Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 133 of 290
Found at i:45231597 original size:48 final size:45
Alignment explanation
Indices: 45231530--45231663 Score: 144
Period size: 48 Copynumber: 2.8 Consensus size: 45
45231520 TGCAAACATT
* *
45231530 ATAAATGAAAAAAAAATCAAGCAGTATTGAAATTGTAATTATAA-TTGC
1 ATAAATG-AAAAAATATCAA-TAGTATTGAAATT-TAATTA-AATTTGC
45231578 ATAAATGAATAAAATATCAAATAGTATTGCAAATTTAATTAAATTTGC
1 ATAAATGAA-AAAATATC-AATAGTATTG-AAATTTAATTAAATTTGC
*
45231626 ATAAATTAAAATAATATCGAATAGTATTGAAAATTTAA
1 ATAAATGAAAA-AATATC-AATAGTATTG-AAATTTAA
45231664 AATTATAACT
Statistics
Matches: 76, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
47 6 0.08
48 63 0.83
49 7 0.09
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (45 bp):
ATAAATGAAAAAATATCAATAGTATTGAAATTTAATTAAATTTGC
Found at i:45231815 original size:11 final size:11
Alignment explanation
Indices: 45231796--45231827 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
45231786 TTTTATACAA
45231796 AGAATTTTGAT
1 AGAATTTTGAT
*
45231807 AGAAATTTGAT
1 AGAATTTTGAT
45231818 AGAATTTTGA
1 AGAATTTTGA
45231828 GAAAATTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (11 bp):
AGAATTTTGAT
Found at i:45232625 original size:15 final size:16
Alignment explanation
Indices: 45232589--45232639 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 16
45232579 CTACCATTAC
*
45232589 AAACCCAACTAAGCCT
1 AAACCCAAATAAGCCT
*
45232605 -AGCCCAAATAA-CCT
1 AAACCCAAATAAGCCT
* *
45232619 AAACCCAACTAAGCCC
1 AAACCCAAATAAGCCT
45232635 AAACC
1 AAACC
45232640 TAAACCCAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
14 3 0.11
15 18 0.64
16 7 0.25
ACGTcount: A:0.45, C:0.39, G:0.06, T:0.10
Consensus pattern (16 bp):
AAACCCAAATAAGCCT
Found at i:45237311 original size:44 final size:44
Alignment explanation
Indices: 45237094--45237843 Score: 348
Period size: 44 Copynumber: 16.8 Consensus size: 44
45237084 AAGATCGATG
* * * *
45237094 AATTACAAGTCTTGTCTCTCTGAAGTTGCAGTGAAGCAGACTGA
1 AATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
* * * * *
45237138 AGA-TAGCAAATCTTATTTCCTTGAAGTTGCAATGGAACAGATTGA
1 A-ATTA-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
* * *
45237183 AGCTATAAGTATATA-TCTTATCTCTCTGAAGTTGCAGT--AG-AGA-GGA
1 A---AT---TACA-AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
* * * * *
45237229 TCA-TAGCATA-CCTTATCTACCTGAAGTTGCAGTAGAGCAGGTTGA
1 -AATTA-CA-AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
* * * * *
45237274 AATTACAAGTCTTATCTCCCTGAATTTCCAGTGGAGCAAACTAA
1 AATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
** *
45237318 AGATGGCGAA-TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTACGA
1 A-ATTAC-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT--GA
* * * * *
45237365 CCATT---AGCCTTATCTCTCTGAAGTTACAGTGGAGTAGATTGA
1 -AATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
* * ** *
45237407 AGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGGAATAAATTGAA
1 AATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-A
* * * * *
45237452 AATAACAAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTGAAGCTATA
1 AATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G----A
* * * **
45237503 AATTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-ACA
1 AATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
* * * ** *
45237546 AA--ACAA-ACTTTATCTCCCTGCAGTTACAGTGGAATAGGTTGA
1 AATTACAAGTC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
* * *
45237588 AATTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAACAGACTGAA
1 AATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-A
* ** *
45237633 AACTACAAACCTTATCTCTCTGAAGTTGCAGT-GAGCAGATTGAA
1 AATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-A
* ** * * * *
45237677 AACTACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTGA
1 AATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
*** * * * *
45237721 AGCCACAAGCCTTATCTCCCTAAAGTTGCAGTGGAGCAAACT-A
1 AATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
** * * * * **
45237764 AAACACAAATCTCATATCCCTGAAGTTGCAGTGGAGCAGGCTAAA
1 AATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGA
* * * * *
45237809 AACTACAAGTATTATCTCTCTAAAGTTGCGGTGGA
1 AATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGA
45237844 ATGGATCGAA
Statistics
Matches: 537, Mismatches: 127, Indels: 83
0.72 0.17 0.11
Matches are distributed among these distances:
40 3 0.01
41 51 0.09
42 5 0.01
43 39 0.07
44 201 0.37
45 167 0.31
46 4 0.01
47 7 0.01
48 2 0.00
50 20 0.04
51 38 0.07
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (44 bp):
AATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
Found at i:45237463 original size:133 final size:130
Alignment explanation
Indices: 45237108--45237708 Score: 367
Period size: 133 Copynumber: 4.5 Consensus size: 130
45237098 ACAAGTCTTG
* * * * * *
45237108 TCTCTCTGAAGTTGCAGTGAAGCAGACTGAAGATAGCAAATCTTATTTCCTTGAAGTTGCAATGG
1 TCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CAAGTCTTATCTCCTTGAAGTTGCAGTGG
* * * * * * * *
45237173 AACAGATTGAAGCTATAAGTATATATCTTATCTCTCTGAAGTTGCAGTAGAG-AGGATCATAGCA
65 AACAAATTGAA--AATAA-CA-A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTAGACCA
45237237 TACCTTA
124 TACCTTA
* * * * * *
45237244 TCTAC-CTGAAGTTGCAGTAGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAATTTCCAGTGG
1 TCT-CTCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGG
* * ** * *
45237308 AGCAAACT-AAAGATGGCGAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTACGACCATTAG
65 AACAAATTGAAA-ATAACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA-GACCA-TA-
45237372 CCTTA
126 CCTTA
* *
45237377 TCTCTCTGAAGTTACAGTGGAGTAGATTGAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGGA
1 TCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGGA
* * * * **
45237442 ATAAATTGAAAATAACAAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTGAAGCTATAAATT
66 ACAAATTGAAAATAACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT--AG--A-CCA-T
45237507 ACAAATCTTA
125 AC----CTTA
* ** * * * * *
45237517 TCTCTCTGAAGTTGCAGTAGAGCAGA-ACAA--AACAA-ACTTTATCTCCCTGCAGTTACAGTGG
1 TCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAGTC-TTATCTCCTTGAAGTTGCAGTGG
* ** * * * * * * *
45237578 AATAGGTTG-AAATTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAACAGACTGAAAACTACAAA
65 AACAAATTGAAAATAACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T-TAGAC--CATA
45237642 CCTTA
126 CCTTA
** **
45237647 TCTCTCTGAAGTTGCAGT-GAGCAGATTGAAAACTACAAACCTTATCT-CTCTGAAGTTGCAGT
1 TCTCTCTGAAGTTGCAGTGGAGCAGATTG-AAGTTACAAGTCTTATCTCCT-TGAAGTTGCAGT
45237709 AGAGTAGGTT
Statistics
Matches: 362, Mismatches: 75, Indels: 59
0.73 0.15 0.12
Matches are distributed among these distances:
129 7 0.02
130 51 0.14
131 7 0.02
132 4 0.01
133 120 0.33
134 10 0.03
135 30 0.08
136 67 0.19
137 37 0.10
139 2 0.01
140 27 0.07
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (130 bp):
TCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGGA
ACAAATTGAAAATAACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGACCATACCTTA
Found at i:45237466 original size:89 final size:86
Alignment explanation
Indices: 45237373--45237708 Score: 261
Period size: 89 Copynumber: 3.8 Consensus size: 86
45237363 GACCATTAGC
* ** * *
45237373 CTTATCTCTCTGAAGTTACAGTGGAGTAGATTGAAGTTACAAGTCTTATCTC-CTTGAAGTTGCA
1 CTTATCTCCCTGAAGTTACAGTGGAACAGATTGAAATTACAAATCTTATCTCTC-TGAAGTTGCA
45237437 GTGGAATAAATTGAAAATAACAAA
65 GTGGAA-AAA-TGAAAATAACAAA
* * *
45237461 TCTTATTTCCCTGAAGTTGCAATGGAACAGATTGAAGCTATAAATTACAAATCTTATCTCTCTGA
1 -CTTATCTCCCTGAAGTTACAGTGGAACAGATT---G----AAATTACAAATCTTATCTCTCTGA
* **
45237526 AGTTGCAGTAG-AGCA-GAACAA-AACAAA
58 AGTTGCAGTGGAAAAATGAA-AATAACAAA
* * * * * *
45237553 CTTTATCTCCCTGCAGTTACAGTGGAATAGGTTGAAATTACAAGTCTTATCTCCCTAAAGTTGCA
1 C-TTATCTCCCTGAAGTTACAGTGGAACAGATTGAAATTACAAATCTTATCTCTCTGAAGTTGCA
*
45237618 GTGGAACAGACTGAAAACT-ACAAA
65 GTGGAA-A-AATGAAAA-TAACAAA
* * * * *
45237642 CCTTATCTCTCTGAAGTTGCAGT-GAGCAGATTGAAAACTACAAACCTTATCTCTCTGAAGTTGC
1 -CTTATCTCCCTGAAGTTACAGTGGAACAGATTG-AAATTACAAATCTTATCTCTCTGAAGTTGC
45237706 AGT
64 AGT
45237709 AGAGTAGGTT
Statistics
Matches: 194, Mismatches: 35, Indels: 36
0.73 0.13 0.14
Matches are distributed among these distances:
85 31 0.16
86 1 0.01
88 9 0.05
89 81 0.42
90 1 0.01
91 1 0.01
92 35 0.18
93 2 0.01
94 1 0.01
95 1 0.01
96 30 0.15
97 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (86 bp):
CTTATCTCCCTGAAGTTACAGTGGAACAGATTGAAATTACAAATCTTATCTCTCTGAAGTTGCAG
TGGAAAAATGAAAATAACAAA
Found at i:45237596 original size:181 final size:174
Alignment explanation
Indices: 45237374--45237712 Score: 446
Period size: 181 Copynumber: 1.9 Consensus size: 174
45237364 ACCATTAGCC
* * * * *
45237374 TTATCTCTCTGAAGTTACAGTGGAGTAGATTGAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTACAGTGGAATAGATTGAAATTACAAGTCTTATCTCCCTAAAGTTGCAGT
* * * *
45237439 GGAATAAATTGAAAA-TAACAAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTGAAGCTATA
66 GGAACAAACTGAAAACT-ACAAACCTTATCTCCCTGAAGTTGCAAT-GAACAGATT---G--A-A
* *
45237503 AATTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAACAAAACAAACT
123 AACTACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGAACAAAACAAACT
* *
45237555 TTATCTCCCTGCAGTTACAGTGGAATAGGTTGAAATTACAAGTCTTATCTCCCTAAAGTTGCAGT
1 TTATCTCCCTGAAGTTACAGTGGAATAGATTGAAATTACAAGTCTTATCTCCCTAAAGTTGCAGT
* * * *
45237620 GGAACAGACTGAAAACTACAAACCTTATCTCTCTGAAGTTGCAGTGAGCAGATTGAAAACTACAA
66 GGAACAAACTGAAAACTACAAACCTTATCTCCCTGAAGTTGCAATGAACAGATTGAAAACTACAA
45237685 ACCTTATCTCTCTGAAGTTGCAGTAGAG
131 ACCTTATCTCTCTGAAGTTGCAGTAGAG
45237713 TAGGTTGAAG
Statistics
Matches: 140, Mismatches: 17, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
174 35 0.25
175 1 0.01
177 1 0.01
180 8 0.06
181 94 0.67
182 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (174 bp):
TTATCTCCCTGAAGTTACAGTGGAATAGATTGAAATTACAAGTCTTATCTCCCTAAAGTTGCAGT
GGAACAAACTGAAAACTACAAACCTTATCTCCCTGAAGTTGCAATGAACAGATTGAAAACTACAA
ACCTTATCTCTCTGAAGTTGCAGTAGAGCAGAACAAAACAAACT
Found at i:45237692 original size:314 final size:313
Alignment explanation
Indices: 45237092--45237798 Score: 838
Period size: 314 Copynumber: 2.3 Consensus size: 313
45237082 GCAAGATCGA
* * * *
45237092 TGAA-TTACAAGTCTTGTCT-CTCTGAAGTTGCAGT-GAAGCAGACTGAAGATAGCAAATCTTAT
1 TGAAGTTACAAGTCTTATCTCCT-TGAAGTTGCAGTGGAA-CAAACTGAAAATAACAAATCTTAT
* * *
45237154 TTCCTTGAAGTTGCAATGGAACAGATTGAAGCTATAAGTATATATCTTATCTCTCTGAAGTTGCA
64 TTCCCTGAAGTTGCAATGGAACAGATTGAAGCTATAAGTACAAATCTTATCTCTCTGAAGTTGCA
* * * * * *
45237219 GTAGAGAGGATCATAGCATACCTTATCTACCTGAAGTTGCAGTAGAGCAGGTTGAAATTACAAGT
129 GTAGAGAGGAACAAAACAAACCTTATCTACCTGAAGTTACAGTAGAACAGGTTGAAATTACAAGT
* * * * * *
45237284 CTTATCTCCCTGAATTTCCAGTGGAGCAAACTAAAGATGGCGAATCTTATCTCCCTGAAGTTACA
194 CTTATCTCCCTAAAGTTCCAGTGGAACAAACTAAAGATGACAAACCTTATCTCCCTGAAGTTACA
** ** * *
45237349 GTGGAGCAGATTACGACCATTAGCCTTATCTCTCTGAAGTTACAGTGGAGTAGAT
259 GTGGAGCAGATTAAAACCACAAACCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
* *
45237404 TGAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGGAATAAATTGAAAATAACAAATCTTATTT
1 TGAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGGAACAAACTGAAAATAACAAATCTTATTT
*
45237469 CCCTGAAGTTGCAATGGAACAGATTGAAGCTATAAATTACAAATCTTATCTCTCTGAAGTTGCAG
66 CCCTGAAGTTGCAATGGAACAGATTGAAGCTAT-AAGTACAAATCTTATCTCTCTGAAGTTGCAG
* * * * *
45237534 TAGAGCA-GAACAAAACAAACTTTATCTCCCTGCAGTTACAGTGGAATAGGTTGAAATTACAAGT
130 TAGAG-AGGAACAAAACAAACCTTATCTACCTGAAGTTACAGTAGAACAGGTTGAAATTACAAGT
* * * *
45237598 CTTATCTCCCTAAAGTTGCAGTGGAACAGACTGAAA-ACT-ACAAACCTTATCTCTCTGAAGTTG
194 CTTATCTCCCTAAAGTTCCAGTGGAACAAACT-AAAGA-TGACAAACCTTATCTCCCTGAAGTTA
* * *
45237661 CAGT-GAGCAGATTGAAAACTACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGT
257 CAGTGGAGCAGATT-AAAACCACAAACCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
** * * * * * * *
45237718 TGAAGCCACAAGCCTTATCTCCCTAAAGTTGCAGTGGAGCAAACT-AAAA-CACAAATCTCATAT
1 TGAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGGAACAAACTGAAAATAACAAATCTTATTT
*
45237781 CCCTGAAGTTGCAGTGGA
66 CCCTGAAGTTGCAATGGA
45237799 GCAGGCTAAA
Statistics
Matches: 335, Mismatches: 52, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
312 32 0.10
313 92 0.27
314 206 0.61
315 5 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (313 bp):
TGAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGGAACAAACTGAAAATAACAAATCTTATTT
CCCTGAAGTTGCAATGGAACAGATTGAAGCTATAAGTACAAATCTTATCTCTCTGAAGTTGCAGT
AGAGAGGAACAAAACAAACCTTATCTACCTGAAGTTACAGTAGAACAGGTTGAAATTACAAGTCT
TATCTCCCTAAAGTTCCAGTGGAACAAACTAAAGATGACAAACCTTATCTCCCTGAAGTTACAGT
GGAGCAGATTAAAACCACAAACCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
Found at i:45237736 original size:133 final size:131
Alignment explanation
Indices: 45237506--45237837 Score: 377
Period size: 133 Copynumber: 2.5 Consensus size: 131
45237496 AGCTATAAAT
* * *
45237506 TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-ACAAA--ACAAACTTTATCTCCCTGCA
1 TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATA-AAACTACAAACATTATCTCTCTGAA
* * ** * *
45237568 GTTACAGTGGAATAGGTTGAAATTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAACAGACTGAA
65 GTTGCAGTAGAATAGGTTGAAACCACAAGCCTTATCTCCCTAAAGTTGCAGTGGAACAAACT-AA
45237633 AAC
129 AAC
* *
45237636 TACAAACCTTATCTCTCTGAAGTTGCAGT-GAGCAGATTGAAAACTACAAACCTTATCTCTCTGA
1 TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T-AAAACTACAAACATTATCTCTCTGA
* * *
45237700 AGTTGCAGTAGAGTAGGTTGAAGCCACAAGCCTTATCTCCCTAAAGTTGCAGTGGAGCAAACTAA
64 AGTTGCAGTAGAATAGGTTGAAACCACAAGCCTTATCTCCCTAAAGTTGCAGTGGAACAAACTAA
45237765 AAC
129 AAC
* * * * * ** *
45237768 -ACAAATCTCATATCCCTGAAGTTGCAGTGGAGCAGGCTAAAAACTACAAGTATTATCTCTCTAA
1 TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCA-GAT-AAAACTACAAACATTATCTCTCTGA
45237832 AGTTGC
64 AGTTGC
45237838 GGTGGAATGG
Statistics
Matches: 172, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
129 7 0.04
130 28 0.16
131 27 0.16
132 39 0.23
133 71 0.41
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (131 bp):
TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATAAAACTACAAACATTATCTCTCTGAAG
TTGCAGTAGAATAGGTTGAAACCACAAGCCTTATCTCCCTAAAGTTGCAGTGGAACAAACTAAAA
C
Found at i:45239072 original size:3 final size:3
Alignment explanation
Indices: 45239066--45239162 Score: 106
Period size: 3 Copynumber: 32.7 Consensus size: 3
45239056 CAATTTAATA
* * * *
45239066 TAT TAT TAC TAT TAT TAT TAT TAT TAC CAT TAT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
45239114 TTT TAT TAC TAT TAT TAT TAC TAT T-G TAT TAT TAT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
45239161 TA
1 TA
45239163 CATTTTTTTG
Statistics
Matches: 75, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
2 1 0.01
3 74 0.99
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:45239350 original size:3 final size:3
Alignment explanation
Indices: 45239329--45239393 Score: 60
Period size: 3 Copynumber: 21.0 Consensus size: 3
45239319 CAAACTTTAA
* * *
45239329 ATT ATTT ATT ATT -TGT ATT ATT TTT GTT ATT ATT ATT ATT ATT ATC
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
45239375 ATT ATT AATT AGT ATT ATT
1 ATT ATT -ATT ATT ATT ATT
45239394 TTTAAAACTA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
2 1 0.02
3 43 0.84
4 7 0.14
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:45240585 original size:25 final size:25
Alignment explanation
Indices: 45240539--45240586 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
45240529 AACAACTCCA
* * * *
45240539 TTTTTATTTTGGTCATTTTAATTTT
1 TTTTTAATTTAGTCACTCTAATTTT
45240564 TTTTTAATTTAGTCACTCTAATT
1 TTTTTAATTTAGTCACTCTAATT
45240587 AAAATAATTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.21, C:0.08, G:0.06, T:0.65
Consensus pattern (25 bp):
TTTTTAATTTAGTCACTCTAATTTT
Found at i:45241166 original size:49 final size:49
Alignment explanation
Indices: 45241094--45241193 Score: 155
Period size: 49 Copynumber: 2.0 Consensus size: 49
45241084 CCTAACCCCG
* * **
45241094 ACCTAGACAGGAATGCTTAGTTTAGAATGCCATGTTGTCCTATGAGAAC
1 ACCTAGACAGGAATGATTAGTTTAGAATGCCACGTTGTCCTACCAGAAC
*
45241143 ACCTAGACGGGAATGATTAGTTTAGAATGCCACGTTGTCCTACCAGAAC
1 ACCTAGACAGGAATGATTAGTTTAGAATGCCACGTTGTCCTACCAGAAC
45241192 AC
1 AC
45241194 AGTCATACTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (49 bp):
ACCTAGACAGGAATGATTAGTTTAGAATGCCACGTTGTCCTACCAGAAC
Found at i:45242790 original size:14 final size:16
Alignment explanation
Indices: 45242771--45242810 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
45242761 ATTATGTTAA
*
45242771 ATTATAA-TA-ATTAT
1 ATTATAATTATATCAT
45242785 ATTATAATTATATCAT
1 ATTATAATTATATCAT
45242801 ATTAT-ATTAT
1 ATTATAATTAT
45242811 GAAATAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 7 0.30
15 7 0.30
16 9 0.39
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTATAATTATATCAT
Found at i:45243094 original size:3 final size:3
Alignment explanation
Indices: 45243086--45243127 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
45243076 AAATAGATAT
* *
45243086 TTA TTA TTA -TA TTA TTA TAA TGTA TTA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
45243128 ACTAGTATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.88
4 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:45243374 original size:14 final size:14
Alignment explanation
Indices: 45243355--45243382 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
45243345 ATTTTGAAAA
45243355 TTCTTAGATTTTTG
1 TTCTTAGATTTTTG
45243369 TTCTTAGATTTTTG
1 TTCTTAGATTTTTG
45243383 AACATAGATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.14, T:0.64
Consensus pattern (14 bp):
TTCTTAGATTTTTG
Found at i:45244003 original size:70 final size:75
Alignment explanation
Indices: 45243927--45244102 Score: 184
Period size: 70 Copynumber: 2.3 Consensus size: 75
45243917 ATGTGAACAA
* * *
45243927 ATTGGAAATTAAAAGTGATTTAAATT-AAGT-AATTGAATT-AT-G-AATTATGTGAATATTTGA
1 ATTGGAAACTAAAAGTGATTTGAATTGAA-TAAATTGAATTAATAGAAAATATGTGAATATTTGA
45243987 AA-GTATATTG
65 AATGTATATTG
* *
45243997 ATTGGAAACTAAGAGTGATTTGAATTGAATCAAATTGAATTGAATGAAGAAAATATGTGAGTATT
1 ATTGGAAACTAAAAGTGATTTGAATTGAAT-AAATTGAATT-AAT--AGAAAATATGTGAATATT
45244062 TGAAATGTATATTG
62 TGAAATGTATATTG
* * *
45244076 ATTGAAAAGTAATTAGTGATTTGAATT
1 ATTGGAAACTAA-AAGTGATTTGAATT
45244103 TGATTGGAAA
Statistics
Matches: 87, Mismatches: 8, Indels: 12
0.81 0.07 0.11
Matches are distributed among these distances:
70 24 0.28
71 2 0.02
72 9 0.10
74 2 0.02
77 1 0.01
78 18 0.21
79 18 0.21
80 13 0.15
ACGTcount: A:0.42, C:0.01, G:0.19, T:0.38
Consensus pattern (75 bp):
ATTGGAAACTAAAAGTGATTTGAATTGAATAAATTGAATTAATAGAAAATATGTGAATATTTGAA
ATGTATATTG
Found at i:45244188 original size:110 final size:110
Alignment explanation
Indices: 45244052--45244305 Score: 472
Period size: 110 Copynumber: 2.3 Consensus size: 110
45244042 GAAGAAAATA
* * * *
45244052 TGTGAGTATTTGAAATGTATATTGATTGAAAAGTAATTAGTGATTTGAATTTGATTGGAAAATGA
1 TGTGAATATGTGAATTGTGTATTGATTGAAAAGTAATTAGTGATTTGAATTTGATTGGAAAATGA
45244117 TTTAAAAATATAAATTAAATAAAAATGAATTAGTTTATGAATATG
66 TTTAAAAATATAAATTAAATAAAAATGAATTAGTTTATGAATATG
45244162 TGTGAATATGTGAATTGTGTATTGATTGAAAAGTAATTAGTGATTTGAATTTGATTGGAAAATGA
1 TGTGAATATGTGAATTGTGTATTGATTGAAAAGTAATTAGTGATTTGAATTTGATTGGAAAATGA
45244227 TTTAAAAATATAAATTAAATAAAAATGAATTAGTTTATGAATATG
66 TTTAAAAATATAAATTAAATAAAAATGAATTAGTTTATGAATATG
45244272 TGTGAATATGTGAATTGTGTATTGATTGAAAAGT
1 TGTGAATATGTGAATTGTGTATTGATTGAAAAGT
45244306 GGTTTGAATT
Statistics
Matches: 140, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 140 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (110 bp):
TGTGAATATGTGAATTGTGTATTGATTGAAAAGTAATTAGTGATTTGAATTTGATTGGAAAATGA
TTTAAAAATATAAATTAAATAAAAATGAATTAGTTTATGAATATG
Found at i:45244469 original size:34 final size:33
Alignment explanation
Indices: 45244390--45244471 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 33
45244380 AGAAAGTGGA
* *
45244390 AAAGTGAATTTGAATTGAATGAGAATTGAATTG
1 AAAGTGAATTTGAATCGAAAGAGAATTGAATTG
* *
45244423 AATTGTGAATTTGAATCGAAAGCGAAATTGACATTG
1 AA-AGTGAATTTGAATCGAAAGAG-AATTGA-ATTG
45244459 AAAGTG-ATTTGAA
1 AAAGTGAATTTGAA
45244472 ATGTGAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
33 2 0.05
34 24 0.59
35 9 0.22
36 6 0.15
ACGTcount: A:0.41, C:0.04, G:0.23, T:0.32
Consensus pattern (33 bp):
AAAGTGAATTTGAATCGAAAGAGAATTGAATTG
Found at i:45245015 original size:16 final size:16
Alignment explanation
Indices: 45244996--45245052 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
45244986 ATTGAACTAT
45244996 TGAAAGTATGAGAAAG
1 TGAAAGTATGAGAAAG
* *
45245012 TGAAATTAT--G-AAT
1 TGAAAGTATGAGAAAG
45245025 TGAAATGTATGAGAAAG
1 TGAAA-GTATGAGAAAG
*
45245042 TGAAATTATGA
1 TGAAAGTATGA
45245053 ATTGAAATGT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
13 7 0.22
14 4 0.12
16 14 0.44
17 7 0.22
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.28
Consensus pattern (16 bp):
TGAAAGTATGAGAAAG
Found at i:45245037 original size:30 final size:30
Alignment explanation
Indices: 45244994--45245062 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
45244984 CGATTGAACT
45244994 ATTGAAA-GTATGAGAAAGTGAAATTATGA
1 ATTGAAATGTATGAGAAAGTGAAATTATGA
45245023 ATTGAAATGTATGAGAAAGTGAAATTATGA
1 ATTGAAATGTATGAGAAAGTGAAATTATGA
45245053 ATTGAAATGT
1 ATTGAAATGT
45245063 GAATTGAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
29 7 0.18
30 32 0.82
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.30
Consensus pattern (30 bp):
ATTGAAATGTATGAGAAAGTGAAATTATGA
Found at i:45251201 original size:26 final size:26
Alignment explanation
Indices: 45251165--45251224 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
45251155 GAAGCTCTGG
45251165 AGAGCCATTAATTAG-GAAGCTCACAA
1 AGAGCCATTAA-TAGAGAAGCTCACAA
* * *
45251191 AGAGCCTTTAATCGAGAAGCTCACGA
1 AGAGCCATTAATAGAGAAGCTCACAA
45251217 AGAGCCAT
1 AGAGCCAT
45251225 ATAACAGGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 2 0.07
26 27 0.93
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (26 bp):
AGAGCCATTAATAGAGAAGCTCACAA
Found at i:45255933 original size:94 final size:94
Alignment explanation
Indices: 45255765--45255939 Score: 226
Period size: 94 Copynumber: 1.9 Consensus size: 94
45255755 GTTGATTTTT
* * * * *
45255765 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTTAACTCACCTCTCACAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCGCTCACAATAC
45255830 GAGTCGATTTTTTTTTTGAAAGGCAAAAA
66 GAGTCGATTTTTTTTTTGAAAGGCAAAAA
* * * * * *
45255859 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGA-CCTGAGGCTCAACTCGCCGCTCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCC-AAGGCTCAACTCACCGCTCACAATA
*
45255923 CGAGTTGATTTTTTTTT
65 CGAGTCGATTTTTTTTT
45255940 GACAACAGAA
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
93 2 0.03
94 66 0.97
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (94 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCGCTCACAATAC
GAGTCGATTTTTTTTTTGAAAGGCAAAAA
Found at i:45256029 original size:170 final size:171
Alignment explanation
Indices: 45255725--45256036 Score: 452
Period size: 170 Copynumber: 1.8 Consensus size: 171
45255715 CTGTAACTTN
* * *
45255725 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGC
1 CTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACC
*
45255790 TCAGCGCGTGAGCCAAGGCTTAACTCACCTCTCACAATATGAGTCGATTTTTTTTTTGAAAGGCA
66 TCA-CGCGTGAGCCAAGGCTCAACTCACCTCTCACAATATGAGTCGATTTTTTTTTTGAAAGGCA
45255855 AAAA-TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGAC
130 AAAATTTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGAC
* * *
45255896 CTGAGGCTCAACTCGCCGCTCGCAATACGAGTTGATTTTTTTTTGACA-ACAGAAATTGAAATTA
1 CTGAGGCTCAACTCACCGCTCGCAATACGAGTTGA--TTTTTTTGAAAGACAGAAATTGAAAATA
* * ** *
45255960 CCTCA-GCGTG-TCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTTTGAAAGG
64 CCTCACGCGTGAGCC-AAGGCTCAACTCACCTCTCACAATATGAGTCGATTTTTTTTTTGAAAGG
45256023 CAAAAATTTGAAAA
128 CAAAAATTTGAAAA
45256037 TAACTCAGCA
Statistics
Matches: 125, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
169 2 0.02
170 55 0.44
171 39 0.31
172 19 0.15
173 10 0.08
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (171 bp):
CTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACC
TCACGCGTGAGCCAAGGCTCAACTCACCTCTCACAATATGAGTCGATTTTTTTTTTGAAAGGCAA
AAATTTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGAC
Found at i:45256137 original size:75 final size:75
Alignment explanation
Indices: 45255859--45257326 Score: 1210
Period size: 75 Copynumber: 19.3 Consensus size: 75
45255849 AAGGCAAAAA
* * * * * *
45255859 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGT--CTTGAGGCTCAACTCACCTCTCGCAATAT
45255924 GAGTTGATTTTTTT
64 GAGTTGA--TTTTT
* * * *
45255938 TTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
45256002 GTTGATTTTTTTT
66 GTTGA---TTTTT
** * * * * ** **
45256015 TTGAAAGGCAAAAATTTGAAAATAACTCAGCATGTCTTGAGGGTCAACTCATTTCTTACAATATG
1 TTGAAAAACAGAAA-TTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
45256080 AGTTGATTTTT
65 AGTTGATTTTT
* * * ** *
45256091 TTGAAAAACTGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACCCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
45256156 GTTGATTTTTTTTT
66 GTTGA----TTTTT
* **
45256170 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
45256235 GTTGA--ATT
66 GTTGATTTTT
* * **
45256243 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
45256307 GTTGATTTTT
66 GTTGATTTTT
* * * * *
45256317 TT-AACAACAGAAATTGAAATTACCTCAGCATGTCCTT-AGGCTCAACTCACCTATCGCAGTATG
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGT-CTTGAGGCTCAACTCACCTCTCGCAATATG
45256380 AGTTGATTTTT
65 AGTTGATTTTT
* * **
45256391 TTGAAAGAA-AAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
1 TTGAAA-AACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
*
45256455 AGTTGA--ATT
65 AGTTGATTTTT
* **
45256464 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
45256528 GTTGA--TTT
66 GTTGATTTTT
* * *
45256536 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
45256601 GTTGATTTTT
66 GTTGATTTTT
* * * ** * *
45256611 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGC-CAAGGCTTAACTCACCTCTCACAATA
1 TTGAAAAACAGAAATTGAAAATACCTCA--GCGTG-TCTTGAGGCTCAACTCACCTCTCGCAATA
*
45256675 TGAGTCGATTTTTTTT
63 TGAGTTGA---TTTTT
** * * * * * * * * * *
45256691 TTGAAAGGCAAAAATTGAAAA-ACGGAAATTGAAAATACCTCGGCGTGTGA-CCTGAGGCTCAAC
1 TTGAAAAACAGAAATTGAAAATAC-----CT---CA-GCGT-GTC-T-TGAGGCTCA-ACTCACC
* * * * **
45256754 TCGCCGC--T-CGCAATACGAGTTGAT
53 TC-TCGCAATATG-AGT-TGA-TTTTT
****** ** * *
45256778 TT--TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGC
1 TTGAAAAACAGA-AATTG-AA----AA-TACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGC
45256841 AATATGAGTTGATTTTTTTT
59 AATATGAGTTGA---TTTTT
** * * * * ** **
45256861 TTGAAAGGCAAAAATTTGAAAATAACTCAGCATGTCTTGAGGGTCAACTCATTTCTTACAATATG
1 TTGAAAAACAGAAA-TTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
45256926 AGTTGATTTTT
65 AGTTGATTTTT
* * **
45256937 TTGAAAAACTGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
45257002 GTTGATTTTT
66 GTTGATTTTT
* * * **
45257012 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
45257077 GTTGATTTTT
66 GTTGATTTTT
* * * * *
45257087 TT-AACAACAGAAATTGAAATTACCTCAGCATGTCCTT-AGGCTCAACTCACCTATCGCAGTATG
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGT-CTTGAGGCTCAACTCACCTCTCGCAATATG
45257150 AGTTGATTTTT
65 AGTTGATTTTT
* * **
45257161 TTGAAAGAA-AAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
1 TTGAAA-AACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
*
45257225 AGTTGA--ATT
65 AGTTGATTTTT
* **
45257234 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
45257298 ATTGA--TTT
66 GTTGATTTTT
*
45257306 TTGAAAAACATAAATTGAAAA
1 TTGAAAAACAGAAATTGAAAA
45257327 ATGGAAATCG
Statistics
Matches: 1149, Mismatches: 177, Indels: 132
0.79 0.12 0.09
Matches are distributed among these distances:
71 4 0.00
72 184 0.16
73 94 0.08
74 135 0.12
75 317 0.28
76 66 0.06
77 44 0.04
78 33 0.03
79 166 0.14
80 28 0.02
81 12 0.01
82 6 0.01
83 8 0.01
84 7 0.01
85 4 0.00
86 7 0.01
87 10 0.01
88 7 0.01
89 11 0.01
90 2 0.00
91 2 0.00
93 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:45256779 original size:94 final size:94
Alignment explanation
Indices: 45256611--45256785 Score: 226
Period size: 94 Copynumber: 1.9 Consensus size: 94
45256601 GTTGATTTTT
* * * * *
45256611 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTTAACTCACCTCTCACAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCGCTCACAATAC
45256676 GAGTCGATTTTTTTTTTGAAAGGCAAAAA
66 GAGTCGATTTTTTTTTTGAAAGGCAAAAA
* * * * * *
45256705 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGA-CCTGAGGCTCAACTCGCCGCTCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCC-AAGGCTCAACTCACCGCTCACAATA
*
45256769 CGAGTTGATTTTTTTTT
65 CGAGTCGATTTTTTTTT
45256786 GACAACAGAA
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
93 2 0.03
94 66 0.97
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (94 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCGCTCACAATAC
GAGTCGATTTTTTTTTTGAAAGGCAAAAA
Found at i:45256876 original size:170 final size:169
Alignment explanation
Indices: 45256535--45256882 Score: 470
Period size: 170 Copynumber: 2.0 Consensus size: 169
45256525 TGAGTTGATT
* * * *
45256535 TTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCGCTCGCAATACG
* *
45256600 AGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTTAACTCACC
66 AGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCA-CGCGTGAGCCAAGGCTCAACTCACC
45256665 TCTCACAATATGAGTCGATTTTTTTTTTGAAAGGCAAAAA
130 TCTCACAATATGAGTCGATTTTTTTTTTGAAAGGCAAAAA
* * *
45256705 -TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATA
1 TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCGCTCGCAATA
* * * *
45256769 CGAGTTGATTTTTTTTTGACA-ACAGAAATTGAAATTACCTCA-GCGTG-TCCTGAGGCTCAACT
64 CGAGTTGA--TTTTTTTGAAAGACAGAAATTGAAAATACCTCACGCGTGAGCC-AAGGCTCAACT
** *
45256831 CACCTCTTGCAATATGAGTTGATTTTTTTTTTGAAAGGCAAAAA
126 CACCTCTCACAATATGAGTCGATTTTTTTTTTGAAAGGCAAAAA
45256875 TTTGAAAA
1 TTTGAAAA
45256883 TAACTCAGCA
Statistics
Matches: 156, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
169 32 0.21
170 55 0.35
171 40 0.26
172 19 0.12
173 10 0.06
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.30
Consensus pattern (169 bp):
TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCGCTCGCAATACG
AGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCACGCGTGAGCCAAGGCTCAACTCACCT
CTCACAATATGAGTCGATTTTTTTTTTGAAAGGCAAAAA
Found at i:45265552 original size:12 final size:12
Alignment explanation
Indices: 45265530--45265565 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
45265520 TGGGATATGC
*
45265530 AATGAATGAATG
1 AATGCATGAATG
*
45265542 GATGCATGAATG
1 AATGCATGAATG
45265554 AATGCATGAATG
1 AATGCATGAATG
45265566 TCAAATGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:45265552 original size:16 final size:17
Alignment explanation
Indices: 45265526--45265557 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
45265516 AGTATGGGAT
45265526 ATGCAATGAATGAATGG
1 ATGCAATGAATGAATGG
45265543 ATGC-ATGAATGAATG
1 ATGCAATGAATGAATG
45265558 CATGAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.06, G:0.28, T:0.25
Consensus pattern (17 bp):
ATGCAATGAATGAATGG
Found at i:45267255 original size:3 final size:3
Alignment explanation
Indices: 45267247--45267339 Score: 59
Period size: 3 Copynumber: 29.7 Consensus size: 3
45267237 ATATATTTGG
* *
45267247 TAA TAA TAA T-A TAA -AA TAA TAA TATG TACA TAA AAA TACA TATA TATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TA-A TAA TAA TA-A TA-A TA-A
*
45267295 TACA T-A TAA TAA -AA GTATG TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TA-A TAA TAA TAA TAA -TA-A TAA TAA TAA TAA TAA TAA TAA TAA TA
45267340 TCTACAATAA
Statistics
Matches: 73, Mismatches: 9, Indels: 16
0.74 0.09 0.16
Matches are distributed among these distances:
2 8 0.11
3 46 0.63
4 19 0.26
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:45267298 original size:22 final size:20
Alignment explanation
Indices: 45267247--45267330 Score: 61
Period size: 19 Copynumber: 4.2 Consensus size: 20
45267237 ATATATTTGG
45267247 TAATA-ATA-ATATAAAATAA
1 TAATATATACATA-AAAATAA
*
45267266 TAATATGTACATAAAAATACA
1 TAATATATACATAAAAATA-A
*
45267287 TATATATATACAT-ATAATAA
1 TA-ATATATACATAAAAATAA
* *
45267307 -AAGTATGTA-ATAATAATAA
1 TAA-TATATACATAAAAATAA
45267326 TAATA
1 TAATA
45267331 ATAATAATAT
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
18 3 0.06
19 20 0.37
20 11 0.20
21 11 0.20
22 9 0.17
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (20 bp):
TAATATATACATAAAAATAA
Found at i:45267331 original size:12 final size:12
Alignment explanation
Indices: 45267247--45267339 Score: 59
Period size: 14 Copynumber: 7.4 Consensus size: 12
45267237 ATATATTTGG
45267247 TAATAATAAT-A
1 TAATAATAATAA
45267258 TAA-AATAATAA
1 TAATAATAATAA
* *
45267269 TATGTACATAAAAA
1 TA-ATA-ATAATAA
45267283 TACATATATATATACA
1 TA-ATA-ATA-ATA-A
45267299 T-ATAATAA-AA
1 TAATAATAATAA
*
45267309 GTATGTAATAATAA
1 -TA-ATAATAATAA
45267323 TAATAATAATAA
1 TAATAATAATAA
45267335 TAATA
1 TAATA
45267340 TCTACAATAA
Statistics
Matches: 64, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
10 7 0.11
11 8 0.12
12 15 0.23
13 12 0.19
14 18 0.28
15 2 0.03
16 2 0.03
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (12 bp):
TAATAATAATAA
Found at i:45268159 original size:25 final size:25
Alignment explanation
Indices: 45268122--45268172 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
45268112 GGTTTCTTGG
45268122 TTTTTTTGGGGGGTTAGGTTTTTCT
1 TTTTTTTGGGGGGTTAGGTTTTTCT
**
45268147 TTTTTTTTTGGGGTTAGGTTTTTCT
1 TTTTTTTGGGGGGTTAGGTTTTTCT
45268172 T
1 T
45268173 GGGGGGGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.04, C:0.04, G:0.27, T:0.65
Consensus pattern (25 bp):
TTTTTTTGGGGGGTTAGGTTTTTCT
Found at i:45270373 original size:16 final size:16
Alignment explanation
Indices: 45270348--45270380 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
45270338 ACACTCATAA
45270348 GAGCTATGGTGTGTCC
1 GAGCTATGGTGTGTCC
*
45270364 GAGCTGTGGTGTGTCC
1 GAGCTATGGTGTGTCC
45270380 G
1 G
45270381 TAACATATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.18, G:0.42, T:0.30
Consensus pattern (16 bp):
GAGCTATGGTGTGTCC
Found at i:45274481 original size:35 final size:34
Alignment explanation
Indices: 45274433--45274512 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 34
45274423 CAGAACCAAT
*
45274433 CAGATGCAGATTCGAACCTAAGCCCAT-TACAGTCA
1 CAGATGCAGATTCGAACCTAAACCCATCTA-AGT-A
* **
45274468 CAGATGCATATTCGGGCCTAAACCCATCTAAGTA
1 CAGATGCAGATTCGAACCTAAACCCATCTAAGTA
*
45274502 CAGATACAGAT
1 CAGATGCAGAT
45274513 ATACAAATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
34 10 0.26
35 26 0.68
36 2 0.05
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.21
Consensus pattern (34 bp):
CAGATGCAGATTCGAACCTAAACCCATCTAAGTA
Found at i:45278027 original size:19 final size:19
Alignment explanation
Indices: 45277981--45278027 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
45277971 ATTAAGATTG
* *
45277981 AAAAATATTTTTTAAGTCA
1 AAAAATAATTTTTAAGCCA
**
45278000 AATCA-AATTTTTAAGCCA
1 AAAAATAATTTTTAAGCCA
45278018 AAAAATAATT
1 AAAAATAATT
45278028 GTAAGTAGAT
Statistics
Matches: 21, Mismatches: 6, Indels: 2
0.72 0.21 0.07
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (19 bp):
AAAAATAATTTTTAAGCCA
Found at i:45278394 original size:23 final size:24
Alignment explanation
Indices: 45278335--45278396 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 24
45278325 TGGCGTATTC
45278335 AAATTAAAA-TTTATAAATAATTT
1 AAATTAAAATTTTATAAATAATTT
* *
45278358 ATATT-AATTGTTTA-AAAT-ATTT
1 AAATTAAAAT-TTTATAAATAATTT
45278380 AAAATTAAAATTTTATA
1 -AAATTAAAATTTTATA
45278397 TGTCATATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 9
0.70 0.09 0.21
Matches are distributed among these distances:
22 6 0.20
23 16 0.53
24 8 0.27
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
AAATTAAAATTTTATAAATAATTT
Found at i:45278980 original size:6 final size:6
Alignment explanation
Indices: 45278969--45279003 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
45278959 TAACCTTCAA
*
45278969 ATAATT ATAATT ATAATT AGATATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATA-ATT ATAATT ATAA
45279004 AGGAATTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (6 bp):
ATAATT
Found at i:45279334 original size:19 final size:19
Alignment explanation
Indices: 45279288--45279334 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
45279278 TTTTTCCATG
* *
45279288 AAAAATATTTTTTAAGTCA
1 AAAAATAATTTTTAAGCCA
**
45279307 AATCA-AATTTTTAAGCCA
1 AAAAATAATTTTTAAGCCA
45279325 AAAAATAATT
1 AAAAATAATT
45279335 GTAAGTAGAT
Statistics
Matches: 21, Mismatches: 6, Indels: 2
0.72 0.21 0.07
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (19 bp):
AAAAATAATTTTTAAGCCA
Found at i:45279701 original size:23 final size:24
Alignment explanation
Indices: 45279642--45279703 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 24
45279632 TGGCGTATTC
45279642 AAATTAAAA-TTTATAAATAATTT
1 AAATTAAAATTTTATAAATAATTT
* *
45279665 ATATT-AATTGTTTA-AAAT-ATTT
1 AAATTAAAAT-TTTATAAATAATTT
45279687 AAAATTAAAATTTTATA
1 -AAATTAAAATTTTATA
45279704 TGTCATATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 9
0.70 0.09 0.21
Matches are distributed among these distances:
22 6 0.20
23 16 0.53
24 8 0.27
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
AAATTAAAATTTTATAAATAATTT
Found at i:45280287 original size:6 final size:6
Alignment explanation
Indices: 45280276--45280310 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
45280266 TAACCTTCAA
*
45280276 ATAATT ATAATT ATAATT AGATATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATA-ATT ATAATT ATAA
45280311 AGGAATTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (6 bp):
ATAATT
Found at i:45281249 original size:23 final size:24
Alignment explanation
Indices: 45281223--45281279 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
45281213 AATATATTAT
*
45281223 AAAAT-TATACTTTAATCCCCTTA
1 AAAATATATAATTTAATCCCCTTA
* * *
45281246 AAAATATTTAATTTAATCTCTTTA
1 AAAATATATAATTTAATCCCCTTA
45281270 AAAATA-ATAA
1 AAAATATATAA
45281280 AAAATATAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 8 0.29
24 20 0.71
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.40
Consensus pattern (24 bp):
AAAATATATAATTTAATCCCCTTA
Found at i:45281377 original size:23 final size:23
Alignment explanation
Indices: 45281351--45281396 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
45281341 ATTTTTAACT
45281351 TAGCCAAACCTCCATTAAACCAA
1 TAGCCAAACCTCCATTAAACCAA
*
45281374 TAGCCAAGCCTCCATTAAACCAA
1 TAGCCAAACCTCCATTAAACCAA
45281397 GGGCTATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.41, C:0.35, G:0.07, T:0.17
Consensus pattern (23 bp):
TAGCCAAACCTCCATTAAACCAA
Found at i:45289676 original size:21 final size:21
Alignment explanation
Indices: 45289659--45289699 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
45289649 TTGTTGCTAA
45289659 AGGTGTTGCATATCTTGCAAC
1 AGGTGTTGCATATCTTGCAAC
45289680 AGGTGTTGCATATCTTGCAA
1 AGGTGTTGCATATCTTGCAA
45289700 GAACTACATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
AGGTGTTGCATATCTTGCAAC
Found at i:45294933 original size:24 final size:24
Alignment explanation
Indices: 45294899--45294951 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
45294889 ATTCATAGGT
* * *
45294899 TAAATAAATTATGCTGATAAATGC
1 TAAATAAATTATACTAATAAATAC
*
45294923 TAAATATATTATACTAATAAATAC
1 TAAATAAATTATACTAATAAATAC
45294947 TAAAT
1 TAAAT
45294952 TTTCTAGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.36
Consensus pattern (24 bp):
TAAATAAATTATACTAATAAATAC
Found at i:45300911 original size:95 final size:95
Alignment explanation
Indices: 45300746--45300934 Score: 290
Period size: 95 Copynumber: 2.0 Consensus size: 95
45300736 CATTCGGCCC
* * *
45300746 ACGCCTGTGTGGCTTGGGTGTGTGGGCACACACGGACGTAGTGTACGGCCGTGTCTTGCTTCTTT
1 ACGCCCGTGTGGCTTGGGCGTGTGGGCACACACGGACGTAGTGCACGGCCGTGTCTTGCTTCTTT
*
45300811 CGCTTCTCCCACGCTCGTGTACATAGGTCT
66 CGCTTCTCCCACGCCCGTGTACATAGGTCT
* * *
45300841 ACGCCCGTGTGGCTTGGGCGTGTGGGCACACACGGTCTTAGTGCACGGCTGTGTCTTGCTT-TAT
1 ACGCCCGTGTGGCTTGGGCGTGTGGGCACACACGGACGTAGTGCACGGCCGTGTCTTGCTTCT-T
*
45300905 TTGCTTCTCCCACGCCCGTGTACATAGGTC
65 TCGCTTCTCCCACGCCCGTGTACATAGGTC
45300935 CATACCTGTG
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
94 1 0.01
95 84 0.99
ACGTcount: A:0.12, C:0.28, G:0.30, T:0.30
Consensus pattern (95 bp):
ACGCCCGTGTGGCTTGGGCGTGTGGGCACACACGGACGTAGTGCACGGCCGTGTCTTGCTTCTTT
CGCTTCTCCCACGCCCGTGTACATAGGTCT
Found at i:45306822 original size:40 final size:42
Alignment explanation
Indices: 45306772--45306861 Score: 116
Period size: 40 Copynumber: 2.2 Consensus size: 42
45306762 CTACCCCAAT
45306772 ACCCAATACAGCCCAA-TGCAAA-CA-CAACCCAAA-CAAACTA
1 ACCCAATACAGCCCAACT--AAATCACCAACCCAAACCAAACTA
* *
45306812 ACCCATTACAGCCCAACTAAATCACCAACCCAAACCCAACTA
1 ACCCAATACAGCCCAACTAAATCACCAACCCAAACCAAACTA
45306854 ACCCAATA
1 ACCCAATA
45306862 GTCAAACTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
39 3 0.07
40 17 0.40
41 10 0.23
42 13 0.30
ACGTcount: A:0.47, C:0.40, G:0.03, T:0.10
Consensus pattern (42 bp):
ACCCAATACAGCCCAACTAAATCACCAACCCAAACCAAACTA
Found at i:45307911 original size:3 final size:3
Alignment explanation
Indices: 45307903--45308071 Score: 141
Period size: 3 Copynumber: 57.7 Consensus size: 3
45307893 TAATTAATTA
** * * *
45307903 ATT ATT ATT ATT ATT ATT ATT ATT GCT ACT ATT ATC ATT ACT ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
** * * * *
45307949 ATT ATT ACC ATT ATT ATT ACT ATT ATT TTT ATT TTT ATT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
45307997 A-T ATT -TT TTT ATT -TT -TT ATT ACT ATT ATC ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
45308041 ATT ATT ACT ATT -GT ATT ATT ACT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
45308072 ATTTTCATCT
Statistics
Matches: 130, Mismatches: 31, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
2 9 0.07
3 119 0.92
4 2 0.02
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:45308172 original size:3 final size:3
Alignment explanation
Indices: 45308164--45308348 Score: 61
Period size: 3 Copynumber: 62.7 Consensus size: 3
45308154 TTTATATTTC
*
45308164 TAT TAT TAT TA- TAT T-T TAT GTAT TAT ATCT CTAT T-T ATATT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT -TAT -TAT TAT -TA-T TAT
* * ** *
45308208 GTAT TAA TAT CAT TAT T-T TAT TAT TGC TAT TTT TA- TAT TAT TAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
45308252 TAG CAT TA- TATT TAT TAT T-T T-T TAC TAT TGTT TAT TAT CT-T TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT T-AT TAT TAT -TAT TAT
* * * * * *
45308296 TAA CAT TAT TAC TGT CAT T-T TAT TAT TAT TAT TAT TAT TAC T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
45308342 T-T TAT TA
1 TAT TAT TA
45308349 AATATTTTCT
Statistics
Matches: 130, Mismatches: 33, Indels: 38
0.65 0.16 0.19
Matches are distributed among these distances:
2 21 0.16
3 91 0.70
4 17 0.13
5 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:45308175 original size:17 final size:17
Alignment explanation
Indices: 45308138--45308189 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
45308128 ATTTGTCTAT
45308138 TTATATTTC-A-TATCTA
1 TTATATTTCTATTAT-TA
45308154 TTTATATTTCTATTATTA
1 -TTATATTTCTATTATTA
45308172 TTATATTT-TATGTATTA
1 TTATATTTCTAT-TATTA
45308189 T
1 T
45308190 ATCTCTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
16 3 0.09
17 23 0.72
18 3 0.09
19 3 0.09
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (17 bp):
TTATATTTCTATTATTA
Found at i:45308224 original size:26 final size:25
Alignment explanation
Indices: 45308168--45308229 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 25
45308158 TATTTCTATT
45308168 ATTA-TTATATTTTATGTATTATATC
1 ATTATTTATA-TTTATGTATTATATC
45308193 -TCTATTTATATTTATGTATTAATATC
1 AT-TATTTATATTTATGTATT-ATATC
45308219 ATTATTT-TATT
1 ATTATTTATATT
45308230 ATTGCTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
24 1 0.03
25 16 0.48
26 15 0.45
27 1 0.03
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (25 bp):
ATTATTTATATTTATGTATTATATC
Found at i:45308318 original size:29 final size:28
Alignment explanation
Indices: 45308292--45308348 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
45308282 TTTATTATCT
45308292 TTATTAACATTATTACTGTCATTTTATTA
1 TTATTAACATTATTACT-TCATTTTATTA
** *
45308321 TTATTATTATTATTACTTTATTTTATTA
1 TTATTAACATTATTACTTCATTTTATTA
45308349 AATATTTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (28 bp):
TTATTAACATTATTACTTCATTTTATTA
Found at i:45320252 original size:181 final size:181
Alignment explanation
Indices: 45319821--45320253 Score: 589
Period size: 181 Copynumber: 2.4 Consensus size: 181
45319811 CGATGAATCC
* * * *
45319821 ACAAGTCTTATCTCCCTAAAATTGCAGTGGAGCAGACTAAAGATAGCGAATCTTA-CTTCCCTGA
1 ACAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCGAATCTTATC-TCCCTGA
** * * *
45319885 AGTTGCGGTGGAACAGATTGAAGCTATAAATTACAGATTTTATCTCTCTGAAGTTGCAGTAGAGC
65 AGTTGCAATGGAACAAATTGAAGCTATAAATTACAGATCTTATCTATCTGAAGTTGCAGTAGAGC
* ** *
45319950 ATATCAAAACAAACCTTATCTCCCTGAGGTTGTAGTGGAGCAGGTTGAAATT
130 AGATCAAAACAAACCTTATCTCCCTGAAATTGCAGTGGAGCAGGTTGAAATT
* * * * * *
45320002 ATAAGTCTTATCTCCCTGAAGTTAAAGTGGACCAGACTGAAGATAGCGAATATTATTTCCCTCAA
1 ACAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCGAATCTTATCTCCCTGAA
* *
45320067 GTTGCAATGGAACAAATTGAAGCTATAAATTATAGATCTTATTTATCTGAAGTTGCAGTAGAGCA
66 GTTGCAATGGAACAAATTGAAGCTATAAATTACAGATCTTATCTATCTGAAGTTGCAGTAGAGCA
*
45320132 GATCAAAACAAACCTTATCTCCCTGAAATTGCAGTGGAGTAGGTTGAAATT
131 GATCAAAACAAACCTTATCTCCCTGAAATTGCAGTGGAGCAGGTTGAAATT
* * * * * * *
45320183 ACAAATCTCATCTCCCTGAAGTTACAGCGGAGCAGACTGAAGAAAGCTAATCCTATCTCCTTGAA
1 ACAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCGAATCTTATCTCCCTGAA
45320248 GTTGCA
66 GTTGCA
45320254 GTAGAGTAGA
Statistics
Matches: 216, Mismatches: 35, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
181 216 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (181 bp):
ACAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCGAATCTTATCTCCCTGAA
GTTGCAATGGAACAAATTGAAGCTATAAATTACAGATCTTATCTATCTGAAGTTGCAGTAGAGCA
GATCAAAACAAACCTTATCTCCCTGAAATTGCAGTGGAGCAGGTTGAAATT
Found at i:45320387 original size:183 final size:173
Alignment explanation
Indices: 45320112--45320664 Score: 466
Period size: 183 Copynumber: 3.1 Consensus size: 173
45320102 ATCTTATTTA
* *
45320112 TCTGAAGTTGCAGTAGAG-CAGATCAAA--ACAAACCTTATCTCCCTGAAA-TTGCAGTGGAGTA
1 TCTGAAGTTGCAGTAG-GTCGGATCAAATTACAAATCTTATCTCCCT-AAAGTTGCAGTGGAGTA
* * * *
45320173 GGTTGAAA-TTACAAATCTCATCTCCCTGAAGTTACAGCGGAGCAGACTGAAGAAAGCTAATCCT
64 GATT-AAAGATAC-AATCTTATCTCCCTGAAGTTACAGAGGAGCAGACTGAAGAAAGCTAATCCT
45320237 ATCTCCTTGAAGTTGCAGTAGAGTAGATTAAAACGACGAGTCTTATACC
127 ATCTCCTTGAAGTTGCAGTAGAG-AGATTAAAACGAC-AGTCTTATACC
45320286 TCTGAAGTTGCAGTAGGTCGGATCAAATCTACCATGGCAAATCTTATCAT-CCTAAAGTTGCAGT
1 TCTGAAGTTGCAGTAGGTCGGATCAAAT-T---A---CAAATCTTATC-TCCCTAAAGTTGCAGT
* * * * * * *
45320350 GGAGCAGATTAAAGCTACAAGTCTTATCTCCCTGAAGTTGCAGAGGAGCAGACTGGATACAGCTG
58 GGAGTAGATTAAAGATACAA-TCTTATCTCCCTGAAGTTACAGAGGAGCAGACTGAAGAAAGCTA
* * * * **
45320415 ATCTTTTCT-CTCTGAAGTTGCAGTAGAGCAAATCAAAAC-A-AACCTTAT-CTC
122 ATCCTATCTCCT-TGAAGTTGCAGTAGAG-AGATTAAAACGACAGTCTTATAC-C
* * * * * * *
45320466 CCTAAAGTTACAGT-GGAGCAGGTTGAAATTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGTA
1 TCTGAAGTTGCAGTAGG-TC-GGATCAAATTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTA
* * * * **
45320530 GACTAAAGATACCAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAGCTA-CTAATCCTA
64 GATTAAAGATA-CAATCTTATCTCCCTGAAGTTACAGAGGAGCAGACTGAAGAAAGCTAATCCTA
* * * **
45320594 TCTCCCTGAAGTTGCAGTGGAGCGAATTAAGGCGACAAGT-TCTATACC
128 TCTCCTTGAAGTTGCAGTAGAGAG-ATTAAAACGAC-AGTCT-TATACC
45320642 TCTGAAGTTGCAGTAGGTCGGAT
1 TCTGAAGTTGCAGTAGGTCGGAT
45320665 TAAAGCTAAA
Statistics
Matches: 297, Mismatches: 54, Indels: 55
0.73 0.13 0.14
Matches are distributed among these distances:
173 31 0.10
174 96 0.32
175 7 0.02
176 17 0.06
177 4 0.01
179 3 0.01
180 21 0.07
181 7 0.02
182 11 0.04
183 99 0.33
184 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (173 bp):
TCTGAAGTTGCAGTAGGTCGGATCAAATTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGA
TTAAAGATACAATCTTATCTCCCTGAAGTTACAGAGGAGCAGACTGAAGAAAGCTAATCCTATCT
CCTTGAAGTTGCAGTAGAGAGATTAAAACGACAGTCTTATACC
Found at i:45320390 original size:44 final size:43
Alignment explanation
Indices: 45320325--45320616 Score: 245
Period size: 44 Copynumber: 6.7 Consensus size: 43
45320315 TACCATGGCA
*
45320325 AATCTTATCAT-CCTAAAGTTGCAGTGGAGCAGATTAAAGCTAC
1 AATCTTATC-TCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
* *
45320368 AAGTCTTATCTCCCTGAAGTTGCAGAGGAGCAGACTGGATACAGCT--
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T---TAAAGCTAC
* * * * * * *
45320414 GATCTTTTCTCTCTGAAGTTGCAGTAGAGCAAATCAAAAC-A-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * * * *
45320455 AACCTTATCTCCCTAAAGTTACAGTGGAGCAGGTTGAAA-TTAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTAC
* * * *
45320498 AAGTCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTAAAGATACC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-C
* * *
45320543 AATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAGCTAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
*
45320586 TAATCCTATCTCCCTGAAGTTGCAGTGGAGC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGC
45320617 GAATTAAGGC
Statistics
Matches: 198, Mismatches: 37, Indels: 27
0.76 0.14 0.10
Matches are distributed among these distances:
41 28 0.14
42 4 0.02
43 9 0.05
44 120 0.61
45 30 0.15
46 1 0.01
48 6 0.03
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
Found at i:45322132 original size:3 final size:3
Alignment explanation
Indices: 45322124--45322306 Score: 90
Period size: 3 Copynumber: 61.3 Consensus size: 3
45322114 TTTAGTCATT
** *
45322124 TTA TTA TTA AAA TTAA TTAA TTTA TTA TT- TCTA TTA TTA TTA TTA TTG
1 TTA TTA TTA TTA TT-A TT-A TT-A TTA TTA T-TA TTA TTA TTA TTA TTA
* * * * ** **
45322172 CTA CTA TTA TCA TTA CTA TTTA TTA TTA CCA TTA TTA TTA CAA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * ** *
45322218 TTT TTA TTT TTA TTA CCA TTA CTA -TA TTA TT- TT- TTA TT- TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
45322261 TTA CTA CTA CTA CTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
45322307 ATTTTCATCT
Statistics
Matches: 139, Mismatches: 34, Indels: 14
0.74 0.18 0.07
Matches are distributed among these distances:
2 11 0.08
3 115 0.83
4 13 0.09
ACGTcount: A:0.32, C:0.09, G:0.01, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:45322399 original size:17 final size:17
Alignment explanation
Indices: 45322350--45322384 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
45322340 CTATTATTAT
*
45322350 TTATTTATTTATATTTC
1 TTATCTATTTATATTTC
45322367 TTATCTATTTATATTTC
1 TTATCTATTTATATTTC
45322384 T
1 T
45322385 GTTATTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.69
Consensus pattern (17 bp):
TTATCTATTTATATTTC
Found at i:45322444 original size:26 final size:26
Alignment explanation
Indices: 45322388--45322445 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
45322378 TATTTCTGTT
*
45322388 ATTA-TTATATTTTATGTATTATATC
1 ATTATTTATATTTTATATATTATATC
45322413 -TCTATTTATA-TTTATATATTAATATC
1 AT-TATTTATATTTTATATATT-ATATC
45322439 ATTATTT
1 ATTATTT
45322446 TACTATTGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
24 1 0.04
25 11 0.39
26 15 0.54
27 1 0.04
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (26 bp):
ATTATTTATATTTTATATATTATATC
Found at i:45326378 original size:23 final size:23
Alignment explanation
Indices: 45326351--45326396 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
45326341 AGAACACTTC
*
45326351 GATCTCACAAACTTTATAGAATT
1 GATCTCACAAACTTTATAAAATT
*
45326374 GATCTCACAAATTTTATAAAATT
1 GATCTCACAAACTTTATAAAATT
45326397 AAACTCCGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (23 bp):
GATCTCACAAACTTTATAAAATT
Found at i:45332136 original size:16 final size:15
Alignment explanation
Indices: 45332115--45332166 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 15
45332105 TTCATACGGT
45332115 TAAATTTAATATTTTA
1 TAAATTT-ATATTTTA
45332131 TAAATTTATGATTTATA
1 TAAATTTAT-ATTT-TA
**
45332148 TTATTTTTATATTTTA
1 -TAAATTTATATTTTA
45332164 TAA
1 TAA
45332167 TTGGAAATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
15 4 0.13
16 13 0.43
17 6 0.20
18 7 0.23
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (15 bp):
TAAATTTATATTTTA
Found at i:45343827 original size:23 final size:21
Alignment explanation
Indices: 45343786--45343829 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
45343776 GGACACACGT
45343786 CCATGTGGAAGGCTAACACAC
1 CCATGTGGAAGGCTAACACAC
*
45343807 CCATGTGGAAGGGTAACACAC
1 CCATGTGGAAGGCTAACACAC
45343828 CC
1 CC
45343830 TTGTCCCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.30, G:0.25, T:0.14
Consensus pattern (21 bp):
CCATGTGGAAGGCTAACACAC
Found at i:45344947 original size:47 final size:47
Alignment explanation
Indices: 45344891--45345207 Score: 204
Period size: 47 Copynumber: 6.7 Consensus size: 47
45344881 TGGGTAAGAT
*
45344891 GCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTTATATCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATATCTCAA
* * ** **
45344938 GTCGATGCCATGTCCCAGACATTGTCTTACACTAAC-TATCATCATCGGG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTAT-ATC-TC-AA
* * * * **
45344987 GCCGACGCTATGTCCCAGACATGGTCTTACACTGGCTCTCACATACCCGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-T-ATAT-CTCAA
* * * *
45345037 GCCAATGCCATGTCCCAGACATGGTCTTACACTGGC--ACATTTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATATCTC-AA
* * * * * *
45345083 GCTGATG-CATGTCCCAGACAT-ATCTTACAGTAGCACT-TGTCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TTATATCTCAA
* * * *
45345128 TGTCGATGCCATGTCCCATACATGGTCTTACACTGGCTCTCATAATGT--G
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-T-AT-ATCTCAA
*
45345177 GCCGATG-TATGTCCCAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
45345208 AGCTAACACA
Statistics
Matches: 207, Mismatches: 45, Indels: 37
0.72 0.16 0.13
Matches are distributed among these distances:
44 10 0.05
45 16 0.08
46 30 0.14
47 59 0.29
48 19 0.09
49 30 0.14
50 35 0.17
51 6 0.03
52 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATATCTCAA
Found at i:45350299 original size:21 final size:21
Alignment explanation
Indices: 45350273--45350318 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
45350263 ACACACACCT
*
45350273 GTGTGGAAGGGTAACAAGCCC
1 GTGTGGAAGGGTAACAAGACC
*
45350294 GTGTGGAAGGGTAACACGACC
1 GTGTGGAAGGGTAACAAGACC
45350315 GTGT
1 GTGT
45350319 CCCACACTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.39, T:0.17
Consensus pattern (21 bp):
GTGTGGAAGGGTAACAAGACC
Found at i:45351411 original size:47 final size:50
Alignment explanation
Indices: 45351355--45351724 Score: 230
Period size: 47 Copynumber: 7.8 Consensus size: 50
45351345 TGGGTAAGAT
*
45351355 GCCGATGCCATGTCCCAGACATGGTTTTACACTGGCTCAT-ATC-TC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCATCGAA
* * ** **
45351402 GTCGATGCCATGTCCCAGACATTGTCTTACACTAACT-ATCATCATCGGG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCATCGAA
* *
45351451 GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCA-CATACCCG-T
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCAT---CGAA
* * * * **
45351501 GCCAATGCCATGTCCTAGACATGGTCTTACACTGG--CA-CAT-TTTGTT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCATCGAA
* * * * * * **
45351547 GCTGATG-CATGTTCCAGACAT-GTCTTATAGTAGCAC-TTGTC-TC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCATCGAA
* * **
45351592 TGCCGATGCCATGTCCCGGACATGGTCTTACACTGGCTC-TCATAAT-GTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCATCGAA
* * * *
45351641 GCCGATG-CATGTCCCTGACATGGTCTTACATTGGCTC-TCATAAT--ATG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCATCGA-A
* *
45351688 GTCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA
45351725 CACAAATGAC
Statistics
Matches: 253, Mismatches: 49, Indels: 42
0.74 0.14 0.12
Matches are distributed among these distances:
44 9 0.04
45 13 0.05
46 30 0.12
47 102 0.40
48 29 0.11
49 36 0.14
50 32 0.13
51 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (50 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCATCGAA
Found at i:45357143 original size:18 final size:18
Alignment explanation
Indices: 45357117--45357160 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
45357107 CATAGTTTGA
* *
45357117 CAAATTAATTCAGCTCAC
1 CAAATTAATACAGATCAC
*
45357135 CATATTAATACAGATCAC
1 CAAATTAATACAGATCAC
45357153 CAAATTAA
1 CAAATTAA
45357161 CACAATTCGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.45, C:0.23, G:0.05, T:0.27
Consensus pattern (18 bp):
CAAATTAATACAGATCAC
Found at i:45358865 original size:23 final size:23
Alignment explanation
Indices: 45358822--45358865 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
45358812 TCTAATTATT
*
45358822 TTAATAATTTATTATATTAATTC
1 TTAATAATTTATTATACTAATTC
*
45358845 TTAATCATTTAATTAT-CTAAT
1 TTAATAATTT-ATTATACTAAT
45358866 CTAATTACGG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (23 bp):
TTAATAATTTATTATACTAATTC
Found at i:45384674 original size:23 final size:23
Alignment explanation
Indices: 45384648--45384745 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
45384638 ATAAGTGCCA
45384648 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
45384671 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
45384694 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
45384716 CACTGAAATGTAGCCGAAGTTAC
1 CACTGATATGTAGCCGAAGCTAC
45384739 CACTGAT
1 CACTGAT
45384746 CAATAACACT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
22 20 0.29
23 48 0.71
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:45384713 original size:45 final size:45
Alignment explanation
Indices: 45384655--45384743 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
45384645 CCACACTGAT
* *
45384655 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
*
45384700 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGTTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
45384744 ATCAATAACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.20
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:45392555 original size:3 final size:3
Alignment explanation
Indices: 45392547--45392624 Score: 53
Period size: 3 Copynumber: 27.3 Consensus size: 3
45392537 AATATATTAA
*
45392547 ATT ATT ATT ATTT ATT ATT A-T AGTT -TT A-T ATT A-A ATT ATT ATT
1 ATT ATT ATT A-TT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT
* *
45392590 ATT GTT ATT ATT ATT -TA ATT GA-T ATT A-T ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT A
45392625 AATTAAATAA
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
2 11 0.19
3 43 0.73
4 5 0.08
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:45392607 original size:27 final size:24
Alignment explanation
Indices: 45392558--45392632 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 24
45392548 TTATTATTAT
45392558 TTATTATTATAGTTTTATATTAAA
1 TTATTATTATAGTTTTATATTAAA
* *
45392582 TTATTATTATTGTTATTATTATTTAA
1 TTATTATTATAGTT-TTA-TATTAAA
*
45392608 TTGA-TATTATA-TTATTAAATTAAA
1 TT-ATTATTATAGTT-TTATATTAAA
45392632 T
1 T
45392633 AAATTAAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
24 19 0.44
25 9 0.21
26 14 0.33
27 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (24 bp):
TTATTATTATAGTTTTATATTAAA
Found at i:45405766 original size:969 final size:973
Alignment explanation
Indices: 45403860--45405804 Score: 3177
Period size: 977 Copynumber: 2.0 Consensus size: 973
45403850 CATATGATAA
45403860 ACCGTAAATTATACATATTTTTACCCCATCTTTAATGCATTTTATGGATGATTTCCCATTAGAAT
1 ACCGTAAATTATACATATTTTTACCCCATCTTTAATGCATTTTATGGATGATTTCCCATTAGAAT
*
45403925 TAGTGAATTCGATGCTCCTAATGCTTTAATTTCATGTGTTATACTTAGGAAAGCATAGGAGAGCG
66 TAGTGAATTCAATGCTCCTAATGCTTTAATTTCATGTGTTATACTTAGGAAAGCATAGGAGAGCG
* *
45403990 AAAGAGATGAAAAACGGACCAAAAACAGAGAAAATGGGCCAAAGTATGAAATCAACACGACCTAG
131 AAAGAGACGAAAAACGGACCAAAAACAGAGAAAATGGGCCAAAGTACGAAATCAACACGACCTAG
* * * * * *
45404055 ACCTCCTCACACAGGCAGACCACATGGCCGTGTCTATTCGACAGGCTTAAACACGGCCTGAAGTA
196 ACCTCCTCACACAGGCAGACCACACGGCCGTGTCCATTCGACAAGCTCAAACACAGCCTGAAGAA
* * *
45404120 ATTGAACACGGGTGTGTGCCACGGGCGTGTCCTTACCGAGCCCAAGTTGAGTCCAATTCAGAAAA
261 ATTGAACACGAGCGTGTGCCACGGGCGTGTCCCTACCGAGCCCAAGTTGAGTCCAATTCAGAAAA
*
45404185 GGCTAATTTTGAGGGCTCCCAGGCATGCCAAAGCCTATAAATACACCTTAAAGAAGGAAGAAAAC
326 GGCTAATTTTGAGGGCTCCCAGGCATGCCAAAGCCTATAAATACACCCTAAAGAAGGAAGAAAAC
* *
45404250 ACACACGGAGAATAGAGAGTAAGGAATTACTCTAAGGAAGCCGATTGATCCATTTCAGAAGCCGG
391 ACACACGAAGAATAGAGAGTAAGGAATTACTCTAAGGAAGCCGATTGATCCATCTCAGAAGCCGG
* *
45404315 ACTCATCATCAAGATTAAAGATCTCTCCTCAATTTCCCTTTAGGAGTTTTGGGTTTTCTTTATGT
456 ACTCATCATCAAGACTAAAGATCTCTCCTCAATTTCCCTCTAGGAGTTTTGGGTTTTCTTTATGT
45404380 TTTGTATTCTTTATTCTTCTGAGATGTGTTCTTATTTAGTTATGAACCAAAACCCCCAAATACCT
521 TTTGTATTCTTTATTCTTCTGAGATGTGTTCTTATTTAGTTATGAACC-AAA----CAAATACCT
*
45404445 AAGGGGAATGAAACCTAAGATGAATCTTGTTATTATTTTCTGAATCGTATGATAAATATTTAACT
581 AAGGGGAATGAAACCTAAGACGAATCTTGTTATTATTTTCTGAATCGTATGATAAATATTTAACT
** *
45404510 TGTTCTTAATTATGTGTTCTTAATTCTTGTTTTGACATTTCAGGATATTAATTCAAGATAAGCTC
646 TGTTCTTAATTATGTGTTCTTAATTCTTGTTTTGACATCCCAGGATATTAATTCAAAATAAGCTC
*
45404575 TTATTCAGAGGAGGAATAGACCCTGTCTAAGAGTACATTTGTCATAATTCAGCAGAGTTGATTAC
711 TTATTCAGAGGAGGAATAGACCCTGTCTAAGAGTACATTTGTCATAATTAAGCAGAGTTGATTAC
* * * *
45404640 GCACCTAGACATAGGGTGATAAGATTTTGCCGGATTAGGGTGAAACCTAATAAGGGGATCCATAG
776 GCACCTAGACATAGGATGACAAGATTTTGCCGGATTAGGGTAAAACCTAATAAAGGGATCCATAG
*
45404705 ATCGAGTTAATGCAACCCTAGAGTGTTAATTAGAGAAAAGCCTCAATTACTCAATCCAGGGATTA
841 ATCAAGTTAATGCAACCCTAGAGTGTTAATTAGAGAAAAGCCTCAATTACTCAATCCAGGGATTA
*
45404770 GACGTTGTTAATCTTGAATAAGGATAATAACATAACTTAGGGATCTCTATGGAACAAGTTGAATG
906 GACGTTGTTAATCTTGAATAAGGATAATAACATAACTTAGGGATCTCTACGGAACAAGTTGAATG
45404835 ATT
971 ATT
*
45404838 ACCGTAAATTATACATATTTTTACCCCATGC-TTAATGCATTTTATGGATGATTTCCTATTAGAA
1 ACCGTAAATTATACATATTTTTACCCCAT-CTTTAATGCATTTTATGGATGATTTCCCATTAGAA
* *
45404902 TTGGTGAATTCAATGCTCCTAATGCTTTAATTTCATGTGTTATACTTAGGAGAGCATAGGAGAGC
65 TTAGTGAATTCAATGCTCCTAATGCTTTAATTTCATGTGTTATACTTAGGAAAGCATAGGAGAGC
* * * * *
45404967 GAAAGGGACGAGAAACGGGCC-AAAACAGAGAAAATGGGCCAAAGTACGAAATCAACACGGCCTG
130 GAAAGAGACGAAAAACGGACCAAAAACAGAGAAAATGGGCCAAAGTACGAAATCAACACGACCTA
* * * *
45405031 GACCTCCTCACA-GGGCCAGACTACACGGCCGTGTCCATTCGGCAAGCTCGAACACAGCCTGAAG
195 GACCTCCTCACACAGG-CAGACCACACGGCCGTGTCCATTCGACAAGCTCAAACACAGCCTGAAG
*
45405095 AAATTGAACACGAGCGTGTGCCACGGGCGTGTCCCTGCCGAGCCCAAGTTGAGTCCAATTCAGAA
259 AAATTGAACACGAGCGTGTGCCACGGGCGTGTCCCTACCGAGCCCAAGTTGAGTCCAATTCAGAA
* * * *
45405160 AAGGCTAATTTTGAGGGCTCCTAGGCATTCCAAAGCCTATAAATACACCCTAGAGGAGGAAGAAA
324 AAGGCTAATTTTGAGGGCTCCCAGGCATGCCAAAGCCTATAAATACACCCTAAAGAAGGAAGAAA
* * * * * *
45405225 ACACATACGAAGGATAGGGAGTAAGGAATTACTAC-GAGGAAGCCGATTGATCCATCTCTGAAGT
389 ACACACACGAAGAATAGAGAGTAAGGAATTACT-CTAAGGAAGCCGATTGATCCATCTCAGAAGC
* *
45405289 CGGATTCATCATCAAGACTGAAGATCTCTCCTCAATTTCCCTCTAGGAGTTTTGGGTTTTCTTTA
453 CGGACTCATCATCAAGACTAAAGATCTCTCCTCAATTTCCCTCTAGGAGTTTTGGGTTTTCTTTA
*
45405354 TGTTTTGTATTCTTTATTCTTCTGAGATGTGTTCTTATTTAGTTATGAA-C-TA-AAATACCTAA
518 TGTTTTGTATTCTTTATTCTTCTGAGATGTGTTCTTATTTAGTTATGAACCAAACAAATACCTAA
45405416 GGGGAATGAAACCTAAGACGAATCTTGTTATTATTTTCTGAATCGTATGATAAATATTTAACTTG
583 GGGGAATGAAACCTAAGACGAATCTTGTTATTATTTTCTGAATCGTATGATAAATATTTAACTTG
45405481 TTCTTAATTATGTGTTCTTAATTCTTGTTTTGACATCCCAGGATATTAATTCAAAATAAGCTCTT
648 TTCTTAATTATGTGTTCTTAATTCTTGTTTTGACATCCCAGGATATTAATTCAAAATAAGCTCTT
* * *
45405546 ATTCAGAGGAGGAATAGACCCTGTCTAAGAGTACATTTGTCATAATTAAGCGGAGTTGATTGCGT
713 ATTCAGAGGAGGAATAGACCCTGTCTAAGAGTACATTTGTCATAATTAAGCAGAGTTGATTACGC
* *
45405611 GCCTAGACATAGGATGACAAGATTTTGCC-GAGTTAGGGTAAAACCTAATAAAGGGATCTATAGA
778 ACCTAGACATAGGATGACAAGATTTTGCCGGA-TTAGGGTAAAACCTAATAAAGGGATCCATAGA
* ** * *
45405675 TCAAGTTAATGCAACCCTAGGGTGTTAATTAGAGAAAATTCTCAATTATTCAATCTAGGGATTAG
842 TCAAGTTAATGCAACCCTAGAGTGTTAATTAGAGAAAAGCCTCAATTACTCAATCCAGGGATTAG
45405740 ACGTTGTTAATCTTGAATAAGGATAATAACATAACTTAGGGATCTCTACGGAACAAGTTGAATGA
907 ACGTTGTTAATCTTGAATAAGGATAATAACATAACTTAGGGATCTCTACGGAACAAGTTGAATGA
45405805 ATAAATCGTC
Statistics
Matches: 899, Mismatches: 64, Indels: 17
0.92 0.07 0.02
Matches are distributed among these distances:
968 2 0.00
969 375 0.42
974 1 0.00
976 3 0.00
977 376 0.42
978 141 0.16
979 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (973 bp):
ACCGTAAATTATACATATTTTTACCCCATCTTTAATGCATTTTATGGATGATTTCCCATTAGAAT
TAGTGAATTCAATGCTCCTAATGCTTTAATTTCATGTGTTATACTTAGGAAAGCATAGGAGAGCG
AAAGAGACGAAAAACGGACCAAAAACAGAGAAAATGGGCCAAAGTACGAAATCAACACGACCTAG
ACCTCCTCACACAGGCAGACCACACGGCCGTGTCCATTCGACAAGCTCAAACACAGCCTGAAGAA
ATTGAACACGAGCGTGTGCCACGGGCGTGTCCCTACCGAGCCCAAGTTGAGTCCAATTCAGAAAA
GGCTAATTTTGAGGGCTCCCAGGCATGCCAAAGCCTATAAATACACCCTAAAGAAGGAAGAAAAC
ACACACGAAGAATAGAGAGTAAGGAATTACTCTAAGGAAGCCGATTGATCCATCTCAGAAGCCGG
ACTCATCATCAAGACTAAAGATCTCTCCTCAATTTCCCTCTAGGAGTTTTGGGTTTTCTTTATGT
TTTGTATTCTTTATTCTTCTGAGATGTGTTCTTATTTAGTTATGAACCAAACAAATACCTAAGGG
GAATGAAACCTAAGACGAATCTTGTTATTATTTTCTGAATCGTATGATAAATATTTAACTTGTTC
TTAATTATGTGTTCTTAATTCTTGTTTTGACATCCCAGGATATTAATTCAAAATAAGCTCTTATT
CAGAGGAGGAATAGACCCTGTCTAAGAGTACATTTGTCATAATTAAGCAGAGTTGATTACGCACC
TAGACATAGGATGACAAGATTTTGCCGGATTAGGGTAAAACCTAATAAAGGGATCCATAGATCAA
GTTAATGCAACCCTAGAGTGTTAATTAGAGAAAAGCCTCAATTACTCAATCCAGGGATTAGACGT
TGTTAATCTTGAATAAGGATAATAACATAACTTAGGGATCTCTACGGAACAAGTTGAATGATT
Found at i:45409951 original size:21 final size:20
Alignment explanation
Indices: 45409927--45409971 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
45409917 TTTGTATTTT
45409927 TTTACCTATTATTATTATTC
1 TTTACCTATTATTATTATTC
*
45409947 ATTTATCTATTATTATTATTC
1 -TTTACCTATTATTATTATTC
45409968 TTTA
1 TTTA
45409972 TATTACAGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTACCTATTATTATTATTC
Found at i:45414730 original size:9 final size:9
Alignment explanation
Indices: 45414713--45414749 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
45414703 TCGAATTTCG
45414713 AATTCGAAT
1 AATTCGAAT
*
45414722 AACTCGAAT
1 AATTCGAAT
45414731 AATTCGAAT
1 AATTCGAAT
45414740 AATTCGAAT
1 AATTCGAAT
45414749 A
1 A
45414750 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:45415147 original size:175 final size:175
Alignment explanation
Indices: 45414949--45415332 Score: 736
Period size: 175 Copynumber: 2.2 Consensus size: 175
45414939 CCCAGAAACA
45414949 CTCAAAACTTTTTATTTTCCCCCATAATTTTTACTCCCTCCCACTTTCCTCTTAAAATTTTTATT
1 CTCAAAACTTTTTATTTTCCCCCATAATTTTTACTCCCTCCCACTTTCCTCTTAAAATTTTTATT
45415014 TCCTTTCAATCCCACCTCCCATCTACCCCAAATTCACCCCAATTTTTTTTTAATATTTTCCCTCC
66 TCCTTTCAATCCCACCTCCCATCTACCCCAAATTCACCCCAATTTTTTTTTAATATTTTCCCTCC
45415079 AAAATTTTACTCTCCCCTATTTACTTTCCCTCAAAACTTTTATCT
131 AAAATTTTACTCTCCCCTATTTACTTTCCCTCAAAACTTTTATCT
45415124 CTCAAAACTTTTTATTTTCCCCCATAATTTTTACTCCCTCCCACTTTCCTCTTAAAATTTTTATT
1 CTCAAAACTTTTTATTTTCCCCCATAATTTTTACTCCCTCCCACTTTCCTCTTAAAATTTTTATT
45415189 TCCTTTCAATCCCACCTCCCATCTACCCCAAATTCACCCCAATTTTTTTTTAATATTTTCCCTCC
66 TCCTTTCAATCCCACCTCCCATCTACCCCAAATTCACCCCAATTTTTTTTTAATATTTTCCCTCC
45415254 AAAATTTTACTCTCCCCTATTTACTTTCCCTCAAAACTTTTATCT
131 AAAATTTTACTCTCCCCTATTTACTTTCCCTCAAAACTTTTATCT
*
45415299 CTCAAAACTTTTTA-TTTCTCCC-TAAATTTTTACT
1 CTCAAAACTTTTTATTTTCCCCCAT-AATTTTTACT
45415333 TCTCACCCTT
Statistics
Matches: 207, Mismatches: 1, Indels: 3
0.98 0.00 0.01
Matches are distributed among these distances:
173 1 0.00
174 17 0.08
175 189 0.91
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (175 bp):
CTCAAAACTTTTTATTTTCCCCCATAATTTTTACTCCCTCCCACTTTCCTCTTAAAATTTTTATT
TCCTTTCAATCCCACCTCCCATCTACCCCAAATTCACCCCAATTTTTTTTTAATATTTTCCCTCC
AAAATTTTACTCTCCCCTATTTACTTTCCCTCAAAACTTTTATCT
Found at i:45419405 original size:20 final size:19
Alignment explanation
Indices: 45419365--45419407 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
45419355 ACTTTCTCTG
*
45419365 TTTTTTTTTCTTTTTTACT
1 TTTTTTTTTCTTTTGTACT
45419384 TTTTTATTTTACTTTTGT-CT
1 TTTTT-TTTT-CTTTTGTACT
45419404 TTTT
1 TTTT
45419408 CCCTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 10 0.48
21 6 0.29
ACGTcount: A:0.07, C:0.09, G:0.02, T:0.81
Consensus pattern (19 bp):
TTTTTTTTTCTTTTGTACT
Found at i:45419856 original size:18 final size:17
Alignment explanation
Indices: 45419825--45419863 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
45419815 TTTTTCTTGT
*
45419825 TTTATTTTGTTTATTTA
1 TTTATTTTGTTTATTAA
*
45419842 TTTATTTTTTGTTATTAA
1 TTTATTTTGT-TTATTAA
45419860 TTTA
1 TTTA
45419864 AAAAAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (17 bp):
TTTATTTTGTTTATTAA
Found at i:45419944 original size:31 final size:32
Alignment explanation
Indices: 45419897--45419960 Score: 103
Period size: 31 Copynumber: 2.0 Consensus size: 32
45419887 AAATGTTTTA
45419897 TAATATATATTTTTAAATTTTAAATATTATTT
1 TAATATATATTTTTAAATTTTAAATATTATTT
* *
45419929 TAATTTAT-TTTTTAAATTTTGAATATTATTT
1 TAATATATATTTTTAAATTTTAAATATTATTT
45419960 T
1 T
45419961 TTTAAATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 23 0.77
32 7 0.23
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (32 bp):
TAATATATATTTTTAAATTTTAAATATTATTT
Found at i:45419959 original size:21 final size:20
Alignment explanation
Indices: 45419925--45419991 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 20
45419915 TTTAAATATT
45419925 ATTTTAAT-TTATTTTTTAA
1 ATTTTAATATTATTTTTTAA
45419944 ATTTTGAATATTATTTTTTTAA
1 ATTTT-AATATTA-TTTTTTAA
*
45419966 ATATTAAATATATATTTTTTAA
1 AT-TTTAATAT-TATTTTTTAA
45419988 ATTT
1 ATTT
45419992 GTTTTTTTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
19 5 0.12
20 3 0.07
21 5 0.12
22 25 0.60
23 4 0.10
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (20 bp):
ATTTTAATATTATTTTTTAA
Found at i:45420136 original size:25 final size:23
Alignment explanation
Indices: 45420102--45420165 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 23
45420092 AAAACTTGAA
45420102 ATATATATTTGAAATGTTTTATAAT
1 ATATATATTTGAAAT-TTTTA-AAT
*
45420127 ATATATATTTTTAAA-TTTTAAAT
1 ATATATA-TTTGAAATTTTTAAAT
45420150 ATATATATTTGAAATT
1 ATATATATTTGAAATT
45420166 ATTTTTTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 6 0.17
23 11 0.31
24 5 0.14
25 7 0.20
26 6 0.17
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (23 bp):
ATATATATTTGAAATTTTTAAAT
Found at i:45420169 original size:25 final size:25
Alignment explanation
Indices: 45420102--45420170 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
45420092 AAAACTTGAA
*
45420102 ATATATATTTGAAATGTTTTATAAT
1 ATATATATTTGAAATATTTTATAAT
**
45420127 ATATATATTTTTAA-ATTTTA-AAT
1 ATATATATTTGAAATATTTTATAAT
45420150 ATATATATTTGAAATTATTTT
1 ATATATATTTGAAA-TATTTT
45420171 TTAAAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 15 0.41
24 5 0.14
25 17 0.46
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (25 bp):
ATATATATTTGAAATATTTTATAAT
Found at i:45420181 original size:35 final size:33
Alignment explanation
Indices: 45420134--45420225 Score: 123
Period size: 33 Copynumber: 2.8 Consensus size: 33
45420124 AATATATATA
*
45420134 TTTTT-AAATTTTAAATATATATATTTGAAATTAT
1 TTTTTAAAATTTTAAATAT-TAT-TTTGAAATCAT
*
45420168 TTTTTAAAATTTTAAATATTATTTTTAAATCAT
1 TTTTTAAAATTTTAAATATTATTTTGAAATCAT
* *
45420201 TGTTTAAAAATTTAAATATTATTTT
1 TTTTTAAAATTTTAAATATTATTTT
45420226 TTAAATATTA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
33 32 0.60
34 8 0.15
35 13 0.25
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (33 bp):
TTTTTAAAATTTTAAATATTATTTTGAAATCAT
Found at i:45420184 original size:20 final size:20
Alignment explanation
Indices: 45420156--45420197 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
45420146 AAATATATAT
45420156 ATTTGAAATTATT-TTTTAAA
1 ATTTGAAA-TATTATTTTAAA
* *
45420176 ATTTTAAATATTATTTTTAA
1 ATTTGAAATATTATTTTAAA
45420196 AT
1 AT
45420198 CATTGTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
ATTTGAAATATTATTTTAAA
Found at i:45420253 original size:21 final size:21
Alignment explanation
Indices: 45420207--45420254 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
45420197 TCATTGTTTA
45420207 AAAAT-TTAAATATTATTTTT
1 AAAATATTAAATATTATTTTT
*
45420227 TAAATATTAAATA-TATTTTT
1 AAAATATTAAATATTATTTTT
45420247 AATAATAT
1 AA-AATAT
45420255 AAAACATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AAAATATTAAATATTATTTTT
Found at i:45420339 original size:23 final size:23
Alignment explanation
Indices: 45420312--45420396 Score: 95
Period size: 24 Copynumber: 3.6 Consensus size: 23
45420302 GTTTTATAAT
45420312 ATTTTAAATGTATATTTTAATT-TG
1 ATTTTAAAT-TAT-TTTTAATTATG
45420336 -TTTTATAATT-TTTTTAATTATG
1 ATTTTA-AATTATTTTTAATTATG
*
45420358 ATTTTTAAATTATTTTAAATTATG
1 A-TTTTAAATTATTTTTAATTATG
45420382 ATTTTAAAATTATTT
1 ATTTT-AAATTATTT
45420397 AAAATATATT
Statistics
Matches: 54, Mismatches: 1, Indels: 12
0.81 0.01 0.18
Matches are distributed among these distances:
21 8 0.15
22 3 0.06
23 14 0.26
24 29 0.54
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (23 bp):
ATTTTAAATTATTTTTAATTATG
Found at i:45420364 original size:13 final size:13
Alignment explanation
Indices: 45420346--45420386 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
45420336 TTTTATAATT
45420346 TTTTTAATTATGA
1 TTTTTAATTATGA
*
45420359 TTTTTAA--ATTA
1 TTTTTAATTATGA
*
45420370 TTTTAAATTATGA
1 TTTTTAATTATGA
45420383 TTTT
1 TTTT
45420387 AAAATTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
11 9 0.39
13 14 0.61
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (13 bp):
TTTTTAATTATGA
Found at i:45420368 original size:14 final size:14
Alignment explanation
Indices: 45420345--45420394 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
45420335 GTTTTATAAT
*
45420345 TTTTTTAATTATGA
1 TTTTTAAATTATGA
45420359 TTTTTAAA-T-T-A
1 TTTTTAAATTATGA
45420370 -TTTTAAATTATGA
1 TTTTTAAATTATGA
*
45420383 TTTTAAAATTAT
1 TTTTTAAATTAT
45420395 TTAAAATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
10 7 0.23
11 2 0.07
12 2 0.07
13 2 0.07
14 17 0.57
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (14 bp):
TTTTTAAATTATGA
Found at i:45420373 original size:24 final size:24
Alignment explanation
Indices: 45420336--45420415 Score: 99
Period size: 24 Copynumber: 3.3 Consensus size: 24
45420326 TTTTAATTTG
*
45420336 TTTTATAATT-TTTTTAATTATGAT
1 TTTTA-AATTATTTTAAATTATGAT
45420360 TTTTAAATTATTTTAAATTATGAT
1 TTTTAAATTATTTTAAATTATGAT
* * *
45420384 TTTAAAATTATTTAAAATATATTAT
1 TTTTAAATTATTTTAAAT-TATGAT
45420409 TTTTAAA
1 TTTTAAA
45420416 GATATGACAT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.08
24 34 0.69
25 11 0.22
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.59
Consensus pattern (24 bp):
TTTTAAATTATTTTAAATTATGAT
Found at i:45420387 original size:13 final size:12
Alignment explanation
Indices: 45420310--45420406 Score: 59
Period size: 10 Copynumber: 8.4 Consensus size: 12
45420300 TAGTTTTATA
45420310 ATATTTTAAATGT
1 ATATTTTAAAT-T
45420323 ATATTTT-AATT
1 ATATTTTAAATT
*
45420334 -TGTTTTATAATT
1 ATATTTTA-AATT
45420346 -T-TTTT-AATT
1 ATATTTTAAATT
45420355 ATGATTTTTAAA-T
1 AT-A-TTTTAAATT
45420368 -TATTTTAAATT
1 ATATTTTAAATT
*
45420379 ATGATTTTAAAAT
1 AT-ATTTTAAATT
*
45420392 -TA-TTTAAAAT
1 ATATTTTAAATT
45420402 ATATT
1 ATATT
45420407 ATTTTTAAAG
Statistics
Matches: 70, Mismatches: 2, Indels: 25
0.72 0.02 0.26
Matches are distributed among these distances:
9 4 0.06
10 21 0.30
11 10 0.14
12 12 0.17
13 21 0.30
14 2 0.03
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (12 bp):
ATATTTTAAATT
Found at i:45420486 original size:12 final size:13
Alignment explanation
Indices: 45420469--45420518 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 13
45420459 ATATTTTTTA
45420469 AATTTTAAATA-T
1 AATTTTAAATATT
45420481 AATTTTTATAAATTATT
1 AA--TTT-TAAA-TATT
45420498 AATTTTAAA-ATT
1 AATTTTAAATATT
45420510 AATTTTAAA
1 AATTTTAAA
45420519 GATATTCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
12 14 0.42
14 7 0.21
15 7 0.21
16 2 0.06
17 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTTTAAATATT
Found at i:45420821 original size:18 final size:18
Alignment explanation
Indices: 45420800--45420842 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
45420790 GTAAAACAAG
45420800 AAAAAAGAAAAAAACTTA
1 AAAAAAGAAAAAAACTTA
*
45420818 AAAAAAGAAAAAAATTTA
1 AAAAAAGAAAAAAACTTA
45420836 AAGAAAA
1 AA-AAAA
45420843 AGACAAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.79, C:0.02, G:0.07, T:0.12
Consensus pattern (18 bp):
AAAAAAGAAAAAAACTTA
Found at i:45421072 original size:45 final size:46
Alignment explanation
Indices: 45421022--45421116 Score: 115
Period size: 45 Copynumber: 2.1 Consensus size: 46
45421012 TATTATAAAA
* *
45421022 TAAA-TTAAATAATATTTAAATTATTATAAAACTAATA-AT-AAATTT
1 TAAATTTAAA-AATATTTAAA-TATTAAAAAAATAATATATAAAATTT
* *
45421067 TAAATTTTAAAATATTTAAATATTAAAAAAATAATATTTAAAATTT
1 TAAATTTAAAAATATTTAAATATTAAAAAAATAATATATAAAATTT
45421113 TAAA
1 TAAA
45421117 AAGTAAATTC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
44 14 0.33
45 15 0.35
46 14 0.33
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (46 bp):
TAAATTTAAAAATATTTAAATATTAAAAAAATAATATATAAAATTT
Found at i:45421086 original size:16 final size:15
Alignment explanation
Indices: 45421061--45421116 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 15
45421051 AACTAATAAT
*
45421061 AAATTTTAAATTTTA
1 AAATTTTAAATATTA
45421076 AAATATTTAAATATTA
1 AAAT-TTTAAATATTA
***
45421092 AAAAAAT-AATATTTA
1 AAATTTTAAATA-TTA
45421107 AAATTTTAAA
1 AAATTTTAAA
45421117 AAGTAAATTC
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
14 4 0.13
15 12 0.39
16 15 0.48
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AAATTTTAAATATTA
Found at i:45421110 original size:31 final size:30
Alignment explanation
Indices: 45420994--45421123 Score: 95
Period size: 31 Copynumber: 4.0 Consensus size: 30
45420984 GAATATGTTT
*
45420994 AAAAATTATCATTTAAAATATTATAAAATAA
1 AAAAATAAT-ATTTAAAATATTATAAAATAA
* *
45421025 ATTAAATAATATTTAAATTATTATAAAACTAA
1 A-AAAATAATATTTAAAATATTATAAAA-TAA
45421057 TAATAAATTTTAA-ATTTTAAAATATT-TAAATATTAA
1 -AA-AAA---TAATA-TTTAAAATATTATAAA-A-TAA
*
45421093 AAAAATAATATTTAAAATTTTA-AAAAGTAA
1 AAAAATAATATTTAAAATATTATAAAA-TAA
45421123 A
1 A
45421124 TTCAAAAAAT
Statistics
Matches: 80, Mismatches: 8, Indels: 23
0.72 0.07 0.21
Matches are distributed among these distances:
30 5 0.06
31 34 0.43
32 10 0.12
33 4 0.05
34 3 0.04
35 7 0.09
36 17 0.21
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (30 bp):
AAAAATAATATTTAAAATATTATAAAATAA
Found at i:45422723 original size:25 final size:25
Alignment explanation
Indices: 45422694--45422766 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
45422684 TCCTTAAATC
45422694 AATAATATATATAAAAATAAATATA
1 AATAATATATATAAAAATAAATATA
45422719 AATAATAT-TATTAAGAACATAAATA-A
1 AATAATATATA-TAA-AA-ATAAATATA
* *
45422745 AATAATTTA-AGAAAAA-AAATAT
1 AATAATATATATAAAAATAAATAT
45422767 CACAAATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
22 5 0.12
23 1 0.02
24 4 0.10
25 13 0.32
26 11 0.27
27 7 0.17
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (25 bp):
AATAATATATATAAAAATAAATATA
Found at i:45422757 original size:22 final size:21
Alignment explanation
Indices: 45422716--45422757 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
45422706 AAAAATAAAT
* *
45422716 ATAAATAATATTATTAAGAAC
1 ATAAATAAAATAATTAAGAAC
45422737 ATAAATAAAATAATTTAAGAA
1 ATAAATAAAATAA-TTAAGAA
45422758 AAAAAATATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (21 bp):
ATAAATAAAATAATTAAGAAC
Found at i:45426186 original size:19 final size:19
Alignment explanation
Indices: 45426159--45426211 Score: 52
Period size: 23 Copynumber: 2.6 Consensus size: 19
45426149 TTAAAGTAAG
*
45426159 TAATATAAAAAATATACAT
1 TAATTTAAAAAATATACAT
45426178 TAATTTAAACAAATAATATACAT
1 TAATTT--A-AAA-AATATACAT
*
45426201 AAATTTAAAAA
1 TAATTTAAAAA
45426212 TAATTTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
19 6 0.21
20 3 0.11
21 2 0.07
22 3 0.11
23 14 0.50
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (19 bp):
TAATTTAAAAAATATACAT
Found at i:45426214 original size:21 final size:22
Alignment explanation
Indices: 45426165--45426215 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
45426155 TAAGTAATAT
*
45426165 AAAA-AATATACATTAATTTAA
1 AAAATAATATACATAAATTTAA
45426186 ACAAATAATATACATAAATTT-A
1 A-AAATAATATACATAAATTTAA
45426208 AAAATAAT
1 AAAATAAT
45426216 TTAATATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 8 0.30
22 5 0.19
23 14 0.52
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATAATATACATAAATTTAA
Found at i:45426228 original size:26 final size:29
Alignment explanation
Indices: 45426191--45426244 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 29
45426181 TTTAAACAAA
*
45426191 TAATATACATAA-AT-T-TAAAAATAATT
1 TAATATAAATAACATATATAAAAATAATT
45426217 TAATATAAATAACATATATAAAAATAAT
1 TAATATAAATAACATATATAAAAATAAT
45426245 AAAGTATAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 11 0.46
27 2 0.08
28 1 0.04
29 10 0.42
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (29 bp):
TAATATAAATAACATATATAAAAATAATT
Found at i:45426475 original size:26 final size:26
Alignment explanation
Indices: 45426441--45426504 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
45426431 CGGTTTTTAA
* *
45426441 AAAAAAAACTAAGTAA-TAAATAAATT
1 AAAAAAAACAAAG-AATTAAATAAACT
* *
45426467 AAAAGAAACAAAGAATTACATAAACT
1 AAAAAAAACAAAGAATTAAATAAACT
*
45426493 AAAATAAACAAA
1 AAAAAAAACAAA
45426505 CTCAATTGAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 2 0.06
26 30 0.94
ACGTcount: A:0.70, C:0.08, G:0.05, T:0.17
Consensus pattern (26 bp):
AAAAAAAACAAAGAATTAAATAAACT
Found at i:45429472 original size:25 final size:25
Alignment explanation
Indices: 45429438--45429525 Score: 76
Period size: 25 Copynumber: 3.6 Consensus size: 25
45429428 GTTCTTAGGG
* * *
45429438 TTCGCGTGTAATAATATACAGGTGA
1 TTCGCATGTAATAAAATAAAGGTGA
45429463 TTCGCATGTAATAACAATAAAGG-G-
1 TTCGCATGTAATAA-AATAAAGGTGA
*
45429487 TTTGCATGTAATAACAGAT-AA-GTGA
1 TTCGCATGTAATAA-A-ATAAAGGTGA
*
45429512 CTCGCATGTAATAA
1 TTCGCATGTAATAA
45429526 CATATATTTG
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
23 1 0.02
24 18 0.34
25 28 0.53
26 6 0.11
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (25 bp):
TTCGCATGTAATAAAATAAAGGTGA
Found at i:45429526 original size:25 final size:24
Alignment explanation
Indices: 45429459--45429552 Score: 91
Period size: 25 Copynumber: 3.8 Consensus size: 24
45429449 TAATATACAG
*
45429459 GTGATTCGCATGTAATAACAATAAA
1 GTGACTCGCATGTAATAACAAT-AA
** *
45429484 G-GGTTTGCATGTAATAACAGATAA
1 GTGACTCGCATGTAATAACA-ATAA
*
45429508 GTGACTCGCATGTAATAACATATAT
1 GTGACTCGCATGTAATAACA-ATAA
* *
45429533 TTGACTCGCATGTAGTAACA
1 GTGACTCGCATGTAATAACA
45429553 TATCATTGAC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
24 19 0.33
25 39 0.67
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (24 bp):
GTGACTCGCATGTAATAACAATAA
Found at i:45429553 original size:25 final size:24
Alignment explanation
Indices: 45429490--45429565 Score: 98
Period size: 25 Copynumber: 3.0 Consensus size: 24
45429480 TAAAGGGTTT
* *
45429490 GCATGTAATAACAGATAAGTGACTC
1 GCATGTAATAACATAT-ATTGACTC
45429515 GCATGTAATAACATATATTTGACTC
1 GCATGTAATAACATATA-TTGACTC
*
45429540 GCATGTAGTAACATATCATTGACTC
1 GCATGTAATAACATAT-ATTGACTC
45429565 G
1 G
45429566 TAGAAACGGT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
24 1 0.02
25 44 0.96
26 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (24 bp):
GCATGTAATAACATATATTGACTC
Found at i:45429625 original size:60 final size:60
Alignment explanation
Indices: 45429531--45429844 Score: 389
Period size: 60 Copynumber: 5.2 Consensus size: 60
45429521 AATAACATAT
* * * **
45429531 ATTTGACTCGCATGTAGTAACATATCATTGACTCGTAGAAACGGTGGTTCACATGTAATA
1 ATTTGACTCGCATGTAATAACATATCATTGACTCGCATAAATAGTGGTTCACATGTAATA
* * * *
45429591 ATTTGACTCGCATGTACTAGCATATCATTTACTCGCATAAATAGTGATTCACATGTAAT-
1 ATTTGACTCGCATGTAATAACATATCATTGACTCGCATAAATAGTGGTTCACATGTAATA
* * *
45429650 ATTGTGATTCGTATGTAATAACATATCATTGCCTCGCATAAATAGTGGTTCACATGTAATA
1 ATT-TGACTCGCATGTAATAACATATCATTGACTCGCATAAATAGTGGTTCACATGTAATA
* * * * * *
45429711 ATGTGACTCGCATGTAATAACATATTATTGACTAGCATAAACAATGATTCACATGTAATA
1 ATTTGACTCGCATGTAATAACATATCATTGACTCGCATAAATAGTGGTTCACATGTAATA
* * * * *
45429771 ATGTGACTTGCATATAATAACATATCATTGACTCACATTAATAGTGGTTCACATGTAATA
1 ATTTGACTCGCATGTAATAACATATCATTGACTCGCATAAATAGTGGTTCACATGTAATA
*
45429831 A-TGGACTCGCATGT
1 ATTTGACTCGCATGT
45429845 CATATCATTG
Statistics
Matches: 215, Mismatches: 37, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
59 12 0.06
60 201 0.93
61 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (60 bp):
ATTTGACTCGCATGTAATAACATATCATTGACTCGCATAAATAGTGGTTCACATGTAATA
Found at i:45429759 original size:120 final size:118
Alignment explanation
Indices: 45429529--45429884 Score: 427
Period size: 120 Copynumber: 3.0 Consensus size: 118
45429519 GTAATAACAT
* * * * **
45429529 ATATT-TGACTCGCATGTAGTAACATATCATTGACTCGTAGAAACGGTGGTTCACATGTAATAAT
1 ATATTGTGATTCGCATGTAATAACATATCATTGACTCGCATAAATAGTGGTTCACATGTAATAAT
* * * * *
45429593 TTGACTCGCATGTACTAGCATATCATTTACTCGCATAAATAGTGATTCACATGTA
66 GTGACTCGCATGTA-TA-CATATCATTGACTAGCATAAACAATGATTCACATGTA
* *
45429648 ATATTGTGATTCGTATGTAATAACATATCATTGCCTCGCATAAATAGTGGTTCACATGTAATAAT
1 ATATTGTGATTCGCATGTAATAACATATCATTGACTCGCATAAATAGTGGTTCACATGTAATAAT
*
45429713 GTGACTCGCATGTAATAACATATTATTGACTAGCATAAACAATGATTCACATGTA
66 GTGACTCGCATGT-AT-ACATATCATTGACTAGCATAAACAATGATTCACATGTA
* * * *
45429768 ATAATGTGACTT-GCATATAATAACATATCATTGACTCACATTAATAGTGGTTCACATGTAATAA
1 ATATTGTGA-TTCGCATGTAATAACATATCATTGACTCGCATAAATAGTGGTTCACATGTAATAA
* * * *
45429832 TG-GACTCGCATG--T-CATATCATTGACTTGCATGAACAATGTTTCACGTGTA
65 TGTGACTCGCATGTATACATATCATTGACTAGCATAAACAATGATTCACATGTA
45429882 ATA
1 ATA
45429885 ACATATACTT
Statistics
Matches: 208, Mismatches: 25, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
114 35 0.17
116 1 0.00
119 15 0.07
120 153 0.74
121 4 0.02
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (118 bp):
ATATTGTGATTCGCATGTAATAACATATCATTGACTCGCATAAATAGTGGTTCACATGTAATAAT
GTGACTCGCATGTATACATATCATTGACTAGCATAAACAATGATTCACATGTA
Found at i:45429900 original size:180 final size:182
Alignment explanation
Indices: 45429516--45429903 Score: 423
Period size: 180 Copynumber: 2.1 Consensus size: 182
45429506 AAGTGACTCG
* * * ** *
45429516 CATGTAATAACATATATTTGACTCGCATGTAGTAACATATCATTGACTCGTAGAAACGGTGGTTC
1 CATGTAATAACATATA-TTGACTCGCATGTAATAACATATCATTGACTAGCAGAAACAATGATTC
* * * * * *
45429581 ACATGTAATAATTTGACTCGCATGTACTAGCATATCATTTACTCGCATAAATAGTGATTCACATG
65 ACATGTAATAATGTGACTCGCATATAATAACATATCATTGACTCACATAAATAGTGATTCACATG
* * * * * *
45429646 TAATATTGTGATTCGTATGTAATAACATATCATTGCCTCGCATAAATAGTGGTTCA
130 TAATAATGTGACTCGCATG--AT-ACATATCATTGACTCGCATAAACAATGGTTCA
* * *
45429702 CATGTAAT---A-AT-GTGACTCGCATGTAATAACATATTATTGACTAGCATAAACAATGATTCA
1 CATGTAATAACATATATTGACTCGCATGTAATAACATATCATTGACTAGCAGAAACAATGATTCA
* * *
45429762 CATGTAATAATGTGACTTGCATATAATAACATATCATTGACTCACATTAATAGTGGTTCACATGT
66 CATGTAATAATGTGACTCGCATATAATAACATATCATTGACTCACATAAATAGTGATTCACATGT
* * *
45429827 AATAATG-GACTCGCATG-T-CATATCATTGACTTGCATGAACAATGTTTCA
131 AATAATGTGACTCGCATGATACATATCATTGACTCGCATAAACAATGGTTCA
*
45429876 CGTGTAATAACATATACTTGACTCGCAT
1 CATGTAATAACATATA-TTGACTCGCAT
45429904 AAACAATGGT
Statistics
Matches: 167, Mismatches: 29, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
174 32 0.19
176 1 0.01
177 1 0.01
178 2 0.01
179 8 0.05
180 112 0.67
182 2 0.01
183 1 0.01
186 8 0.05
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (182 bp):
CATGTAATAACATATATTGACTCGCATGTAATAACATATCATTGACTAGCAGAAACAATGATTCA
CATGTAATAATGTGACTCGCATATAATAACATATCATTGACTCACATAAATAGTGATTCACATGT
AATAATGTGACTCGCATGATACATATCATTGACTCGCATAAACAATGGTTCA
Found at i:45432262 original size:45 final size:45
Alignment explanation
Indices: 45432197--45432293 Score: 176
Period size: 45 Copynumber: 2.2 Consensus size: 45
45432187 TCCCATCTAC
*
45432197 GGTCTTATTTATCTTTGACATGATGCCATAGTGTCTGTCAACTAT
1 GGTCTTATTTATCTTAGACATGATGCCATAGTGTCTGTCAACTAT
*
45432242 GGTCTTATTTATCTTAGACATGATGCCATAGTGTCTTTCAACTAT
1 GGTCTTATTTATCTTAGACATGATGCCATAGTGTCTGTCAACTAT
45432287 GGTCTTA
1 GGTCTTA
45432294 CTCATTTTCT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.42
Consensus pattern (45 bp):
GGTCTTATTTATCTTAGACATGATGCCATAGTGTCTGTCAACTAT
Found at i:45432329 original size:46 final size:47
Alignment explanation
Indices: 45432265--45432538 Score: 425
Period size: 46 Copynumber: 6.0 Consensus size: 47
45432255 TTAGACATGA
* * * * * *
45432265 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
** *
45432311 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
45432357 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
45432403 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
45432449 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
45432495 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
45432539 AGAGCACACT
Statistics
Matches: 218, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
45 5 0.02
46 213 0.98
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.39
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:45435607 original size:24 final size:24
Alignment explanation
Indices: 45435541--45435611 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
45435531 ACACACCTTG
45435541 TTACTTTTTTTTTTACTTTTGTCCTA
1 TTAC-TTTTTTTTTACTTTTGT-CTA
* *
45435567 TT-CTTTTTTTTT-TTTTTGT-TT
1 TTACTTTTTTTTTACTTTTGTCTA
*
45435588 TTACTTTTTTTTTAAGTTTTGTCT
1 TTACTTTTTTTTT-ACTTTTGTCT
45435612 TTCTCATTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
21 3 0.08
22 10 0.26
23 6 0.16
24 15 0.39
25 2 0.05
26 2 0.05
ACGTcount: A:0.08, C:0.10, G:0.06, T:0.76
Consensus pattern (24 bp):
TTACTTTTTTTTTACTTTTGTCTA
Found at i:45435637 original size:14 final size:15
Alignment explanation
Indices: 45435617--45435657 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
45435607 TGTCTTTCTC
45435617 ATTATTTATTTTATT
1 ATTATTTATTTTATT
45435632 -TTATTTATTTT-TT
1 ATTATTTATTTTATT
*
45435645 ATTATTAATTTTA
1 ATTATTTATTTTA
45435658 AAAAACTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 2 0.09
14 21 0.91
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTATTTATTTTATT
Found at i:45435737 original size:24 final size:24
Alignment explanation
Indices: 45435664--45435737 Score: 57
Period size: 22 Copynumber: 3.1 Consensus size: 24
45435654 TTTAAAAAAC
*
45435664 TTAAA-ATGTATATTTGAAATGT-T
1 TTAAATATATATATTTGAAAT-TAT
* *
45435687 TTATAGTATATATATTTTTTAAA--AT
1 TTA-A--ATATATATATTTGAAATTAT
45435712 TTAAATATATATATTTGAAATTAT
1 TTAAATATATATATTTGAAATTAT
45435736 TT
1 TT
45435738 TTTAAAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 13
0.68 0.09 0.23
Matches are distributed among these distances:
22 14 0.36
23 3 0.08
24 6 0.15
25 4 0.10
26 1 0.03
27 11 0.28
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.53
Consensus pattern (24 bp):
TTAAATATATATATTTGAAATTAT
Found at i:45435753 original size:21 final size:21
Alignment explanation
Indices: 45435729--45435824 Score: 115
Period size: 21 Copynumber: 4.5 Consensus size: 21
45435719 TATATATTTG
*
45435729 AAATTATTTTTTAAAATTTTT
1 AAATTATTTTTTAAAATTTTA
* *
45435750 AAATTATTTTTAAAAAATTTAA
1 AAATTATTTTT-TAAAATTTTA
45435772 AAATTATTTTTT-AAATTTTAA
1 AAATTATTTTTTAAAATTTT-A
*
45435793 AAATTATTTTTTAAAATATT-
1 AAATTATTTTTTAAAATTTTA
45435813 AAATATATTTTT
1 AAAT-TATTTTT
45435825 AATAATATAA
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
20 10 0.15
21 31 0.48
22 24 0.37
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AAATTATTTTTTAAAATTTTA
Found at i:45435776 original size:43 final size:43
Alignment explanation
Indices: 45435729--45435824 Score: 126
Period size: 43 Copynumber: 2.3 Consensus size: 43
45435719 TATATATTTG
*
45435729 AAATTATTTTTTAAAATTTT-TAAATTATTTTTAAAAA-ATTTAA
1 AAATTATTTTTT-AAATTTTAAAAATTATTTTTAAAAATA-TTAA
*
45435772 AAATTATTTTTTAAATTTTAAAAATTATTTTTTAAAATATTAA
1 AAATTATTTTTTAAATTTTAAAAATTATTTTTAAAAATATTAA
*
45435815 ATA-TATTTTT
1 AAATTATTTTT
45435825 AATAATATAA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
42 14 0.29
43 33 0.69
44 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (43 bp):
AAATTATTTTTTAAATTTTAAAAATTATTTTTAAAAATATTAA
Found at i:45435831 original size:21 final size:21
Alignment explanation
Indices: 45435729--45435836 Score: 105
Period size: 22 Copynumber: 5.1 Consensus size: 21
45435719 TATATATTTG
**
45435729 AAATTATTTTTTAAAAT-TTTT
1 AAATTA-TTTTTAAAATATTAA
*
45435750 AAATTATTTTTAAAAAATTTAA
1 AAATTATTTTTAAAATA-TTAA
* *
45435772 AAATTATTTTTTAAATTTTAA
1 AAATTATTTTTAAAATATTAA
45435793 AAATTATTTTTTAAAATATTAA
1 AAATTA-TTTTTAAAATATTAA
*
45435815 ATA-TATTTTTAATAATA-TAA
1 AAATTATTTTTAA-AATATTAA
45435835 AA
1 AA
45435837 CATTTAAATA
Statistics
Matches: 73, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
20 20 0.27
21 22 0.30
22 31 0.42
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AAATTATTTTTAAAATATTAA
Found at i:45435841 original size:19 final size:20
Alignment explanation
Indices: 45435800--45435841 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
45435790 TAAAAATTAT
*
45435800 TTTTTAAAATATTAAATATA
1 TTTTTAAAATATTAAATACA
45435820 TTTTTAATAATA-TAAA-ACA
1 TTTTTAA-AATATTAAATACA
45435839 TTT
1 TTT
45435842 AAATATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 5 0.25
20 11 0.55
21 4 0.20
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTTTAAAATATTAAATACA
Found at i:45435921 original size:21 final size:22
Alignment explanation
Indices: 45435890--45435940 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
45435880 GTTTTATAAT
*
45435890 ATTTATAATA-TTTATAATT-TG
1 ATTTTTAATATTTTA-AATTATG
*
45435911 TTTTTTAATATTTTAAATTATG
1 ATTTTTAATATTTTAAATTATG
45435933 ATTTTTAA
1 ATTTTTAA
45435941 ATTATTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (22 bp):
ATTTTTAATATTTTAAATTATG
Found at i:45435924 original size:9 final size:9
Alignment explanation
Indices: 45435882--45435907 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
45435872 TATTATTAGT
45435882 TTTATAATA
1 TTTATAATA
45435891 TTTATAATA
1 TTTATAATA
45435900 TTTATAAT
1 TTTATAAT
45435908 TTGTTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TTTATAATA
Found at i:45435937 original size:22 final size:21
Alignment explanation
Indices: 45435890--45435940 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
45435880 GTTTTATAAT
*
45435890 ATTTATAATATTTATAATTTG
1 ATTTTTAATATTTATAATTTG
*
45435911 TTTTTTAATATTT-TAAATTATG
1 ATTTTTAATATTTAT-AATT-TG
45435933 ATTTTTAA
1 ATTTTTAA
45435941 ATTATTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 15 0.60
22 9 0.36
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (21 bp):
ATTTTTAATATTTATAATTTG
Found at i:45436090 original size:14 final size:14
Alignment explanation
Indices: 45436071--45436113 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
45436061 ATGAATTTAT
45436071 TTAAAAAATATATA
1 TTAAAAAATATATA
* *
45436085 TTAAAAAATAAAAA
1 TTAAAAAATATATA
*
45436099 AT-AAAAATATATA
1 TTAAAAAATATATA
45436112 TT
1 TT
45436114 TTAAATTAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TTAAAAAATATATA
Found at i:45436108 original size:27 final size:28
Alignment explanation
Indices: 45436074--45436174 Score: 102
Period size: 27 Copynumber: 3.6 Consensus size: 28
45436064 AATTTATTTA
45436074 AAAAATATATATTAAAAAATAAAAA-A-T
1 AAAAATATATA-TAAAAAATAAAAATATT
** *
45436101 AAAAATATATATTTTAAATTAAAAATATT
1 AAAAATATATA-TAAAAAATAAAAATATT
45436130 AAAAATACTATA-AAACAAATTAAAAATATT
1 AAAAATA-TATATAAA-AAA-TAAAAATATT
45436160 AAAAATAT-TATAAAA
1 AAAAATATATATAAAA
45436175 CTAATTATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
27 22 0.35
28 5 0.08
29 14 0.23
30 21 0.34
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (28 bp):
AAAAATATATATAAAAAATAAAAATATT
Found at i:45436132 original size:9 final size:9
Alignment explanation
Indices: 45436118--45436174 Score: 69
Period size: 9 Copynumber: 5.9 Consensus size: 9
45436108 TATATTTTAA
45436118 ATTAAAAAT
1 ATTAAAAAT
45436127 ATTAAAAAT
1 ATTAAAAAT
*
45436136 ACTATAAAACAA
1 A-T-TAAAA-AT
45436148 ATTAAAAAT
1 ATTAAAAAT
45436157 ATTAAAAAT
1 ATTAAAAAT
45436166 ATTATAAAA
1 ATTA-AAAA
45436175 CTAATTATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
9 24 0.57
10 10 0.24
11 6 0.14
12 2 0.05
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (9 bp):
ATTAAAAAT
Done.