA
* *
11623792 TACCT-TGGCGT
65 TACCTCAGG-AT
* * * * * *
11623803 GCAGCTCAAGGCACAACTCACCTCTTGCATTATGAGTTGATTTTTTTGAAAAATAGAAATTGAAA
1 G-A-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAA
*
11623868 ATACCTC-GGCGT
64 ATACCTCAGG-AT
* * * *
11623880 GACCCGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCTT-TAAAACAAAAATTTAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-TTGAAAAACAGAAA-TT--GA
11623944 GAAATACCTC-GGCATGT
62 -AAATACCTCAGG-A--T
* *
11623961 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAACAAAAATTGTAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG-AAAA
11624026 TACCTCAGGAT
65 TACCTCAGGAT
* * * * * * *
11624037 GACCCGAGGCTCAACTTACCTCTCGCATTATGAGTGGA-TTCTTTAAAAAATAGAAATTTAAATG
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA-TT-GA--
11624101 AAATACCTC-GGCAT
62 AAATACCTCAGG-AT
** * * *
11624115 GTGTCTGAGGCTCAACTCACGTCTCGCAATATGAGTTGA--TTTTTGAAAAAATAGAAATTGAAA
1 G-ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAAACAGAAATTGAAA
*
11624178 AGTACCTCGGGATGT
64 A-TACCTCAGGA--T
* * *
11624193 GGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAAAAATTTAAAAG
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA-TT--GA-
11624256 AAATACCTC-GGCAT
62 AAATACCTCAGG-AT
**
11624270 GTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 G-ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
11624314 GCAAAAATAT
Statistics
Matches: 1174, Mismatches: 105, Indels: 163
0.81 0.07 0.11
Matches are distributed among these distances:
72 1 0.00
73 41 0.03
74 24 0.02
75 227 0.19
76 155 0.13
77 190 0.16
78 188 0.16
79 151 0.13
80 81 0.07
81 53 0.05
82 5 0.00
84 10 0.01
85 14 0.01
86 1 0.00
87 33 0.03
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (75 bp):
GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAT
ACCTCAGGAT
Found at i:11623625 original size:87 final size:87
Alignment explanation
Indices: 11623528--11623700 Score: 201
Period size: 87 Copynumber: 2.0 Consensus size: 87
11623518 GCATTATGAG
* *
11623528 TTGATTTTTTTGAAAAACAGAAACT-GAAAATGCCTCAGG-ATG-A-CCCGAGGCTCAACTCACC
1 TTGATTTTTTT--AAAA-AGAAACTAAAAAATACCTC-GGCATGCAGCCCGAGGCTCAACTCACC
*
11623589 TCTCGCATTATGAGTGGATTCTTGAT
62 TCTCGCAATATGAGTGGATTCTTGAT
* * * *
11623615 TTGATTTTTTTTAAAAGAAATTAAAAAATACCTCGGCTTGCAGCCCGAGGCTCAACTCACGTCTC
1 TTGATTTTTTTAAAAAGAAACTAAAAAATACCTCGGCATGCAGCCCGAGGCTCAACTCACCTCTC
* *
11623680 GCAATATGAGTTGATTTTTGA
66 GCAATATGAGTGGATTCTTGA
11623701 AAAACAGAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
84 8 0.11
85 14 0.19
86 1 0.01
87 50 0.68
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (87 bp):
TTGATTTTTTTAAAAAGAAACTAAAAAATACCTCGGCATGCAGCCCGAGGCTCAACTCACCTCTC
GCAATATGAGTGGATTCTTGAT
Found at i:11624322 original size:155 final size:152
Alignment explanation
Indices: 11622844--11624313 Score: 1341
Period size: 156 Copynumber: 9.5 Consensus size: 152
11622834 ATTTTTTATT
* * * *
11622844 AAAAAAAGAAA-TCAAAAATAGCC-CGGCATGCGACCCGAAGCTCAACTCACCTCTCG-AATTAT
1 AAAAACAGAAATTAAAAAATA-CCTCGGCATGTG-CCCGAGGCTCAACTCACCTCTCGCAA-TAT
* * * * * * * **
11622906 GAGTTGA-TCTTCGAAAAACAAAAATCGAAAATACCTTGGCATGTGTGCCTAAGGCTCAACTCAC
63 GAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCGGGATGTG-ACCCGAGGCTCAACTCAC
*
11622970 C-CATCGCAATATGAGTTGATTTTTTTTTT
127 CTC-TCGCAATATGAGTTGA---TTTTTTG
* * * * ** **
11622999 AACAAC-GGAATTGAAAAATACTTCAACATACGACCCGAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTAAAAAATACCTCGGCATGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGA
* * *
11623063 GTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTTAGCG-TGT-ACCCGAGGCTCAACTCAA
65 GTTGA-TTTTTTGAAAAACAGAAATTG-AAAATACC-TCGGGATGTGACCCGAGGCTCAACTCAC
11623126 CTCTCGCAATATGAGTTGATTTTTTTTTTG
127 CTCTCGCAATATGAGTTGA----TTTTTTG
* ** * * *
11623156 AAAAACAGAAATT-GAAAATACCTCATC-T-TAACCTGAGGCTCAACTCACCTCTCGCATTATGA
1 AAAAACAGAAATTAAAAAATACCTCGGCATGT-GCCCGAGGCTCAACTCACCTCTCGCAATATGA
* * *
11623218 ATTTATTTTTTTGAAAAACAGAAATTGAAAAATTACCTCAGCG-TGT-ACCCGAGGCTCAACTCA
65 GTTGA-TTTTTTGAAAAACAGAAATTG-AAAA-TACCTC-GGGATGTGACCCGAGGCTCAACTCA
11623281 CCTCTCGCAATATGAGTTGATTTTTTTG
126 CCTCTCGCAATATGAGTTGA-TTTTTTG
* * * *
11623309 AAAAGA-AGAAATTGAAAAATACCTCAGCGTGTACCCGAGGCTCAACTCACCTCTCGCAATATGA
1 AAAA-ACAGAAATTAAAAAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGA
* *
11623373 GTTGATTTTTTTTTTGAAAAACAAAAATTGTAAAATACCTCAGGA--TGACCCGAGGCTCAACTC
65 GTTGA----TTTTTTGAAAAACAGAAATTG-AAAATACCTCGGGATGTGACCCGAGGCTCAACTC
*
11623436 ACCTCTCGCATTATGAGTTGATTTTTTTG
125 ACCTCTCGCAATATGAGTTGA-TTTTTTG
* * * * *
11623465 AAAAACAGAAACT-GAAAATGCCTCAGG-ATG-ACCCGAGGCTCAACTCACCTCTCGCATTATGA
1 AAAAACAGAAATTAAAAAATACCTC-GGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGA
* * *
11623527 GTTGATTTTTTTGAAAAACAGAAACTGAAAATGCCTCAGGA--TGACCCGAGGCTCAACTCACCT
65 GTTGA-TTTTTTGAAAAACAGAAATTGAAAATACCTCGGGATGTGACCCGAGGCTCAACTCACCT
* *
11623590 CTCGCATTATGAGTGGATTCTTGATTTG
129 CTCGCAATATGAGTTGA-T-TT--TTTG
* * * *
11623618 ATTTTTTTTAAA-AGAAATTAAAAAATACCTCGGCTTGCAGCCCGAGGCTCAACTCACGTCTCGC
1 A-------AAAACAGAAATTAAAAAATACCTCGGCATG-TGCCCGAGGCTCAACTCACCTCTCGC
* * *
11623682 AATATGAGTTGA-TTTTTGAAAAACAGAATTTGAAAATACCTC-AG-CGTGACCCGAGGCTCAAC
58 AATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCGGGATGTGACCCGAGGCTCAAC
*
11623744 TCACCTCTCGCATTATGAGTTGA-TTTTTG
123 TCACCTCTCGCAATATGAGTTGATTTTTTG
* * * * * * * * * *
11623773 AAAAAATAGAAATT-GAAAATACCTTGGCGTGCAGCTCAAGGCACAACTCACCTCTTGCATTATG
1 -AAAAACAGAAATTAAAAAATACCTCGGCATG-TGCCCGAGGCTCAACTCACCTCTCGCAATATG
* * *
11623837 AGTTGATTTTTTTGAAAAATAGAAATTGAAAATACCTC-GG-CGTGACCCGAAGCTCAACTCACC
64 AGTTGA-TTTTTTGAAAAACAGAAATTGAAAATACCTCGGGATGTGACCCGAGGCTCAACTCACC
*
11623900 TCTCGCAATATGAGTTGATTTTTCTT
128 TCTCGCAATATGAGTTGATTTTT-TG
* *
11623926 TAAAACAAAAATTTAAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
1 AAAAACAGAAA-TT-AAA-AAATACCTCGGCATGTG-CCCGAGGCTCAACTCACCTCTCGCAATA
* * * *
11623991 TGAGTTGATTTTTTTTAAAAACAAAAATTGTAAAATACCTCAGGA--TGACCCGAGGCTCAACTT
62 TGAGTTGA-TTTTTTGAAAAACAGAAATTG-AAAATACCTCGGGATGTGACCCGAGGCTCAACTC
* * * *
11624054 ACCTCTCGCATTATGAGTGGATTCTTTA
125 ACCTCTCGCAATATGAGTTGATTTTTTG
* * * *
11624082 AAAAATAGAAATTTAAATGAAATACCTCGGCATGTGTCTGAGGCTCAACTCACGTCTCGCAATAT
1 AAAAACAGAAA-TTAAA--AAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATAT
* *
11624147 GAGTTGA-TTTTTGAAAAAATAGAAATTGAAAAGTACCTCGGGATGTGGCCCGAGGCTCAACTCA
63 GAGTTGATTTTTTG-AAAAACAGAAATTGAAAA-TACCTCGGGATGTGACCCGAGGCTCAACTCA
11624211 CCTCTCGCAATATGAGTTGA-TTTTTG
126 CCTCTCGCAATATGAGTTGATTTTTTG
* *
11624237 AAAAACAAAAATTTAAAAGAAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATAT
1 AAAAACAGAAA-TT-AAA-AAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATAT
11624302 GAGTTGATTTTT
63 GAGTTGATTTTT
11624314 GCAAAAATAT
Statistics
Matches: 1129, Mismatches: 125, Indels: 121
0.82 0.09 0.09
Matches are distributed among these distances:
149 50 0.04
150 60 0.05
151 90 0.08
152 12 0.01
153 36 0.03
154 74 0.07
155 268 0.24
156 273 0.24
157 99 0.09
158 43 0.04
159 11 0.01
160 79 0.07
162 34 0.03
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (152 bp):
AAAAACAGAAATTAAAAAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTGAAAAACAGAAATTGAAAATACCTCGGGATGTGACCCGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTTG
Found at i:11628594 original size:15 final size:16
Alignment explanation
Indices: 11628567--11628596 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11628557 GAATCGGGGT
11628567 GAACTGAGGTTTTGCG
1 GAACTGAGGTTTTGCG
11628583 GAACTG-GGTTTTGC
1 GAACTGAGGTTTTGC
11628597 TGGTCCTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.17, C:0.13, G:0.37, T:0.33
Consensus pattern (16 bp):
GAACTGAGGTTTTGCG
Found at i:11630074 original size:4 final size:4
Alignment explanation
Indices: 11630065--11630099 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
11630055 ATGTATATGC
*
11630065 AATG AATG AATG AATG AATG AATG -ATT AATG AATG
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG
11630100 TTAGCCATGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 2 0.07
4 26 0.93
ACGTcount: A:0.49, C:0.00, G:0.23, T:0.29
Consensus pattern (4 bp):
AATG
Found at i:11631811 original size:18 final size:18
Alignment explanation
Indices: 11631761--11631909 Score: 83
Period size: 17 Copynumber: 8.3 Consensus size: 18
11631751 AACACGAAAA
* *
11631761 TTTTGAAACACTATAATT
1 TTTTGAAACACGAGAATT
11631779 CTTTTGAGAACACGAGAATT
1 -TTTTGA-AACACGAGAATT
*
11631799 TTTTGAAATACGAGAA-T
1 TTTTGAAACACGAGAATT
** * *
11631816 TTTAAAAACACTA-AAAT
1 TTTTGAAACACGAGAATT
* * * *
11631833 TTCTAAAACACTA-AA-A
1 TTTTGAAACACGAGAATT
* *
11631849 TTTTGAAAACACGGGATTTT
1 TTTTG-AAACACGAGA-ATT
*
11631869 TTTTGAAACACGGGAATT
1 TTTTGAAACACGAGAATT
*
11631887 TTTTGAAAACACG-GAAAT
1 TTTTG-AAACACGAGAATT
11631905 TTTTG
1 TTTTG
11631910 GGACACGAAG
Statistics
Matches: 105, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
16 5 0.05
17 30 0.29
18 26 0.25
19 29 0.28
20 15 0.14
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.35
Consensus pattern (18 bp):
TTTTGAAACACGAGAATT
Found at i:11631818 original size:17 final size:19
Alignment explanation
Indices: 11631761--11631818 Score: 66
Period size: 18 Copynumber: 3.1 Consensus size: 19
11631751 AACACGAAAA
* *
11631761 TTTTGA-AACACTATAATT
1 TTTTGAGAACACGAGAATT
11631779 CTTTTGAGAACACGAGAATT
1 -TTTTGAGAACACGAGAATT
*
11631799 TTTTGA-AATACGAGAATT
1 TTTTGAGAACACGAGAATT
11631817 TT
1 TT
11631819 AAAAACACTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
18 13 0.37
19 12 0.34
20 10 0.29
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (19 bp):
TTTTGAGAACACGAGAATT
Found at i:11632503 original size:14 final size:14
Alignment explanation
Indices: 11632484--11632510 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11632474 CTTCTTTTTT
11632484 CTTTTTTTTTGCTG
1 CTTTTTTTTTGCTG
11632498 CTTTTTTTTTGCT
1 CTTTTTTTTTGCT
11632511 TTGGTATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.11, T:0.74
Consensus pattern (14 bp):
CTTTTTTTTTGCTG
Found at i:11632620 original size:4 final size:4
Alignment explanation
Indices: 11632611--11632662 Score: 52
Period size: 4 Copynumber: 12.5 Consensus size: 4
11632601 TTTATTATTT
* *
11632611 TTTC TTTC TTT- TTTC TTTCCC TTTT TTTC TTTT TTTC TTTC TTTC TTCTC
1 TTTC TTTC TTTC TTTC TTT--C TTTC TTTC TTTC TTTC TTTC TTTC TT-TC
11632661 TT
1 TT
11632663 CTTCTTCCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
3 3 0.08
4 29 0.73
5 4 0.10
6 4 0.10
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:11632622 original size:11 final size:11
Alignment explanation
Indices: 11632608--11632665 Score: 64
Period size: 11 Copynumber: 5.2 Consensus size: 11
11632598 TTTTTTATTA
11632608 TTTTTTCTTTC
1 TTTTTTCTTTC
11632619 TTTTTTCTTTC
1 TTTTTTCTTTC
**
11632630 CCTTTT-TTTC
1 TTTTTTCTTTC
11632640 TTTTTTTCTTTC
1 -TTTTTTCTTTC
*
11632652 TTTCTTCTCTTC
1 TTTTTTCT-TTC
11632664 TT
1 TT
11632666 CTTCCTTCCC
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
10 4 0.10
11 26 0.67
12 9 0.23
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:11632796 original size:18 final size:19
Alignment explanation
Indices: 11632751--11632802 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
11632741 TGTGGTCGGG
*
11632751 CTCTCCTCT-TCTCTTCCTT
1 CTCTCTTCTCTCT-TTCCTT
11632770 CTCTCTTCTC-CTTTCCTT
1 CTCTCTTCTCTCTTTCCTT
* *
11632788 CTTTTTTCTCTCTTT
1 CTCTCTTCTCTCTTT
11632803 TTTCGAAGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 14 0.50
19 14 0.50
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (19 bp):
CTCTCTTCTCTCTTTCCTT
Found at i:11633317 original size:61 final size:59
Alignment explanation
Indices: 11633202--11633319 Score: 182
Period size: 61 Copynumber: 2.0 Consensus size: 59
11633192 ATTATTTTGA
*
11633202 GAAAATTTAGGGGTCAAAATATAATTTTAAAAAGTTGATGGGCTAAAATGTAATTTTAG
1 GAAAATTTAGGGGTCAAAATATAATTTTAAAAAGTTGAGGGGCTAAAATGTAATTTTAG
* * *
11633261 GAAAGTTTAGGGGTCAAAATGTAATTTTTAAAAAAGTTGAGGGGTTAAAATGTAATTTT
1 GAAAATTTAGGGGTCAAAATATAA-TTTT-AAAAAGTTGAGGGGCTAAAATGTAATTTT
11633320 TTATTTTTGT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
59 22 0.42
60 4 0.08
61 27 0.51
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.35
Consensus pattern (59 bp):
GAAAATTTAGGGGTCAAAATATAATTTTAAAAAGTTGAGGGGCTAAAATGTAATTTTAG
Found at i:11633320 original size:31 final size:30
Alignment explanation
Indices: 11633210--11633319 Score: 134
Period size: 31 Copynumber: 3.7 Consensus size: 30
11633200 GAGAAAATTT
*
11633210 AGGGGTCAAAATATAATTTT-AAAAAGTTG
1 AGGGGTCAAAATGTAATTTTAAAAAAGTTG
* ** *
11633239 ATGGG-CTAAAATGTAATTTTAGGAAAGTTT
1 AGGGGTC-AAAATGTAATTTTAAAAAAGTTG
11633269 AGGGGTCAAAATGTAATTTTTAAAAAAGTTG
1 AGGGGTCAAAATGTAA-TTTTAAAAAAGTTG
*
11633300 AGGGGTTAAAATGTAATTTT
1 AGGGGTCAAAATGTAATTTT
11633320 TTATTTTTGT
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
28 1 0.01
29 16 0.24
30 23 0.34
31 27 0.40
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.35
Consensus pattern (30 bp):
AGGGGTCAAAATGTAATTTTAAAAAAGTTG
Found at i:11637802 original size:28 final size:28
Alignment explanation
Indices: 11637741--11637803 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
11637731 TTGAAATCTT
*
11637741 ACTGTTACAATATGGCCATTGGAATATG
1 ACTGTTACAATATGGCCATTGGAACATG
* * * *
11637769 ACTGTTGCAATGTGGCCGTTGGAACCTG
1 ACTGTTACAATATGGCCATTGGAACATG
*
11637797 ATTGTTA
1 ACTGTTA
11637804 AATTTTTTGG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (28 bp):
ACTGTTACAATATGGCCATTGGAACATG
Found at i:11642402 original size:18 final size:16
Alignment explanation
Indices: 11642368--11642435 Score: 68
Period size: 15 Copynumber: 4.2 Consensus size: 16
11642358 TAATAATAAT
11642368 AAAGAAAGAAAAAGAA
1 AAAGAAAGAAAAAGAA
*
11642384 ATAGAAAGAACAAACGAA
1 AAAGAAAGAA-AAA-GAA
* *
11642402 AAAGAAAGAAACA-TA
1 AAAGAAAGAAAAAGAA
*
11642417 AAGGAAAG-AAAAGAA
1 AAAGAAAGAAAAAGAA
11642432 AAAG
1 AAAG
11642436 GGAAGGAAAG
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
14 3 0.07
15 12 0.29
16 9 0.22
17 5 0.12
18 12 0.29
ACGTcount: A:0.74, C:0.04, G:0.19, T:0.03
Consensus pattern (16 bp):
AAAGAAAGAAAAAGAA
Found at i:11642445 original size:16 final size:16
Alignment explanation
Indices: 11642371--11642447 Score: 52
Period size: 16 Copynumber: 4.8 Consensus size: 16
11642361 TAATAATAAA
*
11642371 GAAAGAAAAAGAAATA-
1 GAAAG-AAAAGAAAAAG
11642387 GAAAGAACAAACGAAAAA-
1 GAAAG-A-AAA-GAAAAAG
* *
11642405 GAAAG-AAACATAAAG
1 GAAAGAAAAGAAAAAG
11642420 GAAAGAAAAGAAAAAG
1 GAAAGAAAAGAAAAAG
* *
11642436 GGAAGGAAAGAA
1 GAAAGAAAAGAA
11642448 GGAGAAAGCA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
14 4 0.08
15 8 0.16
16 25 0.50
17 3 0.06
18 10 0.20
ACGTcount: A:0.70, C:0.04, G:0.23, T:0.03
Consensus pattern (16 bp):
GAAAGAAAAGAAAAAG
Found at i:11642530 original size:18 final size:19
Alignment explanation
Indices: 11642499--11642536 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
11642489 ATAAACAAAG
* *
11642499 AAATAGAAATAGAAAGAAC
1 AAATAGAAAAAGAAACAAC
11642518 AAAT-GAAAAAGAAACAAC
1 AAATAGAAAAAGAAACAAC
11642536 A
1 A
11642537 GAAATGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.71, C:0.08, G:0.13, T:0.08
Consensus pattern (19 bp):
AAATAGAAAAAGAAACAAC
Found at i:11642543 original size:20 final size:20
Alignment explanation
Indices: 11642491--11642545 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
11642481 GTTCAATTAT
*
11642491 AAACAA-AGAAATAGAAATAG
1 AAACAACAGAAAT-GAAAAAG
*
11642511 AAAGAAC--AAATGAAAAAG
1 AAACAACAGAAATGAAAAAG
11642529 AAACAACAGAAATGAAA
1 AAACAACAGAAATGAAA
11642546 TAAAAGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 12 0.41
19 4 0.14
20 13 0.45
ACGTcount: A:0.71, C:0.07, G:0.15, T:0.07
Consensus pattern (20 bp):
AAACAACAGAAATGAAAAAG
Found at i:11642587 original size:122 final size:123
Alignment explanation
Indices: 11642366--11642610 Score: 393
Period size: 122 Copynumber: 2.0 Consensus size: 123
11642356 AATAATAATA
* *
11642366 ATAAAGAAAGAAAAAGAAATAGAAAGAACAAACGAAAAAGAAAGAAACATAAAGGAAAGAAAAGA
1 ATAAACAAAGAAAAAGAAATAGAAAGAACAAACGAAAAAGAAAGAAACAGAAAGGAAAGAAAAGA
*
11642431 AAAAGGGAAGGAAAGAAGGAGAAAGCAAAGTTAGGGTTTCAAAGTTCCAAGTTCAATT
66 AAAAGGGAAGGAAAGAAGGAGAAAGCAAAGTTAGGGTTTCAAAATTCCAAGTTCAATT
* * * * *
11642489 ATAAACAAAGAAATAGAAATAGAAAGAACAAATGAAAAAGAAA-CAACAGAAATGAAATAAAAGA
1 ATAAACAAAGAAAAAGAAATAGAAAGAACAAACGAAAAAGAAAGAAACAGAAAGGAAAGAAAAGA
* *
11642553 AAAAGGGAAGGAAAGAAGGAGAAAGCAAGGTTAGGGTTTCAAAATTTCAAGTTCAATT
66 AAAAGGGAAGGAAAGAAGGAGAAAGCAAAGTTAGGGTTTCAAAATTCCAAGTTCAATT
11642611 GGTTAGTCAA
Statistics
Matches: 112, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
122 72 0.64
123 40 0.36
ACGTcount: A:0.59, C:0.07, G:0.22, T:0.13
Consensus pattern (123 bp):
ATAAACAAAGAAAAAGAAATAGAAAGAACAAACGAAAAAGAAAGAAACAGAAAGGAAAGAAAAGA
AAAAGGGAAGGAAAGAAGGAGAAAGCAAAGTTAGGGTTTCAAAATTCCAAGTTCAATT
Found at i:11644227 original size:15 final size:16
Alignment explanation
Indices: 11644188--11644230 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
11644178 ATGCATAAAT
11644188 AATAATAATGCAAGTAAC
1 AATAATAA--CAAGTAAC
11644206 AAT-ATAACAA-TAAC
1 AATAATAACAAGTAAC
11644220 AATAATAACAA
1 AATAATAACAA
11644231 CTACAACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.29
15 10 0.42
17 4 0.17
18 3 0.12
ACGTcount: A:0.63, C:0.12, G:0.05, T:0.21
Consensus pattern (16 bp):
AATAATAACAAGTAAC
Found at i:11646329 original size:45 final size:45
Alignment explanation
Indices: 11646269--11646782 Score: 297
Period size: 44 Copynumber: 11.3 Consensus size: 45
11646259 TTTTAATCCA
* *
11646269 CTCCACTGCAACTTCAGGGAGATAGGATTAGTTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGTTATCTTCAATCTG
*
11646314 CTCCACTGCAACTTCAGGGACATAAGATT-GTTATCTTCAA-CTTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGTTATCTTCAATC-TG
* * * * *
11646358 CTCCACTGCAACTTTAGGGAGATAAGGTT--TGA--TACGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGTTATCTTCAATCTG
* * * * *
11646399 CTCTACTACAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGA--T-T-AGTTAT--CTTCAATCTG
* * * * * * *
11646450 TTCCACTGCAACTTTAGGGAAATAAGATTCGCTATCTTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGTTATCTTCAATCTG
* * *
11646495 CTCCACTACAACTTCAGGGAGATAAGACTT-G-TATATTAAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTAGTTATCTTCAATCTG
* * ** *
11646539 C-CTCGCTGCAACTTCAGGGGGATAAGATTAG-TGGCTTCAATCTT
1 CTC-CACTGCAACTTCAGGGAGATAAGATTAGTTATCTTCAATCTG
* * * *
11646583 CTCCACCGCAACTTCAGGGCGATAAGATTCGCCATGATGACTTCAATC--
1 CTCCACTGCAACTTCAGGGAGATAAGATTAG---TTAT--CTTCAATCTG
* ** *
11646631 CATCCCACTGCAACTTCAGGGGGATAAGATTAG-TGGCTTCAATCTT
1 C-T-CCACTGCAACTTCAGGGAGATAAGATTAGTTATCTTCAATCTG
* * * *
11646677 CTCCACCGCAACTTCAGGGCGATAAGATTCGCCATGATGACTTCAATC--
1 CTCCACTGCAACTTCAGGGAGATAAGATTAG---TTAT--CTTCAATCTG
* ** *
11646725 CATCCCACTGCAACTTCAGGG-GTATAGGATTA-TTGGCTTTAATCTG
1 C-T-CCACTGCAACTTCAGGGAG-ATAAGATTAGTTATCTTCAATCTG
11646771 CTCCACTGCAAC
1 CTCCACTGCAAC
11646783 GCTAGGAAAA
Statistics
Matches: 361, Mismatches: 71, Indels: 75
0.71 0.14 0.15
Matches are distributed among these distances:
41 27 0.07
42 1 0.00
43 7 0.02
44 156 0.43
45 61 0.17
46 5 0.01
47 5 0.01
48 3 0.01
49 4 0.01
50 65 0.18
51 27 0.07
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTAGTTATCTTCAATCTG
Found at i:11646648 original size:50 final size:50
Alignment explanation
Indices: 11646585--11646745 Score: 219
Period size: 50 Copynumber: 3.3 Consensus size: 50
11646575 TCAATCTTCT
11646585 CCACCGCAACTTCAGGGCGATAAGATTCGCCATGATGACTTCAATCCATC
1 CCACCGCAACTTCAGGGCGATAAGATTCGCCATGATGACTTCAATCCATC
* * * *
11646635 CCACTGCAACTTCAGGGGGATAAGATT----A-G-TGGCTTCAAT-CTTC
1 CCACCGCAACTTCAGGGCGATAAGATTCGCCATGATGACTTCAATCCATC
11646678 TCCACCGCAACTTCAGGGCGATAAGATTCGCCATGATGACTTCAATCCATC
1 -CCACCGCAACTTCAGGGCGATAAGATTCGCCATGATGACTTCAATCCATC
*
11646729 CCACTGCAACTTCAGGG
1 CCACCGCAACTTCAGGG
11646746 GTATAGGATT
Statistics
Matches: 94, Mismatches: 9, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
43 3 0.03
44 34 0.36
45 1 0.01
46 1 0.01
48 1 0.01
49 1 0.01
50 50 0.53
51 3 0.03
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.24
Consensus pattern (50 bp):
CCACCGCAACTTCAGGGCGATAAGATTCGCCATGATGACTTCAATCCATC
Found at i:11646799 original size:94 final size:94
Alignment explanation
Indices: 11646544--11646782 Score: 424
Period size: 94 Copynumber: 2.5 Consensus size: 94
11646534 ATCTGCCTCG
11646544 CTGCAACTTCAGGGGGATAAGATTAGTGGCTTCAATCTTCTCCACCGCAACTTCAGGGCGATAAG
1 CTGCAACTTCAGGGGGATAAGATTAGTGGCTTCAATCTTCTCCACCGCAACTTCAGGGCGATAAG
11646609 ATTCGCCATGATGACTTCAATCCATCCCA
66 ATTCGCCATGATGACTTCAATCCATCCCA
11646638 CTGCAACTTCAGGGGGATAAGATTAGTGGCTTCAATCTTCTCCACCGCAACTTCAGGGCGATAAG
1 CTGCAACTTCAGGGGGATAAGATTAGTGGCTTCAATCTTCTCCACCGCAACTTCAGGGCGATAAG
11646703 ATTCGCCATGATGACTTCAATCCATCCCA
66 ATTCGCCATGATGACTTCAATCCATCCCA
* * * * * *
11646732 CTGCAACTTCAGGGGTATAGGATTATTGGCTTTAATCTGCTCCACTGCAAC
1 CTGCAACTTCAGGGGGATAAGATTAGTGGCTTCAATCTTCTCCACCGCAAC
11646783 GCTAGGAAAA
Statistics
Matches: 139, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 139 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (94 bp):
CTGCAACTTCAGGGGGATAAGATTAGTGGCTTCAATCTTCTCCACCGCAACTTCAGGGCGATAAG
ATTCGCCATGATGACTTCAATCCATCCCA
Found at i:11646988 original size:51 final size:50
Alignment explanation
Indices: 11646876--11647018 Score: 171
Period size: 51 Copynumber: 2.8 Consensus size: 50
11646866 TTAACGCTAG
*
11646876 GGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGTAATGCCA
1 GGAGATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACTGTAATGCCA
* * * *
11646926 GGGGAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGTAATGCCAA
1 GGAG-ATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACTGTAATGCC-A
*** *
11646978 GGAGATAAGATTTATTTCCTTCAGCTTTAAT-TCGCTCCACT
1 GGAGATAAGATTCGCTACCTTCAGCTTTAATCT-GCTCCACT
11647019 TCAGCTTTAA
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
50 4 0.05
51 69 0.90
52 4 0.05
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (50 bp):
GGAGATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACTGTAATGCCA
Found at i:11647076 original size:72 final size:72
Alignment explanation
Indices: 11646936--11647090 Score: 168
Period size: 72 Copynumber: 2.2 Consensus size: 72
11646926 GGGGAACAAG
* * * ** * * * * * * *
11646936 ATTCGCTAC-CTTTAGCTTTAATCTGTTCCACTGTAATGCCAAGGAGATAAGATTTATTTCCTTC
1 ATTCGCTCCACTTCAGCTTTAATCTATTCCACTACAACGCCAAGGAAACAAGATTCACTACCTTA
11647000 AGCTTTA
66 AGCTTTA
*
11647007 ATTCGCTCCACTTCAGCTTTAATCTATTCCACTACAACGCCAAGGAAACAAGATTCGCTACCTTA
1 ATTCGCTCCACTTCAGCTTTAATCTATTCCACTACAACGCCAAGGAAACAAGATTCACTACCTTA
11647072 AGCTTTA
66 AGCTTTA
* *
11647079 ATTTGTTCCACT
1 ATTCGCTCCACT
11647091 GCAACGCTAG
Statistics
Matches: 68, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
71 8 0.12
72 60 0.88
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.35
Consensus pattern (72 bp):
ATTCGCTCCACTTCAGCTTTAATCTATTCCACTACAACGCCAAGGAAACAAGATTCACTACCTTA
AGCTTTA
Found at i:11647088 original size:51 final size:51
Alignment explanation
Indices: 11647007--11647121 Score: 140
Period size: 51 Copynumber: 2.2 Consensus size: 51
11646997 TTCAGCTTTA
* *
11647007 ATTCGCTCCACTTCAGCTTTAATCTATTCCACTACAACGCCAAGGAAACAAG
1 ATTCGCTAC-CTTAAGCTTTAATCTATTCCACTACAACGCCAAGGAAACAAG
* * * * * *
11647059 ATTCGCTACCTTAAGCTTTAATTTGTTCCACTGCAACGCTAGGGAAATAAG
1 ATTCGCTACCTTAAGCTTTAATCTATTCCACTACAACGCCAAGGAAACAAG
*
11647110 ATTCGCTGCCTT
1 ATTCGCTACCTT
11647122 CAGTCTTCTC
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
51 46 0.85
52 8 0.15
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.30
Consensus pattern (51 bp):
ATTCGCTACCTTAAGCTTTAATCTATTCCACTACAACGCCAAGGAAACAAG
Found at i:11647122 original size:123 final size:122
Alignment explanation
Indices: 11646885--11647124 Score: 300
Period size: 123 Copynumber: 2.0 Consensus size: 122
11646875 GGGAGATAAG
* * ** * * * *
11646885 ATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGTAATGCCAGGGGAACAAGATTCGCTACCTTTA
1 ATTCGCTCCCTTCAGCTTTAATCTACTCCACTACAACGCCAAGGAAACAAGATTCGCTACCTTAA
* * * * * *
11646950 GCTTTAATCTGTTCCACTGTAATGCCAAGGAGATAAGATTTATTTCCTTCAGCTTTA
66 GCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCACTGCCTTCAGCTTTA
*
11647007 ATTCGCTCCACTTCAGCTTTAATCTATTCCACTACAACGCCAAGGAAACAAGATTCGCTACCTTA
1 ATTCGCTCC-CTTCAGCTTTAATCTACTCCACTACAACGCCAAGGAAACAAGATTCGCTACCTTA
* * * *
11647072 AGCTTTAATTTGTTCCACTGCAACGCTAGGGAAATAAGATTCGCTGCCTTCAG
65 AGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCACTGCCTTCAG
11647125 TCTTCTCCAC
Statistics
Matches: 98, Mismatches: 19, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
122 8 0.08
123 90 0.92
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (122 bp):
ATTCGCTCCCTTCAGCTTTAATCTACTCCACTACAACGCCAAGGAAACAAGATTCGCTACCTTAA
GCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCACTGCCTTCAGCTTTA
Found at i:11649648 original size:42 final size:42
Alignment explanation
Indices: 11649589--11649749 Score: 250
Period size: 42 Copynumber: 3.8 Consensus size: 42
11649579 TATAAAAAGT
* *
11649589 TCACCACATGCCCCAATCTGATCCAAATTTGAGCTACTCTGA
1 TCACCTCATGCCCCAATCTGATCAAAATTTGAGCTACTCTGA
11649631 TCACCTCATGCCCCAATCTGATCAAAATTTGAGCTACTCTGA
1 TCACCTCATGCCCCAATCTGATCAAAATTTGAGCTACTCTGA
* **
11649673 TCATCTCATGCCTTAATCTGATCAAAATTTGAGCTACTCTGA
1 TCACCTCATGCCCCAATCTGATCAAAATTTGAGCTACTCTGA
* *
11649715 TCACCTCATGCCCCATTTTGATCCAAAATTTGAGC
1 TCACCTCATGCCCCAATCTGAT-CAAAATTTGAGC
11649750 CGCTCTTTTT
Statistics
Matches: 108, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
42 96 0.89
43 12 0.11
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (42 bp):
TCACCTCATGCCCCAATCTGATCAAAATTTGAGCTACTCTGA
Found at i:11649671 original size:21 final size:21
Alignment explanation
Indices: 11649647--11649717 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
11649637 CATGCCCCAA
11649647 TCTGATCAAAATTTGAGCTAC
1 TCTGATCAAAATTTGAGCTAC
* * *
11649668 TCTGATC---ATCTCATGCCTTAA
1 TCTGATCAAAATTTGA-G-C-TAC
11649689 TCTGATCAAAATTTGAGCTAC
1 TCTGATCAAAATTTGAGCTAC
11649710 TCTGATCA
1 TCTGATCA
11649718 CCTCATGCCC
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
18 4 0.11
19 1 0.03
20 1 0.03
21 26 0.68
22 1 0.03
23 1 0.03
24 4 0.11
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.35
Consensus pattern (21 bp):
TCTGATCAAAATTTGAGCTAC
Found at i:11649913 original size:17 final size:17
Alignment explanation
Indices: 11649861--11649914 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
11649851 ATCATTTTCA
11649861 TTTTTTTGAAATAT-TT
1 TTTTTTTGAAATATGTT
* *
11649877 TTTATTTTG-ATTTTGATT
1 TTT-TTTTGAAATATG-TT
11649895 TTTTTTTGAAATATGTT
1 TTTTTTTGAAATATGTT
11649912 TTT
1 TTT
11649915 GATTATACCT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
16 6 0.20
17 15 0.50
18 9 0.30
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.70
Consensus pattern (17 bp):
TTTTTTTGAAATATGTT
Found at i:11654758 original size:15 final size:16
Alignment explanation
Indices: 11654719--11654761 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
11654709 ATGCATAAAT
11654719 AATAATAATGCAAGTAAC
1 AATAATAA--CAAGTAAC
11654737 AAT-ATAACAA-TAAC
1 AATAATAACAAGTAAC
11654751 AATAATAACAA
1 AATAATAACAA
11654762 CGACAACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.29
15 10 0.42
17 4 0.17
18 3 0.12
ACGTcount: A:0.63, C:0.12, G:0.05, T:0.21
Consensus pattern (16 bp):
AATAATAACAAGTAAC
Found at i:11655962 original size:6 final size:7
Alignment explanation
Indices: 11655945--11655970 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
11655935 TTCGTATGTA
11655945 AAAAAAT
1 AAAAAAT
11655952 AAAAAAT
1 AAAAAAT
11655959 AAAAAAT
1 AAAAAAT
11655966 AAAAA
1 AAAAA
11655971 GTAGAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:11666234 original size:19 final size:19
Alignment explanation
Indices: 11666210--11666250 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
11666200 AAAAAAAAAA
11666210 GAAAAAAAAAGTCTGCCAT
1 GAAAAAAAAAGTCTGCCAT
* * *
11666229 GAAAAAGATAGTCTGCCTT
1 GAAAAAAAAAGTCTGCCAT
11666248 GAA
1 GAA
11666251 GATAGAGTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.20
Consensus pattern (19 bp):
GAAAAAAAAAGTCTGCCAT
Found at i:11666905 original size:13 final size:13
Alignment explanation
Indices: 11666887--11666916 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
11666877 TTAAAAAAAT
11666887 TTAAAATTTTTAA
1 TTAAAATTTTTAA
*
11666900 TTAAAATTTTTTA
1 TTAAAATTTTTAA
11666913 TTAA
1 TTAA
11666917 TAAATATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTAAAATTTTTAA
Found at i:11670090 original size:58 final size:58
Alignment explanation
Indices: 11669932--11670091 Score: 146
Period size: 58 Copynumber: 2.8 Consensus size: 58
11669922 CCCTCAAATA
* * * * * * *
11669932 ATGAAAATGGATAGCTTTGGCTATCGAATATGAAAAGTGATAGTTTCAGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGAGATGGTATCAGCCATCGAAT
* * * * * * *
11669990 ATGAAAAGGGAT-GGTAACGACCATC-AACTATTAACAGGGATGGTGAT-AGCCATCGAAT
1 ATGAAAAGGGATAGCT-TCGGCTATCGAA-TATGAAAAGAGATGGT-ATCAGCCATCGAAT
11670048 ATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGAGATGGT
1 ATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGAGATGGT
11670092 TTCGACCGTC
Statistics
Matches: 77, Mismatches: 20, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
57 4 0.05
58 68 0.88
59 5 0.06
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.26
Consensus pattern (58 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGAGATGGTATCAGCCATCGAAT
Found at i:11670095 original size:29 final size:29
Alignment explanation
Indices: 11669932--11670122 Score: 118
Period size: 29 Copynumber: 6.6 Consensus size: 29
11669922 CCCTCAAATA
* *
11669932 ATGAAAATGGATAGCTTT-GGCTATCGAAT
1 ATGAAAAGGGAT-GGTTTCGGCTATCGAAT
* * * *
11669961 ATGAAAAGTGATAGTTTCAGCTATCGATT
1 ATGAAAAGGGATGGTTTCGGCTATCGAAT
** * *
11669990 ATGAAAAGGGATGGTAACGACCATC-AACT
1 ATGAAAAGGGATGGTTTCGGCTATCGAA-T
* * * * *
11670019 ATTAACAGGGATGGTGAT-AGCCATCGAAT
1 ATGAAAAGGGATGGT-TTCGGCTATCGAAT
* *
11670048 ATGAAAAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATGGTTTCGGCTATCGAAT
* * ** *
11670077 ATGAAAAGAGATGGTTTCGACCGTCGATT
1 ATGAAAAGGGATGGTTTCGGCTATCGAAT
*
11670106 AAAGAAAAGGGATGGTT
1 -ATGAAAAGGGATGGTT
11670123 ACGACCATAG
Statistics
Matches: 121, Mismatches: 35, Indels: 11
0.72 0.21 0.07
Matches are distributed among these distances:
28 5 0.04
29 99 0.82
30 17 0.14
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGGATGGTTTCGGCTATCGAAT
Found at i:11674603 original size:24 final size:24
Alignment explanation
Indices: 11674576--11674627 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
11674566 TTCGTAAGTC
* *
11674576 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
**
11674600 AAATATGTTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
11674624 AAAT
1 AAAT
11674628 CTCCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:11675483 original size:23 final size:23
Alignment explanation
Indices: 11675460--11675891 Score: 269
Period size: 23 Copynumber: 18.5 Consensus size: 23
11675450 ACACCAAAAT
*
11675460 TTGGACAGCATATATACAACAAT
1 TTGGACAGCATATATACAACAAA
* *
11675483 TTAGG-CAACATATATACAACATA
1 TT-GGACAGCATATATACAACAAA
* * * *
11675506 TT-GAGCAGCATTTTTGCACCAAAA
1 TTGGA-CAGCATATATACAAC-AAA
* *
11675530 TTGGACAGCTTATACACAACAAA
1 TTGGACAGCATATATACAACAAA
*
11675553 TTGGACAGCA-ATTACACAACAAA
1 TTGGACAGCATA-TATACAACAAA
* * *
11675576 TT-GAGCAGCATTTTTACACCGAAAA
1 TTGGA-CAGCATATATACAAC--AAA
* *
11675601 TTGGACAGCTTATATAAAACAAA
1 TTGGACAGCATATATACAACAAA
*
11675624 TTGG-CAGCAAATATACAACAAA
1 TTGGACAGCATATATACAACAAA
* * *
11675646 TT-GAGCAGCATTTTTACACCAAAAA
1 TTGGA-CAGCATATATACA--ACAAA
*
11675671 TTGGACAGCTTATATACAACAAA
1 TTGGACAGCATATATACAACAAA
* * * *
11675694 TT-GAGCAGCATTTTTGCACCAAAA
1 TTGGA-CAGCATATATACAAC-AAA
*
11675718 TTGGACAGCA-ATTACACAAC-AA
1 TTGGACAGCATA-TATACAACAAA
* * * *
11675740 TTTGAGCAGCATTTTTACACCAAAAA
1 TTGGA-CAGCATATATACA--ACAAA
*
11675766 TTGGACAGCTTATATACAACAAA
1 TTGGACAGCATATATACAACAAA
*
11675789 TTGG-CAGCAAATATACAACAAA
1 TTGGACAGCATATATACAACAAA
* * *
11675811 TT-GAGCAGCATTTTTACACCAAAAA
1 TTGGA-CAGCATATATACA--ACAAA
*
11675836 TTGGACAGCTTATATACAACAAA
1 TTGGACAGCATATATACAACAAA
*
11675859 TTGG-CAGCAAATATACAACAAA
1 TTGGACAGCATATATACAACAAA
11675881 TT-GAGCAGCAT
1 TTGGA-CAGCAT
11675892 TTTTACACCN
Statistics
Matches: 308, Mismatches: 69, Indels: 64
0.70 0.16 0.15
Matches are distributed among these distances:
21 4 0.01
22 64 0.21
23 137 0.44
24 29 0.09
25 62 0.20
26 12 0.04
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.25
Consensus pattern (23 bp):
TTGGACAGCATATATACAACAAA
Found at i:11675549 original size:70 final size:69
Alignment explanation
Indices: 11675441--11675703 Score: 357
Period size: 70 Copynumber: 3.7 Consensus size: 69
11675431 CAAACTAAAT
* * * * * * *
11675441 AGCAATTTCACACCAAAATTTGGACAGCATATATACAACAATTTAGGCAACATATATACAACATA
1 AGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATT-GGCAGCA-ATATACAACAAA
11675506 TTGAGC
64 TTGAGC
* * *
11675512 AGCATTTTTGCACC-AAAATTGGACAGCTTATACACAACAAATTGGACAGCAATTACACAACAAA
1 AGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGG-CAGCAA-TATACAACAAA
11675576 TTGAGC
64 TTGAGC
* *
11675582 AGCATTTTTACACCGAAAATTGGACAGCTTATATAAAACAAATTGGCAGCAAATATACAACAAAT
1 AGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGGCAGC-AATATACAACAAAT
11675647 TGAGC
65 TGAGC
11675652 AGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGAGCAGCA
1 AGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTG-GCAGCA
11675704 TTTTTGCACC
Statistics
Matches: 171, Mismatches: 16, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
69 3 0.02
70 121 0.71
71 47 0.27
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.24
Consensus pattern (69 bp):
AGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGGCAGCAATATACAACAAATT
GAGC
Found at i:11675727 original size:95 final size:94
Alignment explanation
Indices: 11675493--11675797 Score: 340
Period size: 95 Copynumber: 3.2 Consensus size: 94
11675483 TTAGGCAACA
* **
11675493 TATATACAACATATTGAGCAGCATTTTTGCACCAAAATTGGACAGCTTATACACAACAAATTG-G
1 TATATACAACAAATTG-GCAGCATTTTTGCACCAAAATTGGACAGCAAATACACAACAAATTGAG
*
11675557 ACAGCA--ATTACA-CAACAAATT-GAGCAGCAT
65 -CAGCATTTTTACACCAA-AAATTGGA-CAGC-T
* * * ** * *
11675587 T-TTTACACCGAAAATTGGACAGC-TTATATAAAAC-AAATTGG-CAGCAAATATACAACAAATT
1 TATATACAAC--AAATTGG-CAGCATT-TTTGCACCAAAATTGGACAGCAAATACACAACAAATT
11675648 GAGCAGCATTTTTACACCAAAAATTGGACAGCT
62 GAGCAGCATTTTTACACCAAAAATTGGACAGCT
* *
11675681 TATATACAACAAATTGAGCAGCATTTTTGCACCAAAATTGGACAGCAATTACACAACAATTTGAG
1 TATATACAACAAATTG-GCAGCATTTTTGCACCAAAATTGGACAGCAAATACACAACAAATTGAG
11675746 CAGCATTTTTACACCAAAAATTGGACAGCT
65 CAGCATTTTTACACCAAAAATTGGACAGCT
11675776 TATATACAACAAATTGGCAGCA
1 TATATACAACAAATTGGCAGCA
11675798 AATATACAAC
Statistics
Matches: 177, Mismatches: 20, Indels: 28
0.79 0.09 0.12
Matches are distributed among these distances:
93 43 0.24
94 30 0.17
95 99 0.56
96 5 0.03
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (94 bp):
TATATACAACAAATTGGCAGCATTTTTGCACCAAAATTGGACAGCAAATACACAACAAATTGAGC
AGCATTTTTACACCAAAAATTGGACAGCT
Found at i:11675736 original size:165 final size:164
Alignment explanation
Indices: 11675550--11675867 Score: 600
Period size: 165 Copynumber: 1.9 Consensus size: 164
11675540 TATACACAAC
*
11675550 AAATTGGACAGCAATTACACAACAAATTGAGCAGCATTTTTACACCGAAAATTGGACAGCTTATA
1 AAATTGGACAGCAATTACACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCTTATA
11675615 TAAAACAAATTGGCAGCAAATATACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGC
66 TAAAACAAATTGGCAGCAAATATACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGC
11675680 TTATATACAACAAATTGAGCAGCATTTTTGCACCA
131 TTATATACAACAAATTG-GCAGCATTTTTGCACCA
*
11675715 AAATTGGACAGCAATTACACAACAATTTGAGCAGCATTTTTACACCAAAAATTGGACAGCTTATA
1 AAATTGGACAGCAATTACACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCTTATA
*
11675780 TACAACAAATTGGCAGCAAATATACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGC
66 TAAAACAAATTGGCAGCAAATATACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGC
11675845 TTATATACAACAAATTGGCAGCA
131 TTATATACAACAAATTGGCAGCA
11675868 AATATACAAC
Statistics
Matches: 150, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
164 6 0.04
165 144 0.96
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.25
Consensus pattern (164 bp):
AAATTGGACAGCAATTACACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCTTATA
TAAAACAAATTGGCAGCAAATATACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGC
TTATATACAACAAATTGGCAGCATTTTTGCACCA
Found at i:11675797 original size:70 final size:70
Alignment explanation
Indices: 11675715--11675900 Score: 336
Period size: 70 Copynumber: 2.6 Consensus size: 70
11675705 TTTTGCACCA
* * *
11675715 AAATTGGACAGCAATTACACAACAATTTGAGCAGCATTTTTACACCAAAAATTGGACAGCTTATA
1 AAATTGG-CAGCAAATATACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCTTATA
11675780 TACAAC
65 TACAAC
11675786 AAATTGGCAGCAAATATACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCTTATAT
1 AAATTGGCAGCAAATATACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCTTATAT
11675851 ACAAC
66 ACAAC
11675856 AAATTGGCAGCAAATATACAACAAATTGAGCAGCATTTTTACACC
1 AAATTGGCAGCAAATATACAACAAATTGAGCAGCATTTTTACACC
11675901 NNNNNNNNNN
Statistics
Matches: 112, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
70 105 0.94
71 7 0.06
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (70 bp):
AAATTGGCAGCAAATATACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCTTATAT
ACAAC
Found at i:11675828 original size:95 final size:95
Alignment explanation
Indices: 11675612--11675890 Score: 299
Period size: 95 Copynumber: 3.0 Consensus size: 95
11675602 TGGACAGCTT
* * * *
11675612 ATATAAAAC-AAATTGG-CAGCAAATATACAACAAATTGAGCAGCATTTTTACACCAAAAATTGG
1 ATATACAACAAAATTGGACAGCAATTACACAACAATTTGAGCAGCATTTTTACACCAAAAATTGG
*
11675675 ACAGCTTATATACAACAAATTGAGCAGCAT
66 ACAGCTTATATACAACAAATTGAGCAGCAA
* * * *
11675705 TTTTGCACCAAAATTGGACAGCAATTACACAACAATTTGAGCAGCATTTTTACACCAAAAATTGG
1 ATATACAACAAAATTGGACAGCAATTACACAACAATTTGAGCAGCATTTTTACACCAAAAATTGG
11675770 ACAGCTTATATACAACAAATTG-GCAGCAA
66 ACAGCTTATATACAACAAATTGAGCAGCAA
* * * * *
11675799 ATATACAAC-AAATT-GAGCAGCATTTTTACACCAAAAATTGGA-CAGC-TTATATACA--ACAA
1 ATATACAACAAAATTGGA-CAGCA--ATTACA-CAACAATTTGAGCAGCATT-TTTACACCAAAA
**
11675858 ATTGG-CAGCAAATATACAACAAATTGAGCAGCA
61 ATTGGACAGCTTATATACAACAAATTGAGCAGCA
11675891 TTTTTACACC
Statistics
Matches: 158, Mismatches: 20, Indels: 16
0.81 0.10 0.08
Matches are distributed among these distances:
92 21 0.13
93 28 0.18
94 20 0.13
95 80 0.51
96 9 0.06
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.24
Consensus pattern (95 bp):
ATATACAACAAAATTGGACAGCAATTACACAACAATTTGAGCAGCATTTTTACACCAAAAATTGG
ACAGCTTATATACAACAAATTGAGCAGCAA
Found at i:11679596 original size:24 final size:24
Alignment explanation
Indices: 11679552--11679597 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
11679542 GGTCAAACAA
* **
11679552 ATTATGCTAATAAATGTTAAATAT
1 ATTATACTAATAAATACTAAATAT
11679576 ATTATACTAATAAATACTAAAT
1 ATTATACTAATAAATACTAAAT
11679598 CTTCTAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (24 bp):
ATTATACTAATAAATACTAAATAT
Found at i:11680446 original size:22 final size:22
Alignment explanation
Indices: 11680398--11680451 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
11680388 TTTTTAATTA
* *
11680398 AAAATATATTTTTATCATGTTT
1 AAAATATATATATATCATGTTT
*
11680420 CAAATATATATATATCAAT-TTT
1 AAAATATATATATATC-ATGTTT
*
11680442 AAAATTTATA
1 AAAATATATA
11680452 AAAATAGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (22 bp):
AAAATATATATATATCATGTTT
Found at i:11680466 original size:20 final size:21
Alignment explanation
Indices: 11680443--11680496 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
11680433 ATCAATTTTA
*
11680443 AAATTTATAAAAAT-AGAAAT
1 AAATATATAAAAATCAGAAAT
11680463 AAATATATAAAAATCAGAAA-
1 AAATATATAAAAATCAGAAAT
*
11680483 ATATATAATAAAAA
1 AAATAT-ATAAAAA
11680497 GTATAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.26
Consensus pattern (21 bp):
AAATATATAAAAATCAGAAAT
Found at i:11683870 original size:8 final size:7
Alignment explanation
Indices: 11683843--11683868 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
11683833 TTTAAATTTT
11683843 AAAAATA
1 AAAAATA
11683850 AAAAATA
1 AAAAATA
11683857 AAAAATA
1 AAAAATA
11683864 AAAAA
1 AAAAA
11683869 ATTCGGGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:11683880 original size:9 final size:9
Alignment explanation
Indices: 11683868--11683944 Score: 75
Period size: 9 Copynumber: 8.4 Consensus size: 9
11683858 AAAATAAAAA
11683868 AATTCGGGT
1 AATTCGGGT
11683877 AATTCGGGT
1 AATTCGGGT
*
11683886 ATTTTTC-GGT
1 A--ATTCGGGT
* *
11683896 AATTCTGTT
1 AATTCGGGT
*
11683905 AATTCGGTT
1 AATTCGGGT
*
11683914 AATTCGGTT
1 AATTCGGGT
11683923 AATTCGGGT
1 AATTCGGGT
*
11683932 AATTCAGGT
1 AATTCGGGT
11683941 AATT
1 AATT
11683945 TTTACCAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
8 3 0.05
9 49 0.83
10 4 0.07
11 3 0.05
ACGTcount: A:0.23, C:0.10, G:0.23, T:0.43
Consensus pattern (9 bp):
AATTCGGGT
Found at i:11685671 original size:19 final size:19
Alignment explanation
Indices: 11685647--11685684 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
11685637 TTTCTTTACT
11685647 TTGAAGTTAGAATTTTGAA
1 TTGAAGTTAGAATTTTGAA
11685666 TTGAAGTTAGAATTTTGAA
1 TTGAAGTTAGAATTTTGAA
11685685 GAATTTCCAA
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:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (19 bp):
TTGAAGTTAGAATTTTGAA
Found at i:11685894 original size:3 final size:3
Alignment explanation
Indices: 11685880--11685923 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
11685870 TTATTTTCTT
*
11685880 TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11685924 CGAACAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:11686395 original size:23 final size:23
Alignment explanation
Indices: 11686346--11686396 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
11686336 TTTGCGAGCA
* * * *
11686346 TAAACGAATATGTTCGTAAATGT
1 TAAACGAACATGTTCGCAAACGC
*
11686369 TAAACGAACATGTTCGCGAACGC
1 TAAACGAACATGTTCGCAAACGC
11686392 TAAAC
1 TAAAC
11686397 AAATCGAGCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (23 bp):
TAAACGAACATGTTCGCAAACGC
Found at i:11690680 original size:181 final size:185
Alignment explanation
Indices: 11690341--11690684 Score: 461
Period size: 181 Copynumber: 1.9 Consensus size: 185
11690331 CCCCAAGATG
**
11690341 TTTAAAGTTGCTGTGACACTTGTTGTATCTGTTGGCCTGTAAGCTTTCCTTTCCTTCTGCTACTG
1 TTTAAAGTTGCTGTGACACTTCCTGTATCTGTTGGCCTGTAAGCTTTCC-TTCCTTCTGC-ACTG
* * * *
11690406 TAAGTTTTTCATGGTAACATGAATTGATATACTAATGCCAACTAACAACAAAATGTGGCAAGTAT
64 TAAGTTTTTCAGGGAAACATGAATTGATATACTAATGCAAACTAACAACAAAATGTAGCAAGTAT
**
11690471 ATTACGATTTAAACTTTCTTATTAATCAATTCATCTTACATTGAACAATAATTACTA
129 ATTAAAATTTAAACTTTCTTATTAATCAATTCATCTTACATTGAACAATAATTACTA
*
11690528 TTTAAAGTTGCTGTGACGCTTCCTGTATCTGTTGGCCTGTAAGCATTT-C-T-CTTCT-C-CTGT
1 TTTAAAGTTGCTGTGACACTTCCTGTATCTGTTGGCCTGTAAGC-TTTCCTTCCTTCTGCACTGT
* * *
11690588 AA-TATTTTCAGGGAAACATGAATTGATATACTAATGGAAACTAAGAACAATATGTAGCGAA-TA
65 AAGT-TTTTCAGGGAAACATGAATTGATATACTAATGCAAACTAACAACAAAATGTAGC-AAGTA
*
11690651 -AGTTAAAATTTAATCTTTCTTATTAATCAATTCA
128 TA-TTAAAATTTAAACTTTCTTATTAATCAATTCA
11690685 ACATACATCC
Statistics
Matches: 140, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
180 2 0.01
181 84 0.60
182 2 0.01
183 1 0.01
184 5 0.04
185 1 0.01
187 42 0.30
188 3 0.02
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.38
Consensus pattern (185 bp):
TTTAAAGTTGCTGTGACACTTCCTGTATCTGTTGGCCTGTAAGCTTTCCTTCCTTCTGCACTGTA
AGTTTTTCAGGGAAACATGAATTGATATACTAATGCAAACTAACAACAAAATGTAGCAAGTATAT
TAAAATTTAAACTTTCTTATTAATCAATTCATCTTACATTGAACAATAATTACTA
Found at i:11695628 original size:14 final size:15
Alignment explanation
Indices: 11695598--11695640 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
11695588 TGATGCCAGC
11695598 AAATATTTTAAAAAT
1 AAATATTTTAAAAAT
*
11695613 AAATATTTT-TAAAT
1 AAATATTTTAAAAAT
*
11695627 AATTA-TTTAAAAAT
1 AAATATTTTAAAAAT
11695641 TTGATTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 3 0.12
14 12 0.50
15 9 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATATTTTAAAAAT
Found at i:11697050 original size:23 final size:23
Alignment explanation
Indices: 11697007--11697054 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 23
11696997 ATCTTTAAAA
*
11697007 TTAATTTTTTGAAAATATATTTT
1 TTAATTTTTTCAAAATATATTTT
*
11697030 TTAA-TTTTTC-AAAT-TATTAT
1 TTAATTTTTTCAAAATATATTTT
11697050 TTAAT
1 TTAAT
11697055 CGATTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 9 0.41
21 4 0.18
22 5 0.23
23 4 0.18
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
TTAATTTTTTCAAAATATATTTT
Found at i:11697987 original size:29 final size:29
Alignment explanation
Indices: 11697951--11698008 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
11697941 ACACTTTATC
*
11697951 TTAATAATTTTGGTAAACAATACATAATT
1 TTAATAATTTCGGTAAACAATACATAATT
11697980 TTAATAATTTCGGTAAACAATACATAATT
1 TTAATAATTTCGGTAAACAATACATAATT
11698009 AATATTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.40
Consensus pattern (29 bp):
TTAATAATTTCGGTAAACAATACATAATT
Found at i:11699207 original size:32 final size:32
Alignment explanation
Indices: 11699166--11699227 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
11699156 CTTGCATGTT
11699166 TGGTAAATAGGTAAATAGGAGTTGTGAAATGA
1 TGGTAAATAGGTAAATAGGAGTTGTGAAATGA
*
11699198 TGGTAAATAGGTAAATTGGAGTTGTGAAAT
1 TGGTAAATAGGTAAATAGGAGTTGTGAAAT
11699228 AAACTGAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.31
Consensus pattern (32 bp):
TGGTAAATAGGTAAATAGGAGTTGTGAAATGA
Found at i:11704664 original size:40 final size:40
Alignment explanation
Indices: 11704619--11704789 Score: 261
Period size: 40 Copynumber: 4.3 Consensus size: 40
11704609 CCTTGTTGCT
* *
11704619 TAGCAGGCTTCGTGTCAGTGTACTTATCGGGCTTAGTCCC
1 TAGCAGGCTTCGTGTCGGTGTACTTATCGGGCTTAGTGCC
*
11704659 TAGCAGGCTTCGTGTCGGTGTACTTATCGGGCTTAGTGAC
1 TAGCAGGCTTCGTGTCGGTGTACTTATCGGGCTTAGTGCC
* * * * *
11704699 TAGCATGCTTCGTGTTGGTATACTTATCGGGATTAGTGCT
1 TAGCAGGCTTCGTGTCGGTGTACTTATCGGGCTTAGTGCC
*
11704739 TAGCAGGCTTCGTGTCGGTGTACTTATCGGGGTTAGTGCC
1 TAGCAGGCTTCGTGTCGGTGTACTTATCGGGCTTAGTGCC
11704779 TAGCAGGCTTC
1 TAGCAGGCTTC
11704790 AACTGGTGTA
Statistics
Matches: 117, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 117 1.00
ACGTcount: A:0.15, C:0.20, G:0.30, T:0.34
Consensus pattern (40 bp):
TAGCAGGCTTCGTGTCGGTGTACTTATCGGGCTTAGTGCC
Found at i:11709983 original size:336 final size:336
Alignment explanation
Indices: 11709370--11710383 Score: 1758
Period size: 336 Copynumber: 3.0 Consensus size: 336
11709360 TTAGAAGGAA
** *
11709370 GATTTAGGCTCCATAGTTTCCTATAGAATCCTTTAGATGTGGCTTGTAATTCATTGAAAGTAGGA
1 GATTTAGGCTCCATAACTTCCTATAGAATCCTCTAGATGTGGCTTGTAATTCATTGAAAGTAGGA
* * *
11709435 CTAGGAATACCAAATTGTAATAGTTTGTAGGCACTCCGAACAAAGAACTCTCCTCAGAGTTCGCA
66 CTAGGAATACCAGATTGTAATAGTTTGTAGGCACTCCGAACAAAGAACTCTCCTAAGGGTTCGCA
* *
11709500 TCTCCACACCATCACATCATTGTGTGGTTCTTTTGCCAATGGGATTCGAAATATCCTGGCCACGT
131 TCTCCACACCATCACATCCTCGTGTGGTTCTTTTGCCAATGGGATTCGAAATATCCTGGCCACGT
* *
11709565 CAGCATCAAAGAAAGTATCGGTAATAATCTCTCACCTCCATTTTCTATTAGCATTATCAATTAAA
196 CAGCATCAAAGAAAGTATCGGTAATAATCTCTCGCCTCCATTCTCTATTAGCATTATCAATTAAA
*
11709630 CCAGCAACTATTAATATGTTATTATCACGAACCATGCTGCTAAATTTATAATCAACCGAACCAGG
261 CCAGCAACTATTAATATGTTATTATCACGAACCATGCTGCTCAATTTATAATCAACCGAACCAGG
11709695 AATACATGCAT
326 AATACATGCAT
11709706 GATTTAGGCTCCATAACTTCCTATAGAATCCTCTAGATGTGGCTTGTAATTCATTGAAAGTAGGA
1 GATTTAGGCTCCATAACTTCCTATAGAATCCTCTAGATGTGGCTTGTAATTCATTGAAAGTAGGA
* ** *
11709771 CTAGAAATACCAGATCATAATAGTTTGTAGGCACTCCGAACAAAGAACTCTCCTAAGGGTTCACA
66 CTAGGAATACCAGATTGTAATAGTTTGTAGGCACTCCGAACAAAGAACTCTCCTAAGGGTTCGCA
* *
11709836 TCTCCACACCATCACATCCTCGTGTGGTTCTTTTGCCAATGGGATTTGAAATATCCTGGCCACAT
131 TCTCCACACCATCACATCCTCGTGTGGTTCTTTTGCCAATGGGATTCGAAATATCCTGGCCACGT
11709901 CAGCATCAAAGAAAGTATCGGTAATAATCTCTCGCCTCCATTCTCTATTAGCATTATCAATTAAA
196 CAGCATCAAAGAAAGTATCGGTAATAATCTCTCGCCTCCATTCTCTATTAGCATTATCAATTAAA
11709966 CCAGCAACTATTAATATGTTATTATCACGAACCATGCTGCTCAATTTATAATCAACCGAACCAGG
261 CCAGCAACTATTAATATGTTATTATCACGAACCATGCTGCTCAATTTATAATCAACCGAACCAGG
11710031 AATACATGCAT
326 AATACATGCAT
* *
11710042 GATTTAGGCTCCATAACTTCCTGTAGAATCCTCTAGATGTGGCTTGTAATTCATTAAAAGTAGGA
1 GATTTAGGCTCCATAACTTCCTATAGAATCCTCTAGATGTGGCTTGTAATTCATTGAAAGTAGGA
*
11710107 CTAGGAATACCAGATTGTAATAGTTTGTAGGCACTCCGAACAAAGAACTCTCCTGAGGGTTCGCA
66 CTAGGAATACCAGATTGTAATAGTTTGTAGGCACTCCGAACAAAGAACTCTCCTAAGGGTTCGCA
* * *
11710172 TCTCCACACCATCACATCCTCGTGTGGTTCTTTTACCAATGGGATTCGAAAAATCCTGGCCGCGT
131 TCTCCACACCATCACATCCTCGTGTGGTTCTTTTGCCAATGGGATTCGAAATATCCTGGCCACGT
* *
11710237 CAGCATCAGAGAAAGTATCGGTAATAATATCTCGCCTCCATTCTCTATTAGCATTATCAATTAAA
196 CAGCATCAAAGAAAGTATCGGTAATAATCTCTCGCCTCCATTCTCTATTAGCATTATCAATTAAA
* * * * *
11710302 TCAGCAACTATTAATACGTTATTATCACGAACCATGCTGCTCATTTTATAATCAACCAAACGAGG
261 CCAGCAACTATTAATATGTTATTATCACGAACCATGCTGCTCAATTTATAATCAACCGAACCAGG
11710367 AATACATGCAT
326 AATACATGCAT
11710378 GATTTA
1 GATTTA
11710384 AAATGGAATT
Statistics
Matches: 642, Mismatches: 36, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
336 642 1.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (336 bp):
GATTTAGGCTCCATAACTTCCTATAGAATCCTCTAGATGTGGCTTGTAATTCATTGAAAGTAGGA
CTAGGAATACCAGATTGTAATAGTTTGTAGGCACTCCGAACAAAGAACTCTCCTAAGGGTTCGCA
TCTCCACACCATCACATCCTCGTGTGGTTCTTTTGCCAATGGGATTCGAAATATCCTGGCCACGT
CAGCATCAAAGAAAGTATCGGTAATAATCTCTCGCCTCCATTCTCTATTAGCATTATCAATTAAA
CCAGCAACTATTAATATGTTATTATCACGAACCATGCTGCTCAATTTATAATCAACCGAACCAGG
AATACATGCAT
Found at i:11718100 original size:5 final size:5
Alignment explanation
Indices: 11718092--11718117 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11718082 TAGGTTAGGA
11718092 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
11718118 TAATTAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:11718947 original size:41 final size:40
Alignment explanation
Indices: 11718829--11718950 Score: 109
Period size: 41 Copynumber: 3.0 Consensus size: 40
11718819 TCACAGAGCT
* * *
11718829 GTGTGTTAGGCCGTGTGCCAAACCATGTGAGCCATACAACC
1 GTGTGTTAGGCCGTGTGCCAAACCATGT-AGTCACACGACC
* ** * ** *
11718870 GTGTGTCACGATCGTGTCCCAAACTGTGTGGCTCACACGACC
1 GTGTGTTA-GGCCGTGTGCCAAACCATGTAG-TCACACGACC
*
11718912 GTGTGTTAGGCCATGTGCCAAACCATGTAAGTCACACGA
1 GTGTGTTAGGCCGTGTGCCAAACCATGT-AGTCACACGA
11718951 ACATGTGTCA
Statistics
Matches: 60, Mismatches: 18, Indels: 6
0.71 0.21 0.07
Matches are distributed among these distances:
41 30 0.50
42 30 0.50
ACGTcount: A:0.24, C:0.27, G:0.26, T:0.23
Consensus pattern (40 bp):
GTGTGTTAGGCCGTGTGCCAAACCATGTAGTCACACGACC
Found at i:11718958 original size:83 final size:83
Alignment explanation
Indices: 11718793--11718968 Score: 214
Period size: 83 Copynumber: 2.1 Consensus size: 83
11718783 ATCAACACCA
* * *
11718793 CACGATCGTGTCCCAAACCGTGCAACTCACAGAGCTGTGTGTTAGGCCGTGTGCCAAACCATGTG
1 CACGATCGTGTCCCAAACCGTGCAACTCACAGAGCCGTGTGTTAGGCCATGTGCCAAACCATGTA
* *
11718858 AGCCATACAACCGTGTGT
66 AGCCACACAACCATGTGT
* ***
11718876 CACGATCGTGTCCCAAACTGTGTGGCTCACACGA-CCGTGTGTTAGGCCATGTGCCAAACCATGT
1 CACGATCGTGTCCCAAACCGTGCAACTCACA-GAGCCGTGTGTTAGGCCATGTGCCAAACCATGT
*
11718940 AAGTCACACGAA-CATGTGT
65 AAGCCACAC-AACCATGTGT
*
11718959 CAAGA-CGTGT
1 CACGATCGTGT
11718969 GTCAGGCCAT
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
82 5 0.06
83 71 0.89
84 4 0.05
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (83 bp):
CACGATCGTGTCCCAAACCGTGCAACTCACAGAGCCGTGTGTTAGGCCATGTGCCAAACCATGTA
AGCCACACAACCATGTGT
Found at i:11722162 original size:29 final size:29
Alignment explanation
Indices: 11722121--11722179 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
11722111 GGACTTCTAC
11722121 AGATTATGCAAAATACGTACCACAGCCAG
1 AGATTATGCAAAATACGTACCACAGCCAG
*
11722150 AGATTATGTAAAATACGTACCACAGCCAG
1 AGATTATGCAAAATACGTACCACAGCCAG
11722179 A
1 A
11722180 CTTTGCCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (29 bp):
AGATTATGCAAAATACGTACCACAGCCAG
Found at i:11728801 original size:70 final size:68
Alignment explanation
Indices: 11728716--11729079 Score: 340
Period size: 69 Copynumber: 5.2 Consensus size: 68
11728706 AAAAAATTAA
* *
11728716 AATAATAAATAAATAAATAGATAAAACAAATATGAATAATATCGAAATTAAATGTTTTAAAAGTA
1 AATAATAAATAAATAAATAGATAAAACAAATATAAATAATAT-TAAATTAAATGTTTTAAAAGTA
11728781 AAAG
65 AAAG
* * * *
11728785 AATAAATAAGTGAATAAATAGATAAAACAAATATAAATAATATTAAATTTAA-GCATTTAAAAAG
1 AAT-AATAAATAAATAAATAGATAAAACAAATATAAATAATATTAAATTAAATG--TTTTAAAAG
11728849 TAAAAG
63 TAAAAG
* * * *
11728855 AATAATAAATAAGTAAATAGATAAAATAAATATACATAATATTAAATTTAAATATTTTAAAAGTA
1 AATAATAAATAAATAAATAGATAAAACAAATATAAATAATATTAAA-TTAAATGTTTTAAAAGTA
*
11728920 AAAT
65 AAAG
* * * *
11728924 AATGATAAATAAATAAATAAATTGATAAA-AAATATAAATAATATTACATTTAAAT-ATTTAAAA
1 AATAATAAATAAATAAATAGA-T-A-AAACAAATATAAATAATATTA-AATTAAATGTTTTAAAA
11728987 GATAAAAG
62 G-TAAAAG
* ** * * * * * * * **
11728995 AATAATGAGCAAATAAATAAATATAATAGATATGAATAATATTAAATT-TAGGTATTTAAAAAAA
1 AATAATAAATAAATAAATAGATAAAACAAATATAAATAATATTAAATTAAATGT-TTTAAAAGTA
11729059 TAAAG
65 -AAAG
*
11729064 AATAATAAATATATAA
1 AATAATAAATAAATAA
11729080 GACAAATATA
Statistics
Matches: 242, Mismatches: 39, Indels: 28
0.78 0.13 0.09
Matches are distributed among these distances:
67 1 0.00
68 7 0.03
69 118 0.49
70 67 0.28
71 45 0.19
72 4 0.02
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (68 bp):
AATAATAAATAAATAAATAGATAAAACAAATATAAATAATATTAAATTAAATGTTTTAAAAGTAA
AAG
Found at i:11728870 original size:19 final size:21
Alignment explanation
Indices: 11728842--11728886 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
11728832 TTTAAGCATT
*
11728842 TAAA-AAGTAAA-AGA-ATAA
1 TAAATAAGTAAATAGATAAAA
11728860 TAAATAAGTAAATAGATAAAA
1 TAAATAAGTAAATAGATAAAA
11728881 TAAATA
1 TAAATA
11728887 TACATAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 7 0.30
20 3 0.13
21 9 0.39
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (21 bp):
TAAATAAGTAAATAGATAAAA
Found at i:11728941 original size:77 final size:75
Alignment explanation
Indices: 11728858--11729026 Score: 186
Period size: 71 Copynumber: 2.3 Consensus size: 75
11728848 GTAAAAGAAT
*
11728858 AATAAATAAGTAAATAGATAAAATAAATATACATAATATTAAATTTAAATATTTTAAAAG-TAAA
1 AATAAATAA-TAAATAGATAAAA-AAATATAAATAATATTAAATTTAAATA-TTTAAAAGATAAA
* * *
11728922 ATAATGATAAATA
63 AGAATAATAAACA
* *
11728935 AAT--A-AATAAATTGAT-AAAAAATATAAATAATATTACATTTAAATATTTAAAAGATAAAAGA
1 AATAAATAATAAATAGATAAAAAAATATAAATAATATTAAATTTAAATATTTAAAAGATAAAAGA
* *
11728996 ATAATGAGCA
66 ATAATAAACA
11729006 AATAAATAAATATAATAGATA
1 AATAAAT-AATA-AATAGATA
11729027 TGAATAATAT
Statistics
Matches: 76, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
70 8 0.11
71 40 0.53
72 3 0.04
73 9 0.12
74 2 0.03
75 5 0.07
76 6 0.08
77 3 0.04
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.31
Consensus pattern (75 bp):
AATAAATAATAAATAGATAAAAAAATATAAATAATATTAAATTTAAATATTTAAAAGATAAAAGA
ATAATAAACA
Found at i:11728962 original size:21 final size:20
Alignment explanation
Indices: 11728926--11728964 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11728916 AGTAAAATAA
*
11728926 TGATAAATAAATAAATAAAT
1 TGATAAAAAAATAAATAAAT
11728946 TGATAAAAAATATAAATAA
1 TGATAAAAAA-ATAAATAA
11728965 TATTACATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (20 bp):
TGATAAAAAAATAAATAAAT
Found at i:11729034 original size:140 final size:139
Alignment explanation
Indices: 11728716--11729131 Score: 421
Period size: 140 Copynumber: 3.1 Consensus size: 139
11728706 AAAAAATTAA
* * * *
11728716 AATAATAAATAAATAAATAGATAAAACAAATATGAATAATATCGAAA-TTAAATGTTTTAAAAGT
1 AATAATAAACAAATAAATAGATAAAATAAATATGAATAATAT-TAAATTTAAATATTTTAAAAGT
* * * *
11728780 AAAAGAATAAATAAGTGAATAAATAGATAAAACAAATATAAATAATATTAAATTTAAGCATTTAA
65 AAAAAAATAAATAAATAAATAAATAGATAAAACAAATATAAATAATATTAAATTTAAACATTTAA
11728845 AAAGTAAAAG
130 AAAGTAAAAG
* *
11728855 AATAATAAATAAGTAAATAGATAAAATAAATAT-ACATAATATTAAATTTAAATATTTTAAAAGT
1 AATAATAAACAAATAAATAGATAAAATAAATATGA-ATAATATTAAATTTAAATATTTTAAAAGT
* * *
11728919 AAAATAATGATAAATAAATAAATAAATTGAT-AAA-AAATATAAATAATATTACATTTAAATATT
65 AAAA-AA--ATAAATAAATAAATAAATAGATAAAACAAATATAAATAATATTAAATTTAAACATT
11728982 T-AAAAGATAAAAG
127 TAAAAAG-TAAAAG
* * * * * **
11728995 AATAATGAGCAAATAAATAAATATAATAGATATGAATAATATTAAATTTAGGTA--TT-----TA
1 AATAATAAACAAATAAATAGATAAAATAAATATGAATAATATTAAATTTAAATATTTTAAAAGTA
* * * * ***
11729053 AAAAAATAAA-GAAT-AATAAATATATAAGACAAATATAAATAATATTAACTTTAGGGATTTAAA
66 AAAAAATAAATAAATAAATAAATAGATAAAACAAATATAAATAATATTAAATTTAAACATTTAAA
*
11729116 AAGT-GAAG
131 AAGTAAAAG
11729124 AATAATAA
1 AATAATAA
11729132 TGAAATTAAT
Statistics
Matches: 236, Mismatches: 31, Indels: 30
0.79 0.10 0.10
Matches are distributed among these distances:
128 9 0.04
129 15 0.06
130 31 0.13
131 5 0.02
132 2 0.01
133 5 0.02
138 6 0.03
139 63 0.27
140 77 0.33
141 4 0.02
142 19 0.08
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (139 bp):
AATAATAAACAAATAAATAGATAAAATAAATATGAATAATATTAAATTTAAATATTTTAAAAGTA
AAAAAATAAATAAATAAATAAATAGATAAAACAAATATAAATAATATTAAATTTAAACATTTAAA
AAGTAAAAG
Found at i:11730744 original size:44 final size:44
Alignment explanation
Indices: 11730672--11730928 Score: 201
Period size: 44 Copynumber: 6.0 Consensus size: 44
11730662 GATTTGTAAC
* * * * * *
11730672 TTGTAGCTTCAATCTGTTCTACTACAACTTCAAGGAAATGAGAT
1 TTGTAGCTTCAATATGCTCCACTGCAACTTCAAGGAGATAAGAT
* * * *
11730716 TTGTAGCTTTATTTTGCTCCACTGCAACTTCAGGGAGATAAGAT
1 TTGTAGCTTCAATATGCTCCACTGCAACTTCAAGGAGATAAGAT
* * * * *
11730760 TCGTAACTTCAATCTGCTCCGCTGCAACTTC-AGAGAGATTAGAT
1 TTGTAGCTTCAATATGCTCCACTGCAACTTCAAG-GAGATAAGAT
* * *
11730804 TTGTGGCTTCAATATGCTCTACTGCAACTTC-AGAGAGATAATAT
1 TTGTAGCTTCAATATGCTCCACTGCAACTTCAAG-GAGATAAGAT
** * * * *
11730848 TAAT-TCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGAT
1 TTGTAGCTTCAATATGCTCCACTGCAACTTCAAGGAGATAAGAT
*
11730891 TTGTA--TT---TA--CTCCACTGCAACTTCAAGGAGAAAAGAT
1 TTGTAGCTTCAATATGCTCCACTGCAACTTCAAGGAGATAAGAT
11730928 T
1 T
11730929 CGTCACGGTG
Statistics
Matches: 172, Mismatches: 38, Indels: 13
0.77 0.17 0.06
Matches are distributed among these distances:
37 27 0.16
39 1 0.01
42 2 0.01
43 34 0.20
44 108 0.63
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (44 bp):
TTGTAGCTTCAATATGCTCCACTGCAACTTCAAGGAGATAAGAT
Found at i:11730893 original size:87 final size:88
Alignment explanation
Indices: 11730678--11730895 Score: 249
Period size: 88 Copynumber: 2.5 Consensus size: 88
11730668 TAACTTGTAG
* * * * * * * * *
11730678 CTTCAATCTGTTCTACTACAACTTCAAGGAAATGAGATTTGTAGCTTTATTTTGCTCCACTGCAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATATGCTCCACTGCAA
* **
11730743 CTTCAGGGAGATAAGATTCGTAA
66 CTTCAGAGAGATAAGATTAATAA
* * * * *
11730766 CTTCAATCTGCTCCGCTGCAACTTCAGAGAGATTAGATTTGTGGCTTCAATATGCTCTACTGCAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATATGCTCCACTGCAA
* *
11730831 CTTCAGAGAGATAATATTAAT-T
66 CTTCAGAGAGATAAGATTAATAA
*
11730853 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTA
11730896 TTTACTCCAC
Statistics
Matches: 107, Mismatches: 23, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
87 38 0.36
88 69 0.64
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (88 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATATGCTCCACTGCAA
CTTCAGAGAGATAAGATTAATAA
Found at i:11735129 original size:30 final size:30
Alignment explanation
Indices: 11735093--11735149 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
11735083 AATATCATAG
*
11735093 GTACATGTCAAGATCAAAAGAACATTTTAA
1 GTACATGTCAAGATCAAAAAAACATTTTAA
11735123 GTACATGTCAAGATCAAAAAAACATTT
1 GTACATGTCAAGATCAAAAAAACATTT
11735150 CACCAACAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.26
Consensus pattern (30 bp):
GTACATGTCAAGATCAAAAAAACATTTTAA
Found at i:11735739 original size:33 final size:33
Alignment explanation
Indices: 11735692--11735757 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
11735682 ATCAGTTTGG
*
11735692 CATCCAGTGCCTCATTGGATAAATTCGAAGCAA
1 CATCCAGTGCCTCATTGGATAAATCCGAAGCAA
*
11735725 CATCCAGTGTCTCATTGGATAAATCCGAAGCAA
1 CATCCAGTGCCTCATTGGATAAATCCGAAGCAA
11735758 ATAAATGTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (33 bp):
CATCCAGTGCCTCATTGGATAAATCCGAAGCAA
Done.